BLASTP 2.2.22 [Sep-27-2009]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.


Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= gi|254780424|ref|YP_003064837.1| transcriptional regulator
protein [Candidatus Liberibacter asiaticus str. psy62]
         (144 letters)

Database: nr 
           14,124,377 sequences; 4,842,793,630 total letters

Searching..................................................done


Results from round 1


>gi|254780424|ref|YP_003064837.1| transcriptional regulator protein [Candidatus Liberibacter
           asiaticus str. psy62]
 gi|254040101|gb|ACT56897.1| transcriptional regulator protein [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 144

 Score =  291 bits (744), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 144/144 (100%), Positives = 144/144 (100%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ
Sbjct: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII
Sbjct: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120

Query: 121 ELVRSIVSSEKKYRTIEEECMVEQ 144
           ELVRSIVSSEKKYRTIEEECMVEQ
Sbjct: 121 ELVRSIVSSEKKYRTIEEECMVEQ 144


>gi|315122130|ref|YP_004062619.1| transcriptional regulator protein [Candidatus Liberibacter
           solanacearum CLso-ZC1]
 gi|313495532|gb|ADR52131.1| transcriptional regulator protein [Candidatus Liberibacter
           solanacearum CLso-ZC1]
          Length = 145

 Score =  218 bits (556), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 108/139 (77%), Positives = 119/139 (85%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+GNKK PNPVDINVGKRIRLRR ILGMSQEKLG+ LGITFQQVQKYEKGVNRVGASRLQ
Sbjct: 1   MIGNKKTPNPVDINVGKRIRLRRTILGMSQEKLGDSLGITFQQVQKYEKGVNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           +IS  L+ PISFFFD  P VCS   SEENN+MDF+S+ DGLQLNR+F QI DVKVRQKII
Sbjct: 61  NISRALDIPISFFFDDPPEVCSGALSEENNIMDFLSSSDGLQLNRHFTQIKDVKVRQKII 120

Query: 121 ELVRSIVSSEKKYRTIEEE 139
           +LV+SIVS EK    +EEE
Sbjct: 121 DLVKSIVSLEKSTIALEEE 139


>gi|241202771|ref|YP_002973867.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240856661|gb|ACS54328.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 138

 Score =  171 bits (434), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 81/133 (60%), Positives = 106/133 (79%), Gaps = 5/133 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
           +IS +L  P+SFFF+ +P   S+      +S  N V+DF+S+ +GLQLNR F++I D KV
Sbjct: 61  NISNILNVPVSFFFEDAPGEHSNAGGGMETSSSNYVVDFLSSSEGLQLNRAFVKISDPKV 120

Query: 116 RQKIIELVRSIVS 128
           R+K++ELV+++ +
Sbjct: 121 RRKVVELVKALAA 133


>gi|222084698|ref|YP_002543227.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221722146|gb|ACM25302.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 139

 Score =  171 bits (433), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 81/134 (60%), Positives = 106/134 (79%), Gaps = 6/134 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSP----TVCSDI--SSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+ +P    T    +  +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 61  NISSILNVPVSFFFEDAPGDHTTTAGGLAEASSSNYVVDFLSSSEGLQLNRAFVKISDGK 120

Query: 115 VRQKIIELVRSIVS 128
           VR+K++ELV+++ +
Sbjct: 121 VRRKVVELVKALAA 134


>gi|116250159|ref|YP_765997.1| HTH-type transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|115254807|emb|CAK05881.1| putative HTH-type transcriptional regulator [Rhizobium
           leguminosarum bv. viciae 3841]
          Length = 138

 Score =  171 bits (433), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 81/133 (60%), Positives = 105/133 (78%), Gaps = 5/133 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
           +IS +L  P+SFFF+ +P   S       +S  N V+DF+S+ +GLQLNR F++I D KV
Sbjct: 61  NISNILNVPVSFFFEDAPGEHSSAGGGMEASSSNYVVDFLSSSEGLQLNRAFVKISDPKV 120

Query: 116 RQKIIELVRSIVS 128
           R+K++ELV+++ +
Sbjct: 121 RRKVVELVKALAA 133


>gi|190890041|ref|YP_001976583.1| transcriptional regulator protein [Rhizobium etli CIAT 652]
 gi|218510206|ref|ZP_03508084.1| probable transcriptional regulator protein [Rhizobium etli Brasil
           5]
 gi|218670147|ref|ZP_03519818.1| probable transcriptional regulator protein [Rhizobium etli GR56]
 gi|190695320|gb|ACE89405.1| probable transcriptional regulator protein [Rhizobium etli CIAT
           652]
 gi|327188600|gb|EGE55810.1| putative transcriptional regulator protein [Rhizobium etli
           CNPAF512]
          Length = 139

 Score =  171 bits (432), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 81/134 (60%), Positives = 105/134 (78%), Gaps = 6/134 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+ +P   S        +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 61  NISSILNVPVSFFFEDAPGEHSGAIGGMAEASSSNYVVDFLSSSEGLQLNRAFVKISDPK 120

Query: 115 VRQKIIELVRSIVS 128
           VR+K++ELV+++ +
Sbjct: 121 VRRKVVELVKALAA 134


>gi|90420537|ref|ZP_01228444.1| transcriptional regulator [Aurantimonas manganoxydans SI85-9A1]
 gi|90335265|gb|EAS49018.1| transcriptional regulator [Aurantimonas manganoxydans SI85-9A1]
          Length = 139

 Score =  169 bits (429), Expect = 8e-41,   Method: Compositional matrix adjust.
 Identities = 82/134 (61%), Positives = 105/134 (78%), Gaps = 5/134 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV NKK PNPVDI+VG R+RLRR +LGMSQEKLGE LGITFQQ+QKYEKG NR+GASRLQ
Sbjct: 1   MVDNKKKPNPVDIHVGSRVRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRIGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
            ISEV+  P+SFFF+ +PT  +        S  + V+DF+S+ +GLQLNR F++I D KV
Sbjct: 61  RISEVMTVPVSFFFEDAPTGMTGSESLQEPSSPDYVVDFLSSSEGLQLNRAFVRISDPKV 120

Query: 116 RQKIIELVRSIVSS 129
           R+++I+LVR++  S
Sbjct: 121 RRRVIDLVRTLADS 134


>gi|227820634|ref|YP_002824604.1| putative transcriptional regulator [Sinorhizobium fredii NGR234]
 gi|227339633|gb|ACP23851.1| putative transcriptional regulator [Sinorhizobium fredii NGR234]
          Length = 136

 Score =  169 bits (428), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 80/131 (61%), Positives = 104/131 (79%), Gaps = 3/131 (2%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MVENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           +IS +L  P+SFFF+ +P       +E    N V+DF+S+ +GLQLNR F++I D KVR+
Sbjct: 61  NISSILNVPVSFFFEDAPGEAGSGMAEAPSSNYVVDFLSSSEGLQLNRAFVKISDPKVRR 120

Query: 118 KIIELVRSIVS 128
           K+++LV+++ +
Sbjct: 121 KLVDLVKALAA 131


>gi|325291795|ref|YP_004277659.1| transcriptional regulator [Agrobacterium sp. H13-3]
 gi|325059648|gb|ADY63339.1| transcriptional regulator [Agrobacterium sp. H13-3]
          Length = 140

 Score =  168 bits (425), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 80/134 (59%), Positives = 104/134 (77%), Gaps = 6/134 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 2   MTENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 61

Query: 61  HISEVLESPISFFFDVSP------TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+ +P      T     +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 62  NISAILNVPVSFFFEDAPGDQAVGTTGMAEASSSNYVVDFLSSAEGLQLNRAFVKIADPK 121

Query: 115 VRQKIIELVRSIVS 128
           VR+++++LV+S+ +
Sbjct: 122 VRRRLVDLVKSLAA 135


>gi|254470793|ref|ZP_05084196.1| dna-binding protein [Pseudovibrio sp. JE062]
 gi|211959935|gb|EEA95132.1| dna-binding protein [Pseudovibrio sp. JE062]
          Length = 135

 Score =  166 bits (421), Expect = 7e-40,   Method: Compositional matrix adjust.
 Identities = 75/132 (56%), Positives = 104/132 (78%), Gaps = 5/132 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           +KK PNP+D++VG R+RLRRM+LGMSQEKLGE LGITFQQ+QKYEKG NR+GASRLQHI+
Sbjct: 3   SKKAPNPIDVHVGSRVRLRRMMLGMSQEKLGESLGITFQQIQKYEKGTNRIGASRLQHIA 62

Query: 64  EVLESPISFFFDVSPTVCSDISSEENN-----VMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            +L+ P++FFF+ +P    +     +N     V+DF+S+ DGL LN+ F++I++ KVR+K
Sbjct: 63  TILKVPVAFFFEDAPGTPDETPGVGDNPQTTYVVDFLSSSDGLALNKAFVRIENPKVRKK 122

Query: 119 IIELVRSIVSSE 130
           ++ELV+SI   E
Sbjct: 123 VVELVKSIAGDE 134


>gi|222147356|ref|YP_002548313.1| transcriptional regulator [Agrobacterium vitis S4]
 gi|221734346|gb|ACM35309.1| transcriptional regulator [Agrobacterium vitis S4]
          Length = 140

 Score =  166 bits (419), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 79/135 (58%), Positives = 107/135 (79%), Gaps = 7/135 (5%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MLENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPT--VCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           +IS +L  P+SFFF+ +P   V +       ++  N V+DF+S+ +GLQLNR F++I+D 
Sbjct: 61  NISSILNVPVSFFFEDAPGEQVVAGANGFSEAASSNYVVDFLSSSEGLQLNRAFVKINDP 120

Query: 114 KVRQKIIELVRSIVS 128
           KVR+K+++LV+++ +
Sbjct: 121 KVRRKVVDLVKALAA 135


>gi|159184276|ref|NP_353393.2| transcriptional regulator [Agrobacterium tumefaciens str. C58]
 gi|159139603|gb|AAK86178.2| transcriptional regulator [Agrobacterium tumefaciens str. C58]
          Length = 139

 Score =  166 bits (419), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 79/134 (58%), Positives = 104/134 (77%), Gaps = 6/134 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSP------TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+ +P      T     +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 61  NISGILNVPVSFFFEDAPGDQVGGTSGMAEASSSNYVVDFLSSAEGLQLNRAFVKIADPK 120

Query: 115 VRQKIIELVRSIVS 128
           VR+++++LV+++ +
Sbjct: 121 VRRRLVDLVKALAA 134


>gi|163757744|ref|ZP_02164833.1| dna-binding protein [Hoeflea phototrophica DFL-43]
 gi|162285246|gb|EDQ35528.1| dna-binding protein [Hoeflea phototrophica DFL-43]
          Length = 139

 Score =  165 bits (418), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 80/134 (59%), Positives = 105/134 (78%), Gaps = 6/134 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGEALGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+ +P   +        ++  N V+DF+S+ +GLQLNR FI+I D K
Sbjct: 61  NISTILNVPVSFFFEDAPGDPATGQPGMAEANSSNYVVDFLSSSEGLQLNRAFIKIPDPK 120

Query: 115 VRQKIIELVRSIVS 128
           VR+++++LV+S+ S
Sbjct: 121 VRRRLVDLVKSLAS 134


>gi|15964163|ref|NP_384516.1| DNA-binding protein [Sinorhizobium meliloti 1021]
 gi|150395273|ref|YP_001325740.1| XRE family transcriptional regulator [Sinorhizobium medicae WSM419]
 gi|307301308|ref|ZP_07581070.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
 gi|307317979|ref|ZP_07597416.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|160358932|sp|A6U5H5|Y045_SINMW RecName: Full=Uncharacterized HTH-type transcriptional regulator
           Smed_0045
 gi|160358955|sp|P0C5S2|Y410_RHIME RecName: Full=Uncharacterized HTH-type transcriptional regulator
           R00410
 gi|2564960|gb|AAB81868.1| DNA-binding protein [Sinorhizobium medicae WSM419]
 gi|15073339|emb|CAC41847.1| Transcription regulator [Sinorhizobium meliloti 1021]
 gi|150026788|gb|ABR58905.1| transcriptional regulator, XRE family [Sinorhizobium medicae
           WSM419]
 gi|306896381|gb|EFN27130.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306903764|gb|EFN34351.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
          Length = 139

 Score =  165 bits (418), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 79/134 (58%), Positives = 105/134 (78%), Gaps = 6/134 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS++L  P+SFFF+ +P            +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 61  NISQILNVPVSFFFEDAPGDGGGTGPGMAEASSSNYVVDFLSSSEGLQLNRAFVKISDPK 120

Query: 115 VRQKIIELVRSIVS 128
           VR+K+++LV+++ +
Sbjct: 121 VRRKLVDLVKALAA 134


>gi|307942740|ref|ZP_07658085.1| transcriptional regulator protein [Roseibium sp. TrichSKD4]
 gi|307773536|gb|EFO32752.1| transcriptional regulator protein [Roseibium sp. TrichSKD4]
          Length = 135

 Score =  165 bits (418), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 74/132 (56%), Positives = 104/132 (78%), Gaps = 5/132 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           +KK PNP+D++VG R+RLRRM+LGMSQEKLGE LGITFQQ+QKYEKG NR+GASRLQHI+
Sbjct: 3   SKKAPNPIDVHVGSRVRLRRMMLGMSQEKLGESLGITFQQIQKYEKGTNRIGASRLQHIA 62

Query: 64  EVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            +L+ P++FFF+ +P    +      +   + V+DF+S+ +GL LN+ F++IDD KVR++
Sbjct: 63  TILKVPVAFFFEDAPGTPEEAEGFGEAQPTSYVVDFLSSSEGLSLNKAFVRIDDPKVRRR 122

Query: 119 IIELVRSIVSSE 130
           I++LVRS+   E
Sbjct: 123 IVDLVRSLAGDE 134


>gi|86356028|ref|YP_467920.1| transcriptional regulator protein [Rhizobium etli CFN 42]
 gi|86280130|gb|ABC89193.1| probable transcriptional regulator protein [Rhizobium etli CFN 42]
          Length = 139

 Score =  164 bits (416), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 79/134 (58%), Positives = 102/134 (76%), Gaps = 6/134 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFD------VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+               +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 61  NISSILNVPVSFFFEDAPGEHAGAAGGMAEASSSNYVVDFLSSSEGLQLNRAFVKISDPK 120

Query: 115 VRQKIIELVRSIVS 128
           VR+K++ELV+++ +
Sbjct: 121 VRRKVVELVKALAA 134


>gi|209547626|ref|YP_002279543.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209533382|gb|ACI53317.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
          Length = 139

 Score =  164 bits (415), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 79/134 (58%), Positives = 102/134 (76%), Gaps = 6/134 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFD------VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+               +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 61  NISNILNVPVSFFFEDAPGEHAGAGGGMAEASSSNYVVDFLSSSEGLQLNRAFVKISDPK 120

Query: 115 VRQKIIELVRSIVS 128
           VR+K++ELV+++ +
Sbjct: 121 VRRKVVELVKALAA 134


>gi|153008089|ref|YP_001369304.1| XRE family transcriptional regulator [Ochrobactrum anthropi ATCC
           49188]
 gi|151559977|gb|ABS13475.1| transcriptional regulator, XRE family [Ochrobactrum anthropi ATCC
           49188]
          Length = 135

 Score =  161 bits (407), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 77/132 (58%), Positives = 102/132 (77%), Gaps = 4/132 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+D++VG RIRLRR +LG+SQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDVHVGSRIRLRRNMLGLSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENN----VMDFISTPDGLQLNRYFIQIDDVKVR 116
            IS +L  P+SFFF+ +P   +     E+N    V+DF+++ +G+QL R F +I D KVR
Sbjct: 61  AISAILNVPVSFFFEDAPGSSNQAGFAEDNEATYVVDFLNSNEGVQLTRAFTKISDPKVR 120

Query: 117 QKIIELVRSIVS 128
           +KII+LV+S+ +
Sbjct: 121 RKIIDLVKSLAA 132


>gi|239833207|ref|ZP_04681536.1| DNA-binding-domin protein [Ochrobactrum intermedium LMG 3301]
 gi|239825474|gb|EEQ97042.1| DNA-binding-domin protein [Ochrobactrum intermedium LMG 3301]
          Length = 135

 Score =  160 bits (405), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 77/132 (58%), Positives = 102/132 (77%), Gaps = 4/132 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+D++VG RIRLRR +LG+SQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDVHVGSRIRLRRNMLGLSQEKLGENLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENN----VMDFISTPDGLQLNRYFIQIDDVKVR 116
            IS +L  P+SFFF+ +P   +     E+N    V+DF+++ +G+QL R F +I D KVR
Sbjct: 61  AISAILNVPVSFFFEDAPGSSNQAGFAEDNEATYVVDFLNSNEGVQLTRAFTKISDPKVR 120

Query: 117 QKIIELVRSIVS 128
           +KII+LV+S+ +
Sbjct: 121 RKIIDLVKSLAA 132


>gi|260461987|ref|ZP_05810232.1| transcriptional regulator, XRE family [Mesorhizobium opportunistum
           WSM2075]
 gi|259032234|gb|EEW33500.1| transcriptional regulator, XRE family [Mesorhizobium opportunistum
           WSM2075]
          Length = 139

 Score =  157 bits (398), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 77/133 (57%), Positives = 105/133 (78%), Gaps = 6/133 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ I+
Sbjct: 5   NKKKPNPIDIHVGSRIRLRRNMLGMSQEKLGENLGITFQQIQKYEKGTNRVGASRLQAIA 64

Query: 64  EVLESPISFFFDVSPTVCSDIS---SEENNV---MDFISTPDGLQLNRYFIQIDDVKVRQ 117
            +L  P++FFF+ +P   S  +   +E+ ++   ++F  +P+GLQLNR F++I DVKVR+
Sbjct: 65  SILGVPVAFFFEDAPGQESSANRGFAEDASMAFAVEFCGSPEGLQLNRAFVKIADVKVRR 124

Query: 118 KIIELVRSIVSSE 130
           +II+LV+S+ + +
Sbjct: 125 RIIDLVKSLAADD 137


>gi|13474622|ref|NP_106191.1| transcriptional regulator [Mesorhizobium loti MAFF303099]
 gi|14025376|dbj|BAB51977.1| transcriptional regulator [Mesorhizobium loti MAFF303099]
          Length = 139

 Score =  156 bits (394), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 76/133 (57%), Positives = 103/133 (77%), Gaps = 6/133 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           NKK PNP+DI+VG R+RLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ I+
Sbjct: 5   NKKKPNPIDIHVGSRVRLRRNMLGMSQEKLGENLGITFQQIQKYEKGTNRVGASRLQAIA 64

Query: 64  EVLESPISFFFDVSP---TVCSDISSEENNV---MDFISTPDGLQLNRYFIQIDDVKVRQ 117
            +L  P++FFF+ +P          SE+ ++   ++F  +P+GLQLNR F++I DVKVR+
Sbjct: 65  SILGVPVAFFFEDAPGQEAAPGRGFSEDASMAFAVEFCGSPEGLQLNRAFVKIADVKVRR 124

Query: 118 KIIELVRSIVSSE 130
           +II+LV+S+ + +
Sbjct: 125 RIIDLVKSLAADD 137


>gi|17988254|ref|NP_540888.1| transcriptional regulator [Brucella melitensis bv. 1 str. 16M]
 gi|23503007|ref|NP_699134.1| Cro/CI family transcriptional regulator [Brucella suis 1330]
 gi|62290996|ref|YP_222789.1| Cro/CI family transcriptional regulator [Brucella abortus bv. 1
           str. 9-941]
 gi|82700905|ref|YP_415479.1| helix-hairpin-helix DNA-binding domain-containing protein [Brucella
           melitensis biovar Abortus 2308]
 gi|148558969|ref|YP_001259953.1| Cro/CI family transcriptional regulator [Brucella ovis ATCC 25840]
 gi|161620067|ref|YP_001593954.1| hypothetical protein BCAN_A2201 [Brucella canis ATCC 23365]
 gi|163844172|ref|YP_001628577.1| hypothetical protein BSUIS_A1996 [Brucella suis ATCC 23445]
 gi|189025208|ref|YP_001935976.1| Helix-turn-helix motif [Brucella abortus S19]
 gi|225626524|ref|ZP_03784563.1| DNA-binding domain protein [Brucella ceti str. Cudo]
 gi|225853584|ref|YP_002733817.1| XRE family transcriptional regulator [Brucella melitensis ATCC
           23457]
 gi|237816498|ref|ZP_04595491.1| DNA-binding protein [Brucella abortus str. 2308 A]
 gi|254690290|ref|ZP_05153544.1| transcriptional regulator, XRE family protein [Brucella abortus bv.
           6 str. 870]
 gi|254694778|ref|ZP_05156606.1| transcriptional regulator, XRE family protein [Brucella abortus bv.
           3 str. Tulya]
 gi|254696406|ref|ZP_05158234.1| transcriptional regulator, XRE family protein [Brucella abortus bv.
           2 str. 86/8/59]
 gi|254700788|ref|ZP_05162616.1| transcriptional regulator, XRE family protein [Brucella suis bv. 5
           str. 513]
 gi|254705157|ref|ZP_05166985.1| transcriptional regulator, XRE family protein [Brucella suis bv. 3
           str. 686]
 gi|254707325|ref|ZP_05169153.1| transcriptional regulator, XRE family protein [Brucella
           pinnipedialis M163/99/10]
 gi|254709133|ref|ZP_05170944.1| transcriptional regulator, XRE family protein [Brucella
           pinnipedialis B2/94]
 gi|254713442|ref|ZP_05175253.1| transcriptional regulator, XRE family protein [Brucella ceti
           M644/93/1]
 gi|254716202|ref|ZP_05178013.1| transcriptional regulator, XRE family protein [Brucella ceti
           M13/05/1]
 gi|254718196|ref|ZP_05180007.1| transcriptional regulator, XRE family protein [Brucella sp. 83/13]
 gi|254731319|ref|ZP_05189897.1| transcriptional regulator, XRE family protein [Brucella abortus bv.
           4 str. 292]
 gi|256030658|ref|ZP_05444272.1| transcriptional regulator, XRE family protein [Brucella
           pinnipedialis M292/94/1]
 gi|256045762|ref|ZP_05448640.1| transcriptional regulator, XRE family protein [Brucella melitensis
           bv. 1 str. Rev.1]
 gi|256060119|ref|ZP_05450301.1| transcriptional regulator, XRE family protein [Brucella neotomae
           5K33]
 gi|256112481|ref|ZP_05453402.1| transcriptional regulator, XRE family protein [Brucella melitensis
           bv. 3 str. Ether]
 gi|256158660|ref|ZP_05456543.1| transcriptional regulator, XRE family protein [Brucella ceti
           M490/95/1]
 gi|256254064|ref|ZP_05459600.1| transcriptional regulator, XRE family protein [Brucella ceti B1/94]
 gi|256258543|ref|ZP_05464079.1| transcriptional regulator, XRE family protein [Brucella abortus bv.
           9 str. C68]
 gi|256262932|ref|ZP_05465464.1| helix-turn-helix domain-containing protein [Brucella melitensis bv.
           2 str. 63/9]
 gi|256370554|ref|YP_003108065.1| transcriptional regulator, Cro/CI family [Brucella microti CCM
           4915]
 gi|260169562|ref|ZP_05756373.1| transcriptional regulator, Cro/CI family protein [Brucella sp.
           F5/99]
 gi|260546259|ref|ZP_05821999.1| helix-turn-helix domain-containing protein [Brucella abortus NCTC
           8038]
 gi|260563058|ref|ZP_05833544.1| helix-turn-helix domain-containing protein [Brucella melitensis bv.
           1 str. 16M]
 gi|260567374|ref|ZP_05837844.1| helix-turn-helix domain-containing protein [Brucella suis bv. 4
           str. 40]
 gi|260755830|ref|ZP_05868178.1| transcriptional regulator [Brucella abortus bv. 6 str. 870]
 gi|260759053|ref|ZP_05871401.1| transcriptional regulator [Brucella abortus bv. 4 str. 292]
 gi|260760778|ref|ZP_05873121.1| transcriptional regulator [Brucella abortus bv. 2 str. 86/8/59]
 gi|260884855|ref|ZP_05896469.1| transcriptional regulator [Brucella abortus bv. 9 str. C68]
 gi|261215105|ref|ZP_05929386.1| transcriptional regulator [Brucella abortus bv. 3 str. Tulya]
 gi|261217976|ref|ZP_05932257.1| transcriptional regulator [Brucella ceti M13/05/1]
 gi|261221205|ref|ZP_05935486.1| transcriptional regulator [Brucella ceti B1/94]
 gi|261314807|ref|ZP_05954004.1| transcriptional regulator [Brucella pinnipedialis M163/99/10]
 gi|261316633|ref|ZP_05955830.1| transcriptional regulator [Brucella pinnipedialis B2/94]
 gi|261321174|ref|ZP_05960371.1| transcriptional regulator [Brucella ceti M644/93/1]
 gi|261324096|ref|ZP_05963293.1| transcriptional regulator [Brucella neotomae 5K33]
 gi|261751297|ref|ZP_05995006.1| transcriptional regulator [Brucella suis bv. 5 str. 513]
 gi|261755862|ref|ZP_05999571.1| transcriptional regulator [Brucella suis bv. 3 str. 686]
 gi|261759090|ref|ZP_06002799.1| helix-turn-helix domain-containing protein [Brucella sp. F5/99]
 gi|265983154|ref|ZP_06095889.1| transcriptional regulator [Brucella sp. 83/13]
 gi|265987705|ref|ZP_06100262.1| transcriptional regulator [Brucella pinnipedialis M292/94/1]
 gi|265992179|ref|ZP_06104736.1| transcriptional regulator [Brucella melitensis bv. 1 str. Rev.1]
 gi|265993917|ref|ZP_06106474.1| transcriptional regulator [Brucella melitensis bv. 3 str. Ether]
 gi|265997166|ref|ZP_06109723.1| transcriptional regulator [Brucella ceti M490/95/1]
 gi|294851383|ref|ZP_06792056.1| HTH-type transcriptional regulator [Brucella sp. NVSL 07-0026]
 gi|297247382|ref|ZP_06931100.1| HTH-type transcriptional regulator [Brucella abortus bv. 5 str.
           B3196]
 gi|306837710|ref|ZP_07470579.1| transcriptional regulator protein [Brucella sp. NF 2653]
 gi|306842733|ref|ZP_07475375.1| transcriptional regulator protein [Brucella sp. BO2]
 gi|306843576|ref|ZP_07476177.1| transcriptional regulator protein [Brucella sp. BO1]
 gi|17984022|gb|AAL53152.1| transcriptional regulator [Brucella melitensis bv. 1 str. 16M]
 gi|23349047|gb|AAN31049.1| transcriptional regulator, Cro/CI family [Brucella suis 1330]
 gi|62197128|gb|AAX75428.1| transcriptional regulator, Cro/CI family [Brucella abortus bv. 1
           str. 9-941]
 gi|82617006|emb|CAJ12115.1| Helix-turn-helix motif [Brucella melitensis biovar Abortus 2308]
 gi|148370226|gb|ABQ60205.1| transcriptional regulator, Cro/CI family [Brucella ovis ATCC 25840]
 gi|161336878|gb|ABX63183.1| hypothetical protein BCAN_A2201 [Brucella canis ATCC 23365]
 gi|163674895|gb|ABY39006.1| hypothetical protein BSUIS_A1996 [Brucella suis ATCC 23445]
 gi|189020780|gb|ACD73502.1| Helix-turn-helix motif [Brucella abortus S19]
 gi|225618181|gb|EEH15224.1| DNA-binding domain protein [Brucella ceti str. Cudo]
 gi|225641949|gb|ACO01863.1| transcriptional regulator, XRE family protein [Brucella melitensis
           ATCC 23457]
 gi|237788565|gb|EEP62780.1| DNA-binding protein [Brucella abortus str. 2308 A]
 gi|256000717|gb|ACU49116.1| transcriptional regulator, Cro/CI family [Brucella microti CCM
           4915]
 gi|260096366|gb|EEW80242.1| helix-turn-helix domain-containing protein [Brucella abortus NCTC
           8038]
 gi|260153074|gb|EEW88166.1| helix-turn-helix domain-containing protein [Brucella melitensis bv.
           1 str. 16M]
 gi|260156892|gb|EEW91972.1| helix-turn-helix domain-containing protein [Brucella suis bv. 4
           str. 40]
 gi|260669371|gb|EEX56311.1| transcriptional regulator [Brucella abortus bv. 4 str. 292]
 gi|260671210|gb|EEX58031.1| transcriptional regulator [Brucella abortus bv. 2 str. 86/8/59]
 gi|260675938|gb|EEX62759.1| transcriptional regulator [Brucella abortus bv. 6 str. 870]
 gi|260874383|gb|EEX81452.1| transcriptional regulator [Brucella abortus bv. 9 str. C68]
 gi|260916712|gb|EEX83573.1| transcriptional regulator [Brucella abortus bv. 3 str. Tulya]
 gi|260919789|gb|EEX86442.1| transcriptional regulator [Brucella ceti B1/94]
 gi|260923065|gb|EEX89633.1| transcriptional regulator [Brucella ceti M13/05/1]
 gi|261293864|gb|EEX97360.1| transcriptional regulator [Brucella ceti M644/93/1]
 gi|261295856|gb|EEX99352.1| transcriptional regulator [Brucella pinnipedialis B2/94]
 gi|261300076|gb|EEY03573.1| transcriptional regulator [Brucella neotomae 5K33]
 gi|261303833|gb|EEY07330.1| transcriptional regulator [Brucella pinnipedialis M163/99/10]
 gi|261739074|gb|EEY27070.1| helix-turn-helix domain-containing protein [Brucella sp. F5/99]
 gi|261741050|gb|EEY28976.1| transcriptional regulator [Brucella suis bv. 5 str. 513]
 gi|261745615|gb|EEY33541.1| transcriptional regulator [Brucella suis bv. 3 str. 686]
 gi|262551634|gb|EEZ07624.1| transcriptional regulator [Brucella ceti M490/95/1]
 gi|262764898|gb|EEZ10819.1| transcriptional regulator [Brucella melitensis bv. 3 str. Ether]
 gi|263003245|gb|EEZ15538.1| transcriptional regulator [Brucella melitensis bv. 1 str. Rev.1]
 gi|263092806|gb|EEZ16981.1| helix-turn-helix domain-containing protein [Brucella melitensis bv.
           2 str. 63/9]
 gi|264659902|gb|EEZ30163.1| transcriptional regulator [Brucella pinnipedialis M292/94/1]
 gi|264661746|gb|EEZ32007.1| transcriptional regulator [Brucella sp. 83/13]
 gi|294819972|gb|EFG36971.1| HTH-type transcriptional regulator [Brucella sp. NVSL 07-0026]
 gi|297174551|gb|EFH33898.1| HTH-type transcriptional regulator [Brucella abortus bv. 5 str.
           B3196]
 gi|306276267|gb|EFM57967.1| transcriptional regulator protein [Brucella sp. BO1]
 gi|306287077|gb|EFM58582.1| transcriptional regulator protein [Brucella sp. BO2]
 gi|306407268|gb|EFM63478.1| transcriptional regulator protein [Brucella sp. NF 2653]
 gi|326410157|gb|ADZ67222.1| Helix-turn-helix motif protein [Brucella melitensis M28]
 gi|326539875|gb|ADZ88090.1| transcriptional regulator, XRE family protein [Brucella melitensis
           M5-90]
          Length = 137

 Score =  155 bits (393), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 77/134 (57%), Positives = 101/134 (75%), Gaps = 6/134 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+D++VG RIRLRR +LG+SQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDMHVGSRIRLRRNMLGLSQEKLGENLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
            IS +L  P+SFFF+ +P   S         +E   V+DF+++ +G+QL R F +I D K
Sbjct: 61  AISSILNVPVSFFFEDAPGSGSSGGDGFAEDNEATYVVDFLNSNEGVQLTRAFTKISDPK 120

Query: 115 VRQKIIELVRSIVS 128
           VR+KII+LV+S+ +
Sbjct: 121 VRRKIIDLVKSLAA 134


>gi|319779776|ref|YP_004139252.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
 gi|317165664|gb|ADV09202.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
          Length = 139

 Score =  155 bits (391), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 76/133 (57%), Positives = 103/133 (77%), Gaps = 6/133 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ I+
Sbjct: 5   NKKKPNPIDIHVGSRIRLRRNMLGMSQEKLGENLGITFQQIQKYEKGTNRVGASRLQAIA 64

Query: 64  EVLESPISFFFDVSP---TVCSDISSEENNV---MDFISTPDGLQLNRYFIQIDDVKVRQ 117
            +L  P++FFF+ +P    V     +E+ ++   ++F  +P+GLQLNR F++I D KVR+
Sbjct: 65  SILGVPVAFFFEDAPGQEPVAGRGFAEDASMAFAVEFCGSPEGLQLNRAFVKIADAKVRR 124

Query: 118 KIIELVRSIVSSE 130
           +II+LV+S+ + +
Sbjct: 125 RIIDLVKSLSADD 137


>gi|158421637|ref|YP_001522929.1| putative transcriptional regulator [Azorhizobium caulinodans ORS
           571]
 gi|158328526|dbj|BAF86011.1| putative transcriptional regulator [Azorhizobium caulinodans ORS
           571]
          Length = 150

 Score =  155 bits (391), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 73/133 (54%), Positives = 96/133 (72%), Gaps = 7/133 (5%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK PNP+D +VG R+R+RRM++GMSQEKLGE LGITFQQ+QKYEKG NR+GASRLQ IS 
Sbjct: 3   KKAPNPIDKHVGSRVRMRRMMVGMSQEKLGEHLGITFQQIQKYEKGTNRIGASRLQQISI 62

Query: 65  VLESPISFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           VL  P++FFF+ +P+   +   E          V DF++T DGL L R F++I D KVR+
Sbjct: 63  VLSVPVAFFFEGAPSANPEADGEGFAEGHSPAYVSDFLATSDGLALTRNFMRISDAKVRR 122

Query: 118 KIIELVRSIVSSE 130
           +I++LV +I   E
Sbjct: 123 RIVDLVSAIAGEE 135


>gi|110636247|ref|YP_676455.1| XRE family transcriptional regulator [Mesorhizobium sp. BNC1]
 gi|110287231|gb|ABG65290.1| transcriptional regulator, XRE family [Chelativorans sp. BNC1]
          Length = 140

 Score =  154 bits (389), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 73/130 (56%), Positives = 102/130 (78%), Gaps = 5/130 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           +KK PNP+D++VG RIRLRR +LG+SQEKLGE LGITFQQ+QKYEKG NRVGASRLQ I+
Sbjct: 5   DKKRPNPIDVHVGSRIRLRRNMLGISQEKLGESLGITFQQIQKYEKGTNRVGASRLQAIA 64

Query: 64  EVLESPISFFFDVSPTVCSDIS---SEENN--VMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            +L +P+SFFF+ +P    D     +EE    V DF+S+ +G+QLNR F++I D KVR++
Sbjct: 65  SILNAPVSFFFEGAPNEDGDPVAGLAEEGTPYVGDFLSSSEGIQLNRAFVRITDPKVRRR 124

Query: 119 IIELVRSIVS 128
           +++LV+++ +
Sbjct: 125 VLDLVKALAT 134


>gi|304393079|ref|ZP_07375008.1| transcriptional regulator [Ahrensia sp. R2A130]
 gi|303294844|gb|EFL89215.1| transcriptional regulator [Ahrensia sp. R2A130]
          Length = 150

 Score =  153 bits (387), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 69/132 (52%), Positives = 100/132 (75%), Gaps = 6/132 (4%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +  KK PNP+DI+VG R+RLRR + GMSQEKLG+ LGITFQQ+QKYEKG NR+GASR+Q 
Sbjct: 1   MAEKKTPNPIDIHVGSRVRLRRTMQGMSQEKLGDALGITFQQIQKYEKGTNRIGASRMQQ 60

Query: 62  ISEVLESPISFFFDVSPT-VCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
           IS  L+ P++FFF+ +P  V ++      +S    V+DF+S+P+G+QLNR F++I    +
Sbjct: 61  ISSALDVPVAFFFEDAPADVINNATGMHETSATTYVVDFLSSPEGIQLNRAFVRITSPAI 120

Query: 116 RQKIIELVRSIV 127
           R+++IE+VR++ 
Sbjct: 121 RRRVIEMVRTLA 132


>gi|217979023|ref|YP_002363170.1| transcriptional regulator, XRE family [Methylocella silvestris BL2]
 gi|217504399|gb|ACK51808.1| transcriptional regulator, XRE family [Methylocella silvestris BL2]
          Length = 166

 Score =  153 bits (386), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 74/138 (53%), Positives = 99/138 (71%), Gaps = 12/138 (8%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KKIPNP+D +VG R+R+RR+ILGMSQEKLGE LG+TFQQVQKYEKG NR+GASRLQ IS 
Sbjct: 12  KKIPNPIDRHVGSRVRMRRVILGMSQEKLGEALGLTFQQVQKYEKGANRIGASRLQQISR 71

Query: 65  VLESPISFFFDVSPTVCSDIS---------SEENN---VMDFISTPDGLQLNRYFIQIDD 112
            L+ P +FFF+ +P+  +  +         +EE N   V DF+ST +GL LN  F +I D
Sbjct: 72  TLDVPPAFFFEGAPSFEASATGGSPALGGVAEEANSSYVADFLSTAEGLHLNMAFARIHD 131

Query: 113 VKVRQKIIELVRSIVSSE 130
            KVR++II+L+ ++   +
Sbjct: 132 PKVRKRIIDLISALAGDD 149


>gi|298293906|ref|YP_003695845.1| XRE family transcriptional regulator [Starkeya novella DSM 506]
 gi|296930417|gb|ADH91226.1| transcriptional regulator, XRE family [Starkeya novella DSM 506]
          Length = 135

 Score =  152 bits (385), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 73/129 (56%), Positives = 99/129 (76%), Gaps = 5/129 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK PNP+D +VG R+R+RRM++GMSQEKLGE LGITFQQ+QKYEKG NR+GASRLQ+IS 
Sbjct: 3   KKSPNPIDKHVGSRVRMRRMMIGMSQEKLGENLGITFQQIQKYEKGTNRIGASRLQNISN 62

Query: 65  VLESPISFFFDVSPTV-CSDISSEENN----VMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           VL  P+SFFF+ +P V  ++    E+     V DF++T +GL L R F++I D KVR++I
Sbjct: 63  VLGVPVSFFFEGAPNVGIANTGFAEDASPAYVSDFLATTEGLALTRAFLKIADSKVRRRI 122

Query: 120 IELVRSIVS 128
           ++LV ++ S
Sbjct: 123 VDLVEALAS 131


>gi|154245759|ref|YP_001416717.1| XRE family transcriptional regulator [Xanthobacter autotrophicus
           Py2]
 gi|154159844|gb|ABS67060.1| transcriptional regulator, XRE family [Xanthobacter autotrophicus
           Py2]
          Length = 137

 Score =  152 bits (383), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 75/129 (58%), Positives = 98/129 (75%), Gaps = 5/129 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK PNP+D +VG R+R+RRM++ MSQEKLGE LGITFQQ+QKYEKG NR+GASRLQ IS 
Sbjct: 3   KKAPNPIDKHVGSRVRMRRMMVSMSQEKLGEHLGITFQQIQKYEKGTNRIGASRLQQIST 62

Query: 65  VLESPISFFFDVSPTVCSDIS--SEENN---VMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           VL  P++FFF+ +PTV  +    SE+ +   V DF++T DGL L R F++I D KVR++I
Sbjct: 63  VLGVPVAFFFEGAPTVGPEGEGFSEDQSPAYVSDFLATSDGLTLTRNFMRITDPKVRRRI 122

Query: 120 IELVRSIVS 128
           +ELV +I  
Sbjct: 123 VELVIAIAG 131


>gi|319405105|emb|CBI78709.1| transcriptional regulator [Bartonella sp. AR 15-3]
          Length = 137

 Score =  152 bits (383), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 72/128 (56%), Positives = 96/128 (75%), Gaps = 2/128 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTKTRKKPDPIDIYVGARIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCS--DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD    + S    +  +NN +DF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGIAIQSIDGFTESDNNFIDFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSI 126
           II+L +++
Sbjct: 121 IIDLAKAL 128


>gi|319406551|emb|CBI80193.1| transcriptional regulator [Bartonella sp. 1-1C]
          Length = 137

 Score =  151 bits (382), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 72/128 (56%), Positives = 97/128 (75%), Gaps = 2/128 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTKTRKKPDPMDIYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCS--DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD   ++ S    +  +NN +DF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGISIQSLEGFTESDNNFIDFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSI 126
           II+L +++
Sbjct: 121 IIDLAKAL 128


>gi|49473876|ref|YP_031918.1| transcriptional regulator [Bartonella quintana str. Toulouse]
 gi|49239379|emb|CAF25712.1| Transcriptional regulator [Bartonella quintana str. Toulouse]
          Length = 137

 Score =  151 bits (381), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 71/128 (55%), Positives = 95/128 (74%), Gaps = 2/128 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   KK P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NR+GASRLQ
Sbjct: 1   MTETKKNPDPIDIYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRIGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  +        +  +N+ MDF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGIDSQHVEGFAESDNSFMDFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSI 126
           II+L +++
Sbjct: 121 IIDLAKAL 128


>gi|163867517|ref|YP_001608716.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161017163|emb|CAK00721.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 139

 Score =  150 bits (380), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 70/128 (54%), Positives = 96/128 (75%), Gaps = 2/128 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NR+GASRLQ
Sbjct: 1   MTETRKKPDPIDIYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRIGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  ++       +  ++N MDF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGLTSQQVEGFAESDHNFMDFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSI 126
           II+L +++
Sbjct: 121 IIDLAKAL 128


>gi|49475033|ref|YP_033074.1| transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49237838|emb|CAF27033.1| Transcriptional regulator [Bartonella henselae str. Houston-1]
          Length = 138

 Score =  150 bits (379), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 71/132 (53%), Positives = 96/132 (72%), Gaps = 2/132 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+D+ VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NR+GASRLQ
Sbjct: 1   MTETRKKPDPIDVYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRIGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  V        +  +N+ MDF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGVGTQQVEGFAESDNDFMDFCSSSEGIQLMRAFTNISDSKVRRK 120

Query: 119 IIELVRSIVSSE 130
           II+L +++   E
Sbjct: 121 IIDLAKALSEEE 132


>gi|182678047|ref|YP_001832193.1| XRE family transcriptional regulator [Beijerinckia indica subsp.
           indica ATCC 9039]
 gi|182633930|gb|ACB94704.1| transcriptional regulator, XRE family [Beijerinckia indica subsp.
           indica ATCC 9039]
          Length = 155

 Score =  150 bits (379), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 71/139 (51%), Positives = 100/139 (71%), Gaps = 11/139 (7%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK+PNP+D +VG ++R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NR+GASRLQ IS 
Sbjct: 2   KKVPNPIDCHVGGKVRMRRVMLGMSQEKLGEALGLTFQQVQKYEKGTNRIGASRLQQISR 61

Query: 65  VLESPISFFFDVSPT-----------VCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           +L+ P +FFFD +P            + +   +  + V +F++TP+GL LN  F +I D 
Sbjct: 62  ILDVPPAFFFDGAPAFEGMPRPNAPVIPTGDEASLSYVTEFLATPEGLHLNLAFRRIKDP 121

Query: 114 KVRQKIIELVRSIVSSEKK 132
           KVR++I+ELV +I   E++
Sbjct: 122 KVRKRIVELVMAIAGDEEQ 140


>gi|92115659|ref|YP_575388.1| XRE family transcriptional regulator [Nitrobacter hamburgensis X14]
 gi|91798553|gb|ABE60928.1| transcriptional regulator, XRE family [Nitrobacter hamburgensis
           X14]
          Length = 139

 Score =  150 bits (379), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 73/137 (53%), Positives = 97/137 (70%), Gaps = 6/137 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD +VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKHVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSP----TVCSDISSEENN--VMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           ++L+ P+SF F+ SP     V   +S   +   V DF++T +GL L R F +I D K+R+
Sbjct: 62  DILQVPVSFLFEGSPGTGIAVAGGLSEAPSPAYVSDFLATSEGLALTRAFTRITDAKLRR 121

Query: 118 KIIELVRSIVSSEKKYR 134
            I++LV  I + E   R
Sbjct: 122 SIVDLVEQIAAREPPDR 138


>gi|319403635|emb|CBI77220.1| transcriptional regulator [Bartonella rochalimae ATCC BAA-1498]
          Length = 137

 Score =  150 bits (378), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 72/128 (56%), Positives = 96/128 (75%), Gaps = 2/128 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTKTRKKPDPMDIYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCS--DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD    + S    +  +NN +DF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGIGIQSLEGFTESDNNFIDFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSI 126
           II+L +++
Sbjct: 121 IIDLAKAL 128


>gi|319898343|ref|YP_004158436.1| transcriptional regulator [Bartonella clarridgeiae 73]
 gi|319402307|emb|CBI75846.1| transcriptional regulator [Bartonella clarridgeiae 73]
          Length = 137

 Score =  150 bits (378), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 74/128 (57%), Positives = 96/128 (75%), Gaps = 2/128 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTETRKKPDPIDIYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEE--NNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD    + S    EE  NN M+F S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGIGIQSVEGFEESDNNFMNFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSI 126
           II+L +++
Sbjct: 121 IIDLAKAL 128


>gi|319408017|emb|CBI81671.1| transcriptional regulator [Bartonella schoenbuchensis R1]
          Length = 136

 Score =  149 bits (377), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 71/127 (55%), Positives = 95/127 (74%), Gaps = 1/127 (0%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+D+ VG RIRLRR +LG++QEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTETRKKPDPIDVYVGTRIRLRRNMLGLTQEKLGEQLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPT-VCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
            I+E+++ P+S+FFD   T      +  E+N MDF S+ +G+QL R F  I D KVR+KI
Sbjct: 61  AIAEIMDVPVSYFFDKGITQSVEGFAESESNFMDFCSSSEGIQLMRAFTNILDAKVRRKI 120

Query: 120 IELVRSI 126
           I+L +++
Sbjct: 121 IDLAKAL 127


>gi|296445773|ref|ZP_06887726.1| transcriptional regulator, XRE family [Methylosinus trichosporium
           OB3b]
 gi|296256753|gb|EFH03827.1| transcriptional regulator, XRE family [Methylosinus trichosporium
           OB3b]
          Length = 145

 Score =  149 bits (376), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 71/128 (55%), Positives = 100/128 (78%), Gaps = 5/128 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK P+P+D +VG R+R++R++L MSQEKLGE LG+TFQQVQKYEKG NR+GASRLQ IS+
Sbjct: 2   KKAPDPIDRHVGSRVRMQRVLLKMSQEKLGEALGLTFQQVQKYEKGTNRIGASRLQQISK 61

Query: 65  VLESPISFFFDVSPTVCS--DISSEENN---VMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
            L  P SFFFD +P+V +  D  +EE++   V++F+ST +GL LNR F +I D KVR+++
Sbjct: 62  TLNVPPSFFFDGAPSVGAPGDGFAEESSSQYVVEFLSTAEGLHLNRAFARIKDPKVRKRV 121

Query: 120 IELVRSIV 127
           I+L+ ++ 
Sbjct: 122 IDLISTLA 129


>gi|240849887|ref|YP_002971275.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240267010|gb|ACS50598.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 137

 Score =  149 bits (376), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 69/128 (53%), Positives = 96/128 (75%), Gaps = 2/128 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NR+GASRLQ
Sbjct: 1   MTETRKKPDPIDIYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRIGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  ++       +  ++N +DF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGITSQQVEGFAESDHNFIDFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSI 126
           II+L +++
Sbjct: 121 IIDLAKAL 128


>gi|85714180|ref|ZP_01045169.1| transcriptional regulator, XRE family protein [Nitrobacter sp.
           Nb-311A]
 gi|85699306|gb|EAQ37174.1| transcriptional regulator, XRE family protein [Nitrobacter sp.
           Nb-311A]
          Length = 139

 Score =  149 bits (376), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 73/133 (54%), Positives = 96/133 (72%), Gaps = 6/133 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD +VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKHVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSP-TVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           E+L+ P+SF F+ SP T  S I     +     V DF++T +GL L R F +I D K+R+
Sbjct: 62  EILQVPVSFLFEGSPGTGVSRIDGLSEAPSPAYVSDFLATSEGLALTRAFTRITDAKLRR 121

Query: 118 KIIELVRSIVSSE 130
            I+++V  I + E
Sbjct: 122 SIVDMVEQIAARE 134


>gi|75674218|ref|YP_316639.1| XRE family transcriptional regulator [Nitrobacter winogradskyi
           Nb-255]
 gi|74419088|gb|ABA03287.1| transcriptional regulator, XRE family [Nitrobacter winogradskyi
           Nb-255]
          Length = 139

 Score =  149 bits (375), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 73/133 (54%), Positives = 97/133 (72%), Gaps = 6/133 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD +VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKHVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSP---TVCSDISSEENN---VMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           E+L+ P+SF F+ SP    V +   SE  +   V DF++T +GL L R F +I D K+R+
Sbjct: 62  EILQVPVSFLFEGSPGTGVVRTGGMSEAPSPAYVSDFLATSEGLALTRAFTRITDAKLRR 121

Query: 118 KIIELVRSIVSSE 130
            I+++V  I + E
Sbjct: 122 SIVDMVEQIAARE 134


>gi|323138533|ref|ZP_08073601.1| helix-turn-helix domain protein [Methylocystis sp. ATCC 49242]
 gi|322396167|gb|EFX98700.1| helix-turn-helix domain protein [Methylocystis sp. ATCC 49242]
          Length = 141

 Score =  148 bits (374), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 70/134 (52%), Positives = 101/134 (75%), Gaps = 8/134 (5%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK P+P+D +VG R+R++R+++ MSQEKLGE LG+TFQQVQKYEKGVNR+GASRLQ IS+
Sbjct: 2   KKTPDPIDRHVGSRVRMQRILMKMSQEKLGEALGLTFQQVQKYEKGVNRIGASRLQQISK 61

Query: 65  VLESPISFFFDVSPTVCSDIS-----SEENN---VMDFISTPDGLQLNRYFIQIDDVKVR 116
            L  P SFFF+ +PT+   +      +EE++   V+DF+ST +G+ LNR F +I D KVR
Sbjct: 62  TLNVPPSFFFEGAPTLNGAVDGAGGFAEESSSQYVVDFLSTAEGMHLNRAFARIKDPKVR 121

Query: 117 QKIIELVRSIVSSE 130
           +++++LV ++   E
Sbjct: 122 KRVLDLVTTLADQE 135


>gi|90421997|ref|YP_530367.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           BisB18]
 gi|90104011|gb|ABD86048.1| transcriptional regulator, XRE family [Rhodopseudomonas palustris
           BisB18]
          Length = 138

 Score =  148 bits (374), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 71/132 (53%), Positives = 93/132 (70%), Gaps = 5/132 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           E+L+ P+SF F+  P   +       ++    V DF++T +GL L R F +I D K+R+ 
Sbjct: 62  EILQVPVSFLFEGGPGGLAKADGFAEAASPAYVSDFLATSEGLALTRAFTRITDSKLRRS 121

Query: 119 IIELVRSIVSSE 130
           I++LV  I S E
Sbjct: 122 IVDLVEQIASRE 133


>gi|91974719|ref|YP_567378.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           BisB5]
 gi|91681175|gb|ABE37477.1| transcriptional regulator [Rhodopseudomonas palustris BisB5]
          Length = 139

 Score =  147 bits (370), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 72/133 (54%), Positives = 96/133 (72%), Gaps = 6/133 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPT---VCSDISSEENN---VMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           E+L+ P+SF F+  P+     ++  SE  +   V DF++T +GL L R F +I D K+R+
Sbjct: 62  EILQVPVSFLFEGGPSGGLANANGFSEAPSPSYVSDFLATSEGLALTRAFTKISDAKLRR 121

Query: 118 KIIELVRSIVSSE 130
            I++LV  I + E
Sbjct: 122 SIVDLVEQIAARE 134


>gi|86747721|ref|YP_484217.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           HaA2]
 gi|86570749|gb|ABD05306.1| transcriptional regulator, XRE family [Rhodopseudomonas palustris
           HaA2]
          Length = 139

 Score =  147 bits (370), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 72/133 (54%), Positives = 93/133 (69%), Gaps = 6/133 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPTVCSDISS------EENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           EVL+ P+SF F+  P+      S        + V DF++T +GL L R F +I D K+R+
Sbjct: 62  EVLQVPVSFLFEGGPSGGLANGSGFSEAPSPSYVSDFLATSEGLALTRAFTKITDAKLRR 121

Query: 118 KIIELVRSIVSSE 130
            I++LV  I + E
Sbjct: 122 SIVDLVEQIAARE 134


>gi|300024991|ref|YP_003757602.1| XRE family transcriptional regulator [Hyphomicrobium denitrificans
           ATCC 51888]
 gi|299526812|gb|ADJ25281.1| transcriptional regulator, XRE family [Hyphomicrobium denitrificans
           ATCC 51888]
          Length = 154

 Score =  147 bits (370), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 71/131 (54%), Positives = 99/131 (75%), Gaps = 9/131 (6%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           NP+D++VG R+RLRRM+LGMSQEKLGE LG+TFQQVQKYEKGVNR+GASRL  +++VL  
Sbjct: 23  NPMDVHVGSRVRLRRMLLGMSQEKLGEHLGLTFQQVQKYEKGVNRIGASRLFDLAKVLGV 82

Query: 69  PISFFFDVSPT-------VCSDISSE--ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           P+ FF+D +P+       V +  + +  E+ V+DF+ T +GL+LN+ F +I D KVR+ I
Sbjct: 83  PVQFFYDEAPSGVQTTGNVIAGFAEQPGESYVVDFLGTREGLELNKAFARISDPKVRRSI 142

Query: 120 IELVRSIVSSE 130
           ++LVRS+   E
Sbjct: 143 VDLVRSLAGEE 153


>gi|114705364|ref|ZP_01438272.1| dna-binding protein [Fulvimarina pelagi HTCC2506]
 gi|114540149|gb|EAU43269.1| dna-binding protein [Fulvimarina pelagi HTCC2506]
          Length = 138

 Score =  146 bits (369), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 71/116 (61%), Positives = 94/116 (81%), Gaps = 5/116 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           NKK+PNP+DI+VG R+RLRR +L +SQEKLGE LGITFQQVQKYEKG NR+GASRLQ IS
Sbjct: 4   NKKMPNPIDIHVGSRVRLRRTMLSLSQEKLGEALGITFQQVQKYEKGTNRIGASRLQRIS 63

Query: 64  EVLESPISFFFDVSPTVCSDIS--SEENN---VMDFISTPDGLQLNRYFIQIDDVK 114
           EVL+ P++FFF+ +PT  + ++  SE +    ++DF+ST +GLQLN+ FI+I + K
Sbjct: 64  EVLKVPVAFFFEDAPTNGNTVTGMSEPHGGDYMVDFLSTSEGLQLNKAFIKIGNQK 119


>gi|121602273|ref|YP_989497.1| DNA-binding protein [Bartonella bacilliformis KC583]
 gi|120614450|gb|ABM45051.1| DNA-binding protein [Bartonella bacilliformis KC583]
          Length = 137

 Score =  146 bits (369), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 70/128 (54%), Positives = 96/128 (75%), Gaps = 2/128 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR +LG++QEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTETRKKPDPIDIYVGTRIRLRRNMLGLTQEKLGEQLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  ++       +  ++N MDF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGINNQPEESFAESDSNFMDFCSSNEGIQLMRAFTNILDAKVRRK 120

Query: 119 IIELVRSI 126
           II+L +++
Sbjct: 121 IIDLAKAL 128


>gi|146337220|ref|YP_001202268.1| putative transcriptional regulator [Bradyrhizobium sp. ORS278]
 gi|146190026|emb|CAL74018.1| conserved hypothetical protein; putative transcriptional regulatory
           protein HTH type [Bradyrhizobium sp. ORS278]
          Length = 140

 Score =  146 bits (369), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 70/132 (53%), Positives = 94/132 (71%), Gaps = 5/132 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD +VG R+R+RR++LGMSQEKLGE LG+TFQQ+QKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKHVGSRVRMRRIMLGMSQEKLGEALGLTFQQIQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           EVL+ P+SF F+  P+  ++       +    V DF++T +GL L R F +I D K+R+ 
Sbjct: 62  EVLQVPVSFLFEGVPSGGTNGEAFGEGASPAYVSDFLATSEGLALTRAFTRIHDSKLRRS 121

Query: 119 IIELVRSIVSSE 130
           I++LV  I   E
Sbjct: 122 IVDLVEQIADRE 133


>gi|316931572|ref|YP_004106554.1| helix-turn-helix domain-containing protein [Rhodopseudomonas
           palustris DX-1]
 gi|315599286|gb|ADU41821.1| helix-turn-helix domain protein [Rhodopseudomonas palustris DX-1]
          Length = 139

 Score =  146 bits (368), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 71/131 (54%), Positives = 92/131 (70%), Gaps = 6/131 (4%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q I+EV
Sbjct: 4   KAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIAEV 63

Query: 66  LESPISFFFDVSPTVCSDISS------EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           L+ P+SF F+  P+      S        + V DF++T +GL L R F +I D K+R+ I
Sbjct: 64  LQVPVSFLFEGGPSGGLANGSGFSEAPSPSYVSDFLATSEGLALTRAFTKITDAKLRRSI 123

Query: 120 IELVRSIVSSE 130
           ++LV  I + E
Sbjct: 124 VDLVERIAARE 134


>gi|148251675|ref|YP_001236260.1| XRE family transcriptional regulator [Bradyrhizobium sp. BTAi1]
 gi|146403848|gb|ABQ32354.1| transcriptional regulator, XRE family [Bradyrhizobium sp. BTAi1]
          Length = 138

 Score =  146 bits (368), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 70/131 (53%), Positives = 94/131 (71%), Gaps = 4/131 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD +VG R+R+RR++LGMSQEKLGE LG+TFQQ+QKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKHVGSRVRMRRIMLGMSQEKLGEALGLTFQQIQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPTVCSD----ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           EVL+ P+SF F+  P+  ++      +    V DF++T +GL L R F +I D K+R+ I
Sbjct: 62  EVLQIPVSFLFEGVPSGSTNGEPFDGASPAYVSDFLATSEGLALTRAFTRIHDSKLRRSI 121

Query: 120 IELVRSIVSSE 130
           ++LV  I   E
Sbjct: 122 VDLVEQIADRE 132


>gi|39933520|ref|NP_945796.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           CGA009]
 gi|192288878|ref|YP_001989483.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           TIE-1]
 gi|39647366|emb|CAE25887.1| possible transcriptional regulator, XRE family [Rhodopseudomonas
           palustris CGA009]
 gi|192282627|gb|ACE99007.1| transcriptional regulator, XRE family [Rhodopseudomonas palustris
           TIE-1]
          Length = 139

 Score =  146 bits (368), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 72/133 (54%), Positives = 95/133 (71%), Gaps = 6/133 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q I+
Sbjct: 2   STKAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIA 61

Query: 64  EVLESPISFFFDVSPT---VCSDISSEENN---VMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           EVL+ P+SF F+  P+      +  SE  +   V DF++T +GL L R F +I D K+R+
Sbjct: 62  EVLQVPVSFLFEGGPSGGLANGNGFSEAPSPSYVSDFLATSEGLALTRAFTKITDAKLRR 121

Query: 118 KIIELVRSIVSSE 130
            I++LV  I + E
Sbjct: 122 SIVDLVERIAARE 134


>gi|27375901|ref|NP_767430.1| transcriptional regulator [Bradyrhizobium japonicum USDA 110]
 gi|27349039|dbj|BAC46055.1| bll0790 [Bradyrhizobium japonicum USDA 110]
          Length = 137

 Score =  145 bits (366), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 67/130 (51%), Positives = 93/130 (71%), Gaps = 5/130 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQ+QKYEKG NRVGASR+Q I+E+
Sbjct: 3   KAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQIQKYEKGTNRVGASRIQQIAEI 62

Query: 66  LESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           L+ P+SF F+  P+  +        +  + V DF++T +GL L + F +I D K+R+ I+
Sbjct: 63  LQVPVSFLFEGGPSGVAGPNGFAEGASPSYVSDFLATSEGLALTKAFTRITDAKMRRSIV 122

Query: 121 ELVRSIVSSE 130
           +LV  I + E
Sbjct: 123 DLVEQIAARE 132


>gi|115522230|ref|YP_779141.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           BisA53]
 gi|115516177|gb|ABJ04161.1| transcriptional regulator, XRE family [Rhodopseudomonas palustris
           BisA53]
          Length = 140

 Score =  144 bits (364), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 71/131 (54%), Positives = 94/131 (71%), Gaps = 7/131 (5%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPTV------CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           E+L+ P+SF F+  P         S+ +S  + V DF++T +GL L R F +I D K+R+
Sbjct: 62  EILQVPVSFLFEGGPGANIKGEGFSEAAS-PSYVSDFLATSEGLALTRAFTRIADSKLRR 120

Query: 118 KIIELVRSIVS 128
            I++LV  I +
Sbjct: 121 SIVDLVEQIAA 131


>gi|299133379|ref|ZP_07026574.1| transcriptional regulator, XRE family [Afipia sp. 1NLS2]
 gi|298593516|gb|EFI53716.1| transcriptional regulator, XRE family [Afipia sp. 1NLS2]
          Length = 136

 Score =  143 bits (361), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 64/132 (48%), Positives = 93/132 (70%), Gaps = 5/132 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD  VG R+R+RR++LG+SQEKLG+ LG+TFQQ+QKYEKG NR+GASRL  I+
Sbjct: 2   SAKTPNPVDKYVGSRVRMRRIMLGLSQEKLGDALGLTFQQIQKYEKGTNRIGASRLHQIA 61

Query: 64  EVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           ++L+ P+SF F+  PT  + +     +     V DF++T +GL L R F +I D K+R+ 
Sbjct: 62  DILQVPVSFLFEGGPTSNTSVEGLGEAPSPAYVSDFLATSEGLALTRAFTKITDAKLRRS 121

Query: 119 IIELVRSIVSSE 130
           I++LV  I  ++
Sbjct: 122 IVDLVEQIAGTQ 133


>gi|154254053|ref|YP_001414877.1| XRE family transcriptional regulator [Parvibaculum lavamentivorans
           DS-1]
 gi|154158003|gb|ABS65220.1| transcriptional regulator, XRE family [Parvibaculum lavamentivorans
           DS-1]
          Length = 147

 Score =  140 bits (354), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 67/128 (52%), Positives = 93/128 (72%), Gaps = 5/128 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
            +K+PNP+D++VG R+R+RRM++GMSQEKLGE LG+TFQQVQKYEKG NR+GASRL  I 
Sbjct: 2   TRKLPNPIDVHVGGRVRMRRMLIGMSQEKLGESLGLTFQQVQKYEKGSNRIGASRLYQIG 61

Query: 64  EVLESPISFFFD-VSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            VL  PI +FF+ V P     +  D +      MD +ST +G+QLN  F  I D K+R++
Sbjct: 62  SVLGVPIEYFFEGVEPGEGNGMEPDAAPSPGFDMDILSTAEGIQLNSAFFAIADPKLRKR 121

Query: 119 IIELVRSI 126
           I++LV+++
Sbjct: 122 ILDLVKAL 129


>gi|312115567|ref|YP_004013163.1| helix-turn-helix domain protein [Rhodomicrobium vannielii ATCC
           17100]
 gi|311220696|gb|ADP72064.1| helix-turn-helix domain protein [Rhodomicrobium vannielii ATCC
           17100]
          Length = 174

 Score =  140 bits (352), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 69/133 (51%), Positives = 100/133 (75%), Gaps = 10/133 (7%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVDI+VG R+R RRMI+GMSQEKLGE + +TFQQ+QKYEKG NR+GASRL  +S++LE
Sbjct: 29  PNPVDIHVGSRVRYRRMIVGMSQEKLGEKMNLTFQQIQKYEKGTNRIGASRLFQLSKILE 88

Query: 68  SPISFFFD-----VSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
            P+ +FF+      +P+  S    E   E  ++DF+++ +GL+LN+ F +I D KVR+++
Sbjct: 89  VPVGYFFEDAFAHSAPSSASHGLHEPEQEGFLLDFLNSREGLELNKAFAKIQDPKVRRRV 148

Query: 120 IELVRSIVSSEKK 132
           I+LVR++  SE+K
Sbjct: 149 IDLVRAL--SEEK 159


>gi|209883668|ref|YP_002287525.1| transcriptional regulator of XRE family [Oligotropha
           carboxidovorans OM5]
 gi|209871864|gb|ACI91660.1| transcriptional regulator of XRE family [Oligotropha
           carboxidovorans OM5]
          Length = 148

 Score =  139 bits (351), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 67/134 (50%), Positives = 96/134 (71%), Gaps = 5/134 (3%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           V + K PNPVD  VG R+R+RR++LG+SQEKLG+ LG+TFQQ+QKYEKG NR+GASRL  
Sbjct: 12  VMSAKTPNPVDKYVGSRVRMRRIMLGLSQEKLGDALGLTFQQIQKYEKGTNRIGASRLHQ 71

Query: 62  ISEVLESPISFFFDVSPT--VCSDISSEENN---VMDFISTPDGLQLNRYFIQIDDVKVR 116
           I+++L+ P+SF F+  P+  V  D   E  +   V DF++T +GL L R F +I D K+R
Sbjct: 72  IADILQVPVSFLFEGGPSSNVILDGLGEAPSPAYVSDFLATSEGLALTRAFTRITDAKLR 131

Query: 117 QKIIELVRSIVSSE 130
           + I++LV  I +++
Sbjct: 132 RSIVDLVEQIANTQ 145


>gi|222087623|ref|YP_002546160.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221725071|gb|ACM28227.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 152

 Score =  139 bits (350), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 65/134 (48%), Positives = 100/134 (74%), Gaps = 7/134 (5%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K+PNP+D  VG R+R+RR++LGMSQE+L + +G+TFQQVQKYEKG NR+GASRLQ I+
Sbjct: 2   SAKVPNPIDAYVGSRVRMRRLMLGMSQERLADQIGVTFQQVQKYEKGTNRIGASRLQAIA 61

Query: 64  EVLESPISFFF--DVSPTVCSD----ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
            VL  P++FFF  D S  + +D    IS  E ++ DF+++ +GL LN+ F++I+D  VRQ
Sbjct: 62  SVLAVPVAFFFQQDNSQPLATDGLGAISGLE-DLSDFLTSKEGLSLNKAFMKINDPSVRQ 120

Query: 118 KIIELVRSIVSSEK 131
            ++ L++S+ ++ +
Sbjct: 121 SVLMLIKSLANTAE 134


>gi|241258713|ref|YP_002978597.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240863183|gb|ACS60846.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 152

 Score =  138 bits (347), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 68/138 (49%), Positives = 96/138 (69%), Gaps = 5/138 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K  N +D  VG RIR+RR +LGMSQE+LGE +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2   NVKTANAIDSYVGARIRMRRQLLGMSQERLGEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64  EVLESPISFFF---DVSPTVCS--DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           EVL++  SFFF   +  P      D+S+    V +F+ T +GL LNR F++I D  +R+ 
Sbjct: 62  EVLQTSPSFFFEQENSEPLTLQGLDLSANMEPVAEFLRTKEGLVLNRAFLKIADSNIRET 121

Query: 119 IIELVRSIVSSEKKYRTI 136
           +I LV+++  +E +  T+
Sbjct: 122 VIALVKAMAQAESRGVTL 139


>gi|83945000|ref|ZP_00957366.1| transcriptional regulator, Cro/CI family protein [Oceanicaulis
           alexandrii HTCC2633]
 gi|83851782|gb|EAP89637.1| transcriptional regulator, Cro/CI family protein [Oceanicaulis
           alexandrii HTCC2633]
          Length = 144

 Score =  136 bits (343), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 71/128 (55%), Positives = 93/128 (72%), Gaps = 4/128 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  N + PN VD +VG RIRLRR +L +SQEKLGE LG+TFQQVQKYE+G NRVGA RL 
Sbjct: 1   MTANPRGPNAVDRHVGSRIRLRRQLLNLSQEKLGEELGVTFQQVQKYERGTNRVGAGRLW 60

Query: 61  HISEVLESPISFFFD-VSPTVCSDISSEENN---VMDFISTPDGLQLNRYFIQIDDVKVR 116
           ++++VL+ P+SFF+D V+ TV     SE +    V DFI + DG+ L + F +I D KVR
Sbjct: 61  NLAKVLDVPVSFFYDGVAETVGQPGFSEGDQTPIVDDFIQSADGVALAQAFARIKDSKVR 120

Query: 117 QKIIELVR 124
           ++I+ELVR
Sbjct: 121 RRILELVR 128


>gi|114571577|ref|YP_758257.1| XRE family transcriptional regulator [Maricaulis maris MCS10]
 gi|114342039|gb|ABI67319.1| transcriptional regulator, XRE family [Maricaulis maris MCS10]
          Length = 140

 Score =  136 bits (343), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 67/131 (51%), Positives = 91/131 (69%), Gaps = 4/131 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N + PNP+DI+VG RIRLRR +L MSQE+LG+ LG+TFQQVQKYE+G NRVGASRL  +S
Sbjct: 5   NPRGPNPIDIHVGSRIRLRRQLLKMSQERLGDDLGVTFQQVQKYERGANRVGASRLYRMS 64

Query: 64  EVLESPISFFFDVSPTVCSDISSEENN----VMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
            VLE P+ FFF+      +     E++    V DFI + DG+ L   F +I D KVR+++
Sbjct: 65  RVLEVPVQFFFEGMGERSTMTGMAEDDQTPIVYDFIRSADGVSLAESFSRIKDAKVRKRV 124

Query: 120 IELVRSIVSSE 130
           +ELVR++   +
Sbjct: 125 LELVRTLADED 135


>gi|227820124|ref|YP_002824095.1| transcriptional regulator [Sinorhizobium fredii NGR234]
 gi|227339123|gb|ACP23342.1| probable transcriptional regulator protein [Sinorhizobium fredii
           NGR234]
          Length = 148

 Score =  136 bits (342), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 65/132 (49%), Positives = 91/132 (68%), Gaps = 5/132 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           NKK P  +DI+VG RIRLRR+ L  SQ KLGE L ++FQQVQKYEKG+NRVGASRLQ  +
Sbjct: 6   NKKEPRAIDIHVGNRIRLRRLALDWSQTKLGEALDVSFQQVQKYEKGLNRVGASRLQRAA 65

Query: 64  EVLESPISFFFDVSPTVC-----SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           EVL   +S+FF+  P        S   +  + ++ F++T +G+ LNR F ++ D +VR+K
Sbjct: 66  EVLSVSVSYFFEGGPETSNGGEQSAAVTSSDEMLQFLATEEGVALNRAFARLSDPQVRRK 125

Query: 119 IIELVRSIVSSE 130
           I+ LV+++  SE
Sbjct: 126 IVALVKALAPSE 137


>gi|18071257|ref|NP_542325.1| hypothetical protein PBC5p65 [Sinorhizobium phage PBC5]
 gi|17940363|gb|AAL49607.1|AF448724_44 unknown [Sinorhizobium phage PBC5]
          Length = 135

 Score =  135 bits (341), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 68/119 (57%), Positives = 81/119 (68%), Gaps = 2/119 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PNP+D  VG RIRLRR I+GMSQE L   LGITFQQVQKYEKG NRVGASRLQ ISE 
Sbjct: 10  KKPNPIDTQVGARIRLRRNIIGMSQETLAAHLGITFQQVQKYEKGANRVGASRLQAISEA 69

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           L+   S+FFD           +E  VM FI++ +G+ LNR F +I D   R KI++LV+
Sbjct: 70  LKVAPSYFFDKPEGATEANGGDE--VMSFIASSEGIALNRAFARIQDSATRHKIVDLVK 126


>gi|190894495|ref|YP_001984788.1| putative transcriptional regulator [Rhizobium etli CIAT 652]
 gi|190700156|gb|ACE94238.1| probable transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 152

 Score =  135 bits (341), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 69/138 (50%), Positives = 91/138 (65%), Gaps = 5/138 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K PN +D  VG RIR RR +LGMSQE+L E +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2   NVKTPNAIDSYVGARIRTRRQLLGMSQERLAEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64  EVLESPISFFF---DVSPTVCSDISSEE--NNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           EVL +  SFFF   D  P     +   +  + V +F+ T +GL LNR F++I D  +R  
Sbjct: 62  EVLHTSPSFFFEQGDSEPVAAPGLGGRDRTDPVAEFLQTKEGLVLNRAFLKIADPHIRAS 121

Query: 119 IIELVRSIVSSEKKYRTI 136
           II LV ++  +E +  TI
Sbjct: 122 IIALVTAMGQAESRGLTI 139


>gi|241205900|ref|YP_002976996.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240859790|gb|ACS57457.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 141

 Score =  135 bits (339), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 63/122 (51%), Positives = 83/122 (68%), Gaps = 2/122 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQNGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  PI FFF+        I    N +  F+S+ +GL LN+ FI I+D  +RQK++ L +S
Sbjct: 64  LRVPIGFFFENGG--AGPIDGATNELNSFLSSKEGLALNKAFIAIEDPNIRQKLVALAKS 121

Query: 126 IV 127
           + 
Sbjct: 122 LA 123


>gi|209552341|ref|YP_002284256.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209539453|gb|ACI59385.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
          Length = 152

 Score =  135 bits (339), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 67/138 (48%), Positives = 94/138 (68%), Gaps = 5/138 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K PN +D  VG RIR+RR +LGMSQE+L E +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2   NVKTPNAIDGYVGARIRMRRQLLGMSQERLAEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64  EVLESPISFFF---DVSPTVCS--DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           +VL +  SFFF   +  P      D+ +  + V +F+ T +GL LNR F++I D  +R+ 
Sbjct: 62  DVLHTSPSFFFEQENSEPLTLQGLDLPANSDPVAEFLQTKEGLVLNRAFLKIADRNIRET 121

Query: 119 IIELVRSIVSSEKKYRTI 136
           II LV+++  +E    T+
Sbjct: 122 IIALVKAMAQAESSGVTL 139


>gi|218672917|ref|ZP_03522586.1| probable transcriptional regulator protein [Rhizobium etli GR56]
          Length = 141

 Score =  134 bits (338), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 64/124 (51%), Positives = 86/124 (69%), Gaps = 2/124 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  P+ FFF+   +    I  E + +  F+S+ +GL LN+ FI I+D  +RQK++ L RS
Sbjct: 64  LRVPVGFFFENGGS--GPIEGETSELNKFLSSKEGLALNKAFIAIEDPNIRQKLVALARS 121

Query: 126 IVSS 129
           +  S
Sbjct: 122 LAVS 125


>gi|218681409|ref|ZP_03529306.1| transcriptional regulator, XRE family protein [Rhizobium etli CIAT
           894]
          Length = 141

 Score =  134 bits (338), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 63/122 (51%), Positives = 85/122 (69%), Gaps = 2/122 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGANRIGASRLQKISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  PI FFF+   +    I  E + +  F+S+ +GL LN+ FI I+D  +RQK++ L +S
Sbjct: 64  LRVPIGFFFENGGS--GPIEGETSELNKFLSSKEGLALNKAFIAIEDPNIRQKLVALAKS 121

Query: 126 IV 127
           + 
Sbjct: 122 LA 123


>gi|86358808|ref|YP_470700.1| transcriptional regulator protein [Rhizobium etli CFN 42]
 gi|86282910|gb|ABC91973.1| probable transcriptional regulator protein [Rhizobium etli CFN 42]
          Length = 141

 Score =  134 bits (338), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 62/124 (50%), Positives = 87/124 (70%), Gaps = 2/124 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  P+ FFF+   +    I  E + +  F+S+ +GL LN+ FI I+D  VRQK++ L ++
Sbjct: 64  LRVPVGFFFENGGS--GPIEGETSELNKFLSSKEGLALNKAFIAIEDPNVRQKLVALAKT 121

Query: 126 IVSS 129
           + ++
Sbjct: 122 LATA 125


>gi|85715705|ref|ZP_01046684.1| transcriptional regulator, XRE family protein [Nitrobacter sp.
           Nb-311A]
 gi|85697358|gb|EAQ35237.1| transcriptional regulator, XRE family protein [Nitrobacter sp.
           Nb-311A]
          Length = 149

 Score =  134 bits (338), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 68/130 (52%), Positives = 89/130 (68%), Gaps = 5/130 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN VD +VG R+R+RR++LGMSQE+LGE LG+TFQQVQKYEKG NRVGASR++ ISE+
Sbjct: 19  KSPNYVDKHVGSRVRMRRIMLGMSQEQLGEALGLTFQQVQKYEKGTNRVGASRIKQISEI 78

Query: 66  LESPISFFFDVSPTVCSDISS-----EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           L  P+SF F+ SPT  S           ++V  F++T  GL L R F +I D K+R+ ++
Sbjct: 79  LGVPVSFLFEGSPTRISATEDPGQVPSPDSVSSFVATTQGLALIRAFTRITDPKLRRSVV 138

Query: 121 ELVRSIVSSE 130
            LV  I   E
Sbjct: 139 NLVEQIACRE 148


>gi|209550535|ref|YP_002282452.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209536291|gb|ACI56226.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
          Length = 141

 Score =  134 bits (336), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 63/122 (51%), Positives = 85/122 (69%), Gaps = 2/122 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  PI FFF+   +    I  E + +  F+S+ +GL LN+ FI I+D  +RQK++ L +S
Sbjct: 64  LRVPIGFFFENGGS--GPIEGETSELNKFLSSKEGLALNKAFIAIEDPNIRQKLVALAKS 121

Query: 126 IV 127
           + 
Sbjct: 122 LA 123


>gi|116253382|ref|YP_769220.1| transcriptional regulator [Rhizobium leguminosarum bv. viciae 3841]
 gi|15007265|gb|AAK77322.1| putative transcriptional regulator [Rhizobium leguminosarum bv.
           viciae]
 gi|115258030|emb|CAK09128.1| putative transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
          Length = 141

 Score =  134 bits (336), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 63/122 (51%), Positives = 86/122 (70%), Gaps = 2/122 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQNGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  P+ FFF+   +   D ++ E N   F+S+ +GL LN+ FI I+D  +RQK++ L +S
Sbjct: 64  LRVPVGFFFENGGSGPIDGATNELN--SFLSSKEGLALNKAFIAIEDPNIRQKLVALAKS 121

Query: 126 IV 127
           + 
Sbjct: 122 LA 123


>gi|116249754|ref|YP_765592.1| putative HTH transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|115254402|emb|CAK04035.1| putative HTH transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
          Length = 152

 Score =  134 bits (336), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 66/138 (47%), Positives = 94/138 (68%), Gaps = 5/138 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K  N +D  VG RIR+RR +LGMSQE+L E +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2   NVKTANAIDSYVGARIRMRRQLLGMSQERLAEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64  EVLESPISFFF---DVSPTVCS--DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           EVL +  SFFF   +  P      D+ +  + V +F+ T +GL LNR F++I D  +R+ 
Sbjct: 62  EVLHTSPSFFFEQENSEPLTLQGLDLPANMDPVAEFLRTKEGLVLNRAFLKIADSNIRET 121

Query: 119 IIELVRSIVSSEKKYRTI 136
           +I LV+++  +E +  T+
Sbjct: 122 VIALVKAMAQAESRGLTL 139


>gi|218458068|ref|ZP_03498159.1| probable transcriptional regulator protein [Rhizobium etli Kim 5]
          Length = 127

 Score =  134 bits (336), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 62/122 (50%), Positives = 84/122 (68%), Gaps = 2/122 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  P+ FFF+        I  E + +  F+S+ +GL LN+ FI I+D  +RQK++ L +S
Sbjct: 64  LRVPVGFFFENGG--AGPIEGETSELNKFLSSKEGLALNKAFIAIEDPNIRQKLVALAKS 121

Query: 126 IV 127
           + 
Sbjct: 122 LA 123


>gi|144899566|emb|CAM76430.1| transcriptional regulator [Magnetospirillum gryphiswaldense MSR-1]
          Length = 161

 Score =  134 bits (336), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 65/135 (48%), Positives = 92/135 (68%), Gaps = 12/135 (8%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNP+D++VG R+RLRR +LGMSQEKLGE LG+TFQQVQKYE+G NRVGASRL  +S VL+
Sbjct: 26  PNPIDVHVGSRVRLRRTLLGMSQEKLGEALGLTFQQVQKYERGANRVGASRLFDLSRVLD 85

Query: 68  SPISFFFD--------VSPTVCSDISSEENNVMDFISTP----DGLQLNRYFIQIDDVKV 115
            P+SFFFD         SP + + +++ E     F   P    + L+L R + +I D +V
Sbjct: 86  VPVSFFFDDMNDELKAQSPALIAGMTALEEPPAHFEHDPLAKRETLELVRAYYRIADPQV 145

Query: 116 RQKIIELVRSIVSSE 130
           R+++ EL +++  S+
Sbjct: 146 RKRVYELAKALADSD 160


>gi|218670209|ref|ZP_03519880.1| probable transcriptional regulator protein [Rhizobium etli GR56]
          Length = 152

 Score =  133 bits (335), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 68/137 (49%), Positives = 92/137 (67%), Gaps = 5/137 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K PN +D  VG RIR RR +LGMSQE+L E +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2   NVKTPNAIDSYVGARIRTRRQLLGMSQERLAEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64  EVLESPISFFF---DVSPTVCSDISSEENN--VMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           EVL +  SFFF   D  P     +   ++   V +F+ T +GL LNR F++I D ++R+ 
Sbjct: 62  EVLHTSPSFFFEQGDSQPLAVRGLDGPDHADPVAEFLRTKEGLVLNRAFLKIADPEIRES 121

Query: 119 IIELVRSIVSSEKKYRT 135
           II LV ++  +E +  T
Sbjct: 122 IIALVTAMGQAESRGLT 138


>gi|190893033|ref|YP_001979575.1| transcriptional regulator protein [Rhizobium etli CIAT 652]
 gi|218517003|ref|ZP_03513843.1| probable transcriptional regulator protein [Rhizobium etli 8C-3]
 gi|190698312|gb|ACE92397.1| probable transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 141

 Score =  133 bits (334), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 62/122 (50%), Positives = 85/122 (69%), Gaps = 2/122 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  P+ FFF+   +    I  E + +  F+S+ +GL LN+ FI I+D  +RQK++ L +S
Sbjct: 64  LRVPVGFFFENGGS--GPIEGETSELNKFLSSKEGLALNKAFIAIEDPNIRQKLVALAKS 121

Query: 126 IV 127
           + 
Sbjct: 122 LA 123


>gi|254502751|ref|ZP_05114902.1| Helix-turn-helix domain protein [Labrenzia alexandrii DFL-11]
 gi|222438822|gb|EEE45501.1| Helix-turn-helix domain protein [Labrenzia alexandrii DFL-11]
          Length = 112

 Score =  133 bits (334), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 62/112 (55%), Positives = 86/112 (76%), Gaps = 5/112 (4%)

Query: 24  MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSD 83
           M+LGMSQEKLGE LGITFQQ+QKYEKG NR+GASRLQHI+ VL+ P+SFFF+ +P    +
Sbjct: 1   MMLGMSQEKLGEALGITFQQIQKYEKGTNRIGASRLQHIATVLKVPVSFFFEDAPGTPEE 60

Query: 84  I-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
                 +   + V+DF+S+ +GL LN+ F++I+D KVR++I++LVRS+   E
Sbjct: 61  AEGFGETQPTSYVVDFLSSSEGLSLNKAFVRIEDPKVRRRIVDLVRSLAGDE 112


>gi|190014814|ref|YP_001967578.1| orf_Bo182 [Agrobacterium tumefaciens]
 gi|71849617|gb|AAZ50565.1| orf_Bo182 [Agrobacterium tumefaciens]
          Length = 140

 Score =  132 bits (332), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 65/132 (49%), Positives = 89/132 (67%), Gaps = 5/132 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG RIRL+R  +GMSQ+ L   LG+TFQQVQKYEKG NRVGASRL  I+  
Sbjct: 6   KAPNAIDVEVGARIRLKRKPIGMSQQSLAGKLGVTFQQVQKYEKGTNRVGASRLSQIATA 65

Query: 66  LESPISFFFDVSPTVCSD-----ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           L+ P+S+FFD +     D     I+ E + V  F+S+ +G  LNR F+QI    VRQK++
Sbjct: 66  LDVPMSYFFDGNQGERQDDDNPHITRETDEVALFLSSTEGFNLNRAFMQIPSAAVRQKVV 125

Query: 121 ELVRSIVSSEKK 132
            LV+S+  +E++
Sbjct: 126 LLVKSVARAEEE 137


>gi|209966238|ref|YP_002299153.1| DNA-binding protein, putative [Rhodospirillum centenum SW]
 gi|209959704|gb|ACJ00341.1| DNA-binding protein, putative [Rhodospirillum centenum SW]
          Length = 149

 Score =  132 bits (332), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/125 (48%), Positives = 90/125 (72%), Gaps = 3/125 (2%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVD++VG R+RLRR +LGMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL+
Sbjct: 20  PNPVDVHVGSRVRLRRTLLGMSQEKLGEAIGLTFQQVQKYERGANRIGASRLYDLSRVLD 79

Query: 68  SPISFFFDVSPTVCSDISSEENNV---MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            P+SFFFD  P+  +  ++E+       D ++  + L+L R + +I +  VR++I EL +
Sbjct: 80  VPVSFFFDDMPSDDAPRTAEQAQADGEPDPMAKRETLELVRAYYRITEPAVRKRIFELTK 139

Query: 125 SIVSS 129
           ++  +
Sbjct: 140 AVAHA 144


>gi|144900187|emb|CAM77051.1| transcriptional regulators [Magnetospirillum gryphiswaldense MSR-1]
          Length = 161

 Score =  131 bits (330), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 63/128 (49%), Positives = 92/128 (71%), Gaps = 9/128 (7%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNP+D++VG R+RLRR +LGMSQEKLGE LG+TFQQVQKYE+G NRVGASRL  +S VL+
Sbjct: 27  PNPIDVHVGARVRLRRTLLGMSQEKLGEALGLTFQQVQKYERGANRVGASRLFDLSRVLD 86

Query: 68  SPISFFFD--------VSPTVCSDISSEENNV-MDFISTPDGLQLNRYFIQIDDVKVRQK 118
            P+SFFFD        +SP + S ++ E  +   D ++  + L+L R + +I D  VR++
Sbjct: 87  VPVSFFFDDMSEEVEALSPRLISGLAEEPASFETDPMTKRETLELVRAYYRITDPHVRKR 146

Query: 119 IIELVRSI 126
           +++L +++
Sbjct: 147 VLDLAKAL 154


>gi|16124307|ref|NP_418871.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
           CB15]
 gi|13421145|gb|AAK22039.1| transcriptional regulator, Cro/CI family [Caulobacter crescentus
           CB15]
          Length = 142

 Score =  131 bits (330), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 64/129 (49%), Positives = 93/129 (72%), Gaps = 2/129 (1%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
            ++ PNPVD++VG RIR+RR ILG+SQE+L E LG+TFQQVQKYE+G NRV AS+L  I+
Sbjct: 7   TERHPNPVDLHVGARIRMRRRILGVSQERLAEDLGLTFQQVQKYERGANRVSASKLYEIA 66

Query: 64  EVLESPISFFFD-VSPTVCSDISSE-ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
             L+SP+ +FF+ +  T    ++   E  V DF+ TP+GL+L   F ++   KVR++I+E
Sbjct: 67  RSLQSPVDYFFEGLEDTTGGGMAERGEPFVHDFLMTPEGLELATLFPKVSRQKVRRRILE 126

Query: 122 LVRSIVSSE 130
           LVRS+ + +
Sbjct: 127 LVRSMAAED 135


>gi|227819384|ref|YP_002823355.1| XRE family transcriptional regulator [Sinorhizobium fredii NGR234]
 gi|227338383|gb|ACP22602.1| probable transcriptional regulator protein, XRE familiy
           [Sinorhizobium fredii NGR234]
          Length = 150

 Score =  131 bits (330), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 65/130 (50%), Positives = 91/130 (70%), Gaps = 6/130 (4%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK PNP+D  VG R+R+RR+++GMSQEKL + LGITFQQVQKYEKG NR+GASRLQ I++
Sbjct: 2   KKNPNPIDTFVGSRVRMRRLMVGMSQEKLADGLGITFQQVQKYEKGTNRIGASRLQAIAD 61

Query: 65  VLESPISFFFD-----VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +L    SFFF       S    +D+  E + +  F+++ +G+ LNR F++I D  +R+KI
Sbjct: 62  ILGVHPSFFFQQDEKAQSRETAADV-HESHEISSFVASKEGIALNRAFLKIVDPVLRKKI 120

Query: 120 IELVRSIVSS 129
           I LV ++  S
Sbjct: 121 IALVAAMAHS 130


>gi|221232988|ref|YP_002515424.1| HTH transcriptional regulator [Caulobacter crescentus NA1000]
 gi|220962160|gb|ACL93516.1| HTH transcriptional regulator [Caulobacter crescentus NA1000]
          Length = 144

 Score =  131 bits (330), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 64/129 (49%), Positives = 93/129 (72%), Gaps = 2/129 (1%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
            ++ PNPVD++VG RIR+RR ILG+SQE+L E LG+TFQQVQKYE+G NRV AS+L  I+
Sbjct: 9   TERHPNPVDLHVGARIRMRRRILGVSQERLAEDLGLTFQQVQKYERGANRVSASKLYEIA 68

Query: 64  EVLESPISFFFD-VSPTVCSDISSE-ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
             L+SP+ +FF+ +  T    ++   E  V DF+ TP+GL+L   F ++   KVR++I+E
Sbjct: 69  RSLQSPVDYFFEGLEDTTGGGMAERGEPFVHDFLMTPEGLELATLFPKVSRQKVRRRILE 128

Query: 122 LVRSIVSSE 130
           LVRS+ + +
Sbjct: 129 LVRSMAAED 137


>gi|222080150|ref|YP_002540013.1| transcriptional regulator [Agrobacterium vitis S4]
 gi|221738795|gb|ACM39574.1| transcriptional regulator [Agrobacterium vitis S4]
          Length = 146

 Score =  130 bits (328), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 66/123 (53%), Positives = 86/123 (69%), Gaps = 2/123 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K+PNPVDI VG+RI+ RR ILGMSQ KL E LG+TFQQVQKY+KG NRVGASRLQ+++ +
Sbjct: 12  KVPNPVDIEVGERIKARRRILGMSQGKLAEALGVTFQQVQKYKKGKNRVGASRLQNVATI 71

Query: 66  LESPISFFF-DVSPTVCSDISSEENN-VMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
              P S+FF D S     DI+S     +  F++  +GL LNR F  I    VR++++ LV
Sbjct: 72  FGVPFSYFFPDQSSGTEGDITSNPGKEITAFLANNEGLDLNRAFALISSPLVRKRVVGLV 131

Query: 124 RSI 126
           +SI
Sbjct: 132 KSI 134


>gi|150376667|ref|YP_001313263.1| XRE family transcriptional regulator [Sinorhizobium medicae WSM419]
 gi|150031214|gb|ABR63330.1| transcriptional regulator, XRE family [Sinorhizobium medicae
           WSM419]
          Length = 152

 Score =  130 bits (328), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 67/138 (48%), Positives = 93/138 (67%), Gaps = 7/138 (5%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           NKK PNP+D  VG R+R+RR+++G+SQEKL + LGITFQQVQKYEKG NR+GASRLQ I+
Sbjct: 2   NKKDPNPIDAFVGSRVRMRRLMIGLSQEKLADGLGITFQQVQKYEKGTNRIGASRLQAIA 61

Query: 64  EVLESPISFFFD------VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           ++L    SFFF        S     DI  E   +  F+++ +G+ LNR F++I D  +R+
Sbjct: 62  DILGVHPSFFFQQEEGSTQSGRPSGDI-HESQEISSFVASKEGIALNRAFLKIADPVLRK 120

Query: 118 KIIELVRSIVSSEKKYRT 135
           KII LV ++  S +  +T
Sbjct: 121 KIISLVAAMAQSPESDQT 138


>gi|295687480|ref|YP_003591173.1| XRE family transcriptional regulator [Caulobacter segnis ATCC
           21756]
 gi|295429383|gb|ADG08555.1| transcriptional regulator, XRE family [Caulobacter segnis ATCC
           21756]
          Length = 140

 Score =  130 bits (327), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 64/132 (48%), Positives = 93/132 (70%), Gaps = 1/132 (0%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           + G ++ PNPVD++VG RIR+RR ILG+SQE+L E LG+TFQQ+QKYE+G NRV AS+L 
Sbjct: 4   LSGAERHPNPVDLHVGARIRMRRKILGVSQERLAEDLGLTFQQIQKYERGANRVSASKLY 63

Query: 61  HISEVLESPISFFFDVSPTVCSDISSE-ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
            I++ L++ + +FF+   T    +S   E  V DF+ T +GL+L   F +I   KVR++I
Sbjct: 64  EIAKSLQASVGYFFEGLETTVDGVSEPGEPFVHDFLMTSEGLELAAQFPRITRSKVRRRI 123

Query: 120 IELVRSIVSSEK 131
           +ELVRS+   E+
Sbjct: 124 LELVRSMAEEEE 135


>gi|16264444|ref|NP_437236.1| putative transcriptional regulator protein [Sinorhizobium meliloti
           1021]
 gi|307306783|ref|ZP_07586524.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
 gi|307320821|ref|ZP_07600231.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|15140581|emb|CAC49096.1| putative transcriptional regulator protein [Sinorhizobium meliloti
           1021]
 gi|306893531|gb|EFN24307.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306902074|gb|EFN32672.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
          Length = 152

 Score =  130 bits (327), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 64/132 (48%), Positives = 91/132 (68%), Gaps = 7/132 (5%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           NKK PNP+D  VG R+R+RR+++G+SQEKL + LGITFQQVQKYEKG NR+GASRLQ I+
Sbjct: 2   NKKDPNPIDAFVGSRVRMRRLMIGLSQEKLADGLGITFQQVQKYEKGTNRIGASRLQAIA 61

Query: 64  EVLESPISFFFD------VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           ++L    SFFF        S    +D+  E   +  F+++ +G+ LNR F++I D  +R+
Sbjct: 62  DILGVHPSFFFQQDEGSVHSGKPAADV-HESQEISSFVASKEGIALNRAFLKITDPVLRK 120

Query: 118 KIIELVRSIVSS 129
           KII LV ++  +
Sbjct: 121 KIISLVAAMAQT 132


>gi|167643999|ref|YP_001681662.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167346429|gb|ABZ69164.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 144

 Score =  129 bits (325), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/130 (50%), Positives = 92/130 (70%), Gaps = 4/130 (3%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           V  ++ PNPVD++VG RIR+RR ILG+SQE+L + LG+TFQQVQKYE+G NRV AS+L  
Sbjct: 5   VDQERHPNPVDLHVGARIRMRRKILGVSQERLADDLGLTFQQVQKYERGANRVSASKLYE 64

Query: 62  ISEVLESPISFFFD--VSPTVCSDIS--SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           I++ L+S +S+FF+    PT     S    E  V DF+ TP+GL+L   F +I   +VR+
Sbjct: 65  IAKSLQSSVSYFFEGLADPTDLEGFSENGSEQFVHDFLMTPEGLELAALFPRIGKSRVRR 124

Query: 118 KIIELVRSIV 127
           +I++LVRS+ 
Sbjct: 125 RILDLVRSMA 134


>gi|167644800|ref|YP_001682463.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167347230|gb|ABZ69965.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 145

 Score =  127 bits (320), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 60/137 (43%), Positives = 93/137 (67%), Gaps = 12/137 (8%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVD++VG R+R+RR +LG+SQE+L + LG+TFQQVQKYE+G NRV AS+L  I++ L+
Sbjct: 10  PNPVDLHVGGRVRMRRKLLGVSQEQLADSLGLTFQQVQKYERGANRVSASKLYEIAKTLQ 69

Query: 68  SPISFFFDVSPTVCSDISSEENN---------VMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            P+SFFFD    +   +   EN+         V +F++TP+GL+L   F +I   +VR++
Sbjct: 70  VPVSFFFD---GLADPMDGSENDEIGQQAERIVQEFLTTPEGLELAEVFPKIGRGRVRRQ 126

Query: 119 IIELVRSIVSSEKKYRT 135
           +++LVR++     +  T
Sbjct: 127 VLDLVRAMAEEAARTET 143


>gi|167621874|ref|YP_001676659.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167351615|gb|ABZ74345.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 140

 Score =  127 bits (319), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 60/129 (46%), Positives = 88/129 (68%), Gaps = 3/129 (2%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +    +PNPVD++VG R+R+RR +LGMSQE L   LGI+FQQ+QKYE+G NRV AS+L  
Sbjct: 5   IAPDHLPNPVDLHVGARVRVRRKVLGMSQEALANALGISFQQIQKYERGTNRVSASKLYD 64

Query: 62  ISEVLESPISFFFDVSPTVC-SDISSE--ENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           I+  L +P+S+FF+     C  D SS+  E +V  F++T +GL+L   F +I    VR+ 
Sbjct: 65  IARTLGAPVSYFFEGLADPCDPDASSDPTEASVQQFLATSEGLELAAIFPKIQRAAVRRH 124

Query: 119 IIELVRSIV 127
           +++LVRS+ 
Sbjct: 125 VLQLVRSMA 133


>gi|220920276|ref|YP_002495577.1| XRE family transcriptional regulator [Methylobacterium nodulans ORS
           2060]
 gi|219944882|gb|ACL55274.1| transcriptional regulator, XRE family [Methylobacterium nodulans
           ORS 2060]
          Length = 137

 Score =  127 bits (319), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 59/127 (46%), Positives = 89/127 (70%), Gaps = 5/127 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK P+P+D +VG R+R+RR+++G+SQEKLG+ LG+TFQQ+QKYEKG NR+ ASRLQ I+E
Sbjct: 2   KKAPDPIDRHVGHRVRVRRLLVGVSQEKLGDALGVTFQQIQKYEKGANRISASRLQQIAE 61

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVM-----DFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +L  P+ FF++ +P   + +  E   V      D   T   LQL R F ++DD +VR+++
Sbjct: 62  MLGVPVGFFYEGAPRPENWLDEEHVEVARQPGSDLFWTSQDLQLVRAFQRVDDPQVRRRL 121

Query: 120 IELVRSI 126
           + LV ++
Sbjct: 122 VALVEAL 128


>gi|288959693|ref|YP_003450034.1| HTH-type transcriptional regulator [Azospirillum sp. B510]
 gi|288912001|dbj|BAI73490.1| HTH-type transcriptional regulator [Azospirillum sp. B510]
          Length = 164

 Score =  126 bits (317), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 61/130 (46%), Positives = 87/130 (66%), Gaps = 13/130 (10%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNP+D++VG R+RLRR +LGMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL+
Sbjct: 23  PNPIDVHVGSRVRLRRTLLGMSQEKLGEAIGLTFQQVQKYERGANRIGASRLFDLSRVLD 82

Query: 68  SPISFFFDVSPTVCSDI---------SSEENNVMDFISTP----DGLQLNRYFIQIDDVK 114
            P+SFFFD  P   +           +S+E +   +   P    + L+L R + +I+D  
Sbjct: 83  VPVSFFFDDMPAEAAAARVEDDDEAGASDERSANTYEPDPMAKRETLELVRAYYKINDPS 142

Query: 115 VRQKIIELVR 124
           VR+++ EL +
Sbjct: 143 VRKRLFELTK 152


>gi|295688227|ref|YP_003591920.1| XRE family transcriptional regulator [Caulobacter segnis ATCC
           21756]
 gi|295430130|gb|ADG09302.1| transcriptional regulator, XRE family [Caulobacter segnis ATCC
           21756]
          Length = 144

 Score =  126 bits (317), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 58/131 (44%), Positives = 94/131 (71%), Gaps = 6/131 (4%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVD++VG R+R+RR ++G+SQE+L + LG+TFQQVQKYE+G NRV AS+L  I++ L+
Sbjct: 10  PNPVDLHVGGRVRMRRKLMGVSQEQLADSLGLTFQQVQKYERGANRVSASKLYDIAKTLQ 69

Query: 68  SPISFFFD--VSPTVCSDISS----EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
            P+SFFF+    P   ++I +     E  V +F++TP+GL+L   F +I   +VR+++++
Sbjct: 70  VPVSFFFEGLADPMSGAEIDATAQHAEKVVQEFLTTPEGLELAEVFPRIGRGRVRRQVLD 129

Query: 122 LVRSIVSSEKK 132
           LVR++    ++
Sbjct: 130 LVRAMADEAQR 140


>gi|144900588|emb|CAM77452.1| transcriptional regulator [Magnetospirillum gryphiswaldense MSR-1]
          Length = 160

 Score =  125 bits (315), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 65/135 (48%), Positives = 86/135 (63%), Gaps = 15/135 (11%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNP+D++VG R+RLRR +LGMSQEKLGE LG+TFQQVQKYE+G NRVGASRL  +S VL+
Sbjct: 25  PNPIDVHVGNRVRLRRTLLGMSQEKLGEALGLTFQQVQKYERGANRVGASRLYDLSRVLD 84

Query: 68  SPISFFFD--------VSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
            P+S+FFD         SP        D    E  ++    T   L+L R + +I D  V
Sbjct: 85  VPVSYFFDDMNDETMAASPRHMVRATEDPPESEEAILAQRET---LELVRAYTRIKDPNV 141

Query: 116 RQKIIELVRSIVSSE 130
           R+++ EL R++   E
Sbjct: 142 RRQVQELARTLAVPE 156


>gi|227819239|ref|YP_002823210.1| XRE family transcriptional regulator [Sinorhizobium fredii NGR234]
 gi|227338238|gb|ACP22457.1| transcriptional regulator, XRE family [Sinorhizobium fredii NGR234]
          Length = 149

 Score =  125 bits (315), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 58/131 (44%), Positives = 93/131 (70%), Gaps = 2/131 (1%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           ++ P+P+D +VG++IR++R++L MSQ +L + LG+T+QQVQKYE G  RV ASRLQ I+ 
Sbjct: 8   RRRPDPIDSHVGQKIRMQRLLLHMSQTELAKALGVTYQQVQKYENGRTRVSASRLQAIAN 67

Query: 65  VLESPISFFFDVSPTVCSDIS--SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           VLE P++FFF+ S +  SD +  +   + ++F+S+P GL LNR F +I DV+VR+  + L
Sbjct: 68  VLEVPLTFFFESSASDHSDDAGLAASRSTVEFVSSPMGLALNRAFSRIADVRVRRSFLGL 127

Query: 123 VRSIVSSEKKY 133
           V+ +   +  +
Sbjct: 128 VQRLAEDDGTH 138


>gi|16127394|ref|NP_421958.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
           CB15]
 gi|221236203|ref|YP_002518640.1| transcriptional regulator [Caulobacter crescentus NA1000]
 gi|13424834|gb|AAK25126.1| transcriptional regulator, Cro/CI family [Caulobacter crescentus
           CB15]
 gi|220965376|gb|ACL96732.1| hypothetical transcriptional regulatory protein [Caulobacter
           crescentus NA1000]
          Length = 156

 Score =  125 bits (315), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 59/126 (46%), Positives = 90/126 (71%), Gaps = 6/126 (4%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVD++VG R+R+RR +LG+SQE+L + LG+TFQQVQKYE+G NRV AS+L  I++ L+
Sbjct: 23  PNPVDLHVGGRVRMRRKLLGVSQEQLADSLGLTFQQVQKYERGANRVSASKLYEIAKTLQ 82

Query: 68  SPISFFFD--VSPTVCSDISS----EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
            P+SFFFD    P   ++        E  V +F++TP+GL+L   F +I   +VR+++++
Sbjct: 83  VPVSFFFDGLADPMNGAEADDAGLHAEKVVQEFLTTPEGLELAEVFPRIARGRVRRQVLD 142

Query: 122 LVRSIV 127
           LVR++ 
Sbjct: 143 LVRAMA 148


>gi|296532209|ref|ZP_06894960.1| cro/CI family transcriptional regulator [Roseomonas cervicalis ATCC
           49957]
 gi|296267465|gb|EFH13339.1| cro/CI family transcriptional regulator [Roseomonas cervicalis ATCC
           49957]
          Length = 149

 Score =  125 bits (313), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 60/131 (45%), Positives = 86/131 (65%), Gaps = 11/131 (8%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+P+D++VG R+RLRR +LGMSQEKLGE LG+TFQQVQKYE+GVNR+GASRL  ++ VL+
Sbjct: 16  PSPIDVHVGSRVRLRRTLLGMSQEKLGEALGLTFQQVQKYERGVNRIGASRLFDLARVLD 75

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDG-----------LQLNRYFIQIDDVKVR 116
            PI FFFD  P      ++    +  F    +G           L+L R + +I +  VR
Sbjct: 76  VPIGFFFDDMPDAMGGQTALRARIGGFAEQQEGFEDDTLHKRETLELVRAYYRITEPSVR 135

Query: 117 QKIIELVRSIV 127
           +++ EL++S+ 
Sbjct: 136 KRVFELIKSLA 146


>gi|167644301|ref|YP_001681964.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167346731|gb|ABZ69466.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 171

 Score =  124 bits (312), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 61/135 (45%), Positives = 95/135 (70%), Gaps = 5/135 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           + PN VD++VG R+R+RR +LG+SQE L + LG+TFQQVQKYE+G NRV AS+L  I++ 
Sbjct: 36  RTPNVVDLHVGGRVRMRRKMLGISQEHLADALGLTFQQVQKYERGANRVSASKLYEIAKT 95

Query: 66  LESPISFFFD--VSP-TVCSDISSEENN--VMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           L+ P+S+FF+    P T   D + E  N  + DF++TP+GL+L   F +I   +VR++I+
Sbjct: 96  LQVPVSYFFEGLADPVTDEGDDAGEAANRVITDFLNTPEGLELAAIFPKIGKGRVRRQIL 155

Query: 121 ELVRSIVSSEKKYRT 135
           +LVR++   E + ++
Sbjct: 156 DLVRAMADDEGQQKS 170


>gi|83313567|ref|YP_423831.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82948408|dbj|BAE53272.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 164

 Score =  124 bits (311), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 62/135 (45%), Positives = 90/135 (66%), Gaps = 13/135 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +PNPVDI+VG R+RLRR ++GMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL
Sbjct: 24  LPNPVDIHVGARVRLRRTLMGMSQEKLGESIGLTFQQVQKYERGANRIGASRLFDLSRVL 83

Query: 67  ESPISFFF--------DVSPTVCSDISSEENN-----VMDFISTPDGLQLNRYFIQIDDV 113
           + P+SFFF        D SP   +  +S  N        D ++  + L+L R +  I D 
Sbjct: 84  DVPVSFFFDDMAETVQDQSPVAVARGTSGLNEEPASFEADPMTKRETLELVRAYYSITDP 143

Query: 114 KVRQKIIELVRSIVS 128
           +VR+++ +L +++ +
Sbjct: 144 QVRRRVYDLAKALAA 158


>gi|118590494|ref|ZP_01547896.1| probable transcriptional regulator protein [Stappia aggregata IAM
           12614]
 gi|118436957|gb|EAV43596.1| probable transcriptional regulator protein [Stappia aggregata IAM
           12614]
          Length = 108

 Score =  124 bits (311), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 58/108 (53%), Positives = 82/108 (75%), Gaps = 5/108 (4%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI--- 84
           MSQEKLGE LGITFQQ+QKYEKG NR+GASRLQHI+ VL+ P+SFFF+ +P    +    
Sbjct: 1   MSQEKLGESLGITFQQIQKYEKGTNRIGASRLQHIATVLKVPVSFFFEDAPGTPDEAEGF 60

Query: 85  --SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
             +   + V+DF+S+ +GL LN+ F++I+D KVR++I++LVRS+   +
Sbjct: 61  GETQPTSYVVDFLSSSEGLSLNKAFVRIEDPKVRRRIVDLVRSLAGDD 108


>gi|170741362|ref|YP_001770017.1| XRE family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168195636|gb|ACA17583.1| transcriptional regulator, XRE family [Methylobacterium sp. 4-46]
          Length = 142

 Score =  123 bits (309), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 56/127 (44%), Positives = 88/127 (69%), Gaps = 5/127 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK P+P+D +VG R+R+RR+++G+SQEKLG+ LG+TFQQ+QKYEKG NR+ ASRLQ I+E
Sbjct: 6   KKAPDPIDRHVGHRVRVRRLLMGVSQEKLGDALGVTFQQIQKYEKGANRISASRLQQIAE 65

Query: 65  VLESPISFFFDVSPTVCSDISSEENNV-----MDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +L  P+ FF++ +P   +    E  +      +D   T   LQL R F +++D  +R+++
Sbjct: 66  MLGVPVGFFYEGAPRSENGHDEERGDAARAPSVDLFWTSQDLQLVRAFQRVNDPLLRRRV 125

Query: 120 IELVRSI 126
           + LV ++
Sbjct: 126 VSLVEAM 132


>gi|148259042|ref|YP_001233169.1| XRE family transcriptional regulator [Acidiphilium cryptum JF-5]
 gi|326402169|ref|YP_004282250.1| Xre family transcriptional regulator [Acidiphilium multivorum
           AIU301]
 gi|146400723|gb|ABQ29250.1| transcriptional regulator, XRE family [Acidiphilium cryptum JF-5]
 gi|325049030|dbj|BAJ79368.1| Xre family transcriptional regulator [Acidiphilium multivorum
           AIU301]
          Length = 161

 Score =  122 bits (306), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 64/139 (46%), Positives = 93/139 (66%), Gaps = 16/139 (11%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+P+D++VG RIRLRR +LGMSQEKLG+ LG+TFQQVQKYE+GVNRVGASRL  IS VL+
Sbjct: 18  PSPIDVHVGSRIRLRRTLLGMSQEKLGDALGLTFQQVQKYERGVNRVGASRLFDISRVLD 77

Query: 68  SPISFFFDVSPTVCSDIS-----------SEEN-----NVMDFISTPDGLQLNRYFIQID 111
            PISFFFD  P   +++            SE        + D ++  + L+L R + +I 
Sbjct: 78  VPISFFFDDMPEGMNEMPMSGPRGRSNGLSEAQEPFGVGLDDHMTKRETLELVRAYYRIT 137

Query: 112 DVKVRQKIIELVRSIVSSE 130
           +  VR+++ +L++S+  ++
Sbjct: 138 EPTVRKRMFDLIKSLAPAD 156


>gi|83311180|ref|YP_421444.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82946021|dbj|BAE50885.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 175

 Score =  122 bits (306), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 60/129 (46%), Positives = 84/129 (65%), Gaps = 11/129 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           NP+D++VG RIRLRR +LGMSQEKLGECLG+TFQQVQKYE+G NRVGASRL  +S VL+ 
Sbjct: 43  NPIDVHVGARIRLRRTLLGMSQEKLGECLGLTFQQVQKYERGANRVGASRLFDLSRVLDV 102

Query: 69  PISFFFD---VSPTVCSDISSEENNVMDFISTPDG--------LQLNRYFIQIDDVKVRQ 117
            + +FF+    +    S +     NV   +  PD         L+L R +  I+D KVR 
Sbjct: 103 RVGYFFEEISATAQAASPVEVIRGNVTKSVDVPDDDPMTKRETLELVRAYFSINDPKVRD 162

Query: 118 KIIELVRSI 126
           +++ + +++
Sbjct: 163 QVLSMAKAL 171


>gi|10954734|ref|NP_066669.1| hypothetical protein pRi1724_p089 [Agrobacterium rhizogenes]
 gi|8918734|dbj|BAA97799.1| riorf88 [Agrobacterium rhizogenes]
 gi|10567398|dbj|BAB16207.1| riorf88 [Agrobacterium rhizogenes]
          Length = 169

 Score =  122 bits (306), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 61/130 (46%), Positives = 87/130 (66%), Gaps = 6/130 (4%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+P+D+ VG RIR RR +LGMSQ KL E LG+TFQQVQKYEKG NRVGASRL +++ V
Sbjct: 33  KTPSPIDVEVGARIRTRRRVLGMSQAKLAEALGVTFQQVQKYEKGTNRVGASRLLNVANV 92

Query: 66  LESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           L  P+S FF+ S T          S+ E  +  F+ + +G  LN  F +I +  VR++++
Sbjct: 93  LGVPVSSFFN-SDTRDGQAERPRGSTAETELGAFVQSDEGRDLNGAFARIAEPAVRRQVV 151

Query: 121 ELVRSIVSSE 130
            LV+++ ++E
Sbjct: 152 SLVKAMAATE 161


>gi|163797135|ref|ZP_02191090.1| Predicted transcriptional regulator [alpha proteobacterium BAL199]
 gi|159177651|gb|EDP62204.1| Predicted transcriptional regulator [alpha proteobacterium BAL199]
          Length = 150

 Score =  121 bits (304), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 61/125 (48%), Positives = 83/125 (66%), Gaps = 3/125 (2%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVD++VG RIRLRR +LGMSQE+LG+ LG+TFQQVQKYE+G NRVGASRL  ++  L+
Sbjct: 20  PNPVDVHVGVRIRLRRTLLGMSQERLGDALGLTFQQVQKYERGANRVGASRLFDLARALQ 79

Query: 68  SPISFFFD--VSPTVCSDI-SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            P+ FFFD     TV   +  +      D +   + ++L R F +I D   R+++ EL R
Sbjct: 80  VPVGFFFDDLADGTVEGKVPPASATPADDPMQQRETIELVRAFYRIPDPTARRRLYELTR 139

Query: 125 SIVSS 129
           SI  +
Sbjct: 140 SIADA 144


>gi|328545923|ref|YP_004306032.1| transcriptional regulator protein [polymorphum gilvum SL003B-26A1]
 gi|326415663|gb|ADZ72726.1| Probable transcriptional regulator protein [Polymorphum gilvum
           SL003B-26A1]
          Length = 109

 Score =  121 bits (304), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 55/108 (50%), Positives = 82/108 (75%), Gaps = 5/108 (4%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI--- 84
           MSQEKLGE LGITFQQ+QKYEKG NR+GASRLQHI+ +L+ P++FFF+ +P    +    
Sbjct: 1   MSQEKLGESLGITFQQIQKYEKGTNRIGASRLQHIATILKVPVAFFFEDAPGSPEEAEGF 60

Query: 85  --SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
             +   + V+DF+S+ +GL LN+ F++I+D KVR++I++LVR++   +
Sbjct: 61  GEAQPTSYVVDFLSSSEGLSLNKAFVRIEDPKVRRRIVDLVRALAGDD 108


>gi|295688460|ref|YP_003592153.1| XRE family transcriptional regulator [Caulobacter segnis ATCC
           21756]
 gi|295430363|gb|ADG09535.1| transcriptional regulator, XRE family [Caulobacter segnis ATCC
           21756]
          Length = 132

 Score =  121 bits (303), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 54/131 (41%), Positives = 85/131 (64%), Gaps = 9/131 (6%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+PVD++VG+R+R+RR  LG SQ+ L + LG+TFQQVQKYE G NR+ AS+L   +  
Sbjct: 5   KTPDPVDVHVGRRLRMRRKDLGYSQQALADALGLTFQQVQKYEGGANRISASKLHATAMF 64

Query: 66  LESPISFFF------DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           L++PI FFF      + + T  +D++   N + +F STP G +L R ++ I+   +R+ +
Sbjct: 65  LKTPIGFFFEGLDDPEGADTTAADLA---NEMAEFWSTPGGPELARAYVAIESTGMRRHL 121

Query: 120 IELVRSIVSSE 130
            +L ++I   E
Sbjct: 122 ADLAKAIADDE 132


>gi|258541402|ref|YP_003186835.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-01]
 gi|256632480|dbj|BAH98455.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-01]
 gi|256635537|dbj|BAI01506.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-03]
 gi|256638592|dbj|BAI04554.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-07]
 gi|256641646|dbj|BAI07601.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-22]
 gi|256644701|dbj|BAI10649.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-26]
 gi|256647756|dbj|BAI13697.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-32]
 gi|256650809|dbj|BAI16743.1| transcriptional regulator [Acetobacter pasteurianus IFO
           3283-01-42C]
 gi|256653800|dbj|BAI19727.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-12]
          Length = 164

 Score =  120 bits (301), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 67/148 (45%), Positives = 90/148 (60%), Gaps = 22/148 (14%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+      + +D +VGKRIRLRR +LG+SQEKLGE LGITFQQ+QKYE+G NRVGASRL 
Sbjct: 13  MIQPHAAASAIDAHVGKRIRLRRTLLGLSQEKLGEALGITFQQIQKYERGANRVGASRLY 72

Query: 61  HISEVLESPISFFF-DVSPT------------------VCSDISSEENNVMDFIS---TP 98
           HI+ VL+ PISFFF D+ P                     SD ++      D  S   T 
Sbjct: 73  HIACVLDVPISFFFDDMHPVGAVSNKHAQFSETRKSFGTTSDKNTPAAPTTDTKSVFKTQ 132

Query: 99  DGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           + L+L R +  I D ++R+KI+EL+ ++
Sbjct: 133 ETLELVRAYYSIPDTQMRRKILELMLTM 160


>gi|83595104|ref|YP_428856.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
           11170]
 gi|83578018|gb|ABC24569.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
           11170]
          Length = 210

 Score =  120 bits (300), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 58/133 (43%), Positives = 87/133 (65%), Gaps = 19/133 (14%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVD++VG R+RLRR +LG+SQEKLGE +G+TFQQVQKYE+G NR+GASRL  +  VL+
Sbjct: 67  PNPVDVHVGARVRLRRTLLGLSQEKLGEAIGLTFQQVQKYERGANRIGASRLWDLGRVLD 126

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTP--------------DGLQLNRYFIQIDDV 113
            P+++FFD       D S++ ++ M+    P              + L+L R + +I D 
Sbjct: 127 VPMAYFFD-----EMDDSTQRHSPMNIAQHPGEPPVQGTDTMTRRETLELVRAYYRIGDP 181

Query: 114 KVRQKIIELVRSI 126
            VR+++ EL +++
Sbjct: 182 GVRRRVFELTKTL 194


>gi|332716362|ref|YP_004443828.1| transcriptional regulator [Agrobacterium sp. H13-3]
 gi|325063047|gb|ADY66737.1| transcriptional regulator [Agrobacterium sp. H13-3]
          Length = 146

 Score =  120 bits (300), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 60/128 (46%), Positives = 84/128 (65%), Gaps = 3/128 (2%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K+P+P+D++VG +IR+RR  LGMSQ  L   LGITFQQVQKYEKG NRVGASRLQ I+ V
Sbjct: 5   KLPSPIDVHVGTQIRMRRKSLGMSQSALAGRLGITFQQVQKYEKGANRVGASRLQAIASV 64

Query: 66  LESPI-SFFFDVSPTV--CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           L   + S F + +P V   +      N +  F+++ +G  LN+ F +I    VR+ I+ L
Sbjct: 65  LGVDVSSLFANATPDVGNANPALGTINAMQSFVASNEGFSLNQAFARIKSATVRKSIVAL 124

Query: 123 VRSIVSSE 130
           V S+ ++E
Sbjct: 125 VTSLAATE 132


>gi|315497219|ref|YP_004086023.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
 gi|315415231|gb|ADU11872.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
          Length = 139

 Score =  119 bits (299), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 58/124 (46%), Positives = 84/124 (67%), Gaps = 4/124 (3%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVD++VG R+R+RR  LGMSQE L E + +TFQQVQKYE+G NR+ AS+L  IS  L+
Sbjct: 11  PNPVDLHVGARVRMRRKFLGMSQEALAETISLTFQQVQKYERGSNRISASKLHEISRALK 70

Query: 68  SPISFFFD---VSPTVCS-DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           +P+++FF+    S  V     S  E  V  F+ T +G++L   F +I + K R++I+ELV
Sbjct: 71  APVAYFFEGYGESEAVEGFSESQSEQFVHGFLMTTEGIELAEAFPRIKNAKHRRRILELV 130

Query: 124 RSIV 127
           R++ 
Sbjct: 131 RALA 134


>gi|83311279|ref|YP_421543.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82946120|dbj|BAE50984.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 201

 Score =  119 bits (299), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 62/129 (48%), Positives = 84/129 (65%), Gaps = 11/129 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           NP+D++VG RIRLRR +LGMSQEKLGECLG+TFQQVQKYE+G NRVGASRL  +S VL+ 
Sbjct: 69  NPIDVHVGARIRLRRTLLGMSQEKLGECLGLTFQQVQKYERGANRVGASRLFDLSRVLDV 128

Query: 69  PISFFF-DVSPT--VCSDISSEENNVMDFISTPDG--------LQLNRYFIQIDDVKVRQ 117
            + +FF ++S T    S +     NV   I   D         L+L R +  I D KVR 
Sbjct: 129 RVGYFFEEISSTAQAASPVEVIRGNVTKAIDVADDNPMTKRETLELVRAYFSISDPKVRD 188

Query: 118 KIIELVRSI 126
           +++ + +++
Sbjct: 189 QVLSMAKAL 197


>gi|15891368|ref|NP_357040.1| transcriptional regulator [Agrobacterium tumefaciens str. C58]
 gi|15159757|gb|AAK89825.1| transcriptional regulator, HTH family [Agrobacterium tumefaciens
           str. C58]
          Length = 145

 Score =  119 bits (298), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 60/128 (46%), Positives = 84/128 (65%), Gaps = 3/128 (2%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K+P+P+D++VG +IR+RR  LGMSQ  L   LGITFQQVQKYEKG NRVGASRLQ I+ +
Sbjct: 4   KLPSPIDVHVGTQIRMRRKSLGMSQSALAGRLGITFQQVQKYEKGANRVGASRLQAIASI 63

Query: 66  LESPI-SFFFDVSP--TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           L   + S F + +P     +      N +  F+++ +G  LN+ F +I  V VR+ I+ L
Sbjct: 64  LGVEVSSLFANATPDGGAANPALGTINAMQTFVASNEGFSLNQAFSRIKSVAVRRSIVAL 123

Query: 123 VRSIVSSE 130
           V S+ +SE
Sbjct: 124 VTSLAASE 131


>gi|329114990|ref|ZP_08243745.1| Putative HTH-type transcriptional regulator [Acetobacter pomorum
           DM001]
 gi|326695433|gb|EGE47119.1| Putative HTH-type transcriptional regulator [Acetobacter pomorum
           DM001]
          Length = 164

 Score =  119 bits (297), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 64/148 (43%), Positives = 88/148 (59%), Gaps = 22/148 (14%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+      + +D +VGKRIRLRR +LG+SQEKLGE LGITFQQ+QKYE+G NRVGASRL 
Sbjct: 13  MIQPHAAASAIDAHVGKRIRLRRTLLGLSQEKLGEALGITFQQIQKYERGANRVGASRLY 72

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTP-------------------- 98
           HI+  L+ PISFFFD   S  V S+  +  +        P                    
Sbjct: 73  HIACALDVPISFFFDDMHSAEVVSNKQAHFSETRKSFGAPSDKNVSVAPTSDTKNIFKKQ 132

Query: 99  DGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           + L+L R +  I D ++R+KI+EL++++
Sbjct: 133 ETLELVRVYYSIPDAQMRRKILELMQTM 160


>gi|16520003|ref|NP_444123.1| transcriptional regulator (Cro/CI family) [Sinorhizobium fredii
           NGR234]
 gi|2496761|sp|P55681|Y4WC_RHISN RecName: Full=Uncharacterized HTH-type transcriptional regulator
           y4wC
 gi|2182692|gb|AAB91910.1| transcriptional regulator (Cro/CI family) [Sinorhizobium fredii
           NGR234]
          Length = 143

 Score =  117 bits (293), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 62/137 (45%), Positives = 91/137 (66%), Gaps = 13/137 (9%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           ++ PN VD +VG+RIR RR    MSQ  LGE +G+TFQQVQKYEKGVNRVGA RLQ IS+
Sbjct: 10  RRKPNAVDAHVGQRIRQRREWQNMSQTTLGEAIGVTFQQVQKYEKGVNRVGAGRLQQISK 69

Query: 65  VLESPISFFFDVSPTVCSDISSEENN----------VMDFISTPDGLQLNRYFIQIDDVK 114
            L+   S+FF+      + I SEE +          V++F+ + +G++L R F ++ D +
Sbjct: 70  ALKVEPSYFFE---DTLNKIRSEERSASNQINIPPEVVEFVVSKEGIELIRAFSRVGDYR 126

Query: 115 VRQKIIELVRSIVSSEK 131
           VR++I+ LV+S+ + E+
Sbjct: 127 VRRRIVMLVKSLGAHER 143


>gi|218678050|ref|ZP_03525947.1| transcriptional regulator, XRE family protein [Rhizobium etli CIAT
           894]
          Length = 125

 Score =  117 bits (293), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 59/111 (53%), Positives = 77/111 (69%), Gaps = 5/111 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K PN +D  VG RIR RR +LGMSQE+L E +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2   NVKTPNAIDGYVGARIRTRRQLLGMSQERLAEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64  EVLESPISFFF---DVSPTVCS--DISSEENNVMDFISTPDGLQLNRYFIQ 109
           EVL +  SFFF   +  P      D+ +  + V +F+ T +GL LNR F++
Sbjct: 62  EVLHTSPSFFFEQENSEPLTLQGLDLPANTDPVAEFLRTKEGLVLNRAFLR 112


>gi|83311372|ref|YP_421636.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82946213|dbj|BAE51077.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 155

 Score =  117 bits (293), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 64/128 (50%), Positives = 85/128 (66%), Gaps = 13/128 (10%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVD++VG R+RLRR +LGMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL+
Sbjct: 17  PNPVDVHVGGRMRLRRTLLGMSQEKLGEAIGLTFQQVQKYERGANRIGASRLFDLSRVLD 76

Query: 68  SPISFFFD--------VSPTVCSDIS---SEENNVM--DFISTPDGLQLNRYFIQIDDVK 114
            P+S+FFD         SP      S   SEE      D ++  + L+L R +  I D +
Sbjct: 77  VPVSYFFDDMADGVQAQSPVNIIKGSVGLSEEPATFEADPMTKRETLELVRAYYNITDPQ 136

Query: 115 VRQKIIEL 122
           VR+++ EL
Sbjct: 137 VRKRVYEL 144


>gi|218512667|ref|ZP_03509507.1| probable transcriptional regulator protein [Rhizobium etli 8C-3]
          Length = 108

 Score =  117 bits (293), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 55/102 (53%), Positives = 76/102 (74%), Gaps = 6/102 (5%)

Query: 33  LGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI------SS 86
           L + LGITFQQ+QKYEKG NRVGASRLQ+IS +L  P+SFFF+ +P   S        +S
Sbjct: 2   LAKALGITFQQIQKYEKGTNRVGASRLQNISSILNVPVSFFFEDAPGEHSGAIGGMAEAS 61

Query: 87  EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
             N V+DF+S+ +GLQLNR F++I D KVR+K++ELV+++ +
Sbjct: 62  SSNYVVDFLSSSEGLQLNRAFVKISDPKVRRKVVELVKALAA 103


>gi|16126908|ref|NP_421472.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
           CB15]
 gi|221235691|ref|YP_002518128.1| transcriptional regulator [Caulobacter crescentus NA1000]
 gi|13424258|gb|AAK24640.1| transcriptional regulator, Cro/CI family [Caulobacter crescentus
           CB15]
 gi|220964864|gb|ACL96220.1| transcriptional regulator [Caulobacter crescentus NA1000]
          Length = 153

 Score =  117 bits (292), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 56/128 (43%), Positives = 82/128 (64%), Gaps = 3/128 (2%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+PVDI+VG+R+R+RR  LG SQ+ L + LG+TFQQVQKYE G NR+ AS+L   +  
Sbjct: 26  KSPDPVDIHVGRRLRMRRKDLGYSQQALADALGLTFQQVQKYEGGSNRISASKLHGAAMF 85

Query: 66  LESPISFFFDV--SPTVCSDISSE-ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           L++P++FFF+    P      ++E  N +  F S P G  L R F  I+ V +R+ +++L
Sbjct: 86  LKTPVAFFFEGLEDPEGVDGTAAELANEMASFWSLPGGPDLARAFSAIESVSMRKHLLDL 145

Query: 123 VRSIVSSE 130
            R+I   E
Sbjct: 146 ARAIAGQE 153


>gi|162147196|ref|YP_001601657.1| transcriptional regulator [Gluconacetobacter diazotrophicus PAl 5]
 gi|161785773|emb|CAP55344.1| putative transcriptional Regulator [Gluconacetobacter
           diazotrophicus PAl 5]
          Length = 174

 Score =  116 bits (291), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 59/144 (40%), Positives = 87/144 (60%), Gaps = 21/144 (14%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD++VG RIRLRR ++G+SQE+LG+ LG+TFQQVQKYE+G NRV ASRL  +SEVL+
Sbjct: 31  PSPVDVHVGGRIRLRRTLMGLSQERLGDALGLTFQQVQKYERGTNRVSASRLYELSEVLD 90

Query: 68  SPISFFFD------VSPTVCSDISSEENNVMDFISTPDG---------------LQLNRY 106
            P+SFFFD            + I         F   P+G               ++L R 
Sbjct: 91  VPVSFFFDGLDSGQAGSKATNAIPGFAQAQEAFGGAPEGAAPASEIALFSRREMIELVRI 150

Query: 107 FIQIDDVKVRQKIIELVRSIVSSE 130
           + +I+D  +R+++++L+R +   E
Sbjct: 151 YYRIEDPAMRRRVLDLIRMMAPPE 174


>gi|209544249|ref|YP_002276478.1| XRE family transcriptional regulator [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|209531926|gb|ACI51863.1| transcriptional regulator, XRE family [Gluconacetobacter
           diazotrophicus PAl 5]
          Length = 174

 Score =  116 bits (291), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 59/144 (40%), Positives = 87/144 (60%), Gaps = 21/144 (14%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD++VG RIRLRR ++G+SQE+LG+ LG+TFQQVQKYE+G NRV ASRL  +SEVL+
Sbjct: 31  PSPVDVHVGGRIRLRRTLMGLSQERLGDALGLTFQQVQKYERGTNRVSASRLYELSEVLD 90

Query: 68  SPISFFFD------VSPTVCSDISSEENNVMDFISTPDG---------------LQLNRY 106
            P+SFFFD            + I         F   P+G               ++L R 
Sbjct: 91  VPVSFFFDGLDSGQAGSKATNAIPGFAQAQEAFGGAPEGAAPASEIALFSRRETIELVRI 150

Query: 107 FIQIDDVKVRQKIIELVRSIVSSE 130
           + +I+D  +R+++++L+R +   E
Sbjct: 151 YYRIEDPAMRRRVLDLIRMMAPPE 174


>gi|144897602|emb|CAM74466.1| transcriptional regulator [Magnetospirillum gryphiswaldense MSR-1]
          Length = 149

 Score =  116 bits (291), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 54/125 (43%), Positives = 81/125 (64%), Gaps = 6/125 (4%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+P+D +VG R+RLRR ++G+SQ +L + +G+TFQQVQKYE G NR+ ASRL HISE L+
Sbjct: 20  PDPIDTHVGARLRLRRTLMGLSQTELAKSVGLTFQQVQKYESGANRISASRLYHISEALD 79

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTP----DGLQLNRYFIQIDDVKVRQKIIELV 123
            P+SFFFD            E+ V    S P    +GL++ R + +I D  +R+ + +L 
Sbjct: 80  VPVSFFFDDMSRSSGKYGLHEDAVA--FSAPESSREGLEMMRNYHRITDEAIRRSVYDLT 137

Query: 124 RSIVS 128
           +S+ +
Sbjct: 138 KSLAA 142


>gi|222102467|ref|YP_002539506.1| transcriptional regulator [Agrobacterium vitis S4]
 gi|221739068|gb|ACM39801.1| transcriptional regulator [Agrobacterium vitis S4]
          Length = 138

 Score =  115 bits (288), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 56/126 (44%), Positives = 83/126 (65%), Gaps = 4/126 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K  + +D++VG RIRL+R++ GMSQ+ L E +G+TFQQVQKYE G NR+G+SRLQ ++ +
Sbjct: 8   KASDVIDVHVGCRIRLQRVLKGMSQKALAEGVGVTFQQVQKYETGTNRIGSSRLQAVARI 67

Query: 66  LESPISFFFDVSPTVCSDISSEENN----VMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           L  P++FFF+  P   S     E      +  FI + +GL LN  F +I D  VR+K+I 
Sbjct: 68  LSVPVAFFFEDGPQSSSPSQLPEAGIGKEITRFIRSEEGLALNLAFTKIQDANVRRKVIG 127

Query: 122 LVRSIV 127
           LV+++ 
Sbjct: 128 LVKTLA 133


>gi|218459687|ref|ZP_03499778.1| probable transcriptional regulator protein [Rhizobium etli Kim 5]
          Length = 104

 Score =  114 bits (284), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 54/99 (54%), Positives = 74/99 (74%), Gaps = 6/99 (6%)

Query: 36  CLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI------SSEEN 89
            LGITFQQ+QKYEKG NRVGASRLQ+IS +L  P+SFFF+ +P   S        +S  N
Sbjct: 1   SLGITFQQIQKYEKGTNRVGASRLQNISSILNVPVSFFFEDAPGEHSGAIGGMAETSSSN 60

Query: 90  NVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            V+DF+S+ +GLQLNR F++I D KVR+K++ELV+++ +
Sbjct: 61  YVVDFLSSSEGLQLNRAFVKISDPKVRRKVVELVKALAA 99


>gi|46201366|ref|ZP_00055177.2| COG1396: Predicted transcriptional regulators [Magnetospirillum
           magnetotacticum MS-1]
          Length = 137

 Score =  114 bits (284), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 59/132 (44%), Positives = 90/132 (68%), Gaps = 13/132 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +DI+VG R+RLRR ++GMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL+ P+
Sbjct: 1   MDIHVGGRVRLRRTLMGMSQEKLGESIGLTFQQVQKYERGANRIGASRLFDLSRVLDVPV 60

Query: 71  SFFF-DVSPTV-----------CSDISSEENNV-MDFISTPDGLQLNRYFIQIDDVKVRQ 117
           SFFF D++ TV            S +S E  +   D ++  + L+L R +  I D +VR+
Sbjct: 61  SFFFDDMAETVQEQSPVAVSRGASGLSEEPASFEADPMTKRETLELVRAYYAIIDPQVRR 120

Query: 118 KIIELVRSIVSS 129
           ++ +L +++ ++
Sbjct: 121 RVYDLAKALAAT 132


>gi|197105969|ref|YP_002131346.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196479389|gb|ACG78917.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 143

 Score =  112 bits (281), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 54/120 (45%), Positives = 83/120 (69%), Gaps = 2/120 (1%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD +VG RIR+RR  +G+SQE+L E LGITFQQVQKYE+G NRV AS+L  I++ L+
Sbjct: 23  PHPVDRHVGLRIRMRRKEIGVSQERLAEALGITFQQVQKYERGANRVSASKLWEIAQALK 82

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
           + +++F++       ++     N  DF+ T +GL+L   F +I    +R+K++ELVR++ 
Sbjct: 83  TGVTYFYE--GLNDHELGDAGRNAQDFMLTGEGLELMSTFPRIAQPALRRKLVELVRAMA 140


>gi|83310845|ref|YP_421109.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82945686|dbj|BAE50550.1| Predicted transcriptional regulator [Magnetospirillum magneticum
          AMB-1]
          Length = 167

 Score =  112 bits (281), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 49/68 (72%), Positives = 60/68 (88%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          PNPVD++VG R+RLRR +LGMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL+
Sbjct: 29 PNPVDVHVGGRMRLRRTLLGMSQEKLGEAIGLTFQQVQKYERGANRIGASRLFDLSRVLD 88

Query: 68 SPISFFFD 75
           PIS+FFD
Sbjct: 89 VPISYFFD 96


>gi|218507453|ref|ZP_03505331.1| transcriptional regulator protein [Rhizobium etli Brasil 5]
          Length = 111

 Score =  112 bits (281), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 53/100 (53%), Positives = 70/100 (70%), Gaps = 2/100 (2%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           L  P+ FFF+   +    I  E + +  F+S+ +GL LN+
Sbjct: 64  LRVPVGFFFENGGS--GPIEGETSELNKFLSSKEGLALNK 101


>gi|23011267|ref|ZP_00051678.1| COG1396: Predicted transcriptional regulators [Magnetospirillum
           magnetotacticum MS-1]
          Length = 160

 Score =  111 bits (277), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 60/131 (45%), Positives = 86/131 (65%), Gaps = 13/131 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D++VG R+RLRR +LGMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL+ P+
Sbjct: 3   IDVHVGGRMRLRRTLLGMSQEKLGEAIGLTFQQVQKYERGANRIGASRLFDLSRVLDVPV 62

Query: 71  SFFFD--------VSPTVCSDIS---SEENNVM--DFISTPDGLQLNRYFIQIDDVKVRQ 117
           S+FFD         SP      S   SEE      D ++  + L+L R +  I D +VR+
Sbjct: 63  SYFFDDMADGVQAQSPVNIIKGSVGLSEEPATFEADPMTKRETLELVRAYYNITDPQVRK 122

Query: 118 KIIELVRSIVS 128
           ++ EL +++ +
Sbjct: 123 RVYELAKALAA 133


>gi|330991161|ref|ZP_08315114.1| Putative HTH-type transcriptional regulator [Gluconacetobacter sp.
           SXCC-1]
 gi|329761747|gb|EGG78238.1| Putative HTH-type transcriptional regulator [Gluconacetobacter sp.
           SXCC-1]
          Length = 158

 Score =  110 bits (276), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 60/146 (41%), Positives = 83/146 (56%), Gaps = 28/146 (19%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           NPVD++VG RIRLRR +LGMSQE+LG  LG+TFQQVQKYE+G NRVGASRL  ++ VL+ 
Sbjct: 10  NPVDVHVGNRIRLRRTLLGMSQERLGNALGLTFQQVQKYERGRNRVGASRLYDLACVLDV 69

Query: 69  PISFFFDVSP--------------------------TVCSDISSEENNVMD--FISTPDG 100
           P++FFF   P                              D+     N  D    S  + 
Sbjct: 70  PVAFFFAGLPDPVGSMEPCPSGPEGVSEPAVPLGGSMAVGDMPPPATNTGDLALFSRRET 129

Query: 101 LQLNRYFIQIDDVKVRQKIIELVRSI 126
           ++L R +  I+D   R+++++LVRS+
Sbjct: 130 IELVRAYYGIEDSSTRRRVLDLVRSM 155


>gi|296114432|ref|ZP_06833086.1| HTH-type transcriptional regulator [Gluconacetobacter hansenii
          ATCC 23769]
 gi|295979193|gb|EFG85917.1| HTH-type transcriptional regulator [Gluconacetobacter hansenii
          ATCC 23769]
          Length = 207

 Score =  110 bits (275), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 49/71 (69%), Positives = 59/71 (83%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+PVD+ VG RIRLRR +LGMSQE+LG  LG+TFQQVQKYE+G NRVGASRL  ++ VL+
Sbjct: 9  PSPVDVYVGSRIRLRRTLLGMSQERLGTALGLTFQQVQKYERGANRVGASRLYDLARVLD 68

Query: 68 SPISFFFDVSP 78
           PI+FFFD  P
Sbjct: 69 VPIAFFFDGMP 79


>gi|27377896|ref|NP_769425.1| transcriptional regulator [Bradyrhizobium japonicum USDA 110]
 gi|27351042|dbj|BAC48050.1| bll2785 [Bradyrhizobium japonicum USDA 110]
          Length = 134

 Score =  110 bits (275), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 55/119 (46%), Positives = 83/119 (69%), Gaps = 6/119 (5%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           DI +GKRIRLRR+ + +SQ +LGE LG++FQQVQKYEKGVNRVGA+RLQ I+  L+ P++
Sbjct: 21  DIELGKRIRLRRVEMKISQAELGEKLGVSFQQVQKYEKGVNRVGAARLQQIATALDVPVT 80

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           FF+D       D  + E   + F+ +   L+L R + +I D  V+++++ L+ SI ++E
Sbjct: 81  FFYD------GDNKAREVESLLFLDSAFSLRLLRAYSKIKDQTVQRQLVSLMESIAANE 133


>gi|294084637|ref|YP_003551395.1| putative transcriptional regulator [Candidatus Puniceispirillum
           marinum IMCC1322]
 gi|292664210|gb|ADE39311.1| Predicted transcriptional regulator [Candidatus Puniceispirillum
           marinum IMCC1322]
          Length = 155

 Score =  109 bits (273), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 61/135 (45%), Positives = 88/135 (65%), Gaps = 16/135 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N VD++VGKR+RLRR +LGMSQE+LG  L ITFQQVQKYE+G NR+ ASRL  I ++L+ 
Sbjct: 19  NAVDMHVGKRVRLRRTLLGMSQEQLGTELNITFQQVQKYERGANRISASRLWDIGQILDV 78

Query: 69  PISFFFD--------VSPTVCS------DISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           PI++FFD         SP   S      D+  E+  + D ++  + L+L R +  I+   
Sbjct: 79  PINYFFDDMTENTMQSSPRRISRGGEILDLVDEQ--IKDPMARRETLELVRSYYSIEKPL 136

Query: 115 VRQKIIELVRSIVSS 129
           VR++I E+V+SI ++
Sbjct: 137 VRKRISEMVKSIATT 151


>gi|58039234|ref|YP_191198.1| transcriptional regulator [Gluconobacter oxydans 621H]
 gi|58001648|gb|AAW60542.1| Transcriptional regulator [Gluconobacter oxydans 621H]
          Length = 212

 Score =  108 bits (270), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 46/67 (68%), Positives = 58/67 (86%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
            PVD++VG RIRLRR ++G+SQEKLGE LG+TFQQ+QKYE+G NRVGASRL  +++VL+ 
Sbjct: 34  GPVDVHVGNRIRLRRTLMGLSQEKLGEALGLTFQQIQKYERGANRVGASRLYDLAQVLDV 93

Query: 69  PISFFFD 75
           PI FFFD
Sbjct: 94  PIGFFFD 100


>gi|114571474|ref|YP_758154.1| XRE family transcriptional regulator [Maricaulis maris MCS10]
 gi|114341936|gb|ABI67216.1| transcriptional regulator, XRE family [Maricaulis maris MCS10]
          Length = 128

 Score =  108 bits (270), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 62/125 (49%), Positives = 88/125 (70%), Gaps = 8/125 (6%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P  +D +VG R+RLRR +L MSQ +LGE LG+TFQQVQKYE+G NR+GASRL ++++V E
Sbjct: 6   PTSIDQHVGARLRLRRSLLEMSQSELGEKLGVTFQQVQKYERGTNRIGASRLFNVAKVTE 65

Query: 68  SPISFFFDVSPTVCSDISSE-----ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
            P+S+FF+    +  D SSE      + + DFI++PDGL L   F  I D  VR+++I+L
Sbjct: 66  VPVSYFFE---GLEEDGSSELKGGDSDTLYDFIASPDGLALASAFAGIKDQTVRRRVIDL 122

Query: 123 VRSIV 127
           +RS+ 
Sbjct: 123 LRSLA 127


>gi|146339475|ref|YP_001204523.1| putative transcriptional regulator [Bradyrhizobium sp. ORS278]
 gi|146192281|emb|CAL76286.1| putative transcriptional regulatory protein [Bradyrhizobium sp.
           ORS278]
          Length = 131

 Score =  108 bits (269), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 55/119 (46%), Positives = 82/119 (68%), Gaps = 6/119 (5%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           DI +GKRIRLRR+   +SQ +LGE LG++FQQVQKYEKGVNRVGA+RLQ I+  L+ P++
Sbjct: 18  DIELGKRIRLRRVEQKISQAELGEKLGVSFQQVQKYEKGVNRVGAARLQQIATALDVPVT 77

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           FF+D       D  + E   + F+ +   L+L R + +I D  V+++++ L+ SI ++E
Sbjct: 78  FFYD------GDNKAREVESLLFLDSAFSLRLLRAYSKIKDQTVQRQLVSLMESIAANE 130


>gi|148254259|ref|YP_001238844.1| putative transcriptional regulator [Bradyrhizobium sp. BTAi1]
 gi|146406432|gb|ABQ34938.1| putative transcriptional regulatory protein [Bradyrhizobium sp.
           BTAi1]
          Length = 131

 Score =  108 bits (269), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 55/119 (46%), Positives = 82/119 (68%), Gaps = 6/119 (5%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           DI +GKRIRLRR+   +SQ +LGE LG++FQQVQKYEKGVNRVGA+RLQ I+  L+ P++
Sbjct: 18  DIELGKRIRLRRVEQKISQAELGEKLGVSFQQVQKYEKGVNRVGAARLQQIATALDVPVT 77

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           FF+D       D  + E   + F+ +   L+L R + +I D  V+++++ L+ SI ++E
Sbjct: 78  FFYD------GDNKAREVESLLFLDSAFSLRLLRAYSKIKDQTVQRQLVALMESIAANE 130


>gi|197103164|ref|YP_002128542.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196480440|gb|ACG79967.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 171

 Score =  108 bits (269), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 53/129 (41%), Positives = 83/129 (64%), Gaps = 5/129 (3%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+P+D++VG R+RLRR  LG++Q+ L E L +TFQQVQKYE+G NR+ AS L  IS+VLE
Sbjct: 23  PDPIDVHVGLRVRLRRKALGLTQQSLAEALDLTFQQVQKYERGANRISASTLFRISQVLE 82

Query: 68  SPISFFF----DVSPTVCSDISSEENNVM-DFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
            P+S+FF    D +       +   + V+ D +  P+G  L   F+ I    +R+ + +L
Sbjct: 83  VPVSYFFDGLHDPAKVAGERFAQVYDTVLQDLLLEPNGPALAEAFLSIRRRGIRKSVTDL 142

Query: 123 VRSIVSSEK 131
           VR+I ++++
Sbjct: 143 VRAIAANDE 151


>gi|167645114|ref|YP_001682777.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167347544|gb|ABZ70279.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 120

 Score =  107 bits (268), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 50/117 (42%), Positives = 84/117 (71%), Gaps = 5/117 (4%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD-VSPT 79
           +RR +LG+SQE L + LG+TFQQVQKYE+G NRV AS+L  I++ L+ P+S+FFD ++  
Sbjct: 1   MRRKMLGVSQEALADALGLTFQQVQKYERGANRVSASKLYEIAKTLQVPVSYFFDGLADP 60

Query: 80  VCSDI----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
           + +D+    ++ E  V +F++TP+GL+L   F +I   +VR+++++LVR++   E +
Sbjct: 61  MTNDVDEVGAAAERVVTEFLNTPEGLELAEMFPKIGRGRVRRQVLDLVRAMAEDETR 117


>gi|46200999|ref|ZP_00056012.2| COG1396: Predicted transcriptional regulators [Magnetospirillum
           magnetotacticum MS-1]
          Length = 133

 Score =  107 bits (268), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 53/124 (42%), Positives = 79/124 (63%), Gaps = 9/124 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG R+RLRR ++G+SQE LGE LG+TFQQ+QKYE+G NR+GASRL  +S  LE P+ +
Sbjct: 1   MHVGSRLRLRRTLMGLSQEALGEALGLTFQQIQKYERGANRIGASRLFDLSRALEVPVEY 60

Query: 73  FFD--------VSPTVCSDISSEEN-NVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           F+D         SP      + E     +D +S  + L L R + +I D+ VR+++ EL 
Sbjct: 61  FYDEMSADVMAASPRHMVRATEEPAPQRIDPMSKRETLDLVRTYYKIGDLNVRKRVYELA 120

Query: 124 RSIV 127
           R++ 
Sbjct: 121 RALA 124


>gi|304320427|ref|YP_003854070.1| hypothetical protein PB2503_04267 [Parvularcula bermudensis
           HTCC2503]
 gi|303299329|gb|ADM08928.1| hypothetical protein PB2503_04267 [Parvularcula bermudensis
           HTCC2503]
          Length = 122

 Score =  107 bits (266), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 51/113 (45%), Positives = 80/113 (70%), Gaps = 9/113 (7%)

Query: 24  MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSD 83
           M+ G+SQEKLGE LG+TFQQVQKYEKGVNR+GA RL  I+++L+ P+ FF+D   +   D
Sbjct: 1   MMQGISQEKLGEDLGLTFQQVQKYEKGVNRIGAGRLFEIAQILDVPVQFFYDDFQSDEDD 60

Query: 84  IS---------SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
            +         +E  ++   ++T DG+QL + F++I+DV +R++I++LV++I 
Sbjct: 61  STLSEETTGYEAERTDLFASLATSDGMQLAQAFLRINDVTIRRRIVDLVKAIA 113


>gi|329847816|ref|ZP_08262844.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328842879|gb|EGF92448.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 138

 Score =  107 bits (266), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 51/121 (42%), Positives = 83/121 (68%), Gaps = 1/121 (0%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PN VD++VG R+RLRR +LG+SQ+ L   + +TFQQVQKYE+G NR+ AS+L  I++ L+
Sbjct: 14  PNKVDLHVGARVRLRRKLLGLSQDGLAARIDLTFQQVQKYERGSNRISASKLYEIAQALQ 73

Query: 68  SPISFFFDVSPTVCSDISSE-ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             +  FF+   TV ++   + E +V  F+ TP+G++L   F +I   K+R++++ELV ++
Sbjct: 74  CKVEHFFEGLETVETEAPVQVEQDVNSFLCTPEGIELAGGFPKIRSAKLRRRVLELVNTL 133

Query: 127 V 127
            
Sbjct: 134 A 134


>gi|197106910|ref|YP_002132287.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196480330|gb|ACG79858.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 144

 Score =  107 bits (266), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 53/123 (43%), Positives = 84/123 (68%), Gaps = 1/123 (0%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVD +VG RIR+RR  LGMSQE+L E +G+TFQQVQKYE+  NRV AS+L  ++  L+
Sbjct: 16  PNPVDRHVGLRIRMRRKELGMSQERLAEAIGLTFQQVQKYERATNRVSASKLFEMARALQ 75

Query: 68  SPISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           + I++F++ +      + S   + V  F+ + DG++L   F +I   +VR++I++LVR++
Sbjct: 76  TSIAYFYEGLEEAGAGEASPPSDEVQTFLMSHDGMELAHAFPRIRQARVRRRILDLVRAV 135

Query: 127 VSS 129
             +
Sbjct: 136 AET 138


>gi|114799525|ref|YP_758842.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114739699|gb|ABI77824.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 145

 Score =  106 bits (264), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 58/128 (45%), Positives = 82/128 (64%), Gaps = 4/128 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K+P+ +D  VG+ I  +R  L ++QEKLGE LG+TFQQVQKYEKGVNRV A RL  I+ V
Sbjct: 5   KLPSDIDRVVGQNIHRQRRKLKLTQEKLGELLGLTFQQVQKYEKGVNRVSAGRLYEIAGV 64

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMD----FISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           LE P+ FFFD + TV S+  +E    +D     + + + LQL   F +I+D  +R  ++ 
Sbjct: 65  LEVPVEFFFDGADTVVSNGVAELAEDLDDTQLAVLSDEVLQLIEAFQKIEDAALRGSLLA 124

Query: 122 LVRSIVSS 129
            VR+  S+
Sbjct: 125 TVRAAASA 132


>gi|88657049|gb|ABD47298.1| RegA [Rhizobium leguminosarum bv. trifolii TA1]
          Length = 99

 Score =  105 bits (261), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 49/94 (52%), Positives = 65/94 (69%), Gaps = 2/94 (2%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN +D+ VG R+R+RR  LGM+Q  L E LGITF+Q+QKYEKG NR+GASRLQ ISE+
Sbjct: 4  KSPNSIDVYVGNRVRVRRKTLGMTQNGLAELLGITFRQIQKYEKGTNRIGASRLQRISEI 63

Query: 66 LESPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
          L  P+ FFF+   +    I  + N +  F+S+ D
Sbjct: 64 LRVPVGFFFENGGS--GPIDGQTNELNSFLSSKD 95


>gi|218510475|ref|ZP_03508353.1| probable transcriptional regulator protein [Rhizobium etli Brasil
          5]
          Length = 98

 Score =  104 bits (260), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 52/97 (53%), Positives = 66/97 (68%), Gaps = 5/97 (5%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N K PN +D  VG RIR RR +LGMSQE+L E +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2  NVKTPNAIDSYVGARIRTRRQLLGMSQERLAEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64 EVLESPISFFF---DVSPTVCSDISSEENN--VMDFI 95
          EVL +  SFFF   D  P     +   ++   V +F+
Sbjct: 62 EVLHTSPSFFFEQGDSGPVAVRGLDGPDHTDPVAEFL 98


>gi|167646240|ref|YP_001683903.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167348670|gb|ABZ71405.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 136

 Score =  104 bits (259), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 52/127 (40%), Positives = 87/127 (68%), Gaps = 4/127 (3%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD++VG+RIRLRR + G SQ ++ + LG+TFQQ+QKYE+G NR+ AS+LQ ++  L 
Sbjct: 6   PHPVDLHVGQRIRLRRKLAGASQTQVADALGLTFQQLQKYERGTNRISASKLQALALHLR 65

Query: 68  SPISFFFDV--SPTV-CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            PI++FF+    PT   + I+  +  V  F+++ +G++L   F +I   + R +I+ LVR
Sbjct: 66  VPINWFFEGLEEPTAEDAAINRRQTAVDAFLASREGVELALAFPRIGSGQ-RNQILALVR 124

Query: 125 SIVSSEK 131
           ++ + E+
Sbjct: 125 TLAAEEE 131


>gi|89053723|ref|YP_509174.1| XRE family transcriptional regulator [Jannaschia sp. CCS1]
 gi|88863272|gb|ABD54149.1| transcriptional regulator, XRE family [Jannaschia sp. CCS1]
          Length = 126

 Score =  103 bits (256), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 51/120 (42%), Positives = 81/120 (67%), Gaps = 3/120 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++G +Q++L E +GI FQQ+QKYE G+NRV ASRL  I E L
Sbjct: 1   MTHPVDVHVGKRIRHRRWMVGRTQQQLAETVGIKFQQIQKYETGMNRVSASRLWDIGEAL 60

Query: 67  ESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           + P+++FF+   S  V SD ++ E    D ++  + L+L R +  I + + R+++ +L R
Sbjct: 61  DVPVAYFFEGVGSEEVASDTATGEALPGDLLADREALELVRSYYAIPENQ-RRRLFDLAR 119


>gi|149914411|ref|ZP_01902942.1| transcriptional regulator, XRE family protein [Roseobacter sp.
           AzwK-3b]
 gi|149811930|gb|EDM71763.1| transcriptional regulator, XRE family protein [Roseobacter sp.
           AzwK-3b]
          Length = 123

 Score =  103 bits (256), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 51/118 (43%), Positives = 76/118 (64%), Gaps = 1/118 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVDI+VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I++ L
Sbjct: 1   MPHPVDIHVGKRIRHRRWLVGMTQQQLAESVGIKFQQIQKYETGANRVSASRLWDIADAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +  +SFFF+   T      + E    D +   + L L R +  I + + R+++ +L R
Sbjct: 61  DVDVSFFFEGLETDSGKSEAGEKVPADLLGDKEALDLVRSYYAIPENQ-RRRLFDLAR 117


>gi|190404401|ref|YP_001961032.1| rcorf57 [Agrobacterium rhizogenes]
 gi|158322197|gb|ABW33614.1| rcorf57 [Agrobacterium rhizogenes]
          Length = 163

 Score =  103 bits (256), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 53/132 (40%), Positives = 81/132 (61%), Gaps = 12/132 (9%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+P+D+ VG  +R      GMSQ  L E LG+TFQQVQKYEKG NRVGASRL +++ +
Sbjct: 33  KAPSPIDVEVGASVR------GMSQSTLAEALGVTFQQVQKYEKGTNRVGASRLLNVATL 86

Query: 66  LESPISFFFDV-----SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           L  P+S+FFD       P   +   +E   +  F+ T +G  LN  F +I    +R++++
Sbjct: 87  LGVPVSYFFDSQSRDGKPDGLTGTGAEM-ELSAFLDTDEGRDLNVAFARIARPALRRQVL 145

Query: 121 ELVRSIVSSEKK 132
            LV+++ +++ K
Sbjct: 146 SLVKAMAATDVK 157


>gi|220922145|ref|YP_002497446.1| XRE family transcriptional regulator [Methylobacterium nodulans ORS
           2060]
 gi|219946751|gb|ACL57143.1| transcriptional regulator, XRE family [Methylobacterium nodulans
           ORS 2060]
          Length = 134

 Score =  102 bits (255), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 53/115 (46%), Positives = 78/115 (67%), Gaps = 4/115 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKG NRVGA RL+ I+ +LE P+
Sbjct: 8   VDRLVGIRITALRKAKGLSQTALGNAVGVTFQQVQKYEKGQNRVGAGRLREIARLLEVPV 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           S FF+  P   +D +  ++NV  F+ST   + + R ++QI+D ++R++++ +VRS
Sbjct: 68  SAFFE-EP---NDAAGRDDNVFGFLSTQGAVDILRAYVQIEDDQLRREVLAIVRS 118


>gi|170740688|ref|YP_001769343.1| XRE family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168194962|gb|ACA16909.1| transcriptional regulator, XRE family [Methylobacterium sp. 4-46]
          Length = 134

 Score =  102 bits (255), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 54/115 (46%), Positives = 76/115 (66%), Gaps = 4/115 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKG NRVGA RL+ I+ +LE P+
Sbjct: 8   VDRLVGIRITALRKAKGLSQTALGNAVGVTFQQVQKYEKGQNRVGAGRLREIARLLEVPV 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           S FF+  P   SD    + NV  F+ST   + + R ++QI+D ++R++++ +VRS
Sbjct: 68  SAFFE-DP---SDTQGNDENVFGFLSTQGAIDVLRAYVQIEDDQLRREVLAIVRS 118


>gi|222109145|ref|YP_002551410.1| transcriptional regulator Cro/CI family [Agrobacterium vitis S4]
 gi|221738419|gb|ACM39284.1| transcriptional regulator Cro/CI family [Agrobacterium vitis S4]
          Length = 141

 Score =  102 bits (254), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 59/138 (42%), Positives = 81/138 (58%), Gaps = 4/138 (2%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K  P+ VD+ VG+ IR RRMI G+SQ  LG  +G+TFQQVQKYEKG NRV AS L  I+ 
Sbjct: 2   KDEPHAVDVAVGRAIRKRRMINGVSQSDLGARIGVTFQQVQKYEKGTNRVSASMLMEIAC 61

Query: 65  VLESPISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            L   +  FFD +      +          F  T + + LN+ F QI+D  +R+KI++LV
Sbjct: 62  ALHVDVRSFFDGIDAPSGKEPLHHTATPAAFSITRETVALNQAFAQINDALLRRKIVDLV 121

Query: 124 RSIVSSEKKYRTIEEECM 141
           R++ SS     T E+E +
Sbjct: 122 RAVASSSS---TSEDELL 136


>gi|288958165|ref|YP_003448506.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288910473|dbj|BAI71962.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 155

 Score =  102 bits (253), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 58/125 (46%), Positives = 92/125 (73%), Gaps = 6/125 (4%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNP+DI+VG R+RLRR +LG+SQEKLGE +GITFQQ+QKYE+G NR+ ASRL ++S+VL 
Sbjct: 21  PNPIDIHVGARLRLRRTLLGLSQEKLGEAVGITFQQLQKYERGSNRISASRLYNLSQVLG 80

Query: 68  SPISFFFDVSPT---VCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
            P+S+FFD  P+   + ++  SE   E +  + ++  + L+L R + +I+D  VR++  +
Sbjct: 81  VPVSYFFDDMPSPDQITAETPSESMSETDEFESMARRETLELVRAYYRIEDPGVRKRTFD 140

Query: 122 LVRSI 126
           L++++
Sbjct: 141 LLKAL 145


>gi|167647540|ref|YP_001685203.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167349970|gb|ABZ72705.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 140

 Score =  102 bits (253), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 45/103 (43%), Positives = 72/103 (69%), Gaps = 2/103 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD+ VG R+R+RR +LG+SQ +L + LGITFQQ+QKYE+G NR+ AS+L   + +L
Sbjct: 9   MAHPVDLYVGARLRIRRKVLGLSQTQLADALGITFQQIQKYERGANRISASKLYEAARLL 68

Query: 67  ESPISFFFD-VSPTVCSDISSE-ENNVMDFISTPDGLQLNRYF 107
           +SP+++FFD +  T  + +       +  F++TP+GL+L   F
Sbjct: 69  QSPVAYFFDGLDDTAQNGLDDGFAQRMTQFVATPEGLELASLF 111


>gi|56697797|ref|YP_168167.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
 gi|56679534|gb|AAV96200.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
          Length = 123

 Score =  101 bits (252), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 49/116 (42%), Positives = 76/116 (65%), Gaps = 1/116 (0%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD++VGKR+R RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I+E L+ 
Sbjct: 3   HPVDVHVGKRVRHRRWLIGMTQQQLAEQVGIKFQQIQKYETGANRVSASRLWDIAEALDV 62

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           P+SFFF+        ++ + +   D +   + L L R +  I + + R+++ EL R
Sbjct: 63  PVSFFFEGLEEAEKVVAEKPSVPADLMGDKEALDLVRSYYAIPENQ-RRRLFELAR 117


>gi|188582991|ref|YP_001926436.1| XRE family transcriptional regulator [Methylobacterium populi
           BJ001]
 gi|179346489|gb|ACB81901.1| transcriptional regulator, XRE family [Methylobacterium populi
           BJ001]
          Length = 135

 Score =  101 bits (252), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 52/129 (40%), Positives = 77/129 (59%), Gaps = 8/129 (6%)

Query: 4   NKKIPNP-----VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
           +  +P P      D  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKG+NRVGA R
Sbjct: 2   STSVPKPRHTTEADRIVGLRITTLRKARGLSQTALGTAVGVTFQQVQKYEKGLNRVGAGR 61

Query: 59  LQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           L  I+ +LE P+S FF+ +    +    ++  V+DF+     + L R F  I+D ++R+K
Sbjct: 62  LSEIAHLLEVPVSAFFEEADGATAQ---KQTEVVDFLRVHGAVDLLRAFATIEDDQLRRK 118

Query: 119 IIELVRSIV 127
           ++ +VRS+ 
Sbjct: 119 VLAIVRSVA 127


>gi|163737462|ref|ZP_02144879.1| transcriptional regulator, XRE family protein [Phaeobacter
           gallaeciensis BS107]
 gi|161388988|gb|EDQ13340.1| transcriptional regulator, XRE family protein [Phaeobacter
           gallaeciensis BS107]
          Length = 123

 Score =  100 bits (250), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 51/118 (43%), Positives = 75/118 (63%), Gaps = 1/118 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L
Sbjct: 1   MAHPVDVHVGKRIRHRRWLIGMTQQQLAELVGIKFQQIQKYETGANRVSASRLWDISDAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
             P+SFFF+      +  S +     D +   + L L R +  I + + R+++ EL R
Sbjct: 61  SVPVSFFFEGLQDDDAPASDKAQVPDDLMGDKEALDLVRSYYAIPENQ-RRRLFELAR 117


>gi|254464668|ref|ZP_05078079.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
           Y4I]
 gi|206685576|gb|EDZ46058.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
           Y4I]
          Length = 123

 Score =  100 bits (249), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 51/118 (43%), Positives = 75/118 (63%), Gaps = 1/118 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L
Sbjct: 1   MAHPVDVHVGKRIRHRRWLIGMTQQQLAEQVGIKFQQIQKYETGANRVSASRLWDISDAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           E P+SFFF+         + +     D +   + L L R +  I + + R+++ EL R
Sbjct: 61  EVPVSFFFEGLQEEGKAPAEKSAVPEDLMGDKEALDLVRSYYAIPENQ-RRRLFELAR 117


>gi|240851141|ref|YP_002972543.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268264|gb|ACS51852.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 151

 Score =  100 bits (249), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 46/84 (54%), Positives = 66/84 (78%), Gaps = 7/84 (8%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+  DI++G++IR +R ++GMSQ+KLG  LG+TFQQ+QKYEKG NR+GA RLQ I+++
Sbjct: 38  KNPHFNDISIGRKIRFKRTMIGMSQKKLGSQLGVTFQQIQKYEKGSNRIGAGRLQEIADI 97

Query: 66  LESPISFFFDVSPTVCSDISSEEN 89
           LE PISFF+       +D+S++EN
Sbjct: 98  LEVPISFFY-------TDLSTKEN 114


>gi|260574596|ref|ZP_05842599.1| transcriptional regulator, XRE family [Rhodobacter sp. SW2]
 gi|259023013|gb|EEW26306.1| transcriptional regulator, XRE family [Rhodobacter sp. SW2]
          Length = 120

 Score =  100 bits (248), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 53/120 (44%), Positives = 79/120 (65%), Gaps = 8/120 (6%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD +VGKRIR RR ++GM+Q++L + +GI FQQ+QKYE G+NRV ASRL  I+E L
Sbjct: 1   MKHPVDAHVGKRIRHRRWMVGMTQQQLADRVGIKFQQIQKYETGMNRVSASRLWDIAETL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVM--DFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
              ISFFF+       D S E +  M  DF++  + L+L R +  I + + R+++ +L R
Sbjct: 61  GVAISFFFE-----GIDESREASKTMDGDFLADKEALELVRSYYSIPEAQ-RRRLFDLAR 114


>gi|197105530|ref|YP_002130907.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196478950|gb|ACG78478.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 128

 Score =  100 bits (248), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 51/125 (40%), Positives = 74/125 (59%), Gaps = 6/125 (4%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           + I +PVD+ VG RIRL R + G+SQ+ L E  G+TFQQ+QKYE+G NRV AS L  I+ 
Sbjct: 6   EAIADPVDVAVGARIRLLRKLKGLSQQALAEAAGVTFQQIQKYERGANRVSASMLARIAR 65

Query: 65  VLESPIS-FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            L  P++  F + SPT     SS  + V   ++ P  L+L + +  +     R  ++E V
Sbjct: 66  TLGVPVAEMFGEASPT-----SSAVDEVAALLAEPGALELLKAYADLPRGASRSALVEFV 120

Query: 124 RSIVS 128
           RS+ S
Sbjct: 121 RSLRS 125


>gi|77462437|ref|YP_351941.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
           2.4.1]
 gi|126461314|ref|YP_001042428.1| XRE family transcriptional regulator [Rhodobacter sphaeroides ATCC
           17029]
 gi|146276727|ref|YP_001166886.1| XRE family transcriptional regulator [Rhodobacter sphaeroides ATCC
           17025]
 gi|332560321|ref|ZP_08414643.1| XRE family transcriptional regulator [Rhodobacter sphaeroides WS8N]
 gi|77386855|gb|ABA78040.1| transcriptional regulator, XRE family [Rhodobacter sphaeroides
           2.4.1]
 gi|126102978|gb|ABN75656.1| transcriptional regulator, XRE family [Rhodobacter sphaeroides ATCC
           17029]
 gi|145554968|gb|ABP69581.1| transcriptional regulator, XRE family [Rhodobacter sphaeroides ATCC
           17025]
 gi|332278033|gb|EGJ23348.1| XRE family transcriptional regulator [Rhodobacter sphaeroides WS8N]
          Length = 120

 Score =  100 bits (248), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 51/118 (43%), Positives = 75/118 (63%), Gaps = 4/118 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD +VGKRIR RR ++GM+Q++L +C+GI FQQ+QKYE G+NRV ASRL  I+E L
Sbjct: 1   MKHPVDAHVGKRIRHRRWMVGMTQQQLADCVGIKFQQIQKYETGMNRVSASRLWDIAEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
              ISFFF+            E    D I+  + L+L R +  I + + R+++ +L R
Sbjct: 61  GVSISFFFEGLEGAGDQARQAEG---DRITDKEALELVRSYYAIPEAQ-RRRLFDLAR 114


>gi|259416694|ref|ZP_05740614.1| transcriptional regulator, XRE family [Silicibacter sp. TrichCH4B]
 gi|259348133|gb|EEW59910.1| transcriptional regulator, XRE family [Silicibacter sp. TrichCH4B]
          Length = 124

 Score =  100 bits (248), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 53/119 (44%), Positives = 77/119 (64%), Gaps = 2/119 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVDI+VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L
Sbjct: 1   MAHPVDIHVGKRIRHRRWLIGMTQQQLAEKVGIKFQQIQKYETGANRVSASRLWDISDAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNV-MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +  ISFFF+      + +  E+  V  D +   + L L R +  I + + R+++ EL R
Sbjct: 61  DVNISFFFEGLQDETAKVVPEKARVPADLMGDKEALDLVRSYYAIPENQ-RRRLFELAR 118


>gi|307315947|ref|ZP_07595440.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
 gi|307322835|ref|ZP_07602141.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306891521|gb|EFN22401.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306898408|gb|EFN29102.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
          Length = 144

 Score = 99.8 bits (247), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 59/133 (44%), Positives = 88/133 (66%), Gaps = 7/133 (5%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K  P PVD++VG+RIR+RR+ + ++   L + +G+TFQQVQKYEKG NRVGASRLQ I++
Sbjct: 10  KGKPEPVDVHVGRRIRMRRIWMQVTLTALADAIGVTFQQVQKYEKGTNRVGASRLQQIAD 69

Query: 65  VLESPISFFFDVSP---TVCSDISSEENN----VMDFISTPDGLQLNRYFIQIDDVKVRQ 117
            L +P+S+FF+  P    V  D  S +      +++F S+  GL L R F QI D +VR 
Sbjct: 70  ALVAPVSYFFEDMPGAAPVGGDNRSGQKKLQPEIIEFASSDVGLALIRAFSQITDKRVRD 129

Query: 118 KIIELVRSIVSSE 130
           +I+ LV+++   +
Sbjct: 130 RILGLVKALAKQD 142


>gi|254511979|ref|ZP_05124046.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
           KLH11]
 gi|221535690|gb|EEE38678.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
           KLH11]
          Length = 123

 Score = 99.8 bits (247), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 52/119 (43%), Positives = 80/119 (67%), Gaps = 3/119 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + VD++VGKR+R RR ++GM+Q++L + +GI FQQ+QKYE G NRV ASRL  I+E L
Sbjct: 1   MTHHVDVHVGKRVRHRRWLIGMTQQQLAQQVGIKFQQIQKYETGANRVSASRLWDIAEAL 60

Query: 67  ESPISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           E P+SFFF+ +  T  SD S +++   D +   + L L R +  I + + R+++ EL R
Sbjct: 61  EVPVSFFFEGLEETQKSD-SDKKSVPADLMGDKEALDLVRSYYAIPENQ-RRRLFELAR 117


>gi|170749530|ref|YP_001755790.1| XRE family transcriptional regulator [Methylobacterium
           radiotolerans JCM 2831]
 gi|170656052|gb|ACB25107.1| transcriptional regulator, XRE family [Methylobacterium
           radiotolerans JCM 2831]
          Length = 162

 Score = 99.4 bits (246), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 53/117 (45%), Positives = 73/117 (62%), Gaps = 4/117 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD  VG RI   R   GMSQ  LG  +G+TFQQVQKYEKG NRVGA RL+ I+ +LE P+
Sbjct: 37  VDRLVGIRITALRKARGMSQTALGNAVGVTFQQVQKYEKGQNRVGAGRLREIARLLEVPV 96

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
           S FF+ S        + + +V  F+S    ++L R + QI+D ++R+ ++ LVRS  
Sbjct: 97  SAFFEES----EPRENAQEDVFGFLSAHGAIELLRAYAQIEDEQMRRDVLALVRSAA 149


>gi|188580819|ref|YP_001924264.1| XRE family transcriptional regulator [Methylobacterium populi
           BJ001]
 gi|179344317|gb|ACB79729.1| transcriptional regulator, XRE family [Methylobacterium populi
           BJ001]
          Length = 135

 Score = 99.0 bits (245), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 49/111 (44%), Positives = 70/111 (63%), Gaps = 3/111 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+RI   R   G+SQ  LG  +G+TFQQVQKYE+G NRVGA RLQ I+ +LE P+S FF
Sbjct: 18  VGERIVALRKARGLSQAALGAAVGVTFQQVQKYERGTNRVGAGRLQEIARLLEVPVSAFF 77

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           D       D+ +   +V  F+     + L R F  I+D ++R++++ +VRS
Sbjct: 78  DEGNGAAGDMQA---DVFGFLRIHGAIDLLRAFATIEDDQLRREVLAIVRS 125


>gi|99081750|ref|YP_613904.1| XRE family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99038030|gb|ABF64642.1| transcriptional regulator, XRE family [Ruegeria sp. TM1040]
          Length = 123

 Score = 99.0 bits (245), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 51/118 (43%), Positives = 74/118 (62%), Gaps = 1/118 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVDI+VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L
Sbjct: 1   MAHPVDIHVGKRIRHRRWLIGMTQQQLAEKVGIKFQQIQKYETGANRVSASRLWDISDAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +  ISFFF+        +  +     D +   + L L R +  I + + R+++ EL R
Sbjct: 61  DVNISFFFEGLQDETKSVPDKARVPADLMGDKEALDLVRSYYAIPENQ-RRRLFELAR 117


>gi|49476099|ref|YP_034140.1| DNA-binding protein [Bartonella henselae str. Houston-1]
 gi|49238907|emb|CAF28202.1| DNA-binding protein [Bartonella henselae str. Houston-1]
          Length = 152

 Score = 99.0 bits (245), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 48/84 (57%), Positives = 65/84 (77%), Gaps = 7/84 (8%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+  DI+VGKRIR RR +LG+SQ++LG  LG+TFQQ+QKYEKG+NRVGA RLQ I+ +
Sbjct: 38  KNPHFNDISVGKRIRYRRKMLGLSQKQLGHSLGVTFQQIQKYEKGINRVGAGRLQEIATL 97

Query: 66  LESPISFFFDVSPTVCSDISSEEN 89
           L+  ISFF+       +DIS++E+
Sbjct: 98  LDVSISFFY-------ADISTKEH 114


>gi|126739240|ref|ZP_01754934.1| DNA-binding protein, putative [Roseobacter sp. SK209-2-6]
 gi|126719857|gb|EBA16565.1| DNA-binding protein, putative [Roseobacter sp. SK209-2-6]
          Length = 122

 Score = 98.6 bits (244), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 52/120 (43%), Positives = 77/120 (64%), Gaps = 6/120 (5%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++G +Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L
Sbjct: 1   MAHPVDVHVGKRIRHRRWLIGKTQQQLAEQVGIKFQQIQKYETGANRVSASRLWDISDAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVM--DFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           E P+SFFF+    +  D  +  N  +  D +   + L L R +  I + + R+++ EL R
Sbjct: 61  EVPVSFFFE---GLEEDGKAAGNTAVPDDLMGDKEALDLVRSYYSIPENQ-RRRLFELAR 116


>gi|16126569|ref|NP_421133.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
           CB15]
 gi|221235351|ref|YP_002517788.1| HTH transcriptional regulator [Caulobacter crescentus NA1000]
 gi|13423855|gb|AAK24301.1| transcriptional regulator, Cro/CI family [Caulobacter crescentus
           CB15]
 gi|220964524|gb|ACL95880.1| HTH transcriptional regulator [Caulobacter crescentus NA1000]
          Length = 135

 Score = 98.6 bits (244), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 43/100 (43%), Positives = 71/100 (71%), Gaps = 1/100 (1%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD+ VG R+R+RR ++G+SQ ++ + LGITFQQ+QKYE+G NR+ AS+L   +++L++
Sbjct: 11  HPVDLYVGARLRIRRKMMGLSQTQVADALGITFQQIQKYERGANRISASKLYDAAKLLQA 70

Query: 69  PISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
           P+S+FF+ +  T           + +F+STP+GL+L   F
Sbjct: 71  PVSYFFEGLEDTDGGVDDGFAQRMTEFVSTPEGLELASLF 110


>gi|218532713|ref|YP_002423529.1| XRE family transcriptional regulator [Methylobacterium
           chloromethanicum CM4]
 gi|218525016|gb|ACK85601.1| transcriptional regulator, XRE family [Methylobacterium
           chloromethanicum CM4]
          Length = 135

 Score = 98.2 bits (243), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 53/130 (40%), Positives = 78/130 (60%), Gaps = 3/130 (2%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K     D  VG+RI++ R   G+SQ  LG  LG+TFQQ+QKYE GVNRVGASRL  ++ V
Sbjct: 9   KCATEQDRLVGERIKVLRKSKGISQTALGSALGVTFQQIQKYENGVNRVGASRLSEVARV 68

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE P+S FF+    +   +   +  V +F+     + L   FI I+D ++R++++ LVR 
Sbjct: 69  LEVPVSTFFEEGGGL---VEQGQQEVFEFLRVRGAVDLLNAFIAIEDDQLRREVLALVRC 125

Query: 126 IVSSEKKYRT 135
               ++K RT
Sbjct: 126 AARMKQKQRT 135


>gi|294676430|ref|YP_003577045.1| XRE family transcriptional regulator [Rhodobacter capsulatus SB
           1003]
 gi|294475250|gb|ADE84638.1| transcriptional regulator, XRE family [Rhodobacter capsulatus SB
           1003]
          Length = 120

 Score = 98.2 bits (243), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 50/120 (41%), Positives = 78/120 (65%), Gaps = 12/120 (10%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD++VGKRIR RR ++G++Q++L + +GI FQQ+QKYE G+NRV ASRL  I++ L+ 
Sbjct: 3   HPVDVHVGKRIRHRRWLVGVTQQQLADKVGIKFQQIQKYETGMNRVSASRLWDIADALDV 62

Query: 69  PISFFFDVSPTVCSDISSEENNVM----DFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           P+SFFF+        +S E+ N      D  S  + L L R +  I + + R+++ EL +
Sbjct: 63  PVSFFFE-------GLSGEDPNTAAQEGDLFSDKEALALVRSYYAIPEAQ-RRRLFELAK 114


>gi|167644985|ref|YP_001682648.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167347415|gb|ABZ70150.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 149

 Score = 98.2 bits (243), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 50/128 (39%), Positives = 81/128 (63%), Gaps = 9/128 (7%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+ VDI+VG R+R+RR  LG+SQ +L + +GITFQQ+QKYE+G NRV AS+L  ++  L+
Sbjct: 7   PHLVDIHVGARVRMRRKALGLSQTQLADSVGITFQQLQKYERGANRVSASKLYGMAVTLQ 66

Query: 68  SPISFFFDVSPTVCSDISSEEN--------NVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           + +S+FF     V    ++EE          +  F+ + +GL+L   F QI   + RQ++
Sbjct: 67  TSVSWFFQGLSAVDVANATEEQMLEEHRLKGLQRFLLSSEGLELASLFPQIPPTQ-RQQL 125

Query: 120 IELVRSIV 127
           + L +S++
Sbjct: 126 LALAKSLI 133


>gi|84515302|ref|ZP_01002664.1| DNA-binding protein, putative [Loktanella vestfoldensis SKA53]
 gi|84510585|gb|EAQ07040.1| DNA-binding protein, putative [Loktanella vestfoldensis SKA53]
          Length = 123

 Score = 97.8 bits (242), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 54/119 (45%), Positives = 76/119 (63%), Gaps = 7/119 (5%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD+ VGKRIR RR + G +Q++L E +GI FQQ+QKYE G+NRV ASRL  IS VL  
Sbjct: 3   HPVDVYVGKRIRHRRWMNGTTQQQLAENVGIKFQQIQKYETGMNRVSASRLWDISNVLGV 62

Query: 69  PISFFF---DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           P+SFFF   D  P V + IS       D ++  + L+L R +  I + + R+++ +L R
Sbjct: 63  PVSFFFEGYDAQPAVETRISDMPG---DILTDKEALELLRSYYAIPENQ-RRRLFDLAR 117


>gi|209546420|ref|YP_002278310.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209539277|gb|ACI59210.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
          Length = 134

 Score = 97.8 bits (242), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 55/131 (41%), Positives = 86/131 (65%), Gaps = 9/131 (6%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+ P+ VD++VGK IR++R++  +SQ +LG+ +G+TFQQ+QKYEKG NRV AS L  I+ 
Sbjct: 2   KEEPHSVDVHVGKTIRIQRLLRKVSQTELGDRVGVTFQQIQKYEKGSNRVSASMLVEIAG 61

Query: 65  VLESPISFFFD--VSPTVCSD--ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            L+  +  FFD   +P   +D    SEE     FI + +G+ LN  F  I +  +R+KI+
Sbjct: 62  ALKVDVRTFFDDLSAPDTANDNPAPSEE-----FIISREGVLLNAAFFSIKNEALRKKIL 116

Query: 121 ELVRSIVSSEK 131
           +LV++I  +E+
Sbjct: 117 KLVQAIAHTEQ 127


>gi|16519652|ref|NP_443772.1| uncharacterized transcription regulator (Cro/CI family)
           [Sinorhizobium fredii NGR234]
 gi|2496579|sp|P55360|Y4AM_RHISN RecName: Full=Uncharacterized HTH-type transcriptional regulator
           y4aM
 gi|2182302|gb|AAB91610.1| uncharacterized transcription regulator (Cro/CI family)
           [Sinorhizobium fredii NGR234]
          Length = 143

 Score = 97.8 bits (242), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 58/125 (46%), Positives = 81/125 (64%), Gaps = 7/125 (5%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N VDI VG+RIR RR    MSQ  LGE +G+TFQQVQKYEKG NRVGA RLQ IS+ LE 
Sbjct: 14  NAVDIYVGRRIRQRRRWQNMSQAALGEAIGVTFQQVQKYEKGSNRVGAGRLQQISDALEV 73

Query: 69  PISFFFDVSPTVCSDISSEENN-------VMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
             S+FF+  P     I     N       V++F ++ +G++L R F ++ ++ VR +I++
Sbjct: 74  HPSYFFEDMPDDTQSIGQGAPNQAYIPPEVIEFAASDEGVELIRAFSRVGNLNVRCRIVK 133

Query: 122 LVRSI 126
           L++S+
Sbjct: 134 LLKSL 138


>gi|190895672|ref|YP_001985964.1| transcriptional regulator Cro/CI family [Rhizobium etli CIAT 652]
 gi|218658231|ref|ZP_03514161.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli IE4771]
 gi|190699617|gb|ACE93701.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli CIAT 652]
 gi|327194885|gb|EGE61716.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli CNPAF512]
          Length = 134

 Score = 97.4 bits (241), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 54/131 (41%), Positives = 86/131 (65%), Gaps = 9/131 (6%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+ P+ VD++VGK IR++R++  +SQ +LG+ +G+TFQQ+QKYEKG NRV AS L  I+ 
Sbjct: 2   KEEPHAVDVHVGKTIRIQRLLRKVSQTELGDRVGVTFQQIQKYEKGSNRVSASMLVEIAG 61

Query: 65  VLESPISFFFD--VSPTVCSD--ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            L+  +  FFD   +P   +D    SEE     F+ + +G+ LN  F  I +  +R+KI+
Sbjct: 62  ALKVDVRTFFDDLSTPDTANDNPAPSEE-----FVISREGVLLNAAFFSIKNEALRKKIL 116

Query: 121 ELVRSIVSSEK 131
           +LV++I  +E+
Sbjct: 117 KLVQAIAHTEQ 127


>gi|288957911|ref|YP_003448252.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288910219|dbj|BAI71708.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 353

 Score = 97.4 bits (241), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 41/66 (62%), Positives = 54/66 (81%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD +VG+R+R+RR +LGMSQEKLGE +G+TFQQVQKYE+G NR+ A  L  + +VL+ P+
Sbjct: 125 VDAHVGQRVRMRRTLLGMSQEKLGEAIGLTFQQVQKYERGSNRISAGTLYRLGQVLDVPV 184

Query: 71  SFFFDV 76
           SFFFD 
Sbjct: 185 SFFFDT 190


>gi|86360708|ref|YP_472596.1| Cro/CI family transcriptional regulator [Rhizobium etli CFN 42]
 gi|86284810|gb|ABC93869.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli CFN 42]
          Length = 134

 Score = 97.4 bits (241), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 54/131 (41%), Positives = 85/131 (64%), Gaps = 9/131 (6%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+ P+ VD++VGK IR++R++  +SQ +LG+ +G+TFQQ+QKYEKG NRV AS L  I+ 
Sbjct: 2   KEEPHAVDVHVGKTIRIQRLLRKVSQTELGDRVGVTFQQIQKYEKGSNRVSASMLVEIAG 61

Query: 65  VLESPISFFFD--VSPTVCSD--ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            L   +  FFD   +P   +D    SEE     F+ + +G+ LN  F  I +  +R+KI+
Sbjct: 62  ALNVDVRTFFDDLSTPVTANDNPAPSEE-----FVISREGVLLNAAFFSIKNEALRKKIL 116

Query: 121 ELVRSIVSSEK 131
           +LV++I  +E+
Sbjct: 117 KLVQAIAHTEQ 127


>gi|260432963|ref|ZP_05786934.1| transcriptional regulator, XRE family [Silicibacter
           lacuscaerulensis ITI-1157]
 gi|260416791|gb|EEX10050.1| transcriptional regulator, XRE family [Silicibacter
           lacuscaerulensis ITI-1157]
          Length = 123

 Score = 97.4 bits (241), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 47/118 (39%), Positives = 76/118 (64%), Gaps = 1/118 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + VD++VGKR+R RR ++GM+Q++L + +GI FQQ+QKYE G NR+ ASRL  I+E L
Sbjct: 1   MTHHVDVHVGKRVRHRRWLIGMTQQQLAQQVGIKFQQIQKYETGANRISASRLWDIAEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           + P+SFFF+         S +++   D +   + L L R +  I + + R+++ EL R
Sbjct: 61  DVPVSFFFEGLEETQKADSDKQSVPADLMGDKEALDLVRSYYAIPENQ-RRRLFELAR 117


>gi|254461884|ref|ZP_05075300.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
           HTCC2083]
 gi|206678473|gb|EDZ42960.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
           HTCC2083]
          Length = 135

 Score = 97.4 bits (241), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 50/120 (41%), Positives = 77/120 (64%), Gaps = 3/120 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++G++Q++L E +GI FQQ+QKYE G NRV ASRL  I+E L
Sbjct: 11  MAHPVDVHVGKRIRHRRWLVGVTQQRLAETVGIKFQQIQKYETGANRVSASRLWDIAESL 70

Query: 67  ESPISFFFDVSPTVCSDISSEENNVM--DFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           E  +SFFF       + I   E+  +  D ++  + L L R +  I + + R+++ +L R
Sbjct: 71  EVDVSFFFSGLQNEDAAIGDAESGAVPSDILNDKEALDLVRSYYAIPEEQ-RRRLFDLAR 129


>gi|49475984|ref|YP_034025.1| DNA-binding protein [Bartonella henselae str. Houston-1]
 gi|49238792|emb|CAF28061.1| DNA-binding protein [Bartonella henselae str. Houston-1]
          Length = 118

 Score = 97.4 bits (241), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 47/86 (54%), Positives = 65/86 (75%), Gaps = 7/86 (8%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+  DI+VGK+IR RR I+G+SQ++LG  LGITFQQ+QKYEKG+NRV A RLQ I++ 
Sbjct: 4  KNPHFNDISVGKKIRFRRSIMGLSQKQLGSHLGITFQQIQKYEKGINRVSAGRLQEIADR 63

Query: 66 LESPISFFFDVSPTVCSDISSEENNV 91
          L+ P+SFF+       +DIS +E+ +
Sbjct: 64 LDVPVSFFY-------ADISKKEDTL 82


>gi|49476100|ref|YP_034141.1| DNA binding protein [Bartonella henselae str. Houston-1]
 gi|49238908|emb|CAF28203.1| DNA binding protein [Bartonella henselae str. Houston-1]
          Length = 152

 Score = 97.4 bits (241), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 48/84 (57%), Positives = 64/84 (76%), Gaps = 7/84 (8%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+  DI+VGKRIR RR +LG+SQ++LG  LG+TFQQ+QKYEKG+NRVGA RLQ I+ +
Sbjct: 38  KNPHFNDISVGKRIRYRRKMLGLSQKQLGHSLGVTFQQIQKYEKGINRVGAGRLQEIATL 97

Query: 66  LESPISFFFDVSPTVCSDISSEEN 89
           L+  ISFF+       +DIS +E+
Sbjct: 98  LDVSISFFY-------ADISKKEH 114


>gi|163849609|ref|YP_001637652.1| helix-turn-helix domain-containing protein [Methylobacterium
           extorquens PA1]
 gi|163661214|gb|ABY28581.1| helix-turn-helix domain protein [Methylobacterium extorquens PA1]
          Length = 135

 Score = 97.1 bits (240), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 49/122 (40%), Positives = 73/122 (59%), Gaps = 3/122 (2%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D+ VG RI+  R   G+SQ  LG  +G++FQQ+QKYE G NRVGA RL  I+ VL +P+S
Sbjct: 15  DVIVGLRIQTLRKSRGISQTALGIAIGVSFQQIQKYEIGANRVGAGRLSDIARVLGAPVS 74

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
            FF+         + E+  V D +  P  + L   FI I+D ++R++++ LVRS    E+
Sbjct: 75  VFFEEGDAAA---AQEKTEVFDLLRAPGAVDLLNAFITIEDDRLRREVLALVRSAARMEQ 131

Query: 132 KY 133
            +
Sbjct: 132 DH 133


>gi|295690474|ref|YP_003594167.1| XRE family transcriptional regulator [Caulobacter segnis ATCC
           21756]
 gi|295432377|gb|ADG11549.1| transcriptional regulator, XRE family [Caulobacter segnis ATCC
           21756]
          Length = 135

 Score = 97.1 bits (240), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 42/100 (42%), Positives = 71/100 (71%), Gaps = 1/100 (1%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD+ VG R+R+RR ++G+SQ ++ + LGITFQQ+QKYE+G NR+ AS+L   +++L++
Sbjct: 11  HPVDLYVGARLRIRRKMMGLSQTQVADALGITFQQIQKYERGANRISASKLYDAAKLLQA 70

Query: 69  PISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
           P+S+F++ +  T           + +F+STP+GL+L   F
Sbjct: 71  PVSYFYEGLEDTDGGLDDGFAQRMTEFVSTPEGLELAGLF 110


>gi|163868974|ref|YP_001610203.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018650|emb|CAK02208.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 130

 Score = 97.1 bits (240), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 48/85 (56%), Positives = 64/85 (75%), Gaps = 3/85 (3%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN +DI++GKRIR RR+ +G+SQ++LG  LG++FQQVQKYEKG NRV A RLQ I+  
Sbjct: 11 KNPNFIDISIGKRIRHRRISMGLSQKELGSHLGVSFQQVQKYEKGFNRVSAGRLQEIANR 70

Query: 66 LESPISFFF-DVSPTVCSDISSEEN 89
          LE PI FF+ D++     DI ++EN
Sbjct: 71 LEVPIHFFYADIA--TKEDIPTKEN 93


>gi|85706845|ref|ZP_01037936.1| DNA-binding protein, putative [Roseovarius sp. 217]
 gi|85668638|gb|EAQ23508.1| DNA-binding protein, putative [Roseovarius sp. 217]
          Length = 124

 Score = 97.1 bits (240), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 50/119 (42%), Positives = 76/119 (63%), Gaps = 2/119 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I+E L
Sbjct: 1   MPHPVDVHVGKRIRHRRWLVGMTQQQLAESVGIKFQQIQKYETGANRVSASRLWDIAESL 60

Query: 67  ESPISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +  ISFFF+ +      +    +    D +   + L L R +  I + + R+++ +L R
Sbjct: 61  DVTISFFFEGLEQDGGVEREKSDPARADLMGDKEALDLVRSYYAIPENQ-RRRLFDLAR 118


>gi|240851140|ref|YP_002972542.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268263|gb|ACS51851.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 151

 Score = 96.7 bits (239), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 44/84 (52%), Positives = 65/84 (77%), Gaps = 7/84 (8%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+  DI++G++IR +R ++GMSQ++LG  LG+TFQQ+QKYEKG NR+GA RLQ I+++
Sbjct: 38  KNPHFNDISIGRKIRFKRTMIGMSQKQLGSQLGVTFQQIQKYEKGSNRIGAGRLQEIADI 97

Query: 66  LESPISFFFDVSPTVCSDISSEEN 89
           LE P SFF+       +D+S++EN
Sbjct: 98  LEVPSSFFY-------TDLSTKEN 114


>gi|149203704|ref|ZP_01880673.1| DNA-binding protein, putative [Roseovarius sp. TM1035]
 gi|149142821|gb|EDM30863.1| DNA-binding protein, putative [Roseovarius sp. TM1035]
          Length = 124

 Score = 96.7 bits (239), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 50/119 (42%), Positives = 76/119 (63%), Gaps = 2/119 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I+E L
Sbjct: 1   MPHPVDVHVGKRIRHRRWLVGMTQQQLAESVGIKFQQIQKYETGANRVSASRLWDIAESL 60

Query: 67  ESPISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +  ISFFF+ +      +    +    D +   + L L R +  I + + R+++ +L R
Sbjct: 61  DVEISFFFEGLDQEGGVEREKSDPARADLMGDKEALDLVRSYYAIPENQ-RRRLFDLAR 118


>gi|260426926|ref|ZP_05780905.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
 gi|260421418|gb|EEX14669.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
          Length = 123

 Score = 96.7 bits (239), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 50/118 (42%), Positives = 74/118 (62%), Gaps = 1/118 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I++ L
Sbjct: 1   MTHPVDVHVGKRIRHRRWLVGMTQQQLAEQVGIKFQQIQKYETGANRVSASRLWDIADAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +  +SFFF+   T      S      D +   + L L R +  I + + R+++ EL R
Sbjct: 61  DVSVSFFFEGLETEQDAPVSAAAMPSDILGDKEALDLVRSYYAIPENQ-RRRLFELAR 117


>gi|209963989|ref|YP_002296904.1| DNA-binding protein, putative [Rhodospirillum centenum SW]
 gi|209957455|gb|ACI98091.1| DNA-binding protein, putative [Rhodospirillum centenum SW]
          Length = 156

 Score = 96.7 bits (239), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 55/123 (44%), Positives = 85/123 (69%), Gaps = 3/123 (2%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNP+DI+VG+R+RLRR +LG+SQE LGE +GITFQQ+QKYE+G NR+ ASRL ++S+VL 
Sbjct: 25  PNPIDIHVGQRLRLRRTLLGLSQETLGEAVGITFQQLQKYERGANRISASRLFNLSQVLG 84

Query: 68  SPISFFFDVSPTVCSDI---SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            P++FFF+  P    +       E    + ++  + L+L R + +I D  VR++  +LV+
Sbjct: 85  VPVTFFFEDLPASGPEAPLDGGSETQEFESMARRETLELVRAYYRIPDEGVRRRAFDLVK 144

Query: 125 SIV 127
           ++ 
Sbjct: 145 ALA 147


>gi|159045315|ref|YP_001534109.1| putative transcriptional regulator [Dinoroseobacter shibae DFL 12]
 gi|157913075|gb|ABV94508.1| putative transcriptional regulator [Dinoroseobacter shibae DFL 12]
          Length = 123

 Score = 96.7 bits (239), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 47/118 (39%), Positives = 77/118 (65%), Gaps = 1/118 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKR+R RR ++GM+Q++L + +GI FQQ+QKYE G+NRV ASRL  I+  L
Sbjct: 1   MKHPVDVHVGKRVRHRRWMVGMTQQQLADKVGIKFQQIQKYETGMNRVSASRLWEIASSL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
             P+SFFF+         + + +   D +S  + L+L R +  I + + R+++ +L R
Sbjct: 61  GVPVSFFFEGLGAAQVAQTHDIDMPGDLLSDKEALELVRSYYAIPETQ-RRRLFDLAR 117


>gi|241667081|ref|YP_002985165.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240862538|gb|ACS60203.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 134

 Score = 96.3 bits (238), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 54/131 (41%), Positives = 87/131 (66%), Gaps = 9/131 (6%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+ P+ VD++VGK IR++R++  +SQ +LG+ +G+TFQQ+QKYEKG NRV AS L  I+ 
Sbjct: 2   KEEPHSVDVHVGKTIRIQRLLRKVSQTELGDRVGVTFQQIQKYEKGSNRVSASMLVEIAG 61

Query: 65  VLESPISFFFD--VSPTVCSD--ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            L+  +  FFD   +P   +D    SEE     F+ + +G+ LN  F  I +  +R+KI+
Sbjct: 62  ALKVDVRTFFDDLSTPDNANDNPAPSEE-----FVISREGVLLNAAFFSIKNEALRKKIL 116

Query: 121 ELVRSIVSSEK 131
           +LV++I ++E+
Sbjct: 117 KLVQAIANTEQ 127


>gi|240851142|ref|YP_002972544.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268265|gb|ACS51853.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 130

 Score = 96.3 bits (238), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 44/86 (51%), Positives = 66/86 (76%), Gaps = 7/86 (8%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+  DI++G++IR +R ++GMSQ++LG  LG+TFQQ+QKYEKG NR+GA RLQ I+++
Sbjct: 16 KNPHFNDISIGRKIRFKRTMIGMSQKQLGSQLGVTFQQIQKYEKGSNRIGAGRLQEIADI 75

Query: 66 LESPISFFFDVSPTVCSDISSEENNV 91
          LE P SFF+       +D+S++EN +
Sbjct: 76 LEVPSSFFY-------ADLSTKENAL 94


>gi|114762993|ref|ZP_01442423.1| DNA-binding protein, putative [Pelagibaca bermudensis HTCC2601]
 gi|114544317|gb|EAU47325.1| DNA-binding protein, putative [Roseovarius sp. HTCC2601]
          Length = 127

 Score = 95.9 bits (237), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 41/69 (59%), Positives = 56/69 (81%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +PVD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I++ L
Sbjct: 1  MTHPVDVHVGKRIRHRRWLVGMTQQQLAEQVGIKFQQIQKYETGANRVSASRLWDIADAL 60

Query: 67 ESPISFFFD 75
          E P+SFFF+
Sbjct: 61 EVPVSFFFE 69


>gi|114327057|ref|YP_744214.1| transcriptional regulator [Granulibacter bethesdensis CGDNIH1]
 gi|114315231|gb|ABI61291.1| transcriptional regulator [Granulibacter bethesdensis CGDNIH1]
          Length = 152

 Score = 95.9 bits (237), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 52/133 (39%), Positives = 80/133 (60%), Gaps = 13/133 (9%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PN +D++VG+RIRLRR  LG+S++KLG+ +GI+  Q+QKYE G  R GA RL  ++  ++
Sbjct: 18  PNTLDLHVGRRIRLRRAFLGVSEQKLGDLIGISASQIQKYETGTLRAGAVRLFDLARAMD 77

Query: 68  SPISFFFDVSP--TVCSDISSEENNVMDFISTPDG-----------LQLNRYFIQIDDVK 114
             ISFFFD  P   V +   +  + +  F    +G           L+L + F +I D  
Sbjct: 78  VSISFFFDEMPEQEVANHGVAAISRLGGFAEPQEGFGDGDTMRQEALELIQAFFRITDPA 137

Query: 115 VRQKIIELVRSIV 127
           VR++I+EL+RS+ 
Sbjct: 138 VRERILELIRSLA 150


>gi|119384129|ref|YP_915185.1| XRE family transcriptional regulator [Paracoccus denitrificans
           PD1222]
 gi|119373896|gb|ABL69489.1| transcriptional regulator, XRE family [Paracoccus denitrificans
           PD1222]
          Length = 119

 Score = 95.9 bits (237), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 51/123 (41%), Positives = 78/123 (63%), Gaps = 15/123 (12%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + VD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G+NRV ASRL  I++ +
Sbjct: 1   MKHNVDVHVGKRIRHRRWMIGMTQQQLAEKVGIKFQQIQKYETGMNRVSASRLWDIAQAV 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVM-----DFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           + P+SFFF+           E+ +V      D ++  + LQL R +  + + + RQ I E
Sbjct: 61  DVPVSFFFE---------GLEDGHVHNAVEGDILADKEALQLVRAYYAMPEAQRRQ-IFE 110

Query: 122 LVR 124
           L R
Sbjct: 111 LAR 113


>gi|116255803|ref|YP_771636.1| HTH family transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|115260451|emb|CAK03555.1| putative HTH family transcriptional regulator [Rhizobium
           leguminosarum bv. viciae 3841]
          Length = 134

 Score = 95.9 bits (237), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 54/131 (41%), Positives = 86/131 (65%), Gaps = 9/131 (6%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+ P+ VD++VGK IR++R++  +SQ +LG+ +G+TFQQ+QKYEKG NRV AS L  I+ 
Sbjct: 2   KEEPHSVDVHVGKTIRIQRLLRKVSQTELGDRVGVTFQQIQKYEKGSNRVSASMLVEIAG 61

Query: 65  VLESPISFFFD--VSPTVCSD--ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            L+  +  FFD   +P   +D    SEE     F+ + +G+ LN  F  I +  +R+KI+
Sbjct: 62  ALKVDVRTFFDDLSTPDNANDNPAPSEE-----FVISREGVLLNAAFFSIKNEALRKKIL 116

Query: 121 ELVRSIVSSEK 131
           +LV++I  +E+
Sbjct: 117 KLVQAIAHTEQ 127


>gi|188580238|ref|YP_001923683.1| XRE family transcriptional regulator [Methylobacterium populi
           BJ001]
 gi|179343736|gb|ACB79148.1| transcriptional regulator, XRE family [Methylobacterium populi
           BJ001]
          Length = 135

 Score = 95.9 bits (237), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 52/127 (40%), Positives = 73/127 (57%), Gaps = 3/127 (2%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    VD  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKG NRVGA RL+ I+ +
Sbjct: 4   KQTTDVDRLVGLRITALRKARGLSQTALGTAVGVTFQQVQKYEKGQNRVGAGRLREIARL 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE P+S FF+         + E+  V  F+     + L R F  I+D ++R++++ +VRS
Sbjct: 64  LEVPVSAFFEEGDGAA---AQEQTEVFGFLRAHGAVDLLRAFASIEDDQMRREVLAIVRS 120

Query: 126 IVSSEKK 132
                +K
Sbjct: 121 AARLGRK 127


>gi|163733431|ref|ZP_02140874.1| transcriptional regulator, Cro/CI family, putative [Roseobacter
           litoralis Och 149]
 gi|161393219|gb|EDQ17545.1| transcriptional regulator, Cro/CI family, putative [Roseobacter
           litoralis Och 149]
          Length = 125

 Score = 95.9 bits (237), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 49/116 (42%), Positives = 75/116 (64%), Gaps = 3/116 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD++VGKRIR RR ++GM+Q+KL EC+GI FQQ+QKYE G NRV ASRL  I++ L+  +
Sbjct: 5   VDVHVGKRIRQRRWLVGMTQQKLAECVGIKFQQIQKYETGANRVSASRLWDIADALDVDV 64

Query: 71  SFFFD-VSPTVCSDISSEENNV-MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +FFF+ +      D     ++V  D +   + + L R +  I + + R+++ EL R
Sbjct: 65  AFFFEGLREEAGKDAPEPASSVPADMMGDKEAMDLVRSYYAIPENQ-RRRLFELAR 119


>gi|218529168|ref|YP_002419984.1| XRE family transcriptional regulator [Methylobacterium
           chloromethanicum CM4]
 gi|218521471|gb|ACK82056.1| transcriptional regulator, XRE family [Methylobacterium
           chloromethanicum CM4]
          Length = 142

 Score = 95.5 bits (236), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 51/122 (41%), Positives = 72/122 (59%), Gaps = 3/122 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKG NRVGA RL+ I+ +LE P+
Sbjct: 9   VDRLVGLRITALRKARGLSQTALGTAVGVTFQQVQKYEKGQNRVGAGRLREIARLLEVPV 68

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           S FF+         + E+  V  F+     + L R F  I+D ++R++++ +VRS     
Sbjct: 69  SAFFEEGDGAA---AQEQTEVFGFLRAHGAVDLLRAFATIEDDQMRREVLAIVRSAARLG 125

Query: 131 KK 132
           +K
Sbjct: 126 RK 127


>gi|163852933|ref|YP_001640976.1| helix-turn-helix domain-containing protein [Methylobacterium
           extorquens PA1]
 gi|163664538|gb|ABY31905.1| helix-turn-helix domain protein [Methylobacterium extorquens PA1]
          Length = 135

 Score = 95.5 bits (236), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 49/120 (40%), Positives = 73/120 (60%), Gaps = 3/120 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+RI++ R   G+SQ  LG  L +TFQQ+QKYE GVNRVGASRL  ++ VLE P+S FF+
Sbjct: 19  GQRIKMLRKSKGISQSVLGRALSVTFQQIQKYENGVNRVGASRLSEVARVLEVPVSTFFE 78

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
               +   +   +    +F+  P  + L   FI I+D ++R++++ LVRS    E+   T
Sbjct: 79  EGSGL---VEQGQKEAFEFLRVPGAVDLLNAFITIEDDRLRREVLALVRSATRREQDQGT 135


>gi|163850474|ref|YP_001638517.1| helix-turn-helix domain-containing protein [Methylobacterium
           extorquens PA1]
 gi|240137535|ref|YP_002962006.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens AM1]
 gi|254560007|ref|YP_003067102.1| XRE family transcriptional regulator [Methylobacterium extorquens
           DM4]
 gi|163662079|gb|ABY29446.1| helix-turn-helix domain protein [Methylobacterium extorquens PA1]
 gi|240007503|gb|ACS38729.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens AM1]
 gi|254267285|emb|CAX23117.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens DM4]
          Length = 142

 Score = 95.5 bits (236), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 51/122 (41%), Positives = 72/122 (59%), Gaps = 3/122 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKG NRVGA RL+ I+ +LE P+
Sbjct: 9   VDRLVGLRITALRKARGLSQTALGTAVGVTFQQVQKYEKGQNRVGAGRLREIARLLEVPV 68

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           S FF+         + E+  V  F+     + L R F  I+D ++R++++ +VRS     
Sbjct: 69  SAFFEEGDGAA---AQEQTEVFGFLRAHGAVDLLRAFATIEDDQMRREVLAIVRSAARLG 125

Query: 131 KK 132
           +K
Sbjct: 126 RK 127


>gi|329847359|ref|ZP_08262387.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328842422|gb|EGF91991.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 116

 Score = 95.5 bits (236), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 50/114 (43%), Positives = 74/114 (64%), Gaps = 4/114 (3%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD-VSPT 79
           +RR  LGMSQE L E + +TFQQVQKYE+G NR+ AS+L  I+  L++P+++FF+    T
Sbjct: 1   MRRKFLGMSQEGLAEVIDLTFQQVQKYERGSNRISASKLYEIARALKAPVAYFFEGYGET 60

Query: 80  VCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
              +  SE   E  V  F+ T +G++L   F +I   K+R+K++ELVR +  SE
Sbjct: 61  EAVEGFSESESEQFVHGFLMTTEGIELAEAFPRIRSAKLRRKVLELVRVLGESE 114


>gi|110679288|ref|YP_682295.1| Cro/CI family transcriptional regulator putative [Roseobacter
           denitrificans OCh 114]
 gi|109455404|gb|ABG31609.1| transcriptional regulator, Cro/CI family, putative [Roseobacter
           denitrificans OCh 114]
          Length = 125

 Score = 95.5 bits (236), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 49/116 (42%), Positives = 75/116 (64%), Gaps = 3/116 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD++VGKRIR RR ++GM+Q+KL EC+GI FQQ+QKYE G NRV ASRL  I++ L+  +
Sbjct: 5   VDVHVGKRIRQRRWLVGMTQQKLAECVGIKFQQIQKYETGANRVSASRLWDIADALDVDV 64

Query: 71  SFFFD-VSPTVCSDISSEENNV-MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +FFF+ +      D     ++V  D +   + + L R +  I + + R+++ EL R
Sbjct: 65  AFFFEGLREEAGKDAPEPTSSVPADMMGDKEAMDLVRSYYAIPENQ-RRRLFELAR 119


>gi|329848346|ref|ZP_08263374.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328843409|gb|EGF92978.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 115

 Score = 95.1 bits (235), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 44/110 (40%), Positives = 73/110 (66%), Gaps = 3/110 (2%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD--VSP 78
           +RR  +G+SQ+ LG+ +G+TFQQVQKYE+G NR+ AS+L HI +VL+ PI +FFD     
Sbjct: 1   MRRKFMGISQQVLGDSIGLTFQQVQKYERGSNRISASKLWHIGQVLKVPIDYFFDGFAGG 60

Query: 79  TVCSDI-SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
               D     E  +  F++T +G++L   F ++   K+R+K+++LV+++ 
Sbjct: 61  EAPEDAPGGTEAKINAFLTTTEGIELAEVFPKVSGPKLRRKVLDLVKALA 110


>gi|86140033|ref|ZP_01058597.1| DNA-binding protein, putative [Roseobacter sp. MED193]
 gi|85823283|gb|EAQ43494.1| DNA-binding protein, putative [Roseobacter sp. MED193]
          Length = 122

 Score = 94.7 bits (234), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 49/118 (41%), Positives = 74/118 (62%), Gaps = 2/118 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++G +Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ +
Sbjct: 1   MAHPVDVHVGKRIRHRRWLIGKTQQQLAEQVGIKFQQIQKYETGANRVSASRLWDISDAM 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           + P+SFFF+       D   +     D +   + L L R +  I + + R+++ EL R
Sbjct: 61  DVPVSFFFEGLDEEAKD-GGKSAVPDDLMGDKEALDLVRSYYAIPENQ-RRRLFELAR 116


>gi|163869008|ref|YP_001610238.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018685|emb|CAK02243.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 126

 Score = 94.0 bits (232), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 46/89 (51%), Positives = 68/89 (76%), Gaps = 7/89 (7%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+  DI +GKRIRLRR +L +SQ++LG+ LG+TFQQ+QKYEKG+NRVGA RLQ I+++
Sbjct: 11 KNPHSNDILIGKRIRLRREMLKISQKQLGDRLGVTFQQIQKYEKGLNRVGAGRLQEIADI 70

Query: 66 LESPISFFFDVSPTVCSDISSEENNVMDF 94
          L+  I FF+       +DIS++E+ ++ +
Sbjct: 71 LDISIFFFY-------ADISTKEHVLLPY 92


>gi|163868772|ref|YP_001609996.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018443|emb|CAK02001.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 119

 Score = 93.6 bits (231), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 43/79 (54%), Positives = 60/79 (75%), Gaps = 7/79 (8%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ VGK+IRL+R ILGMSQ+ LG+ LG++FQQ+QKYEKG+NRV A RL+ IS++L  P+
Sbjct: 8  IDLFVGKKIRLKRKILGMSQKTLGDALGVSFQQIQKYEKGLNRVSAGRLKEISDILNVPV 67

Query: 71 SFFFDVSPTVCSDISSEEN 89
           FF+       +DI + EN
Sbjct: 68 FFFY-------TDIITNEN 79


>gi|114799059|ref|YP_759118.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114739233|gb|ABI77358.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 143

 Score = 93.6 bits (231), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 48/121 (39%), Positives = 74/121 (61%), Gaps = 10/121 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N VD  VG+R+R RR++LG++Q+++ + LGI++QQ+QKYE G NR+ A RL  I+EVLE 
Sbjct: 10  NQVDRQVGERMRRRRILLGLTQDQVADALGISYQQIQKYETGANRISAGRLAQIAEVLEV 69

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
              +FF V P       S    V++ +         R F +I+D +VR  ++ L+RS+  
Sbjct: 70  LPGWFFGV-PEAADAPGSSSRAVIELV---------RNFSRIEDERVRTHLMALMRSLSG 119

Query: 129 S 129
           S
Sbjct: 120 S 120


>gi|218532679|ref|YP_002423495.1| XRE family transcriptional regulator [Methylobacterium
           chloromethanicum CM4]
 gi|218524982|gb|ACK85567.1| transcriptional regulator, XRE family [Methylobacterium
           chloromethanicum CM4]
          Length = 134

 Score = 93.2 bits (230), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 48/117 (41%), Positives = 69/117 (58%), Gaps = 4/117 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+RI + R   G+SQ  LG  +G+TFQQVQKYE G+NRVGASRL  I+ VL   ++ FF
Sbjct: 18  VGERIHVLRKSKGLSQTALGSAIGVTFQQVQKYENGMNRVGASRLSDIARVLGVSVAVFF 77

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           +           E+      +  P  + L R FI I+D ++R++++ LVRS    E+
Sbjct: 78  EEGDAAA----PEKTEAFGLLHAPGAVDLLRAFITIEDDQLRREVLALVRSAARMEQ 130


>gi|114328663|ref|YP_745820.1| transcriptional regulator [Granulibacter bethesdensis CGDNIH1]
 gi|114316837|gb|ABI62897.1| transcriptional regulator [Granulibacter bethesdensis CGDNIH1]
          Length = 184

 Score = 93.2 bits (230), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 49/139 (35%), Positives = 82/139 (58%), Gaps = 18/139 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +VG RIR RR++LG+SQ++L + +G+T+QQ  KYE+G+NR+ A RL  IS VL  PIS+F
Sbjct: 53  HVGNRIRERRVMLGLSQQQLAQMIGVTYQQAHKYERGLNRISAGRLYQISHVLNVPISWF 112

Query: 74  FD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS--- 128
           FD   + +  +D+++ +            L+L R F  ID+ K ++ + ++ R++ +   
Sbjct: 113 FDGFATESKTADLTTRQRMC---------LELARNFAAIDNEKHQEALSQMARALAAQSV 163

Query: 129 ----SEKKYRTIEEECMVE 143
               ++  Y T  EE   E
Sbjct: 164 ANKMAQDGYATALEESREE 182


>gi|163849608|ref|YP_001637651.1| helix-turn-helix domain-containing protein [Methylobacterium
           extorquens PA1]
 gi|163661213|gb|ABY28580.1| helix-turn-helix domain protein [Methylobacterium extorquens PA1]
          Length = 134

 Score = 93.2 bits (230), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 50/126 (39%), Positives = 78/126 (61%), Gaps = 4/126 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    +D  VG+RI++ R   G++Q  LG+ +G+TFQQVQKYE G+NRVGASRL  I+ V
Sbjct: 9   KRATDLDRLVGERIQVLRKSKGLTQTALGQAIGVTFQQVQKYENGMNRVGASRLSDIARV 68

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE  +S F+D       D +     V  F+ T   + L R F +I+D ++R++++ +VR+
Sbjct: 69  LEVRVSSFYDGDEGEGEDRA----EVFGFLRTHGAIDLLRAFSEIEDDQLRREVLAIVRT 124

Query: 126 IVSSEK 131
           +   E+
Sbjct: 125 VARVEQ 130


>gi|23013262|ref|ZP_00053178.1| COG1396: Predicted transcriptional regulators [Magnetospirillum
           magnetotacticum MS-1]
          Length = 118

 Score = 92.8 bits (229), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 50/117 (42%), Positives = 70/117 (59%), Gaps = 13/117 (11%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD--------VSPT 79
           MSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL+ P+SFFFD         SP 
Sbjct: 1   MSQEKLGEAIGLTFQQVQKYERGANRIGASRLFDLSRVLDVPVSFFFDDMGEDAQSSSPA 60

Query: 80  V-----CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
                     ++   +  D ++  + L+L R +  I D  VR+K  EL +++  S+K
Sbjct: 61  AVIKGEAVTTAASPGDERDPMAKRETLELVRAYYSITDESVRRKAYELAKTLGGSDK 117


>gi|163869143|ref|YP_001610382.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018829|emb|CAK02387.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 121

 Score = 92.8 bits (229), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 54/113 (47%), Positives = 72/113 (63%), Gaps = 5/113 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ VGK+IRLRR  L MSQ  LG  LGI+FQQVQKYEKG+NRV A RL  IS++L  PI
Sbjct: 8   IDLFVGKKIRLRRKRLKMSQTTLGNALGISFQQVQKYEKGLNRVSAGRLMEISDILNVPI 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           SFF+    T    +SS +    + IS  +  QL + F  +  +K R  I++L+
Sbjct: 68  SFFYADIITKQHALSSHD----EVISNTEEYQLLKKFRVLTTIKKR-AILQLL 115


>gi|163794400|ref|ZP_02188372.1| Predicted transcriptional regulator [alpha proteobacterium BAL199]
 gi|159180568|gb|EDP65089.1| Predicted transcriptional regulator [alpha proteobacterium BAL199]
          Length = 157

 Score = 92.4 bits (228), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 57/135 (42%), Positives = 88/135 (65%), Gaps = 17/135 (12%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           NP+D++VG+R+RLRR +LGMSQE+LG+ L ITFQQVQKYE+G NR+ ASRL  I ++L+ 
Sbjct: 21  NPIDVHVGRRVRLRRTLLGMSQEQLGDALNITFQQVQKYERGSNRISASRLWDIGQILDV 80

Query: 69  PISFFFDVSPTVCSDISSE--------------ENNVMDFISTPDGLQLNRYFIQIDDVK 114
           P+SFFFD    +  D ++               E N  D ++  + L+L R +  I +  
Sbjct: 81  PVSFFFD---DISDDTAAHSPRRMKAGGAKDEYEENPADPMARRETLELVRAYYSIKNPN 137

Query: 115 VRQKIIELVRSIVSS 129
           +R++I E+V+S+ ++
Sbjct: 138 LRKRITEMVKSVATA 152


>gi|126735102|ref|ZP_01750848.1| putative Cro/CI transcriptional regulator [Roseobacter sp. CCS2]
 gi|126715657|gb|EBA12522.1| putative Cro/CI transcriptional regulator [Roseobacter sp. CCS2]
          Length = 123

 Score = 92.0 bits (227), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 49/119 (41%), Positives = 79/119 (66%), Gaps = 3/119 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVDI+VGKRIR RR + G +Q++L E +GI FQQ+QKYE G+NRV ASRL  I++VL
Sbjct: 1   MKHPVDIHVGKRIRHRRWMNGTTQQQLAEAVGIKFQQIQKYETGMNRVSASRLWDIAKVL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNV-MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
              +SFFF+      +D+ +  +++  D ++  + L L R +  I + + R+++ +L R
Sbjct: 61  GVNVSFFFE-GLDAQTDLDANNSDMPGDILTDKEALDLLRSYYAIPENQ-RRRLFDLAR 117


>gi|240851449|ref|YP_002972836.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268572|gb|ACS52159.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 118

 Score = 92.0 bits (227), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 50/99 (50%), Positives = 67/99 (67%), Gaps = 14/99 (14%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+  DI+VGK+IR RR  +G+SQEKLG+ +G++FQQ+QKYE G NRVGA RLQ I+ +
Sbjct: 4   KTPHLNDISVGKKIRCRRKYMGISQEKLGKKIGVSFQQIQKYENGSNRVGAGRLQEIANI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTP--DGLQ 102
           L+  ISFF+       +DIS + N     IS P  +GL 
Sbjct: 64  LDVDISFFY-------TDISEKRN-----ISYPYNEGLH 90


>gi|148284085|ref|YP_001248175.1| putative transcriptional regulator [Orientia tsutsugamushi str.
           Boryong]
 gi|146739524|emb|CAM79234.1| putative transcriptional regulator [Orientia tsutsugamushi str.
           Boryong]
          Length = 146

 Score = 92.0 bits (227), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 50/142 (35%), Positives = 87/142 (61%), Gaps = 19/142 (13%)

Query: 8   PNP--------VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           PNP        +D+ V KR+++RR+ILG+SQ+KL E + ++ QQ+QKYEK  NR+ + +L
Sbjct: 5   PNPNSNTKVDSIDLYVSKRLKMRRVILGLSQKKLAEAVDVSIQQIQKYEKSTNRISSGKL 64

Query: 60  QHISEVLESPISFFFD--VSPTVCSD-------ISSEENNVM--DFISTPDGLQLNRYFI 108
             ++ +L+ PI +FF+   S T C +        + ++ N +  D ++  + L L + F 
Sbjct: 65  YSLANLLKVPIGYFFENASSYTDCKNNVNTISIFAEDQENFLSDDTVTEKEVLNLIKAFN 124

Query: 109 QIDDVKVRQKIIELVRSIVSSE 130
           ++ +  VR+KII+LV+SI + E
Sbjct: 125 EVKNSHVRKKIIDLVKSIKAME 146


>gi|189184272|ref|YP_001938057.1| hypothetical protein OTT_1365 [Orientia tsutsugamushi str. Ikeda]
 gi|189181043|dbj|BAG40823.1| hypothetical protein OTT_1365 [Orientia tsutsugamushi str. Ikeda]
          Length = 146

 Score = 92.0 bits (227), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 50/142 (35%), Positives = 87/142 (61%), Gaps = 19/142 (13%)

Query: 8   PNP--------VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           PNP        +D+ V KR+++RR+ILG+SQ+KL E + ++ QQ+QKYEK  NR+ + +L
Sbjct: 5   PNPNSNTKVDSIDLYVSKRLKMRRVILGLSQKKLAEAVDVSIQQIQKYEKSTNRISSGKL 64

Query: 60  QHISEVLESPISFFFD--VSPTVCSD-------ISSEENNVM--DFISTPDGLQLNRYFI 108
             ++ +L+ PI +FF+   S T C +        + ++ N +  D ++  + L L + F 
Sbjct: 65  YSLANLLKVPIGYFFENASSYTDCKNNVNTISVFAEDQENFLSDDTVTEKEVLNLIKAFN 124

Query: 109 QIDDVKVRQKIIELVRSIVSSE 130
           ++ +  VR+KII+LV+SI + E
Sbjct: 125 EVKNSHVRKKIIDLVKSIKAME 146


>gi|83312661|ref|YP_422925.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82947502|dbj|BAE52366.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 121

 Score = 92.0 bits (227), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 47/111 (42%), Positives = 72/111 (64%), Gaps = 9/111 (8%)

Query: 26  LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD-VSPTVCSD- 83
           +G+SQE LGE LG+TFQQ+QKYE+G NR+GASRL  +S  LE P+ +F+D +SP V +  
Sbjct: 1   MGLSQEALGEALGLTFQQIQKYERGANRIGASRLFDLSRALEVPVEYFYDEMSPDVMAAS 60

Query: 84  ----ISSEENNV---MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
               + + +  V   +D +S  + L L R + +I D  VR+++ EL R++ 
Sbjct: 61  PRHMVRATQEPVPQQIDPMSKRETLDLVRTYYKIGDPNVRKRVYELARALA 111


>gi|310816677|ref|YP_003964641.1| transcriptional regulator, XRE family [Ketogulonicigenium vulgare
           Y25]
 gi|308755412|gb|ADO43341.1| transcriptional regulator, XRE family [Ketogulonicigenium vulgare
           Y25]
          Length = 119

 Score = 92.0 bits (227), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 46/118 (38%), Positives = 76/118 (64%), Gaps = 5/118 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + VD+ VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I+  L
Sbjct: 1   MAHTVDVYVGKRIRQRRWLIGMTQQQLAEHVGIKFQQIQKYETGANRVSASRLWEIAHAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            + IS+F++      +  ++E++ + + +   + ++L R +  I + + R+ I EL R
Sbjct: 61  GTSISYFYE----GMNAAATEDSTLNEELWGREAMELLRSYYAIPEDQ-RRHIFELAR 113


>gi|163869006|ref|YP_001610236.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018683|emb|CAK02241.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 142

 Score = 92.0 bits (227), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 44/89 (49%), Positives = 68/89 (76%), Gaps = 7/89 (7%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+  DI++G++IR RR +L MSQ++LG+ LG+TFQQ+QKYEKG+NRVGA RLQ I+++
Sbjct: 11 KNPHFNDISIGRKIRFRREMLKMSQKQLGDRLGVTFQQIQKYEKGLNRVGAGRLQEIADI 70

Query: 66 LESPISFFFDVSPTVCSDISSEENNVMDF 94
          L+  I FF+       +DIS++E+ ++ +
Sbjct: 71 LDISIFFFY-------ADISTKEHVLLPY 92


>gi|114570052|ref|YP_756732.1| XRE family transcriptional regulator [Maricaulis maris MCS10]
 gi|114340514|gb|ABI65794.1| transcriptional regulator, XRE family [Maricaulis maris MCS10]
          Length = 136

 Score = 92.0 bits (227), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 45/128 (35%), Positives = 77/128 (60%), Gaps = 1/128 (0%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             + P  +D +VG R+R+ R+   +SQE LGE  G++F Q+QKYE+G  R+ ASRL  ++
Sbjct: 7   GHQFPLQIDQHVGARLRVGRIEFCLSQEALGERFGVSFHQIQKYERGAYRISASRLFVLA 66

Query: 64  EVLESPISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
             L  P+ FFFD +         SE+ ++  FI++  G+ L   F +I + ++RQ++I+L
Sbjct: 67  NALLVPVQFFFDGLDDDGPQSAGSEDTDLYRFIASSAGVTLALAFSRIGNHEIRQRVIDL 126

Query: 123 VRSIVSSE 130
           V ++   +
Sbjct: 127 VHALAKQD 134


>gi|254559382|ref|YP_003066477.1| XRE family transcriptional regulator [Methylobacterium extorquens
           DM4]
 gi|254266660|emb|CAX22437.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens DM4]
          Length = 158

 Score = 91.7 bits (226), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 49/121 (40%), Positives = 77/121 (63%), Gaps = 4/121 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  VG+RI++ R   G++Q  LG+ +G+TFQQVQKYE G+NRVGASRL  I+ VLE  +
Sbjct: 38  LDRLVGERIQVLRKSKGLTQTALGQAIGVTFQQVQKYENGMNRVGASRLSDIARVLEVRV 97

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           S F+D       D +     V  F+ T   + L R F +I+D ++R++++ +VR++   E
Sbjct: 98  SSFYDGDEGEGEDRAE----VFGFLRTHGAIDLLRAFSEIEDDQLRREVLAIVRTVARVE 153

Query: 131 K 131
           +
Sbjct: 154 Q 154


>gi|240850955|ref|YP_002972355.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268078|gb|ACS51666.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 119

 Score = 91.7 bits (226), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 41/68 (60%), Positives = 55/68 (80%), Gaps = 1/68 (1%)

Query: 8  PN-PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          PN  +D+ VGK+IR RR +L MSQ+ LG  LG+TFQQ+QKYEKG+NRV A RL+ IS++L
Sbjct: 4  PNLNIDLFVGKKIRFRRKMLKMSQKTLGHHLGVTFQQIQKYEKGLNRVSAGRLKEISDIL 63

Query: 67 ESPISFFF 74
          + PI+FF+
Sbjct: 64 DVPIAFFY 71


>gi|163869009|ref|YP_001610239.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018686|emb|CAK02244.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 146

 Score = 91.7 bits (226), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 43/89 (48%), Positives = 68/89 (76%), Gaps = 7/89 (7%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+  DI++G++IR RR +L +SQ++LG+ LG+TFQQ+QKYEKG+NRVGA RLQ I+++
Sbjct: 11 KNPHSNDISIGRKIRFRRKMLKISQKELGDRLGVTFQQIQKYEKGLNRVGAGRLQEIADI 70

Query: 66 LESPISFFFDVSPTVCSDISSEENNVMDF 94
          L+  I FF+       +DIS++E+ ++ +
Sbjct: 71 LDISIFFFY-------ADISTKEHVLLPY 92


>gi|126727971|ref|ZP_01743794.1| DNA-binding protein, putative [Rhodobacterales bacterium HTCC2150]
 gi|126702744|gb|EBA01854.1| DNA-binding protein, putative [Rhodobacterales bacterium HTCC2150]
          Length = 122

 Score = 91.7 bits (226), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 49/119 (41%), Positives = 77/119 (64%), Gaps = 2/119 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKR+R RR ++GM+Q++L E +GI FQQ+QKYE G+NR+ ASRL  I+E L
Sbjct: 1   MKHPVDVHVGKRVRHRRWMVGMTQQQLAEKVGIKFQQIQKYETGMNRISASRLWAIAENL 60

Query: 67  ESPISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +  ISFFF+ +     +     E    +  S  + L+L R +  I + + R+++ EL R
Sbjct: 61  DVQISFFFEGLEGNEKASDQKFEGMPENVFSDKEALELVRCYYAIPENQ-RKRLFELAR 118


>gi|163869148|ref|YP_001610388.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018835|emb|CAK02393.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 121

 Score = 91.3 bits (225), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 40/64 (62%), Positives = 51/64 (79%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ VGK+IRLRR +L MSQ  LG  LG++FQQ+QKYEKG+NRV A RL  IS++L  PI
Sbjct: 8  IDLLVGKKIRLRRQMLKMSQTTLGHALGVSFQQIQKYEKGLNRVSAGRLMQISDILNVPI 67

Query: 71 SFFF 74
          SFF+
Sbjct: 68 SFFY 71


>gi|163869007|ref|YP_001610237.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018684|emb|CAK02242.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 135

 Score = 91.3 bits (225), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 45/89 (50%), Positives = 67/89 (75%), Gaps = 7/89 (7%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+  DI +GKRIRLRR +L +SQ++LG+ L +TFQQ+QKYEKG+NRVGA RLQ I+++
Sbjct: 4  KNPHSNDILIGKRIRLRREMLKISQKQLGDRLSVTFQQIQKYEKGLNRVGAGRLQEIADI 63

Query: 66 LESPISFFFDVSPTVCSDISSEENNVMDF 94
          L+  I FF+       +DIS++E+ ++ +
Sbjct: 64 LDISIFFFY-------ADISTKEHVLLPY 85


>gi|163868802|ref|YP_001610026.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018473|emb|CAK02031.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 96

 Score = 91.3 bits (225), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 39/68 (57%), Positives = 55/68 (80%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ VGKRIR RR +L MSQ+ LG+ LG++FQQ+QKYEKG+NRV A RL+ IS++L  P+
Sbjct: 8  IDLFVGKRIRFRRKMLKMSQKTLGQHLGVSFQQIQKYEKGLNRVSAGRLKEISDILNVPL 67

Query: 71 SFFFDVSP 78
          +FF+ +S 
Sbjct: 68 AFFYTISS 75


>gi|254295424|ref|YP_003061447.1| XRE family transcriptional regulator [Hirschia baltica ATCC 49814]
 gi|254043955|gb|ACT60750.1| transcriptional regulator, XRE family [Hirschia baltica ATCC 49814]
          Length = 141

 Score = 90.9 bits (224), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 55/125 (44%), Positives = 80/125 (64%), Gaps = 5/125 (4%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K+PN +D +VG+R+R RR  L  SQEKLGE LG+TFQQ+QKYEKGVNR+ A RL  +S V
Sbjct: 5   KLPNSIDKHVGRRVRWRRRELNFSQEKLGELLGLTFQQIQKYEKGVNRISAGRLFEMSRV 64

Query: 66  LESPISFFF----DVSPTVCSDIS-SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           LE+ I +FF    ++   +    + S+++  +  +   D + L   F  I D K+RQ I+
Sbjct: 65  LETTIGYFFMGVEEMDEAMNRSFAESDKDQALTGLIDADAVDLVVAFQSIPDPKLRQSIL 124

Query: 121 ELVRS 125
            +VR+
Sbjct: 125 TMVRN 129


>gi|170746516|ref|YP_001752776.1| XRE family transcriptional regulator [Methylobacterium
           radiotolerans JCM 2831]
 gi|170653038|gb|ACB22093.1| transcriptional regulator, XRE family [Methylobacterium
           radiotolerans JCM 2831]
          Length = 146

 Score = 90.9 bits (224), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 47/117 (40%), Positives = 65/117 (55%), Gaps = 6/117 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  VG RI   R   G+SQ  L   LG++FQQVQKYE G NRVGA RLQ I+E L  P+
Sbjct: 14  IDHGVGSRIAFLRAANGLSQSALASALGVSFQQVQKYETGKNRVGAGRLQAIAERLGVPV 73

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
           S FF+  P   +D           +     ++L R + QI D ++R+ ++ LV+S  
Sbjct: 74  SSFFEPEPEATTDSGPA------LLRVAGAVELLRAYNQIADDQMRRDVLSLVKSAA 124


>gi|222082679|ref|YP_002542044.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221727358|gb|ACM30447.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 140

 Score = 90.9 bits (224), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 50/122 (40%), Positives = 74/122 (60%), Gaps = 7/122 (5%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD  VG++IRL R    MSQE L +CLG+TFQQVQKYE G NRV AS+L  I+  L+ 
Sbjct: 21  HPVDTYVGQQIRLARKQQRMSQEALAKCLGVTFQQVQKYEIGANRVSASKLFEIATALQR 80

Query: 69  PISFFFDVSPTVC----SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           P+S+FF+          +D+  E   V+ +  T +G +L + F+      VR+ ++ L+ 
Sbjct: 81  PVSYFFEGFANAAERDPTDVERESVTVIQY--TAEGRRLAKAFVAAMP-DVRKAVVGLLE 137

Query: 125 SI 126
           S+
Sbjct: 138 SM 139


>gi|317016318|gb|ADU85831.1| transcriptional regulator [Bartonella sp. TT0105]
          Length = 118

 Score = 90.9 bits (224), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 43/77 (55%), Positives = 58/77 (75%), Gaps = 7/77 (9%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D++VGK+IRLRR +L MSQ++LGE LG+TFQQ+QKYEK  NR+GA RLQ I+++    IS
Sbjct: 10 DLSVGKKIRLRREMLKMSQKQLGELLGVTFQQIQKYEKATNRIGAGRLQEIADIFNVDIS 69

Query: 72 FFFDVSPTVCSDISSEE 88
          FF+       +DIS E+
Sbjct: 70 FFY-------TDISKEK 79


>gi|83313460|ref|YP_423724.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82948301|dbj|BAE53165.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 127

 Score = 90.9 bits (224), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 52/121 (42%), Positives = 73/121 (60%), Gaps = 15/121 (12%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +RLRR +LG+SQEKLGE +G+TFQQVQKYE+G NR+  SRL  +S  LE PIS+FFD  P
Sbjct: 1   MRLRRTLLGLSQEKLGELIGLTFQQVQKYERGANRISCSRLFDLSRSLEVPISYFFDDMP 60

Query: 79  TVCSDISS---------EENNVMDFISTP----DGLQLNRYFIQIDDVKVRQKIIELVRS 125
                +S          EE    +  + P    + L+L R +  I D  VR++I +L ++
Sbjct: 61  EETKGLSPVQMVREPPKEEPPAAE--ADPRLRRETLELVRNYYSIVDPDVRRRIYDLAKA 118

Query: 126 I 126
           +
Sbjct: 119 L 119


>gi|240851038|ref|YP_002972438.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268161|gb|ACS51749.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 126

 Score = 90.5 bits (223), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 38/63 (60%), Positives = 53/63 (84%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI++GK+IR RR ++G SQ++LG  LG+TFQQ+QKYEKG+NRV A RLQ I+ +L+ P+S
Sbjct: 10 DISLGKKIRFRRNLMGFSQKQLGSHLGVTFQQIQKYEKGLNRVSARRLQEIAHILDVPVS 69

Query: 72 FFF 74
          FF+
Sbjct: 70 FFY 72


>gi|163868821|ref|YP_001610047.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018494|emb|CAK02052.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 129

 Score = 90.1 bits (222), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 46/94 (48%), Positives = 67/94 (71%), Gaps = 7/94 (7%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+  DI++GK+IR +R I+G+SQ++LG  LG+TFQQ+QKYEKG+NRV A  LQ I++ 
Sbjct: 7   KNPHFYDISLGKKIRFKRKIMGISQKQLGNHLGVTFQQIQKYEKGLNRVSARCLQEIADR 66

Query: 66  LESPISFFFDVSP----TVC---SDISSEENNVM 92
           L+ PISFF+  S     ++C     ISS+E  ++
Sbjct: 67  LDVPISFFYADSAQKENSLCYYDDQISSKEEYLL 100


>gi|315499301|ref|YP_004088105.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
 gi|315417313|gb|ADU13954.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
          Length = 125

 Score = 89.7 bits (221), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 48/120 (40%), Positives = 72/120 (60%), Gaps = 2/120 (1%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N VD++VG RIR RR  +GMSQ  L   L +TFQQVQKYE+G NR+ AS++   +  L  
Sbjct: 5   NKVDVHVGHRIRSRRKEIGMSQTDLANHLSLTFQQVQKYERGFNRISASKMHDAARALGV 64

Query: 69  PISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
            I +FF+ +      D S  E +V  F+ T +G +L+ +F ++     R+ ++ LVR +V
Sbjct: 65  HIEYFFEGLDNETELDRSESEASVTQFLLTREGAELSSHFSKL-SANQRKGVLALVRMLV 123


>gi|240851130|ref|YP_002972532.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268253|gb|ACS51841.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 117

 Score = 89.7 bits (221), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 44/84 (52%), Positives = 61/84 (72%), Gaps = 7/84 (8%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN +DI +GKRIR RR+ +G+SQ+ LG  LG++FQQ+QKYEKG NRV A  L  I++ 
Sbjct: 4  KNPNFIDILIGKRIRHRRISIGLSQKALGSHLGVSFQQIQKYEKGFNRVSAGCLLEIAQK 63

Query: 66 LESPISFFFDVSPTVCSDISSEEN 89
          L+ PISFF+       +DI+++EN
Sbjct: 64 LDVPISFFY-------ADITTKEN 80


>gi|163869150|ref|YP_001610390.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018837|emb|CAK02395.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 157

 Score = 89.7 bits (221), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 40/64 (62%), Positives = 51/64 (79%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ VGK+IRLRR +L MSQ  LG  LG++FQQ+QKYEKG+NRV A RL  IS++L  PI
Sbjct: 44  IDLLVGKKIRLRRQMLKMSQTTLGHALGVSFQQIQKYEKGLNRVSAGRLMQISDILNVPI 103

Query: 71  SFFF 74
           SFF+
Sbjct: 104 SFFY 107


>gi|240851232|ref|YP_002972635.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268355|gb|ACS51943.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 116

 Score = 89.7 bits (221), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 38/64 (59%), Positives = 53/64 (82%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ +GK+IRL+R +L MSQ+ LG+ LG+TFQQ+QKYEKG+NRV A RL  IS++L  P+
Sbjct: 8  IDLFIGKKIRLKRKMLKMSQKTLGQHLGVTFQQIQKYEKGLNRVSAGRLMEISDILNVPL 67

Query: 71 SFFF 74
          SFF+
Sbjct: 68 SFFY 71


>gi|144901303|emb|CAM78167.1| transcriptional regulator, Cro/CI family [Magnetospirillum
           gryphiswaldense MSR-1]
          Length = 131

 Score = 89.4 bits (220), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 42/123 (34%), Positives = 78/123 (63%), Gaps = 10/123 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N  D +VG RIR RR++LG+SQ+++ + +G+T+QQ  KYE+G+NR+ A RL  I++VL  
Sbjct: 17  NDTDRHVGTRIRERRIMLGLSQQQMADLIGVTYQQAHKYERGINRISAGRLYEIAQVLGV 76

Query: 69  PISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
           P+S+FF+ +     +D+++ +            L+L R F  I + K ++ + ++ R++ 
Sbjct: 77  PVSYFFEGLDNQRATDLTARQRMC---------LELARNFSSIQNEKHQEALSQMARALA 127

Query: 128 SSE 130
           ++E
Sbjct: 128 AAE 130


>gi|163868976|ref|YP_001610205.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018652|emb|CAK02210.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 135

 Score = 89.4 bits (220), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 41/86 (47%), Positives = 65/86 (75%), Gaps = 2/86 (2%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+ +D+++GKRIR RRM + +SQ+ LG  LG++FQQ+QKYEKG+NRV A  L  I++ 
Sbjct: 11 KNPHFIDVSIGKRIRHRRMTMWLSQKTLGNFLGVSFQQIQKYEKGLNRVSAKCLLEIAQK 70

Query: 66 LESPISFFFDVSPTVCSDISSEENNV 91
          L+ PISFF++    + +D++++E+ V
Sbjct: 71 LQVPISFFYE--DLLATDLATKEDLV 94


>gi|240851233|ref|YP_002972636.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268356|gb|ACS51944.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 121

 Score = 89.4 bits (220), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 38/64 (59%), Positives = 52/64 (81%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ +GK+IRL+R +L MSQ  LG+ LG+TFQQ+QKYEKG+NRV A RL  IS++L  P+
Sbjct: 8  IDLFIGKKIRLKRKMLKMSQTTLGQHLGVTFQQIQKYEKGLNRVSAGRLMEISDILNVPL 67

Query: 71 SFFF 74
          SFF+
Sbjct: 68 SFFY 71


>gi|240851231|ref|YP_002972634.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268354|gb|ACS51942.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 121

 Score = 89.0 bits (219), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 38/64 (59%), Positives = 52/64 (81%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ +GK+IRL+R +L MSQ  LG+ LG+TFQQ+QKYEKG+NRV A RL  IS++L  PI
Sbjct: 8  IDLFIGKKIRLKRKMLKMSQTTLGQHLGVTFQQIQKYEKGLNRVSAGRLMEISDILNVPI 67

Query: 71 SFFF 74
          +FF+
Sbjct: 68 TFFY 71


>gi|163869145|ref|YP_001610384.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018831|emb|CAK02389.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 82

 Score = 89.0 bits (219), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 41/64 (64%), Positives = 50/64 (78%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ VGK+IRLRR +L MSQ  LG  LGI+FQQ+QKYEKG+NRV A RL  IS++L  PI
Sbjct: 8  IDLFVGKKIRLRRQMLKMSQTTLGNALGISFQQIQKYEKGLNRVSAGRLMEISDILTVPI 67

Query: 71 SFFF 74
          SFF 
Sbjct: 68 SFFL 71


>gi|83594927|ref|YP_428679.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
           11170]
 gi|83577841|gb|ABC24392.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
           11170]
          Length = 156

 Score = 88.6 bits (218), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 59/140 (42%), Positives = 89/140 (63%), Gaps = 16/140 (11%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G  K P+PVD++VG+R+RLRR +LGMSQE+L   +G+TFQQ+QKYE+G NRV ASRL  I
Sbjct: 13  GINKSPDPVDVHVGRRLRLRRTLLGMSQEQLANAVGVTFQQIQKYERGSNRVSASRLYDI 72

Query: 63  SEVLESPISFFF-DVSPTVCS--------DISS---EENNVMDFISTP----DGLQLNRY 106
           S+VL  P++FFF D+   V S        DI+     E  +  +   P    + L+L R 
Sbjct: 73  SKVLGVPVAFFFEDIGDEVTSARLAPIVPDITGSGLSEPAIPAYEQDPLQKNETLELIRA 132

Query: 107 FIQIDDVKVRQKIIELVRSI 126
           + ++    VR++ ++L++S+
Sbjct: 133 YWRLPTDTVRKRALDLLKSL 152


>gi|240851106|ref|YP_002972508.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268229|gb|ACS51817.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 157

 Score = 88.6 bits (218), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 44/85 (51%), Positives = 64/85 (75%), Gaps = 3/85 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+ +DI +GKRIR RR+ +G+SQ+ LG  LG++FQQ+QKYEKG+NRV A  L  I++ 
Sbjct: 38  KNPHFIDILIGKRIRHRRISMGLSQKALGSHLGVSFQQIQKYEKGLNRVSAKCLLEIAQK 97

Query: 66  LESPISFFF-DVSPTVCSDISSEEN 89
           LE PISFF+ D++  +  D+S++E 
Sbjct: 98  LEVPISFFYADIA--IKEDLSTKET 120


>gi|86360041|ref|YP_471931.1| Cro/CI family transcriptional regulator [Rhizobium etli CFN 42]
 gi|86284143|gb|ABC93204.1| probable transcriptional regulator protein, Cro/CI family
           [Rhizobium etli CFN 42]
          Length = 114

 Score = 88.6 bits (218), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 45/97 (46%), Positives = 67/97 (69%), Gaps = 5/97 (5%)

Query: 39  ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS---PTVCSDISSEE--NNVMD 93
           +TFQQVQKYEKG+NR+GASRLQ I+EVL +  SFFF+ +   P     ++  +  + V +
Sbjct: 1   MTFQQVQKYEKGINRIGASRLQRIAEVLHTSPSFFFEQNESQPLSLQGLALPDGADPVAE 60

Query: 94  FISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           F+ T +GL LNR F++I D  +R+ II LV+++  +E
Sbjct: 61  FLRTKEGLVLNRAFLKIADPDIRETIIALVKAMAQAE 97


>gi|83591618|ref|YP_425370.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
           11170]
 gi|83574532|gb|ABC21083.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
           11170]
          Length = 145

 Score = 88.6 bits (218), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 46/136 (33%), Positives = 78/136 (57%), Gaps = 8/136 (5%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G     +  D +VGKRIR RR++LG+SQ+++ + +G+T+QQ  KYE+G+NR+ A RL  I
Sbjct: 12  GPTNRASEADRHVGKRIRERRVMLGLSQQQMADMIGVTYQQAHKYERGINRISAGRLFEI 71

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           ++VL  P+++FFD      S+  S    +         L+L R F  I + + ++ + +L
Sbjct: 72  AQVLHVPVNYFFDGLDDEASETLSPRQRMC--------LELARNFAMIQNERHQEALSQL 123

Query: 123 VRSIVSSEKKYRTIEE 138
            R++ +       IEE
Sbjct: 124 ARALAAQVSVVEVIEE 139


>gi|83859888|ref|ZP_00953408.1| DNA-binding protein, putative [Oceanicaulis alexandrii HTCC2633]
 gi|83852247|gb|EAP90101.1| DNA-binding protein, putative [Oceanicaulis alexandrii HTCC2633]
          Length = 130

 Score = 88.2 bits (217), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 49/121 (40%), Positives = 81/121 (66%), Gaps = 2/121 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + N +D +VGKRIR RR +LG++Q++L + +GI FQQ+QKYE G NRV ASRL  ++E L
Sbjct: 1   MTNAIDHHVGKRIRRRRRLLGLTQQQLAQSVGIRFQQIQKYESGANRVSASRLFELAEAL 60

Query: 67  ESPISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           + P+ +F++ +  T  S     EN   D +S  + L L R + ++++ + R++++EL RS
Sbjct: 61  DVPVQYFYEGLQGTGESAAPEGENVAADVLSQKETLDLVRAYYKLNE-RPRRRLLELARS 119

Query: 126 I 126
           +
Sbjct: 120 L 120


>gi|163868997|ref|YP_001610227.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018674|emb|CAK02232.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 129

 Score = 88.2 bits (217), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 43/84 (51%), Positives = 62/84 (73%), Gaps = 2/84 (2%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K  N VD ++G RIR RR+ +G+SQ+ LG  LG++FQQVQKYEKG+NRV A  L  I++ 
Sbjct: 11 KNSNFVDTSIGARIRHRRISMGLSQKALGNTLGVSFQQVQKYEKGLNRVSAGCLLEIAQK 70

Query: 66 LESPISFFFDVSPTVCSDISSEEN 89
          L+ PISFF+  +  + +DI+++EN
Sbjct: 71 LQVPISFFY--ADLLTTDIATKEN 92


>gi|163869151|ref|YP_001610391.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018838|emb|CAK02396.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 121

 Score = 88.2 bits (217), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 39/64 (60%), Positives = 50/64 (78%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ VGK+IRLRR +L MSQ  LG  LG++FQQ+QKYEKG+NRV A RL  IS++L   I
Sbjct: 8  IDLFVGKKIRLRRQMLKMSQTTLGHALGVSFQQIQKYEKGLNRVSAGRLMQISDILNVSI 67

Query: 71 SFFF 74
          SFF+
Sbjct: 68 SFFY 71


>gi|163868981|ref|YP_001610211.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018658|emb|CAK02216.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 129

 Score = 87.8 bits (216), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 42/84 (50%), Positives = 62/84 (73%), Gaps = 2/84 (2%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K  N VD ++G RIR RR+ +G+SQ+ LG  LG++FQQ+QKYEKG+NRV A  L  I++ 
Sbjct: 11 KNSNFVDTSIGARIRHRRISMGLSQKALGNTLGVSFQQIQKYEKGLNRVSAGCLLEIAQK 70

Query: 66 LESPISFFFDVSPTVCSDISSEEN 89
          L+ PISFF+  +  + +DI+++EN
Sbjct: 71 LQVPISFFY--ADLLTADIATKEN 92


>gi|163868999|ref|YP_001610229.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018676|emb|CAK02234.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 129

 Score = 87.8 bits (216), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 42/84 (50%), Positives = 62/84 (73%), Gaps = 2/84 (2%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K  N VD ++G RIR RR+ +G+SQ+ LG  LG++FQQ+QKYEKG+NRV A  L  I++ 
Sbjct: 11 KNSNFVDTSIGARIRHRRISMGLSQKALGNTLGVSFQQIQKYEKGLNRVSAGCLLEIAQK 70

Query: 66 LESPISFFFDVSPTVCSDISSEEN 89
          L+ PISFF+  +  + +DI+++EN
Sbjct: 71 LQVPISFFY--ADLLTTDIATKEN 92


>gi|163868998|ref|YP_001610228.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018675|emb|CAK02233.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 130

 Score = 87.8 bits (216), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 42/84 (50%), Positives = 62/84 (73%), Gaps = 2/84 (2%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K  N VD ++G RIR RR+ +G+SQ+ LG  LG++FQQ+QKYEKG+NRV A  L  I++ 
Sbjct: 11 KNSNFVDTSIGARIRHRRISMGLSQKALGNTLGVSFQQIQKYEKGLNRVSAGCLLEIAQK 70

Query: 66 LESPISFFFDVSPTVCSDISSEEN 89
          L+ PISFF+  +  + +DI+++EN
Sbjct: 71 LQVPISFFY--ADLLTTDIATKEN 92


>gi|218510909|ref|ZP_03508787.1| putative transcriptional regulator protein [Rhizobium etli Brasil
           5]
          Length = 157

 Score = 87.8 bits (216), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 45/131 (34%), Positives = 82/131 (62%), Gaps = 3/131 (2%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           +++  +PVDI+VG+++R+RR+   +SQ +LG+ +G+++QQVQKYE G NR+ AS L  I+
Sbjct: 24  SEQASHPVDIHVGQQLRIRRVHSNLSQSELGQKVGLSYQQVQKYESGKNRISASMLYEIA 83

Query: 64  EVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
             L  P+  FFD    P   + I+ E +  + F++T +G +     +++   K+R + + 
Sbjct: 84  GGLNVPVGCFFDGLPQPGESATIAPEADERIAFLATAEGRRFVEEILRLPP-KLRTRTLA 142

Query: 122 LVRSIVSSEKK 132
           ++R+I   E K
Sbjct: 143 VIRAIAGDEDK 153


>gi|197103372|ref|YP_002128750.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196480648|gb|ACG80175.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 145

 Score = 87.4 bits (215), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 53/129 (41%), Positives = 85/129 (65%), Gaps = 5/129 (3%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVD++VG+R+RLRR  LG+SQ  L + LG+TFQQ+QKYE+G NR+ AS+L  I+++LE
Sbjct: 5   PNPVDVHVGRRVRLRRRELGVSQAWLADRLGLTFQQIQKYERGANRISASKLYAIAKLLE 64

Query: 68  SPISFFFD-----VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
            PI++FF+      +PT      +    V + ++ P+G QL   F+ I    +R+ + EL
Sbjct: 65  VPITYFFEGLDDPATPTGRQYAQAFTGVVEELLAEPNGPQLAEAFLSIRRRSIRKGLAEL 124

Query: 123 VRSIVSSEK 131
             +I ++++
Sbjct: 125 APAIAANDQ 133


>gi|188581972|ref|YP_001925417.1| XRE family transcriptional regulator [Methylobacterium populi
           BJ001]
 gi|179345470|gb|ACB80882.1| transcriptional regulator, XRE family [Methylobacterium populi
           BJ001]
          Length = 133

 Score = 87.0 bits (214), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 46/127 (36%), Positives = 69/127 (54%), Gaps = 6/127 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K    +D+ +G+RI   R+   MSQ +LG  +G+TFQQVQKYEKG NRVG  RLQ I+
Sbjct: 5   SNKAATDIDVRIGQRIAALRVNRRMSQTELGTAIGVTFQQVQKYEKGRNRVGGGRLQQIA 64

Query: 64  EVLESPIS-FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
             L   +S F+ D  P        +   V D +  P G+++ R     +  + R  I+ +
Sbjct: 65  TALGVRVSDFYGDEQPA-----GGDATVVFDLLRDPHGIRIARALQSANSAEARNAIVGV 119

Query: 123 VRSIVSS 129
           V ++ SS
Sbjct: 120 VEAVASS 126


>gi|167647751|ref|YP_001685414.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167350181|gb|ABZ72916.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 129

 Score = 86.3 bits (212), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 48/124 (38%), Positives = 75/124 (60%), Gaps = 8/124 (6%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+P+D+ VG RIR++R  L +SQ+ L + LG+TFQQVQKYE+G NRV AS L  I+  L+
Sbjct: 7   PDPIDVAVGTRIRVQRRHLKISQDDLAQVLGLTFQQVQKYERGTNRVSASMLVRIAAKLQ 66

Query: 68  SPISFFFDVSPTVCSDISSEENNVM-DFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           + +         V  D+ +E++  M   +STP  + L R + Q    K R+ I+ + R++
Sbjct: 67  TTVGSL------VGEDVVAEQDVAMLTALSTPGAIDLLRAYGQATP-KGRKAILNVARTL 119

Query: 127 VSSE 130
           V  +
Sbjct: 120 VEPD 123


>gi|209964814|ref|YP_002297729.1| DNA-binding protein, putative [Rhodospirillum centenum SW]
 gi|209958280|gb|ACI98916.1| DNA-binding protein, putative [Rhodospirillum centenum SW]
          Length = 232

 Score = 86.3 bits (212), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 37/65 (56%), Positives = 49/65 (75%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ +V  RIRLRR +LGMSQ  L   LGITFQQVQKYE+G NRV   +L  ++E+L+ P+
Sbjct: 17 IESHVASRIRLRRGLLGMSQSDLARTLGITFQQVQKYERGSNRVSVGKLYRLAEILDVPL 76

Query: 71 SFFFD 75
          +FFFD
Sbjct: 77 TFFFD 81


>gi|83309880|ref|YP_420144.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82944721|dbj|BAE49585.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 151

 Score = 85.9 bits (211), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 42/123 (34%), Positives = 76/123 (61%), Gaps = 10/123 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N  D +VG RIR RR++LG+SQ+++ + +G+T+QQ  KYE+G+NR+ A RL  I++VL  
Sbjct: 38  NDTDRHVGSRIRERRIMLGLSQQQMADLIGVTYQQAHKYERGINRISAGRLFEIAQVLGV 97

Query: 69  PISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
           P+ FF++ +     SD+S+ +            L+L R F  I + + ++ + +L R++ 
Sbjct: 98  PVGFFYEGLENRRGSDLSARQRMC---------LELARNFTSITNERHQEALSQLARALA 148

Query: 128 SSE 130
           + +
Sbjct: 149 AED 151


>gi|218674449|ref|ZP_03524118.1| putative transcriptional regulator protein [Rhizobium etli GR56]
          Length = 174

 Score = 85.1 bits (209), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 54/135 (40%), Positives = 81/135 (60%), Gaps = 15/135 (11%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           +++ +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++ 
Sbjct: 33  RELVHPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELAN 92

Query: 65  VLESPISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV-----KV 115
            L+ P+S FF+  P    T    I +E +  + +IST +G +L      IDDV     +V
Sbjct: 93  CLKIPVSRFFEGLPDPETTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRV 146

Query: 116 RQKIIELVRSIVSSE 130
           R +++ LV SIV  E
Sbjct: 147 RSRVVALVSSIVEEE 161


>gi|218681208|ref|ZP_03529105.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           894]
          Length = 170

 Score = 85.1 bits (209), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 54/135 (40%), Positives = 81/135 (60%), Gaps = 15/135 (11%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           +++ +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++ 
Sbjct: 33  RELVHPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELAN 92

Query: 65  VLESPISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV-----KV 115
            L+ P+S FF+  P    T    I +E +  + +IST +G +L      IDDV     +V
Sbjct: 93  CLKIPVSRFFEGLPDPETTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRV 146

Query: 116 RQKIIELVRSIVSSE 130
           R +++ LV SIV  E
Sbjct: 147 RSRVVALVSSIVDEE 161


>gi|83944525|ref|ZP_00956977.1| DNA-binding protein, putative [Sulfitobacter sp. EE-36]
 gi|83844631|gb|EAP82516.1| DNA-binding protein, putative [Sulfitobacter sp. EE-36]
          Length = 124

 Score = 85.1 bits (209), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 46/119 (38%), Positives = 70/119 (58%), Gaps = 2/119 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+ VD++VG+RIR RR + GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I+  L
Sbjct: 1   MPHKVDVHVGQRIRQRRWLTGMTQQRLAELVGIKFQQIQKYETGANRVSASRLWDIAFAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNV-MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
              +S FF+             +N+  D     + + L R +  I + + R+++ EL R
Sbjct: 61  NVDVSHFFEGLEAEKPQPEKALDNIPADLSGDKEAMDLIRSYYAIPENQ-RRRLFELAR 118


>gi|254449883|ref|ZP_05063320.1| transcriptional regulator, XRE family [Octadecabacter antarcticus
           238]
 gi|198264289|gb|EDY88559.1| transcriptional regulator, XRE family [Octadecabacter antarcticus
           238]
          Length = 122

 Score = 85.1 bits (209), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 46/120 (38%), Positives = 73/120 (60%), Gaps = 6/120 (5%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR + G +Q+ L + +GI FQQ+QKYE G+NRV ASRL  I+  L
Sbjct: 1   MKHPVDVHVGKRIRHRRWVSGTTQQHLADQVGIKFQQIQKYETGMNRVSASRLWDIAHAL 60

Query: 67  ESPISFFFDV--SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
              ++FFF+      +  DI    +   D ++  + L L R +  I + + R+++ +L R
Sbjct: 61  GVEVAFFFEGLEGNLIGKDIGGMPS---DILTDKEALDLLRSYYAIPENQ-RRRLFDLAR 116


>gi|190894160|ref|YP_001984454.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
 gi|190699821|gb|ACE93904.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 170

 Score = 85.1 bits (209), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 54/135 (40%), Positives = 81/135 (60%), Gaps = 15/135 (11%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           +++ +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++ 
Sbjct: 33  RELVHPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELAN 92

Query: 65  VLESPISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV-----KV 115
            L+ P+S FF+  P    T    I +E +  + +IST +G +L      IDDV     +V
Sbjct: 93  CLKIPVSRFFEGLPDPETTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRV 146

Query: 116 RQKIIELVRSIVSSE 130
           R +++ LV SIV  E
Sbjct: 147 RSRVVALVSSIVDEE 161


>gi|46201107|ref|ZP_00055727.2| COG1396: Predicted transcriptional regulators [Magnetospirillum
           magnetotacticum MS-1]
          Length = 127

 Score = 84.7 bits (208), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 50/121 (41%), Positives = 74/121 (61%), Gaps = 15/121 (12%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD--- 75
           +RLRR +LG+SQEKLGE +G+TFQQVQKYE+G NR+  SRL  +S  LE  IS+FF+   
Sbjct: 1   MRLRRTLLGLSQEKLGEMIGLTFQQVQKYERGANRISCSRLFDLSRSLEVTISYFFEDMA 60

Query: 76  -----VSPT-VCSDISSEENNVMDFISTP----DGLQLNRYFIQIDDVKVRQKIIELVRS 125
                +SP  +  +   EE    +  + P    + L+L R +  I D  VR++I +L ++
Sbjct: 61  EETKGLSPVQMVREPPKEEPAAAE--ADPRLRRETLELVRNYYSITDPDVRRRIYDLAKA 118

Query: 126 I 126
           +
Sbjct: 119 L 119


>gi|56697146|ref|YP_167509.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
 gi|56678883|gb|AAV95549.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
          Length = 134

 Score = 84.7 bits (208), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 44/90 (48%), Positives = 57/90 (63%), Gaps = 7/90 (7%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + VD  VG+RIR RR  LG+SQ +LG  +G+ FQQVQKYE G NRV ASRL  I+EVL+ 
Sbjct: 2  DTVDTVVGRRIRARRSALGLSQAELGRAVGVRFQQVQKYESGANRVSASRLWAIAEVLDV 61

Query: 69 PISFFFDVSPTVCSDISSEENNVMDFISTP 98
           IS FF+        I + ++ V+D    P
Sbjct: 62 HISHFFE-------GIQAPDSGVIDGSDAP 84


>gi|21492787|ref|NP_659862.1| putative transcriptional regulator protein [Rhizobium etli CFN 42]
 gi|21467212|gb|AAM54875.1| putative transcriptional regulator protein [Rhizobium etli CFN 42]
          Length = 161

 Score = 84.7 bits (208), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 54/131 (41%), Positives = 78/131 (59%), Gaps = 15/131 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ 
Sbjct: 28  HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKI 87

Query: 69  PISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV-----KVRQKI 119
           P+S FF+  P    T    I +E +  + +IST +G +L      IDDV     +VR ++
Sbjct: 88  PVSRFFEGLPDPETTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRVRSRV 141

Query: 120 IELVRSIVSSE 130
           + LV SIV  E
Sbjct: 142 VALVSSIVDEE 152


>gi|190894008|ref|YP_001984302.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
 gi|190699669|gb|ACE93752.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 246

 Score = 84.3 bits (207), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 54/135 (40%), Positives = 81/135 (60%), Gaps = 15/135 (11%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           +++ +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++ 
Sbjct: 113 RELVHPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELAN 172

Query: 65  VLESPISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV-----KV 115
            L+ P+S FF+  P    T    I +E +  + +IST +G +L      IDDV     +V
Sbjct: 173 CLKIPVSRFFEGLPDPETTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRV 226

Query: 116 RQKIIELVRSIVSSE 130
           R +++ LV SIV  E
Sbjct: 227 RSRVVALVSSIVDEE 241


>gi|21492894|ref|NP_659969.1| putative transcriptional regulator protein [Rhizobium etli CFN 42]
 gi|190894068|ref|YP_001984362.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
 gi|21467319|gb|AAM54982.1| putative transcriptional regulator protein [Rhizobium etli CFN 42]
 gi|190699729|gb|ACE93812.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 254

 Score = 84.3 bits (207), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 54/135 (40%), Positives = 81/135 (60%), Gaps = 15/135 (11%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           +++ +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++ 
Sbjct: 113 RELVHPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELAN 172

Query: 65  VLESPISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV-----KV 115
            L+ P+S FF+  P    T    I +E +  + +IST +G +L      IDDV     +V
Sbjct: 173 CLKIPVSRFFEGLPDPETTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRV 226

Query: 116 RQKIIELVRSIVSSE 130
           R +++ LV SIV  E
Sbjct: 227 RSRVVALVSSIVDEE 241


>gi|240851129|ref|YP_002972531.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268252|gb|ACS51840.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 121

 Score = 84.3 bits (207), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 41/84 (48%), Positives = 59/84 (70%), Gaps = 7/84 (8%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN +DI +GKRIR RR+ + +SQ+ LG  LG++FQQ+QKYEKG NRV    L  I++ 
Sbjct: 4  KNPNFIDILIGKRIRQRRIAMELSQKALGSHLGVSFQQIQKYEKGFNRVSVGCLLKIAQK 63

Query: 66 LESPISFFFDVSPTVCSDISSEEN 89
          LE P+SFF+       +D++++EN
Sbjct: 64 LEVPMSFFY-------ADLATKEN 80


>gi|254419275|ref|ZP_05032999.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
 gi|196185452|gb|EDX80428.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
          Length = 118

 Score = 84.0 bits (206), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 46/114 (40%), Positives = 65/114 (57%), Gaps = 4/114 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  VG RI  RR  LG+SQ  LG  +G++ QQVQKYE G NR+ ASRL +++  L  P+
Sbjct: 1   MDAVVGARIASRRTALGLSQTALGALIGVSCQQVQKYEGGQNRISASRLHNLALALGLPV 60

Query: 71  SFFFDVSPTVCSDISSEENNVM-DFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
             FF   P    +    E ++M    +TP+G  +   F +I+D  VRQ +  LV
Sbjct: 61  GAFF---PEPADEAEIPELSMMRTMAATPEGRAMAAGFSRIEDRAVRQALTRLV 111


>gi|254559380|ref|YP_003066475.1| XRE family transcriptional regulator [Methylobacterium extorquens
           DM4]
 gi|254266658|emb|CAX22435.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens DM4]
          Length = 111

 Score = 84.0 bits (206), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 41/107 (38%), Positives = 63/107 (58%), Gaps = 3/107 (2%)

Query: 27  GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISS 86
           G+SQ  LG  +G++FQQ+QKYE G N VGA RL  I+ VL  P+S FF+         + 
Sbjct: 6   GLSQIALGIAIGVSFQQIQKYEIGANCVGAGRLSDIARVLGGPVSVFFEEGDAAA---AQ 62

Query: 87  EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           E+  V D +  P  + L   FI I+D ++R++++ LVR+    E+ +
Sbjct: 63  EKTEVFDLLRAPGAVDLLNAFITIEDDRLRREVLALVRNAARMEQDH 109


>gi|190895203|ref|YP_001985496.1| putative transcriptional regulator [Rhizobium etli CIAT 652]
 gi|190700864|gb|ACE94946.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 162

 Score = 83.6 bits (205), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 52/133 (39%), Positives = 81/133 (60%), Gaps = 15/133 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD++VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ 
Sbjct: 29  HPVDLHVGQQIRIRRMQSDVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKI 88

Query: 69  PISFFFD--VSPTVCSDI--SSEENNVMDFISTPDGLQLNRYFIQIDDV-----KVRQKI 119
           P+S FF+    P    D   +++ ++ + +IST +G +L      I+DV     +VR ++
Sbjct: 89  PVSKFFEGLPDPETSQDAIHATKIDDRIAYISTAEGRRL------IEDVLLLPARVRSRV 142

Query: 120 IELVRSIVSSEKK 132
           + LV SIV  E K
Sbjct: 143 VALVSSIVDEEMK 155


>gi|296532393|ref|ZP_06895122.1| DNA-binding protein [Roseomonas cervicalis ATCC 49957]
 gi|296267280|gb|EFH13176.1| DNA-binding protein [Roseomonas cervicalis ATCC 49957]
          Length = 144

 Score = 83.6 bits (205), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 43/118 (36%), Positives = 74/118 (62%), Gaps = 7/118 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            D +VG RIR RR++LG+SQ++L   +G+T+QQ  KYE+G+NR+ A RL  I+ VL  P+
Sbjct: 26  ADRHVGMRIRERRLMLGLSQQQLASMIGVTYQQAHKYERGLNRISAGRLFEIATVLAVPV 85

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           S+FF+    +  D S++   V   +     L+L R F  ID+ + ++ + ++ R++ +
Sbjct: 86  SWFFE---GLDEDGSTQPLGVRQRMC----LELARNFALIDNERHQEALSQMARALAA 136


>gi|218675040|ref|ZP_03524709.1| putative transcriptional regulator protein [Rhizobium etli GR56]
          Length = 180

 Score = 83.2 bits (204), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 53/131 (40%), Positives = 77/131 (58%), Gaps = 15/131 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ 
Sbjct: 47  HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKI 106

Query: 69  PISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV-----KVRQKI 119
           P+S FF+  P    T      +E +  + +IST +G +L      IDDV     +VR ++
Sbjct: 107 PVSRFFEGLPDPETTQGQQFITEIDGKIAYISTAEGRRL------IDDVLLLSPRVRSRV 160

Query: 120 IELVRSIVSSE 130
           + LV SIV  E
Sbjct: 161 VALVSSIVDEE 171


>gi|329851244|ref|ZP_08266001.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328840090|gb|EGF89662.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 152

 Score = 82.8 bits (203), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 39/98 (39%), Positives = 63/98 (64%), Gaps = 12/98 (12%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P+D++VG+R+RL+R  LG++Q  L   L ++FQQ+QKYE+G NR+ AS+L  I+  L+ 
Sbjct: 21  HPIDLHVGERVRLKRKELGITQPALATQLKVSFQQLQKYERGFNRISASKLYEIAGALDV 80

Query: 69  PISFFFDVS-----------PTVCSDISSEENNVM-DF 94
           PI +FFD +           P V   +++EE  ++ DF
Sbjct: 81  PIGYFFDGAKGTAAAASPKVPVVPETLTAEEARLLEDF 118


>gi|288960030|ref|YP_003450370.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288912338|dbj|BAI73826.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 196

 Score = 82.8 bits (203), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 48/127 (37%), Positives = 68/127 (53%), Gaps = 18/127 (14%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N VD+ VG+R+R  RM+ G+SQ  +   LG+TFQQ+QKYE+G NRV +SRL  + +    
Sbjct: 44  NEVDVFVGQRLRELRMLAGLSQSDVASALGLTFQQLQKYERGFNRVSSSRLFTLGQFFRV 103

Query: 69  PISFFFD------------VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           P+S FF+            V P    +   E+ N +    + + L L RYF  I D  +R
Sbjct: 104 PVSVFFEGLENREPVAEGGVRPAAGGE---EQENTLQ---SREALMLARYFQSIRDPHIR 157

Query: 117 QKIIELV 123
             I EL 
Sbjct: 158 GAIRELA 164


>gi|114704610|ref|ZP_01437518.1| Transcriptional Regulator, XRE family protein [Fulvimarina pelagi
          HTCC2506]
 gi|114539395|gb|EAU42515.1| Transcriptional Regulator, XRE family protein [Fulvimarina pelagi
          HTCC2506]
          Length = 117

 Score = 82.4 bits (202), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 38/88 (43%), Positives = 57/88 (64%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          + K  + +D +VG +I+L R++ G+S+EKLG  LGI++QQ+QKYE G NRV A RL  I+
Sbjct: 3  DTKAASHIDKSVGAKIKLGRLMAGLSREKLGVQLGISWQQIQKYESGANRVSAGRLHQIA 62

Query: 64 EVLESPISFFFDVSPTVCSDISSEENNV 91
           +L   I +FFD +    SDI     ++
Sbjct: 63 HILGREIQWFFDEADNEPSDIGPSPRDI 90


>gi|220926095|ref|YP_002501397.1| XRE family transcriptional regulator [Methylobacterium nodulans
          ORS 2060]
 gi|219950702|gb|ACL61094.1| transcriptional regulator, XRE family [Methylobacterium nodulans
          ORS 2060]
          Length = 121

 Score = 82.4 bits (202), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 40/78 (51%), Positives = 49/78 (62%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          KI   VD  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKGVNRVGASRL+  + V
Sbjct: 3  KITTDVDRAVGARITTLRKAKGLSQTALGAAIGVTFQQVQKYEKGVNRVGASRLRESARV 62

Query: 66 LESPISFFFDVSPTVCSD 83
          L+ P++  F    +   D
Sbjct: 63 LDVPVAALFGTEESQAGD 80


>gi|240851124|ref|YP_002972526.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268247|gb|ACS51835.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 123

 Score = 82.4 bits (202), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 41/84 (48%), Positives = 58/84 (69%), Gaps = 1/84 (1%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+ +DI +GKRIR RR+ +G+SQ+ LG  LG++FQQ+QKYEKG NRV    L  I++ 
Sbjct: 4  KNPHFIDILIGKRIRHRRISIGLSQKALGSHLGVSFQQIQKYEKGFNRVSVGCLLKIAQK 63

Query: 66 LESPISFFFDVSPTVCSDISSEEN 89
          LE P++FF+        DIS++E 
Sbjct: 64 LEVPMNFFY-ADIVTKEDISTKET 86


>gi|197104103|ref|YP_002129480.1| transcriptional regulator, XRE family [Phenylobacterium zucineum
           HLK1]
 gi|196477523|gb|ACG77051.1| transcriptional regulator, XRE family [Phenylobacterium zucineum
           HLK1]
          Length = 136

 Score = 81.6 bits (200), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 41/124 (33%), Positives = 73/124 (58%), Gaps = 2/124 (1%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K P+P+DI +G  +R+RR  +GMSQE L E  G++FQQ+QKYE G NR+  SRL  I+
Sbjct: 5   STKAPDPMDIALGAAVRIRRRTIGMSQEALAEQCGVSFQQIQKYENGANRISFSRLVQIA 64

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
             L   ++   DV      + ++ + +++  + TP  L+L   + ++   + R  ++ L+
Sbjct: 65  RALRCRVTDLMDVFDGPDRETAT-DLDLLTRMRTPGALELLAAYERLAP-EARSSLVSLL 122

Query: 124 RSIV 127
           R++ 
Sbjct: 123 RTVA 126


>gi|254420054|ref|ZP_05033778.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
 gi|196186231|gb|EDX81207.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
          Length = 142

 Score = 81.3 bits (199), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 38/91 (41%), Positives = 56/91 (61%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD +VG+R++ +R+ LG++Q  L   +G++FQQVQKYEKG NRV AS+L  ++E ++
Sbjct: 14  PHPVDRHVGRRVQEKRLDLGLTQTALARAVGVSFQQVQKYEKGANRVSASKLFEMAEFMK 73

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTP 98
             I FFF         +  EE    D    P
Sbjct: 74  VDIPFFFQGFHDAQPGVGEEEAPGFDHEHKP 104


>gi|170748847|ref|YP_001755107.1| XRE family transcriptional regulator [Methylobacterium
           radiotolerans JCM 2831]
 gi|170655369|gb|ACB24424.1| transcriptional regulator, XRE family [Methylobacterium
           radiotolerans JCM 2831]
          Length = 143

 Score = 81.3 bits (199), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 43/118 (36%), Positives = 63/118 (53%), Gaps = 4/118 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            D  +G RI   R+  G+SQ  LG+ +G++FQQVQKYEKG NR+GA RLQ I+++L+ P+
Sbjct: 13  TDRTIGGRIAALRVAQGLSQTDLGQAIGVSFQQVQKYEKGRNRIGAGRLQAIADLLKVPV 72

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
             FF   P    D              P  ++L   F  I D   R  I+ +V++  +
Sbjct: 73  DTFF-ADP---RDTGGGRVGPAALFEDPKVMELVLAFTSITDETTRGGILSIVKAAAA 126


>gi|254462264|ref|ZP_05075680.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
          HTCC2083]
 gi|206678853|gb|EDZ43340.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
          HTCC2083]
          Length = 133

 Score = 81.3 bits (199), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 36/64 (56%), Positives = 47/64 (73%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ +G RI+ RR+ L +SQ KL E +G+ FQQVQKYE G NRV ASRL  ++E L  PI
Sbjct: 4  IDVLIGARIKGRRIALKISQTKLAEAVGVRFQQVQKYESGANRVSASRLLMVAETLGVPI 63

Query: 71 SFFF 74
          S+FF
Sbjct: 64 SYFF 67


>gi|218507310|ref|ZP_03505188.1| putative transcriptional regulator protein [Rhizobium etli Brasil
           5]
          Length = 166

 Score = 80.9 bits (198), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 52/131 (39%), Positives = 77/131 (58%), Gaps = 15/131 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ 
Sbjct: 37  HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKI 96

Query: 69  PISFFFDVSPTVCS----DISSEENNVMDFISTPDGLQLNRYFIQIDDV-----KVRQKI 119
           P+S FF+  P   +       +E +  + +IST +G +L      IDDV     +VR ++
Sbjct: 97  PVSRFFEGLPDPETLQGQQFITEIDEKIAYISTAEGRRL------IDDVLLLSPRVRSRV 150

Query: 120 IELVRSIVSSE 130
           + LV SIV  E
Sbjct: 151 VALVSSIVDEE 161


>gi|329891162|ref|ZP_08269505.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
 gi|328846463|gb|EGF96027.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
          Length = 122

 Score = 80.5 bits (197), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 40/121 (33%), Positives = 64/121 (52%), Gaps = 4/121 (3%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + +D  VG RI  RR  LG SQ  LG  LG++FQQ+QKYE G NRV ASRL   +  +  
Sbjct: 6   HHIDQAVGLRIAARRSALGWSQSVLGRELGVSFQQIQKYETGANRVSASRLHQAATAMGC 65

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            ++ FF   P+   ++      V   +++ +G  L   F +I D   R+ +  + +++  
Sbjct: 66  SVADFFPARPSAEGEV----ELVHPVLASAEGRGLAEAFARIPDAGARRALTRVAQAMAG 121

Query: 129 S 129
           +
Sbjct: 122 A 122


>gi|254419648|ref|ZP_05033372.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
 gi|196185825|gb|EDX80801.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
          Length = 139

 Score = 80.5 bits (197), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 34/67 (50%), Positives = 49/67 (73%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          NPVD++VG+R+  RR  L  SQ +L +  G+TFQQ+QKYE+G NR+ ASRL  I+E L  
Sbjct: 15 NPVDLHVGRRVAERRQALRYSQAQLAQAAGVTFQQIQKYERGSNRIAASRLWEIAEFLNV 74

Query: 69 PISFFFD 75
           +++FF+
Sbjct: 75 DLNYFFE 81


>gi|307942085|ref|ZP_07657436.1| Cro/CI family transcriptional regulator [Roseibium sp. TrichSKD4]
 gi|307774371|gb|EFO33581.1| Cro/CI family transcriptional regulator [Roseibium sp. TrichSKD4]
          Length = 126

 Score = 80.5 bits (197), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 39/96 (40%), Positives = 55/96 (57%), Gaps = 1/96 (1%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVD  VG R+R RR  L MSQE L + LG +FQQ+QKYE G NR+ A RL  I+  L 
Sbjct: 6   PNPVDTYVGIRVRQRRQALNMSQETLADKLGTSFQQLQKYENGTNRISAGRLHAIASALG 65

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           +    F++  P    ++ ++  +V   ++ P    L
Sbjct: 66  ATPGHFYEGLPDAPEEVETDL-DVQKLLTIPGATDL 100


>gi|83594572|ref|YP_428324.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
           11170]
 gi|83577486|gb|ABC24037.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
           11170]
          Length = 149

 Score = 80.1 bits (196), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 46/131 (35%), Positives = 70/131 (53%), Gaps = 11/131 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD +VG+R+R RR  L + QE L   +G++FQQ+QKYE+G NR+ ASRL  I++ L  PI
Sbjct: 18  VDAHVGQRVRQRRTALILDQETLARRIGVSFQQIQKYERGRNRISASRLYDIAKALAVPI 77

Query: 71  SFFFD----VSPTVCSDISSEENNVMDFISTP-------DGLQLNRYFIQIDDVKVRQKI 119
            +FF       P     ++ +   +    S P         L L + F  + D  +RQ  
Sbjct: 78  DYFFSDLERGDPRHDGALAEDMGRLAQGGSAPPDPLRLTQSLDLAQAFWALPDDGMRQSF 137

Query: 120 IELVRSIVSSE 130
           I L++++ S E
Sbjct: 138 IALLKAMSSFE 148


>gi|302381344|ref|YP_003817167.1| hypothetical protein Bresu_0229 [Brevundimonas subvibrioides ATCC
           15264]
 gi|302191972|gb|ADK99543.1| helix-turn-helix domain protein [Brevundimonas subvibrioides ATCC
           15264]
          Length = 139

 Score = 79.7 bits (195), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 42/107 (39%), Positives = 65/107 (60%), Gaps = 5/107 (4%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD +VG+R+  +R+ LG +Q  LG  LG+TFQQ+QKYEKG NR+ AS+L  I+   +
Sbjct: 10  PHPVDRHVGRRVCEKRISLGYNQSDLGRALGLTFQQIQKYEKGANRISASKLWDIARFFK 69

Query: 68  SPISFFF----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
             +++FF    +  P V +D +       DF ST   +++ R   Q+
Sbjct: 70  VDVAYFFQGLNNEQPGV-ADGAGPAAFEHDFPSTRHTIEIARLAPQL 115


>gi|240851107|ref|YP_002972509.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268230|gb|ACS51818.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 156

 Score = 79.7 bits (195), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 38/84 (45%), Positives = 60/84 (71%), Gaps = 1/84 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+ +DI +GKRIR RR+ +G+SQ++LG  L ++FQQ+QKYEK +NRV A  L  I++ 
Sbjct: 37  KNPHFIDILIGKRIRHRRISIGLSQKELGSHLSVSFQQIQKYEKDLNRVSAKCLLEIAQK 96

Query: 66  LESPISFFFDVSPTVCSDISSEEN 89
           L+ P++FF+     +  D+S++E 
Sbjct: 97  LDVPVNFFY-ADLAIKEDLSTKET 119


>gi|304321344|ref|YP_003854987.1| DNA-binding protein [Parvularcula bermudensis HTCC2503]
 gi|303300246|gb|ADM09845.1| DNA-binding protein, putative [Parvularcula bermudensis HTCC2503]
          Length = 128

 Score = 79.3 bits (194), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 45/128 (35%), Positives = 84/128 (65%), Gaps = 6/128 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +P+D +VG+R+R RR +LGM+Q++L E +GI FQQ+QKYE G NRV ASRL  ++E L
Sbjct: 1   MAHPIDSHVGRRLRQRRSLLGMTQQRLAESVGIKFQQIQKYESGANRVSASRLWALAEAL 60

Query: 67  ESPISFFFD--VSPTV--CSDISSEENNVM-DFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           E P+S+FF+   SP +   +   +E + +  + ++  + + L R +  + +   R+++++
Sbjct: 61  EVPVSYFFEGLSSPEMEESTAAKAEADTISPEVLTNKETIDLIRAYYGLKE-GPRRRLLD 119

Query: 122 LVRSIVSS 129
           L +++  +
Sbjct: 120 LAKTLAGA 127


>gi|240851105|ref|YP_002972507.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268228|gb|ACS51816.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 123

 Score = 79.0 bits (193), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 38/84 (45%), Positives = 60/84 (71%), Gaps = 1/84 (1%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+ +DI +GKRIR RR+ +G+SQ++LG  L ++FQQ+QKYEK +NRV A  L  I++ 
Sbjct: 4  KNPHFIDILIGKRIRHRRIAMGVSQKELGCHLSVSFQQIQKYEKDLNRVSAKCLLEIAQK 63

Query: 66 LESPISFFFDVSPTVCSDISSEEN 89
          L+ P++FF+     +  D+S++E 
Sbjct: 64 LDVPVNFFY-ADLAIKEDLSTKET 86


>gi|218659215|ref|ZP_03515145.1| putative transcriptional regulator protein, Cro/CI family
          [Rhizobium etli IE4771]
          Length = 122

 Score = 79.0 bits (193), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 38/69 (55%), Positives = 50/69 (72%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+PVDI VG+ IR  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1  MPDPVDIIVGRNIRQLRALRRVSQLELGEALGLTFQQIQKYEKGTNRVSASKLHQIAVFL 60

Query: 67 ESPISFFFD 75
          +  IS  F+
Sbjct: 61 DVEISVLFE 69


>gi|222149186|ref|YP_002550143.1| transcriptional regulator HTH family [Agrobacterium vitis S4]
 gi|221736171|gb|ACM37134.1| transcriptional regulator HTH family [Agrobacterium vitis S4]
          Length = 134

 Score = 79.0 bits (193), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 44/117 (37%), Positives = 63/117 (53%), Gaps = 4/117 (3%)

Query: 5   KKIPNPVDINV--GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           KK P+  D N+  G+R++  R   GMSQ  +   LG+TFQQ+ KYEKG+N + ASRL   
Sbjct: 5   KKTPDVHDYNILAGERLKSARKNKGMSQADVARKLGVTFQQLHKYEKGINGMSASRLAAA 64

Query: 63  SEVLESPISFFFDVSPTVC--SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           + +L     FF+     V    D SSE  +++   S  D L+LN  F  I +   R+
Sbjct: 65  ATLLGMDPDFFYTADSAVAPSKDTSSELTDLVKATSRSDALELNTCFASIKNSNTRK 121


>gi|218658899|ref|ZP_03514829.1| probable transcriptional regulator protein [Rhizobium etli IE4771]
          Length = 85

 Score = 78.6 bits (192), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 38/80 (47%), Positives = 57/80 (71%), Gaps = 6/80 (7%)

Query: 55  GASRLQHISEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFI 108
           GASRLQ+IS +L  P+SFFF+ +P   S        +S  N V+DF+S+ +GLQLNR F+
Sbjct: 1   GASRLQNISSILNVPVSFFFEDAPGEHSGAIGGMAETSSSNYVVDFLSSSEGLQLNRAFV 60

Query: 109 QIDDVKVRQKIIELVRSIVS 128
           +I D KVR+K++ELV+++ +
Sbjct: 61  KISDPKVRRKVVELVKALAA 80


>gi|218458185|ref|ZP_03498276.1| putative transcriptional regulator protein, Cro/CI family
          [Rhizobium etli Kim 5]
          Length = 110

 Score = 78.6 bits (192), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 38/69 (55%), Positives = 50/69 (72%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+PVDI VG+ IR  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1  MPDPVDIIVGRNIRQLRALRRVSQLELGEALGLTFQQIQKYEKGTNRVSASKLHQIAVFL 60

Query: 67 ESPISFFFD 75
          +  IS  F+
Sbjct: 61 DVEISVLFE 69


>gi|240851111|ref|YP_002972513.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268234|gb|ACS51822.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 123

 Score = 78.6 bits (192), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 40/84 (47%), Positives = 57/84 (67%), Gaps = 1/84 (1%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+ +DI +GKRIR RR+ + +SQ+ LG  LG++FQQ+QKYEKG NRV    L  I++ 
Sbjct: 4  KNPHFIDILIGKRIRHRRISIELSQKALGSHLGVSFQQIQKYEKGFNRVSVGCLLKIAQK 63

Query: 66 LESPISFFFDVSPTVCSDISSEEN 89
          LE P++FF+        DIS++E 
Sbjct: 64 LEVPMNFFY-ADIVTKEDISTKET 86


>gi|218682257|ref|ZP_03529858.1| transcriptional regulator, XRE family protein [Rhizobium etli
          CIAT 894]
          Length = 119

 Score = 78.6 bits (192), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 37/69 (53%), Positives = 50/69 (72%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+PVDI VG+ +R  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1  MPDPVDIIVGRNVRQFRALRRVSQLELGEALGLTFQQIQKYEKGANRVSASKLHQIAVFL 60

Query: 67 ESPISFFFD 75
          +  IS  F+
Sbjct: 61 DVEISALFE 69


>gi|49476080|ref|YP_034121.1| transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49476154|ref|YP_034195.1| transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49238888|emb|CAF28181.1| Transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49238962|emb|CAF28260.1| Transcriptional regulator [Bartonella henselae str. Houston-1]
          Length = 128

 Score = 78.6 bits (192), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 39/81 (48%), Positives = 57/81 (70%), Gaps = 6/81 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI VGK+IR RR +L MSQ+ L + L ++ QQ+QKYE G+NRV A RL+ I+++L  PI+
Sbjct: 15 DIFVGKKIRFRRKMLKMSQKTLADHLKVSSQQIQKYETGLNRVSAGRLKEIADILSVPIA 74

Query: 72 FFF-DV-----SPTVCSDISS 86
          FF+ D+     +PT   +I+S
Sbjct: 75 FFYADLFTKQDTPTQHDEIAS 95


>gi|190889812|ref|YP_001976354.1| transcriptional regulator protein, Cro/CI family [Rhizobium etli
          CIAT 652]
 gi|218512245|ref|ZP_03509085.1| putative transcriptional regulator protein, Cro/CI family
          [Rhizobium etli 8C-3]
 gi|190695091|gb|ACE89176.1| putative transcriptional regulator protein, Cro/CI family
          [Rhizobium etli CIAT 652]
          Length = 122

 Score = 78.2 bits (191), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 38/69 (55%), Positives = 49/69 (71%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+PVDI VG  IR  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1  MPDPVDIIVGHNIRQLRALRRVSQLELGEALGLTFQQIQKYEKGTNRVSASKLHQIAVFL 60

Query: 67 ESPISFFFD 75
          +  IS  F+
Sbjct: 61 DVEISVLFE 69


>gi|209551664|ref|YP_002283581.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
          trifolii WSM2304]
 gi|209537420|gb|ACI57355.1| transcriptional regulator, XRE family [Rhizobium leguminosarum
          bv. trifolii WSM2304]
          Length = 121

 Score = 78.2 bits (191), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 37/69 (53%), Positives = 50/69 (72%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+PVDI VG+ +R  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1  MPDPVDIIVGRNVRQFRALRRVSQLELGEALGLTFQQIQKYEKGTNRVSASKLHQIAVFL 60

Query: 67 ESPISFFFD 75
          +  IS  F+
Sbjct: 61 DVEISALFE 69


>gi|86355802|ref|YP_467694.1| Cro/CI family transcriptional regulator [Rhizobium etli CFN 42]
 gi|86279904|gb|ABC88967.1| putative transcriptional regulator protein, Cro/CI family
          [Rhizobium etli CFN 42]
          Length = 121

 Score = 78.2 bits (191), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 39/69 (56%), Positives = 48/69 (69%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+PVDI VG+ IR  R I  +SQ  LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1  MPDPVDIIVGRNIRQLRAIRRVSQLDLGEALGLTFQQIQKYEKGTNRVSASKLHQIAVFL 60

Query: 67 ESPISFFFD 75
             IS  F+
Sbjct: 61 GVEISALFE 69


>gi|222101983|ref|YP_002546573.1| hypothetical protein Arad_12024 [Agrobacterium radiobacter K84]
 gi|221728100|gb|ACM31109.1| conserved hypothetical protein [Agrobacterium radiobacter K84]
          Length = 150

 Score = 78.2 bits (191), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 42/99 (42%), Positives = 61/99 (61%), Gaps = 4/99 (4%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD  VG++IR++R+   +SQ +LG+ +GI++QQVQKYE G NRV AS L  I   L  
Sbjct: 27  HPVDFYVGQQIRIQRVRANLSQTELGKGVGISYQQVQKYEVGTNRVSASMLWEIGNFLNV 86

Query: 69  PISFFFDVSPTV----CSDISSEENNVMDFISTPDGLQL 103
             + FFD  P       + IS + N  + FI+T +G +L
Sbjct: 87  LPAMFFDGLPESGAGDLTQISPQANESLAFIATTEGREL 125


>gi|49476037|ref|YP_034078.1| transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49238845|emb|CAF28129.1| Transcriptional regulator [Bartonella henselae str. Houston-1]
          Length = 119

 Score = 78.2 bits (191), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 38/75 (50%), Positives = 53/75 (70%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI VGK+IR RR +L MSQ+ L + L ++ QQ+QKYE G+NRV A RL+ I+++L  PI+
Sbjct: 15 DIFVGKKIRFRRKMLKMSQKTLADHLKVSPQQIQKYETGLNRVSAGRLKEIADILSVPIA 74

Query: 72 FFFDVSPTVCSDISS 86
          FF  +S    S +SS
Sbjct: 75 FFMLISSHNKSTLSS 89


>gi|241207094|ref|YP_002978190.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
          trifolii WSM1325]
 gi|240860984|gb|ACS58651.1| transcriptional regulator, XRE family [Rhizobium leguminosarum
          bv. trifolii WSM1325]
          Length = 121

 Score = 78.2 bits (191), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 37/69 (53%), Positives = 50/69 (72%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+PVDI VG+ +R  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1  MPDPVDIIVGRNVRQFRALRRVSQLELGEALGLTFQQIQKYEKGANRVSASKLHQIAVFL 60

Query: 67 ESPISFFFD 75
          +  IS  F+
Sbjct: 61 DVEISALFE 69


>gi|116249916|ref|YP_765754.1| HTH-type transcriptional regulator [Rhizobium leguminosarum bv.
          viciae 3841]
 gi|115254564|emb|CAK05638.1| putative HTH-type transcriptional regulator [Rhizobium
          leguminosarum bv. viciae 3841]
          Length = 121

 Score = 78.2 bits (191), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 37/69 (53%), Positives = 50/69 (72%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+PVDI VG+ +R  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1  MPDPVDIIVGRNVRQFRALRRVSQLELGEALGLTFQQIQKYEKGANRVSASKLHQIAVFL 60

Query: 67 ESPISFFFD 75
          +  IS  F+
Sbjct: 61 DVDISALFE 69


>gi|167645186|ref|YP_001682849.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167347616|gb|ABZ70351.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 127

 Score = 78.2 bits (191), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 44/125 (35%), Positives = 78/125 (62%), Gaps = 3/125 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + N +D+ +GKR+R RR +LG +Q++L   +G+ FQQ+QKYE G NR+ A+RL  +SE L
Sbjct: 1   MGNDIDVYLGKRLRRRRRLLGFTQQQLASTVGVRFQQIQKYECGANRISAARLWQLSEAL 60

Query: 67  ESPISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           E P+ +F+D +S     D S+E     +  +  + L L R +  + + + R+++++L +S
Sbjct: 61  EVPVGYFYDGLSDRTAKDASTEAEG-GEMFARKETLDLVRAYYLLGE-RPRRRLLDLAKS 118

Query: 126 IVSSE 130
           +   E
Sbjct: 119 LNGGE 123


>gi|254562707|ref|YP_003069802.1| XRE family transcriptional regulator [Methylobacterium extorquens
           DM4]
 gi|254269985|emb|CAX25965.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens DM4]
          Length = 94

 Score = 76.6 bits (187), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 38/97 (39%), Positives = 58/97 (59%), Gaps = 3/97 (3%)

Query: 39  ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTP 98
           +TFQQ+QKYE GVNRVGASRL  ++  LE P+S FF+    +   +   +    +F+  P
Sbjct: 1   MTFQQIQKYENGVNRVGASRLSEVARALEVPVSTFFEEGSGL---VEQGQKEAFEFLRVP 57

Query: 99  DGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
             + L   FI I+D ++R++++ LVRS    E+   T
Sbjct: 58  GAVDLLNAFITIEDDRLRREVLALVRSATRREQDQGT 94


>gi|58617626|ref|YP_196825.1| putative transcriptional regulator [Ehrlichia ruminantium str.
           Gardel]
 gi|58417238|emb|CAI28351.1| Hypothetical transcriptional regulator [Ehrlichia ruminantium str.
           Gardel]
          Length = 201

 Score = 76.6 bits (187), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 56/144 (38%), Positives = 78/144 (54%), Gaps = 17/144 (11%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K  P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  ++ 
Sbjct: 54  KSRPHPVDECVGKEIKRQRIMRGMSQNQLANKLGITFQQVQKYEKGTNRIVISRLYQLAS 113

Query: 65  VLESPISFFF-----DVSPTVC-SDISS-------EENNVMDF----ISTPDGLQLNRYF 107
           VL   +         D+    C +DI S       EE  V +F    I + + L + R +
Sbjct: 114 VLNVEVRDIMLKLQEDLKNISCGNDIVSTPSLKDNEEKFVPEFHDSKIDSKEVLMMVRAY 173

Query: 108 IQIDDVKVRQKIIELVRSIVSSEK 131
             I + KVR  I  LV+++ +  K
Sbjct: 174 TCIKNEKVRNIIYNLVKALSTDNK 197


>gi|57239584|ref|YP_180720.1| putative transcriptional regulator [Ehrlichia ruminantium str.
           Welgevonden]
 gi|58579573|ref|YP_197785.1| putative transcriptional regulator [Ehrlichia ruminantium str.
           Welgevonden]
 gi|38098396|gb|AAR10929.1| hypothetical transcriptional regulator [Ehrlichia ruminantium]
 gi|57161663|emb|CAH58593.1| putative transcriptional regulator [Ehrlichia ruminantium str.
           Welgevonden]
 gi|58418199|emb|CAI27403.1| Hypothetical transcriptional regulator [Ehrlichia ruminantium str.
           Welgevonden]
          Length = 201

 Score = 76.6 bits (187), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 56/144 (38%), Positives = 78/144 (54%), Gaps = 17/144 (11%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K  P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  ++ 
Sbjct: 54  KSRPHPVDECVGKEIKRQRIMRGMSQNQLANKLGITFQQVQKYEKGTNRIVISRLYQLAS 113

Query: 65  VLESPISFFF-----DVSPTVC-SDISS-------EENNVMDF----ISTPDGLQLNRYF 107
           VL   +         D+    C +DI S       EE  V +F    I + + L + R +
Sbjct: 114 VLNVEVRDIMLKLQEDLKNISCGNDIVSTPSLKDNEEKFVPEFHDSKIDSKEVLMMVRAY 173

Query: 108 IQIDDVKVRQKIIELVRSIVSSEK 131
             I + KVR  I  LV+++ +  K
Sbjct: 174 TCIKNEKVRNIIYNLVKALSTDNK 197


>gi|254419929|ref|ZP_05033653.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
 gi|196186106|gb|EDX81082.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
          Length = 117

 Score = 76.3 bits (186), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 41/118 (34%), Positives = 67/118 (56%), Gaps = 8/118 (6%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVDI +G RIR RR  L ++Q +L    G+TFQQ+QKYE+GVNRV A+RL  I+ VL+S
Sbjct: 6   DPVDIAIGARIRARREELRITQAQLAAGAGVTFQQIQKYERGVNRVSAARLLQIAAVLKS 65

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                      +  ++ + E + +  ++ P   +L   F  I D + R  ++ + + +
Sbjct: 66  -------TGAALLGELETAEGDEL-ALAAPGVAELLSAFRSIRDAEKRDALLVVAKGL 115


>gi|114571049|ref|YP_757729.1| XRE family transcriptional regulator [Maricaulis maris MCS10]
 gi|114341511|gb|ABI66791.1| transcriptional regulator, XRE family [Maricaulis maris MCS10]
          Length = 128

 Score = 76.3 bits (186), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/124 (34%), Positives = 83/124 (66%), Gaps = 2/124 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + +D++VGKR+R RR +LG++Q++L E +GI FQQ+QKYE G NRV ASRL  ++E L
Sbjct: 1   MTSDIDLHVGKRLRRRRRLLGLTQQQLAESVGIRFQQIQKYECGANRVSASRLFELAESL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           + P+ +F++   +   +++ ++    D +S  + + L R + ++ + + R++++EL +S+
Sbjct: 61  DVPVQYFYE-GLSKRDEVNGDDTLAADVLSQKETVDLIRAYYRLGE-RPRKRLLELAKSL 118

Query: 127 VSSE 130
              E
Sbjct: 119 EPEE 122


>gi|99077913|ref|YP_611172.1| XRE family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99034856|gb|ABF61910.1| transcriptional regulator XRE family [Ruegeria sp. TM1040]
          Length = 125

 Score = 75.9 bits (185), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 35/69 (50%), Positives = 49/69 (71%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+PVDI+VGKRIR RR  +  +Q+ L E +G+  QQ+Q YE   NRV ASRL  IS+VL
Sbjct: 1  MPHPVDIHVGKRIRTRRWTVDETQKYLAEKVGVKCQQIQNYEVASNRVSASRLWDISKVL 60

Query: 67 ESPISFFFD 75
             +++FF+
Sbjct: 61 GVDVTYFFE 69


>gi|144900186|emb|CAM77050.1| transcriptional regulators [Magnetospirillum gryphiswaldense MSR-1]
          Length = 153

 Score = 75.9 bits (185), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 43/131 (32%), Positives = 64/131 (48%), Gaps = 21/131 (16%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNP+D+++GKRIR RR  +G+S E L + + +  + +   E G  RVG   L  +S VL+
Sbjct: 25  PNPLDLHLGKRIRARRNAIGLSLEDLAQAMAVATETLLAMENGSQRVGPQLLHRLSIVLD 84

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTP------------DGLQLNRYFIQIDDVKV 115
            P  +FFD  P              DF  TP            + L+L R ++ I D K 
Sbjct: 85  VPFGYFFDGMPRELD---------ADFPGTPFDDCDPVGDDMREALELVRAYLAISDEKK 135

Query: 116 RQKIIELVRSI 126
           RQ + +L R +
Sbjct: 136 RQMVHQLARKL 146


>gi|227822741|ref|YP_002826713.1| putative transcriptional regulator, XRE familiy [Sinorhizobium
          fredii NGR234]
 gi|227341742|gb|ACP25960.1| putative transcriptional regulator, XRE familiy [Sinorhizobium
          fredii NGR234]
          Length = 122

 Score = 75.9 bits (185), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 35/72 (48%), Positives = 49/72 (68%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          PN +D  VG RIRLRR  LGM +E LG  LG+   QV++YE+G  RV A++L  +++VL+
Sbjct: 5  PNSIDAFVGHRIRLRRKALGMDEENLGAALGVPVAQVRRYEQGTRRVCAAQLLAMADVLQ 64

Query: 68 SPISFFFDVSPT 79
             +FFF+ SP 
Sbjct: 65 VHFTFFFEESPA 76


>gi|221638300|ref|YP_002524562.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
           KD131]
 gi|221159081|gb|ACM00061.1| Transcriptional regulator, XRE family [Rhodobacter sphaeroides
           KD131]
          Length = 102

 Score = 75.9 bits (185), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 40/100 (40%), Positives = 61/100 (61%), Gaps = 4/100 (4%)

Query: 25  ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI 84
           ++GM+Q++L +C+GI FQQ+QKYE G+NRV ASRL  I+E L   ISFFF+         
Sbjct: 1   MVGMTQQQLADCVGIKFQQIQKYETGMNRVSASRLWDIAEALGVSISFFFEGLEGAGDQA 60

Query: 85  SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
              E    D I+  + L+L R +  I + + R+++ +L R
Sbjct: 61  RQAEG---DRITDKEALELVRSYYAIPEAQ-RRRLFDLAR 96


>gi|218670926|ref|ZP_03520597.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli GR56]
          Length = 98

 Score = 75.5 bits (184), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 43/102 (42%), Positives = 65/102 (63%), Gaps = 9/102 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D++VGK IR++R++  +SQ +LG+ +G+TFQQ+QKYEKG NRV AS L  I+  L+  +
Sbjct: 1   MDVHVGKTIRIQRLLRKVSQTELGDRVGVTFQQIQKYEKGSNRVSASMLVEIAGALKVDV 60

Query: 71  SFFFD--VSPTVCSD--ISSEENNVMDFISTPDGLQLNRYFI 108
             FFD   +P   +D    SEE     F+ + +G+ LN  F 
Sbjct: 61  RTFFDDLSTPDTANDNPAPSEE-----FVISREGVLLNAAFF 97


>gi|269958434|ref|YP_003328221.1| putative transcriptional regulator [Anaplasma centrale str.
          Israel]
 gi|269848263|gb|ACZ48907.1| putative transcriptional regulator [Anaplasma centrale str.
          Israel]
          Length = 187

 Score = 75.5 bits (184), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/66 (56%), Positives = 48/66 (72%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          +VG K  P+PVD  VG+ I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL 
Sbjct: 16 IVGGKARPHPVDEYVGREIKKQRIMKGMSQNQLASRLGITFQQVQKYEKGTNRIVISRLY 75

Query: 61 HISEVL 66
           ++ VL
Sbjct: 76 ELARVL 81


>gi|126729205|ref|ZP_01745019.1| DNA-binding protein, putative [Sagittula stellata E-37]
 gi|126710195|gb|EBA09247.1| DNA-binding protein, putative [Sagittula stellata E-37]
          Length = 102

 Score = 75.1 bits (183), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 37/97 (38%), Positives = 62/97 (63%), Gaps = 1/97 (1%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q++L E +GI FQQ+QKYE G NRV ASRL  I++ L+ P+SFFF+      +++++ 
Sbjct: 1   MTQQQLAEKVGIKFQQIQKYETGANRVSASRLWDIADALDVPVSFFFEGIENENAEVAAG 60

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           ++   D +   + L L R +  I + + R+++ EL R
Sbjct: 61  DHVPADILGDKEALDLVRSYYAIPENQ-RRRLFELAR 96


>gi|86651824|gb|ABD14429.1| transcriptional regulator [Anaplasma centrale]
          Length = 187

 Score = 75.1 bits (183), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 37/66 (56%), Positives = 48/66 (72%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          +VG K  P+PVD  VG+ I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL 
Sbjct: 16 IVGGKARPHPVDEYVGREIKKQRIMKGMSQNQLASRLGITFQQVQKYEKGTNRIVISRLY 75

Query: 61 HISEVL 66
           ++ VL
Sbjct: 76 ELARVL 81


>gi|330814062|ref|YP_004358301.1| transcriptional regulator, Cro/CI family [Candidatus Pelagibacter
          sp. IMCC9063]
 gi|327487157|gb|AEA81562.1| transcriptional regulator, Cro/CI family [Candidatus Pelagibacter
          sp. IMCC9063]
          Length = 120

 Score = 75.1 bits (183), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 33/74 (44%), Positives = 51/74 (68%), Gaps = 4/74 (5%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++GK++RLRR  LG++Q ++ + + +TFQQ+QKYEKG N V ++RL  ++  L+ PI FF
Sbjct: 8  HLGKKLRLRRTSLGLTQTQVAQAINVTFQQIQKYEKGTNGVSSARLLQLANFLKVPIKFF 67

Query: 74 F----DVSPTVCSD 83
          F    D S T  +D
Sbjct: 68 FEDYQDFSETTQND 81


>gi|118785|sp|P15017|DNU4_RHORU RecName: Full=Uncharacterized transcriptional regulator in ATPase
          CF(0) region; AltName: Full=URF4
 gi|46375|emb|CAA31250.1| ORF 4 (AA 1 - 108); homolog. to DNA-binding proteins
          [Rhodospirillum rubrum]
 gi|152603|gb|AAA26459.1| pot. DNA-binding protein (URF4); putative [Rhodospirillum rubrum]
          Length = 108

 Score = 75.1 bits (183), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 33/64 (51%), Positives = 46/64 (71%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VD +VG+R+R RR  L + QE L   +G++FQQ+QKYE+G NR+ ASRL  I++ L  PI
Sbjct: 12 VDAHVGQRVRQRRTALILDQETLARRIGVSFQQIQKYERGRNRISASRLYDIAKALAVPI 71

Query: 71 SFFF 74
           +FF
Sbjct: 72 DYFF 75


>gi|163869144|ref|YP_001610383.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018830|emb|CAK02388.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 156

 Score = 75.1 bits (183), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 54/113 (47%), Positives = 71/113 (62%), Gaps = 5/113 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ VGKRIRLRR  L MSQ  LG  LGI+FQQVQKYEKG+NRV A RL  IS++L  PI
Sbjct: 43  IDLLVGKRIRLRRKRLKMSQTTLGNALGISFQQVQKYEKGLNRVSAGRLMEISDILNVPI 102

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           SFF+    T    +SS +    + IS  +   L + F  +  VK R+  ++L+
Sbjct: 103 SFFYADIITKQHALSSHD----EIISNTEEYLLLKRFRTLTTVK-RKAFLQLI 150


>gi|90309028|gb|ABD93637.1| hypothetical transcriptional regulator [Ehrlichia muris]
          Length = 216

 Score = 75.1 bits (183), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 50/136 (36%), Positives = 72/136 (52%), Gaps = 17/136 (12%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  ++ VL 
Sbjct: 75  PHPVDECVGKEIKRQRIMRGMSQNQLATKLGITFQQVQKYEKGTNRIVISRLYQLATVLN 134

Query: 68  SPISFFF-----DVSPTVCSDI--------SSEENNVMDF----ISTPDGLQLNRYFIQI 110
             +         D+    C            +EE  + +F    I + + L + R +  I
Sbjct: 135 VEVRDIMLKLQEDLKNIACDHTVACTSILRDNEEKFIPEFHDNKIDSKEVLMMVRAYTCI 194

Query: 111 DDVKVRQKIIELVRSI 126
            + KVR  I  LV+++
Sbjct: 195 KNEKVRNIIYNLVKAL 210


>gi|56417165|ref|YP_154239.1| hypothetical protein AM1138 [Anaplasma marginale str. St. Maries]
 gi|255004638|ref|ZP_05279439.1| hypothetical protein AmarV_05075 [Anaplasma marginale str.
           Virginia]
 gi|23168718|gb|AAN08687.1| transcriptional regulator [Anaplasma marginale str. South Idaho]
 gi|23168730|gb|AAN08693.1| transcriptional regulator [Anaplasma marginale]
 gi|23168742|gb|AAN08699.1| transcriptional regulator [Anaplasma marginale]
 gi|23168754|gb|AAN08705.1| transcriptional regulator [Anaplasma marginale]
 gi|23168766|gb|AAN08711.1| transcriptional regulator [Anaplasma marginale str. Washington
           Okanogan]
 gi|56388397|gb|AAV86984.1| hypothetical protein AM1138 [Anaplasma marginale str. St. Maries]
          Length = 187

 Score = 74.3 bits (181), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 56/148 (37%), Positives = 82/148 (55%), Gaps = 16/148 (10%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +V  K  P+PVD  VG+ I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL 
Sbjct: 16  IVEGKARPHPVDEYVGREIKKQRIMKGMSQNQLASRLGITFQQVQKYEKGTNRIVISRLY 75

Query: 61  HISEVLESPISFFF-----DVSP-TVCSDIS------SEENNVMDF-ISTPDG---LQLN 104
            ++ VL   I         D+ P T   D +       EE+++ +F  S  DG   L L 
Sbjct: 76  ELARVLGIEIKDLIAKLQNDLRPITDAGDATDAALREGEESSLEEFGQSYNDGKEVLMLV 135

Query: 105 RYFIQIDDVKVRQKIIELVRSIVSSEKK 132
           R + +I   K+R  I  LV+ + + +++
Sbjct: 136 RAYRRIKSDKMRGAIHTLVKVMCAEQQQ 163


>gi|84686223|ref|ZP_01014118.1| DNA-binding protein, putative [Maritimibacter alkaliphilus
           HTCC2654]
 gi|84665750|gb|EAQ12225.1| DNA-binding protein, putative [Rhodobacterales bacterium HTCC2654]
          Length = 104

 Score = 74.3 bits (181), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 40/100 (40%), Positives = 64/100 (64%), Gaps = 2/100 (2%)

Query: 25  ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI 84
           ++GM+Q++L E +GI FQQ+QKYE G+NRV ASRL  IS+ L  P+SFFF+      ++ 
Sbjct: 1   MVGMTQQQLAEKVGIKFQQIQKYETGMNRVSASRLWDISDALSVPVSFFFE-GLEGGAER 59

Query: 85  SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            +E     D ++  + L+L R +  I + + R+++ EL R
Sbjct: 60  EAEHALPDDILADKEALELVRSYYAIPENQ-RRRLFELAR 98


>gi|254995332|ref|ZP_05277522.1| hypothetical protein AmarM_05275 [Anaplasma marginale str.
           Mississippi]
          Length = 187

 Score = 74.3 bits (181), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 56/148 (37%), Positives = 82/148 (55%), Gaps = 16/148 (10%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +V  K  P+PVD  VG+ I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL 
Sbjct: 16  IVEGKARPHPVDEYVGREIKKQRIMKGMSQNQLASRLGITFQQVQKYEKGTNRIVISRLY 75

Query: 61  HISEVLESPISFFF-----DVSP-TVCSDIS------SEENNVMDF-ISTPDG---LQLN 104
            ++ VL   I         D+ P T   D +       EE+++ +F  S  DG   L L 
Sbjct: 76  ELARVLGIEIKDLIAKLQNDLRPITDAGDATDAALREGEESSLEEFGQSYNDGKEVLMLV 135

Query: 105 RYFIQIDDVKVRQKIIELVRSIVSSEKK 132
           R + +I   K+R  I  LV+ + + +++
Sbjct: 136 RAYRRIKSDKMRGAIHTLVKVMCAEQQQ 163


>gi|88657852|ref|YP_507902.1| putative transcriptional regulator [Ehrlichia chaffeensis str.
           Arkansas]
 gi|88599309|gb|ABD44778.1| putative transcriptional regulator [Ehrlichia chaffeensis str.
           Arkansas]
          Length = 213

 Score = 74.3 bits (181), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 50/136 (36%), Positives = 72/136 (52%), Gaps = 17/136 (12%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  ++ VL 
Sbjct: 72  PHPVDECVGKEIKRQRIMRGMSQNQLANKLGITFQQVQKYEKGTNRIVISRLYQLASVLN 131

Query: 68  SPISFFF-----DVSPTVCSDI--------SSEENNVMDF----ISTPDGLQLNRYFIQI 110
             +         D+    C            +EE  + +F    I + + L + R +  I
Sbjct: 132 VEVRDIMLKLQEDLKNISCDHTVASTSTLKDNEEKFIPEFHDSKIDSKEVLMMVRAYTCI 191

Query: 111 DDVKVRQKIIELVRSI 126
            + KVR  I  LV+++
Sbjct: 192 KNEKVRNIIYNLVKAL 207


>gi|68171793|ref|ZP_00545135.1| Helix-turn-helix motif [Ehrlichia chaffeensis str. Sapulpa]
 gi|13511828|gb|AAC02808.2| hypothetical transcriptional regulator [Ehrlichia chaffeensis]
 gi|67998784|gb|EAM85494.1| Helix-turn-helix motif [Ehrlichia chaffeensis str. Sapulpa]
          Length = 213

 Score = 73.9 bits (180), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 50/136 (36%), Positives = 72/136 (52%), Gaps = 17/136 (12%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  ++ VL 
Sbjct: 72  PHPVDECVGKEIKRQRIMRGMSQNQLANKLGITFQQVQKYEKGTNRIVISRLYQLASVLN 131

Query: 68  SPISFFF-----DVSPTVCSDI--------SSEENNVMDF----ISTPDGLQLNRYFIQI 110
             +         D+    C            +EE  + +F    I + + L + R +  I
Sbjct: 132 VEVRDIMLKLQEDLKNISCDHTVASTSTLKDNEEKFIPEFHDSKIDSKEVLMMVRAYTCI 191

Query: 111 DDVKVRQKIIELVRSI 126
            + KVR  I  LV+++
Sbjct: 192 KNEKVRNIIYNLVKAL 207


>gi|302383125|ref|YP_003818948.1| hypothetical protein Bresu_2014 [Brevundimonas subvibrioides ATCC
           15264]
 gi|302193753|gb|ADL01325.1| helix-turn-helix domain protein [Brevundimonas subvibrioides ATCC
           15264]
          Length = 130

 Score = 73.9 bits (180), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 42/129 (32%), Positives = 74/129 (57%), Gaps = 23/129 (17%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D++VG+++   R ++G+SQ  +G  +G+TFQQVQKYE+G NR+ AS L  ++E L  P+
Sbjct: 13  LDVHVGRQLIAARTLMGLSQSDVGRLVGVTFQQVQKYERGTNRISASVLWTLAEKLNLPV 72

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPD---------GLQLNRYFIQIDDVKVRQKIIE 121
           ++FF+           +E  V     TPD         G+++   F ++   K ++ +++
Sbjct: 73  TYFFE---------GLDEGTV----RTPDFVFASLGKVGVEMADAFAKLSP-KRQRLLLD 118

Query: 122 LVRSIVSSE 130
           L RS  SS+
Sbjct: 119 LARSFASSD 127


>gi|319409074|emb|CBI82722.1| Transcriptional regulator [Bartonella schoenbuchensis R1]
          Length = 94

 Score = 73.9 bits (180), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 32/55 (58%), Positives = 43/55 (78%)

Query: 25 ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPT 79
          +LGMSQ+ L   LGI+FQQ+QKYEKG+NRVGA RL+ I+++   PISFF+  + T
Sbjct: 1  MLGMSQKTLAHHLGISFQQIQKYEKGLNRVGAGRLKDIADIFRVPISFFYPDTTT 55


>gi|48527206|gb|AAT45743.1| putative Cro/CI family trancriptional regulator [Rhizobium etli]
          Length = 76

 Score = 73.9 bits (180), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 38/65 (58%), Positives = 46/65 (70%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+PVDI VG+ IR  R I  +SQ  LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1  MPDPVDIIVGRNIRQLRAIRRVSQLDLGEALGLTFQQIQKYEKGTNRVSASKLHQIAVFL 60

Query: 67 ESPIS 71
             IS
Sbjct: 61 GVEIS 65


>gi|262277238|ref|ZP_06055031.1| transcription regulator [alpha proteobacterium HIMB114]
 gi|262224341|gb|EEY74800.1| transcription regulator [alpha proteobacterium HIMB114]
          Length = 121

 Score = 73.6 bits (179), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 54/77 (70%), Gaps = 2/77 (2%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++GK++RLRR  LG++Q ++ + + +TFQQ+QKYEKG N V ++RL  +S  L+ PI +F
Sbjct: 8  HLGKKLRLRRTSLGLTQTQVAKAINVTFQQIQKYEKGTNGVSSARLLQLSSFLKVPIKYF 67

Query: 74 FDVSPTVCSDISSEENN 90
          F+      S  S+E+N+
Sbjct: 68 FEDYQDFAS--SNEDNS 82


>gi|255263044|ref|ZP_05342386.1| transcriptional regulator, XRE family [Thalassiobium sp. R2A62]
 gi|255105379|gb|EET48053.1| transcriptional regulator, XRE family [Thalassiobium sp. R2A62]
          Length = 118

 Score = 73.2 bits (178), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 34/67 (50%), Positives = 48/67 (71%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +PVD++VGKRI+  R++ G SQ ++   L I+FQQ+QKYE G NR+ ASRL  +S++   
Sbjct: 3  HPVDVHVGKRIKEARILRGQSQSEIARELDISFQQIQKYESGKNRISASRLFELSQLFGI 62

Query: 69 PISFFFD 75
            SFFFD
Sbjct: 63 SPSFFFD 69


>gi|222087820|ref|YP_002546358.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221725268|gb|ACM28424.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 159

 Score = 73.2 bits (178), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 82/134 (61%), Gaps = 5/134 (3%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G+ ++ +PVD +VG+++R+ R+   +SQ +LG  +G+++QQVQKYE G NR+ AS L  I
Sbjct: 23  GDGQMIHPVDRHVGQQLRILRIHSNLSQTELGHEVGLSYQQVQKYESGKNRISASMLYVI 82

Query: 63  SEVLESPISFFFDVSPTVCSDISS----EENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           +  L  P++ FFD  P   S+++     E +  + +I+T +G +     +++   ++R +
Sbjct: 83  ASRLNVPVNRFFDGLPPSESEVTDGIVPEVDERIAYIATAEGRRFVEEILRLPP-RLRTR 141

Query: 119 IIELVRSIVSSEKK 132
            + +++ +   E++
Sbjct: 142 TLAVIKVLAGDEEE 155


>gi|73667507|ref|YP_303523.1| transcriptional regulator [Ehrlichia canis str. Jake]
 gi|72394648|gb|AAZ68925.1| transcriptional regulator [Ehrlichia canis str. Jake]
          Length = 215

 Score = 72.8 bits (177), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/136 (36%), Positives = 73/136 (53%), Gaps = 17/136 (12%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  ++ VL 
Sbjct: 74  PHPVDECVGKEIKRQRIMRGMSQNQLANKLGITFQQVQKYEKGTNRIVISRLYQLASVLN 133

Query: 68  SPISFFF-----DVSPTVCSDI--------SSEENNVMDF----ISTPDGLQLNRYFIQI 110
             +         D+    C +          +EE  + +F    I + + L + R +  I
Sbjct: 134 VEVRDIMLKLQEDLKNISCDNPITPPHALRDNEEKFLPEFNDSKIDSKEVLMMVRAYTCI 193

Query: 111 DDVKVRQKIIELVRSI 126
            + KVR  I  LV+++
Sbjct: 194 KNEKVRNIIYNLVKAL 209


>gi|13512585|gb|AAK28679.1| hypothetical transcriptional regulator [Ehrlichia canis]
          Length = 204

 Score = 72.8 bits (177), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/136 (36%), Positives = 73/136 (53%), Gaps = 17/136 (12%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  ++ VL 
Sbjct: 63  PHPVDECVGKEIKRQRIMRGMSQNQLANKLGITFQQVQKYEKGTNRIVISRLYQLASVLN 122

Query: 68  SPISFFF-----DVSPTVCSDI--------SSEENNVMDF----ISTPDGLQLNRYFIQI 110
             +         D+    C +          +EE  + +F    I + + L + R +  I
Sbjct: 123 VEVRDIMLKLQEDLKNISCDNPITPPHALRDNEEKFLPEFNDSKIDSKEVLMMVRAYTCI 182

Query: 111 DDVKVRQKIIELVRSI 126
            + KVR  I  LV+++
Sbjct: 183 KNEKVRNIIYNLVKAL 198


>gi|222475530|ref|YP_002563947.1| transcriptional regulator [Anaplasma marginale str. Florida]
 gi|222419668|gb|ACM49691.1| transcriptional regulator [Anaplasma marginale str. Florida]
          Length = 187

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 55/148 (37%), Positives = 82/148 (55%), Gaps = 16/148 (10%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +V  K  P+PVD  VG+ I+ +R++ GMS+ +L   LGITFQQVQKYEKG NR+  SRL 
Sbjct: 16  IVEGKARPHPVDEYVGREIKKQRIMKGMSRNQLASRLGITFQQVQKYEKGTNRIVISRLY 75

Query: 61  HISEVLESPISFFF-----DVSP-TVCSDIS------SEENNVMDF-ISTPDG---LQLN 104
            ++ VL   I         D+ P T   D +       EE+++ +F  S  DG   L L 
Sbjct: 76  ELARVLGIEIKDLIAKLQNDLRPITDAGDATDAALREGEESSLEEFGQSYNDGKEVLMLV 135

Query: 105 RYFIQIDDVKVRQKIIELVRSIVSSEKK 132
           R + +I   K+R  I  LV+ + + +++
Sbjct: 136 RAYRRIKSDKMRGAIHTLVKVMCAEQQQ 163


>gi|329891157|ref|ZP_08269500.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
 gi|328846458|gb|EGF96022.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
          Length = 123

 Score = 72.4 bits (176), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 40/119 (33%), Positives = 69/119 (57%), Gaps = 4/119 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+  +R+ LG +Q  LG+ LG+TFQQVQKYEKG NR+ AS+L  I+      I +FF
Sbjct: 1   MGRRVCEKRIALGYNQTDLGQALGVTFQQVQKYEKGANRISASKLWDIARFFRVDIGYFF 60

Query: 75  DVSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           +          +E   E  V DF +T   +++ R   ++   + ++ +++L+R +V  +
Sbjct: 61  EGLTGAAQPGMAEGEAEPFVHDFPATRQTIEIGRLAPRLSS-RQQKLVVDLMRELVEDD 118


>gi|114798925|ref|YP_758959.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114739099|gb|ABI77224.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 132

 Score = 72.0 bits (175), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 42/123 (34%), Positives = 77/123 (62%), Gaps = 4/123 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +  D++VGKR+R RR +LGM+Q+ L   +G+ FQQ+QKYE G NR+ ASRL  ++  +
Sbjct: 1   MADETDLHVGKRLRRRRRLLGMTQQDLASQVGVRFQQIQKYECGANRITASRLYDLARAM 60

Query: 67  ESPISFFFD---VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
              + +F+D   V  TV +  +  E    D +S  + L+L R + ++ + + R++++EL 
Sbjct: 61  NVSVQYFYDGMVVPGTVPNAANDAEQMEGDILSQKETLELVRAYYRLSE-RPRRRLLELA 119

Query: 124 RSI 126
           +++
Sbjct: 120 KAL 122


>gi|254295330|ref|YP_003061353.1| XRE family transcriptional regulator [Hirschia baltica ATCC 49814]
 gi|254043861|gb|ACT60656.1| transcriptional regulator, XRE family [Hirschia baltica ATCC 49814]
          Length = 132

 Score = 72.0 bits (175), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/128 (35%), Positives = 81/128 (63%), Gaps = 4/128 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   VDI VGKR+R RR +LGM+Q+ L   +G+ FQQ+QKYE G NR+ ASRL  ++  L
Sbjct: 1   MATDVDIYVGKRLRRRRRLLGMTQQDLASEIGVRFQQIQKYECGANRITASRLFDLANAL 60

Query: 67  ESPISFFFD-VSPTVCSDISSEENNVM--DFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
              +S+FFD ++P      +++ N+ +  D +S  + L+L R + ++ + + R+++++L 
Sbjct: 61  TVNVSYFFDGLAPDGKQAPANDGNDTLSGDILSQKETLELVRAYYRLSE-RPRRRLLDLA 119

Query: 124 RSIVSSEK 131
           +++    K
Sbjct: 120 KALEEDNK 127


>gi|163740854|ref|ZP_02148247.1| DNA-binding protein, putative [Phaeobacter gallaeciensis 2.10]
 gi|161385845|gb|EDQ10221.1| DNA-binding protein, putative [Phaeobacter gallaeciensis 2.10]
          Length = 102

 Score = 72.0 bits (175), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 39/97 (40%), Positives = 57/97 (58%), Gaps = 1/97 (1%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L  P+SFFF+      +  S +
Sbjct: 1   MTQQQLAELVGIKFQQIQKYETGANRVSASRLWDISDALSVPVSFFFEGLQDDDAPASDK 60

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                D +   + L L R +  I + + R+++ EL R
Sbjct: 61  AQVPDDLMGDKEALDLVRSYYAIPENQ-RRRLFELAR 96


>gi|163745937|ref|ZP_02153296.1| transcriptional regulator, Cro/CI family, putative [Oceanibulbus
           indolifex HEL-45]
 gi|161380682|gb|EDQ05092.1| transcriptional regulator, Cro/CI family, putative [Oceanibulbus
           indolifex HEL-45]
          Length = 103

 Score = 71.6 bits (174), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/98 (37%), Positives = 59/98 (60%), Gaps = 2/98 (2%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD-VSPTVCSDISS 86
           M+Q+KL E +GI FQQ+QKYE G NRV ASRL  I++ L  P+SFFF+ +        + 
Sbjct: 1   MTQQKLAELVGIKFQQIQKYETGANRVSASRLWDIADALGVPVSFFFEGIKDDQAEGTAP 60

Query: 87  EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            +    D ++  + ++L R +  I + + R+++ EL R
Sbjct: 61  LDGLPADLMADKEAMELVRSYYAIPENQ-RRRLFELAR 97


>gi|88607013|ref|YP_505749.1| DNA-binding protein [Anaplasma phagocytophilum HZ]
 gi|35057062|gb|AAN15209.1| putative transcriptional regulator [Anaplasma phagocytophilum]
 gi|88598076|gb|ABD43546.1| DNA-binding protein [Anaplasma phagocytophilum HZ]
          Length = 183

 Score = 71.6 bits (174), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 40/82 (48%), Positives = 54/82 (65%), Gaps = 3/82 (3%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K  P+PVD  VG+ I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  ++ 
Sbjct: 20 KAKPHPVDEYVGREIKKQRIMKGMSQNQLASRLGITFQQVQKYEKGTNRIVISRLYELAR 79

Query: 65 VLESPISFFFDVSPTVCSDISS 86
          VL   I+   D+   + +DI S
Sbjct: 80 VLGIEIN---DLMSKLQNDIRS 98


>gi|319409214|emb|CBI82858.1| transcriptional regulator (fragment) [Bartonella schoenbuchensis
           R1]
          Length = 95

 Score = 71.2 bits (173), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 41/99 (41%), Positives = 63/99 (63%), Gaps = 11/99 (11%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           MSQ+ L   LGI+FQQ+QKYEKG+NRVGA RL+ I+++ + PISFF+        D +++
Sbjct: 1   MSQKTLAHHLGISFQQIQKYEKGLNRVGAGRLKDIADIFDVPISFFY-------PDTTTK 53

Query: 88  ENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           E  V    + IS+ +   L + F  +  VK ++ I+EL+
Sbjct: 54  EGGVHHHDEIISSKEEYLLLKSFRVLTSVK-QKAILELI 91


>gi|254456421|ref|ZP_05069850.1| transcription regulator [Candidatus Pelagibacter sp. HTCC7211]
 gi|207083423|gb|EDZ60849.1| transcription regulator [Candidatus Pelagibacter sp. HTCC7211]
          Length = 123

 Score = 70.9 bits (172), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 28/62 (45%), Positives = 47/62 (75%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G +++LRR+ LG++Q K+ + + +TFQQ+QKYEKG N V + RL  +S  L+ PI++F
Sbjct: 8  HLGNKLKLRRLALGLTQTKVAKAINVTFQQIQKYEKGTNGVSSIRLLQLSNYLKVPINYF 67

Query: 74 FD 75
          F+
Sbjct: 68 FE 69


>gi|254418112|ref|ZP_05031836.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
 gi|196184289|gb|EDX79265.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
          Length = 124

 Score = 70.9 bits (172), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 43/121 (35%), Positives = 67/121 (55%), Gaps = 8/121 (6%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P+DI VG RIR  R   G+SQ  LG+ +GITFQQVQKYE G NRV AS+L  I+  L  
Sbjct: 6   HPIDIQVGARIRTFREAAGISQHHLGKDIGITFQQVQKYETGANRVSASKLYLIARRLGV 65

Query: 69  PISFFFDVSPTVCSDI-SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
            I+        +  ++   E   V++ ++     +L   + QID  + R  +I++ ++  
Sbjct: 66  SIA-------EIIGEVEDGERATVVESLTVARTHELLAAWNQIDTPEKRALLIDVAQTFA 118

Query: 128 S 128
           +
Sbjct: 119 A 119


>gi|254477432|ref|ZP_05090818.1| transcriptional regulator, XRE family [Ruegeria sp. R11]
 gi|214031675|gb|EEB72510.1| transcriptional regulator, XRE family [Ruegeria sp. R11]
          Length = 101

 Score = 70.9 bits (172), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 41/98 (41%), Positives = 61/98 (62%), Gaps = 4/98 (4%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L  P+SFFF+       D ++E
Sbjct: 1   MTQQQLAELVGIKFQQIQKYETGANRVSASRLWDISDALGVPVSFFFE--GLQEDDGAAE 58

Query: 88  ENNVM-DFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           ++ V  D +   + L L R +  I + + R+++ EL R
Sbjct: 59  KSQVPDDLMGDKEALDLVRSYYAIPENQ-RRRLFELAR 95


>gi|163869149|ref|YP_001610389.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018836|emb|CAK02394.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 128

 Score = 70.5 bits (171), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 30/47 (63%), Positives = 37/47 (78%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          MSQ  LG  LG++FQQ+QKYEKG+NRV A RL  IS++L  PISFF+
Sbjct: 1  MSQTTLGHALGVSFQQIQKYEKGLNRVSAGRLMQISDILNVPISFFY 47


>gi|302381689|ref|YP_003817512.1| hypothetical protein Bresu_0574 [Brevundimonas subvibrioides ATCC
           15264]
 gi|302192317|gb|ADK99888.1| helix-turn-helix domain protein [Brevundimonas subvibrioides ATCC
           15264]
          Length = 128

 Score = 69.7 bits (169), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 35/100 (35%), Positives = 61/100 (61%), Gaps = 1/100 (1%)

Query: 29  SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEE 88
           +Q++L   +GI FQQ+QKYE G NR+ A+RL  +SE LE+PIS+F+D          +  
Sbjct: 23  TQQQLAIQVGIRFQQIQKYECGANRISAARLWQLSEALETPISYFYDGLAEAMERRETAS 82

Query: 89  NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            N  +  S  + L L + + Q+ + + R+++++L +S+ S
Sbjct: 83  ANGGEMFSRKETLDLIQAYYQLGE-RPRRRLLDLAKSLHS 121


>gi|163869010|ref|YP_001610241.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018688|emb|CAK02246.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 112

 Score = 69.7 bits (169), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 31/53 (58%), Positives = 45/53 (84%)

Query: 25 ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +L +SQ++LG+ LG+TFQQ+QKYEKG+NRVGA RLQ I+++L+  I F+ D+S
Sbjct: 1  MLKISQKQLGDRLGVTFQQIQKYEKGLNRVGAGRLQEIADILDISIFFYADIS 53


>gi|71083650|ref|YP_266370.1| transcription regulator [Candidatus Pelagibacter ubique HTCC1062]
 gi|91763309|ref|ZP_01265273.1| transcription regulator [Candidatus Pelagibacter ubique HTCC1002]
 gi|71062763|gb|AAZ21766.1| transcription regulator [Candidatus Pelagibacter ubique HTCC1062]
 gi|91717722|gb|EAS84373.1| transcription regulator [Candidatus Pelagibacter ubique HTCC1002]
          Length = 123

 Score = 69.7 bits (169), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 26/62 (41%), Positives = 47/62 (75%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G +++LRR+ LG++Q K+ + + +TFQQ+QKYEKG N V + RL  ++  L+ P+++F
Sbjct: 8  HLGNKLKLRRLALGLTQTKVAKAINVTFQQIQKYEKGTNGVSSIRLLQLANYLKVPVNYF 67

Query: 74 FD 75
          F+
Sbjct: 68 FE 69


>gi|222825161|dbj|BAH22318.1| transcriptional regulator [Wolbachia endosymbiont of Cadra
          cautella]
          Length = 133

 Score = 69.7 bits (169), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 36/88 (40%), Positives = 52/88 (59%), Gaps = 6/88 (6%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I +P+D  +G+RIR RR++ G SQ  LG+ LGI+FQ +Q YE G  R+   RL  ++E L
Sbjct: 3  IQHPIDKQIGERIRKRRLMCGFSQRDLGKKLGISFQHIQGYETGEVRLIVDRLYKLAEAL 62

Query: 67 ESPISFFFDVSP------TVCSDISSEE 88
             +S+FF  +          SD+ SEE
Sbjct: 63 SVDMSYFFTKASEDLHDKAFRSDVGSEE 90


>gi|84684043|ref|ZP_01011945.1| DNA-binding protein, putative [Maritimibacter alkaliphilus
           HTCC2654]
 gi|84667796|gb|EAQ14264.1| DNA-binding protein, putative [Rhodobacterales bacterium HTCC2654]
          Length = 120

 Score = 69.3 bits (168), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 41/118 (34%), Positives = 68/118 (57%), Gaps = 10/118 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P+D+ +G+RIR  R+  G++Q++L   +G+ FQQ+QKYE   NRV  SRL  IS+ L  
Sbjct: 3   HPIDVFIGRRIREERVAAGLTQKELSILIGVKFQQLQKYETAANRVSGSRLWMISKALAV 62

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           P+S F    P       SE++      + P   +L R  + ++  K++ ++I  VR+I
Sbjct: 63  PMSSFL---PDGVELPISEKD------AEPSDARLMRDILMLEP-KLKLELIRFVRAI 110


>gi|84500271|ref|ZP_00998537.1| DNA-binding protein, putative [Oceanicola batsensis HTCC2597]
 gi|84392205|gb|EAQ04473.1| DNA-binding protein, putative [Oceanicola batsensis HTCC2597]
          Length = 100

 Score = 69.3 bits (168), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/98 (38%), Positives = 59/98 (60%), Gaps = 5/98 (5%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q++L E +GI FQQ+QKYE G NRV ASRL  I++ LE  +SFFF+    +  + +  
Sbjct: 1   MTQQQLAERVGIKFQQIQKYETGANRVSASRLWDIADALEVSVSFFFE---GLNEEDTKA 57

Query: 88  ENNV-MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            N +  D +   + L L R +  I + + R+++ EL R
Sbjct: 58  SNKIPADILGDKEALDLVRSYYAIPEAQ-RRRLFELAR 94


>gi|253700083|ref|YP_003021272.1| XRE family transcriptional regulator [Geobacter sp. M21]
 gi|251774933|gb|ACT17514.1| transcriptional regulator, XRE family [Geobacter sp. M21]
          Length = 114

 Score = 68.9 bits (167), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 49/78 (62%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R   G+SQEKL E +G++FQQ+QKYE G   +   +LQHI+  L+  ++ FF
Sbjct: 10 IGTLIRRYRQDAGLSQEKLAEMVGVSFQQIQKYENGHTTLNIIKLQHIAAALKVAVTDFF 69

Query: 75 DVSPTVCSDISSEENNVM 92
          D +P     ++ EE+ ++
Sbjct: 70 DAAPVKGVRLTGEEDQLL 87


>gi|58699289|ref|ZP_00374080.1| transcriptional regulator [Wolbachia endosymbiont of Drosophila
          ananassae]
 gi|58534197|gb|EAL58405.1| transcriptional regulator [Wolbachia endosymbiont of Drosophila
          ananassae]
          Length = 124

 Score = 68.9 bits (167), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 37/88 (42%), Positives = 52/88 (59%), Gaps = 6/88 (6%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I +P+D  +G+RIR RR++ G SQ  LG+ L I+FQ VQ YE G  R+   RL  ++EVL
Sbjct: 3  IQHPIDKQIGERIRKRRLMCGFSQRDLGKKLEISFQHVQGYESGEIRLVVDRLYKLAEVL 62

Query: 67 ESPISFFFDVSP------TVCSDISSEE 88
             +S+FF  +          SD+ SEE
Sbjct: 63 SVDMSYFFTKASEDLHDKAFHSDVGSEE 90


>gi|254485635|ref|ZP_05098840.1| transcriptional regulator, Cro/CI family, putative [Roseobacter sp.
           GAI101]
 gi|214042504|gb|EEB83142.1| transcriptional regulator, Cro/CI family, putative [Roseobacter sp.
           GAI101]
          Length = 103

 Score = 68.9 bits (167), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 39/100 (39%), Positives = 58/100 (58%), Gaps = 6/100 (6%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF---DVSPTVCSDI 84
           M+Q+KL E +GI FQQ+QKYE G NRV ASRL  I++ L   +++FF   D   T   D+
Sbjct: 1   MTQQKLAELVGIKFQQIQKYETGANRVSASRLWDIADALNVSVAYFFEGMDSEQTKNQDV 60

Query: 85  SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
              +N   D I   + + L R +  I + + R+++ EL R
Sbjct: 61  P--DNIPADLIGDKEAMDLVRSYYAIPENQ-RRRLFELAR 97


>gi|46201614|ref|ZP_00054686.2| COG1396: Predicted transcriptional regulators [Magnetospirillum
           magnetotacticum MS-1]
          Length = 98

 Score = 68.9 bits (167), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 34/107 (31%), Positives = 64/107 (59%), Gaps = 10/107 (9%)

Query: 25  ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD-VSPTVCSD 83
           +LG+SQ+++ + +G+T+QQ  KYE+G+NR+ A RL  I++VL  P+ FF++ +     SD
Sbjct: 1   MLGLSQQQMADLIGVTYQQAHKYERGINRISAGRLFEIAQVLGVPVGFFYEGLENRRGSD 60

Query: 84  ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           +S+ +            L+L R F  I + + ++ + +L R + + E
Sbjct: 61  LSARQRMC---------LELARNFTSITNERHQEALSQLARVLAAEE 98


>gi|254487347|ref|ZP_05100552.1| transcriptional Regulator, XRE family [Roseobacter sp. GAI101]
 gi|214044216|gb|EEB84854.1| transcriptional Regulator, XRE family [Roseobacter sp. GAI101]
          Length = 121

 Score = 68.6 bits (166), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 31/67 (46%), Positives = 49/67 (73%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +PVDI+VGK+++  R +  +SQ  + + L ++FQQ+QKYE G NRV ASRL  ++++L+ 
Sbjct: 5  HPVDIHVGKKLKQIRTLRRLSQTDVAKQLKLSFQQIQKYEIGSNRVAASRLFELAQILDV 64

Query: 69 PISFFFD 75
            SFFF+
Sbjct: 65 SPSFFFE 71


>gi|218508788|ref|ZP_03506666.1| putative transcriptional regulator protein [Rhizobium etli Brasil
           5]
          Length = 125

 Score = 68.6 bits (166), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 47/118 (39%), Positives = 66/118 (55%), Gaps = 15/118 (12%)

Query: 22  RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP--- 78
           RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ P+S FF+  P   
Sbjct: 1   RRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKIPVSRFFEGLPDPE 60

Query: 79  -TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV-----KVRQKIIELVRSIVSSE 130
            T    I +E +  + +IST +G +L      IDDV     +VR +++ LV SIV  E
Sbjct: 61  TTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRVRSRVVALVSSIVDEE 112


>gi|315498606|ref|YP_004087410.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
 gi|315416618|gb|ADU13259.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
          Length = 127

 Score = 68.2 bits (165), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 29/98 (29%), Positives = 66/98 (67%), Gaps = 1/98 (1%)

Query: 29  SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEE 88
           +Q++L   +GI FQQ+QKYE G NR+ A+RL  +++ LE+P+++F+D      +++++ +
Sbjct: 23  TQQQLALAVGIRFQQIQKYECGANRISAARLFQLAKALETPVTYFYDGLEDNTTEVAAVQ 82

Query: 89  NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           N  ++  S  + L L + + ++ + + R+++++L +S+
Sbjct: 83  NEGIEVFSRKETLDLIQAYYRLSE-RPRRRLLDLAKSL 119


>gi|49476040|ref|YP_034081.1| transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49238848|emb|CAF28132.1| Transcriptional regulator [Bartonella henselae str. Houston-1]
          Length = 125

 Score = 68.2 bits (165), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 33/66 (50%), Positives = 47/66 (71%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           DI VGK+IR RR +L MSQ+ L + L ++ QQ+QKYE G+NRV A  L+ I+++L   I+
Sbjct: 60  DIFVGKKIRFRRKMLKMSQKTLADHLRVSSQQIQKYETGLNRVSAGCLKEIADILNVSIA 119

Query: 72  FFFDVS 77
           FF  +S
Sbjct: 120 FFMPIS 125


>gi|156936184|ref|YP_001440100.1| hypothetical protein ESA_04083 [Cronobacter sakazakii ATCC BAA-894]
 gi|46093560|dbj|BAD14974.1| hypothetical protein [Escherichia coli]
 gi|156534438|gb|ABU79264.1| hypothetical protein ESA_04083 [Cronobacter sakazakii ATCC BAA-894]
          Length = 125

 Score = 68.2 bits (165), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 34/98 (34%), Positives = 57/98 (58%), Gaps = 3/98 (3%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +  D  VG+RI++RR  LG++ + L E + I+ QQ+ +YE+G N++  + L +I+  L +
Sbjct: 7   DSADKQVGQRIQMRRKELGITAQHLAELVDISHQQLSRYERGTNKINVAHLVNIAIKLNT 66

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           PIS+FF       S + +E  N  DF+   D    NR+
Sbjct: 67  PISWFF---IDCFSTLDNESKNQQDFVPVKDADLKNRF 101


>gi|16126490|ref|NP_421054.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
           CB15]
 gi|221235270|ref|YP_002517707.1| transcriptional regulator of stalk biogenesis staR [Caulobacter
           crescentus NA1000]
 gi|13423760|gb|AAK24222.1| transcriptional regulator, Cro/CI family [Caulobacter crescentus
           CB15]
 gi|78057842|gb|ABB17333.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
           CB15]
 gi|220964443|gb|ACL95799.1| transcriptional regulator of stalk biogenesis staR [Caulobacter
           crescentus NA1000]
          Length = 131

 Score = 68.2 bits (165), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 41/120 (34%), Positives = 77/120 (64%), Gaps = 1/120 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + N +D+++GKR+R RR +LG++Q++L   +G+ FQQ+QKYE G NR+ A+RL  +SE L
Sbjct: 4   MGNDIDVHLGKRLRRRRRLLGLTQQQLAGTVGVRFQQIQKYECGANRISAARLWQLSEAL 63

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           E P+ +F+D       + +SE     +  +  + L L R +  + + + R+++++L +S+
Sbjct: 64  EVPVGYFYDGLSDTRRETTSESAEGGEMFARKETLDLIRAYYLLGE-RPRRRLLDLAKSL 122


>gi|163733855|ref|ZP_02141297.1| HTH-type transcriptional regulator, putative [Roseobacter
          litoralis Och 149]
 gi|161392966|gb|EDQ17293.1| HTH-type transcriptional regulator, putative [Roseobacter
          litoralis Och 149]
          Length = 119

 Score = 68.2 bits (165), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 30/79 (37%), Positives = 50/79 (63%), Gaps = 4/79 (5%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +PVD +VG++++  R +  +SQ  +   L ++FQQ+QKYE G NR+ ASRL  +S + 
Sbjct: 1  MSHPVDAHVGRKLKQIRTMRRLSQTDVARELNLSFQQIQKYEIGSNRIAASRLYELSRIF 60

Query: 67 ESPISFFFD----VSPTVC 81
          + P S+FF+     + T C
Sbjct: 61 DVPTSYFFEGLDAATKTTC 79


>gi|13475238|ref|NP_106802.1| hypothetical protein mlr6265 [Mesorhizobium loti MAFF303099]
 gi|14025989|dbj|BAB52588.1| mlr6265 [Mesorhizobium loti MAFF303099]
          Length = 215

 Score = 68.2 bits (165), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 38/105 (36%), Positives = 65/105 (61%), Gaps = 7/105 (6%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           +K  P+P D +VG++I   R+   +SQ +L   +G++FQQ+QKYE   NRV AS L  I+
Sbjct: 24  SKSRPHPADQHVGRQIATVRLQSDVSQAQLARAIGVSFQQLQKYENARNRVSASMLYEIA 83

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNV-----MDFISTPDGLQL 103
             L+ P+S FF+    + ++IS E + +     ++FI++ +G +L
Sbjct: 84  RSLDVPVSRFFEG--LLGNEISGETSPLPIDERIEFIASAEGRRL 126


>gi|37524779|ref|NP_928123.1| MrfJ protein [Photorhabdus luminescens subsp. laumondii TTO1]
 gi|36784204|emb|CAE13073.1| MrfJ protein [Photorhabdus luminescens subsp. laumondii TTO1]
          Length = 101

 Score = 67.8 bits (164), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 31/60 (51%), Positives = 45/60 (75%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGKRI+ RR  LGM+  KL E +GI+ QQ+ +YE+G+NR+  S L  I+ +LE+PI++FF
Sbjct: 10 VGKRIQKRRKELGMTAVKLAEKIGISQQQLSRYERGINRINLSHLVQIASILETPINWFF 69


>gi|110678693|ref|YP_681700.1| HTH-type transcriptional regulator, putative [Roseobacter
          denitrificans OCh 114]
 gi|109454809|gb|ABG31014.1| HTH-type transcriptional regulator, putative [Roseobacter
          denitrificans OCh 114]
          Length = 119

 Score = 67.8 bits (164), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 30/79 (37%), Positives = 50/79 (63%), Gaps = 4/79 (5%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +PVD +VG++++  R +  +SQ  +   L ++FQQ+QKYE G NR+ ASRL  +S + 
Sbjct: 1  MSHPVDAHVGRKLKQIRTMRRLSQTDVARELNLSFQQIQKYEIGSNRIAASRLYELSRIF 60

Query: 67 ESPISFFFD----VSPTVC 81
          + P S+FF+     + T C
Sbjct: 61 DVPTSYFFEGLDAATKTTC 79


>gi|83594727|ref|YP_428479.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
           11170]
 gi|83577641|gb|ABC24192.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
           11170]
          Length = 180

 Score = 67.4 bits (163), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 50/136 (36%), Positives = 81/136 (59%), Gaps = 13/136 (9%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+P+D  VG+R+RLRR +LG+SQ++L + +GITFQQVQKYE+GVNR+ +SRL   + +L 
Sbjct: 17  PDPLDKEVGRRLRLRRKLLGLSQQQLADAVGITFQQVQKYERGVNRLSSSRLWDFATILG 76

Query: 68  SPISFFF------DVSPTV------CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
             +SFFF      DV  T+        D +  +    D +   + L+L  Y       +V
Sbjct: 77  VSVSFFFEDLEAADVDRTIPRARRDAQDETITQTTAEDPLVRTETLELC-YAFWATTPRV 135

Query: 116 RQKIIELVRSIVSSEK 131
           R++ ++ +++  + EK
Sbjct: 136 RKRYLDFLKTAATLEK 151


>gi|83941543|ref|ZP_00954005.1| DNA-binding protein, putative [Sulfitobacter sp. EE-36]
 gi|83847363|gb|EAP85238.1| DNA-binding protein, putative [Sulfitobacter sp. EE-36]
          Length = 119

 Score = 67.4 bits (163), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 30/67 (44%), Positives = 49/67 (73%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +PVDI+VGK+++  R +  +SQ  + + L ++FQQ+QKYE G NRV ASRL  +S++L+ 
Sbjct: 3  HPVDIHVGKKLKQIRTLRRLSQTDVAKRLNLSFQQIQKYEIGSNRVAASRLFELSQILDV 62

Query: 69 PISFFFD 75
            ++FF+
Sbjct: 63 TPAYFFE 69


>gi|157964557|ref|YP_001499381.1| putative transcriptional regulator [Rickettsia massiliae MTU5]
 gi|157844333|gb|ABV84834.1| Putative transcriptional regulator [Rickettsia massiliae MTU5]
          Length = 131

 Score = 67.4 bits (163), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 43/135 (31%), Positives = 74/135 (54%), Gaps = 13/135 (9%)

Query: 1   MVGNKK-IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M+G K  I   +D  +GK+I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL
Sbjct: 1   MMGRKNDIIQKIDSFIGKKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRL 60

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVR 116
             I+E L+  I +FF+           EE N    + T      ++++R F++I+  + +
Sbjct: 61  VLIAEALDRNIDYFFE---------GLEEANKPRPVHTQHQRMCIEVSRNFMKINSTEEQ 111

Query: 117 QKIIELVRSIVSSEK 131
           Q +  LV+ +   EK
Sbjct: 112 QAVNNLVKCLAGKEK 126


>gi|83855020|ref|ZP_00948550.1| DNA-binding protein, putative [Sulfitobacter sp. NAS-14.1]
 gi|83842863|gb|EAP82030.1| DNA-binding protein, putative [Sulfitobacter sp. NAS-14.1]
          Length = 119

 Score = 67.4 bits (163), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 50/69 (72%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +PVDI+VGK+++  R +  +SQ  + + L ++FQQ+QKYE G NRV ASRL  +S++L
Sbjct: 1  MSHPVDIHVGKKLKQIRTLRRLSQTDVAKRLNLSFQQIQKYEIGSNRVAASRLFELSQIL 60

Query: 67 ESPISFFFD 75
          +   ++FF+
Sbjct: 61 DVTPAYFFE 69


>gi|295690271|ref|YP_003593964.1| XRE family transcriptional regulator [Caulobacter segnis ATCC
           21756]
 gi|295432174|gb|ADG11346.1| transcriptional regulator, XRE family [Caulobacter segnis ATCC
           21756]
          Length = 127

 Score = 67.0 bits (162), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 41/124 (33%), Positives = 78/124 (62%), Gaps = 1/124 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + N +D+++GKR+R RR +LG++Q++L E +G+ FQQ+QKYE G NR+ A+RL  ++E L
Sbjct: 1   MGNDIDVHLGKRLRRRRRLLGLTQQQLAEVVGVRFQQIQKYECGANRISAARLWQLAEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           E P+ +F+D    V  + + E     +  +  +   L R +  + + + R+++++L +S+
Sbjct: 61  EVPVGYFYDGLSEVRREAAGEIAESGEMFARKETQDLVRAYYLLGE-RPRRRLLDLAKSL 119

Query: 127 VSSE 130
              E
Sbjct: 120 HGGE 123


>gi|157803756|ref|YP_001492305.1| transcriptional regulator [Rickettsia canadensis str. McKiel]
 gi|157785019|gb|ABV73520.1| Predicted transcriptional regulator [Rickettsia canadensis str.
           McKiel]
          Length = 130

 Score = 67.0 bits (162), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 41/128 (32%), Positives = 70/128 (54%), Gaps = 12/128 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           I   +D  +GK+I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL  I+E L
Sbjct: 7   IIQKIDSFIGKKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRLVLIAEAL 66

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQKIIELV 123
           +  I +FF+           EE N    + T      ++++R F++I+  + +Q I  LV
Sbjct: 67  DRNIDYFFE---------GLEEANKPQPVHTQHQRMCIEVSRNFMKINSTEEQQAINNLV 117

Query: 124 RSIVSSEK 131
           + +   EK
Sbjct: 118 KCLAGKEK 125


>gi|329849657|ref|ZP_08264503.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328841568|gb|EGF91138.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 127

 Score = 66.6 bits (161), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 30/98 (30%), Positives = 65/98 (66%), Gaps = 1/98 (1%)

Query: 29  SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEE 88
           +Q++L   +GI FQQ+QKYE G NR+ A+RL  +++ LE+PI++F+D      +++++  
Sbjct: 23  TQQQLALAVGIRFQQIQKYECGANRISAARLFQLAKALETPINYFYDGLSDEKTEVAAVN 82

Query: 89  NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           N  ++  S  + L L + + ++ + + R+++++L +S+
Sbjct: 83  NEGIEVFSRKETLDLIQAYYRLSE-RPRRRLLDLAKSL 119


>gi|67458969|ref|YP_246593.1| hypothetical protein RF_0577 [Rickettsia felis URRWXCal2]
 gi|67004502|gb|AAY61428.1| unknown [Rickettsia felis URRWXCal2]
          Length = 163

 Score = 66.6 bits (161), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 82/158 (51%), Gaps = 36/158 (22%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N  I +P D    +R++ RR+ +G+SQ++LG+ L I+  QV+KYE+G++ +  SRL   +
Sbjct: 2   NDSIKHP-DKLASERLKERRLAVGISQKELGQALDISALQVKKYEEGLSNIPISRLYVFA 60

Query: 64  EVLESPISFFFDVS--PTVCSDISSEENNVMDF------------ISTPDG--------- 100
           +VL +P+ +FF+ S    + +D  +  NN +++            I+  +G         
Sbjct: 61  KVLNTPLKYFFNSSEEEKLKTDDENTSNNKIEYLFKEIESDFLNNIAEEEGQYENDVSFD 120

Query: 101 ------------LQLNRYFIQIDDVKVRQKIIELVRSI 126
                       L L R F ++ +  +R+ IIELVRS+
Sbjct: 121 YKELSRTMERELLSLTRAFTRVQNPNIRKIIIELVRSV 158


>gi|222081446|ref|YP_002540809.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221726125|gb|ACM29214.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 222

 Score = 66.6 bits (161), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 31/76 (40%), Positives = 51/76 (67%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P+D +VG+++R+ R+   +SQ +LG  + +++QQ+QKYE G NR+ AS L  I+  L  
Sbjct: 73  HPIDRHVGQQLRIIRIHSNLSQTELGHKVDLSYQQIQKYESGKNRMSASVLYEIANCLNV 132

Query: 69  PISFFFDVSPTVCSDI 84
           PIS F+D  P   S++
Sbjct: 133 PISRFYDGLPQAGSEL 148


>gi|222087277|ref|YP_002545812.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221724725|gb|ACM27881.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 180

 Score = 66.6 bits (161), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 31/76 (40%), Positives = 51/76 (67%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P+D +VG+++R+ R+   +SQ +LG  + +++QQ+QKYE G NR+ AS L  I+  L  
Sbjct: 31  HPIDRHVGQQLRIIRIHSNLSQTELGHKVDLSYQQIQKYESGKNRMSASVLYEIANCLNV 90

Query: 69  PISFFFDVSPTVCSDI 84
           PIS F+D  P   S++
Sbjct: 91  PISRFYDGLPQAGSEL 106


>gi|67459118|ref|YP_246742.1| transcriptional regulator [Rickettsia felis URRWXCal2]
 gi|67004651|gb|AAY61577.1| Predicted transcriptional regulator [Rickettsia felis URRWXCal2]
          Length = 130

 Score = 66.2 bits (160), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 40/128 (31%), Positives = 70/128 (54%), Gaps = 12/128 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           I   +D  +GK+I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL  I+E L
Sbjct: 7   IIQKIDSFIGKKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRLVLIAEAL 66

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQKIIELV 123
           +  I +FF+           EE N    + T      ++++R F++I+  + +Q +  LV
Sbjct: 67  DRNIDYFFE---------GLEEANKPQPVHTQHQRMCIEVSRNFMKINSTEEQQAVNNLV 117

Query: 124 RSIVSSEK 131
           + +   EK
Sbjct: 118 KCLAGKEK 125


>gi|254796616|ref|YP_003081452.1| DNA-binding protein [Neorickettsia risticii str. Illinois]
 gi|254589843|gb|ACT69205.1| DNA-binding protein [Neorickettsia risticii str. Illinois]
          Length = 144

 Score = 65.9 bits (159), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 44/128 (34%), Positives = 67/128 (52%), Gaps = 5/128 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K     D+ +GK+IR  R + G SQ  + + +G+TFQQ+QKYE G NR+  SRL  I 
Sbjct: 7   NFKKRAETDVMIGKQIRRLRTLKGYSQAAIAKEIGVTFQQLQKYECGANRLCVSRLLDIC 66

Query: 64  EVLE-SPISFFFDVSPTVCSDISSEENNVMDFIS----TPDGLQLNRYFIQIDDVKVRQK 118
           +  + SP  FF  ++     D   +  N ++F        + L L R F  I    VR K
Sbjct: 67  KFCKVSPSYFFASLNKEQEGDTLHDSENSIEFEHENECNKELLVLVRAFKSITQDSVRSK 126

Query: 119 IIELVRSI 126
           ++ LV+++
Sbjct: 127 VLSLVKTM 134


>gi|88608440|ref|YP_506124.1| DNA-binding protein [Neorickettsia sennetsu str. Miyayama]
 gi|88600609|gb|ABD46077.1| DNA-binding protein [Neorickettsia sennetsu str. Miyayama]
          Length = 144

 Score = 65.9 bits (159), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 44/128 (34%), Positives = 67/128 (52%), Gaps = 5/128 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K     D+ +GK+IR  R + G SQ  + + +G+TFQQ+QKYE G NR+  SRL  I 
Sbjct: 7   NFKKRAETDVMIGKQIRRLRTLKGYSQAAIAKEIGVTFQQLQKYECGANRLCVSRLLDIC 66

Query: 64  EVLE-SPISFFFDVSPTVCSDISSEENNVMDFIS----TPDGLQLNRYFIQIDDVKVRQK 118
           +  + SP  FF  ++     D   +  N ++F        + L L R F  I    VR K
Sbjct: 67  KFCKVSPSYFFASLNKEQEGDTLHDSENSIEFEHENEYNKELLVLVRAFKSITQDSVRSK 126

Query: 119 IIELVRSI 126
           ++ LV+++
Sbjct: 127 VLSLVKTM 134


>gi|167041371|gb|ABZ06124.1| putative helix-turn-helix motif protein [uncultured marine
          microorganism HF4000_005K23]
          Length = 121

 Score = 65.9 bits (159), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 49/75 (65%), Gaps = 7/75 (9%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G ++R RR+ LG++Q K+ + + +TFQQ+QKYEKG N + + R+  ++  L+ P+ +F
Sbjct: 8  HLGTKLRTRRLALGLTQTKVAQAINVTFQQIQKYEKGTNGISSLRIMQLANFLKVPVVYF 67

Query: 74 FDVSPTVCSDISSEE 88
          ++       D SS E
Sbjct: 68 YE-------DFSSYE 75


>gi|163744744|ref|ZP_02152104.1| HTH-type transcriptional regulator, putative [Oceanibulbus
          indolifex HEL-45]
 gi|161381562|gb|EDQ05971.1| HTH-type transcriptional regulator, putative [Oceanibulbus
          indolifex HEL-45]
          Length = 127

 Score = 65.5 bits (158), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 31/81 (38%), Positives = 50/81 (61%), Gaps = 4/81 (4%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +PVDI+VG+R++  R +   SQ  +   L ++FQQ+QKYE G NR+ ASRL  ++ +L
Sbjct: 10 MSHPVDIHVGRRLKQARTLRKQSQTDVARELKLSFQQIQKYEIGSNRIAASRLHELARIL 69

Query: 67 ESPISFFF----DVSPTVCSD 83
          +    +FF    D +P   +D
Sbjct: 70 DVTPGYFFEGLNDDAPETKND 90


>gi|15604357|ref|NP_220873.1| hypothetical protein RP497 [Rickettsia prowazekii str. Madrid E]
 gi|51473681|ref|YP_067438.1| hypothetical protein RT0484 [Rickettsia typhi str. Wilmington]
 gi|7388420|sp|Q9ZD50|Y497_RICPR RecName: Full=Uncharacterized HTH-type transcriptional regulator
           RP497
 gi|3861049|emb|CAA14949.1| unknown [Rickettsia prowazekii]
 gi|51459993|gb|AAU03956.1| conserved hypothetical protein [Rickettsia typhi str. Wilmington]
 gi|292572112|gb|ADE30027.1| Putative transcriptional regulator [Rickettsia prowazekii Rp22]
          Length = 130

 Score = 65.5 bits (158), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 40/128 (31%), Positives = 70/128 (54%), Gaps = 12/128 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           I   +D  +G++I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL  I+E L
Sbjct: 7   IIQKIDSFIGQKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRLVLIAEAL 66

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQKIIELV 123
           +  I +FF+           EE N    + T      ++++R F++I+  + +Q I  LV
Sbjct: 67  DRNIDYFFE---------GLEEANKPQPVHTQHQRMCIEVSRNFMKINSTEEQQAINNLV 117

Query: 124 RSIVSSEK 131
           + +   EK
Sbjct: 118 KCLAGKEK 125


>gi|197106408|ref|YP_002131785.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196479828|gb|ACG79356.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 124

 Score = 65.1 bits (157), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 76/124 (61%), Gaps = 13/124 (10%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + +D+++G+++R RR +LG++Q++L    G+ FQQ+QKYE   NR+ A+RL  ++E+L++
Sbjct: 2   DEIDLHLGRKLRRRRKMLGLTQQELAGACGVRFQQIQKYECAANRMSAARLWKLAEILDA 61

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGL---QLNRYFIQID---DVKVRQKIIEL 122
           P+S+F++        +S  +    +    PD +   +  R  IQ     D + R++++EL
Sbjct: 62  PVSYFYE-------GLSEAQRQAHEAFREPDDVFTRKETRELIQAYYALDERPRRQLLEL 114

Query: 123 VRSI 126
            +++
Sbjct: 115 AKAM 118


>gi|91206072|ref|YP_538427.1| hypothetical protein RBE_1257 [Rickettsia bellii RML369-C]
 gi|157826572|ref|YP_001495636.1| hypothetical protein A1I_01005 [Rickettsia bellii OSU 85-389]
 gi|91069616|gb|ABE05338.1| unknown [Rickettsia bellii RML369-C]
 gi|157801876|gb|ABV78599.1| hypothetical protein A1I_01005 [Rickettsia bellii OSU 85-389]
          Length = 186

 Score = 65.1 bits (157), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 42/153 (27%), Positives = 80/153 (52%), Gaps = 36/153 (23%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D    +R++ RR+ +G+SQ++LGE L I+  Q++KYE+G++ +  SRL  ++++L +P+
Sbjct: 31  IDKIASERLKQRRIAIGLSQKELGETLDISAIQIKKYEEGISTIPVSRLYVLAKILNTPL 90

Query: 71  SFFFDVSPTVCSDISSEEN---NVMDFISTP----------------------------- 98
             FF+ S +    +++++N   N ++++S                               
Sbjct: 91  KHFFNTSISEEERLNTDDNIFDNEIEYLSNEIDEHLLNNVAEEDEDYEYNIPFSREDLTR 150

Query: 99  ----DGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
               + L L R F +I +  VR+ IIELVRS+ 
Sbjct: 151 TLEREILSLTRAFTKIQNPDVRKIIIELVRSLA 183


>gi|218462730|ref|ZP_03502821.1| putative transcriptional regulator protein [Rhizobium etli Kim 5]
 gi|218516609|ref|ZP_03513449.1| putative transcriptional regulator protein [Rhizobium etli 8C-3]
          Length = 123

 Score = 65.1 bits (157), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 43/107 (40%), Positives = 61/107 (57%), Gaps = 15/107 (14%)

Query: 33  LGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP----TVCSDISSEE 88
           LG  +G++ QQVQKYE G NRV AS L  ++  L+ P+S FF+  P    T    I +E 
Sbjct: 10  LGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKIPVSRFFEGLPDPETTHGQQIITEI 69

Query: 89  NNVMDFISTPDGLQLNRYFIQIDDV-----KVRQKIIELVRSIVSSE 130
           +  + +IST +G +L      IDDV     +VR +++ LV SIV  E
Sbjct: 70  DEKIAYISTAEGRRL------IDDVLLLSPRVRSRVVALVSSIVDEE 110


>gi|329891045|ref|ZP_08269388.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
 gi|328846346|gb|EGF95910.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
          Length = 90

 Score = 64.7 bits (156), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 33/69 (47%), Positives = 57/69 (82%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P  +D+++G+R+R RR +LG++Q++LG+ +GI FQQ+QKYE G NR+ A+RL  ++E L
Sbjct: 1  MPAEIDLHLGRRLRRRRRLLGLTQQQLGDRVGIRFQQIQKYECGANRISAARLWELAEAL 60

Query: 67 ESPISFFFD 75
          ++P+S+F+D
Sbjct: 61 QTPVSYFYD 69


>gi|222825165|dbj|BAH22322.1| transcriptional regulator [Wolbachia endosymbiont of Cadra
          cautella]
          Length = 120

 Score = 64.7 bits (156), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 45/66 (68%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +P+D  +G+RIR RR++ G+SQ  LG+ L I+FQ +Q YE G  R+   RL +++E L  
Sbjct: 5  HPIDKQIGERIRKRRLMCGLSQRDLGKKLEISFQHIQGYETGEVRLIVDRLYNLAEALSV 64

Query: 69 PISFFF 74
           +S+FF
Sbjct: 65 DMSYFF 70


>gi|83949849|ref|ZP_00958582.1| DNA-binding protein, putative [Roseovarius nubinhibens ISM]
 gi|83837748|gb|EAP77044.1| DNA-binding protein, putative [Roseovarius nubinhibens ISM]
          Length = 99

 Score = 64.3 bits (155), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 36/97 (37%), Positives = 57/97 (58%), Gaps = 4/97 (4%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q++L E +GI FQQ+QKYE G NRV ASRL  I+  ++  +SFFFD    +    ++ 
Sbjct: 1   MTQQQLAESVGIKFQQIQKYETGANRVSASRLWDIAGAMDVDVSFFFD---GLERADAAA 57

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            +   D +   + L L R +  I + + R+++ EL R
Sbjct: 58  PSAAGDLLGDKEALDLVRSYYSIPENQ-RRRLFELAR 93


>gi|316933837|ref|YP_004108819.1| helix-turn-helix domain-containing protein [Rhodopseudomonas
          palustris DX-1]
 gi|315601551|gb|ADU44086.1| helix-turn-helix domain protein [Rhodopseudomonas palustris DX-1]
          Length = 152

 Score = 64.3 bits (155), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 42/64 (65%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  +  R+R+ R+  G+SQEK  E LG++FQQVQKYE G NR+   +L  ++ +   PI
Sbjct: 27 IDSRIAARLRVARIEAGLSQEKTAEALGLSFQQVQKYESGKNRISPGKLAVLAALYGKPI 86

Query: 71 SFFF 74
          + F+
Sbjct: 87 ASFY 90


>gi|222082024|ref|YP_002541389.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221726703|gb|ACM29792.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 160

 Score = 63.9 bits (154), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/96 (34%), Positives = 61/96 (63%), Gaps = 4/96 (4%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P+D +VG+++R+ R+   +SQ +LG  + +++QQ+QKYE G NR+ AS L  I+  L  
Sbjct: 31  HPIDRHVGQQLRIIRIHSNLSQTELGHKVDLSYQQIQKYESGKNRMSASVLYEIANCLNV 90

Query: 69  PISFFFDVSPTVCSDISS----EENNVMDFISTPDG 100
           PIS F++  P   S++ +    E +  + +++T +G
Sbjct: 91  PISRFYEGLPQAGSELVNGGLPEIDERIAYLATSEG 126


>gi|209966969|ref|YP_002299884.1| transcriptional regulator, Cro [Rhodospirillum centenum SW]
 gi|209960435|gb|ACJ01072.1| transcriptional regulator, Cro [Rhodospirillum centenum SW]
          Length = 191

 Score = 63.9 bits (154), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 33/89 (37%), Positives = 54/89 (60%), Gaps = 2/89 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SP 69
           V   +G+R+R RR +LGM+Q++LG  +G+TFQQVQKYE+G NRV    L  ++  L+ +P
Sbjct: 21  VSAALGERVRARRGLLGMTQQELGRRVGLTFQQVQKYERGSNRVAVPTLIKLANALDTTP 80

Query: 70  ISFFFDVSPT-VCSDISSEENNVMDFIST 97
                 +  T V S  ++ +   ++ +S 
Sbjct: 81  ADLLEGLGATQVGSRDAALDRESLNLLSA 109


>gi|49476087|ref|YP_034128.1| transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49238895|emb|CAF28188.1| Transcriptional regulator [Bartonella henselae str. Houston-1]
          Length = 108

 Score = 63.5 bits (153), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 33/66 (50%), Positives = 48/66 (72%), Gaps = 3/66 (4%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI VGK+IR RR +L MSQ+ L + L ++ QQ+QKYE G+NRV A RL+ I++ ++   +
Sbjct: 15 DIFVGKKIRFRRKMLKMSQKTLADHLRVSSQQIQKYETGLNRVSAGRLKEIADRVK---T 71

Query: 72 FFFDVS 77
          FF D+S
Sbjct: 72 FFDDLS 77


>gi|157825788|ref|YP_001493508.1| hypothetical protein A1C_03595 [Rickettsia akari str. Hartford]
 gi|157799746|gb|ABV75000.1| hypothetical protein A1C_03595 [Rickettsia akari str. Hartford]
          Length = 130

 Score = 63.5 bits (153), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 39/128 (30%), Positives = 70/128 (54%), Gaps = 12/128 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           I   +D  +G++I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL  I+E L
Sbjct: 7   IIQKIDSFIGQKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRLVLIAEAL 66

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQKIIELV 123
           +  I +FF+           EE N    + T      ++++R F++I+  + +Q I  LV
Sbjct: 67  DRNIDYFFE---------GLEEANKPQPVYTQHQRMCIEVSRNFMKINSTEEQQAINNLV 117

Query: 124 RSIVSSEK 131
           + +   +K
Sbjct: 118 KCLAGKDK 125


>gi|253988215|ref|YP_003039571.1| hypothetical protein PAU_00734 [Photorhabdus asymbiotica subsp.
          asymbiotica ATCC 43949]
 gi|211638791|emb|CAR67408.1| hypothetical protein PA-RVA13-1279 [Photorhabdus asymbiotica
          subsp. asymbiotica ATCC 43949]
 gi|253779665|emb|CAQ82826.1| conserved hypothetical protein [Photorhabdus asymbiotica]
          Length = 101

 Score = 63.2 bits (152), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 29/60 (48%), Positives = 44/60 (73%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGKRI+ RR  LGM+  KL   +GI+ QQ+ +YE+G+NR+  S L  I+ +L++PI++FF
Sbjct: 10 VGKRIQKRRKELGMTAVKLAGQIGISQQQLSRYERGINRIDLSHLVQIASILDTPINWFF 69


>gi|302337126|ref|YP_003802332.1| XRE family transcriptional regulator [Spirochaeta smaragdinae DSM
          11293]
 gi|301634311|gb|ADK79738.1| transcriptional regulator, XRE family [Spirochaeta smaragdinae
          DSM 11293]
          Length = 132

 Score = 63.2 bits (152), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 32/86 (37%), Positives = 47/86 (54%), Gaps = 8/86 (9%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P    +G+ IR  R   G+SQ  LGE +G+++QQ+QKYE G + + A +L  I+E+L  P
Sbjct: 3  PDKSTIGRNIRSYRKACGLSQASLGEKVGVSYQQIQKYENGASSISAFQLGRIAEILAVP 62

Query: 70 ISFFF--------DVSPTVCSDISSE 87
          I  FF        +  P   S+I  E
Sbjct: 63 IDCFFHLDTESGAEAPPAYSSEIGDE 88


>gi|91205491|ref|YP_537846.1| putative transcriptional regulator [Rickettsia bellii RML369-C]
 gi|157827144|ref|YP_001496208.1| putative transcriptional regulator [Rickettsia bellii OSU 85-389]
 gi|91069035|gb|ABE04757.1| Putative transcriptional regulator [Rickettsia bellii RML369-C]
 gi|157802448|gb|ABV79171.1| Putative transcriptional regulator [Rickettsia bellii OSU 85-389]
          Length = 137

 Score = 63.2 bits (152), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 39/134 (29%), Positives = 69/134 (51%), Gaps = 12/134 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M     I   +D  +GK+I   R+  G+S+++L E + +T QQ+QKYE+ +NR+   RL 
Sbjct: 1   MARKNDIIQKIDSFIGKKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYERAINRISVGRLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQ 117
            I+E L+  I +FF+           EE N    + T      ++++R F++I     +Q
Sbjct: 61  LIAEALDRNIDYFFE---------GLEEANKPQPVHTQHQRMCIEVSRNFMKIQSTDEQQ 111

Query: 118 KIIELVRSIVSSEK 131
            +  LV+ +   +K
Sbjct: 112 AVNNLVKCLAGKDK 125


>gi|258543105|ref|YP_003188538.1| XRE family transcriptional regulator [Acetobacter pasteurianus IFO
           3283-01]
 gi|256634183|dbj|BAI00159.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-01]
 gi|256637243|dbj|BAI03212.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-03]
 gi|256640295|dbj|BAI06257.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-07]
 gi|256643352|dbj|BAI09307.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-22]
 gi|256646407|dbj|BAI12355.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-26]
 gi|256649460|dbj|BAI15401.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-32]
 gi|256652446|dbj|BAI18380.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-01-42C]
 gi|256655504|dbj|BAI21431.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-12]
          Length = 138

 Score = 63.2 bits (152), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 32/71 (45%), Positives = 46/71 (64%), Gaps = 2/71 (2%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+I N  D  +G RIR RR  L MS E+LG  +G T+QQ+QKYE G N + A+ L   + 
Sbjct: 66  KRIRN--DKRLGFRIRQRRHELHMSLEQLGHAIGCTYQQMQKYETGKNAIKATLLPTFAT 123

Query: 65  VLESPISFFFD 75
            L+ P+++FF+
Sbjct: 124 ALDVPLTWFFE 134


>gi|15892591|ref|NP_360305.1| hypothetical protein RC0668 [Rickettsia conorii str. Malish 7]
 gi|157828542|ref|YP_001494784.1| hypothetical protein A1G_03795 [Rickettsia rickettsii str. 'Sheila
           Smith']
 gi|165933258|ref|YP_001650047.1| transcriptional regulator [Rickettsia rickettsii str. Iowa]
 gi|229586759|ref|YP_002845260.1| Putative transcriptional regulator [Rickettsia africae ESF-5]
 gi|238650247|ref|YP_002916098.1| transcriptional regulator [Rickettsia peacockii str. Rustic]
 gi|38503361|sp|Q92HV3|Y668_RICCN RecName: Full=Uncharacterized HTH-type transcriptional regulator
           RC0668
 gi|15619757|gb|AAL03206.1| unknown [Rickettsia conorii str. Malish 7]
 gi|157801023|gb|ABV76276.1| hypothetical protein A1G_03795 [Rickettsia rickettsii str. 'Sheila
           Smith']
 gi|165908345|gb|ABY72641.1| transcriptional regulator [Rickettsia rickettsii str. Iowa]
 gi|228021809|gb|ACP53517.1| Putative transcriptional regulator [Rickettsia africae ESF-5]
 gi|238624345|gb|ACR47051.1| transcriptional regulator [Rickettsia peacockii str. Rustic]
          Length = 125

 Score = 62.8 bits (151), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 38/127 (29%), Positives = 69/127 (54%), Gaps = 12/127 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           I   +D  +GK+I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL  I+E L
Sbjct: 7   IIQKIDSFIGKKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRLVLIAEAL 66

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQKIIELV 123
           +  I +FF+           EE N    + T      ++++R F++I+  + +Q +  LV
Sbjct: 67  DRNIDYFFE---------GLEEANKPQPVHTQHQRMCIEVSRNFMKINSTEEQQAVNNLV 117

Query: 124 RSIVSSE 130
           + +   +
Sbjct: 118 KCLAGKK 124


>gi|307317593|ref|ZP_07597032.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
 gi|306896751|gb|EFN27498.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
          Length = 89

 Score = 62.8 bits (151), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 36/75 (48%), Positives = 46/75 (61%), Gaps = 4/75 (5%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K     +D  +G R+R  R++ GMSQ  L E LGITFQQ+QKYEKG NR+ AS L  I +
Sbjct: 6  KAQTTHIDQKIGARVREFRLLRGMSQGALAEKLGITFQQMQKYEKGANRISASALILICK 65

Query: 65 VLE-SP---ISFFFD 75
           L  +P   +  FFD
Sbjct: 66 ELGITPNHILGAFFD 80


>gi|154247535|ref|YP_001418493.1| XRE family transcriptional regulator [Xanthobacter autotrophicus
          Py2]
 gi|154161620|gb|ABS68836.1| transcriptional regulator, XRE family [Xanthobacter autotrophicus
          Py2]
          Length = 130

 Score = 62.8 bits (151), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 30/64 (46%), Positives = 42/64 (65%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ +G R++  R+  G+SQE LGE LGITFQQ+QKYE G NR+  S L  I++ L+   
Sbjct: 11 LDVVIGFRVKQSRLRSGVSQEALGEHLGITFQQIQKYENGKNRIACSTLVMIADFLKVSA 70

Query: 71 SFFF 74
           F  
Sbjct: 71 LFLL 74


>gi|34580426|ref|ZP_00141906.1| hypothetical protein [Rickettsia sibirica 246]
 gi|28261811|gb|EAA25315.1| unknown [Rickettsia sibirica 246]
          Length = 125

 Score = 62.4 bits (150), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 38/127 (29%), Positives = 68/127 (53%), Gaps = 12/127 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           I   +D  +GK+I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL  I+E L
Sbjct: 7   IIQKIDSFIGKKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRLVLIAEAL 66

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQKIIELV 123
           +  I +FF+           EE N    + T      +++ R F++I+  + +Q +  LV
Sbjct: 67  DRNIDYFFE---------GLEEANKPQPVHTQHQRMCIEVARNFMKINSTEEQQAVNNLV 117

Query: 124 RSIVSSE 130
           + +   +
Sbjct: 118 KCLAGKK 124


>gi|150378060|ref|YP_001314655.1| XRE family transcriptional regulator [Sinorhizobium medicae
          WSM419]
 gi|150032607|gb|ABR64722.1| transcriptional regulator, XRE family [Sinorhizobium medicae
          WSM419]
          Length = 148

 Score = 62.0 bits (149), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 30/64 (46%), Positives = 42/64 (65%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VD  VG  IR  R I G+SQ+KLG+ +G+TFQQ+QKY+ G +R+ ASRL   +  L   +
Sbjct: 10 VDATVGTNIRRFREISGISQKKLGDAIGVTFQQIQKYDSGKDRISASRLVETARALGCDL 69

Query: 71 SFFF 74
          +  F
Sbjct: 70 NSLF 73


>gi|254420597|ref|ZP_05034321.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
 gi|196186774|gb|EDX81750.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
          Length = 133

 Score = 62.0 bits (149), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 32/101 (31%), Positives = 64/101 (63%), Gaps = 4/101 (3%)

Query: 29  SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD-VSPTVCSDISSE 87
           +Q++L   +GI FQQ+QKYE G NR+ A+RL  ++E LE+P+S+F+D V+  +    ++ 
Sbjct: 26  TQQQLAVQVGIRFQQIQKYECGANRISAARLWQLAEALETPVSYFYDGVTEALERKDAAP 85

Query: 88  ENNV--MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             +    +  S  + L L + + Q+ + + R+++++L +S+
Sbjct: 86  GTSAGGGEMFSRKETLDLIQAYYQLGE-RPRRRLLDLAKSL 125


>gi|254805385|ref|YP_003083606.1| hypothetical transcriptional regulator [Neisseria meningitidis
          alpha14]
 gi|254668927|emb|CBA07148.1| hypothetical transcriptional regulator [Neisseria meningitidis
          alpha14]
 gi|254670077|emb|CBA04959.1| transcriptional regulator [Neisseria meningitidis alpha153]
 gi|254672200|emb|CBA05097.1| transcriptional regulator [Neisseria meningitidis alpha275]
          Length = 126

 Score = 61.6 bits (148), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 32/81 (39%), Positives = 49/81 (60%), Gaps = 1/81 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           D  +G++IR RR  LG S EKL E + ++ QQ+ +YE+GV ++  S L  I+  LE+PI
Sbjct: 18 ADRLIGEKIRQRRKELGYSAEKLAEHINLSQQQISRYERGVGKINISHLVDIAVFLETPI 77

Query: 71 SFFF-DVSPTVCSDISSEENN 90
          ++FF D  P   +   + EN 
Sbjct: 78 AWFFQDCLPKPLTVACTPENT 98


>gi|261392144|emb|CAX49650.1| putative HTH-type transcriptional regulator [Neisseria
          meningitidis 8013]
          Length = 117

 Score = 61.2 bits (147), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 32/80 (40%), Positives = 49/80 (61%), Gaps = 1/80 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           D  +G++IR RR  LG S EKL E + ++ QQ+ +YE+GV ++  S L  I+  LE+PI
Sbjct: 9  ADRLIGEKIRQRRKELGYSAEKLAEHINLSQQQISRYERGVGKINISHLVDIAVFLETPI 68

Query: 71 SFFF-DVSPTVCSDISSEEN 89
          ++FF D  P   +   + EN
Sbjct: 69 AWFFQDCLPKPLTVACTPEN 88


>gi|329889919|ref|ZP_08268262.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
 gi|328845220|gb|EGF94784.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
          Length = 143

 Score = 60.8 bits (146), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 29/62 (46%), Positives = 42/62 (67%), Gaps = 2/62 (3%)

Query: 11 VDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +D N  +G+RIR RR  LG SQ  LG  +G++FQQ+QKYEKG+N + A RL  ++  L +
Sbjct: 8  LDYNRAIGRRIRDRRKALGFSQAALGSKVGLSFQQIQKYEKGLNGLAAVRLGQLALALAT 67

Query: 69 PI 70
           +
Sbjct: 68 TV 69


>gi|114797386|ref|YP_760560.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114737560|gb|ABI75685.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 127

 Score = 60.8 bits (146), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 32/87 (36%), Positives = 47/87 (54%), Gaps = 5/87 (5%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
              + P  VD  VG++IR  R+    +  +LG+ LGI+ QQ+QKYE G NR+ A  L  
Sbjct: 8  AAGSRSPTKVDQQVGEKIRELRIAQNFTLSELGQELGISHQQLQKYETGTNRLSAGMLSS 67

Query: 62 ISEVLESPISFFFDVSPTVCSDISSEE 88
          ++  L  PI+  F       SD +S+E
Sbjct: 68 VARALRVPIAELFQT-----SDATSQE 89


>gi|163868978|ref|YP_001610208.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018655|emb|CAK02213.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 52

 Score = 60.8 bits (146), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 26/51 (50%), Positives = 37/51 (72%)

Query: 26 LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +G+SQ+ LG  LG++FQQ+QKYEKG NR+ A     I++ L+ PISFF  +
Sbjct: 1  MGLSQKALGNFLGVSFQQIQKYEKGANRISAKCFLEIAQKLQVPISFFMKI 51


>gi|94266062|ref|ZP_01289781.1| Helix-turn-helix motif [delta proteobacterium MLMS-1]
 gi|93453384|gb|EAT03812.1| Helix-turn-helix motif [delta proteobacterium MLMS-1]
          Length = 109

 Score = 60.1 bits (144), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 47/86 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NVG+RIR RR +LG+SQ +L   LGITFQ +Q++E+G        L  +  +LE    +
Sbjct: 1  MNVGQRIRSRRQVLGLSQRELAARLGITFQAIQRWERGETFPRKETLPQLLAILEVGADW 60

Query: 73 FFDVSPTVCSDISSEENNVMDFISTP 98
                    D+S+   +V++ +  P
Sbjct: 61 LVGTPSLAGPDVSTIPPDVLEAVRDP 86


>gi|148262670|ref|YP_001229376.1| XRE family transcriptional regulator [Geobacter uraniireducens
          Rf4]
 gi|146396170|gb|ABQ24803.1| transcriptional regulator, XRE family [Geobacter uraniireducens
          Rf4]
          Length = 113

 Score = 60.1 bits (144), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 43/67 (64%), Gaps = 1/67 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFF 73
          +G R+R  R   G +QE+L E +G++ QQ+QKYE G N++   RLQ +++ L  PI S F
Sbjct: 10 IGHRLRQLRQQAGWTQERLAEQIGVSTQQIQKYECGTNKMNTDRLQQVAQALSIPIQSLF 69

Query: 74 FDVSPTV 80
           D + ++
Sbjct: 70 TDTNDSL 76


>gi|83955346|ref|ZP_00964001.1| DNA-binding protein, putative [Sulfitobacter sp. NAS-14.1]
 gi|83840339|gb|EAP79513.1| DNA-binding protein, putative [Sulfitobacter sp. NAS-14.1]
          Length = 103

 Score = 59.3 bits (142), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 35/98 (35%), Positives = 53/98 (54%), Gaps = 2/98 (2%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q++L E +GI FQQ+QKYE G NRV ASRL  I+  L   +S FF+            
Sbjct: 1   MTQQRLAELVGIKFQQIQKYETGANRVSASRLWDIAFALNVDVSHFFEGLEAEKPQPEKA 60

Query: 88  ENNV-MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            +N+  D     + + L R +  I + + R+++ EL R
Sbjct: 61  LDNIPADLSGDKEAMDLIRSYYAIPENQ-RRRLFELAR 97


>gi|255600423|ref|XP_002537454.1| conserved hypothetical protein [Ricinus communis]
 gi|223516285|gb|EEF24927.1| conserved hypothetical protein [Ricinus communis]
          Length = 89

 Score = 59.3 bits (142), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 29/87 (33%), Positives = 52/87 (59%), Gaps = 3/87 (3%)

Query: 44  VQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMD---FISTPDG 100
           +QKYE+G NR+ AS+L  I+  L++P+S FF+       D ++ + +      F STP+G
Sbjct: 1   IQKYERGDNRISASKLYAIAVFLKTPVSVFFEGLAKPGEDGATVDGSAQAAQMFASTPEG 60

Query: 101 LQLNRYFIQIDDVKVRQKIIELVRSIV 127
           ++L     QI    +R+ I+E++R++ 
Sbjct: 61  IELAGLLPQIGSQALRRHIVEIIRALA 87


>gi|89069702|ref|ZP_01157039.1| DNA-binding protein, putative [Oceanicola granulosus HTCC2516]
 gi|89044782|gb|EAR50888.1| DNA-binding protein, putative [Oceanicola granulosus HTCC2516]
          Length = 96

 Score = 58.9 bits (141), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 35/97 (36%), Positives = 55/97 (56%), Gaps = 12/97 (12%)

Query: 33  LGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV-----SPTVCSDISSE 87
           + E +GI FQQ+QKYE G+NRV ASRL  I+ VL   I FFF+      +P   +D+   
Sbjct: 1   MAEKVGIKFQQIQKYETGMNRVSASRLWDIASVLGVKIDFFFEGLGETETPANANDLPG- 59

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                + ++  + L+L R +  I + + R+++ EL R
Sbjct: 60  -----NILTDREALELLRSYYAIPENQ-RKRLFELAR 90


>gi|170752102|ref|YP_001758362.1| XRE family transcriptional regulator [Methylobacterium
          radiotolerans JCM 2831]
 gi|170658624|gb|ACB27679.1| transcriptional regulator, XRE family [Methylobacterium
          radiotolerans JCM 2831]
          Length = 124

 Score = 58.9 bits (141), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 27/69 (39%), Positives = 42/69 (60%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VD+ +G RI   R+   ++Q  +   +G+T  Q+QKYEKG NR+    L  I+++  +PI
Sbjct: 9  VDVRIGGRISAARIRARLTQRTVAAEIGVTAAQLQKYEKGTNRISGVALSIIAKLTGAPI 68

Query: 71 SFFFDVSPT 79
          + FFDV  T
Sbjct: 69 ASFFDVPET 77


>gi|329848452|ref|ZP_08263480.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328843515|gb|EGF93084.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 127

 Score = 58.2 bits (139), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 32/62 (51%), Positives = 41/62 (66%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          +G  IR  R  L MSQ+ L + +G+TFQQVQKYE+G NRV AS+L  I++ L  SP S  
Sbjct: 1  MGLNIRRIRRDLNMSQQVLADRIGLTFQQVQKYERGANRVSASKLVAIAKALGVSPASLL 60

Query: 74 FD 75
           D
Sbjct: 61 PD 62


>gi|222056285|ref|YP_002538647.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221565574|gb|ACM21546.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 126

 Score = 57.8 bits (138), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 40/62 (64%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR RR  L +SQE+L   L +++QQ+Q+YE G N++    +Q +++ L  P+ +FF
Sbjct: 12 IGAAIRRRRHELSLSQEELAARLEVSYQQIQRYESGKNKLNVENIQLVADALSVPVGYFF 71

Query: 75 DV 76
           V
Sbjct: 72 QV 73


>gi|222825166|dbj|BAH22323.1| transcriptional regulator [Wolbachia endosymbiont of Cadra
           cautella]
          Length = 110

 Score = 57.8 bits (138), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 32/117 (27%), Positives = 68/117 (58%), Gaps = 11/117 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GK+I+  R+  G++Q +LG+ +G++++Q+Q+YE G N + ASRL  +++ L   ++ 
Sbjct: 1   MELGKKIKELRLYCGLTQTELGKRIGVSYRQIQRYENGSNHILASRLYDLAKALSINVAD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           FF       +D+ ++ +   D     + L+L + + +I   ++R  +  LV+S   S
Sbjct: 61  FF-------TDVHADSHETYD----EEILKLVKGYNEIRSKRLRSVVYTLVKSFSQS 106


>gi|239947476|ref|ZP_04699229.1| helix-turn-helix domain protein [Rickettsia endosymbiont of Ixodes
           scapularis]
 gi|239921752|gb|EER21776.1| helix-turn-helix domain protein [Rickettsia endosymbiont of Ixodes
           scapularis]
          Length = 158

 Score = 57.8 bits (138), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 45/158 (28%), Positives = 79/158 (50%), Gaps = 41/158 (25%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N  I +P D    +R++ RR+ +G+SQ++LG+ L I+  QV+KYE+G+     SRL   +
Sbjct: 2   NDSIKHP-DKLASERLKERRLAVGISQKELGQALDISALQVKKYEEGL-----SRLYVFA 55

Query: 64  EVLESPISFFFDVS--PTVCSDISSEENNVMDF------------ISTPDG--------- 100
           +VL + + +FF+ S    + +D  +  NN +++            I+  +G         
Sbjct: 56  KVLNTSLKYFFNSSEEEKLKTDDENTSNNKIEYLFKEIESDFLNNIAEEEGQYENDISFD 115

Query: 101 ------------LQLNRYFIQIDDVKVRQKIIELVRSI 126
                       L L R F ++ +  +R+ IIELVRS+
Sbjct: 116 YKELSRTMERELLSLTRAFTRVQNPNIRKIIIELVRSV 153


>gi|329889881|ref|ZP_08268224.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
 gi|328845182|gb|EGF94746.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
          Length = 133

 Score = 57.8 bits (138), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 27/54 (50%), Positives = 37/54 (68%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G+R+R RR  LG+SQ  LG  +G++ QQ+QKYE G N V ASRL  +S  L +
Sbjct: 14 IGERVRRRRKELGLSQTALGAKIGVSCQQIQKYENGRNSVAASRLHQLSLALAT 67


>gi|290473639|ref|YP_003466511.1| transcriptional regulator (MrfJ protein) [Xenorhabdus bovienii
          SS-2004]
 gi|289172944|emb|CBJ79715.1| Transcriptional regulator (MrfJ protein) [Xenorhabdus bovienii
          SS-2004]
          Length = 100

 Score = 57.4 bits (137), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 30/67 (44%), Positives = 45/67 (67%), Gaps = 2/67 (2%)

Query: 11 VDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          VD N  VGKRI  +R  LG++   L + +GI+ QQ+ +YE+G NR+  + L  IS+ L +
Sbjct: 2  VDANTLVGKRICTKRKELGITATALAKQIGISQQQLSRYERGTNRININHLVVISKQLGT 61

Query: 69 PISFFFD 75
          PIS+FF+
Sbjct: 62 PISWFFE 68


>gi|327191928|gb|EGE58913.1| hypothetical protein RHECNPAF_258003 [Rhizobium etli CNPAF512]
          Length = 114

 Score = 57.0 bits (136), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 41/77 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R+  G +Q  LG+ +G+ +QQ+QKYE+G NR+  SR    + +L   ++  FD   
Sbjct: 1  MRTARLQAGYTQTALGDAVGVAYQQIQKYERGANRISLSRASQFASILRISVATLFDDPD 60

Query: 79 TVCSDISSEENNVMDFI 95
           V S  S     +  ++
Sbjct: 61 AVVSQASPPHAPLAQWM 77


>gi|148284913|ref|YP_001249003.1| putative transcriptional regulator [Orientia tsutsugamushi str.
          Boryong]
 gi|189183368|ref|YP_001937153.1| hypothetical protein OTT_0461 [Orientia tsutsugamushi str. Ikeda]
 gi|146740352|emb|CAM80780.1| putative transcriptional regulator [Orientia tsutsugamushi str.
          Boryong]
 gi|189180139|dbj|BAG39919.1| hypothetical protein OTT_0461 [Orientia tsutsugamushi str. Ikeda]
          Length = 79

 Score = 57.0 bits (136), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 24/61 (39%), Positives = 38/61 (62%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI + R+   +S+  L   +G+T QQ+ KYEKG+NR+   RL  I++ L   + FF+
Sbjct: 15 IGNRIYMVRLEQKLSRNNLAASIGVTHQQLHKYEKGINRISIGRLMLIAKALNKNVDFFY 74

Query: 75 D 75
          D
Sbjct: 75 D 75


>gi|223041436|ref|ZP_03611639.1| hypothetical protein AM202_0055 [Actinobacillus minor 202]
 gi|223017694|gb|EEF16101.1| hypothetical protein AM202_0055 [Actinobacillus minor 202]
          Length = 127

 Score = 57.0 bits (136), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 41/66 (62%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
            VD  +GKRI+ RR  LG++   L E +GI  QQ+ +YE+G N++  S L  I+  L++
Sbjct: 7  TDVDRFIGKRIQQRRKELGLTASALSEQIGIAQQQLSRYERGDNKINVSHLVEIATALDT 66

Query: 69 PISFFF 74
           I +FF
Sbjct: 67 SIGWFF 72


>gi|206889709|ref|YP_002248181.1| DNA binding protein [Thermodesulfovibrio yellowstonii DSM 11347]
 gi|206741647|gb|ACI20704.1| DNA binding protein [Thermodesulfovibrio yellowstonii DSM 11347]
          Length = 107

 Score = 56.6 bits (135), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/110 (31%), Positives = 62/110 (56%), Gaps = 10/110 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+ I+  R   G SQ +L E +GIT+QQ+QKYEKG +++   RL  I+  L+ P+S 
Sbjct: 1   MKIGEIIKRLRKAKGFSQMELAEKIGITYQQLQKYEKGKSKITVDRLIDIARALDVPLS- 59

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                  + S+I  +EN     I + + +    YF +I D ++R+  +++
Sbjct: 60  ------AILSEIYKKENIE---IYSEEEIVFLEYFRKISDPELRKSFLKI 100


>gi|240949581|ref|ZP_04753918.1| hypothetical protein AM305_11555 [Actinobacillus minor NM305]
 gi|240295989|gb|EER46659.1| hypothetical protein AM305_11555 [Actinobacillus minor NM305]
          Length = 356

 Score = 56.2 bits (134), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 27/70 (38%), Positives = 39/70 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R++L R   G+S   LG  +GI+   ++KYE  VN   +S L  +S+VL  PI FFF
Sbjct: 2  IGNRLKLARNAAGLSMAALGNAVGISANMIKKYEHNVNMPTSSILLKLSQVLHIPIEFFF 61

Query: 75 DVSPTVCSDI 84
            +P     I
Sbjct: 62 RTTPPSLGAI 71


>gi|300721858|ref|YP_003711136.1| NilR transcription factor [Xenorhabdus nematophila ATCC 19061]
 gi|106635962|gb|ABF82228.1| NilR [Xenorhabdus nematophila]
 gi|297628353|emb|CBJ88916.1| NilR transcription factor [Xenorhabdus nematophila ATCC 19061]
          Length = 101

 Score = 56.2 bits (134), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 41/60 (68%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+RI+ +R  L ++   L + +GI+ QQ+ +YE+G NR+    L  I+++LE+PI +FF
Sbjct: 8  VGQRIQTKRKELSITATALAKQIGISQQQLSRYERGTNRINLDHLVVIADILETPIDWFF 67


>gi|220925738|ref|YP_002501040.1| XRE family transcriptional regulator [Methylobacterium nodulans
          ORS 2060]
 gi|219950345|gb|ACL60737.1| transcriptional regulator, XRE family [Methylobacterium nodulans
          ORS 2060]
          Length = 149

 Score = 56.2 bits (134), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/67 (38%), Positives = 42/67 (62%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+++G+RI   R    +S+E L + LGI+  Q  KYEKG+NR+ A+ L  +  + + PI 
Sbjct: 10 DVHIGQRIERLRKQAKLSREALAQRLGISDSQFGKYEKGLNRMSAADLDFVGRLFDVPIG 69

Query: 72 FFFDVSP 78
          +FF+  P
Sbjct: 70 YFFEGLP 76


>gi|197284169|ref|YP_002150041.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227357957|ref|ZP_03842299.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|194681656|emb|CAR40714.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227161692|gb|EEI46724.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 106

 Score = 55.5 bits (132), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/67 (38%), Positives = 45/67 (67%), Gaps = 2/67 (2%)

Query: 11 VDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +D+N  VGKRI+ RR  LG +  +L   LG++ QQ  +YE+G+N++  + L  +++ L +
Sbjct: 9  IDVNALVGKRIQKRRKELGYTGSQLAAKLGVSQQQFSRYERGLNKIDLTYLVLLAKFLNT 68

Query: 69 PISFFFD 75
          PI +FF+
Sbjct: 69 PIYWFFE 75


>gi|222825162|dbj|BAH22319.1| transcriptional regulator [Wolbachia endosymbiont of Cadra
          cautella]
          Length = 115

 Score = 55.5 bits (132), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 25/76 (32%), Positives = 48/76 (63%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+I+  R+  G++Q +LG+ +G++++Q+Q+YE G N + ASRL  +++ L   ++ 
Sbjct: 7  VQLGKKIKQLRLDRGLTQTELGKRIGVSYRQIQRYENGSNYILASRLYDLAKALSIDVAD 66

Query: 73 FFDVSPTVCSDISSEE 88
          FF    T   +   EE
Sbjct: 67 FFTGMHTDSHEAYDEE 82


>gi|58699287|ref|ZP_00374078.1| transcriptional regulator [Wolbachia endosymbiont of Drosophila
           ananassae]
 gi|58534195|gb|EAL58403.1| transcriptional regulator [Wolbachia endosymbiont of Drosophila
           ananassae]
          Length = 109

 Score = 55.1 bits (131), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 68/118 (57%), Gaps = 11/118 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GK+I+  R+   ++Q +LG+ +G++++Q+QKYE G N V ASRL  +++ L   ++ 
Sbjct: 1   MQLGKKIKQLRLDRALTQTELGKRIGVSYRQIQKYENGSNCVLASRLYDLAKALSIDVAN 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           FF       +D+ ++ +   D     + L+L + + +I   ++R  +  LV+S   S+
Sbjct: 61  FF-------TDMHTDSHEAYD----EEILKLVKGYNEIKSKRLRSAVYILVKSFSQSD 107


>gi|240949478|ref|ZP_04753818.1| XRE family transcriptional regulator [Actinobacillus minor NM305]
 gi|240296051|gb|EER46712.1| XRE family transcriptional regulator [Actinobacillus minor NM305]
          Length = 113

 Score = 55.1 bits (131), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 42/64 (65%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           D  +G+RI+ +R   G S EKL EC+ ++ QQ+ +YE+G +++  + L  I+   ++PI
Sbjct: 9  TDKLIGQRIQQKRKEFGYSAEKLSECINLSQQQLSRYERGASKINVNHLIDIAIFFKTPI 68

Query: 71 SFFF 74
          ++FF
Sbjct: 69 NWFF 72


>gi|167855531|ref|ZP_02478293.1| transcriptional regulator, XRE family protein [Haemophilus
          parasuis 29755]
 gi|219871292|ref|YP_002475667.1| XRE family transcriptional regulator [Haemophilus parasuis
          SH0165]
 gi|167853332|gb|EDS24584.1| transcriptional regulator, XRE family protein [Haemophilus
          parasuis 29755]
 gi|219691496|gb|ACL32719.1| XRE family transcriptional regulator [Haemophilus parasuis
          SH0165]
          Length = 113

 Score = 55.1 bits (131), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 42/64 (65%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           D  +G+RI+ +R   G S EKL EC+ ++ QQ+ +YE+G +++  + L  I+   ++PI
Sbjct: 9  TDKLIGQRIQQKRKEFGYSAEKLSECINLSQQQLSRYERGASKINVNHLIDIAIFFKTPI 68

Query: 71 SFFF 74
          ++FF
Sbjct: 69 NWFF 72


>gi|212711887|ref|ZP_03320015.1| hypothetical protein PROVALCAL_02962 [Providencia alcalifaciens
          DSM 30120]
 gi|212685409|gb|EEB44937.1| hypothetical protein PROVALCAL_02962 [Providencia alcalifaciens
          DSM 30120]
          Length = 103

 Score = 55.1 bits (131), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 39/61 (63%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+ RR  LG+S   L + L ++ QQ+ +YE GVN++    L  ISE+L  PI +FF
Sbjct: 7  IGLRIKNRRKELGLSGANLADRLHLSQQQISRYENGVNKIPIDHLLDISEILMCPIEWFF 66

Query: 75 D 75
          +
Sbjct: 67 N 67


>gi|152979702|ref|YP_001345331.1| XRE family transcriptional regulator [Actinobacillus succinogenes
          130Z]
 gi|150841425|gb|ABR75396.1| transcriptional regulator, XRE family [Actinobacillus
          succinogenes 130Z]
          Length = 114

 Score = 55.1 bits (131), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 28/83 (33%), Positives = 54/83 (65%), Gaps = 3/83 (3%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           D  +G+RI+ +R  +G S EKL E + ++ QQ+ +YE+G +++  + L  I+  L++PI
Sbjct: 9  ADKLIGQRIQQKRKEMGFSAEKLAEYIDLSQQQLSRYERGASKINVAHLIDIAIFLKTPI 68

Query: 71 SFFF-DVSP--TVCSDISSEENN 90
          S+FF D  P  ++ +++S  E++
Sbjct: 69 SWFFQDCFPNESLVNNLSMSESD 91


>gi|260663676|ref|ZP_05864565.1| predicted protein [Lactobacillus fermentum 28-3-CHN]
 gi|260551902|gb|EEX25017.1| predicted protein [Lactobacillus fermentum 28-3-CHN]
          Length = 78

 Score = 54.7 bits (130), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 41/69 (59%), Gaps = 3/69 (4%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL---ESPISFFF 74
          R+R  R+  GM+QE++ E LGI+     K E G+  +GA+ L  ISEVL      IS FF
Sbjct: 7  RLRAERIAKGMTQEEMAERLGISRAAYAKREAGIVDIGANELAAISEVLGIDRDHISIFF 66

Query: 75 DVSPTVCSD 83
          DVS  + +D
Sbjct: 67 DVSSPIGND 75


>gi|307322435|ref|ZP_07601790.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
 gi|306891921|gb|EFN22752.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
          Length = 147

 Score = 54.3 bits (129), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 29/64 (45%), Positives = 40/64 (62%), Gaps = 1/64 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VD  V   IR  R   G+SQ+KLG+ +G+TFQQVQKYE G +R+ AS+L   +  L   +
Sbjct: 10 VDATVAN-IRRFRETSGISQKKLGDAIGVTFQQVQKYESGKDRISASKLVETARALGCDL 68

Query: 71 SFFF 74
          +  F
Sbjct: 69 NSLF 72


>gi|170745337|ref|YP_001766794.1| XRE family transcriptional regulator [Methylobacterium
          radiotolerans JCM 2831]
 gi|170658938|gb|ACB27992.1| transcriptional regulator, XRE family [Methylobacterium
          radiotolerans JCM 2831]
          Length = 138

 Score = 53.9 bits (128), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 43/66 (65%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           P+D ++G+RIR  R    +   +LG  LG + QQ++KYE+G++R+ AS L  I+ +L+ 
Sbjct: 23 GPLDRDIGERIRKHRQDRRLGYGQLGGMLGFSGQQMRKYERGLSRIPASTLYVIAHILDV 82

Query: 69 PISFFF 74
          P+++  
Sbjct: 83 PVNYLL 88


>gi|315499434|ref|YP_004088237.1| transcriptional regulator, xre family [Asticcacaulis excentricus
          CB 48]
 gi|315417446|gb|ADU14086.1| transcriptional regulator, XRE family [Asticcacaulis excentricus
          CB 48]
          Length = 276

 Score = 53.9 bits (128), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 42/66 (63%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N VD +VG R+R+RR ++ MS++ L   LGIT  Q++K E+G  R+G   L   +E L+ 
Sbjct: 9  NEVDTHVGLRLRVRRELVQMSEDWLAGHLGITSAQLRKIEEGRARIGNRELLLCAEALDV 68

Query: 69 PISFFF 74
          P  +F+
Sbjct: 69 PERYFY 74


>gi|268592295|ref|ZP_06126516.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291312076|gb|EFE52529.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 94

 Score = 53.9 bits (128), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 28/89 (31%), Positives = 48/89 (53%), Gaps = 2/89 (2%)

Query: 7  IPNPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          +PN   I+  +G +I   R + GM+ E L   +G++ QQ  +YE+G+NR+   RL H S+
Sbjct: 1  MPNYYLISKIIGNKITYYRKMKGMTLENLSNIVGVSEQQQSRYERGINRINIDRLYHYSK 60

Query: 65 VLESPISFFFDVSPTVCSDISSEENNVMD 93
          + E  I  FF  +    ++I   E   ++
Sbjct: 61 IFEIDIMAFFIFNSREINEIEHAEEKYLN 89


>gi|170750881|ref|YP_001757141.1| XRE family transcriptional regulator [Methylobacterium
          radiotolerans JCM 2831]
 gi|170657403|gb|ACB26458.1| transcriptional regulator, XRE family [Methylobacterium
          radiotolerans JCM 2831]
          Length = 135

 Score = 53.5 bits (127), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 2/78 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G K   +  D+ VG+RI  +R    ++Q ++ +  G++  Q+QKYEKG NR+ A  L 
Sbjct: 1  MAGQK--TDQRDVYVGQRIAEQRRKASLTQRRVAQSFGMSAAQLQKYEKGTNRISAVHLD 58

Query: 61 HISEVLESPISFFFDVSP 78
            S +   P+ +FF   P
Sbjct: 59 IFSRMTGVPMDYFFKGMP 76


>gi|163852720|ref|YP_001640763.1| helix-turn-helix domain-containing protein [Methylobacterium
          extorquens PA1]
 gi|218531560|ref|YP_002422376.1| XRE family transcriptional regulator [Methylobacterium
          chloromethanicum CM4]
 gi|163664325|gb|ABY31692.1| helix-turn-helix domain protein [Methylobacterium extorquens PA1]
 gi|218523863|gb|ACK84448.1| transcriptional regulator, XRE family [Methylobacterium
          chloromethanicum CM4]
          Length = 135

 Score = 53.5 bits (127), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 45/78 (57%), Gaps = 2/78 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G K   +  D+ +G+RI  +R    ++Q  + +  G++  Q+QKYEKGVNR+ A  L 
Sbjct: 1  MAGQKT--DERDVLLGRRIAEQRKRSKLTQRAVADSFGMSAAQLQKYEKGVNRISAIHLA 58

Query: 61 HISEVLESPISFFFDVSP 78
           +S +  +P+S F D  P
Sbjct: 59 ILSRLTNTPVSDFLDGIP 76


>gi|268589692|ref|ZP_06123913.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291315003|gb|EFE55456.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 103

 Score = 53.5 bits (127), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 38/60 (63%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+ RR  LG+S   L + L ++ QQ+ +YE G+N++  + L  I+E L  PI +FF
Sbjct: 7  IGIKIKNRRKELGLSGANLADKLNLSQQQISRYENGINKIPINHLVDIAEALNCPIEWFF 66


>gi|240140055|ref|YP_002964532.1| putative transcriptional regulator [Methylobacterium extorquens
          AM1]
 gi|254562480|ref|YP_003069575.1| transcriptional regulator [Methylobacterium extorquens DM4]
 gi|240010029|gb|ACS41255.1| putative transcriptional regulator [Methylobacterium extorquens
          AM1]
 gi|254269758|emb|CAX25730.1| putative transcriptional regulator [Methylobacterium extorquens
          DM4]
          Length = 140

 Score = 53.5 bits (127), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 45/78 (57%), Gaps = 2/78 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G K   +  D+ +G+RI  +R    ++Q  + +  G++  Q+QKYEKGVNR+ A  L 
Sbjct: 6  MAGQKT--DERDVLLGRRIAEQRKRSKLTQRAVADSFGMSAAQLQKYEKGVNRISAIHLA 63

Query: 61 HISEVLESPISFFFDVSP 78
           +S +  +P+S F D  P
Sbjct: 64 ILSRLTNTPVSDFLDGIP 81


>gi|261343818|ref|ZP_05971463.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282568202|gb|EFB73737.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 103

 Score = 53.1 bits (126), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 37/60 (61%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+ RR  LG+S   L   L ++ QQ+ +YE G+N++    L  I+++L  PI +FF
Sbjct: 7  IGTRIKNRRKELGLSGANLASKLNLSQQQISRYENGINKIPIDHLLDIADILMCPIEWFF 66


>gi|188582745|ref|YP_001926190.1| XRE family transcriptional regulator [Methylobacterium populi
          BJ001]
 gi|179346243|gb|ACB81655.1| transcriptional regulator, XRE family [Methylobacterium populi
          BJ001]
          Length = 135

 Score = 52.8 bits (125), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 44/78 (56%), Gaps = 2/78 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G K   +  D+ +G+RI  +R    ++Q  + +  G++  Q+QKYEKGVNR+ A  L 
Sbjct: 1  MAGQKT--DERDVLLGRRIAEQRKRSKLTQRAVADSFGMSAAQLQKYEKGVNRISAIHLA 58

Query: 61 HISEVLESPISFFFDVSP 78
           +  +  +PIS F D  P
Sbjct: 59 ILGRLTNTPISEFLDGIP 76


>gi|300724595|ref|YP_003713920.1| Repressor of flagellae, MrxJ [Xenorhabdus nematophila ATCC 19061]
 gi|22094605|gb|AAM91936.1|AF525420_7 putative repressor of flagellae [Xenorhabdus nematophila]
 gi|297631137|emb|CBJ91828.1| Repressor of flagellae, MrxJ [Xenorhabdus nematophila ATCC 19061]
          Length = 91

 Score = 52.0 bits (123), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 41/65 (63%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V + VGKRI+++R   G++  +L + +G++ QQ+ +YE+G N++    L  IS  L +P 
Sbjct: 3  VSMLVGKRIQIKRKETGVTAAELADKIGVSHQQLSRYERGTNKISLEHLVAISIALNTPA 62

Query: 71 SFFFD 75
           +F +
Sbjct: 63 DWFLE 67


>gi|284006480|emb|CBA71741.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 96

 Score = 52.0 bits (123), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/64 (37%), Positives = 40/64 (62%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + IN+GK I+ +R   G+S E L + +G++ Q + +YE+GVN +  + L  I++ L  PI
Sbjct: 3  ISINIGKMIKFKRKEKGLSGELLAKKIGVSQQPLSRYERGVNDIKVNTLYSITQALNIPI 62

Query: 71 SFFF 74
            FF
Sbjct: 63 DSFF 66


>gi|114762814|ref|ZP_01442246.1| DNA-binding protein, putative [Pelagibaca bermudensis HTCC2601]
 gi|114544424|gb|EAU47431.1| DNA-binding protein, putative [Roseovarius sp. HTCC2601]
          Length = 130

 Score = 51.6 bits (122), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/111 (29%), Positives = 58/111 (52%), Gaps = 11/111 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFFFDV 76
           ++RL R   G++Q +L + +G   QQ+ +YE G  R+ A++L  IS+ L+ P+  FF D 
Sbjct: 8   QLRLYRRSAGLTQNELAKRIGAHVQQIYRYETGAGRIPAAQLWLISQALDMPLDQFFIDA 67

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                  +S +E  V D + T   L      ++    + R  +IEL+R++ 
Sbjct: 68  D----MPVSEQEQAVFDDVRTAATL------LRPLAPEQRNAVIELLRTMA 108


>gi|23168698|gb|AAN08677.1| transcriptional regulator [Anaplasma marginale str. Florida]
          Length = 148

 Score = 51.6 bits (122), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 44/122 (36%), Positives = 64/122 (52%), Gaps = 16/122 (13%)

Query: 27  GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-----DVSP-TV 80
           GMS+ +    LGITFQQVQKYEKG NR+  SRL  ++ VL   I         D+ P T 
Sbjct: 3   GMSRNQPASRLGITFQQVQKYEKGTNRIVISRLYELARVLGIEIKDLIAKLQNDLRPITD 62

Query: 81  CSDIS------SEENNVMDF-ISTPDG---LQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
             D +       EE+++ +F  S  DG   L L R + +I   K+R  I  LV+ + + +
Sbjct: 63  AGDATDAALREGEESSLEEFGQSYNDGKEVLMLVRAYRRIKSDKMRGAIHTLVKVMCAEQ 122

Query: 131 KK 132
           ++
Sbjct: 123 QQ 124


>gi|85704294|ref|ZP_01035397.1| hypothetical protein ROS217_14886 [Roseovarius sp. 217]
 gi|85671614|gb|EAQ26472.1| hypothetical protein ROS217_14886 [Roseovarius sp. 217]
          Length = 136

 Score = 51.6 bits (122), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 37/67 (55%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +D+ VG+ +R  R+  G +   L    G+T QQ+QKYE G NRV  SRL  +S  L  
Sbjct: 6  NDIDVIVGRVLRRTRLASGHTMTSLAAQCGVTHQQLQKYESGSNRVSVSRLFILSNALGI 65

Query: 69 PISFFFD 75
          P +   D
Sbjct: 66 PPAELID 72


>gi|261345516|ref|ZP_05973160.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282566568|gb|EFB72103.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 106

 Score = 51.2 bits (121), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 38/60 (63%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+ RR  LG+S   L + L I+ QQ+ +YE G+N++  + L  I+  L+ PI +FF
Sbjct: 7  IGIKIKARRKELGLSGAGLAKILNISQQQISRYENGINKIPLNHLVSIAVALKCPIDWFF 66


>gi|226328868|ref|ZP_03804386.1| hypothetical protein PROPEN_02769 [Proteus penneri ATCC 35198]
 gi|225202054|gb|EEG84408.1| hypothetical protein PROPEN_02769 [Proteus penneri ATCC 35198]
          Length = 112

 Score = 51.2 bits (121), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/69 (36%), Positives = 44/69 (63%), Gaps = 4/69 (5%)

Query: 11 VDINV----GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           DINV    GKRI+ +R  LG +  ++ + +G++ QQ  +YE+G+N++  S L  ++  L
Sbjct: 13 TDINVNALVGKRIQKKRKELGYTGMQIAKKIGVSQQQFSRYERGMNKIDLSYLVLLANYL 72

Query: 67 ESPISFFFD 75
           +PI +FF+
Sbjct: 73 NTPIYWFFE 81


>gi|183599041|ref|ZP_02960534.1| hypothetical protein PROSTU_02486 [Providencia stuartii ATCC
          25827]
 gi|188021257|gb|EDU59297.1| hypothetical protein PROSTU_02486 [Providencia stuartii ATCC
          25827]
          Length = 104

 Score = 51.2 bits (121), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 38/60 (63%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+ RR  LG+S   L + L I+ QQV +YE G+N++  + L  I+  L+ PI +FF
Sbjct: 7  IGIKIKTRRKELGLSGADLAKKLNISQQQVSRYENGINKIPLNHLVSIAIALKCPIDWFF 66


>gi|307315880|ref|ZP_07595384.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          BL225C]
 gi|306898470|gb|EFN29153.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          BL225C]
          Length = 123

 Score = 51.2 bits (121), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 25/56 (44%), Positives = 34/56 (60%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           D  +G  IR  R I G+SQ KLG  +G+TFQQVQK E G +R+ + +L   +  L
Sbjct: 10 ADAALGTNIRRFREISGISQNKLGAAIGVTFQQVQKDESGKDRISSKKLVETARTL 65


>gi|197284179|ref|YP_002150051.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|194681666|emb|CAR40739.1| fimbrial operon regulator [Proteus mirabilis HI4320]
          Length = 106

 Score = 51.2 bits (121), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 27/95 (28%), Positives = 54/95 (56%), Gaps = 3/95 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V+ +VGK+I+ +R  LG +  +L + +G++ QQ  +YE+G+N++    L  ++  L +PI
Sbjct: 11  VNASVGKKIQKKRKELGYTGMQLAKKIGVSQQQFSRYERGMNKIDLRHLVLLALYLNTPI 70

Query: 71  SFFFD---VSPTVCSDISSEENNVMDFISTPDGLQ 102
            +FF+   V     ++   ++ N +   +TPD   
Sbjct: 71  YWFFEDCYVKKPSLNNKGIDKRNYVIAQATPDAFH 105


>gi|227357946|ref|ZP_03842289.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|6453635|emb|CAB61440.1| mrpJ [Proteus mirabilis HI4320]
 gi|227161855|gb|EEI46884.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 107

 Score = 51.2 bits (121), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 27/95 (28%), Positives = 54/95 (56%), Gaps = 3/95 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V+ +VGK+I+ +R  LG +  +L + +G++ QQ  +YE+G+N++    L  ++  L +PI
Sbjct: 12  VNASVGKKIQKKRKELGYTGMQLAKKIGVSQQQFSRYERGMNKIDLRHLVLLALYLNTPI 71

Query: 71  SFFFD---VSPTVCSDISSEENNVMDFISTPDGLQ 102
            +FF+   V     ++   ++ N +   +TPD   
Sbjct: 72  YWFFEDCYVKKPSLNNKGIDKRNYVIAQATPDAFH 106


>gi|262276707|ref|ZP_06054501.1| transcriptional regulator, Cro/CI family [alpha proteobacterium
          HIMB114]
 gi|262225129|gb|EEY75587.1| transcriptional regulator, Cro/CI family [alpha proteobacterium
          HIMB114]
          Length = 104

 Score = 51.2 bits (121), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 21/47 (44%), Positives = 34/47 (72%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +SQ ++G+ +  TFQQ+QKYEKG N++ AS++  +SE    P+S +F
Sbjct: 36 ISQTQVGKYMNCTFQQIQKYEKGKNQLSASKIYKLSEFFNIPVSSWF 82


>gi|183598411|ref|ZP_02959904.1| hypothetical protein PROSTU_01807 [Providencia stuartii ATCC
          25827]
 gi|188020590|gb|EDU58630.1| hypothetical protein PROSTU_01807 [Providencia stuartii ATCC
          25827]
          Length = 76

 Score = 50.8 bits (120), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 27/74 (36%), Positives = 43/74 (58%), Gaps = 1/74 (1%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M GN   P   +I VGK+I+  R  + ++ E+LG  +G++ QQ+ +YE GVN +    L 
Sbjct: 1  MSGNIIKPT-FNIIVGKKIKRYRKEMNLTAEELGRYIGVSQQQISRYESGVNHINIDFLS 59

Query: 61 HISEVLESPISFFF 74
           +SE+ + PI  F 
Sbjct: 60 QLSELFKVPIQVFL 73


>gi|251777920|ref|ZP_04820840.1| conserved hypothetical protein [Clostridium botulinum E1 str.
          'BoNT E Beluga']
 gi|243082235|gb|EES48125.1| conserved hypothetical protein [Clostridium botulinum E1 str.
          'BoNT E Beluga']
          Length = 376

 Score = 50.4 bits (119), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/68 (36%), Positives = 42/68 (61%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RI+  R++ G+SQE+LG+ +G+T Q +   EK    +  + L  +SE L+ P+SFF+ 
Sbjct: 10 GQRIKQGRILRGLSQEQLGKKVGVTRQAISNCEKDNINLSTTNLLKLSETLDLPLSFFYR 69

Query: 76 VSPTVCSD 83
          +     SD
Sbjct: 70 IPEEDNSD 77


>gi|119385143|ref|YP_916199.1| XRE family transcriptional regulator [Paracoccus denitrificans
          PD1222]
 gi|119374910|gb|ABL70503.1| transcriptional regulator, XRE family [Paracoccus denitrificans
          PD1222]
          Length = 108

 Score = 50.1 bits (118), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 22/42 (52%), Positives = 32/42 (76%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          MSQ+++ E +G++ QQ+QKYE  VNR+ ASRL  I+ VL+ P
Sbjct: 1  MSQKQVAERIGVSMQQLQKYETAVNRISASRLVEIANVLQVP 42


>gi|296491936|ref|YP_003662403.1| hypothetical protein XNC1_p0124 [Xenorhabdus nematophila ATCC
           19061]
 gi|289176823|emb|CBJ92992.1| hypothetical protein XNC1_p0124 [Xenorhabdus nematophila ATCC
           19061]
          Length = 291

 Score = 50.1 bits (118), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 26/85 (30%), Positives = 45/85 (52%), Gaps = 5/85 (5%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G RI++ R  + ++   LG  +G++ QQ+ + E G NR+    L +I+  L  PIS+F
Sbjct: 107 NIGLRIQIWRKTMMLTAAALGLSVGLSQQQISRNEHGKNRIHIDHLVNIALALGIPISWF 166

Query: 74  F-----DVSPTVCSDISSEENNVMD 93
           F     D+     S + +    +MD
Sbjct: 167 FIDCHPDLEVNTSSHLPTTPTKIMD 191



 Score = 47.4 bits (111), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 38/61 (62%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G+RIR+RR  L ++ + L +  G+  Q + +YE G  R+ ++ L  I+  L +PI +F
Sbjct: 201 NIGQRIRVRRKKLNVTLQGLAKQAGMNQQTLSRYETGKKRITSTDLVIIAIALNTPIDWF 260

Query: 74  F 74
           F
Sbjct: 261 F 261



 Score = 44.7 bits (104), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 35/61 (57%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G+R+ +RR   G+S   L +  GI+  Q+  YE G++ +  S L  IS  L +P  +F
Sbjct: 12 SIGQRVCIRRKEAGLSTHTLAQHTGISEAQLIMYETGLDDIPLSHLIQISAGLNTPTGWF 71

Query: 74 F 74
          F
Sbjct: 72 F 72


>gi|170743390|ref|YP_001772045.1| XRE family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168197664|gb|ACA19611.1| transcriptional regulator, XRE family [Methylobacterium sp. 4-46]
          Length = 149

 Score = 50.1 bits (118), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 39/67 (58%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D ++G+RI   R+   + ++ +   LGI+  Q  KYEKG NR+ A+ L  +  + + PI 
Sbjct: 10 DAHIGQRIEQLRLKAKIPRDVVAGRLGISASQFGKYEKGANRMSAADLDAVGRLFDVPIG 69

Query: 72 FFFDVSP 78
          +FF+  P
Sbjct: 70 YFFEGMP 76


>gi|133711095|gb|ABO36239.1| hypothetical translational regulator [Ehrlichia ewingii]
          Length = 118

 Score = 50.1 bits (118), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/37 (62%), Positives = 27/37 (72%)

Query: 30 QEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          Q +L   LGITFQQVQKYEKG NR+  SRL  ++ VL
Sbjct: 1  QNQLANKLGITFQQVQKYEKGTNRIVISRLYQLASVL 37


>gi|290476510|ref|YP_003469415.1| putative repressor of flagellae [Xenorhabdus bovienii SS-2004]
 gi|289175848|emb|CBJ82651.1| putative repressor of flagellae [Xenorhabdus bovienii SS-2004]
          Length = 92

 Score = 49.7 bits (117), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/65 (32%), Positives = 42/65 (64%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V + VGKRI+++R  +GM+  +L + + ++ QQ+ +YE+G N++    L  +S  L++P 
Sbjct: 3  VSMLVGKRIQIKRKEIGMTVAELADRISVSQQQLSRYERGTNKISLEHLVDVSIALKTPA 62

Query: 71 SFFFD 75
           +F +
Sbjct: 63 DWFLE 67


>gi|226330186|ref|ZP_03805704.1| hypothetical protein PROPEN_04099 [Proteus penneri ATCC 35198]
 gi|225200981|gb|EEG83335.1| hypothetical protein PROPEN_04099 [Proteus penneri ATCC 35198]
          Length = 94

 Score = 49.7 bits (117), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 42/72 (58%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +K I   ++  +G RI  +R   G +  ++   LGI+ QQ  +YE+G N++   +L  IS
Sbjct: 3  DKNIKLSINEVIGNRISKKRREQGWTGNQVASLLGISQQQFSRYERGRNQISVYQLMKIS 62

Query: 64 EVLESPISFFFD 75
           +L + I++FFD
Sbjct: 63 RILNTSINWFFD 74


>gi|212709228|ref|ZP_03317356.1| hypothetical protein PROVALCAL_00263 [Providencia alcalifaciens
          DSM 30120]
 gi|212688140|gb|EEB47668.1| hypothetical protein PROVALCAL_00263 [Providencia alcalifaciens
          DSM 30120]
          Length = 83

 Score = 49.7 bits (117), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/64 (32%), Positives = 40/64 (62%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + ++G ++R RR++LG S   LG+  G++ QQ+ +YE+G      SRL   + VL+  ++
Sbjct: 10 NTDIGAKVRKRRLLLGWSASILGKKTGLSQQQISRYERGTQNFTISRLCIFANVLQCDLN 69

Query: 72 FFFD 75
          +F +
Sbjct: 70 YFLE 73


>gi|295135558|ref|YP_003586234.1| XRE family transcriptional regulator [Zunongwangia profunda SM-A87]
 gi|294983573|gb|ADF54038.1| XRE family transcriptional regulator [Zunongwangia profunda SM-A87]
          Length = 140

 Score = 49.7 bits (117), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/120 (34%), Positives = 59/120 (49%), Gaps = 13/120 (10%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G++I   R + GM QE L   LGI+ Q V   EK  N V    L+ ISEVL       
Sbjct: 21  HIGRKISRIRELRGMKQEALAAELGISQQSVSNLEKSEN-VDEGTLKKISEVL------- 72

Query: 74  FDVSPTVCSDISSEE-NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
            +VSP      + E   N+++     +    N YF  ID V   +KI+EL   +V +EK+
Sbjct: 73  -NVSPEAIRHFTEEAVFNIINNTFKDNSANNNNYFCTIDPV---EKIVELYERLVQAEKE 128


>gi|110347043|ref|YP_665861.1| XRE family transcriptional regulator [Mesorhizobium sp. BNC1]
 gi|110283154|gb|ABG61214.1| transcriptional regulator, XRE family [Chelativorans sp. BNC1]
          Length = 154

 Score = 49.3 bits (116), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/78 (25%), Positives = 48/78 (61%), Gaps = 1/78 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SP 69
           ++ ++G+ +R +R    +++E+L   +G++ Q   +YEK ++++  +RL H+ E+L+ SP
Sbjct: 44  METSLGRALRAKRSERKLTREQLATMIGLSTQVFGRYEKAISKMNVTRLIHLCEILDVSP 103

Query: 70  ISFFFDVSPTVCSDISSE 87
           +   ++ +P +  D   E
Sbjct: 104 VDLIYEAAPHLFGDTPQE 121


>gi|22023151|gb|AAM88940.1|AF313446_1 putative transcriptional regulator [Rhizobium etli]
          Length = 94

 Score = 49.3 bits (116), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/77 (36%), Positives = 46/77 (59%), Gaps = 5/77 (6%)

Query: 59  LQHISEVLESPISFFFD---VSPTVCSDISSEE--NNVMDFISTPDGLQLNRYFIQIDDV 113
           LQ I+EVL +  SFFF+     P     ++  +  + V +F+ T +GL LNR F++I D 
Sbjct: 1   LQRIAEVLHTSPSFFFEQNESQPLSLQGLALPDGADPVAEFLRTKEGLVLNRAFLKIADP 60

Query: 114 KVRQKIIELVRSIVSSE 130
            +R+ II LV+++  +E
Sbjct: 61  DIRETIIALVKAMAQAE 77


>gi|226328632|ref|ZP_03804150.1| hypothetical protein PROPEN_02527 [Proteus penneri ATCC 35198]
 gi|225203365|gb|EEG85719.1| hypothetical protein PROPEN_02527 [Proteus penneri ATCC 35198]
          Length = 73

 Score = 49.3 bits (116), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/65 (35%), Positives = 38/65 (58%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   +G++I   R + G+S ++L   +G++ QQ  +YE+GVNR+   RL   +E+    
Sbjct: 6  PVSKAIGRKITYYRKMKGISLDELAALIGVSQQQQSRYERGVNRINLDRLNQYAEIFNIH 65

Query: 70 ISFFF 74
          I  FF
Sbjct: 66 IKDFF 70


>gi|317484279|ref|ZP_07943203.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
          3_1_6]
 gi|316924460|gb|EFV45622.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
          3_1_6]
          Length = 272

 Score = 49.3 bits (116), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 30/93 (32%), Positives = 44/93 (47%), Gaps = 14/93 (15%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL------ 66
          +N+G +I+ RR  +G+SQE L +  G++ Q V K+E G +     RL  +S+VL      
Sbjct: 6  LNIGGKIQARRKAMGLSQEDLAQLTGVSRQSVTKWETGQSAPDLDRLVEVSDVLGVSLDF 65

Query: 67 --------ESPISFFFDVSPTVCSDISSEENNV 91
                   SP SF    SP    D S   + V
Sbjct: 66 LLREPQQVSSPPSFAVADSPPFAEDGSPGASGV 98


>gi|222087278|ref|YP_002545813.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221724726|gb|ACM27882.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 200

 Score = 48.9 bits (115), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 43/68 (63%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D +VG+++R+ RM   +SQ +LG+ +G+  QQ++++E   NR+  + L  ++  L  PI
Sbjct: 36  IDRHVGQQLRIIRMHSNLSQTELGQLVGLRHQQIEQFESSKNRMNTAVLCEVANCLNVPI 95

Query: 71  SFFFDVSP 78
           +  F+  P
Sbjct: 96  ARVFEALP 103


>gi|160885067|ref|ZP_02066070.1| hypothetical protein BACOVA_03064 [Bacteroides ovatus ATCC 8483]
 gi|298483201|ref|ZP_07001381.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides sp. D22]
 gi|156109417|gb|EDO11162.1| hypothetical protein BACOVA_03064 [Bacteroides ovatus ATCC 8483]
 gi|298270718|gb|EFI12299.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides sp. D22]
          Length = 139

 Score = 48.9 bits (115), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 38/130 (29%), Positives = 64/130 (49%), Gaps = 9/130 (6%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL--ESPIS 71
           +VG+ ++  R+ LGM QE L   LG++ Q++ K EK  + +    L  I+EVL   + + 
Sbjct: 13  HVGRNLQRIRVYLGMKQEALASDLGVSQQEISKIEKQ-DEIEDGLLTKIAEVLGISTDVI 71

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
             FDV   +C+      NN  D   +P G     Y      +   +K++EL   ++ SE+
Sbjct: 72  KDFDVEKAICNI-----NNYKDATISP-GATATVYAAHTQQINPLEKVVELYERLLKSEQ 125

Query: 132 KYRTIEEECM 141
           +   I  EC+
Sbjct: 126 EKIEILRECI 135


>gi|58699199|ref|ZP_00374010.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
 gi|58534286|gb|EAL58474.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
          Length = 119

 Score = 48.9 bits (115), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 33/125 (26%), Positives = 62/125 (49%), Gaps = 12/125 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D  VG++++  R+  G +Q+ L E LG+ +  + +YEKG  R+   RL  I+E L
Sbjct: 5   VEKSLDYKVGEKLKSWRLERGYTQKDLAEKLGVKYWVILQYEKGNRRISIERLYAITEAL 64

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              I+   D+ P   S +  E   +++ +         R + +I+D ++R+    L   +
Sbjct: 65  SISIT---DLIPISKSCLEDEGEEILNLV---------REYKKINDQELRKMFCLLTNFV 112

Query: 127 VSSEK 131
             SEK
Sbjct: 113 PVSEK 117


>gi|218516214|ref|ZP_03513054.1| putative transcriptional regulator protein [Rhizobium etli 8C-3]
          Length = 89

 Score = 48.9 bits (115), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/42 (52%), Positives = 31/42 (73%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G
Sbjct: 47 HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESG 88


>gi|58696656|ref|ZP_00372210.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila simulans]
 gi|58699194|ref|ZP_00374006.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
 gi|225630362|ref|YP_002727153.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|225630756|ref|YP_002727547.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|58534290|gb|EAL58477.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
 gi|58537180|gb|EAL60282.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila simulans]
 gi|225592343|gb|ACN95362.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|225592737|gb|ACN95756.1| transcriptional regulator, putative [Wolbachia sp. wRi]
          Length = 302

 Score = 48.5 bits (114), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 34/125 (27%), Positives = 59/125 (47%), Gaps = 12/125 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D  VG++++  R+  G +Q+ L E LG+ +  + +YEKG  R+   RL  I+E L
Sbjct: 5   VEKSLDYKVGEKLKSWRLERGYTQKDLAEKLGVKYWVILQYEKGNRRISIERLYAITEAL 64

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              I+    +S +   D   E             L L R + +I+D ++R+    L   +
Sbjct: 65  SISITDLIPISKSCLEDEGEE------------ILNLVREYKKINDQELRKMFCLLTNFV 112

Query: 127 VSSEK 131
             SEK
Sbjct: 113 QVSEK 117


>gi|42520475|ref|NP_966390.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|42410214|gb|AAS14324.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
          Length = 302

 Score = 48.5 bits (114), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 34/125 (27%), Positives = 59/125 (47%), Gaps = 12/125 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D  VG++++  R+  G +Q+ L E LG+ +  + +YEKG  R+   RL  I+E L
Sbjct: 5   VEKSLDYKVGEKLKSWRLERGYTQKDLAEKLGVKYWVILQYEKGNRRISIERLYAITEAL 64

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              I+    +S +   D   E             L L R + +I+D ++R+    L   +
Sbjct: 65  SISITDLIPISKSCLEDEGEE------------ILNLVREYKKINDQELRKMFCLLTNFV 112

Query: 127 VSSEK 131
             SEK
Sbjct: 113 QVSEK 117


>gi|268591032|ref|ZP_06125253.1| DNA-binding protein [Providencia rettgeri DSM 1131]
 gi|291313838|gb|EFE54291.1| DNA-binding protein [Providencia rettgeri DSM 1131]
          Length = 88

 Score = 48.5 bits (114), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 40/70 (57%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K I N V  N+GK+I+L R    +S   L   +GI+ QQ+ +YE G++ +  S++  IS 
Sbjct: 16 KNITNIVAKNIGKKIKLLRSEYRLSGSDLARIIGISQQQLSRYENGLSDISTSKIMLISV 75

Query: 65 VLESPISFFF 74
            +  + +FF
Sbjct: 76 YFKVDVCYFF 85


>gi|150378104|ref|YP_001314699.1| XRE family transcriptional regulator [Sinorhizobium medicae
          WSM419]
 gi|150032651|gb|ABR64766.1| transcriptional regulator, XRE family [Sinorhizobium medicae
          WSM419]
          Length = 139

 Score = 48.5 bits (114), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/49 (44%), Positives = 34/49 (69%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           D  +G  I   R I G+SQ++LG+ +G+TFQQV+KYE G +R+ + +L
Sbjct: 10 ADAALGTNICRFREISGISQKELGDAIGVTFQQVRKYESGKDRISSKKL 58


>gi|222055067|ref|YP_002537429.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221564356|gb|ACM20328.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 115

 Score = 48.5 bits (114), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 26/73 (35%), Positives = 43/73 (58%), Gaps = 7/73 (9%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++R R    G+SQEKL E +G++  Q+QKYE G +++   +LQ +++ L   +  FF
Sbjct: 13 LGNQLRER---AGISQEKLAEHVGVSKGQIQKYEYGKDKMNTDKLQRVADALSVSVQEFF 69

Query: 75 ----DVSPTVCSD 83
              DV P   S+
Sbjct: 70 ATGEDVLPLAVSE 82


>gi|169349664|ref|ZP_02866602.1| hypothetical protein CLOSPI_00402 [Clostridium spiroforme DSM 1552]
 gi|169293739|gb|EDS75872.1| hypothetical protein CLOSPI_00402 [Clostridium spiroforme DSM 1552]
          Length = 206

 Score = 48.1 bits (113), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 33/115 (28%), Positives = 58/115 (50%), Gaps = 20/115 (17%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
            G+RI+  R   G++QE+LG  LG+    + KYE   V  +    +Q +SE+ E P ++F
Sbjct: 2   TGQRIKKLRKEKGLTQEQLGNLLGVKKSAIAKYENNRVENLKKETIQKLSEIFEVPATYF 61

Query: 74  FDVS----PTVCSDISSE-------------ENNVMDFISTPDG-LQLNR-YFIQ 109
             +     PT+ + I+               ++N+ ++I+ P+  L LN+ YF Q
Sbjct: 62  LGIDETNQPTITNSITIPLYNDISCGTGIFVDDNIDEYIALPESLLTLNKEYFCQ 116


>gi|220927095|ref|YP_002502397.1| XRE family transcriptional regulator [Methylobacterium nodulans ORS
           2060]
 gi|219951702|gb|ACL62094.1| XRE family transcriptional regulator [Methylobacterium nodulans ORS
           2060]
          Length = 84

 Score = 48.1 bits (113), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 43/82 (52%), Gaps = 8/82 (9%)

Query: 47  YEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           YEKG+NRVGA RLQ I+++LE P+S  +       SD       V+  ++TP   +L + 
Sbjct: 7   YEKGLNRVGAGRLQAIADLLEVPVSTLYGGDGHAGSD-------VVALLNTPHAAELLQL 59

Query: 107 FIQIDDVKVRQKIIELVRSIVS 128
           F  +     R  ++ + R ++ 
Sbjct: 60  FDAM-PATYRGSLLTIARGLLG 80


>gi|319945880|ref|ZP_08020130.1| hypothetical transcriptional regulator [Streptococcus australis
          ATCC 700641]
 gi|319747945|gb|EFW00189.1| hypothetical transcriptional regulator [Streptococcus australis
          ATCC 700641]
          Length = 228

 Score = 48.1 bits (113), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 48/81 (59%), Gaps = 2/81 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L M+Q+ + + LGIT+Q    +E+GV +    +++ + ++L+ PI +F ++
Sbjct: 5  EKLKARRKELKMTQKDIADQLGITYQAYSAWERGVKKPSKEKVKLLEQILDVPIGYFTEL 64

Query: 77 SPTVCSDISSEE--NNVMDFI 95
                +  S+E  NN + ++
Sbjct: 65 EIVRLYNTLSDEGKNNALSYV 85


>gi|192361971|ref|YP_001984171.1| MrfJ protein [Cellvibrio japonicus Ueda107]
 gi|190688136|gb|ACE85814.1| MrfJ protein [Cellvibrio japonicus Ueda107]
          Length = 131

 Score = 47.8 bits (112), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 24/69 (34%), Positives = 41/69 (59%), Gaps = 1/69 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  +G R++  R    +S   L + +G T QQ+ +YE G N++ A++L  +++ L  PI
Sbjct: 9  LDRQIGLRLKKLRQQADISAVALADAIGSTQQQISRYENGQNKLSAAQLYLLAQSLCVPI 68

Query: 71 SFFF-DVSP 78
          S+FF D  P
Sbjct: 69 SWFFLDCDP 77


>gi|153011903|ref|YP_001373116.1| helix-turn-helix domain-containing protein [Ochrobactrum anthropi
           ATCC 49188]
 gi|151563791|gb|ABS17287.1| helix-turn-helix domain protein [Ochrobactrum anthropi ATCC 49188]
          Length = 176

 Score = 47.8 bits (112), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 31/101 (30%), Positives = 52/101 (51%), Gaps = 6/101 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
           +  +IR  R I  M +  L   LG+  Q + +YEK  +++  +RL H+ EVL+ SP+   
Sbjct: 54  ISSQIRELREIREMPRTVLAPLLGLHHQVLSRYEKATSKLTVARLIHLCEVLDTSPMELL 113

Query: 74  FDVSPTVCSDISSEE---NNVMDFISTPDGLQLNRY--FIQ 109
           + V+P +  + + E     ++ D + T D L L     FIQ
Sbjct: 114 YPVAPHLFGETAQEAEMTKSIYDKLRTLDALTLAAISNFIQ 154


>gi|268591879|ref|ZP_06126100.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291312853|gb|EFE53306.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 82

 Score = 47.8 bits (112), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          V N +I N     +G+++R RR++LG S   LG+  G++ QQ+ +YE+G       RL  
Sbjct: 3  VYNTEISNSF---IGQQVRKRRLLLGWSASTLGKKSGLSQQQISRYERGTQNFTIYRLCI 59

Query: 62 ISEVLESPISFFF 74
           + +LE  +++F 
Sbjct: 60 FANILECDLNYFL 72


>gi|295098436|emb|CBK87526.1| Helix-turn-helix [Enterobacter cloacae subsp. cloacae NCTC 9394]
          Length = 102

 Score = 47.4 bits (111), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 44/73 (60%), Gaps = 4/73 (5%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQH 61
          K  NP +    +R++  R+ + +SQ+ LG   GI       ++ +YEKGV++     ++H
Sbjct: 2  KTSNPHNQLFSRRLKEVRLDMALSQKSLGILAGIDEFAASARINRYEKGVHQASIEVVRH 61

Query: 62 ISEVLESPISFFF 74
          +++VLE P+++F+
Sbjct: 62 LAKVLEVPVAYFY 74


>gi|238027673|ref|YP_002911904.1| putative phage repressor [Burkholderia glumae BGR1]
 gi|237876867|gb|ACR29200.1| Putative phage repressor [Burkholderia glumae BGR1]
          Length = 241

 Score = 47.4 bits (111), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 39/154 (25%), Positives = 79/154 (51%), Gaps = 28/154 (18%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G RIR +R+  G++ +++G+  GI+   V  +E+G  R    +L  ++ +L++ I+F
Sbjct: 1   MDIGSRIREKRLAHGLTLQQVGDMFGISRSAVASWERGATRPDQDKLPRLARILKTSIAF 60

Query: 73  FF------DV----SPTVCSDISSEENNVMDFISTP---DGLQLNRY---FIQIDDVKVR 116
                   D+    SPT   +++ +    +D  + P   D +Q++R+         +++R
Sbjct: 61  LLSGERRHDIGGSDSPTDDDEVTEDNGYTLD--APPLRSDIVQISRFDTGGAMGSGIELR 118

Query: 117 QK--IIELVRSIVSSE------KKYRTIEEECMV 142
            +  IIE +R  VS E      K Y ++E  C+V
Sbjct: 119 DQPGIIETLR--VSHEWINKNLKNYSSVENLCVV 150


>gi|325662713|ref|ZP_08151310.1| hypothetical protein HMPREF0490_02050 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|325471052|gb|EGC74279.1| hypothetical protein HMPREF0490_02050 [Lachnospiraceae bacterium
          4_1_37FAA]
          Length = 180

 Score = 47.4 bits (111), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 26/74 (35%), Positives = 38/74 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG++I+  R I G+SQE LG   GI    ++KYE G+      +L  I+  L   I+ 
Sbjct: 1  MTVGEKIKYYRNIRGISQEMLGNLSGINPATIKKYEYGIRNPKPDQLLKITNALGISINL 60

Query: 73 FFDVSPTVCSDISS 86
          F D      SD+ S
Sbjct: 61 FMDFDIETVSDVLS 74


>gi|167755401|ref|ZP_02427528.1| hypothetical protein CLORAM_00915 [Clostridium ramosum DSM 1402]
 gi|237733631|ref|ZP_04564112.1| SOS-response transcriptional repressor [Mollicutes bacterium D7]
 gi|167704340|gb|EDS18919.1| hypothetical protein CLORAM_00915 [Clostridium ramosum DSM 1402]
 gi|229383229|gb|EEO33320.1| SOS-response transcriptional repressor [Coprobacillus sp. D7]
          Length = 206

 Score = 47.0 bits (110), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 35/118 (29%), Positives = 56/118 (47%), Gaps = 20/118 (16%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
            G+RI+  R   G++QE+LG  LG+    + KYE   V  +    +Q +SE+ + P S+F
Sbjct: 2   TGERIKKLRKEKGLTQEQLGNLLGVKKSAIAKYENNRVENLKKDTIQKLSEIFDVPASYF 61

Query: 74  FDVSPT------------VCSDISSE-----ENNVMDFISTPDGL--QLNRYFIQIDD 112
             +  +            + SDIS       ++NV ++IS P+ L      YF Q  D
Sbjct: 62  LGIDESNQPIITDSITIPLYSDISCGTGLFVDDNVDEYISLPETLLSPSKEYFCQYAD 119


>gi|210610934|ref|ZP_03288659.1| hypothetical protein CLONEX_00849 [Clostridium nexile DSM 1787]
 gi|210152234|gb|EEA83241.1| hypothetical protein CLONEX_00849 [Clostridium nexile DSM 1787]
          Length = 157

 Score = 47.0 bits (110), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 26/74 (35%), Positives = 38/74 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG++I+  R I G+SQE LG   GI    ++KYE G+      +L  I+  L   I+ 
Sbjct: 1  MTVGEKIKYYRNIRGISQEMLGNLSGINPATIKKYEYGIRNPKPDQLLKITNALGISINL 60

Query: 73 FFDVSPTVCSDISS 86
          F D      SD+ S
Sbjct: 61 FMDFDIETVSDVLS 74


>gi|160943186|ref|ZP_02090422.1| hypothetical protein FAEPRAM212_00671 [Faecalibacterium
          prausnitzii M21/2]
 gi|158445425|gb|EDP22428.1| hypothetical protein FAEPRAM212_00671 [Faecalibacterium
          prausnitzii M21/2]
          Length = 392

 Score = 47.0 bits (110), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 37/62 (59%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+ L R I  +S  KL E +G+T Q V +YE G+ +  A ++  IS+ L+ P  FFF+
Sbjct: 11 GMRLTLAREIQNISSPKLAEKIGVTKQTVSQYENGLIKPSADKVLAISQELKFPPKFFFE 70

Query: 76 VS 77
           S
Sbjct: 71 GS 72


>gi|190570721|ref|YP_001975079.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|190356993|emb|CAQ54382.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
          Length = 304

 Score = 47.0 bits (110), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 33/125 (26%), Positives = 59/125 (47%), Gaps = 12/125 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D  VG++++  R+  G +Q+ L E +G+ +  + +YEKG  R+   RL  I+E L
Sbjct: 5   VEKSLDCEVGEKVKNWRLERGYTQKDLAEKIGVKYWVILQYEKGNRRISIERLYAITEAL 64

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              I+    +S +   D   E             L L R + +I+D ++R+    L   +
Sbjct: 65  SISITDLIPISKSCLEDEGEE------------ILNLVREYKKINDQELRKMFCLLTNFV 112

Query: 127 VSSEK 131
             SEK
Sbjct: 113 QISEK 117


>gi|268592288|ref|ZP_06126509.1| DNA-binding protein [Providencia rettgeri DSM 1131]
 gi|291312067|gb|EFE52520.1| DNA-binding protein [Providencia rettgeri DSM 1131]
          Length = 92

 Score = 47.0 bits (110), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 24/68 (35%), Positives = 37/68 (54%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   +G +I+  R   G+S   L + +GI+ QQ  +YE+G NR+   RL+  S   +  
Sbjct: 6  PVSAVIGNKIKSLRKNKGLSLTALAKTVGISEQQQLRYERGNNRISIDRLKQYSNYFDIN 65

Query: 70 ISFFFDVS 77
          I +FF  S
Sbjct: 66 IIYFFSFS 73


>gi|268592297|ref|ZP_06126518.1| DNA-binding protein [Providencia rettgeri DSM 1131]
 gi|291312078|gb|EFE52531.1| DNA-binding protein [Providencia rettgeri DSM 1131]
          Length = 73

 Score = 46.6 bits (109), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 25/68 (36%), Positives = 36/68 (52%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P      +GK+I   R   G+S  +L E +GI+ QQ  +YE+GVNR+   RL   +   
Sbjct: 1  MPYSTSHLIGKKILYYRKTNGLSVNELSEVIGISPQQQSRYERGVNRITLDRLFQYATYF 60

Query: 67 ESPISFFF 74
          E  I  FF
Sbjct: 61 EIDIKTFF 68


>gi|213019728|ref|ZP_03335533.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212994769|gb|EEB55412.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 300

 Score = 46.6 bits (109), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 33/125 (26%), Positives = 59/125 (47%), Gaps = 12/125 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D  VG++++  R+  G +Q+ L E +G+ +  + +YEKG  R+   RL  I+E L
Sbjct: 1   MEKSLDCEVGEKVKNWRLERGYTQKDLAEKIGVKYWVILQYEKGNRRISIERLYAITEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              I+    +S +   D   E             L L R + +I+D ++R+    L   +
Sbjct: 61  SISITDLIPISKSCLEDEGEE------------ILNLVREYKKINDQELRKMFCLLTNFV 108

Query: 127 VSSEK 131
             SEK
Sbjct: 109 QISEK 113


>gi|197303199|ref|ZP_03168241.1| hypothetical protein RUMLAC_01922 [Ruminococcus lactaris ATCC
          29176]
 gi|197297739|gb|EDY32297.1| hypothetical protein RUMLAC_01922 [Ruminococcus lactaris ATCC
          29176]
          Length = 108

 Score = 46.2 bits (108), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 36/61 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+ +R+  G++QEK  E + ++   + + E+G+++V   RL  ISE     I FF 
Sbjct: 8  LGDRIKTKRISQGITQEKFAEHMDVSVGYISQLERGISKVSLERLVSISEYFNCNIDFFI 67

Query: 75 D 75
          D
Sbjct: 68 D 68


>gi|307133110|ref|YP_003885126.1| putative transcriptional regulator [Dickeya dadantii 3937]
 gi|306530639|gb|ADN00570.1| Putative transcriptional regulator [Dickeya dadantii 3937]
          Length = 106

 Score = 46.2 bits (108), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 5/74 (6%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQ 60
          K  PN  D+   +R++  R+  G+SQ+KLG   GI       ++ +YEKGV+       Q
Sbjct: 2  KSRPNYHDV-FCQRLKQARLAKGLSQKKLGIAAGIDEFVASTRINRYEKGVHEASIDTAQ 60

Query: 61 HISEVLESPISFFF 74
           +++ L+ P++FF+
Sbjct: 61 QLADALDVPLAFFY 74


>gi|200389135|ref|ZP_03215747.1| I C protein [Salmonella enterica subsp. enterica serovar Virchow
          str. SL491]
 gi|199606233|gb|EDZ04778.1| I C protein [Salmonella enterica subsp. enterica serovar Virchow
          str. SL491]
          Length = 107

 Score = 46.2 bits (108), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 39/62 (62%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R+  G+SQ++LG   GI       ++ +YEKGV+  G   +Q ++EVL  P+++
Sbjct: 13 RRLKQARLASGLSQKRLGIAAGIDEFVASTRINRYEKGVHEPGTEIVQKLAEVLRVPLAY 72

Query: 73 FF 74
          F+
Sbjct: 73 FY 74


>gi|146296429|ref|YP_001180200.1| XRE family transcriptional regulator [Caldicellulosiruptor
           saccharolyticus DSM 8903]
 gi|145410005|gb|ABP67009.1| transcriptional regulator, XRE family [Caldicellulosiruptor
           saccharolyticus DSM 8903]
          Length = 122

 Score = 46.2 bits (108), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 27/107 (25%), Positives = 54/107 (50%), Gaps = 11/107 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++++  R   G++QE++ + LGI   Q+  YE GV  +    LQ ++++    +++FF
Sbjct: 10  IGQKLQEARKKAGLTQEQVADYLGINKVQLSYYENGVREISIGTLQQLADLYGYTLNYFF 69

Query: 75  D----VSPTVCSDISSE--ENNVMDFISTPDGLQLNRYFIQIDDVKV 115
           D      P V      E  E   ++ I+       NR+ I ++ +K+
Sbjct: 70  DDEKSTDPAVSFSFRGEELEKEDLEVIAMA-----NRFLINLEQMKM 111


>gi|271502480|ref|YP_003335506.1| XRE family transcriptional regulator [Dickeya dadantii Ech586]
 gi|270346035|gb|ACZ78800.1| transcriptional regulator, XRE family [Dickeya dadantii Ech586]
          Length = 106

 Score = 46.2 bits (108), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 37/62 (59%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R+  G+SQ+KLG   GI       ++ +YEKGV+       Q +S+ L+ P++F
Sbjct: 13 QRLKQARLAKGLSQKKLGIAAGIDEFVASTRINRYEKGVHEASIDTAQQLSDALDVPLAF 72

Query: 73 FF 74
          F+
Sbjct: 73 FY 74


>gi|183597672|ref|ZP_02959165.1| hypothetical protein PROSTU_00963 [Providencia stuartii ATCC
          25827]
 gi|188022942|gb|EDU60982.1| hypothetical protein PROSTU_00963 [Providencia stuartii ATCC
          25827]
          Length = 100

 Score = 46.2 bits (108), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 24/61 (39%), Positives = 37/61 (60%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK IR RR  LG+S  +L   +GI+ QQV +YE+G   +    L  +++ LE+ +  FF
Sbjct: 8  VGKEIRKRRKELGLSGAELAGLVGISQQQVSRYERGECNITLDNLLSLAKALETDLICFF 67

Query: 75 D 75
          +
Sbjct: 68 N 68


>gi|154497138|ref|ZP_02035834.1| hypothetical protein BACCAP_01431 [Bacteroides capillosus ATCC
          29799]
 gi|150273537|gb|EDN00665.1| hypothetical protein BACCAP_01431 [Bacteroides capillosus ATCC
          29799]
          Length = 417

 Score = 46.2 bits (108), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 36/62 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG+RI L+R  LG+SQE LG+ LG++ Q + K+E   +     +L  +S +   P+ +
Sbjct: 1  MTVGQRIALKRKELGLSQEGLGDKLGVSRQAIYKWESDASLPEVEKLVALSRIFSVPVGW 60

Query: 73 FF 74
            
Sbjct: 61 LL 62


>gi|331086447|ref|ZP_08335527.1| hypothetical protein HMPREF0987_01830 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|330406213|gb|EGG85736.1| hypothetical protein HMPREF0987_01830 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 179

 Score = 45.4 bits (106), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 38/74 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G++I+  R + G+SQE LG+  GI    ++KYE G+      +L  I+  L   I+ 
Sbjct: 1  MTTGEKIKYFRNMRGISQETLGQLSGINSSTIKKYEYGIRNPKPDQLLKIANALGISINI 60

Query: 73 FFDVSPTVCSDISS 86
          F D      SD+ S
Sbjct: 61 FMDFDIETVSDVLS 74


>gi|226328630|ref|ZP_03804148.1| hypothetical protein PROPEN_02525 [Proteus penneri ATCC 35198]
 gi|225203363|gb|EEG85717.1| hypothetical protein PROPEN_02525 [Proteus penneri ATCC 35198]
          Length = 97

 Score = 45.4 bits (106), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 32/89 (35%), Positives = 45/89 (50%), Gaps = 13/89 (14%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          NKKI   V    GK+IR  R +  M+ ++LG  LGI+ Q   +YE G   + A  L    
Sbjct: 7  NKKISKLV----GKKIRSLREMYCMTGDELGALLGISQQHQSRYENGETNIHAETLY--- 59

Query: 64 EVLESPISFFFDVSP-TVCSDISSEENNV 91
                +S+FFDV P    SD+  E+N +
Sbjct: 60 -----CLSYFFDVEPEYFLSDLLIEDNKL 83


>gi|225374593|ref|ZP_03751814.1| hypothetical protein ROSEINA2194_00208 [Roseburia inulinivorans
          DSM 16841]
 gi|225213545|gb|EEG95899.1| hypothetical protein ROSEINA2194_00208 [Roseburia inulinivorans
          DSM 16841]
          Length = 179

 Score = 45.4 bits (106), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 38/74 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G++I+  R + G+SQE LG+  GI    ++KYE G+      +L  I+  L   I+ 
Sbjct: 1  MTTGEKIKYFRNMRGISQETLGQLSGINSATIKKYEYGIRNPKPDQLLKIANALGISINI 60

Query: 73 FFDVSPTVCSDISS 86
          F D      SD+ S
Sbjct: 61 FMDFDIETVSDVLS 74


>gi|262282955|ref|ZP_06060722.1| phage transcriptional regulator [Streptococcus sp. 2_1_36FAA]
 gi|262261207|gb|EEY79906.1| phage transcriptional regulator [Streptococcus sp. 2_1_36FAA]
          Length = 121

 Score = 45.4 bits (106), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 37/120 (30%), Positives = 62/120 (51%), Gaps = 15/120 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLE-SPI 70
           +NVG+RI+ RR  L MS + L E +G++   + +YEKG + +VG   L+ I++ L  SP 
Sbjct: 1   MNVGERIKQRRKELKMSADALSERVGVSRSTIFRYEKGDIEKVGPEVLKKIADTLNISPA 60

Query: 71  SFF------FDVSPTVCSDISSEEN--NVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                     D    + ++  +E +   + +   T DG  LN      +D++  QKIIE+
Sbjct: 61  QLMGWEEQNADRKGAIATNNYNETDLRKMAENAKTFDGKPLNE-----EDIQAIQKIIEI 115


>gi|210610650|ref|ZP_03288550.1| hypothetical protein CLONEX_00740 [Clostridium nexile DSM 1787]
 gi|210152372|gb|EEA83378.1| hypothetical protein CLONEX_00740 [Clostridium nexile DSM 1787]
          Length = 124

 Score = 45.4 bits (106), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 39/69 (56%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+P  +++GKR+R+ R+    +QE+  E LG++     K E+G + +   +L H+ E 
Sbjct: 15 KAPDPFYVDMGKRLRIVRIKANYTQEQFAEILGMSTAYYGKIERGEHGLSLKKLVHVYEK 74

Query: 66 LESPISFFF 74
          L   I++  
Sbjct: 75 LNIDINYLL 83


>gi|296877345|ref|ZP_06901385.1| hypothetical transcriptional regulator [Streptococcus
          parasanguinis ATCC 15912]
 gi|296431865|gb|EFH17672.1| hypothetical transcriptional regulator [Streptococcus
          parasanguinis ATCC 15912]
          Length = 228

 Score = 45.4 bits (106), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 19/81 (23%), Positives = 47/81 (58%), Gaps = 2/81 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +++++RR  L ++Q+ + + LG+++Q    +E+GV +    ++Q + ++L  P  FF ++
Sbjct: 5  EKLKIRRKELKLTQKDIADQLGVSYQAYSAWERGVKQPSREKVQQLEQILNVPKGFFTEI 64

Query: 77 SPTVCSDISSEE--NNVMDFI 95
                +  S+E  NN + ++
Sbjct: 65 EIVRLYNTLSDEGKNNALSYV 85


>gi|266626094|ref|ZP_06119029.1| transcriptional regulator [Clostridium hathewayi DSM 13479]
 gi|288861999|gb|EFC94297.1| transcriptional regulator [Clostridium hathewayi DSM 13479]
          Length = 102

 Score = 45.4 bits (106), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 26/69 (37%), Positives = 38/69 (55%), Gaps = 5/69 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI---- 70
          +GKRI   R + G+SQEK+ E +GI+ Q V K+E   +R     L  +S + E P+    
Sbjct: 4  LGKRIAYYRKLQGLSQEKVAEHIGISRQAVTKWENDNSRPNTDNLLQLSALFEIPLNELV 63

Query: 71 -SFFFDVSP 78
           S+  D SP
Sbjct: 64 SSYSEDHSP 72


>gi|312868402|ref|ZP_07728602.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
 gi|311096147|gb|EFQ54391.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
          Length = 228

 Score = 45.4 bits (106), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 20/72 (27%), Positives = 42/72 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L M+Q+ + + LGIT+Q    +E+GV +    ++Q + ++L  P  +F ++
Sbjct: 5  EKLKARRKELKMTQKDIADQLGITYQAYSAWERGVKQPSREKVQQLEQILNVPKGYFTEL 64

Query: 77 SPTVCSDISSEE 88
                +I S+E
Sbjct: 65 EIARLYNILSDE 76


>gi|295084668|emb|CBK66191.1| Helix-turn-helix. [Bacteroides xylanisolvens XB1A]
          Length = 138

 Score = 45.4 bits (106), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 36/130 (27%), Positives = 64/130 (49%), Gaps = 10/130 (7%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL--ESPIS 71
           +VG+ ++  R+ LGM QE L   LG++ Q++ K EK  + +    L  I+EVL   + + 
Sbjct: 13  HVGRNLQRIRVYLGMKQEALASDLGVSQQEISKIEKQ-DEIEDGLLTKIAEVLGISTDVI 71

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
             FDV   +C+      NN  D   +P  +     +     +   +K++EL   ++ SE+
Sbjct: 72  KDFDVEKAICNI-----NNYKDATISPGAIAT--VYAHNQQINPLEKVVELYERLLKSEQ 124

Query: 132 KYRTIEEECM 141
           +   I  EC+
Sbjct: 125 EKIEILRECI 134


>gi|225026540|ref|ZP_03715732.1| hypothetical protein EUBHAL_00789 [Eubacterium hallii DSM 3353]
 gi|224956154|gb|EEG37363.1| hypothetical protein EUBHAL_00789 [Eubacterium hallii DSM 3353]
          Length = 177

 Score = 45.1 bits (105), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 36/72 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK+IR  R   G SQ +L E  GI    ++KYE G+      +L+ I+  L   +S F 
Sbjct: 2  VGKKIRAYREFRGFSQIQLAELSGINVGTIRKYELGIRNPKPEQLEKIAAALGLNVSIFL 61

Query: 75 DVSPTVCSDISS 86
          D +     D+ S
Sbjct: 62 DFNIETVGDVLS 73


>gi|42520148|ref|NP_966063.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|42409885|gb|AAS13997.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
          Length = 308

 Score = 45.1 bits (105), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 32/132 (24%), Positives = 63/132 (47%), Gaps = 10/132 (7%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D  VG++++  R+  G +Q+ L E +G+ +  + +YEKG   +   RL  I+E L
Sbjct: 5   VEKSLDCKVGEKVKNWRLERGYTQKDLAEKIGVKYWVILQYEKGNRGISIKRLYAIAEAL 64

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              I+     S        +EE  +++ +         R + +I+D ++R+    L + +
Sbjct: 65  SVSITNLIPASKEKIG-FKNEEGEILNLV---------REYKKINDHELRRMFCLLTKFV 114

Query: 127 VSSEKKYRTIEE 138
             SEK  R  E+
Sbjct: 115 QVSEKSSRKSEK 126



 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 32/57 (56%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +GK+I+  R++   +Q+ LGE +  T  +V  YE+G   V   +L  ++E L   I+
Sbjct: 166 IGKKIKEWRLVREYTQKDLGEKMSTTRHEVSNYEQGRTAVPLDKLYEMAEALSINIT 222


>gi|237718063|ref|ZP_04548544.1| transcriptional regulator [Bacteroides sp. 2_2_4]
 gi|293370030|ref|ZP_06616597.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides ovatus SD CMC 3f]
 gi|299147754|ref|ZP_07040817.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides sp. 3_1_23]
 gi|229452704|gb|EEO58495.1| transcriptional regulator [Bacteroides sp. 2_2_4]
 gi|292634948|gb|EFF53470.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides ovatus SD CMC 3f]
 gi|298513937|gb|EFI37823.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides sp. 3_1_23]
          Length = 138

 Score = 45.1 bits (105), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 38/131 (29%), Positives = 68/131 (51%), Gaps = 12/131 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL--ESPIS 71
           +VG+ ++  R+ LGM QE L   LG++ Q++ K EK  + +    L  I+EVL   + + 
Sbjct: 13  HVGRNLQRIRVYLGMKQEALASDLGVSQQEISKIEKQ-DEIEDGLLTKIAEVLGISTDVI 71

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQ-LNRYFIQIDDVKVRQKIIELVRSIVSSE 130
             FDV   +C+      NN  D   +P  +  +  +  QI+ +   +K++EL   ++ SE
Sbjct: 72  KDFDVEKAICNI-----NNYKDATISPGAIATVYAHNQQINPI---EKVVELYERLLKSE 123

Query: 131 KKYRTIEEECM 141
           ++   I  EC+
Sbjct: 124 QEKIEILRECI 134


>gi|229553274|ref|ZP_04441999.1| xre family transcriptional regulator [Lactobacillus rhamnosus
           LMS2-1]
 gi|258540114|ref|YP_003174613.1| transcriptional regulator xre family [Lactobacillus rhamnosus Lc
           705]
 gi|229313360|gb|EEN79333.1| xre family transcriptional regulator [Lactobacillus rhamnosus
           LMS2-1]
 gi|257151790|emb|CAR90762.1| Transcriptional regulator, xre family [Lactobacillus rhamnosus Lc
           705]
          Length = 346

 Score = 45.1 bits (105), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 22/98 (22%), Positives = 50/98 (51%), Gaps = 18/98 (18%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++ + IR +R+  G++QE L + +G+T   V K+EKG++    + L             
Sbjct: 4   MHLNQIIRTKRLAAGLTQEALAQKVGVTSPAVSKWEKGISYPDITLL------------- 50

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
                P +  +++++ N ++DF +  D   L R++ ++
Sbjct: 51  -----PILARNLNTDVNTLLDFSADLDPAALRRFYTKL 83


>gi|284007380|emb|CBA72775.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 100

 Score = 45.1 bits (105), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 28/87 (32%), Positives = 45/87 (51%), Gaps = 1/87 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + ++ N+G+ IR +R  L +S   L   LGI+ Q + +YE+G  R+    L  +S VL
Sbjct: 8  IMDCINYNIGQMIRKKRQKLQISAADLSALLGISQQHLSRYERGEVRINVEWLIKVSRVL 67

Query: 67 ESPI-SFFFDVSPTVCSDISSEENNVM 92
          +  I S+F +       D  S  N +M
Sbjct: 68 DIAIESYFVNSRINFWEDYYSMGNCLM 94


>gi|253690483|ref|YP_003019673.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
          subsp. carotovorum PC1]
 gi|251757061|gb|ACT15137.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
          subsp. carotovorum PC1]
          Length = 111

 Score = 45.1 bits (105), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 37/62 (59%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R+  G+SQ+KLG   GI       ++ +YEKGV+       Q ++E L+ P+++
Sbjct: 13 QRLKQARLAKGLSQKKLGIAAGIDEFVASTRINRYEKGVHEASIETAQQLAEALDVPLAY 72

Query: 73 FF 74
          F+
Sbjct: 73 FY 74


>gi|261344094|ref|ZP_05971738.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282567684|gb|EFB73219.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 91

 Score = 45.1 bits (105), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 34/58 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++G+RI+  R+  G S + LG+  GI+ QQ+ +YE+GVNR+    L   +      I
Sbjct: 10 LSIGQRIKSLRLQNGWSGDALGKVTGISQQQISRYERGVNRIDVESLAKFANAFNVSI 67


>gi|66768392|ref|YP_243154.1| transcriptional regulator [Xanthomonas campestris pv. campestris
          str. 8004]
 gi|66573724|gb|AAY49134.1| transcriptional regulator, HTH_3 family [Xanthomonas campestris
          pv. campestris str. 8004]
          Length = 412

 Score = 45.1 bits (105), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 25/70 (35%), Positives = 38/70 (54%), Gaps = 1/70 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+ L R   GM + +L E +G+T + V  YE G     ++ L  +SE L  P +FFF   
Sbjct: 29 RLTLARKRRGMKKRELAEKIGLTEKSVSNYEAGSQEPESTTLSKLSEALRFPEAFFFGDD 88

Query: 78 PTVCS-DISS 86
          P V + D++S
Sbjct: 89 PEVPTPDVAS 98


>gi|58697513|ref|ZP_00372774.1| transcriptional regulator, putative [Wolbachia endosymbiont of
          Drosophila simulans]
 gi|58536024|gb|EAL59708.1| transcriptional regulator, putative [Wolbachia endosymbiont of
          Drosophila simulans]
          Length = 247

 Score = 45.1 bits (105), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 46/83 (55%), Gaps = 3/83 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + +++R  R+  G +Q+ L   +G+T+Q V +YEKG  ++   +L  I+EVL   I   
Sbjct: 9  KIAQKVRSWRLKRGYTQKDLAGKIGVTYQVVLQYEKGTRKISIEKLYAIAEVLSVGIIDL 68

Query: 74 FDVSP-TVCSDISSEENNVMDFI 95
            VS   +C  + +EE  +++ +
Sbjct: 69 IPVSSEKIC--LKNEEEEILNLV 89


>gi|42520477|ref|NP_966392.1| transcriptional regulator, putative [Wolbachia endosymbiont of
          Drosophila melanogaster]
 gi|225630365|ref|YP_002727156.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|225630759|ref|YP_002727550.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|42410216|gb|AAS14326.1| transcriptional regulator, putative [Wolbachia endosymbiont of
          Drosophila melanogaster]
 gi|225592346|gb|ACN95365.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|225592740|gb|ACN95759.1| transcriptional regulator, putative [Wolbachia sp. wRi]
          Length = 303

 Score = 44.7 bits (104), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 46/83 (55%), Gaps = 3/83 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + +++R  R+  G +Q+ L   +G+T+Q V +YEKG  ++   +L  I+EVL   I   
Sbjct: 9  KIAQKVRSWRLKRGYTQKDLAGKIGVTYQVVLQYEKGTRKISIEKLYAIAEVLSVGIIDL 68

Query: 74 FDVSP-TVCSDISSEENNVMDFI 95
            VS   +C  + +EE  +++ +
Sbjct: 69 IPVSSEKIC--LKNEEEEILNLV 89


>gi|331091855|ref|ZP_08340687.1| hypothetical protein HMPREF9477_01330 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330402754|gb|EGG82321.1| hypothetical protein HMPREF9477_01330 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 177

 Score = 44.7 bits (104), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 30/90 (33%), Positives = 44/90 (48%), Gaps = 5/90 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK+IR  R   G SQ +L E  GI    ++KYE G+      +L+ I+  L   +S F 
Sbjct: 2  VGKKIRAYREFRGYSQIQLAELSGINVGTIRKYELGIRNPKPDQLEKIATALGLNVSVFL 61

Query: 75 DVSPTVCSDISSE----ENNV-MDFISTPD 99
          D +     D+ S     +N+V +    TPD
Sbjct: 62 DFNIETVGDVLSLLFSIDNSVNLSLAETPD 91


>gi|307126198|ref|YP_003878229.1| phage transcriptional repressor [Streptococcus pneumoniae 670-6B]
 gi|306483260|gb|ADM90129.1| phage transcriptional repressor [Streptococcus pneumoniae 670-6B]
 gi|321157139|emb|CBW39125.1| Putative phage repressor protein [Streptococcus phage 23782]
 gi|321157188|emb|CBW39173.1| Putative phage repressor protein [Streptococcus phage 11865]
          Length = 244

 Score = 44.7 bits (104), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 46/79 (58%), Gaps = 12/79 (15%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          +NVG+RI+ RR  L MS ++L E +G++   + +YEKG + +VG   L+ I++ L     
Sbjct: 1  MNVGERIKQRRKALKMSADELAESVGVSRSTIFRYEKGDIEKVGPEVLKKIADKL----- 55

Query: 72 FFFDVSPTVCSDISSEENN 90
             +VSP    D+   E+N
Sbjct: 56 ---NVSP---GDLMGWEDN 68


>gi|258616769|ref|ZP_05714539.1| Cro/CI family transcriptional regulator [Enterococcus faecium DO]
 gi|293560120|ref|ZP_06676624.1| helix-turn-helix domain protein [Enterococcus faecium E1162]
 gi|314938184|ref|ZP_07845489.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|314943772|ref|ZP_07850507.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|314951141|ref|ZP_07854199.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|314994621|ref|ZP_07859881.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|314995569|ref|ZP_07860663.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|291605987|gb|EFF35417.1| helix-turn-helix domain protein [Enterococcus faecium E1162]
 gi|313590157|gb|EFR69002.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313591026|gb|EFR69871.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|313596620|gb|EFR75465.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|313597496|gb|EFR76341.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|313642531|gb|EFS07111.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
          Length = 215

 Score = 44.7 bits (104), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 4/81 (4%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRL 59
          V  KK P  V+   G+RIRL R+  G+S E+LG  L    +   V  +E G N    +RL
Sbjct: 7  VARKKYPEAVE--TGQRIRLARIEKGLSMEQLGGKLSPPASKGAVSNWENGYNLPNNTRL 64

Query: 60 QHISEVLESPISFFFDVSPTV 80
          + +S+VL+   ++  + S T+
Sbjct: 65 KQLSKVLDVSTTYLLNGSYTL 85


>gi|308181771|ref|YP_003925899.1| XRE family transcriptional regulator [Lactobacillus plantarum
          subsp. plantarum ST-III]
 gi|308047262|gb|ADN99805.1| XRE family transcriptional regulator [Lactobacillus plantarum
          subsp. plantarum ST-III]
          Length = 188

 Score = 44.7 bits (104), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 40/61 (65%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G+RI+ +R+ L ++Q ++ E L +T Q V ++E G + +    +Q +SE+ + P ++F
Sbjct: 4  SIGQRIKAKRLELKLTQNQVAEKLFVTQQTVARWENGKHTLPVKAVQDLSELFDVPTAYF 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|212710089|ref|ZP_03318217.1| hypothetical protein PROVALCAL_01142 [Providencia alcalifaciens
          DSM 30120]
 gi|212687296|gb|EEB46824.1| hypothetical protein PROVALCAL_01142 [Providencia alcalifaciens
          DSM 30120]
          Length = 94

 Score = 44.7 bits (104), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 22/71 (30%), Positives = 39/71 (54%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+   VG RI+  R   G++  ++   L ++ QQ  +YE+G+NR+    L  I++  +  
Sbjct: 11 PIAKIVGSRIKKLRKEYGLTGTEIAAYLNVSQQQFSRYERGINRIDIDSLVMIADFFKIS 70

Query: 70 ISFFFDVSPTV 80
          I +FF+   TV
Sbjct: 71 IHYFFEDISTV 81


>gi|58699142|ref|ZP_00373967.1| transcriptional regulator, putative [Wolbachia endosymbiont of
          Drosophila ananassae]
 gi|58534342|gb|EAL58516.1| transcriptional regulator, putative [Wolbachia endosymbiont of
          Drosophila ananassae]
          Length = 312

 Score = 44.7 bits (104), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 46/83 (55%), Gaps = 3/83 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + +++R  R+  G +Q+ L   +G+T+Q V +YEKG  ++   +L  I+EVL   I   
Sbjct: 18 KIAQKVRSWRLKRGYTQKDLAGKIGVTYQVVLQYEKGTRKISIEKLYAIAEVLSVGIIDL 77

Query: 74 FDVSP-TVCSDISSEENNVMDFI 95
            VS   +C  + +EE  +++ +
Sbjct: 78 IPVSSEKIC--LKNEEEEILNLV 98


>gi|229061582|ref|ZP_04198926.1| Transcriptional regulator, Cro/CI [Bacillus cereus AH603]
 gi|228717816|gb|EEL69466.1| Transcriptional regulator, Cro/CI [Bacillus cereus AH603]
          Length = 118

 Score = 44.7 bits (104), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 21/65 (32%), Positives = 37/65 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R    ++QEK+GE +G++ Q + KYEKG+       ++ +++    PI + F
Sbjct: 4  IGERIFDLRKERKLTQEKIGENIGVSKQTISKYEKGIKIPSRENIEKLADFFNVPIDYLF 63

Query: 75 DVSPT 79
            S T
Sbjct: 64 GKSDT 68


>gi|206900818|ref|YP_002250397.1| transcriptional regulator, AraC family [Dictyoglomus thermophilum
           H-6-12]
 gi|206739921|gb|ACI18979.1| transcriptional regulator, AraC family [Dictyoglomus thermophilum
           H-6-12]
          Length = 105

 Score = 44.7 bits (104), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 36/125 (28%), Positives = 56/125 (44%), Gaps = 23/125 (18%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +NVGKRIR  R    M  E L E  G++   +   E+G+       L+ I++    P S+
Sbjct: 1   MNVGKRIRETRKKHNMKLEDLAEKTGLSLSYISLIERGLKNPSLKALERIAKAFNLPTSY 60

Query: 73  FFDVSPTVCSDISSEENN--VMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           FF           SE+N+  +  F+ T   L          D   R+ II+L++S+ S +
Sbjct: 61  FF-----------SEDNDETIETFLRTKTSL----------DEDERRMIIQLIKSLESKK 99

Query: 131 KKYRT 135
              RT
Sbjct: 100 GVRRT 104


>gi|188492663|ref|ZP_02999933.1| regulatory protein [Escherichia coli 53638]
 gi|188487862|gb|EDU62965.1| regulatory protein [Escherichia coli 53638]
 gi|315615351|gb|EFU95983.1| helix-turn-helix family protein [Escherichia coli 3431]
          Length = 229

 Score = 44.7 bits (104), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 36/118 (30%), Positives = 55/118 (46%), Gaps = 13/118 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N   RI       G +Q +L   LG++ Q VQ +  G     + +L H+SE+   P S+F
Sbjct: 6   NTENRIAAMLKAKGWTQAQLARKLGVSAQSVQYWTTGKTFPRSDKLAHLSEISGYPQSWF 65

Query: 74  F--DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI---DDVKVRQKIIELVRSI 126
              D SPT     SS+E +     +  D +  N   ++    D   VR  +I++VRSI
Sbjct: 66  LGEDSSPT----FSSQEKHQ----TRTDSVVFNVLDVEFSCGDGTHVRGDLIDVVRSI 115


>gi|317501737|ref|ZP_07959924.1| hypothetical protein HMPREF1026_01868 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|316896859|gb|EFV18943.1| hypothetical protein HMPREF1026_01868 [Lachnospiraceae bacterium
          8_1_57FAA]
          Length = 177

 Score = 44.7 bits (104), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 28/90 (31%), Positives = 43/90 (47%), Gaps = 5/90 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK+IR  R   G SQ +L E  GI    ++KYE G+      +L+ I+  L   +S F 
Sbjct: 2  VGKKIRAYREFRGYSQIQLAELSGINVGTIRKYELGIRNPKPDQLEKIATALGLNVSVFL 61

Query: 75 DVSPTVCSDISS-----EENNVMDFISTPD 99
          D +     D+ S     +++  +    TPD
Sbjct: 62 DFNIETVGDVLSLLFSIDDSVNLSLAETPD 91


>gi|319637930|ref|ZP_07992696.1| XRE family Transcriptional regulator [Neisseria mucosa C102]
 gi|317401085|gb|EFV81740.1| XRE family Transcriptional regulator [Neisseria mucosa C102]
          Length = 86

 Score = 44.3 bits (103), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R +  R    ++QEKLG  +G    +   ++ +YEKG ++   + LQ I+EVLE P +F
Sbjct: 9  RRFKEARKAKNLTQEKLGLAIGLDEFVASTRINRYEKGNHQPDLNTLQKIAEVLEVPPAF 68

Query: 73 FF 74
          FF
Sbjct: 69 FF 70


>gi|212711620|ref|ZP_03319748.1| hypothetical protein PROVALCAL_02695 [Providencia alcalifaciens
          DSM 30120]
 gi|212685722|gb|EEB45250.1| hypothetical protein PROVALCAL_02695 [Providencia alcalifaciens
          DSM 30120]
          Length = 107

 Score = 44.3 bits (103), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 29/82 (35%), Positives = 42/82 (51%), Gaps = 4/82 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI---- 70
          VG RIR  R    MS ++L + LGI+ Q   ++E G  R+    L  ISE+LE  I    
Sbjct: 10 VGARIRTLRKDRNMSIQQLSKLLGISQQHQSRHELGEMRIHVDTLYSISEILELDIQELM 69

Query: 71 SFFFDVSPTVCSDISSEENNVM 92
          S F D     C+    E++N++
Sbjct: 70 SDFIDSYSCTCTSDKKEKDNLL 91


>gi|58699659|ref|ZP_00374339.1| transcriptional regulator, putative [Wolbachia endosymbiont of
          Drosophila ananassae]
 gi|58533824|gb|EAL58143.1| transcriptional regulator, putative [Wolbachia endosymbiont of
          Drosophila ananassae]
          Length = 226

 Score = 44.3 bits (103), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 46/83 (55%), Gaps = 3/83 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + +++R  R+  G +Q+ L   +G+T+Q V +YEKG  ++   +L  I+EVL   I   
Sbjct: 18 KIAQKVRSWRLKRGYTQKDLAGKIGVTYQVVLQYEKGTRKISIEKLYAIAEVLSVGIIDL 77

Query: 74 FDVSP-TVCSDISSEENNVMDFI 95
            VS   +C  + +EE  +++ +
Sbjct: 78 IPVSSEKIC--LKNEEEEILNLV 98


>gi|260892597|ref|YP_003238694.1| transcriptional regulator, XRE family [Ammonifex degensii KC4]
 gi|260864738|gb|ACX51844.1| transcriptional regulator, XRE family [Ammonifex degensii KC4]
          Length = 151

 Score = 44.3 bits (103), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 23/73 (31%), Positives = 40/73 (54%), Gaps = 4/73 (5%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G RI+  R+  G++Q +L + L +  + + KYE+G NR  A  L+ ++++LE    F 
Sbjct: 8  DLGLRIKFARLRKGLTQAELAQKLNVHPETLGKYERGTNRPDAETLRKLADILEVSTDFL 67

Query: 74 F----DVSPTVCS 82
               D SP   S
Sbjct: 68 VGRTNDPSPIPSS 80


>gi|312868437|ref|ZP_07728637.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
 gi|311096182|gb|EFQ54426.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
          Length = 248

 Score = 44.3 bits (103), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 19/81 (23%), Positives = 46/81 (56%), Gaps = 2/81 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L  +Q+ + + LG+++Q    +E+GV +    ++Q + ++L  P  FF ++
Sbjct: 5  EKLKARRKELKKTQKDIADQLGVSYQAYSAWERGVKQPSREKVQQLEQILNVPKGFFTEI 64

Query: 77 SPTVCSDISSEE--NNVMDFI 95
                +  S+E  NN ++++
Sbjct: 65 EIVRLYNTLSDEGKNNALNYV 85


>gi|161018434|emb|CAK01992.1| transcriptional regulator (fragment) [Bartonella tribocorum CIP
          105476]
          Length = 39

 Score = 44.3 bits (103), Expect = 0.005,   Method: Composition-based stats.
 Identities = 19/32 (59%), Positives = 28/32 (87%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQ 42
          +D+ VGK+IRL+R +LGMSQ+ LG+ LG++FQ
Sbjct: 8  IDLFVGKKIRLKRKMLGMSQKTLGDALGVSFQ 39


>gi|260844262|ref|YP_003222040.1| putative phage repressor CI [Escherichia coli O103:H2 str. 12009]
 gi|257759409|dbj|BAI30906.1| putative phage repressor CI [Escherichia coli O103:H2 str. 12009]
          Length = 229

 Score = 44.3 bits (103), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 36/118 (30%), Positives = 55/118 (46%), Gaps = 13/118 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N   RI       G +Q +L   LG++ Q VQ +  G     + +L H+SE+   P S+F
Sbjct: 6   NTENRIAAMLKAKGWTQAQLARKLGVSAQSVQYWTTGKTFPRSDKLAHLSEISGYPQSWF 65

Query: 74  F--DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI---DDVKVRQKIIELVRSI 126
              D SPT     SS+E +     +  D +  N   ++    D   VR  +I++VRSI
Sbjct: 66  LGEDSSPT----FSSQEKHQ----TRTDSVVFNVLDVEFSCGDGTHVRGDLIDVVRSI 115


>gi|183601014|ref|ZP_02962507.1| hypothetical protein PROSTU_04634 [Providencia stuartii ATCC
          25827]
 gi|188019351|gb|EDU57391.1| hypothetical protein PROSTU_04634 [Providencia stuartii ATCC
          25827]
          Length = 91

 Score = 44.3 bits (103), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 21/58 (36%), Positives = 34/58 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++VG+RI+  R+  G S E LG+  GI+ QQ+ ++E+GVNR+    L   +      I
Sbjct: 10 LSVGQRIKSLRLQNGWSGEALGKITGISQQQISRFERGVNRIDVESLAKFANAFNVDI 67


>gi|257463340|ref|ZP_05627736.1| putative prophage repressor [Fusobacterium sp. D12]
 gi|317060917|ref|ZP_07925402.1| SOS-response transcriptional repressor [Fusobacterium sp. D12]
 gi|313686593|gb|EFS23428.1| SOS-response transcriptional repressor [Fusobacterium sp. D12]
          Length = 198

 Score = 44.3 bits (103), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 29/103 (28%), Positives = 50/103 (48%), Gaps = 13/103 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ GK+++L R   G+SQE+L + L +T   +  YE G   +   +L  I E L S  + 
Sbjct: 2   LDYGKKLKLLRESKGLSQEELSDKLSVTKTTIGNYENGRRALTLEKLAEILEALNSSFNE 61

Query: 73  FF--------DVSPTVCSDISSE-----ENNVMDFISTPDGLQ 102
           FF        D+   + S +S+      E N++D++  P  L 
Sbjct: 62  FFSLKELCTEDIKIPIVSKVSAGTGLLVEENIVDYLPIPKELS 104


>gi|237737130|ref|ZP_04567611.1| transcriptional regulator [Fusobacterium mortiferum ATCC 9817]
 gi|229420992|gb|EEO36039.1| transcriptional regulator [Fusobacterium mortiferum ATCC 9817]
          Length = 181

 Score = 44.3 bits (103), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 29/90 (32%), Positives = 51/90 (56%), Gaps = 10/90 (11%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K +   V++N G +I+L+R   GM+QE+LGE L ++ Q + K+E             I +
Sbjct: 11 KLLKGGVNMNFGDKIQLQRKKKGMTQEELGEELNVSRQTITKWE------SNQSFPEIKK 64

Query: 65 VLESPISFFFDVS--PTVCSDISSEENNVM 92
          +++  +S+FFDV+    +  +I  EE NV+
Sbjct: 65 IIK--LSYFFDVTIDYLLKDEIEDEERNVI 92


>gi|114798188|ref|YP_761228.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114738362|gb|ABI76487.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 126

 Score = 44.3 bits (103), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 36/67 (53%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          PN +D  VG  IR  R    ++ + L   +G++ QQ+QKYE   NR+ A  L  ++E L 
Sbjct: 14 PNDLDRIVGSNIRALRQSQNITLQALATEIGVSHQQLQKYETSANRLSAGMLPIVAEALG 73

Query: 68 SPISFFF 74
            +S  +
Sbjct: 74 VEVSDLY 80


>gi|321157314|emb|CBW39296.1| Helix-turn-helix DNA binding protein [Streptococcus pneumoniae]
          Length = 228

 Score = 44.3 bits (103), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 20/81 (24%), Positives = 46/81 (56%), Gaps = 2/81 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L M+Q+ + + LGIT+Q    +E+G+ +    +++ + ++L  P  +F +V
Sbjct: 5  EKLKARRKELKMTQKDIADQLGITYQAYSTWERGIKQPSREKIKLLEQILNVPKGYFTEV 64

Query: 77 SPTVCSDISSEE--NNVMDFI 95
                +  S+E  NN + ++
Sbjct: 65 EIVRLYNTLSDEGKNNALSYV 85


>gi|218690034|ref|YP_002398246.1| putative transcriptional regulator [Escherichia coli ED1a]
 gi|218427598|emb|CAR08499.2| Putative transcriptional regulator [Escherichia coli ED1a]
          Length = 115

 Score = 44.3 bits (103), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R   G+SQ+KLG   GI       ++ +YEKGV+       Q ++E L  P+++
Sbjct: 19 KRLKEARTAAGLSQKKLGIAAGIDEFVASTRINRYEKGVHEADIHTAQKLAETLNVPLAY 78

Query: 73 FF 74
          F+
Sbjct: 79 FY 80


>gi|319939025|ref|ZP_08013389.1| DNA-binding protein [Streptococcus anginosus 1_2_62CV]
 gi|319812075|gb|EFW08341.1| DNA-binding protein [Streptococcus anginosus 1_2_62CV]
          Length = 115

 Score = 44.3 bits (103), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 25/64 (39%), Positives = 35/64 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRIRL R+  GM+QE+L E   +    V K E     V  + L+ + + LE  I  FF
Sbjct: 16 IGKRIRLLRLERGMTQEQLEERADLGTNYVYKLEHLAPNVKINTLERVMQALEVDIETFF 75

Query: 75 DVSP 78
          D+ P
Sbjct: 76 DMVP 79


>gi|296533524|ref|ZP_06896097.1| DNA-binding protein [Roseomonas cervicalis ATCC 49957]
 gi|296266156|gb|EFH12208.1| DNA-binding protein [Roseomonas cervicalis ATCC 49957]
          Length = 208

 Score = 43.9 bits (102), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +G+ +RL R  LG+S ++LG   G++   + + E+G+       L+ +S  L+ PIS
Sbjct: 25 DRRLGECVRLLRQRLGLSIQELGRRTGLSIGMISQLERGLATPSVRTLRLLSLALQVPIS 84

Query: 72 FFFDVSPTVCS 82
          FFF+  P   S
Sbjct: 85 FFFEERPEGAS 95


>gi|268590899|ref|ZP_06125120.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
 gi|291313692|gb|EFE54145.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
          Length = 102

 Score = 43.9 bits (102), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 23/84 (27%), Positives = 46/84 (54%), Gaps = 1/84 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+   VG RI+  R   G++  ++   L ++ QQ  +YE+G+NR+    L  I++ L+  
Sbjct: 6  PIAKIVGSRIKKLRREYGLTGTEVAMALNVSQQQFSRYERGINRIDIDSLVMIADFLKVS 65

Query: 70 ISFFF-DVSPTVCSDISSEENNVM 92
          + +F  D+     +  +SE N+++
Sbjct: 66 VHYFLEDIDLEQSNSWTSEYNSLL 89


>gi|199598451|ref|ZP_03211869.1| Transcriptional regulator, xre family protein [Lactobacillus
           rhamnosus HN001]
 gi|258508930|ref|YP_003171681.1| XRE family transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|199590635|gb|EDY98723.1| Transcriptional regulator, xre family protein [Lactobacillus
           rhamnosus HN001]
 gi|257148857|emb|CAR87830.1| Transcriptional regulator, xre family [Lactobacillus rhamnosus GG]
 gi|259650223|dbj|BAI42385.1| transcriptional regulator [Lactobacillus rhamnosus GG]
          Length = 343

 Score = 43.9 bits (102), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 22/98 (22%), Positives = 50/98 (51%), Gaps = 18/98 (18%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++ + IR +R+  G++QE L + +G+T   V K+EKG++    + L             
Sbjct: 1   MHLNQIIRNKRLAAGLTQEALAQKVGVTAPAVSKWEKGISYPDITLL------------- 47

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
                P +  +++++ N ++DF +  D   L R++ ++
Sbjct: 48  -----PILARNLNTDVNTLLDFSADLDPAALRRFYTKL 80


>gi|212711629|ref|ZP_03319757.1| hypothetical protein PROVALCAL_02704 [Providencia alcalifaciens
          DSM 30120]
 gi|212685731|gb|EEB45259.1| hypothetical protein PROVALCAL_02704 [Providencia alcalifaciens
          DSM 30120]
          Length = 75

 Score = 43.9 bits (102), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 18/64 (28%), Positives = 37/64 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I   R + G++ +KL + +G++ QQ  +YE+GVNR+   RL   +   +  ++   
Sbjct: 11 IGSKIIYYRKMNGVTLQKLADTIGVSKQQQSRYERGVNRINLDRLAQYANYFDIDLNRLL 70

Query: 75 DVSP 78
          D++ 
Sbjct: 71 DIND 74


>gi|325679534|ref|ZP_08159114.1| peptidase S24-like protein [Ruminococcus albus 8]
 gi|324108821|gb|EGC03057.1| peptidase S24-like protein [Ruminococcus albus 8]
          Length = 228

 Score = 43.9 bits (102), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 28/90 (31%), Positives = 48/90 (53%), Gaps = 10/90 (11%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++ +GKRI+ RR  LGM+QE LG  LG     +Q+YE G  +V   +L  I  + +    
Sbjct: 4   NVEIGKRIKKRREELGMTQEALGSPLGFNKSTIQRYEAG--KVAKIKLPIIEAMAQR--- 58

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGL 101
              +VSP     ++ + +++ ++   PD L
Sbjct: 59  --LNVSPEW---LALKSDDMGEYHGAPDSL 83


>gi|260589352|ref|ZP_05855265.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
           hansenii DSM 20583]
 gi|260540433|gb|EEX21002.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
           hansenii DSM 20583]
          Length = 203

 Score = 43.9 bits (102), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 29/104 (27%), Positives = 54/104 (51%), Gaps = 9/104 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ N+K+ N     +G RIR  R   G++Q +L   LG + + +QKYE G   V  + L 
Sbjct: 1   MMSNEKLHNN---QIGLRIRTARKEKGINQTELANLLGKSLRTIQKYESGEIEVSIAMLN 57

Query: 61  HISEVLESPISFF--FDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            I++VL+   ++   +D       ++S    ++M+F+   D ++
Sbjct: 58  EIAKVLDCESTYLIGYDAERKPLENLS----DIMNFLFQLDKIK 97


>gi|297242658|ref|ZP_06926596.1| hypothetical protein GVAMD_0670 [Gardnerella vaginalis AMD]
 gi|296888869|gb|EFH27603.1| hypothetical protein GVAMD_0670 [Gardnerella vaginalis AMD]
          Length = 214

 Score = 43.9 bits (102), Expect = 0.008,   Method: Compositional matrix adjust.
 Identities = 27/94 (28%), Positives = 45/94 (47%), Gaps = 12/94 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G++IR  R+  G++QE+L E L ++   V K+E          L+ I+  L   + +
Sbjct: 5   ISLGEKIRKARLEAGLTQEELSELLMVSRAAVAKWETNRGLPDIENLKFIASALSVSVDY 64

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             D            ENN +DF  T   + LN+Y
Sbjct: 65  LLD------------ENNSVDFSITKKPINLNKY 86


>gi|15892419|ref|NP_360133.1| hypothetical protein RC0496 [Rickettsia conorii str. Malish 7]
 gi|15619571|gb|AAL03034.1| unknown [Rickettsia conorii str. Malish 7]
          Length = 161

 Score = 43.9 bits (102), Expect = 0.008,   Method: Compositional matrix adjust.
 Identities = 28/96 (29%), Positives = 53/96 (55%), Gaps = 5/96 (5%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKL--GECLGITFQQVQKYEKGVNRVGASRLQH 61
          N  I +P D    +R++ RR+ +G    K        I+  QV+KYE+G++ +  SRL  
Sbjct: 2  NYSIKHP-DKLASERLKERRLAVGRYYPKRIRASFFDISALQVKKYEEGLSNIPISRLYV 60

Query: 62 ISEVLESPISFFFDVS--PTVCSDISSEENNVMDFI 95
           ++VL +P+ +FF+ S    + +D  +  NN ++++
Sbjct: 61 FAKVLNTPLKYFFNSSEEEKLKADNENTPNNKIEYL 96


>gi|254499432|ref|ZP_05112093.1| transcriptional regulator [Legionella drancourtii LLAP12]
 gi|254351331|gb|EET10205.1| transcriptional regulator [Legionella drancourtii LLAP12]
          Length = 83

 Score = 43.9 bits (102), Expect = 0.008,   Method: Compositional matrix adjust.
 Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 4/68 (5%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVL 66
          +D  V KR++  R+ +G+SQ+KLG   G+       ++  YE G +    S L+ I+EVL
Sbjct: 1  MDSPVPKRLKEARLAMGISQKKLGIAAGMDEFSASARMNHYEIGRHTPDYSTLKRIAEVL 60

Query: 67 ESPISFFF 74
            P +FF+
Sbjct: 61 SVPTAFFY 68


>gi|139438180|ref|ZP_01771733.1| Hypothetical protein COLAER_00721 [Collinsella aerofaciens ATCC
          25986]
 gi|133776377|gb|EBA40197.1| Hypothetical protein COLAER_00721 [Collinsella aerofaciens ATCC
          25986]
          Length = 137

 Score = 43.9 bits (102), Expect = 0.008,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 38/74 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++VG+ IR  R + GM+Q +L E +G+T   V+ YE G+  V    L+ I+  L   ++ 
Sbjct: 1  MSVGENIRRYRKLRGMTQAQLAEAVGLTEGAVRHYESGIRAVKPELLESIAAALGVSVNA 60

Query: 73 FFDVSPTVCSDISS 86
            D       D+ S
Sbjct: 61 LKDYGVETAGDLMS 74


>gi|322388880|ref|ZP_08062472.1| hypothetical transcriptional regulator [Streptococcus infantis
          ATCC 700779]
 gi|321140263|gb|EFX35776.1| hypothetical transcriptional regulator [Streptococcus infantis
          ATCC 700779]
          Length = 228

 Score = 43.5 bits (101), Expect = 0.009,   Method: Compositional matrix adjust.
 Identities = 17/57 (29%), Positives = 36/57 (63%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  L ++Q+++ E LGI+FQ    +E+GV      +++ + E+L+ P  +F
Sbjct: 5  EKLKARRKELKLTQKEIAEQLGISFQAYSAWERGVKEPSKEKVKQLEEILKVPKGYF 61


>gi|317057326|ref|YP_004105793.1| helix-turn-helix domain-containing protein [Ruminococcus albus 7]
 gi|315449595|gb|ADU23159.1| helix-turn-helix domain protein [Ruminococcus albus 7]
          Length = 117

 Score = 43.5 bits (101), Expect = 0.009,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 34/60 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+RIR RR+ LG+SQE+L E  GIT   V   E+   ++  +    IS VLE  + +  
Sbjct: 13 VGERIRSRRVKLGLSQEQLAELCGITPSYVGHIERASRQLSLNTAISISTVLEISLDYLL 72


>gi|217967072|ref|YP_002352578.1| XRE family transcriptional regulator [Dictyoglomus turgidum DSM
           6724]
 gi|217336171|gb|ACK41964.1| transcriptional regulator, XRE family [Dictyoglomus turgidum DSM
           6724]
          Length = 105

 Score = 43.5 bits (101), Expect = 0.009,   Method: Compositional matrix adjust.
 Identities = 34/116 (29%), Positives = 53/116 (45%), Gaps = 23/116 (19%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +NVGKRIR  R    M  E L E  G++   +   E+G+       L+ I++ L  P S+
Sbjct: 1   MNVGKRIREIRKKHNMKLEDLAEKTGLSLSYISLIERGLKNPSLKALERIAQALNLPTSY 60

Query: 73  FFDVSPTVCSDISSEENN--VMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           FF           SE+N+  +  F+ T   L          D   R+ II+L++S+
Sbjct: 61  FF-----------SEDNDETIETFLRTKTSL----------DEDERRMIIQLIKSL 95


>gi|296268292|ref|YP_003650924.1| helix-turn-helix domain-containing protein [Thermobispora bispora
          DSM 43833]
 gi|296091079|gb|ADG87031.1| helix-turn-helix domain protein [Thermobispora bispora DSM 43833]
          Length = 370

 Score = 43.5 bits (101), Expect = 0.009,   Method: Compositional matrix adjust.
 Identities = 21/68 (30%), Positives = 37/68 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+R  R+  G+SQ +L + + +    + K E G  R+ A  L  +++ L+ PI  F 
Sbjct: 15 IGERVRQARLAKGLSQLQLAQKVDLDRTMITKIEAGSRRLDALELARLAQALDVPIGHFL 74

Query: 75 DVSPTVCS 82
            +P V S
Sbjct: 75 HPAPEVLS 82


>gi|304403726|ref|ZP_07385388.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
 gi|304346704|gb|EFM12536.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
          Length = 116

 Score = 43.5 bits (101), Expect = 0.009,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 41/85 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG RIR  R   G++Q++L E     +  +   E+G   V    L  I++ L+  +S FF
Sbjct: 8  VGARIREIRKSKGLTQDQLAEISQFHYSYIGGVERGERNVSLENLAKIADALQVKLSLFF 67

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
          D      S + SE + ++  +S  D
Sbjct: 68 DYEEPKSSAVDSELDEIIYLLSKRD 92


>gi|228969787|ref|ZP_04130551.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228789939|gb|EEM37757.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          sotto str. T04001]
          Length = 184

 Score = 43.5 bits (101), Expect = 0.009,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 41/77 (53%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +INVG++I+  R   G++ ++L E   IT   + + EKG+       L+ IS  L+ PI 
Sbjct: 3  NINVGQKIKAFRKAAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALKIPIF 62

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        DI++EE
Sbjct: 63 NFF------LEDINTEE 73


>gi|238797081|ref|ZP_04640584.1| hypothetical protein ymoll0001_2450 [Yersinia mollaretii ATCC
          43969]
 gi|238719126|gb|EEQ10939.1| hypothetical protein ymoll0001_2450 [Yersinia mollaretii ATCC
          43969]
          Length = 109

 Score = 43.5 bits (101), Expect = 0.009,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 37/62 (59%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R++ G+SQ+ LG   GI       ++ +YEKGV+       +H++E L  P+++
Sbjct: 13 QRLKDARLLRGLSQKGLGIAAGIDEFVASARINRYEKGVHEANLVTAKHLAEALNIPLAY 72

Query: 73 FF 74
          F+
Sbjct: 73 FY 74


>gi|197284203|ref|YP_002150075.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|194681690|emb|CAR40796.1| fimbrial operon regulator [Proteus mirabilis HI4320]
          Length = 94

 Score = 43.5 bits (101), Expect = 0.010,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 37/62 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK IR +R  +G++ E L + L ++ QQV +YE   +++   +L  IS+VL+  I +  
Sbjct: 21 LGKEIRSKRKAIGLTGEDLAKKLNVSQQQVSRYETAESKISFEKLLLISDVLDLNIQYLL 80

Query: 75 DV 76
           V
Sbjct: 81 KV 82


>gi|332653067|ref|ZP_08418812.1| transcriptional regulator [Ruminococcaceae bacterium D16]
 gi|332518213|gb|EGJ47816.1| transcriptional regulator [Ruminococcaceae bacterium D16]
          Length = 285

 Score = 43.5 bits (101), Expect = 0.010,   Method: Compositional matrix adjust.
 Identities = 29/100 (29%), Positives = 47/100 (47%), Gaps = 5/100 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           + + +G+ I+  R  LG+SQEKL E +G++ Q V K+E G       +L  ++ VLE  +
Sbjct: 1   MGMTIGEIIQRERTRLGLSQEKLAEQVGVSRQAVSKWELGDAVPDTDKLVPLARVLEISV 60

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
               D  P    +   E          P  L L+ Y+I +
Sbjct: 61  DTLLDHHPQETEETPKEIEE-----KKPGWLALHWYWIGV 95


>gi|328479204|gb|EGF48603.1| XRE family transcriptional regulator [Lactobacillus rhamnosus MTCC
           5462]
          Length = 298

 Score = 43.5 bits (101), Expect = 0.010,   Method: Compositional matrix adjust.
 Identities = 22/98 (22%), Positives = 50/98 (51%), Gaps = 18/98 (18%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++ + IR +R+  G++QE L + +G+T   V K+EKG++    + L             
Sbjct: 4   MHLNQIIRNKRLAAGLTQEALAQKVGVTAPAVSKWEKGISYPDITLL------------- 50

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
                P +  +++++ N ++DF +  D   L R++ ++
Sbjct: 51  -----PILARNLNTDVNTLLDFSADLDPAALRRFYTKL 83


>gi|253579257|ref|ZP_04856527.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849355|gb|EES77315.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 177

 Score = 43.5 bits (101), Expect = 0.010,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 36/72 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK+IR  R   G SQ +L E  GI    ++KYE G+      +L+ I+  L   +S F 
Sbjct: 2  VGKKIRAFREFRGYSQIQLAELSGINVGTIRKYELGIRNPKPDQLEKIATALGLNVSVFL 61

Query: 75 DVSPTVCSDISS 86
          D +     D+ S
Sbjct: 62 DFNIETVGDVLS 73


>gi|315222885|ref|ZP_07864765.1| helix-turn-helix protein [Streptococcus anginosus F0211]
 gi|315188024|gb|EFU21759.1| helix-turn-helix protein [Streptococcus anginosus F0211]
          Length = 116

 Score = 43.5 bits (101), Expect = 0.010,   Method: Compositional matrix adjust.
 Identities = 25/65 (38%), Positives = 36/65 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRIRL R+  GM+QE+L E   +    V K E     V  + L+ + + LE  I  FF
Sbjct: 16 IGKRIRLLRLERGMTQEQLEERADLGTNYVYKLEHLAPNVKINTLERVMQALEVDIETFF 75

Query: 75 DVSPT 79
          D++ T
Sbjct: 76 DMAVT 80


>gi|327404285|ref|YP_004345123.1| helix-turn-helix domain-containing protein [Fluviicola taffensis
          DSM 16823]
 gi|327319793|gb|AEA44285.1| helix-turn-helix domain protein [Fluviicola taffensis DSM 16823]
          Length = 121

 Score = 43.5 bits (101), Expect = 0.010,   Method: Compositional matrix adjust.
 Identities = 24/67 (35%), Positives = 35/67 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +IR  R + G+SQ+ L   LGI+ Q  QK E GV ++   R   I+  L   + F
Sbjct: 8  LNLGIKIRFFRDMKGLSQQALAMQLGISQQAYQKIESGVTKLDVERANVIANELGVQLDF 67

Query: 73 FFDVSPT 79
              SP 
Sbjct: 68 LISFSPA 74


>gi|167751085|ref|ZP_02423212.1| hypothetical protein EUBSIR_02070 [Eubacterium siraeum DSM 15702]
 gi|167656003|gb|EDS00133.1| hypothetical protein EUBSIR_02070 [Eubacterium siraeum DSM 15702]
          Length = 384

 Score = 43.5 bits (101), Expect = 0.011,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 1/60 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFF 74
          GKR++  R + GMS  +L E L +  Q V  YE G ++     ++Q +S++L  PI FF 
Sbjct: 9  GKRLKTARTLKGMSISELAEALDLQRQTVSMYESGKISNPDFPKVQRMSQLLNFPIDFFL 68


>gi|197286562|ref|YP_002152434.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227357636|ref|ZP_03841989.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|194684049|emb|CAR45374.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227162346|gb|EEI47350.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 105

 Score = 43.1 bits (100), Expect = 0.011,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 37/65 (56%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  +G+RIR  R  L  S +   + LGI+ QQ+ +YE+G NR+    +  I+E  +  
Sbjct: 7  TINFRIGQRIRHLRKNLKYSGKLFAKELGISQQQLSRYERGTNRISIEFVYLITEKFDVH 66

Query: 70 ISFFF 74
          IS+F 
Sbjct: 67 ISYFL 71


>gi|296491938|ref|YP_003662405.1| putative DNA binding protein [Xenorhabdus nematophila ATCC 19061]
 gi|289176825|emb|CBJ92994.1| putative DNA binding protein [Xenorhabdus nematophila ATCC 19061]
          Length = 136

 Score = 43.1 bits (100), Expect = 0.011,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 66/134 (49%), Gaps = 14/134 (10%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGIT-----FQQVQKYEKGVNRVGASRL 59
           K I   + +N  + I  R+   G+SQ +LGE LGIT      Q + KYE+GV       +
Sbjct: 8   KTIQKNIYMNANRLIEARKF-RGLSQRELGEALGITDSETAGQHISKYERGVRLPPYKTV 66

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ--IDDVKVRQ 117
           + I+++L+ P  +F+        D+S+EE  V  F       +  R FI   I+  +  +
Sbjct: 67  REIAKILDMPPCYFY----IDDDDLSAEE--VQIFYEKCLSHKSERRFISDLIEKNQEYE 120

Query: 118 KIIELVRSIVSSEK 131
           K+I  ++  V+S K
Sbjct: 121 KVINSIKKTVNSVK 134


>gi|260463673|ref|ZP_05811871.1| transcriptional regulator, XRE family [Mesorhizobium
          opportunistum WSM2075]
 gi|319785160|ref|YP_004144636.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
          biserrulae WSM1271]
 gi|259030527|gb|EEW31805.1| transcriptional regulator, XRE family [Mesorhizobium
          opportunistum WSM2075]
 gi|317171048|gb|ADV14586.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
          biserrulae WSM1271]
          Length = 124

 Score = 43.1 bits (100), Expect = 0.011,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 37/66 (56%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          PNP  + +GKR++  R  +G++QE+    L +    + + E G   VGA  ++ ++ + E
Sbjct: 11 PNPEAVRLGKRLKDAREYVGITQEEAANHLKVRRSAISEMEAGKRGVGALEMKSLAVLYE 70

Query: 68 SPISFF 73
           P S+F
Sbjct: 71 RPTSWF 76


>gi|206559569|ref|YP_002230330.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
 gi|198035607|emb|CAR51494.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
          Length = 122

 Score = 43.1 bits (100), Expect = 0.011,   Method: Compositional matrix adjust.
 Identities = 28/108 (25%), Positives = 52/108 (48%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VGK I  +R+  G++QEK+ E LGI  + V + E+G       RL  ++++     + 
Sbjct: 11  VAVGKAIAKQRIASGLTQEKVAERLGIGLEAVSRMERGTVIPTVVRLFELADIFACDAAD 70

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
               +    SD +S  N ++  +ST D   L   F ++     R++ +
Sbjct: 71  LLTEASNRSSDQASHLNRLLSRLSTSDRAMLLEVFERLSTRLTRRETV 118


>gi|291288131|ref|YP_003504947.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
 gi|290885291|gb|ADD68991.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
          Length = 141

 Score = 43.1 bits (100), Expect = 0.012,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 38/66 (57%), Gaps = 1/66 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R  LG+SQ +LG+ L +  Q +  YEKG + + AS+L  IS      I +
Sbjct: 23 MNIGIKIKELRAELGISQNELGQLLNVKQQVISYYEKG-DDIDASKLATISSEYNIDIRY 81

Query: 73 FFDVSP 78
          FF   P
Sbjct: 82 FFSDKP 87


>gi|300718505|ref|YP_003743308.1| XRE family transcriptional regulator [Erwinia billingiae Eb661]
 gi|299064341|emb|CAX61461.1| XRE family transcriptional regulator [Erwinia billingiae Eb661]
          Length = 95

 Score = 43.1 bits (100), Expect = 0.012,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+  G SQ+ LG   GI       ++ +YEKG++      +Q ++E LE P+++
Sbjct: 13 KRLKQARLAKGFSQKSLGIAAGIDEFVASTRINRYEKGIHEADLDTVQRLAEALEVPVAY 72

Query: 73 FF 74
           F
Sbjct: 73 LF 74


>gi|160943854|ref|ZP_02091085.1| hypothetical protein FAEPRAM212_01353 [Faecalibacterium
          prausnitzii M21/2]
 gi|158445028|gb|EDP22031.1| hypothetical protein FAEPRAM212_01353 [Faecalibacterium
          prausnitzii M21/2]
 gi|295103055|emb|CBL00599.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Faecalibacterium prausnitzii SL3/3]
          Length = 206

 Score = 43.1 bits (100), Expect = 0.012,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 42/70 (60%), Gaps = 2/70 (2%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLE-SPIS 71
          ++  R+RLRR  LG+SQE+L   +G  +   + K EKG+N +  S+++ +++ LE +P +
Sbjct: 3  DLSTRVRLRREQLGLSQEELARRMGYRSRSSITKLEKGINDLPQSKVEELAQALETTPAA 62

Query: 72 FFFDVSPTVC 81
               +P  C
Sbjct: 63 LLGLDAPCAC 72


>gi|268590938|ref|ZP_06125159.1| DNA-binding protein [Providencia rettgeri DSM 1131]
 gi|291313738|gb|EFE54191.1| DNA-binding protein [Providencia rettgeri DSM 1131]
          Length = 78

 Score = 43.1 bits (100), Expect = 0.012,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 36/62 (58%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-ISFF 73
          VG+ IR RR  LG+S  +L   +G++ QQ+ +YE+G   +    L  ++  L++  I FF
Sbjct: 8  VGREIRKRRKHLGLSGIELANLVGVSQQQISRYERGECNINIENLHTLANALDTEMICFF 67

Query: 74 FD 75
           D
Sbjct: 68 ID 69


>gi|291525583|emb|CBK91170.1| Predicted transcriptional regulators [Eubacterium rectale DSM
          17629]
 gi|291528262|emb|CBK93848.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
          Length = 167

 Score = 43.1 bits (100), Expect = 0.012,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 38/73 (52%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G +I+  R +  M+Q++L +  GI    ++KYE G       +LQ I+E L   ++ F
Sbjct: 6  SIGSKIQKYRKLKDMTQDELSKQSGIYLSTIKKYESGERNPKPDQLQKIAEALGISVTVF 65

Query: 74 FDVSPTVCSDISS 86
           D      SD+ S
Sbjct: 66 LDYDINTVSDVLS 78


>gi|321272295|gb|ADW80180.1| putative transcriptional regulator [Wolbachia endosymbiont wVitA of
           Nasonia vitripennis phage WOVitA1]
          Length = 306

 Score = 43.1 bits (100), Expect = 0.013,   Method: Compositional matrix adjust.
 Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 3/69 (4%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           PV   VG+RI+  R+I G +Q+ L   +GIT Q + +YE+G + V    L  I++VL   
Sbjct: 158 PVPYKVGQRIKEWRLIRGYTQKDLANKVGITNQGIYEYEQGRSAVSLEMLDEIAKVLSIS 217

Query: 70  ISFFFDVSP 78
           I    D+ P
Sbjct: 218 I---IDLLP 223



 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 20/77 (25%), Positives = 40/77 (51%), Gaps = 6/77 (7%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   +D  VG++++  R+  G +Q+ L E +G+ +  + +YEKG  ++   +L  I+E L
Sbjct: 5  MEKSLDYEVGQKVKNWRLERGYTQKDLAEKVGVKYWAILQYEKGNRKIPIKKLYAIAEAL 64

Query: 67 ESPISFFFDVSPTVCSD 83
                  +V   VC +
Sbjct: 65 S------VNVKGLVCGE 75


>gi|321272347|gb|ADW80228.1| putative transcriptional regulator [Wolbachia endosymbiont wVitB of
           Nasonia vitripennis phage WOVitB]
          Length = 306

 Score = 43.1 bits (100), Expect = 0.013,   Method: Compositional matrix adjust.
 Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 3/69 (4%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           PV   VG+RI+  R+I G +Q+ L   +GIT Q + +YE+G + V    L  I++VL   
Sbjct: 158 PVPYKVGQRIKEWRLIRGYTQKDLANKVGITNQGIYEYEQGRSAVSLEMLDEIAKVLSIS 217

Query: 70  ISFFFDVSP 78
           I    D+ P
Sbjct: 218 I---IDLLP 223



 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 19/77 (24%), Positives = 38/77 (49%), Gaps = 6/77 (7%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   +D  VG++++  R+  G +Q+ L E +G+ +  +  YE G  ++   +L  I+E L
Sbjct: 5  MEKSLDYEVGQKVKNWRLERGYTQKDLAEKVGVKYWAILXYEXGNRKIPIKKLYAIAEAL 64

Query: 67 ESPISFFFDVSPTVCSD 83
                  +V   VC +
Sbjct: 65 S------VNVKGLVCGE 75


>gi|291456538|ref|ZP_06595928.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bifidobacterium breve DSM 20213]
 gi|291381815|gb|EFE89333.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bifidobacterium breve DSM 20213]
          Length = 137

 Score = 43.1 bits (100), Expect = 0.013,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 39/74 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++VG+ IR  R + GM+Q +L E +G+T   V+ YE G+  V    L+ I++ L   ++ 
Sbjct: 1  MSVGENIRRYRKLRGMTQAQLAEAVGLTEGAVRHYESGIRAVKPELLESIADTLGVSVNA 60

Query: 73 FFDVSPTVCSDISS 86
            D       D+ S
Sbjct: 61 LKDYGVENAGDLMS 74


>gi|227357914|ref|ZP_03842260.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|227161887|gb|EEI46911.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 94

 Score = 43.1 bits (100), Expect = 0.013,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 37/62 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK IR +R  +G++ E L + L ++ QQV +YE   +++   +L  IS+VL+  I +  
Sbjct: 21 LGKEIRSKRKAIGLTGEDLAKKLNVSQQQVSRYETAESKISFEKLLLISDVLDLNIQYLL 80

Query: 75 DV 76
           V
Sbjct: 81 KV 82


>gi|295107669|emb|CBL05212.1| Predicted transcriptional regulators [Gordonibacter pamelaeae
           7-10-1-b]
          Length = 137

 Score = 43.1 bits (100), Expect = 0.013,   Method: Compositional matrix adjust.
 Identities = 29/97 (29%), Positives = 47/97 (48%), Gaps = 5/97 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG+ IR  R   GM+Q +L E +G+T   V+ YE G+  V    L+ I++ L   ++ 
Sbjct: 1   MSVGENIRRYRKSRGMTQAQLAEAVGLTEGAVRHYESGIRTVKPELLESIADTLGVSVNA 60

Query: 73  FFDVSPTVCSDISS-----EENNVMDFISTPDGLQLN 104
             D       D+ S     E++  +   S   GL LN
Sbjct: 61  LKDYGVETAGDLMSLLVRLEDSFGIAPASDGSGLTLN 97


>gi|188585017|ref|YP_001916562.1| transcriptional regulator, XRE family [Natranaerobius
          thermophilus JW/NM-WN-LF]
 gi|179349704|gb|ACB83974.1| transcriptional regulator, XRE family [Natranaerobius
          thermophilus JW/NM-WN-LF]
          Length = 120

 Score = 43.1 bits (100), Expect = 0.013,   Method: Compositional matrix adjust.
 Identities = 24/63 (38%), Positives = 36/63 (57%), Gaps = 1/63 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFF 73
          +G RIR  R  L +S++KLG  +G+T   + + E+G      + L  IS+VL+  I SF 
Sbjct: 10 IGDRIREERERLDLSRKKLGRLIGVTEHHIGQLERGERNTSLTTLAKISQVLKVSIDSFV 69

Query: 74 FDV 76
          FD 
Sbjct: 70 FDT 72


>gi|323357780|ref|YP_004224176.1| transcriptional regulator [Microbacterium testaceum StLB037]
 gi|323274151|dbj|BAJ74296.1| predicted transcriptional regulator [Microbacterium testaceum
          StLB037]
          Length = 211

 Score = 43.1 bits (100), Expect = 0.014,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 33/62 (53%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG RIR  R   G+S   L   LGI+   V + E+GV +   SRL  I++ L  P+   
Sbjct: 26 SVGARIRDLRQARGISARALAATLGISPSAVSQIERGVMQPSVSRLIAITDALGVPLVAA 85

Query: 74 FD 75
          FD
Sbjct: 86 FD 87


>gi|325263078|ref|ZP_08129813.1| DNA-binding protein [Clostridium sp. D5]
 gi|324031471|gb|EGB92751.1| DNA-binding protein [Clostridium sp. D5]
          Length = 207

 Score = 43.1 bits (100), Expect = 0.014,   Method: Compositional matrix adjust.
 Identities = 34/131 (25%), Positives = 64/131 (48%), Gaps = 21/131 (16%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I++ R + G++Q++L E +GI  Q + K E+G+N      LQ ++E+L        
Sbjct: 11  LGHNIQVIRKLKGLTQQELSEQIGINLQSLSKIERGINYPTFDTLQKLAEIL-------- 62

Query: 75  DVSPT--VCSDISSE---ENNVMDFISTPDGLQLNRYFIQID-----DVKVR---QKIIE 121
           DV+P   +  ++ S    E N++ F+   + L +     Q D     D  +    QK+ E
Sbjct: 63  DVTPNELLAGELKSTSHIEANILKFLEHEERLNVELAHGQYDNPLDADEWIEYELQKLRE 122

Query: 122 LVRSIVSSEKK 132
            +   + S+K+
Sbjct: 123 YITDYIHSDKR 133


>gi|295107448|emb|CBL04991.1| Helix-turn-helix. [Gordonibacter pamelaeae 7-10-1-b]
          Length = 137

 Score = 43.1 bits (100), Expect = 0.014,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 37/74 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++VG+ IR  R   GM+Q +L E +G+T   V+ YE G+  V    L+ IS  L   ++ 
Sbjct: 1  MSVGENIRRYRKSRGMTQAQLAEAVGLTEGAVRHYESGIRAVKPELLESISAALGVSVNA 60

Query: 73 FFDVSPTVCSDISS 86
            D       D+ S
Sbjct: 61 LKDYGVETAGDLMS 74


>gi|190570724|ref|YP_001975082.1| Putative transcriptional regulator [Wolbachia endosymbiont of
          Culex quinquefasciatus Pel]
 gi|213019732|ref|ZP_03335537.1| putative transcriptional regulator [Wolbachia endosymbiont of
          Culex quinquefasciatus JHB]
 gi|190356996|emb|CAQ54385.1| Putative transcriptional regulator [Wolbachia endosymbiont of
          Culex quinquefasciatus Pel]
 gi|212994773|gb|EEB55416.1| putative transcriptional regulator [Wolbachia endosymbiont of
          Culex quinquefasciatus JHB]
          Length = 306

 Score = 43.1 bits (100), Expect = 0.014,   Method: Compositional matrix adjust.
 Identities = 27/96 (28%), Positives = 48/96 (50%), Gaps = 2/96 (2%)

Query: 1  MVGNKKIPNPVDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M    K  N +D  V G+ +R RR+  G +Q+ L + +  T+Q + +YEKG  R+   +L
Sbjct: 1  MKKENKCSNFLDYKVIGQEVRNRRLAKGYTQKDLAKKIDTTYQVILQYEKGTRRISIKKL 60

Query: 60 QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFI 95
            ++E L S  +        V ++   EE  V++ +
Sbjct: 61 YELAEAL-STTARDLACVQGVSNEKRYEEEEVLNLV 95



 Score = 38.9 bits (89), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 36/62 (58%), Gaps = 2/62 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KKI  P    VG+RI+  R+  G +QE L   +GI  Q++ +YE+G + V    L  I++
Sbjct: 159 KKISIPY--KVGQRIKEWRLRRGYTQEDLASKVGIINQRIYEYEQGRSAVSLEMLDEIAK 216

Query: 65  VL 66
           VL
Sbjct: 217 VL 218


>gi|219871965|ref|YP_002476340.1| transcriptional regulator [Haemophilus parasuis SH0165]
 gi|219692169|gb|ACL33392.1| transcriptional regulator [Haemophilus parasuis SH0165]
          Length = 130

 Score = 42.7 bits (99), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 34/121 (28%), Positives = 58/121 (47%), Gaps = 5/121 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+  +IRL R    +SQE++   L ++ +   K E+G  RV   RL+ I  VL + I  
Sbjct: 1   MNINDKIRLFREDHQLSQEEMATKLSMSTKGYAKIERGETRVNFERLEQILGVLNADIYE 60

Query: 73  FFDVSPTVCSDISSEENNVMD----FISTPDGLQLNRYFIQIDD-VKVRQKIIELVRSIV 127
                      IS+  NN       F+ + D  +LN      D+ +K++  +IE +R+ +
Sbjct: 61  LLTYGENKGITISTGNNNTNASSNIFLGSDDVEKLNLMLAHKDEIIKLKDDVIESLRNEI 120

Query: 128 S 128
           S
Sbjct: 121 S 121


>gi|213019778|ref|ZP_03335581.1| putative transcriptional regulator [Wolbachia endosymbiont of
          Culex quinquefasciatus JHB]
 gi|212994608|gb|EEB55253.1| putative transcriptional regulator [Wolbachia endosymbiont of
          Culex quinquefasciatus JHB]
          Length = 306

 Score = 42.7 bits (99), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 35/55 (63%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VG+++R  R+  G +Q+ L + +G T+Q + +YEKG  R+  ++L  ++E L + 
Sbjct: 16 VGQKVRSCRIAKGYTQKDLAKKIGTTYQVILQYEKGTRRISITKLYELAEALSTT 70



 Score = 38.1 bits (87), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 35/62 (56%), Gaps = 2/62 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KKI  P    VG+RI+  R+  G +QE L   +GI  Q++ +YE+G   V    L  I++
Sbjct: 159 KKISIPY--KVGQRIKEWRLRRGYTQEDLASKVGIINQRIYEYEQGRAAVSLEMLNEIAK 216

Query: 65  VL 66
           VL
Sbjct: 217 VL 218


>gi|218135227|ref|ZP_03464031.1| hypothetical protein BACPEC_03132 [Bacteroides pectinophilus ATCC
          43243]
 gi|217990612|gb|EEC56623.1| hypothetical protein BACPEC_03132 [Bacteroides pectinophilus ATCC
          43243]
          Length = 167

 Score = 42.7 bits (99), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 38/73 (52%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G +I+  R +  M+Q++L +  GI    ++KYE G       +LQ I+E L   ++ F
Sbjct: 6  SIGSKIQKYRKLKDMTQDELSKQSGIYLSTIKKYESGERNPKPDQLQKIAEALGISVTVF 65

Query: 74 FDVSPTVCSDISS 86
           D      SD+ S
Sbjct: 66 LDYDINTISDVLS 78


>gi|197285329|ref|YP_002151201.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|194682816|emb|CAR43084.1| fimbrial operon regulator [Proteus mirabilis HI4320]
          Length = 111

 Score = 42.7 bits (99), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 36/61 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  + L R    M+  +LG+ L I+ QQ+ +YE+G+N++    L HI  + +  IS FF
Sbjct: 23 IGYELFLLRQRNSMTGAELGKLLNISQQQISRYERGINKIPIDILFHILNIFDISISDFF 82

Query: 75 D 75
          +
Sbjct: 83 E 83


>gi|240949459|ref|ZP_04753799.1| transcriptional regulator [Actinobacillus minor NM305]
 gi|240296032|gb|EER46693.1| transcriptional regulator [Actinobacillus minor NM305]
          Length = 130

 Score = 42.7 bits (99), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 34/121 (28%), Positives = 58/121 (47%), Gaps = 5/121 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+  +IRL R    +SQE++   L ++ +   K E+G  RV   RL+ I  VL + I  
Sbjct: 1   MNINDKIRLFREDHQLSQEEMATKLSMSTKGYAKIERGETRVNFERLEQILGVLNADIYE 60

Query: 73  FFDVSPTVCSDISSEENNVMD----FISTPDGLQLNRYFIQIDD-VKVRQKIIELVRSIV 127
                      IS+  NN       F+ + D  +LN      D+ +K++  +IE +R+ +
Sbjct: 61  LLTYGENKGITISTGNNNTNASSNIFLGSDDVEKLNLMLAHKDEIIKLKDDVIESLRNEI 120

Query: 128 S 128
           S
Sbjct: 121 S 121


>gi|315644486|ref|ZP_07897618.1| transcriptional regulator, XRE family protein [Paenibacillus
          vortex V453]
 gi|315279993|gb|EFU43290.1| transcriptional regulator, XRE family protein [Paenibacillus
          vortex V453]
          Length = 272

 Score = 42.7 bits (99), Expect = 0.016,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 39/81 (48%), Gaps = 1/81 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K I   R   G++QE L   LG+TFQ V K+E G      + L  +S++LE  +   F
Sbjct: 5  LAKNINRYRKERGLTQEALAHKLGVTFQAVSKWETGQTMPDVALLPELSQLLEVSMDKLF 64

Query: 75 DVSPTVCS-DISSEENNVMDF 94
            S T  S  I  EE    D+
Sbjct: 65 GYSSTGKSLSIYEEEYKTPDY 85


>gi|300722701|ref|YP_003711991.1| putative DNA binding protein [Xenorhabdus nematophila ATCC 19061]
 gi|297629208|emb|CBJ89805.1| putative DNA binding protein [Xenorhabdus nematophila ATCC 19061]
          Length = 123

 Score = 42.7 bits (99), Expect = 0.016,   Method: Compositional matrix adjust.
 Identities = 23/63 (36%), Positives = 36/63 (57%), Gaps = 5/63 (7%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQK-----YEKGVNRVGASRLQHISEVLESPIS 71
          KR+   R  LG+SQ +LGE LG+  + V K     YE+G+N    S +  I+ +L+ P  
Sbjct: 4  KRLSESRKALGLSQRELGEKLGLYDEDVAKATISRYERGLNAPAYSTVCQIANILKVPPC 63

Query: 72 FFF 74
          +F+
Sbjct: 64 YFY 66


>gi|330467327|ref|YP_004405070.1| helix-turn-helix domain-containing protein [Verrucosispora maris
          AB-18-032]
 gi|328810298|gb|AEB44470.1| helix-turn-helix domain-containing protein [Verrucosispora maris
          AB-18-032]
          Length = 363

 Score = 42.7 bits (99), Expect = 0.016,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 36/68 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+++R  R+ LG+SQ+ L   +G+    + K E G  R+ A  L  +S  L+  + +  
Sbjct: 10 VGEQVRQARLSLGISQQDLATMVGLDRTMLAKVEAGSRRLDALELAKLSRALKVSMEYLI 69

Query: 75 DVSPTVCS 82
             PTV S
Sbjct: 70 QPPPTVLS 77


>gi|153810274|ref|ZP_01962942.1| hypothetical protein RUMOBE_00655 [Ruminococcus obeum ATCC 29174]
 gi|149833453|gb|EDM88534.1| hypothetical protein RUMOBE_00655 [Ruminococcus obeum ATCC 29174]
          Length = 124

 Score = 42.7 bits (99), Expect = 0.016,   Method: Compositional matrix adjust.
 Identities = 27/90 (30%), Positives = 46/90 (51%), Gaps = 1/90 (1%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D+ + ++IR  R   G+SQE L E  GI    ++KYE G+ +    +L+ I++ LE  + 
Sbjct: 26  DMEINEKIRYFRKQRGLSQELLAERTGINVNTIRKYEIGIRKPKVEQLKKIADGLEISVI 85

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGL 101
            F D+     +D+ +    +  F    DGL
Sbjct: 86  EFLDIEIENEADLIAMLKKISPFFKW-DGL 114


>gi|85058755|ref|YP_454457.1| hypothetical protein SG0777 [Sodalis glossinidius str.
          'morsitans']
 gi|84779275|dbj|BAE74052.1| conserved hypothetical protein [Sodalis glossinidius str.
          'morsitans']
          Length = 108

 Score = 42.7 bits (99), Expect = 0.016,   Method: Compositional matrix adjust.
 Identities = 22/71 (30%), Positives = 41/71 (57%), Gaps = 5/71 (7%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHIS 63
          P+ +D+   +R++  R   G+SQ++LG   GI       ++ +YEKGV+       QH++
Sbjct: 5  PSYLDV-FCRRLKQARQAKGLSQKQLGIAAGIDEFVASTRINRYEKGVHEANIQIAQHLA 63

Query: 64 EVLESPISFFF 74
           VLE P+++ +
Sbjct: 64 TVLEVPLAYLY 74


>gi|228953531|ref|ZP_04115575.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|229079669|ref|ZP_04212202.1| Transcriptional regulator, MerR [Bacillus cereus Rock4-2]
 gi|228703509|gb|EEL55962.1| Transcriptional regulator, MerR [Bacillus cereus Rock4-2]
 gi|228806155|gb|EEM52730.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
          Length = 184

 Score = 42.7 bits (99), Expect = 0.017,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 38/77 (49%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DINVG +IR  R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  DINVGHKIRAFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D ++EE
Sbjct: 63 NFF------LEDTNTEE 73


>gi|213019781|ref|ZP_03335584.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Culex quinquefasciatus JHB]
 gi|212994611|gb|EEB55256.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Culex quinquefasciatus JHB]
          Length = 302

 Score = 42.7 bits (99), Expect = 0.018,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 35/61 (57%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P+   VG+RI+  R+I G +Q+ L   +GIT Q + +YE+G   V    L  I++VL   
Sbjct: 154 PIPYKVGQRIKEWRLIRGYTQKDLANKVGITNQGIYEYEQGRAAVSLEMLHEIAKVLSIS 213

Query: 70  I 70
           I
Sbjct: 214 I 214



 Score = 39.7 bits (91), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 20/77 (25%), Positives = 40/77 (51%), Gaps = 6/77 (7%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   +D  VG++++  R+  G +Q+ L E +G+ +  + +YEKG  ++   +L  I+E L
Sbjct: 1  MEKSLDCEVGQKVKSWRLERGYTQKDLAEKVGVKYWAILQYEKGSRKIPIKKLYAIAEAL 60

Query: 67 ESPISFFFDVSPTVCSD 83
                  +V   VC +
Sbjct: 61 S------VNVKGLVCGE 71


>gi|197286055|ref|YP_002151927.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|194683542|emb|CAR44394.1| fimbrial operon regulator [Proteus mirabilis HI4320]
          Length = 97

 Score = 42.7 bits (99), Expect = 0.018,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 44/83 (53%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P    VGK+I   R + G++  +L + +GI+ QQ  +YE+G+NRV   RL   +      
Sbjct: 6  PASKMVGKKIAYYRRVNGLTLSELAKKIGISQQQQSRYERGINRVSLDRLYQYACFFGIS 65

Query: 70 ISFFFDVSPTVCSDISSEENNVM 92
          +S  F +      +I ++ +N++
Sbjct: 66 LSDLFQLDDEDKVEIENKISNII 88


>gi|88858936|ref|ZP_01133577.1| Transcriptional regulator [Pseudoalteromonas tunicata D2]
 gi|88819162|gb|EAR28976.1| Transcriptional regulator [Pseudoalteromonas tunicata D2]
          Length = 119

 Score = 42.7 bits (99), Expect = 0.018,   Method: Compositional matrix adjust.
 Identities = 16/57 (28%), Positives = 33/57 (57%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++R  R+   +SQ+ L + L I+ Q +Q +E+G N    +R+  ++E+L  P+ +  
Sbjct: 11 KLRKARLEKDLSQQNLADHLKISVQSIQHWERGANTPKLARMNQLAEILSVPVEYLM 67


>gi|229513255|ref|ZP_04402720.1| hypothetical protein VCB_000900 [Vibrio cholerae TMA 21]
 gi|229513261|ref|ZP_04402726.1| hypothetical protein VCB_000906 [Vibrio cholerae TMA 21]
 gi|229349665|gb|EEO14620.1| hypothetical protein VCB_000900 [Vibrio cholerae TMA 21]
 gi|229349671|gb|EEO14626.1| hypothetical protein VCB_000906 [Vibrio cholerae TMA 21]
          Length = 171

 Score = 42.7 bits (99), Expect = 0.019,   Method: Compositional matrix adjust.
 Identities = 18/56 (32%), Positives = 38/56 (67%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +++++G+ ++ RR+ LG+ QE + E +G+T Q + K+EK      AS++  +S++L
Sbjct: 4  LNMSIGETLKNRRIELGIKQETIAEEMGVTVQTIYKWEKDTTEPKASQVSKLSKIL 59


>gi|256828945|ref|YP_003157673.1| PAS/PAC sensor hybrid histidine kinase [Desulfomicrobium
          baculatum DSM 4028]
 gi|256578121|gb|ACU89257.1| PAS/PAC sensor hybrid histidine kinase [Desulfomicrobium
          baculatum DSM 4028]
          Length = 1143

 Score = 42.7 bits (99), Expect = 0.019,   Method: Composition-based stats.
 Identities = 27/85 (31%), Positives = 41/85 (48%), Gaps = 5/85 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+RL R +  M+QE L E +G+T Q + + E+G        L   +  L + ++ FF
Sbjct: 6  VGGRLRLYRQLRDMTQESLSEVIGVTKQHLGQIERGQCNPSLDFLSKAAAALNTQVANFF 65

Query: 75 ---DVSPTV--CSDISSEENNVMDF 94
                PTV  CS  S +   +  F
Sbjct: 66 LGNSHDPTVSGCSTCSEDAGRIQPF 90


>gi|321272298|gb|ADW80183.1| putative transcriptional regulator [Wolbachia endosymbiont wVitA
          of Nasonia vitripennis phage WOVitA1]
 gi|321272350|gb|ADW80231.1| putative transcriptional regulator [Wolbachia endosymbiont wVitB
          of Nasonia vitripennis phage WOVitB]
          Length = 312

 Score = 42.4 bits (98), Expect = 0.019,   Method: Compositional matrix adjust.
 Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 1/70 (1%)

Query: 1  MVGNKKIPNPVDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M    K  N +D  V G+ +R RR+  G +Q+ L + +  T+Q + +YEKG  R+   +L
Sbjct: 1  MKKENKCSNFLDYKVIGQEVRNRRLAKGYTQKDLAKKIDTTYQVILQYEKGTRRISIKKL 60

Query: 60 QHISEVLESP 69
            ++E L + 
Sbjct: 61 YELAEALSTT 70



 Score = 40.0 bits (92), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 29/83 (34%), Positives = 44/83 (53%), Gaps = 5/83 (6%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KKI  P    VG+RI+  R+  G +QE L   +GI  Q++ +YE+G   V    L  I++
Sbjct: 162 KKISIPY--KVGQRIKEWRLRRGYTQEDLASKVGIINQRIYEYEQGRAGVSLEMLDEIAK 219

Query: 65  VLESPISFFFDVSPTVCSDISSE 87
           VL   I+   D+ P    + +SE
Sbjct: 220 VLSISIT---DLLPETTENENSE 239


>gi|228960178|ref|ZP_04121835.1| Transcriptional regulator, Cro/CI [Bacillus thuringiensis serovar
           pakistani str. T13001]
 gi|228799446|gb|EEM46406.1| Transcriptional regulator, Cro/CI [Bacillus thuringiensis serovar
           pakistani str. T13001]
          Length = 118

 Score = 42.4 bits (98), Expect = 0.020,   Method: Compositional matrix adjust.
 Identities = 30/119 (25%), Positives = 62/119 (52%), Gaps = 6/119 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI   R    ++QEK+GE +G++ Q + KYEKG        ++ +++    PI + F
Sbjct: 4   IGERIFELRKERKLTQEKIGENIGVSKQTISKYEKGTKIPSRENIEKLADFFNVPIDYLF 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL-VRSIVSSEKK 132
                  SD S + +N +  I   D L  +   +  ++++  + ++E+ ++ ++  EKK
Sbjct: 64  G-----KSDNSIKSSNNIKEIFESDELHWDGRKLSPEEIESVKALLEVAIQRMLKQEKK 117


>gi|50121835|ref|YP_051002.1| putative DNA-binding protein [Pectobacterium atrosepticum
          SCRI1043]
 gi|49612361|emb|CAG75811.1| putative DNA-binding protein [Pectobacterium atrosepticum
          SCRI1043]
          Length = 370

 Score = 42.4 bits (98), Expect = 0.020,   Method: Compositional matrix adjust.
 Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 2/51 (3%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKG--VNRVGASRLQHISEVLESPISFFFD 75
          G++Q  L E  G+T + +  YEK    + + +  ++ IS VLE PI FF D
Sbjct: 15 GLTQRALAEAAGLTSKTISNYEKAGIFDAIASDSMERISAVLEYPIEFFLD 65


>gi|42520374|ref|NP_966289.1| transcriptional regulator, putative [Wolbachia endosymbiont of
          Drosophila melanogaster]
 gi|42410112|gb|AAS14223.1| transcriptional regulator, putative [Wolbachia endosymbiont of
          Drosophila melanogaster]
          Length = 312

 Score = 42.4 bits (98), Expect = 0.020,   Method: Compositional matrix adjust.
 Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 1/70 (1%)

Query: 1  MVGNKKIPNPVDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M    K  N +D  V G+ +R RR+  G +Q+ L + +  T+Q + +YEKG  R+   +L
Sbjct: 1  MKKENKCSNFLDYKVIGQEVRNRRLAKGYTQKDLAKKIDTTYQVILQYEKGTRRISIKKL 60

Query: 60 QHISEVLESP 69
            ++E L + 
Sbjct: 61 YELAEALSTT 70



 Score = 38.1 bits (87), Expect = 0.42,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 35/62 (56%), Gaps = 2/62 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KKI  P    VG+RI+  R+  G +QE L   +GI  Q++ +YE+G   V    L  I++
Sbjct: 162 KKISIPY--KVGQRIKEWRLRRGYTQEDLASKVGIINQRIYEYEQGRAAVSLEMLNEIAK 219

Query: 65  VL 66
           VL
Sbjct: 220 VL 221


>gi|332533845|ref|ZP_08409701.1| regulatory protein Cro [Pseudoalteromonas haloplanktis ANT/505]
 gi|332036776|gb|EGI73239.1| regulatory protein Cro [Pseudoalteromonas haloplanktis ANT/505]
          Length = 206

 Score = 42.4 bits (98), Expect = 0.020,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 44/74 (59%), Gaps = 2/74 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++VG+RI+ RR+ LG++Q  L E  GI  Q +QK E G  +     L+ +++ L+    F
Sbjct: 1  MSVGERIKKRRVELGLTQANLAELAGIIQQSLQKIESGSTK-NPRNLKALADALDCTPEF 59

Query: 73 F-FDVSPTVCSDIS 85
            F ++ ++ S++S
Sbjct: 60 LQFGIAESINSNVS 73


>gi|291540195|emb|CBL13306.1| Predicted transcriptional regulators [Roseburia intestinalis
          XB6B4]
          Length = 107

 Score = 42.4 bits (98), Expect = 0.020,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 38/73 (52%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G +I+  R +  M+Q++L +  GI    ++KYE G       +LQ I+E L   ++ F
Sbjct: 6  SIGSKIQKYRKLKDMTQDELSKQSGIYLSTIKKYESGERNPKPDQLQKIAEALGISVTVF 65

Query: 74 FDVSPTVCSDISS 86
           D      SD+ S
Sbjct: 66 LDYDINTISDVLS 78


>gi|268590993|ref|ZP_06125214.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291313798|gb|EFE54251.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 90

 Score = 42.4 bits (98), Expect = 0.020,   Method: Compositional matrix adjust.
 Identities = 26/81 (32%), Positives = 47/81 (58%), Gaps = 9/81 (11%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+RI  +R  LG +  +L + LG++ QQ+ +YE+G  ++    L  ++ ++ +PI +F 
Sbjct: 14 VGQRILEKRRELGYTGFQLAQLLGVSQQQISRYERGKIKIDLFHLFKLAFLMGTPIDWFL 73

Query: 75 DVSPTVCSDISSE--ENNVMD 93
          +       DISS+  EN  +D
Sbjct: 74 E-------DISSQLSENGRLD 87


>gi|261344499|ref|ZP_05972143.1| prophage Sa05, DNA-binding protein [Providencia rustigianii DSM
          4541]
 gi|282567408|gb|EFB72943.1| prophage Sa05, DNA-binding protein [Providencia rustigianii DSM
          4541]
          Length = 89

 Score = 42.4 bits (98), Expect = 0.021,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 41/83 (49%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   +G +I+L R   G+S   + + +GI+ QQ  +YE+G NR+   RL+  +      
Sbjct: 6  PVSAIIGNKIKLLRKEKGLSLIAVAKGVGISEQQQLRYERGNNRISIDRLKQYANYFNIS 65

Query: 70 ISFFFDVSPTVCSDISSEENNVM 92
          ++ FF  +      I  E N  +
Sbjct: 66 LNQFFSFNENEKEKIKYEVNKTL 88


>gi|213019847|ref|ZP_03335649.1| putative transcriptional regulator [Wolbachia endosymbiont of
          Culex quinquefasciatus JHB]
 gi|212994595|gb|EEB55241.1| putative transcriptional regulator [Wolbachia endosymbiont of
          Culex quinquefasciatus JHB]
          Length = 310

 Score = 42.4 bits (98), Expect = 0.021,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 36/63 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + +++R  R+  G +Q+ L   +G+T+Q V +YEKG  ++   +L  I+E L   I+   
Sbjct: 17 IAQKVRSWRLKRGYTQKDLAGKIGVTYQIVLQYEKGTRKISIEKLYAIAEALSVSIADLI 76

Query: 75 DVS 77
           VS
Sbjct: 77 PVS 79



 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 19/79 (24%), Positives = 41/79 (51%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK+I+  R++ G +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I    
Sbjct: 170 IGKKIKEWRLVRGYTQKDLAEKMSTTRDEISNYEQGRVAIPLEKLYAIAETLSINIMDLL 229

Query: 75  DVSPTVCSDISSEENNVMD 93
           +++      + +E  N+++
Sbjct: 230 ELTEDADDKVENELPNLIE 248


>gi|228966936|ref|ZP_04127974.1| Transcriptional regulator, Cro/CI [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228792670|gb|EEM40234.1| Transcriptional regulator, Cro/CI [Bacillus thuringiensis serovar
          sotto str. T04001]
          Length = 118

 Score = 42.4 bits (98), Expect = 0.022,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 35/63 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R    ++QEK+GE +G++ Q + KYEKG        ++ +++    PI + F
Sbjct: 4  IGERIFELRKERKLTQEKIGENIGVSKQTISKYEKGTKIPSRENIEKLADFFNVPIDYLF 63

Query: 75 DVS 77
            S
Sbjct: 64 GKS 66


>gi|327439445|dbj|BAK15810.1| predicted transcriptional regulator [Solibacillus silvestris
          StLB046]
          Length = 133

 Score = 42.4 bits (98), Expect = 0.022,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 3/69 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R+    SQ  L + +G+T   V +YE+G   + A  L  I++VLE+ +  FF
Sbjct: 10 IGNKIKDYRLKKKYSQADLAKLIGVTNTSVSEYERGKVNIDADTLFQIADVLEAKVDDFF 69

Query: 75 DVSPTVCSD 83
             P   SD
Sbjct: 70 ---PARKSD 75


>gi|238755351|ref|ZP_04616693.1| hypothetical protein yruck0001_7650 [Yersinia ruckeri ATCC 29473]
 gi|238706386|gb|EEP98761.1| hypothetical protein yruck0001_7650 [Yersinia ruckeri ATCC 29473]
          Length = 123

 Score = 42.4 bits (98), Expect = 0.022,   Method: Compositional matrix adjust.
 Identities = 30/117 (25%), Positives = 56/117 (47%), Gaps = 11/117 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITF----QQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V KR++  R   G+SQEKL E +GI       ++  YE G N      +  I++ L+ P 
Sbjct: 2   VPKRLKAAREAAGLSQEKLAELVGIEGVSLNSRLSNYEVGRNTPSFDFIVRIAKALDYPE 61

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
           S+F+    T+  D++     ++ F    +   LN ++   DD +  +  ++  + +V
Sbjct: 62  SYFY----TIDDDVAEA---ILQFHRHKNNAVLNPFYDAQDDARKYKTSLDEAKKMV 111


>gi|314937137|ref|ZP_07844484.1| DNA-binding protein [Staphylococcus hominis subsp. hominis C80]
 gi|313655756|gb|EFS19501.1| DNA-binding protein [Staphylococcus hominis subsp. hominis C80]
          Length = 292

 Score = 42.4 bits (98), Expect = 0.023,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 33/52 (63%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          VGKRI+  R   G++QE  G+  G +   V  +EKG++   ASRL+ I++++
Sbjct: 15 VGKRIKSIRQQKGLTQESFGKLFGASKGNVATWEKGISLPNASRLREIADLV 66


>gi|227356569|ref|ZP_03840956.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|227163325|gb|EEI48252.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 113

 Score = 42.4 bits (98), Expect = 0.023,   Method: Compositional matrix adjust.
 Identities = 27/92 (29%), Positives = 48/92 (52%), Gaps = 1/92 (1%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P    VGK+I   R + G++  +L + +GI+ QQ  +YE+G+NRV   RL   +      
Sbjct: 22  PASKMVGKKIAYYRRVNGLTLSELAKKIGISQQQQSRYERGINRVSLDRLYQYACFFGIS 81

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTP-DG 100
           +S  F +      +I ++ +N++   + P DG
Sbjct: 82  LSDLFQLDDEEKVEIENKISNMVGNKNEPFDG 113


>gi|301066917|ref|YP_003788940.1| XRE family transcriptional regulator [Lactobacillus casei str.
          Zhang]
 gi|300439324|gb|ADK19090.1| Transcriptional regulator, xre family [Lactobacillus casei str.
          Zhang]
          Length = 344

 Score = 42.4 bits (98), Expect = 0.024,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 41/68 (60%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ + IR RR+ LG++QE+L   +G++   V K+EKGV+    + L  ++ +L + ++ 
Sbjct: 1  MHIDQVIRERRLALGLTQEELANKIGVSAPAVSKWEKGVSYPDITLLPALARILGTDVNT 60

Query: 73 FFDVSPTV 80
              S T+
Sbjct: 61 LLTFSVTM 68


>gi|239629798|ref|ZP_04672829.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|239527410|gb|EEQ66411.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
          Length = 344

 Score = 42.4 bits (98), Expect = 0.024,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 41/68 (60%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ + IR RR+ LG++QE+L   +G++   V K+EKGV+    + L  ++ +L + ++ 
Sbjct: 1  MHIDQVIRERRLALGLTQEELANKIGVSAPAVSKWEKGVSYPDITLLPALARILGTDVNT 60

Query: 73 FFDVSPTV 80
              S T+
Sbjct: 61 LLTFSVTM 68


>gi|116495345|ref|YP_807079.1| XRE family transcriptional regulator [Lactobacillus casei ATCC
          334]
 gi|116105495|gb|ABJ70637.1| Transcriptional regulator, xre family [Lactobacillus casei ATCC
          334]
          Length = 344

 Score = 42.4 bits (98), Expect = 0.024,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 41/68 (60%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ + IR RR+ LG++QE+L   +G++   V K+EKGV+    + L  ++ +L + ++ 
Sbjct: 1  MHIDQVIRERRLALGLTQEELANKIGVSAPAVSKWEKGVSYPDITLLPALARILGTDVNT 60

Query: 73 FFDVSPTV 80
              S T+
Sbjct: 61 LLTFSVTM 68


>gi|269122513|ref|YP_003310690.1| XRE family transcriptional regulator [Sebaldella termitidis ATCC
          33386]
 gi|268616391|gb|ACZ10759.1| transcriptional regulator, XRE family [Sebaldella termitidis ATCC
          33386]
          Length = 127

 Score = 42.4 bits (98), Expect = 0.024,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 39/62 (62%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQ-VQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++GKRI+ RR  LG +QE+L E +G   +  + K E G+N +  S++   +++L++  S
Sbjct: 1  MSIGKRIKKRREELGYTQEQLAEKMGYKSKSTINKIEAGINDITQSKITAFAKILKTTPS 60

Query: 72 FF 73
          + 
Sbjct: 61 YL 62


>gi|28871153|ref|NP_793772.1| repressor protein cI [Pseudomonas syringae pv. tomato str.
          DC3000]
 gi|28854403|gb|AAO57467.1| repressor protein cI [Pseudomonas syringae pv. tomato str.
          DC3000]
          Length = 234

 Score = 42.4 bits (98), Expect = 0.024,   Method: Compositional matrix adjust.
 Identities = 23/68 (33%), Positives = 38/68 (55%), Gaps = 3/68 (4%)

Query: 22 RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVC 81
          ++  L ++Q KL E  GIT   V +Y +G+N + A     ++++LE PI  F   SP + 
Sbjct: 26 KKNALKLTQRKLAEAAGITPASVNQYLRGINPLNARFAAVLAKMLEEPIESF---SPRLA 82

Query: 82 SDISSEEN 89
          ++IS   N
Sbjct: 83 TEISEMAN 90


>gi|158318022|ref|YP_001510530.1| helix-turn-helix domain-containing protein [Frankia sp. EAN1pec]
 gi|158113427|gb|ABW15624.1| helix-turn-helix domain protein [Frankia sp. EAN1pec]
          Length = 366

 Score = 42.4 bits (98), Expect = 0.024,   Method: Compositional matrix adjust.
 Identities = 25/64 (39%), Positives = 32/64 (50%), Gaps = 1/64 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           G+RIR  R +LG+SQ  L E  G+    + K E G        L  I+ V  +P S FF
Sbjct: 13 AGERIRAARTLLGLSQGDLAEASGVGQTMISKIESGAKYPSDDLLDTIAAVTGTPRS-FF 71

Query: 75 DVSP 78
          DV P
Sbjct: 72 DVVP 75


>gi|147677060|ref|YP_001211275.1| hypothetical protein PTH_0725 [Pelotomaculum thermopropionicum
          SI]
 gi|146273157|dbj|BAF58906.1| hypothetical protein [Pelotomaculum thermopropionicum SI]
          Length = 355

 Score = 42.4 bits (98), Expect = 0.024,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 36/60 (60%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+R+RL R   G+S  +L   +G++ Q + KYE+G++   +  L  ++E L   + +FF
Sbjct: 2  VGERLRLARRAAGLSLRELANRVGVSPQAISKYERGLDIPSSGVLLRLAEALGVNVEYFF 61


>gi|260427903|ref|ZP_05781882.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
 gi|260422395|gb|EEX15646.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
          Length = 131

 Score = 42.0 bits (97), Expect = 0.025,   Method: Compositional matrix adjust.
 Identities = 23/88 (26%), Positives = 39/88 (44%), Gaps = 11/88 (12%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           P     G RI   R   GM QEKL   LG+  + +Q +E  ++   A+RLQ ++ +L  
Sbjct: 9  GPDAATFGDRIAAAREAAGMGQEKLARRLGVKLKTLQGWENDLSEPRANRLQMLAGLLNV 68

Query: 69 PISFFF-----------DVSPTVCSDIS 85
           + +             D  P + +D++
Sbjct: 69 SMGWLLTGEGEGLSGPGDTEPALPADVN 96


>gi|153954446|ref|YP_001395211.1| transcription regulator [Clostridium kluyveri DSM 555]
 gi|153954541|ref|YP_001395306.1| transcription regulator [Clostridium kluyveri DSM 555]
 gi|146347327|gb|EDK33863.1| Predicted transcriptional regulator with an addtional conserved
          domain [Clostridium kluyveri DSM 555]
 gi|146347399|gb|EDK33935.1| Predicted transcriptional regulator with an addtional conserved
          domain [Clostridium kluyveri DSM 555]
          Length = 381

 Score = 42.0 bits (97), Expect = 0.025,   Method: Compositional matrix adjust.
 Identities = 24/68 (35%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N  DI V  RI+  R   G+S  +L E + +T Q + +YEKG+       L+ +S  L
Sbjct: 2  VKNNFDI-VPARIKEARESRGLSMSELSELIEVTSQAISQYEKGIMNPSVFVLKKMSNAL 60

Query: 67 ESPISFFF 74
            PI FF+
Sbjct: 61 NFPIQFFY 68


>gi|284036062|ref|YP_003385992.1| XRE family transcriptional regulator [Spirosoma linguale DSM 74]
 gi|283815355|gb|ADB37193.1| transcriptional regulator, XRE family [Spirosoma linguale DSM 74]
          Length = 141

 Score = 42.0 bits (97), Expect = 0.025,   Method: Compositional matrix adjust.
 Identities = 32/129 (24%), Positives = 63/129 (48%), Gaps = 10/129 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFF 74
            ++IRL+R+  G+SQE + + L ++       E+G   +  SRL  I+ VL  SP++   
Sbjct: 10  AEKIRLQRLQRGLSQENMADLLNLSTTAYGDIERGKTDLTLSRLSQIANVLAISPLALLT 69

Query: 75  D------VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK---IIELVRS 125
           D      V      +++S E   +  +     L+L++  ++ D  K +      +E++RS
Sbjct: 70  DEAIPAQVVEEKSEEVASHELETLRLVVEKQQLELDKLRLEADYWKRKYDDRIAMEVLRS 129

Query: 126 IVSSEKKYR 134
           +   +K+ R
Sbjct: 130 MGVEQKRER 138


>gi|323140461|ref|ZP_08075389.1| restriction-modification system control element Bcll family
          protein [Phascolarctobacterium sp. YIT 12067]
 gi|322415029|gb|EFY05820.1| restriction-modification system control element Bcll family
          protein [Phascolarctobacterium sp. YIT 12067]
          Length = 104

 Score = 42.0 bits (97), Expect = 0.025,   Method: Compositional matrix adjust.
 Identities = 27/83 (32%), Positives = 46/83 (55%), Gaps = 3/83 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFF 73
          +GKR++++R+   +SQ +L + LG+T   +   E G   +    L  + ++LE PI SFF
Sbjct: 13 IGKRVKMQRISAKVSQTELAKELGVTQTHLSNIENGRAGLTIPNLIKLHQILECPISSFF 72

Query: 74 FDVSPTVCSDISSE--ENNVMDF 94
           D+     +D SS+    NVM+ 
Sbjct: 73 VDIEWEKEADNSSDITLENVMEL 95


>gi|224542166|ref|ZP_03682705.1| hypothetical protein CATMIT_01341 [Catenibacterium mitsuokai DSM
          15897]
 gi|224524934|gb|EEF94039.1| hypothetical protein CATMIT_01341 [Catenibacterium mitsuokai DSM
          15897]
          Length = 121

 Score = 42.0 bits (97), Expect = 0.025,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 43/78 (55%), Gaps = 6/78 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K +++ R   G++QE + E L +  Q + K+EKG++   A  L  ++E+L+       
Sbjct: 2  LSKNLKIFRKRKGLTQENVAEALNVVRQTISKWEKGISVPDADMLIKLAEILD------V 55

Query: 75 DVSPTVCSDISSEENNVM 92
           VS  + SD++ E+N  M
Sbjct: 56 SVSKLIGSDVADEKNEDM 73


>gi|167751674|ref|ZP_02423801.1| hypothetical protein EUBSIR_02680 [Eubacterium siraeum DSM 15702]
 gi|167655482|gb|EDR99611.1| hypothetical protein EUBSIR_02680 [Eubacterium siraeum DSM 15702]
          Length = 271

 Score = 42.0 bits (97), Expect = 0.026,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 34/58 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +N+G  I  +R  LG++Q+ L E L ++FQ + K+E G +      L  I+ +L++ I
Sbjct: 1  MNIGNVISEKRKALGLTQQALAEKLHVSFQAISKWENGTSCPDIELLPQIAAILKTTI 58


>gi|219855036|ref|YP_002472158.1| hypothetical protein CKR_1693 [Clostridium kluyveri NBRC 12016]
 gi|219568760|dbj|BAH06744.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 384

 Score = 42.0 bits (97), Expect = 0.026,   Method: Compositional matrix adjust.
 Identities = 24/68 (35%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N  DI V  RI+  R   G+S  +L E + +T Q + +YEKG+       L+ +S  L
Sbjct: 5  VKNNFDI-VPARIKEARESRGLSMSELSELIEVTSQAISQYEKGIMNPSVFVLKKMSNAL 63

Query: 67 ESPISFFF 74
            PI FF+
Sbjct: 64 NFPIQFFY 71


>gi|288353334|ref|YP_003422632.1| protein of unknown function DUF955 [Zymomonas mobilis subsp.
          mobilis ZM4]
 gi|285026735|gb|ADC33829.1| protein of unknown function DUF955 [Zymomonas mobilis subsp.
          mobilis ZM4]
          Length = 401

 Score = 42.0 bits (97), Expect = 0.027,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 36/59 (61%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R  + +SQE+LG+ +G++ Q + ++E+G     A  L  I  VL+ PI FF
Sbjct: 24 IPERLKDARKFMRLSQEELGKEIGVSRQAISQFERGDRNPDARTLVGIQSVLKQPIEFF 82


>gi|227544810|ref|ZP_03974859.1| transcriptional regulator [Lactobacillus reuteri CF48-3A]
 gi|300908944|ref|ZP_07126407.1| cro/CI family transcriptional regulator [Lactobacillus reuteri
          SD2112]
 gi|227185211|gb|EEI65282.1| transcriptional regulator [Lactobacillus reuteri CF48-3A]
 gi|300894351|gb|EFK87709.1| cro/CI family transcriptional regulator [Lactobacillus reuteri
          SD2112]
          Length = 108

 Score = 42.0 bits (97), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 1/70 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISF 72
          N+G  IR RR  LG++QE+L    G++   + + E G  N V A  L  I+EVL++ +  
Sbjct: 3  NLGANIRARRHELGITQEQLSNNTGLSINYISRLEVGTANNVSAKTLLKIAEVLKTSMDK 62

Query: 73 FFDVSPTVCS 82
            + S    +
Sbjct: 63 LVNGSSDTAN 72


>gi|238060409|ref|ZP_04605118.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
          39149]
 gi|237882220|gb|EEP71048.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
          39149]
          Length = 409

 Score = 42.0 bits (97), Expect = 0.029,   Method: Compositional matrix adjust.
 Identities = 27/83 (32%), Positives = 40/83 (48%), Gaps = 1/83 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPI 70
          ++ VG+RI   R    MSQ+ L + LG +   V K E+GV R+   S LQ I+ VL   +
Sbjct: 3  ELPVGRRIAYWRTRRRMSQQALADTLGKSKSWVDKVERGVRRLDKLSNLQEIAGVLRIDV 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
           F     P      ++E   + D
Sbjct: 63 QFLIGTEPASSGSGAAEGGPLSD 85


>gi|212710521|ref|ZP_03318649.1| hypothetical protein PROVALCAL_01584 [Providencia alcalifaciens
          DSM 30120]
 gi|212686941|gb|EEB46469.1| hypothetical protein PROVALCAL_01584 [Providencia alcalifaciens
          DSM 30120]
          Length = 97

 Score = 42.0 bits (97), Expect = 0.029,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%), Gaps = 1/68 (1%)

Query: 1  MVGNKKIPNP-VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M+ N++  N  V   +G  ++ RR ++G++  +L   L I+ QQ+ +YE+GVN +    L
Sbjct: 1  MITNQRFDNHEVSTYIGSFLKRRRKVVGLTGAELASRLSISQQQISRYERGVNAITIQNL 60

Query: 60 QHISEVLE 67
            I   LE
Sbjct: 61 LGILHALE 68


>gi|268591987|ref|ZP_06126208.1| putative transcriptional regulator [Providencia rettgeri DSM
          1131]
 gi|291312378|gb|EFE52831.1| putative transcriptional regulator [Providencia rettgeri DSM
          1131]
          Length = 87

 Score = 42.0 bits (97), Expect = 0.030,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 35/61 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++R RR+ +G +   LG+  G++ QQ+ +YE+G       RL   + VL+  + +F 
Sbjct: 13 IGLQVRKRRLQMGWTAHTLGKKSGLSQQQISRYERGTQNFTIHRLCIFANVLQCDLDYFL 72

Query: 75 D 75
          +
Sbjct: 73 E 73


>gi|253690481|ref|YP_003019671.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
          subsp. carotovorum PC1]
 gi|251757059|gb|ACT15135.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
          subsp. carotovorum PC1]
          Length = 105

 Score = 42.0 bits (97), Expect = 0.031,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 41/72 (56%), Gaps = 10/72 (13%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGV---NRVGASRLQHISEVLESP 69
          +R++  R++ G+SQ+ LG   GI       ++ +YEKGV   N V ASRL   +E L+ P
Sbjct: 13 QRLKDARLLRGLSQKGLGIAAGIDEFVASARINRYEKGVHEANLVTASRL---AEALDVP 69

Query: 70 ISFFFDVSPTVC 81
          +++F+     + 
Sbjct: 70 LAYFYAADDNLA 81


>gi|322375869|ref|ZP_08050380.1| putative toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. C300]
 gi|321279137|gb|EFX56179.1| putative toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. C300]
          Length = 111

 Score = 42.0 bits (97), Expect = 0.031,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 35/65 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRIRL R+   ++Q++L E   +  +   K E     +    LQ I + L++ I  FF
Sbjct: 10 LGKRIRLLRLQKNLTQQQLEELADLPLKYTYKLENLEPNIKIKTLQKIMDALDTDIETFF 69

Query: 75 DVSPT 79
          D+S T
Sbjct: 70 DISVT 74


>gi|262164056|ref|ZP_06031795.1| protein of unknown function DUF955 [Vibrio mimicus VM223]
 gi|262027584|gb|EEY46250.1| protein of unknown function DUF955 [Vibrio mimicus VM223]
          Length = 375

 Score = 42.0 bits (97), Expect = 0.031,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 43/72 (59%), Gaps = 7/72 (9%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPISFFF 74
          G+R+RL R++ G + ++LG+ + +T Q + +YE  + RV A  +++ ++E L+   SFF 
Sbjct: 7  GERLRLARLLKGYTLQELGDAVSVTRQSIHQYESDI-RVPADDIKNALAESLQVETSFFC 65

Query: 75 -----DVSPTVC 81
               DV P  C
Sbjct: 66 MPLSGDVKPEQC 77


>gi|269120018|ref|YP_003308195.1| XRE family transcriptional regulator [Sebaldella termitidis ATCC
          33386]
 gi|268613896|gb|ACZ08264.1| transcriptional regulator, XRE family [Sebaldella termitidis ATCC
          33386]
          Length = 108

 Score = 41.6 bits (96), Expect = 0.032,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 39/74 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R    ++Q++L + +G     V KYE G   V  + L  ISE+L++P+S FF
Sbjct: 5  IGSNIKNYRKTNKLTQQELADKIGKHKITVAKYESGKISVPMAVLHEISEILDTPMSDFF 64

Query: 75 DVSPTVCSDISSEE 88
            +P    +   +E
Sbjct: 65 KENPISIDNFEPKE 78


>gi|212711628|ref|ZP_03319756.1| hypothetical protein PROVALCAL_02703 [Providencia alcalifaciens
          DSM 30120]
 gi|212685730|gb|EEB45258.1| hypothetical protein PROVALCAL_02703 [Providencia alcalifaciens
          DSM 30120]
          Length = 95

 Score = 41.6 bits (96), Expect = 0.032,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 35/65 (53%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+   +GK+I   R + GMS   + + + ++ QQ  +YE+GVNR+   RL   + +    
Sbjct: 7  PISRIIGKKITYYRKMNGMSLCDISKMIHVSEQQQSRYERGVNRINLDRLHQYARIFSID 66

Query: 70 ISFFF 74
          +  FF
Sbjct: 67 LIDFF 71


>gi|291521206|emb|CBK79499.1| Helix-turn-helix [Coprococcus catus GD/7]
          Length = 128

 Score = 41.6 bits (96), Expect = 0.033,   Method: Compositional matrix adjust.
 Identities = 31/91 (34%), Positives = 45/91 (49%), Gaps = 10/91 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GKRIR RR+ L M Q +L E + I+   +   E+G+ R G      I +VL      
Sbjct: 9   VEMGKRIRTRRLSLKMKQMELAEEVDISNNHISSIERGIERPGLDSFIRICDVL------ 62

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
             DV+P      S + NNV   I+  D L+L
Sbjct: 63  --DVTPDYLLLGSMKSNNVPKNIT--DNLKL 89


>gi|99035917|ref|ZP_01314965.1| hypothetical protein Wendoof_01000195 [Wolbachia endosymbiont of
           Drosophila willistoni TSC#14030-0811.24]
          Length = 306

 Score = 41.6 bits (96), Expect = 0.033,   Method: Compositional matrix adjust.
 Identities = 26/111 (23%), Positives = 54/111 (48%), Gaps = 10/111 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D  VG++++  R+  G +Q+ L E +G+ +  + +YEKG  R+   RL  I+  L
Sbjct: 5   VEKILDYEVGEKVKSWRLERGYTQKDLAEKIGVKYWVILQYEKGNRRISIERLYAIAGAL 64

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
              I+     S        +EE  +++ +         R + +I+D ++R+
Sbjct: 65  SVSITDLITASKEKIG-FKNEEGEILNLV---------REYKKINDQELRR 105


>gi|268591081|ref|ZP_06125302.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291313888|gb|EFE54341.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 52

 Score = 41.6 bits (96), Expect = 0.034,   Method: Compositional matrix adjust.
 Identities = 17/47 (36%), Positives = 29/47 (61%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++ E+LG  +G++ QQ+ +YE GVN +    L  +SE+ + PI  F 
Sbjct: 3  LTAEELGRYIGVSQQQISRYESGVNHINIDFLSQLSELFKVPIQVFL 49


>gi|317046283|ref|YP_004113931.1| hypothetical protein Pat9b_0045 [Pantoea sp. At-9b]
 gi|316947900|gb|ADU67375.1| protein of unknown function DUF955 [Pantoea sp. At-9b]
          Length = 361

 Score = 41.6 bits (96), Expect = 0.034,   Method: Compositional matrix adjust.
 Identities = 18/56 (32%), Positives = 34/56 (60%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I LRR +LG+SQ++L + + I+   + K E+G+      ++++I+  L  P+ FF 
Sbjct: 15 IELRRKMLGLSQKELAQIIAISQGTLSKIEQGLKPATDDQIENIANALNCPVEFFM 70


>gi|255598541|ref|XP_002537032.1| conserved hypothetical protein [Ricinus communis]
 gi|223517747|gb|EEF25351.1| conserved hypothetical protein [Ricinus communis]
          Length = 318

 Score = 41.6 bits (96), Expect = 0.034,   Method: Compositional matrix adjust.
 Identities = 22/70 (31%), Positives = 36/70 (51%), Gaps = 3/70 (4%)

Query: 8  PNPVD---INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          P+P D   + + +R+R  R  +G+SQE +   LGI+   V   E G  +V A  L  +S+
Sbjct: 3  PDPTDEQRLLLAQRLREAREYVGLSQEDVATALGISRPAVTNIEAGTRKVEAVELDKLSQ 62

Query: 65 VLESPISFFF 74
          +    + FF 
Sbjct: 63 LYGKTVQFFL 72


>gi|261823599|ref|YP_003261705.1| XRE family transcriptional regulator [Pectobacterium wasabiae
          WPP163]
 gi|261607612|gb|ACX90098.1| transcriptional regulator, XRE family [Pectobacterium wasabiae
          WPP163]
          Length = 108

 Score = 41.6 bits (96), Expect = 0.034,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 36/62 (58%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R++ G+SQ+ LG   GI       ++ +YEKGV        Q ++E L+ P+++
Sbjct: 13 QRLKDARLLRGLSQKGLGIAAGIDEFVASARINRYEKGVYEASIETAQQLAEALDVPLAY 72

Query: 73 FF 74
          F+
Sbjct: 73 FY 74


>gi|82702660|ref|YP_412226.1| XRE family transcriptional regulator [Nitrosospira multiformis
          ATCC 25196]
 gi|82410725|gb|ABB74834.1| transcriptional regulator, XRE family [Nitrosospira multiformis
          ATCC 25196]
          Length = 189

 Score = 41.6 bits (96), Expect = 0.035,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 36/62 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ + IR  R  L ++Q +L E +G++ Q VQ++E G  +    RL  I+EVL+ P + 
Sbjct: 6  MDIARIIREGREKLKLNQSELAELVGVSPQAVQQWESGATQPRGKRLNKIAEVLKLPPAM 65

Query: 73 FF 74
            
Sbjct: 66 MH 67


>gi|222530426|ref|YP_002574308.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
           DSM 6725]
 gi|222457273|gb|ACM61535.1| transcriptional regulator, XRE family [Caldicellulosiruptor bescii
           DSM 6725]
          Length = 122

 Score = 41.6 bits (96), Expect = 0.036,   Method: Compositional matrix adjust.
 Identities = 24/107 (22%), Positives = 52/107 (48%), Gaps = 11/107 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++++  R   G++QE++ + LG+   Q+  YE G   +    LQ ++++    +++F 
Sbjct: 10  IGQKLQEARKKAGLTQEQVADYLGVNKVQLSYYENGAREISIETLQQLADLYGYTLNYFL 69

Query: 75  D----VSPTVCSDISSE--ENNVMDFISTPDGLQLNRYFIQIDDVKV 115
           D      P V      E  E   ++ I+       NR+ I ++ +K+
Sbjct: 70  DDEKSTDPAVSFSFRGEELEKEDLEVIALA-----NRFLINLEQMKM 111


>gi|325453295|gb|ADZ13598.1| phage repressor protein [Cronobacter phage ENT39118]
          Length = 232

 Score = 41.6 bits (96), Expect = 0.037,   Method: Compositional matrix adjust.
 Identities = 26/70 (37%), Positives = 37/70 (52%), Gaps = 9/70 (12%)

Query: 20 RLRRMI------LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          RLRR+       LG+SQE L E LGI+   V ++  G N +   R    +EVL+ PI  F
Sbjct: 16 RLRRIYNEKKKDLGLSQEVLAERLGISQSAVAQFLAGKNALNMKRASEFAEVLQVPIDAF 75

Query: 74 FDVSPTVCSD 83
             SP++  +
Sbjct: 76 ---SPSLADE 82


>gi|78187740|ref|YP_375783.1| XRE family transcriptional regulator [Chlorobium luteolum DSM
          273]
 gi|78167642|gb|ABB24740.1| transcriptional regulator, XRE family [Chlorobium luteolum DSM
          273]
          Length = 390

 Score = 41.6 bits (96), Expect = 0.037,   Method: Compositional matrix adjust.
 Identities = 20/57 (35%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G R+R  RM LG SQEKL EC G+    +   E+G   +  +  + I+  L   +S
Sbjct: 13 LGLRVRRWRMALGYSQEKLAECAGLHRTYIGTVERGEQNITVANAEKIANALHVTLS 69


>gi|160896156|ref|YP_001561738.1| XRE family transcriptional regulator [Delftia acidovorans SPH-1]
 gi|160361740|gb|ABX33353.1| transcriptional regulator, XRE family [Delftia acidovorans SPH-1]
          Length = 104

 Score = 41.6 bits (96), Expect = 0.038,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 25/41 (60%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV 54
          ++G+RIR RR  LGM+Q +L E  GIT   V + E G  R 
Sbjct: 3  HIGERIRARRAELGMTQGRLAEAAGITASAVSQIESGAIRT 43


>gi|218459941|ref|ZP_03500032.1| probable transcriptional regulator protein [Rhizobium etli Kim 5]
          Length = 90

 Score = 41.6 bits (96), Expect = 0.039,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 42/77 (54%), Gaps = 5/77 (6%)

Query: 65  VLESPISFFF--DVSPTVCS---DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +L +  SFFF  D S  +     D     + V +F+ T +GL LNR F++I D ++R  I
Sbjct: 1   MLHTSPSFFFEQDDSERLAVRELDAPDHADPVAEFLRTKEGLVLNRAFLKIADPQIRATI 60

Query: 120 IELVRSIVSSEKKYRTI 136
           I LV ++  +E +  T+
Sbjct: 61  IALVTAMGQAESRGPTL 77


>gi|257090579|ref|ZP_05584940.1| conserved hypothetical protein [Enterococcus faecalis CH188]
 gi|294619908|ref|ZP_06699284.1| transcriptional regulator, xre family [Enterococcus faecium E1679]
 gi|312905109|ref|ZP_07764230.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|256999391|gb|EEU85911.1| conserved hypothetical protein [Enterococcus faecalis CH188]
 gi|291593845|gb|EFF25343.1| transcriptional regulator, xre family [Enterococcus faecium E1679]
 gi|310631499|gb|EFQ14782.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|315163419|gb|EFU07436.1| helix-turn-helix protein [Enterococcus faecalis TX0645]
 gi|315579063|gb|EFU91254.1| helix-turn-helix protein [Enterococcus faecalis TX0630]
          Length = 111

 Score = 41.6 bits (96), Expect = 0.040,   Method: Compositional matrix adjust.
 Identities = 27/87 (31%), Positives = 41/87 (47%), Gaps = 3/87 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
            K IR +R  LG +Q++L E +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 7   AKVIREKRKALGWTQKELAEKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
               V  D   E   +   +ST D ++
Sbjct: 67  ---NVVVDYEEEFLALYRSLSTEDAVR 90


>gi|303242323|ref|ZP_07328809.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
           CD2]
 gi|302590162|gb|EFL59924.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
           CD2]
          Length = 182

 Score = 41.6 bits (96), Expect = 0.041,   Method: Compositional matrix adjust.
 Identities = 23/99 (23%), Positives = 51/99 (51%), Gaps = 20/99 (20%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++  RI+  R++ G+S+++  + LG++F   QKYE G + +              PIS  
Sbjct: 7   DIAARIKGLRLLSGISEKEAAQKLGLSFADFQKYENGEDDI--------------PISIL 52

Query: 74  FDVSPTVCSDIS------SEENNVMDFISTPDGLQLNRY 106
           ++++   C D++      S + + + ++   +GL++ RY
Sbjct: 53  YEIADFYCVDLTEVLTGVSPKLHDVCYLKKGEGLKVERY 91


>gi|313886599|ref|ZP_07820312.1| DNA-binding helix-turn-helix protein [Porphyromonas
          asaccharolytica PR426713P-I]
 gi|312923955|gb|EFR34751.1| DNA-binding helix-turn-helix protein [Porphyromonas
          asaccharolytica PR426713P-I]
          Length = 363

 Score = 41.2 bits (95), Expect = 0.042,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 1/70 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + G+RIR  R + GM+  +L + +G++   +   E+G   +  + L  +SE L+ PI +F
Sbjct: 12 STGERIRKGRALRGMTLRELADKVGVSHTHISNLERGGKEITGATLIALSEALDLPIDYF 71

Query: 74 -FDVSPTVCS 82
           +  +P + S
Sbjct: 72 VYQDTPIIES 81


>gi|227355761|ref|ZP_03840154.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|227164080|gb|EEI48977.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 76

 Score = 41.2 bits (95), Expect = 0.043,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 31/48 (64%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          M+  +LG+ L I+ QQ+ +YE+G+N++    L HI  + +  IS FF+
Sbjct: 1  MTGAELGKLLNISQQQISRYERGINKIPIDILFHILNIFDISISDFFE 48


>gi|332300885|ref|YP_004442806.1| helix-turn-helix domain protein [Porphyromonas asaccharolytica
          DSM 20707]
 gi|332177948|gb|AEE13638.1| helix-turn-helix domain protein [Porphyromonas asaccharolytica
          DSM 20707]
          Length = 355

 Score = 41.2 bits (95), Expect = 0.043,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 1/70 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + G+RIR  R + GM+  +L + +G++   +   E+G   +  + L  +SE L+ PI +F
Sbjct: 4  STGERIRKGRALRGMTLRELADKVGVSHTHISNLERGGKEITGATLIALSEALDLPIDYF 63

Query: 74 -FDVSPTVCS 82
           +  +P + S
Sbjct: 64 VYQDTPIIES 73


>gi|197103371|ref|YP_002128749.1| transcriptional regulator, MerR family [Phenylobacterium zucineum
          HLK1]
 gi|196480647|gb|ACG80174.1| transcriptional regulator, MerR family [Phenylobacterium zucineum
          HLK1]
          Length = 120

 Score = 41.2 bits (95), Expect = 0.044,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 35/61 (57%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG+ IR+ R  +G++Q  L E +G+T Q +   E+G        L+ ++  L++P+  F
Sbjct: 18 SVGRAIRMHRERVGLTQAALAEAVGLTEQYIGVVERGARAPSFRTLEALARTLKTPVRDF 77

Query: 74 F 74
          F
Sbjct: 78 F 78


>gi|153954624|ref|YP_001395389.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|146347482|gb|EDK34018.1| Predicted transcriptional regulator [Clostridium kluyveri DSM
          555]
          Length = 80

 Score = 41.2 bits (95), Expect = 0.044,   Method: Compositional matrix adjust.
 Identities = 27/76 (35%), Positives = 40/76 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK IR  R+   ++QE+L E  GI    + +YE G+      +L+ IS+ LE PIS   
Sbjct: 3  VGKNIRNIRIQKNITQEELAEITGIEQSIISRYENGIIIPPIPKLEAISKALEVPISKLL 62

Query: 75 DVSPTVCSDISSEENN 90
          ++  T     SS  N+
Sbjct: 63 ELEETEIKKGSSIANS 78


>gi|219855102|ref|YP_002472224.1| hypothetical protein CKR_1759 [Clostridium kluyveri NBRC 12016]
 gi|219568826|dbj|BAH06810.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 83

 Score = 41.2 bits (95), Expect = 0.045,   Method: Compositional matrix adjust.
 Identities = 27/76 (35%), Positives = 40/76 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK IR  R+   ++QE+L E  GI    + +YE G+      +L+ IS+ LE PIS   
Sbjct: 6  VGKNIRNIRIQKNITQEELAEITGIEQSIISRYENGIIIPPIPKLEAISKALEVPISKLL 65

Query: 75 DVSPTVCSDISSEENN 90
          ++  T     SS  N+
Sbjct: 66 ELEETEIKKGSSIANS 81


>gi|290968677|ref|ZP_06560215.1| DNA-binding protein [Megasphaera genomosp. type_1 str. 28L]
 gi|290781330|gb|EFD93920.1| DNA-binding protein [Megasphaera genomosp. type_1 str. 28L]
          Length = 226

 Score = 41.2 bits (95), Expect = 0.045,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 45/82 (54%), Gaps = 3/82 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          VGKRI+ +R    M+ + +   LG+T   VQ+YE G ++ V    LQ I ++L    +F 
Sbjct: 10 VGKRIKKQRKQNNMTLKDIAVKLGVTESTVQRYETGNISNVSIEMLQKIGKILLVSPAFL 69

Query: 74 --FDVSPTVCSDISSEENNVMD 93
            +D +  V SD+ + ++  +D
Sbjct: 70 LGWDSAEKVVSDLEAHKHKFLD 91


>gi|260437613|ref|ZP_05791429.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
 gi|292809966|gb|EFF69171.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
          Length = 117

 Score = 41.2 bits (95), Expect = 0.045,   Method: Compositional matrix adjust.
 Identities = 24/67 (35%), Positives = 36/67 (53%), Gaps = 6/67 (8%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+GKR+R  R    +SQ+ + + LGI  +Q Q+YE G + +   +L  + E      SF 
Sbjct: 14 NMGKRLRKIRKENALSQDDVADALGICTKQYQRYEYGDSAISCEKLSILEE------SFH 67

Query: 74 FDVSPTV 80
          FDV   V
Sbjct: 68 FDVRYIV 74


>gi|319426396|gb|ADV54470.1| helix-turn-helix domain protein [Shewanella putrefaciens 200]
 gi|319426403|gb|ADV54477.1| helix-turn-helix domain protein [Shewanella putrefaciens 200]
          Length = 182

 Score = 41.2 bits (95), Expect = 0.045,   Method: Compositional matrix adjust.
 Identities = 18/56 (32%), Positives = 37/56 (66%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +++++G  ++ RR+ L + QE + E LG+T Q V K+E+ +    AS++  +S++L
Sbjct: 4  LNMSIGSVLKDRRIALNIKQEDIAEQLGLTVQTVSKWERDLTEPKASQVTQLSKIL 59


>gi|213019906|ref|ZP_03335697.1| putative transcriptional regulator [Wolbachia endosymbiont of
          Culex quinquefasciatus JHB]
 gi|212994507|gb|EEB55164.1| putative transcriptional regulator [Wolbachia endosymbiont of
          Culex quinquefasciatus JHB]
          Length = 314

 Score = 41.2 bits (95), Expect = 0.046,   Method: Compositional matrix adjust.
 Identities = 20/64 (31%), Positives = 37/64 (57%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + +++R  R+  G +Q+ L   +G+T+Q V +YEKG+ ++   +L  I++VL   I   
Sbjct: 18 QIAQKVRSWRLKRGYTQKDLAGKIGVTYQIVLQYEKGIRKISIEKLYAIAKVLSVDIIDL 77

Query: 74 FDVS 77
            VS
Sbjct: 78 IPVS 81



 Score = 36.2 bits (82), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 19/80 (23%), Positives = 41/80 (51%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++ G +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I   
Sbjct: 171 QIGKKIKEWRLVRGYTQKDLAEKMSTTRDEISNYEQGRVAIPLEKLYAIAETLSINIMDL 230

Query: 74  FDVSPTVCSDISSEENNVMD 93
            +++      + +E  N+++
Sbjct: 231 LELTEDADDKVENELPNLIE 250


>gi|124486416|ref|YP_001031032.1| adenine deaminase [Methanocorpusculum labreanum Z]
 gi|124363957|gb|ABN07765.1| helix-turn-helix domain protein [Methanocorpusculum labreanum Z]
          Length = 347

 Score = 41.2 bits (95), Expect = 0.047,   Method: Compositional matrix adjust.
 Identities = 21/67 (31%), Positives = 36/67 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R + G++QE+LGE + +    + KYE G     +S L  +S  L   I +FF 
Sbjct: 3  GERLKQARKLSGLTQEELGELVSVEKMTISKYEAGKISPSSSTLISLSRALHVDIDYFFR 62

Query: 76 VSPTVCS 82
           +  V +
Sbjct: 63 ETSVVLA 69


>gi|148243675|ref|YP_001219915.1| XRE family transcriptional regulator [Acidiphilium cryptum JF-5]
 gi|148243717|ref|YP_001219957.1| XRE family transcriptional regulator [Acidiphilium cryptum JF-5]
 gi|146400238|gb|ABQ28773.1| transcriptional regulator, XRE family [Acidiphilium cryptum JF-5]
 gi|146400280|gb|ABQ28815.1| transcriptional regulator, XRE family [Acidiphilium cryptum JF-5]
          Length = 185

 Score = 41.2 bits (95), Expect = 0.048,   Method: Compositional matrix adjust.
 Identities = 16/64 (25%), Positives = 37/64 (57%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D ++G +I  RR  +G+S+ +L   L +  + +  YE+G+  V  + L  +++ L   +
Sbjct: 19 LDAHIGGQITARRAEIGLSRRQLAMTLRVPVRGIAAYERGIQHVAPADLFRLAQALGVDL 78

Query: 71 SFFF 74
          ++F+
Sbjct: 79 AYFY 82


>gi|145219415|ref|YP_001130124.1| XRE family transcriptional regulator [Prosthecochloris
          vibrioformis DSM 265]
 gi|145205579|gb|ABP36622.1| transcriptional regulator, XRE family [Chlorobium phaeovibrioides
          DSM 265]
          Length = 379

 Score = 41.2 bits (95), Expect = 0.048,   Method: Compositional matrix adjust.
 Identities = 19/53 (35%), Positives = 28/53 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G R+R  RM LG SQEKL EC G+    +   E+G   +  +  + I+  L 
Sbjct: 13 LGLRVRRWRMALGYSQEKLAECAGLHRTYIGTVERGEQNITVANAEKIANALH 65


>gi|190570687|ref|YP_001975045.1| Putative transcriptional regulator [Wolbachia endosymbiont of
          Culex quinquefasciatus Pel]
 gi|190356959|emb|CAQ54347.1| Putative transcriptional regulator [Wolbachia endosymbiont of
          Culex quinquefasciatus Pel]
          Length = 305

 Score = 41.2 bits (95), Expect = 0.049,   Method: Compositional matrix adjust.
 Identities = 20/64 (31%), Positives = 37/64 (57%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + +++R  R+  G +Q+ L   +G+T+Q V +YEKG+ ++   +L  I++VL   I   
Sbjct: 9  QIAQKVRSWRLKRGYTQKDLAGKIGVTYQIVLQYEKGIRKISIEKLYAIAKVLSVDIIDL 68

Query: 74 FDVS 77
            VS
Sbjct: 69 IPVS 72



 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 19/80 (23%), Positives = 41/80 (51%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++ G +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I   
Sbjct: 162 QIGKKIKEWRLVRGYTQKDLAEKMSTTRDEISNYEQGRVAIPLEKLYAIAETLSINIMDL 221

Query: 74  FDVSPTVCSDISSEENNVMD 93
            +++      + +E  N+++
Sbjct: 222 LELTEDADDKVENELPNLIE 241


>gi|149189972|ref|ZP_01868250.1| hypothetical protein VSAK1_25545 [Vibrio shilonii AK1]
 gi|148836138|gb|EDL53097.1| hypothetical protein VSAK1_25545 [Vibrio shilonii AK1]
          Length = 155

 Score = 41.2 bits (95), Expect = 0.049,   Method: Compositional matrix adjust.
 Identities = 27/87 (31%), Positives = 50/87 (57%), Gaps = 7/87 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++RL+R   G SQE+L E  G++ + +Q+ E+G  + G   L+ ++ V E+ I+     
Sbjct: 4   RKLRLQR---GWSQEQLAELSGLSIRTIQRIERG-QKPGLESLKSLAAVFETTIT-ELQQ 58

Query: 77  SPTVCS--DISSEENNVMDFISTPDGL 101
            P + S  +I+ EE NV+D + +  G 
Sbjct: 59  EPKMTSKVEITQEEQNVIDQVRSIKGF 85


>gi|226328955|ref|ZP_03804473.1| hypothetical protein PROPEN_02857 [Proteus penneri ATCC 35198]
 gi|225202141|gb|EEG84495.1| hypothetical protein PROPEN_02857 [Proteus penneri ATCC 35198]
          Length = 125

 Score = 41.2 bits (95), Expect = 0.051,   Method: Compositional matrix adjust.
 Identities = 21/65 (32%), Positives = 38/65 (58%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P+   +G +IR +R  L +S + + E +GI+ QQ  +YE G+ ++    L HI++ L+  
Sbjct: 36  PISQIIGHKIRKQRQQLRLSAKVVAERVGISQQQFSRYENGLCKIDVDMLFHIAQELKVT 95

Query: 70  ISFFF 74
            +FF 
Sbjct: 96  PAFFL 100


>gi|255263387|ref|ZP_05342729.1| transcriptional regulator, XRE family [Thalassiobium sp. R2A62]
 gi|255105722|gb|EET48396.1| transcriptional regulator, XRE family [Thalassiobium sp. R2A62]
          Length = 139

 Score = 41.2 bits (95), Expect = 0.054,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 53/124 (42%), Gaps = 20/124 (16%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R   G+SQE L + LGI    ++ +E  +N   A++LQ +S +L   + +   
Sbjct: 26  GDRVAAAREQAGLSQEALAKQLGIKNGTLRNWEHDLNEPRANKLQMLSGILGVSLMWLL- 84

Query: 76  VSPTVCSDISSEENNVMDFISTPD----GLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
                        N   D IS PD    G  +N    +I  VK   ++++    +   EK
Sbjct: 85  -------------NGEGDGISAPDQEDLGGDINAVMTEIRAVKA--QLLQAADRMAKLEK 129

Query: 132 KYRT 135
           K R 
Sbjct: 130 KLRA 133


>gi|294502078|ref|YP_003566143.1| Transcriptional regulator containing Lambda repressor-like,
          DNA-binding domain [Salinibacter ruber M8]
 gi|294342062|emb|CBH22727.1| Transcriptional regulator containing Lambda repressor-like,
          DNA-binding domain [Salinibacter ruber M8]
          Length = 392

 Score = 41.2 bits (95), Expect = 0.054,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 35/60 (58%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+R  R    MSQ+++   LG+T   + +YE G  ++GA  L+ ++ +   P+S  F
Sbjct: 9  LGQRLRQARKQAHMSQKEVAGHLGVTASALSQYESGKRKIGALALERLARLYSVPLSSLF 68


>gi|284006177|emb|CBA71418.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 130

 Score = 40.8 bits (94), Expect = 0.055,   Method: Compositional matrix adjust.
 Identities = 21/56 (37%), Positives = 36/56 (64%), Gaps = 1/56 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SP 69
          +G+RI  RR  LG+    L + +G++   V ++E+GV+ +G  +L +ISE L+ SP
Sbjct: 9  IGRRIYERRTELGLRAIDLADLIGVSRVAVSQWERGVSVLGGDKLMNISEALKCSP 64


>gi|241763075|ref|ZP_04761136.1| transcriptional regulator, XRE family [Acidovorax delafieldii
          2AN]
 gi|241367858|gb|EER62090.1| transcriptional regulator, XRE family [Acidovorax delafieldii
          2AN]
          Length = 121

 Score = 40.8 bits (94), Expect = 0.055,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 34/62 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RI  +R   G++Q +L E LG++ Q VQ YE G  R+  + L  ++  L   +  
Sbjct: 12 VTLGERIAAQRQACGITQVQLAEVLGVSQQTVQAYEVGRRRIQVAALPTVARTLSLSLEE 71

Query: 73 FF 74
           F
Sbjct: 72 LF 73


>gi|99035914|ref|ZP_01314962.1| hypothetical protein Wendoof_01000192 [Wolbachia endosymbiont of
          Drosophila willistoni TSC#14030-0811.24]
          Length = 306

 Score = 40.8 bits (94), Expect = 0.055,   Method: Compositional matrix adjust.
 Identities = 20/64 (31%), Positives = 35/64 (54%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + +++R  R+  G +Q+ L   +G+T+Q V +YEKG  ++   +L  I+E L   I   
Sbjct: 9  KIAQKVRSWRLKRGYTQKDLAGKIGVTYQIVLQYEKGTRKISIEKLYAIAEALSVSIVDL 68

Query: 74 FDVS 77
            VS
Sbjct: 69 IPVS 72



 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 19/80 (23%), Positives = 41/80 (51%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++ G +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I   
Sbjct: 162 KIGKKIKEWRIVRGYTQKDLAEKMSTTRDEISNYEQGRVAIPLEKLYAIAETLSINIMDL 221

Query: 74  FDVSPTVCSDISSEENNVMD 93
            +++      + +E  N+++
Sbjct: 222 LELTEDADDKVENELPNLIE 241


>gi|190894243|ref|YP_001984537.1| hypothetical protein RHECIAT_PB0000280 [Rhizobium etli CIAT 652]
 gi|190699904|gb|ACE93987.1| hypothetical conserved protein [Rhizobium etli CIAT 652]
          Length = 259

 Score = 40.8 bits (94), Expect = 0.056,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 27/41 (65%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + + KL   LGIT Q   +YE GV+R+  SRL H+ EVL++
Sbjct: 145 LPRSKLAPLLGITKQVYGRYENGVSRLTVSRLIHLCEVLDA 185


>gi|291521205|emb|CBK79498.1| Predicted transcriptional regulators [Coprococcus catus GD/7]
          Length = 111

 Score = 40.8 bits (94), Expect = 0.057,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 33/62 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+ RR+ LGM Q +L E + I+   +   E+G+ R G      I +VL+    +
Sbjct: 9  VEMGKRIKARRVSLGMKQMELAERIDISNNHISSIERGIERPGLESFIRICDVLDVTPDY 68

Query: 73 FF 74
            
Sbjct: 69 LL 70


>gi|89255371|ref|NP_659804.2| hypothetical protein RHE_PD00235 [Rhizobium etli CFN 42]
 gi|89213325|gb|AAM54817.2| hypothetical protein RHE_PD00235 [Rhizobium etli CFN 42]
          Length = 259

 Score = 40.8 bits (94), Expect = 0.057,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 27/41 (65%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + + KL   LGIT Q   +YE GV+R+  SRL H+ EVL++
Sbjct: 145 LPRSKLAPLLGITKQVYGRYENGVSRLTVSRLIHLCEVLDA 185


>gi|121583517|ref|YP_973943.1| hypothetical protein Pnap_4792 [Polaromonas naphthalenivorans
          CJ2]
 gi|120596767|gb|ABM40201.1| protein of unknown function DUF955 [Polaromonas naphthalenivorans
          CJ2]
          Length = 395

 Score = 40.8 bits (94), Expect = 0.058,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 33/62 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KR  L R   GM++ ++ E +G++ + V  YEKG      S +Q +++ L  P +FF   
Sbjct: 5  KRFSLARRRRGMTKREIAESIGVSERSVSAYEKGDQEPEPSNVQRMTKALNFPEAFFHAA 64

Query: 77 SP 78
           P
Sbjct: 65 DP 66


>gi|302337267|ref|YP_003802473.1| XRE family transcriptional regulator [Spirochaeta smaragdinae DSM
          11293]
 gi|301634452|gb|ADK79879.1| transcriptional regulator, XRE family [Spirochaeta smaragdinae
          DSM 11293]
          Length = 222

 Score = 40.8 bits (94), Expect = 0.059,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 34/65 (52%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V++ +G RIR +R    M   +L E  G+T   + + E+ +     + L+ I + +  PI
Sbjct: 10 VNLTLGSRIRAQRNKHNMKISELAELTGLTSSTISQVERALISPSIATLKKICDAMNIPI 69

Query: 71 SFFFD 75
          SF FD
Sbjct: 70 SFLFD 74


>gi|225861745|ref|YP_002743254.1| transcriptional activator [Streptococcus pneumoniae Taiwan19F-14]
 gi|298229349|ref|ZP_06963030.1| transcriptional activator [Streptococcus pneumoniae str. Canada
          MDR_19F]
 gi|298255903|ref|ZP_06979489.1| transcriptional activator [Streptococcus pneumoniae str. Canada
          MDR_19A]
 gi|298503691|ref|YP_003725631.1| transcriptional activator [Streptococcus pneumoniae TCH8431/19A]
 gi|225726429|gb|ACO22280.1| transcriptional activator [Streptococcus pneumoniae Taiwan19F-14]
 gi|298239286|gb|ADI70417.1| transcriptional activator [Streptococcus pneumoniae TCH8431/19A]
          Length = 287

 Score = 40.8 bits (94), Expect = 0.059,   Method: Compositional matrix adjust.
 Identities = 26/73 (35%), Positives = 43/73 (58%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  LG+SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELGLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|301300079|ref|ZP_07206297.1| helix-turn-helix protein [Lactobacillus salivarius
          ACS-116-V-Col5a]
 gi|300852311|gb|EFK79977.1| helix-turn-helix protein [Lactobacillus salivarius
          ACS-116-V-Col5a]
          Length = 242

 Score = 40.8 bits (94), Expect = 0.060,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 39/61 (63%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISF 72
          N+G RI+ RR  L +S + + E LG++   V +YEKG + +V  + L+ ++EVL++  ++
Sbjct: 3  NIGYRIKQRRKELKLSADVVAEKLGVSRSTVFRYEKGDIEKVPTTILEKLAEVLKTTPAY 62

Query: 73 F 73
           
Sbjct: 63 L 63


>gi|282882172|ref|ZP_06290811.1| phage related transcriptional regulator [Peptoniphilus lacrimalis
          315-B]
 gi|281297937|gb|EFA90394.1| phage related transcriptional regulator [Peptoniphilus lacrimalis
          315-B]
          Length = 235

 Score = 40.8 bits (94), Expect = 0.061,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 36/59 (61%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++IR  R++  ++ ++L E LG++   +QKYE G        +Q IS++L  PI+
Sbjct: 1  MTLGEKIRKYRILNNLTMKELSEKLGMSISAIQKYENGTVIPKTDIIQKISKILNVPIN 59


>gi|218133018|ref|ZP_03461822.1| hypothetical protein BACPEC_00879 [Bacteroides pectinophilus ATCC
          43243]
 gi|238925712|ref|YP_002939229.1| hypothetical protein EUBREC_3369 [Eubacterium rectale ATCC 33656]
 gi|260439193|ref|ZP_05793009.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
 gi|217991891|gb|EEC57895.1| hypothetical protein BACPEC_00879 [Bacteroides pectinophilus ATCC
          43243]
 gi|238877388|gb|ACR77095.1| Hypothetical protein EUBREC_3369 [Eubacterium rectale ATCC 33656]
 gi|291524650|emb|CBK90237.1| Helix-turn-helix [Eubacterium rectale DSM 17629]
 gi|292808363|gb|EFF67568.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
 gi|295093967|emb|CBK83058.1| Helix-turn-helix. [Coprococcus sp. ART55/1]
          Length = 206

 Score = 40.8 bits (94), Expect = 0.061,   Method: Compositional matrix adjust.
 Identities = 20/72 (27%), Positives = 39/72 (54%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR+ LG++Q  + E +G+T   +Q+YE G ++      L  +SE L   + + 
Sbjct: 10 IGSRAKQRRLELGVNQPYIAEKMGVTASTIQRYEAGTIDNTKKLVLDGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             +  + SD++
Sbjct: 70 KGETEEMTSDVT 81


>gi|166033118|ref|ZP_02235947.1| hypothetical protein DORFOR_02840 [Dorea formicigenerans ATCC
          27755]
 gi|166027475|gb|EDR46232.1| hypothetical protein DORFOR_02840 [Dorea formicigenerans ATCC
          27755]
          Length = 295

 Score = 40.8 bits (94), Expect = 0.061,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 37/67 (55%), Gaps = 8/67 (11%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+   + +++ R   GMSQE+L E LG++ Q V K+E G    G   +++I       I
Sbjct: 1  MDMTFAENVKMLRKQAGMSQEQLAEKLGVSRQAVTKWETG---AGIPDIENI-----MAI 52

Query: 71 SFFFDVS 77
          S  FD+S
Sbjct: 53 SMLFDIS 59


>gi|218513063|ref|ZP_03509903.1| hypothetical protein Retl8_04857 [Rhizobium etli 8C-3]
          Length = 168

 Score = 40.8 bits (94), Expect = 0.062,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 27/41 (65%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + + KL   LGIT Q   +YE GV+R+  SRL H+ EVL++
Sbjct: 54 LPRSKLAPLLGITKQVYGRYENGVSRLTVSRLIHLCEVLDA 94


>gi|221065568|ref|ZP_03541673.1| transcriptional regulator, XRE family [Comamonas testosteroni
          KF-1]
 gi|220710591|gb|EED65959.1| transcriptional regulator, XRE family [Comamonas testosteroni
          KF-1]
          Length = 108

 Score = 40.8 bits (94), Expect = 0.063,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 39/68 (57%), Gaps = 4/68 (5%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVL 66
           D   G R++  R+  G+SQ+ LG   GI       ++ +YE G+++     ++ ++EVL
Sbjct: 4  ADEQWGARLKQARLAAGLSQKMLGIEAGIDAFVASTRINRYELGIHKPDLLTVRKLAEVL 63

Query: 67 ESPISFFF 74
          + P++FF+
Sbjct: 64 KVPVAFFY 71


>gi|238783913|ref|ZP_04627930.1| Predicted transcriptional regulator [Yersinia bercovieri ATCC
          43970]
 gi|238715152|gb|EEQ07147.1| Predicted transcriptional regulator [Yersinia bercovieri ATCC
          43970]
          Length = 87

 Score = 40.8 bits (94), Expect = 0.063,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 32/51 (62%), Gaps = 4/51 (7%)

Query: 28 MSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          MSQ+KLG   G    +   ++ +YEKGV+ V     + +++VLE P+++F+
Sbjct: 1  MSQKKLGIAAGLDEFVASTRINRYEKGVHEVSIEMAKQLADVLEVPLAYFY 51


>gi|261208045|ref|ZP_05922720.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289565524|ref|ZP_06445972.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|294615155|ref|ZP_06695039.1| transcriptional regulator, xre family [Enterococcus faecium
          E1636]
 gi|314938404|ref|ZP_07845695.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|314942329|ref|ZP_07849177.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|314951463|ref|ZP_07854513.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|314993126|ref|ZP_07858512.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|314996009|ref|ZP_07861087.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|260077629|gb|EEW65345.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289162722|gb|EFD10574.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|291591975|gb|EFF23600.1| transcriptional regulator, xre family [Enterococcus faecium
          E1636]
 gi|313589763|gb|EFR68608.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313592366|gb|EFR71211.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|313596420|gb|EFR75265.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|313598946|gb|EFR77791.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|313642302|gb|EFS06882.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
          Length = 111

 Score = 40.8 bits (94), Expect = 0.063,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 31/60 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           K IR +R  LG +Q++L E +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 7  AKVIREKRKALGWTQKELAEKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66


>gi|89095957|ref|ZP_01168851.1| hypothetical protein B14911_04469 [Bacillus sp. NRRL B-14911]
 gi|89089703|gb|EAR68810.1| hypothetical protein B14911_04469 [Bacillus sp. NRRL B-14911]
          Length = 292

 Score = 40.8 bits (94), Expect = 0.064,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 40/66 (60%), Gaps = 3/66 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G++IR  R +LG+SQ++L E  GI  Q Q+ K EKG     AS L  IS+ L   +++F
Sbjct: 6  IGQKIRDLRKLLGLSQKELAE--GICTQAQISKIEKGDVYPYASTLYLISQKLGVDVNYF 63

Query: 74 FDVSPT 79
          F +  T
Sbjct: 64 FHIGTT 69


>gi|311064246|ref|YP_003970971.1| hypothetical protein BBPR_0856 [Bifidobacterium bifidum PRL2010]
 gi|310866565|gb|ADP35934.1| Conserved hypothetical protein with helix-turn-helix motif
          [Bifidobacterium bifidum PRL2010]
          Length = 405

 Score = 40.8 bits (94), Expect = 0.064,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 33/58 (56%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+++R  R+  G++  +L E  G++ Q + KYEK  N    S L  ++  L  PIS+F
Sbjct: 16 GEKLRKARLYRGLTLTELAEETGVSKQALSKYEKNQNEPTPSNLFALARSLNFPISYF 73


>gi|225869607|ref|YP_002745554.1| phage repressor protein [Streptococcus equi subsp. equi 4047]
 gi|225699011|emb|CAW92101.1| phage repressor protein [Streptococcus equi subsp. equi 4047]
          Length = 248

 Score = 40.8 bits (94), Expect = 0.064,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 43/68 (63%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          +++G +++ RR+ + +S E+L + LG++   + +YEKG + +V    L+ IS++L +  +
Sbjct: 1  MDIGAKLKQRRLEVNVSVEELAKKLGVSKTTIYRYEKGEILKVPTEVLEKISKILNTNPA 60

Query: 72 FFFDVSPT 79
          +F   S T
Sbjct: 61 YFMGWSDT 68


>gi|323126526|gb|ADX23823.1| transcriptional regulator [Streptococcus dysgalactiae subsp.
          equisimilis ATCC 12394]
          Length = 227

 Score = 40.8 bits (94), Expect = 0.065,   Method: Compositional matrix adjust.
 Identities = 16/60 (26%), Positives = 36/60 (60%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L ++Q+ + E LGI++Q    +E+GV    A ++  + ++L  P  +F ++
Sbjct: 5  EKLKERRKELKLTQKDIAEKLGISYQAYSAWERGVKEPSAEKVSQLEKLLNVPKGYFTEI 64


>gi|295108419|emb|CBL22372.1| Helix-turn-helix. [Ruminococcus obeum A2-162]
          Length = 124

 Score = 40.8 bits (94), Expect = 0.065,   Method: Compositional matrix adjust.
 Identities = 27/90 (30%), Positives = 45/90 (50%), Gaps = 1/90 (1%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D+ + ++IR  R   G+SQE L E  GI    ++KYE G+ +    +L+ I++ LE    
Sbjct: 26  DMEINEKIRYFRKQRGISQELLAERTGINVNTIRKYEIGIRKPKVEQLKKIADGLEISAI 85

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGL 101
            F D+     +D+ +    +  F    DGL
Sbjct: 86  EFLDIEIENEADLIAMLKKISPFFKW-DGL 114


>gi|218673691|ref|ZP_03523360.1| hypothetical protein RetlG_20083 [Rhizobium etli GR56]
 gi|218682865|ref|ZP_03530466.1| hypothetical protein RetlC8_29094 [Rhizobium etli CIAT 894]
 gi|327193314|gb|EGE60219.1| hypothetical protein RHECNPAF_170017 [Rhizobium etli CNPAF512]
          Length = 168

 Score = 40.8 bits (94), Expect = 0.065,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 27/41 (65%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + + KL   LGIT Q   +YE GV+R+  SRL H+ EVL++
Sbjct: 54 LPRSKLAPLLGITKQVYGRYENGVSRLTVSRLIHLCEVLDA 94


>gi|262201416|ref|YP_003272624.1| XRE family transcriptional regulator [Gordonia bronchialis DSM
          43247]
 gi|262084763|gb|ACY20731.1| helix-turn-helix domain protein [Gordonia bronchialis DSM 43247]
          Length = 93

 Score = 40.8 bits (94), Expect = 0.066,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 34/71 (47%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K    PV +  G+RIR RR  LG+SQE     +GI + Q+ K E+G   V    +  I+ 
Sbjct: 11 KSALKPVLVEFGRRIRARREELGLSQEAAAVSIGIHWTQLGKVERGQRSVRVENIVKIAA 70

Query: 65 VLESPISFFFD 75
           L +      D
Sbjct: 71 GLSTTPGALLD 81


>gi|167904497|ref|ZP_02491702.1| helix-turn-helix domain protein [Burkholderia pseudomallei NCTC
          13177]
          Length = 111

 Score = 40.8 bits (94), Expect = 0.068,   Method: Compositional matrix adjust.
 Identities = 24/85 (28%), Positives = 44/85 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ I  +R+   ++QE + E LGI  + V + E+GV      RL  ++++ E   +   
Sbjct: 2  VGRAIAKQRIACDLTQEAVAERLGIGLEAVSRMERGVVIPTVVRLFELADIFECDAADLL 61

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            + +  SD +S  N ++  +ST D
Sbjct: 62 TEASSRSSDQASHLNRLLSRLSTAD 86


>gi|229192127|ref|ZP_04319095.1| Transcriptional regulator, Cro/CI [Bacillus cereus ATCC 10876]
 gi|228591334|gb|EEK49185.1| Transcriptional regulator, Cro/CI [Bacillus cereus ATCC 10876]
          Length = 118

 Score = 40.8 bits (94), Expect = 0.069,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 34/63 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R    ++QEK+GE +G++ Q + KYEKG        ++ +++    P  + F
Sbjct: 4  IGERIFELRKERKLTQEKIGENIGVSKQTISKYEKGTKIPSRENIEKLADFFNVPTDYLF 63

Query: 75 DVS 77
            S
Sbjct: 64 GKS 66


>gi|123441735|ref|YP_001005719.1| putative prophage repressor protein [Yersinia enterocolitica subsp.
           enterocolitica 8081]
 gi|122088696|emb|CAL11500.1| putative prophage repressor protein [Yersinia enterocolitica subsp.
           enterocolitica 8081]
          Length = 240

 Score = 40.8 bits (94), Expect = 0.069,   Method: Compositional matrix adjust.
 Identities = 27/102 (26%), Positives = 53/102 (51%), Gaps = 9/102 (8%)

Query: 5   KKIPNPVDINVGKRIR----LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           KK   P  ++  KR++     ++  LG+SQE +   LG+    V ++  G+N +  +   
Sbjct: 3   KKPLTPEQLDDAKRLKELFNAKKKALGISQESVAHELGVGQSAVNQFLNGINPLNVTNAA 62

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
             ++VL  PIS F   SP++ ++++    ++   IS+P+ L 
Sbjct: 63  AFAKVLNEPISSF---SPSLATELAKMAESLS--ISSPNRLN 99


>gi|218960438|ref|YP_001740213.1| hypothetical protein CLOAM0093 [Candidatus Cloacamonas
          acidaminovorans]
 gi|167729095|emb|CAO80006.1| hypothetical protein CLOAM0093 [Candidatus Cloacamonas
          acidaminovorans]
          Length = 356

 Score = 40.8 bits (94), Expect = 0.070,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 37/61 (60%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NVG++I+  R  L +S ++L + LG+T   +  YE+G  +V    L  ISE+++ P+ +
Sbjct: 1  MNVGEKIKKYRKRLNISGKELAQKLGVTPALISYYEQGKRQVPLKTLMQISEIIKVPLEY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|328955378|ref|YP_004372711.1| XRE family transcriptional regulator [Coriobacterium glomerans
          PW2]
 gi|328455702|gb|AEB06896.1| transcriptional regulator, XRE family [Coriobacterium glomerans
          PW2]
          Length = 210

 Score = 40.4 bits (93), Expect = 0.071,   Method: Compositional matrix adjust.
 Identities = 23/65 (35%), Positives = 34/65 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I   R   G SQ +L + +G T QQ+ +YE G N V +S L  +S  L   IS+   + 
Sbjct: 5  KISEARHAKGWSQAELAKRIGTTQQQIARYESGDNDVKSSVLIKLSSALGVTISYLLGLE 64

Query: 78 PTVCS 82
           TV +
Sbjct: 65 NTVAA 69


>gi|332162334|ref|YP_004298911.1| putative prophage repressor protein [Yersinia enterocolitica
          subsp. palearctica 105.5R(r)]
 gi|318606400|emb|CBY27898.1| putative cI prophage repressor protein [Yersinia enterocolitica
          subsp. palearctica Y11]
 gi|325666564|gb|ADZ43208.1| putative prophage repressor protein [Yersinia enterocolitica
          subsp. palearctica 105.5R(r)]
          Length = 207

 Score = 40.4 bits (93), Expect = 0.071,   Method: Compositional matrix adjust.
 Identities = 23/85 (27%), Positives = 45/85 (52%), Gaps = 7/85 (8%)

Query: 5  KKIPNPVDINVGKRIR----LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          KK   P  ++  KR++     ++  LG+SQE +   LG+    V ++  G+N +  +   
Sbjct: 3  KKPLTPEQLDDAKRLKELFNAKKKALGISQESVAHELGVGQSAVNQFLNGINPLNVTNAA 62

Query: 61 HISEVLESPISFFFDVSPTVCSDIS 85
            ++VL  PIS F   SP++ ++++
Sbjct: 63 AFAKVLNEPISSF---SPSLATELA 84


>gi|331089018|ref|ZP_08337925.1| hypothetical protein HMPREF1025_01508 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|330406470|gb|EGG85983.1| hypothetical protein HMPREF1025_01508 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 126

 Score = 40.4 bits (93), Expect = 0.072,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 31/60 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           G  IR  R   G++Q+KLGE  GI    ++KYE G        LQ I++ L+ P++   
Sbjct: 5  TGDMIRKYRTEKGLTQKKLGELCGIADSNIRKYESGNQNPKIETLQKIADALDIPVNRLL 64


>gi|312976783|ref|ZP_07788532.1| putative zinc-binding transcriptional regulator, Cro/CI family
          [Lactobacillus crispatus CTV-05]
 gi|310896111|gb|EFQ45176.1| putative zinc-binding transcriptional regulator, Cro/CI family
          [Lactobacillus crispatus CTV-05]
          Length = 385

 Score = 40.4 bits (93), Expect = 0.073,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 34/68 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GKR++  R+   ++   L + +G++ Q + KYE     + ++  Q I +VL  P+ FF D
Sbjct: 12 GKRLKEARLFNHLTMSALADQIGVSKQAISKYEHNKIEISSAVFQKIVQVLNFPLYFFTD 71

Query: 76 VSPTVCSD 83
                 D
Sbjct: 72 FEKVPYQD 79


>gi|271502478|ref|YP_003335504.1| XRE family transcriptional regulator [Dickeya dadantii Ech586]
 gi|270346033|gb|ACZ78798.1| transcriptional regulator, XRE family [Dickeya dadantii Ech586]
          Length = 110

 Score = 40.4 bits (93), Expect = 0.077,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 36/62 (58%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R++ G+SQ+ LG   GI       ++ +YEKGV+       + ++E L  P+++
Sbjct: 13 QRLKDARLLRGLSQKGLGIAAGIDEFVASARINRYEKGVHEANIVTAKRLAEALNVPLAY 72

Query: 73 FF 74
          F+
Sbjct: 73 FY 74


>gi|260892586|ref|YP_003238683.1| helix-turn-helix domain protein [Ammonifex degensii KC4]
 gi|260864727|gb|ACX51833.1| helix-turn-helix domain protein [Ammonifex degensii KC4]
          Length = 349

 Score = 40.4 bits (93), Expect = 0.077,   Method: Compositional matrix adjust.
 Identities = 28/105 (26%), Positives = 51/105 (48%), Gaps = 6/105 (5%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G RI+  R+  G+S   L E +G++ Q + KYE+G++  G+  L  ++E L     +F
Sbjct: 10  QIGLRIKEARLSRGLSLRALAEKVGVSAQAISKYERGLDIPGSGVLLRLAEALGVKWEYF 69

Query: 74  FDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDV 113
                  C +      SS     +  I+T     L RY ++++D+
Sbjct: 70  IRPRRVECLEPAYRKRSSLPAKELKAITTRAKEHLERY-LEVEDL 113


>gi|225575479|ref|ZP_03784089.1| hypothetical protein RUMHYD_03569 [Blautia hydrogenotrophica DSM
          10507]
 gi|225037331|gb|EEG47577.1| hypothetical protein RUMHYD_03569 [Blautia hydrogenotrophica DSM
          10507]
          Length = 123

 Score = 40.4 bits (93), Expect = 0.077,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 34/72 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG++I+  R I G+SQ  LGE  GI    + KYE G       +L  I+  L   I+ 
Sbjct: 1  MTVGEKIKTFRTIRGISQNMLGELAGIGGTTILKYELGSQNPKPDQLLKIANALGVSINV 60

Query: 73 FFDVSPTVCSDI 84
            D      SD+
Sbjct: 61 LTDFDIETASDV 72


>gi|77404491|ref|YP_345067.1| Xre family DNA-binding protein [Rhodococcus erythropolis PR4]
 gi|77019872|dbj|BAE46247.1| putative Xre family DNA-binding protein [Rhodococcus erythropolis
          PR4]
          Length = 89

 Score = 40.4 bits (93), Expect = 0.077,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 37/66 (56%), Gaps = 2/66 (3%)

Query: 8  PNPVDINV--GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          P   D+ V  GKRIR+ R+  GM+Q +L +  G+    +++ EKG     AS+L  I+ V
Sbjct: 5  PTARDLAVELGKRIRIERVERGMAQLELVKRTGLADSTIRRIEKGTRDASASQLHTIAGV 64

Query: 66 LESPIS 71
             P+S
Sbjct: 65 FGMPLS 70


>gi|291544659|emb|CBL17768.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Ruminococcus sp. 18P13]
          Length = 208

 Score = 40.4 bits (93), Expect = 0.078,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 38/63 (60%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          +N+G+RI+  R  +  +Q++L + +G T Q V KYE G +  + + +++ I++ L    +
Sbjct: 1  MNIGERIKTARKEIDKTQQELADAIGTTKQNVYKYENGIITNIPSDKIEAIAKFLHVSPA 60

Query: 72 FFF 74
          + F
Sbjct: 61 YLF 63


>gi|228920891|ref|ZP_04084230.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
 gi|228838822|gb|EEM84124.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
          Length = 126

 Score = 40.4 bits (93), Expect = 0.078,   Method: Compositional matrix adjust.
 Identities = 28/103 (27%), Positives = 49/103 (47%), Gaps = 15/103 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R +  +SQ++L + LG+T  Q+ +YE+G        ++ I++        +F
Sbjct: 7   LGDRIRYLRELNNLSQKRLSDALGLTNTQLSRYERGERNPEPETIKLIAD--------YF 58

Query: 75  DVSPTVCSDISSEENNVM----DFISTPDGLQLNRYFIQIDDV 113
           DV+      +    NN+     DF +  D  +L  +F  I D 
Sbjct: 59  DVTTDY---LHGRTNNINYTNPDFKNILDDAELGLWFKDIKDA 98


>gi|322392726|ref|ZP_08066186.1| hypothetical transcriptional regulator [Streptococcus peroris
          ATCC 700780]
 gi|321144718|gb|EFX40119.1| hypothetical transcriptional regulator [Streptococcus peroris
          ATCC 700780]
          Length = 228

 Score = 40.4 bits (93), Expect = 0.079,   Method: Compositional matrix adjust.
 Identities = 15/57 (26%), Positives = 36/57 (63%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  L ++Q+++ + LGI+FQ    +E+GV      +++ + ++L+ P  +F
Sbjct: 5  EKLKARRKELKLTQKEIADQLGISFQAYSAWERGVKEPSEEKVKQLEKILKVPKGYF 61


>gi|45597387|ref|NP_996677.1| phage repressor [Lactococcus phage phiLC3]
 gi|21617869|gb|AAK07510.2|AF242738_1 phage repressor [Lactococcus phage phiLC3]
          Length = 286

 Score = 40.4 bits (93), Expect = 0.079,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 38/72 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R   G+SQE+L + +G+    +  YE G+      +L  +SEV +  I  FF
Sbjct: 10 VGSKIKDYRKSFGLSQEELAKKIGVGKTTISNYEVGIRSPKKPQLIKLSEVFDVAIDDFF 69

Query: 75 DVSPTVCSDISS 86
            + +   ++SS
Sbjct: 70 PQTDSTRMNVSS 81


>gi|330859120|emb|CBX69474.1| repressor protein CI [Yersinia enterocolitica W22703]
          Length = 144

 Score = 40.4 bits (93), Expect = 0.081,   Method: Compositional matrix adjust.
 Identities = 23/85 (27%), Positives = 45/85 (52%), Gaps = 7/85 (8%)

Query: 5  KKIPNPVDINVGKRIR----LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          KK   P  ++  KR++     ++  LG+SQE +   LG+    V ++  G+N +  +   
Sbjct: 3  KKPLTPEQLDDAKRLKELFNAKKKALGISQESVAHELGVGQSAVNQFLNGINPLNVTNAA 62

Query: 61 HISEVLESPISFFFDVSPTVCSDIS 85
            ++VL  PIS F   SP++ ++++
Sbjct: 63 AFAKVLNEPISSF---SPSLATELA 84


>gi|255972572|ref|ZP_05423158.1| predicted protein [Enterococcus faecalis T1]
 gi|256762720|ref|ZP_05503300.1| conserved hypothetical protein [Enterococcus faecalis T3]
 gi|257422398|ref|ZP_05599388.1| predicted protein [Enterococcus faecalis X98]
 gi|255963590|gb|EET96066.1| predicted protein [Enterococcus faecalis T1]
 gi|256683971|gb|EEU23666.1| conserved hypothetical protein [Enterococcus faecalis T3]
 gi|257164222|gb|EEU94182.1| predicted protein [Enterococcus faecalis X98]
          Length = 253

 Score = 40.4 bits (93), Expect = 0.081,   Method: Compositional matrix adjust.
 Identities = 20/57 (35%), Positives = 39/57 (68%), Gaps = 1/57 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLES 68
          +NVG+R++LRR  L +S +K+   LG++   + +YEKG + ++   RL  I+++L++
Sbjct: 12 MNVGERMKLRRKELNISADKIANELGVSRSTIFRYEKGDIEKLPTERLITIAKILKT 68


>gi|268590865|ref|ZP_06125086.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291313648|gb|EFE54101.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 112

 Score = 40.4 bits (93), Expect = 0.082,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 31/54 (57%), Gaps = 1/54 (1%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV 54
          M    K P P+   VG  +R RR+  G++   +G  L I+ QQV +YE+G NR+
Sbjct: 1  MANESKHP-PISHVVGGYLRRRRLDKGLTGRDVGRLLNISQQQVSRYERGSNRM 53


>gi|238797083|ref|ZP_04640586.1| Predicted transcriptional regulator [Yersinia mollaretii ATCC
          43969]
 gi|238719128|gb|EEQ10941.1| Predicted transcriptional regulator [Yersinia mollaretii ATCC
          43969]
          Length = 88

 Score = 40.4 bits (93), Expect = 0.083,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 32/51 (62%), Gaps = 4/51 (7%)

Query: 28 MSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          MSQ+KLG   G    +   ++ +YEKGV+ V  +    +++VLE P+++F+
Sbjct: 1  MSQKKLGIAAGLDEFVASTRINRYEKGVHEVSITTANQLAQVLEVPLAYFY 51


>gi|328477026|gb|EGF47309.1| transcriptional regulator [Lactobacillus rhamnosus MTCC 5462]
          Length = 106

 Score = 40.4 bits (93), Expect = 0.083,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 41/75 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L  S+E+L + +  + QQV ++EKG++     +L  IS+ LE  +    
Sbjct: 3  IGEQIKDRREALAWSKEELAQAVNGSVQQVSRWEKGISYPNIKQLIAISDRLELSLDNLI 62

Query: 75 DVSPTVCSDISSEEN 89
             P +   I  ++N
Sbjct: 63 QSDPKLQKTIQIDKN 77


>gi|238796818|ref|ZP_04640323.1| Prophage repressor protein [Yersinia mollaretii ATCC 43969]
 gi|238719306|gb|EEQ11117.1| Prophage repressor protein [Yersinia mollaretii ATCC 43969]
          Length = 240

 Score = 40.4 bits (93), Expect = 0.083,   Method: Compositional matrix adjust.
 Identities = 28/102 (27%), Positives = 52/102 (50%), Gaps = 9/102 (8%)

Query: 5   KKIPNPVDINVGKRIR----LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           KK   P  ++  KR++     ++  LG+SQE +   LG+    V ++  G+N +  +   
Sbjct: 3   KKPLTPEQLDDAKRLKELFNAKKKALGISQESVAHELGVGQSAVNQFLNGINPLNVTNAA 62

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
             ++VL  PIS F   SP++  +++    ++   IST  GL+
Sbjct: 63  AFAKVLNEPISSF---SPSLAKELAKMAESLS--ISTRSGLK 99


>gi|288561750|ref|YP_003429156.1| transcriptional regulator XRE [Bacillus pseudofirmus OF4]
 gi|288548382|gb|ADC52264.1| transcriptional regulator, XRE [Bacillus pseudofirmus OF4]
          Length = 292

 Score = 40.4 bits (93), Expect = 0.084,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 57/120 (47%), Gaps = 22/120 (18%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +++GK I+  R   G+SQ +L +  GI  Q  +   EKG N V A  L  I+E L   I+
Sbjct: 4   LDIGKNIKDLREYYGISQRELAK--GICTQPTISNIEKGENFVAAQLLHMIAERLGVDIN 61

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           +FF+++ T   D  +E                  Y+I++    VRQ      + ++SSEK
Sbjct: 62  YFFNIAETPKIDYMNE----------------TFYYIRL---YVRQGKFTEAKKLISSEK 102


>gi|13487804|ref|NP_108682.1| cI2009 [Lactococcus phage Tuc2009]
 gi|509672|gb|AAA21825.1| cI2009 [Bacteriophage Tuc2009]
          Length = 286

 Score = 40.4 bits (93), Expect = 0.085,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 38/72 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R   G+SQE+L + +G+    +  YE G+      +L  +SEV +  I  FF
Sbjct: 10 VGSKIKDYRKSFGLSQEELAKKIGVGKTTISNYEVGIRSPKKPQLIKLSEVFDVAIDDFF 69

Query: 75 DVSPTVCSDISS 86
            + +   ++SS
Sbjct: 70 PQTDSTRMNVSS 81


>gi|255690854|ref|ZP_05414529.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides finegoldii DSM 17565]
 gi|260623486|gb|EEX46357.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides finegoldii DSM 17565]
          Length = 132

 Score = 40.4 bits (93), Expect = 0.087,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 34/54 (62%), Gaps = 1/54 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +++GK+I   R + GM+Q +LGE LGIT Q V K E+   ++   RL+ I+  L
Sbjct: 12 LHLGKKIERVRRLRGMTQTELGELLGITKQAVSKMEQ-TEKIDDERLEKIASAL 64


>gi|199598993|ref|ZP_03212401.1| putative regulatory protein [Lactobacillus rhamnosus HN001]
 gi|199590101|gb|EDY98199.1| putative regulatory protein [Lactobacillus rhamnosus HN001]
          Length = 106

 Score = 40.4 bits (93), Expect = 0.087,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 41/75 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L  S+E+L + +  + QQV ++EKG++     +L  IS+ LE  +    
Sbjct: 3  IGEQIKDRREALAWSKEELAQAVNGSVQQVSRWEKGISYPNIKQLIAISDRLELSLDNLI 62

Query: 75 DVSPTVCSDISSEEN 89
             P +   I  ++N
Sbjct: 63 KSDPKLQKTIQIDKN 77


>gi|260596321|ref|YP_003208892.1| hypothetical protein CTU_05290 [Cronobacter turicensis z3032]
 gi|260215498|emb|CBA27640.1| hypothetical protein CTU_05290 [Cronobacter turicensis z3032]
          Length = 103

 Score = 40.4 bits (93), Expect = 0.088,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 36/62 (58%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R   G+SQ+KLG   GI       ++ +YEKGV++      + +++ L  P+++
Sbjct: 13 KRLKTAREAKGLSQKKLGILAGIDEFVASARINRYEKGVHQASIEIARKLADALAVPLAY 72

Query: 73 FF 74
          F+
Sbjct: 73 FY 74


>gi|319650688|ref|ZP_08004827.1| hypothetical protein HMPREF1013_01432 [Bacillus sp. 2_A_57_CT2]
 gi|317397545|gb|EFV78244.1| hypothetical protein HMPREF1013_01432 [Bacillus sp. 2_A_57_CT2]
          Length = 294

 Score = 40.4 bits (93), Expect = 0.090,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 39/66 (59%), Gaps = 3/66 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RIR  R ++ +SQ +L +  GI  Q Q+ K EKG     AS L  ISE L   +++F
Sbjct: 6  IGQRIRELRKLMNLSQGELAK--GICTQAQISKIEKGDVYPYASTLYLISERLGVDVNYF 63

Query: 74 FDVSPT 79
          FD+  T
Sbjct: 64 FDIGTT 69


>gi|307133108|ref|YP_003885124.1| transcriptional regulator [Dickeya dadantii 3937]
 gi|306530637|gb|ADN00568.1| Transcriptional regulator [Dickeya dadantii 3937]
          Length = 112

 Score = 40.4 bits (93), Expect = 0.090,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 36/62 (58%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R++ G+SQ+ LG   GI       ++ +YEKGV+       + ++E L  P+++
Sbjct: 20 QRLKDARLLRGLSQKGLGIAAGIDEFVASARINRYEKGVHEANIVTAKRLAEALNVPLAY 79

Query: 73 FF 74
          F+
Sbjct: 80 FY 81


>gi|315167306|gb|EFU11323.1| peptidase S24-like domain protein [Enterococcus faecalis TX1341]
          Length = 273

 Score = 40.4 bits (93), Expect = 0.091,   Method: Compositional matrix adjust.
 Identities = 20/57 (35%), Positives = 39/57 (68%), Gaps = 1/57 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLES 68
          +NVG+R++LRR  L +S +K+   LG++   + +YEKG + ++   RL  I+++L++
Sbjct: 32 MNVGERMKLRRKELNISADKIANELGVSRSTIFRYEKGDIEKLPTERLITIAKILKT 88


>gi|210620995|ref|ZP_03292380.1| hypothetical protein CLOHIR_00323 [Clostridium hiranonis DSM
          13275]
 gi|210154979|gb|EEA85985.1| hypothetical protein CLOHIR_00323 [Clostridium hiranonis DSM
          13275]
          Length = 362

 Score = 40.4 bits (93), Expect = 0.091,   Method: Compositional matrix adjust.
 Identities = 22/78 (28%), Positives = 45/78 (57%), Gaps = 4/78 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ + I+ +R  L ++QE+L   LG++   V K+E G +    + L +++++L++ I+ 
Sbjct: 1  MNINQIIKEKRKALSLTQEQLANQLGVSTPAVSKWESGASYPDITILPNLAKILKTDINT 60

Query: 73 FFDVSPTVCSDISSEENN 90
                +  SD+S EE N
Sbjct: 61 LL----SFQSDLSDEEIN 74


>gi|160902585|ref|YP_001568166.1| XRE family transcriptional regulator [Petrotoga mobilis SJ95]
 gi|160360229|gb|ABX31843.1| transcriptional regulator, XRE family [Petrotoga mobilis SJ95]
          Length = 105

 Score = 40.4 bits (93), Expect = 0.091,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 3/74 (4%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF---D 75
          I+ RR+ +G++Q+ L E +G T   + K+EKG        LQ ++EVL   I  +F   D
Sbjct: 23 IKKRRLQMGITQKDLAERMGTTQAIISKFEKGNYNPTYLFLQRLTEVLGGSIKLYFEPRD 82

Query: 76 VSPTVCSDISSEEN 89
                 D+S  +N
Sbjct: 83 DKEINSDDVSKNDN 96


>gi|330831318|ref|YP_004394270.1| putative Zn peptidase [Aeromonas veronii B565]
 gi|328806454|gb|AEB51653.1| Putative Zn peptidase [Aeromonas veronii B565]
          Length = 375

 Score = 40.0 bits (92), Expect = 0.094,   Method: Compositional matrix adjust.
 Identities = 28/122 (22%), Positives = 57/122 (46%), Gaps = 6/122 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R+RL R++ G + ++LGE + ++ Q + +YE  +    +     ++E L     FF  
Sbjct: 7   GERLRLARILNGFTLQELGEAVSVSRQSIHQYESDIRAPASDVTNALAEYLRVQPDFF-- 64

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
               +  D+  E+ +     +TP G++     +Q     + Q + EL   +   E K+  
Sbjct: 65  -ERPLSGDVKPEQCHFRKRQTTPVGVKER---VQAYSTILEQLVTELHEHLDMPENKFNL 120

Query: 136 IE 137
           I+
Sbjct: 121 ID 122


>gi|119490385|ref|ZP_01622863.1| hypothetical protein L8106_13825 [Lyngbya sp. PCC 8106]
 gi|119454044|gb|EAW35198.1| hypothetical protein L8106_13825 [Lyngbya sp. PCC 8106]
          Length = 79

 Score = 40.0 bits (92), Expect = 0.094,   Method: Compositional matrix adjust.
 Identities = 19/44 (43%), Positives = 25/44 (56%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          +P    I +   IR  R+ LG+SQ K GE LG+ FQ V  +E G
Sbjct: 1  MPVATTIEIPTLIRTLRLRLGLSQRKFGEQLGVVFQTVNNWENG 44


>gi|331659971|ref|ZP_08360909.1| transcriptional regulator, HTH_3 family [Escherichia coli TA206]
 gi|315296978|gb|EFU56258.1| helix-turn-helix protein [Escherichia coli MS 16-3]
 gi|331053186|gb|EGI25219.1| transcriptional regulator, HTH_3 family [Escherichia coli TA206]
          Length = 370

 Score = 40.0 bits (92), Expect = 0.097,   Method: Compositional matrix adjust.
 Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 7/73 (9%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG--VNRVGASRLQHISEVLESPISFFF 74
          +R+R+ R   G++Q  L E   +T + +  YEK    + + +  ++ IS VL  PI FF 
Sbjct: 5  ERLRIARERRGLTQRALAEATELTSKTISNYEKAGIFDAIASDTMERISAVLGYPIEFFL 64

Query: 75 D-----VSPTVCS 82
          D     +SP   S
Sbjct: 65 DRDVPTLSPEAVS 77


>gi|212711630|ref|ZP_03319758.1| hypothetical protein PROVALCAL_02705 [Providencia alcalifaciens
          DSM 30120]
 gi|212685732|gb|EEB45260.1| hypothetical protein PROVALCAL_02705 [Providencia alcalifaciens
          DSM 30120]
          Length = 95

 Score = 40.0 bits (92), Expect = 0.098,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +IR  R   G+S +KL E +GI+ Q + +YE G   +    L H S +     ++FF
Sbjct: 9  VGLKIRALRESRGISGKKLSELMGISQQHLSRYENGDVNIHVDTLYHFSLIFSVDPAYFF 68


>gi|167620618|ref|ZP_02389249.1| helix-turn-helix domain protein [Burkholderia thailandensis Bt4]
          Length = 114

 Score = 40.0 bits (92), Expect = 0.10,   Method: Compositional matrix adjust.
 Identities = 23/85 (27%), Positives = 45/85 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ I  +R+I G++Q+K+ E LGI  + V + E+GV      RL  ++++ +   +   
Sbjct: 5  VGRAIAKQRVISGLTQDKVAERLGIGLEAVSRMERGVVIPTVVRLFELADIFQCDAADLL 64

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            + +  SD +S    ++  +S  D
Sbjct: 65 TEASSRSSDQASHLTRLLSRLSAAD 89


>gi|54022032|ref|YP_116274.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
 gi|54013540|dbj|BAD54910.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
          Length = 202

 Score = 40.0 bits (92), Expect = 0.10,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 40/74 (54%), Gaps = 1/74 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G+ IR RR  LG+ Q +L E +G+T +Q+ +YE G     AS  + ++  L    +  
Sbjct: 4  DIGEIIRDRREALGLGQRELSERVGVTERQIGRYESGAQEPAASTCRLLARALHLSFAQL 63

Query: 74 FDVSPTVCSDISSE 87
          F   P +  D+S +
Sbjct: 64 FGEVP-IGLDLSGQ 76


>gi|256024105|ref|ZP_05437970.1| Repressor protein C2 [Escherichia sp. 4_1_40B]
          Length = 208

 Score = 40.0 bits (92), Expect = 0.10,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 33/60 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+RI+  R + G SQ++LG+  G++   V  +EK +N  G   L  +++   + I +  
Sbjct: 4  VGQRIKALRRVTGTSQKELGKFCGVSDVAVGYWEKDINTPGGEALSKLAKFFNTSIDYIL 63


>gi|116617221|ref|YP_817592.1| hypothetical protein LEUM_0067 [Leuconostoc mesenteroides subsp.
          mesenteroides ATCC 8293]
 gi|116096068|gb|ABJ61219.1| hypothetical protein LEUM_0067 [Leuconostoc mesenteroides subsp.
          mesenteroides ATCC 8293]
          Length = 240

 Score = 40.0 bits (92), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 22/82 (26%), Positives = 42/82 (51%), Gaps = 1/82 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R   G++Q++  E L I+FQ V  +E+         +  I E  + P+ FF 
Sbjct: 3  IGNKIKALRKKNGLTQQQFAEKLYISFQSVSNWERHKGHPTTEMMLLIIEKFDLPLDFFI 62

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
           + PT   + + EE  ++ F++
Sbjct: 63 -IPPTNSCEDNDEELILLSFLA 83


>gi|307273982|ref|ZP_07555192.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|306509290|gb|EFM78350.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
          Length = 111

 Score = 40.0 bits (92), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 26/87 (29%), Positives = 41/87 (47%), Gaps = 3/87 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
            K IR +R  LG +Q++L + +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 7   AKVIREKRKALGWTQKELAKKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
               V  D   E   +   +ST D ++
Sbjct: 67  ---NVVVDYEEEFLALYRSLSTEDAIR 90


>gi|153971519|ref|YP_001393059.1| DNA-binding protein RDGA [Vibrio vulnificus]
 gi|153971715|ref|YP_001393216.1| DNA-binding protein RDGA [Vibrio vulnificus]
 gi|152955041|emb|CAL25393.1| DNA-binding protein RDGA [Vibrio vulnificus]
 gi|152955200|emb|CAL25550.1| DNA-binding protein RDGA [Vibrio vulnificus]
          Length = 208

 Score = 40.0 bits (92), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 1/77 (1%)

Query: 13 INVGKRIR-LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G RI+ LR   L +S+++LG  LG++   V ++E GVN     RL  +S VL++   
Sbjct: 1  MSLGGRIKKLREESLHISKKELGAILGVSQSAVNQWENGVNYPSQKRLIELSRVLKTTYE 60

Query: 72 FFFDVSPTVCSDISSEE 88
          +  + + +  +D S  E
Sbjct: 61 WLVNGTTSSHNDGSEYE 77


>gi|281492863|ref|YP_003354843.1| phage Cro/CI transcriptional regulator [Lactococcus lactis subsp.
          lactis KF147]
 gi|281376515|gb|ADA66001.1| Phage protein, transcriptional regulator, Cro/CI family
          [Lactococcus lactis subsp. lactis KF147]
          Length = 203

 Score = 40.0 bits (92), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 21/57 (36%), Positives = 32/57 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RI++ R   G+SQ++L + LG+T Q V  YEKG        L  IS++L  P  + 
Sbjct: 2  ERIKIARQKKGISQKELADLLGLTQQAVSYYEKGSRIPDEHILSVISDILNVPTEYL 58


>gi|153816336|ref|ZP_01969004.1| hypothetical protein RUMTOR_02588 [Ruminococcus torques ATCC
          27756]
 gi|145846297|gb|EDK23215.1| hypothetical protein RUMTOR_02588 [Ruminococcus torques ATCC
          27756]
          Length = 126

 Score = 40.0 bits (92), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 31/60 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           G  IR  R   G++Q+KLGE  GI    ++KYE G        LQ I++ L+ P++   
Sbjct: 5  TGDMIRKCRTEKGLTQKKLGELCGIADSNIRKYESGNQNPKIETLQKIADALDIPVNRLL 64


>gi|197286070|ref|YP_002151942.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227356586|ref|ZP_03840973.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|194683557|emb|CAR44421.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227163342|gb|EEI48269.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 102

 Score = 40.0 bits (92), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 35/61 (57%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  IR  R+   ++  +LGE L ++ QQ+ +YE G+  +    L  I ++L++  S F
Sbjct: 17 NIGNFIRESRIRKSLTGAQLGELLDVSQQQISRYENGITSINIETLDMILKLLDADWSEF 76

Query: 74 F 74
          +
Sbjct: 77 Y 77


>gi|21231057|ref|NP_636974.1| hypothetical protein XCC1604 [Xanthomonas campestris pv.
          campestris str. ATCC 33913]
 gi|66768938|ref|YP_243700.1| hypothetical protein XC_2631 [Xanthomonas campestris pv.
          campestris str. 8004]
 gi|21112686|gb|AAM40898.1| conserved hypothetical protein [Xanthomonas campestris pv.
          campestris str. ATCC 33913]
 gi|66574270|gb|AAY49680.1| conserved hypothetical protein [Xanthomonas campestris pv.
          campestris str. 8004]
          Length = 113

 Score = 40.0 bits (92), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 21/74 (28%), Positives = 40/74 (54%), Gaps = 6/74 (8%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGIT-----FQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G R+R  RM +G +Q +L E +G+        +V +YE G +    +  + +++ L+ P+
Sbjct: 12 GTRLRHARMAMGWTQAELAERIGMVDSVSGATRVSRYETGQHDPDPATAEALAKALKLPV 71

Query: 71 SFFFDVSPTVCSDI 84
          ++F   S  V +DI
Sbjct: 72 AYFHATS-DVLADI 84


>gi|229194032|ref|ZP_04320926.1| Transcriptional regulator, MerR [Bacillus cereus ATCC 10876]
 gi|228589432|gb|EEK47357.1| Transcriptional regulator, MerR [Bacillus cereus ATCC 10876]
          Length = 184

 Score = 40.0 bits (92), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 37/77 (48%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DINVG +I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  DINVGHKIMAFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D ++EE
Sbjct: 63 NFF------LEDTNTEE 73


>gi|166032918|ref|ZP_02235747.1| hypothetical protein DORFOR_02639 [Dorea formicigenerans ATCC
          27755]
 gi|166027275|gb|EDR46032.1| hypothetical protein DORFOR_02639 [Dorea formicigenerans ATCC
          27755]
          Length = 298

 Score = 40.0 bits (92), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 33/54 (61%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I +GK I  +R  LGM+Q++L E LG++ + V K+E+GV     S  + +  +L
Sbjct: 4  IKIGKYIASKRKSLGMTQKQLAEKLGMSDKSVSKWERGVCLPDVSVYKELCSIL 57


>gi|322412563|gb|EFY03471.1| phage transcriptional repressor [Streptococcus dysgalactiae
          subsp. dysgalactiae ATCC 27957]
          Length = 248

 Score = 40.0 bits (92), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 43/68 (63%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          +++G +++ RR+ + +S E+L + LG++   + +YEKG + +V    L+ IS++L +  +
Sbjct: 1  MDIGAKLKQRRLEVNVSVEELAKKLGVSKTTIYRYEKGEILKVPTEVLEKISKILNTNPA 60

Query: 72 FFFDVSPT 79
          +F   S T
Sbjct: 61 YFMGWSDT 68


>gi|320546716|ref|ZP_08041027.1| transcriptional regulator [Streptococcus equinus ATCC 9812]
 gi|320448595|gb|EFW89327.1| transcriptional regulator [Streptococcus equinus ATCC 9812]
          Length = 228

 Score = 40.0 bits (92), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 35/57 (61%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR+ LG+ Q +L + LGI+ Q    +EKG ++   + L  + E+L+ P  +F
Sbjct: 5  EKLKNRRLELGLKQTELAKQLGISKQSYFAWEKGTSQPTKANLLKLEELLQVPHGYF 61


>gi|50122315|ref|YP_051482.1| putative prophage regulatory ptotein [Pectobacterium atrosepticum
          SCRI1043]
 gi|49612841|emb|CAG76291.1| putative prophage regulatory ptotein [Pectobacterium atrosepticum
          SCRI1043]
          Length = 133

 Score = 40.0 bits (92), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 36/66 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RI   R   G++Q +L E LG++ Q VQ +E G  R+  S L  ++++    +  
Sbjct: 24 MALGERITTLRKERGITQAELAEKLGVSQQTVQAWEAGRRRIKVSSLPSVAQIFSVSLEE 83

Query: 73 FFDVSP 78
           F  +P
Sbjct: 84 VFGEAP 89


>gi|189009165|ref|YP_001928047.1| putative transcriptional regulator [Klebsiella pneumoniae]
 gi|171850706|gb|ACB55445.1| putative transcriptional regulator [Klebsiella pneumoniae]
          Length = 119

 Score = 40.0 bits (92), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 24/64 (37%), Positives = 36/64 (56%), Gaps = 4/64 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V KR++  R  +G+SQEKL E +GI    T  ++  YE G      S +Q I++VL  P 
Sbjct: 2  VPKRLKEARKAVGLSQEKLSELIGIEGVSTRSRLSSYEIGRTEPPFSLVQKIADVLGYPE 61

Query: 71 SFFF 74
           +F+
Sbjct: 62 YYFY 65


>gi|228904583|ref|ZP_04068659.1| hypothetical protein bthur0014_57190 [Bacillus thuringiensis IBL
          4222]
 gi|228855064|gb|EEM99647.1| hypothetical protein bthur0014_57190 [Bacillus thuringiensis IBL
          4222]
          Length = 394

 Score = 40.0 bits (92), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++L R    MS   L E L I+ Q + KYEK ++  G   +  +  VL  P  F+F+
Sbjct: 8  GERLKLARRFNAMSLLDLAEKLSISKQMISKYEKNISPPGGEIMLQLEGVLGFPRKFYFE 67


>gi|84687357|ref|ZP_01015236.1| putative transcriptional regulator [Maritimibacter alkaliphilus
           HTCC2654]
 gi|114762538|ref|ZP_01441982.1| putative transcriptional regulator [Pelagibaca bermudensis
           HTCC2601]
 gi|84664654|gb|EAQ11139.1| putative transcriptional regulator [Rhodobacterales bacterium
           HTCC2654]
 gi|114544793|gb|EAU47798.1| putative transcriptional regulator [Roseovarius sp. HTCC2601]
          Length = 124

 Score = 40.0 bits (92), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 24/95 (25%), Positives = 49/95 (51%), Gaps = 4/95 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+R  R  LG+ Q+++ + L I    + + E G  RV A  L  ++++   P+++F 
Sbjct: 18  MGERLREARRYLGLKQDEVAQYLKIQRTALSEIEAGNRRVEALELNRLAKLYRQPVAYFI 77

Query: 75  ---DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
              D + ++  D++       D +S  D  +L R+
Sbjct: 78  GEDDAAGSLPVDVAHLARQAAD-LSRQDRDELGRF 111


>gi|325923357|ref|ZP_08185028.1| Helix-turn-helix protein [Xanthomonas gardneri ATCC 19865]
 gi|325546177|gb|EGD17360.1| Helix-turn-helix protein [Xanthomonas gardneri ATCC 19865]
          Length = 94

 Score = 40.0 bits (92), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 21/78 (26%), Positives = 41/78 (52%), Gaps = 9/78 (11%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGA 56
          MV  +++P        +R+R  R + G+SQ  LG   G    +   +V +YE GV++   
Sbjct: 1  MVEKRQLPV-----YSRRLREARQVYGLSQRNLGIKAGLDDFVASTRVNRYETGVHQPDL 55

Query: 57 SRLQHISEVLESPISFFF 74
            +Q ++  L+ P+++F+
Sbjct: 56 QTIQRLANALDVPVAYFY 73


>gi|238790799|ref|ZP_04634557.1| hypothetical protein yfred0001_12660 [Yersinia frederiksenii ATCC
          33641]
 gi|238721114|gb|EEQ12796.1| hypothetical protein yfred0001_12660 [Yersinia frederiksenii ATCC
          33641]
          Length = 234

 Score = 40.0 bits (92), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 31/49 (63%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          RIR+RR+ L ++Q +L + +G++   V K+E G+ +     L  +++VL
Sbjct: 22 RIRIRRLQLDLTQVQLAKAIGVSRVSVTKWESGITKPDGENLHRLAQVL 70


>gi|310640682|ref|YP_003945440.1| transcriptional regulator, xre family [Paenibacillus polymyxa SC2]
 gi|309245632|gb|ADO55199.1| Transcriptional regulator, XRE family [Paenibacillus polymyxa SC2]
          Length = 122

 Score = 39.7 bits (91), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 26/99 (26%), Positives = 45/99 (45%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N G RI   R   G+ QE+L + LGIT   +  YEK   +     L  ++++ E  I +
Sbjct: 1   MNYGTRIAELREHKGLKQEELAQSLGITRAALSHYEKNRRKPDFETLTKLADIFEVTIDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               +    + + S+    +D +   D   L R+ + ID
Sbjct: 61  LVGRTSHPTAILDSDVREFVDQLELSDENILQRFNLTID 99


>gi|291548676|emb|CBL24938.1| Helix-turn-helix [Ruminococcus torques L2-14]
          Length = 129

 Score = 39.7 bits (91), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 39/68 (57%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+RI+ RR  LGMSQE+L   +G   +  + K E G+  +  S+++ I++ L++  +
Sbjct: 1  MTIGERIKARRDELGMSQEELAHKIGYKSKTSINKIELGIQELRQSKIKQIADALQTTPA 60

Query: 72 FFFDVSPT 79
          +      T
Sbjct: 61 YIMGWKET 68


>gi|238788598|ref|ZP_04632390.1| Prophage repressor protein [Yersinia frederiksenii ATCC 33641]
 gi|238723193|gb|EEQ14841.1| Prophage repressor protein [Yersinia frederiksenii ATCC 33641]
          Length = 240

 Score = 39.7 bits (91), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 28/102 (27%), Positives = 51/102 (50%), Gaps = 9/102 (8%)

Query: 5   KKIPNPVDINVGKRIR----LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           KK   P  ++  KR++     ++  LG+SQE +   LG+    V ++  G+N +  +   
Sbjct: 3   KKPLTPEQLDDAKRLKELFNAKKKALGISQESVAHELGVGQSAVNQFLNGINPLNVTNAA 62

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
             ++VL  PIS F   SP++  +++    ++   IST  GL 
Sbjct: 63  AFAKVLNEPISSF---SPSLAKELAKMAESLS--ISTRSGLN 99


>gi|319936291|ref|ZP_08010709.1| hypothetical protein HMPREF9488_01542 [Coprobacillus sp. 29_1]
 gi|319808667|gb|EFW05211.1| hypothetical protein HMPREF9488_01542 [Coprobacillus sp. 29_1]
          Length = 142

 Score = 39.7 bits (91), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 43/88 (48%), Gaps = 15/88 (17%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQ-----VQKYEKGVNRVGASRLQHISEVLE 67
          +N+GKRI+  RM+ GM QE+L   +G+ + +     + +YE G        L+ ISE L 
Sbjct: 1  MNIGKRIKYVRMLRGMRQEELAGKVGLGYNENGRTRISQYENGKRTPKEDMLEKISEAL- 59

Query: 68 SPISFFFDVSPTVCSDISSEENNVMDFI 95
                 +V     S  + E   ++DFI
Sbjct: 60 -------NVESYYLS--TKEHTAILDFI 78


>gi|283835271|ref|ZP_06355012.1| toxin-antitoxin system, antitoxin component, Xre family
          [Citrobacter youngae ATCC 29220]
 gi|291068429|gb|EFE06538.1| toxin-antitoxin system, antitoxin component, Xre family
          [Citrobacter youngae ATCC 29220]
          Length = 108

 Score = 39.7 bits (91), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 36/62 (58%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R+  G+SQ++LG   GI       ++ +YEKGV+      +  +S VL  P+++
Sbjct: 13 RRLKQARLASGLSQKRLGIAAGIDEFVASTRINRYEKGVHEPNTEIVLKLSAVLRVPVAY 72

Query: 73 FF 74
          F+
Sbjct: 73 FY 74


>gi|46019830|emb|CAE52354.1| putative transcriptional regulator [Streptococcus thermophilus]
          Length = 228

 Score = 39.7 bits (91), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 14/60 (23%), Positives = 37/60 (61%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L ++Q+ + + LGI++Q    +E+GV      +++ + ++L+ P  +F ++
Sbjct: 5  EKLKARRKELKLTQKNIADQLGISYQAYSAWERGVKEPSKEKVKRLEQILKVPRGYFTEI 64


>gi|150378020|ref|YP_001314615.1| XRE family transcriptional regulator [Sinorhizobium medicae WSM419]
 gi|150032567|gb|ABR64682.1| transcriptional regulator, XRE family [Sinorhizobium medicae
           WSM419]
          Length = 219

 Score = 39.7 bits (91), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 25/97 (25%), Positives = 44/97 (45%), Gaps = 9/97 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L +  G++   + K E G      + LQ +S+ L  
Sbjct: 29  NNLEMAIGHEVRTYRKKLGITVADLAQATGMSIGMLSKIENGNISPSLTTLQALSKALGV 88

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P++ FF            EE N   F+   +G+ L R
Sbjct: 89  PLTAFFR---------GFEEPNSASFVKAGEGVNLER 116


>gi|257084636|ref|ZP_05578997.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          Fly1]
 gi|256992666|gb|EEU79968.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          Fly1]
          Length = 246

 Score = 39.7 bits (91), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 20/73 (27%), Positives = 43/73 (58%), Gaps = 2/73 (2%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQ-VQKYEKGVNRVGASRLQHISEV 65
          IPN  +I  G RI++ R  L ++ ++  + +G++ +  V ++EKG ++   + ++ ISE+
Sbjct: 7  IPNS-NIEFGNRIKVVRTDLNLTMDEFAKRIGVSGKSTVNEWEKGRSKPNKNAMKKISEI 65

Query: 66 LESPISFFFDVSP 78
             P+ +F+   P
Sbjct: 66 SNVPLEWFYFGDP 78


>gi|126179337|ref|YP_001047302.1| hypothetical protein Memar_1391 [Methanoculleus marisnigri JR1]
 gi|125862131|gb|ABN57320.1| protein of unknown function DUF955 [Methanoculleus marisnigri
          JR1]
          Length = 342

 Score = 39.7 bits (91), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 35/62 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RI+  R+  G+SQ  L E +G++   + KYE G     +  L  +SE+L   + +
Sbjct: 1  MTIGERIKSARIGAGLSQRNLAEKMGLSAMAISKYENGEVTPRSGLLIQMSEMLGVNVDY 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|325830857|ref|ZP_08164241.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|325487264|gb|EGC89707.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 197

 Score = 39.7 bits (91), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 32/62 (51%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  IR  R   G++Q +L + LG+T + V K+E+G        L  +SE L +P+   
Sbjct: 5  NTGTLIRALREERGLTQRQLADALGVTDKAVSKWERGGGCPDVELLPGLSERLGTPVETL 64

Query: 74 FD 75
           D
Sbjct: 65 LD 66


>gi|307277179|ref|ZP_07558283.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|306506109|gb|EFM75275.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|323481377|gb|ADX80816.1| helix-turn-helix family protein [Enterococcus faecalis 62]
          Length = 111

 Score = 39.7 bits (91), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 26/87 (29%), Positives = 41/87 (47%), Gaps = 3/87 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
            K IR +R  LG +Q++L + +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 7   AKVIREKRKALGWTQKELAKKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
               V  D   E   +   +ST D ++
Sbjct: 67  ---NVVVDYEEEFLALYRSLSTEDAVR 90


>gi|75762322|ref|ZP_00742202.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|218897473|ref|YP_002445884.1| DNA-binding protein [Bacillus cereus G9842]
 gi|228904512|ref|ZP_04068598.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 4222]
 gi|74490185|gb|EAO53521.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|218544400|gb|ACK96794.1| DNA-binding protein [Bacillus cereus G9842]
 gi|228855117|gb|EEM99690.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 4222]
          Length = 184

 Score = 39.7 bits (91), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  NINVGQKIMAFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D S+EE
Sbjct: 63 NFF------LEDTSTEE 73


>gi|332654251|ref|ZP_08419995.1| putative transcriptional regulator [Ruminococcaceae bacterium
          D16]
 gi|332517337|gb|EGJ46942.1| putative transcriptional regulator [Ruminococcaceae bacterium
          D16]
          Length = 230

 Score = 39.7 bits (91), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 20/50 (40%), Positives = 29/50 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +RI L R   G+SQE+LGE LG++ Q V K+E G N    + L  +  + 
Sbjct: 5  ERIALARKQAGLSQEQLGEKLGVSRQAVSKWESGQNNPDVAYLAEMCRLF 54


>gi|256832506|ref|YP_003161233.1| transcriptional regulator, XRE family [Jonesia denitrificans DSM
          20603]
 gi|256686037|gb|ACV08930.1| transcriptional regulator, XRE family [Jonesia denitrificans DSM
          20603]
          Length = 212

 Score = 39.7 bits (91), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 8/77 (10%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ +R RRM LG+SQ +L   +G T Q + ++E+  N V    L H   VL +      
Sbjct: 9  LGRLVRARRMELGLSQSELAARVGSTRQWLSRFEQATNDVS---LTHALAVLHA-----L 60

Query: 75 DVSPTVCSDISSEENNV 91
          D+S  V S  +S E + 
Sbjct: 61 DLSIEVPSPRASTEADA 77


>gi|238761971|ref|ZP_04622944.1| Prophage repressor protein [Yersinia kristensenii ATCC 33638]
 gi|238699699|gb|EEP92443.1| Prophage repressor protein [Yersinia kristensenii ATCC 33638]
          Length = 240

 Score = 39.7 bits (91), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 23/85 (27%), Positives = 44/85 (51%), Gaps = 7/85 (8%)

Query: 5  KKIPNPVDINVGKRIR----LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          KK   P  ++  KR++     ++  LG+SQE +   LG+    V ++  G+N +  +   
Sbjct: 3  KKPLTPEQLDDAKRLKELFNAKKKALGISQESVAHELGVGQSAVNQFLNGINPLNVTNAA 62

Query: 61 HISEVLESPISFFFDVSPTVCSDIS 85
            ++VL  PIS F   SP++  +++
Sbjct: 63 AFAKVLNEPISSF---SPSLAKELA 84


>gi|50842706|ref|YP_055933.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase
           [Propionibacterium acnes KPA171202]
 gi|50840308|gb|AAT82975.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase
           [Propionibacterium acnes KPA171202]
 gi|332675629|gb|AEE72445.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase
           [Propionibacterium acnes 266]
          Length = 548

 Score = 39.7 bits (91), Expect = 0.13,   Method: Composition-based stats.
 Identities = 21/64 (32%), Positives = 32/64 (50%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + N    +VG+ IR  R   GM+Q +L E L  +   + + E G   +    +  I+E L
Sbjct: 41  VDNITPASVGRLIRDARKQHGMTQNQLAEILKTSQSAIHRVESGTQNLSLEYINRIAEAL 100

Query: 67  ESPI 70
           ESPI
Sbjct: 101 ESPI 104


>gi|307947259|ref|ZP_07662593.1| helix-turn-helix domain-containing protein [Roseibium sp.
           TrichSKD4]
 gi|307769401|gb|EFO28628.1| helix-turn-helix domain-containing protein [Roseibium sp.
           TrichSKD4]
          Length = 181

 Score = 39.7 bits (91), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 22/86 (25%), Positives = 41/86 (47%), Gaps = 1/86 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SP 69
           +D  +   +  RR   GM++      +G++     +YE  ++R+  SRL H+SE+L   P
Sbjct: 43  IDAKLADFLTERREKTGMTKGDFAALIGLSRMVYGRYELNISRLTVSRLVHLSELLGFQP 102

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFI 95
           +      +P +    S E N+  + I
Sbjct: 103 LEMIHACAPHLFGKTSQEANDRAELI 128


>gi|228949497|ref|ZP_04111751.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|228810220|gb|EEM56587.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
          Length = 184

 Score = 39.7 bits (91), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  NINVGQKIMAFRKAAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D ++EE
Sbjct: 63 NFF------LEDTNTEE 73


>gi|262282005|ref|ZP_06059774.1| conserved hypothetical protein [Streptococcus sp. 2_1_36FAA]
 gi|262262459|gb|EEY81156.1| conserved hypothetical protein [Streptococcus sp. 2_1_36FAA]
          Length = 190

 Score = 39.7 bits (91), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 18/56 (32%), Positives = 32/56 (57%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I+  R+  GM+Q++L + +G+T Q +  YEKG       RL+ I++ L+  +   F
Sbjct: 18 IKSARLKAGMTQKELAKIIGVTKQTIINYEKGTTDPSWERLEDIAKALKVDVDALF 73


>gi|254390105|ref|ZP_05005326.1| hypothetical protein SSCG_02653 [Streptomyces clavuligerus ATCC
           27064]
 gi|294813466|ref|ZP_06772109.1| Transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|197703813|gb|EDY49625.1| hypothetical protein SSCG_02653 [Streptomyces clavuligerus ATCC
           27064]
 gi|294326065|gb|EFG07708.1| Transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
          Length = 466

 Score = 39.7 bits (91), Expect = 0.14,   Method: Composition-based stats.
 Identities = 21/64 (32%), Positives = 35/64 (54%), Gaps = 9/64 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG---------VNRVGASRLQHISEV 65
           +G+RI+ RR+ LGM Q  LG  +G +   V K EKG         +N + A+   H +++
Sbjct: 60  IGRRIKRRRLALGMPQADLGAAVGQSQGWVSKVEKGRIELDRAALINSIAAALHCHPNDL 119

Query: 66  LESP 69
           ++ P
Sbjct: 120 IDRP 123


>gi|258543250|ref|YP_003188683.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-01]
 gi|329114057|ref|ZP_08242821.1| Hypothetical protein APO_0832 [Acetobacter pomorum DM001]
 gi|256634328|dbj|BAI00304.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-01]
 gi|256637386|dbj|BAI03355.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-03]
 gi|256640438|dbj|BAI06400.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-07]
 gi|256643495|dbj|BAI09450.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-22]
 gi|256646550|dbj|BAI12498.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-26]
 gi|256649603|dbj|BAI15544.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-32]
 gi|256652591|dbj|BAI18525.1| transcriptional regulator [Acetobacter pasteurianus IFO
           3283-01-42C]
 gi|256655647|dbj|BAI21574.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-12]
 gi|326696596|gb|EGE48273.1| Hypothetical protein APO_0832 [Acetobacter pomorum DM001]
          Length = 122

 Score = 39.7 bits (91), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 25/99 (25%), Positives = 56/99 (56%), Gaps = 10/99 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G+RI++ R   G++Q+++ + LG++   +  +E G  R G++R +HI +     ++ 
Sbjct: 12  IDLGQRIKILRKSAGLTQQQVADALGVSRPAIAFWETG--REGSAR-KHIPK-----LAA 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
            F+V P +      +E+  ++ + TPD   + R +  +D
Sbjct: 64  LFNVDPEIFLTGYVQED--IELVITPDEHDVIRLYRMLD 100


>gi|258593067|emb|CBE69378.1| N-6 DNA methylase [NC10 bacterium 'Dutch sediment']
          Length = 640

 Score = 39.7 bits (91), Expect = 0.14,   Method: Composition-based stats.
 Identities = 22/56 (39%), Positives = 31/56 (55%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          DIN+ K I   R  LG+SQEKL   L ++   + ++EKG  R  A  L  I + L+
Sbjct: 8  DINISKLISDLRRRLGISQEKLAAQLRVSLPTINRWEKGKTRPDAMALHVIEQYLQ 63


>gi|183597550|ref|ZP_02959043.1| hypothetical protein PROSTU_00829 [Providencia stuartii ATCC
          25827]
 gi|188023147|gb|EDU61187.1| hypothetical protein PROSTU_00829 [Providencia stuartii ATCC
          25827]
          Length = 132

 Score = 39.7 bits (91), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 34/60 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I   R    M+ ++LGE L ++ QQ+ +YE GV  +    L  +  +L+ PI  FF
Sbjct: 33 IGRQIYFIRKARCMTGKQLGEQLNVSQQQISRYENGVCHIDVDTLIRLLYILDMPIDQFF 92


>gi|325847281|ref|ZP_08169999.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
 gi|325480912|gb|EGC83961.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
          Length = 167

 Score = 39.7 bits (91), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 35/59 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G++I+ +R  L ++QE L + L I+ Q V K+EKG++      L  +SE+    I +F
Sbjct: 2  IGEKIKNKRKELNLTQEYLAKELNISRQAVSKWEKGLSEPSMDNLVKLSEIFGVDIKYF 60


>gi|317490283|ref|ZP_07948769.1| hypothetical protein HMPREF1023_02469 [Eggerthella sp. 1_3_56FAA]
 gi|316910573|gb|EFV32196.1| hypothetical protein HMPREF1023_02469 [Eggerthella sp. 1_3_56FAA]
          Length = 143

 Score = 39.7 bits (91), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 19/64 (29%), Positives = 35/64 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+ RR ++G++QE+L E LG++ Q V K+E G +    +    ++E L+  +    
Sbjct: 5  IGSNIQSRRKMVGLTQEQLAERLGVSRQTVTKWETGDSTPDLANAGALAEALDVSLDALV 64

Query: 75 DVSP 78
             P
Sbjct: 65 GYDP 68


>gi|212697366|ref|ZP_03305494.1| hypothetical protein ANHYDRO_01936 [Anaerococcus hydrogenalis DSM
          7454]
 gi|212675558|gb|EEB35165.1| hypothetical protein ANHYDRO_01936 [Anaerococcus hydrogenalis DSM
          7454]
          Length = 199

 Score = 39.7 bits (91), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 35/59 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G++I+ +R  L ++QE L + L I+ Q V K+EKG++      L  +SE+    I +F
Sbjct: 34 IGEKIKNKRKELNLTQEYLAKELNISRQAVSKWEKGLSEPSMDNLVKLSEIFGVDIKYF 92


>gi|22126831|ref|NP_670254.1| phage repressor protein cI [Yersinia pestis KIM 10]
 gi|45440748|ref|NP_992287.1| putative prophage repressor protein [Yersinia pestis biovar
          Microtus str. 91001]
 gi|51595612|ref|YP_069803.1| cI prophage repressor protein [Yersinia pseudotuberculosis IP
          32953]
 gi|108806944|ref|YP_650860.1| putative prophage repressor protein [Yersinia pestis Antiqua]
 gi|108812905|ref|YP_648672.1| prophage repressor protein [Yersinia pestis Nepal516]
 gi|145599733|ref|YP_001163809.1| prophage repressor protein [Yersinia pestis Pestoides F]
 gi|149366781|ref|ZP_01888815.1| putative prophage repressor protein [Yersinia pestis CA88-4125]
 gi|153947774|ref|YP_001401715.1| phage repressor protein [Yersinia pseudotuberculosis IP 31758]
 gi|162419046|ref|YP_001605972.1| phage repressor protein [Yersinia pestis Angola]
 gi|165924786|ref|ZP_02220618.1| phage repressor protein [Yersinia pestis biovar Orientalis str.
          F1991016]
 gi|165936119|ref|ZP_02224688.1| phage repressor protein [Yersinia pestis biovar Orientalis str.
          IP275]
 gi|166009972|ref|ZP_02230870.1| phage repressor protein [Yersinia pestis biovar Antiqua str.
          E1979001]
 gi|166211761|ref|ZP_02237796.1| phage repressor protein [Yersinia pestis biovar Antiqua str.
          B42003004]
 gi|167400259|ref|ZP_02305772.1| phage repressor protein [Yersinia pestis biovar Antiqua str.
          UG05-0454]
 gi|167419734|ref|ZP_02311487.1| phage repressor protein [Yersinia pestis biovar Orientalis str.
          MG05-1020]
 gi|167424151|ref|ZP_02315904.1| phage repressor protein [Yersinia pestis biovar Mediaevalis str.
          K1973002]
 gi|167468053|ref|ZP_02332757.1| phage repressor protein [Yersinia pestis FV-1]
 gi|170025053|ref|YP_001721558.1| XRE family transcriptional regulator [Yersinia pseudotuberculosis
          YPIII]
 gi|186894677|ref|YP_001871789.1| XRE family transcriptional regulator [Yersinia pseudotuberculosis
          PB1/+]
 gi|218928387|ref|YP_002346262.1| putative prophage repressor protein [Yersinia pestis CO92]
 gi|229841180|ref|ZP_04461339.1| putative prophage repressor protein [Yersinia pestis biovar
          Orientalis str. PEXU2]
 gi|229843284|ref|ZP_04463430.1| putative prophage repressor protein [Yersinia pestis biovar
          Orientalis str. India 195]
 gi|229894101|ref|ZP_04509287.1| putative prophage repressor protein [Yersinia pestis Pestoides A]
 gi|229903334|ref|ZP_04518447.1| putative prophage repressor protein [Yersinia pestis Nepal516]
 gi|270487141|ref|ZP_06204215.1| peptidase S24-like domain protein [Yersinia pestis KIM D27]
 gi|294503243|ref|YP_003567305.1| putative prophage repressor protein [Yersinia pestis Z176003]
 gi|21959861|gb|AAM86505.1|AE013897_1 putative phage repressor protein cI [Yersinia pestis KIM 10]
 gi|45435606|gb|AAS61164.1| putative prophage repressor protein [Yersinia pestis biovar
          Microtus str. 91001]
 gi|51588894|emb|CAH20508.1| putative cI prophage repressor protein [Yersinia
          pseudotuberculosis IP 32953]
 gi|108776553|gb|ABG19072.1| phage lambda repressor protein. Serine peptidase. MEROPS family
          S24 [Yersinia pestis Nepal516]
 gi|108778857|gb|ABG12915.1| phage lambda repressor protein. Serine peptidase. MEROPS family
          S24 [Yersinia pestis Antiqua]
 gi|115346998|emb|CAL19890.1| putative prophage repressor protein [Yersinia pestis CO92]
 gi|145211429|gb|ABP40836.1| prophage repressor protein [Yersinia pestis Pestoides F]
 gi|149291155|gb|EDM41230.1| putative prophage repressor protein [Yersinia pestis CA88-4125]
 gi|152959269|gb|ABS46730.1| phage repressor protein [Yersinia pseudotuberculosis IP 31758]
 gi|162351861|gb|ABX85809.1| phage repressor protein [Yersinia pestis Angola]
 gi|165915733|gb|EDR34341.1| phage repressor protein [Yersinia pestis biovar Orientalis str.
          IP275]
 gi|165923846|gb|EDR40978.1| phage repressor protein [Yersinia pestis biovar Orientalis str.
          F1991016]
 gi|165991368|gb|EDR43669.1| phage repressor protein [Yersinia pestis biovar Antiqua str.
          E1979001]
 gi|166207532|gb|EDR52012.1| phage repressor protein [Yersinia pestis biovar Antiqua str.
          B42003004]
 gi|166962475|gb|EDR58496.1| phage repressor protein [Yersinia pestis biovar Orientalis str.
          MG05-1020]
 gi|167050208|gb|EDR61616.1| phage repressor protein [Yersinia pestis biovar Antiqua str.
          UG05-0454]
 gi|167057000|gb|EDR66763.1| phage repressor protein [Yersinia pestis biovar Mediaevalis str.
          K1973002]
 gi|169751587|gb|ACA69105.1| transcriptional regulator, XRE family [Yersinia
          pseudotuberculosis YPIII]
 gi|186697703|gb|ACC88332.1| transcriptional regulator, XRE family [Yersinia
          pseudotuberculosis PB1/+]
 gi|229679104|gb|EEO75207.1| putative prophage repressor protein [Yersinia pestis Nepal516]
 gi|229689631|gb|EEO81692.1| putative prophage repressor protein [Yersinia pestis biovar
          Orientalis str. India 195]
 gi|229697546|gb|EEO87593.1| putative prophage repressor protein [Yersinia pestis biovar
          Orientalis str. PEXU2]
 gi|229703986|gb|EEO90999.1| putative prophage repressor protein [Yersinia pestis Pestoides A]
 gi|262361282|gb|ACY58003.1| putative prophage repressor protein [Yersinia pestis D106004]
 gi|262365181|gb|ACY61738.1| putative prophage repressor protein [Yersinia pestis D182038]
 gi|270335645|gb|EFA46422.1| peptidase S24-like domain protein [Yersinia pestis KIM D27]
 gi|294353702|gb|ADE64043.1| putative prophage repressor protein [Yersinia pestis Z176003]
 gi|320015925|gb|ADV99496.1| putative prophage repressor protein [Yersinia pestis biovar
          Medievalis str. Harbin 35]
          Length = 240

 Score = 39.7 bits (91), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 24/85 (28%), Positives = 44/85 (51%), Gaps = 7/85 (8%)

Query: 5  KKIPNPVDINVGKRIR----LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          KK   P  ++  KR++     ++  LG+SQE +   LG+    V ++  GVN +  +   
Sbjct: 3  KKPLTPEQLDDAKRLKELFNAKKKALGISQESVAHELGVGQSAVNQFLNGVNPLNITNAA 62

Query: 61 HISEVLESPISFFFDVSPTVCSDIS 85
            ++VL  PIS F   SP++  +++
Sbjct: 63 AFAKVLNEPISSF---SPSLAKELA 84


>gi|290474343|ref|YP_003467222.1| putative DNA-binding protein [Xenorhabdus bovienii SS-2004]
 gi|289173655|emb|CBJ80435.1| putative DNA-binding protein [Xenorhabdus bovienii SS-2004]
          Length = 121

 Score = 39.7 bits (91), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 17/86 (19%), Positives = 44/86 (51%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +    +    +R+R  R   G+SQ +LG+   + +  + ++E+G +R G+  L+ +++VL
Sbjct: 1  MAAATEKKFAQRLRELRRQKGLSQSELGKLAELHYTHIGRFERGTSRPGSDTLKRLADVL 60

Query: 67 ESPISFFFDVSPTVCSDISSEENNVM 92
          +    +  + + T  +    E+  ++
Sbjct: 61 DVTSDYLLEGAETDAAKARFEDRELL 86


>gi|229545190|ref|ZP_04433915.1| helix-turn-helix motif:protein of hypothetical function DUF955
          [Enterococcus faecalis TX1322]
 gi|229309735|gb|EEN75722.1| helix-turn-helix motif:protein of hypothetical function DUF955
          [Enterococcus faecalis TX1322]
          Length = 390

 Score = 39.7 bits (91), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 34/59 (57%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+R++  RM  GM+ E+L E +G++ Q + KYE+ ++      L  + + L  P  FF+
Sbjct: 11 GQRLKEARMYRGMTLEELKEKIGVSKQMISKYEQNISAPTPEILFSLLQALRFPKEFFY 69


>gi|256422517|ref|YP_003123170.1| XRE family transcriptional regulator [Chitinophaga pinensis DSM
           2588]
 gi|256037425|gb|ACU60969.1| transcriptional regulator, XRE family [Chitinophaga pinensis DSM
           2588]
          Length = 97

 Score = 39.7 bits (91), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 28/97 (28%), Positives = 49/97 (50%), Gaps = 5/97 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+GK I+  R    ++Q++L E +GIT   +   E GV     + L+ I+  L S ++F
Sbjct: 1   MNIGKAIQTLRTKKNITQKELAEKIGITQTGLSYIETGVKHPSENSLEKIANALGSSVAF 60

Query: 73  F----FDVSPTVCSDISSEENNVM-DFISTPDGLQLN 104
                 D+   V  D  +E + +  DF++T   L +N
Sbjct: 61  IKLASLDLDKDVPQDKRAEFDELFPDFVATMQRLLIN 97


>gi|212711722|ref|ZP_03319850.1| hypothetical protein PROVALCAL_02797 [Providencia alcalifaciens
          DSM 30120]
 gi|212685824|gb|EEB45352.1| hypothetical protein PROVALCAL_02797 [Providencia alcalifaciens
          DSM 30120]
          Length = 94

 Score = 39.7 bits (91), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 37/65 (56%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   VG++I+  R   G +  +L     I+ QQ+ +YE+GVNR+    L  ++++L+  
Sbjct: 6  PVAYAVGQKIKSLRKSQGYTVFQLARECNISEQQLFRYERGVNRIDIDCLARVTKILDVN 65

Query: 70 ISFFF 74
          IS  F
Sbjct: 66 ISDIF 70


>gi|253579354|ref|ZP_04856624.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849452|gb|EES77412.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 298

 Score = 39.7 bits (91), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 36/62 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GK I  +R  LGM+Q++L E LG++ + V K+E+GV     S  + +  +L   ++ 
Sbjct: 4  IKIGKYIAGKRKSLGMTQKQLAEKLGMSDKSVSKWERGVCLPDVSVYKELCSILGISLNE 63

Query: 73 FF 74
          F 
Sbjct: 64 FL 65


>gi|257791038|ref|YP_003181644.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|257474935|gb|ACV55255.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
          Length = 197

 Score = 39.7 bits (91), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 32/62 (51%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  IR  R   G++Q +L + LG+T + V K+E+G        L  +SE L +P+   
Sbjct: 5  NTGTLIRALREERGLTQRQLADALGVTDKAVSKWERGGGCPDIELLPGLSERLGTPVETL 64

Query: 74 FD 75
           D
Sbjct: 65 LD 66


>gi|16129529|ref|NP_416088.1| Qin prophage; predicted regulator for DicB [Escherichia coli str.
          K-12 substr. MG1655]
 gi|89108412|ref|AP_002192.1| predicted regulator for DicB [Escherichia coli str. K-12 substr.
          W3110]
 gi|170020075|ref|YP_001725029.1| transcriptional repressor DicA [Escherichia coli ATCC 8739]
 gi|170081237|ref|YP_001730557.1| Qin prophage; regulator for DicB [Escherichia coli str. K-12
          substr. DH10B]
 gi|218554136|ref|YP_002387049.1| transcriptional repressor DicA [Escherichia coli IAI1]
 gi|238900790|ref|YP_002926586.1| Qin prophage; putative regulator for DicB [Escherichia coli
          BW2952]
 gi|300939073|ref|ZP_07153765.1| transcriptional repressor DicA [Escherichia coli MS 21-1]
 gi|307310860|ref|ZP_07590506.1| transcriptional regulator, XRE family [Escherichia coli W]
 gi|118631|sp|P06966|DICA_ECOLI RecName: Full=HTH-type transcriptional regulator dicA; AltName:
          Full=Repressor protein of division inhibition gene dicA
 gi|41278|emb|CAA30349.1| unnamed protein product [Escherichia coli]
 gi|1742572|dbj|BAA15275.1| predicted regulator for DicB [Escherichia coli str. K12 substr.
          W3110]
 gi|1787853|gb|AAC74643.1| Qin prophage; predicted regulator for DicB [Escherichia coli str.
          K-12 substr. MG1655]
 gi|169755003|gb|ACA77702.1| transcriptional regulator, XRE family [Escherichia coli ATCC
          8739]
 gi|169889072|gb|ACB02779.1| Qin prophage; predicted regulator for DicB [Escherichia coli str.
          K-12 substr. DH10B]
 gi|218360904|emb|CAQ98476.1| putative transcriptional regulator for DicB; Qin prophage
          [Escherichia coli IAI1]
 gi|238863388|gb|ACR65386.1| Qin prophage; predicted regulator for DicB [Escherichia coli
          BW2952]
 gi|260449307|gb|ACX39729.1| transcriptional regulator, XRE family [Escherichia coli DH1]
 gi|284921476|emb|CBG34547.1| repressor protein of division inhibition gene [Escherichia coli
          042]
 gi|300456019|gb|EFK19512.1| transcriptional repressor DicA [Escherichia coli MS 21-1]
 gi|306909038|gb|EFN39534.1| transcriptional regulator, XRE family [Escherichia coli W]
 gi|315060877|gb|ADT75204.1| Qin prophage; predicted regulator for DicB [Escherichia coli W]
 gi|315136211|dbj|BAJ43370.1| transcriptional repressor DicA [Escherichia coli DH1]
 gi|323378556|gb|ADX50824.1| helix-turn-helix domain protein [Escherichia coli KO11]
 gi|323940355|gb|EGB36547.1| helix-turn-helix protein [Escherichia coli E482]
          Length = 135

 Score = 39.7 bits (91), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 4/72 (5%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPI 70
          ++ +G+RIR RR  L  +Q  L + L I+   V ++E+G +      L  +S+VL+ SP 
Sbjct: 5  NLTIGERIRYRRKNLKHTQRSLAKALKISHVSVSQWERGDSEPTGKNLFALSKVLQCSPT 64

Query: 71 SFFF---DVSPT 79
             F   D  PT
Sbjct: 65 WILFGDEDKQPT 76


>gi|326441821|ref|ZP_08216555.1| hypothetical protein SclaA2_12194 [Streptomyces clavuligerus ATCC
          27064]
          Length = 417

 Score = 39.7 bits (91), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 21/64 (32%), Positives = 35/64 (54%), Gaps = 9/64 (14%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG---------VNRVGASRLQHISEV 65
          +G+RI+ RR+ LGM Q  LG  +G +   V K EKG         +N + A+   H +++
Sbjct: 11 IGRRIKRRRLALGMPQADLGAAVGQSQGWVSKVEKGRIELDRAALINSIAAALHCHPNDL 70

Query: 66 LESP 69
          ++ P
Sbjct: 71 IDRP 74


>gi|313837698|gb|EFS75412.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes HL037PA2]
 gi|314972637|gb|EFT16734.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes HL037PA3]
 gi|328907505|gb|EGG27271.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium sp. P08]
          Length = 508

 Score = 39.3 bits (90), Expect = 0.16,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 31/62 (50%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N    +VG+ IR  R   GM+Q +L E L  +   + + E G   +    +  I+E LES
Sbjct: 3  NITPASVGRLIRDARKQHGMTQNQLAEILKTSQSAIHRVESGTQNLSLEYINRIAEALES 62

Query: 69 PI 70
          PI
Sbjct: 63 PI 64


>gi|332653138|ref|ZP_08418883.1| DNA-binding protein [Ruminococcaceae bacterium D16]
 gi|332518284|gb|EGJ47887.1| DNA-binding protein [Ruminococcaceae bacterium D16]
          Length = 348

 Score = 39.3 bits (90), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 18/56 (32%), Positives = 33/56 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+ IR +R  L ++QE+L + LG++   V K+EKG      + L  ++ VL +
Sbjct: 1  MKLGEIIREKRKALSLTQEQLADYLGVSAPAVHKWEKGTTYPDITTLPALARVLRT 56


>gi|313114406|ref|ZP_07799934.1| putative repressor LexA [Faecalibacterium cf. prausnitzii
          KLE1255]
 gi|310623277|gb|EFQ06704.1| putative repressor LexA [Faecalibacterium cf. prausnitzii
          KLE1255]
          Length = 205

 Score = 39.3 bits (90), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 41/76 (53%), Gaps = 2/76 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          R+ LRR  LG+SQE+L + +G  +   + K EKG+N +  S+++ ++  LE+  ++   +
Sbjct: 7  RLHLRRKELGLSQEELAQRMGYRSKSSITKLEKGINDLPQSKVEELAAALETTPAYLLGL 66

Query: 77 SPTVCSDISSEENNVM 92
            T C     E    M
Sbjct: 67 D-TPCPPPGFEPLPAM 81


>gi|289425420|ref|ZP_06427197.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes SK187]
 gi|289154398|gb|EFD03086.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes SK187]
          Length = 508

 Score = 39.3 bits (90), Expect = 0.16,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 31/62 (50%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N    +VG+ IR  R   GM+Q +L E L  +   + + E G   +    +  I+E LES
Sbjct: 3  NITPASVGRLIRDARKQHGMTQNQLAEILKTSQSAIHRVESGTQNLSLEYINRIAEALES 62

Query: 69 PI 70
          PI
Sbjct: 63 PI 64


>gi|239906602|ref|YP_002953343.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
 gi|239796468|dbj|BAH75457.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
          Length = 186

 Score = 39.3 bits (90), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 23/94 (24%), Positives = 45/94 (47%), Gaps = 18/94 (19%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +  R+R  R   GM+ + L E  G+T   V  YE G N+             E P+S+ +
Sbjct: 11  IAMRLRGLREATGMTAQALAEATGVTAADVAAYETG-NK-------------EIPVSYLY 56

Query: 75  DVSPTVCSDISS----EENNVMDFISTPDGLQLN 104
           +V+    +D+++    ++ ++M++   P G  L+
Sbjct: 57  EVAKACGADLTALLTGDDAHLMNYSLVPSGQGLS 90


>gi|325833547|ref|ZP_08165996.1| transcriptional regulator, AbrB family [Eggerthella sp. HGA1]
 gi|325485471|gb|EGC87940.1| transcriptional regulator, AbrB family [Eggerthella sp. HGA1]
          Length = 140

 Score = 39.3 bits (90), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 19/64 (29%), Positives = 35/64 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+ RR ++G++QE+L E LG++ Q V K+E G +    +    ++E L+  +    
Sbjct: 2  IGSNIQSRRKMVGLTQEQLAERLGVSRQTVTKWETGDSTPDLANAGALAEALDVSLDALV 61

Query: 75 DVSP 78
             P
Sbjct: 62 GYDP 65


>gi|331650592|ref|ZP_08351661.1| putative transcriptional regulator [Escherichia coli M605]
 gi|323948704|gb|EGB44608.1| helix-turn-helix protein [Escherichia coli H252]
 gi|331040563|gb|EGI12724.1| putative transcriptional regulator [Escherichia coli M605]
          Length = 121

 Score = 39.3 bits (90), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 5/65 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI-----TFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          V KR++  RM  G+SQEKL + LG+     T  +   YE G        ++ I+E+L+ P
Sbjct: 2  VPKRLKEARMEAGLSQEKLSQLLGVAEGINTRSRFSSYEVGRTEPPFKLVKKIAELLDYP 61

Query: 70 ISFFF 74
           ++F+
Sbjct: 62 ENYFY 66


>gi|197119614|ref|YP_002140041.1| helix-turn-helix DNA-binding protein, XRE family [Geobacter
          bemidjiensis Bem]
 gi|197088974|gb|ACH40245.1| helix-turn-helix DNA-binding protein, XRE family [Geobacter
          bemidjiensis Bem]
          Length = 110

 Score = 39.3 bits (90), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 2/68 (2%)

Query: 9  NPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          NPV I   +G  +R  R + G SQE+LGE   ++++ V + E+G        L  I+  L
Sbjct: 3  NPVAIRQLLGDNVRTLRKVRGWSQEELGEHADLSYKFVGEIERGTGNPSLDSLVGIANAL 62

Query: 67 ESPISFFF 74
            PI+  F
Sbjct: 63 TVPIAELF 70


>gi|148988905|ref|ZP_01820320.1| Transcriptional regulator, Cro/CI family protein [Streptococcus
          pneumoniae SP6-BS73]
 gi|147925716|gb|EDK76792.1| Transcriptional regulator, Cro/CI family protein [Streptococcus
          pneumoniae SP6-BS73]
          Length = 245

 Score = 39.3 bits (90), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 20/73 (27%), Positives = 40/73 (54%), Gaps = 3/73 (4%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG++I+  R   G +Q  L E +  + Q + KYEKG+ +V    +  ++++    I  F
Sbjct: 7  HVGEKIKFFRKENGWTQSVLAEKMSTSKQTISKYEKGIIKVNQDTIFKLADIFGVSIDSF 66

Query: 74 FDVSPTVCSDISS 86
          F   P++  +I++
Sbjct: 67 F---PSIIEEIAT 76


>gi|282853817|ref|ZP_06263154.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes J139]
 gi|282583270|gb|EFB88650.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes J139]
          Length = 508

 Score = 39.3 bits (90), Expect = 0.17,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 31/62 (50%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N    +VG+ IR  R   GM+Q +L E L  +   + + E G   +    +  I+E LES
Sbjct: 3  NITPASVGRLIRDARKQHGMTQNQLAEILKTSQSAIHRVESGTQNLSLEYINRITEALES 62

Query: 69 PI 70
          PI
Sbjct: 63 PI 64


>gi|223986671|ref|ZP_03636661.1| hypothetical protein HOLDEFILI_03983 [Holdemania filiformis DSM
          12042]
 gi|223961357|gb|EEF65879.1| hypothetical protein HOLDEFILI_03983 [Holdemania filiformis DSM
          12042]
          Length = 124

 Score = 39.3 bits (90), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 1/69 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          +G+R+R  RM L ++QE L E +G++   +   E G N+V       I+  L  +P    
Sbjct: 14 LGQRVRRARMKLNLTQEVLAEKVGVSIPTISHIETGTNKVSLELFVSIANALNVTPDELI 73

Query: 74 FDVSPTVCS 82
           D  P + +
Sbjct: 74 MDSVPKLTA 82


>gi|227534216|ref|ZP_03964265.1| xre family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
 gi|227188150|gb|EEI68217.1| xre family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
          Length = 344

 Score = 39.3 bits (90), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 41/68 (60%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ + IR RR+ LG++QE+L + +G++   V K+EK V+    + L  ++ +L + ++ 
Sbjct: 1  MHIDQVIRERRLALGLTQEELADKIGVSAPAVSKWEKRVSYPDITLLPALARILGTDVNT 60

Query: 73 FFDVSPTV 80
              S T+
Sbjct: 61 LLTFSVTM 68


>gi|258507112|ref|YP_003169863.1| transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|257147039|emb|CAR86012.1| Transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|259648482|dbj|BAI40644.1| hypothetical protein [Lactobacillus rhamnosus GG]
          Length = 106

 Score = 39.3 bits (90), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 41/75 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L  S+E+L + +  + QQV ++EKG++     +L  IS+ LE  +    
Sbjct: 3  IGEQIKDRREALAWSREELAQVVNGSVQQVSRWEKGISYPNIKQLIAISDRLELSLDNLI 62

Query: 75 DVSPTVCSDISSEEN 89
             P +   I  ++N
Sbjct: 63 KSDPKLQKTIQIDKN 77


>gi|183599870|ref|ZP_02961363.1| hypothetical protein PROSTU_03389 [Providencia stuartii ATCC
          25827]
 gi|188022143|gb|EDU60183.1| hypothetical protein PROSTU_03389 [Providencia stuartii ATCC
          25827]
          Length = 113

 Score = 39.3 bits (90), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 33/60 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I+  R     S  K+   LGI+ QQ  +YE+GVN +    L +I  +L+  +S FF
Sbjct: 14 IGEEIKRLRKASSFSGTKMASELGISQQQYSRYERGVNTISVDALLNILCILDCDVSSFF 73


>gi|317488245|ref|ZP_07946813.1| hypothetical protein HMPREF1023_00511 [Eggerthella sp. 1_3_56FAA]
 gi|316912657|gb|EFV34198.1| hypothetical protein HMPREF1023_00511 [Eggerthella sp. 1_3_56FAA]
          Length = 197

 Score = 39.3 bits (90), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 32/62 (51%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  IR  R   G++Q +L + LG+T + V K+E+G        L  +SE L +P+   
Sbjct: 5  NTGTLIRALREERGLTQRQLADALGVTDKAVSKWERGGGCPDIELLPGLSERLGTPVETL 64

Query: 74 FD 75
           D
Sbjct: 65 LD 66


>gi|190570720|ref|YP_001975078.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|190356992|emb|CAQ54381.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
          Length = 279

 Score = 39.3 bits (90), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 5/81 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R+I   +Q+ L + +G+T +++ +YE+G   +   +L  ++  L   I    
Sbjct: 169 IGQRIREWRLIRRYTQKDLADKVGLTLKEIHEYERGYTAITFDKLYEMAGALSVNIKVLL 228

Query: 75  DVSPTVCSDISSEENNVMDFI 95
             +       S EEN ++  I
Sbjct: 229 PETRE-----SKEENRLLSLI 244


>gi|223933356|ref|ZP_03625344.1| protein of unknown function DUF955 [Streptococcus suis 89/1591]
 gi|330833524|ref|YP_004402349.1| hypothetical protein SSUST3_1750 [Streptococcus suis ST3]
 gi|223898006|gb|EEF64379.1| protein of unknown function DUF955 [Streptococcus suis 89/1591]
 gi|329307747|gb|AEB82163.1| protein of unknown function DUF955 [Streptococcus suis ST3]
          Length = 385

 Score = 39.3 bits (90), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 38/71 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+R  R     S  +L E +G++ Q + KYEK +++  +  LQ I   L+ P+SF+  
Sbjct: 7  GDRLRESRYFRHYSISQLAENVGVSKQMISKYEKNLSKPSSEVLQKIIFELKFPLSFYQT 66

Query: 76 VSPTVCSDISS 86
              + +D+ +
Sbjct: 67 KDKFITTDLGT 77


>gi|87120613|ref|ZP_01076507.1| hypothetical protein MED121_22687 [Marinomonas sp. MED121]
 gi|86164256|gb|EAQ65527.1| hypothetical protein MED121_22687 [Marinomonas sp. MED121]
          Length = 181

 Score = 39.3 bits (90), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 22/78 (28%), Positives = 42/78 (53%), Gaps = 4/78 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K++RL +   G SQE+L    G++ + +Q+ E+G N+ G   L+ ++ V E  +S    +
Sbjct: 4  KQLRLEK---GWSQEELSHLSGLSVRTIQRIERG-NKAGLESLKSLAAVFELRVSDLQSM 59

Query: 77 SPTVCSDISSEENNVMDF 94
           P + ++  SE    +D 
Sbjct: 60 DPNLMANSKSESQETVDM 77


>gi|69245861|ref|ZP_00603678.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|256853748|ref|ZP_05559113.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
           T8]
 gi|257879178|ref|ZP_05658831.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           1,230,933]
 gi|257882003|ref|ZP_05661656.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           1,231,502]
 gi|257890008|ref|ZP_05669661.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           1,231,410]
 gi|258615576|ref|ZP_05713346.1| XRE family transcriptional regulator [Enterococcus faecium DO]
 gi|260560175|ref|ZP_05832352.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           C68]
 gi|294620832|ref|ZP_06700036.1| transcriptional regulator, xre family [Enterococcus faecium U0317]
 gi|314947724|ref|ZP_07851131.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|68195563|gb|EAN10005.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|256710691|gb|EEU25734.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
           T8]
 gi|257813406|gb|EEV42164.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           1,230,933]
 gi|257817661|gb|EEV44989.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           1,231,502]
 gi|257826368|gb|EEV52994.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           1,231,410]
 gi|260073742|gb|EEW62067.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           C68]
 gi|291599617|gb|EFF30630.1| transcriptional regulator, xre family [Enterococcus faecium U0317]
 gi|313645704|gb|EFS10284.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|315030235|gb|EFT42167.1| helix-turn-helix protein [Enterococcus faecalis TX4000]
 gi|315144772|gb|EFT88788.1| helix-turn-helix protein [Enterococcus faecalis TX2141]
 gi|315158697|gb|EFU02714.1| helix-turn-helix protein [Enterococcus faecalis TX0312]
          Length = 111

 Score = 39.3 bits (90), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 7/89 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
            K IR +R  LG +Q++L + +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 7   AKVIREKRKALGWTQKELAKKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66

Query: 76  VSPTVCSDISSEENNVMDF--ISTPDGLQ 102
                  DI  EE  +  +  +ST D ++
Sbjct: 67  -----NVDIDYEEEFLALYRSLSTEDAIR 90


>gi|289428534|ref|ZP_06430218.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes J165]
 gi|295130785|ref|YP_003581448.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes SK137]
 gi|289158228|gb|EFD06447.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes J165]
 gi|291375959|gb|ADD99813.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes SK137]
          Length = 508

 Score = 39.3 bits (90), Expect = 0.18,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 31/62 (50%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N    +VG+ IR  R   GM+Q +L E L  +   + + E G   +    +  I+E LES
Sbjct: 3  NITPASVGRLIRDARKQHGMTQNQLAEILKTSQSAIHRVESGTQNLSLEYINRIAEALES 62

Query: 69 PI 70
          PI
Sbjct: 63 PI 64


>gi|295113444|emb|CBL32081.1| Predicted transcription factor, homolog of eukaryotic MBF1
           [Enterococcus sp. 7L76]
          Length = 115

 Score = 39.3 bits (90), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 7/89 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
            K IR +R  LG +Q++L + +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 7   AKVIREKRKALGWTQKELAKKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66

Query: 76  VSPTVCSDISSEENNVMDF--ISTPDGLQ 102
                  DI  EE  +  +  +ST D ++
Sbjct: 67  -----NVDIDYEEEFLALYRSLSTEDAIR 90


>gi|319650747|ref|ZP_08004886.1| hypothetical protein HMPREF1013_01491 [Bacillus sp. 2_A_57_CT2]
 gi|317397604|gb|EFV78303.1| hypothetical protein HMPREF1013_01491 [Bacillus sp. 2_A_57_CT2]
          Length = 196

 Score = 39.3 bits (90), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 40/66 (60%), Gaps = 1/66 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV+I +G +IR +R  L ++ +++ E +G++   V + E+G  +     L  +S + + P
Sbjct: 11 PVEI-IGGKIRSKRKTLQLTVDEVAERIGLSQSMVSQIERGKAKPSLDTLWKLSILFDVP 69

Query: 70 ISFFFD 75
          +SFFF+
Sbjct: 70 LSFFFE 75


>gi|227432755|ref|ZP_03914721.1| conserved hypothetical protein [Leuconostoc mesenteroides subsp.
          cremoris ATCC 19254]
 gi|227351491|gb|EEJ41751.1| conserved hypothetical protein [Leuconostoc mesenteroides subsp.
          cremoris ATCC 19254]
          Length = 256

 Score = 39.3 bits (90), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 22/82 (26%), Positives = 42/82 (51%), Gaps = 1/82 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R   G++Q++  E L I+FQ V  +E+         +  I E  + P+ FF 
Sbjct: 19 IGNKIKALRKKNGLTQQQFAEKLYISFQSVSNWERHKGYPTTEMMLLIIEKFDLPLDFFI 78

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
           + PT   + + EE  ++ F++
Sbjct: 79 -IPPTNSCEDNDEELILLSFLA 99


>gi|212710579|ref|ZP_03318707.1| hypothetical protein PROVALCAL_01642 [Providencia alcalifaciens
          DSM 30120]
 gi|212686816|gb|EEB46344.1| hypothetical protein PROVALCAL_01642 [Providencia alcalifaciens
          DSM 30120]
          Length = 92

 Score = 39.3 bits (90), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 42/76 (55%), Gaps = 3/76 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R+  G+S ++L   + ++ QQV +YE GVN++   +L  I+ +LE  I    
Sbjct: 11 LGNHLRKARVRKGLSGQELATIIQLSQQQVSRYELGVNKLSLDKLIEIAILLEMDI---H 67

Query: 75 DVSPTVCSDISSEENN 90
          +++  +      E+NN
Sbjct: 68 EITTMIARQFEKEKNN 83


>gi|322373520|ref|ZP_08048056.1| putative repressor protein [Streptococcus sp. C150]
 gi|321278562|gb|EFX55631.1| putative repressor protein [Streptococcus sp. C150]
          Length = 227

 Score = 39.3 bits (90), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 17/80 (21%), Positives = 44/80 (55%), Gaps = 2/80 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L ++Q+ + + LGI++Q    +E+GV      ++  + ++L  P  +F ++
Sbjct: 5  EKLKARRKELKITQKDIADQLGISYQAYSAWERGVKEPSKEKVNRLEQILRVPKGYFTEI 64

Query: 77 SPTVCSDISSE--ENNVMDF 94
                ++ S   +N V+++
Sbjct: 65 EIARLYNVLSNKGQNQVLEY 84


>gi|213019727|ref|ZP_03335532.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212994768|gb|EEB55411.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 303

 Score = 39.3 bits (90), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 5/81 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R+I   +Q+ L + +G+T +++ +YE+G   +   +L  ++  L   I    
Sbjct: 169 IGQRIREWRLIRRYTQKDLADKVGLTLKEIHEYERGYTAITFDKLYEMAGALSVNIKVLL 228

Query: 75  DVSPTVCSDISSEENNVMDFI 95
             +       S EEN ++  I
Sbjct: 229 PETRE-----SKEENRLLSLI 244


>gi|228961481|ref|ZP_04123092.1| Prophage Lp3 protein 2 [Bacillus thuringiensis serovar pakistani
          str. T13001]
 gi|228798195|gb|EEM45197.1| Prophage Lp3 protein 2 [Bacillus thuringiensis serovar pakistani
          str. T13001]
          Length = 206

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 33/59 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          KRI++ R   G+SQ++L E L +T Q V  YEKG      + L  IS +L  P+ +  +
Sbjct: 2  KRIKIARQRKGVSQKELAEKLNMTQQAVSYYEKGSRVPDENILLEISRILTVPVEYLTE 60


>gi|226327970|ref|ZP_03803488.1| hypothetical protein PROPEN_01852 [Proteus penneri ATCC 35198]
 gi|225203674|gb|EEG86028.1| hypothetical protein PROPEN_01852 [Proteus penneri ATCC 35198]
          Length = 100

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 38/66 (57%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   VG++I+  R   G +  +L + + I+ QQ+ +YE+GVNR+    L  + EVL   
Sbjct: 6  PVAYAVGQKIKSLRKSQGYTVFQLAKEIDISEQQLFRYERGVNRIDIDCLVKVLEVLGVN 65

Query: 70 ISFFFD 75
          I  FF+
Sbjct: 66 IGSFFE 71


>gi|326800444|ref|YP_004318263.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
 gi|326551208|gb|ADZ79593.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
          Length = 112

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 32/56 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK+IRL R   G SQE + + L I+     K E G+  +  SRLQ I+++ +  +
Sbjct: 4  LGKKIRLLRHQNGWSQEDVAKRLDISIPAFSKIETGITDINLSRLQQIAKLFDMTV 59


>gi|255038320|ref|YP_003088941.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
          18053]
 gi|254951076|gb|ACT95776.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
          18053]
          Length = 124

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 18/71 (25%), Positives = 40/71 (56%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V  N+ ++IR  R+  G+SQE + + LG++       E+G   +  SRL++++++L+ P+
Sbjct: 3  VTSNLSEKIRQIRLQKGLSQENMADMLGLSTTAYGDIERGRTELSVSRLENVAKLLDVPL 62

Query: 71 SFFFDVSPTVC 81
               +  ++ 
Sbjct: 63 PELLGIDSSMS 73


>gi|268593156|ref|ZP_06127377.1| transcriptional regulator, XRE family [Providencia rettgeri DSM
          1131]
 gi|291311202|gb|EFE51655.1| transcriptional regulator, XRE family [Providencia rettgeri DSM
          1131]
          Length = 99

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 38/65 (58%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   VG++I+  R   G +  +L + + I+ QQ+ +YE+GVNR+    L  + +VL+  
Sbjct: 8  PVACAVGQKIKALRRAQGFTVFQLAKEIDISEQQLFRYERGVNRIDIDCLVRVLKVLDVN 67

Query: 70 ISFFF 74
          +  FF
Sbjct: 68 MGEFF 72


>gi|224536634|ref|ZP_03677173.1| hypothetical protein BACCELL_01510 [Bacteroides cellulosilyticus
          DSM 14838]
 gi|224521725|gb|EEF90830.1| hypothetical protein BACCELL_01510 [Bacteroides cellulosilyticus
          DSM 14838]
          Length = 130

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 26/79 (32%), Positives = 42/79 (53%), Gaps = 9/79 (11%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          VG+R++L RM   ++QE++GE L ++     K E G   +  +RL  I+EV+  S I  F
Sbjct: 9  VGQRLQLLRMEKNLTQEQMGEKLNLSTSAYCKIEYGETDLTLTRLNKIAEVMNMSAIDLF 68

Query: 74 --------FDVSPTVCSDI 84
                  F+ S T+ + I
Sbjct: 69 RKIDGNSYFNNSSTIGTSI 87


>gi|307707493|ref|ZP_07643975.1| transcriptional activator [Streptococcus mitis NCTC 12261]
 gi|307616445|gb|EFN95636.1| transcriptional activator [Streptococcus mitis NCTC 12261]
          Length = 287

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 43/73 (58%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ R++R  LG+SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRVKRKELGLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|326772583|ref|ZP_08231867.1| DNA-binding protein [Actinomyces viscosus C505]
 gi|326637215|gb|EGE38117.1| DNA-binding protein [Actinomyces viscosus C505]
          Length = 103

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 27/46 (58%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG 55
          P+   +G R++  R+  G+SQE L    GI+    QK+EKG +R G
Sbjct: 28 PIARQLGLRLQRARIAKGLSQEALAHAAGISSYTYQKFEKGESRPG 73


>gi|319939951|ref|ZP_08014306.1| serine hydroxymethyltransferase [Streptococcus anginosus
          1_2_62CV]
 gi|319810962|gb|EFW07281.1| serine hydroxymethyltransferase [Streptococcus anginosus
          1_2_62CV]
          Length = 290

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 40/64 (62%), Gaps = 3/64 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +  R++ +R+ LG+SQ++L E  G+  Q Q+ + EKG    G+  L  +S+ +  P+++F
Sbjct: 5  LATRLKSKRLELGVSQKELAE--GVCEQGQISRMEKGKYMPGSDLLYSLSKKMNVPMNYF 62

Query: 74 FDVS 77
          FD S
Sbjct: 63 FDDS 66


>gi|256617057|ref|ZP_05473903.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
           ATCC 4200]
 gi|256596584|gb|EEU15760.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
           ATCC 4200]
          Length = 111

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 7/89 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
            K IR +R  LG +Q++L + +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 7   AKVIREKRKALGWTQKELAKKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66

Query: 76  VSPTVCSDISSEENNVMDF--ISTPDGLQ 102
                  DI  EE  +  +  +ST D ++
Sbjct: 67  -----NVDIDYEEEFLAFYRSLSTEDAIR 90


>gi|188025844|ref|ZP_02960023.2| hypothetical protein PROSTU_01924 [Providencia stuartii ATCC
          25827]
 gi|188020707|gb|EDU58747.1| hypothetical protein PROSTU_01924 [Providencia stuartii ATCC
          25827]
          Length = 116

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 1/74 (1%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHI 62
          N K  N +   VG  ++  R+  G++  +L +  GI + QQ+ +YE+G+NR+G   L   
Sbjct: 9  NMKSTNSISKLVGFHLKKLRIQSGLTAFQLAKQAGIKSEQQLYRYERGINRIGIDELISS 68

Query: 63 SEVLESPISFFFDV 76
           +VL+  I  FF++
Sbjct: 69 LQVLDIDIGEFFEL 82


>gi|126736502|ref|ZP_01752243.1| putative transcriptional regulator [Roseobacter sp. CCS2]
 gi|126714040|gb|EBA10910.1| putative transcriptional regulator [Roseobacter sp. CCS2]
          Length = 143

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 22/87 (25%), Positives = 44/87 (50%), Gaps = 1/87 (1%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P  + +GKR++  R  +G++QE+    L +    + + E G   VGA  ++ ++ + E 
Sbjct: 32  DPEALQLGKRLKQAREYIGVTQEEAATHLKVRRSAISEMEAGKRGVGALEMKSLASLYER 91

Query: 69  PISFFFDVSPT-VCSDISSEENNVMDF 94
           P ++F   + T V  D++     V D 
Sbjct: 92  PTAWFTGETDTPVPEDVTFLARTVSDL 118


>gi|307711376|ref|ZP_07647794.1| peptidase S24-like family protein [Streptococcus mitis SK321]
 gi|307616794|gb|EFN95976.1| peptidase S24-like family protein [Streptococcus mitis SK321]
          Length = 228

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 16/57 (28%), Positives = 33/57 (57%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  L ++Q ++ E LGI+FQ    +E+GV      ++  +  +L+ P  +F
Sbjct: 5  EKLKARRKELKLTQREIAEQLGISFQAYSAWERGVKEPSKEKVVQLENILKVPKGYF 61


>gi|255316610|ref|ZP_05358193.1| putative regulatory protein [Clostridium difficile QCD-76w55]
          Length = 116

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 34/126 (26%), Positives = 59/126 (46%), Gaps = 21/126 (16%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRIR  R   G SQE L +  G+    + + E+G ++     +  I+  LE P+   F
Sbjct: 10  IGKRIRNYRKRAGYSQEALAKKAGLFHAYLGQIERGESKASLRSIFKIANALEMPLEILF 69

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV--KVRQKIIELVRSIVSSEKK 132
           +              N++     P+ L    Y + ID +  K ++ II+L++ I+    +
Sbjct: 70  E--------------NIIQNEKDPETLSSEAYEL-IDSLTSKEQKAIIKLLKEII----E 110

Query: 133 YRTIEE 138
           YR +EE
Sbjct: 111 YRKLEE 116


>gi|218780466|ref|YP_002431784.1| XRE family transcriptional regulator [Desulfatibacillum
          alkenivorans AK-01]
 gi|218761850|gb|ACL04316.1| transcriptional regulator, XRE family [Desulfatibacillum
          alkenivorans AK-01]
          Length = 115

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 34/61 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI   R+   ++Q +L E +G++ + + + E+GV       L  ++E L S +  FF
Sbjct: 8  IGKRIAELRIENNLTQAQLAEAMGLSVESISRMERGVTFPSVKTLARVAEALGSSLKQFF 67

Query: 75 D 75
          D
Sbjct: 68 D 68


>gi|148263396|ref|YP_001230102.1| XRE family transcriptional regulator [Geobacter uraniireducens Rf4]
 gi|146396896|gb|ABQ25529.1| transcriptional regulator, XRE family [Geobacter uraniireducens
           Rf4]
          Length = 174

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 34/118 (28%), Positives = 60/118 (50%), Gaps = 7/118 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECL--GITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + + +G R++  RM   ++Q++L   +  G+ +  + K E+G        L  ISE L  
Sbjct: 27  LKLEIGSRLKRLRMERSLTQKELAVRVSGGLDYTYIGKIERGEQLPSLKILLKISEALSV 86

Query: 69  PI-SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY--FIQIDDVKVRQKIIELV 123
           P+ SFF D +    SDISS E   +  +S   G +L R    +  DD+ +  +II+++
Sbjct: 87  PVASFFQDEAVAAVSDISSSELRYL--VSEETGRELVRALRLVHKDDLPLLIEIIQVL 142


>gi|21244014|ref|NP_643596.1| hypothetical protein XAC3288 [Xanthomonas axonopodis pv. citri
          str. 306]
 gi|21109631|gb|AAM38132.1| conserved hypothetical protein [Xanthomonas axonopodis pv. citri
          str. 306]
          Length = 112

 Score = 39.3 bits (90), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 18/67 (26%), Positives = 36/67 (53%), Gaps = 5/67 (7%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGIT-----FQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G R+R  RM +G +Q +L E +G+        +V +YE G +    +  + +++ L+ P+
Sbjct: 12 GTRLRNARMAMGWTQAELAERIGMVDSVSGATRVSRYETGQHDPDPATAEALAKALDLPV 71

Query: 71 SFFFDVS 77
          ++F   S
Sbjct: 72 AYFHATS 78


>gi|310830222|ref|YP_003965322.1| probable transcriptional regulator [Ketogulonicigenium vulgare
          Y25]
 gi|308753128|gb|ADO44271.1| probable transcriptional regulator [Ketogulonicigenium vulgare
          Y25]
          Length = 197

 Score = 39.3 bits (90), Expect = 0.20,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 37/66 (56%), Gaps = 2/66 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISF 72
          +VG  +R RR+ LG++Q  + +  G+T   + + E+G+     S L  IS+VL  SP+  
Sbjct: 7  SVGDALRARRIALGITQRVVADQAGLTTGFISQVERGLTAPSLSSLHAISKVLGLSPLQ- 65

Query: 73 FFDVSP 78
          F D  P
Sbjct: 66 FIDTPP 71


>gi|295102328|emb|CBK99873.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Faecalibacterium prausnitzii L2-6]
          Length = 208

 Score = 39.3 bits (90), Expect = 0.20,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 40/71 (56%), Gaps = 1/71 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          D ++  RIR RR  L +SQE+L   +G  +   + K EKG+N +  ++L+ ++  L++  
Sbjct: 3  DTDLSSRIRQRREQLSLSQEELAARMGYRSKSSITKLEKGINDLPRAKLEELAAALDTTP 62

Query: 71 SFFFDVSPTVC 81
          ++   ++   C
Sbjct: 63 AWLMGLADLPC 73


>gi|291537380|emb|CBL10492.1| Predicted transcriptional regulators [Roseburia intestinalis
          M50/1]
          Length = 110

 Score = 39.3 bits (90), Expect = 0.20,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 43/83 (51%), Gaps = 4/83 (4%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          NP+D+  G RI+  R +  ++QE L E + ++   + + EKG+  +  + L  +S VL  
Sbjct: 2  NPIDL--GVRIKQCRTMRKLTQENLAERIDVSSHYIYEIEKGLKNMSLNTLIDLSTVLNV 59

Query: 69 PISF--FFDVSPTVCSDISSEEN 89
             +  F   S T C+D   ++N
Sbjct: 60 STDYLLFGTTSDTPCTDTIPQDN 82


>gi|268593023|ref|ZP_06127244.1| toxin-antitoxin system, antitoxin component, Xre family
           [Providencia rettgeri DSM 1131]
 gi|291311286|gb|EFE51739.1| toxin-antitoxin system, antitoxin component, Xre family
           [Providencia rettgeri DSM 1131]
          Length = 132

 Score = 38.9 bits (89), Expect = 0.21,   Method: Compositional matrix adjust.
 Identities = 31/109 (28%), Positives = 49/109 (44%), Gaps = 18/109 (16%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL--------------- 59
           VG  +   R   G+S  +LG+ LG++ QQ+ +YE GV R+  S L               
Sbjct: 24  VGNELAYMRKNKGISGAELGKLLGMSQQQISRYENGVTRLDLSTLLSFLLRLDTTLDDFF 83

Query: 60  QHISEVLE--SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           +HISE L+   P+  +        S I+S E +  D++     L +  Y
Sbjct: 84  RHISERLKMYHPM-LYIKYHFIFSSGITSREISPDDYLKAASTLTMESY 131


>gi|317050739|ref|YP_004111855.1| helix-turn-helix domain-containing protein [Desulfurispirillum
          indicum S5]
 gi|316945823|gb|ADU65299.1| helix-turn-helix domain protein [Desulfurispirillum indicum S5]
          Length = 221

 Score = 38.9 bits (89), Expect = 0.21,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 3/72 (4%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS-PTVCSDISS 86
          +S EKLGE +GI    V++ E G  ++    L+ ++  LE  I+  FD   P    DI +
Sbjct: 20 LSSEKLGEAVGIEGSYVRQIETGKRKLNLIILERLASALEVNIAALFDPQLPVEKKDIPA 79

Query: 87 EENNVMDFISTP 98
          EE   +D I+ P
Sbjct: 80 EER--LDLINLP 89


>gi|212704889|ref|ZP_03313017.1| hypothetical protein DESPIG_02956 [Desulfovibrio piger ATCC
          29098]
 gi|212671660|gb|EEB32143.1| hypothetical protein DESPIG_02956 [Desulfovibrio piger ATCC
          29098]
          Length = 183

 Score = 38.9 bits (89), Expect = 0.21,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 35/58 (60%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          I +G+ I  RR  +GM+QE+L   +G++ Q V K+E G +     RL  + +VL++ +
Sbjct: 10 IRLGQEILRRRKAMGMTQEELASRMGVSRQSVAKWETGQSSPDIDRLSLLRDVLQTSL 67


>gi|310828390|ref|YP_003960747.1| toxin-antitoxin system [Eubacterium limosum KIST612]
 gi|308740124|gb|ADO37784.1| toxin-antitoxin system [Eubacterium limosum KIST612]
          Length = 178

 Score = 38.9 bits (89), Expect = 0.21,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 34/60 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R ++ +SQ  L + L  + + VQKYE G   +  + +  I++VL++  ++  
Sbjct: 7  IGARIKESRKLMKLSQTDLADALNKSLRTVQKYESGEIELNIATINEIAKVLKTSPAYLL 66


>gi|289168188|ref|YP_003446457.1| transcriptional regulator [Streptococcus mitis B6]
 gi|288907755|emb|CBJ22592.1| transcriptional regulator [Streptococcus mitis B6]
          Length = 287

 Score = 38.9 bits (89), Expect = 0.21,   Method: Compositional matrix adjust.
 Identities = 26/72 (36%), Positives = 42/72 (58%), Gaps = 3/72 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ R++R  LG+SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LSEKFRVKRKELGLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDIS 85
          F+    V S++S
Sbjct: 62 FNEQIEVKSNLS 73


>gi|229541873|ref|ZP_04430933.1| transcriptional regulator, XRE family [Bacillus coagulans 36D1]
 gi|229326293|gb|EEN91968.1| transcriptional regulator, XRE family [Bacillus coagulans 36D1]
          Length = 180

 Score = 38.9 bits (89), Expect = 0.21,   Method: Compositional matrix adjust.
 Identities = 22/82 (26%), Positives = 46/82 (56%), Gaps = 2/82 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I + K+IR  R+  G++ ++L E   +T   + + E+G + +  + L+ I++ L   IS+
Sbjct: 2  IEIHKKIRELRLQKGLTLKQLSEKTNLTIGFLSQVERGTSSLAITSLKKIADSLGVEISY 61

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
          FF+  PT+ +  + ++ N   F
Sbjct: 62 FFN--PTITAHYAVKKENQKTF 81


>gi|229065719|ref|ZP_04200943.1| Transcriptional regulator, MerR [Bacillus cereus AH603]
 gi|228715537|gb|EEL67338.1| Transcriptional regulator, MerR [Bacillus cereus AH603]
          Length = 186

 Score = 38.9 bits (89), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 39/77 (50%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +INVG++I + R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 5  NINVGQKIMVFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 64

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D ++EE
Sbjct: 65 NFF------LEDTNTEE 75


>gi|332360443|gb|EGJ38254.1| cro/CI family zinc-binding transcriptional regulator
          [Streptococcus sanguinis SK355]
          Length = 377

 Score = 38.9 bits (89), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 30/51 (58%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R+  G+++++L E  GI+ Q +  YE G    GAS+L  I   L+ P ++F
Sbjct: 15 RIARGLTKKELAERTGISRQMISNYELGKTHPGASKLMTIVAELDFPYTYF 65


>gi|322375254|ref|ZP_08049767.1| zinc-binding transcriptional regulator, Cro/CI family
          [Streptococcus sp. C300]
 gi|321279517|gb|EFX56557.1| zinc-binding transcriptional regulator, Cro/CI family
          [Streptococcus sp. C300]
          Length = 377

 Score = 38.9 bits (89), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 30/51 (58%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R+  G+++++L E  GI+ Q +  YE G    GAS+L  I   L+ P ++F
Sbjct: 15 RIARGLTKKELAERTGISRQMISNYELGKTHPGASKLMTIVAELDFPYAYF 65


>gi|329846732|ref|ZP_08262005.1| hypothetical protein ABI_00390 [Asticcacaulis biprosthecum C19]
 gi|328844239|gb|EGF93807.1| hypothetical protein ABI_00390 [Asticcacaulis biprosthecum C19]
          Length = 61

 Score = 38.9 bits (89), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 29/51 (56%)

Query: 25 ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +L +S + L   L +    +  +E+G+ R+ AS L  I  +L+ PI FFFD
Sbjct: 1  MLKLSADALASRLFLPVAVIYAFEEGMVRIRASTLHDIGNILKVPIRFFFD 51


>gi|315149857|gb|EFT93873.1| helix-turn-helix protein [Enterococcus faecalis TX0012]
          Length = 273

 Score = 38.9 bits (89), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 39/57 (68%), Gaps = 1/57 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLES 68
          + VG+R++LRR  L +S +K+ + LG++   + +YEKG + ++   RL  I+++L++
Sbjct: 32 MKVGERMKLRRKELNISADKIADELGVSRSTIFRYEKGDIEKLPTERLITIAKILKT 88


>gi|325104086|ref|YP_004273740.1| helix-turn-helix domain protein [Pedobacter saltans DSM 12145]
 gi|324972934|gb|ADY51918.1| helix-turn-helix domain protein [Pedobacter saltans DSM 12145]
          Length = 113

 Score = 38.9 bits (89), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 21/56 (37%), Positives = 31/56 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK+IRL R   G SQE + + L I+     K E G+  V  SRL+ IS + +  +
Sbjct: 4  LGKKIRLLRHQRGWSQEDVSKQLDISIPAFSKIETGITDVNLSRLEQISALFDMSV 59


>gi|307295149|ref|ZP_07574989.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|306496398|gb|EFM65972.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
          Length = 128

 Score = 38.9 bits (89), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 7/89 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
            K IR +R  LG +Q++L + +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 24  AKVIREKRKALGWTQKELAKKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 83

Query: 76  VSPTVCSDISSEENNVMDF--ISTPDGLQ 102
                  DI  EE  +  +  +ST D ++
Sbjct: 84  -----NVDIDYEEEFLALYRSLSTEDAIR 107


>gi|222109211|ref|YP_002551476.1| hypothetical protein Avi_9645 [Agrobacterium vitis S4]
 gi|221738485|gb|ACM39350.1| conserved hypothetical protein [Agrobacterium vitis S4]
          Length = 163

 Score = 38.9 bits (89), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 19/102 (18%), Positives = 49/102 (48%), Gaps = 10/102 (9%)

Query: 27  GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFFDVSPTVCSDIS 85
           G+++ +    LG++     +YE+  +++  +RL H+ E+L  SP+   ++ +P +     
Sbjct: 60  GLTRAEFAPLLGLSVPVYSRYERAFSKIHVTRLLHVCELLGLSPVEMLYEAAPHLWGSTD 119

Query: 86  SEENNVMDFIS---------TPDGLQLNRYFIQIDDVKVRQK 118
            E  +    ++         T D +++  +  Q+++ +V  K
Sbjct: 120 EEAEDRFRLVALVLKLPHRTTRDLMRMVEHLGQMENGRVATK 161


>gi|312952949|ref|ZP_07771805.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|310629090|gb|EFQ12373.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
          Length = 109

 Score = 38.9 bits (89), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 31/60 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           K I+ +R  LG +Q++L E +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 7  AKVIKEKRKALGWTQKELAEKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66


>gi|118580325|ref|YP_901575.1| XRE family transcriptional regulator [Pelobacter propionicus DSM
          2379]
 gi|118503035|gb|ABK99517.1| transcriptional regulator, XRE family [Pelobacter propionicus DSM
          2379]
          Length = 107

 Score = 38.9 bits (89), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 25/86 (29%), Positives = 43/86 (50%), Gaps = 1/86 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R   GM+QE+L E LGI  + + + E G +     RL  I+ V+ +P+   F
Sbjct: 8  LGLRIRELRKRAGMTQEQLAELLGIDQKHMSRIELGKSYPSLDRLLKIAVVVNAPLPNLF 67

Query: 75 DVSP-TVCSDISSEENNVMDFISTPD 99
          +       +D+  +  N++  +   D
Sbjct: 68 EFGHMNTAADLQQQVVNIVMQLGPKD 93


>gi|326203738|ref|ZP_08193601.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
          2782]
 gi|325986178|gb|EGD47011.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
          2782]
          Length = 169

 Score = 38.9 bits (89), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE+L   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQEELAIKLNVVRQTISKWEQGLSVPDSDILISISEVLETPVS 58


>gi|116495520|ref|YP_807254.1| XRE family transcriptional regulator [Lactobacillus casei ATCC
          334]
 gi|191638999|ref|YP_001988165.1| Transcriptional regulator, xre family [Lactobacillus casei BL23]
 gi|227533926|ref|ZP_03963975.1| XRE family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
 gi|239629921|ref|ZP_04672952.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|301067057|ref|YP_003789080.1| XRE family transcriptional regulator [Lactobacillus casei str.
          Zhang]
 gi|116105670|gb|ABJ70812.1| Transcriptional regulator, xre family [Lactobacillus casei ATCC
          334]
 gi|190713301|emb|CAQ67307.1| Transcriptional regulator, xre family [Lactobacillus casei BL23]
 gi|227188441|gb|EEI68508.1| XRE family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
 gi|239527533|gb|EEQ66534.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|300439464|gb|ADK19230.1| Transcriptional regulator, xre family [Lactobacillus casei str.
          Zhang]
 gi|327383053|gb|AEA54529.1| DNA-binding protein [Lactobacillus casei LC2W]
 gi|327386239|gb|AEA57713.1| DNA-binding protein [Lactobacillus casei BD-II]
          Length = 103

 Score = 38.9 bits (89), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 3/74 (4%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISF 72
          N+GK +  +R  L ++ EKL E  G++   + + E+G VN +   +L  I+  L   +  
Sbjct: 4  NIGKLVHQQRRSLNLTIEKLAERSGVSISLISRMERGDVNNISIKKLTDIARALNMQVGD 63

Query: 73 FFDVSPTVCSDISS 86
          FF ++P + SDIS+
Sbjct: 64 FF-IAPEM-SDIST 75


>gi|191638861|ref|YP_001988027.1| Transcriptional regulator, xre family [Lactobacillus casei BL23]
 gi|190713163|emb|CAQ67169.1| Transcriptional regulator, xre family [Lactobacillus casei BL23]
 gi|327382909|gb|AEA54385.1| hypothetical protein LC2W_2053 [Lactobacillus casei LC2W]
 gi|327386093|gb|AEA57567.1| hypothetical protein LCBD_2071 [Lactobacillus casei BD-II]
          Length = 344

 Score = 38.9 bits (89), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 40/68 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ + IR RR+ LG++QE+L   +G++   V  +EKGV+    + L  ++ +L + ++ 
Sbjct: 1  MHIDQVIRERRLALGLTQEELANKIGVSAPAVSIWEKGVSYPDITLLPALARILGTDVNT 60

Query: 73 FFDVSPTV 80
              S T+
Sbjct: 61 LLTFSVTM 68


>gi|187778336|ref|ZP_02994809.1| hypothetical protein CLOSPO_01928 [Clostridium sporogenes ATCC
          15579]
 gi|187771961|gb|EDU35763.1| hypothetical protein CLOSPO_01928 [Clostridium sporogenes ATCC
          15579]
          Length = 111

 Score = 38.9 bits (89), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 31/59 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G R++  R   GM+QE+LG+ L IT Q V  YEKG N      L  I+++    + +  
Sbjct: 21 GDRLKELREEKGMTQEQLGKLLNITKQAVYSYEKGDNEPTIDALVKIADIFNVSLDYLL 79


>gi|325104005|ref|YP_004273659.1| helix-turn-helix domain protein [Pedobacter saltans DSM 12145]
 gi|324972853|gb|ADY51837.1| helix-turn-helix domain protein [Pedobacter saltans DSM 12145]
          Length = 75

 Score = 38.9 bits (89), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 36/64 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          INVGKR+   R    ++QEKL E  G+  +Q+ + E+    V  S ++ I++ L+  +S 
Sbjct: 12 INVGKRLMEIREAKNITQEKLQELTGLDIRQIGRIERAETNVSISSIKLIADCLKISVSE 71

Query: 73 FFDV 76
            DV
Sbjct: 72 LLDV 75


>gi|182416964|ref|ZP_02625290.2| putative phage repressor [Clostridium butyricum 5521]
 gi|237666135|ref|ZP_04526122.1| putative phage repressor [Clostridium butyricum E4 str. BoNT E
           BL5262]
 gi|182379140|gb|EDT76642.1| putative phage repressor [Clostridium butyricum 5521]
 gi|237658225|gb|EEP55778.1| putative phage repressor [Clostridium butyricum E4 str. BoNT E
           BL5262]
          Length = 198

 Score = 38.9 bits (89), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 63/124 (50%), Gaps = 12/124 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLE-SPISFF-F 74
           RI+ RR  L +S E L +  G     +Q+YE G +NR+   R + +++ LE  P     +
Sbjct: 13  RIKKRREELNLSYEDLSKRTGFGSSTLQRYETGAINRIPIDRFEELAKGLEIEPYKLMGW 72

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
           D    +  D  +E        +  D + L+  F+++++   R+KI+E +  I+S +K  +
Sbjct: 73  DEDYLLSQDRKNE--------TDGDIVDLHNAFLKLNETG-RKKILEYIFDILSIDKYVQ 123

Query: 135 TIEE 138
           T ++
Sbjct: 124 TCDQ 127


>gi|323126871|gb|ADX24168.1| putative transcriptional regulator [Streptococcus dysgalactiae
           subsp. equisimilis ATCC 12394]
          Length = 227

 Score = 38.9 bits (89), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 30/129 (23%), Positives = 59/129 (45%), Gaps = 30/129 (23%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++L+R   G SQ  + E +G++ Q   K+EKG+++     L  +  + + P  +F   
Sbjct: 5   EKLKLKRTEHGFSQLSIAERIGVSKQAYSKWEKGISQPTNENLIKLENLFKVPAGYF--- 61

Query: 77  SPTVCSDISSEEN--NVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
                    +EE   N+   +++P+                + K I  VRS+VSS+ K  
Sbjct: 62  ---------NEEEILNLYHQLNSPN----------------QSKAITYVRSLVSSQNKVS 96

Query: 135 TIEEECMVE 143
            + +E + E
Sbjct: 97  HLIQETLYE 105


>gi|254197120|ref|ZP_04903543.1| irep [Burkholderia pseudomallei S13]
 gi|169653862|gb|EDS86555.1| irep [Burkholderia pseudomallei S13]
          Length = 106

 Score = 38.9 bits (89), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 35/61 (57%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R   G+SQEKLG   G+       ++ +YE+G +    + +  I++ L+ PISFF
Sbjct: 7  RLKQARKAAGLSQEKLGVLAGVDEMSASARMNQYERGKHEPDFAMVNRIAQALQLPISFF 66

Query: 74 F 74
          +
Sbjct: 67 Y 67


>gi|86148029|ref|ZP_01066331.1| transcriptional regulator, putative [Vibrio sp. MED222]
 gi|85834162|gb|EAQ52318.1| transcriptional regulator, putative [Vibrio sp. MED222]
          Length = 103

 Score = 38.9 bits (89), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 26/84 (30%), Positives = 43/84 (51%), Gaps = 14/84 (16%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISE 64
          NP+ +    R++  R    +SQ+ LG C+G+       ++ +YEKG +      L+ +++
Sbjct: 5  NPIPV----RLKEARKKAKLSQKSLGVCIGMDESSASPRMNQYEKGKHTPDVRTLKLLAD 60

Query: 65 VLESPISFFFDVSPTVCSDISSEE 88
           L  P+SFFF      C D SS E
Sbjct: 61 ELGVPLSFFF------CEDESSAE 78


>gi|315143624|gb|EFT87640.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX2141]
          Length = 68

 Score = 38.9 bits (89), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 31/61 (50%), Gaps = 3/61 (4%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP---ISFFF 74
          R++  R+  G SQE+L + LG T     K E G   +G   L  I+  LE P   IS FF
Sbjct: 7  RLKAERIAKGYSQEELAKKLGWTRSMYTKRENGAVSLGVDELAKIATALEMPESRISIFF 66

Query: 75 D 75
          +
Sbjct: 67 N 67


>gi|253583791|ref|ZP_04860989.1| conserved hypothetical protein [Fusobacterium varium ATCC 27725]
 gi|251834363|gb|EES62926.1| conserved hypothetical protein [Fusobacterium varium ATCC 27725]
          Length = 168

 Score = 38.9 bits (89), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 1/64 (1%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DVSPTVCSDIS 85
          GMSQEKL + LG++ Q V K+E G +     ++  +S + E    +   DVS   C DI 
Sbjct: 15 GMSQEKLAQLLGVSKQSVSKWESGQSLPEIDKIIQLSNIFEVTTDYLLKDVSEEKCIDIL 74

Query: 86 SEEN 89
           +E 
Sbjct: 75 RKEK 78


>gi|160887303|ref|ZP_02068306.1| hypothetical protein BACOVA_05321 [Bacteroides ovatus ATCC 8483]
 gi|237713191|ref|ZP_04543672.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262409416|ref|ZP_06085958.1| transcriptional regulator [Bacteroides sp. 2_1_22]
 gi|294647377|ref|ZP_06724970.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides ovatus SD CC 2a]
 gi|294809001|ref|ZP_06767723.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides xylanisolvens SD CC 1b]
 gi|156107714|gb|EDO09459.1| hypothetical protein BACOVA_05321 [Bacteroides ovatus ATCC 8483]
 gi|229446849|gb|EEO52640.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262352628|gb|EEZ01726.1| transcriptional regulator [Bacteroides sp. 2_1_22]
 gi|292637336|gb|EFF55761.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides ovatus SD CC 2a]
 gi|294443726|gb|EFG12471.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides xylanisolvens SD CC 1b]
 gi|295087084|emb|CBK68607.1| Helix-turn-helix. [Bacteroides xylanisolvens XB1A]
          Length = 132

 Score = 38.9 bits (89), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%), Gaps = 1/54 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +++GK+I   R + GM+Q +LG+ LGIT Q V K E+   ++   RL+ I+  L
Sbjct: 12 LHLGKKIERVRRLRGMTQTELGQLLGITKQAVSKMEQ-TEKIDDERLEKIASAL 64


>gi|332531289|ref|ZP_08407202.1| helix-turn-helix domain protein [Hylemonella gracilis ATCC 19624]
 gi|332039396|gb|EGI75809.1| helix-turn-helix domain protein [Hylemonella gracilis ATCC 19624]
          Length = 143

 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 29/40 (72%)

Query: 26  LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           LG+S  ++G+ L ++ Q V  +EKG+++  AS+L+ I+EV
Sbjct: 88  LGLSAAEMGKILNVSLQTVYHWEKGISKPRASQLERIAEV 127


>gi|257440458|ref|ZP_05616213.1| LexA repressor [Faecalibacterium prausnitzii A2-165]
 gi|257197080|gb|EEU95364.1| LexA repressor [Faecalibacterium prausnitzii A2-165]
          Length = 206

 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 21/65 (32%), Positives = 38/65 (58%), Gaps = 1/65 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +RI  RR+ LG+SQE+L + +G  +   + K EKGVN +  S+++  +  LE+  ++   
Sbjct: 6  RRILQRRLELGLSQEELAQRMGYRSKSSITKLEKGVNDIPQSKVEEFAAALETTPAWLMG 65

Query: 76 VSPTV 80
          +  T 
Sbjct: 66 LENTA 70


>gi|269928755|ref|YP_003321076.1| hypothetical protein Sthe_2842 [Sphaerobacter thermophilus DSM
          20745]
 gi|269788112|gb|ACZ40254.1| protein of unknown function DUF955 [Sphaerobacter thermophilus
          DSM 20745]
          Length = 372

 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 40/79 (50%), Gaps = 11/79 (13%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          NP  + + ++ R      G+S   L E +G++ + +  YE+G +  G   L  I++ L  
Sbjct: 11 NPTRLTLARKRR------GLSISALAERVGLSRRSIFNYERGRSVPGDHTLATIAQTLGF 64

Query: 69 PISFFF-----DVSPTVCS 82
          PI+FFF     ++SP   S
Sbjct: 65 PITFFFGNDIEELSPDAVS 83


>gi|168765271|ref|ZP_02790278.1| repressor protein CI [Escherichia coli O157:H7 str. EC4501]
 gi|168798579|ref|ZP_02823586.1| repressor protein CI [Escherichia coli O157:H7 str. EC508]
 gi|217327029|ref|ZP_03443112.1| repressor protein CI [Escherichia coli O157:H7 str. TW14588]
 gi|189364926|gb|EDU83342.1| repressor protein CI [Escherichia coli O157:H7 str. EC4501]
 gi|189378869|gb|EDU97285.1| repressor protein CI [Escherichia coli O157:H7 str. EC508]
 gi|217319396|gb|EEC27821.1| repressor protein CI [Escherichia coli O157:H7 str. TW14588]
 gi|315274298|gb|ADU03706.1| repressor protein CI [Enterobacteria phage VT2phi_272]
 gi|326340128|gb|EGD63932.1| repressor protein CI [Escherichia coli O157:H7 str. 1125]
          Length = 237

 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 24/85 (28%), Positives = 42/85 (49%), Gaps = 7/85 (8%)

Query: 5  KKIPNPVDINVGKRIR----LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          KK   P  +   KR++     ++  LG+SQE L   LG+T   V +   G+N + AS   
Sbjct: 5  KKPLTPEQLEDAKRLKSIFNAKKKELGLSQESLAYELGVTQSAVNQLMAGINAINASHAA 64

Query: 61 HISEVLESPISFFFDVSPTVCSDIS 85
           ++++L   +    D SP++   I+
Sbjct: 65 QLAKILNVKVG---DFSPSLAKSIA 86


>gi|154503587|ref|ZP_02040647.1| hypothetical protein RUMGNA_01411 [Ruminococcus gnavus ATCC 29149]
 gi|153795687|gb|EDN78107.1| hypothetical protein RUMGNA_01411 [Ruminococcus gnavus ATCC 29149]
          Length = 120

 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 24/88 (27%), Positives = 39/88 (44%), Gaps = 2/88 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI   R  LG++Q +LGE +G++ Q + KYE G   +    L  +S+    PI +     
Sbjct: 11  RIAELRKKLGLTQTRLGEEIGVSQQTISKYENGDENIPGDMLLALSKFFRVPIDYILRKE 70

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNR 105
                   ++   +M+     D  Q NR
Sbjct: 71  EEQQQREQNDRKEIMELYRDMD--QYNR 96


>gi|318057356|ref|ZP_07976079.1| hypothetical protein SSA3_05416 [Streptomyces sp. SA3_actG]
 gi|318075878|ref|ZP_07983210.1| hypothetical protein SSA3_03995 [Streptomyces sp. SA3_actF]
          Length = 388

 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 34/61 (55%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+   R + G+++ ++ + +G++   V +YE G NR     +  +++VL+ PI FF    
Sbjct: 29 RLTQARRLAGLTKREVADGIGVSAAAVGQYEAGTNRPRPELIPRLADVLDVPIQFFVAGR 88

Query: 78 P 78
          P
Sbjct: 89 P 89


>gi|307708176|ref|ZP_07644643.1| transcriptional regulator [Streptococcus mitis NCTC 12261]
 gi|307615622|gb|EFN94828.1| transcriptional regulator [Streptococcus mitis NCTC 12261]
          Length = 228

 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 15/57 (26%), Positives = 34/57 (59%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  L ++Q+++ E LGI+FQ    +E+G+      ++  +  +L+ P  +F
Sbjct: 5  EKLKARRKELKLTQKEIAEQLGISFQAYSAWERGIKEPSKEKVFQLENILKVPKGYF 61


>gi|317057522|ref|YP_004105989.1| helix-turn-helix domain-containing protein [Ruminococcus albus 7]
 gi|315449791|gb|ADU23355.1| helix-turn-helix domain protein [Ruminococcus albus 7]
          Length = 135

 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 61/124 (49%), Gaps = 15/124 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G ++   R  +G SQE L + L ++ Q V K+E G +   A ++  IS        F
Sbjct: 1   MNIGDKLLFLRNRVGCSQETLADALDVSRQTVSKWELGQSLPDAEKIVAISNYFNVTTDF 60

Query: 73  FF-DVSPTVCSDISSEENN---VMDFISTPDGL-QLNRYFIQID-----DVKVRQKIIEL 122
              D SP     +  E+N    V++F ++   L Q++R  + I      D + R ++ E+
Sbjct: 61  LLRDTSP-----VKIEKNLDRIVIEFANSAADLDQISRALVDIARDGIIDEEERLRLFEM 115

Query: 123 VRSI 126
           V+++
Sbjct: 116 VKTV 119


>gi|299136447|ref|ZP_07029630.1| transcriptional regulator, XRE family [Acidobacterium sp.
          MP5ACTX8]
 gi|298600962|gb|EFI57117.1| transcriptional regulator, XRE family [Acidobacterium sp.
          MP5ACTX8]
          Length = 137

 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 33/67 (49%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P P  IN+G  IR  R+  GMSQ  + +  G+    + + E G        LQ I+  L+
Sbjct: 16 PGPAPINIGMTIRDFRLQKGMSQGDIEKRTGLLRCYLSRVENGHTVPSLETLQKIAAALD 75

Query: 68 SPISFFF 74
           P+S FF
Sbjct: 76 LPLSQFF 82


>gi|261344510|ref|ZP_05972154.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282567420|gb|EFB72955.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 79

 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 32/55 (58%), Gaps = 1/55 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL-QHIS 63
          P+   VG RI   R I G S   +   +GI+ QQ  +YE+G+NR+   RL Q++S
Sbjct: 6  PISKLVGDRILYYRKIQGASLLDVSIVIGISEQQQSRYERGINRISLDRLAQYVS 60


>gi|271502279|ref|YP_003335305.1| XRE family transcriptional regulator [Dickeya dadantii Ech586]
 gi|270345834|gb|ACZ78599.1| transcriptional regulator, XRE family [Dickeya dadantii Ech586]
          Length = 87

 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 43/81 (53%), Gaps = 8/81 (9%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R++  R++ G+SQE+LG   GI       ++ +YE+G++       + ++ VL  P  +
Sbjct: 4  HRLKAARLMAGLSQERLGILAGIDEATASARMNQYERGIHTPDFELARRLAAVLHVPACY 63

Query: 73 FF----DVSPTVCSDISSEEN 89
          F+    D++  + S   ++EN
Sbjct: 64 FYTVEDDLAEMILSFYDTKEN 84


>gi|82777173|ref|YP_403522.1| repressor protein CI [Shigella dysenteriae Sd197]
 gi|309788320|ref|ZP_07682924.1| repressor protein CI [Shigella dysenteriae 1617]
 gi|81241321|gb|ABB62031.1| repressor protein CI [Shigella dysenteriae Sd197]
 gi|308923702|gb|EFP69205.1| repressor protein CI [Shigella dysenteriae 1617]
          Length = 237

 Score = 38.9 bits (89), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 24/85 (28%), Positives = 42/85 (49%), Gaps = 7/85 (8%)

Query: 5  KKIPNPVDINVGKRIR----LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          KK   P  +   KR++     ++  LG+SQE L   LG+T   V +   G+N + AS   
Sbjct: 5  KKPLTPEQLEDAKRLKSIFNAKKKELGLSQESLAYELGVTQSAVSQLMAGINAINASHAA 64

Query: 61 HISEVLESPISFFFDVSPTVCSDIS 85
           ++++L   +    D SP++   I+
Sbjct: 65 QLAKILNVKVG---DFSPSLAKSIA 86


>gi|291286470|ref|YP_003503286.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
           DSM 12809]
 gi|290883630|gb|ADD67330.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
           DSM 12809]
          Length = 149

 Score = 38.9 bits (89), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 28/95 (29%), Positives = 49/95 (51%), Gaps = 11/95 (11%)

Query: 20  RLRRMI--LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--- 74
           RL+ +I    + Q +L + +G+  + +  Y KG +      L+ ++E LE+PI +FF   
Sbjct: 7   RLKALIDVKNIKQTELADLIGVNSKSINTYVKGRSEPNLDLLKKMAEELETPIEYFFGYI 66

Query: 75  DVSPTVCSDISSEEN---NVMDFISTP---DGLQL 103
            +   +   +SSE+    N +  I+TP   D LQL
Sbjct: 67  SLDEAINGGLSSEKALLINTIRNINTPIPNDTLQL 101


>gi|153952958|ref|YP_001393723.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|146345839|gb|EDK32375.1| Transcriptional regulator [Clostridium kluyveri DSM 555]
          Length = 179

 Score = 38.9 bits (89), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 16/63 (25%), Positives = 37/63 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++++  R   G++ + + E  G++   + ++E+G+  +    L  I+ VL   I++
Sbjct: 1  MNIGEKVKELRNKKGLTLKTMSEKTGLSTGFLSQFERGITTIAVEHLSTIATVLNVRINY 60

Query: 73 FFD 75
          FFD
Sbjct: 61 FFD 63


>gi|329117294|ref|ZP_08246011.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
 gi|326907699|gb|EGE54613.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
          Length = 112

 Score = 38.9 bits (89), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 32/63 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KRIRL R+  GM+QE+L E   +    V K E     +    L+ + + LE     FF
Sbjct: 10 ISKRIRLLRLERGMTQEQLEEKADLGTNYVYKLENQSTNIKVKTLEKVMKALEVDFEGFF 69

Query: 75 DVS 77
          D+S
Sbjct: 70 DIS 72


>gi|251789530|ref|YP_003004251.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247538151|gb|ACT06772.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 128

 Score = 38.9 bits (89), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 32/57 (56%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          P    +G RI L R  L ++Q++L E LGI  Q +  YE G  +V AS L  ++ +L
Sbjct: 18 PFFKELGARIALARKELQLTQQQLAEQLGIAQQTMAHYEGGRLKVSASLLPQLATIL 74


>gi|254444938|ref|ZP_05058414.1| Helix-turn-helix domain protein [Verrucomicrobiae bacterium
          DG1235]
 gi|198259246|gb|EDY83554.1| Helix-turn-helix domain protein [Verrucomicrobiae bacterium
          DG1235]
          Length = 369

 Score = 38.9 bits (89), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 26/72 (36%), Positives = 35/72 (48%), Gaps = 5/72 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          R+   R +LG+S + L   L      IT Q + KYEKG     +  L  +S+VL+ PI F
Sbjct: 12 RLNQARRLLGLSLDDLVASLAEAGLSITKQSLSKYEKGEIAPSSQSLAALSKVLKKPIDF 71

Query: 73 FFDVSPTVCSDI 84
          FF        DI
Sbjct: 72 FFQKGAIKLVDI 83


>gi|29826758|ref|NP_821392.1| transcriptional regulator [Streptomyces avermitilis MA-4680]
 gi|29603854|dbj|BAC67927.1| putative transcriptional regulatory protein [Streptomyces
          avermitilis MA-4680]
          Length = 135

 Score = 38.9 bits (89), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 17/66 (25%), Positives = 36/66 (54%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +P  + +G+R++  R  L MSQ+ + +  GI    +   E+G  RV +  L+ ++ +   
Sbjct: 12 DPELVRLGERLKKTRDYLNMSQQFVSDSTGIPRSAISDIERGERRVDSLELKKLARLYRQ 71

Query: 69 PISFFF 74
          P+++F 
Sbjct: 72 PVAYFL 77


>gi|311031583|ref|ZP_07709673.1| transcriptional regulator [Bacillus sp. m3-13]
          Length = 295

 Score = 38.5 bits (88), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 25/64 (39%), Positives = 39/64 (60%), Gaps = 3/64 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +GK I++ R  L +SQ +L E  GI  Q Q+ K EKG     A+ L +I+E L   I++F
Sbjct: 6  IGKEIKVLRSALNLSQAELSE--GICTQSQISKIEKGEVFPLANTLYYIAERLGVDINYF 63

Query: 74 FDVS 77
          +D++
Sbjct: 64 YDLA 67


>gi|313897846|ref|ZP_07831387.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312957381|gb|EFR39008.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 223

 Score = 38.5 bits (88), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 54/120 (45%), Gaps = 13/120 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI--------SEVL 66
           +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I        +E+L
Sbjct: 11  LGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNYPTFDTLEKIMDVLGVTPNELL 70

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                +     P +   I  E+    DF  + D L  N +F   ++ K   + I L+R I
Sbjct: 71  SGEWKYIDHTEPYIMDIIKREQ----DFNVSLDYLSENEFFDDENEYKFYMETI-LIRYI 125


>gi|257453722|ref|ZP_05619008.1| transcriptional regulator, XRE family [Enhydrobacter aerosaccus
          SK60]
 gi|257448905|gb|EEV23862.1| transcriptional regulator, XRE family [Enhydrobacter aerosaccus
          SK60]
          Length = 106

 Score = 38.5 bits (88), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 34/61 (55%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R +  R    ++QE+LG  +G    +   ++ +YEKG++      L  I+E+L+ P +FF
Sbjct: 10 RFKQARKAKKLTQEQLGIAIGLDEFVASTRINRYEKGIHLPDLQTLARIAEILDVPPAFF 69

Query: 74 F 74
          F
Sbjct: 70 F 70


>gi|228918176|ref|ZP_04081680.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
 gi|228841456|gb|EEM86595.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
          Length = 184

 Score = 38.5 bits (88), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  NINVGQKIMAFRKNAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D ++EE
Sbjct: 63 NFF------LEDTNTEE 73


>gi|254382948|ref|ZP_04998303.1| transcriptional regulator [Streptomyces sp. Mg1]
 gi|194341848|gb|EDX22814.1| transcriptional regulator [Streptomyces sp. Mg1]
          Length = 411

 Score = 38.5 bits (88), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 9/66 (13%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG---------VNRVGASRLQHISEV 65
          +G+R+R +R+ +GM+Q  L   LG T   V K EKG         +N V A+   H + +
Sbjct: 11 IGQRVRRQRLSVGMTQADLAAALGRTQGWVSKLEKGRIELDRAGLINAVAAALHCHPNTL 70

Query: 66 LESPIS 71
          +E P +
Sbjct: 71 IERPYT 76


>gi|147677806|ref|YP_001212021.1| SOS-response transcriptional repressors [Pelotomaculum
          thermopropionicum SI]
 gi|146273903|dbj|BAF59652.1| SOS-response transcriptional repressors [Pelotomaculum
          thermopropionicum SI]
          Length = 224

 Score = 38.5 bits (88), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 32/60 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R    ++Q +LG  LG++   +  YEKG  ++G   L  ++  L  P+ +F 
Sbjct: 5  IGARIKKAREEKYLTQAELGVKLGVSATAINYYEKGKRKIGIDDLYRMANALGKPLEYFL 64


>gi|119488949|ref|ZP_01621884.1| hypothetical protein L8106_19346 [Lyngbya sp. PCC 8106]
 gi|119454905|gb|EAW36048.1| hypothetical protein L8106_19346 [Lyngbya sp. PCC 8106]
          Length = 79

 Score = 38.5 bits (88), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 16/32 (50%), Positives = 23/32 (71%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          +R  R  LG+SQEKL   LG++FQ V ++E+G
Sbjct: 14 VRTLRERLGLSQEKLAASLGVSFQTVNRWERG 45


>gi|118574103|sp|Q8TZX4|Y1851_PYRFU RecName: Full=Putative HTH-type transcriptional regulatory protein
           PF1851
          Length = 315

 Score = 38.5 bits (88), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 26/62 (41%), Positives = 34/62 (54%), Gaps = 4/62 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG---ASRLQHI-SEVLESPIS 71
           G+R+R  R   G S  +L E LG++ + VQ+YEKG   V    A RL+ I  E L  PI 
Sbjct: 128 GERLRELREKYGYSTTELAEMLGVSRKSVQRYEKGEGMVSIDVAIRLEEIFDEPLVKPID 187

Query: 72  FF 73
            F
Sbjct: 188 IF 189


>gi|291540119|emb|CBL13230.1| Helix-turn-helix [Roseburia intestinalis XB6B4]
          Length = 118

 Score = 38.5 bits (88), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 44/84 (52%), Gaps = 10/84 (11%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +I +GKR+R  R+ + + + ++ + LG+T +  +K E GV  +       + +VL   +
Sbjct: 15 ANIQIGKRLREARLNMNLEKSEIADVLGVTVEHYRKLEAGVTGIS------VDKVL--TL 66

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
             + + PT    I+ E +N+ DF
Sbjct: 67 YHKYGIDPTYL--ITGESSNIKDF 88


>gi|212703137|ref|ZP_03311265.1| hypothetical protein DESPIG_01176 [Desulfovibrio piger ATCC
          29098]
 gi|212673403|gb|EEB33886.1| hypothetical protein DESPIG_01176 [Desulfovibrio piger ATCC
          29098]
          Length = 117

 Score = 38.5 bits (88), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 2/74 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          + G KK    + + VG  I  RR +LG +Q    E LG+    + + E+G+      RL+
Sbjct: 5  VAGTKK--QRLAVIVGANITARRKLLGWNQAAFAERLGMGADSLSRIERGLVAPRFQRLE 62

Query: 61 HISEVLESPISFFF 74
           I+E+LE  ++  F
Sbjct: 63 EIAEILECSVAELF 76


>gi|188589861|ref|YP_001921889.1| transcriptional regulator, Cro/CI family [Clostridium botulinum E3
           str. Alaska E43]
 gi|188500142|gb|ACD53278.1| transcriptional regulator, Cro/CI family [Clostridium botulinum E3
           str. Alaska E43]
          Length = 160

 Score = 38.5 bits (88), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 28/108 (25%), Positives = 57/108 (52%), Gaps = 11/108 (10%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR RR  L ++ E+LG+ +G+    V+K+E G+  +G  R  +I       ++   ++SP
Sbjct: 7   IRKRREELDLTYEQLGKIVGVGKSTVRKWETGM--IGNLRSDNI-----LALAKGLNLSP 59

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV---KVRQKIIELV 123
           +     + EE N  DF  T +  +L  ++ +++D+   +  +++ EL 
Sbjct: 60  STLMGWTEEE-NTYDFNLTKEETKLLEHYNKLNDLGKKEANKRVAELT 106


>gi|294629979|ref|ZP_06708539.1| helix-turn-helix domain-containing protein [Streptomyces sp. e14]
 gi|292833312|gb|EFF91661.1| helix-turn-helix domain-containing protein [Streptomyces sp. e14]
          Length = 101

 Score = 38.5 bits (88), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 4/70 (5%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK +R RR  LGM+Q +L    G+T   V + E G +      L+ ++  L+S  +   D
Sbjct: 28 GKAVRDRRTALGMTQSRLAARAGMTQAAVSRLEHGGSTPTIPLLERLAAALDS--TLHLD 85

Query: 76 VSPTVCSDIS 85
          ++P   SD+S
Sbjct: 86 IAPD--SDLS 93


>gi|257414340|ref|ZP_04746003.2| putative helix-turn-helix protein [Roseburia intestinalis L1-82]
 gi|257200419|gb|EEU98703.1| putative helix-turn-helix protein [Roseburia intestinalis L1-82]
          Length = 121

 Score = 38.5 bits (88), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 44/84 (52%), Gaps = 10/84 (11%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +I +GKR+R  R+ + + + ++ + LG+T +  +K E GV  +       + +VL   +
Sbjct: 18 ANIQIGKRLREARLNMNLEKSEIADVLGVTVEHYRKLEAGVTGIS------VDKVL--TL 69

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
             + + PT    I+ E +N+ DF
Sbjct: 70 YHKYGIDPTYL--ITGESSNIKDF 91


>gi|282599891|ref|ZP_05972255.2| transcriptional regulator [Providencia rustigianii DSM 4541]
 gi|282567526|gb|EFB73061.1| transcriptional regulator [Providencia rustigianii DSM 4541]
          Length = 96

 Score = 38.5 bits (88), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 2/74 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  N+K P  +   VG++++  R   G +  +L     I+ QQ+ +YE+GVNR+    L 
Sbjct: 1  MFMNRKFP--IAYAVGQKVKSLRKSQGYTVFQLARECNISEQQLFRYERGVNRIDIDCLA 58

Query: 61 HISEVLESPISFFF 74
           +S++L   IS  F
Sbjct: 59 RVSKILNVNISDIF 72


>gi|210612788|ref|ZP_03289482.1| hypothetical protein CLONEX_01684 [Clostridium nexile DSM 1787]
 gi|314950371|ref|ZP_07853647.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|317501730|ref|ZP_07959917.1| hypothetical protein HMPREF1026_01861 [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|319937809|ref|ZP_08012211.1| hypothetical protein HMPREF9488_03047 [Coprobacillus sp. 29_1]
 gi|210151402|gb|EEA82410.1| hypothetical protein CLONEX_01684 [Clostridium nexile DSM 1787]
 gi|313643322|gb|EFS07902.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|316896852|gb|EFV18936.1| hypothetical protein HMPREF1026_01861 [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|319807039|gb|EFW03655.1| hypothetical protein HMPREF9488_03047 [Coprobacillus sp. 29_1]
          Length = 223

 Score = 38.5 bits (88), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 34/129 (26%), Positives = 58/129 (44%), Gaps = 20/129 (15%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI--------SEVL 66
           +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I        +E+L
Sbjct: 11  LGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNYPTFDTLEKIMDVLGVTPNELL 70

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK-----VRQKIIE 121
                +     P +   I  E+    DF  + D L  N +F   DD K        K+I+
Sbjct: 71  SGEWKYIDHTEPYIMDIIKREQ----DFNVSLDYLSENEFF---DDEKECTFYKAYKLIQ 123

Query: 122 LVRSIVSSE 130
            + + +++E
Sbjct: 124 YIHNYITNE 132


>gi|150021357|ref|YP_001306711.1| putative prophage repressor [Thermosipho melanesiensis BI429]
 gi|149793878|gb|ABR31326.1| putative prophage repressor [Thermosipho melanesiensis BI429]
          Length = 206

 Score = 38.5 bits (88), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 15/66 (22%), Positives = 35/66 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++I+  R+  G++QE+LG  + +  + +  YE G        L+ +++  +  + +
Sbjct: 1  MNIGEKIKFLRLQKGLTQEQLGNIINVGQRTISAYESGKATPSVEVLKSLADYFDVAVDY 60

Query: 73 FFDVSP 78
          F    P
Sbjct: 61 FLSDKP 66


>gi|296134047|ref|YP_003641294.1| transcriptional regulator, XRE family [Thermincola sp. JR]
 gi|296032625|gb|ADG83393.1| transcriptional regulator, XRE family [Thermincola potens JR]
          Length = 255

 Score = 38.5 bits (88), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 31/63 (49%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G RIR  R   G+S    G   G++F  + + E+G        L+ I+  L  P+S 
Sbjct: 70  LNIGDRIRALREEKGLSLVDFGNLTGLSFTYLSELERGTTVPAVGTLKKIAACLGVPVSL 129

Query: 73  FFD 75
           F +
Sbjct: 130 FIE 132


>gi|302878682|ref|YP_003847246.1| helix-turn-helix domain-containing protein [Gallionella
          capsiferriformans ES-2]
 gi|302581471|gb|ADL55482.1| helix-turn-helix domain protein [Gallionella capsiferriformans
          ES-2]
          Length = 124

 Score = 38.5 bits (88), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 37/66 (56%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K + + + + +G  I  RR  L  +Q +L E +G+  + V ++E+G N     RL+ ++E
Sbjct: 6  KTLGSSLGLILGANIAERRKKLNWTQAELAERIGVDTETVSRFERGSNLPSLHRLEKLAE 65

Query: 65 VLESPI 70
           L+ P+
Sbjct: 66 ALKIPL 71


>gi|183600898|ref|ZP_02962391.1| hypothetical protein PROSTU_04505 [Providencia stuartii ATCC
          25827]
 gi|188019224|gb|EDU57264.1| hypothetical protein PROSTU_04505 [Providencia stuartii ATCC
          25827]
          Length = 95

 Score = 38.5 bits (88), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 20/73 (27%), Positives = 39/73 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G+ IR+ R+  G++  +LG+ +G++ QQ+ +YE+G + +  S    I  V+    
Sbjct: 12 INSEIGEFIRMIRIKKGLTGAELGKLIGVSQQQISRYERGYHTLSLSDFTFILSVMNVSF 71

Query: 71 SFFFDVSPTVCSD 83
            F   S    SD
Sbjct: 72 LDFISYSSFFKSD 84


>gi|18978223|ref|NP_579580.1| hypothetical protein PF1851 [Pyrococcus furiosus DSM 3638]
 gi|18894036|gb|AAL81975.1| hypothetical protein PF1851 [Pyrococcus furiosus DSM 3638]
          Length = 316

 Score = 38.5 bits (88), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 26/62 (41%), Positives = 34/62 (54%), Gaps = 4/62 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG---ASRLQHI-SEVLESPIS 71
           G+R+R  R   G S  +L E LG++ + VQ+YEKG   V    A RL+ I  E L  PI 
Sbjct: 129 GERLRELREKYGYSTTELAEMLGVSRKSVQRYEKGEGMVSIDVAIRLEEIFDEPLVKPID 188

Query: 72  FF 73
            F
Sbjct: 189 IF 190


>gi|296159506|ref|ZP_06842330.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
 gi|295890214|gb|EFG70008.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
          Length = 102

 Score = 38.5 bits (88), Expect = 0.29,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V  R+R  R+  G+SQE+LG   GI       ++ +YE+G +      L  I+ VL  P+
Sbjct: 4  VAWRLREARIRSGLSQERLGIEAGIDEMSASARMNQYERGKHVPDLGTLSRIAAVLNLPV 63

Query: 71 SFFFDV 76
          S+F+ V
Sbjct: 64 SYFYSV 69


>gi|257469363|ref|ZP_05633457.1| hypothetical protein FulcA4_08479 [Fusobacterium ulcerans ATCC
          49185]
 gi|317063609|ref|ZP_07928094.1| conserved hypothetical protein [Fusobacterium ulcerans ATCC
          49185]
 gi|313689285|gb|EFS26120.1| conserved hypothetical protein [Fusobacterium ulcerans ATCC
          49185]
          Length = 168

 Score = 38.5 bits (88), Expect = 0.29,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 1/64 (1%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DVSPTVCSDIS 85
          GMSQEKL + LG++ Q V K+E G +     ++  +S + E    +   DV+   C DI 
Sbjct: 15 GMSQEKLAQLLGVSRQSVSKWESGQSLPEIDKIIQLSNIFEVTTDYLLKDVAEEKCIDIL 74

Query: 86 SEEN 89
           +E 
Sbjct: 75 RKEK 78


>gi|332967905|gb|EGK06997.1| XRE family transcriptional regulator [Kingella kingae ATCC 23330]
          Length = 89

 Score = 38.5 bits (88), Expect = 0.29,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 36/62 (58%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR +  R    M+QEKLG  +G    +   ++ +YEKG ++   + L  I+++L+ P ++
Sbjct: 10 KRFKEARKAKKMTQEKLGLAIGLDEFVASTRINRYEKGNHQPDLNTLVWIAQILDVPPAY 69

Query: 73 FF 74
          FF
Sbjct: 70 FF 71


>gi|219853616|ref|YP_002470738.1| hypothetical protein CKR_0273 [Clostridium kluyveri NBRC 12016]
 gi|219567340|dbj|BAH05324.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 186

 Score = 38.5 bits (88), Expect = 0.29,   Method: Compositional matrix adjust.
 Identities = 16/63 (25%), Positives = 37/63 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++++  R   G++ + + E  G++   + ++E+G+  +    L  I+ VL   I++
Sbjct: 8  MNIGEKVKELRNKKGLTLKTMSEKTGLSTGFLSQFERGITTIAVEHLSTIATVLNVRINY 67

Query: 73 FFD 75
          FFD
Sbjct: 68 FFD 70


>gi|150018438|ref|YP_001310692.1| XRE family transcriptional regulator [Clostridium beijerinckii
          NCIMB 8052]
 gi|149904903|gb|ABR35736.1| transcriptional regulator, XRE family [Clostridium beijerinckii
          NCIMB 8052]
          Length = 226

 Score = 38.5 bits (88), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 45/86 (52%), Gaps = 8/86 (9%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++  R   G+SQEKL E LGI+ Q V K+E G +    +RL  +SE  +  I    + 
Sbjct: 5  EQLQTLRKAKGLSQEKLAEFLGISRQSVAKWEVGQSYPDIARLIALSEFFKVSIDKLVND 64

Query: 77 SPTVCSDISSEEN-------NVMDFI 95
              C  +S EEN       N++DF+
Sbjct: 65 YEENCR-LSIEENKVNNINRNIIDFL 89


>gi|169351319|ref|ZP_02868257.1| hypothetical protein CLOSPI_02099 [Clostridium spiroforme DSM
          1552]
 gi|169291541|gb|EDS73674.1| hypothetical protein CLOSPI_02099 [Clostridium spiroforme DSM
          1552]
          Length = 212

 Score = 38.5 bits (88), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 8/66 (12%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL       
Sbjct: 10 HLGNNIQTIRKFRGMKQQELADKIGINMQSLSKIERGLNYPAYETLEKIMEVL------- 62

Query: 74 FDVSPT 79
           DV+P 
Sbjct: 63 -DVTPN 67


>gi|323498569|ref|ZP_08103562.1| transcriptional regulator [Vibrio sinaloensis DSM 21326]
 gi|323316458|gb|EGA69476.1| transcriptional regulator [Vibrio sinaloensis DSM 21326]
          Length = 103

 Score = 38.5 bits (88), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 22/92 (23%), Positives = 50/92 (54%), Gaps = 11/92 (11%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R+R  R   G++QE+LG  LG+       ++ +YE G +    + ++ I++VL++P+++
Sbjct: 7  RRLRHIRKKQGITQEELGYKLGMEPAGASARISQYETGKHAPDYATVKRIADVLQAPVAY 66

Query: 73 FF-------DVSPTVCSDISSEENNVMDFIST 97
          F+       ++        S+ +  ++DF+ T
Sbjct: 67 FYCEDDLLAEIVVQAARYSSATKLEILDFVET 98


>gi|289423964|ref|ZP_06425757.1| hypothetical phagelike protein [Peptostreptococcus anaerobius
          653-L]
 gi|289155741|gb|EFD04413.1| hypothetical phagelike protein [Peptostreptococcus anaerobius
          653-L]
          Length = 253

 Score = 38.5 bits (88), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 20/64 (31%), Positives = 36/64 (56%), Gaps = 7/64 (10%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KRI+ +R+ LG++QE+LG+ +G     V KYE G+       ++++       +S  F
Sbjct: 39 MAKRIKEKRLELGLTQEELGKMIGTQRAAVNKYESGL-------VENMKRSTIKQLSLIF 91

Query: 75 DVSP 78
          +V P
Sbjct: 92 NVDP 95


>gi|218779193|ref|YP_002430511.1| XRE family transcriptional regulator [Desulfatibacillum
          alkenivorans AK-01]
 gi|218760577|gb|ACL03043.1| transcriptional regulator, XRE family [Desulfatibacillum
          alkenivorans AK-01]
          Length = 115

 Score = 38.5 bits (88), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 37/67 (55%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + ++  +GKRI   R+   ++Q +L E +G++ + + + E+GV       L  ++E L S
Sbjct: 2  SGLEKKIGKRIAELRIENNLTQAQLAEAMGLSVESISRMERGVTLPSVKTLAKVAESLGS 61

Query: 69 PISFFFD 75
           +  FFD
Sbjct: 62 SLKQFFD 68


>gi|253572159|ref|ZP_04849563.1| transcriptional regulator [Bacteroides sp. 1_1_6]
 gi|251838339|gb|EES66426.1| transcriptional regulator [Bacteroides sp. 1_1_6]
          Length = 136

 Score = 38.5 bits (88), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 31/124 (25%), Positives = 59/124 (47%), Gaps = 5/124 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL----ES 68
           +++G++I   R + GM+Q  LG+ LGIT Q V K E+   ++   R++ ++E L    E 
Sbjct: 10  LHIGRKIERVRRLRGMTQTDLGDLLGITKQAVSKMEQ-TEKLDDERVKQVAEALGVTEEG 68

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
              F  +      ++     N     I T   L+   +F     VK+ ++++++ R   S
Sbjct: 69  LKKFTEETVLYYTNNFYENSNATATNIGTISNLENINHFSMDQAVKLFEELLKIEREKYS 128

Query: 129 SEKK 132
             K+
Sbjct: 129 GGKE 132


>gi|291563729|emb|CBL42545.1| Predicted transcriptional regulators [butyrate-producing
          bacterium SS3/4]
          Length = 116

 Score = 38.5 bits (88), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 37/70 (52%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK  +  DI +G+RIR  R    M+Q+KL E + ++   + + E G   V    +  I+E
Sbjct: 3  KKNVSKGDIAIGQRIRKIREEKSMTQKKLAEKVMVSPSSITRLESGQTMVSVFTIIKIAE 62

Query: 65 VLESPISFFF 74
          VL + ISF  
Sbjct: 63 VLNTSISFLL 72


>gi|291327181|ref|ZP_06127260.2| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291311305|gb|EFE51758.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 118

 Score = 38.5 bits (88), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FFFDVSPTV 80
          G+S  +LG+ +G++ QQ+ +YE+ V+R+    L ++   L+ P+S F + VS  +
Sbjct: 44 GLSGSELGKKIGVSQQQISRYERNVSRLDFGSLIYLLHHLDMPLSDFLYHVSSQL 98


>gi|260880930|ref|ZP_05403166.2| toxin-antitoxin system, antitoxin component, Xre family
           [Mitsuokella multacida DSM 20544]
 gi|260849947|gb|EEX69954.1| toxin-antitoxin system, antitoxin component, Xre family
           [Mitsuokella multacida DSM 20544]
          Length = 164

 Score = 38.5 bits (88), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 33/138 (23%), Positives = 60/138 (43%), Gaps = 20/138 (14%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+    R++  R   GM ++++ E LGIT Q    YE G      S L  +S++ + P+
Sbjct: 8   MDMVFANRLKEVRERSGMKRKEVAEKLGITMQAYTCYEYGRREPRLSNLIKLSKIFDIPV 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQL-------NRYFIQI--------DDVKV 115
                  P     +    ++  DFI++ DG  +       N Y + I        D V  
Sbjct: 68  DVLCSPYP-----VDMTIDSCSDFINSIDGCGIERMTDNPNNYLVTIPYSPEYSLDLVMP 122

Query: 116 RQKIIELVRSIVSSEKKY 133
           R+ +I + +S+  S+  +
Sbjct: 123 REDVISMCQSVNGSKTAF 140


>gi|153011851|ref|YP_001373064.1| helix-turn-helix domain-containing protein [Ochrobactrum anthropi
           ATCC 49188]
 gi|151563739|gb|ABS17235.1| helix-turn-helix domain protein [Ochrobactrum anthropi ATCC 49188]
          Length = 181

 Score = 38.5 bits (88), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 18/71 (25%), Positives = 36/71 (50%), Gaps = 1/71 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SP 69
           +D  + K +R  R   G+ Q      +G++     +YE+  +++  +R+ HI EVL   P
Sbjct: 60  IDQRLAKYLRDARDSAGLKQADFAPLMGLSTPVYGRYERAFSKLHVTRMVHICEVLNIMP 119

Query: 70  ISFFFDVSPTV 80
           I   ++ +P +
Sbjct: 120 IEMLYEAAPHL 130


>gi|75758655|ref|ZP_00738772.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|74493826|gb|EAO56925.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
          Length = 186

 Score = 38.5 bits (88), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 5  NINVGQKIMAFRKDAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 64

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D ++EE
Sbjct: 65 NFF------LEDTNTEE 75


>gi|309774998|ref|ZP_07670014.1| transcriptional regulator, PbsX family [Erysipelotrichaceae
          bacterium 3_1_53]
 gi|319936258|ref|ZP_08010677.1| hypothetical protein HMPREF9488_01509 [Coprobacillus sp. 29_1]
 gi|325262574|ref|ZP_08129311.1| transcriptional regulator, PbsX family [Clostridium sp. D5]
 gi|308917252|gb|EFP62976.1| transcriptional regulator, PbsX family [Erysipelotrichaceae
          bacterium 3_1_53]
 gi|319808690|gb|EFW05232.1| hypothetical protein HMPREF9488_01509 [Coprobacillus sp. 29_1]
 gi|324032406|gb|EGB93684.1| transcriptional regulator, PbsX family [Clostridium sp. D5]
          Length = 211

 Score = 38.5 bits (88), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 8/66 (12%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL       
Sbjct: 10 HLGNNIQTIRKFRGMKQQELADKIGINMQSLSKIERGLNYPAYETLEKIMEVL------- 62

Query: 74 FDVSPT 79
           DV+P 
Sbjct: 63 -DVTPN 67


>gi|228907976|ref|ZP_04071826.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 200]
 gi|228851642|gb|EEM96446.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 200]
          Length = 184

 Score = 38.5 bits (88), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  NINVGQKIMAFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D ++EE
Sbjct: 63 NFF------LEDTNTEE 73


>gi|227824270|ref|ZP_03989102.1| conserved hypothetical protein [Acidaminococcus sp. D21]
 gi|229827135|ref|ZP_04453204.1| hypothetical protein GCWU000182_02520 [Abiotrophia defectiva ATCC
           49176]
 gi|331084539|ref|ZP_08333639.1| hypothetical protein HMPREF0992_02563 [Lachnospiraceae bacterium
           6_1_63FAA]
 gi|157816229|gb|ABV82121.1| HTH domain protein [Eubacterium saburreum]
 gi|157816232|gb|ABV82123.1| HTH domain protein [Streptococcus salivarius]
 gi|226904769|gb|EEH90687.1| conserved hypothetical protein [Acidaminococcus sp. D21]
 gi|229788753|gb|EEP24867.1| hypothetical protein GCWU000182_02520 [Abiotrophia defectiva ATCC
           49176]
 gi|330401089|gb|EGG80683.1| hypothetical protein HMPREF0992_02563 [Lachnospiraceae bacterium
           6_1_63FAA]
          Length = 114

 Score = 38.5 bits (88), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 28/104 (26%), Positives = 50/104 (48%), Gaps = 7/104 (6%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            DI  GK+IR  R   GM+QE+L   L +T Q +  +E+ VN    + L+ I  +    +
Sbjct: 6   TDITTGKQIRHLRTQSGMTQEELAGKLNVTRQALSNWERDVNEPDLNTLKKICFLFGVHM 65

Query: 71  SFFFDVSPTVCSDISSEE----NNVMDFISTPDGLQLNRYFIQI 110
               D +  V + + + E    +N++  I   D   ++ YF+ +
Sbjct: 66  D---DFAKEVITKMETCEKKRNDNLISMIWQLDFFMVSGYFLAL 106


>gi|212710259|ref|ZP_03318387.1| hypothetical protein PROVALCAL_01318 [Providencia alcalifaciens
          DSM 30120]
 gi|212687066|gb|EEB46594.1| hypothetical protein PROVALCAL_01318 [Providencia alcalifaciens
          DSM 30120]
          Length = 125

 Score = 38.5 bits (88), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 36/72 (50%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FF 73
          VG  IR  R+   ++ E+LG  L I+ QQ+ +YE+G+  V    L  I   L    S FF
Sbjct: 23 VGSFIREARLNCSLTGEELGRMLHISQQQISRYERGITSVSIETLDAILNKLGKDWSDFF 82

Query: 74 FDVSPTVCSDIS 85
          F V      +++
Sbjct: 83 FKVIANYSDEVA 94


>gi|153955926|ref|YP_001396691.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219856268|ref|YP_002473390.1| hypothetical protein CKR_2925 [Clostridium kluyveri NBRC 12016]
 gi|146348784|gb|EDK35320.1| Predicted transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219569992|dbj|BAH07976.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 200

 Score = 38.5 bits (88), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 21/66 (31%), Positives = 30/66 (45%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           DI    R+ L R    MSQ +L E LG+T Q + KYE G        L+ +S +    I 
Sbjct: 65  DIENMNRLSLLRKSHNMSQAELAEKLGVTQQTISKYENGSREPDTETLKLLSSIFNVSID 124

Query: 72  FFFDVS 77
           +    +
Sbjct: 125 YLLGAT 130


>gi|312891359|ref|ZP_07750876.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
 gi|311296053|gb|EFQ73205.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
          Length = 113

 Score = 38.5 bits (88), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 20/50 (40%), Positives = 28/50 (56%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           +GK+IRL R   G SQE + + L I+     K E G+  +  SRL+ IS
Sbjct: 3  TLGKKIRLLRHQRGWSQEDVAKRLDISIPAFSKIETGITDINLSRLEQIS 52


>gi|222087768|ref|YP_002546305.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221725216|gb|ACM28372.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 227

 Score = 38.5 bits (88), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 24/97 (24%), Positives = 42/97 (43%), Gaps = 9/97 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ ++  L  
Sbjct: 35  NNLEMAIGHEVRAYRKKLGITGADLASATGISLGMLSKIENGNTSPSLTTLQSLARALGV 94

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P++ FF            EE     F+   +GL++ R
Sbjct: 95  PVTAFFR---------RFEEKRNAVFVKAGEGLEMER 122


>gi|148544266|ref|YP_001271636.1| XRE family transcriptional regulator [Lactobacillus reuteri DSM
           20016]
 gi|148531300|gb|ABQ83299.1| transcriptional regulator, XRE family [Lactobacillus reuteri DSM
           20016]
          Length = 264

 Score = 38.5 bits (88), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 29/108 (26%), Positives = 50/108 (46%), Gaps = 13/108 (12%)

Query: 3   GNKKIPNPVDI-------NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG 55
            N K P  +D        N G  I + R    M+Q++LG  +G+T + + +YE G+  + 
Sbjct: 67  SNSKAPTLLDRVNFNEKGNPGNNIYVERKKKHMTQKELGMKIGVTREYISEYELGIRPIP 126

Query: 56  ASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
              L+ +SE L S  S+   V+           +++ DFI + D  +L
Sbjct: 127 IETLKKLSEALGSEASYLLGVNGKYLP------HSMNDFILSLDDHEL 168


>gi|237733521|ref|ZP_04564002.1| conserved hypothetical protein [Mollicutes bacterium D7]
 gi|229383354|gb|EEO33445.1| conserved hypothetical protein [Coprobacillus sp. D7]
          Length = 211

 Score = 38.5 bits (88), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 8/66 (12%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL       
Sbjct: 10 HLGNNIQTIRKFRGMKQQELADKIGINMQSLSKIERGLNYPAYETLEKIMEVL------- 62

Query: 74 FDVSPT 79
           DV+P 
Sbjct: 63 -DVTPN 67


>gi|47091696|ref|ZP_00229492.1| DNA-binding protein [Listeria monocytogenes str. 4b H7858]
 gi|254853835|ref|ZP_05243183.1| DNA-binding protein [Listeria monocytogenes FSL R2-503]
 gi|254933600|ref|ZP_05266959.1| DNA-binding protein [Listeria monocytogenes HPB2262]
 gi|255521409|ref|ZP_05388646.1| hypothetical protein LmonocFSL_09325 [Listeria monocytogenes FSL
          J1-175]
 gi|300765051|ref|ZP_07075038.1| hypothetical protein LMHG_11766 [Listeria monocytogenes FSL
          N1-017]
 gi|47020015|gb|EAL10752.1| DNA-binding protein [Listeria monocytogenes str. 4b H7858]
 gi|258607218|gb|EEW19826.1| DNA-binding protein [Listeria monocytogenes FSL R2-503]
 gi|293585163|gb|EFF97195.1| DNA-binding protein [Listeria monocytogenes HPB2262]
 gi|300514176|gb|EFK41236.1| hypothetical protein LMHG_11766 [Listeria monocytogenes FSL
          N1-017]
 gi|328467297|gb|EGF38377.1| hypothetical protein LM1816_00625 [Listeria monocytogenes 1816]
 gi|328475606|gb|EGF46359.1| hypothetical protein LM220_07617 [Listeria monocytogenes 220]
 gi|332311156|gb|EGJ24251.1| DNA-binding protein [Listeria monocytogenes str. Scott A]
          Length = 169

 Score = 38.5 bits (88), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|251789116|ref|YP_003003837.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247537737|gb|ACT06358.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 81

 Score = 38.5 bits (88), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 24/76 (31%), Positives = 35/76 (46%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          V  K  P      +G+ IR RR +LG+SQE L    GI    + + E+G   V    L  
Sbjct: 4  VSGKNDPAHALPLLGQTIRQRRELLGLSQENLASATGIDRSHMGRIERGERNVTLLNLLR 63

Query: 62 ISEVLESPISFFFDVS 77
          I++ LE  +   F  +
Sbjct: 64 IADALEWSLEQLFAAA 79


>gi|226223363|ref|YP_002757470.1| transcription regulator [Listeria monocytogenes Clip81459]
 gi|254823987|ref|ZP_05228988.1| DNA-binding protein [Listeria monocytogenes FSL J1-194]
 gi|225875825|emb|CAS04528.1| Putative transcription regulator [Listeria monocytogenes serotype
          4b str. CLIP 80459]
 gi|293593215|gb|EFG00976.1| DNA-binding protein [Listeria monocytogenes FSL J1-194]
          Length = 169

 Score = 38.5 bits (88), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|114766076|ref|ZP_01445085.1| transcriptional regulator, putative [Pelagibaca bermudensis
          HTCC2601]
 gi|114541631|gb|EAU44672.1| transcriptional regulator, putative [Roseovarius sp. HTCC2601]
          Length = 436

 Score = 38.5 bits (88), Expect = 0.33,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 29/55 (52%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D   G RIR RR+ILGM Q +L   + I+   +   E    R+G   L  ++E+L
Sbjct: 4  DTLTGSRIRERRIILGMKQAELARRVDISASYLNLIEHNRRRIGGKLLLDLAEIL 58


>gi|58696655|ref|ZP_00372209.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila simulans]
 gi|58537179|gb|EAL60281.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila simulans]
          Length = 279

 Score = 38.5 bits (88), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 33/60 (55%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R+I   +Q+ L + +G+T +++ +YE+G   +   +L  I+  L   I    
Sbjct: 145 IGQRIREWRLIRRYTQKDLADKVGVTLKEIHEYERGYTTILFDKLYEIAGALSVNIKVLL 204


>gi|256823110|ref|YP_003147073.1| XRE family transcriptional regulator [Kangiella koreensis DSM
          16069]
 gi|256796649|gb|ACV27305.1| transcriptional regulator, XRE family [Kangiella koreensis DSM
          16069]
          Length = 175

 Score = 38.5 bits (88), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 23/86 (26%), Positives = 44/86 (51%), Gaps = 6/86 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--- 73
          +++RL+R   G SQE+L E  G++ + +Q+ E+G  +      + ++ V E  I+ F   
Sbjct: 4  RKLRLKR---GWSQEQLAELTGVSTRTIQRIERGQTKPSLETQKSLAAVFEVDIATFEPS 60

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
            +  T   D+S+ + N  +    PD
Sbjct: 61 LSMDSTGEPDMSTTDTNATEPKQQPD 86


>gi|217965166|ref|YP_002350844.1| DNA-binding protein [Listeria monocytogenes HCC23]
 gi|217334436|gb|ACK40230.1| DNA-binding protein [Listeria monocytogenes HCC23]
 gi|307570274|emb|CAR83453.1| DNA-binding protein [Listeria monocytogenes L99]
          Length = 169

 Score = 38.5 bits (88), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|16802775|ref|NP_464260.1| hypothetical protein lmo0733 [Listeria monocytogenes EGD-e]
 gi|47095298|ref|ZP_00232909.1| DNA-binding protein [Listeria monocytogenes str. 1/2a F6854]
 gi|224499603|ref|ZP_03667952.1| hypothetical protein LmonF1_07864 [Listeria monocytogenes Finland
          1988]
 gi|224501962|ref|ZP_03670269.1| hypothetical protein LmonFR_05517 [Listeria monocytogenes FSL
          R2-561]
 gi|254828817|ref|ZP_05233504.1| DNA-binding protein [Listeria monocytogenes FSL N3-165]
 gi|254830277|ref|ZP_05234932.1| hypothetical protein Lmon1_02912 [Listeria monocytogenes 10403S]
 gi|254900031|ref|ZP_05259955.1| hypothetical protein LmonJ_09460 [Listeria monocytogenes J0161]
 gi|254911416|ref|ZP_05261428.1| conserved hypothetical protein [Listeria monocytogenes J2818]
 gi|254935743|ref|ZP_05267440.1| DNA-binding protein [Listeria monocytogenes F6900]
 gi|255028966|ref|ZP_05300917.1| hypothetical protein LmonL_06926 [Listeria monocytogenes LO28]
 gi|284801064|ref|YP_003412929.1| hypothetical protein LM5578_0813 [Listeria monocytogenes 08-5578]
 gi|284994206|ref|YP_003415974.1| hypothetical protein LM5923_0768 [Listeria monocytogenes 08-5923]
 gi|16410122|emb|CAC98811.1| lmo0733 [Listeria monocytogenes EGD-e]
 gi|47016369|gb|EAL07291.1| DNA-binding protein [Listeria monocytogenes str. 1/2a F6854]
 gi|258601229|gb|EEW14554.1| DNA-binding protein [Listeria monocytogenes FSL N3-165]
 gi|258608327|gb|EEW20935.1| DNA-binding protein [Listeria monocytogenes F6900]
 gi|284056626|gb|ADB67567.1| hypothetical protein LM5578_0813 [Listeria monocytogenes 08-5578]
 gi|284059673|gb|ADB70612.1| hypothetical protein LM5923_0768 [Listeria monocytogenes 08-5923]
 gi|293589357|gb|EFF97691.1| conserved hypothetical protein [Listeria monocytogenes J2818]
          Length = 169

 Score = 38.5 bits (88), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|312136006|ref|YP_004003344.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
          owensensis OL]
 gi|311776057|gb|ADQ05544.1| helix-turn-helix domain protein [Caldicellulosiruptor owensensis
          OL]
          Length = 177

 Score = 38.5 bits (88), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 19/80 (23%), Positives = 38/80 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+R+ R   G + +++ E LGIT     KYE+        +L  I+++    + F   
Sbjct: 3  GERLRMLRNEKGFTMQQMAEMLGITIGSWAKYERNEAEPSFDKLVKIADIFNVSVDFLLG 62

Query: 76 VSPTVCSDISSEENNVMDFI 95
           +      + + E N+ ++I
Sbjct: 63 RTNVRNDKLGNNETNIKNYI 82


>gi|46906984|ref|YP_013373.1| DNA-binding protein [Listeria monocytogenes serotype 4b str.
          F2365]
 gi|46880250|gb|AAT03550.1| DNA-binding protein [Listeria monocytogenes serotype 4b str.
          F2365]
          Length = 169

 Score = 38.5 bits (88), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|207743919|ref|YP_002260311.1| helix-turn-helix domain transcription regulator protein
          [Ralstonia solanacearum IPO1609]
 gi|206595321|emb|CAQ62248.1| probable helix-turn-helix domain transcription regulator protein
          [Ralstonia solanacearum IPO1609]
          Length = 118

 Score = 38.5 bits (88), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 35/70 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G+ +  RR   G++Q+++ E L I  + V + E+G+      RL  ++EV E  I   
Sbjct: 14 SIGRTLAQRREAKGLTQDQVAEALHIGTEAVSRMERGITMPTVQRLAELAEVYECGIDEL 73

Query: 74 FDVSPTVCSD 83
             S T   D
Sbjct: 74 LIASSTRTGD 83


>gi|315925909|ref|ZP_07922114.1| DNA-binding protein [Pseudoramibacter alactolyticus ATCC 23263]
 gi|315620730|gb|EFV00706.1| DNA-binding protein [Pseudoramibacter alactolyticus ATCC 23263]
          Length = 188

 Score = 38.5 bits (88), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQ++L   L +  Q V K+E+G++   +  L  ISEVLE+P+S
Sbjct: 33 GLSQDELAVKLNVVRQTVSKWERGLSVPDSEMLISISEVLETPVS 77


>gi|291520457|emb|CBK75678.1| Helix-turn-helix [Butyrivibrio fibrisolvens 16/4]
          Length = 111

 Score = 38.5 bits (88), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 32/57 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G RI+L R    ++QEKL E L I+   V K E+G+       L  I+++++  I+
Sbjct: 8  IGSRIKLYRKSKKLTQEKLAELLAISVGYVSKMERGIEHPNLEMLSSIAQIVDCDIA 64


>gi|254993818|ref|ZP_05276008.1| DNA-binding protein [Listeria monocytogenes FSL J2-064]
          Length = 169

 Score = 38.5 bits (88), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|228921209|ref|ZP_04084538.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|228838424|gb|EEM83736.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
          Length = 184

 Score = 38.5 bits (88), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  NINVGQKIMAFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D ++EE
Sbjct: 63 NFF------LEDTNTEE 73


>gi|160933444|ref|ZP_02080832.1| hypothetical protein CLOLEP_02290 [Clostridium leptum DSM 753]
 gi|156867321|gb|EDO60693.1| hypothetical protein CLOLEP_02290 [Clostridium leptum DSM 753]
          Length = 169

 Score = 38.5 bits (88), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 30/48 (62%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S   
Sbjct: 14 GLSQQELAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVSTLL 61


>gi|78046656|ref|YP_362831.1| XRE family transcriptional regulator [Xanthomonas campestris pv.
          vesicatoria str. 85-10]
 gi|78035086|emb|CAJ22731.1| putative transcriptional regulator, XRE family [Xanthomonas
          campestris pv. vesicatoria str. 85-10]
          Length = 118

 Score = 38.5 bits (88), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 19/73 (26%), Positives = 39/73 (53%), Gaps = 6/73 (8%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQ-----QVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+R+R  R+ LG+ Q  LG  LG+  Q     ++ +YE G +         +++ L  P+
Sbjct: 19 GRRLRTARLSLGLRQADLGRMLGMEEQNTGAPRISRYETGQHDPDPETAAELAQALGLPL 78

Query: 71 SFFFDVSPTVCSD 83
          ++F+  +P + ++
Sbjct: 79 AYFY-ATPDMLAE 90


>gi|194337612|ref|YP_002019406.1| helix-turn-helix domain protein [Pelodictyon phaeoclathratiforme
          BU-1]
 gi|194310089|gb|ACF44789.1| helix-turn-helix domain protein [Pelodictyon phaeoclathratiforme
          BU-1]
          Length = 359

 Score = 38.5 bits (88), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RIR  R   G++   LG  +G+T   +QKYEKG+    +S L  +++       +FF
Sbjct: 5  RIRQARQAAGLTLAALGAKIGVTHTAIQKYEKGIITPSSSILLKLAQACGVRTEYFF 61


>gi|255018407|ref|ZP_05290533.1| hypothetical protein LmonF_13171 [Listeria monocytogenes FSL
          F2-515]
          Length = 163

 Score = 38.5 bits (88), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|184153646|ref|YP_001841987.1| hypothetical protein LAR_0991 [Lactobacillus reuteri JCM 1112]
 gi|227364982|ref|ZP_03849023.1| conserved hypothetical protein [Lactobacillus reuteri MM2-3]
 gi|325681705|ref|ZP_08161225.1| hypothetical protein HMPREF0536_10144 [Lactobacillus reuteri
           MM4-1A]
 gi|183224990|dbj|BAG25507.1| hypothetical protein [Lactobacillus reuteri JCM 1112]
 gi|227069993|gb|EEI08375.1| conserved hypothetical protein [Lactobacillus reuteri MM2-3]
 gi|324979017|gb|EGC15964.1| hypothetical protein HMPREF0536_10144 [Lactobacillus reuteri
           MM4-1A]
          Length = 266

 Score = 38.5 bits (88), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 29/108 (26%), Positives = 50/108 (46%), Gaps = 13/108 (12%)

Query: 3   GNKKIPNPVDI-------NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG 55
            N K P  +D        N G  I + R    M+Q++LG  +G+T + + +YE G+  + 
Sbjct: 69  SNSKAPTLLDRVNFNEKGNPGNNIYVERKKKHMTQKELGMKIGVTREYISEYELGIRPIP 128

Query: 56  ASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
              L+ +SE L S  S+   V+           +++ DFI + D  +L
Sbjct: 129 IETLKKLSEALGSEASYLLGVNGKYLP------HSMNDFILSLDDHEL 170


>gi|262199526|ref|YP_003270735.1| XRE family transcriptional regulator [Haliangium ochraceum DSM
          14365]
 gi|262082873|gb|ACY18842.1| transcriptional regulator, XRE family [Haliangium ochraceum DSM
          14365]
          Length = 123

 Score = 38.1 bits (87), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 35/70 (50%), Gaps = 7/70 (10%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+RL R  LGM Q +L    G++  + Q+ E G        L  IS+ L+  +SFF 
Sbjct: 10 LGQRLRLVREGLGMGQGELASACGVSDARYQEIEAGSYLPSIDELIAISDALDIDVSFF- 68

Query: 75 DVSPTVCSDI 84
                C DI
Sbjct: 69 ------CEDI 72


>gi|218510037|ref|ZP_03507915.1| hypothetical protein RetlB5_22605 [Rhizobium etli Brasil 5]
          Length = 167

 Score = 38.1 bits (87), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 27/113 (23%), Positives = 50/113 (44%), Gaps = 10/113 (8%)

Query: 27  GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFFDVSPTVCSDIS 85
           G+S+  +   LG++     +YE+  +++  +R+ H+ E+L   PI   F+ +P +    S
Sbjct: 58  GLSRADVAPMLGLSIPVYGRYERAFSKMTVTRMIHLCEILGFMPIDMIFEAAPHLWGRTS 117

Query: 86  SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTIEE 138
            E           D L L R   ++ +   R  I  L R I   ++  R I +
Sbjct: 118 EEAE---------DCLTLARILRRLPNGTTRDLIRLLQRMIPDDDESDRDISD 161


>gi|167767648|ref|ZP_02439701.1| hypothetical protein CLOSS21_02181 [Clostridium sp. SS2/1]
 gi|319938591|ref|ZP_08012978.1| hypothetical protein HMPREF9488_03814 [Coprobacillus sp. 29_1]
 gi|167710665|gb|EDS21244.1| hypothetical protein CLOSS21_02181 [Clostridium sp. SS2/1]
 gi|291560782|emb|CBL39582.1| Predicted transcription factor, homolog of eukaryotic MBF1
           [butyrate-producing bacterium SSC/2]
 gi|319806227|gb|EFW02919.1| hypothetical protein HMPREF9488_03814 [Coprobacillus sp. 29_1]
          Length = 223

 Score = 38.1 bits (87), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 31/126 (24%), Positives = 58/126 (46%), Gaps = 14/126 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI--------SEVL 66
           +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I        +E+L
Sbjct: 11  LGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNYPTFDTLEKIMDVLGVTPNELL 70

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK--VRQKIIELVR 124
                +     P +   I  E+    DF  + D L  N +F    + +  +  K+I+ + 
Sbjct: 71  SGEWKYIDHTEPYIMDIIKREQ----DFNVSLDYLSENEFFNDEKECRFYMETKLIQYIH 126

Query: 125 SIVSSE 130
           + +++E
Sbjct: 127 NYITNE 132


>gi|167759352|ref|ZP_02431479.1| hypothetical protein CLOSCI_01699 [Clostridium scindens ATCC
          35704]
 gi|167662909|gb|EDS07039.1| hypothetical protein CLOSCI_01699 [Clostridium scindens ATCC
          35704]
          Length = 257

 Score = 38.1 bits (87), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 25/57 (43%), Positives = 34/57 (59%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          K I+LRR   GMSQE+L + LGIT Q V K+E G      S+L  +SE+ +  I + 
Sbjct: 6  KLIQLRRK-QGMSQEQLADRLGITRQSVSKWESGSAAPELSKLITLSEMFQVSIDYL 61


>gi|99081351|ref|YP_613505.1| XRE family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99037631|gb|ABF64243.1| transcriptional regulator, XRE family [Ruegeria sp. TM1040]
          Length = 443

 Score = 38.1 bits (87), Expect = 0.35,   Method: Composition-based stats.
 Identities = 21/57 (36%), Positives = 29/57 (50%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          P D   G RIR RRM+LG+ Q  L    GI+   +   E    R+G   L  +++VL
Sbjct: 2  PGDSLTGSRIRERRMMLGLRQADLARDAGISASYLNLIEHNRRRIGGKLLVTLAQVL 58


>gi|313677569|ref|YP_004055565.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
 gi|312944267|gb|ADR23457.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
          Length = 171

 Score = 38.1 bits (87), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 21/45 (46%), Positives = 31/45 (68%), Gaps = 1/45 (2%)

Query: 23  RMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVL 66
           R+  G+SQ+KL + LGI+ QQVQ+ E   N ++ A +LQ IS+ L
Sbjct: 83  RIASGVSQKKLADQLGISPQQVQRNETNDNQQLSAKKLQGISDAL 127


>gi|300773794|ref|ZP_07083663.1| DNA-binding protein [Sphingobacterium spiritivorum ATCC 33861]
 gi|300759965|gb|EFK56792.1| DNA-binding protein [Sphingobacterium spiritivorum ATCC 33861]
          Length = 110

 Score = 38.1 bits (87), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 34/118 (28%), Positives = 56/118 (47%), Gaps = 26/118 (22%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK+IRL R   G SQE + + L I+     K E G+  V  SRL  IS+         F
Sbjct: 4   LGKKIRLLRHQKGWSQEDVAKRLDISIPAFSKIETGITDVNLSRLNQISK--------LF 55

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD----VKVRQ-KIIELVRSIV 127
            +S             V+  +ST D  +  +Y  ++ D    ++VR+ ++IEL + ++
Sbjct: 56  SLS-------------VVQLLSTSDSEEDKQYANELADMSKKLQVRETEVIELQKKVI 100


>gi|239815284|ref|YP_002944194.1| XRE family transcriptional regulator [Variovorax paradoxus S110]
 gi|239801861|gb|ACS18928.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 135

 Score = 38.1 bits (87), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 18/54 (33%), Positives = 28/54 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +G+RI   R    + Q +L E LG+  Q +Q YE G  R+  S L  ++  L
Sbjct: 24 VAMGERIAQLRKARSLPQTQLAEALGVAQQTLQAYEAGTRRIPVSALPTVARTL 77


>gi|94986009|ref|YP_605373.1| hypothetical protein Dgeo_1909 [Deinococcus geothermalis DSM
          11300]
 gi|94556290|gb|ABF46204.1| Zn peptidase and DNA-binding HTH-like domain [Deinococcus
          geothermalis DSM 11300]
          Length = 376

 Score = 38.1 bits (87), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 30/59 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G R++  R   G+S E LGE +G++ Q + K E  V+         I + L+ P  FF+
Sbjct: 9  GWRLKQAREAYGLSLESLGELVGVSKQAISKMENDVSEPSPEVFLKICQSLKRPAEFFY 67


>gi|70727102|ref|YP_254016.1| hypothetical protein SH2101 [Staphylococcus haemolyticus
          JCSC1435]
 gi|68447826|dbj|BAE05410.1| unnamed protein product [Staphylococcus haemolyticus JCSC1435]
          Length = 305

 Score = 38.1 bits (87), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 30/51 (58%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +GKRI+  R+ +G +Q + G+    +   V  +EKGV+   A RL+ I+ +
Sbjct: 7  IGKRIKEIRLKIGKTQTQFGDLFSASKGNVATWEKGVSLPNAKRLKEIARL 57


>gi|238894195|ref|YP_002918929.1| putative repressor protein of prophage [Klebsiella pneumoniae
          NTUH-K2044]
 gi|238546511|dbj|BAH62862.1| putative repressor protein of prophage [Klebsiella pneumoniae
          subsp. pneumoniae NTUH-K2044]
          Length = 241

 Score = 38.1 bits (87), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 29/58 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          RIR RR  L ++Q  LG+ +G+    V  +E G    G S LQ +S  L+    +  D
Sbjct: 29 RIRARRKELKLTQAVLGKLVGVNRVTVTGWESGDYAPGGSNLQALSAALKCSPKWLID 86


>gi|329725145|gb|EGG61635.1| DNA-binding helix-turn-helix protein [Staphylococcus aureus
          subsp. aureus 21189]
          Length = 112

 Score = 38.1 bits (87), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 32/72 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R  L ++Q++LGE L      +  YE G        L  I+ +L   I   F
Sbjct: 10 IGNKIRYYRTKLNLTQDQLGEKLNTKKATISNYETGYRTPKQDDLFEIAHILNISIDDLF 69

Query: 75 DVSPTVCSDISS 86
                 +DI+S
Sbjct: 70 PTRNNKKNDITS 81


>gi|302672234|ref|YP_003832194.1| HTH/TPR domain-containing protein [Butyrivibrio proteoclasticus
          B316]
 gi|302396707|gb|ADL35612.1| HTH/TPR domain-containing protein [Butyrivibrio proteoclasticus
          B316]
          Length = 374

 Score = 38.1 bits (87), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 33/61 (54%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G +I+  R+   ++QEKL E L ++FQ + ++E G++    S +  I+        + 
Sbjct: 3  NLGSKIKELRIAENLTQEKLAEELNVSFQSISRWENGISTPDISLIPAIARFFGVSTDYL 62

Query: 74 F 74
          F
Sbjct: 63 F 63


>gi|169349646|ref|ZP_02866584.1| hypothetical protein CLOSPI_00384 [Clostridium spiroforme DSM
          1552]
 gi|169293721|gb|EDS75854.1| hypothetical protein CLOSPI_00384 [Clostridium spiroforme DSM
          1552]
          Length = 211

 Score = 38.1 bits (87), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 8/66 (12%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL       
Sbjct: 10 HLGNNIQTIRKFRGMKQQELADKIGINMQSLSKIERGLNYPAYETLEKIMEVL------- 62

Query: 74 FDVSPT 79
           DV+P 
Sbjct: 63 -DVTPN 67


>gi|166033610|ref|ZP_02236439.1| hypothetical protein DORFOR_03336 [Dorea formicigenerans ATCC
          27755]
 gi|210608449|ref|ZP_03287825.1| hypothetical protein CLONEX_00004 [Clostridium nexile DSM 1787]
 gi|317500066|ref|ZP_07958301.1| hypothetical protein HMPREF1026_00243 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|166026795|gb|EDR45552.1| hypothetical protein DORFOR_03336 [Dorea formicigenerans ATCC
          27755]
 gi|210153068|gb|EEA84074.1| hypothetical protein CLONEX_00004 [Clostridium nexile DSM 1787]
 gi|316898551|gb|EFV20587.1| hypothetical protein HMPREF1026_00243 [Lachnospiraceae bacterium
          8_1_57FAA]
          Length = 211

 Score = 38.1 bits (87), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 8/66 (12%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL       
Sbjct: 10 HLGNNIQTIRKFRGMKQQELADKIGINMQSLSKIERGLNYPAYETLEKIMEVL------- 62

Query: 74 FDVSPT 79
           DV+P 
Sbjct: 63 -DVTPN 67


>gi|42520474|ref|NP_966389.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|225630361|ref|YP_002727152.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|225630755|ref|YP_002727546.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|42410213|gb|AAS14323.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|225592342|gb|ACN95361.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|225592736|gb|ACN95755.1| transcriptional regulator, putative [Wolbachia sp. wRi]
          Length = 303

 Score = 38.1 bits (87), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 33/60 (55%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R+I   +Q+ L + +G+T +++ +YE+G   +   +L  I+  L   I    
Sbjct: 169 IGQRIREWRLIRRYTQKDLADKVGVTLKEIHEYERGYTTILFDKLYEIAGALSVNIKVLL 228


>gi|212711619|ref|ZP_03319747.1| hypothetical protein PROVALCAL_02694 [Providencia alcalifaciens
          DSM 30120]
 gi|212685721|gb|EEB45249.1| hypothetical protein PROVALCAL_02694 [Providencia alcalifaciens
          DSM 30120]
          Length = 91

 Score = 38.1 bits (87), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 35/65 (53%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   +G +IR  R   G+S   + + +GI+ QQ  +YE+G NR+   RL+  +      
Sbjct: 6  PVSAVIGYKIRELRKEKGLSLLAVAKTIGISEQQQLRYERGHNRISIDRLKQYAIYFNIN 65

Query: 70 ISFFF 74
          I+ FF
Sbjct: 66 INDFF 70


>gi|319934812|ref|ZP_08009257.1| transcriptional regulator [Coprobacillus sp. 29_1]
 gi|319810189|gb|EFW06551.1| transcriptional regulator [Coprobacillus sp. 29_1]
          Length = 302

 Score = 38.1 bits (87), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 33/131 (25%), Positives = 59/131 (45%), Gaps = 1/131 (0%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G +++  R   G+SQE L E L ++ Q V K+E G       +L  IS++    I +
Sbjct: 1   MDFGMKLQSLRKEKGLSQEALAEKLHVSRQAVSKWESGAGYPEMDKLILISDLFGVTIDY 60

Query: 73  FF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
              D   +V  D  +E    M+     + +   R+F       V   I+ ++  I+ S+K
Sbjct: 61  LIKDSHESVPDDQRAESKYFMNSQKIKEYMNFKRHFGLRIGGAVSAIILSVIFPILMSDK 120

Query: 132 KYRTIEEECMV 142
           +Y  I    M+
Sbjct: 121 QYEMIGTMIML 131


>gi|228926912|ref|ZP_04089978.1| Transcriptional regulator [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
 gi|228936979|ref|ZP_04099721.1| Transcriptional regulator [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228822694|gb|EEM68584.1| Transcriptional regulator [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228832647|gb|EEM78218.1| Transcriptional regulator [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
          Length = 118

 Score = 38.1 bits (87), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 28/119 (23%), Positives = 60/119 (50%), Gaps = 6/119 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI   R    + QE+LG+ +G++ Q + KYEKG        ++ +++    P+ +  
Sbjct: 4   IGERIFELRKEKKLVQEELGKYIGVSKQTISKYEKGTKIPSRENIEKLADFFSVPVDYLL 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS-IVSSEKK 132
                  SD +++ +N +  I   D L  +   +  D+++  + ++E+  S ++  EKK
Sbjct: 64  G-----KSDSTNKSSNNIKEIFESDELHWDGRKLSPDEIESVKALLEVAISRMLKQEKK 117


>gi|227539648|ref|ZP_03969697.1| conserved hypothetical protein [Sphingobacterium spiritivorum
          ATCC 33300]
 gi|227240561|gb|EEI90576.1| conserved hypothetical protein [Sphingobacterium spiritivorum
          ATCC 33300]
          Length = 110

 Score = 38.1 bits (87), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 32/65 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK+IRL R   G SQE + + L I+     K E G+  V  SRL  IS++    +    
Sbjct: 4  LGKKIRLLRHQKGWSQEDVAKRLDISIPAFSKIETGITDVNLSRLNQISKLFSLSVVQLL 63

Query: 75 DVSPT 79
            S +
Sbjct: 64 STSDS 68


>gi|126699511|ref|YP_001088408.1| putative phage repressor [Clostridium difficile 630]
 gi|255101028|ref|ZP_05330005.1| putative phage repressor [Clostridium difficile QCD-63q42]
 gi|115250948|emb|CAJ68776.1| Transcriptional regulator, Phage-type [Clostridium difficile]
          Length = 169

 Score = 38.1 bits (87), Expect = 0.38,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQQELAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|319743893|gb|EFV96285.1| XRE family transcriptional regulator [Streptococcus agalactiae
          ATCC 13813]
          Length = 150

 Score = 38.1 bits (87), Expect = 0.38,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 32/60 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R+   ++Q +L + L  T Q + +YEKG  +     L  +S++ E  I  FF
Sbjct: 7  VGNKIKQFRLEKKLTQTQLADLLDTTKQTISRYEKGDRKANQDVLFALSDLFEKTIDDFF 66


>gi|304395821|ref|ZP_07377703.1| transcriptional regulator, XRE family [Pantoea sp. aB]
 gi|304356190|gb|EFM20555.1| transcriptional regulator, XRE family [Pantoea sp. aB]
          Length = 232

 Score = 38.1 bits (87), Expect = 0.38,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 35/61 (57%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G+RIRL+R  L ++Q+ L E  G+    V  +EK   +   + LQ +++ L+   ++
Sbjct: 17 MNMGERIRLKRKELNLTQQALAEKAGVNRVTVTGWEKDDYQPNGANLQALADALKCDPTW 76

Query: 73 F 73
           
Sbjct: 77 L 77


>gi|307129576|ref|YP_003881592.1| hypothetical protein Dda3937_01730 [Dickeya dadantii 3937]
 gi|306527105|gb|ADM97035.1| hypothetical protein Dda3937_01730 [Dickeya dadantii 3937]
          Length = 116

 Score = 38.1 bits (87), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 4/72 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR+RL R+ +G++Q +LG   GI       +V +YEK  +      +   + VL+ P 
Sbjct: 23 IGKRLRLARVNVGLTQAELGRQAGIDEESAGARVSQYEKETHAPDFKLVCRFAAVLDVPE 82

Query: 71 SFFFDVSPTVCS 82
          ++F+ V   + +
Sbjct: 83 AYFYAVDDDLAT 94


>gi|290894443|ref|ZP_06557403.1| DNA-binding protein [Listeria monocytogenes FSL J2-071]
 gi|290556004|gb|EFD89558.1| DNA-binding protein [Listeria monocytogenes FSL J2-071]
          Length = 169

 Score = 38.1 bits (87), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|89255372|ref|NP_659801.2| hypothetical protein RHE_PD00237 [Rhizobium etli CFN 42]
 gi|190894245|ref|YP_001984539.1| hypothetical protein RHECIAT_PB0000282 [Rhizobium etli CIAT 652]
 gi|218682580|ref|ZP_03530181.1| hypothetical protein RetlC8_27503 [Rhizobium etli CIAT 894]
 gi|89213326|gb|AAM54815.2| hypothetical protein RHE_PD00237 [Rhizobium etli CFN 42]
 gi|190699906|gb|ACE93989.1| hypothetical conserved protein [Rhizobium etli CIAT 652]
          Length = 167

 Score = 38.1 bits (87), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 27/113 (23%), Positives = 50/113 (44%), Gaps = 10/113 (8%)

Query: 27  GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFFDVSPTVCSDIS 85
           G+S+  +   LG++     +YE+  +++  +R+ H+ E+L   PI   F+ +P +    S
Sbjct: 58  GLSRADVAPMLGLSIPVYGRYERAFSKMTVTRMIHLCEILGFMPIDMIFEAAPHLWGRTS 117

Query: 86  SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTIEE 138
            E           D L L R   ++ +   R  I  L R I   ++  R I +
Sbjct: 118 EEAE---------DCLTLARILRRLPNGTTRDLIRLLQRMIPDDDESDRGISD 161


>gi|332686910|ref|YP_004456684.1| repressor protein [Melissococcus plutonius ATCC 35311]
 gi|332370919|dbj|BAK21875.1| repressor protein [Melissococcus plutonius ATCC 35311]
          Length = 239

 Score = 38.1 bits (87), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 31/60 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R    ++QE L + L  T Q + +YE G  +     L  +SE+ E  I+ FF
Sbjct: 8  IGNKIKEYRERRNLTQEDLADMLNTTRQSISRYETGERKANQDMLFKLSEIYEISINDFF 67


>gi|295100273|emb|CBK97818.1| Predicted transcriptional regulator with C-terminal CBS domains
           [Faecalibacterium prausnitzii L2-6]
          Length = 184

 Score = 38.1 bits (87), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 27/105 (25%), Positives = 54/105 (51%), Gaps = 3/105 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           + +G+R+++RR  LGMSQE+L   +G  +   + K E G   +  S+++ I++ LE+  S
Sbjct: 1   MTIGQRVKIRREELGMSQEELATKVGYKSKSSINKIELGFRVLTQSKIKVIADALETTPS 60

Query: 72  FF--FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +   +D         S   ++VM  ++  D   L    I + +++
Sbjct: 61  YIMGWDEESHQNEWSSKFRDSVMQILNNADPADLKAAGISVQEIE 105


>gi|189423269|ref|YP_001950446.1| XRE family transcriptional regulator [Geobacter lovleyi SZ]
 gi|189419528|gb|ACD93926.1| transcriptional regulator, XRE family [Geobacter lovleyi SZ]
          Length = 161

 Score = 38.1 bits (87), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 26/75 (34%), Positives = 36/75 (48%), Gaps = 11/75 (14%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          NPV I  G  IR RRM LG+ Q ++ E +G+T   V  +E GV       LQ+   +++ 
Sbjct: 32 NPVTI--GDHIRKRRMDLGLLQREVAEIIGVTESSVWNWEHGVE----PELQYNPRIIK- 84

Query: 69 PISFFFDVSPTVCSD 83
              F    P  C D
Sbjct: 85 ----FLGYIPFDCPD 95


>gi|188026190|ref|ZP_02961203.2| hypothetical protein PROSTU_03206 [Providencia stuartii ATCC
          25827]
 gi|188021969|gb|EDU60009.1| hypothetical protein PROSTU_03206 [Providencia stuartii ATCC
          25827]
          Length = 99

 Score = 38.1 bits (87), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 38/65 (58%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   VG++I+  R   G +  +L + + I+ QQ+ +YE+GVNR+    L  + +VL+  
Sbjct: 8  PVACAVGQKIKSLRKSQGYTVFQLAKEIDISEQQLFRYERGVNRIDIDCLVRVLKVLDVN 67

Query: 70 ISFFF 74
          +  FF
Sbjct: 68 MGEFF 72


>gi|92113335|ref|YP_573263.1| XRE family transcriptional regulator [Chromohalobacter salexigens
          DSM 3043]
 gi|91796425|gb|ABE58564.1| transcriptional regulator, XRE family [Chromohalobacter
          salexigens DSM 3043]
          Length = 205

 Score = 38.1 bits (87), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 1/63 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISF 72
           +G RI+  RM  G+S+  L   +G++   +  +E G + ++G  RL  ++E LE P+  
Sbjct: 3  TLGPRIKQLRMEAGLSKAALARRVGVSDVTISYWESGTIKQIGHERLLSLAEALECPLER 62

Query: 73 FFD 75
            D
Sbjct: 63 LLD 65


>gi|291537327|emb|CBL10439.1| Helix-turn-helix [Roseburia intestinalis M50/1]
          Length = 138

 Score = 38.1 bits (87), Expect = 0.40,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 34/61 (55%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++GKRI+ RR  L ++Q ++ E  GI+   +   E+G     A+ L  +SE+L+  I + 
Sbjct: 7  SIGKRIKKRRKELHLTQTEIKEKTGISSGNMSDIERGNRLPAATTLAQLSEILDCSIDWI 66

Query: 74 F 74
           
Sbjct: 67 L 67


>gi|225018741|ref|ZP_03707933.1| hypothetical protein CLOSTMETH_02691 [Clostridium methylpentosum
          DSM 5476]
 gi|224948469|gb|EEG29678.1| hypothetical protein CLOSTMETH_02691 [Clostridium methylpentosum
          DSM 5476]
          Length = 116

 Score = 38.1 bits (87), Expect = 0.40,   Method: Compositional matrix adjust.
 Identities = 20/67 (29%), Positives = 33/67 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G RI   R  L + Q+ L   +GIT   + KYE+ +N   A  L  I++ L +   F
Sbjct: 2  LTLGDRIISLRQDLDIQQKDLAAQIGITKSSMSKYERNINIPNAEILSKIADALNTTTDF 61

Query: 73 FFDVSPT 79
              +P+
Sbjct: 62 LLGRTPS 68


>gi|253580586|ref|ZP_04857850.1| predicted protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251847957|gb|EES75923.1| predicted protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 111

 Score = 38.1 bits (87), Expect = 0.40,   Method: Compositional matrix adjust.
 Identities = 21/65 (32%), Positives = 36/65 (55%), Gaps = 1/65 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
          +GKRI   R+ L ++QE+L E  G +   + ++E G  +     L  +S+VL   I +F 
Sbjct: 6  IGKRIAEARINLNITQEQLEELSGFSVSTISRFETGRTQPSIENLIKLSKVLNVGIDYFL 65

Query: 74 FDVSP 78
          +D+ P
Sbjct: 66 YDLIP 70


>gi|320120590|gb|EFE29126.2| GTP pyrophosphokinase [Filifactor alocis ATCC 35896]
          Length = 271

 Score = 38.1 bits (87), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 33/59 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N+G  IR  R   G +QEKL E L ++FQ V  +E+   +     L  ++E+L+  +S
Sbjct: 1  MNIGMNIRRLREERGFTQEKLAEKLNVSFQAVSAWEREEYKPDLDNLIKLTEILDVSLS 59


>gi|299534571|ref|ZP_07047903.1| hypothetical protein BFZC1_01042 [Lysinibacillus fusiformis ZC1]
 gi|298729944|gb|EFI70487.1| hypothetical protein BFZC1_01042 [Lysinibacillus fusiformis ZC1]
          Length = 180

 Score = 38.1 bits (87), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 37/67 (55%), Gaps = 1/67 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PIS 71
          + +G +I+  R+  G++QE+LGE   ++   + + E+ +N      L  I EVL S P  
Sbjct: 1  MQIGAKIKALRLKKGLTQEELGERTDLSKGYISQLERDLNSPSIETLFSILEVLGSRPKD 60

Query: 72 FFFDVSP 78
          FF D SP
Sbjct: 61 FFDDESP 67


>gi|104303743|gb|ABF72139.1| HTH domain protein [Arcanobacterium pyogenes]
          Length = 49

 Score = 38.1 bits (87), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 18/43 (41%), Positives = 28/43 (65%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR 53
           +I  GK+IR  R  LGM+QE+L   L +T Q +  +E+GV++
Sbjct: 6  TNITTGKQIRHLRTQLGMTQEELAGELNVTRQALSNWERGVSQ 48


>gi|327405730|ref|YP_004346568.1| helix-turn-helix domain-containing protein [Fluviicola taffensis
          DSM 16823]
 gi|327321238|gb|AEA45730.1| helix-turn-helix domain protein [Fluviicola taffensis DSM 16823]
          Length = 298

 Score = 38.1 bits (87), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 44/84 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R    +SQ +L E L I+ Q V K+E+G +      L  +SE+L+  +++F 
Sbjct: 7  IGQRIADARKKTTISQAQLSERLFISPQAVGKWERGESMPDIITLNRLSEILDVDLNYFS 66

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
          D   +  S+     N++ + +  P
Sbjct: 67 DGFTSAVSEEKKSSNSLQELLEKP 90


>gi|229070587|ref|ZP_04203825.1| Transcriptional regulator, MerR [Bacillus cereus F65185]
 gi|228712492|gb|EEL64429.1| Transcriptional regulator, MerR [Bacillus cereus F65185]
          Length = 186

 Score = 38.1 bits (87), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 23/77 (29%), Positives = 38/77 (49%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +IN+G++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 5  NINIGQKIMAFRKDAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 64

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D ++EE
Sbjct: 65 NFF------LEDTNTEE 75


>gi|294478947|gb|ADE87512.1| transcriptional regulator [Deep-sea thermophilic phage D6E]
          Length = 206

 Score = 38.1 bits (87), Expect = 0.42,   Method: Compositional matrix adjust.
 Identities = 24/86 (27%), Positives = 47/86 (54%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+ I   R + G+S E+LG  +G+T + +++YE G  R+   R+  I+E L+   +  +
Sbjct: 8   VGQNIEKYRKMKGLSAEELGNRVGLTKKTIRRYETGEIRIINDRVLAIAEALDVDPADLY 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
           + +  V     +E+  ++  IS  +G
Sbjct: 68  EGTDVVEFTDETEKLPIVGAISCGNG 93


>gi|313899162|ref|ZP_07832684.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956040|gb|EFR37686.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 206

 Score = 38.1 bits (87), Expect = 0.42,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 8/65 (12%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL        
Sbjct: 6  LGNNIQTIRKYRGMKQQELADKIGINMQSLSKIERGLNYPAYDTLEKIMEVL-------- 57

Query: 75 DVSPT 79
          DV+P 
Sbjct: 58 DVTPN 62


>gi|297585472|ref|YP_003701252.1| XRE family transcriptional regulator [Bacillus selenitireducens
          MLS10]
 gi|297143929|gb|ADI00687.1| transcriptional regulator, XRE family [Bacillus selenitireducens
          MLS10]
          Length = 182

 Score = 38.1 bits (87), Expect = 0.42,   Method: Compositional matrix adjust.
 Identities = 21/80 (26%), Positives = 46/80 (57%), Gaps = 5/80 (6%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++ ++IR+ R   G++ ++L E  G++   + + E+G +    S L+ I++ L  PI+ F
Sbjct: 5  DLARQIRVSRTNAGLTLKELSEKTGLSVSFISQVERGTSSPAISSLKKIADGLNVPITSF 64

Query: 74 FDVSP---TVCSDISSEENN 90
          F  +P   T  + ++SE+ +
Sbjct: 65 F--TPEQNTTYTSVASEQRS 82


>gi|225855439|ref|YP_002736951.1| transcriptional activator [Streptococcus pneumoniae JJA]
 gi|225723117|gb|ACO18970.1| transcriptional activator [Streptococcus pneumoniae JJA]
          Length = 287

 Score = 38.1 bits (87), Expect = 0.42,   Method: Compositional matrix adjust.
 Identities = 26/73 (35%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    V S++S+
Sbjct: 62 FNEQIEVKSNLSN 74


>gi|169335255|ref|ZP_02862448.1| hypothetical protein ANASTE_01663 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169257993|gb|EDS71959.1| hypothetical protein ANASTE_01663 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 143

 Score = 38.1 bits (87), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 31/58 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G RI+  R    ++Q++LGE LG+    +  YEKG  +V A     +SE+    + +
Sbjct: 20 IGDRIKELRKENKLTQQELGEKLGVHSNTISMYEKGNRKVSAEMANKLSEIFNVSVGY 77


>gi|153012131|ref|YP_001373341.1| cupin 2 domain-containing protein [Ochrobactrum anthropi ATCC
          49188]
 gi|151564019|gb|ABS17512.1| Cupin 2 conserved barrel domain protein [Ochrobactrum anthropi
          ATCC 49188]
          Length = 202

 Score = 38.1 bits (87), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)

Query: 8  PNPVDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          P P D  ++G RIRLRR  LG++   L E  G++   + + E+G+       L  I+EVL
Sbjct: 15 PAPNDAGDIGARIRLRRQTLGLTLGYLSEVSGLSTGALSQIERGLVSPTVRTLYTIAEVL 74


>gi|254975493|ref|ZP_05271965.1| putative phage repressor [Clostridium difficile QCD-66c26]
 gi|255092881|ref|ZP_05322359.1| putative phage repressor [Clostridium difficile CIP 107932]
 gi|255314622|ref|ZP_05356205.1| putative phage repressor [Clostridium difficile QCD-76w55]
 gi|255517296|ref|ZP_05384972.1| putative phage repressor [Clostridium difficile QCD-97b34]
 gi|255650403|ref|ZP_05397305.1| putative phage repressor [Clostridium difficile QCD-37x79]
 gi|260683516|ref|YP_003214801.1| putative phage repressor [Clostridium difficile CD196]
 gi|260687176|ref|YP_003218310.1| putative phage repressor [Clostridium difficile R20291]
 gi|306520382|ref|ZP_07406729.1| putative phage repressor [Clostridium difficile QCD-32g58]
 gi|260209679|emb|CBA63401.1| putative phage repressor [Clostridium difficile CD196]
 gi|260213193|emb|CBE04666.1| putative phage repressor [Clostridium difficile R20291]
          Length = 169

 Score = 38.1 bits (87), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQQELAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|75760227|ref|ZP_00740282.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|74492280|gb|EAO55441.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
          Length = 186

 Score = 38.1 bits (87), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 5  NINVGQKIMAFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 64

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D ++EE
Sbjct: 65 NFF------LEDTNTEE 75


>gi|58699926|ref|ZP_00374515.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
 gi|58533557|gb|EAL57967.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
          Length = 293

 Score = 38.1 bits (87), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 33/60 (55%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R+I   +Q+ L + +G+T +++ +YE+G   +   +L  I+  L   I    
Sbjct: 183 IGQRIREWRLIRRYTQKDLADKVGVTLKEIHEYERGYTTILFDKLYEIAGALSVNIKVLL 242


>gi|268589793|ref|ZP_06124014.1| putative transcriptional regulator [Providencia rettgeri DSM
          1131]
 gi|291314781|gb|EFE55234.1| putative transcriptional regulator [Providencia rettgeri DSM
          1131]
          Length = 107

 Score = 38.1 bits (87), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 19/71 (26%), Positives = 40/71 (56%), Gaps = 3/71 (4%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE- 67
          N V    G+ ++ +R+++G+S E L + + ++ QQ+ +YE+G+  +  + L     VL  
Sbjct: 13 NWVSTVTGQFLKEQRLMMGLSGEALAKKMQLSQQQISRYERGMTHINLTTLLRYFSVLNM 72

Query: 68 --SPISFFFDV 76
              I +FF++
Sbjct: 73 DVREIQYFFEL 83


>gi|325926434|ref|ZP_08187757.1| putative transcription factor, MBF1 like protein [Xanthomonas
           perforans 91-118]
 gi|325543177|gb|EGD14617.1| putative transcription factor, MBF1 like protein [Xanthomonas
           perforans 91-118]
          Length = 134

 Score = 38.1 bits (87), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 20/74 (27%), Positives = 40/74 (54%), Gaps = 6/74 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGIT-----FQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           G R+R  RM +G +Q +L E +G+        +V +YE G +    +  + +++ L+ P+
Sbjct: 32  GTRLRHARMAMGWTQAELAERIGMVDNVSGATRVSRYETGQHDPDPATAEALAKALKLPV 91

Query: 71  SFFFDVSPTVCSDI 84
           ++F   S  + +DI
Sbjct: 92  AYFHATS-DLLADI 104


>gi|312891075|ref|ZP_07750598.1| transcriptional regulator, XRE family [Mucilaginibacter paludis DSM
           18603]
 gi|311296383|gb|EFQ73529.1| transcriptional regulator, XRE family [Mucilaginibacter paludis DSM
           18603]
          Length = 116

 Score = 38.1 bits (87), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 26/92 (28%), Positives = 45/92 (48%), Gaps = 4/92 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI---- 70
           +GK I+L R   G SQ      LGI+     K E G+  +  SRL +I+++L+  I    
Sbjct: 4   LGKNIKLLRHEKGWSQSDFAAKLGISVPAFSKIENGLTDLHLSRLNNIAKILDMSIVELL 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
           SF   V     +++ S + ++ +++     LQ
Sbjct: 64  SFQKSVRNNDANELDSAKESIKNYMEQILNLQ 95


>gi|222053908|ref|YP_002536270.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221563197|gb|ACM19169.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 150

 Score = 38.1 bits (87), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 30/102 (29%), Positives = 50/102 (49%), Gaps = 5/102 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECL--GITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           + +G R+++ RM   ++Q++L   +  G+ +  + K E+G        L  IS+ L  P+
Sbjct: 3   LKIGSRLKMLRMERSLTQKELAVMVSGGLDYTYIGKIERGEQLPSLKILLKISDALSVPV 62

Query: 71  -SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
            SFF D      SDI+S E   +  IS   G QL +    +D
Sbjct: 63  ASFFQDELFAAASDIASSELRYL--ISEETGRQLVKALKLVD 102


>gi|257879403|ref|ZP_05659056.1| predicted protein [Enterococcus faecium 1,230,933]
 gi|323142551|ref|ZP_08077367.1| toxin-antitoxin system, antitoxin component, Xre domain protein
          [Phascolarctobacterium sp. YIT 12067]
 gi|257813631|gb|EEV42389.1| predicted protein [Enterococcus faecium 1,230,933]
 gi|295100959|emb|CBK98504.1| Helix-turn-helix [Faecalibacterium prausnitzii L2-6]
 gi|322412984|gb|EFY03887.1| toxin-antitoxin system, antitoxin component, Xre domain protein
          [Phascolarctobacterium sp. YIT 12067]
          Length = 130

 Score = 38.1 bits (87), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 22/77 (28%), Positives = 43/77 (55%), Gaps = 9/77 (11%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVL 66
           D ++G+R++  R    ++Q++LG  +G + +    ++ +YEK      A     ++EVL
Sbjct: 6  TDTSIGQRLKFVRRFRRLTQKELGLLMGYSEKTADVRIAQYEKNARTPNAETTAKLAEVL 65

Query: 67 E-SPISFFFDVSPTVCS 82
          + SP+ F    SPT+C+
Sbjct: 66 KVSPVVF----SPTICA 78


>gi|197285673|ref|YP_002151545.1| transcriptional regulator [Proteus mirabilis HI4320]
 gi|227356180|ref|ZP_03840569.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
 gi|194683160|emb|CAR43778.1| putative transcriptional regulator [Proteus mirabilis HI4320]
 gi|227163644|gb|EEI48560.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
          Length = 100

 Score = 38.1 bits (87), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 38/66 (57%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   VG++I+  R   G +  +L + + I+ QQ+ +YE+GVNR+    L  + +VL   
Sbjct: 6  PVAYAVGQKIKSLRKSQGYTVFQLAKEIDISEQQLFRYERGVNRIDIDCLVKVLDVLGIN 65

Query: 70 ISFFFD 75
          I  FF+
Sbjct: 66 IGNFFE 71


>gi|169335178|ref|ZP_02862371.1| hypothetical protein ANASTE_01585 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169257916|gb|EDS71882.1| hypothetical protein ANASTE_01585 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 172

 Score = 38.1 bits (87), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 27/90 (30%), Positives = 50/90 (55%), Gaps = 8/90 (8%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLE-SP 69
          ++ +G RI+  R   G+S  +LGE +GI+   +Q+YE G +NR+    ++ I+  L  +P
Sbjct: 3  NLEIGNRIKQVRQEKGLSLRELGEIIGISGATIQRYENGLINRLKLPVIESIANALGVNP 62

Query: 70 ISFFF---DVSPTVCSD---ISSEENNVMD 93
              F   +   T+ +D   ISSE  ++++
Sbjct: 63 SWLIFKSKNKYKTLVNDKNTISSENKDLLN 92


>gi|15901770|ref|NP_346374.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae TIGR4]
 gi|15903805|ref|NP_359355.1| transcriptional activator [Streptococcus pneumoniae R6]
 gi|116517204|ref|YP_817168.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae D39]
 gi|168484245|ref|ZP_02709197.1| transcriptional activator [Streptococcus pneumoniae CDC1873-00]
 gi|221232674|ref|YP_002511828.1| transcriptional regulator [Streptococcus pneumoniae ATCC 700669]
 gi|14973451|gb|AAK76014.1| putative transcriptional regulator PlcR [Streptococcus pneumoniae
          TIGR4]
 gi|15459444|gb|AAL00566.1| Transcriptional activator [Streptococcus pneumoniae R6]
 gi|116077780|gb|ABJ55500.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae D39]
 gi|172042485|gb|EDT50531.1| transcriptional activator [Streptococcus pneumoniae CDC1873-00]
 gi|220675136|emb|CAR69719.1| putative transcriptional regulator [Streptococcus pneumoniae ATCC
          700669]
 gi|332199372|gb|EGJ13449.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA47368]
          Length = 287

 Score = 38.1 bits (87), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 26/73 (35%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    V S++S+
Sbjct: 62 FNEQIEVKSNLSN 74


>gi|260219700|emb|CBA26545.1| hypothetical protein Csp_E36330 [Curvibacter putative symbiont of
           Hydra magnipapillata]
          Length = 117

 Score = 38.1 bits (87), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 28/108 (25%), Positives = 56/108 (51%), Gaps = 9/108 (8%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G+ ++LRR    M+Q+++G  +GI  + V + E+G+      RL  ++++ +  I   
Sbjct: 13  SIGRTLQLRREATSMNQDEVGLAIGIGKEAVSRMERGITMPTVQRLAELADLYKCGIDEL 72

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
              S T  +D +   + +M+ +  PD    +R  I    V+V Q+I E
Sbjct: 73  LIESSTRTNDQAELISKIMNTL--PDA---DRAMI----VEVVQRIAE 111


>gi|261344508|ref|ZP_05972152.1| DNA-binding protein [Providencia rustigianii DSM 4541]
 gi|282567418|gb|EFB72953.1| DNA-binding protein [Providencia rustigianii DSM 4541]
          Length = 91

 Score = 38.1 bits (87), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 17/54 (31%), Positives = 31/54 (57%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          PV   +G +I   R   G++  +L + +G++ QQ  +YE+G+NR+   RL   +
Sbjct: 6  PVSKMIGSKITYYRKSNGITLNQLAKMIGVSQQQQSRYERGLNRINLDRLNQYA 59


>gi|213019782|ref|ZP_03335585.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Culex quinquefasciatus JHB]
 gi|212994612|gb|EEB55257.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Culex quinquefasciatus JHB]
          Length = 328

 Score = 38.1 bits (87), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 32/128 (25%), Positives = 58/128 (45%), Gaps = 7/128 (5%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N +    V   +GK+I   R++ G +Q KL   +G+T +++  +E G   +       I+
Sbjct: 17  NSEHIGSVSYELGKKIEGCRIVQGYTQAKLASKIGLTHKEIHNFELGCKAITIKESYIIA 76

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
             L   +       PTV  + S  E+   + +       L +   +I D ++R+K+  LV
Sbjct: 77  GALSVNVIDLLP-GPTVLRENSWYEDEDKEIV------YLTKIHREIKDQELRKKLYPLV 129

Query: 124 RSIVSSEK 131
           R +  SEK
Sbjct: 130 RFVYISEK 137



 Score = 34.7 bits (78), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 14/72 (19%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VGKRI+ +R+I   +QE L   +G T +++  YE+G   +              PI   +
Sbjct: 188 VGKRIKEQRLIREYTQEDLANKIGSTPKEIHDYERGYTDI--------------PIEILY 233

Query: 75  DVSPTVCSDISS 86
            ++ T+  +I +
Sbjct: 234 KIAKTLSVNIKA 245


>gi|260905597|ref|ZP_05913919.1| transcriptional regulator [Brevibacterium linens BL2]
          Length = 483

 Score = 38.1 bits (87), Expect = 0.45,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 34/66 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+RIR  R   G++  +LGE +G    Q+   E G      + L  I++ L + ++ 
Sbjct: 18 LSIGRRIRFFRKQRGLTLTELGEQVGRAASQISTIENGKRETSVTLLSAIAKALHTEVAE 77

Query: 73 FFDVSP 78
            D +P
Sbjct: 78 LIDPTP 83


>gi|331646784|ref|ZP_08347887.1| putative helix-turn-helix-containing protein [Escherichia coli
          M605]
 gi|331045536|gb|EGI17663.1| putative helix-turn-helix-containing protein [Escherichia coli
          M605]
          Length = 153

 Score = 38.1 bits (87), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 28/48 (58%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +RL R  L + Q  + + +G+T Q   K+E G N   AS ++ +SE+L
Sbjct: 6  LRLNREKLKLKQSDIADYVGVTTQTYMKWENGKNEPKASHIKKLSEIL 53


>gi|210612865|ref|ZP_03289498.1| hypothetical protein CLONEX_01700 [Clostridium nexile DSM 1787]
 gi|210151386|gb|EEA82394.1| hypothetical protein CLONEX_01700 [Clostridium nexile DSM 1787]
          Length = 223

 Score = 38.1 bits (87), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 32/120 (26%), Positives = 54/120 (45%), Gaps = 13/120 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI--------SEVL 66
           +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I        +E+L
Sbjct: 11  LGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNYPTFDTLEKIMDVLGVTPNELL 70

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                +     P +   I  E+    DF  + D L  N +F   ++ +   + I L+R I
Sbjct: 71  SGEWKYIDHTEPYIMDIIKREQ----DFNVSLDYLSENEFFDNENEYRFYMETI-LIRYI 125


>gi|284921095|emb|CBG34160.1| putative phage DNA-binding protein [Escherichia coli 042]
          Length = 368

 Score = 38.1 bits (87), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 25/59 (42%), Positives = 33/59 (55%), Gaps = 1/59 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G +++L RM +G+S E+L E +G T Q V K EKG  R     L+ IS  L    SF F
Sbjct: 14 GDKLKLARMAVGLSCEELAEKIGKTKQFVSKLEKGC-RPSEQCLELISSALMIKSSFLF 71


>gi|170770018|ref|ZP_02904471.1| helix-turn-helix domain protein [Escherichia albertii TW07627]
 gi|170770180|ref|ZP_02904633.1| helix-turn-helix domain protein [Escherichia albertii TW07627]
 gi|291283193|ref|YP_003500011.1| Helix-turn-helix domain protein [Escherichia coli O55:H7 str.
          CB9615]
 gi|301021345|ref|ZP_07185372.1| helix-turn-helix protein [Escherichia coli MS 196-1]
 gi|170120955|gb|EDS89886.1| helix-turn-helix domain protein [Escherichia albertii TW07627]
 gi|170121084|gb|EDS90015.1| helix-turn-helix domain protein [Escherichia albertii TW07627]
 gi|290763066|gb|ADD57027.1| Helix-turn-helix domain protein [Escherichia coli O55:H7 str.
          CB9615]
 gi|299881567|gb|EFI89778.1| helix-turn-helix protein [Escherichia coli MS 196-1]
 gi|320657713|gb|EFX25502.1| Helix-turn-helix domain protein [Escherichia coli O55:H7 str.
          3256-97 TW 07815]
 gi|320663395|gb|EFX30692.1| Helix-turn-helix domain protein [Escherichia coli O55:H7 str.
          USDA 5905]
 gi|323956985|gb|EGB52712.1| helix-turn-helix protein [Escherichia coli H263]
          Length = 363

 Score = 38.1 bits (87), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 25/59 (42%), Positives = 33/59 (55%), Gaps = 1/59 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G +++L RM +G+S E+L E +G T Q V K EKG  R     L+ IS  L    SF F
Sbjct: 9  GDKLKLARMAVGLSCEELAEKIGKTKQFVSKLEKGC-RPSEQCLELISSALMIKSSFLF 66


>gi|253578754|ref|ZP_04856025.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849697|gb|EES77656.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 206

 Score = 38.1 bits (87), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 21/74 (28%), Positives = 37/74 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G+ I+  R+   M+QE+L +   I+F  ++KYE         +L  I++ L   ++ 
Sbjct: 1  MNTGEIIKYFRLARNMTQEQLAQDAEISFSTLRKYEANERNPKYEQLSKIADALGISVNL 60

Query: 73 FFDVSPTVCSDISS 86
          F D      SD+ S
Sbjct: 61 FMDFEIQSVSDLFS 74


>gi|251778373|ref|ZP_04821293.1| transcriptional regulator, Cro/CI family [Clostridium botulinum E1
           str. 'BoNT E Beluga']
 gi|243082688|gb|EES48578.1| transcriptional regulator, Cro/CI family [Clostridium botulinum E1
           str. 'BoNT E Beluga']
          Length = 160

 Score = 38.1 bits (87), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 28/108 (25%), Positives = 55/108 (50%), Gaps = 11/108 (10%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR RR  L ++ E+LG+ +G+    V+K+E G+  +G  R   I       ++   ++SP
Sbjct: 7   IRKRREELDLTYEQLGKIVGVGKSTVRKWETGI--IGNLRSDSI-----LALAKGLNLSP 59

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV---KVRQKIIELV 123
           +     + EE N  DF  T +   L  ++ +++D+   +  +++ EL 
Sbjct: 60  STLMGWTEEE-NTYDFNLTKEETNLLEHYNKLNDLGKKEANKRVAELT 106


>gi|261344646|ref|ZP_05972290.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282567562|gb|EFB73097.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 91

 Score = 38.1 bits (87), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 38/70 (54%), Gaps = 3/70 (4%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE- 67
          +P+  N+GK ++  R   G++  +L + + ++ QQ+ +YE GVN +   +L  +   LE 
Sbjct: 5  DPLSNNIGKMLKSYRRRTGLTGTELAKRINVSQQQISRYENGVNNITFDKLMILFNALEM 64

Query: 68 --SPISFFFD 75
              I  FF+
Sbjct: 65 NRYDIDIFFE 74


>gi|213019843|ref|ZP_03335645.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Culex quinquefasciatus JHB]
 gi|212994591|gb|EEB55237.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Culex quinquefasciatus JHB]
          Length = 328

 Score = 38.1 bits (87), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 32/128 (25%), Positives = 58/128 (45%), Gaps = 7/128 (5%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N +    V   +GK+I   R++ G +Q KL   +G+T +++  +E G   +       I+
Sbjct: 17  NSEHIGSVSYELGKKIEGCRIVQGYTQAKLASKIGLTHKEIHNFELGCKAITIKESYIIA 76

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
             L   +       PTV  + S  E+   + +       L +   +I D ++R+K+  LV
Sbjct: 77  GALSVNVIDLLP-GPTVLRENSWYEDEDKEIV------YLTKIHREIKDQELRKKLYPLV 129

Query: 124 RSIVSSEK 131
           R +  SEK
Sbjct: 130 RFVYISEK 137



 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 14/72 (19%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VGKRI+ +R+I   +QE L   +G T +++  YE+G   +              PI   +
Sbjct: 188 VGKRIKEQRLIREYTQEDLANKIGSTPKEIHDYERGYTDI--------------PIEILY 233

Query: 75  DVSPTVCSDISS 86
            ++ T+  +I +
Sbjct: 234 KIAKTLSVNIKA 245


>gi|148556966|ref|YP_001264548.1| helix-turn-helix domain-containing protein [Sphingomonas wittichii
           RW1]
 gi|148502156|gb|ABQ70410.1| helix-turn-helix domain protein [Sphingomonas wittichii RW1]
          Length = 125

 Score = 38.1 bits (87), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 25/96 (26%), Positives = 48/96 (50%), Gaps = 4/96 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G R+R  R  LG+ Q+++   L I    +   E G  RV A  L  ++++    +++F
Sbjct: 18  RLGDRLREARKYLGLKQDEVATYLKIPRTALTDIESGQRRVEAIELTRLAKLYRQSVAYF 77

Query: 74  F---DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
               + S ++  D++     V D +ST D  +L+R+
Sbjct: 78  TGEDEASASLPVDVAHLARRVAD-LSTEDRAELSRF 112


>gi|168784916|ref|ZP_02809923.1| irep [Escherichia coli O157:H7 str. EC869]
 gi|261225385|ref|ZP_05939666.1| XRE family transcriptional regulator [Escherichia coli O157:H7
          str. FRIK2000]
 gi|261255362|ref|ZP_05947895.1| XRE family transcriptional regulator [Escherichia coli O157:H7
          str. FRIK966]
 gi|6318606|gb|AAF06963.1|AF157599_2 Eco0109IREP [Escherichia coli]
 gi|189374949|gb|EDU93365.1| irep [Escherichia coli O157:H7 str. EC869]
 gi|240119359|dbj|BAH79222.1| putative transcriptional regulator C.EcoO109I [Escherichia coli
          O157:H7]
          Length = 101

 Score = 38.1 bits (87), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 37/61 (60%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+  G++QE+LG  +GI       ++ +YEKG +    S  + I+++L  P+S+F
Sbjct: 5  RLKKARLNAGLTQEQLGILVGIDECSASARMNQYEKGKHMPDFSLTKKIADLLNVPVSYF 64

Query: 74 F 74
          +
Sbjct: 65 Y 65


>gi|59801958|ref|YP_208670.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae FA 1090]
 gi|240014865|ref|ZP_04721778.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae DGI18]
 gi|240017310|ref|ZP_04723850.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae FA6140]
 gi|240081048|ref|ZP_04725591.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae FA19]
 gi|240113258|ref|ZP_04727748.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae MS11]
 gi|240115331|ref|ZP_04729393.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae PID18]
 gi|240118675|ref|ZP_04732737.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae PID1]
 gi|240121954|ref|ZP_04734916.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae PID24-1]
 gi|240124219|ref|ZP_04737175.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae PID332]
 gi|240128889|ref|ZP_04741550.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae SK-93-1035]
 gi|260440172|ref|ZP_05793988.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae DGI2]
 gi|268597160|ref|ZP_06131327.1| conserved hypothetical protein [Neisseria gonorrhoeae FA19]
 gi|268599338|ref|ZP_06133505.1| transcriptional regulator [Neisseria gonorrhoeae MS11]
 gi|268601016|ref|ZP_06135183.1| transcriptional regulator [Neisseria gonorrhoeae PID18]
 gi|268604387|ref|ZP_06138554.1| transcriptional regulator [Neisseria gonorrhoeae PID1]
 gi|268682845|ref|ZP_06149707.1| transcriptional regulator [Neisseria gonorrhoeae PID332]
 gi|268687271|ref|ZP_06154133.1| transcriptional regulator [Neisseria gonorrhoeae SK-93-1035]
 gi|291043464|ref|ZP_06569180.1| conserved hypothetical protein [Neisseria gonorrhoeae DGI2]
 gi|293398766|ref|ZP_06642935.1| phage repressor protein [Neisseria gonorrhoeae F62]
 gi|59718853|gb|AAW90258.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae FA 1090]
 gi|268550948|gb|EEZ45967.1| conserved hypothetical protein [Neisseria gonorrhoeae FA19]
 gi|268583469|gb|EEZ48145.1| transcriptional regulator [Neisseria gonorrhoeae MS11]
 gi|268585147|gb|EEZ49823.1| transcriptional regulator [Neisseria gonorrhoeae PID18]
 gi|268588518|gb|EEZ53194.1| transcriptional regulator [Neisseria gonorrhoeae PID1]
 gi|268623129|gb|EEZ55529.1| transcriptional regulator [Neisseria gonorrhoeae PID332]
 gi|268627555|gb|EEZ59955.1| transcriptional regulator [Neisseria gonorrhoeae SK-93-1035]
 gi|291011927|gb|EFE03916.1| conserved hypothetical protein [Neisseria gonorrhoeae DGI2]
 gi|291610823|gb|EFF39929.1| phage repressor protein [Neisseria gonorrhoeae F62]
          Length = 251

 Score = 38.1 bits (87), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 3/61 (4%)

Query: 26 LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDIS 85
          L ++Q KL E +G+T   V  Y  G N + AS     +++L+ P+S   D S  +  +IS
Sbjct: 28 LKLTQYKLAEAVGVTQSAVNHYLNGTNALNASIASQFAKILQIPVS---DFSLRLAEEIS 84

Query: 86 S 86
          S
Sbjct: 85 S 85


>gi|313885249|ref|ZP_07819001.1| DNA-binding helix-turn-helix protein [Eremococcus coleocola
          ACS-139-V-Col8]
 gi|312619940|gb|EFR31377.1| DNA-binding helix-turn-helix protein [Eremococcus coleocola
          ACS-139-V-Col8]
          Length = 371

 Score = 37.7 bits (86), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 31/60 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I++ R   G++QE L E LG+T   V K+E+G        L  I++  +  +   F
Sbjct: 7  VGPQIKIFRKQKGLTQEALAEALGVTVSAVSKWERGQTLPDLPTLLEIAQFFQISLDVLF 66


>gi|261346592|ref|ZP_05974236.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282565296|gb|EFB70831.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 114

 Score = 37.7 bits (86), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 23/72 (31%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FF 73
          VG  +R  R+   ++ E+LG+ L I+ QQV +YE+G+  +    L  +  +L    S FF
Sbjct: 12 VGLFLRDARVNSSLTGEQLGKMLHISQQQVSRYERGITSISIENLDALLNMLGKDWSEFF 71

Query: 74 FDVSPTVCSDIS 85
          F V      +I+
Sbjct: 72 FKVIANYSDEIA 83


>gi|199598601|ref|ZP_03212017.1| Transcriptional regulator, xre family protein [Lactobacillus
          rhamnosus HN001]
 gi|258509055|ref|YP_003171806.1| XRE family transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|258540246|ref|YP_003174745.1| transcriptional regulator xre family [Lactobacillus rhamnosus Lc
          705]
 gi|199590524|gb|EDY98614.1| Transcriptional regulator, xre family protein [Lactobacillus
          rhamnosus HN001]
 gi|257148982|emb|CAR87955.1| Transcriptional regulator, xre family [Lactobacillus rhamnosus
          GG]
 gi|257151922|emb|CAR90894.1| Transcriptional regulator, xre family [Lactobacillus rhamnosus Lc
          705]
 gi|328478983|gb|EGF48479.1| transcriptional regulator xre family protein [Lactobacillus
          rhamnosus MTCC 5462]
          Length = 103

 Score = 37.7 bits (86), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 43/74 (58%), Gaps = 3/74 (4%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISF 72
          N+GK +  +R  + ++ EKL E  G++   + + E+G VN +   +L  I+  L+  +  
Sbjct: 4  NIGKLVHQQRRSMNLTIEKLAERSGVSVSLISRMERGDVNNISVKKLTDIARALDMQVGD 63

Query: 73 FFDVSPTVCSDISS 86
          FF ++P + SDI++
Sbjct: 64 FF-IAPEM-SDINT 75


>gi|331002826|ref|ZP_08326340.1| hypothetical protein HMPREF0491_01202 [Lachnospiraceae oral taxon
          107 str. F0167]
 gi|330413315|gb|EGG92683.1| hypothetical protein HMPREF0491_01202 [Lachnospiraceae oral taxon
          107 str. F0167]
          Length = 104

 Score = 37.7 bits (86), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 31/63 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R   GM+Q +LGE +G+  Q + KYE+  + V    LQ IS V E  +    +   
Sbjct: 4  IRKLRQSKGMTQRELGEVIGVKQQTICKYERANSNVSWDILQKISAVFEVSLDELIEEDL 63

Query: 79 TVC 81
            C
Sbjct: 64 EKC 66


>gi|239905667|ref|YP_002952406.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
 gi|239795531|dbj|BAH74520.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
          Length = 108

 Score = 37.7 bits (86), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 33/62 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GKR+R  R    M+QE+L E  G++ Q V + E+G        ++ +S  LE  ++  FD
Sbjct: 9  GKRVRSLRRAKDMTQEQLAERAGLSLQSVGEIERGRGNPTLVNIERLSAALEEDLASLFD 68

Query: 76 VS 77
          + 
Sbjct: 69 LG 70


>gi|291550659|emb|CBL26921.1| Predicted transcription factor, homolog of eukaryotic MBF1
          [Ruminococcus torques L2-14]
          Length = 298

 Score = 37.7 bits (86), Expect = 0.47,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 35/62 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK I  +R  LGM+Q++L E L ++ + V K+E+G+     S    + E+L   I+ 
Sbjct: 4  VKIGKYIAGKRKALGMTQKQLAEKLNMSDKSVSKWERGICLPDVSVYMELCEILGISINE 63

Query: 73 FF 74
          F 
Sbjct: 64 FL 65


>gi|229553142|ref|ZP_04441867.1| xre family transcriptional regulator [Lactobacillus rhamnosus
          LMS2-1]
 gi|229313438|gb|EEN79411.1| xre family transcriptional regulator [Lactobacillus rhamnosus
          LMS2-1]
 gi|259650346|dbj|BAI42508.1| transcriptional regulator [Lactobacillus rhamnosus GG]
          Length = 104

 Score = 37.7 bits (86), Expect = 0.47,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 43/74 (58%), Gaps = 3/74 (4%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISF 72
          N+GK +  +R  + ++ EKL E  G++   + + E+G VN +   +L  I+  L+  +  
Sbjct: 5  NIGKLVHQQRRSMNLTIEKLAERSGVSVSLISRMERGDVNNISVKKLTDIARALDMQVGD 64

Query: 73 FFDVSPTVCSDISS 86
          FF ++P + SDI++
Sbjct: 65 FF-IAPEM-SDINT 76


>gi|227888084|ref|ZP_04005889.1| helix-turn-helix domain protein [Escherichia coli 83972]
 gi|227834930|gb|EEJ45396.1| helix-turn-helix domain protein [Escherichia coli 83972]
 gi|315295536|gb|EFU54862.1| helix-turn-helix protein [Escherichia coli MS 153-1]
          Length = 367

 Score = 37.7 bits (86), Expect = 0.47,   Method: Compositional matrix adjust.
 Identities = 25/59 (42%), Positives = 33/59 (55%), Gaps = 1/59 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G +++L RM +G+S E+L E +G T Q V K EKG  R     L+ IS  L    SF F
Sbjct: 13 GDKLKLARMAVGLSCEELAEKIGKTKQFVSKLEKGC-RPSEQCLELISSALMIKSSFLF 70


>gi|255655872|ref|ZP_05401281.1| putative phage repressor [Clostridium difficile QCD-23m63]
          Length = 169

 Score = 37.7 bits (86), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQQELAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|302671595|ref|YP_003831555.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
 gi|302396068|gb|ADL34973.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
          Length = 370

 Score = 37.7 bits (86), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 8/89 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I + + I+  R  + ++QE+L E  G+T   V K+E G N      L  +++        
Sbjct: 3   IKLNENIKKYRKSMNLTQEELAEAFGVTVGAVSKWESGANVPDILTLMQLAD-------- 54

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
           FF +S  V    S    N+ D     D L
Sbjct: 55  FFSISVDVLLGYSMSSKNIKDISDRLDAL 83


>gi|325068956|ref|ZP_08127629.1| XRE family transcriptional regulator [Actinomyces oris K20]
          Length = 80

 Score = 37.7 bits (86), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 1  MVGNKKIP-NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M  ++K P +P     G+R+R RR  LG+SQEKL E   + +  + + E+G   +    +
Sbjct: 1  MPTDRKPPLSPATGEFGRRVRARREQLGLSQEKLAERTTLHWSYIGQVERGQRNLSLHNI 60

Query: 60 QHISEVLES 68
            I+  L++
Sbjct: 61 LRIAHALDT 69


>gi|302061586|ref|ZP_07253127.1| helix-turn-helix domain-containing protein [Pseudomonas syringae
          pv. tomato K40]
          Length = 117

 Score = 37.7 bits (86), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 16/66 (24%), Positives = 34/66 (51%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N   + + +R+R  R  LG+SQ ++ + +G+T   +   E G  +V A+ L+ +S +   
Sbjct: 8  NEERLQIAERLRTAREYLGLSQAEIAQLVGLTRTAITGIESGARKVEATELKRLSSIYRR 67

Query: 69 PISFFF 74
           + +  
Sbjct: 68 SVEYLL 73


>gi|190570881|ref|YP_001975239.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|190571713|ref|YP_001976071.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|213019313|ref|ZP_03335120.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|213019394|ref|ZP_03335200.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|190357153|emb|CAQ54565.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|190357985|emb|CAQ55448.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|212994816|gb|EEB55458.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212995422|gb|EEB56063.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 325

 Score = 37.7 bits (86), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 19/53 (35%), Positives = 32/53 (60%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           N G+ I+  R+I G +QE+L + L +   Q+  YE+G  ++ + RL  I+E L
Sbjct: 173 NGGQEIKKWRIIRGYTQEELAKKLNVGPSQIHHYEQGSVKILSERLWEIAEKL 225


>gi|119489478|ref|ZP_01622239.1| hypothetical protein L8106_27891 [Lyngbya sp. PCC 8106]
 gi|119454557|gb|EAW35704.1| hypothetical protein L8106_27891 [Lyngbya sp. PCC 8106]
          Length = 76

 Score = 37.7 bits (86), Expect = 0.49,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 27/49 (55%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          IR  R  LG+SQ KLGE LG+ FQ V  +E G  +     +  I + LE
Sbjct: 12 IRTLRQRLGLSQRKLGEKLGVVFQTVNNWENGRTKPTRMAMMLIKQELE 60


>gi|213969499|ref|ZP_03397636.1| transcriptional regulator [Pseudomonas syringae pv. tomato T1]
 gi|301382711|ref|ZP_07231129.1| helix-turn-helix domain-containing protein [Pseudomonas syringae
          pv. tomato Max13]
 gi|302131409|ref|ZP_07257399.1| helix-turn-helix domain-containing protein [Pseudomonas syringae
          pv. tomato NCPPB 1108]
 gi|213925870|gb|EEB59428.1| transcriptional regulator [Pseudomonas syringae pv. tomato T1]
          Length = 115

 Score = 37.7 bits (86), Expect = 0.49,   Method: Compositional matrix adjust.
 Identities = 16/66 (24%), Positives = 34/66 (51%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N   + + +R+R  R  LG+SQ ++ + +G+T   +   E G  +V A+ L+ +S +   
Sbjct: 6  NEERLQIAERLRTAREYLGLSQAEIAQLVGLTRTAITGIESGARKVEATELKRLSSIYRR 65

Query: 69 PISFFF 74
           + +  
Sbjct: 66 SVEYLL 71


>gi|261885710|ref|ZP_06009749.1| hypothetical protein CfetvA_11544 [Campylobacter fetus subsp.
          venerealis str. Azul-94]
          Length = 207

 Score = 37.7 bits (86), Expect = 0.50,   Method: Compositional matrix adjust.
 Identities = 15/61 (24%), Positives = 35/61 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R   G+SQ++  +  GI +  +Q YE G+ +     ++ +++  +  +++F+
Sbjct: 2  IGNKIRALREENGISQKEFAKEFGIAYGTLQSYEYGLTKPKTDFIEQLAKKFKIDVNYFY 61

Query: 75 D 75
          D
Sbjct: 62 D 62


>gi|251779099|ref|ZP_04822019.1| transcriptional regulator [Clostridium botulinum E1 str. 'BoNT E
          Beluga']
 gi|243083414|gb|EES49304.1| transcriptional regulator [Clostridium botulinum E1 str. 'BoNT E
          Beluga']
          Length = 386

 Score = 37.7 bits (86), Expect = 0.50,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 39/72 (54%), Gaps = 2/72 (2%)

Query: 5  KKIPNPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          K I N +D N  +  +IR  R+  G+S  +L   +G++ Q + +YE G++   A     +
Sbjct: 3  KDILNVLDSNKIIPAKIREARISRGLSLSELSTKIGVSSQAISQYELGISTPSALTFIKL 62

Query: 63 SEVLESPISFFF 74
           E L+ P +FF+
Sbjct: 63 VEELDFPSTFFY 74


>gi|255306892|ref|ZP_05351063.1| putative phage repressor [Clostridium difficile ATCC 43255]
          Length = 169

 Score = 37.7 bits (86), Expect = 0.50,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQQELAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|189219415|ref|YP_001940056.1| Xre family transcriptional regulator fused to periplasmic
          substrate-binding domain [Methylacidiphilum infernorum
          V4]
 gi|189186273|gb|ACD83458.1| Xre family transcriptional regulator fused to periplasmic
          substrate-binding domain [Methylacidiphilum infernorum
          V4]
          Length = 386

 Score = 37.7 bits (86), Expect = 0.50,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 1/72 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +RL R+  G+SQ++L   +G++ Q +   E G+     +    ++ VLE  + F F  SP
Sbjct: 15 LRLARIGKGLSQKELAAKIGVSRQTIHAMENGLYVPNTAVALRLARVLEKTVEFLFPYSP 74

Query: 79 T-VCSDISSEEN 89
            + +D+  +EN
Sbjct: 75 DFIEADVLVDEN 86


>gi|58699616|ref|ZP_00374309.1| DNA-binding protein, putative [Wolbachia endosymbiont of
          Drosophila ananassae]
 gi|58533867|gb|EAL58173.1| DNA-binding protein, putative [Wolbachia endosymbiont of
          Drosophila ananassae]
          Length = 74

 Score = 37.7 bits (86), Expect = 0.50,   Method: Compositional matrix adjust.
 Identities = 13/36 (36%), Positives = 29/36 (80%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE 48
          + +GK+I+  R+  G++Q +LG+ +G++++Q+Q+YE
Sbjct: 1  MELGKKIKELRLYCGLTQTELGKKIGVSYRQIQRYE 36


>gi|293433714|ref|ZP_06662142.1| transcriptional repressor DicA [Escherichia coli B088]
 gi|291324533|gb|EFE63955.1| transcriptional repressor DicA [Escherichia coli B088]
          Length = 135

 Score = 37.7 bits (86), Expect = 0.50,   Method: Compositional matrix adjust.
 Identities = 30/112 (26%), Positives = 52/112 (46%), Gaps = 10/112 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
           +G+RIR RR  +G+SQ  L +  G++   +  +E          L  ++EVL+ SP    
Sbjct: 6   LGQRIRERRKQVGLSQNDLSKAAGVSGSSISLWESDHTAPRGQNLHRLAEVLQCSPTWIL 65

Query: 74  F---DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           F   D +P    D     NN +D   + D  ++ R +  +   + + +I EL
Sbjct: 66  FGDEDKTP----DPPVALNNALDL--SEDEFEMLRLYRALPKSEQQAQISEL 111


>gi|313898798|ref|ZP_07832332.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956380|gb|EFR38014.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 206

 Score = 37.7 bits (86), Expect = 0.51,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 8/65 (12%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL        
Sbjct: 6  LGNNIQTIRKYRGMKQQELADKIGINMQSLSKIERGLNYPAYDTLEKIMEVL-------- 57

Query: 75 DVSPT 79
          DV+P 
Sbjct: 58 DVTPN 62


>gi|325677861|ref|ZP_08157503.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324110415|gb|EGC04589.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 180

 Score = 37.7 bits (86), Expect = 0.51,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 33/66 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ IR  R   GM+QE L E +G++ Q V K+E G       +L  +S +L      
Sbjct: 1  MDIGENIRNARKKKGMTQEMLAEKMGVSRQAVSKWESGKGMPETEKLAELSALLGVSADR 60

Query: 73 FFDVSP 78
             + P
Sbjct: 61 LIGIRP 66


>gi|225390137|ref|ZP_03759861.1| hypothetical protein CLOSTASPAR_03887 [Clostridium asparagiforme
          DSM 15981]
 gi|225043790|gb|EEG54036.1| hypothetical protein CLOSTASPAR_03887 [Clostridium asparagiforme
          DSM 15981]
          Length = 194

 Score = 37.7 bits (86), Expect = 0.51,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 31/54 (57%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +GK IR  R   G++Q +L   + I+ Q V K+E+G+     S L  +SEVL
Sbjct: 4  VKIGKLIRALRKDQGLTQRQLAAAMNISEQAVSKWERGLGFPDVSLLPELSEVL 57


>gi|160884700|ref|ZP_02065703.1| hypothetical protein BACOVA_02689 [Bacteroides ovatus ATCC 8483]
 gi|237717098|ref|ZP_04547579.1| conserved hypothetical protein [Bacteroides sp. D1]
 gi|237721923|ref|ZP_04552404.1| conserved hypothetical protein [Bacteroides sp. 2_2_4]
 gi|262405867|ref|ZP_06082417.1| conserved hypothetical protein [Bacteroides sp. 2_1_22]
 gi|294647828|ref|ZP_06725380.1| DNA-binding protein [Bacteroides ovatus SD CC 2a]
 gi|294806223|ref|ZP_06765070.1| DNA-binding protein [Bacteroides xylanisolvens SD CC 1b]
 gi|156109735|gb|EDO11480.1| hypothetical protein BACOVA_02689 [Bacteroides ovatus ATCC 8483]
 gi|229443081|gb|EEO48872.1| conserved hypothetical protein [Bacteroides sp. D1]
 gi|229448792|gb|EEO54583.1| conserved hypothetical protein [Bacteroides sp. 2_2_4]
 gi|262356742|gb|EEZ05832.1| conserved hypothetical protein [Bacteroides sp. 2_1_22]
 gi|292636736|gb|EFF55202.1| DNA-binding protein [Bacteroides ovatus SD CC 2a]
 gi|294446479|gb|EFG15099.1| DNA-binding protein [Bacteroides xylanisolvens SD CC 1b]
 gi|295085704|emb|CBK67227.1| Helix-turn-helix. [Bacteroides xylanisolvens XB1A]
          Length = 131

 Score = 37.7 bits (86), Expect = 0.51,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 1/67 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          VG R+++ RM   ++QE++GE L ++     K E G   +  +RL  I+EVL  S +  F
Sbjct: 9  VGHRLQMLRMEKNLTQEQMGEKLNLSTSAYCKIEYGETDLTLTRLNKIAEVLNMSALELF 68

Query: 74 FDVSPTV 80
            +   V
Sbjct: 69 NKIDGNV 75


>gi|296450846|ref|ZP_06892596.1| DNA-binding protein [Clostridium difficile NAP08]
 gi|296879151|ref|ZP_06903146.1| DNA-binding protein [Clostridium difficile NAP07]
 gi|296260317|gb|EFH07162.1| DNA-binding protein [Clostridium difficile NAP08]
 gi|296429694|gb|EFH15546.1| DNA-binding protein [Clostridium difficile NAP07]
          Length = 169

 Score = 37.7 bits (86), Expect = 0.51,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 14 GLSQQELAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|332523396|ref|ZP_08399648.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
          Jelinkova 176]
 gi|332314660|gb|EGJ27645.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
          Jelinkova 176]
          Length = 113

 Score = 37.7 bits (86), Expect = 0.52,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 32/63 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KRIRL R+  G++QE+L E   +    V K E     V    L+ + + LE     FF
Sbjct: 10 ISKRIRLLRLNKGLTQEQLEEKADLGTNYVYKLENQSTNVKVKTLEKVMKALEVDFEEFF 69

Query: 75 DVS 77
          D+S
Sbjct: 70 DIS 72


>gi|223932872|ref|ZP_03624868.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
 gi|223898453|gb|EEF64818.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
          Length = 68

 Score = 37.7 bits (86), Expect = 0.52,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 35/58 (60%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+RI++ R+ LG + E+ G+    +   V  +EKG N    + L+ I+++ ++P+ F
Sbjct: 3  LGERIKVIRVSLGETMEQFGQRFNTSKGTVNNWEKGRNAPNKANLKKIADLSDNPMEF 60


>gi|303326709|ref|ZP_07357151.1| toxin-antitoxin system, antitoxin component, Xre family
          [Desulfovibrio sp. 3_1_syn3]
 gi|302862697|gb|EFL85629.1| toxin-antitoxin system, antitoxin component, Xre family
          [Desulfovibrio sp. 3_1_syn3]
          Length = 108

 Score = 37.7 bits (86), Expect = 0.52,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 36/63 (57%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GKRIR  R+  G+SQEKL E  GI+ + + + E+G +      ++ ++  L   +  
Sbjct: 7  ILLGKRIRELRVKHGLSQEKLSELSGISSRHISEMERGESNPSFQVMEQLTFALGVSMKE 66

Query: 73 FFD 75
          FFD
Sbjct: 67 FFD 69


>gi|210608450|ref|ZP_03287826.1| hypothetical protein CLONEX_00005 [Clostridium nexile DSM 1787]
 gi|210153061|gb|EEA84067.1| hypothetical protein CLONEX_00005 [Clostridium nexile DSM 1787]
          Length = 157

 Score = 37.7 bits (86), Expect = 0.53,   Method: Compositional matrix adjust.
 Identities = 27/93 (29%), Positives = 43/93 (46%), Gaps = 13/93 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL       
Sbjct: 10  HLGNNIQTIRKFRGMKQQELADKIGINMQSLSKIERGLNYPAYETLEKIMEVL------- 62

Query: 74  FDVSPT-----VCSDISSEENNVMDFISTPDGL 101
            DV+P          ++  E  V  F+ T + L
Sbjct: 63  -DVTPNELLSGEWKYVNQSEKEVCQFLRTEERL 94


>gi|325917947|ref|ZP_08180117.1| Helix-turn-helix protein [Xanthomonas vesicatoria ATCC 35937]
 gi|325535849|gb|EGD07675.1| Helix-turn-helix protein [Xanthomonas vesicatoria ATCC 35937]
          Length = 113

 Score = 37.7 bits (86), Expect = 0.54,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 4/75 (5%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLESPIS 71
            R+R  R    ++QE LG   G+  +    ++ +YEKGVN       + +++ L  P++
Sbjct: 11 ANRLRHARQKAELTQEALGVAAGLATEVARTRINRYEKGVNECDLRTAKRLADALGMPLA 70

Query: 72 FFFDVSPTVCSDISS 86
           FF  +  V   I +
Sbjct: 71 AFFAETDEVADAIQA 85


>gi|325919786|ref|ZP_08181781.1| Helix-turn-helix protein [Xanthomonas gardneri ATCC 19865]
 gi|325549742|gb|EGD20601.1| Helix-turn-helix protein [Xanthomonas gardneri ATCC 19865]
          Length = 113

 Score = 37.7 bits (86), Expect = 0.54,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 4/75 (5%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLESPIS 71
            R+R  R    ++QE LG   G+  +    ++ +YEKGVN       + +++ L  P++
Sbjct: 11 ANRLRHARQKAELTQEALGVAAGLATEVARTRINRYEKGVNECDLRTAKRLADALGMPLA 70

Query: 72 FFFDVSPTVCSDISS 86
           FF  +  V   I +
Sbjct: 71 AFFAETDEVADAIQA 85


>gi|253995592|ref|YP_003047656.1| XRE family transcriptional regulator [Methylotenera mobilis JLW8]
 gi|253982271|gb|ACT47129.1| transcriptional regulator, XRE family [Methylotenera mobilis
          JLW8]
          Length = 114

 Score = 37.7 bits (86), Expect = 0.54,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 32/52 (61%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           +G+ I  RR+  G++Q+++ E LGI ++ V + E+GV      RL  ++E+
Sbjct: 12 QIGQSIAKRRLAAGLTQDQVSEKLGIGYEAVSRMERGVTIPTVIRLAELAEI 63


>gi|153940800|ref|YP_001391182.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|152936696|gb|ABS42194.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|295319222|gb|ADF99599.1| DNA-binding protein [Clostridium botulinum F str. 230613]
          Length = 221

 Score = 37.7 bits (86), Expect = 0.54,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 29/49 (59%)

Query: 25 ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +  ++Q++L E LGI  Q + ++ KG  ++    L H++E  + PI +F
Sbjct: 10 LYNLTQQELAEELGIKKQNINQWFKGSRKIPKKYLSHLNEKFKIPIDYF 58


>gi|197286053|ref|YP_002151925.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227356567|ref|ZP_03840954.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|194683540|emb|CAR44391.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227163323|gb|EEI48250.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 117

 Score = 37.7 bits (86), Expect = 0.54,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 4/71 (5%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          NKKI   V    G RI++ R   GM+  +LG  LG++ Q   ++E G   +    +  +S
Sbjct: 19 NKKISKIV----GARIKMLRQQHGMTGSELGALLGVSQQHQSRFENGECNIHVDVIYLLS 74

Query: 64 EVLESPISFFF 74
           + +  +++FF
Sbjct: 75 YIFKVKLNYFF 85


>gi|160933518|ref|ZP_02080906.1| hypothetical protein CLOLEP_02364 [Clostridium leptum DSM 753]
 gi|156867395|gb|EDO60767.1| hypothetical protein CLOLEP_02364 [Clostridium leptum DSM 753]
          Length = 169

 Score = 37.7 bits (86), Expect = 0.54,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 28/48 (58%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+SQE+L   L +  Q + K+E G++   +  L  ISE LE+P+S   
Sbjct: 14 GLSQEELAVKLNVVRQTISKWENGLSVPDSDMLISISEALETPVSVLL 61


>gi|37678457|ref|NP_933066.1| hypothetical protein VV0273 [Vibrio vulnificus YJ016]
 gi|37197197|dbj|BAC93037.1| hypothetical protein [Vibrio vulnificus YJ016]
          Length = 350

 Score = 37.7 bits (86), Expect = 0.55,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 32/60 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R   G+S + LGE +GI+   V+KYE   +   +  L  ++  L     +FF
Sbjct: 2  IGERIKRARAAAGLSMQALGEQVGISANMVKKYEHDQSMPSSGVLLKLATALSVRTEYFF 61


>gi|222102390|ref|YP_002546531.1| hypothetical protein Avi_9872 [Agrobacterium vitis S4]
 gi|221739634|gb|ACM40336.1| conserved hypothetical protein [Agrobacterium vitis S4]
          Length = 158

 Score = 37.7 bits (86), Expect = 0.56,   Method: Compositional matrix adjust.
 Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 1/74 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-P 69
           +D  +   IR  R    +S+ K+   LG++     +YE  V+R+  SRL H+ EVL++ P
Sbjct: 42  LDDKISTSIREARDKRSLSRSKIAPLLGLSNAVYHRYETSVSRLTVSRLIHLCEVLDATP 101

Query: 70  ISFFFDVSPTVCSD 83
                  +P +  +
Sbjct: 102 EEILAPAAPHLWGE 115


>gi|319937786|ref|ZP_08012189.1| transcriptional regulator [Coprobacillus sp. 29_1]
 gi|319807221|gb|EFW03835.1| transcriptional regulator [Coprobacillus sp. 29_1]
          Length = 124

 Score = 37.7 bits (86), Expect = 0.56,   Method: Compositional matrix adjust.
 Identities = 23/83 (27%), Positives = 40/83 (48%), Gaps = 10/83 (12%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
          R I GMSQE+L   + +T Q V K+E       + +L  +SE+ E    +    + T  +
Sbjct: 11 RNIRGMSQEELAALMDVTRQSVSKWETNQTYPDSEKLIRLSEIFEVSTDYLLKGTETEIT 70

Query: 83 D----------ISSEENNVMDFI 95
          D          +S+E N+++D +
Sbjct: 71 DGQYNSQAGVQMSAEVNDILDHV 93


>gi|194292356|ref|YP_002008263.1| anaerobic benzoate catabolism transcriptional regulator
           [Cupriavidus taiwanensis LMG 19424]
 gi|193226260|emb|CAQ72209.1| putative transcriptional regulator, ATP-binding kinase,
           Helix-turn-helix motif, Shikimate kinase motif
           [Cupriavidus taiwanensis LMG 19424]
          Length = 320

 Score = 37.7 bits (86), Expect = 0.56,   Method: Compositional matrix adjust.
 Identities = 18/79 (22%), Positives = 40/79 (50%), Gaps = 1/79 (1%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
             N    NP  +++G+R+R +R   G++++   +  G++ + +   E G        LQH
Sbjct: 25  AANGAQKNPFLVSLGERVRQQRACRGLTRKAAAQAAGVSERHLANLEYGSGNASILVLQH 84

Query: 62  ISEVLESPIS-FFFDVSPT 79
           ++E L+  ++    DV+ +
Sbjct: 85  VAEALQCSLAGLLGDVTTS 103


>gi|326402562|ref|YP_004282643.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
 gi|325049423|dbj|BAJ79761.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
          Length = 94

 Score = 37.7 bits (86), Expect = 0.57,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 31/63 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +R  R+  G+SQE + E +G+    V   E+G   V    L H+++ L+   +   D
Sbjct: 8  GANLRHYRLAAGLSQEAVAERMGVDRAHVSSMERGSQNVTLITLWHLADALKIQPADLLD 67

Query: 76 VSP 78
           +P
Sbjct: 68 TTP 70


>gi|220927517|ref|YP_002504426.1| XRE family transcriptional regulator [Clostridium cellulolyticum
          H10]
 gi|219997845|gb|ACL74446.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
          H10]
          Length = 112

 Score = 37.7 bits (86), Expect = 0.57,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 34/62 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK+IR  R+  G++QE L E  G+    + + E+G        L  IS+ L++ IS+  
Sbjct: 13 LGKKIRQSRLHKGLTQEDLSEITGLHPSYIGQIERGEKSPSVETLIDISKSLDTSISYIL 72

Query: 75 DV 76
          +V
Sbjct: 73 NV 74


>gi|227873147|ref|ZP_03991438.1| conserved hypothetical protein [Oribacterium sinus F0268]
 gi|227840978|gb|EEJ51317.1| conserved hypothetical protein [Oribacterium sinus F0268]
          Length = 300

 Score = 37.7 bits (86), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 42/79 (53%), Gaps = 2/79 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK I  +R  LGM+Q++L E +G++ + V K+E+G+     S    +  +L   I+ 
Sbjct: 4  VKIGKYISEKRKNLGMTQKQLAEKIGMSDKSVSKWERGICLPDVSLYFDLCSILGISINE 63

Query: 73 FFDVSPTVCSDI--SSEEN 89
          F      V  +I   SEEN
Sbjct: 64 FLAGEDIVHENIEKKSEEN 82


>gi|283797040|ref|ZP_06346193.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
 gi|291075456|gb|EFE12820.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
 gi|291528288|emb|CBK93874.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
 gi|291534520|emb|CBL07632.1| Predicted transcriptional regulators [Roseburia intestinalis
          M50/1]
          Length = 207

 Score = 37.7 bits (86), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR  LG++Q  + E +G+T   +Q+YE G ++      L+ +++ L   + + 
Sbjct: 11 IGSRAKSRRQELGLNQPYVAEKMGVTASTIQRYEAGTIDNTKKMTLEGLADALHVSVEWL 70

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 71 KGETDEYETDIT 82


>gi|259909794|ref|YP_002650150.1| Putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
 gi|224965416|emb|CAX56948.1| Putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
          Length = 124

 Score = 37.7 bits (86), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 30/108 (27%), Positives = 49/108 (45%), Gaps = 12/108 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G+RI   R   GM+Q ++ + L ++ Q VQ +E G  R+  S L  ++ +L   +   
Sbjct: 15  GLGRRITALRKDAGMTQTQVAQALNVSQQAVQAWEAGRRRIQISILPAVARLLSVSLEDL 74

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV-KVRQKII 120
              +P        EE         P  LQL     +ID + K +QK+I
Sbjct: 75  LGEAP--------EEKIARKRGPAPKWLQL---IEEIDSLPKAKQKMI 111


>gi|146297633|ref|YP_001181404.1| XRE family transcriptional regulator [Caldicellulosiruptor
          saccharolyticus DSM 8903]
 gi|145411209|gb|ABP68213.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          saccharolyticus DSM 8903]
          Length = 122

 Score = 37.7 bits (86), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 17/78 (21%), Positives = 41/78 (52%), Gaps = 4/78 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++++  R   G++QE++ + LG+    +  YE G+  +  + L+++S +    +S+F 
Sbjct: 10 IGQKLQEARKKAGLTQEQVADYLGVNKTLISYYENGIREISIATLRNLSNLYGYTMSYFL 69

Query: 75 D----VSPTVCSDISSEE 88
                 PT+     ++E
Sbjct: 70 SDDEINEPTISFSFRADE 87


>gi|304438138|ref|ZP_07398081.1| transcriptional regulator [Selenomonas sp. oral taxon 149 str.
          67H29BP]
 gi|304368911|gb|EFM22593.1| transcriptional regulator [Selenomonas sp. oral taxon 149 str.
          67H29BP]
          Length = 128

 Score = 37.7 bits (86), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 26/85 (30%), Positives = 41/85 (48%), Gaps = 4/85 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + + KRIR RR  LG+SQE+L + +G  +   + K EKG N +  S++   ++ L +   
Sbjct: 2  LEIYKRIRARREELGISQEELAKRMGYKSRSSINKIEKGENDIPQSKIVAFAQALRTTPE 61

Query: 72 FFFDVSPTVCSDISSEENNVMDFIS 96
                    SD S + N   D  S
Sbjct: 62 ALMGWE---TSDTSPQSNTPSDPAS 83


>gi|223933764|ref|ZP_03625736.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
 gi|223897568|gb|EEF63957.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
          Length = 289

 Score = 37.7 bits (86), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 41/72 (56%), Gaps = 4/72 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +  R++ RR  LG SQ++L E  G+  Q Q+ + EKG    GA  L  +++ L+  + +F
Sbjct: 5  LATRLKNRRKELGWSQKELAE--GVCDQGQISRIEKGTYMPGADLLHALAKKLQVRMDYF 62

Query: 74 FDVSPT-VCSDI 84
          FD   + + SD+
Sbjct: 63 FDEEESEIVSDL 74


>gi|75761153|ref|ZP_00741144.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228904571|ref|ZP_04068647.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 4222]
 gi|74491352|gb|EAO54577.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228855052|gb|EEM99635.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 4222]
          Length = 194

 Score = 37.7 bits (86), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 33/57 (57%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          N+GK I+  R   G+S   LGE +G++ Q + +YE G  ++    L +I++ L  P+
Sbjct: 4  NIGKVIKEIRKAKGISAFVLGEMIGVSQQAISQYENGKRKISFEVLNNIAKALNVPM 60


>gi|313905283|ref|ZP_07838650.1| transcriptional regulator, XRE family [Eubacterium cellulosolvens
          6]
 gi|313469894|gb|EFR65229.1| transcriptional regulator, XRE family [Eubacterium cellulosolvens
          6]
          Length = 184

 Score = 37.7 bits (86), Expect = 0.59,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 39/69 (56%), Gaps = 3/69 (4%)

Query: 10 PVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+D+N  +G+RI+  R   G++Q++L +   +T   + + E+G+       L H+ E+L 
Sbjct: 3  PIDLNKDIGRRIKDLRQRNGLTQQELADRAELTKGFISQLERGLGSPSVETLMHMIEILG 62

Query: 68 S-PISFFFD 75
          S P  FF D
Sbjct: 63 SNPADFFKD 71


>gi|283479888|emb|CAY75804.1| HTH-type transcriptional regulator dicA; Repressor protein of
           division inhibition gene dicA [Erwinia pyrifoliae DSM
           12163]
          Length = 137

 Score = 37.7 bits (86), Expect = 0.59,   Method: Compositional matrix adjust.
 Identities = 30/108 (27%), Positives = 49/108 (45%), Gaps = 12/108 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G+RI   R   GM+Q ++ + L ++ Q VQ +E G  R+  S L  ++ +L   +   
Sbjct: 28  GLGRRITALRKDAGMTQTQVAQALNVSQQAVQAWEAGRRRIQISILPAVARLLSVSLEDL 87

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV-KVRQKII 120
              +P        EE         P  LQL     +ID + K +QK+I
Sbjct: 88  LGEAP--------EEKIARKRGPAPKWLQL---IEEIDSLPKAKQKMI 124


>gi|254447927|ref|ZP_05061391.1| helix-turn-helix domain protein [gamma proteobacterium HTCC5015]
 gi|198262353|gb|EDY86634.1| helix-turn-helix domain protein [gamma proteobacterium HTCC5015]
          Length = 363

 Score = 37.7 bits (86), Expect = 0.59,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 1/59 (1%)

Query: 17 KRIRLRRMILGMS-QEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +RIR  R + GM+ QE   +  GI+ Q + KYEKG +   ++RL  +++VL     +FF
Sbjct: 4  ERIRRARALKGMTLQEVADQIGGISKQAISKYEKGKDAPNSTRLIQLADVLGVKPEYFF 62


>gi|260425999|ref|ZP_05779978.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
 gi|260420491|gb|EEX13742.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
          Length = 436

 Score = 37.7 bits (86), Expect = 0.60,   Method: Composition-based stats.
 Identities = 21/55 (38%), Positives = 27/55 (49%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D   G RIR RR ILGM Q +L     I+   +   E    R+G   L  I+E+L
Sbjct: 4  DTLTGSRIRERRNILGMKQAELARRASISASYLNLIEHNRRRIGGKLLLDIAEIL 58


>gi|154498443|ref|ZP_02036821.1| hypothetical protein BACCAP_02432 [Bacteroides capillosus ATCC
          29799]
 gi|150272511|gb|EDM99696.1| hypothetical protein BACCAP_02432 [Bacteroides capillosus ATCC
          29799]
          Length = 210

 Score = 37.7 bits (86), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 18/41 (43%), Positives = 26/41 (63%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR 53
          + + +RI   R   GMSQE+LGE LG++ Q V K+E G  +
Sbjct: 1  MELNERIAAARRAAGMSQEQLGEALGVSRQAVSKWESGQTK 41


>gi|150378300|ref|YP_001314894.1| XRE family transcriptional regulator [Sinorhizobium medicae
          WSM419]
 gi|150032847|gb|ABR64961.1| transcriptional regulator, XRE family [Sinorhizobium medicae
          WSM419]
          Length = 106

 Score = 37.7 bits (86), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 34/61 (55%), Gaps = 1/61 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  +R  R I G S E L    G+T  ++ + E GV+ V  +RL+ I+  L+ P S 
Sbjct: 17 VDIGGAVRQSRQIKGYSVEDLSLTCGLTAAEITRIELGVD-VDPARLRRIAAALQVPTST 75

Query: 73 F 73
          F
Sbjct: 76 F 76


>gi|148985532|ref|ZP_01818721.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP3-BS71]
 gi|148990157|ref|ZP_01821397.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP6-BS73]
 gi|149007428|ref|ZP_01831071.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP18-BS74]
 gi|168492078|ref|ZP_02716221.1| transcriptional activator [Streptococcus pneumoniae CDC0288-04]
 gi|225857528|ref|YP_002739039.1| transcriptional activator [Streptococcus pneumoniae P1031]
 gi|307128154|ref|YP_003880185.1| transcriptional activator [Streptococcus pneumoniae 670-6B]
 gi|147761000|gb|EDK67969.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP18-BS74]
 gi|147922252|gb|EDK73373.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP3-BS71]
 gi|147924551|gb|EDK75639.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP6-BS73]
 gi|183573649|gb|EDT94177.1| transcriptional activator [Streptococcus pneumoniae CDC0288-04]
 gi|225724859|gb|ACO20711.1| transcriptional activator [Streptococcus pneumoniae P1031]
 gi|301800717|emb|CBW33365.1| putative transcriptional regulator [Streptococcus pneumoniae
          OXC141]
 gi|306485216|gb|ADM92085.1| transcriptional activator [Streptococcus pneumoniae 670-6B]
 gi|332071931|gb|EGI82419.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA17545]
 gi|332072142|gb|EGI82628.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA41301]
 gi|332199268|gb|EGJ13346.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA41317]
          Length = 287

 Score = 37.7 bits (86), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|120536941|ref|YP_956999.1| XRE family transcriptional regulator [Marinobacter aquaeolei VT8]
 gi|120326775|gb|ABM21084.1| transcriptional regulator, XRE family [Marinobacter aquaeolei
          VT8]
          Length = 231

 Score = 37.7 bits (86), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 3/69 (4%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P P    +G  IR  R   G+S EKL E  G++ + + K E+G   V   R + ++   E
Sbjct: 14 PEP-GAAIGLAIRYARKAAGLSGEKLAEATGLSLRTIVKIEQGDGAVAFGRYKSVA--CE 70

Query: 68 SPISFFFDV 76
            + + FDV
Sbjct: 71 LGLEWMFDV 79


>gi|307131678|ref|YP_003883694.1| hypothetical protein Dda3937_02768 [Dickeya dadantii 3937]
 gi|306529207|gb|ADM99137.1| hypothetical protein Dda3937_02768 [Dickeya dadantii 3937]
          Length = 81

 Score = 37.4 bits (85), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 24/76 (31%), Positives = 34/76 (44%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          V  K  P      +G+ IR RR  LG+SQE L    GI    + + E+G   V    L  
Sbjct: 4  VSGKNDPAHALPLLGQTIRQRREFLGLSQENLASATGIDRSHMGRIERGERNVTLLNLLR 63

Query: 62 ISEVLESPISFFFDVS 77
          I++ LE  +   F  +
Sbjct: 64 IADALEWSLEQLFAAA 79


>gi|295402356|ref|ZP_06812311.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
 gi|294975629|gb|EFG51252.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
          Length = 206

 Score = 37.4 bits (85), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 35/60 (58%), Gaps = 1/60 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          +GK I   R + G+S E+LG  +G+T + +++YE G  R+   R+  I++ L+  P   +
Sbjct: 8  IGKNIEKYRKLKGISAEELGNRVGLTKKTIRRYETGEIRIINDRVLAIADALDIDPADLY 67


>gi|182684890|ref|YP_001836637.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae CGSP14]
 gi|303260328|ref|ZP_07346298.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP-BS293]
 gi|303262476|ref|ZP_07348418.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP14-BS292]
 gi|303265106|ref|ZP_07351019.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS397]
 gi|303266032|ref|ZP_07351927.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS457]
 gi|303268036|ref|ZP_07353837.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS458]
 gi|182630224|gb|ACB91172.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae CGSP14]
 gi|301802633|emb|CBW35399.1| putative transcriptional regulator [Streptococcus pneumoniae
          INV200]
 gi|302636376|gb|EFL66869.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP14-BS292]
 gi|302638494|gb|EFL68959.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP-BS293]
 gi|302642396|gb|EFL72742.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS458]
 gi|302644473|gb|EFL74725.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS457]
 gi|302645323|gb|EFL75557.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS397]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|169833072|ref|YP_001695308.1| transcriptional activator [Streptococcus pneumoniae Hungary19A-6]
 gi|168995574|gb|ACA36186.1| transcriptional activator [Streptococcus pneumoniae Hungary19A-6]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|303254120|ref|ZP_07340235.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS455]
 gi|302598953|gb|EFL65984.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS455]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.61,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|299144948|ref|ZP_07038016.1| putative prophage L54a, repressor protein [Bacteroides sp.
          3_1_23]
 gi|298515439|gb|EFI39320.1| putative prophage L54a, repressor protein [Bacteroides sp.
          3_1_23]
          Length = 131

 Score = 37.4 bits (85), Expect = 0.61,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 1/67 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          VG R+++ RM   ++QE++GE L ++     K E G   +  +RL  I+EVL  S +  F
Sbjct: 9  VGHRLQMLRMEKNLTQEQMGEKLNLSTSAYCKIEYGETDLTLTRLNKIAEVLNMSALELF 68

Query: 74 FDVSPTV 80
            +   V
Sbjct: 69 NKIDGNV 75


>gi|148998484|ref|ZP_01825925.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP11-BS70]
 gi|168576644|ref|ZP_02722510.1| transcriptional activator [Streptococcus pneumoniae MLV-016]
 gi|307068564|ref|YP_003877530.1| putative transcriptional regulator [Streptococcus pneumoniae
          AP200]
 gi|147755677|gb|EDK62723.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP11-BS70]
 gi|183577638|gb|EDT98166.1| transcriptional activator [Streptococcus pneumoniae MLV-016]
 gi|306410101|gb|ADM85528.1| Predicted transcriptional regulator [Streptococcus pneumoniae
          AP200]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.61,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|325262674|ref|ZP_08129410.1| DNA-binding protein [Clostridium sp. D5]
 gi|324031768|gb|EGB93047.1| DNA-binding protein [Clostridium sp. D5]
          Length = 545

 Score = 37.4 bits (85), Expect = 0.61,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 33/55 (60%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+ I  RR  +G++Q++L E LG+T + V K+E G      S L+ ++ VLE  +
Sbjct: 6  GQFIARRRKAIGLTQKELAEKLGVTNKAVSKWETGGGMPDVSVLETLAGVLEVSV 60


>gi|261344511|ref|ZP_05972155.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282567421|gb|EFB72956.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 95

 Score = 37.4 bits (85), Expect = 0.61,   Method: Compositional matrix adjust.
 Identities = 24/64 (37%), Positives = 34/64 (53%), Gaps = 3/64 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          VG +IR  R   GMS +KL E +GI+ Q   +YE G   +    +  +S++    PI FF
Sbjct: 9  VGLKIRTLRESHGMSGKKLSELMGISQQHQSRYENGEVNIHVDTIYLLSQIFSVEPIYFF 68

Query: 74 --FD 75
            FD
Sbjct: 69 SEFD 72


>gi|218134838|ref|ZP_03463642.1| hypothetical protein BACPEC_02741 [Bacteroides pectinophilus ATCC
          43243]
 gi|217990223|gb|EEC56234.1| hypothetical protein BACPEC_02741 [Bacteroides pectinophilus ATCC
          43243]
          Length = 219

 Score = 37.4 bits (85), Expect = 0.61,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 39/72 (54%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G+R + RR  L ++Q  + + +G+T   +Q+YE G ++      L+ +SE L   + + 
Sbjct: 24 IGERAKSRRTELNLTQPYVADKMGVTASTIQRYEAGTIDNTKKMVLEGLSEALHVSVEWL 83

Query: 74 FDVSPTVCSDIS 85
             + +  +DI+
Sbjct: 84 KGETDSYETDIT 95


>gi|293373775|ref|ZP_06620121.1| DNA-binding protein [Bacteroides ovatus SD CMC 3f]
 gi|298482606|ref|ZP_07000791.1| prophage L54a [Bacteroides sp. D22]
 gi|292631265|gb|EFF49897.1| DNA-binding protein [Bacteroides ovatus SD CMC 3f]
 gi|298271313|gb|EFI12889.1| prophage L54a [Bacteroides sp. D22]
          Length = 131

 Score = 37.4 bits (85), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 1/67 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          VG R+++ RM   ++QE++GE L ++     K E G   +  +RL  I+EVL  S +  F
Sbjct: 9  VGHRLQMLRMEKNLTQEQMGEKLNLSTSAYCKIEYGETDLTLTRLNKIAEVLNMSALELF 68

Query: 74 FDVSPTV 80
            +   V
Sbjct: 69 NKIDGNV 75


>gi|293400018|ref|ZP_06644164.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291306418|gb|EFE47661.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 108

 Score = 37.4 bits (85), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 45/75 (60%), Gaps = 5/75 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISF- 72
          +G+RIR  R    M+ ++L + +G + Q +Q+YE G +N + + +++ I+ +L +  +F 
Sbjct: 4  IGERIRTARKKQNMTLDELAKKVGTSKQTIQRYETGIINNIPSDKIKAIAAILCTTPAFL 63

Query: 73 --FFDVSP-TVCSDI 84
            + + SP T  S+I
Sbjct: 64 TGWTEKSPITTLSNI 78


>gi|288818209|ref|YP_003432557.1| putative prophage repressor [Hydrogenobacter thermophilus TK-6]
 gi|288787609|dbj|BAI69356.1| putative prophage repressor [Hydrogenobacter thermophilus TK-6]
          Length = 235

 Score = 37.4 bits (85), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 17/53 (32%), Positives = 31/53 (58%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          N+  R+R  R  LG+SQE+ GE +G + + +Q +E G  ++  + L+ I+   
Sbjct: 11 NIHNRLRYLRKTLGLSQEEFGERIGKSLRTIQYWEAGTVQIPDTALKLIASTF 63


>gi|169826912|ref|YP_001697070.1| hypothetical protein Bsph_1332 [Lysinibacillus sphaericus C3-41]
 gi|168991400|gb|ACA38940.1| conserved hypothetical protein [Lysinibacillus sphaericus C3-41]
          Length = 180

 Score = 37.4 bits (85), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 37/67 (55%), Gaps = 1/67 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PIS 71
          + +G +I+  R+  G++QE+LGE   ++   + + E+ +N      L  I EVL S P  
Sbjct: 1  MQIGAKIKALRLKKGLTQEELGERTDLSKGYISQLERDLNSPSIETLFSILEVLGSTPKE 60

Query: 72 FFFDVSP 78
          FF D SP
Sbjct: 61 FFDDESP 67


>gi|149021903|ref|ZP_01835890.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP23-BS72]
 gi|147929941|gb|EDK80929.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP23-BS72]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|325696215|gb|EGD38106.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
           SK160]
          Length = 180

 Score = 37.4 bits (85), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 28/138 (20%), Positives = 61/138 (44%), Gaps = 20/138 (14%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI+  R   G+SQ+ L + +G++++ +Q +E GVN++   + Q ++      + +    +
Sbjct: 3   RIKEIRQKEGLSQQALAKKIGVSYRTIQNWENGVNQIKPDKAQQLANFFRVGVGYLLGYN 62

Query: 78  --------PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI--- 126
                         I  E  ++ D+  T D  +      QID +   + + E   ++   
Sbjct: 63  DEEKEKQITKAKKAIIKEIQDLSDYAKTNDIAK------QIDSIFQNEGLGEFFYNLKNV 116

Query: 127 ---VSSEKKYRTIEEECM 141
              + S+K+Y   E+E +
Sbjct: 117 FFQIESKKEYSDAEKEAL 134


>gi|307709969|ref|ZP_07646416.1| transcriptional regulator [Streptococcus mitis SK564]
 gi|307619340|gb|EFN98469.1| transcriptional regulator [Streptococcus mitis SK564]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|225859710|ref|YP_002741220.1| transcriptional activator [Streptococcus pneumoniae 70585]
 gi|225721236|gb|ACO17090.1| transcriptional activator [Streptococcus pneumoniae 70585]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|218133873|ref|ZP_03462677.1| hypothetical protein BACPEC_01762 [Bacteroides pectinophilus ATCC
          43243]
 gi|217991248|gb|EEC57254.1| hypothetical protein BACPEC_01762 [Bacteroides pectinophilus ATCC
          43243]
          Length = 219

 Score = 37.4 bits (85), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 39/72 (54%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G+R + RR  L ++Q  + + +G+T   +Q+YE G ++      L+ +SE L   + + 
Sbjct: 24 IGERAKSRRTELNLTQPYVADKMGVTASTIQRYEAGTIDNTKKMVLEGLSEALHVSVEWL 83

Query: 74 FDVSPTVCSDIS 85
             + +  +DI+
Sbjct: 84 KGETDSYETDIT 95


>gi|196048279|ref|ZP_03115456.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|196021016|gb|EDX59746.1| DNA-binding protein [Bacillus cereus 03BB108]
          Length = 184

 Score = 37.4 bits (85), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 23/77 (29%), Positives = 39/77 (50%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +IN+G++I + R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  NINIGEKIMVFRKGAGLTSKRLAELSDITPSMLSQIEKGITNPSLQTLKLISLALNIPLF 62

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D ++EE
Sbjct: 63 NFF------LEDTNTEE 73


>gi|149003610|ref|ZP_01828475.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP14-BS69]
 gi|147758342|gb|EDK65342.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP14-BS69]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|218459628|ref|ZP_03499719.1| hypothetical protein RetlK5_09084 [Rhizobium etli Kim 5]
          Length = 180

 Score = 37.4 bits (85), Expect = 0.63,   Method: Compositional matrix adjust.
 Identities = 17/71 (23%), Positives = 36/71 (50%), Gaps = 1/71 (1%)

Query: 23  RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFFDVSPTVC 81
           R   G+S+  +   LG++     +YE+  +++  +R+ H+ E+L   PI   F+ +P + 
Sbjct: 67  RQAQGLSRADVAPMLGLSIPVYGRYERAFSKMTVTRMIHLCEILGFMPIDMIFEAAPHLW 126

Query: 82  SDISSEENNVM 92
              S E  + +
Sbjct: 127 GRTSEEAEDCL 137


>gi|194467035|ref|ZP_03073022.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
 gi|194454071|gb|EDX42968.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
          Length = 115

 Score = 37.4 bits (85), Expect = 0.63,   Method: Compositional matrix adjust.
 Identities = 21/83 (25%), Positives = 39/83 (46%), Gaps = 1/83 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +GK I  RR  L M+QE+L E   ++   + K E+G    + A  L  +++ L  P+   
Sbjct: 5  IGKNITTRRHQLKMTQEQLAELSNLSVNYISKIERGTTPNISAKTLYRLAKGLNVPMENL 64

Query: 74 FDVSPTVCSDISSEENNVMDFIS 96
               T  ++I   +  +  F++
Sbjct: 65 LKEETTYTTNIGPYQQQLETFLN 87


>gi|294794988|ref|ZP_06760123.1| toxin-antitoxin system, antitoxin component, Xre family
          [Veillonella sp. 3_1_44]
 gi|294454350|gb|EFG22724.1| toxin-antitoxin system, antitoxin component, Xre family
          [Veillonella sp. 3_1_44]
          Length = 142

 Score = 37.4 bits (85), Expect = 0.64,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 35/63 (55%), Gaps = 1/63 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          RIR RR+ LG+SQE L   +G  +   + K E G   +  ++++  +EVL +  ++  D 
Sbjct: 26 RIRERRIQLGLSQEDLAIKMGYKSRSTINKIESGAVDIARNKIEKFAEVLNTTPAYLMDW 85

Query: 77 SPT 79
          + T
Sbjct: 86 NDT 88


>gi|58040192|ref|YP_192156.1| hypothetical protein GOX1761 [Gluconobacter oxydans 621H]
 gi|58002606|gb|AAW61500.1| Hypothetical protein GOX1761 [Gluconobacter oxydans 621H]
          Length = 203

 Score = 37.4 bits (85), Expect = 0.64,   Method: Compositional matrix adjust.
 Identities = 32/111 (28%), Positives = 56/111 (50%), Gaps = 12/111 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+RIRL R + G+SQ++L + +GI+   V  +E G       R  H+ + L S ++ 
Sbjct: 81  LELGRRIRLLREMAGLSQQQLADKVGISRSAVAFWETG-------RSGHVGKHLGS-LAQ 132

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-VKVR-QKIIE 121
              V P V   ++      +    TPD   +   + Q+D  +K++ QK IE
Sbjct: 133 VLGVEPEVL--LTGMAYKAIQATLTPDENTMLTLYRQLDPLIKLQAQKWIE 181


>gi|327389117|gb|EGE87463.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA04375]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.64,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|308751810|gb|ADO45293.1| transcriptional regulator, XRE family [Hydrogenobacter thermophilus
           TK-6]
          Length = 311

 Score = 37.4 bits (85), Expect = 0.64,   Method: Compositional matrix adjust.
 Identities = 17/53 (32%), Positives = 31/53 (58%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           N+  R+R  R  LG+SQE+ GE +G + + +Q +E G  ++  + L+ I+   
Sbjct: 87  NIHNRLRYLRKTLGLSQEEFGERIGKSLRTIQYWEAGTVQIPDTALKLIASTF 139


>gi|226311800|ref|YP_002771694.1| DNA-binding protein [Brevibacillus brevis NBRC 100599]
 gi|226094748|dbj|BAH43190.1| putative DNA-binding protein [Brevibacillus brevis NBRC 100599]
          Length = 183

 Score = 37.4 bits (85), Expect = 0.64,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 37/63 (58%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +V K+IR  R+   ++ + L E  G +   + + E+G + +  + LQ I+E L  PI++F
Sbjct: 3  HVYKKIRALRIQQELTLKDLSEKSGFSVSFLSQVERGNSSLAITSLQKIAECLGVPITYF 62

Query: 74 FDV 76
          F+V
Sbjct: 63 FEV 65


>gi|219848414|ref|YP_002462847.1| XRE family transcriptional regulator [Chloroflexus aggregans DSM
          9485]
 gi|219542673|gb|ACL24411.1| transcriptional regulator, XRE family [Chloroflexus aggregans DSM
          9485]
          Length = 211

 Score = 37.4 bits (85), Expect = 0.65,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 30/63 (47%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++VGKR+R  R    MS   L E  G+    +   E G      S LQ ++  L+ PIS
Sbjct: 19 HVDVGKRLRTLRERQRMSIRALAEASGLAVNTLSLIENGRTSPSVSTLQRLAVALQVPIS 78

Query: 72 FFF 74
           FF
Sbjct: 79 AFF 81


>gi|149012465|ref|ZP_01833496.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP19-BS75]
 gi|147763521|gb|EDK70457.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP19-BS75]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.65,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|325262256|ref|ZP_08128994.1| putative helix-turn-helix protein [Clostridium sp. D5]
 gi|324033710|gb|EGB94987.1| putative helix-turn-helix protein [Clostridium sp. D5]
          Length = 197

 Score = 37.4 bits (85), Expect = 0.65,   Method: Compositional matrix adjust.
 Identities = 26/87 (29%), Positives = 43/87 (49%), Gaps = 5/87 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK I   R   GM+Q+ L + + I+ + + K+E+GV     S L+ +S++LE  +    
Sbjct: 6  VGKLILTLRQEKGMTQKALADAMNISDRTISKWERGVGCPDVSLLRGLSDILEVDVEKIL 65

Query: 75 --DVSPTVCSDISSEENNVMDFISTPD 99
            D+ P   +DI       + F   PD
Sbjct: 66 SGDLRP---NDIDRGNMKKIKFYVCPD 89


>gi|308068399|ref|YP_003870004.1| transcriptional regulator y4dJ [Paenibacillus polymyxa E681]
 gi|305857678|gb|ADM69466.1| Putative HTH-type transcriptional regulator y4dJ [Paenibacillus
           polymyxa E681]
          Length = 112

 Score = 37.4 bits (85), Expect = 0.65,   Method: Compositional matrix adjust.
 Identities = 29/101 (28%), Positives = 49/101 (48%), Gaps = 8/101 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
           VG RIR  R   G+SQE LGE  G  F  + + E+G   V    +  I+  L+ + I  F
Sbjct: 10  VGARIRALRKEKGLSQESLGEKGGFHFSYIGQIERGEKNVSLINIAKIANALDVNLIQLF 69

Query: 74  FDVSPTVCSDISSEENNVMDFI-----STPDGLQLNRYFIQ 109
             V+  +   ++  E  + + +     S+P+ ++L R  I+
Sbjct: 70  AYVNEDI--KVTKHEEGIQEIVNILQKSSPEKVRLARNVIR 108


>gi|222530442|ref|YP_002574324.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
           DSM 6725]
 gi|222457289|gb|ACM61551.1| transcriptional regulator, XRE family [Caldicellulosiruptor bescii
           DSM 6725]
          Length = 143

 Score = 37.4 bits (85), Expect = 0.65,   Method: Compositional matrix adjust.
 Identities = 24/98 (24%), Positives = 53/98 (54%), Gaps = 3/98 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS- 71
           +N+GK+I   R   G+++ KL E  G++   + + E+G+ +   + L++I + L   ++ 
Sbjct: 1   MNIGKKIAELREKYGLTRYKLSELSGVSQSALSEIERGIKQPTITTLENICKALNITLAD 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           FF +  P +  ++ S  N V+    +P  ++L   F++
Sbjct: 61  FFAEKEPEIPPEVKSLINTVVRL--SPTQIRLLDSFLK 96


>gi|111222124|ref|YP_712918.1| putative transcriptional regulator [Frankia alni ACN14a]
 gi|111149656|emb|CAJ61349.1| Putative transcriptional regulator [Frankia alni ACN14a]
          Length = 453

 Score = 37.4 bits (85), Expect = 0.65,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 30/58 (51%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          D  +G+ IRL R+    SQ +LG  LG +   + + E G + +    L+ I+ VL  P
Sbjct: 8  DPTIGETIRLARLAAHQSQRQLGATLGYSASAISRLETGKSSLDLDTLRSIANVLHIP 65


>gi|110346975|ref|YP_665793.1| hypothetical protein Meso_4162 [Mesorhizobium sp. BNC1]
 gi|110283086|gb|ABG61146.1| hypothetical protein Meso_4162 [Chelativorans sp. BNC1]
          Length = 167

 Score = 37.4 bits (85), Expect = 0.65,   Method: Compositional matrix adjust.
 Identities = 18/74 (24%), Positives = 42/74 (56%), Gaps = 1/74 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
           + + +R RR    +++E++G  +GI  +   ++E+   ++  +RL H++E+L+ SPI   
Sbjct: 46  LSRYLRERRDAQNLNREQVGMMVGIHHEIYARHERAGAKLRVTRLLHLAELLDFSPIEAL 105

Query: 74  FDVSPTVCSDISSE 87
           +  +P +  +   E
Sbjct: 106 YAAAPHLFGESEQE 119


>gi|215486344|ref|YP_002328775.1| transcriptional repressor DicA [Escherichia coli O127:H6 str.
           E2348/69]
 gi|254792795|ref|YP_003077632.1| transcriptional repressor DicA [Escherichia coli O157:H7 str.
           TW14359]
 gi|260843554|ref|YP_003221332.1| putative phage repressor protein CI [Escherichia coli O103:H2 str.
           12009]
 gi|261257017|ref|ZP_05949550.1| putative phage repressor protein CI [Escherichia coli O157:H7 str.
           FRIK966]
 gi|215264416|emb|CAS08774.1| predicted phage repressor protein [Escherichia coli O127:H6 str.
           E2348/69]
 gi|254592195|gb|ACT71556.1| transcriptional repressor DicA [Escherichia coli O157:H7 str.
           TW14359]
 gi|257758701|dbj|BAI30198.1| predicted phage repressor protein CI [Escherichia coli O103:H2 str.
           12009]
 gi|323977164|gb|EGB72251.1| helix-turn-helix protein [Escherichia coli TW10509]
          Length = 135

 Score = 37.4 bits (85), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 30/112 (26%), Positives = 53/112 (47%), Gaps = 10/112 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
           +G+RIR RR  +G+SQ  L +  G++   +  +E          L  ++EVL+ SP    
Sbjct: 6   LGQRIRERRKQVGLSQNDLSKAAGVSGSSISLWESDHTAPRGQNLHRLAEVLQCSPTWIL 65

Query: 74  F---DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           F   D +P    D     N+ +D   + D L++ R +  +   + + +I EL
Sbjct: 66  FGDEDKTP----DPPVALNSALDL--SEDELEMLRLYRALPKSEQQAQISEL 111


>gi|322377175|ref|ZP_08051667.1| putative transcriptional regulator PlcR [Streptococcus sp. M334]
 gi|321281888|gb|EFX58896.1| putative transcriptional regulator PlcR [Streptococcus sp. M334]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|212710973|ref|ZP_03319101.1| hypothetical protein PROVALCAL_02042 [Providencia alcalifaciens
          DSM 30120]
 gi|212686141|gb|EEB45669.1| hypothetical protein PROVALCAL_02042 [Providencia alcalifaciens
          DSM 30120]
          Length = 115

 Score = 37.4 bits (85), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 32/61 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  I L R    +S ++L   L I+ QQV +YE+G+  +    L  +  VL+ PI  F 
Sbjct: 25 VGYEIYLLRKRRLLSGKELANLLNISQQQVSRYERGICNITIDMLIQVLNVLKMPIQDFL 84

Query: 75 D 75
          D
Sbjct: 85 D 85


>gi|168494718|ref|ZP_02718861.1| transcriptional activator [Streptococcus pneumoniae CDC3059-06]
 gi|183575348|gb|EDT95876.1| transcriptional activator [Streptococcus pneumoniae CDC3059-06]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|188992043|ref|YP_001904053.1| transcriptional regulator protein [Xanthomonas campestris pv.
          campestris str. B100]
 gi|167733803|emb|CAP52009.1| transcriptional regulator protein [Xanthomonas campestris pv.
          campestris]
          Length = 120

 Score = 37.4 bits (85), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 5/82 (6%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQ-----QVQKYEKGVNRVGASRLQHI 62
          P P     G+R+R  R+  GM+Q  LG  LG+  Q     ++ +YE+G        +  +
Sbjct: 7  PLPPAYTFGRRLREARLARGMNQAALGAVLGLEEQNSAAPRISRYERGDRMPDNESMAKL 66

Query: 63 SEVLESPISFFFDVSPTVCSDI 84
          +E LE P+++F  VS  +   I
Sbjct: 67 AEALELPVAYFHAVSEPMAEAI 88


>gi|313206573|ref|YP_004045750.1| helix-turn-helix domain protein [Riemerella anatipestifer DSM
          15868]
 gi|312445889|gb|ADQ82244.1| helix-turn-helix domain protein [Riemerella anatipestifer DSM
          15868]
 gi|315023431|gb|EFT36439.1| helix-turn-helix domain protein [Riemerella anatipestifer RA-YM]
 gi|325335979|gb|ADZ12253.1| Helix-turn-helix type 3 [Riemerella anatipestifer RA-GD]
          Length = 122

 Score = 37.4 bits (85), Expect = 0.67,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 38/67 (56%), Gaps = 4/67 (5%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N + +N+ +R+R R+   G SQE + + L I+     + E    +V   RL  I+E+LE+
Sbjct: 2  NKIGVNI-RRLRERK---GFSQEYVAQELNISQASYARLENENTKVTVERLSKIAEILET 57

Query: 69 PISFFFD 75
           I+ FF+
Sbjct: 58 DITEFFN 64


>gi|321272294|gb|ADW80179.1| putative transcriptional regulator [Wolbachia endosymbiont wVitA of
           Nasonia vitripennis phage WOVitA1]
          Length = 325

 Score = 37.4 bits (85), Expect = 0.68,   Method: Compositional matrix adjust.
 Identities = 31/128 (24%), Positives = 58/128 (45%), Gaps = 7/128 (5%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N +    V+  +GK+I   R++ G +Q KL   +G+T +++  +E G   +       I+
Sbjct: 17  NSEHIGSVNYELGKKIEGCRIVQGYTQAKLASKIGLTHKEIHNFELGCKAITIKESYIIA 76

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
             L   +       PTV  +    E+   + +       L +   +I D ++R+K+  LV
Sbjct: 77  GALSVNVVDLLP-GPTVLRENGWYEDEDKEIV------YLTKIHREIKDQELRKKLYPLV 129

Query: 124 RSIVSSEK 131
           R +  SEK
Sbjct: 130 RFVYISEK 137



 Score = 35.0 bits (79), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 14/72 (19%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VGKRI+ +R+I   +QE L   +G T +++  YE+G   +              PI   +
Sbjct: 188 VGKRIKEQRLIREYTQEDLANKIGSTPKEIHDYERGYTDI--------------PIEILY 233

Query: 75  DVSPTVCSDISS 86
            ++ T+  +I +
Sbjct: 234 KIAKTLSVNIKA 245


>gi|288947737|ref|YP_003445120.1| transcriptional regulator, XRE family [Allochromatium vinosum DSM
           180]
 gi|288898253|gb|ADC64088.1| transcriptional regulator, XRE family [Allochromatium vinosum DSM
           180]
          Length = 273

 Score = 37.4 bits (85), Expect = 0.68,   Method: Compositional matrix adjust.
 Identities = 31/85 (36%), Positives = 45/85 (52%), Gaps = 18/85 (21%)

Query: 9   NPVDI------NVGKRIRLRRMILGMSQEKLGECL--GITFQQVQKYEKGVNRVGASRLQ 60
           +PV+I      ++G RIR RR  LG+S  KL E +   I+   +  YE G+ R G     
Sbjct: 149 SPVEIGRRLNRSIGARIRTRRKQLGLSLRKLSERIDGAISSVALNNYEIGLRRPG----- 203

Query: 61  HISEVLESPISFFFDVSPT--VCSD 83
            I EV++  +S  F+VSP   +C D
Sbjct: 204 -IEEVMQ--LSAIFEVSPAWLLCID 225


>gi|88858937|ref|ZP_01133578.1| hypothetical protein PTD2_08034 [Pseudoalteromonas tunicata D2]
 gi|88819163|gb|EAR28977.1| hypothetical protein PTD2_08034 [Pseudoalteromonas tunicata D2]
          Length = 170

 Score = 37.4 bits (85), Expect = 0.68,   Method: Compositional matrix adjust.
 Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 6/67 (8%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +PN +    G+R+   R  LG++Q  L E +G+T Q +   E   NR  + RL  I+E L
Sbjct: 11 MPNTI----GERVAAERKKLGLTQTALAEKVGVTQQAIGNIEN--NRSDSKRLADIAEAL 64

Query: 67 ESPISFF 73
              ++ 
Sbjct: 65 GVTYTYL 71


>gi|331265721|ref|YP_004325351.1| transcriptional regulator, putative [Streptococcus oralis Uo5]
 gi|326682393|emb|CBZ00010.1| transcriptional regulator, putative [Streptococcus oralis Uo5]
          Length = 228

 Score = 37.4 bits (85), Expect = 0.68,   Method: Compositional matrix adjust.
 Identities = 14/57 (24%), Positives = 33/57 (57%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  L ++Q+++ E LGI+FQ    +E+G+      ++  +  +L+    +F
Sbjct: 5  EKLKARRKELKLTQKEIAEGLGISFQAYSAWERGIKEPSKEKVAQLENILKVAKGYF 61


>gi|291527875|emb|CBK93461.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
          Length = 205

 Score = 37.4 bits (85), Expect = 0.68,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 39/72 (54%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G+R + RR  L ++Q  + + +G+T   +Q+YE G ++      L+ +SE L   + + 
Sbjct: 10 IGERAKSRRTELNLTQPYVADKMGVTASTIQRYEAGTIDNTKKMVLEGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             + +  +DI+
Sbjct: 70 KGETDSYETDIT 81


>gi|223933217|ref|ZP_03625208.1| transcriptional regulator, XRE family [Streptococcus suis 89/1591]
 gi|330832261|ref|YP_004401086.1| XRE family transcriptional regulator [Streptococcus suis ST3]
 gi|223898147|gb|EEF64517.1| transcriptional regulator, XRE family [Streptococcus suis 89/1591]
 gi|329306484|gb|AEB80900.1| transcriptional regulator, XRE family [Streptococcus suis ST3]
          Length = 126

 Score = 37.4 bits (85), Expect = 0.68,   Method: Compositional matrix adjust.
 Identities = 36/137 (26%), Positives = 62/137 (45%), Gaps = 12/137 (8%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQ-VQKYEKGVNRVGASRLQ 60
           + + KI  P    VG+RIR  R + G  Q  +   LG   Q  + K+E GVN     +L 
Sbjct: 1   MADAKIKYP---EVGQRIRELREMRGFEQLDIANQLGYKSQSTISKWESGVNLPTGKKLI 57

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            ++E+L++   +         SD S++     D   T D  ++    +  D + +  + I
Sbjct: 58  LLAEMLDTSTDYILHGK---ISDTSTK-----DTTPTIDFKEMAAESMSYDGMPLNDEDI 109

Query: 121 ELVRSIVSSEKKYRTIE 137
           +L+ SI+ +  K R  E
Sbjct: 110 DLIASILETRMKNRDKE 126


>gi|315648384|ref|ZP_07901483.1| putative transcriptional regulator [Paenibacillus vortex V453]
 gi|315276078|gb|EFU39424.1| putative transcriptional regulator [Paenibacillus vortex V453]
          Length = 420

 Score = 37.4 bits (85), Expect = 0.69,   Method: Compositional matrix adjust.
 Identities = 16/32 (50%), Positives = 24/32 (75%), Gaps = 1/32 (3%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          +RLR+  LGM+QE+L   LG+++Q V K+E G
Sbjct: 13 VRLRKQ-LGMTQEQLANGLGVSYQAVSKWENG 43


>gi|118578597|ref|YP_899847.1| XRE family transcriptional regulator [Pelobacter propionicus DSM
           2379]
 gi|118501307|gb|ABK97789.1| transcriptional regulator, XRE family [Pelobacter propionicus DSM
           2379]
          Length = 185

 Score = 37.4 bits (85), Expect = 0.69,   Method: Compositional matrix adjust.
 Identities = 24/75 (32%), Positives = 36/75 (48%), Gaps = 11/75 (14%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           NP  I +G  IR RRM LG+ Q ++ E +G+T   V  +E G        LQ+  +++  
Sbjct: 48  NP--ITIGDHIRKRRMDLGLLQREVAEIVGVTESSVWNWEHGTE----PELQYNPKIIN- 100

Query: 69  PISFFFDVSPTVCSD 83
               F   +P  C D
Sbjct: 101 ----FLGYAPFDCPD 111


>gi|312864220|ref|ZP_07724454.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
           F0396]
 gi|311100221|gb|EFQ58430.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
           F0396]
          Length = 187

 Score = 37.4 bits (85), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 30/107 (28%), Positives = 47/107 (43%), Gaps = 13/107 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG RI+  R+ LG S E+ G     +   V  +EKG N      L+ I+ +  +P+S   
Sbjct: 9   VGARIKDIRLSLGESMEQFGARFNTSKGTVNNWEKGRNIPNRKNLKEIALISGTPVSVLL 68

Query: 75  DVS--------PTVCSDISSEENNV-----MDFISTPDGLQLNRYFI 108
             S        P +   +S+ +  V     M   +TPD  Q + YF+
Sbjct: 69  KGSTAHMPFRFPDLVDILSNPDYYVTICRDMIITNTPDNYQEDLYFM 115


>gi|218663686|ref|ZP_03519616.1| hypothetical protein RetlI_32695 [Rhizobium etli IE4771]
          Length = 172

 Score = 37.4 bits (85), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 1/61 (1%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFFFDVSPTVCSDISS 86
           + + KL   LGI+ Q   +YE  V+R+  SRL H+ EVL++ P       +P +  D  +
Sbjct: 54  LPRSKLAPLLGISEQVYGRYETRVSRLTVSRLIHLCEVLDATPEEIIAPAAPHLWGDTET 113

Query: 87  E 87
           +
Sbjct: 114 K 114


>gi|194397893|ref|YP_002038537.1| transcriptional activator [Streptococcus pneumoniae G54]
 gi|194357560|gb|ACF56008.1| transcriptional activator, putative [Streptococcus pneumoniae
          G54]
          Length = 287

 Score = 37.4 bits (85), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|119484521|ref|ZP_01619138.1| hypothetical protein L8106_02347 [Lyngbya sp. PCC 8106]
 gi|119457995|gb|EAW39118.1| hypothetical protein L8106_02347 [Lyngbya sp. PCC 8106]
          Length = 92

 Score = 37.4 bits (85), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 18/41 (43%), Positives = 26/41 (63%)

Query: 26 LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          LG+SQEKL   LG++FQ V ++E+G  +     LQ I + L
Sbjct: 23 LGLSQEKLATQLGVSFQTVNRWERGRTQPSHLALQAIKQKL 63


>gi|318062605|ref|ZP_07981326.1| helix-turn-helix domain-containing protein [Streptomyces sp.
          SA3_actG]
 gi|318080566|ref|ZP_07987898.1| helix-turn-helix domain-containing protein [Streptomyces sp.
          SA3_actF]
          Length = 365

 Score = 37.4 bits (85), Expect = 0.71,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 31/66 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R+  GMSQ  L   + +    + + E G  RV A  L  +++ L  P++ F 
Sbjct: 7  IGERIAEARLAAGMSQGDLASKVALDRTAMVRIEAGDRRVSALELSRLAQALGVPVAHFL 66

Query: 75 DVSPTV 80
             P  
Sbjct: 67 SRPPAA 72


>gi|325679912|ref|ZP_08159481.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324108350|gb|EGC02597.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 135

 Score = 37.4 bits (85), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 21/67 (31%), Positives = 32/67 (47%), Gaps = 1/67 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G ++   R   G SQE L + L ++ Q V K+E G +   A ++  IS        F
Sbjct: 1  MNIGDKLLFLRNRSGCSQENLADALDVSRQTVSKWELGQSLPDAEKIVAISNFFSVTTDF 60

Query: 73 FF-DVSP 78
             D SP
Sbjct: 61 LLRDTSP 67


>gi|160894719|ref|ZP_02075494.1| hypothetical protein CLOL250_02270 [Clostridium sp. L2-50]
 gi|156863653|gb|EDO57084.1| hypothetical protein CLOL250_02270 [Clostridium sp. L2-50]
          Length = 416

 Score = 37.4 bits (85), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 32/55 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          I VG  I  +R  LGM+Q++L + L ++FQ + K+E G        L+ ++ VL+
Sbjct: 5  IKVGNFIMGKRKSLGMTQQQLADKLKVSFQAISKWENGTTYPNIEILRDLAIVLD 59


>gi|119492954|ref|ZP_01623984.1| hypothetical protein L8106_26542 [Lyngbya sp. PCC 8106]
 gi|119452880|gb|EAW34054.1| hypothetical protein L8106_26542 [Lyngbya sp. PCC 8106]
          Length = 76

 Score = 37.4 bits (85), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 17/32 (53%), Positives = 21/32 (65%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          IR  R  LG+SQEK G+ LG+ FQ V  +E G
Sbjct: 12 IRTLRHRLGLSQEKFGQKLGVVFQTVNNWENG 43


>gi|322378022|ref|ZP_08052509.1| transcriptional regulator [Streptococcus sp. M334]
 gi|321281004|gb|EFX58017.1| transcriptional regulator [Streptococcus sp. M334]
          Length = 305

 Score = 37.4 bits (85), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 38/65 (58%), Gaps = 1/65 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ +GKRIR  R   G+S+E   G+   +T +Q+ + E G N    ++L +I+++L  PI
Sbjct: 8  NLEIGKRIRTLRTEKGLSREAFCGDEKELTVRQLGRIETGNNLPSLAKLDYIAKILGVPI 67

Query: 71 SFFFD 75
          S   D
Sbjct: 68 SQLID 72


>gi|289651209|ref|ZP_06482552.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
          aesculi str. 2250]
          Length = 117

 Score = 37.4 bits (85), Expect = 0.73,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 32/64 (50%), Gaps = 8/64 (12%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R + GMSQ  L E +G     V  YE+G++  G  +L          IS  F
Sbjct: 8  VGAKIKALRKLSGMSQAALAEKIGCDAPLVGCYERGIHLPGVEQLIK--------ISMAF 59

Query: 75 DVSP 78
          DV+P
Sbjct: 60 DVAP 63


>gi|169334227|ref|ZP_02861420.1| hypothetical protein ANASTE_00625 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169258944|gb|EDS72910.1| hypothetical protein ANASTE_00625 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 194

 Score = 37.4 bits (85), Expect = 0.73,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 36/63 (57%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I +G  I+  R+   M+Q+++G+ L ++ + + K+E G      S L  +SEVL++ I 
Sbjct: 3  NIKIGNLIKTLRIKKDMTQKEIGDMLNVSDKTISKWETGNGLPDISILSSLSEVLDTQID 62

Query: 72 FFF 74
          +  
Sbjct: 63 YLL 65


>gi|118445169|ref|YP_879281.1| MerR family transcriptional regulator [Clostridium novyi NT]
 gi|118135625|gb|ABK62669.1| Transcriptional regulator, MerR family [Clostridium novyi NT]
          Length = 147

 Score = 37.4 bits (85), Expect = 0.73,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 32/58 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +NVG+ IR  R   G++Q +L E   +    +Q+YEKG  +     L+ I++ L  P+
Sbjct: 1  MNVGENIRKYRKEKGLTQSELAEKTHLATNTIQRYEKGHRQPTMQVLEKIADALGIPV 58


>gi|50122325|ref|YP_051492.1| putative phage regulatory protein [Pectobacterium atrosepticum
          SCRI1043]
 gi|49612851|emb|CAG76301.1| putative phage regulatory protein [Pectobacterium atrosepticum
          SCRI1043]
          Length = 136

 Score = 37.4 bits (85), Expect = 0.73,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 30/52 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +GKRI   R   GM+Q ++ + L ++ Q VQ +E G  R+  S L  ++ VL
Sbjct: 29 LGKRITALRKEAGMTQTQVAQALNVSQQAVQAWEAGRRRIQISILPAVARVL 80


>gi|71725303|ref|YP_272277.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
          phaseolicola 1448A]
 gi|71558893|gb|AAZ38102.1| transcriptional regulator, PbsX family [Pseudomonas syringae pv.
          phaseolicola 1448A]
          Length = 118

 Score = 37.4 bits (85), Expect = 0.74,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 32/64 (50%), Gaps = 8/64 (12%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R + GMSQ  L E +G     V  YE+G++  G  +L          IS  F
Sbjct: 8  VGAKIKALRKLSGMSQAALAEKIGCDAPLVGCYERGIHLPGVEQLIK--------ISMAF 59

Query: 75 DVSP 78
          DV+P
Sbjct: 60 DVAP 63


>gi|282601042|ref|ZP_05980519.2| DNA-binding protein [Subdoligranulum variabile DSM 15176]
 gi|282570426|gb|EFB75961.1| DNA-binding protein [Subdoligranulum variabile DSM 15176]
          Length = 269

 Score = 37.4 bits (85), Expect = 0.75,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27  GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 114 GLSQQELAVKLNVVRQTISKWEQGLSVPDSEMLISISEVLETPVS 158


>gi|255100973|ref|ZP_05329950.1| putative regulatory protein [Clostridium difficile QCD-63q42]
          Length = 122

 Score = 37.4 bits (85), Expect = 0.75,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 31/52 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +GKRI++ R+   ++QE + + +G+T Q V   E G + V  + L  I+ +L
Sbjct: 8  IGKRIKIARIRTNLTQETVADKIGVTPQHVSNIETGNSSVSLTTLVAIANLL 59


>gi|83853906|gb|ABC47902.1| RstR-like protein [Vibrio phage CTX]
          Length = 114

 Score = 37.4 bits (85), Expect = 0.75,   Method: Compositional matrix adjust.
 Identities = 21/66 (31%), Positives = 36/66 (54%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I+  R+   + QE + + LGIT Q + K+EKG      S+L+ +SE+   P     D +
Sbjct: 5  KIKQCRIEKNLKQEDVAKALGITTQTLLKWEKGDYEPKVSQLKKLSEIYGVPTCELIDDN 64

Query: 78 PTVCSD 83
           +V S+
Sbjct: 65 ESVSSE 70


>gi|282599859|ref|ZP_05972144.2| MrfJ protein [Providencia rustigianii DSM 4541]
 gi|282567409|gb|EFB72944.1| MrfJ protein [Providencia rustigianii DSM 4541]
          Length = 106

 Score = 37.4 bits (85), Expect = 0.76,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 41/78 (52%), Gaps = 7/78 (8%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG RIR  R    MS ++L + LGI+ Q   ++E G  R+    +  ISE+LE  I+   
Sbjct: 9  VGARIRTLRKDRRMSIQQLSKKLGISQQHQSRHELGDMRIHVDTIYSISEILELDIN--- 65

Query: 75 DVSPTVCSDISSEENNVM 92
               + SD +S  +N++
Sbjct: 66 ----ELISDFTSSNSNII 79


>gi|302336146|ref|YP_003801353.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
 gi|301319986|gb|ADK68473.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
          Length = 324

 Score = 37.4 bits (85), Expect = 0.77,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 34/58 (58%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++  RI   R +LGM+Q  L + LG++ + V ++E+GV     + L+ ++  L+  +S
Sbjct: 5  SLSSRISSHRRVLGMTQAALAQMLGVSDKAVSRWERGVGFPDVTLLEPLATALQIDLS 62


>gi|160937081|ref|ZP_02084444.1| hypothetical protein CLOBOL_01970 [Clostridium bolteae ATCC
          BAA-613]
 gi|158439982|gb|EDP17730.1| hypothetical protein CLOBOL_01970 [Clostridium bolteae ATCC
          BAA-613]
          Length = 119

 Score = 37.4 bits (85), Expect = 0.77,   Method: Compositional matrix adjust.
 Identities = 19/53 (35%), Positives = 30/53 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +GKRI+++R+   M+QEKL E  G++   +   E G  +V    L  I+  LE
Sbjct: 8  IGKRIKIQRIQREMTQEKLAELTGLSNPHISNVETGSTQVSLKSLIAIANALE 60


>gi|331674164|ref|ZP_08374924.1| 26 kDa repressor protein (Regulatory protein CI) [Escherichia coli
           TA280]
 gi|331068258|gb|EGI39653.1| 26 kDa repressor protein (Regulatory protein CI) [Escherichia coli
           TA280]
          Length = 229

 Score = 37.4 bits (85), Expect = 0.78,   Method: Compositional matrix adjust.
 Identities = 30/103 (29%), Positives = 47/103 (45%), Gaps = 9/103 (8%)

Query: 27  GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISS 86
           G SQ +L   LG++ Q VQ +  G      +RL  +SE+   P S+F  +        SS
Sbjct: 19  GWSQAELARKLGVSAQSVQYWTTGKTFPRGNRLAQLSEISGYPQSWF--LGEITSRQFSS 76

Query: 87  EENNVMDFISTPDGLQLNRYFIQI---DDVKVRQKIIELVRSI 126
           +E +     +  D +  N   ++    D   VR   I++VRSI
Sbjct: 77  KEKHQ----TRTDSVVFNVLDVEFSCGDGTHVRGDFIDVVRSI 115


>gi|295090228|emb|CBK76335.1| Helix-turn-helix. [Clostridium cf. saccharolyticum K10]
          Length = 136

 Score = 37.4 bits (85), Expect = 0.78,   Method: Compositional matrix adjust.
 Identities = 17/73 (23%), Positives = 39/73 (53%), Gaps = 1/73 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +  G++++  R  LG++Q++L E +G+T + +  YE   +R  G  R + ++E L   ++
Sbjct: 1  MTFGEKVKAERTKLGLNQDELAEKIGVTRRVICSYENDKSRPRGTERYKKLAEALNVNVN 60

Query: 72 FFFDVSPTVCSDI 84
          +         +D+
Sbjct: 61 YLLSEDDAFIADV 73


>gi|315499237|ref|YP_004088041.1| transcriptional regulator, xre family [Asticcacaulis excentricus
          CB 48]
 gi|315417249|gb|ADU13890.1| transcriptional regulator, XRE family [Asticcacaulis excentricus
          CB 48]
          Length = 267

 Score = 37.4 bits (85), Expect = 0.78,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 36/62 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ IRL R    ++   +   +GIT  ++++ E G  +  AS L  +S +LE P+S 
Sbjct: 14 LSIGRNIRLFREQKRVTLSDMALGIGITSDRLKRIESGKLKPSASELLRVSRILERPVSD 73

Query: 73 FF 74
          FF
Sbjct: 74 FF 75


>gi|222106747|ref|YP_002547538.1| transcriptional regulator [Agrobacterium vitis S4]
 gi|221737926|gb|ACM38822.1| transcriptional regulator [Agrobacterium vitis S4]
          Length = 219

 Score = 37.4 bits (85), Expect = 0.78,   Method: Compositional matrix adjust.
 Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 9/97 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    G++   + K E G        LQ +S+ L  
Sbjct: 29  NNLEMAIGHEVRTFRKKLGITVADLATATGMSVGMLSKIENGNISASLGTLQSLSKALGV 88

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P++ FF            EE     F+   +G+ L R
Sbjct: 89  PMTAFFK---------GYEEPRSASFVKAGEGVHLER 116


>gi|212633871|ref|YP_002310396.1| transcriptional regulator [Shewanella piezotolerans WP3]
 gi|212555355|gb|ACJ27809.1| Transcriptional regulator, putative [Shewanella piezotolerans
          WP3]
          Length = 108

 Score = 37.4 bits (85), Expect = 0.78,   Method: Compositional matrix adjust.
 Identities = 21/70 (30%), Positives = 40/70 (57%), Gaps = 8/70 (11%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISE 64
          NP+ +    R++  R  LG+SQ++LG  LG+       ++  YEKG +    + L+ +++
Sbjct: 7  NPLPL----RLKQARTALGISQKQLGIQLGMEPGTASARMNHYEKGKHTPDYATLKAMAD 62

Query: 65 VLESPISFFF 74
           L  P+++FF
Sbjct: 63 ELGVPVAYFF 72


>gi|183600445|ref|ZP_02961938.1| hypothetical protein PROSTU_04021 [Providencia stuartii ATCC
          25827]
 gi|188019929|gb|EDU57969.1| hypothetical protein PROSTU_04021 [Providencia stuartii ATCC
          25827]
          Length = 91

 Score = 37.4 bits (85), Expect = 0.78,   Method: Compositional matrix adjust.
 Identities = 19/74 (25%), Positives = 40/74 (54%), Gaps = 3/74 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  RM  G+S  +L   + ++ QQ+ +YE+GVN++   +L  I   L+  +    
Sbjct: 13 LGHHLRQARMKRGLSGHELANIINLSQQQISRYERGVNKLSLDKLIEIIVFLDIDVK--- 69

Query: 75 DVSPTVCSDISSEE 88
          D+   + +++  E+
Sbjct: 70 DIVRIITTEVEHEK 83


>gi|306821038|ref|ZP_07454657.1| transcriptional regulator [Eubacterium yurii subsp. margaretiae
          ATCC 43715]
 gi|304550979|gb|EFM38951.1| transcriptional regulator [Eubacterium yurii subsp. margaretiae
          ATCC 43715]
          Length = 164

 Score = 37.0 bits (84), Expect = 0.79,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 33/77 (42%), Gaps = 4/77 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ IR  R   G SQEK     G+    V   E+G   +    L  I+  LE  +S  F
Sbjct: 6  VGQEIRKLRTSKGYSQEKFATVCGLDRTYVAAVERGKRNISIENLYKIANALEITLSELF 65

Query: 75 D----VSPTVCSDISSE 87
          D    +  T+  DI  E
Sbjct: 66 DFGNPIQKTILLDIKGE 82


>gi|29171585|ref|NP_808631.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
          tomato str. DC3000]
 gi|28856078|gb|AAO59134.1| transcriptional regulator, PbsX family [Pseudomonas syringae pv.
          tomato str. DC3000]
 gi|320326981|gb|EFW82998.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
          glycinea str. race 4]
 gi|330882666|gb|EGH16815.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
          glycinea str. race 4]
 gi|330945149|gb|EGH46863.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
          pisi str. 1704B]
          Length = 117

 Score = 37.0 bits (84), Expect = 0.79,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 32/64 (50%), Gaps = 8/64 (12%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R + GMSQ  L E +G     V  YE+G++  G  +L          IS  F
Sbjct: 8  VGAKIKALRKLSGMSQAALAEKIGCDAPLVGCYERGIHLPGVEQLIK--------ISMAF 59

Query: 75 DVSP 78
          DV+P
Sbjct: 60 DVAP 63


>gi|266625083|ref|ZP_06118018.1| putative transcriptional regulator [Clostridium hathewayi DSM
           13479]
 gi|288863021|gb|EFC95319.1| putative transcriptional regulator [Clostridium hathewayi DSM
           13479]
          Length = 151

 Score = 37.0 bits (84), Expect = 0.80,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 42/84 (50%), Gaps = 5/84 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  R+    +Q+K+ ECLGIT     K E+G + +   +L  ++E ++  +++  
Sbjct: 53  MGNRLRQIRLEKNWTQDKMAECLGITKAFYGKIERGESSIALEKLALLNETMDIDLNYLI 112

Query: 75  D-----VSPTVCSDISSEENNVMD 93
                 V P    D+  E+   M+
Sbjct: 113 TGETIPVLPINFQDVPREKRYSME 136


>gi|225575526|ref|ZP_03784136.1| hypothetical protein RUMHYD_03618 [Blautia hydrogenotrophica DSM
          10507]
 gi|225037276|gb|EEG47522.1| hypothetical protein RUMHYD_03618 [Blautia hydrogenotrophica DSM
          10507]
          Length = 124

 Score = 37.0 bits (84), Expect = 0.80,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 35/60 (58%), Gaps = 1/60 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  G+R++  R+  G+SQ +LGE + GIT Q + +YEK  N      ++ I++ L+ P  
Sbjct: 1  MTFGERVKELRLKKGLSQRELGERMGGITQQTIAQYEKSENYPKLETIRRIAKALDVPFD 60


>gi|323126423|gb|ADX23720.1| DNA-binding protein [Streptococcus dysgalactiae subsp.
          equisimilis ATCC 12394]
          Length = 110

 Score = 37.0 bits (84), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 3/79 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KRIR  R+  GM+QE+L E   +      K E     +  + L+ +   L+  I+ FF
Sbjct: 10 IAKRIRKIRLQRGMTQEQLEEKADLGVNYAYKLENLATNIKINTLEKVLNALDITITDFF 69

Query: 75 DVSPTVCSDISSEENNVMD 93
          D +P   S  SSE +N+++
Sbjct: 70 D-TPNFSS--SSEIDNLIE 85


>gi|291542798|emb|CBL15908.1| Helix-turn-helix [Ruminococcus bromii L2-63]
          Length = 117

 Score = 37.0 bits (84), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 30/52 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +GKRI++ R+   ++QEKL E +G++   +   E G  RV  + +  I+  L
Sbjct: 8  IGKRIKIARIKADLTQEKLSEMVGVSPTHMSNVETGTTRVSLTTIVGIANAL 59


>gi|227536492|ref|ZP_03966541.1| hypothetical protein HMPREF0765_0736 [Sphingobacterium spiritivorum
           ATCC 33300]
 gi|227243569|gb|EEI93584.1| hypothetical protein HMPREF0765_0736 [Sphingobacterium spiritivorum
           ATCC 33300]
          Length = 123

 Score = 37.0 bits (84), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 33/61 (54%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+R  R    ++ EKL E  GI ++Q+   E G    G S L  I++ L+  +SF  
Sbjct: 58  LGQRVRDLRSERKLTMEKLAELSGIDYRQLSYIELGQTDPGLSTLHAIAKGLDITLSFLM 117

Query: 75  D 75
           D
Sbjct: 118 D 118


>gi|225571231|ref|ZP_03780229.1| hypothetical protein CLOHYLEM_07320 [Clostridium hylemonae DSM
          15053]
 gi|225160062|gb|EEG72681.1| hypothetical protein CLOHYLEM_07320 [Clostridium hylemonae DSM
          15053]
          Length = 233

 Score = 37.0 bits (84), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 8/79 (10%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D NVGK I+  R+   ++ E+L + +  +   + KYEKG+  +  + L+ I++V    
Sbjct: 2  AIDENVGKNIKKYRLAYKLTLEELAKKIHKSKSTMSKYEKGLISLDVATLEEIADV---- 57

Query: 70 ISFFFDVSPTVCSDISSEE 88
              F +SP     +  EE
Sbjct: 58 ----FQISPAYLLAVQDEE 72


>gi|320539287|ref|ZP_08038957.1| hypothetical protein SSYM_1010 [Serratia symbiotica str. Tucson]
 gi|320030679|gb|EFW12688.1| hypothetical protein SSYM_1010 [Serratia symbiotica str. Tucson]
          Length = 91

 Score = 37.0 bits (84), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 21/84 (25%), Positives = 42/84 (50%), Gaps = 8/84 (9%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R++  R+  G+SQE+LG   GI       ++ +YE+G++         ++ VL  P  +
Sbjct: 4  HRLKAARLKAGLSQERLGILAGIDEATASARMNQYERGIHTPDFELASRLASVLHVPACY 63

Query: 73 FF----DVSPTVCSDISSEENNVM 92
          F+    D++ T+     S+E + +
Sbjct: 64 FYAVEDDLAETILGYSDSQEKSTL 87


>gi|315222273|ref|ZP_07864179.1| helix-turn-helix protein [Streptococcus anginosus F0211]
 gi|315188606|gb|EFU22315.1| helix-turn-helix protein [Streptococcus anginosus F0211]
          Length = 290

 Score = 37.0 bits (84), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 41/68 (60%), Gaps = 3/68 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESP 69
          + I +  R++ +R+ LG+SQ++L E  G+  Q Q+ + EKG    G+  L  +S+ +   
Sbjct: 1  MSILLATRLKSKRLELGLSQKELAE--GVCEQGQISRMEKGKYMPGSDLLYSLSKKMNVT 58

Query: 70 ISFFFDVS 77
          +++FFD S
Sbjct: 59 MNYFFDDS 66


>gi|331646783|ref|ZP_08347886.1| putative helix-turn-helix-containing protein [Escherichia coli
          M605]
 gi|331045535|gb|EGI17662.1| putative helix-turn-helix-containing protein [Escherichia coli
          M605]
          Length = 86

 Score = 37.0 bits (84), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 28/48 (58%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +RL R  L + Q  + + +G+T Q   K+E G N   AS ++ +SE+L
Sbjct: 6  LRLNREKLKLKQSDIADYVGVTTQTYMKWENGKNEPKASHIKKLSEIL 53


>gi|153813072|ref|ZP_01965740.1| hypothetical protein RUMOBE_03480 [Ruminococcus obeum ATCC 29174]
 gi|153814732|ref|ZP_01967400.1| hypothetical protein RUMTOR_00947 [Ruminococcus torques ATCC
          27756]
 gi|154502995|ref|ZP_02040055.1| hypothetical protein RUMGNA_00817 [Ruminococcus gnavus ATCC
          29149]
 gi|317501372|ref|ZP_07959574.1| xre family Toxin-antitoxin system [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|145847763|gb|EDK24681.1| hypothetical protein RUMTOR_00947 [Ruminococcus torques ATCC
          27756]
 gi|149830874|gb|EDM85964.1| hypothetical protein RUMOBE_03480 [Ruminococcus obeum ATCC 29174]
 gi|153796349|gb|EDN78769.1| hypothetical protein RUMGNA_00817 [Ruminococcus gnavus ATCC
          29149]
 gi|295107719|emb|CBL21672.1| Helix-turn-helix. [Ruminococcus obeum A2-162]
 gi|316897236|gb|EFV19305.1| xre family Toxin-antitoxin system [Lachnospiraceae bacterium
          8_1_57FAA]
          Length = 209

 Score = 37.0 bits (84), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR  L ++Q  + E +G+T   +Q+YE G ++      L+ +SE L   + + 
Sbjct: 10 IGSRAKQRRTELNLTQPYIAEKMGVTASTIQRYEAGTIDNTKKMVLEGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 RGETDEYETDIT 81


>gi|294664260|ref|ZP_06729632.1| transcriptional regulator [Xanthomonas fuscans subsp.
          aurantifolii str. ICPB 10535]
 gi|292605970|gb|EFF49249.1| transcriptional regulator [Xanthomonas fuscans subsp.
          aurantifolii str. ICPB 10535]
          Length = 113

 Score = 37.0 bits (84), Expect = 0.82,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 4/75 (5%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLESPIS 71
            R+R  R    ++QE LG   G+  +    ++ +YEKGVN       + +++ L  P++
Sbjct: 11 ANRLRHARQKAELTQEALGVAAGLAPEVARTRINRYEKGVNECDLRTAKRLADALGMPLA 70

Query: 72 FFFDVSPTVCSDISS 86
           FF  +  V   I +
Sbjct: 71 AFFAETDEVADAIQA 85


>gi|153815596|ref|ZP_01968264.1| hypothetical protein RUMTOR_01832 [Ruminococcus torques ATCC 27756]
 gi|317501623|ref|ZP_07959815.1| hypothetical protein HMPREF1026_01759 [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|331088574|ref|ZP_08337485.1| hypothetical protein HMPREF1025_01068 [Lachnospiraceae bacterium
           3_1_46FAA]
 gi|145847027|gb|EDK23945.1| hypothetical protein RUMTOR_01832 [Ruminococcus torques ATCC 27756]
 gi|295100105|emb|CBK89194.1| Predicted transcriptional regulator [Eubacterium cylindroides
           T2-87]
 gi|316896966|gb|EFV19045.1| hypothetical protein HMPREF1026_01759 [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|330407531|gb|EGG87031.1| hypothetical protein HMPREF1025_01068 [Lachnospiraceae bacterium
           3_1_46FAA]
          Length = 223

 Score = 37.0 bits (84), Expect = 0.82,   Method: Compositional matrix adjust.
 Identities = 28/101 (27%), Positives = 45/101 (44%), Gaps = 12/101 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI--------SEVL 66
           +G+ I++ R   GM Q++L   +GI  Q + K E+GVN      L+ I        +E+L
Sbjct: 11  LGENIQIIRKHRGMKQQELANKIGINMQSLSKIERGVNYPTFDTLEKIMDVLGVTPNELL 70

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
                +     P +   I  E+    DF  + D L  N +F
Sbjct: 71  SGEWKYIDHTEPYIMDVIKREQ----DFNVSLDYLSENEFF 107


>gi|75910930|ref|YP_325226.1| XRE family transcriptional regulator [Anabaena variabilis ATCC
          29413]
 gi|75704655|gb|ABA24331.1| transcriptional regulator, XRE family [Anabaena variabilis ATCC
          29413]
          Length = 82

 Score = 37.0 bits (84), Expect = 0.82,   Method: Compositional matrix adjust.
 Identities = 16/53 (30%), Positives = 32/53 (60%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G+ I+  R+++G++QE+    LG+TF  V ++E G  +     +Q I  +L+
Sbjct: 14 IGQFIQEIRLVMGLTQEEFAVILGVTFPTVNRWENGHTKPSKLAIQQIEALLD 66


>gi|24418792|sp|O59472|Y1808_PYRHO RecName: Full=Putative HTH-type transcriptional regulatory protein
           PH1808
          Length = 315

 Score = 37.0 bits (84), Expect = 0.82,   Method: Compositional matrix adjust.
 Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 2/80 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK+++  R   G S  +L   LGI+ + +Q+YEKG + V       + EV + P+    D
Sbjct: 128 GKKLKALREEHGYSITELAGILGISRKSLQRYEKGESVVSLEVALRLEEVFDEPLVKPID 187

Query: 76  VSPTVCSDI--SSEENNVMD 93
           V      D+  +SE +N+++
Sbjct: 188 VLRARLKDVTLTSEPDNILE 207


>gi|237807907|ref|YP_002892347.1| transcriptional regulator, XRE family [Tolumonas auensis DSM
          9187]
 gi|237500168|gb|ACQ92761.1| transcriptional regulator, XRE family [Tolumonas auensis DSM
          9187]
          Length = 89

 Score = 37.0 bits (84), Expect = 0.83,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 28/49 (57%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
            ++VG++IR  R  +G+S+ K  E LG+    ++ YE G   VG + L
Sbjct: 4  APVSVGQKIRHIRETMGLSRPKFAELLGVPPTTLKNYELGYREVGGAFL 52


>gi|328954840|ref|YP_004372173.1| XRE family transcriptional regulator [Coriobacterium glomerans
          PW2]
 gi|328455164|gb|AEB06358.1| transcriptional regulator, XRE family [Coriobacterium glomerans
          PW2]
          Length = 211

 Score = 37.0 bits (84), Expect = 0.83,   Method: Compositional matrix adjust.
 Identities = 16/54 (29%), Positives = 31/54 (57%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IRL R I+G++Q +L E +G+    V ++E G +      +Q +++ L  P++ 
Sbjct: 7  IRLIRKIIGLTQAQLAERIGVARTTVTQWENGTSNPPIKTIQRLAQTLGVPVTI 60


>gi|312967403|ref|ZP_07781618.1| helix-turn-helix family protein [Escherichia coli 2362-75]
 gi|312287600|gb|EFR15505.1| helix-turn-helix family protein [Escherichia coli 2362-75]
          Length = 255

 Score = 37.0 bits (84), Expect = 0.83,   Method: Compositional matrix adjust.
 Identities = 30/103 (29%), Positives = 47/103 (45%), Gaps = 9/103 (8%)

Query: 27  GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISS 86
           G SQ +L   LG++ Q VQ +  G      +RL  +SE+   P S+F  +        SS
Sbjct: 45  GWSQAELARKLGVSAQSVQYWTTGKTFPRGNRLAQLSEISGYPQSWF--LGEITSRQFSS 102

Query: 87  EENNVMDFISTPDGLQLNRYFIQI---DDVKVRQKIIELVRSI 126
           +E +     +  D +  N   ++    D   VR   I++VRSI
Sbjct: 103 KEKHQ----ARTDSVVFNVLDVEFSCGDGTHVRGDFIDVVRSI 141


>gi|223982789|ref|ZP_03633015.1| hypothetical protein HOLDEFILI_00289 [Holdemania filiformis DSM
          12042]
 gi|223965236|gb|EEF69522.1| hypothetical protein HOLDEFILI_00289 [Holdemania filiformis DSM
          12042]
          Length = 87

 Score = 37.0 bits (84), Expect = 0.83,   Method: Compositional matrix adjust.
 Identities = 17/59 (28%), Positives = 36/59 (61%), Gaps = 3/59 (5%)

Query: 12 DIN---VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          D+N   +G+RIR+ R    ++QE+L E +G++ Q +   E    ++G  +++ I++ L+
Sbjct: 3  DVNYVLLGRRIRILRKYRKLTQEQLAEVVGLSIQHLSNAENARTKLGFPKIKSIADTLD 61


>gi|293397473|ref|ZP_06641725.1| conserved hypothetical protein [Serratia odorifera DSM 4582]
 gi|291420052|gb|EFE93329.1| conserved hypothetical protein [Serratia odorifera DSM 4582]
          Length = 138

 Score = 37.0 bits (84), Expect = 0.84,   Method: Compositional matrix adjust.
 Identities = 21/76 (27%), Positives = 40/76 (52%), Gaps = 4/76 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLES 68
          I + KR++  R+  G +QE+L E +GI    +  ++  YE G      S +  I+ +L+ 
Sbjct: 18 IMIPKRLKYARISNGYTQEQLAELVGIQGANSSSRLSSYEVGRTEPPFSLVVKIANLLDY 77

Query: 69 PISFFFDVSPTVCSDI 84
          P  +F+ +   + SD+
Sbjct: 78 PEYYFYTIDDDLASDL 93


>gi|47093927|ref|ZP_00231665.1| DNA-binding protein [Listeria monocytogenes str. 4b H7858]
 gi|47017687|gb|EAL08482.1| DNA-binding protein [Listeria monocytogenes str. 4b H7858]
          Length = 194

 Score = 37.0 bits (84), Expect = 0.84,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 36/65 (55%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S  
Sbjct: 13 IDMEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTP 72

Query: 71 SFFFD 75
            FFD
Sbjct: 73 KDFFD 77


>gi|306824522|ref|ZP_07457868.1| hypothetical transcriptional regulator [Streptococcus sp. oral
          taxon 071 str. 73H25AP]
 gi|304433309|gb|EFM36279.1| hypothetical transcriptional regulator [Streptococcus sp. oral
          taxon 071 str. 73H25AP]
          Length = 228

 Score = 37.0 bits (84), Expect = 0.85,   Method: Compositional matrix adjust.
 Identities = 14/57 (24%), Positives = 34/57 (59%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  L ++Q+++ E LGI+FQ    +E+G+      ++  + ++L+    +F
Sbjct: 5  EKLKARRKELKLTQKEIAEELGISFQAYSAWERGIKEPSKEKVAQLEKILKVAKGYF 61


>gi|253991742|ref|YP_003043098.1| transcriptional regulator [Photorhabdus asymbiotica subsp.
           asymbiotica ATCC 43949]
 gi|211638517|emb|CAR67138.1| putative transcriptional regulator [Photorhabdus asymbiotica subsp.
           asymbiotica ATCC 43949]
 gi|253783192|emb|CAQ86357.1| putative transcriptional regulator [Photorhabdus asymbiotica]
          Length = 95

 Score = 37.0 bits (84), Expect = 0.85,   Method: Compositional matrix adjust.
 Identities = 23/94 (24%), Positives = 46/94 (48%), Gaps = 4/94 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVL 66
           V+  + KR++  R+   ++QEKLG   GI       +V +YE G ++     +   S+VL
Sbjct: 2   VNFMINKRLKAARLRANITQEKLGIAAGIDEKSARARVSQYENGTHQPTFEIMCAFSKVL 61

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
             P  +F+ V+  +   + S    ++++   P+ 
Sbjct: 62  NVPECYFYTVNDDLADIVLSIHQILVNYKHAPEN 95


>gi|160935696|ref|ZP_02083071.1| hypothetical protein CLOBOL_00586 [Clostridium bolteae ATCC
          BAA-613]
 gi|158441440|gb|EDP19150.1| hypothetical protein CLOBOL_00586 [Clostridium bolteae ATCC
          BAA-613]
          Length = 112

 Score = 37.0 bits (84), Expect = 0.85,   Method: Compositional matrix adjust.
 Identities = 17/82 (20%), Positives = 41/82 (50%), Gaps = 2/82 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +   ++++  R+ +G +Q+++ + LG+T      YE G  +   ++L+ ++ +L +  SF
Sbjct: 1  MGFSEQLKKARVSMGYTQQQVADALGLTASTYCGYETGKRQPDVAKLKQLARILNTTGSF 60

Query: 73 FFDVSP--TVCSDISSEENNVM 92
            +  P    C       N++M
Sbjct: 61 LLETEPVQNTCRPDPGSGNDLM 82


>gi|160946089|ref|ZP_02093303.1| hypothetical protein PEPMIC_00038 [Parvimonas micra ATCC 33270]
 gi|158447821|gb|EDP24816.1| hypothetical protein PEPMIC_00038 [Parvimonas micra ATCC 33270]
          Length = 207

 Score = 37.0 bits (84), Expect = 0.86,   Method: Compositional matrix adjust.
 Identities = 18/71 (25%), Positives = 36/71 (50%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
          M+Q +L + LG+    V  +E+  N      +  ++E+ + P+S+FFD    +  +  + 
Sbjct: 1  MTQAQLAKKLGVAPTTVSSWERNDNNPLMDNITLMAEIFDVPVSYFFDKKDGIIVNEPAI 60

Query: 88 ENNVMDFISTP 98
          E +V   + TP
Sbjct: 61 EYSVSPVLKTP 71


>gi|332798059|ref|YP_004459558.1| Cupin 2 barrel domain-containing protein [Tepidanaerobacter sp.
          Re1]
 gi|332695794|gb|AEE90251.1| Cupin 2 conserved barrel domain protein [Tepidanaerobacter sp.
          Re1]
          Length = 190

 Score = 37.0 bits (84), Expect = 0.87,   Method: Compositional matrix adjust.
 Identities = 16/63 (25%), Positives = 38/63 (60%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G +IR  R   G++ ++LG+   ++   + + E+G + V  + L+ I+  LE+ +++F
Sbjct: 8  DIGNKIRELRNNKGLTLKELGKKTDLSISFLSQVERGTSAVSITALEKIAHALETELAYF 67

Query: 74 FDV 76
          F +
Sbjct: 68 FTL 70


>gi|237748892|ref|ZP_04579372.1| transcriptional regulator [Oxalobacter formigenes OXCC13]
 gi|229380254|gb|EEO30345.1| transcriptional regulator [Oxalobacter formigenes OXCC13]
          Length = 110

 Score = 37.0 bits (84), Expect = 0.87,   Method: Compositional matrix adjust.
 Identities = 22/90 (24%), Positives = 47/90 (52%), Gaps = 11/90 (12%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +R++  R+  G+SQ++LG   GI       ++ +YEKGV++   +    ++ VL  P+++
Sbjct: 14  RRLKDARIKAGLSQKRLGIEAGIDEFVASTRINRYEKGVHQADEATAILLAHVLGVPLAY 73

Query: 73  FFDVSPTV-------CSDISSEENNVMDFI 95
           F+    ++       C    ++ N V+D +
Sbjct: 74  FYAEDDSLAEMILGFCQLNRADRNEVLDLV 103


>gi|149925664|ref|ZP_01913928.1| transcriptional regulator, XRE family protein [Limnobacter sp.
          MED105]
 gi|149825781|gb|EDM84989.1| transcriptional regulator, XRE family protein [Limnobacter sp.
          MED105]
          Length = 93

 Score = 37.0 bits (84), Expect = 0.87,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 2/60 (3%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR RR  LG++Q++LGE LGI  + V   EK    +  +RL  + + L+  +S +    P
Sbjct: 15 IRTRRRELGLTQKQLGERLGIDQRTVSSLEKNPGSISVNRLFAVLDALQ--VSLYSSTDP 72


>gi|92118817|ref|YP_578546.1| hypothetical protein Nham_3355 [Nitrobacter hamburgensis X14]
 gi|91801711|gb|ABE64086.1| protein of unknown function DUF955 [Nitrobacter hamburgensis X14]
          Length = 354

 Score = 37.0 bits (84), Expect = 0.87,   Method: Compositional matrix adjust.
 Identities = 17/62 (27%), Positives = 30/62 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+ L RM    +   L E  G+    + + E G N    + ++ +S+ L  P++FF D 
Sbjct: 5  RRLSLARMRRRKTARALAEETGLAADTISRLEAGSNAPDETTIEKLSKALGFPVAFFMDA 64

Query: 77 SP 78
           P
Sbjct: 65 DP 66


>gi|148993187|ref|ZP_01822753.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP9-BS68]
 gi|147928161|gb|EDK79179.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP9-BS68]
 gi|332072036|gb|EGI82523.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA17570]
          Length = 215

 Score = 37.0 bits (84), Expect = 0.88,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|148258862|ref|YP_001243447.1| putative transcriptional regulator [Bradyrhizobium sp. BTAi1]
 gi|146411035|gb|ABQ39541.1| putative transcriptional regulator [Bradyrhizobium sp. BTAi1]
          Length = 112

 Score = 37.0 bits (84), Expect = 0.88,   Method: Compositional matrix adjust.
 Identities = 15/66 (22%), Positives = 34/66 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + +R++  R + G+SQ  + + LG+    + + E G  RV A  L  ++E  +  +++
Sbjct: 1  MQIAERLKEARKLAGLSQSHVAKMLGLHRPSISEMEAGNRRVSADELARLAETYDVSVAW 60

Query: 73 FFDVSP 78
              +P
Sbjct: 61 LLGEAP 66


>gi|14591561|ref|NP_143643.1| hypothetical protein PH1808 [Pyrococcus horikoshii OT3]
 gi|3258244|dbj|BAA30927.1| 380aa long hypothetical protein [Pyrococcus horikoshii OT3]
          Length = 380

 Score = 37.0 bits (84), Expect = 0.88,   Method: Compositional matrix adjust.
 Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 2/80 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK+++  R   G S  +L   LGI+ + +Q+YEKG + V       + EV + P+    D
Sbjct: 193 GKKLKALREEHGYSITELAGILGISRKSLQRYEKGESVVSLEVALRLEEVFDEPLVKPID 252

Query: 76  VSPTVCSDI--SSEENNVMD 93
           V      D+  +SE +N+++
Sbjct: 253 VLRARLKDVTLTSEPDNILE 272


>gi|256389247|ref|YP_003110811.1| XRE family transcriptional regulator [Catenulispora acidiphila DSM
           44928]
 gi|256355473|gb|ACU68970.1| transcriptional regulator, XRE family [Catenulispora acidiphila DSM
           44928]
          Length = 220

 Score = 37.0 bits (84), Expect = 0.89,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +R RR+ LGM+Q +LGE +G++   +Q++E  + RV    + H+  V    + +  D  P
Sbjct: 105 LRNRRLALGMAQGELGELVGVSRDSIQRWE--LVRVPPRPIAHV--VWAQKLGYSLDTRP 160

Query: 79  TV 80
             
Sbjct: 161 VA 162


>gi|85059869|ref|YP_455571.1| hypothetical protein SG1891 [Sodalis glossinidius str.
          'morsitans']
 gi|84780389|dbj|BAE75166.1| hypothetical phage protein [Sodalis glossinidius str.
          'morsitans']
          Length = 97

 Score = 37.0 bits (84), Expect = 0.89,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 24/40 (60%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA 56
          K++++ R   GM+Q +  E LGI    ++ YE GV  VGA
Sbjct: 5  KKLKVIRQAEGMTQSEFAEALGIGLGTIKNYESGVKGVGA 44


>gi|255280904|ref|ZP_05345459.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
 gi|255268352|gb|EET61557.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
          Length = 169

 Score = 37.0 bits (84), Expect = 0.91,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 30/45 (66%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQ++L   L +  Q V K+E+G++   +  L  +SEVLE+P+S
Sbjct: 14 GLSQQELAVRLNVVRQTVSKWEQGLSVPDSDVLISLSEVLETPVS 58


>gi|91783413|ref|YP_558619.1| XRE family transcriptional regulator [Burkholderia xenovorans
           LB400]
 gi|91687367|gb|ABE30567.1| Predicted transcriptional regulator, XRE family [Burkholderia
           xenovorans LB400]
          Length = 152

 Score = 37.0 bits (84), Expect = 0.91,   Method: Compositional matrix adjust.
 Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 1/86 (1%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G  I  RR  LGM+QE+L E + I    + + E+G       RL  I+E LE  ++  
Sbjct: 32  SIGAAIAARRKALGMTQERLSELIQIEQSSLSRIERGTLIPSLERLASIAEELECGLADL 91

Query: 74  FDVSPTVCSDISSEENNVMDFISTPD 99
           F V      D ++  +  +  + TP 
Sbjct: 92  FYVGGVNSHDRAARVHEKLSHL-TPS 116


>gi|83310829|ref|YP_421093.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82945670|dbj|BAE50534.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 164

 Score = 37.0 bits (84), Expect = 0.91,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 35/61 (57%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++R  R+   ++QE+L E +  T + +   E+G        L  I++ L++P++FFF
Sbjct: 52  IGLKVRAARLKRSLTQEQLAERVDKTAESISNIERGHVTPPLDTLARIAQELDTPMTFFF 111

Query: 75  D 75
           +
Sbjct: 112 E 112


>gi|116751481|ref|YP_848168.1| XRE family transcriptional regulator [Syntrophobacter fumaroxidans
           MPOB]
 gi|116700545|gb|ABK19733.1| transcriptional regulator, XRE family [Syntrophobacter fumaroxidans
           MPOB]
          Length = 432

 Score = 37.0 bits (84), Expect = 0.91,   Method: Compositional matrix adjust.
 Identities = 32/113 (28%), Positives = 54/113 (47%), Gaps = 3/113 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G R++  R   G+SQ +L + +G+T   + + E  +       L  ++EVL   IS 
Sbjct: 251 IDLGLRLKELRTKRGISQTELAKSVGVTPSTISQVESNLIYPSLPALMKMAEVLSVDISS 310

Query: 73  FFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID-DVKVRQKIIEL 122
           FF   ++       S+ E+  + F   P+G    R    ID D KV   +IE+
Sbjct: 311 FFQERLAGKKKFVFSAMESLQVKFADFPEGSIYARALTPIDSDFKVEPYLIEI 363


>gi|307330591|ref|ZP_07609731.1| transcriptional regulator, XRE family [Streptomyces violaceusniger
           Tu 4113]
 gi|306883747|gb|EFN14793.1| transcriptional regulator, XRE family [Streptomyces violaceusniger
           Tu 4113]
          Length = 402

 Score = 37.0 bits (84), Expect = 0.92,   Method: Compositional matrix adjust.
 Identities = 29/106 (27%), Positives = 47/106 (44%), Gaps = 5/106 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P   D ++G RIR  R I   S  +LG    ++  Q+ + E G     AS L  ++  L
Sbjct: 5   MPETSDQHIGARIRELRAIRDFSLAELGRRAHVSTSQLSRVENGEQPASASVLSAVARAL 64

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
              IS      P     I   + + +D + +P G  L  + I++DD
Sbjct: 65  AVDISVLHG-QPY----IKILQKDQLDAMVSPIGSALEAWDIELDD 105


>gi|212712199|ref|ZP_03320327.1| hypothetical protein PROVALCAL_03284 [Providencia alcalifaciens
          DSM 30120]
 gi|212684945|gb|EEB44473.1| hypothetical protein PROVALCAL_03284 [Providencia alcalifaciens
          DSM 30120]
          Length = 99

 Score = 37.0 bits (84), Expect = 0.92,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 37/65 (56%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   VG++I+  R   G +  +L + + I+ QQ+ +YE+GVNR+    L  + +VL   
Sbjct: 8  PVACAVGQKIKSLRKAQGYTVFQLAKEIDISEQQLFRYERGVNRIDIDCLVRVLKVLGVN 67

Query: 70 ISFFF 74
          +  FF
Sbjct: 68 MGEFF 72


>gi|315266122|gb|ADT92975.1| putative phage repressor [Shewanella baltica OS678]
          Length = 240

 Score = 37.0 bits (84), Expect = 0.93,   Method: Compositional matrix adjust.
 Identities = 20/81 (24%), Positives = 42/81 (51%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+RIR +R  LG++Q+ LG  +G++   V ++EK       + L  +++ L+  +S+ 
Sbjct: 12 TLGQRIREKRKELGITQKALGALVGVSAVAVTQWEKDETAPKGANLFALAKSLKCDLSWL 71

Query: 74 FDVSPTVCSDISSEENNVMDF 94
           +    V  + ++E     D 
Sbjct: 72 LNGQVAVKPESNAEWAGGFDL 92


>gi|302875300|ref|YP_003843933.1| helix-turn-helix domain-containing protein [Clostridium
          cellulovorans 743B]
 gi|307688151|ref|ZP_07630597.1| helix-turn-helix domain-containing protein [Clostridium
          cellulovorans 743B]
 gi|302578157|gb|ADL52169.1| helix-turn-helix domain protein [Clostridium cellulovorans 743B]
          Length = 119

 Score = 37.0 bits (84), Expect = 0.93,   Method: Compositional matrix adjust.
 Identities = 17/57 (29%), Positives = 35/57 (61%), Gaps = 1/57 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          RI+ RR+ LG+S + + +  GI+    Q+YE G +  +G  +L  ++++L++  S+ 
Sbjct: 12 RIKNRRIELGLSYQDMQDATGISKSTWQRYETGFIKNLGIDKLDIVAKILQTTPSYL 68


>gi|294813464|ref|ZP_06772107.1| Transcriptional regulator, XRE family [Streptomyces clavuligerus
           ATCC 27064]
 gi|294326063|gb|EFG07706.1| Transcriptional regulator, XRE family [Streptomyces clavuligerus
           ATCC 27064]
          Length = 457

 Score = 37.0 bits (84), Expect = 0.94,   Method: Composition-based stats.
 Identities = 22/64 (34%), Positives = 30/64 (46%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I+  R   G+SQE+L E  G++   VQK E+G   V    L  I+  L    S  F
Sbjct: 42  IGDNIKRYRRAEGLSQEELAEKAGLSVSTVQKAEQGRGAVRTQTLHTIARGLGVTTSALF 101

Query: 75  DVSP 78
              P
Sbjct: 102 VAGP 105


>gi|255282221|ref|ZP_05346776.1| LexA repressor [Bryantella formatexigens DSM 14469]
 gi|255267169|gb|EET60374.1| LexA repressor [Bryantella formatexigens DSM 14469]
          Length = 206

 Score = 37.0 bits (84), Expect = 0.94,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 1/66 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RIR +R  +GM+QE+L   LG   +  + K E G N +  S++   ++ L + +S+ 
Sbjct: 4  IGIRIREQREAIGMTQEELASKLGYKNKSSIAKIETGANDIVQSKVIEFADALNTTVSYL 63

Query: 74 FDVSPT 79
               T
Sbjct: 64 MGWEKT 69


>gi|86137308|ref|ZP_01055885.1| transcriptional regulator, putative [Roseobacter sp. MED193]
 gi|85825643|gb|EAQ45841.1| transcriptional regulator, putative [Roseobacter sp. MED193]
          Length = 432

 Score = 37.0 bits (84), Expect = 0.94,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 29/55 (52%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D   G RIR RR+ILG+ Q +L    GI+   +   E    R+G   L  +++VL
Sbjct: 4  DTLTGSRIRERRLILGIRQAELARKAGISASYLNLIEHNRRRIGGKLLVALAQVL 58


>gi|325662288|ref|ZP_08150903.1| hypothetical protein HMPREF0490_01641 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|331086094|ref|ZP_08335177.1| hypothetical protein HMPREF0987_01480 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|325471540|gb|EGC74761.1| hypothetical protein HMPREF0490_01641 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|330407017|gb|EGG86522.1| hypothetical protein HMPREF0987_01480 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 192

 Score = 37.0 bits (84), Expect = 0.95,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 36/63 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R     + + L E  G++   + ++E+G+  +    L+ I++VLE  +S FF
Sbjct: 7  IGFRIKELRTEKKYTLKYLSEQTGLSIGFLSQFERGLTSIAIDSLEKIAQVLEVELSSFF 66

Query: 75 DVS 77
          D+S
Sbjct: 67 DLS 69


>gi|257468157|ref|ZP_05632253.1| SOS-response transcriptional repressor [Fusobacterium ulcerans
          ATCC 49185]
 gi|317062443|ref|ZP_07926928.1| predicted protein [Fusobacterium ulcerans ATCC 49185]
 gi|313688119|gb|EFS24954.1| predicted protein [Fusobacterium ulcerans ATCC 49185]
          Length = 205

 Score = 37.0 bits (84), Expect = 0.95,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 33/61 (54%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G++I L R    M+Q++L E L I+ Q +  YE     +    L +I+++   PI  F
Sbjct: 3  NLGQKIMLLRKKENMTQDELAEKLNISKQSILNYETEKRLIPIDVLSNIAKLFNFPIENF 62

Query: 74 F 74
          F
Sbjct: 63 F 63


>gi|322375904|ref|ZP_08050415.1| putative repressor protein [Streptococcus sp. C300]
 gi|321279172|gb|EFX56214.1| putative repressor protein [Streptococcus sp. C300]
          Length = 228

 Score = 37.0 bits (84), Expect = 0.98,   Method: Compositional matrix adjust.
 Identities = 14/57 (24%), Positives = 33/57 (57%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  L ++Q+++ E LGI+FQ    +E+G+      ++  +  +L+    +F
Sbjct: 5  EKLKARRKELKLTQKEIAEQLGISFQAYSAWERGIKEPSKEKVAQLENILKVAKGYF 61


>gi|312126619|ref|YP_003991493.1| XRE family transcriptional regulator [Caldicellulosiruptor
          hydrothermalis 108]
 gi|311776638|gb|ADQ06124.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          hydrothermalis 108]
          Length = 118

 Score = 37.0 bits (84), Expect = 0.98,   Method: Compositional matrix adjust.
 Identities = 16/60 (26%), Positives = 33/60 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+++R  R   G +QE++ + LGIT +Q+  YE G   +  + LQ ++ +     ++  
Sbjct: 9  IGEKLRELRKQRGFTQEQVAKYLGITQEQLSYYETGAREISVATLQALARLYGCDYNYLL 68


>gi|312864338|ref|ZP_07724571.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
 gi|311100059|gb|EFQ58270.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
          Length = 291

 Score = 37.0 bits (84), Expect = 0.98,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 31/55 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          + + + +R  R  LG SQEKL E L ++ Q + K+E G      S LQ I+++ +
Sbjct: 1  MTLDQTLRHYRKELGFSQEKLAEKLHVSRQAITKWETGGGLPDISNLQAIAQLFQ 55


>gi|167755999|ref|ZP_02428126.1| hypothetical protein CLORAM_01519 [Clostridium ramosum DSM 1402]
 gi|167703991|gb|EDS18570.1| hypothetical protein CLORAM_01519 [Clostridium ramosum DSM 1402]
          Length = 384

 Score = 37.0 bits (84), Expect = 0.98,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 33/55 (60%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +++GKRI+  R   G+SQE+L   L I+ Q + K+E  +N     ++  +++ LE
Sbjct: 1  MSLGKRIQSYRKQKGLSQEQLASRLNISRQALSKWESDINVPNIDKIMDVAKALE 55


>gi|29028568|ref|NP_803258.1| cI-like repressor [Staphylococcus phage 11]
 gi|57651248|ref|YP_185213.1| prophage L54a, repressor protein, putative [Staphylococcus aureus
          subsp. aureus COL]
 gi|66395526|ref|YP_239894.1| ORF018 [Staphylococcus phage 42E]
 gi|88195767|ref|YP_500576.1| phage repressor protein [Staphylococcus aureus subsp. aureus NCTC
          8325]
 gi|18920492|gb|AAL82233.1| cI-like repressor [Staphylococcus phage 11]
 gi|57285434|gb|AAW37528.1| prophage L54a, repressor protein, putative [Staphylococcus aureus
          subsp. aureus COL]
 gi|62636019|gb|AAX91130.1| ORF018 [Staphylococcus phage 42E]
 gi|87203325|gb|ABD31135.1| phage repressor protein, putative [Staphylococcus aureus subsp.
          aureus NCTC 8325]
 gi|315193399|gb|EFU23796.1| phage repressor protein, putative [Staphylococcus aureus subsp.
          aureus CGS00]
          Length = 239

 Score = 37.0 bits (84), Expect = 0.98,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 32/72 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R  L ++Q++LGE L      +  YE G        L  I+ +L   I   F
Sbjct: 10 IGNKIRYYRTKLNLTQDQLGEKLNTKKATISNYETGYRTPKQDDLFEIAHILNISIDDLF 69

Query: 75 DVSPTVCSDISS 86
                 +DI+S
Sbjct: 70 PTRNNKKNDITS 81


>gi|260161306|emb|CAZ39274.1| hypothetical protein [Streptococcus suis]
 gi|260161745|emb|CAZ39290.1| hypothetical protein [Streptococcus suis]
          Length = 136

 Score = 37.0 bits (84), Expect = 0.99,   Method: Compositional matrix adjust.
 Identities = 18/73 (24%), Positives = 38/73 (52%), Gaps = 1/73 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +  G++++  R  LGMSQ++L   +G+T + +  YE   +R  G  R + ++E L   ++
Sbjct: 1  MTFGEKVKAERTKLGMSQDELAAKIGVTRRIIGSYENDKSRPRGMERYKKLAESLNVNVN 60

Query: 72 FFFDVSPTVCSDI 84
          +         +D+
Sbjct: 61 YLLSEDDAFIADV 73


>gi|291521395|emb|CBK79688.1| Predicted transcriptional regulators [Coprococcus catus GD/7]
          Length = 45

 Score = 37.0 bits (84), Expect = 1.0,   Method: Composition-based stats.
 Identities = 16/40 (40%), Positives = 28/40 (70%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN 52
          + +GK I  +R  LGM+Q ++ E LG++ + V K+E+GV+
Sbjct: 4  VKIGKYIAGKRKALGMTQAQVAEKLGMSNKSVSKWERGVS 43


>gi|326204877|ref|ZP_08194730.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
          2782]
 gi|325984926|gb|EGD45769.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
          2782]
          Length = 108

 Score = 37.0 bits (84), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 17/64 (26%), Positives = 35/64 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRIR  R  +G+++E+  E L ++   V + E+G  ++    + +IS+ L   + +  
Sbjct: 6  IGKRIRDERESIGLTRERFAELLELSINFVGQIERGEKKMSLETITNISDCLHVSLDYLI 65

Query: 75 DVSP 78
            +P
Sbjct: 66 KGTP 69


>gi|293115567|ref|ZP_05792094.2| putative helix-turn-helix protein [Butyrivibrio crossotus DSM 2876]
 gi|292809300|gb|EFF68505.1| putative helix-turn-helix protein [Butyrivibrio crossotus DSM 2876]
          Length = 120

 Score = 37.0 bits (84), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 20/97 (20%), Positives = 48/97 (49%), Gaps = 6/97 (6%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            +I +GKR+R  R+ + + + ++ + LG+T +  +K E G+  +       + +VL    
Sbjct: 18  ANIQIGKRLREARLNMNLEKSEIADVLGVTVEHYRKLEAGITGIS------VDKVLTLYH 71

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
            +  D +  +  + S ++ N+  +++     Q N +F
Sbjct: 72  KYGIDPTYLITGESSMKDFNLDYYVANSTKEQRNEFF 108


>gi|282909328|ref|ZP_06317144.1| repressor [Staphylococcus aureus subsp. aureus WW2703/97]
 gi|283958772|ref|ZP_06376218.1| putative prophage L54a, repressor protein [Staphylococcus aureus
          subsp. aureus A017934/97]
 gi|282326896|gb|EFB57193.1| repressor [Staphylococcus aureus subsp. aureus WW2703/97]
 gi|283789812|gb|EFC28634.1| putative prophage L54a, repressor protein [Staphylococcus aureus
          subsp. aureus A017934/97]
          Length = 239

 Score = 37.0 bits (84), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 32/72 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R  L ++Q++LGE L      +  YE G        L  I+ +L   I   F
Sbjct: 10 IGNKIRYYRTKLNLTQDQLGEKLNTKKATISNYETGYRTPKQDDLFEIAHILNISIDDLF 69

Query: 75 DVSPTVCSDISS 86
                 +DI+S
Sbjct: 70 PTRNNKKNDITS 81


>gi|117922291|ref|YP_871483.1| XRE family transcriptional regulator [Shewanella sp. ANA-3]
 gi|117614623|gb|ABK50077.1| transcriptional regulator, XRE family [Shewanella sp. ANA-3]
          Length = 103

 Score = 37.0 bits (84), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 23/73 (31%), Positives = 41/73 (56%), Gaps = 8/73 (10%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQH 61
          KI NP+ +    R++  R   G+SQ++LG  LG+       ++ +YEKG +      L+ 
Sbjct: 4  KIINPLPL----RLKQARTAKGISQKQLGIQLGMEVGTASARMNQYEKGKHTPDYQTLKA 59

Query: 62 ISEVLESPISFFF 74
          I++ L  P+++FF
Sbjct: 60 IADELGVPVAYFF 72


>gi|225870539|ref|YP_002746486.1| phage repressor-like protein [Streptococcus equi subsp. equi
          4047]
 gi|225699943|emb|CAW93888.1| putative phage repressor-like protein [Streptococcus equi subsp.
          equi 4047]
          Length = 232

 Score = 36.6 bits (83), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 15/59 (25%), Positives = 31/59 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G +++  R+   +SQE+LG+ LG+    +  +EK  NR      + +  + + P  +F+
Sbjct: 6  GIQLKTARLSRHISQEQLGQLLGVNKMTISNWEKEKNRPNQKHFEELVSIFQLPAEYFY 64


>gi|160937793|ref|ZP_02085152.1| hypothetical protein CLOBOL_02685 [Clostridium bolteae ATCC
          BAA-613]
 gi|158439232|gb|EDP16985.1| hypothetical protein CLOBOL_02685 [Clostridium bolteae ATCC
          BAA-613]
          Length = 199

 Score = 36.6 bits (83), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 34/63 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + + I+ RR  + MSQE + + LGI+ Q V K+E G +   +  L  ++ + E  IS 
Sbjct: 1  MALSENIKARRTQIKMSQEYVADQLGISRQAVAKWEAGTSEPTSKNLSELASLFEMSISE 60

Query: 73 FFD 75
            D
Sbjct: 61 LVD 63


>gi|261369061|ref|ZP_05981944.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
 gi|282568797|gb|EFB74332.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
          Length = 90

 Score = 36.6 bits (83), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 17/62 (27%), Positives = 31/62 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VGKR++  R  +G SQ K+ + LG T   + +YE G +       +  ++  +  + +
Sbjct: 2  IEVGKRLKALRESIGFSQVKMAQALGTTQSSINRYENGQSSPSVELFRRYADYFDVSLDY 61

Query: 73 FF 74
           F
Sbjct: 62 IF 63


>gi|260868456|ref|YP_003234858.1| putative phage repressor protein CI [Escherichia coli O111:H- str.
           11128]
 gi|257764812|dbj|BAI36307.1| putative phage repressor protein CI [Escherichia coli O111:H- str.
           11128]
          Length = 229

 Score = 36.6 bits (83), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 32/114 (28%), Positives = 53/114 (46%), Gaps = 13/114 (11%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
           RI +     G SQ +L   LG++ Q VQ +  G     + +L  +S +   P S+F   D
Sbjct: 10  RIAMMLKTKGWSQAELARKLGVSAQSVQYWTTGKTFPRSDKLAQLSVISGYPQSWFLGED 69

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI---DDVKVRQKIIELVRSI 126
            S T     S+E+++  +     D +  N   ++    D   VR  +I++VRSI
Sbjct: 70  ASSTFS---SAEKHHTRE-----DSVVFNVLDVEFSCGDGTHVRGDLIDVVRSI 115


>gi|268318350|ref|YP_003292068.1| helix-turn-helix domain protein [Rhodothermus marinus DSM 4252]
 gi|262335884|gb|ACY49680.1| helix-turn-helix domain protein [Rhodothermus marinus DSM 4252]
          Length = 347

 Score = 36.6 bits (83), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 35/62 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G RI+  R+  G+S  KL + +G++   + KYEKGV    +  L  ++  L+   SF
Sbjct: 1  MSIGARIKQARIRQGLSLRKLAKEVGVSQTAISKYEKGVITPDSQMLIRLARALDVKPSF 60

Query: 73 FF 74
          F 
Sbjct: 61 FL 62


>gi|268590841|ref|ZP_06125062.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291313624|gb|EFE54077.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 97

 Score = 36.6 bits (83), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 33/57 (57%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          V + +G  ++ RR ++G++  +L   L I+ QQV +YE+G N +    L  I + LE
Sbjct: 12 VTVYIGSFLKHRRKVVGLTGSQLASRLKISQQQVSRYERGKNAITIQGLLDILQALE 68


>gi|210634420|ref|ZP_03298108.1| hypothetical protein COLSTE_02030 [Collinsella stercoris DSM
          13279]
 gi|210158823|gb|EEA89794.1| hypothetical protein COLSTE_02030 [Collinsella stercoris DSM
          13279]
          Length = 351

 Score = 36.6 bits (83), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 17/66 (25%), Positives = 37/66 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ + IR RR  LGM+QE++ + LG++   V K+E+G+     + +  ++ + E+  + 
Sbjct: 1  MHISEIIRSRRRELGMTQEQVAQRLGVSAPAVNKWERGICYPDITLIPSLARLFETDANT 60

Query: 73 FFDVSP 78
               P
Sbjct: 61 LLSFEP 66


>gi|146281019|ref|YP_001171172.1| XRE family transcriptional regulator [Pseudomonas stutzeri A1501]
 gi|145569224|gb|ABP78330.1| putative transcriptional regulator, XRE family [Pseudomonas
          stutzeri A1501]
          Length = 89

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 21/70 (30%), Positives = 35/70 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +G+++R RR+  G++Q  L +  GIT Q+V   EKG   VG +    +   L+   
Sbjct: 12 ITTRLGEQLRQRRLNRGLTQATLADLAGITRQKVIAIEKGDLSVGMAAYARVLGALDCEF 71

Query: 71 SFFFDVSPTV 80
          S      PT+
Sbjct: 72 SVVPSAMPTL 81


>gi|325264127|ref|ZP_08130859.1| putative helix-turn-helix protein [Clostridium sp. D5]
 gi|324030611|gb|EGB91894.1| putative helix-turn-helix protein [Clostridium sp. D5]
          Length = 201

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 24/81 (29%), Positives = 41/81 (50%), Gaps = 1/81 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + + I+ RR  L MSQE + + LGI+ Q V K+E G +   +  L  ++ + E  IS 
Sbjct: 1  MALSENIKARRTQLKMSQEYVADQLGISRQAVAKWEAGTSEPTSKNLSELAFLFEISISE 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
            D   T   + +++E    D
Sbjct: 61 LVD-PQTYAEEQAAQEQKFRD 80


>gi|293402557|ref|ZP_06646692.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291304071|gb|EFE45325.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 173

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 28/45 (62%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE+L   L +  Q + K+E G++   +  L  ISE+ E+P+S
Sbjct: 14 GLSQEELAIKLNVVRQTISKWENGLSVPDSDMLISISEIFETPVS 58


>gi|187921133|ref|YP_001890165.1| XRE family transcriptional regulator [Burkholderia phytofirmans
          PsJN]
 gi|187719571|gb|ACD20794.1| transcriptional regulator, XRE family [Burkholderia phytofirmans
          PsJN]
          Length = 107

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 37/63 (58%), Gaps = 4/63 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G R++  R+  G+SQ++LG   G    +   ++ +YE GV++V  +    ++ VL+ P++
Sbjct: 10 GTRLKEARLEAGLSQKRLGIEAGLDPFVASTRINRYELGVHKVDHTFASRLATVLKVPVA 69

Query: 72 FFF 74
          F +
Sbjct: 70 FLY 72


>gi|291526890|emb|CBK92476.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
          Length = 97

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 18/70 (25%), Positives = 38/70 (54%), Gaps = 3/70 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE---SPIS 71
          +G RI+  R+   ++QE++ + +G++ Q+  + E G N +    L  ++E+L+     I+
Sbjct: 5  LGSRIKALRIAKNLTQEQVADQIGVSRQKYARVESGTNSITLDILSKVAEILDVTVGDIT 64

Query: 72 FFFDVSPTVC 81
             D +P V 
Sbjct: 65 RVLDETPVVA 74


>gi|251789127|ref|YP_003003848.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247537748|gb|ACT06369.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 95

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 21/66 (31%), Positives = 37/66 (56%), Gaps = 4/66 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR+RL R+  G+ Q +LG   G+       +V +YE+ V+    S +   + VL+ P 
Sbjct: 2  IGKRLRLARVNAGLKQVELGCLAGLDEETASSRVSQYEREVSSPDFSLVCRFAAVLDVPE 61

Query: 71 SFFFDV 76
          ++F+ V
Sbjct: 62 AYFYAV 67


>gi|291286694|ref|YP_003503510.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
           DSM 12809]
 gi|290883854|gb|ADD67554.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
           DSM 12809]
          Length = 105

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 25/98 (25%), Positives = 48/98 (48%), Gaps = 2/98 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+RIR  R     SQE L E   I+ + + + E+G + V A+ L  I+  L  PI+ 
Sbjct: 6   VKLGRRIREVRRSKNFSQETLAEKANISSKYLGEVERGESNVSAALLNDIASALNIPIAE 65

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
             D       D  + +  ++D+++  +   L + ++ I
Sbjct: 66  LMDYGHV--DDDRNLKVEIIDYVNRANAECLQKIYVFI 101


>gi|261409127|ref|YP_003245368.1| XRE family transcriptional regulator [Paenibacillus sp. Y412MC10]
 gi|329923481|ref|ZP_08278961.1| DNA-binding helix-turn-helix protein [Paenibacillus sp. HGF5]
 gi|261285590|gb|ACX67561.1| transcriptional regulator, XRE family [Paenibacillus sp. Y412MC10]
 gi|328941241|gb|EGG37537.1| DNA-binding helix-turn-helix protein [Paenibacillus sp. HGF5]
          Length = 122

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 25/106 (23%), Positives = 49/106 (46%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N G+RI   R   G +QE+L   +GIT   +  YEK   +     L  ++++ +  I +
Sbjct: 1   MNYGERIAELREQRGWTQEELATSVGITRAALSHYEKNRRKPDFETLTRLADLFDVSIDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
               +    S +  E  + +D +   D   L R+ + +D  K+ ++
Sbjct: 61  LIGRTTLEKSVLDPEVRSFVDGLELSDQDLLERFNLTVDGRKLTEE 106


>gi|253572160|ref|ZP_04849564.1| conserved hypothetical protein [Bacteroides sp. 1_1_6]
 gi|251838340|gb|EES66427.1| conserved hypothetical protein [Bacteroides sp. 1_1_6]
          Length = 135

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 53/124 (42%), Gaps = 16/124 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +VG+ ++  R+ LGM QE L   LGI+ Q++ K EK            I + L + I+  
Sbjct: 13  HVGRNLQRIRVYLGMKQEALAADLGISQQEISKIEKQ---------DEIEDKLLTQIATA 63

Query: 74  FDVSPTVCSDISSEE-----NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
             VS  V  D   E      N+  D   +P        +     +    KI+EL   ++ 
Sbjct: 64  LGVSAEVIRDFDVERAIYNINSYKDATISPGATAT--VYAHTQQINPLDKIVELYERLLQ 121

Query: 129 SEKK 132
           SE++
Sbjct: 122 SERE 125


>gi|242309806|ref|ZP_04808961.1| predicted protein [Helicobacter pullorum MIT 98-5489]
 gi|239523807|gb|EEQ63673.1| predicted protein [Helicobacter pullorum MIT 98-5489]
          Length = 186

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 1/73 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPIS 71
           + +G RIR  R  LG++QE+  +   I  + +  YE G  R+  + +  + E L+ +PI 
Sbjct: 49  LKIGSRIREAREFLGLTQEEFAKNFHIDTRLLSFYETGERRIPVTFIIKMYECLKVNPIF 108

Query: 72  FFFDVSPTVCSDI 84
             F V  ++  +I
Sbjct: 109 VLFGVGSSIIKEI 121


>gi|148266398|ref|YP_001233104.1| helix-turn-helix domain-containing protein [Geobacter
          uraniireducens Rf4]
 gi|146399898|gb|ABQ28531.1| helix-turn-helix domain protein [Geobacter uraniireducens Rf4]
          Length = 355

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 29/56 (51%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R + GM QE LGE  G+T Q +  +E+G  +    ++  + ++L  PI    
Sbjct: 3  LRELRELAGMKQEALGELAGVTRQTIAAWERGERQPSMQQVVKLCQILHVPIDVML 58


>gi|238796839|ref|ZP_04640344.1| Predicted transcriptional regulator [Yersinia mollaretii ATCC
          43969]
 gi|238719327|gb|EEQ11138.1| Predicted transcriptional regulator [Yersinia mollaretii ATCC
          43969]
          Length = 95

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 20/72 (27%), Positives = 39/72 (54%), Gaps = 4/72 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR++L R+   ++Q  LG+  GI       +V +YEK  +      ++  +EVL+ P 
Sbjct: 2  IGKRLKLARVNAELTQAGLGQRAGIDEESASSRVSQYEKETHAPDFKLVRKFAEVLDVPE 61

Query: 71 SFFFDVSPTVCS 82
          ++F+ V   + +
Sbjct: 62 AYFYAVDDDLAA 73


>gi|315122908|ref|YP_004063397.1| hypothetical protein CKC_05820 [Candidatus Liberibacter
           solanacearum CLso-ZC1]
 gi|313496310|gb|ADR52909.1| hypothetical protein CKC_05820 [Candidatus Liberibacter
           solanacearum CLso-ZC1]
          Length = 210

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 2/70 (2%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K++ NP++I  G+RI+  R   GM+ ++ GE +G+    V  YE+G++         I  
Sbjct: 88  KRLINPIEI--GERIKKFRKEEGMTLKEFGEWVGLPVSTVSTYERGISAPEIKTALKIKR 145

Query: 65  VLESPISFFF 74
            L  P+ + +
Sbjct: 146 ALGKPLDWIY 155


>gi|264679862|ref|YP_003279771.1| XRE family transcriptional regulator [Comamonas testosteroni
          CNB-2]
 gi|262210377|gb|ACY34475.1| transcriptional regulator, XRE family [Comamonas testosteroni
          CNB-2]
          Length = 104

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 17/63 (26%), Positives = 37/63 (58%), Gaps = 4/63 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+R++  R+  G+SQ+ LG   G    +   ++ +YE G+++     ++ ++ VL  P++
Sbjct: 9  GERLKQARLAAGLSQKMLGIEAGLDPFVASTRINRYELGIHKPDLLTVRKLATVLRVPVA 68

Query: 72 FFF 74
          FF+
Sbjct: 69 FFY 71


>gi|282601274|ref|ZP_05981265.2| putative transcriptional regulator [Subdoligranulum variabile DSM
          15176]
 gi|282569583|gb|EFB75118.1| putative transcriptional regulator [Subdoligranulum variabile DSM
          15176]
          Length = 195

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 37/65 (56%), Gaps = 3/65 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI---TFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + VG++IRL R    ++Q +LG+ LG+      +V +YE G        L+ I++VL+ P
Sbjct: 3  MKVGQKIRLVRRHRHLTQRELGDRLGLGEGGANRVAQYEMGYRVPKDELLRKIADVLDVP 62

Query: 70 ISFFF 74
          +  FF
Sbjct: 63 VENFF 67


>gi|195978131|ref|YP_002123375.1| Phage transcriptional repressor [Streptococcus equi subsp.
          zooepidemicus MGCS10565]
 gi|195974836|gb|ACG62362.1| Phage transcriptional repressor [Streptococcus equi subsp.
          zooepidemicus MGCS10565]
          Length = 232

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 15/59 (25%), Positives = 31/59 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G +++  R+   +SQE+LG+ LG+    +  +EK  NR      + +  + + P  +F+
Sbjct: 6  GIQLKTARLSRHISQEQLGQLLGVNKMTISNWEKEKNRPNQKHFEELVSIFQLPAEYFY 64


>gi|66395390|ref|YP_239683.1| ORF020 [Staphylococcus phage 53]
 gi|62635740|gb|AAX90851.1| ORF020 [Staphylococcus phage 53]
          Length = 239

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 32/72 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R  L ++Q++LGE L      +  YE G        L  I+ +L   I   F
Sbjct: 10 IGNKIRYYRTKLNLTQDQLGEKLNTKKATISNYETGYRTPKQDDLFEIAHILNISIDDLF 69

Query: 75 DVSPTVCSDISS 86
                 +DI+S
Sbjct: 70 PTRNNKKNDITS 81


>gi|66395312|ref|YP_239602.1| ORF019 [Staphylococcus phage 69]
 gi|66396425|ref|YP_240780.1| ORF019 [Staphylococcus phage 92]
 gi|151221206|ref|YP_001332028.1| phage cI-like repressor [Staphylococcus aureus subsp. aureus str.
          Newman]
 gi|257433183|ref|ZP_05609541.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus E1410]
 gi|296277282|ref|ZP_06859789.1| phage cI-like repressor [Staphylococcus aureus subsp. aureus MR1]
 gi|62635663|gb|AAX90774.1| ORF019 [Staphylococcus phage 69]
 gi|62636839|gb|AAX91950.1| ORF019 [Staphylococcus phage 92]
 gi|104641720|gb|ABF73098.1| cI-like repressor [Staphylococcus aureus phage phiNM2]
 gi|150374006|dbj|BAF67266.1| phage cI-like repressor [Staphylococcus aureus subsp. aureus str.
          Newman]
 gi|257281276|gb|EEV11413.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus E1410]
          Length = 239

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 32/72 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R  L ++Q++LGE L      +  YE G        L  I+ +L   I   F
Sbjct: 10 IGNKIRYYRTKLNLTQDQLGEKLNTKKATISNYETGYRTPKQDDLFEIAHILNISIDDLF 69

Query: 75 DVSPTVCSDISS 86
                 +DI+S
Sbjct: 70 PTRNNKKNDITS 81


>gi|326801902|ref|YP_004319721.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
 gi|326552666|gb|ADZ81051.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
          Length = 114

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 18/65 (27%), Positives = 33/65 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I+  R   G+SQ  +   L I  +  Q  E G+ R+   RL+ I+ +++  +S  F+ S
Sbjct: 9  QIKSHRKAKGLSQGDMANKLNIVLKTYQNIESGITRLDIERLKQIASLIDLNLSTVFNQS 68

Query: 78 PTVCS 82
          P   +
Sbjct: 69 PETMA 73


>gi|313123989|ref|YP_004034248.1| peptidase s24-like protein [Lactobacillus delbrueckii subsp.
           bulgaricus ND02]
 gi|312280552|gb|ADQ61271.1| Peptidase S24-like protein [Lactobacillus delbrueckii subsp.
           bulgaricus ND02]
          Length = 209

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 30/135 (22%), Positives = 54/135 (40%), Gaps = 26/135 (19%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECL-------GITFQQVQKYEKGVNRVGASRLQHISEV 65
           +++G RIRL R    M+ E+L   L       G T  ++ K+E        S L  ++  
Sbjct: 1   MSIGTRIRLLRKSKKMTLEELANQLNSRSSSSGFTKGRLSKWENDREEPKLSSLNQVARF 60

Query: 66  LESPISFFF-DVSPT------------------VCSDISSEENNVMDFISTPDGLQLNRY 106
               I +FF D  P+                   C D    + N++D+I+ P+ +  N +
Sbjct: 61  FNVDIDYFFNDSHPSNTLPLSRNTIRVPVIGTIACGDPIDADENIVDYINVPEPIPANAF 120

Query: 107 FIQIDDVKVRQKIIE 121
            +  +   +   II+
Sbjct: 121 ALICEGSSMEPSIID 135


>gi|297204896|ref|ZP_06922293.1| transcriptional regulator [Streptomyces sviceus ATCC 29083]
 gi|197711669|gb|EDY55703.1| transcriptional regulator [Streptomyces sviceus ATCC 29083]
          Length = 135

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 19/76 (25%), Positives = 37/76 (48%), Gaps = 8/76 (10%)

Query: 7  IPNPVD--------INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
           P+P D          +G+R++  R  L MSQ+ + +  GI    +   E+G  RV +  
Sbjct: 2  TPSPSDARARDPELTQLGERLKRTRDYLNMSQQFVSDNTGIPRSAISDIERGERRVDSLE 61

Query: 59 LQHISEVLESPISFFF 74
          L+ ++ +   P+++F 
Sbjct: 62 LKKLARLYRQPVAYFL 77


>gi|171779398|ref|ZP_02920362.1| hypothetical protein STRINF_01243 [Streptococcus infantarius
          subsp. infantarius ATCC BAA-102]
 gi|171282015|gb|EDT47446.1| hypothetical protein STRINF_01243 [Streptococcus infantarius
          subsp. infantarius ATCC BAA-102]
          Length = 228

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 17/57 (29%), Positives = 33/57 (57%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR+ LG+ Q +L + LGI+ Q    +EKG  +   + L  + E+L+    +F
Sbjct: 5  EKLKNRRLELGLKQTELAKELGISKQSYFAWEKGTAKPTKANLAKLEELLQVSHGYF 61


>gi|329940155|ref|ZP_08289437.1| UDP-N-acetylglucosamine transferase [Streptomyces
          griseoaurantiacus M045]
 gi|329300981|gb|EGG44877.1| UDP-N-acetylglucosamine transferase [Streptomyces
          griseoaurantiacus M045]
          Length = 509

 Score = 36.6 bits (83), Expect = 1.1,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWTQSQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|227500718|ref|ZP_03930767.1| transcriptional regulator [Anaerococcus tetradius ATCC 35098]
 gi|227217176|gb|EEI82525.1| transcriptional regulator [Anaerococcus tetradius ATCC 35098]
          Length = 143

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 20/69 (28%), Positives = 36/69 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++++  R++  ++Q++L    G+T   ++ YE G       +LQ ISE L+  IS   D
Sbjct: 4  GEKLKKLRLMRNLTQKELAIKSGLTDAAIRNYELGNRSPSKEQLQKISEALDCDISALID 63

Query: 76 VSPTVCSDI 84
            P    +I
Sbjct: 64 HEPNSIFEI 72


>gi|157158980|ref|YP_001463318.1| transcriptional repressor DicA [Escherichia coli E24377A]
 gi|157081010|gb|ABV20718.1| putative transcriptional regulator DicA [Escherichia coli E24377A]
          Length = 131

 Score = 36.6 bits (83), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 33/134 (24%), Positives = 58/134 (43%), Gaps = 30/134 (22%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +  R+  RR  LG++Q++L + +G +   V K+E G N      L  ++  L+   ++  
Sbjct: 2   LSDRLSQRRKQLGLTQQQLADMVGRSSVSVFKWESGQNEPKGQNLLALANALKCSATWLL 61

Query: 75  ----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK-IIELVRSIVSS 129
               D +PT   ++ +E                         +  RQK ++EL  S+  S
Sbjct: 62  FGDEDQAPTPVDELPTE-------------------------LDSRQKRLLELFDSLPES 96

Query: 130 EKKYRTIEEECMVE 143
           EK+ + IE E  VE
Sbjct: 97  EKEKQLIELEDKVE 110


>gi|167465058|ref|ZP_02330147.1| SOS-response transcriptional repressor [Paenibacillus larvae
          subsp. larvae BRL-230010]
          Length = 211

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 37/73 (50%), Gaps = 4/73 (5%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +KKI      N+ KR+R  R   GM+Q  L + LG+    V  +EK      A  ++ +S
Sbjct: 3  DKKIKEIFAANI-KRLRKSR---GMTQGDLAKILGVGISTVSDWEKAKKYPRAGVIEKLS 58

Query: 64 EVLESPISFFFDV 76
          +  + P S FF+V
Sbjct: 59 QYFDMPKSSFFEV 71


>gi|237718064|ref|ZP_04548545.1| transcriptional regulator [Bacteroides sp. 2_2_4]
 gi|293370031|ref|ZP_06616598.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides ovatus SD CMC 3f]
 gi|299147755|ref|ZP_07040818.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides sp. 3_1_23]
 gi|229452705|gb|EEO58496.1| transcriptional regulator [Bacteroides sp. 2_2_4]
 gi|292634949|gb|EFF53471.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides ovatus SD CMC 3f]
 gi|298513938|gb|EFI37824.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides sp. 3_1_23]
          Length = 134

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 1/54 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I++G++I   R + GM+Q +LG+ LGIT Q V K E+   +    RL  I+  L
Sbjct: 10 IHLGRKIERVRRLRGMTQAELGDLLGITKQAVSKIEQ-TEKFDDERLGEIASAL 62


>gi|299820781|ref|ZP_07052670.1| XRE family transcriptional regulator [Listeria grayi DSM 20601]
 gi|299817802|gb|EFI85037.1| XRE family transcriptional regulator [Listeria grayi DSM 20601]
          Length = 111

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R   G SQEKL + L  + Q V +YE G  +     L  ++++    +  FF
Sbjct: 7  IGNKIRFFREENGYSQEKLAQLLRTSRQTVSRYENGDRKASQDVLYELAQLFGKSMDDFF 66


>gi|71734699|ref|YP_276797.1| hypothetical protein PSPPH_4694 [Pseudomonas syringae pv.
          phaseolicola 1448A]
 gi|289650666|ref|ZP_06482009.1| hypothetical protein Psyrpa2_23462 [Pseudomonas syringae pv.
          aesculi str. 2250]
 gi|71555252|gb|AAZ34463.1| unnamed protein product [Pseudomonas syringae pv. phaseolicola
          1448A]
 gi|320331935|gb|EFW87872.1| hypothetical protein PsgRace4_00783 [Pseudomonas syringae pv.
          glycinea str. race 4]
 gi|330881687|gb|EGH15836.1| hypothetical protein Pgy4_22334 [Pseudomonas syringae pv.
          glycinea str. race 4]
          Length = 83

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 36/70 (51%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +G++IR RR+  G++Q +L     +T Q++   EKG   VG +    +   L+  +
Sbjct: 6  ITTRLGEQIRQRRLNRGLTQARLAAMAAVTRQKIIAVEKGDLSVGMTAYARVLGALDCEL 65

Query: 71 SFFFDVSPTV 80
          S    V PT+
Sbjct: 66 SVIPAVMPTL 75


>gi|319648634|ref|ZP_08002846.1| hypothetical protein HMPREF1012_03885 [Bacillus sp. BT1B_CT2]
 gi|317389282|gb|EFV70097.1| hypothetical protein HMPREF1012_03885 [Bacillus sp. BT1B_CT2]
          Length = 82

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 16/47 (34%), Positives = 28/47 (59%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          R+  G+SQ +  + +GIT + ++ YEKG+  +   RL+  +EV   P
Sbjct: 10 RVNAGLSQSQAAKKIGITPKTLRNYEKGITAIPGYRLKKAAEVYNLP 56


>gi|258545393|ref|ZP_05705627.1| S24 (LexA) family peptidase [Cardiobacterium hominis ATCC 15826]
 gi|258519362|gb|EEV88221.1| S24 (LexA) family peptidase [Cardiobacterium hominis ATCC 15826]
          Length = 284

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 15/38 (39%), Positives = 28/38 (73%), Gaps = 1/38 (2%)

Query: 13 INVGKRIRLRRMILGMS-QEKLGECLGITFQQVQKYEK 49
          +++GKR+  +R + G S QE+LG+ LG++F  + ++EK
Sbjct: 1  MSIGKRLLEQRKLAGYSSQEQLGDALGVSFTTIARWEK 38


>gi|239625419|ref|ZP_04668450.1| predicted protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239519649|gb|EEQ59515.1| predicted protein [Clostridiales bacterium 1_7_47FAA]
          Length = 141

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 36/64 (56%), Gaps = 2/64 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLE-SPI 70
          + +G+RIR  R   G++QE+L   LG+    V KYE G V  +  + L  ++E+LE SP 
Sbjct: 1  MELGERIRSLRKKKGLTQEELASKLGLQKSAVAKYENGRVTNIKRATLFKMAEILEVSPG 60

Query: 71 SFFF 74
             +
Sbjct: 61 ELMY 64


>gi|237713408|ref|ZP_04543889.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262406781|ref|ZP_06083330.1| transcriptional regulator [Bacteroides sp. 2_1_22]
 gi|229446647|gb|EEO52438.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262355484|gb|EEZ04575.1| transcriptional regulator [Bacteroides sp. 2_1_22]
          Length = 136

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 37/63 (58%), Gaps = 4/63 (6%)

Query: 7  IPNPVDIN---VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          + N ++ N   +G++I   R + GM+Q  LG+ LGIT Q V K E+   ++   R++ ++
Sbjct: 1  MENEINTNATHIGRKIERIRRLRGMTQTDLGDLLGITKQAVSKMEQS-EKIEDERIKRVA 59

Query: 64 EVL 66
          + L
Sbjct: 60 DAL 62


>gi|32266247|ref|NP_860279.1| hypothetical protein HH0748 [Helicobacter hepaticus ATCC 51449]
 gi|32262297|gb|AAP77345.1| hypothetical protein HH_0748 [Helicobacter hepaticus ATCC 51449]
          Length = 228

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 19/79 (24%), Positives = 37/79 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++   R    M+Q+   E  GI++  +Q YE G        L  +S++   P+ FF 
Sbjct: 2  IGSKLVALRNEHQMTQKDFAERTGISYGTLQAYEYGTQSPRYDYLTKVSDIFNVPMIFFL 61

Query: 75 DVSPTVCSDISSEENNVMD 93
          D   ++ +  ++ +  V D
Sbjct: 62 DDDTSLGNSYTNPKGFVSD 80


>gi|330985816|gb|EGH83919.1| hypothetical protein PLA107_12420 [Pseudomonas syringae pv.
          lachrymans str. M301315]
          Length = 83

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 36/70 (51%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +G++IR RR+  G++Q +L     +T Q++   EKG   VG +    +   L+  +
Sbjct: 6  ITTRLGEQIRQRRLNRGLTQARLATLAAVTRQKIIAVEKGDLSVGMTAYARVLGALDCEL 65

Query: 71 SFFFDVSPTV 80
          S    V PT+
Sbjct: 66 SVIPAVMPTL 75


>gi|237746118|ref|ZP_04576598.1| predicted protein [Oxalobacter formigenes HOxBLS]
 gi|229377469|gb|EEO27560.1| predicted protein [Oxalobacter formigenes HOxBLS]
          Length = 130

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 41/82 (50%), Gaps = 2/82 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          + KRI   R  L +SQ +L   +G+T Q VQK+EK       + L+ +++ L  SP    
Sbjct: 4  IAKRIEDCRHGLNISQSELARKIGVTPQAVQKWEKAKTVPRGATLRKLADALGVSPAYIQ 63

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
          F +S  V  D  + E    ++I
Sbjct: 64 FGISDPV-PDYPAVEQEKAEYI 84


>gi|331086747|ref|ZP_08335824.1| hypothetical protein HMPREF0987_02127 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|330409913|gb|EGG89348.1| hypothetical protein HMPREF0987_02127 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 242

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 36/62 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G R++ RR++L +S++KL E   IT Q +  YE G++      L  + + LE   ++
Sbjct: 1  MSLGDRLKERRVMLNLSRKKLSEITYITPQALANYENGISTPKFEILVSLFQSLECDANY 60

Query: 73 FF 74
           +
Sbjct: 61 LY 62


>gi|239983013|ref|ZP_04705537.1| UDP-N-acetylglucosamine transferase [Streptomyces albus J1074]
 gi|291454845|ref|ZP_06594235.1| UDP-N-acetylglucosamine transferase [Streptomyces albus J1074]
 gi|291357794|gb|EFE84696.1| UDP-N-acetylglucosamine transferase [Streptomyces albus J1074]
          Length = 509

 Score = 36.6 bits (83), Expect = 1.2,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWTQAQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|282600090|ref|ZP_05972947.2| DNA-binding protein [Providencia rustigianii DSM 4541]
 gi|282566637|gb|EFB72172.1| DNA-binding protein [Providencia rustigianii DSM 4541]
          Length = 99

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 37/65 (56%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   VG++I+  R   G +  +L + + I+ QQ+ +YE+GVNR+    L  + +VL   
Sbjct: 8  PVACAVGQKIKSLRKAQGYTVFQLAKEIDISEQQLFRYERGVNRIDIDCLVRVLKVLGVN 67

Query: 70 ISFFF 74
          +  FF
Sbjct: 68 MGEFF 72


>gi|306830136|ref|ZP_07463320.1| hypothetical transcriptional regulator [Streptococcus mitis ATCC
          6249]
 gi|304427662|gb|EFM30758.1| hypothetical transcriptional regulator [Streptococcus mitis ATCC
          6249]
          Length = 228

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 14/57 (24%), Positives = 33/57 (57%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  L ++Q+++ E LGI+FQ    +E+G+      ++  +  +L+    +F
Sbjct: 5  EKLKARRKELKLTQKEIAEELGISFQAYSAWERGIKEPSQEKVAQLENILKVAKGYF 61


>gi|268608708|ref|ZP_06142435.1| hypothetical protein RflaF_04317 [Ruminococcus flavefaciens FD-1]
          Length = 322

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 35/61 (57%), Gaps = 9/61 (14%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K I LR+   GMSQE+L E LG++ Q V K+E      GA     ++ +LE  IS  FDV
Sbjct: 6  KLIELRKK-SGMSQEELAEKLGVSRQSVSKWE------GAQSTPDLNRILE--ISKIFDV 56

Query: 77 S 77
          S
Sbjct: 57 S 57


>gi|225868534|ref|YP_002744482.1| phage repressor-like protein [Streptococcus equi subsp.
          zooepidemicus]
 gi|225701810|emb|CAW99238.1| putative phage repressor-like protein [Streptococcus equi subsp.
          zooepidemicus]
          Length = 232

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 15/59 (25%), Positives = 32/59 (54%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G +++  R+   +SQE+LGE LG+    +  +EK  N+      + + ++ + P  +F+
Sbjct: 6  GIQLKTARLSRHISQEQLGELLGVNKMTISNWEKEKNKPNQKHFEELIKIFQLPAEYFY 64


>gi|83590834|ref|YP_430843.1| MerR family transcriptional regulator [Moorella thermoacetica
          ATCC 39073]
 gi|83573748|gb|ABC20300.1| transcriptional regulator, MerR family [Moorella thermoacetica
          ATCC 39073]
          Length = 178

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 4/73 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK+IR  R   GMS + + E  G+T   + + E+ +     + L+ I+E L+ PI +F 
Sbjct: 2  LGKKIRQLRRERGMSLKDVAEKTGLTSSFLSQVERDLADPSITSLRKIAEALDIPIFYFL 61

Query: 75 ----DVSPTVCSD 83
              D SP V  D
Sbjct: 62 LNPEDHSPVVRKD 74


>gi|323357088|ref|YP_004223484.1| transcriptional regulator [Microbacterium testaceum StLB037]
 gi|323273459|dbj|BAJ73604.1| predicted transcriptional regulator [Microbacterium testaceum
          StLB037]
          Length = 479

 Score = 36.6 bits (83), Expect = 1.2,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R+  G++ ++LG  +G+   Q+   E G      S LQ I+   E+ ++   
Sbjct: 10 LGHRIRHHRLARGLTLDELGALVGVAGSQLSLIENGKREPKLSLLQEIARATETEVTELL 69

Query: 75 DVSP 78
             P
Sbjct: 70 STEP 73


>gi|254390107|ref|ZP_05005328.1| transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|326441822|ref|ZP_08216556.1| helix-turn-helix domain protein [Streptomyces clavuligerus ATCC
          27064]
 gi|197703815|gb|EDY49627.1| transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
          Length = 420

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 30/64 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R   G+SQE+L E  G++   VQK E+G   V    L  I+  L    S  F
Sbjct: 5  IGDNIKRYRRAEGLSQEELAEKAGLSVSTVQKAEQGRGAVRTQTLHTIARGLGVTTSALF 64

Query: 75 DVSP 78
             P
Sbjct: 65 VAGP 68


>gi|160885068|ref|ZP_02066071.1| hypothetical protein BACOVA_03065 [Bacteroides ovatus ATCC 8483]
 gi|298483202|ref|ZP_07001382.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides sp. D22]
 gi|156109418|gb|EDO11163.1| hypothetical protein BACOVA_03065 [Bacteroides ovatus ATCC 8483]
 gi|295084669|emb|CBK66192.1| Helix-turn-helix. [Bacteroides xylanisolvens XB1A]
 gi|298270719|gb|EFI12300.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides sp. D22]
          Length = 134

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 1/54 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I++G++I   R + GM+Q +LG+ LGIT Q V K E+   +    RL  I+  L
Sbjct: 10 IHLGRKIERVRRLRGMTQAELGDLLGITKQAVSKIEQ-TEKFDDERLGEIASAL 62


>gi|315611793|ref|ZP_07886715.1| hypothetical transcriptional regulator [Streptococcus sanguinis
          ATCC 49296]
 gi|315316208|gb|EFU64238.1| hypothetical transcriptional regulator [Streptococcus sanguinis
          ATCC 49296]
          Length = 228

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 14/57 (24%), Positives = 33/57 (57%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  L ++Q+++ E LGI+FQ    +E+G+      ++  +  +L+    +F
Sbjct: 5  EKLKARRKELKLTQKEIAEELGISFQAYSAWERGIKEPSKEKVAQLENILKVARGYF 61


>gi|213019902|ref|ZP_03335694.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212994511|gb|EEB55167.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 243

 Score = 36.6 bits (83), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 19/79 (24%), Positives = 41/79 (51%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK+I+  R++ G +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I    
Sbjct: 101 IGKKIKEWRLVRGYTQKDLAEKMSTTRDEISNYEQGRVAIPLEKLYAIAETLSINIMDLL 160

Query: 75  DVSPTVCSDISSEENNVMD 93
           +++      + +E  N+++
Sbjct: 161 ELTEDADDKVENELPNLIE 179


>gi|294509118|ref|YP_003566046.1| helix-turn-helix domain protein [Bacillus megaterium QM B1551]
 gi|294352042|gb|ADE72366.1| helix-turn-helix domain protein [Bacillus megaterium QM B1551]
          Length = 149

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 29/119 (24%), Positives = 56/119 (47%), Gaps = 4/119 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N G++I   R  + ++Q++L E L +T Q + K+E  +    + +L  ++EVL     +
Sbjct: 1   MNRGEKIAKARREMNLTQDQLAEMLEVTRQTISKWESNLAYPESVKLGKLAEVLNVTCDY 60

Query: 73  FF--DVSPTVCSDISSEENNVMDFISTPDGLQ--LNRYFIQIDDVKVRQKIIELVRSIV 127
               + + +  + I    NN  ++      L   LN Y   ID     +KI  +V+ I+
Sbjct: 61  LLRENQATSTSTSIEVTMNNSGNYTLDWSKLYPILNEYQNMIDCPHYFEKIYGMVKEIM 119


>gi|269127822|ref|YP_003301192.1| XRE family transcriptional regulator [Thermomonospora curvata DSM
          43183]
 gi|268312780|gb|ACY99154.1| transcriptional regulator, XRE family [Thermomonospora curvata
          DSM 43183]
          Length = 99

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 34/65 (52%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +G+ +RLRR  LG++Q +L E  G+    V ++E G        L+ ++E LE  +
Sbjct: 29 IRFQLGEAVRLRREELGLTQAQLAERAGLKQPAVARFEAGGTMPTIPMLERLAEALEMRL 88

Query: 71 SFFFD 75
          S  F 
Sbjct: 89 SIRFQ 93


>gi|331092227|ref|ZP_08341055.1| hypothetical protein HMPREF9477_01698 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330401659|gb|EGG81238.1| hypothetical protein HMPREF9477_01698 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 154

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 36/61 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I L+R    M+QE+L E LG++ + + K+E G      S ++++ + LE  ++  F
Sbjct: 6  IGKYISLKRKQKNMTQEQLAEKLGVSNKTISKWETGKCMPDYSIIKNLCDELEITVAELF 65

Query: 75 D 75
          D
Sbjct: 66 D 66


>gi|325663144|ref|ZP_08151594.1| hypothetical protein HMPREF0490_02335 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|325470598|gb|EGC73828.1| hypothetical protein HMPREF0490_02335 [Lachnospiraceae bacterium
          4_1_37FAA]
          Length = 242

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 36/62 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G R++ RR++L +S++KL E   IT Q +  YE G++      L  + + LE   ++
Sbjct: 1  MSLGDRLKERRVMLNLSRKKLSEITYITPQALANYENGISTPKFEILVSLFQSLECDANY 60

Query: 73 FF 74
           +
Sbjct: 61 LY 62


>gi|160947244|ref|ZP_02094411.1| hypothetical protein PEPMIC_01177 [Parvimonas micra ATCC 33270]
 gi|158446378|gb|EDP23373.1| hypothetical protein PEPMIC_01177 [Parvimonas micra ATCC 33270]
          Length = 180

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 36/59 (61%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G++I+  R ILG++QE+L E   +T   + + E+G+     S L+ + E L + IS
Sbjct: 1  MDIGEKIKNLRTILGLTQEELAERAELTKGFISQLERGLTSPSISSLEDVLEALGTNIS 59


>gi|148360856|ref|YP_001252063.1| hypothetical protein LPC_2816 [Legionella pneumophila str. Corby]
 gi|296106080|ref|YP_003617780.1| hypothetical protein lpa_00792 [Legionella pneumophila 2300/99
          Alcoy]
 gi|148282629|gb|ABQ56717.1| hypothetical protein LPC_2816 [Legionella pneumophila str. Corby]
 gi|295647981|gb|ADG23828.1| hypothetical protein lpa_00792 [Legionella pneumophila 2300/99
          Alcoy]
          Length = 224

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 37/66 (56%), Gaps = 5/66 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  RM+ G+S++ L E  GI+   +Q +E G N +  ++   +  +L       +
Sbjct: 14 MGQRIKRARMLAGLSRKDLEEKHGISIHTLQSWELGRNPLNKAKAASLVGILNQ-----Y 68

Query: 75 DVSPTV 80
          DVS ++
Sbjct: 69 DVSCSI 74


>gi|331082015|ref|ZP_08331143.1| hypothetical protein HMPREF0992_00067 [Lachnospiraceae bacterium
           6_1_63FAA]
 gi|330405610|gb|EGG85140.1| hypothetical protein HMPREF0992_00067 [Lachnospiraceae bacterium
           6_1_63FAA]
          Length = 354

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 22/105 (20%), Positives = 51/105 (48%), Gaps = 6/105 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + + IR RR+   ++QE++   LG+T   V K+EKG +    + L  ++ +LE+ ++ 
Sbjct: 1   MKINETIRQRRIERNLTQEQVANYLGVTAPAVNKWEKGTSYPDITTLPALARILETDLNT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
                  +       E  +  F++T   L     F+++ ++ + +
Sbjct: 61  LLSFKEELT------EQEIAIFLNTLSELLEKEGFLKVYEIAMEK 99


>gi|297617997|ref|YP_003703156.1| XRE family transcriptional regulator [Syntrophothermus
          lipocalidus DSM 12680]
 gi|297145834|gb|ADI02591.1| transcriptional regulator, XRE family [Syntrophothermus
          lipocalidus DSM 12680]
          Length = 216

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 18/66 (27%), Positives = 35/66 (53%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG RI+  R   G++QE+LG+ L +    + KYEKG     +  L+ +++     + + 
Sbjct: 3  SVGSRIKQLREERGLTQEQLGKILNVQKAAISKYEKGHTLPDSEALKKLAKFFNVSVDYL 62

Query: 74 FDVSPT 79
            ++ T
Sbjct: 63 LCLTDT 68


>gi|289627202|ref|ZP_06460156.1| hypothetical protein PsyrpaN_19049 [Pseudomonas syringae pv.
          aesculi str. NCPPB3681]
          Length = 83

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 36/70 (51%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +G++IR RR+  G++Q +L     +T Q++   EKG   VG +    +   L+  +
Sbjct: 6  ITTRLGEQIRQRRLNRGLTQARLATMAAVTRQKIIAIEKGDLSVGMTAYARVLGALDCEL 65

Query: 71 SFFFDVSPTV 80
          S    V PT+
Sbjct: 66 SVIPAVMPTL 75


>gi|218673688|ref|ZP_03523357.1| putative transcriptional regulator protein [Rhizobium etli GR56]
          Length = 99

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 32/66 (48%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 32 NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 91

Query: 69 PISFFF 74
          P++ FF
Sbjct: 92 PLTAFF 97


>gi|126732539|ref|ZP_01748337.1| transcriptional regulator, putative [Sagittula stellata E-37]
 gi|126706985|gb|EBA06053.1| transcriptional regulator, putative [Sagittula stellata E-37]
          Length = 433

 Score = 36.6 bits (83), Expect = 1.3,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 28/57 (49%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          P D   G RIR +R+  GM Q +L +  GI+   +   E    R+G   L  I++ L
Sbjct: 2  PRDTLTGSRIREKRIAQGMRQSELAKIAGISASYLNLIEHNRRRIGGKLLLEIADAL 58


>gi|89074996|ref|ZP_01161441.1| transcriptional regulator, putative [Photobacterium sp. SKA34]
 gi|90581632|ref|ZP_01237423.1| transcriptional regulator, putative [Vibrio angustum S14]
 gi|89049235|gb|EAR54799.1| transcriptional regulator, putative [Photobacterium sp. SKA34]
 gi|90437215|gb|EAS62415.1| transcriptional regulator, putative [Vibrio angustum S14]
          Length = 106

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 29/84 (34%), Positives = 45/84 (53%), Gaps = 14/84 (16%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISE 64
          NP+ + + K IR R  I   SQ++LG  +GI       ++ +YEKG +    S L+ I++
Sbjct: 5  NPIPVRL-KEIRKRAKI---SQKELGVRVGIDESSASARMNQYEKGKHTPDISTLKKIAD 60

Query: 65 VLESPISFFFDVSPTVCSDISSEE 88
           L  P+++FF      C D SS E
Sbjct: 61 ELGVPLNYFF------CEDESSAE 78


>gi|294631998|ref|ZP_06710558.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. e14]
 gi|292835331|gb|EFF93680.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. e14]
          Length = 509

 Score = 36.6 bits (83), Expect = 1.3,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWTQAQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|160895055|ref|ZP_02075829.1| hypothetical protein CLOL250_02605 [Clostridium sp. L2-50]
 gi|156863486|gb|EDO56917.1| hypothetical protein CLOL250_02605 [Clostridium sp. L2-50]
          Length = 209

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G RI+ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 10 IGSRIKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|260588634|ref|ZP_05854547.1| DNA-binding protein [Blautia hansenii DSM 20583]
 gi|260541109|gb|EEX21678.1| DNA-binding protein [Blautia hansenii DSM 20583]
          Length = 354

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 22/105 (20%), Positives = 51/105 (48%), Gaps = 6/105 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + + IR RR+   ++QE++   LG+T   V K+EKG +    + L  ++ +LE+ ++ 
Sbjct: 1   MKINETIRQRRIERNLTQEQVANYLGVTAPAVNKWEKGTSYPDITTLPALARILETDLNT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
                  +       E  +  F++T   L     F+++ ++ + +
Sbjct: 61  LLSFKEELT------EQEIAIFLNTLSELLEKEGFLKVYEIAMEK 99


>gi|254465972|ref|ZP_05079383.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
          Y4I]
 gi|206686880|gb|EDZ47362.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
          Y4I]
          Length = 432

 Score = 36.6 bits (83), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 28/55 (50%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D   G RIR RR+ILG+ Q +L    GI+   +   E    R+G   L  I+ VL
Sbjct: 4  DTLTGSRIRERRLILGLRQAELARKAGISASYLNLIEHNRRRIGGKLLVGIAGVL 58


>gi|242308986|ref|ZP_04808141.1| predicted protein [Helicobacter pullorum MIT 98-5489]
 gi|239524410|gb|EEQ64276.1| predicted protein [Helicobacter pullorum MIT 98-5489]
          Length = 90

 Score = 36.2 bits (82), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 18/69 (26%), Positives = 38/69 (55%), Gaps = 1/69 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFF 73
           G+R+++ R  LG+ + ++   LG+T + +Q YE G  ++G    + I +V ++ PI   
Sbjct: 14 AGERLKIIRESLGLKRNEMAFVLGVTDKLLQNYETGHKKIGIDFAKSIYDVYKANPIFLT 73

Query: 74 FDVSPTVCS 82
          F +   + +
Sbjct: 74 FGIGEPILN 82


>gi|160915490|ref|ZP_02077701.1| hypothetical protein EUBDOL_01498 [Eubacterium dolichum DSM 3991]
 gi|158432610|gb|EDP10899.1| hypothetical protein EUBDOL_01498 [Eubacterium dolichum DSM 3991]
          Length = 110

 Score = 36.2 bits (82), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 26/49 (53%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+SQ  LG+ LG+  Q +  +E G +      +  + E L+ P+ +F +
Sbjct: 25 GLSQAALGKLLGVQTQTISNWENGKSEPNLKTINKLCEALDVPLRYFIN 73


>gi|332716566|ref|YP_004444032.1| transcriptional regulator [Agrobacterium sp. H13-3]
 gi|325063251|gb|ADY66941.1| transcriptional regulator [Agrobacterium sp. H13-3]
          Length = 225

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 33/66 (50%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +++ +G  +R  R  LG++   L    G++   + K E G      + LQ +S+ L  
Sbjct: 31 NNLEMAIGHEVRAYRKKLGITVTDLASATGVSVGMLSKIENGNISPSLTTLQTLSKALGV 90

Query: 69 PISFFF 74
          PI+ FF
Sbjct: 91 PITAFF 96


>gi|298250743|ref|ZP_06974547.1| transcriptional regulator, XRE family [Ktedonobacter racemifer
          DSM 44963]
 gi|297548747|gb|EFH82614.1| transcriptional regulator, XRE family [Ktedonobacter racemifer
          DSM 44963]
          Length = 850

 Score = 36.2 bits (82), Expect = 1.4,   Method: Composition-based stats.
 Identities = 19/49 (38%), Positives = 31/49 (63%), Gaps = 1/49 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS-RLQ 60
          ++ G R+R  R+ L +SQE L E L I+ + ++++E+G     AS RLQ
Sbjct: 1  MHFGNRLRQERLRLHLSQEALAEALAISARSIRRWEQGQALPQASVRLQ 49


>gi|126649830|ref|ZP_01722066.1| hypothetical protein BB14905_16570 [Bacillus sp. B14905]
 gi|126593549|gb|EAZ87494.1| hypothetical protein BB14905_16570 [Bacillus sp. B14905]
          Length = 180

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 37/67 (55%), Gaps = 1/67 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PIS 71
          + +G +I+  R+  G++QE+LGE   ++   + + E+ +N      L  I EVL S P  
Sbjct: 1  MQIGAKIKALRLKKGLTQEELGERTDLSKGYISQLERDLNSPSIETLFSILEVLGSTPKE 60

Query: 72 FFFDVSP 78
          FF D +P
Sbjct: 61 FFDDGTP 67


>gi|332652945|ref|ZP_08418690.1| DNA-binding protein [Ruminococcaceae bacterium D16]
 gi|332518091|gb|EGJ47694.1| DNA-binding protein [Ruminococcaceae bacterium D16]
          Length = 169

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 29/45 (64%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQ++L   L +  Q V K+E+G++   +  L  +SE LE+P+S
Sbjct: 14 GLSQQELAVKLNVVRQTVSKWEQGLSVPDSDLLIALSEALETPVS 58


>gi|292557937|gb|ADE30938.1| Transcriptional regulator, Cro/CI family [Streptococcus suis GZ1]
          Length = 190

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 18/75 (24%), Positives = 39/75 (52%), Gaps = 1/75 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESP 69
           + +  G++++  R  LGMSQ++L   +G+T + +  YE   +R  G  R + ++E L   
Sbjct: 53  ITMTFGEKVKAERTKLGMSQDELAAKIGVTRRIIGSYENDKSRPRGMERYKKLAESLNVN 112

Query: 70  ISFFFDVSPTVCSDI 84
           +++         +D+
Sbjct: 113 VNYLLSEDDAFIADV 127


>gi|240147526|ref|ZP_04746127.1| toxin-antitoxin system, antitoxin component, Xre family [Roseburia
           intestinalis L1-82]
 gi|257200275|gb|EEU98559.1| toxin-antitoxin system, antitoxin component, Xre family [Roseburia
           intestinalis L1-82]
          Length = 238

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
           +G RI+ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 39  IGSRIKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 98

Query: 74  FDVSPTVCSDIS 85
              +    +DI+
Sbjct: 99  KGETDEYETDIT 110


>gi|226324082|ref|ZP_03799600.1| hypothetical protein COPCOM_01860 [Coprococcus comes ATCC 27758]
 gi|225207631|gb|EEG89985.1| hypothetical protein COPCOM_01860 [Coprococcus comes ATCC 27758]
          Length = 209

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G RI+ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 10 IGSRIKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|225569728|ref|ZP_03778753.1| hypothetical protein CLOHYLEM_05822 [Clostridium hylemonae DSM
          15053]
 gi|225161198|gb|EEG73817.1| hypothetical protein CLOHYLEM_05822 [Clostridium hylemonae DSM
          15053]
          Length = 114

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 19/87 (21%), Positives = 44/87 (50%), Gaps = 7/87 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ K ++  R    +SQ++L + L  T Q + KYE G++      L+++++  ++ I +
Sbjct: 1  MNIVKNLKKLRTERNLSQQQLADMLHTTQQNIYKYENGISEPNLETLKNMADHFQTSIDY 60

Query: 73 F-------FDVSPTVCSDISSEENNVM 92
                    + P    D++S+E  ++
Sbjct: 61 LVGYTSIRHKIEPVSEYDLNSDEQTLI 87


>gi|302132105|ref|ZP_07258095.1| Helix-turn-helix domain protein [Pseudomonas syringae pv. tomato
          NCPPB 1108]
          Length = 370

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 23/58 (39%), Positives = 35/58 (60%), Gaps = 3/58 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPISFFF 74
          ++RL R   G S  ++GE LG+T Q   K E  VN + + ++L+ + EVL+   SFFF
Sbjct: 18 KLRLARCAAGRSLAEIGELLGVTRQYAHKLE--VNAIPSPNQLERLCEVLKVGESFFF 73


>gi|257460926|ref|ZP_05626027.1| putative transcriptional regulator [Campylobacter gracilis
          RM3268]
 gi|257442257|gb|EEV17399.1| putative transcriptional regulator [Campylobacter gracilis
          RM3268]
          Length = 233

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 33/61 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G RI+  R   G++Q +L    GI+   +Q YE     +   +L  IS+VL+  I F
Sbjct: 1  MNLGLRIKNLREERGLTQLELANLSGISRASIQLYEADKVEIPVKKLSDISKVLDVDIDF 60

Query: 73 F 73
          F
Sbjct: 61 F 61


>gi|24379268|ref|NP_721223.1| transcription regulator [Streptococcus mutans UA159]
 gi|24377185|gb|AAN58529.1|AE014922_4 hypothetical protein; putative transcriptional regulator
          [Streptococcus mutans UA159]
          Length = 296

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 20/53 (37%), Positives = 28/53 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          R+R  R  LG+SQEKL E L I+ Q + K+E G        L  +S+  +  I
Sbjct: 8  RLRDYRKQLGLSQEKLAEELHISRQAITKWESGAGTPDVVNLMALSDFFQVSI 60


>gi|95930530|ref|ZP_01313265.1| protein of unknown function DUF955 [Desulfuromonas acetoxidans
          DSM 684]
 gi|95133365|gb|EAT15029.1| protein of unknown function DUF955 [Desulfuromonas acetoxidans
          DSM 684]
          Length = 367

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 6/71 (8%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          NKK+ NP       R++  R   G +  KL +CL +T + +  YE G        +  I+
Sbjct: 2  NKKVFNPA------RLKFAREKRGFTIRKLCDCLKLTTKSLSDYENGRRDPNDKTISEIA 55

Query: 64 EVLESPISFFF 74
          ++L     FFF
Sbjct: 56 KILNFQTGFFF 66


>gi|304398841|ref|ZP_07380711.1| transcriptional regulator, XRE family [Pantoea sp. aB]
 gi|304353545|gb|EFM17922.1| transcriptional regulator, XRE family [Pantoea sp. aB]
          Length = 210

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 29/129 (22%), Positives = 60/129 (46%), Gaps = 5/129 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G RIRLRR  L ++Q++L + + ++   + ++EK         L  ++E L    +F 
Sbjct: 5   TLGDRIRLRRKSLQLTQKQLAQQVKVSHVAISQWEKEETLPRGENLLRLAEALGCAPAFL 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
            D    V S+ +    + +  ++  D   + R+    DD  VR +++      +S +   
Sbjct: 65  IDGDGPVFSESAYGGLHQIPLLNQRD---VTRWL--TDDSSVRHELLMHNDMALSQQSFA 119

Query: 134 RTIEEECMV 142
             +EE+ M+
Sbjct: 120 FRVEEQAMM 128


>gi|309792582|ref|ZP_07687044.1| cupin 2 domain-containing protein [Oscillochloris trichoides DG6]
 gi|308225396|gb|EFO79162.1| cupin 2 domain-containing protein [Oscillochloris trichoides DG6]
          Length = 206

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 2/73 (2%)

Query: 5  KKIPNPVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          +  P+P D  ++VG R+R  R    +S   L E  G+    +   E G      S LQ +
Sbjct: 20 RDCPSPQDGKVDVGARLRFLREGRQLSIRALAEASGLAVNTLSLIENGKTSPSVSTLQQV 79

Query: 63 SEVLESPISFFFD 75
          +  L  PI+ FF+
Sbjct: 80 AVALGVPITSFFE 92


>gi|258517274|ref|YP_003193496.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257780979|gb|ACV64873.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
          Length = 170

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 28/48 (58%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          VG R++  R  LG+SQ+  GECLGI+ + + + EK         ++H+
Sbjct: 3  VGVRVQKLRKHLGLSQKDFGECLGISQKHISQIEKDTREPSEQLIKHL 50


>gi|297191369|ref|ZP_06908767.1| UDP-N-acetylglucosamine transferase [Streptomyces
          pristinaespiralis ATCC 25486]
 gi|197720621|gb|EDY64529.1| UDP-N-acetylglucosamine transferase [Streptomyces
          pristinaespiralis ATCC 25486]
          Length = 509

 Score = 36.2 bits (82), Expect = 1.4,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWTQTQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|329964525|ref|ZP_08301579.1| DNA-binding helix-turn-helix protein [Bacteroides fluxus YIT
          12057]
 gi|328524925|gb|EGF51977.1| DNA-binding helix-turn-helix protein [Bacteroides fluxus YIT
          12057]
          Length = 127

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 33/60 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+R++L RM   ++QE++GE L ++     K E G   +  +RL  I+ +L    +  F
Sbjct: 9  VGQRLQLLRMEKNLTQEQMGEQLNLSTSAYCKIEYGETDLTLTRLNKIANILNMSAAELF 68


>gi|307828919|gb|ADN95141.1| Str [Staphylococcus aureus]
          Length = 67

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 33/61 (54%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          NV   +R  R+  GMSQ+K    LG+ +Q +  +EK  + +  S++  + ++   P+ + 
Sbjct: 4  NVKLLLRAARINNGMSQKKAASLLGVHYQTLASWEKDSSDLSRSKMLLMEKIYSIPLEYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|291551015|emb|CBL27277.1| Helix-turn-helix [Ruminococcus torques L2-14]
          Length = 209

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G RI+ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 10 IGSRIKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|226944157|ref|YP_002799230.1| DNA binding protein, XRE family [Azotobacter vinelandii DJ]
 gi|226719084|gb|ACO78255.1| DNA binding protein, XRE family [Azotobacter vinelandii DJ]
          Length = 76

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 35/68 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+++R RR+  G++Q KL    GIT Q+V   E+G   VG +    +   L+   + 
Sbjct: 1  MRLGEQVRQRRLNRGLTQAKLAALAGITRQKVIAIERGDLSVGMTAYARVLGALDCEFAL 60

Query: 73 FFDVSPTV 80
               PT+
Sbjct: 61 VPAAMPTL 68


>gi|207722560|ref|YP_002252996.1| phage regulatory protein [Ralstonia solanacearum MolK2]
 gi|206587742|emb|CAQ18324.1| putative phage regulatory protein [Ralstonia solanacearum MolK2]
          Length = 136

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 17/44 (38%), Positives = 26/44 (59%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           +G+R+   R   G++Q++L E LGI  Q +  YE G  R+ AS
Sbjct: 29 ELGERVAEARKAHGLTQQQLAEALGIAQQTLAHYEVGRARLPAS 72


>gi|190575699|ref|YP_001973544.1| putative helix-turn-helix DNA binding protein [Stenotrophomonas
          maltophilia K279a]
 gi|190013621|emb|CAQ47256.1| putative helix-turn-helix DNA binding protein [Stenotrophomonas
          maltophilia K279a]
          Length = 163

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 28/49 (57%), Gaps = 6/49 (12%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK------GVNRVG 55
          I++GK +R RR  LG+SQ +L    G++ Q V   E       GVNRVG
Sbjct: 4  IDIGKAVRTRREQLGLSQGQLAHLSGLSRQTVVGLEGGTLSDLGVNRVG 52


>gi|26249039|ref|NP_755079.1| putative repressor protein of prophage [Escherichia coli CFT073]
 gi|331651509|ref|ZP_08352529.1| repressor protein C2 [Escherichia coli M718]
 gi|26109446|gb|AAN81649.1|AE016765_51 Putative repressor protein of prophage [Escherichia coli CFT073]
 gi|331050782|gb|EGI22839.1| repressor protein C2 [Escherichia coli M718]
          Length = 208

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 32/60 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+RI+  R +   SQ++LG+  G++   V  +EK +N  G   L  +++   + I +  
Sbjct: 4  VGQRIKALRRVTRTSQKELGKFCGVSDVAVGYWEKDINTPGGEALSKLAKFFNTSIDYIL 63


>gi|121634808|ref|YP_975053.1| putative phage repressor [Neisseria meningitidis FAM18]
 gi|218768099|ref|YP_002342611.1| putative phage repressor [Neisseria meningitidis Z2491]
 gi|120866514|emb|CAM10264.1| putative phage repressor [Neisseria meningitidis FAM18]
 gi|121052107|emb|CAM08421.1| putative phage repressor [Neisseria meningitidis Z2491]
 gi|254672493|emb|CBA05983.1| transcriptional regulator, Cro/CI family [Neisseria meningitidis
          alpha275]
 gi|261392641|emb|CAX50205.1| putative DNA-binding phage protein [Neisseria meningitidis 8013]
 gi|308389194|gb|ADO31514.1| putative phage repressor [Neisseria meningitidis alpha710]
 gi|319410341|emb|CBY90689.1| putative DNA-binding phage protein [Neisseria meningitidis WUE
          2594]
 gi|325132108|gb|EGC54804.1| phage repressor [Neisseria meningitidis M6190]
 gi|325136414|gb|EGC59022.1| phage repressor [Neisseria meningitidis M0579]
 gi|325138041|gb|EGC60614.1| hypothetical protein NMBES14902_1229 [Neisseria meningitidis
          ES14902]
 gi|325142304|gb|EGC64718.1| hypothetical protein NMB9615945_1127 [Neisseria meningitidis
          961-5945]
 gi|325198242|gb|ADY93698.1| hypothetical protein NMBG2136_0985 [Neisseria meningitidis G2136]
 gi|325204082|gb|ADY99535.1| hypothetical protein NMBM01240355_1010 [Neisseria meningitidis
          M01-240355]
          Length = 125

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 26/89 (29%), Positives = 43/89 (48%), Gaps = 17/89 (19%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R++ +R  LG++Q +  E  GI  +   KYE+GV            +VL S ++   D
Sbjct: 8  GNRLKEKRKFLGLTQAQAAEKAGIERETWGKYERGV-------FMPSGDVLLSFLNMGID 60

Query: 76 VS----------PTVCSDISSEENNVMDF 94
          VS          P+  S+IS EE+ ++ +
Sbjct: 61 VSSLFAAEQGIRPSENSEISKEESELLGY 89


>gi|332157700|ref|YP_004422979.1| hypothetical protein PNA2_0057 [Pyrococcus sp. NA2]
 gi|331033163|gb|AEC50975.1| hypothetical protein PNA2_0057 [Pyrococcus sp. NA2]
          Length = 239

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 6/60 (10%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVL 66
          P+P     GK +R  R I G+SQ +L E LG++   +  YE G  +  GAS ++   E L
Sbjct: 21 PDP-----GKTMRKWREIFGISQTELAEYLGVSSSVISDYEGGRRKSPGASTIRKFVEAL 75


>gi|257871225|ref|ZP_05650878.1| transcriptional regulator [Enterococcus gallinarum EG2]
 gi|257805389|gb|EEV34211.1| transcriptional regulator [Enterococcus gallinarum EG2]
          Length = 346

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 8/65 (12%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ IR  R   G++QE+L + LG+T   V K+EKG +        H   +L +PI+ 
Sbjct: 1  MEMGEVIRQYRKKKGLTQEELAKRLGVTAPAVNKWEKGHS--------HPDILLLAPIAR 52

Query: 73 FFDVS 77
            D+S
Sbjct: 53 LLDIS 57


>gi|323356598|ref|YP_004222994.1| transcriptional regulator [Microbacterium testaceum StLB037]
 gi|323272969|dbj|BAJ73114.1| predicted transcriptional regulator [Microbacterium testaceum
          StLB037]
          Length = 197

 Score = 36.2 bits (82), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 19/79 (24%), Positives = 38/79 (48%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G  +R  R  LG+S + L E  G++F  V + E+G+       LQ ++  L  P++  
Sbjct: 15 TLGAAVRDARKRLGLSVQALSEKAGVSFGLVSQLERGLGNPSLQSLQRLAGALGIPVAQL 74

Query: 74 FDVSPTVCSDISSEENNVM 92
           D      + ++  + ++M
Sbjct: 75 LDEPAVPLAVVTRAKRHIM 93


>gi|149916489|ref|ZP_01905006.1| transcriptional regulator, XRE family protein [Roseobacter sp.
          AzwK-3b]
 gi|149809591|gb|EDM69447.1| transcriptional regulator, XRE family protein [Roseobacter sp.
          AzwK-3b]
          Length = 435

 Score = 36.2 bits (82), Expect = 1.4,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 31/58 (53%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P    +G RIR RR++ G+ Q +L + +GI+   +   E    R+    L  ++EVLE
Sbjct: 2  PESSMIGTRIRERRVMNGIRQSELAKMVGISPSYLNLIEHNRRRIAGKTLIKLAEVLE 59


>gi|149203629|ref|ZP_01880598.1| transcriptional regulator, XRE family protein [Roseovarius sp.
          TM1035]
 gi|149142746|gb|EDM30788.1| transcriptional regulator, XRE family protein [Roseovarius sp.
          TM1035]
          Length = 436

 Score = 36.2 bits (82), Expect = 1.4,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 30/58 (51%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P  + +G RIR RR++ GM Q  L +  GI+   +   E    R+G   L  ++E L+
Sbjct: 2  PDRLMIGTRIRERRVLNGMRQSDLAQRAGISPSYLNLIEHNHRRIGGKTLLKLAEALK 59


>gi|304387680|ref|ZP_07369865.1| phage repressor [Neisseria meningitidis ATCC 13091]
 gi|304338290|gb|EFM04415.1| phage repressor [Neisseria meningitidis ATCC 13091]
          Length = 125

 Score = 36.2 bits (82), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 26/89 (29%), Positives = 43/89 (48%), Gaps = 17/89 (19%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R++ +R  LG++Q +  E  GI  +   KYE+GV            +VL S ++   D
Sbjct: 8  GNRLKEKRKFLGLTQAQAAEKAGIERETWGKYERGV-------FMPSGDVLLSFLNMGID 60

Query: 76 VS----------PTVCSDISSEENNVMDF 94
          VS          P+  S+IS EE+ ++ +
Sbjct: 61 VSSLFAAEQGIRPSENSEISKEESELLGY 89


>gi|290580727|ref|YP_003485119.1| hypothetical protein SmuNN2025_1201 [Streptococcus mutans NN2025]
 gi|254997626|dbj|BAH88227.1| hypothetical protein [Streptococcus mutans NN2025]
          Length = 294

 Score = 36.2 bits (82), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 20/53 (37%), Positives = 28/53 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          R+R  R  LG+SQEKL E L I+ Q + K+E G        L  +S+  +  I
Sbjct: 6  RLRDYRKQLGLSQEKLAEELHISRQAITKWESGAGTPDVVNLMALSDFFQVSI 58


>gi|253578635|ref|ZP_04855906.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849578|gb|EES77537.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 220

 Score = 36.2 bits (82), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
           +G RI+ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 39  IGSRIKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 98

Query: 74  FDVSPTVCSDIS 85
              +    +DI+
Sbjct: 99  KGETDEYETDIT 110


>gi|330830628|ref|YP_004393580.1| transcriptional protein [Aeromonas veronii B565]
 gi|328805764|gb|AEB50963.1| Transcriptional protein [Aeromonas veronii B565]
          Length = 88

 Score = 36.2 bits (82), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 29/52 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          + VGK+IR  R  +G+S+ K  + LG+    ++ YE G   VG + L  ++ 
Sbjct: 6  VTVGKKIRQIREAVGLSRPKFADLLGVPPTTLKNYELGYREVGGAFLVALAH 57


>gi|302879146|ref|YP_003847710.1| helix-turn-helix domain-containing protein [Gallionella
          capsiferriformans ES-2]
 gi|302581935|gb|ADL55946.1| helix-turn-helix domain protein [Gallionella capsiferriformans
          ES-2]
          Length = 117

 Score = 36.2 bits (82), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 29/49 (59%)

Query: 22 RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          RR  L  +Q +L E +G+  + V ++E+G N     RL+ ++E L+ P+
Sbjct: 16 RRKKLNWTQAELAERIGVDTETVSRFERGSNLPSLHRLEKLAEALKIPL 64


>gi|325662744|ref|ZP_08151338.1| hypothetical protein HMPREF0490_02078 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|325470981|gb|EGC74209.1| hypothetical protein HMPREF0490_02078 [Lachnospiraceae bacterium
          4_1_37FAA]
          Length = 194

 Score = 36.2 bits (82), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 34/60 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R   G +Q+ L   LG + + +QKYE G   V  + +  +++VL++  ++  
Sbjct: 9  IGERIKTLRKKRGYNQKDLATLLGKSLRTIQKYESGEIEVSIAMVNELAKVLDTTSTYLL 68


>gi|253580755|ref|ZP_04858019.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251848126|gb|EES76092.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 220

 Score = 36.2 bits (82), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
           +G RI+ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 39  IGSRIKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 98

Query: 74  FDVSPTVCSDIS 85
              +    +DI+
Sbjct: 99  KGETDEYETDIT 110


>gi|261366797|ref|ZP_05979680.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
 gi|282571333|gb|EFB76868.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
          Length = 117

 Score = 36.2 bits (82), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 17/62 (27%), Positives = 31/62 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VGKR++  R  +G SQ K+ + LG T   + +YE G +       +  ++  +  + +
Sbjct: 2  IEVGKRLKALRESIGFSQVKMAQALGSTQSSINRYENGQSSPSVELFRRYADYFDVSLDY 61

Query: 73 FF 74
           F
Sbjct: 62 IF 63


>gi|49474962|ref|YP_033003.1| hypothetical protein BH01480 [Bartonella henselae str. Houston-1]
 gi|49237767|emb|CAF26960.1| hypothetical protein BH01480 [Bartonella henselae str. Houston-1]
          Length = 180

 Score = 36.2 bits (82), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 1/88 (1%)

Query: 15  VGKRIRLRRMILGMSQEK-LGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + KR R  R ILG ++ K   E LG+T   +  YE GV+   AS L    E+    + + 
Sbjct: 12  LAKRFREVRRILGFTERKQFAEHLGVTAGSIGTYETGVSEPTASALSKYQEICGVSLDWL 71

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
              +  + +D++  +       + P GL
Sbjct: 72  VTGNGEMFTDMAKAKAAGFKPQAIPAGL 99


>gi|308067920|ref|YP_003869525.1| transcriptional regulator [Paenibacillus polymyxa E681]
 gi|305857199|gb|ADM68987.1| Transcriptional regulator [Paenibacillus polymyxa E681]
          Length = 122

 Score = 36.2 bits (82), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 25/99 (25%), Positives = 44/99 (44%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N G RI   R   G+ QE+L + LGIT   +  YEK   +     L  ++++    I +
Sbjct: 1   MNYGSRIAELREHKGLKQEELAQSLGITRAALSHYEKNRRKPDFEILTKLADIFGVTIDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               +    + + S+    +D +   D   L R+ + ID
Sbjct: 61  LVGRTSHPAAILDSDVREFVDQLELSDEDILRRFNLTID 99


>gi|262197484|ref|YP_003268693.1| XRE family transcriptional regulator [Haliangium ochraceum DSM
          14365]
 gi|262080831|gb|ACY16800.1| transcriptional regulator, XRE family [Haliangium ochraceum DSM
          14365]
          Length = 131

 Score = 36.2 bits (82), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 15/54 (27%), Positives = 29/54 (53%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           +G+ +R  R   G++QE+  E +G++ +   + E+G +       QHI+  LE
Sbjct: 8  TMGREMRRARTAQGLTQERAAEAIGVSVEFYARVERGKSHPSVETFQHIASTLE 61


>gi|159186071|ref|NP_356428.2| transcriptional regulator [Agrobacterium tumefaciens str. C58]
 gi|159141205|gb|AAK89213.2| transcriptional regulator [Agrobacterium tumefaciens str. C58]
          Length = 208

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 33/66 (50%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +++ +G  +R  R  LG++   L    G++   + K E G      + LQ +S+ L  
Sbjct: 14 NNLEMAIGHEVRAYRKKLGITVTDLASATGVSVGMLSKIENGNISPSLTTLQTLSKALGV 73

Query: 69 PISFFF 74
          PI+ FF
Sbjct: 74 PITAFF 79


>gi|145298283|ref|YP_001141124.1| transcriptional protein [Aeromonas salmonicida subsp. salmonicida
          A449]
 gi|142851055|gb|ABO89376.1| transcriptional protein [Aeromonas salmonicida subsp. salmonicida
          A449]
          Length = 88

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 29/52 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          + VGK+IR  R  +G+S+ K  + LG+    ++ YE G   VG + L  ++ 
Sbjct: 6  VTVGKKIRQIREAVGLSRPKFADLLGVPPTTLKNYELGYREVGGAFLVALAH 57


>gi|332980702|ref|YP_004462143.1| helix-turn-helix domain-containing protein [Mahella australiensis
          50-1 BON]
 gi|332698380|gb|AEE95321.1| helix-turn-helix domain protein [Mahella australiensis 50-1 BON]
          Length = 80

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 16/67 (23%), Positives = 35/67 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++ RR   G++QE+L   +G+    + K E G  R   +  + I++ L+   + FF+++ 
Sbjct: 14 LKERRNAKGLTQEQLAALIGVDRTTITKIENGSARPSVNNAKKIAQALDFDWTIFFNIND 73

Query: 79 TVCSDIS 85
             S+ +
Sbjct: 74 NQTSETA 80


>gi|289168608|ref|YP_003446877.1| transcriptional regulator [Streptococcus mitis B6]
 gi|288908175|emb|CBJ23017.1| transcriptional regulator [Streptococcus mitis B6]
          Length = 228

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 13/57 (22%), Positives = 33/57 (57%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  L ++Q+++ E LG++FQ    +E+G+      ++  +  +L+    +F
Sbjct: 5  EKLKARRKELKLTQKEIAEQLGVSFQAYSAWERGIKEPSKEKVSQLENILKVAKGYF 61


>gi|260460417|ref|ZP_05808669.1| transcriptional regulator, XRE family [Mesorhizobium opportunistum
           WSM2075]
 gi|259034062|gb|EEW35321.1| transcriptional regulator, XRE family [Mesorhizobium opportunistum
           WSM2075]
          Length = 238

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 17/64 (26%), Positives = 32/64 (50%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R  LG++   L     I+   + K E G+     + LQ +S  L  P+
Sbjct: 49  LEVAIGREVRAFRKKLGITVADLAVATDISLGMLSKIENGITSPSLTTLQALSRALGVPV 108

Query: 71  SFFF 74
           + FF
Sbjct: 109 TAFF 112


>gi|239945081|ref|ZP_04697018.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Streptomyces roseosporus NRRL 15998]
 gi|239991543|ref|ZP_04712207.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Streptomyces roseosporus NRRL 11379]
 gi|291448543|ref|ZP_06587933.1| UDP-N-acetylglucosamine transferase [Streptomyces roseosporus
          NRRL 15998]
 gi|291351490|gb|EFE78394.1| UDP-N-acetylglucosamine transferase [Streptomyces roseosporus
          NRRL 15998]
          Length = 509

 Score = 36.2 bits (82), Expect = 1.6,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWTQTQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|52079830|ref|YP_078621.1| transcriptional regulator [Bacillus licheniformis ATCC 14580]
 gi|52785200|ref|YP_091029.1| YqaE [Bacillus licheniformis ATCC 14580]
 gi|52003041|gb|AAU22983.1| probable transcriptional regulator (phage-related) [Bacillus
           licheniformis ATCC 14580]
 gi|52347702|gb|AAU40336.1| YqaE [Bacillus licheniformis ATCC 14580]
          Length = 122

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 28/95 (29%), Positives = 43/95 (45%), Gaps = 7/95 (7%)

Query: 13  INVGKRIR-LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +  G R+R LR+M   +SQ+KLGE LG+    +  YE+         L  I++  +  I 
Sbjct: 1   MKFGDRLRELRKMRPNLSQKKLGEHLGLAESTISMYEQNRREPEYEILIKIADYFDVSID 60

Query: 72  FFF-DVSPTVCSDISSEE-----NNVMDFISTPDG 100
           +      P V   I  +E     N+   FI+  DG
Sbjct: 61  YLLRGTDPKVQDKIFEDEAKRILNDPKTFIAARDG 95


>gi|261820979|ref|YP_003259085.1| XRE family transcriptional regulator [Pectobacterium wasabiae
          WPP163]
 gi|261604992|gb|ACX87478.1| transcriptional regulator, XRE family [Pectobacterium wasabiae
          WPP163]
          Length = 99

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR+RL R+  G+ Q +LG   G+       +V +YE+ V+      +   + VL+ P 
Sbjct: 6  IGKRLRLARVNKGLKQAELGCLAGLDEETASSRVSQYEREVSAPDFGLVSRFATVLDVPE 65

Query: 71 SFFFDV 76
          ++F+ V
Sbjct: 66 AYFYAV 71


>gi|117620095|ref|YP_855824.1| transcriptional protein [Aeromonas hydrophila subsp. hydrophila
          ATCC 7966]
 gi|117561502|gb|ABK38450.1| transcriptional protein [Aeromonas hydrophila subsp. hydrophila
          ATCC 7966]
          Length = 88

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 29/52 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          + VGK+IR  R  +G+S+ K  + LG+    ++ YE G   VG + L  ++ 
Sbjct: 6  VTVGKKIRQIREAVGLSRPKFADLLGVPPTTLKNYELGYREVGGAFLVALAH 57


>gi|237732671|ref|ZP_04563152.1| DNA-binding protein [Mollicutes bacterium D7]
 gi|229384247|gb|EEO34338.1| DNA-binding protein [Coprobacillus sp. D7]
          Length = 344

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 41/69 (59%), Gaps = 4/69 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP--- 69
          + + + I+ +R+ LG +QE+L + L +T   V K+E+G++    + L  ++ +L++    
Sbjct: 1  MKINEIIKEKRLALGYTQEQLAKFLNLTTPAVNKWERGISYPDITILPALARILKTDLNT 60

Query: 70 -ISFFFDVS 77
           +SF  D+S
Sbjct: 61 LLSFKDDLS 69


>gi|254390574|ref|ZP_05005789.1| UDP-N-acetylglucosamine transferase [Streptomyces clavuligerus
          ATCC 27064]
 gi|294815656|ref|ZP_06774299.1| UDP-N-acetylglucosamine transferase [Streptomyces clavuligerus
          ATCC 27064]
 gi|326444005|ref|ZP_08218739.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          clavuligerus ATCC 27064]
 gi|197704276|gb|EDY50088.1| UDP-N-acetylglucosamine transferase [Streptomyces clavuligerus
          ATCC 27064]
 gi|294328255|gb|EFG09898.1| UDP-N-acetylglucosamine transferase [Streptomyces clavuligerus
          ATCC 27064]
          Length = 509

 Score = 36.2 bits (82), Expect = 1.6,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWTQTQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|167756456|ref|ZP_02428583.1| hypothetical protein CLORAM_01989 [Clostridium ramosum DSM 1402]
 gi|167703864|gb|EDS18443.1| hypothetical protein CLORAM_01989 [Clostridium ramosum DSM 1402]
          Length = 344

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 41/69 (59%), Gaps = 4/69 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP--- 69
          + + + I+ +R+ LG +QE+L + L +T   V K+E+G++    + L  ++ +L++    
Sbjct: 1  MKINEIIKEKRLALGYTQEQLAKFLNLTTPAVNKWERGISYPDITILPALARILKTDLNT 60

Query: 70 -ISFFFDVS 77
           +SF  D+S
Sbjct: 61 LLSFKDDLS 69


>gi|329920508|ref|ZP_08277240.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          1401G]
 gi|328936184|gb|EGG32637.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          1401G]
          Length = 87

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 34/61 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++IR  R+  G++QE+L E + ++   V K+E G      + L+ I++ L   + +  
Sbjct: 3  LGEKIRNARVEAGLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKVIADALGVTVDYLL 62

Query: 75 D 75
          D
Sbjct: 63 D 63


>gi|254519524|ref|ZP_05131580.1| DNA-binding protein [Clostridium sp. 7_2_43FAA]
 gi|226913273|gb|EEH98474.1| DNA-binding protein [Clostridium sp. 7_2_43FAA]
          Length = 349

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 38/63 (60%), Gaps = 4/63 (6%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV----LESPISFFF 74
          I+ RR+  G++QE++ E LG++   V K+EKG++    + L  ++ +    L + +SF  
Sbjct: 7  IKERRIDQGLTQEQVAEALGVSTPAVNKWEKGISYPDITILPALARLLRVDLNTLLSFKE 66

Query: 75 DVS 77
          DV+
Sbjct: 67 DVT 69


>gi|261404033|ref|YP_003240274.1| XRE family transcriptional regulator [Paenibacillus sp. Y412MC10]
 gi|261280496|gb|ACX62467.1| transcriptional regulator, XRE family [Paenibacillus sp.
          Y412MC10]
          Length = 272

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 31/65 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K I   R    ++QE L   LG+TFQ V K+E G      + L  +S +L+  I   F
Sbjct: 5  LAKNINRYRKERRLTQEGLAHKLGVTFQAVSKWETGQTMPDIALLPELSRLLDVSIDKLF 64

Query: 75 DVSPT 79
            S T
Sbjct: 65 GYSST 69


>gi|311894148|dbj|BAJ26556.1| putative transcriptional regulator [Kitasatospora setae KM-6054]
          Length = 407

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 9/65 (13%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG---------VNRVGASRLQHISE 64
           +GKR++ +R+ LGM Q  L   +G T   V K E G         +N++ A+   H ++
Sbjct: 7  TIGKRVKRQRLRLGMPQADLAAAIGRTQGWVSKVENGKVELDRASIINQLAAALHCHPND 66

Query: 65 VLESP 69
          ++E P
Sbjct: 67 LIERP 71


>gi|225017295|ref|ZP_03706487.1| hypothetical protein CLOSTMETH_01221 [Clostridium methylpentosum
          DSM 5476]
 gi|224949912|gb|EEG31121.1| hypothetical protein CLOSTMETH_01221 [Clostridium methylpentosum
          DSM 5476]
          Length = 81

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 15/78 (19%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGEC----------LGITFQQVQKYEKGVNRVGASRLQH 61
          DI +GK IR  R      Q+KL +           LG T     K E G+  + AS L  
Sbjct: 8  DIPLGKNIRSIR-----KQKKLTQMDVVRELELAGLGTTRSSYAKIEAGIQHIYASELIA 62

Query: 62 ISEVLESPISFFFDVSPT 79
          I+E+L+ P++  F  +PT
Sbjct: 63 IAEILDVPLTELFRSNPT 80


>gi|210618124|ref|ZP_03291909.1| hypothetical protein CLONEX_04142 [Clostridium nexile DSM 1787]
 gi|210148986|gb|EEA79995.1| hypothetical protein CLONEX_04142 [Clostridium nexile DSM 1787]
          Length = 122

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 29/52 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +GKRI++ R+   ++QE + + +GIT Q V   E G   V  + L  I+  L
Sbjct: 8  IGKRIKIARIKKNLTQEAIADKIGITPQHVSNIETGNASVSLTTLVAIANTL 59


>gi|270208615|ref|YP_003329386.1| hypothetical protein pSmeSM11ap088 [Sinorhizobium meliloti]
 gi|76880889|gb|ABA56059.1| hypothetical protein [Sinorhizobium meliloti]
          Length = 165

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 21/82 (25%), Positives = 38/82 (46%), Gaps = 2/82 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLE-S 68
           VD  +   ++  R   G+S+  L   LG++     +YE+G   R+   RL H+ E++   
Sbjct: 40  VDEKISAWLKKTREAKGISRADLAHLLGLSVSVYGRYERGSEARLSIPRLIHLCEIMGFM 99

Query: 69  PISFFFDVSPTVCSDISSEENN 90
           P+   FD +P +      E  +
Sbjct: 100 PLDVIFDTAPHLWGKTLEEAED 121


>gi|268592289|ref|ZP_06126510.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291312068|gb|EFE52521.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 106

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 2/77 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FF 73
          VG RIR  R    MS ++L   LGI+ Q   ++E G  R+    L  ISE+L+  I    
Sbjct: 9  VGARIRTLRKDQNMSIQQLSTLLGISQQHQSRHELGEIRIHVDTLYSISEILDLDIQELI 68

Query: 74 FDVS-PTVCSDISSEEN 89
           D + P   + +S+++N
Sbjct: 69 VDFAIPIPVNTMSNKQN 85


>gi|153955561|ref|YP_001396326.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219855954|ref|YP_002473076.1| hypothetical protein CKR_2611 [Clostridium kluyveri NBRC 12016]
 gi|146348419|gb|EDK34955.1| Predicted transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219569678|dbj|BAH07662.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 130

 Score = 36.2 bits (82), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 24/91 (26%), Positives = 46/91 (50%), Gaps = 8/91 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFF 74
           G  +++ R+  G+SQ++L   LG+T Q +  YE+       S ++ I ++L  +P   FF
Sbjct: 3   GLNLKIERIKKGLSQKQLASMLGVTNQTISDYERCKISPSLSNMEKICKILNINPRKLFF 62

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
                  ++   E + V++ I   D  +L+R
Sbjct: 63  -------NNDEKEGDKVLEIIIPEDNKKLDR 86


>gi|295398102|ref|ZP_06808151.1| XRE family transcriptional regulator [Aerococcus viridans ATCC
          11563]
 gi|294973621|gb|EFG49399.1| XRE family transcriptional regulator [Aerococcus viridans ATCC
          11563]
          Length = 263

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 28/51 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +G+RI+  R  LGMSQ +  + +G T   V  +E G N     R++ I+ +
Sbjct: 7  LGERIKKIRKKLGMSQLEFSKAIGATKSAVSNWENGYNAPNNERIKAIANL 57


>gi|121607191|ref|YP_994998.1| XRE family transcriptional regulator [Verminephrobacter eiseniae
           EF01-2]
 gi|121551831|gb|ABM55980.1| transcriptional regulator, XRE family [Verminephrobacter eiseniae
           EF01-2]
          Length = 229

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 17/68 (25%), Positives = 39/68 (57%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G ++I + +D+ +G+++R RR  LG+  +++    GI+   + + E+G+  +    L  +
Sbjct: 34  GVRRIHSIIDLWLGEQLRRRRQALGLPLQQVARACGISVSLLSQLERGLRSISMRTLGAL 93

Query: 63  SEVLESPI 70
           ++ L  PI
Sbjct: 94  AQELRLPI 101


>gi|259047500|ref|ZP_05737901.1| Cro/CI family transcriptional regulator [Granulicatella adiacens
          ATCC 49175]
 gi|259035691|gb|EEW36946.1| Cro/CI family transcriptional regulator [Granulicatella adiacens
          ATCC 49175]
          Length = 180

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 38/80 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G ++R  R+  G++QE+L E   ++   + + E  ++         I EVL  P + 
Sbjct: 1  MEIGHQLRALRIQKGLTQEELAERTDLSKGYISQLENDLSSPSMDTFFDILEVLGCPAAD 60

Query: 73 FFDVSPTVCSDISSEENNVM 92
          FFD  P     I  EE+  M
Sbjct: 61 FFDEGPEEALTIYREEDMTM 80


>gi|291545509|emb|CBL18617.1| Predicted transcriptional regulators [Ruminococcus sp. SR1/5]
          Length = 110

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 36/69 (52%), Gaps = 3/69 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE---SPIS 71
          +G RI+  R     +QE++ + +G++ Q+  + E GVN V    L  ++EVL      I+
Sbjct: 5  LGSRIKALRSAKNFTQEQVADQIGVSRQKYARIESGVNSVTLDILSKVAEVLGVTVGDIT 64

Query: 72 FFFDVSPTV 80
             D SP V
Sbjct: 65 RVLDESPVV 73


>gi|268590867|ref|ZP_06125088.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
 gi|291313652|gb|EFE54105.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
          Length = 103

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 35/61 (57%), Gaps = 1/61 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG R++  R   G +  +L +  G+ + QQ+ +YEKGVNR+G   L  +  VL + I  F
Sbjct: 11 VGFRLKQLRNESGFTAFQLTKEAGLKSEQQLYRYEKGVNRIGIDELVAVLNVLNARIGDF 70

Query: 74 F 74
          F
Sbjct: 71 F 71


>gi|239624744|ref|ZP_04667775.1| DNA-binding protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239521130|gb|EEQ60996.1| DNA-binding protein [Clostridiales bacterium 1_7_47FAA]
          Length = 183

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 27/90 (30%), Positives = 44/90 (48%), Gaps = 4/90 (4%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
           DIN+GK+++  R   GMS  +L +  G+T   + + E+ +       L+ I++ L+ P+ 
Sbjct: 3   DINLGKKVQDFRNKSGMSLRELAKRSGLTASMLSQIERDLVNPSIGTLKAIAQALDVPMF 62

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDG 100
            FF D  P V   +   EN     I  PD 
Sbjct: 63  KFFKDDEPQVQMIVRRGENKT---IGHPDA 89


>gi|197284938|ref|YP_002150810.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227355341|ref|ZP_03839742.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|194682425|emb|CAR42298.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227164565|gb|EEI49436.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 91

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 31/60 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           G  I+ +R  LG++ + L   L ++ QQ+ +YE G   +  + L  I  +L+S  S F 
Sbjct: 23 TGLFIKYKRKELGLTGQDLAIILNVSQQQISRYENGTTNITVTLLNKILMILDSSWSEFL 82


>gi|120400369|gb|ABM21424.1| transcriptional regulator [Lactobacillus johnsonii]
 gi|120400393|gb|ABM21447.1| transcriptional regulator [Lactobacillus johnsonii]
          Length = 374

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 1/68 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R++  R    M+   L E +G+T Q + +YE+          Q I   L+ P++FF +
Sbjct: 5  GTRLKEARYFRKMTITDLAEKIGVTKQMISRYERETGEPSLETFQKIVSALKFPVNFFTE 64

Query: 76 V-SPTVCS 82
            S   CS
Sbjct: 65 SDSNNFCS 72


>gi|319440538|ref|ZP_07989694.1| putative DNA-binding protein [Corynebacterium variabile DSM
          44702]
          Length = 221

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 16/64 (25%), Positives = 31/64 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ +G R+R  R   GMS   L E  G++   + K E        + + H++  L+ P+
Sbjct: 24 IEVGLGHRVRALRTSRGMSVAALSERAGLSKAMLSKIENAQTSCSLTSVAHLAAALDVPV 83

Query: 71 SFFF 74
          +  F
Sbjct: 84 ATLF 87


>gi|313610053|gb|EFR85399.1| DNA-binding protein [Listeria monocytogenes FSL F2-208]
          Length = 89

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 29/48 (60%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+ +S   
Sbjct: 14 GLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETSVSTLL 61


>gi|329930359|ref|ZP_08283948.1| methyltransferase domain protein [Paenibacillus sp. HGF5]
 gi|328935085|gb|EGG31571.1| methyltransferase domain protein [Paenibacillus sp. HGF5]
          Length = 272

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 31/65 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K I   R    ++QE L   LG+TFQ V K+E G      + L  +S +L+  I   F
Sbjct: 5  LAKNINRYRKEQRLTQEGLAHKLGVTFQAVSKWETGQTMPDIALLPELSRLLDVSIDKLF 64

Query: 75 DVSPT 79
            S T
Sbjct: 65 GYSST 69


>gi|312831462|emb|CBY17644.1| putative transcription factor [Sinorhizobium meliloti]
          Length = 198

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 29/123 (23%), Positives = 54/123 (43%), Gaps = 12/123 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLE-S 68
           +D  +   ++  R   G+S+  L   LG++     +YE+G   R+   RL H+ E++   
Sbjct: 73  MDEKISAWLKQTREAKGISRADLAHLLGLSVSVYGRYERGSEARLSIPRLIHLCEIMGFM 132

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           P+   FD++P +      E           D L L +   Q+    +R  +I L+R +  
Sbjct: 133 PLDVIFDIAPHLWGKTLQEAE---------DRLTLTKLVEQLPQDTMRD-LIRLLRRMTP 182

Query: 129 SEK 131
            E+
Sbjct: 183 GEQ 185


>gi|291542133|emb|CBL15243.1| Predicted transcriptional regulators [Ruminococcus bromii L2-63]
          Length = 108

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 20/80 (25%), Positives = 41/80 (51%), Gaps = 4/80 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R+   MSQ +L E L +    + KYEKG+ +     L++++E+    + +   +S
Sbjct: 6  RLKELRVDNDMSQTELAEKLNLKASAISKYEKGITQPSIDTLKNLAEIFSVTVDYLIGMS 65

Query: 78 ----PTVCSDISSEENNVMD 93
              P   S I+  E ++++
Sbjct: 66 DIKNPYSNSQITPNEADLIE 85


>gi|29374945|ref|NP_814098.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
           V583]
 gi|257088816|ref|ZP_05583177.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           CH188]
 gi|281416438|ref|YP_003347358.1| cI repressor protein [Enterococcus phage phiFL4A]
 gi|29342403|gb|AAO80169.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
           V583]
 gi|256997628|gb|EEU84148.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           CH188]
 gi|270209614|gb|ACZ64153.1| cI repressor protein [Enterococcus phage phiFL4A]
 gi|315160614|gb|EFU04631.1| toxin-antitoxin system, antitoxin component, Xre family
           [Enterococcus faecalis TX0645]
 gi|315579460|gb|EFU91651.1| toxin-antitoxin system, antitoxin component, Xre family
           [Enterococcus faecalis TX0630]
          Length = 120

 Score = 36.2 bits (82), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 2/75 (2%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPISFFFDVSPTVCSDISS 86
           MSQ++L   LG+  + +  YE+GV   V +  L+ ISE+ +  I +    S T      S
Sbjct: 17  MSQQELATFLGMKRENISNYERGVITNVSSDTLEKISELFDVSIDYLLGKSDTSNQKNES 76

Query: 87  EENNVMDFISTPDGL 101
               VM  + T DGL
Sbjct: 77  MAKQVMMRMDT-DGL 90


>gi|288871456|ref|ZP_06117657.2| DNA-binding protein [Clostridium hathewayi DSM 13479]
 gi|288863406|gb|EFC95704.1| DNA-binding protein [Clostridium hathewayi DSM 13479]
          Length = 222

 Score = 35.8 bits (81), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 36/62 (58%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D+++G+ I+ +R  L +SQE + E LG++ Q V K+E   ++  A  L  ++ V    
Sbjct: 20 AIDMSLGENIKTKRNELKLSQEYVAEQLGVSRQAVSKWETDQSQPKAKNLTELATVFHVG 79

Query: 70 IS 71
          +S
Sbjct: 80 LS 81


>gi|240145805|ref|ZP_04744406.1| toxin-antitoxin system, antitoxin component, Xre family
          [Roseburia intestinalis L1-82]
 gi|257202094|gb|EEV00379.1| toxin-antitoxin system, antitoxin component, Xre family
          [Roseburia intestinalis L1-82]
          Length = 87

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R++ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 10 IGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|218290717|ref|ZP_03494799.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
 gi|218239255|gb|EED06454.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
          Length = 77

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 31/65 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G RIR  R   GM+ E L   +GI+   +   E G   V    L  IS+VL+  + +
Sbjct: 7  VKIGSRIRSARQSKGMTVESLANAIGISKGSLSAIETGKRPVSLLNLTRISDVLDISLDY 66

Query: 73 FFDVS 77
             +S
Sbjct: 67 LVGLS 71


>gi|18977758|ref|NP_579115.1| hypothetical protein PF1386 [Pyrococcus furiosus DSM 3638]
 gi|18893499|gb|AAL81510.1| hypothetical protein PF1386 [Pyrococcus furiosus DSM 3638]
          Length = 239

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 6/60 (10%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVL 66
          P+P     GK +R  R I G+SQ +L E LG++   +  YE G  +  GAS ++   E L
Sbjct: 21 PDP-----GKTMRKWREIFGISQSELAEYLGVSSSVISDYEGGRRKSPGASTIRKFVEAL 75


>gi|271962441|ref|YP_003336637.1| XRE family transcriptional regulator [Streptosporangium roseum
          DSM 43021]
 gi|270505616|gb|ACZ83894.1| putative transcriptional regulator, XRE family [Streptosporangium
          roseum DSM 43021]
          Length = 99

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 34/65 (52%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +G+ +RLRR  LG++Q +L E  G+    V ++E G        L+ ++E LE  +
Sbjct: 29 IRFELGEAVRLRREQLGLTQSELAERTGLKQPAVARFEAGGTMPTIPMLERLAEALEMRL 88

Query: 71 SFFFD 75
          S  F 
Sbjct: 89 SVQFQ 93


>gi|255973355|ref|ZP_05423941.1| predicted protein [Enterococcus faecalis T2]
 gi|255966227|gb|EET96849.1| predicted protein [Enterococcus faecalis T2]
          Length = 186

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 37/80 (46%), Gaps = 1/80 (1%)

Query: 27  GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFFDVSPTVCSDIS 85
           G SQE   E LGI       Y KG   +  + ++ ++EV   +P  FF++  P   S++ 
Sbjct: 43  GKSQEAFAESLGIKKAAFNNYIKGRREIPNTLMETLAEVYSINPAVFFYEDVPMYISELK 102

Query: 86  SEENNVMDFISTPDGLQLNR 105
           +  N     +S  + L  +R
Sbjct: 103 TSSNITNKIVSIVEQLNESR 122


>gi|76798009|ref|ZP_00780267.1| phage repressor protein [Streptococcus agalactiae 18RS21]
 gi|76586632|gb|EAO63132.1| phage repressor protein [Streptococcus agalactiae 18RS21]
 gi|323127145|gb|ADX24442.1| repressor protein, putative [Streptococcus dysgalactiae subsp.
          equisimilis ATCC 12394]
          Length = 230

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 32/58 (55%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GKR++ RR+ LG SQ +L + L I       +E    +   S L+ ++ +L+ P ++F
Sbjct: 4  GKRLKKRRITLGYSQSELADKLHINRSSYFNWENEKTKPNQSNLKQLAILLDVPETYF 61


>gi|307325149|ref|ZP_07604353.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
 gi|306889295|gb|EFN20277.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
          Length = 509

 Score = 35.8 bits (81), Expect = 1.8,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 9  IGKLIRDARQHRGWTQSQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|206972991|ref|ZP_03233913.1| dna-binding protein [Bacillus cereus AH1134]
 gi|229194134|ref|ZP_04320999.1| Transcriptional regulator, MerR [Bacillus cereus ATCC 10876]
 gi|206731875|gb|EDZ49075.1| dna-binding protein [Bacillus cereus AH1134]
 gi|228589350|gb|EEK47304.1| Transcriptional regulator, MerR [Bacillus cereus ATCC 10876]
          Length = 184

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 33/63 (52%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +IN+G++I + R   G++ ++L E   IT   + + EKG+       L+ IS  L   + 
Sbjct: 3  NINIGEKIMIFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISAALNIALF 62

Query: 72 FFF 74
           FF
Sbjct: 63 NFF 65


>gi|114326843|ref|YP_744000.1| transcriptional regulator [Granulibacter bethesdensis CGDNIH1]
 gi|114315017|gb|ABI61077.1| transcriptional regulator [Granulibacter bethesdensis CGDNIH1]
          Length = 225

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 32/67 (47%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P  ++  +G ++R  R  LG++   L     ++   + K E G      + LQ +S  L 
Sbjct: 37  PASLEAAIGAKVRRLRQRLGITAADLAVEADLSAGMLSKIENGSTSPSLATLQALSRALN 96

Query: 68  SPISFFF 74
           +PIS FF
Sbjct: 97  TPISSFF 103


>gi|291543870|emb|CBL16979.1| Predicted transcriptional regulators [Ruminococcus sp. 18P13]
          Length = 194

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 30/55 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          I  G  IR  R+  GM+Q  L E LG++ + V K+E+G      S L  +S+ LE
Sbjct: 4  IRTGSLIRRLRLEQGMTQLALAERLGVSDKAVSKWERGCGAPDLSILPLLSQALE 58


>gi|255280876|ref|ZP_05345431.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
 gi|255268813|gb|EET62018.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
          Length = 359

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 16/32 (50%), Positives = 23/32 (71%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          IR RR  LG++QE++ E LG++   V K+EKG
Sbjct: 7  IRERRKALGLTQEQVAERLGVSAPAVNKWEKG 38


>gi|225571479|ref|ZP_03780475.1| hypothetical protein CLOHYLEM_07577 [Clostridium hylemonae DSM
           15053]
 gi|225159955|gb|EEG72574.1| hypothetical protein CLOHYLEM_07577 [Clostridium hylemonae DSM
           15053]
          Length = 361

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 23/94 (24%), Positives = 44/94 (46%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK I+  R + G +QE++ E LG++   V K+E GV+    + L  ++  L++ ++   
Sbjct: 5   LGKTIQQMRKVQGCTQEQMAETLGVSVAAVSKWENGVSCPDITLLPALARYLKTDLNALL 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                +    ++   N M  I    G +    FI
Sbjct: 65  SFHEKISEQEAAAVVNEMSEIFFRSGFEAAYEFI 98


>gi|220930162|ref|YP_002507071.1| XRE family transcriptional regulator [Clostridium cellulolyticum
          H10]
 gi|220000490|gb|ACL77091.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
          H10]
          Length = 108

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 18/64 (28%), Positives = 34/64 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRIR  R   G+++E+  E L ++   V + E+G  ++    L +IS+ L   + +  
Sbjct: 6  IGKRIRDERESFGLTRERFAEMLELSTNFVGQIERGEKKMSLETLINISDCLHISLDYLI 65

Query: 75 DVSP 78
            +P
Sbjct: 66 KGTP 69


>gi|154496484|ref|ZP_02035180.1| hypothetical protein BACCAP_00776 [Bacteroides capillosus ATCC
           29799]
 gi|150274567|gb|EDN01644.1| hypothetical protein BACCAP_00776 [Bacteroides capillosus ATCC
           29799]
          Length = 360

 Score = 35.8 bits (81), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 25/95 (26%), Positives = 49/95 (51%), Gaps = 8/95 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + + IR+ R   G++QE+L E +GIT   V K+E G      S +  +S ++E  ++ 
Sbjct: 3   VCLAENIRMLRKERGLTQEQLAEAMGITVGTVSKWETG------SCVPDVSLMME--LAE 54

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
           FF+ S  V      +   + D +     L++++Y+
Sbjct: 55  FFETSVDVLLGYEQQSMALEDRLERLKNLRMSKYY 89


>gi|261251841|ref|ZP_05944415.1| putrescine utilization regulator [Vibrio orientalis CIP 102891]
 gi|260938714|gb|EEX94702.1| putrescine utilization regulator [Vibrio orientalis CIP 102891]
          Length = 185

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 28/60 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I L R   G+SQ +L E  GIT   +   E G      S LQ I  V    +S FF
Sbjct: 6  IGKNIVLLRKEHGLSQRELAERAGITHSAISSIENGKVSPSVSSLQKIVNVFSLSLSEFF 65


>gi|22537417|ref|NP_688268.1| repressor protein [Streptococcus agalactiae 2603V/R]
 gi|77406937|ref|ZP_00783958.1| repressor protein, putative [Streptococcus agalactiae H36B]
 gi|22534293|gb|AAN00141.1|AE014250_4 repressor protein, putative [Streptococcus agalactiae 2603V/R]
 gi|77174457|gb|EAO77305.1| repressor protein, putative [Streptococcus agalactiae H36B]
          Length = 230

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 32/58 (55%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GKR++ RR+ LG SQ +L + L I       +E    +   S L+ ++ +L+ P ++F
Sbjct: 4  GKRLKKRRITLGYSQSELADKLHINRSSYFNWENEKTKPNQSNLKQLAILLDVPETYF 61


>gi|325970144|ref|YP_004246335.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
 gi|324025382|gb|ADY12141.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
          Length = 112

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 22/82 (26%), Positives = 40/82 (48%), Gaps = 4/82 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFF 73
          +G+RIR  R+  GM+Q  L   +G++       E G  ++    L  I++ L++ I S  
Sbjct: 8  LGQRIREARIKTGMTQATLSGIIGLSPSHYSHIESGKAKINLPTLVAIAQALDTTIDSLL 67

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
          +D  P +   I S + +  D +
Sbjct: 68 YDSIPVL---IDSYDKDFKDLL 86


>gi|160938164|ref|ZP_02085520.1| hypothetical protein CLOBOL_03058 [Clostridium bolteae ATCC
          BAA-613]
 gi|158438968|gb|EDP16724.1| hypothetical protein CLOBOL_03058 [Clostridium bolteae ATCC
          BAA-613]
          Length = 359

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 35/73 (47%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +DI +G RI   R    M+QE+L   LG++   V K+E G +    S L  ++  LE+ +
Sbjct: 1  MDIKLGPRIASLRRAKSMTQEQLALSLGVSPPAVSKWETGASCPDISLLCPLARALETNV 60

Query: 71 SFFFDVSPTVCSD 83
                  T+  +
Sbjct: 61 DTLLQFEETLTEE 73


>gi|319646361|ref|ZP_08000591.1| YqaE protein [Bacillus sp. BT1B_CT2]
 gi|317392111|gb|EFV72908.1| YqaE protein [Bacillus sp. BT1B_CT2]
          Length = 120

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 26/92 (28%), Positives = 41/92 (44%), Gaps = 6/92 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRI   R   G+SQ +L + LG +  ++  YE+G        L  I++  E    +  
Sbjct: 2   LGKRIAALRKEKGLSQYELADRLGFSRGKLANYEQGTREPDYETLIKIADFFEVSTDYLL 61

Query: 75  -DVSPTVCSDISSEE-----NNVMDFISTPDG 100
             V P V   I  +E     N+   F++  DG
Sbjct: 62  RGVDPKVQDKIFEDEAKRILNDPKTFLAARDG 93


>gi|295396255|ref|ZP_06806433.1| helix-turn-helix motif protein [Brevibacterium mcbrellneri ATCC
          49030]
 gi|294970909|gb|EFG46806.1| helix-turn-helix motif protein [Brevibacterium mcbrellneri ATCC
          49030]
          Length = 502

 Score = 35.8 bits (81), Expect = 1.9,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 36/66 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++IR  R   G++ E+LGE +G    Q+  +E G      + L  +++ L++  + 
Sbjct: 34 LSIGRKIRHFRTEQGLTLEQLGERVGRAASQISAFESGNREPSIAVLTALAKALDTSAAE 93

Query: 73 FFDVSP 78
            D +P
Sbjct: 94 LLDPTP 99


>gi|251789524|ref|YP_003004245.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247538145|gb|ACT06766.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 128

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 21/57 (36%), Positives = 31/57 (54%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          P    +G RI   R  L ++Q++L E LGI  Q +  YE G  +V AS L  ++ +L
Sbjct: 18 PFFKELGARIAQARKELQLTQQQLAEQLGIAQQTMAHYEGGRLKVSASLLPQLATIL 74


>gi|222152359|ref|YP_002561534.1| DNA-binding protein [Streptococcus uberis 0140J]
 gi|222113170|emb|CAR40616.1| DNA-binding protein [Streptococcus uberis 0140J]
          Length = 112

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 32/63 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KRIRL R+  G++QE+L E   +    V K E     +  + L+ +   L+     FF
Sbjct: 10 ISKRIRLLRLEKGLTQEQLEEKADLGTNYVYKLENQSTNIKVNTLEKVMTALDVDFEEFF 69

Query: 75 DVS 77
          D+S
Sbjct: 70 DIS 72


>gi|187477795|ref|YP_785819.1| phage repressor [Bordetella avium 197N]
 gi|115422381|emb|CAJ48906.1| Putative phage repressor [Bordetella avium 197N]
          Length = 360

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 16/60 (26%), Positives = 35/60 (58%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + +RI+  R    +S E+L E +G+++Q VQ++E G      +RL+ +++ L + + + 
Sbjct: 29 TIHQRIKQLREQRQLSMEQLAELVGVSWQTVQQWENGKTAPKRARLEAVAKALMTTVEYL 88


>gi|90962809|ref|YP_536724.1| transcriptional regulator [Lactobacillus salivarius UCC118]
 gi|90822003|gb|ABE00641.1| Transcriptional regulator [Lactobacillus salivarius UCC118]
 gi|300215422|gb|ADJ79835.1| Transcriptional regulator [Lactobacillus salivarius CECT 5713]
          Length = 376

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 34/62 (54%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++  R+  G++++ L +  GI+ Q +  YE G    G+  L  I +VL+ P ++F   S
Sbjct: 9  KLKEARISRGLTKKALADRTGISRQMISNYELGKTNPGSKNLLSIIKVLDFPFTYFTAES 68

Query: 78 PT 79
           T
Sbjct: 69 KT 70


>gi|327481036|gb|AEA84346.1| XRE family transcriptional regulator [Pseudomonas stutzeri DSM
          4166]
          Length = 83

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 36/70 (51%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + + +G+++R RR+  G++Q  L    GIT Q+V   E+G   VG      +   L+S +
Sbjct: 6  ITLRLGEQLRQRRLNRGLTQAALASLAGITRQKVIAIERGDLSVGMIAYARVLAALDSEL 65

Query: 71 SFFFDVSPTV 80
          +      PT+
Sbjct: 66 NVVPAAMPTL 75


>gi|319784815|ref|YP_004144291.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
 gi|317170703|gb|ADV14241.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
          Length = 238

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 17/64 (26%), Positives = 32/64 (50%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R  LG++   L     I+   + K E G+     + LQ +S  L  P+
Sbjct: 49  LEVAIGREVRAFRKKLGITVADLAVATDISLGMLSKIENGITSPSLTTLQALSRALGVPV 108

Query: 71  SFFF 74
           + FF
Sbjct: 109 TAFF 112


>gi|257455479|ref|ZP_05620712.1| helix-turn-helix domain protein [Enhydrobacter aerosaccus SK60]
 gi|257447104|gb|EEV22114.1| helix-turn-helix domain protein [Enhydrobacter aerosaccus SK60]
          Length = 115

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 17/71 (23%), Positives = 37/71 (52%), Gaps = 1/71 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  VG+ +   R+   M+Q ++ E LGI+   + + E+G   +   +L   +++ +  +
Sbjct: 7  IDKVVGQSLARHRLACNMTQAQVAEALGISVDAISRMERGTISLNLPKLMQFAKLFKCKL 66

Query: 71 S-FFFDVSPTV 80
          S F  + SP +
Sbjct: 67 SDFVIESSPLI 77


>gi|237731126|ref|ZP_04561607.1| P22 repressor protein c2 [Citrobacter sp. 30_2]
 gi|226906665|gb|EEH92583.1| P22 repressor protein c2 [Citrobacter sp. 30_2]
          Length = 208

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 32/61 (52%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG+RI+  R +   SQ++LG+  G++   V  +EK +N  G   L  +++   + I + 
Sbjct: 3  TVGQRIKALRRVTKTSQKELGKFCGVSDVAVGYWEKDINVPGGESLSKLAKYFNTSIDYI 62

Query: 74 F 74
           
Sbjct: 63 L 63


>gi|302541927|ref|ZP_07294269.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Streptomyces hygroscopicus ATCC 53653]
 gi|302459545|gb|EFL22638.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Streptomyces himastatinicus ATCC 53653]
          Length = 509

 Score = 35.8 bits (81), Expect = 1.9,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 9  IGKLIRDARQHRGWTQSQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|34496668|ref|NP_900883.1| hypothetical protein CV_1213 [Chromobacterium violaceum ATCC
          12472]
 gi|34102523|gb|AAQ58888.1| conserved hypothetical protein [Chromobacterium violaceum ATCC
          12472]
          Length = 115

 Score = 35.8 bits (81), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 32/60 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ +   R  LGM+QE L E LG+  + + + E+G  +    RL  ++EVL   ++   
Sbjct: 13 IGQAVARHRKALGMNQEDLAEKLGVGLEAISRLERGRIKPTLVRLLELAEVLGCSVNDLL 72


>gi|290956608|ref|YP_003487790.1| UDP-N-acetylglucosamine transferase [Streptomyces scabiei 87.22]
 gi|260646134|emb|CBG69227.1| putative UDP-N-acetylglucosamine transferase [Streptomyces
          scabiei 87.22]
          Length = 509

 Score = 35.8 bits (81), Expect = 2.0,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 9  IGKLIRDARQHRGWTQSQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|153811810|ref|ZP_01964478.1| hypothetical protein RUMOBE_02203 [Ruminococcus obeum ATCC 29174]
 gi|149832213|gb|EDM87298.1| hypothetical protein RUMOBE_02203 [Ruminococcus obeum ATCC 29174]
          Length = 209

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R++ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 10 IGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|16799151|ref|NP_469419.1| hypothetical protein lin0073 [Listeria innocua Clip11262]
 gi|16412493|emb|CAC95306.1| lin0073 [Listeria innocua Clip11262]
          Length = 158

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 37/82 (45%), Gaps = 10/82 (12%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           KR+   R   G SQ KL + LG +  QV  YE+G        L  I+E        FF+
Sbjct: 3  SKRLSELRKKKGFSQYKLADELGFSRGQVANYEQGTREPDYQTLLKIAE--------FFN 54

Query: 76 VSPTVCSDISSEENNVMDFIST 97
          VS      +  ++NN+ D I+ 
Sbjct: 55 VSTDYL--LGRDDNNLADTIAA 74


>gi|256545968|ref|ZP_05473323.1| transcriptional regulator [Anaerococcus vaginalis ATCC 51170]
 gi|256398390|gb|EEU12012.1| transcriptional regulator [Anaerococcus vaginalis ATCC 51170]
          Length = 166

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 34/59 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G++I+ +R  L ++QE L + L I+ Q V K+EK ++      L  +SE+    I +F
Sbjct: 2  IGQKIKNKRKELNLTQEYLAKELNISRQAVSKWEKEISEPSMDNLIKLSEIFGVDIGYF 60


>gi|255280652|ref|ZP_05345207.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
 gi|255268589|gb|EET61794.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
          Length = 47

 Score = 35.8 bits (81), Expect = 2.0,   Method: Composition-based stats.
 Identities = 14/26 (53%), Positives = 21/26 (80%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNR 53
          M+QE+L E LG+TF  V K+E+GV++
Sbjct: 18 MTQEQLAEALGVTFASVSKWERGVSQ 43


>gi|170736644|ref|YP_001777904.1| XRE family transcriptional regulator [Burkholderia cenocepacia
          MC0-3]
 gi|169818832|gb|ACA93414.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
          MC0-3]
          Length = 111

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 4/63 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR+R  R+  G+SQE+LG   GI       +V +YE G +         +++VL  P SF
Sbjct: 13 KRLREARLRSGLSQEQLGIEAGIDEFSASARVNQYETGKHAPKLQTAHRLAQVLHVPTSF 72

Query: 73 FFD 75
           ++
Sbjct: 73 LYE 75


>gi|325918018|ref|ZP_08180182.1| Helix-turn-helix protein [Xanthomonas vesicatoria ATCC 35937]
 gi|325535782|gb|EGD07614.1| Helix-turn-helix protein [Xanthomonas vesicatoria ATCC 35937]
          Length = 128

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 16/63 (25%), Positives = 34/63 (53%), Gaps = 4/63 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQ----VQKYEKGVNRVGASRLQHISEVLESPIS 71
            R+   R + G+SQ  LG+ +G+  ++    + +YE  V  +G   L  +++VL+ P++
Sbjct: 11 AARLAQARQLRGLSQRALGDRMGLGKEKGSSRINRYEHQVTAIGFDNLNTLAQVLDVPVA 70

Query: 72 FFF 74
          +  
Sbjct: 71 YLL 73


>gi|300857657|ref|YP_003782640.1| HTH_3 family transcriptional regulator [Corynebacterium
           pseudotuberculosis FRC41]
 gi|300685111|gb|ADK28033.1| HTH_3-family transcription regulator [Corynebacterium
           pseudotuberculosis FRC41]
 gi|302205396|gb|ADL09738.1| Putative transcription regulator [Corynebacterium
           pseudotuberculosis C231]
 gi|302329950|gb|ADL20144.1| Putative transcription regulator [Corynebacterium
           pseudotuberculosis 1002]
 gi|308275634|gb|ADO25533.1| Putative transcription regulator [Corynebacterium
           pseudotuberculosis I19]
          Length = 475

 Score = 35.8 bits (81), Expect = 2.0,   Method: Composition-based stats.
 Identities = 32/126 (25%), Positives = 56/126 (44%), Gaps = 10/126 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G+SQ  L   L ++   V + E  V  +    L  I+EV     +FF 
Sbjct: 6   VGSRLRQLRKERGLSQANLAGTLELSASYVNQIEHDVRPLTLPVLHRITEVFGVDATFF- 64

Query: 75  DVSPTVCSDISSEENNVM-DFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
             S    S + +E ++VM D    P+ + L      +D         ++ R++V   ++Y
Sbjct: 65  --SKDDASRLLAEVHDVMLDKELCPEDIDLQELSDLVDHHP------DIARAVVEMHRRY 116

Query: 134 RTIEEE 139
           R + ++
Sbjct: 117 RNVRDK 122


>gi|291537564|emb|CBL10676.1| Helix-turn-helix [Roseburia intestinalis M50/1]
 gi|291560441|emb|CBL39241.1| Helix-turn-helix [butyrate-producing bacterium SSC/2]
          Length = 209

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R++ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 10 IGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|282601309|ref|ZP_06257987.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
 gi|282569451|gb|EFB74986.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
          Length = 117

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 16/62 (25%), Positives = 31/62 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VG+R++  R  +G SQ K+ + LG T   + +YE G +       +  ++  +  + +
Sbjct: 2  IEVGRRLKALRESIGFSQVKMAQALGTTQSSINRYENGQSSPSVELFRRYADYFDVSLDY 61

Query: 73 FF 74
           F
Sbjct: 62 IF 63


>gi|241664279|ref|YP_002982639.1| XRE family transcriptional regulator [Ralstonia pickettii 12D]
 gi|240866306|gb|ACS63967.1| transcriptional regulator, XRE family [Ralstonia pickettii 12D]
          Length = 117

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 3/86 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK I   RM   ++QE+L E LG+  + + ++E+G       RL  +++V   P+    
Sbjct: 14  LGKAIARERMARELTQEQLAELLGVEQETISRFERGSTLPPLPRLIQLADVFNVPLESLL 73

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
               T     + E  ++   ++  DG
Sbjct: 74  R---TTTGRPADEAVDISKMLAKLDG 96


>gi|254496262|ref|ZP_05109155.1| irep [Legionella drancourtii LLAP12]
 gi|254354519|gb|EET13161.1| irep [Legionella drancourtii LLAP12]
          Length = 89

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+  G+SQ++LG   G+       ++ +YE G +    S L+ I+ +L  P ++
Sbjct: 8  KRLKEARIAAGLSQKQLGISAGVDEFSASPRINQYETGKHAPDFSTLKRIALILAVPTAY 67

Query: 73 FF 74
          F+
Sbjct: 68 FY 69


>gi|152967479|ref|YP_001363263.1| helix-turn-helix domain protein [Kineococcus radiotolerans
          SRS30216]
 gi|151361996|gb|ABS04999.1| helix-turn-helix domain protein [Kineococcus radiotolerans
          SRS30216]
          Length = 513

 Score = 35.8 bits (81), Expect = 2.0,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 32/66 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG+RIR  R + G +  +LGE +G    Q+ + E G      S +  ++  LE   + 
Sbjct: 31 LTVGRRIRYHRGVRGWTLAQLGEAVGTAQSQLSQVENGKREPRLSLVAAVARALEVTPAD 90

Query: 73 FFDVSP 78
            D +P
Sbjct: 91 LLDPAP 96


>gi|332992547|gb|AEF02602.1| XRE family transcriptional regulator [Alteromonas sp. SN2]
          Length = 87

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 22/77 (28%), Positives = 42/77 (54%), Gaps = 4/77 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R   G+SQ++LG   G+       ++ +YEKGV+      ++ ++EVL+ P +F
Sbjct: 10 KRLKQARKDRGLSQKQLGILSGMDEFSASARMNQYEKGVHSPDFKTVKALAEVLKVPTAF 69

Query: 73 FFDVSPTVCSDISSEEN 89
           +     +   I+S +N
Sbjct: 70 LYCEEDDLAEQIASFKN 86


>gi|282600408|ref|ZP_05974197.2| putative transcriptional regulatory protein [Providencia
          rustigianii DSM 4541]
 gi|282565257|gb|EFB70792.1| putative transcriptional regulatory protein [Providencia
          rustigianii DSM 4541]
          Length = 185

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 35/68 (51%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N ++I +G++IRL R    +S  +L +  GI+   + K E G +      L+ I+  L
Sbjct: 1  MSNKINIKIGQKIRLLRQARNLSLNELSQLSGISKAALSKLESGDSNPRIDTLESIAAAL 60

Query: 67 ESPISFFF 74
            P+S  F
Sbjct: 61 RFPLSDLF 68


>gi|160894257|ref|ZP_02075034.1| hypothetical protein CLOL250_01810 [Clostridium sp. L2-50]
 gi|156863958|gb|EDO57389.1| hypothetical protein CLOL250_01810 [Clostridium sp. L2-50]
 gi|295099077|emb|CBK88166.1| Helix-turn-helix. [Eubacterium cylindroides T2-87]
          Length = 209

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R++ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 10 IGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|154500312|ref|ZP_02038350.1| hypothetical protein BACCAP_03979 [Bacteroides capillosus ATCC
           29799]
 gi|150271044|gb|EDM98318.1| hypothetical protein BACCAP_03979 [Bacteroides capillosus ATCC
           29799]
          Length = 111

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 25/93 (26%), Positives = 46/93 (49%), Gaps = 6/93 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G+R+R RR  LG+++EK+ E   I      + E G +++    L  +S  +  P+ +
Sbjct: 7   IDIGQRLRQRRQDLGLTREKMAELADIGTGYYGQLEVGTSQMSIDTLIKLSHSMHLPMEY 66

Query: 73  FFDVSPTVCSDISSEENNVMDFIS--TPDGLQL 103
                  +  D S+    V+D +   TP  L+L
Sbjct: 67  ILFGDGYIPGDPSA----VIDLLHRCTPRELKL 95


>gi|292557941|gb|ADE30942.1| Helix-turn-helix type 3 [Streptococcus suis GZ1]
          Length = 149

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 29/96 (30%), Positives = 44/96 (45%), Gaps = 11/96 (11%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            +I  GK+IR  R  LGM+QE+L   L +T Q +  +E+ VN    + L+         I
Sbjct: 6   TNITTGKQIRHLRTQLGMTQEELAGELNVTRQALSNWERDVNEPDLNMLK--------KI 57

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
            F F V+     D + E    M+     +  Q N+Y
Sbjct: 58  CFLFGVNM---DDFAKEVITKMETYEKKEKRQFNKY 90


>gi|283768120|ref|ZP_06341035.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          H19]
 gi|283461999|gb|EFC09083.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          H19]
          Length = 79

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 33/61 (54%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          NV   +R  R+  GMSQ+K    LG+ +Q +  +EK  + +  S++  + ++   P+ + 
Sbjct: 4  NVKLLLRAARINNGMSQKKAASLLGVHYQTLASWEKDSSDLSRSKMLLMEKIYSIPLEYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|237668382|ref|ZP_04528366.1| transcriptional regulator, Cro/CI family [Clostridium butyricum
          E4 str. BoNT E BL5262]
 gi|237656730|gb|EEP54286.1| transcriptional regulator, Cro/CI family [Clostridium butyricum
          E4 str. BoNT E BL5262]
          Length = 149

 Score = 35.8 bits (81), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 22/79 (27%), Positives = 43/79 (54%), Gaps = 10/79 (12%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+   I+ RR+ LG++ E+LG+ +G+    V+K+E G+       +++I       +S 
Sbjct: 1  MNINNIIKSRRLELGLTYEELGKKIGVGKSTVRKWETGL-------IENIKRDNIIALSK 53

Query: 73 FFDVSPTV---CSDISSEE 88
            D+SP++     D +S E
Sbjct: 54 ALDISPSIIMGWDDTNSNE 72


>gi|317499111|ref|ZP_07957390.1| helix-turn-helix domain-containing protein [Lachnospiraceae
          bacterium 5_1_63FAA]
 gi|291524086|emb|CBK89673.1| Helix-turn-helix [Eubacterium rectale DSM 17629]
 gi|316893631|gb|EFV15834.1| helix-turn-helix domain-containing protein [Lachnospiraceae
          bacterium 5_1_63FAA]
          Length = 209

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R++ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 10 IGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|219667464|ref|YP_002457899.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|219537724|gb|ACL19463.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 113

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 20/80 (25%), Positives = 39/80 (48%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           + + V + +R  R   G++Q++L + LG+    +  +EKG N +  S L +I   LE  
Sbjct: 3  AIKLRVAENLRKYRERKGITQKQLADHLGVRDNTISSWEKGTNSIDISTLLNICNFLEIN 62

Query: 70 ISFFFDVSPTVCSDISSEEN 89
          +   + +S    S +   E+
Sbjct: 63 LDDIYGISDKKISPVELTED 82


>gi|218508625|ref|ZP_03506503.1| putative transcriptional regulator protein [Rhizobium etli Brasil
          5]
          Length = 225

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 32/66 (48%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 32 NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 91

Query: 69 PISFFF 74
          P++ FF
Sbjct: 92 PLTAFF 97


>gi|207725290|ref|YP_002255686.1| transcription regulator protein [Ralstonia solanacearum MolK2]
 gi|206590524|emb|CAQ37486.1| putative transcription regulator protein [Ralstonia solanacearum
          MolK2]
          Length = 96

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 27/45 (60%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +RR   G+SQE++ E LGI+ + V + E GV      RL  +SE+
Sbjct: 1  MRRAGAGLSQERVAEALGISREAVSRMETGVAVPSIVRLAELSEI 45


>gi|190895653|ref|YP_001985945.1| transcriptional regulator [Rhizobium etli CIAT 652]
 gi|190699598|gb|ACE93682.1| putative transcriptional regulator protein [Rhizobium etli CIAT
          652]
          Length = 231

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 32/66 (48%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 34 NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 93

Query: 69 PISFFF 74
          P++ FF
Sbjct: 94 PLTAFF 99


>gi|295110993|emb|CBL27743.1| Predicted transcriptional regulator with C-terminal CBS domains
          [Synergistetes bacterium SGP1]
          Length = 140

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 30/57 (52%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++G  I+ RR  LGM+QE+L   LG+T   + + E  V  + +  L  I+  L   +
Sbjct: 3  SIGANIKARRRALGMNQEELARKLGVTQANISRIESSVKGLSSDMLLPIASALSCDV 59


>gi|297203046|ref|ZP_06920443.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sviceus ATCC 29083]
 gi|197712042|gb|EDY56076.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sviceus ATCC 29083]
          Length = 509

 Score = 35.8 bits (81), Expect = 2.1,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +G+ IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGRLIRDARQHRGWTQSQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|254975392|ref|ZP_05271864.1| putative transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255092781|ref|ZP_05322259.1| putative transcriptional regulator [Clostridium difficile CIP
          107932]
 gi|255100891|ref|ZP_05329868.1| putative transcriptional regulator [Clostridium difficile
          QCD-63q42]
 gi|255306781|ref|ZP_05350952.1| putative transcriptional regulator [Clostridium difficile ATCC
          43255]
 gi|255314521|ref|ZP_05356104.1| putative transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255517196|ref|ZP_05384872.1| putative transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255650302|ref|ZP_05397204.1| putative transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|255655775|ref|ZP_05401184.1| putative transcriptional regulator [Clostridium difficile
          QCD-23m63]
 gi|306520271|ref|ZP_07406618.1| putative transcriptional regulator [Clostridium difficile
          QCD-32g58]
          Length = 92

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 2/66 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-- 71
          N+  +I++ R  LG++QE+LG  +G + Q +   E G N         IS +   PI   
Sbjct: 5  NMKNKIKILREKLGLTQEQLGRLVGTSRQAINAIETGKNEPSIWLAYDISRIFNEPIESV 64

Query: 72 FFFDVS 77
          F F+ S
Sbjct: 65 FLFEES 70


>gi|317120863|ref|YP_004100866.1| hypothetical protein Tmar_0014 [Thermaerobacter marianensis DSM
          12885]
 gi|315590843|gb|ADU50139.1| helix-turn-helix domain protein [Thermaerobacter marianensis DSM
          12885]
          Length = 131

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 20/78 (25%), Positives = 37/78 (47%), Gaps = 4/78 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--- 74
          R+R  R   G++Q +L   +G++ Q +  YE G      + +Q ++ VL + IS+     
Sbjct: 6  RLRKMREARGLTQRELATAIGVSRQAIGLYEAGEREPDLTTIQKLAHVLRTSISYLVGET 65

Query: 75 -DVSPTVCSDISSEENNV 91
           D SP   S +++     
Sbjct: 66 DDPSPLPRSGVAAHREGT 83


>gi|150378302|ref|YP_001314896.1| XRE family transcriptional regulator [Sinorhizobium medicae WSM419]
 gi|150032849|gb|ABR64963.1| transcriptional regulator, XRE family [Sinorhizobium medicae
           WSM419]
          Length = 165

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 2/82 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLE-S 68
           +D  +   ++  R   G+S+  L   LG++     +YE+G   R+   RL H+ E++   
Sbjct: 40  MDEKISAWLKKTREAKGISRADLAHLLGLSVSVYGRYERGSEARLSIPRLIHLCEIIGFM 99

Query: 69  PISFFFDVSPTVCSDISSEENN 90
           P+   FD +P +      E  +
Sbjct: 100 PLDIIFDTAPHLWGKTPEEAED 121


>gi|257419815|ref|ZP_05596809.1| predicted protein [Enterococcus faecalis T11]
 gi|257161643|gb|EEU91603.1| predicted protein [Enterococcus faecalis T11]
          Length = 141

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 25/68 (36%), Positives = 35/68 (51%), Gaps = 11/68 (16%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N  D  + K +RL R    MSQ+KL E  GI+   + KYEKG         ++IS  L+S
Sbjct: 4  NFSDSTLLKSLRLER---KMSQKKLAELAGISQSALAKYEKGT--------RNISNELDS 52

Query: 69 PISFFFDV 76
           +S   +V
Sbjct: 53 ALSKVLNV 60


>gi|302554854|ref|ZP_07307196.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          viridochromogenes DSM 40736]
 gi|302472472|gb|EFL35565.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          viridochromogenes DSM 40736]
          Length = 509

 Score = 35.8 bits (81), Expect = 2.1,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +G+ IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGRLIRDARQHRGWTQSQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|225017175|ref|ZP_03706367.1| hypothetical protein CLOSTMETH_01100 [Clostridium methylpentosum
           DSM 5476]
 gi|224950094|gb|EEG31303.1| hypothetical protein CLOSTMETH_01100 [Clostridium methylpentosum
           DSM 5476]
          Length = 131

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 32/116 (27%), Positives = 56/116 (48%), Gaps = 7/116 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPISFF 73
           +GKR++L R   G++ + + + +G+    VQ+YE  G+ ++    L  I++VL     + 
Sbjct: 6   IGKRMKLAREQSGLTLQAVADRVGVAASTVQRYEAGGIEKLKLPVLNAIADVLGVDPGWL 65

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
              S T C    +  +NV         L L R   Q+   K RQKII++  S + +
Sbjct: 66  TG-SETAC----APADNVAQTGEERKLLMLCRRAEQLPPEK-RQKIIDIFESTIDT 115


>gi|213967707|ref|ZP_03395854.1| hypothetical protein PSPTOT1_1624 [Pseudomonas syringae pv.
          tomato T1]
 gi|301382344|ref|ZP_07230762.1| hypothetical protein PsyrptM_06912 [Pseudomonas syringae pv.
          tomato Max13]
 gi|302062947|ref|ZP_07254488.1| hypothetical protein PsyrptK_23414 [Pseudomonas syringae pv.
          tomato K40]
 gi|302130703|ref|ZP_07256693.1| hypothetical protein PsyrptN_04867 [Pseudomonas syringae pv.
          tomato NCPPB 1108]
 gi|213927483|gb|EEB61031.1| hypothetical protein PSPTOT1_1624 [Pseudomonas syringae pv.
          tomato T1]
          Length = 83

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 35/70 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +G++IR RR+  G++Q +L     +T Q+V   EKG   VG +    +   L+  +
Sbjct: 6  ITTRLGEQIRQRRLNRGLTQARLAALAAVTRQKVIAIEKGDLSVGMTAYARVLGALDCEL 65

Query: 71 SFFFDVSPTV 80
          S      PT+
Sbjct: 66 SVIPAAMPTL 75


>gi|167768466|ref|ZP_02440519.1| hypothetical protein CLOSS21_03025 [Clostridium sp. SS2/1]
 gi|291086900|ref|ZP_06344824.2| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium sp. M62/1]
 gi|167709990|gb|EDS20569.1| hypothetical protein CLOSS21_03025 [Clostridium sp. SS2/1]
 gi|291077343|gb|EFE14707.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium sp. M62/1]
          Length = 232

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
           +G R++ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 33  IGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 92

Query: 74  FDVSPTVCSDIS 85
              +    +DI+
Sbjct: 93  KGETDEYETDIT 104


>gi|17229533|ref|NP_486081.1| hypothetical protein asr2041 [Nostoc sp. PCC 7120]
 gi|17131132|dbj|BAB73740.1| asr2041 [Nostoc sp. PCC 7120]
          Length = 80

 Score = 35.8 bits (81), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 15/53 (28%), Positives = 32/53 (60%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G+ I+  R+++G++QE+    LG+TF  V ++E G  +     +Q I  +++
Sbjct: 14 IGQFIQEIRLVMGLTQEEFAVILGVTFPTVNRWENGHTKPSKLAIQQIEALVD 66


>gi|328948780|ref|YP_004366117.1| hypothetical protein Tresu_1938 [Treponema succinifaciens DSM 2489]
 gi|328449104|gb|AEB14820.1| helix-turn-helix domain protein [Treponema succinifaciens DSM 2489]
          Length = 151

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 29/96 (30%), Positives = 44/96 (45%), Gaps = 11/96 (11%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            +I  GK+IR  R  LGM+QE+L   L +T Q +  +E+ VN    + L+         I
Sbjct: 6   TNITTGKQIRHLRTQLGMTQEELAGELNVTRQALSNWERDVNEPDLNMLK--------KI 57

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
            F F V+     D + E    M+     +  Q N+Y
Sbjct: 58  CFLFGVNM---DDFAKEVITKMETYEKKEKRQFNKY 90


>gi|327191632|gb|EGE58643.1| putative transcriptional regulator protein [Rhizobium etli
          CNPAF512]
          Length = 225

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 32/66 (48%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 32 NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 91

Query: 69 PISFFF 74
          P++ FF
Sbjct: 92 PLTAFF 97


>gi|206975640|ref|ZP_03236552.1| transcriptional regulator, XRE family [Bacillus cereus H3081.97]
 gi|206746102|gb|EDZ57497.1| transcriptional regulator, XRE family [Bacillus cereus H3081.97]
          Length = 110

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 25/101 (24%), Positives = 48/101 (47%), Gaps = 5/101 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R+ L ++QE L E + I+   + + E+G   +    L  ++  L   + +  
Sbjct: 6   LGNRIREERLKLNLTQEILAEDINISVSYMGQIERGERNLSLDTLVKLAYRLSVTVDYLL 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                + S  ++ EN++  F S  DG      ++ +D +KV
Sbjct: 66  -----LDSVQANNENSIKQFASLIDGRSQKETYMALDMIKV 101


>gi|262368258|ref|ZP_06061587.1| transcriptional regulator [Acinetobacter johnsonii SH046]
 gi|262315936|gb|EEY96974.1| transcriptional regulator [Acinetobacter johnsonii SH046]
          Length = 106

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 28/100 (28%), Positives = 52/100 (52%), Gaps = 10/100 (10%)

Query: 12  DINV-GKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVL 66
           ++NV   R+R+ R    +SQE+LG   GI       ++ +YE+G +         I+E+L
Sbjct: 5   NLNVFALRLRIARKAKKLSQERLGILAGIDESSASARMNQYERGKHVPDFLMASKIAEIL 64

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           + P ++F+     V +D+S+E   V   +S    L++ R+
Sbjct: 65  DLPTAYFY-----VENDLSAEIIQVSHALSNEQKLEVLRF 99


>gi|260174286|ref|ZP_05760698.1| transcriptional regulator [Bacteroides sp. D2]
 gi|315922556|ref|ZP_07918796.1| transcriptional regulator [Bacteroides sp. D2]
 gi|313696431|gb|EFS33266.1| transcriptional regulator [Bacteroides sp. D2]
          Length = 135

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 17/53 (32%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          ++G++I   R + GM+Q  LGE LG+T Q + K E+   ++   +L+ +++ L
Sbjct: 11 HLGRKIERIRRLRGMTQTDLGELLGVTKQAISKMEQS-EKIDDDKLKQVADAL 62


>gi|197302202|ref|ZP_03167261.1| hypothetical protein RUMLAC_00929 [Ruminococcus lactaris ATCC
          29176]
 gi|197298633|gb|EDY33174.1| hypothetical protein RUMLAC_00929 [Ruminococcus lactaris ATCC
          29176]
 gi|291526721|emb|CBK92307.1| Helix-turn-helix [Eubacterium rectale M104/1]
          Length = 209

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R++ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 10 IGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|48697234|ref|YP_024964.1| putative prophage repressor protein [Burkholderia phage BcepC6B]
 gi|47779040|gb|AAT38403.1| putative prophage repressor protein [Burkholderia phage BcepC6B]
          Length = 244

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 18/84 (21%), Positives = 43/84 (51%), Gaps = 10/84 (11%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G RIR  R   G++ ++L +  GI+   V ++E G ++  A++L  +++ L + + + 
Sbjct: 6  HIGTRIRELRKAKGLTLQQLADVFGISRASVSEWESGRSKPDANKLVLLAKELHTAVEYL 65

Query: 74 FDVSPTVCSDISSEENNVMDFIST 97
                    ++ + N+ M F  +
Sbjct: 66 ----------LNGDTNDAMSFADS 79


>gi|220931033|ref|YP_002507941.1| transcriptional regulator, XRE family [Halothermothrix orenii H
          168]
 gi|219992343|gb|ACL68946.1| transcriptional regulator, XRE family [Halothermothrix orenii H
          168]
          Length = 182

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 33/67 (49%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N ++ N+GK++R  R+  G S   L E  G++   + + E+G        L  ++  L  
Sbjct: 2  NEINANIGKKLRKLRIGKGYSLGDLEEIAGVSKSMLGQIERGKTNPTVKTLWKVARSLNV 61

Query: 69 PISFFFD 75
          P SFF +
Sbjct: 62 PFSFFIE 68


>gi|297157056|gb|ADI06768.1| putative transcriptional regulator, XRE family protein
          [Streptomyces bingchenggensis BCW-1]
          Length = 276

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 28/57 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          GK +R+ RM  GMSQ +LGE      Q V K E G      S  +   EV  +P +F
Sbjct: 20 GKEVRIWRMRAGMSQRELGERANYGQQYVAKVEAGERLASRSFAKVCDEVFGTPGTF 76


>gi|255038048|ref|YP_003088669.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
          18053]
 gi|254950804|gb|ACT95504.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
          18053]
          Length = 79

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 22/70 (31%), Positives = 36/70 (51%), Gaps = 1/70 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + VD+ +G+ IR  R    ++QE+LGE +G+   Q+ K E G N      +  +   L
Sbjct: 3  IGSKVDL-LGRAIRTVRKERNLTQEQLGELVGVQKAQISKLENGNNSATIDTILKVFSAL 61

Query: 67 ESPISFFFDV 76
          ++ I F   V
Sbjct: 62 KAEIQFNITV 71


>gi|254503889|ref|ZP_05116040.1| hypothetical protein SADFL11_3928 [Labrenzia alexandrii DFL-11]
 gi|222439960|gb|EEE46639.1| hypothetical protein SADFL11_3928 [Labrenzia alexandrii DFL-11]
          Length = 93

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 1/47 (2%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG 55
          NP  I   ++ R  R  LG+ Q+   E LG+  + +Q YEKG NR G
Sbjct: 8  NPPPIMTPEQFRSWRRTLGLKQKDAAELLGLKKRMIQYYEKG-NRDG 53


>gi|241666493|ref|YP_002984577.1| transcriptional regulator, XRE family [Rhizobium leguminosarum
          bv. trifolii WSM1325]
 gi|240861950|gb|ACS59615.1| transcriptional regulator, XRE family [Rhizobium leguminosarum
          bv. trifolii WSM1325]
          Length = 227

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 32/66 (48%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 34 NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 93

Query: 69 PISFFF 74
          P++ FF
Sbjct: 94 PLTAFF 99


>gi|325262228|ref|ZP_08128966.1| putative helix-turn-helix protein [Clostridium sp. D5]
 gi|324033682|gb|EGB94959.1| putative helix-turn-helix protein [Clostridium sp. D5]
          Length = 643

 Score = 35.8 bits (81), Expect = 2.2,   Method: Composition-based stats.
 Identities = 22/67 (32%), Positives = 32/67 (47%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
          L R + G +Q ++ E L I+      YE G        L+ ISEVLE  +   F  +P  
Sbjct: 11 LFRKLKGYTQAQMAEKLEISRSTYTNYEIGNRSPDLETLERISEVLECSLDELFGKTPVR 70

Query: 81 CSDISSE 87
           +D+ SE
Sbjct: 71 TADMVSE 77


>gi|269928987|ref|YP_003321308.1| transcriptional regulator of molybdate metabolism, XRE family
          [Sphaerobacter thermophilus DSM 20745]
 gi|269788344|gb|ACZ40486.1| transcriptional regulator of molybdate metabolism, XRE family
          [Sphaerobacter thermophilus DSM 20745]
          Length = 378

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 3/69 (4%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF---D 75
          +R RR+  G+SQ+ L E  G+T Q V   E G      +    ++  L  P+   F   D
Sbjct: 14 VRERRIAAGLSQQALAERAGLTRQAVSAIEAGRYLPNTAVALRLARALGCPVEELFRLPD 73

Query: 76 VSPTVCSDI 84
          V P V +D+
Sbjct: 74 VPPRVRADL 82


>gi|307708163|ref|ZP_07644630.1| transcriptional regulator [Streptococcus mitis NCTC 12261]
 gi|307615609|gb|EFN94815.1| transcriptional regulator [Streptococcus mitis NCTC 12261]
          Length = 225

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 15/56 (26%), Positives = 34/56 (60%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +++ +R  LG+ Q++L E +G++ Q   K+EKG+++     +  + +VL+ P  + 
Sbjct: 6  KLKQKREELGLEQQELAELIGVSKQAYFKWEKGLSKPTKVNIAKLEKVLKIPEGYL 61


>gi|266619362|ref|ZP_06112297.1| DNA-binding protein [Clostridium hathewayi DSM 13479]
 gi|288869117|gb|EFD01416.1| DNA-binding protein [Clostridium hathewayi DSM 13479]
          Length = 355

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 18/56 (32%), Positives = 33/56 (58%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR +R  LG++QEK+   LG++   V K+EKG+     S L  ++ +L++ ++   
Sbjct: 7  IREKRKELGLTQEKVAVYLGVSAPAVNKWEKGITCPDVSVLPALARLLKTDLNTLL 62


>gi|163754238|ref|ZP_02161361.1| transcriptional regulator [Kordia algicida OT-1]
 gi|161326452|gb|EDP97778.1| transcriptional regulator [Kordia algicida OT-1]
          Length = 255

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 32/72 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+ K I+  R +   SQE+  E LG +   V  YE+G +     RL  +S+  + PI   
Sbjct: 3  NIQKNIKHLRSLKSFSQERFAETLGWSRSMVGSYEEGRSEPPIDRLIDLSDHFKLPIDIL 62

Query: 74 FDVSPTVCSDIS 85
               T   D S
Sbjct: 63 VKNDLTQAKDTS 74


>gi|154505077|ref|ZP_02041815.1| hypothetical protein RUMGNA_02587 [Ruminococcus gnavus ATCC
          29149]
 gi|153794556|gb|EDN76976.1| hypothetical protein RUMGNA_02587 [Ruminococcus gnavus ATCC
          29149]
          Length = 209

 Score = 35.8 bits (81), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R++ RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   + + 
Sbjct: 10 IGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|332288631|ref|YP_004419483.1| hypothetical protein UMN179_00550 [Gallibacterium anatis UMN179]
 gi|330431527|gb|AEC16586.1| conserved hypothetical protein [Gallibacterium anatis UMN179]
          Length = 129

 Score = 35.8 bits (81), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 23/107 (21%), Positives = 52/107 (48%), Gaps = 1/107 (0%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + ++IRL R +   SQE++ E + ++     K E+G  R+   +L+ I+++ +  IS   
Sbjct: 3   IHEKIRLIREMNHWSQEEMAEKMNLSPSGYAKIERGETRLHLDKLEKIAQIFDVDISELL 62

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                +C  I+       ++    +G+      +++  +K + +IIE
Sbjct: 63  SNDKKICFLINENSQLSSNYYGANEGMAFENEKLKL-SLKYKDQIIE 108


>gi|291282703|ref|YP_003499521.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Escherichia coli O55:H7 str. CB9615]
 gi|290762576|gb|ADD56537.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Escherichia coli O55:H7 str. CB9615]
          Length = 238

 Score = 35.8 bits (81), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 27/39 (69%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR 53
          + +RIR RR  +G++QE++ + +GIT   V K+E G ++
Sbjct: 19 ISERIRNRRKDVGLTQEQVAKAIGITRVSVTKWENGSSK 57


>gi|168487423|ref|ZP_02711931.1| transcriptional activator [Streptococcus pneumoniae CDC1087-00]
 gi|183569749|gb|EDT90277.1| transcriptional activator [Streptococcus pneumoniae CDC1087-00]
          Length = 287

 Score = 35.8 bits (81), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ RL+R  L +SQ+ L +  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4  LAEKFRLKRKELRLSQQTLAK--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74 FDVSPTVCSDISS 86
          F+    + S++S+
Sbjct: 62 FNEQIEIKSNLSN 74


>gi|312109734|ref|YP_003988050.1| hypothetical protein GY4MC1_0611 [Geobacillus sp. Y4.1MC1]
 gi|311214835|gb|ADP73439.1| protein of unknown function DUF955 [Geobacillus sp. Y4.1MC1]
          Length = 388

 Score = 35.4 bits (80), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 16/58 (27%), Positives = 33/58 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R++  R+  GM+  +L + +G+T Q V ++E+G        +  ++ VL+ P  FF+
Sbjct: 13 RRLKAARVFRGMTITELADKIGVTRQAVSQFEQGKTPPSLESIFKLTNVLQFPRDFFY 70


>gi|253755127|ref|YP_003028267.1| DNA-binding protein [Streptococcus suis BM407]
 gi|251817591|emb|CAZ55338.1| putative DNA-binding protein [Streptococcus suis BM407]
          Length = 230

 Score = 35.4 bits (80), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 32/58 (55%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GKR++ RR+ LG SQ +L + L I       +E    +   S L+ ++ +L+ P ++F
Sbjct: 4  GKRLKERRITLGYSQSELADKLHINRSSYFNWENEKTKPNQSNLKQLAILLDVPETYF 61


>gi|222033322|emb|CAP76062.1| hypothetical protein LF82_280 [Escherichia coli LF82]
          Length = 381

 Score = 35.4 bits (80), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 2/66 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
          +R+   R   G++  +L   L I+ Q +  +EKG+    A  L  I++VL  P  FF   
Sbjct: 18 RRLEEAREAKGLTMAELARVLNISRQAISSFEKGLKSPSADTLSAIAKVLGFPERFFLAS 77

Query: 75 DVSPTV 80
            SP++
Sbjct: 78 SASPSL 83


>gi|222081886|ref|YP_002541251.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221726565|gb|ACM29654.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 227

 Score = 35.4 bits (80), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 32/66 (48%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 34 NNLEMAIGHEVRAYRKKLGITVTDLAASTGISLGMLSKIENGNISPSLTTLQSLSRALGV 93

Query: 69 PISFFF 74
          P++ FF
Sbjct: 94 PLTAFF 99


>gi|13476100|ref|NP_107670.1| hypothetical protein mll7326 [Mesorhizobium loti MAFF303099]
 gi|14026860|dbj|BAB53456.1| mll7326 [Mesorhizobium loti MAFF303099]
          Length = 192

 Score = 35.4 bits (80), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 17/64 (26%), Positives = 32/64 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ +G+ +R  R  LG++   L     I+   + K E G+     + LQ +S  L  P+
Sbjct: 2  LEVAIGREVRAFRKKLGITVADLAVATDISLGMLSKIENGITSPSLTTLQALSRALGVPV 61

Query: 71 SFFF 74
          + FF
Sbjct: 62 TAFF 65


>gi|255025294|ref|ZP_05297280.1| hypothetical protein LmonocytFSL_01392 [Listeria monocytogenes
          FSL J2-003]
          Length = 158

 Score = 35.4 bits (80), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 37/82 (45%), Gaps = 10/82 (12%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           KR+   R   G SQ KL + LG +  QV  YE+G        L  I+E        FF+
Sbjct: 3  SKRLSELRKKKGFSQYKLADELGFSRGQVANYEQGTREPDYQTLLKIAE--------FFN 54

Query: 76 VSPTVCSDISSEENNVMDFIST 97
          VS      +  ++NN+ D I+ 
Sbjct: 55 VSTDYL--LGRDDNNLADTIAA 74


>gi|322420390|ref|YP_004199613.1| helix-turn-helix domain-containing protein [Geobacter sp. M18]
 gi|320126777|gb|ADW14337.1| helix-turn-helix domain protein [Geobacter sp. M18]
          Length = 106

 Score = 35.4 bits (80), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 26/85 (30%), Positives = 41/85 (48%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R    +SQEKL E +G+  +Q+ + E G +      L+ I++ L+  I   F
Sbjct: 8  LGLRIREVRKARQLSQEKLAEKVGVDPKQISRIEGGKSAPSLDTLEAIAKHLQVEIKDLF 67

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
          D    V  D    E+ V+  +   D
Sbjct: 68 DFQHLVPED--KIEDQVLRLLGMMD 90


>gi|332970254|gb|EGK09246.1| LexA family repressor/S24 family protease [Kingella kingae ATCC
          23330]
          Length = 206

 Score = 35.4 bits (80), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 15/63 (23%), Positives = 37/63 (58%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++  +R++ RR+ LG+SQ  LG+  G+    + + E G N+  ++++  ++  L++ + +
Sbjct: 1  MSFNERVKNRRLELGLSQAALGKLAGVPQSTIGQIENGRNK-SSTKILELAHALQTTVEY 59

Query: 73 FFD 75
            D
Sbjct: 60 LVD 62


>gi|226323100|ref|ZP_03798618.1| hypothetical protein COPCOM_00872 [Coprococcus comes ATCC 27758]
 gi|225208290|gb|EEG90644.1| hypothetical protein COPCOM_00872 [Coprococcus comes ATCC 27758]
          Length = 316

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 27/39 (69%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV 51
          I +GK I  +R  LG++Q++L E L ++ + V K+E+G+
Sbjct: 4  IKIGKYIAEKRKALGLTQKQLAEKLNMSDKSVSKWERGI 42


>gi|197284836|ref|YP_002150708.1| phage repressor [Proteus mirabilis HI4320]
 gi|194682323|emb|CAR42114.1| putative phage repressor [Proteus mirabilis HI4320]
          Length = 215

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFF 74
          RI+ RR+ L ++QE L + L ++   + K+E  V       LQ +++VLE SP    +
Sbjct: 4  RIKERRLQLSLTQEALAKMLSVSRVSITKWETRVTEPDGENLQALAKVLEVSPEWLLY 61


>gi|116255759|ref|YP_771592.1| putative transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|115260407|emb|CAK03511.1| putative transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
          Length = 243

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 32/66 (48%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 50  NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 109

Query: 69  PISFFF 74
           P++ FF
Sbjct: 110 PLTAFF 115


>gi|326775562|ref|ZP_08234827.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
 gi|326655895|gb|EGE40741.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
          Length = 75

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 16/36 (44%), Positives = 23/36 (63%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          +G R+R+RRM L M+QE+L E   I    +Q+ E G
Sbjct: 16 IGDRVRVRRMHLDMTQERLAETAEIDRSTLQRIEYG 51


>gi|218551631|ref|YP_002385423.1| Repressor protein C2 [Escherichia fergusonii ATCC 35469]
 gi|218359173|emb|CAQ91836.1| Repressor protein C2 [Escherichia fergusonii ATCC 35469]
          Length = 208

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 32/60 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+RI+  R +   SQ++LG+  G++   V  +EK +N  G   L  +++   + I +  
Sbjct: 4  VGQRIKALRRVTRTSQKELGKFCGVSDVAVGYWEKDINVPGGEALSKLAKFFNTSIDYIL 63


>gi|167463515|ref|ZP_02328604.1| transcriptional regulator, XRE family protein [Paenibacillus larvae
           subsp. larvae BRL-230010]
          Length = 151

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 34/135 (25%), Positives = 64/135 (47%), Gaps = 20/135 (14%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G+RIR RR +L ++Q ++ E L +        E G     +S LQ I+++L++   +
Sbjct: 1   MSIGERIRQRRKLLQITQLEIAEQLKMGRSNFGHIENGRVTPSSSDLQKIADILQTNADY 60

Query: 73  FF----DVSPTVCS---------DISSEENNVMDFISTPDGLQLNRYF--IQIDDVKVRQ 117
                 D SP   +           S ++ ++   + +PD L    YF  I+  D + R 
Sbjct: 61  LLGRTDDPSPQGAAAGLKTYPEWATSKDKRDLKKMLQSPDVL----YFDGIEFSD-EDRA 115

Query: 118 KIIELVRSIVSSEKK 132
           KI+ ++ +I    KK
Sbjct: 116 KILGVMETIFWEAKK 130


>gi|148266050|ref|YP_001232756.1| helix-turn-helix domain-containing protein [Geobacter
          uraniireducens Rf4]
 gi|146399550|gb|ABQ28183.1| helix-turn-helix domain protein [Geobacter uraniireducens Rf4]
          Length = 356

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 37/68 (54%), Gaps = 3/68 (4%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P +I  G+R+   R + GMS   + E +G  +++  + +YE G        L  +++VL
Sbjct: 5  DPKEI-FGRRLSQARRMRGMSLRAVAEAIGGKVSYNALHRYECGEMMPSDDVLIPVADVL 63

Query: 67 ESPISFFF 74
          + P+ FFF
Sbjct: 64 DKPLDFFF 71


>gi|325104601|ref|YP_004274255.1| protein of unknown function DUF955 [Pedobacter saltans DSM 12145]
 gi|324973449|gb|ADY52433.1| protein of unknown function DUF955 [Pedobacter saltans DSM 12145]
          Length = 354

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 2/71 (2%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITF--QQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +R +  R++ G S + L + LG T   Q + +YEKG     A ++  +S+ L     +F
Sbjct: 8  AERFKSARLMNGFSLQDLADALGGTLSRQALHRYEKGEVIPDAEKINMLSKALNISPDYF 67

Query: 74 FDVSPTVCSDI 84
          F  +    SDI
Sbjct: 68 FRTTKVEFSDI 78


>gi|311900356|dbj|BAJ32764.1| putative UDP-N-acetylglucosamine transferase [Kitasatospora setae
          KM-6054]
          Length = 509

 Score = 35.4 bits (80), Expect = 2.4,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 27/56 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK +R  R   G +Q +L   LG T   V + E G   +G   +  I E L+S I
Sbjct: 9  IGKLVRAARTHKGWTQSQLAAALGTTQSAVARIESGGQNIGLDLVARIGEALDSEI 64


>gi|227113780|ref|ZP_03827436.1| hypothetical protein PcarbP_12483 [Pectobacterium carotovorum
          subsp. brasiliensis PBR1692]
          Length = 100

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 4/63 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R+++ R+   M+QEKLG   GI       +V +YE G +R     +   + VL  P S+F
Sbjct: 16 RLKVARLRAKMTQEKLGVLAGIEEATARSRVSQYESGTHRPTFEMMCAFARVLNVPESYF 75

Query: 74 FDV 76
          + V
Sbjct: 76 YTV 78


>gi|209918882|ref|YP_002292966.1| putative phage repressor [Escherichia coli SE11]
 gi|209912141|dbj|BAG77215.1| putative phage repressor [Escherichia coli SE11]
          Length = 215

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 22/91 (24%), Positives = 45/91 (49%), Gaps = 1/91 (1%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF- 72
           ++G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+ 
Sbjct: 4   SLGIRLKKLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYL 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
            + VS    S + S     + + S  D +  
Sbjct: 64  LYGVSSPELSFVQSNPGTKIPYFSWGDAISF 94


>gi|166032930|ref|ZP_02235759.1| hypothetical protein DORFOR_02651 [Dorea formicigenerans ATCC
          27755]
 gi|167766611|ref|ZP_02438664.1| hypothetical protein CLOSS21_01117 [Clostridium sp. SS2/1]
 gi|218132240|ref|ZP_03461044.1| hypothetical protein BACPEC_00097 [Bacteroides pectinophilus ATCC
          43243]
 gi|225026928|ref|ZP_03716120.1| hypothetical protein EUBHAL_01184 [Eubacterium hallii DSM 3353]
 gi|323487598|ref|ZP_08092888.1| hypothetical protein HMPREF9474_04639 [Clostridium symbiosum
          WAL-14163]
 gi|166027287|gb|EDR46044.1| hypothetical protein DORFOR_02651 [Dorea formicigenerans ATCC
          27755]
 gi|167711734|gb|EDS22313.1| hypothetical protein CLOSS21_01117 [Clostridium sp. SS2/1]
 gi|217992849|gb|EEC58849.1| hypothetical protein BACPEC_00097 [Bacteroides pectinophilus ATCC
          43243]
 gi|224955739|gb|EEG36948.1| hypothetical protein EUBHAL_01184 [Eubacterium hallii DSM 3353]
 gi|291526845|emb|CBK92431.1| Helix-turn-helix [Eubacterium rectale M104/1]
 gi|291535072|emb|CBL08184.1| Helix-turn-helix [Roseburia intestinalis M50/1]
 gi|291558633|emb|CBL37433.1| Helix-turn-helix [butyrate-producing bacterium SSC/2]
 gi|323399097|gb|EGA91505.1| hypothetical protein HMPREF9474_04639 [Clostridium symbiosum
          WAL-14163]
          Length = 209

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   I + 
Sbjct: 10 IGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 RGETDEYETDIT 81


>gi|291523416|emb|CBK81709.1| Helix-turn-helix [Coprococcus catus GD/7]
          Length = 209

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   I + 
Sbjct: 10 IGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|228937302|ref|ZP_04099955.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|228822360|gb|EEM68336.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
          Length = 127

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 31/52 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          VGK I+  R I G+S++++ E L  T++ V  +E G  +   ++L+ I+  L
Sbjct: 8  VGKNIKKLRAIKGVSRKEMAEDLNTTYRTVSSWETGEKKPRLNKLEEIASYL 59


>gi|269955724|ref|YP_003325513.1| XRE family transcriptional regulator [Xylanimonas cellulosilytica
          DSM 15894]
 gi|269304405|gb|ACZ29955.1| transcriptional regulator, XRE family [Xylanimonas
          cellulosilytica DSM 15894]
          Length = 505

 Score = 35.4 bits (80), Expect = 2.4,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 31/69 (44%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P  + +G+RIR  R   GM+ + L   +G    QV   E G      +RLQ ++  L + 
Sbjct: 24 PDALTIGRRIRHLRTERGMTLDDLAAAIGKAPSQVSLLENGKREPTIARLQAVARALGAG 83

Query: 70 ISFFFDVSP 78
          +    D  P
Sbjct: 84 VEDLLDPRP 92


>gi|260589105|ref|ZP_05855018.1| putative DNA-binding protein [Blautia hansenii DSM 20583]
 gi|260540525|gb|EEX21094.1| putative DNA-binding protein [Blautia hansenii DSM 20583]
          Length = 45

 Score = 35.4 bits (80), Expect = 2.4,   Method: Composition-based stats.
 Identities = 17/41 (41%), Positives = 29/41 (70%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR 53
          I +GK I  +R  LGM+Q++L E +G++ + V K+E GV++
Sbjct: 4  IKIGKYIAGKRKSLGMTQKQLAEKIGMSDKSVSKWESGVSQ 44


>gi|331015083|gb|EGH95139.1| hypothetical protein PLA106_04022 [Pseudomonas syringae pv.
          lachrymans str. M302278PT]
          Length = 83

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 35/70 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +G++IR RR+  G++Q +L     +T Q+V   EKG   VG +    +   L+  +
Sbjct: 6  ITTRLGEQIRQRRLNRGLTQARLAALAAVTRQKVIAIEKGDLSVGMTAYARVLGALDCEL 65

Query: 71 SFFFDVSPTV 80
          S      PT+
Sbjct: 66 SVIPAAMPTL 75


>gi|289449565|ref|YP_003474504.1| DNA-binding helix-turn-helix protein [Clostridiales genomosp.
          BVAB3 str. UPII9-5]
 gi|289184112|gb|ADC90537.1| DNA-binding helix-turn-helix protein [Clostridiales genomosp.
          BVAB3 str. UPII9-5]
          Length = 210

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 34/61 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++IR  R+  G++QE+L E + ++   V K+E G      + L+ I++ L   + +  
Sbjct: 3  LGEKIRNARVEAGLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKMIADALGVTVDYLL 62

Query: 75 D 75
          D
Sbjct: 63 D 63


>gi|283796930|ref|ZP_06346083.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium sp. M62/1]
 gi|291075340|gb|EFE12704.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium sp. M62/1]
          Length = 111

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 31/109 (28%), Positives = 56/109 (51%), Gaps = 5/109 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SP 69
           +D  +GKR++  R  LG+SQE+L E  G+T   +   E+G++     +L  +   LE S 
Sbjct: 2   IDKRIGKRVKQCRERLGISQEELAEKTGLTANYISTVERGMSFPRCEKLIILLNGLEVSA 61

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            + F DV     S  SSE +  +  +S     Q  +  +Q+ ++ ++Q+
Sbjct: 62  DAIFCDVLEHSTSYKSSELSEKLASLSP----QAQKRILQMVELMIQQE 106


>gi|167628808|ref|YP_001679307.1| helix-turn-helix domain protein [Heliobacterium modesticaldum Ice1]
 gi|167591548|gb|ABZ83296.1| helix-turn-helix domain protein [Heliobacterium modesticaldum Ice1]
          Length = 119

 Score = 35.4 bits (80), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 26/122 (21%), Positives = 61/122 (50%), Gaps = 8/122 (6%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISF 72
           ++G RI+  R   G++Q +L + L ++ Q +  +E+G    +    +  ++ +LE+   F
Sbjct: 3   SIGNRIKHLRKQRGLTQPQLAKLLNVSPQVISNWERGYTPTIAPESIDKLASILETTSDF 62

Query: 73  FFDVS-PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
               S  ++ S + + E       S P+G+++ R   +    + ++ I+EL+ + V +E 
Sbjct: 63  LLGRSTASISSSLEALEK------SWPEGIKVLRRANEKLTPEKKRVILELIDTYVRTEG 116

Query: 132 KY 133
            +
Sbjct: 117 NH 118


>gi|238925837|ref|YP_002939355.1| hypothetical protein EUBREC_3495 [Eubacterium rectale ATCC 33656]
 gi|238877514|gb|ACR77221.1| Hypothetical protein EUBREC_3495 [Eubacterium rectale ATCC 33656]
 gi|295098807|emb|CBK87896.1| Helix-turn-helix. [Eubacterium cylindroides T2-87]
          Length = 209

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   I + 
Sbjct: 10 IGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|209546022|ref|YP_002277912.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
          trifolii WSM2304]
 gi|209538879|gb|ACI58812.1| transcriptional regulator, XRE family [Rhizobium leguminosarum
          bv. trifolii WSM2304]
          Length = 227

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 32/66 (48%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 34 NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 93

Query: 69 PISFFF 74
          P++ FF
Sbjct: 94 PMTAFF 99


>gi|168184253|ref|ZP_02618917.1| helix-turn-helix domain protein [Clostridium botulinum Bf]
 gi|182672621|gb|EDT84582.1| helix-turn-helix domain protein [Clostridium botulinum Bf]
          Length = 216

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 29/49 (59%)

Query: 25 ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +  ++Q++L E LGI  Q + ++ KG  ++    L ++SE  + P+ +F
Sbjct: 10 LYNLTQQELAEELGIKKQNISQWVKGSRKIPKKYLTYLSEKFKIPVPYF 58


>gi|163731540|ref|ZP_02138987.1| transcriptional regulator, putative [Roseobacter litoralis Och
          149]
 gi|161394994|gb|EDQ19316.1| transcriptional regulator, putative [Roseobacter litoralis Och
          149]
          Length = 429

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 26/52 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +G RIR RR + G+ Q  L   LGI+   +   E    R+G   L  I+ VL
Sbjct: 7  IGSRIRERRSVAGLKQADLARSLGISPSYLNLIEHNRRRIGGKLLLDIARVL 58


>gi|322834913|ref|YP_004214940.1| helix-turn-helix domain protein [Rahnella sp. Y9602]
 gi|321170114|gb|ADW75813.1| helix-turn-helix domain protein [Rahnella sp. Y9602]
          Length = 95

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 21/58 (36%), Positives = 31/58 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +G RI   R   G++Q KL E LGI  Q +  YE    ++ AS L  +S +L+  I
Sbjct: 21 LALGVRIAEARKSKGLTQRKLAEMLGIAQQTLAHYEVARLKLSASFLPELSRILDCTI 78


>gi|320321186|gb|EFW77327.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
          glycinea str. B076]
          Length = 121

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 32/64 (50%), Gaps = 8/64 (12%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R + GMSQ  L E +G     V  YE+G++  G  +L          IS  F
Sbjct: 15 VGAKIKALRKLSGMSQAVLAEKIGCDAPLVGCYERGIHLPGVEQLIK--------ISMAF 66

Query: 75 DVSP 78
          DV+P
Sbjct: 67 DVAP 70


>gi|315038706|ref|YP_004032274.1| helix-turn-helix domain protein [Lactobacillus amylovorus GRL
          1112]
 gi|312276839|gb|ADQ59479.1| helix-turn-helix domain protein [Lactobacillus amylovorus GRL
          1112]
          Length = 135

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 31/55 (56%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          RIR  R   G+SQ KL +  GI    + ++E G++  G  RL+ I++ L   +++
Sbjct: 3  RIREIRKKQGISQSKLAQLTGIPTSTLSEFENGLHDPGEDRLRKIAQALNVSLNY 57


>gi|222053702|ref|YP_002536064.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221562991|gb|ACM18963.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 106

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 25/89 (28%), Positives = 45/89 (50%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R +  M+QEKL E +G+  + V   E G +      ++ I++ L+  +   F
Sbjct: 8   LGARIKELRKLRKMTQEKLAEQIGVDPKYVSFIEVGRSSPSLEAMEKIAQALDVEMKDMF 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL 103
           D S     ++S E+ + M    T D L++
Sbjct: 68  DFSHHEAREVSIEQIDEMLSGVTEDQLKI 96


>gi|332158049|ref|YP_004423328.1| hypothetical protein PNA2_0406 [Pyrococcus sp. NA2]
 gi|331033512|gb|AEC51324.1| hypothetical protein PNA2_0406 [Pyrococcus sp. NA2]
          Length = 316

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 36/70 (51%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+++++ R   G +  +L   LGI+ + +Q+YEKG + V       + E+ + P+    D
Sbjct: 128 GRKLKMLREEHGYTLAELARILGISRKSLQRYEKGESVVSVEVALRLEEIFDEPLVKPID 187

Query: 76  VSPTVCSDIS 85
           V      D+S
Sbjct: 188 VLKARLEDVS 197


>gi|291530482|emb|CBK96067.1| Helix-turn-helix [Eubacterium siraeum 70/3]
          Length = 209

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   I + 
Sbjct: 10 IGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|225851327|ref|YP_002731561.1| transcriptional regulator, xre family [Persephonella marina
          EX-H1]
 gi|225645748|gb|ACO03934.1| transcriptional regulator, xre family [Persephonella marina
          EX-H1]
          Length = 159

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 30/53 (56%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          N+G+RI+  R +LG+SQ +  E +G + + VQ +E        S L+ IS+  
Sbjct: 3  NIGQRIKQLRKMLGLSQREFAEKIGKSLRAVQNWEYEQRTPDESTLRLISQTF 55


>gi|189423256|ref|YP_001950433.1| XRE family transcriptional regulator [Geobacter lovleyi SZ]
 gi|189419515|gb|ACD93913.1| transcriptional regulator, XRE family [Geobacter lovleyi SZ]
          Length = 160

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 9/71 (12%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VG+ IR +RM LG+ Q ++ E +G+T   +  +E G        LQ+   +++     
Sbjct: 34 ITVGEHIRKKRMDLGLLQREVAEIIGVTESSIWNWEHGTE----PELQYNPRIIK----- 84

Query: 73 FFDVSPTVCSD 83
          F    P  C D
Sbjct: 85 FLGYIPFDCPD 95


>gi|217975334|ref|YP_002360085.1| XRE family transcriptional regulator [Shewanella baltica OS223]
 gi|217500469|gb|ACK48662.1| transcriptional regulator, XRE family [Shewanella baltica OS223]
          Length = 103

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 23/73 (31%), Positives = 41/73 (56%), Gaps = 8/73 (10%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQH 61
          KI NP+ I    R++  R+  G+SQ++LG  LG+       ++ +YEKG +      L+ 
Sbjct: 4  KIINPLPI----RLKQARISKGISQKQLGIQLGMEVGSASARMNQYEKGKHTPDYKTLKA 59

Query: 62 ISEVLESPISFFF 74
          ++  L  P+++FF
Sbjct: 60 MANELGVPVAYFF 72


>gi|148259560|ref|YP_001233687.1| XRE family transcriptional regulator [Acidiphilium cryptum JF-5]
 gi|326402766|ref|YP_004282847.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
 gi|146401241|gb|ABQ29768.1| putative transcriptional regulator, XRE family [Acidiphilium
          cryptum JF-5]
 gi|325049627|dbj|BAJ79965.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
          Length = 203

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 21/74 (28%), Positives = 35/74 (47%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           D  VG R+R  R I G++Q +L    G+T   +   E+G      S L+ I + +   +
Sbjct: 21 ADAGVGARLRRMRQIFGLTQRELARRAGVTNGAISLIEQGRVSPSISSLKKILDGIPMSL 80

Query: 71 SFFFDVSPTVCSDI 84
          + FF +  T   D+
Sbjct: 81 AEFFTLDLTAPEDV 94


>gi|317501524|ref|ZP_07959721.1| hypothetical protein HMPREF1026_01665 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|316897079|gb|EFV19153.1| hypothetical protein HMPREF1026_01665 [Lachnospiraceae bacterium
          8_1_57FAA]
          Length = 211

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 19/53 (35%), Positives = 30/53 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G+ I+  R    M Q++L + +GI  Q + K E+GVN      L+ I +VLE
Sbjct: 11 LGENIQTIRKHRKMKQQELADAIGINMQSLSKIERGVNYPTFDTLEKIMDVLE 63


>gi|307069657|ref|YP_003878134.1| putative imidazoleglycerol-phosphate dehydratase [Candidatus
          Zinderia insecticola CARI]
 gi|306482917|gb|ADM89788.1| putative imidazoleglycerol-phosphate dehydratase [Candidatus
          Zinderia insecticola CARI]
          Length = 197

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 14/27 (51%), Positives = 19/27 (70%)

Query: 31 EKLGECLGITFQQVQKYEKGVNRVGAS 57
          E +G CLG  F ++ KY+KG+NR G S
Sbjct: 73 EDIGICLGKIFNKLLKYKKGINRYGLS 99


>gi|227537296|ref|ZP_03967345.1| helix-turn-helix domain protein [Sphingobacterium spiritivorum
          ATCC 33300]
 gi|227242799|gb|EEI92814.1| helix-turn-helix domain protein [Sphingobacterium spiritivorum
          ATCC 33300]
          Length = 354

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 19/71 (26%), Positives = 37/71 (52%), Gaps = 2/71 (2%)

Query: 16 GKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +R +  R++ G S + L + LG  ++ Q + +YEKG     A ++  +S+ L+    +F
Sbjct: 8  AERFKSARLMNGFSLQDLADALGNKLSRQALHRYEKGEVIPDAEKINMLSKALKVSSDYF 67

Query: 74 FDVSPTVCSDI 84
          F  +    SD+
Sbjct: 68 FRTTKVELSDV 78


>gi|210614272|ref|ZP_03290143.1| hypothetical protein CLONEX_02356 [Clostridium nexile DSM 1787]
 gi|210150756|gb|EEA81765.1| hypothetical protein CLONEX_02356 [Clostridium nexile DSM 1787]
          Length = 209

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   I + 
Sbjct: 10 IGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 RGETDEYETDIT 81


>gi|284007818|emb|CBA73695.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 137

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 17/62 (27%), Positives = 31/62 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+RI+ RR  L +SQ  L   LGI    + ++E+  +      L  +++ L    S+ 
Sbjct: 5  TLGERIKARRQELKLSQRALASILGIAHVSISQWERNESTPKGENLMALAKTLHCEPSWL 64

Query: 74 FD 75
          F+
Sbjct: 65 FE 66


>gi|266623939|ref|ZP_06116874.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium hathewayi DSM 13479]
 gi|288864240|gb|EFC96538.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium hathewayi DSM 13479]
          Length = 147

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 32/108 (29%), Positives = 55/108 (50%), Gaps = 7/108 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVL-ESPI 70
           +N+G+RIR  R    M+Q +L E +G T Q V KYE G V  +   +L  +++ L  +P 
Sbjct: 1   MNIGERIRGLREKQEMTQTELAEKIGSTKQTVYKYENGVVTNIPYDKLILLAKALGTTPS 60

Query: 71  SFF-FD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           S   +D +   +  + +  +N    +I      +LN Y I + D +V+
Sbjct: 61  SLMGWDKIEEAINEEFTRLDNLTKQYILL---FELNGYKIDVGDEQVK 105


>gi|145299927|ref|YP_001142768.1| DNA-binding transcriptional repressor PuuR [Aeromonas salmonicida
          subsp. salmonicida A449]
 gi|142852699|gb|ABO91020.1| transcriptional regulator [Aeromonas salmonicida subsp.
          salmonicida A449]
          Length = 187

 Score = 35.4 bits (80), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 1/67 (1%)

Query: 9  NPV-DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          NP+ D ++G+R+   R  LG+SQ ++ E  G+T   +   E+       + LQ +  V E
Sbjct: 4  NPLMDKSMGERLAATRRRLGLSQRRVAELSGLTHGAICMIEQDKVSPSVASLQKLLNVYE 63

Query: 68 SPISFFF 74
           P+S FF
Sbjct: 64 LPLSRFF 70


>gi|325000733|ref|ZP_08121845.1| transcriptional regulator, XRE family protein [Pseudonocardia sp.
          P1]
          Length = 84

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 16/64 (25%), Positives = 36/64 (56%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISS 86
          G++Q++LGE +G++ Q V + E G      +    ++ VLE+P+   F ++    +D+ +
Sbjct: 20 GLTQKRLGELVGVSRQTVVEIEAGGYNPSTAVALRMAVVLETPVGELFALADGEVADLRA 79

Query: 87 EENN 90
            ++
Sbjct: 80 RRDD 83


>gi|314939500|ref|ZP_07846732.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|314944174|ref|ZP_07850819.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|314951901|ref|ZP_07854933.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|314994467|ref|ZP_07859746.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|314997871|ref|ZP_07862772.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313588096|gb|EFR66941.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313591122|gb|EFR69967.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|313595935|gb|EFR74780.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|313597236|gb|EFR76081.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|313641201|gb|EFS05781.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
          Length = 254

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 2/60 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQ--VQKYEKGVNRVGASRLQHISEVLESPISF 72
          VG RIRL R  LG+S ++ G+ +  T     V ++E+G++     RL  I+++    I++
Sbjct: 8  VGNRIRLVRKELGLSMKEFGKKITPTAADSIVSRWERGISLPNNDRLTQIAKIAHKDINW 67


>gi|223983578|ref|ZP_03633760.1| hypothetical protein HOLDEFILI_01041 [Holdemania filiformis DSM
          12042]
 gi|223964464|gb|EEF68794.1| hypothetical protein HOLDEFILI_01041 [Holdemania filiformis DSM
          12042]
          Length = 353

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 16/62 (25%), Positives = 36/62 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + + IR RR  LG++Q+++ E LG++   V K+E G +    + L  ++ +L++ ++ 
Sbjct: 1  MKINEVIRQRRKELGLTQDRVAELLGVSAPAVNKWENGNSYPDITLLPPLARLLKTDLNT 60

Query: 73 FF 74
            
Sbjct: 61 LL 62


>gi|93007412|ref|YP_579176.1| transcriptional regulator [Streptomyces phage mu1/6]
 gi|90568490|gb|ABD94169.1| transcriptional regulator [Streptomyces phage mu1/6]
          Length = 93

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 30/61 (49%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG RIR  R+  G+SQ  L   +G+  + + + E GV+ +   +   I+  L  P    
Sbjct: 30 DVGARIRELRLAAGLSQVDLSHRIGVDHRTISRAENGVHAISIDQAYRIATALGQPSWRL 89

Query: 74 F 74
          F
Sbjct: 90 F 90


>gi|89899047|ref|YP_521518.1| transcriptional regulator [Rhodoferax ferrireducens T118]
 gi|89343784|gb|ABD67987.1| transcriptional regulator, XRE family with cupin sensor domain
          [Rhodoferax ferrireducens T118]
          Length = 197

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 17/66 (25%), Positives = 35/66 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G ++R RR I G++  +L +  G++   + + E+G++      +  I   L  P+S+
Sbjct: 14 MGLGMQVRQRRRIKGLTLTELSQQSGLSVGLLSQIERGLSSPSLKSMTQICTALGVPLSW 73

Query: 73 FFDVSP 78
           FD  P
Sbjct: 74 LFDNGP 79


>gi|37528124|ref|NP_931469.1| hypothetical protein plu4293 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36787561|emb|CAE16665.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 78

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 23/72 (31%), Positives = 33/72 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN V    G+R+R  R   GMSQE   +  GI    +   E+GV       +  I+  
Sbjct: 2  KKPNAVKFLFGQRVRYFRQSSGMSQEAFADKCGIDRTYISGIERGVRNPTLEIINIIASG 61

Query: 66 LESPISFFFDVS 77
          L+  ++  FD S
Sbjct: 62 LQIELTDLFDFS 73


>gi|291539287|emb|CBL12398.1| Helix-turn-helix [Roseburia intestinalis XB6B4]
          Length = 209

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   I + 
Sbjct: 10 IGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 RGETDEYETDIT 81


>gi|239617046|ref|YP_002940368.1| protein of unknown function DUF955 [Kosmotoga olearia TBF 19.5.1]
 gi|239505877|gb|ACR79364.1| protein of unknown function DUF955 [Kosmotoga olearia TBF 19.5.1]
          Length = 351

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 37/68 (54%), Gaps = 2/68 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G RI+  R+   MS  KL E +G++   + KYE+  +   +  L  +S+ L   + +
Sbjct: 1  MSIGSRIKQARIRNNMSLRKLSEKVGVSAMAISKYERDEDVPSSKVLIRLSKALNVKVEY 60

Query: 73 FF--DVSP 78
          FF  D+ P
Sbjct: 61 FFRPDLFP 68


>gi|254454592|ref|ZP_05068029.1| DNA-binding protein [Octadecabacter antarcticus 238]
 gi|198268998|gb|EDY93268.1| DNA-binding protein [Octadecabacter antarcticus 238]
          Length = 189

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 35/67 (52%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+P    +G  IR  R   G++   LG+ LG +   + + E+ ++    + L+HI+ VL+
Sbjct: 5  PSPEIHTLGADIRALRKARGLTLSGLGKTLGRSVGWLSQVERDMSEPSITDLRHIASVLD 64

Query: 68 SPISFFF 74
            +S  F
Sbjct: 65 VSVSSLF 71


>gi|313625620|gb|EFR95300.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
          innocua FSL J1-023]
          Length = 111

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +  FF
Sbjct: 7  VGNKIKQYREERGLNQEALAEKLHTTRQTISRYENGDRKANQDVLFELAKIFNKRLDDFF 66


>gi|154499861|ref|ZP_02037899.1| hypothetical protein BACCAP_03518 [Bacteroides capillosus ATCC
          29799]
 gi|150271459|gb|EDM98716.1| hypothetical protein BACCAP_03518 [Bacteroides capillosus ATCC
          29799]
          Length = 409

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 16/37 (43%), Positives = 24/37 (64%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK 49
          + +G+RI   R   G+SQE LGE +G++ Q V K+E 
Sbjct: 1  MTLGQRIAALRKEKGLSQEGLGELVGVSRQAVSKWEA 37


>gi|332686955|ref|YP_004456729.1| SOS-response repressor and protease LexA [Melissococcus plutonius
          ATCC 35311]
 gi|332370964|dbj|BAK21920.1| SOS-response repressor and protease LexA [Melissococcus plutonius
          ATCC 35311]
          Length = 236

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 17/63 (26%), Positives = 39/63 (61%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          + +G+RI+ RR  L +S + + E LG++   + +YEKG + ++  + L++I+ +L +  +
Sbjct: 1  MTIGERIKARRKELKLSADIVAEKLGVSRSTIFRYEKGDIEKLPTNILENIAIILHTSPA 60

Query: 72 FFF 74
          +  
Sbjct: 61 YLM 63


>gi|302390667|ref|YP_003826488.1| helix-turn-helix domain protein [Thermosediminibacter oceani DSM
          16646]
 gi|302201295|gb|ADL08865.1| helix-turn-helix domain protein [Thermosediminibacter oceani DSM
          16646]
          Length = 114

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 16/61 (26%), Positives = 34/61 (55%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G+R++  R   G++Q+++ + LGI   Q+  YE G   +  + LQ ++ +    I +F
Sbjct: 8  SLGERLQEARKKCGLTQDQVAKILGINKVQLSYYETGAREINITLLQELANLYGYSIDYF 67

Query: 74 F 74
           
Sbjct: 68 L 68


>gi|194467602|ref|ZP_03073589.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
 gi|194454638|gb|EDX43535.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
          Length = 110

 Score = 35.4 bits (80), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 32/55 (58%), Gaps = 1/55 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLE 67
          N+ + I  +R  L ++QEKL E   ++   + K E+G +R V A  LQH++  LE
Sbjct: 3  NLSQNIVKQRHALHLTQEKLAEKARMSVNFLSKLERGASRTVSAETLQHLANALE 57


>gi|312126603|ref|YP_003991477.1| XRE family transcriptional regulator [Caldicellulosiruptor
          hydrothermalis 108]
 gi|311776622|gb|ADQ06108.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          hydrothermalis 108]
          Length = 119

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 23/83 (27%), Positives = 42/83 (50%), Gaps = 8/83 (9%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR  R+  G+SQE+LG+ L ++ + +  YE G        L  +++     I +     
Sbjct: 4  RIRELRLERGLSQEELGKVLNVSGRTIGHYENGSREPTPEALNKLADFFGVTIDYL---- 59

Query: 78 PTVC-SDI-SSEENNVMDFISTP 98
            +C +D+ S+E+ +  D + TP
Sbjct: 60 --LCRTDVRSTEKQDTKDKLQTP 80


>gi|269964620|ref|ZP_06178858.1| hypothetical protein VMC_02880 [Vibrio alginolyticus 40B]
 gi|269830519|gb|EEZ84740.1| hypothetical protein VMC_02880 [Vibrio alginolyticus 40B]
          Length = 374

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 37/63 (58%), Gaps = 2/63 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYE-KG-VNRVGASRLQHISEVLESPISFFFD 75
          R+++ R   G +++ L E  GIT + +  YE KG ++   ++ +  I+++L  P+ FF+ 
Sbjct: 6  RLKIARERRGYTKKALAELTGITTRTLSTYENKGLLDTTDSTLVSRIADILNYPVEFFYA 65

Query: 76 VSP 78
           +P
Sbjct: 66 DNP 68


>gi|321159775|pdb|3LFP|A Chain A, Crystal Structure Of The Restriction-Modification
          Controller Protein C.Csp231i
 gi|321159777|pdb|3LIS|A Chain A, Crystal Structure Of The Restriction-Modification
          Controller Protein C.Csp231i (Monoclinic Form)
 gi|321159778|pdb|3LIS|B Chain B, Crystal Structure Of The Restriction-Modification
          Controller Protein C.Csp231i (Monoclinic Form)
 gi|60418612|gb|AAX19732.1| Csp231I C protein [Citrobacter sp. RFL231]
          Length = 98

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R+  G+SQEKLG   GI       ++ +YEKG +         +++VL+ P+S+
Sbjct: 4  RRLKDARLRAGISQEKLGVLAGIDEASASARMNQYEKGKHAPDFEMANRLAKVLKIPVSY 63

Query: 73 FF 74
           +
Sbjct: 64 LY 65


>gi|290769910|gb|ADD61680.1| putative protein [uncultured organism]
          Length = 209

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   I + 
Sbjct: 10 IGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|153955543|ref|YP_001396308.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219855938|ref|YP_002473060.1| hypothetical protein CKR_2595 [Clostridium kluyveri NBRC 12016]
 gi|146348401|gb|EDK34937.1| Predicted transcriptional regulator [Clostridium kluyveri DSM
          555]
 gi|219569662|dbj|BAH07646.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 109

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 22/71 (30%), Positives = 37/71 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GKRIR  R+ L ++QEKL E + ++   V + E+G   V    L  I++ L   + +
Sbjct: 4  IALGKRIREERLKLRLTQEKLAEDVDVSSSYVGQIERGEKSVTLDTLIRITKRLGVTVDY 63

Query: 73 FFDVSPTVCSD 83
              S  + +D
Sbjct: 64 LLKDSVNMEND 74


>gi|320354394|ref|YP_004195733.1| XRE family transcriptional regulator [Desulfobulbus propionicus DSM
           2032]
 gi|320122896|gb|ADW18442.1| transcriptional regulator, XRE family [Desulfobulbus propionicus
           DSM 2032]
          Length = 436

 Score = 35.4 bits (80), Expect = 2.7,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 35/68 (51%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P P   ++G RI+  R   G+SQ++L E  G+T   + + EK +       L  ++E L 
Sbjct: 249 PLPGRFDLGARIKAVRKKQGLSQKELAEKAGVTPSSISQIEKNLIYPSLPALFRLAESLS 308

Query: 68  SPISFFFD 75
             ++ FF+
Sbjct: 309 IGVASFFE 316


>gi|319937527|ref|ZP_08011932.1| hypothetical protein HMPREF9488_02768 [Coprobacillus sp. 29_1]
 gi|319807367|gb|EFW03976.1| hypothetical protein HMPREF9488_02768 [Coprobacillus sp. 29_1]
          Length = 182

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 33/56 (58%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G++IR  R+   +SQE + + L ++ Q V K+EKG+++     L  +SE+    +
Sbjct: 3  IGEKIRELRIRNQLSQESIAQLLDVSRQSVSKWEKGLSKPSTDNLLRLSEIFSVSV 58


>gi|315274405|ref|ZP_07869367.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
          marthii FSL S4-120]
 gi|313615952|gb|EFR89134.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
          marthii FSL S4-120]
          Length = 111

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +  FF
Sbjct: 7  VGNKIKQYREERGLNQEALAEKLHTTRQTISRYENGDRKANQDVLFELAKIFNKRLDDFF 66


>gi|291543337|emb|CBL16446.1| Predicted transcription factor, homolog of eukaryotic MBF1
           [Ruminococcus sp. 18P13]
          Length = 110

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 24/101 (23%), Positives = 51/101 (50%), Gaps = 1/101 (0%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R   G+SQEKL E  G     + + E+G        ++ I+  ++  +S  F
Sbjct: 8   IGQRIRNYRTQKGLSQEKLAELAGCHPTYIGQLERGEKNATLESVEKIASAMDISLSELF 67

Query: 75  D-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           D +  +  ++I+++  +++   +  +  QL +   ++D  K
Sbjct: 68  DKLGKSGSNNIAAKCYDLVASKNEAEQKQLYKMLQEMDKYK 108


>gi|302866468|ref|YP_003835105.1| Cupin 2 conserved barrel domain-containing protein
          [Micromonospora aurantiaca ATCC 27029]
 gi|315502877|ref|YP_004081764.1| cupin 2 conserved barrel domain protein [Micromonospora sp. L5]
 gi|302569327|gb|ADL45529.1| Cupin 2 conserved barrel domain protein [Micromonospora
          aurantiaca ATCC 27029]
 gi|315409496|gb|ADU07613.1| Cupin 2 conserved barrel domain protein [Micromonospora sp. L5]
          Length = 214

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 36/69 (52%), Gaps = 1/69 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG RIR  R   G++   L    G++   + + E+G++ +G + L  +++ L+  ++ FF
Sbjct: 28 VGGRIRRYRKERGLTLRGLASRSGLSIGFLSQVERGISSIGLTALGSVAKALDRSVADFF 87

Query: 75 DVSPTVCSD 83
          D   T   D
Sbjct: 88 DAG-TAAPD 95


>gi|210620982|ref|ZP_03292367.1| hypothetical protein CLOHIR_00310 [Clostridium hiranonis DSM
          13275]
 gi|210154966|gb|EEA85972.1| hypothetical protein CLOHIR_00310 [Clostridium hiranonis DSM
          13275]
          Length = 204

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 16/61 (26%), Positives = 34/61 (55%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G +I+  R    M+ + + E   ++   + + E+G+  V    L+ I++VLE  +++F
Sbjct: 4  NIGAKIKRLRTQKQMTLKDMSEKTNLSIGFLSQLERGLTSVATDSLEKIADVLEVDLTYF 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|197284093|ref|YP_002149965.1| transcriptional regulator [Proteus mirabilis HI4320]
 gi|227358035|ref|ZP_03842377.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
 gi|194681580|emb|CAR40549.1| putative transcriptional regulator [Proteus mirabilis HI4320]
 gi|227161770|gb|EEI46802.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
          Length = 98

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 37/65 (56%), Gaps = 1/65 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-S 68
          P+   +G +IR +R  L +S + + E +G++ QQ  +YE G+ ++    L  I++ L  +
Sbjct: 6  PISQIIGHKIRQQRQHLRLSAKAVAERVGVSQQQFSRYENGLCKIDVDMLFLIAKELNVT 65

Query: 69 PISFF 73
          P +F 
Sbjct: 66 PTAFL 70


>gi|167461941|ref|ZP_02327030.1| hypothetical protein Plarl_05195 [Paenibacillus larvae subsp.
          larvae BRL-230010]
          Length = 68

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 16/52 (30%), Positives = 29/52 (55%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++ GM+Q +L    G+++  +   E+ V  VG +  + +SEVL  P+   F
Sbjct: 14 RVLQGMTQRELANKCGLSYAYISLLERSVKPVGPATAKKLSEVLNRPMEELF 65


>gi|16802162|ref|NP_463647.1| hypothetical protein lmo0114 [Listeria monocytogenes EGD-e]
 gi|46906354|ref|YP_012743.1| repressor protein [Listeria monocytogenes serotype 4b str. F2365]
 gi|47092250|ref|ZP_00230042.1| repressor protein, putative [Listeria monocytogenes str. 4b
          H7858]
 gi|47095185|ref|ZP_00232797.1| repressor protein, putative [Listeria monocytogenes str. 1/2a
          F6854]
 gi|116871527|ref|YP_848308.1| bacteriophage-type repressor, putative [Listeria welshimeri
          serovar 6b str. SLCC5334]
 gi|217965783|ref|YP_002351461.1| helix-turn-helix domain protein [Listeria monocytogenes HCC23]
 gi|224498185|ref|ZP_03666534.1| helix-turn-helix domain protein [Listeria monocytogenes Finland
          1988]
 gi|224502962|ref|ZP_03671269.1| helix-turn-helix domain protein [Listeria monocytogenes FSL
          R2-561]
 gi|226222753|ref|YP_002756860.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
          monocytogenes Clip81459]
 gi|254827546|ref|ZP_05232233.1| conserved hypothetical protein [Listeria monocytogenes FSL
          N3-165]
 gi|254832362|ref|ZP_05237017.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
          monocytogenes 10403S]
 gi|254899558|ref|ZP_05259482.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
          monocytogenes J0161]
 gi|254913239|ref|ZP_05263251.1| conserved hypothetical protein [Listeria monocytogenes J2818]
 gi|254937620|ref|ZP_05269317.1| conserved hypothetical protein [Listeria monocytogenes F6900]
 gi|254991791|ref|ZP_05273981.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
          monocytogenes FSL J2-064]
 gi|255016940|ref|ZP_05289066.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
          monocytogenes FSL F2-515]
 gi|255022366|ref|ZP_05294352.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
          monocytogenes FSL J1-208]
 gi|255025309|ref|ZP_05297295.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
          monocytogenes FSL J2-003]
 gi|255028080|ref|ZP_05300031.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
          monocytogenes LO28]
 gi|255519835|ref|ZP_05387072.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
          monocytogenes FSL J1-175]
 gi|284803147|ref|YP_003415012.1| hypothetical protein LM5578_2904 [Listeria monocytogenes 08-5578]
 gi|284996288|ref|YP_003418056.1| hypothetical protein LM5923_2853 [Listeria monocytogenes 08-5923]
 gi|12054764|emb|CAC20620.1| AX protein [Listeria monocytogenes]
 gi|16409473|emb|CAC98329.1| lmo0114 [Listeria monocytogenes EGD-e]
 gi|46879618|gb|AAT02920.1| putative prophage LambdaLm01, repressor protein [Listeria
          monocytogenes serotype 4b str. F2365]
 gi|47016530|gb|EAL07451.1| repressor protein, putative [Listeria monocytogenes str. 1/2a
          F6854]
 gi|47019452|gb|EAL10193.1| repressor protein, putative [Listeria monocytogenes str. 4b
          H7858]
 gi|116740405|emb|CAK19525.1| bacteriophage-type repressor, putative [Listeria welshimeri
          serovar 6b str. SLCC5334]
 gi|217335053|gb|ACK40847.1| helix-turn-helix domain protein [Listeria monocytogenes HCC23]
 gi|225875215|emb|CAS03909.1| Putative repressor C1 from lactococcal bacteriophage Tuc2009
          [Listeria monocytogenes serotype 4b str. CLIP 80459]
 gi|258599922|gb|EEW13247.1| conserved hypothetical protein [Listeria monocytogenes FSL
          N3-165]
 gi|258610220|gb|EEW22828.1| conserved hypothetical protein [Listeria monocytogenes F6900]
 gi|284058709|gb|ADB69650.1| hypothetical protein LM5578_2904 [Listeria monocytogenes 08-5578]
 gi|284061755|gb|ADB72694.1| hypothetical protein LM5923_2853 [Listeria monocytogenes 08-5923]
 gi|293591239|gb|EFF99573.1| conserved hypothetical protein [Listeria monocytogenes J2818]
 gi|307569672|emb|CAR82851.1| repressor protein, putative [Listeria monocytogenes L99]
 gi|313611579|gb|EFR86184.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
          monocytogenes FSL F2-208]
 gi|328468450|gb|EGF39456.1| hypothetical protein LM1816_04172 [Listeria monocytogenes 1816]
 gi|328472713|gb|EGF43568.1| hypothetical protein LM220_04442 [Listeria monocytogenes 220]
 gi|332310528|gb|EGJ23623.1| Bacteriophage-type repressor [Listeria monocytogenes str. Scott
          A]
          Length = 111

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +  FF
Sbjct: 7  VGNKIKQYREERGLNQEALAEKLHTTRQTISRYENGDRKANQDVLFELAKIFNKRLDDFF 66


>gi|291548981|emb|CBL25243.1| Predicted transcriptional regulator [Ruminococcus torques L2-14]
 gi|295110023|emb|CBL23976.1| Predicted transcriptional regulator [Ruminococcus obeum A2-162]
          Length = 211

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 30/52 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I +VL
Sbjct: 11 LGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNYPTFDTLEKIMDVL 62


>gi|170759959|ref|YP_001786812.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
 gi|169406948|gb|ACA55359.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
          Length = 218

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 29/49 (59%)

Query: 25 ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +  ++Q++L E LGI  Q + ++ KG  ++    L +++E  + PI +F
Sbjct: 10 LYNLTQQELAEELGIKKQNINQWFKGSRKIPKKYLSYLNEKFKIPIDYF 58


>gi|307322306|ref|ZP_07601670.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306892049|gb|EFN22871.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
          Length = 161

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 18/71 (25%), Positives = 35/71 (49%), Gaps = 2/71 (2%)

Query: 27  GMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLE-SPISFFFDVSPTVCSDI 84
           G+S+  L   LG++     +YE+G   R+   RL H+ E++   P+   FD++P +    
Sbjct: 52  GISRADLAHLLGLSVSVYGRYERGSEARLSIPRLIHLCEIMGFMPLDVIFDIAPHLWGKT 111

Query: 85  SSEENNVMDFI 95
             E  + +  +
Sbjct: 112 LEEAEDRLTLM 122


>gi|291551231|emb|CBL27493.1| Helix-turn-helix [Ruminococcus torques L2-14]
          Length = 209

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   I + 
Sbjct: 10 IGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|257869747|ref|ZP_05649400.1| conserved hypothetical protein [Enterococcus gallinarum EG2]
 gi|257803911|gb|EEV32733.1| conserved hypothetical protein [Enterococcus gallinarum EG2]
          Length = 211

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 30/52 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I +VL
Sbjct: 11 LGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNYPTFDTLEKIMDVL 62


>gi|254831247|ref|ZP_05235902.1| hypothetical protein Lmon1_07812 [Listeria monocytogenes 10403S]
          Length = 158

 Score = 35.4 bits (80), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 37/82 (45%), Gaps = 10/82 (12%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           KR+   R   G SQ KL + LG +  QV  YE+G        L  I+E        FF+
Sbjct: 3  SKRLSELRKKKGFSQYKLADELGFSRGQVANYEQGTREPDYQTLLKIAE--------FFN 54

Query: 76 VSPTVCSDISSEENNVMDFIST 97
          VS      +  ++NN+ D I+ 
Sbjct: 55 VSTDYL--LGRDDNNLADTIAA 74


>gi|321272346|gb|ADW80227.1| putative transcriptional regulator [Wolbachia endosymbiont wVitB of
           Nasonia vitripennis phage WOVitB]
          Length = 236

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 29/121 (23%), Positives = 55/121 (45%), Gaps = 7/121 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V+  +G +I   R++ G +Q KL   +G+T +++  +E G   +       I+  L   +
Sbjct: 24  VNYELGXKIEGCRIVQGYTQAKLASKIGLTHKEIHNFELGCKAITIKESYIIAGALSVNV 83

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
                  PTV  +    E+   + +       L +   +I D ++R+K+  LVR +  SE
Sbjct: 84  VDLLP-GPTVLRENGWYEDEDKEIV------YLTKIHREIKDQELRKKLYPLVRFVYISE 136

Query: 131 K 131
           K
Sbjct: 137 K 137


>gi|322388682|ref|ZP_08062281.1| hypothetical transcriptional regulator [Streptococcus infantis
          ATCC 700779]
 gi|321140471|gb|EFX35977.1| hypothetical transcriptional regulator [Streptococcus infantis
          ATCC 700779]
          Length = 228

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 15/73 (20%), Positives = 41/73 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L M+Q+ + + LG+++Q    +E+GV +    +++ +  +L+    +F ++
Sbjct: 5  EKLKARRKELKMTQKDIADQLGVSYQAYSAWERGVKQPSREKVKLLEHILKVSKGYFTEL 64

Query: 77 SPTVCSDISSEEN 89
                +  S+E+
Sbjct: 65 EIVRLYNTLSDED 77


>gi|260855310|ref|YP_003229201.1| putative phage repressor CI [Escherichia coli O26:H11 str. 11368]
 gi|260868064|ref|YP_003234466.1| putative phage repressor protein CI [Escherichia coli O111:H-
          str. 11128]
 gi|293405073|ref|ZP_06649065.1| transcriptional repressor DicA [Escherichia coli FVEC1412]
 gi|298380719|ref|ZP_06990318.1| transcriptional repressor DicA [Escherichia coli FVEC1302]
 gi|331652950|ref|ZP_08353955.1| HTH-type transcriptional regulator DicA (Repressor protein of
          divisioninhibition protein dicA) [Escherichia coli
          M718]
 gi|331683077|ref|ZP_08383678.1| HTH-type transcriptional regulator DicA (Repressor protein of
          divisioninhibition protein dicA) [Escherichia coli
          H299]
 gi|257753959|dbj|BAI25461.1| predicted phage repressor CI [Escherichia coli O26:H11 str.
          11368]
 gi|257764420|dbj|BAI35915.1| predicted phage repressor protein CI [Escherichia coli O111:H-
          str. 11128]
 gi|291427281|gb|EFF00308.1| transcriptional repressor DicA [Escherichia coli FVEC1412]
 gi|298278161|gb|EFI19675.1| transcriptional repressor DicA [Escherichia coli FVEC1302]
 gi|320646852|gb|EFX15716.1| transcriptional repressor DicA [Escherichia coli O157:H- str.
          493-89]
 gi|320663403|gb|EFX30700.1| transcriptional repressor DicA [Escherichia coli O55:H7 str. USDA
          5905]
 gi|331049048|gb|EGI21120.1| HTH-type transcriptional regulator DicA (Repressor protein of
          divisioninhibition protein dicA) [Escherichia coli
          M718]
 gi|331079292|gb|EGI50489.1| HTH-type transcriptional regulator DicA (Repressor protein of
          divisioninhibition protein dicA) [Escherichia coli
          H299]
          Length = 135

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          +G+RIR RR  +G+SQ  L +  G++   +  +E          L  ++EVL+ SP    
Sbjct: 6  LGQRIRERRKQVGLSQNGLSKAAGVSGSSISLWESDHTAPRGQNLHRLAEVLQCSPTWIL 65

Query: 74 F---DVSPT 79
          F   D +P 
Sbjct: 66 FGDEDKTPA 74


>gi|239928289|ref|ZP_04685242.1| UDP-N-acetylglucosamine transferase [Streptomyces ghanaensis ATCC
          14672]
 gi|291436618|ref|ZP_06576008.1| UDP-N-acetylglucosamine transferase [Streptomyces ghanaensis ATCC
          14672]
 gi|291339513|gb|EFE66469.1| UDP-N-acetylglucosamine transferase [Streptomyces ghanaensis ATCC
          14672]
          Length = 509

 Score = 35.4 bits (80), Expect = 2.8,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +G+ IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGRLIRDARQHRGWTQAQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|160913567|ref|ZP_02076257.1| hypothetical protein EUBDOL_00043 [Eubacterium dolichum DSM 3991]
 gi|158434028|gb|EDP12317.1| hypothetical protein EUBDOL_00043 [Eubacterium dolichum DSM 3991]
          Length = 227

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 30/49 (61%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++QE+LGE LG+T + + K+E G +    S  + + ++LE  +   FD
Sbjct: 19 GLTQEQLGELLGVTNKSISKWENGKSLPDPSLYKPLCDILEINLIELFD 67


>gi|295111675|emb|CBL28425.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Synergistetes bacterium SGP1]
          Length = 233

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 22/79 (27%), Positives = 37/79 (46%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +  +G RI  RR  LGM + +L E LG+    + +YE G   +  S    I++ L   +
Sbjct: 5  AEAGIGARIMARRKALGMKRPELAERLGVKPNTLYRYEIGSIGIRDSMKSRIAKELGVSL 64

Query: 71 SFFFDVSPTVCSDISSEEN 89
          ++    +  V  +  SEE 
Sbjct: 65 AYLVSGTAEVGRERGSEET 83


>gi|284009381|emb|CBA76570.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 137

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 23/113 (20%), Positives = 51/113 (45%), Gaps = 11/113 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G+RIRLRR  L ++Q++LG+ +G++   + ++EK         L  +++ L     + 
Sbjct: 5   SIGERIRLRRKELELTQKQLGKRVGVSHVAISQWEKEETEPKGDNLLSLADALMCTAEYI 64

Query: 74  F----DVSPTVC-------SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                   P  C       S ++  E N+++  +     +   Y  +I + + 
Sbjct: 65  LRGTTSEKPIRCDNDTYKYSRLTKREENLLEMFNALTEDEQKNYLKEITETRA 117


>gi|226950004|ref|YP_002805095.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
 gi|226843764|gb|ACO86430.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
          Length = 218

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 29/49 (59%)

Query: 25 ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +  ++Q++L E LGI  Q + ++ KG  ++    L ++SE  + P+ +F
Sbjct: 10 LYNLTQQELAEELGIKKQNISQWVKGSRKIPKKYLTYLSEKFKIPVPYF 58


>gi|300825194|ref|ZP_07105283.1| helix-turn-helix protein [Escherichia coli MS 119-7]
 gi|300522313|gb|EFK43382.1| helix-turn-helix protein [Escherichia coli MS 119-7]
          Length = 367

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 23/59 (38%), Positives = 32/59 (54%), Gaps = 1/59 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G +++L RM +G+S E+L E +G T Q V K EKG  R     L+ I+  L     F F
Sbjct: 13 GDKLKLARMAVGLSCEELAEKIGKTKQFVSKLEKGF-RPSEQCLELIASALMIKSDFLF 70


>gi|296314367|ref|ZP_06864308.1| putative helix-turn-helix protein [Neisseria polysaccharea ATCC
           43768]
 gi|296838924|gb|EFH22862.1| putative helix-turn-helix protein [Neisseria polysaccharea ATCC
           43768]
          Length = 112

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 23/96 (23%), Positives = 44/96 (45%), Gaps = 6/96 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+   IR  R   G +Q++L +    +   +   E G      S L+++SE L+ P+S 
Sbjct: 1   MNISHAIRFLRKQKGWTQQQLADFANTSKSNISNLENGNQGYSESILKYLSEALDCPVSS 60

Query: 73  FFDVSPTVCSDISSEENNVMD------FISTPDGLQ 102
            F ++ ++    ++   N+ D      F+  P  LQ
Sbjct: 61  IFLLAESLERQQNNTATNMEDMPIELIFMQLPKPLQ 96


>gi|266619976|ref|ZP_06112911.1| helix-turn-helix protein [Clostridium hathewayi DSM 13479]
 gi|288868440|gb|EFD00739.1| helix-turn-helix protein [Clostridium hathewayi DSM 13479]
          Length = 260

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 24/99 (24%), Positives = 45/99 (45%), Gaps = 6/99 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N G+++   R   G+SQE L E L  T Q + K+E         +L  +S++ + P+ F
Sbjct: 1   MNFGEKLFNLRKEKGLSQEALAEQLNTTRQAISKWENNHGYPETEKLLKLSDIFQVPVDF 60

Query: 73  FFDVSPTV----CSDISSEENNVMDFISTPDGLQLNRYF 107
               +  +      +I       + ++S+     +NRYF
Sbjct: 61  LLKETTGIENQNSGNIYVTREMAVSYLSSES--MVNRYF 97


>gi|302537531|ref|ZP_07289873.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. C]
 gi|302446426|gb|EFL18242.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. C]
          Length = 509

 Score = 35.4 bits (80), Expect = 2.8,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G +Q +L + LG +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWTQSQLADALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|254386053|ref|ZP_05001368.1| UDP-N-acetylglucosamine transferase [Streptomyces sp. Mg1]
 gi|194344913|gb|EDX25879.1| UDP-N-acetylglucosamine transferase [Streptomyces sp. Mg1]
          Length = 509

 Score = 35.4 bits (80), Expect = 2.8,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G +Q +L + LG +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWTQSQLADALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|332976136|gb|EGK13004.1| XRE family transcriptional regulator [Desmospora sp. 8437]
          Length = 237

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 31/62 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N   R++  R+   ++QE+LG+ + +T   +  YE G        LQ I+EV +  I F
Sbjct: 1  MNFPTRLKKLRLEHKLTQEQLGKKINVTKVSISGYENGTRTPDIETLQKIAEVFDVTIDF 60

Query: 73 FF 74
            
Sbjct: 61 LL 62


>gi|300694677|ref|YP_003750650.1| phage regulatory protein [Ralstonia solanacearum PSI07]
 gi|299076714|emb|CBJ36054.1| putative phage regulatory protein [Ralstonia solanacearum PSI07]
          Length = 118

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 17/44 (38%), Positives = 26/44 (59%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           +G+R+   R   G++Q++L E LGI  Q +  YE G  R+ AS
Sbjct: 11 ELGERVAEARKAHGLTQQQLAEALGIAQQTLAHYEVGRARLPAS 54


>gi|254384564|ref|ZP_04999904.1| DNA-binding protein [Streptomyces sp. Mg1]
 gi|194343449|gb|EDX24415.1| DNA-binding protein [Streptomyces sp. Mg1]
          Length = 389

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 35/68 (51%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+   R +  M+++ +   LG+T   V +YE GV++     +  ++E+L  P++FF    
Sbjct: 30 RLTQARRLAEMTKKDVATQLGVTPAAVGQYETGVSKPRPDLIPRLAEILGVPVTFFLLGR 89

Query: 78 PTVCSDIS 85
          P    D S
Sbjct: 90 PANRLDAS 97


>gi|167747793|ref|ZP_02419920.1| hypothetical protein ANACAC_02514 [Anaerostipes caccae DSM 14662]
 gi|167653155|gb|EDR97284.1| hypothetical protein ANACAC_02514 [Anaerostipes caccae DSM 14662]
          Length = 352

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 22/86 (25%), Positives = 44/86 (51%), Gaps = 12/86 (13%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + + IR  R+  G++QE++   LG++   V K+EK V+    + L  ++ +LE+ ++ 
Sbjct: 1  MKINEMIRELRIKKGLTQEQMASLLGVSAPAVNKWEKAVSYPDITLLPALARLLETDLNT 60

Query: 73 F--FDVSPT----------VCSDISS 86
             F   PT          + +D+SS
Sbjct: 61 LLSFKEEPTKEEITDFLNELAADVSS 86


>gi|328954829|ref|YP_004372162.1| helix-turn-helix domain protein [Coriobacterium glomerans PW2]
 gi|328455153|gb|AEB06347.1| helix-turn-helix domain protein [Coriobacterium glomerans PW2]
          Length = 72

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 1/59 (1%)

Query: 14 NVGKRIRL-RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +G RI+L RR   G+SQEK     GI +  +   E+G +R+  S L+ I++ L+  +S
Sbjct: 8  QIGARIQLLRRARTGLSQEKFSVAAGIDYSYLAGVEQGRHRLSVSMLKRIADGLDLSMS 66


>gi|322390898|ref|ZP_08064406.1| hypothetical protein HMPREF8577_1876 [Streptococcus parasanguinis
          ATCC 903]
 gi|321142411|gb|EFX37881.1| hypothetical protein HMPREF8577_1876 [Streptococcus parasanguinis
          ATCC 903]
          Length = 108

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 31/63 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KRIR+ R   GM+QE+L E   +      K E     +  S L+ I E L   +  FF
Sbjct: 8  ISKRIRILRTQSGMTQEQLEEKADLGTNYAYKLENLEPNIKISTLEKIIEALNVDLQTFF 67

Query: 75 DVS 77
          D++
Sbjct: 68 DLT 70


>gi|260844501|ref|YP_003222279.1| putative phage repressor protein CI [Escherichia coli O103:H2
          str. 12009]
 gi|260854336|ref|YP_003228227.1| putative repressor protein [Escherichia coli O26:H11 str. 11368]
 gi|257752985|dbj|BAI24487.1| predicted repressor protein [Escherichia coli O26:H11 str. 11368]
 gi|257759648|dbj|BAI31145.1| predicted phage repressor protein CI [Escherichia coli O103:H2
          str. 12009]
 gi|323152493|gb|EFZ38776.1| helix-turn-helix family protein [Escherichia coli EPECa14]
          Length = 130

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 36/65 (55%), Gaps = 1/65 (1%)

Query: 26 LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDIS 85
          L ++Q +LG  LG+  Q VQ + KGV      +L+ ++E+ + P+ +FF    T+   ++
Sbjct: 14 LNINQSELGRRLGVKPQSVQGWLKGV-MPRMDKLEKLAELSQHPVHWFFMEEETLGDKMA 72

Query: 86 SEENN 90
             N+
Sbjct: 73 VSSND 77


>gi|192361034|ref|YP_001984168.1| adenine-specific DNA methyltransferase [Cellvibrio japonicus
          Ueda107]
 gi|190687199|gb|ACE84877.1| adenine-specific DNA methyltransferase [Cellvibrio japonicus
          Ueda107]
          Length = 72

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 33/62 (53%), Gaps = 2/62 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FF 73
          GKR++  R    M+QE+L E +GIT + +   E+G+       L+ ++  L  P+   F 
Sbjct: 8  GKRVQQLRFARKMTQEQLAERVGITIESISNIERGIYGPSFDTLEKLAIALRVPVQSLFA 67

Query: 74 FD 75
          FD
Sbjct: 68 FD 69


>gi|332664458|ref|YP_004447246.1| helix-turn-helix domain-containing protein [Haliscomenobacter
          hydrossis DSM 1100]
 gi|332333272|gb|AEE50373.1| helix-turn-helix domain protein [Haliscomenobacter hydrossis DSM
          1100]
          Length = 352

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 34/61 (55%), Gaps = 2/61 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECL--GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+R+   R + G+S + L + +   +T Q + KYEKG    G++ L  +S+ L   + FF
Sbjct: 6  GQRLTSARKMAGLSLQNLADKMENAVTRQALNKYEKGEMMPGSTVLIRLSKALNVTVDFF 65

Query: 74 F 74
          F
Sbjct: 66 F 66


>gi|253987940|ref|YP_003039296.1| transcription regulator [Photorhabdus asymbiotica subsp.
          asymbiotica ATCC 43949]
 gi|253779390|emb|CAQ82551.1| similar to transcription regulator and to restriction enzyme
          control elements [Photorhabdus asymbiotica]
          Length = 78

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 34/74 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN +    G+R+R  RM  GMSQE   +  G+    +   E+GV       +  I+  
Sbjct: 2  KKPNNIKSLFGQRVRYIRMASGMSQEAFADRCGLDRTYISGIERGVRNPTLEVINVIASG 61

Query: 66 LESPISFFFDVSPT 79
          L+  +   FD S +
Sbjct: 62 LQIELKDLFDFSSS 75


>gi|16799238|ref|NP_469506.1| hypothetical protein lin0161 [Listeria innocua Clip11262]
 gi|16412580|emb|CAC95394.1| lin0161 [Listeria innocua Clip11262]
          Length = 117

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +  FF
Sbjct: 13 VGNKIKQYREERGLNQEALAEKLHTTRQTISRYENGDRKANQDVLFELAKIFNKRLDDFF 72


>gi|269120006|ref|YP_003308183.1| XRE family transcriptional regulator [Sebaldella termitidis ATCC
          33386]
 gi|268613884|gb|ACZ08252.1| transcriptional regulator, XRE family [Sebaldella termitidis ATCC
          33386]
          Length = 142

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 26/92 (28%), Positives = 46/92 (50%), Gaps = 17/92 (18%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQ 60
          +GNK I N        R++ +R+ L  S + L +  GIT   +Q+YE G +N++   +L+
Sbjct: 1  MGNKDIAN--------RMKRQRLNLEYSYKDLEKITGITASTLQRYETGAINKLPIDKLE 52

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENNVM 92
           I++ L+        VSP+       E+ N +
Sbjct: 53 VIAKALK--------VSPSYLMGWEDEKGNPL 76


>gi|160916078|ref|ZP_02078285.1| hypothetical protein EUBDOL_02105 [Eubacterium dolichum DSM 3991]
 gi|158431802|gb|EDP10091.1| hypothetical protein EUBDOL_02105 [Eubacterium dolichum DSM 3991]
          Length = 129

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 21/67 (31%), Positives = 37/67 (55%), Gaps = 4/67 (5%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISS 86
          G +QE+L   L +  Q V K+EKG++   A  L  I+++L++ +S       T+  +I  
Sbjct: 6  GYTQEELAIKLNVVRQTVSKWEKGLSVPDAHILSKIADILDTKVSILL--GSTISDEI-- 61

Query: 87 EENNVMD 93
          +EN V +
Sbjct: 62 DENAVAE 68


>gi|302541197|ref|ZP_07293539.1| XRE family transcriptional regulator [Streptomyces hygroscopicus
          ATCC 53653]
 gi|302458815|gb|EFL21908.1| XRE family transcriptional regulator [Streptomyces himastatinicus
          ATCC 53653]
          Length = 412

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 17/42 (40%), Positives = 24/42 (57%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV 51
          P ++  G RI+L R   G+SQ  LG  +G +   V K E+GV
Sbjct: 7  PRELTTGDRIKLYRQRKGLSQAALGGLIGRSEDWVSKVERGV 48


>gi|302522509|ref|ZP_07274851.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. SPB78]
 gi|318058819|ref|ZP_07977542.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. SA3_actG]
 gi|318075294|ref|ZP_07982626.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. SA3_actF]
 gi|333023793|ref|ZP_08451857.1| putative UDP-N-acetylglucosamine transferase [Streptomyces sp.
          Tu6071]
 gi|302431404|gb|EFL03220.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. SPB78]
 gi|332743645|gb|EGJ74086.1| putative UDP-N-acetylglucosamine transferase [Streptomyces sp.
          Tu6071]
          Length = 509

 Score = 35.4 bits (80), Expect = 2.9,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G SQ +L E L  +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWSQAQLAEALATSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|258516796|ref|YP_003193018.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257780501|gb|ACV64395.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
          Length = 133

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 13/42 (30%), Positives = 27/42 (64%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV 54
          +N+G RIR +R++   +Q++L E + ++ Q +  +E+G   V
Sbjct: 1  MNIGNRIRTQRILKDFTQKQLAELVNVSPQVISNWERGYTPV 42


>gi|226322382|ref|ZP_03797900.1| hypothetical protein COPCOM_00150 [Coprococcus comes ATCC 27758]
 gi|225209240|gb|EEG91594.1| hypothetical protein COPCOM_00150 [Coprococcus comes ATCC 27758]
 gi|295108685|emb|CBL22638.1| Helix-turn-helix. [Ruminococcus obeum A2-162]
          Length = 209

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   I + 
Sbjct: 10 IGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 RGETNEYETDIT 81


>gi|205371967|ref|ZP_03224785.1| Xre family transcriptional regulator [Bacillus coahuilensis m4-4]
          Length = 69

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 34/55 (61%), Gaps = 2/55 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESP 69
          G+RIR  R + G +QE   + LG++   + + E+G NR+ ++ L H ++EVL  P
Sbjct: 7  GRRIRAYRKLKGFTQEDFAKELGVSVSVLGEVERG-NRMPSAELIHKVTEVLNIP 60


>gi|160936303|ref|ZP_02083673.1| hypothetical protein CLOBOL_01196 [Clostridium bolteae ATCC
          BAA-613]
 gi|158440772|gb|EDP18503.1| hypothetical protein CLOBOL_01196 [Clostridium bolteae ATCC
          BAA-613]
          Length = 199

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 33/58 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+RI+  R   G++Q +L   +G + + VQKYE G   V    +  I++ L++  +F
Sbjct: 9  IGQRIKTLRKRKGLNQTQLANLIGKSLRTVQKYETGEIEVSIDVVNEIAKHLDTTPTF 66


>gi|83593475|ref|YP_427227.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
          11170]
 gi|83576389|gb|ABC22940.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
          11170]
          Length = 196

 Score = 35.4 bits (80), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GKRI   R   GMSQ  L + LG+    +  YE+G N      ++ ++ +L    +F
Sbjct: 2  IEIGKRIAEARKDQGMSQYALAKLLGVNQSTIAYYERGRNTPKPWIVEDLARILNVSAAF 61

Query: 73 FF 74
            
Sbjct: 62 LL 63


>gi|218515232|ref|ZP_03512072.1| putative transcriptional regulator protein [Rhizobium etli 8C-3]
          Length = 238

 Score = 35.4 bits (80), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 32/66 (48%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 45  NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 104

Query: 69  PISFFF 74
           P++ FF
Sbjct: 105 PLTAFF 110


>gi|254441108|ref|ZP_05054601.1| Helix-turn-helix domain protein [Octadecabacter antarcticus 307]
 gi|198251186|gb|EDY75501.1| Helix-turn-helix domain protein [Octadecabacter antarcticus 307]
          Length = 427

 Score = 35.4 bits (80), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 32/63 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I  G R+R RR+ LG+ Q  + +  GI+   +   E    R+G   L+ ++ VLE  ++ 
Sbjct: 5  IITGTRVRNRRIDLGLRQVNVAKATGISGSYLNLIEHNRRRIGGKLLRDLARVLEIDVAL 64

Query: 73 FFD 75
            D
Sbjct: 65 LGD 67


>gi|323487870|ref|ZP_08093128.1| immunity repressor protein [Planococcus donghaensis MPA1U2]
 gi|323398604|gb|EGA91392.1| immunity repressor protein [Planococcus donghaensis MPA1U2]
          Length = 114

 Score = 35.0 bits (79), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 30/117 (25%), Positives = 53/117 (45%), Gaps = 18/117 (15%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + KR++L R    M+QE+L   LG T   +  YE G +      L +I+ +L S   +  
Sbjct: 2   LSKRLKLVRQKRKMTQEELARTLGTTKGSISNYENGRSSPSVEVLVNIANILNSSTDYL- 60

Query: 75  DVSPTVCSDISSEENNVMDFI--STPDGLQLNRYFIQI-----DDVKVRQKIIELVR 124
            +  T+ S          DF+     D  + N +FI++     +D++  +  IE +R
Sbjct: 61  -LGRTLESS---------DFLREKLKDAQENNTHFIEVSGLNQEDIEFLKNQIEFLR 107


>gi|317501285|ref|ZP_07959488.1| xre family Toxin-antitoxin system [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|316897249|gb|EFV19317.1| xre family Toxin-antitoxin system [Lachnospiraceae bacterium
          8_1_57FAA]
          Length = 209

 Score = 35.0 bits (79), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G R + RR+ L ++Q  + E +G+T   + +YE G ++      L+ +SE L   I + 
Sbjct: 10 IGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIEWL 69

Query: 74 FDVSPTVCSDIS 85
             +    +DI+
Sbjct: 70 KGETDEYETDIT 81


>gi|302672043|ref|YP_003832003.1| AbrB family transcriptional regulator [Butyrivibrio proteoclasticus
           B316]
 gi|302396516|gb|ADL35421.1| transcriptional regulator AbrB family [Butyrivibrio proteoclasticus
           B316]
          Length = 139

 Score = 35.0 bits (79), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 10/81 (12%)

Query: 23  RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
           R +L M+QE + E LG+T Q V K+E G +     + + ++++        F VS    +
Sbjct: 10  RKVLRMTQEDVAEKLGVTRQSVAKWESGESIPDLDKCKQLADI--------FGVSLDDLA 61

Query: 83  DISSEENNVMDFISTPDGLQL 103
           +   EEN  M F   P G  L
Sbjct: 62  NYEPEEN--MGFAVPPKGKHL 80


>gi|298372022|ref|ZP_06982012.1| conserved hypothetical protein [Bacteroidetes oral taxon 274 str.
           F0058]
 gi|298274926|gb|EFI16477.1| conserved hypothetical protein [Bacteroidetes oral taxon 274 str.
           F0058]
          Length = 281

 Score = 35.0 bits (79), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 21/56 (37%), Positives = 30/56 (53%), Gaps = 3/56 (5%)

Query: 57  SRLQHISEVL---ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           SRLQ+  + L       + FF +SPT  SDI  E  N  DF +  DG+  ++Y I+
Sbjct: 26  SRLQNRKDTLCVDSGRGAIFFKLSPTELSDIKKEYKNEEDFYADADGIAEDKYRIK 81


>gi|160898595|ref|YP_001564177.1| XRE family transcriptional regulator [Delftia acidovorans SPH-1]
 gi|160364179|gb|ABX35792.1| transcriptional regulator, XRE family [Delftia acidovorans SPH-1]
          Length = 102

 Score = 35.0 bits (79), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 37/68 (54%), Gaps = 4/68 (5%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVL 66
           D   G R++  R+   +SQ+ LG   GI       ++ +YE G ++     ++ ++EVL
Sbjct: 4  ADEQWGARLKQARLAADLSQKMLGIEAGIDPFVASARINRYELGKHKPDLLTVRKLAEVL 63

Query: 67 ESPISFFF 74
          + P++FF+
Sbjct: 64 KVPMAFFY 71


>gi|295106127|emb|CBL03670.1| looped-hinge helix DNA binding domain, AbrB family [Gordonibacter
          pamelaeae 7-10-1-b]
          Length = 140

 Score = 35.0 bits (79), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 17/64 (26%), Positives = 31/64 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+ RR  +G++QE+L   L +  Q V K+E G +    +    ++E L+  +    
Sbjct: 2  IGSNIQSRRRAIGLTQEQLAAALAVARQTVAKWEAGDSVPDLANAGALAEALDVSLDALV 61

Query: 75 DVSP 78
             P
Sbjct: 62 GYDP 65


>gi|295101168|emb|CBK98713.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Faecalibacterium prausnitzii L2-6]
          Length = 210

 Score = 35.0 bits (79), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 32/62 (51%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISS 86
          G+SQ +L   LG+T Q V K+E G +    + +  I+E+L +   F   +   V +  + 
Sbjct: 15 GISQAELASKLGVTQQAVGKWESGKSSPDPATVARIAEILSTTADFLLGLYRPVSNVTTP 74

Query: 87 EE 88
          EE
Sbjct: 75 EE 76


>gi|295835925|ref|ZP_06822858.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. SPB74]
 gi|197698390|gb|EDY45323.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. SPB74]
          Length = 509

 Score = 35.0 bits (79), Expect = 3.0,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G SQ +L E L  +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWSQAQLAEALATSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|188026565|ref|ZP_02962597.2| hypothetical protein PROSTU_04732 [Providencia stuartii ATCC 25827]
 gi|188019447|gb|EDU57487.1| hypothetical protein PROSTU_04732 [Providencia stuartii ATCC 25827]
          Length = 119

 Score = 35.0 bits (79), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 21/68 (30%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
            G  IR +R+ LG++   LG  L ++ QQ+ +YE+G+  +   +L+     L  S  SF 
Sbjct: 35  TGLFIRQKRIELGLNGSDLGRLLNVSQQQISRYERGITSLTLHQLEQFLRALAVSWESFI 94

Query: 74  FDVSPTVC 81
            +V   +C
Sbjct: 95  REVIHPLC 102


>gi|163755625|ref|ZP_02162744.1| helix-turn-helix family protein [Kordia algicida OT-1]
 gi|161324538|gb|EDP95868.1| helix-turn-helix family protein [Kordia algicida OT-1]
          Length = 66

 Score = 35.0 bits (79), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 34/62 (54%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI++ R IL ++Q++L + +G++ Q +   EKG           +S + + PI+ FF + 
Sbjct: 4  RIKIERAILDITQDELAKKIGVSRQTINSIEKGRYVPSTVLALKLSNLFDKPINEFFFLE 63

Query: 78 PT 79
           T
Sbjct: 64 ET 65


>gi|15894837|ref|NP_348186.1| transcriptional regulator [Clostridium acetobutylicum ATCC 824]
 gi|15024511|gb|AAK79526.1|AE007666_1 Predicted transcriptional regulator [Clostridium acetobutylicum
           ATCC 824]
 gi|325508975|gb|ADZ20611.1| transcriptional regulator [Clostridium acetobutylicum EA 2018]
          Length = 118

 Score = 35.0 bits (79), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 18/91 (19%), Positives = 41/91 (45%), Gaps = 3/91 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++++  R    + Q  + + +G TFQ++  +E G  RV    L  + E+      +  
Sbjct: 6   IGRKLKAARENANLKQSDVAKIIGSTFQKISSFETGRTRVDLETLIRLCEIYNVDADYIL 65

Query: 75  DVSPTVCSDIS---SEENNVMDFISTPDGLQ 102
                  ++++    E N ++ F   PD ++
Sbjct: 66  STDKKNSNNLTLKPEESNLIVKFRQLPDSVK 96


>gi|291526787|emb|CBK92373.1| Helix-turn-helix [Eubacterium rectale M104/1]
          Length = 115

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 30/103 (29%), Positives = 48/103 (46%), Gaps = 4/103 (3%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D   G RI  RR ++G+SQ++L   +GI  Q +   E G +      L +++ VL   + 
Sbjct: 11  DYERGLRIADRRKVMGLSQDELAHRVGIGRQALSAIENGGD-FKTQTLDNLAIVLGVSVD 69

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           F         S++ SE    MD +S  D LQ+ +    I  +K
Sbjct: 70  FIMYGKNEENSELLSE---AMDVLSDMDELQVRQCLAMIKAMK 109


>gi|197284839|ref|YP_002150711.1| phage protein [Proteus mirabilis HI4320]
 gi|194682326|emb|CAR42121.1| phage protein [Proteus mirabilis HI4320]
          Length = 86

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 21/80 (26%), Positives = 43/80 (53%), Gaps = 4/80 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLESPI 70
          V KR++  R  + ++QE+LG   GI  +    +V +YE G +R     +   S++L+ P 
Sbjct: 2  VPKRLKAARARVALTQEELGILAGIDEESAKIRVCQYESGTHRPNFETICRFSKILKVPE 61

Query: 71 SFFFDVSPTVCSDISSEENN 90
          ++F+ ++     ++ +  NN
Sbjct: 62 NYFYTLNDEFAEELINIYNN 81


>gi|170780657|ref|YP_001708989.1| putative DNA-binding membrane protein [Clavibacter michiganensis
          subsp. sepedonicus]
 gi|169155225|emb|CAQ00326.1| putative DNA-binding membrane protein [Clavibacter michiganensis
          subsp. sepedonicus]
          Length = 173

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 1/50 (2%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          G +Q++L E  GIT + VQ+ E G N      L  +++ LE P+   F V
Sbjct: 14 GWTQDRLAEASGITVRTVQRLEAG-NDASLETLSLVAKALEVPVRDLFAV 62


>gi|322378129|ref|ZP_08052615.1| DNA-binding protein [Streptococcus sp. M334]
 gi|321280966|gb|EFX57980.1| DNA-binding protein [Streptococcus sp. M334]
          Length = 307

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 22/71 (30%), Positives = 40/71 (56%), Gaps = 1/71 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + I VGKRIR+ R +  +++E L  +   IT +Q+ + E G +    S++++I+  L  P
Sbjct: 3  IKIEVGKRIRMLREMKHITRETLCDDETEITVRQLARIESGQSSPSLSKVEYIAYKLGCP 62

Query: 70 ISFFFDVSPTV 80
          IS   D+   +
Sbjct: 63 ISHIVDMDHMI 73


>gi|315300972|ref|ZP_07872315.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
          ivanovii FSL F6-596]
 gi|313630659|gb|EFR98449.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
          ivanovii FSL F6-596]
          Length = 111

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 13/87 (14%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +  FF
Sbjct: 7  VGNKIKQYREERGLNQEALAERLHTTRQTISRYENGDRKANQDVLFELAKIFNKRLDDFF 66

Query: 75 -------------DVSPTVCSDISSEE 88
                        V+  +  D++ EE
Sbjct: 67 PERNLPPVDERGMTVAAHIDDDVTDEE 93


>gi|212709629|ref|ZP_03317757.1| hypothetical protein PROVALCAL_00675 [Providencia alcalifaciens
          DSM 30120]
 gi|212687733|gb|EEB47261.1| hypothetical protein PROVALCAL_00675 [Providencia alcalifaciens
          DSM 30120]
          Length = 236

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 3/66 (4%)

Query: 26 LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDIS 85
          LG+SQE LG+ +G+    V +   GVN +       ++E LE  +    D SP +  +I 
Sbjct: 28 LGLSQESLGDAIGMGQSAVAQLLNGVNAINVENAVKLAEALEVSVD---DFSPLLAKEIR 84

Query: 86 SEENNV 91
             N+V
Sbjct: 85 RMFNSV 90


>gi|332638348|ref|ZP_08417211.1| XRE family transcriptional regulator [Weissella cibaria KACC
          11862]
          Length = 180

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 16/36 (44%), Positives = 23/36 (63%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          +G  I+ RR   GMSQ+ L + LGI+ Q + K+E G
Sbjct: 3  IGHNIQQRREDKGMSQQDLADYLGISRQSISKWENG 38


>gi|307243365|ref|ZP_07525525.1| toxin-antitoxin system, antitoxin component, Xre family
          [Peptostreptococcus stomatis DSM 17678]
 gi|306493257|gb|EFM65250.1| toxin-antitoxin system, antitoxin component, Xre family
          [Peptostreptococcus stomatis DSM 17678]
          Length = 104

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 29/60 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+L R    M+Q  L   L +T   + KYE G+       L+ +S++ E  + +  
Sbjct: 4  LGNRIKLLRKEFNMTQTDLANRLNLTKSNISKYENGIVEPSLDILRSMSDLFEVSVDYLL 63


>gi|218705070|ref|YP_002412589.1| transcriptional repressor DicA [Escherichia coli UMN026]
 gi|291283201|ref|YP_003500019.1| DicA-like protein [Escherichia coli O55:H7 str. CB9615]
 gi|300895972|ref|ZP_07114540.1| transcriptional repressor DicA [Escherichia coli MS 198-1]
 gi|301326444|ref|ZP_07219796.1| transcriptional repressor DicA [Escherichia coli MS 78-1]
 gi|218432167|emb|CAR13055.1| putative repressor protein of division inhibition from phage
          origin [Escherichia coli UMN026]
 gi|290763074|gb|ADD57035.1| DicA-like protein [Escherichia coli O55:H7 str. CB9615]
 gi|300360122|gb|EFJ75992.1| transcriptional repressor DicA [Escherichia coli MS 198-1]
 gi|300846860|gb|EFK74620.1| transcriptional repressor DicA [Escherichia coli MS 78-1]
 gi|320652127|gb|EFX20458.1| transcriptional repressor DicA [Escherichia coli O157:H- str. H
          2687]
 gi|320657721|gb|EFX25510.1| transcriptional repressor DicA [Escherichia coli O55:H7 str.
          3256-97 TW 07815]
          Length = 152

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          +G+RIR RR  +G+SQ  L +  G++   +  +E          L  ++EVL+ SP    
Sbjct: 23 LGQRIRERRKQVGLSQNGLSKAAGVSGSSISLWESDHTAPRGQNLHRLAEVLQCSPTWIL 82

Query: 74 F---DVSPT 79
          F   D +P 
Sbjct: 83 FGDEDKTPA 91


>gi|150390375|ref|YP_001320424.1| helix-turn-helix domain-containing protein [Alkaliphilus
          metalliredigens QYMF]
 gi|149950237|gb|ABR48765.1| helix-turn-helix domain protein [Alkaliphilus metalliredigens
          QYMF]
          Length = 120

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 28/56 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          RIR  R  LGM+QE+LG  +  T   V KYE G        L  +S++ +  I + 
Sbjct: 2  RIRELRQELGMTQEELGRKINQTKSNVSKYETGTLEPNIQTLNLLSDIFDVSIDYL 57


>gi|322516931|ref|ZP_08069826.1| XRE family transcriptional regulator [Streptococcus vestibularis
          ATCC 49124]
 gi|322124508|gb|EFX95995.1| XRE family transcriptional regulator [Streptococcus vestibularis
          ATCC 49124]
          Length = 108

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 32/63 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KRIR+ R+  GM+QE L E   +    V K E     +    L+ I + L+  I  FF
Sbjct: 8  ISKRIRVLRIKEGMTQEMLEEKAELGTNYVYKIENLEPNIKIKTLEKIMKALDVDIPTFF 67

Query: 75 DVS 77
          DV+
Sbjct: 68 DVT 70


>gi|311895027|dbj|BAJ27435.1| putative transcriptional regulator [Kitasatospora setae KM-6054]
          Length = 375

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 23/65 (35%), Positives = 32/65 (49%), Gaps = 9/65 (13%)

Query: 15 VGKRIRLRRMILGMSQE-------KLGECLGITFQQVQKYEKGVN--RVGASRLQHISEV 65
          VG  I   R  LGMSQ+       KLG C  +T Q + ++E G    + G   L H++  
Sbjct: 5  VGSLIEELRRGLGMSQDQLAARLNKLGNCTTMTRQLISRWENGYQGRKPGPRWLPHLATA 64

Query: 66 LESPI 70
          LE P+
Sbjct: 65 LEVPL 69


>gi|259415826|ref|ZP_05739746.1| transcriptional regulator, XRE family [Silicibacter sp.
          TrichCH4B]
 gi|259347265|gb|EEW59042.1| transcriptional regulator, XRE family [Silicibacter sp.
          TrichCH4B]
          Length = 443

 Score = 35.0 bits (79), Expect = 3.1,   Method: Composition-based stats.
 Identities = 18/51 (35%), Positives = 27/51 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          G RIR RR++LG+ Q  L    GI+   +   E    R+G   L  +++VL
Sbjct: 8  GSRIRERRLMLGLRQADLARDAGISASYLNLIEHNRRRIGGKLLVTLAQVL 58


>gi|237744347|ref|ZP_04574828.1| predicted protein [Fusobacterium sp. 7_1]
 gi|229431576|gb|EEO41788.1| predicted protein [Fusobacterium sp. 7_1]
          Length = 189

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 43/80 (53%), Gaps = 5/80 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + ++I+  R    ++Q+++ + LG++   +QKYE G        ++ I E     ++ F 
Sbjct: 3  ISEKIKELRKNNNLTQKEMAKKLGVSLSSLQKYEYGDFYPSIEVIRKIVEFFNITLNDFL 62

Query: 75 DVSPTVCSDISSEENNVMDF 94
          DV     SDIS+EE  V+++
Sbjct: 63 DV-----SDISNEEKEVINW 77


>gi|218694781|ref|YP_002402448.1| transcriptional repressor DicA [Escherichia coli 55989]
 gi|309793330|ref|ZP_07687757.1| transcriptional repressor DicA [Escherichia coli MS 145-7]
 gi|218351513|emb|CAU97222.1| putative repressor protein of division inhibition from phage
          origin [Escherichia coli 55989]
 gi|308122917|gb|EFO60179.1| transcriptional repressor DicA [Escherichia coli MS 145-7]
          Length = 152

 Score = 35.0 bits (79), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          +G+RIR RR  +G+SQ  L +  G++   +  +E          L  ++EVL+ SP    
Sbjct: 23 LGQRIRERRKQVGLSQNGLSKAAGVSGSSISLWESDHTAPRGQNLHRLAEVLQCSPTWIL 82

Query: 74 F---DVSPT 79
          F   D +P 
Sbjct: 83 FGDEDKTPA 91


>gi|226949161|ref|YP_002804252.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
 gi|226842961|gb|ACO85627.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
          Length = 218

 Score = 35.0 bits (79), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 29/49 (59%)

Query: 25 ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +  ++Q++L E LGI  Q + ++ KG  ++    L ++SE  + P+ +F
Sbjct: 10 LYNLTQQELAEELGIRKQNISQWVKGSRKIPKKYLTYLSEKFKIPVPYF 58


>gi|223986398|ref|ZP_03636404.1| hypothetical protein HOLDEFILI_03716 [Holdemania filiformis DSM
          12042]
 gi|223961640|gb|EEF66146.1| hypothetical protein HOLDEFILI_03716 [Holdemania filiformis DSM
          12042]
          Length = 358

 Score = 35.0 bits (79), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 24/80 (30%), Positives = 38/80 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  I L R   G +Q +L E LGIT + V K+E G +    + L  +SE L   +S 
Sbjct: 4  MKIGGFIALCRKEKGWTQSQLAEILGITDKAVSKWETGKSLPDYALLTPLSEALGITLSE 63

Query: 73 FFDVSPTVCSDISSEENNVM 92
           F        D+  + + V+
Sbjct: 64 LFSGERIRAEDLMEKTDQVL 83


>gi|313635253|gb|EFS01552.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
          seeligeri FSL N1-067]
 gi|313639938|gb|EFS04624.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
          seeligeri FSL S4-171]
          Length = 111

 Score = 35.0 bits (79), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +  FF
Sbjct: 7  VGNKIKQYREERGLNQEALAERLHTTRQTISRYENGDRKANQDVLFELAKIFNKRLDDFF 66


>gi|258611915|ref|ZP_05243102.2| conserved hypothetical protein [Listeria monocytogenes FSL
          R2-503]
 gi|290892307|ref|ZP_06555302.1| conserved hypothetical protein [Listeria monocytogenes FSL
          J2-071]
 gi|293596363|ref|ZP_05230968.2| conserved hypothetical protein [Listeria monocytogenes FSL
          J1-194]
 gi|293597004|ref|ZP_05266446.2| conserved hypothetical protein [Listeria monocytogenes HPB2262]
 gi|300764870|ref|ZP_07074859.1| prophage repressor protein [Listeria monocytogenes FSL N1-017]
 gi|258607134|gb|EEW19742.1| conserved hypothetical protein [Listeria monocytogenes FSL
          R2-503]
 gi|290558133|gb|EFD91652.1| conserved hypothetical protein [Listeria monocytogenes FSL
          J2-071]
 gi|293584645|gb|EFF96677.1| conserved hypothetical protein [Listeria monocytogenes HPB2262]
 gi|293595206|gb|EFG02967.1| conserved hypothetical protein [Listeria monocytogenes FSL
          J1-194]
 gi|300514357|gb|EFK41415.1| prophage repressor protein [Listeria monocytogenes FSL N1-017]
          Length = 117

 Score = 35.0 bits (79), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +  FF
Sbjct: 13 VGNKIKQYREERGLNQEALAEKLHTTRQTISRYENGDRKANQDVLFELAKIFNKRLDDFF 72


>gi|312887654|ref|ZP_07747246.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
 gi|311299869|gb|EFQ76946.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
          Length = 124

 Score = 35.0 bits (79), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 17/68 (25%), Positives = 34/68 (50%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P     +  KR ++ R    ++Q ++ + LG+T   VQK+E G   +    +Q + + L
Sbjct: 1  MPKRPVTDYAKRFKIFRKYKDLTQIQIADVLGVTQPAVQKWESGATDLSIEIIQKLRDKL 60

Query: 67 ESPISFFF 74
             + +FF
Sbjct: 61 NMSLEWFF 68


>gi|251782740|ref|YP_002997043.1| putative transcriptional regulator PlcR [Streptococcus
          dysgalactiae subsp. equisimilis GGS_124]
 gi|242391370|dbj|BAH81829.1| putative transcriptional regulator PlcR [Streptococcus
          dysgalactiae subsp. equisimilis GGS_124]
          Length = 290

 Score = 35.0 bits (79), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 25/76 (32%), Positives = 43/76 (56%), Gaps = 3/76 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ +L+R  LG+SQ+ L +  GI  Q Q+ K E+G     A  L  +S+ LE  + +F
Sbjct: 5  LSEKFKLKRKELGISQQSLAD--GICEQSQISKIERGNFIPSADLLYKLSQRLEVTLDYF 62

Query: 74 FDVSPTVCSDISSEEN 89
          F+    V S +S+ +N
Sbjct: 63 FNDEIEVKSSLSNFKN 78


>gi|307154678|ref|YP_003890062.1| XRE family transcriptional regulator [Cyanothece sp. PCC 7822]
 gi|306984906|gb|ADN16787.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 7822]
          Length = 83

 Score = 35.0 bits (79), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 30/52 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +GK IR  R+ LGM+QE+    LG+ +  V ++E G  +     L+ I ++L
Sbjct: 14 IGKLIRSIRLELGMTQEQFAAYLGVVYPTVNRWENGHTQPSLMALRLIEKLL 65


>gi|257451797|ref|ZP_05617096.1| SOS-response transcriptional repressors [Fusobacterium sp.
          3_1_5R]
 gi|317058353|ref|ZP_07922838.1| SOS-response transcriptional repressor [Fusobacterium sp. 3_1_5R]
 gi|313684029|gb|EFS20864.1| SOS-response transcriptional repressor [Fusobacterium sp. 3_1_5R]
          Length = 208

 Score = 35.0 bits (79), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 30/61 (49%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G +I   R    ++QE+  +  G+T   + KYE G   +    L +I+   + PIS+F
Sbjct: 9  TIGDKILKLRKETALTQEQFSKIAGVTPLSILKYESGERLISIETLLNIANYFKIPISYF 68

Query: 74 F 74
           
Sbjct: 69 L 69


>gi|254498006|ref|ZP_05110769.1| phage repressor [Legionella drancourtii LLAP12]
 gi|254352783|gb|EET11555.1| phage repressor [Legionella drancourtii LLAP12]
          Length = 227

 Score = 35.0 bits (79), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 17/64 (26%), Positives = 35/64 (54%), Gaps = 1/64 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RI+  R I G++++ L E    +   ++  YE+G    G   ++ +++VLE   +F 
Sbjct: 7  IGQRIKHERTIKGLTRKALAELTDSLKISRINNYERGERTPGPEEIKQLAKVLEVSPAFL 66

Query: 74 FDVS 77
            +S
Sbjct: 67 MCLS 70


>gi|240140512|ref|YP_002964992.1| hypothetical protein MexAM1_META1p4053 [Methylobacterium
          extorquens AM1]
 gi|240010489|gb|ACS41715.1| conserved hypothetical protein [Methylobacterium extorquens AM1]
          Length = 87

 Score = 35.0 bits (79), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R+  G+SQE+L    GI    V + E+G   V  S L+ ++  L  P++   
Sbjct: 7  IGWNLRRLRVAQGLSQERLALAAGIDRAYVGRVERGSENVTISTLEAMARALAVPVAHLL 66


>gi|293401719|ref|ZP_06645861.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291304977|gb|EFE46224.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 139

 Score = 35.0 bits (79), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 30/51 (58%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          GMSQ+ L + L +T Q + K+E+G++   A  L  +SE+ E  +S   + S
Sbjct: 14 GMSQQFLADQLHVTRQTISKWERGLSVPDADMLIALSEMFEVSVSTLLNRS 64


>gi|160937325|ref|ZP_02084687.1| hypothetical protein CLOBOL_02215 [Clostridium bolteae ATCC
          BAA-613]
 gi|158439889|gb|EDP17638.1| hypothetical protein CLOBOL_02215 [Clostridium bolteae ATCC
          BAA-613]
          Length = 88

 Score = 35.0 bits (79), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 30/56 (53%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          D + G  I+  R + GM Q++L + +GI  Q + K E+GV       L+ I  VLE
Sbjct: 3  DKHFGPNIQTFRKLKGMKQQELADAIGINLQSLSKIERGVYYPTFETLEKIMVVLE 58


>gi|16760810|ref|NP_456427.1| regulator [Salmonella enterica subsp. enterica serovar Typhi str.
           CT18]
 gi|25512966|pir||AG0738 probable regulator STY2066 [imported] - Salmonella enterica subsp.
           enterica serovar Typhi (strain CT18)
 gi|16503107|emb|CAD05610.1| putative regulator [Salmonella enterica subsp. enterica serovar
           Typhi]
 gi|323977012|gb|EGB72099.1| helix-turn-helix protein [Escherichia coli TW10509]
 gi|324012832|gb|EGB82051.1| helix-turn-helix protein [Escherichia coli MS 60-1]
          Length = 139

 Score = 35.0 bits (79), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 25/104 (24%), Positives = 49/104 (47%), Gaps = 2/104 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
           +  R++ RR  LG+SQ KL E  G T  ++  YE G   VG      + + L  SP    
Sbjct: 17  IAMRLKERRQKLGLSQGKLAEICGWTQSRIGNYEAGSRNVGVHDAVVLGKALGISPPELL 76

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           F    +    ++  +  +++  +   G +  R  I++ +V++++
Sbjct: 77  FGEQESSELWLNESQRKLLELFNQLPGSEQQR-MIELFEVRLKE 119


>gi|309804464|ref|ZP_07698531.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          09V1-c]
 gi|309809826|ref|ZP_07703678.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          2503V10-D]
 gi|312873153|ref|ZP_07733212.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2062A-h1]
 gi|312873404|ref|ZP_07733455.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2052A-d]
 gi|325911527|ref|ZP_08173936.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          143-D]
 gi|308166217|gb|EFO68433.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          09V1-c]
 gi|308169868|gb|EFO71909.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          2503V10-D]
 gi|311091088|gb|EFQ49481.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2052A-d]
 gi|311091386|gb|EFQ49771.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2062A-h1]
 gi|325476657|gb|EGC79814.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          143-D]
          Length = 210

 Score = 35.0 bits (79), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 34/61 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++IR  R+  G++QE+L E + ++   V K+E G      + L+ I++ L   + +  
Sbjct: 3  LGEKIRNARVEAGLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKVIADALGVTVDYLL 62

Query: 75 D 75
          D
Sbjct: 63 D 63


>gi|262037710|ref|ZP_06011152.1| transcription regulator [Leptotrichia goodfellowii F0264]
 gi|261748182|gb|EEY35579.1| transcription regulator [Leptotrichia goodfellowii F0264]
          Length = 293

 Score = 35.0 bits (79), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 32/58 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   ++++  R    MSQEKL E LG++ Q V K+E G+       ++ ISE+ E  I
Sbjct: 1  MTFAEKLKSFRKQAKMSQEKLSEKLGVSRQAVTKWETGLGIPEIENIRAISELFEISI 58


>gi|257440445|ref|ZP_05616200.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
 gi|257197067|gb|EEU95351.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
          Length = 210

 Score = 35.0 bits (79), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 16/59 (27%), Positives = 31/59 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ I   R + G SQ++L + LG   + +QK+E+G  R+       + + L  P+  +
Sbjct: 8  IGEAIAFARNVAGRSQQELADMLGRDKRTIQKWERGEIRIALEDFLDVFDTLHLPVGPY 66


>gi|259501148|ref|ZP_05744050.1| xre family toxin-antitoxin system [Lactobacillus iners DSM 13335]
 gi|302190406|ref|ZP_07266660.1| DNA-binding protein [Lactobacillus iners AB-1]
 gi|309804359|ref|ZP_07698435.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          11V1-d]
 gi|312871026|ref|ZP_07731129.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          3008A-a]
 gi|325913257|ref|ZP_08175625.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          60-B]
 gi|259167842|gb|EEW52337.1| xre family toxin-antitoxin system [Lactobacillus iners DSM 13335]
 gi|308163571|gb|EFO65842.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          11V1-d]
 gi|311093521|gb|EFQ51862.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          3008A-a]
 gi|325477360|gb|EGC80504.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          60-B]
          Length = 210

 Score = 35.0 bits (79), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 34/61 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++IR  R+  G++QE+L E + ++   V K+E G      + L+ I++ L   + +  
Sbjct: 3  LGEKIRNARVEAGLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKVIADALGVTVDYLL 62

Query: 75 D 75
          D
Sbjct: 63 D 63


>gi|315231132|ref|YP_004071568.1| hypothetical protein TERMP_01370 [Thermococcus barophilus MP]
 gi|315184160|gb|ADT84345.1| hypothetical protein TERMP_01370 [Thermococcus barophilus MP]
          Length = 243

 Score = 35.0 bits (79), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 1/52 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVL 66
          GK +R  R I G+SQ +L E LG++   +  YE G  +  GAS ++   E L
Sbjct: 24 GKTMRKWREIFGISQTELAEYLGVSSSVISDYEGGRRKSPGASTIRKFVEAL 75


>gi|319935094|ref|ZP_08009535.1| hypothetical protein HMPREF9488_00366 [Coprobacillus sp. 29_1]
 gi|319809989|gb|EFW06366.1| hypothetical protein HMPREF9488_00366 [Coprobacillus sp. 29_1]
          Length = 240

 Score = 35.0 bits (79), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 21/78 (26%), Positives = 40/78 (51%), Gaps = 8/78 (10%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK++   R   G+SQE+L   L ++ Q + K+E  ++      +  IS+        
Sbjct: 1  MSIGKKLLYLRQQRGLSQEELASALHVSRQTISKWESDLSLPDMKMMLSISQ-------- 52

Query: 73 FFDVSPTVCSDISSEENN 90
          F+DVS T    +  +EN+
Sbjct: 53 FYDVSVTELLGVDEKENS 70


>gi|289166201|ref|YP_003456339.1| phage repressor [Legionella longbeachae NSW150]
 gi|288859374|emb|CBJ13310.1| putative phage repressor [Legionella longbeachae NSW150]
          Length = 229

 Score = 35.0 bits (79), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 16/61 (26%), Positives = 34/61 (55%), Gaps = 1/61 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RI + R   G++++ L E  G +   ++  YE+G    G + ++ +++VLE   S+ 
Sbjct: 9  IGQRIMIERKAKGLTRKALAELTGELKISRINNYERGDRTPGPTEIKLLADVLEVSASYL 68

Query: 74 F 74
           
Sbjct: 69 M 69


>gi|237751081|ref|ZP_04581561.1| predicted protein [Helicobacter bilis ATCC 43879]
 gi|229373526|gb|EEO23917.1| predicted protein [Helicobacter bilis ATCC 43879]
          Length = 222

 Score = 35.0 bits (79), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 29/50 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +++R  R+ LG+SQ+K  E LG+T   +  YE   N +  + L  +SE+ 
Sbjct: 9  EKLRNLRLSLGLSQKKFAEKLGLTRSLIAAYETEKNPISNNVLLRVSEIF 58


>gi|332971256|gb|EGK10219.1| transcriptional regulator with an addtional conserved domain
          protein [Desmospora sp. 8437]
          Length = 386

 Score = 35.0 bits (79), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 31/60 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + +R+R  R   G++ ++L E +G++ Q + KYE G         Q +   L  PI FF+
Sbjct: 11 IPERLREGREARGLTIQELSERVGVSHQSISKYENGKAVPSGMVFQKLLFTLNLPIHFFY 70


>gi|238897791|ref|YP_002923470.1| phage repressor protein [Candidatus Hamiltonella defensa 5AT
          (Acyrthosiphon pisum)]
 gi|229465548|gb|ACQ67322.1| phage repressor protein [Candidatus Hamiltonella defensa 5AT
          (Acyrthosiphon pisum)]
          Length = 206

 Score = 35.0 bits (79), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 16/47 (34%), Positives = 26/47 (55%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG 55
          N   I+ GK+++  R+  GM+Q +    LGI    ++ YE G+  VG
Sbjct: 2  NTFSIDHGKKLKAVRLNEGMTQIEFAHVLGIGLGTIKNYESGIRGVG 48


>gi|294101955|ref|YP_003553813.1| transcriptional regulator, XRE family [Aminobacterium colombiense
          DSM 12261]
 gi|293616935|gb|ADE57089.1| transcriptional regulator, XRE family [Aminobacterium colombiense
          DSM 12261]
          Length = 235

 Score = 35.0 bits (79), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 34/58 (58%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GKR+   R+  G++Q +L E LG++F  + ++EK         L  +++VLE+ +++ 
Sbjct: 4  GKRLSELRVKRGLTQLELAEKLGVSFHTILRWEKERRFPDVFHLSILADVLETSVAYL 61


>gi|317495916|ref|ZP_07954279.1| hypothetical protein HMPREF0432_00882 [Gemella moribillum M424]
 gi|316914093|gb|EFV35576.1| hypothetical protein HMPREF0432_00882 [Gemella moribillum M424]
          Length = 214

 Score = 35.0 bits (79), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 20/74 (27%), Positives = 40/74 (54%), Gaps = 3/74 (4%)

Query: 1  MVGNKKIPNPVDIN---VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
          M+  +++   ++IN   VG RI+  R+  G + E  G+  G++   V K+E+G +     
Sbjct: 1  MMKKEELHMKININKNAVGSRIKQIRLNKGYTLEAFGKLFGVSKSNVLKWEQGQSLPNKE 60

Query: 58 RLQHISEVLESPIS 71
          RL  IS++ +  ++
Sbjct: 61 RLASISKIADMSVN 74


>gi|331647421|ref|ZP_08348513.1| putative regulator [Escherichia coli M605]
 gi|331043145|gb|EGI15283.1| putative regulator [Escherichia coli M605]
          Length = 139

 Score = 35.0 bits (79), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 28/116 (24%), Positives = 56/116 (48%), Gaps = 3/116 (2%)

Query: 4   NKKIP-NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           N+KI  + ++  +  R++ RR  LG+SQ KL E  G T  ++  YE G   VG      +
Sbjct: 5   NEKIAASRLNDKIAMRLKERRQKLGLSQGKLAEICGWTQSRIGNYEAGSRNVGVHDAVVL 64

Query: 63  SEVLE-SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
            + L  SP    F    +    ++  +  +++  +   G +  R  I++ +V++++
Sbjct: 65  GKALGISPPELLFGEQESSELWLNESQRKLLELFNQLPGSEQQR-MIELFEVRLKE 119


>gi|167755461|ref|ZP_02427588.1| hypothetical protein CLORAM_00975 [Clostridium ramosum DSM 1402]
 gi|167704400|gb|EDS18979.1| hypothetical protein CLORAM_00975 [Clostridium ramosum DSM 1402]
          Length = 426

 Score = 35.0 bits (79), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 17/43 (39%), Positives = 29/43 (67%), Gaps = 1/43 (2%)

Query: 9  NPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          N +++N VG+ I L+R   G++Q++L   L ++FQ V K+E G
Sbjct: 11 NMINVNKVGEFITLKRKEKGLTQQQLANKLSVSFQAVSKWENG 53


>gi|193071379|ref|ZP_03052295.1| putative repressor protein [Escherichia coli E110019]
 gi|192955295|gb|EDV85782.1| putative repressor protein [Escherichia coli E110019]
          Length = 219

 Score = 35.0 bits (79), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 21/84 (25%), Positives = 44/84 (52%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF- 72
          ++G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+ 
Sbjct: 8  SLGIRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYL 67

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
           + VS    S + S     + ++S
Sbjct: 68 LYGVSSPELSFVQSTSGTKIPYLS 91


>gi|332527737|ref|ZP_08403778.1| XRE family transcriptional regulator [Rubrivivax benzoatilyticus
          JA2]
 gi|332112135|gb|EGJ12111.1| XRE family transcriptional regulator [Rubrivivax benzoatilyticus
          JA2]
          Length = 189

 Score = 35.0 bits (79), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 28/52 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          VG+ +R  R   G+SQ  L E  G++ + +   E+G   +  SRL  ++E L
Sbjct: 18 VGQNLRAARQNAGLSQAALAEASGLSRRMIVALEQGDTNISLSRLDRLAEAL 69


>gi|329298588|ref|ZP_08255924.1| LexA repressor [Plautia stali symbiont]
          Length = 211

 Score = 35.0 bits (79), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 32/60 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L ++Q+ L   +G++   V ++EK         L  ++E+L+   ++  D
Sbjct: 8  GERIRQRRKALKLTQQALANGIGVSHVAVSQWEKEETVPRGKHLLRLAELLQCSAAWIID 67


>gi|313667428|ref|YP_004047712.1| hypothetical protein NLA_0720 [Neisseria lactamica ST-640]
 gi|313004890|emb|CBN86316.1| hypothetical protein NLA_0720 [Neisseria lactamica 020-06]
          Length = 136

 Score = 35.0 bits (79), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 25/105 (23%), Positives = 48/105 (45%), Gaps = 7/105 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +   ++IRL R +   SQE + E L ++     K E+G  ++   RL+ I+ +    +  
Sbjct: 1   MKTHEKIRLMRELKQWSQETVAEKLNLSTNGYAKIERGETKLNLPRLEQIATIFHVDLMD 60

Query: 73  FFDVSPT--VCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                    +C  I+  +NN + F  +P     N  F +I+ +K+
Sbjct: 61  LLQPGDNGFICQ-INEGDNNNISFYDSPS----NELFAEIEKLKL 100


>gi|320009363|gb|ADW04213.1| helix-turn-helix domain protein [Streptomyces flavogriseus ATCC
          33331]
          Length = 280

 Score = 35.0 bits (79), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 36/69 (52%), Gaps = 4/69 (5%)

Query: 1  MVGNKKI---PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
          M G KK+    +P  + +G  +R RR   G+SQE LG  L ++   + + E G  R+ A 
Sbjct: 1  MPGPKKLDPSASPRAL-LGAELRHRRETAGLSQEDLGAPLFVSGSFIGQLEAGTRRMQAD 59

Query: 58 RLQHISEVL 66
          +   + EVL
Sbjct: 60 QAARLDEVL 68


>gi|261208879|ref|ZP_05923316.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289566920|ref|ZP_06447326.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|294616443|ref|ZP_06696230.1| transcriptional regulator, xre family [Enterococcus faecium
          E1636]
 gi|260077381|gb|EEW65101.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289161287|gb|EFD09181.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|291590694|gb|EFF22416.1| transcriptional regulator, xre family [Enterococcus faecium
          E1636]
          Length = 221

 Score = 35.0 bits (79), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNCNLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|88854989|ref|ZP_01129654.1| helix-turn-helix motif protein [marine actinobacterium PHSC20C1]
 gi|88815517|gb|EAR25374.1| helix-turn-helix motif protein [marine actinobacterium PHSC20C1]
          Length = 489

 Score = 35.0 bits (79), Expect = 3.6,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 30/66 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG+RIR  R   G++ + LG  L     QV   E G   +  S LQ ++ + +  +  
Sbjct: 18 LTVGRRIRQLRTDRGLTLDDLGAALNRAASQVSVIENGKRELKLSELQKLARIFDVSVDD 77

Query: 73 FFDVSP 78
            +  P
Sbjct: 78 LLNAEP 83


>gi|260843067|ref|YP_003220845.1| putative transcriptional regulator [Escherichia coli O103:H2 str.
          12009]
 gi|260866991|ref|YP_003233393.1| putative transcriptional regulator [Escherichia coli O111:H- str.
          11128]
 gi|257758214|dbj|BAI29711.1| putative transcriptional regulator [Escherichia coli O103:H2 str.
          12009]
 gi|257763347|dbj|BAI34842.1| putative transcriptional regulator [Escherichia coli O111:H- str.
          11128]
 gi|323967329|gb|EGB62751.1| helix-turn-helix protein [Escherichia coli M863]
          Length = 94

 Score = 35.0 bits (79), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R   G++QEKLG   G+       ++ +YEKG +      + ++++VL  P+SF 
Sbjct: 5  RLKEARRRAGLTQEKLGILAGLDEASASTRINQYEKGKHSPNFETVSNLAKVLNVPVSFL 64

Query: 74 F 74
          +
Sbjct: 65 Y 65


>gi|29347770|ref|NP_811273.1| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482]
 gi|29339671|gb|AAO77467.1| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482]
          Length = 136

 Score = 35.0 bits (79), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 17/53 (32%), Positives = 32/53 (60%), Gaps = 1/53 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          ++G++I   R + GM+Q  LGE LG+T Q + K E+   ++   +L+ ++  L
Sbjct: 11 HLGRKIERIRRLRGMTQTDLGELLGVTKQAISKMEQ-AEKIDDEKLKQVATAL 62


>gi|228949440|ref|ZP_04111697.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|228810236|gb|EEM56600.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
          Length = 138

 Score = 35.0 bits (79), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 32/60 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK I+  R I G+S++++ E L  T++ V  +E G      ++L+ I+  L   +S   
Sbjct: 19 VGKNIKKLRAIKGVSRKEMAEDLNTTYRTVSSWETGEKTPRLNKLEEIATYLNVSVSSLL 78


>gi|228968306|ref|ZP_04129303.1| hypothetical protein bthur0004_50850 [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|228791383|gb|EEM38988.1| hypothetical protein bthur0004_50850 [Bacillus thuringiensis
          serovar sotto str. T04001]
          Length = 218

 Score = 35.0 bits (79), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 16/52 (30%), Positives = 31/52 (59%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          +++GK I+  R    +SQ++LGE  G++ + V  +EKG+       +Q I++
Sbjct: 1  MSIGKNIKKLRSKHNLSQKELGEIAGVSDKAVSTWEKGLKEPRMGAIQKIAD 52


>gi|187776409|ref|ZP_02802465.2| putative repressor protein [Escherichia coli O157:H7 str. EC4196]
 gi|188025234|ref|ZP_02776939.2| putative repressor protein [Escherichia coli O157:H7 str. EC4113]
 gi|189010761|ref|ZP_02809209.2| putative repressor protein [Escherichia coli O157:H7 str. EC4076]
 gi|189402468|ref|ZP_02782667.2| putative repressor protein [Escherichia coli O157:H7 str. EC4401]
 gi|189403410|ref|ZP_02795288.2| putative repressor protein [Escherichia coli O157:H7 str. EC4486]
 gi|189404368|ref|ZP_02788860.2| putative repressor protein [Escherichia coli O157:H7 str. EC4501]
 gi|189406229|ref|ZP_02827125.2| putative repressor protein [Escherichia coli O157:H7 str. EC508]
 gi|208810492|ref|ZP_03252368.1| putative repressor protein [Escherichia coli O157:H7 str. EC4206]
 gi|208816709|ref|ZP_03257829.1| putative repressor protein [Escherichia coli O157:H7 str. EC4045]
 gi|208819596|ref|ZP_03259916.1| putative repressor protein [Escherichia coli O157:H7 str. EC4042]
 gi|209400359|ref|YP_002271137.1| putative repressor protein [Escherichia coli O157:H7 str. EC4115]
 gi|217329536|ref|ZP_03445615.1| putative repressor protein [Escherichia coli O157:H7 str.
          TW14588]
 gi|187767281|gb|EDU31125.1| putative repressor protein [Escherichia coli O157:H7 str. EC4196]
 gi|188014100|gb|EDU52222.1| putative repressor protein [Escherichia coli O157:H7 str. EC4113]
 gi|188998604|gb|EDU67590.1| putative repressor protein [Escherichia coli O157:H7 str. EC4076]
 gi|189355391|gb|EDU73810.1| putative repressor protein [Escherichia coli O157:H7 str. EC4401]
 gi|189360762|gb|EDU79181.1| putative repressor protein [Escherichia coli O157:H7 str. EC4486]
 gi|189366046|gb|EDU84462.1| putative repressor protein [Escherichia coli O157:H7 str. EC4501]
 gi|189375816|gb|EDU94232.1| putative repressor protein [Escherichia coli O157:H7 str. EC508]
 gi|208725008|gb|EDZ74715.1| putative repressor protein [Escherichia coli O157:H7 str. EC4206]
 gi|208731052|gb|EDZ79741.1| putative repressor protein [Escherichia coli O157:H7 str. EC4045]
 gi|208739719|gb|EDZ87401.1| putative repressor protein [Escherichia coli O157:H7 str. EC4042]
 gi|209161759|gb|ACI39192.1| putative repressor protein [Escherichia coli O157:H7 str. EC4115]
 gi|217317304|gb|EEC25733.1| putative repressor protein [Escherichia coli O157:H7 str.
          TW14588]
          Length = 219

 Score = 35.0 bits (79), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 21/84 (25%), Positives = 44/84 (52%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF- 72
          ++G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+ 
Sbjct: 8  SLGFRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYL 67

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
           + VS    S + S     + ++S
Sbjct: 68 LYGVSSPELSFVQSTSGTKIPYLS 91


>gi|110680047|ref|YP_683054.1| transcriptional regulator, putative [Roseobacter denitrificans
          OCh 114]
 gi|109456163|gb|ABG32368.1| transcriptional regulator, putative [Roseobacter denitrificans
          OCh 114]
          Length = 429

 Score = 35.0 bits (79), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 25/52 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           G RIR RR + G+ Q  L   LGI+   +   E    R+G   L  I+ VL
Sbjct: 7  TGSRIRERRSVAGLKQADLARALGISPSYLNLIEHNRRRIGGKLLLDIARVL 58


>gi|226313439|ref|YP_002773333.1| DNA-binding protein [Brevibacillus brevis NBRC 100599]
 gi|226096387|dbj|BAH44829.1| putative DNA-binding protein [Brevibacillus brevis NBRC 100599]
          Length = 185

 Score = 35.0 bits (79), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 37/66 (56%), Gaps = 1/66 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P++  +G +IR+ R   G + E +    G++   + + E+G+++     L  I++ LESP
Sbjct: 4  PIE-TIGHKIRMIRKERGFTLEIMAGKTGLSKGLLSQVERGISQPSLDSLWKITKALESP 62

Query: 70 ISFFFD 75
          I  FF+
Sbjct: 63 IIHFFE 68


>gi|163847710|ref|YP_001635754.1| cupin 2 domain-containing protein [Chloroflexus aurantiacus
          J-10-fl]
 gi|222525574|ref|YP_002570045.1| XRE family transcriptional regulator [Chloroflexus sp. Y-400-fl]
 gi|163668999|gb|ABY35365.1| Cupin 2 conserved barrel domain protein [Chloroflexus aurantiacus
          J-10-fl]
 gi|222449453|gb|ACM53719.1| transcriptional regulator, XRE family [Chloroflexus sp. Y-400-fl]
          Length = 211

 Score = 35.0 bits (79), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 30/63 (47%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++VG RIR  R    +S   L E  G+    +   E G      S LQ ++  L+ P+S
Sbjct: 16 NVDVGTRIRTLREQRRLSIRALAEASGLAVNTLSLIENGRTSPSVSTLQRLAVALQVPVS 75

Query: 72 FFF 74
           FF
Sbjct: 76 TFF 78


>gi|291300667|ref|YP_003511945.1| XRE family transcriptional regulator [Stackebrandtia nassauensis
          DSM 44728]
 gi|290569887|gb|ADD42852.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis
          DSM 44728]
          Length = 513

 Score = 35.0 bits (79), Expect = 3.7,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 28/54 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G  IR  R   G++Q +L + LG +   V + E+G   +    L  +SE L+S
Sbjct: 15 IGTLIRDARKHRGLTQTQLADLLGTSQSAVNRIERGAQNLSVDMLNRVSEALDS 68


>gi|315127131|ref|YP_004069134.1| transcriptional regulator [Pseudoalteromonas sp. SM9913]
 gi|315015645|gb|ADT68983.1| putative transcriptional regulator [Pseudoalteromonas sp. SM9913]
          Length = 99

 Score = 35.0 bits (79), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 16/61 (26%), Positives = 36/61 (59%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R   G++Q++LG  LG+       ++ +YEKG +      ++ I++ L+ P+++F
Sbjct: 8  RLKSARKAAGLTQQQLGMALGMEPNTASARMNQYEKGKHAPDFLTMKRIAKELDVPVAYF 67

Query: 74 F 74
          +
Sbjct: 68 Y 68


>gi|332655084|ref|ZP_08420825.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
 gi|332515944|gb|EGJ45553.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
          Length = 130

 Score = 35.0 bits (79), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 22/77 (28%), Positives = 41/77 (53%), Gaps = 9/77 (11%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVL 66
           D ++G+R++  R    ++Q++LG  +G + +    ++ +YEK      A      +EVL
Sbjct: 6  TDTSIGQRLKFIRRFRRLTQKELGLRMGYSEKTADVRIAQYEKNARTPNAETTAKFAEVL 65

Query: 67 E-SPISFFFDVSPTVCS 82
          + SP  F    SPT+C+
Sbjct: 66 KVSPAVF----SPTICA 78


>gi|260854614|ref|YP_003228505.1| putative phage repressor protein CI [Escherichia coli O26:H11
          str. 11368]
 gi|257753263|dbj|BAI24765.1| putative phage repressor protein CI [Escherichia coli O26:H11
          str. 11368]
          Length = 215

 Score = 35.0 bits (79), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 21/84 (25%), Positives = 44/84 (52%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF- 72
          ++G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+ 
Sbjct: 4  SLGIRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYL 63

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
           + VS    S + S     + ++S
Sbjct: 64 LYGVSSPELSFVQSTSGTKIPYLS 87


>gi|291326970|ref|ZP_06126519.2| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291312079|gb|EFE52532.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 95

 Score = 35.0 bits (79), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 3/78 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG +IR  R   GMS + L   LGI+ Q   +YE G   +    +  ++++     ++F
Sbjct: 8  SVGLKIRSLRESHGMSGKDLSILLGISQQHQSRYENGEVNIHVDTIYQLAQIFNVSPTYF 67

Query: 74 FDVSPTVCSDISSEENNV 91
          F  + T   DI+S E +V
Sbjct: 68 FTETIT---DINSTELSV 82


>gi|237809770|ref|YP_002894210.1| helix-turn-helix domain-containing protein [Tolumonas auensis DSM
          9187]
 gi|237502031|gb|ACQ94624.1| helix-turn-helix domain protein [Tolumonas auensis DSM 9187]
          Length = 355

 Score = 35.0 bits (79), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 16/60 (26%), Positives = 33/60 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+   R   G+S + LG+ +G++   ++KYE   N   +  +  +++VL     +FF
Sbjct: 2  IGERLLRARAAAGLSMKALGDLVGVSANMIKKYEHNQNMPSSGVMIKLAKVLSVRSEYFF 61


>gi|169335943|ref|ZP_02863136.1| hypothetical protein ANASTE_02378 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169258681|gb|EDS72647.1| hypothetical protein ANASTE_02378 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 351

 Score = 35.0 bits (79), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 20/69 (28%), Positives = 40/69 (57%), Gaps = 4/69 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV----LES 68
          +N+ + I+ +R+  G++QE +   LG++   V K+EKGV+    + L  I+ +    + +
Sbjct: 1  MNINEIIKNKRVEAGLTQENVANYLGVSTPAVNKWEKGVSYPDITLLPPIARLFNIDMNT 60

Query: 69 PISFFFDVS 77
           +SF  D+S
Sbjct: 61 LLSFNEDLS 69


>gi|117623603|ref|YP_852516.1| putative regulator [Escherichia coli APEC O1]
 gi|115512727|gb|ABJ00802.1| putative regulator [Escherichia coli APEC O1]
          Length = 139

 Score = 35.0 bits (79), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 25/104 (24%), Positives = 49/104 (47%), Gaps = 2/104 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
           +  R++ RR  LG+SQ KL E  G T  ++  YE G   VG      + + L  SP    
Sbjct: 17  IAMRLKERRQKLGLSQGKLAEICGWTQSRIGNYEAGSRNVGVHDAVVLGKALGISPPELL 76

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           F    +    ++  +  +++  +   G +  R  I++ +V++++
Sbjct: 77  FGEKDSSELWLNESQRKLLELFNQLPGSEQQR-MIELFEVRLKE 119


>gi|15802455|ref|NP_288481.1| putative repressor protein of prophage CP-933U [Escherichia coli
          O157:H7 EDL933]
 gi|12516142|gb|AAG57035.1|AE005422_10 putative repressor protein of prophage CP-933U [Escherichia coli
          O157:H7 str. EDL933]
          Length = 196

 Score = 35.0 bits (79), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 21/84 (25%), Positives = 44/84 (52%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF- 72
          ++G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+ 
Sbjct: 4  SLGFRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYL 63

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
           + VS    S + S     + ++S
Sbjct: 64 LYGVSSPELSFVQSTSGTKIPYLS 87


>gi|251795604|ref|YP_003010335.1| XRE family transcriptional regulator [Paenibacillus sp. JDR-2]
 gi|247543230|gb|ACT00249.1| transcriptional regulator, XRE family [Paenibacillus sp. JDR-2]
          Length = 215

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 20/69 (28%), Positives = 37/69 (53%), Gaps = 4/69 (5%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +G+KK       N+ K   LR      S + L E +G+T + +Q+YE+G +R+   RL+ 
Sbjct: 5  LGSKKFYAATGANIKKYRDLRNY----SLQVLAEKVGLTKKTIQRYEQGEHRIDTERLKA 60

Query: 62 ISEVLESPI 70
          ++  L+  +
Sbjct: 61 LAAALDVTV 69


>gi|256852139|ref|ZP_05557526.1| helix-turn-helix domain-containing protein [Lactobacillus
          jensenii 27-2-CHN]
 gi|260661292|ref|ZP_05862205.1| predicted protein [Lactobacillus jensenii 115-3-CHN]
 gi|282932144|ref|ZP_06337598.1| transcriptional regulator [Lactobacillus jensenii 208-1]
 gi|297204982|ref|ZP_06922378.1| XRE family transcriptional regulator [Lactobacillus jensenii
          JV-V16]
 gi|256615551|gb|EEU20741.1| helix-turn-helix domain-containing protein [Lactobacillus
          jensenii 27-2-CHN]
 gi|260547747|gb|EEX23724.1| predicted protein [Lactobacillus jensenii 115-3-CHN]
 gi|281303737|gb|EFA95885.1| transcriptional regulator [Lactobacillus jensenii 208-1]
 gi|297149560|gb|EFH29857.1| XRE family transcriptional regulator [Lactobacillus jensenii
          JV-V16]
          Length = 138

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 34/58 (58%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +R++  R+  GMSQE+L   L ++ Q V K+E G +     +L+ +S++ +  I +
Sbjct: 4  INERLKEMRLNAGMSQEELASKLNVSRQSVSKWETGDSLPDILKLKQLSQLYDVSIDY 61


>gi|323487601|ref|ZP_08092891.1| hypothetical protein HMPREF9474_04642 [Clostridium symbiosum
           WAL-14163]
 gi|157816226|gb|ABV82119.1| HTH domain protein [Streptococcus parasanguinis]
 gi|198387264|gb|ACH87089.1| helix-turn-helix XRE-family-like protein [Escherichia coli]
 gi|323399100|gb|EGA91508.1| hypothetical protein HMPREF9474_04642 [Clostridium symbiosum
           WAL-14163]
          Length = 151

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 30/100 (30%), Positives = 44/100 (44%), Gaps = 11/100 (11%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            DI  GK+IR  R   GM+QE+L   L +T Q +  +E+ VN    + L+         I
Sbjct: 6   TDITTGKQIRHLRTQSGMTQEELAGELNVTRQALSNWERDVNEPDLNTLK--------KI 57

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
            F F V      D + E    M+     +  Q N+Y + I
Sbjct: 58  CFLFGVHM---DDFAKEVITKMETCEKKEKRQFNKYDMAI 94


>gi|116695851|ref|YP_841427.1| anaerobic benzoate catabolism transcriptional regulator [Ralstonia
           eutropha H16]
 gi|113530350|emb|CAJ96697.1| Transcriptional Regulator [Ralstonia eutropha H16]
          Length = 320

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 23/116 (19%), Positives = 49/116 (42%), Gaps = 16/116 (13%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
             N    NP  + +G+R+R  R   G++++   +  G++ + +   E G        LQH
Sbjct: 25  AANGTDKNPFLVALGERVRELRACRGLTRKAAAQAAGVSERHLANLEYGSGNASILVLQH 84

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           I++ L+  ++           DI++         S+P+ + L       D+  +R+
Sbjct: 85  IADALQCSLAGLL-------GDITT---------SSPEWILLRELLEHRDEATLRR 124


>gi|297158608|gb|ADI08320.1| transcriptional regulator [Streptomyces bingchenggensis BCW-1]
          Length = 206

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 4/96 (4%)

Query: 4   NKKIPNPV----DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           +K +P P     + +VG+R+   R +  MS   L E   ++   + + E+G +    S L
Sbjct: 11  SKSVPEPPAERPESDVGRRVHAFRRLRRMSLRALAERSDVSGSFLSQLERGRSSASISTL 70

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFI 95
             I+  L   ++  FD S    + + +++  V+D++
Sbjct: 71  ARIASALGITMAELFDTSAIGPTPLRAQDRPVLDWV 106


>gi|240139351|ref|YP_002963826.1| hypothetical protein MexAM1_META1p2796 [Methylobacterium
          extorquens AM1]
 gi|240009323|gb|ACS40549.1| conserved hypothetical protein [Methylobacterium extorquens AM1]
          Length = 87

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R+  G+SQE+L    GI    V + E+G   V  S L+ ++  L  P++   
Sbjct: 7  IGWNLRRLRVAQGLSQERLALAAGIDRAYVGRVERGSENVTISTLEAMARALAVPVAHLL 66


>gi|149914665|ref|ZP_01903195.1| hypothetical protein RAZWK3B_13769 [Roseobacter sp. AzwK-3b]
 gi|149811458|gb|EDM71293.1| hypothetical protein RAZWK3B_13769 [Roseobacter sp. AzwK-3b]
          Length = 210

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 30/61 (49%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G+ +R  R   GM+   L E  G++   + K E GV     + LQ +S  L  P+
Sbjct: 21 LETAIGREVREVRHARGMTVADLAEATGLSVGMLSKIENGVTSPSLTTLQALSSALSVPV 80

Query: 71 S 71
          +
Sbjct: 81 T 81


>gi|90414720|ref|ZP_01222690.1| putative transcriptional regulator [Photobacterium profundum
          3TCK]
 gi|90324165|gb|EAS40743.1| putative transcriptional regulator [Photobacterium profundum
          3TCK]
          Length = 102

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 35/61 (57%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R   G+SQ++LG  LG+       ++  YEKG +    + L+ I++ L  P+S+F
Sbjct: 10 RLKESRKTAGISQKELGIRLGMDPSSASGRMNHYEKGRHMPDIATLRRIADELGVPLSYF 69

Query: 74 F 74
          F
Sbjct: 70 F 70


>gi|15832020|ref|NP_310793.1| repressor protein [Escherichia coli O157:H7 str. Sakai]
 gi|254793674|ref|YP_003078511.1| putative repressor protein of prophage CP-933U [Escherichia coli
          O157:H7 str. TW14359]
 gi|13362234|dbj|BAB36189.1| putative repressor protein [Escherichia coli O157:H7 str. Sakai]
 gi|254593074|gb|ACT72435.1| putative repressor protein of prophage CP-933U [Escherichia coli
          O157:H7 str. TW14359]
          Length = 215

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 21/84 (25%), Positives = 44/84 (52%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF- 72
          ++G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+ 
Sbjct: 4  SLGFRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYL 63

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
           + VS    S + S     + ++S
Sbjct: 64 LYGVSSPELSFVQSTSGTKIPYLS 87


>gi|186681969|ref|YP_001865165.1| XRE family transcriptional regulator [Nostoc punctiforme PCC
          73102]
 gi|186464421|gb|ACC80222.1| transcriptional regulator, XRE family [Nostoc punctiforme PCC
          73102]
          Length = 83

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 20/67 (29%), Positives = 33/67 (49%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+ +D  +G  ++ RR   G SQE L E  G+    + + E+G+       L HI++ L 
Sbjct: 3  PSKLDQILGLELQRRRTEKGWSQEYLAEVTGLHRTYISQLERGLKSPSVRVLSHITKALG 62

Query: 68 SPISFFF 74
            +S F 
Sbjct: 63 MTMSEFL 69


>gi|324328552|gb|ADY23812.1| putative DNA-binding protein [Bacillus thuringiensis serovar
          finitimus YBT-020]
          Length = 387

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 30/60 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++L R    MS   L   L I+ Q V KYEK ++      +  +  VL  P  F+F+
Sbjct: 8  GERLKLARRFNAMSLLDLAGKLSISKQMVSKYEKNISPPSGEIMLQLEGVLGFPRKFYFE 67


>gi|289433492|ref|YP_003463364.1| Lambda repressor-like, DNA-binding domain protein [Listeria
          seeligeri serovar 1/2b str. SLCC3954]
 gi|289169736|emb|CBH26272.1| Lambda repressor-like, DNA-binding domain protein [Listeria
          seeligeri serovar 1/2b str. SLCC3954]
          Length = 111

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +  FF
Sbjct: 7  VGNKIKQYREERGLNQEALAERLHTTRQTISRYENGDRKANQDILFELAKIFNKRLDDFF 66


>gi|261820980|ref|YP_003259086.1| XRE family transcriptional regulator [Pectobacterium wasabiae
          WPP163]
 gi|261604993|gb|ACX87479.1| transcriptional regulator, XRE family [Pectobacterium wasabiae
          WPP163]
          Length = 104

 Score = 35.0 bits (79), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR+RL R+  G+ Q +LG   G+       +V +YE+ V+      +   + VL+ P 
Sbjct: 11 IGKRLRLARVNTGLKQVELGCLAGLDEETASSRVSQYEREVSSPDFGLVCRFAAVLDVPE 70

Query: 71 SFFFDV 76
          ++F+ V
Sbjct: 71 AYFYAV 76


>gi|254450572|ref|ZP_05064009.1| transcriptional regulator, XRE family [Octadecabacter antarcticus
          238]
 gi|198264978|gb|EDY89248.1| transcriptional regulator, XRE family [Octadecabacter antarcticus
          238]
          Length = 427

 Score = 35.0 bits (79), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 29/61 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           G R R RR+ LG+ Q  + + LGI+   +   E    R+G   L  ++ VL+   +   
Sbjct: 7  TGTRARNRRIDLGLRQTNVAKALGISGSYLNLIEHNRRRIGGKLLHDLARVLDMDAALLG 66

Query: 75 D 75
          D
Sbjct: 67 D 67


>gi|206562126|ref|YP_002232889.1| putative repressor protein [Burkholderia cenocepacia J2315]
 gi|198038166|emb|CAR54117.1| putative repressor protein [Burkholderia cenocepacia J2315]
          Length = 111

 Score = 35.0 bits (79), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 4/63 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR+R  R+  G+SQE+LG   GI       +V +YE G +         ++ VL  P SF
Sbjct: 13 KRLREARLRSGLSQEQLGIEAGIDEFSASARVNQYETGKHAPKLQTAHRLARVLHVPTSF 72

Query: 73 FFD 75
           ++
Sbjct: 73 LYE 75


>gi|195939798|ref|ZP_03085180.1| putative repressor protein [Escherichia coli O157:H7 str. EC4024]
 gi|261226405|ref|ZP_05940686.1| putative repressor protein [Escherichia coli O157:H7 str.
          FRIK2000]
 gi|261257983|ref|ZP_05950516.1| putative repressor protein [Escherichia coli O157:H7 str.
          FRIK966]
          Length = 214

 Score = 35.0 bits (79), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 21/84 (25%), Positives = 44/84 (52%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF- 72
          ++G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+ 
Sbjct: 3  SLGFRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYL 62

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
           + VS    S + S     + ++S
Sbjct: 63 LYGVSSPELSFVQSTSGTKIPYLS 86


>gi|324013609|gb|EGB82828.1| hypothetical protein HMPREF9533_02325 [Escherichia coli MS 60-1]
          Length = 125

 Score = 34.7 bits (78), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 28/107 (26%), Positives = 51/107 (47%), Gaps = 10/107 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS----EVLES 68
           +++G R++  R  LG SQ +  E +G +++   ++EK  +  GA  L   +    +VL  
Sbjct: 11  MSLGSRLKEERNRLGFSQSEFAELVGASYKSQLRWEKDESAPGADALAIWATLGLDVLYV 70

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFIS--TPDG----LQLNRYFIQ 109
                 DV   V   +S E+  +MD     TP+     L++ R++ Q
Sbjct: 71  VTGQRGDVMTNVVPKMSPEKQKLMDAFDEMTPEQRRSFLEVGRFYTQ 117


>gi|303242127|ref|ZP_07328617.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
           CD2]
 gi|302590314|gb|EFL60072.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
           CD2]
          Length = 196

 Score = 34.7 bits (78), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 29/129 (22%), Positives = 53/129 (41%), Gaps = 18/129 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + +RI+  R    ++Q +L E LG+  Q +  YE G        L  +++       F  
Sbjct: 11  MSQRIKQLREENKINQHQLAEILGVKNQTISNYEAGEREPSYGVLLKLADYFNVSTDFLL 70

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQ--LNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
             +    SD+  +   +++  +  D LQ   N Y+          K I+LV      +K+
Sbjct: 71  GRTNISHSDLGQKTEYLLEHDAYSDTLQEIFNEYY----------KFIDLV------DKE 114

Query: 133 YRTIEEECM 141
           Y   +E C+
Sbjct: 115 YEKTQENCL 123


>gi|237733315|ref|ZP_04563796.1| predicted protein [Mollicutes bacterium D7]
 gi|229383696|gb|EEO33787.1| predicted protein [Coprobacillus sp. D7]
          Length = 138

 Score = 34.7 bits (78), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 33/55 (60%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +++GKRI+  R   G+SQE+L   L I+ Q + K+E  +N     ++  +++ LE
Sbjct: 1  MSLGKRIQSYRKQKGLSQEQLASRLNISRQALSKWESDINVPNIDKIMDVAKALE 55


>gi|323490301|ref|ZP_08095516.1| AnsR [Planococcus donghaensis MPA1U2]
 gi|323395971|gb|EGA88802.1| AnsR [Planococcus donghaensis MPA1U2]
          Length = 118

 Score = 34.7 bits (78), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 29/61 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KRI+  R   G+S E+L + +G     V  YE G  +V    L+ +++  E  +    
Sbjct: 4  LSKRIKDLREAKGLSTEELADAIGFAKSTVWAYESGKKQVSVVHLERLADYFEISVDSLL 63

Query: 75 D 75
          D
Sbjct: 64 D 64


>gi|227485416|ref|ZP_03915732.1| transcriptional regulator [Anaerococcus lactolyticus ATCC 51172]
 gi|227236546|gb|EEI86561.1| transcriptional regulator [Anaerococcus lactolyticus ATCC 51172]
          Length = 143

 Score = 34.7 bits (78), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 36/69 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++++  R++  ++Q++L    G+T   ++ YE G       +LQ ISE L+  IS   +
Sbjct: 4  GEKLKKLRLMRNLTQKELAIKSGLTDAAIRNYELGNRSPSKEQLQKISEALDCDISALIN 63

Query: 76 VSPTVCSDI 84
            P    +I
Sbjct: 64 HEPNSIFEI 72


>gi|307137999|ref|ZP_07497355.1| putative regulator [Escherichia coli H736]
 gi|331641924|ref|ZP_08343059.1| putative regulator [Escherichia coli H736]
 gi|331038722|gb|EGI10942.1| putative regulator [Escherichia coli H736]
          Length = 140

 Score = 34.7 bits (78), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 25/104 (24%), Positives = 49/104 (47%), Gaps = 2/104 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
           +  R++ RR  LG+SQ KL E  G T  ++  YE G   VG      + + L  SP    
Sbjct: 17  IAMRLKERRQKLGLSQGKLAEICGWTQSRIGNYEAGSRNVGVHDAVVLGKALGISPPELL 76

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           F    +    ++  +  +++  +   G +  R  I++ +V++++
Sbjct: 77  FGEKDSSELWLNESQRKLLELFNQLPGSEQQR-MIELFEVRLKE 119


>gi|288959791|ref|YP_003450131.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288912099|dbj|BAI73587.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 118

 Score = 34.7 bits (78), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 20/69 (28%), Positives = 31/69 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +GKR+R  R    +SQE +   +  + + V   E+G        L  +S  L+ P+  F
Sbjct: 8  RIGKRLRALRESRALSQEDVAAAIDRSVETVSNIERGRVLAALETLDRLSRRLDVPLVDF 67

Query: 74 FDVSPTVCS 82
          FD    V S
Sbjct: 68 FDDGEAVVS 76


>gi|268610635|ref|ZP_06144362.1| XRE family transcriptional regulator [Ruminococcus flavefaciens
          FD-1]
          Length = 223

 Score = 34.7 bits (78), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 38/67 (56%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +K++ N   +  G+ I+  R  LGM+Q++L E + ++ + V K+E+G      S L  ++
Sbjct: 17 HKEVMNMDQVKTGQLIKRLRTELGMTQKQLAERINVSDKAVSKWERGNGCPDVSLLSALA 76

Query: 64 EVLESPI 70
          +V  + I
Sbjct: 77 DVFGTDI 83


>gi|188588059|ref|YP_001921522.1| DNA-binding protein [Clostridium botulinum E3 str. Alaska E43]
 gi|188498340|gb|ACD51476.1| DNA-binding protein [Clostridium botulinum E3 str. Alaska E43]
          Length = 114

 Score = 34.7 bits (78), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 8/79 (10%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  R++  R+   +SQ KL E   I+ Q V  YEKG+  + +S ++ +S         FF
Sbjct: 5  IMNRLKELRIEKDLSQAKLAELFNISQQAVSHYEKGIRDIDSSLIKTLSN--------FF 56

Query: 75 DVSPTVCSDISSEENNVMD 93
           VS      IS   N   D
Sbjct: 57 SVSSDYLLGISDIRNYTDD 75


>gi|327398850|ref|YP_004339719.1| helix-turn-helix domain-containing protein [Hippea maritima DSM
          10411]
 gi|327181479|gb|AEA33660.1| helix-turn-helix domain protein [Hippea maritima DSM 10411]
          Length = 191

 Score = 34.7 bits (78), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 29/49 (59%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          ++G+R++  R   G+SQ+++ E + +T +  Q+YEK   +    +L  I
Sbjct: 4  SLGERLKAIRQAKGLSQKEMAEIMDVTLRAYQRYEKDEQKASYEKLARI 52


>gi|283769265|ref|ZP_06342169.1| peptidase S24-like domain protein [Bulleidia extructa W1219]
 gi|283104241|gb|EFC05620.1| peptidase S24-like domain protein [Bulleidia extructa W1219]
          Length = 275

 Score = 34.7 bits (78), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 17/36 (47%), Positives = 23/36 (63%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          VG+RIR RR+ L +S E LG  +G     + +YEKG
Sbjct: 5  VGERIRKRRIELKLSPEDLGNKIGKDRATIYRYEKG 40


>gi|253689002|ref|YP_003018192.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
          subsp. carotovorum PC1]
 gi|251755580|gb|ACT13656.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
          subsp. carotovorum PC1]
          Length = 137

 Score = 34.7 bits (78), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 18/50 (36%), Positives = 26/50 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          +G R+R  R  +G SQ  + E LG T +   KYE+G      + L  +SE
Sbjct: 12 IGGRLREERETIGKSQSAIAEELGTTTRTWGKYERGETAPDGATLAFLSE 61


>gi|206975059|ref|ZP_03235973.1| HTH-type transcriptional regulator xre (Putative PbsX repressor)
          [Bacillus cereus H3081.97]
 gi|217959610|ref|YP_002338162.1| putative DNA-binding protein [Bacillus cereus AH187]
 gi|229138835|ref|ZP_04267416.1| transcriptional regulator [Bacillus cereus BDRD-ST26]
 gi|206746480|gb|EDZ57873.1| HTH-type transcriptional regulator xre (Putative PbsX repressor)
          [Bacillus cereus H3081.97]
 gi|217065315|gb|ACJ79565.1| putative DNA-binding protein [Bacillus cereus AH187]
 gi|228644751|gb|EEL01002.1| transcriptional regulator [Bacillus cereus BDRD-ST26]
          Length = 117

 Score = 34.7 bits (78), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 37/68 (54%), Gaps = 4/68 (5%)

Query: 20 RLRRMI--LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV- 76
          RL+ +I   G+SQ++L + +G++   V  Y +G  + G   LQ I++ L+    +   V 
Sbjct: 6  RLKSLIDKKGISQQQLADAIGVSHVSVYNYVEGKKKPGIRTLQKIAKHLKVTTDYLLGVS 65

Query: 77 -SPTVCSD 83
           SP + +D
Sbjct: 66 DSPHLTAD 73


>gi|91780942|ref|YP_556149.1| anaerobic benzoate catabolism transcriptional regulator
          [Burkholderia xenovorans LB400]
 gi|91693602|gb|ABE36799.1| transcriptional regulator, XRE family with shikimate kinase
          activity [Burkholderia xenovorans LB400]
          Length = 323

 Score = 34.7 bits (78), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 21/77 (27%), Positives = 37/77 (48%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +PV   + +RIR  R   GM++++L    G++   + + E G   V  S LQ +S  L  
Sbjct: 21 DPVLSELARRIRTLRAQRGMTRKQLALQSGVSIPHLARIESGEGNVSVSLLQKLSVALNL 80

Query: 69 PISFFFDVSPTVCSDIS 85
          PI        +  +D++
Sbjct: 81 PIQDLLADGSSQNADLT 97


>gi|71278291|ref|YP_271323.1| putative transcriptional regulator [Colwellia psychrerythraea 34H]
 gi|71144031|gb|AAZ24504.1| putative transcriptional regulator [Colwellia psychrerythraea 34H]
          Length = 180

 Score = 34.7 bits (78), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 24/92 (26%), Positives = 50/92 (54%), Gaps = 2/92 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VGKR++  R + G+SQ +L + +G+T   +   E+       S L+ I E +   ++ 
Sbjct: 1   MDVGKRLKEVREMYGLSQRELAKRVGLTNSTISMIERDAVSPSISSLKKILEGVSLTVTE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           FF +     S +  +++ ++D  S  DG++L+
Sbjct: 61  FFTLEIPTESQVVFKKDTLVDVGS--DGVELH 90


>gi|313887742|ref|ZP_07821424.1| DNA-binding helix-turn-helix protein [Peptoniphilus harei
          ACS-146-V-Sch2b]
 gi|312846351|gb|EFR33730.1| DNA-binding helix-turn-helix protein [Peptoniphilus harei
          ACS-146-V-Sch2b]
          Length = 185

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 34/61 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I  G++I+ +R  L +SQE L + L +T Q + K+E        + L+ +SEV    +++
Sbjct: 3  IMYGEKIKSKRRELNLSQEDLADKLFVTRQAISKWENDKATPTMTNLRELSEVFGVDMAY 62

Query: 73 F 73
          F
Sbjct: 63 F 63


>gi|332292914|ref|YP_004431523.1| transcriptional regulator, XRE family [Krokinobacter diaphorus
          4H-3-7-5]
 gi|332171000|gb|AEE20255.1| transcriptional regulator, XRE family [Krokinobacter diaphorus
          4H-3-7-5]
          Length = 66

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 36/61 (59%), Gaps = 4/61 (6%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ--HISEVLESPISFFFDV 76
          +++ R IL ++Q+ L + +G++ Q +   EK  NR   S +    +SE+ E P++ FF +
Sbjct: 5  LKVERAILNLTQDDLAKKIGVSRQTINSIEK--NRYVPSTVLALKLSELFEKPVNEFFSL 62

Query: 77 S 77
          S
Sbjct: 63 S 63


>gi|312865414|ref|ZP_07725641.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
 gi|311098932|gb|EFQ57149.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
          Length = 193

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 37/61 (60%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R+R  R+  G++QE + + L +T Q V ++E+  N      LQ +S++ E  +++
Sbjct: 1  MKIGERLRQARINAGLTQEDVSKELFVTRQTVSRWEQEKNLPNLYVLQDLSKLYEVEVAY 60

Query: 73 F 73
          F
Sbjct: 61 F 61


>gi|268592006|ref|ZP_06126227.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291312398|gb|EFE52851.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 101

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 32/60 (53%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           N +  +VG  +R  R    M+ ++L E + I+ QQV +YE G + +   +L  I  VL+
Sbjct: 3  ANIISSHVGNYLRKSRKEKNMTGKQLAELINISQQQVSRYETGSSSLSLDQLNEILTVLD 62


>gi|210632695|ref|ZP_03297520.1| hypothetical protein COLSTE_01423 [Collinsella stercoris DSM
          13279]
 gi|210159405|gb|EEA90376.1| hypothetical protein COLSTE_01423 [Collinsella stercoris DSM
          13279]
          Length = 320

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 23/40 (57%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          M+QE+L   LG+T Q V K+E G +     RL  + E+ E
Sbjct: 24 MTQEQLAMLLGVTRQAVSKWESGASTPDMDRLVRLCEIFE 63


>gi|317500621|ref|ZP_07958840.1| HTH domain-containing protein [Lachnospiraceae bacterium 8_1_57FAA]
 gi|316897939|gb|EFV19991.1| HTH domain-containing protein [Lachnospiraceae bacterium 8_1_57FAA]
          Length = 151

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 29/96 (30%), Positives = 42/96 (43%), Gaps = 11/96 (11%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            DI  GK+IR  R   GM+QE+L   L +T Q +  +E+ VN    + L+         I
Sbjct: 6   TDITTGKQIRHLRTQSGMTQEELAGELNVTRQALSNWERDVNEPDLNTLK--------KI 57

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
            F F V      D + E    M+     +  Q N+Y
Sbjct: 58  CFLFGVHM---DDFAKEVITKMETCEKKEKRQFNKY 90


>gi|296284192|ref|ZP_06862190.1| hypothetical protein CbatJ_11236 [Citromicrobium bathyomarinum
          JL354]
          Length = 230

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 15/64 (23%), Positives = 36/64 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + ++++L R +  ++QE L +  G++ + ++K E G +R     L+ I+  ++  ++ F 
Sbjct: 11 IAEQVKLIRKMFSLTQENLADAAGLSSRTIEKIESGRHRPEIQTLRSIARAVQFDVNVFA 70

Query: 75 DVSP 78
            SP
Sbjct: 71 KPSP 74


>gi|288962615|ref|YP_003452909.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288914881|dbj|BAI76365.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 118

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 20/69 (28%), Positives = 31/69 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +GKR+R  R    +SQE +   +  + + V   E+G        L  +S  L+ P+  F
Sbjct: 8  RIGKRLRALRESRALSQEDVAAAIDRSVETVSNIERGRVLAALETLDRLSRRLDVPLVDF 67

Query: 74 FDVSPTVCS 82
          FD    V S
Sbjct: 68 FDDGEAVVS 76


>gi|227552248|ref|ZP_03982297.1| transcriptional regulator [Enterococcus faecium TX1330]
 gi|257895169|ref|ZP_05674822.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          Com12]
 gi|293377799|ref|ZP_06623987.1| DNA-binding protein [Enterococcus faecium PC4.1]
 gi|227178619|gb|EEI59591.1| transcriptional regulator [Enterococcus faecium TX1330]
 gi|257831734|gb|EEV58155.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          Com12]
 gi|292643580|gb|EFF61702.1| DNA-binding protein [Enterococcus faecium PC4.1]
          Length = 222

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNCNLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|225572879|ref|ZP_03781634.1| hypothetical protein RUMHYD_01070 [Blautia hydrogenotrophica DSM
          10507]
 gi|317500124|ref|ZP_07958358.1| hypothetical protein HMPREF1026_00300 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|331087647|ref|ZP_08336575.1| hypothetical protein HMPREF1025_00158 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|225039744|gb|EEG49990.1| hypothetical protein RUMHYD_01070 [Blautia hydrogenotrophica DSM
          10507]
 gi|316898479|gb|EFV20516.1| hypothetical protein HMPREF1026_00300 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|330399826|gb|EGG79486.1| hypothetical protein HMPREF1025_00158 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 211

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 30/52 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I +VL
Sbjct: 11 LGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNFPTFDTLEKIMDVL 62


>gi|182676986|ref|YP_001831133.1| XRE family transcriptional regulator [Beijerinckia indica subsp.
          indica ATCC 9039]
 gi|182636616|gb|ACB97389.1| transcriptional regulator, XRE family [Beijerinckia indica subsp.
          indica ATCC 9039]
          Length = 151

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 15/81 (18%)

Query: 10 PVDIN------------VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
          PV+IN            +GK+I+  R+  G+SQ+ L    G++ Q +   E G       
Sbjct: 5  PVNINNLDDETLKSLAIIGKKIKDMRVAKGLSQKALSGKSGVSHQYILLIEIGTQNATIG 64

Query: 58 RLQHISEVLESPISFFFDVSP 78
           L+ IS+ LE P   F+ + P
Sbjct: 65 ILKRISDALEVP---FYSILP 82


>gi|28379037|ref|NP_785929.1| prophage Lp3 protein 2 [Lactobacillus plantarum WCFS1]
 gi|28271875|emb|CAD64780.1| prophage Lp3 protein 2 [Lactobacillus plantarum WCFS1]
          Length = 188

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 20/57 (35%), Positives = 33/57 (57%), Gaps = 4/57 (7%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKG--VNRVGASRLQHISEVLESPISF 72
          +I+  R  +G+SQ +L E L +T Q +  YEKG  V R+    L+++  +   PIS+
Sbjct: 3  KIKELRQYMGLSQAELAEKLNVTRQSISLYEKGQRVPRINV--LKNMEAIFGVPISY 57


>gi|116628615|ref|YP_821234.1| XRE family transcriptional regulator [Streptococcus thermophilus
          LMD-9]
 gi|116101892|gb|ABJ67038.1| Transcriptional regulator, xre family [Streptococcus thermophilus
          LMD-9]
          Length = 170

 Score = 34.7 bits (78), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEYLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|330503829|ref|YP_004380698.1| XRE family transcriptional regulator [Pseudomonas mendocina
          NK-01]
 gi|328918115|gb|AEB58946.1| XRE family transcriptional regulator [Pseudomonas mendocina
          NK-01]
          Length = 83

 Score = 34.7 bits (78), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 36/70 (51%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + + +G+++R RR+  G++Q  L    GIT Q+V   E+G   VG      +   L++ +
Sbjct: 6  ITLRLGEQLRQRRLNRGLTQAALASLAGITRQKVIAIERGDLSVGMIAYARVLAALDAEL 65

Query: 71 SFFFDVSPTV 80
          +      PT+
Sbjct: 66 NVVPAAMPTL 75


>gi|291548443|emb|CBL21551.1| Predicted transcriptional regulators [Ruminococcus sp. SR1/5]
          Length = 345

 Score = 34.7 bits (78), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 26/96 (27%), Positives = 49/96 (51%), Gaps = 12/96 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR------VGASRLQHISEVL 66
           +N+G  I+  R   G +QE++   LG+T   V K+E G +          +RL HIS  L
Sbjct: 1   MNIGNVIKKYRKESGFTQEEMANRLGVTTPAVNKWETGNSNPDIELLAPIARLLHIS--L 58

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
           ++ +SF  +++    +++  E    MD + + +G +
Sbjct: 59  DTLLSFHENLTDVEITELIQE----MDKMFSAEGYE 90


>gi|225573231|ref|ZP_03781986.1| hypothetical protein RUMHYD_01422 [Blautia hydrogenotrophica DSM
           10507]
 gi|225039363|gb|EEG49609.1| hypothetical protein RUMHYD_01422 [Blautia hydrogenotrophica DSM
           10507]
          Length = 217

 Score = 34.7 bits (78), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 34/140 (24%), Positives = 66/140 (47%), Gaps = 16/140 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI--------SEVL 66
           +G+ I++ R    M Q++L + +GI  Q + K E+GVN      L+ I        +E+L
Sbjct: 6   LGENIQIIRKHRKMKQQELADAIGINLQSLSKIERGVNYPTFETLEKIINVLGVTPNELL 65

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK--VRQKIIELVR 124
                    V   +   +  EE    DF  + D L  + YF   ++ +  ++ K+ E ++
Sbjct: 66  TGEWEQTSHVEQFIMEVVKREE----DFNVSLDSLPDHEYFQSQEEWQFYMKAKLSEYIQ 121

Query: 125 SIVSSEKKYRTIEEECMVEQ 144
           + +S  K   ++EE C +++
Sbjct: 122 NYMSDTKT--SVEELCEIKK 139


>gi|91975357|ref|YP_568016.1| anaerobic benzoate catabolism transcriptional regulator
           [Rhodopseudomonas palustris BisB5]
 gi|91681813|gb|ABE38115.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Rhodopseudomonas palustris BisB5]
          Length = 317

 Score = 34.7 bits (78), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 25/88 (28%), Positives = 47/88 (53%), Gaps = 7/88 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+R+R  R + GMS++ L +  GI+ + + + E G   V    L+ +S+ L +P+  
Sbjct: 25  LELGQRVRTLRGLRGMSRKVLAKVSGISERYIAQLESGKGNVSIILLRRVSDALATPLE- 83

Query: 73  FFDVSPTVCSDISSEENNVMDFI--STP 98
             D+ P   SD S +   + D +  +TP
Sbjct: 84  --DLLPN--SDPSIDWPVIRDLVRRATP 107


>gi|291458792|ref|ZP_06598182.1| toxin-antitoxin system, antitoxin component, Xre family
          [Oribacterium sp. oral taxon 078 str. F0262]
 gi|291418709|gb|EFE92428.1| toxin-antitoxin system, antitoxin component, Xre family
          [Oribacterium sp. oral taxon 078 str. F0262]
          Length = 163

 Score = 34.7 bits (78), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 35/59 (59%), Gaps = 4/59 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLE 67
          + +G+RIR  RM  G++Q++LG  LG   +    ++ +YE G  +     ++ I+EVL+
Sbjct: 11 MTIGERIRRVRMQRGLTQKELGIALGFPERSADVRIAQYESGTRKPKDDLIRQIAEVLQ 69


>gi|242239429|ref|YP_002987610.1| XRE family transcriptional regulator [Dickeya dadantii Ech703]
 gi|242131486|gb|ACS85788.1| transcriptional regulator, XRE family [Dickeya dadantii Ech703]
          Length = 131

 Score = 34.7 bits (78), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 32/65 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI   R   G++Q +L + L ++ Q VQ +E G  R+  S L  ++  L   +    
Sbjct: 16 LGKRITALRKDAGLTQVQLAQALNVSQQAVQSWESGRRRIQISALPAVARQLSVSLDALL 75

Query: 75 DVSPT 79
            S T
Sbjct: 76 GDSHT 80


>gi|261345017|ref|ZP_05972661.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282566698|gb|EFB72233.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 97

 Score = 34.7 bits (78), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          V   +G  ++ RR   G++  +L   L I+ QQ+ +YE+GVN +    L  I   LE
Sbjct: 12 VSTYIGTFLKRRRKGAGLTGAELASRLSISQQQISRYERGVNAITIQSLLGILHALE 68


>gi|154482431|ref|ZP_02024879.1| hypothetical protein EUBVEN_00098 [Eubacterium ventriosum ATCC
          27560]
 gi|149736708|gb|EDM52594.1| hypothetical protein EUBVEN_00098 [Eubacterium ventriosum ATCC
          27560]
          Length = 293

 Score = 34.7 bits (78), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 15/51 (29%), Positives = 30/51 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          ++I+  R   G+SQEK+ E +G++ Q + K+E G      + L  I+++ +
Sbjct: 5  EQIKHYRKQAGLSQEKMAEKIGVSRQAITKWENGTGTPDIANLMAIADLFQ 55


>gi|126700569|ref|YP_001089466.1| putative phage repressor [Clostridium difficile 630]
 gi|209901281|ref|YP_002290920.1| putative phage repressor [Clostridium phage phiCD27]
 gi|115252006|emb|CAJ69842.1| Transcriptional regulator, HTH-type [Clostridium difficile]
 gi|199612162|gb|ACH91335.1| putative phage repressor [Clostridium phage phiCD27]
          Length = 151

 Score = 34.7 bits (78), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 21/102 (20%), Positives = 50/102 (49%), Gaps = 2/102 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
           + +  RI+ +R+ L MS + L    G++   +Q+YE G +  +   +L+ ++  L+   +
Sbjct: 10  LEITNRIKNKRLELNMSYQDLANKTGLSKSTLQRYETGAIKNIPLDKLEILAHALDESPA 69

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           F    +   C  I  +EN ++   +  + +  N    ++D++
Sbjct: 70  FIMGWNED-CKQIKIKENKLLSSFNALNDIGQNEAIKRVDEL 110


>gi|325262607|ref|ZP_08129344.1| DNA-binding protein [Clostridium sp. D5]
 gi|324032439|gb|EGB93717.1| DNA-binding protein [Clostridium sp. D5]
          Length = 365

 Score = 34.7 bits (78), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 27/40 (67%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN 52
          + + + IR +R  +G++QE+L   LG++   V K+EKG++
Sbjct: 1  MKIHEMIRCKRKEMGLTQEELARYLGVSAPAVNKWEKGLS 40


>gi|302869253|ref|YP_003837890.1| helix-turn-helix domain-containing protein [Micromonospora
          aurantiaca ATCC 27029]
 gi|315504272|ref|YP_004083159.1| transcriptional regulator, xre family [Micromonospora sp. L5]
 gi|302572112|gb|ADL48314.1| helix-turn-helix domain protein [Micromonospora aurantiaca ATCC
          27029]
 gi|315410891|gb|ADU09008.1| transcriptional regulator, XRE family [Micromonospora sp. L5]
          Length = 81

 Score = 34.7 bits (78), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 30/65 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           V  RI + R   G+S+ +L + LG+ +Q V   E+G  R        I+   E P+   
Sbjct: 4  TVHNRIAVLRAERGISRRQLADALGVHYQTVGYLERGEFRPSLHLALRIAAYFEVPVEVV 63

Query: 74 FDVSP 78
          F + P
Sbjct: 64 FSIEP 68


>gi|332299188|ref|YP_004441110.1| helix-turn-helix domain protein [Treponema brennaborense DSM
          12168]
 gi|332182291|gb|AEE17979.1| helix-turn-helix domain protein [Treponema brennaborense DSM
          12168]
          Length = 165

 Score = 34.7 bits (78), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 18/54 (33%), Positives = 32/54 (59%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I++GK+I   R   G++Q++L E L ++ Q V K+E  V+    + L  ++ VL
Sbjct: 4  ISIGKKIAELRKAKGLTQDELSEQLNVSPQAVSKWENDVSYPDITLLPKLAAVL 57


>gi|312136891|ref|YP_004004228.1| transcriptional regulator, xre family [Methanothermus fervidus DSM
           2088]
 gi|311224610|gb|ADP77466.1| transcriptional regulator, XRE family [Methanothermus fervidus DSM
           2088]
          Length = 307

 Score = 34.7 bits (78), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 21/79 (26%), Positives = 41/79 (51%), Gaps = 1/79 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+++R  R  LG+S + L + + ++ + + KYE+G+ R+       + + L   I+F  D
Sbjct: 128 GRKLRRVREKLGLSLKDLADHINVSRESIYKYERGLGRMSLDVALALEKYLGCKITFSID 187

Query: 76  VSPTVCSDISSEENNVMDF 94
           V   V  ++  E  N + F
Sbjct: 188 VF-QVPENLKYENKNKIKF 205


>gi|312905525|ref|ZP_07764639.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|310631254|gb|EFQ14537.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
          Length = 418

 Score = 34.7 bits (78), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 32/57 (56%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++G+ IR+ R   G +Q  L E +GI+   + K EKG  R+ A +L  + + L+  I
Sbjct: 8  DLGEAIRVSREERGWTQRYLAEKVGISRSLLSKVEKGTRRLSAEKLNLVLDSLQEEI 64


>gi|304439932|ref|ZP_07399826.1| XRE family transcriptional regulator [Peptoniphilus duerdenii
          ATCC BAA-1640]
 gi|304371671|gb|EFM25283.1| XRE family transcriptional regulator [Peptoniphilus duerdenii
          ATCC BAA-1640]
          Length = 138

 Score = 34.7 bits (78), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 16/36 (44%), Positives = 25/36 (69%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE 48
          +N+  RIR  R I G+SQ++L E LG++ Q + K+E
Sbjct: 1  MNLSDRIRELRKIKGISQDELAEKLGVSRQAISKWE 36


>gi|303234360|ref|ZP_07320999.1| helix-turn-helix protein [Finegoldia magna BVS033A4]
 gi|302494476|gb|EFL54243.1| helix-turn-helix protein [Finegoldia magna BVS033A4]
          Length = 143

 Score = 34.7 bits (78), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 36/69 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++++  R++  ++Q++L    G+T   ++ YE G       +LQ ISE L+  IS   +
Sbjct: 4  GEKLKKLRLMRNLTQKELAIKSGLTDAAIRNYELGNRSPSKEQLQKISEALDCDISALIN 63

Query: 76 VSPTVCSDI 84
            P    +I
Sbjct: 64 HEPNSIFEI 72


>gi|322384024|ref|ZP_08057751.1| hypothetical protein PL1_2336 [Paenibacillus larvae subsp. larvae
          B-3650]
 gi|321151371|gb|EFX44561.1| hypothetical protein PL1_2336 [Paenibacillus larvae subsp. larvae
          B-3650]
          Length = 87

 Score = 34.7 bits (78), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 18/66 (27%), Positives = 36/66 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R+  G +Q++  E LGI+ + +  +EK    +  ++++ I EV  +P  + F  S 
Sbjct: 12 LRSLRIKYGYNQKEAAELLGISERTLGIWEKNSESISYNKIKKIEEVYSTPQDYIFFGSE 71

Query: 79 TVCSDI 84
          +  S+I
Sbjct: 72 SAFSEI 77


>gi|307292241|ref|ZP_07572105.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|306496747|gb|EFM66300.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
          Length = 418

 Score = 34.7 bits (78), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 32/57 (56%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++G+ IR+ R   G +Q  L E +GI+   + K EKG  R+ A +L  + + L+  I
Sbjct: 8  DLGEAIRVSREERGWTQRYLAEKVGISRSLLSKVEKGTRRLSAEKLNLVLDSLQEEI 64


>gi|264680621|ref|YP_003280531.1| hypothetical protein CtCNB1_4489 [Comamonas testosteroni CNB-2]
 gi|262211137|gb|ACY35235.1| hypothetical protein CtCNB1_4489 [Comamonas testosteroni CNB-2]
          Length = 104

 Score = 34.7 bits (78), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 24/41 (58%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV 54
          ++G+RIR RR  LG+SQ +L +   +T   + + E G  R 
Sbjct: 3  HLGERIRARRQALGLSQGRLAQMADVTASAISQIESGAIRT 43


>gi|240143885|ref|ZP_04742486.1| DNA-binding protein [Roseburia intestinalis L1-82]
 gi|257204077|gb|EEV02362.1| DNA-binding protein [Roseburia intestinalis L1-82]
          Length = 298

 Score = 34.7 bits (78), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 34/62 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  I  +R  LGM+Q++L E LG + + V K+E+G+     S    + E+L   ++ 
Sbjct: 4  VKIGSYIAEKRKKLGMTQKQLAEKLGKSDKSVSKWERGICLPDVSVYLELCEILGISLNE 63

Query: 73 FF 74
          F 
Sbjct: 64 FL 65


>gi|315649281|ref|ZP_07902370.1| transcriptional regulator, XRE family protein [Paenibacillus vortex
           V453]
 gi|315275269|gb|EFU38638.1| transcriptional regulator, XRE family protein [Paenibacillus vortex
           V453]
          Length = 122

 Score = 34.7 bits (78), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 24/103 (23%), Positives = 46/103 (44%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N G RI   R   G +QE+L   +GIT   +  YEK   +     L  ++++ +  I +
Sbjct: 1   MNYGVRISELREQRGWTQEELATSVGITRAALSHYEKNRRKPDFETLTRLADLFDVSIDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
               +    + +  E  + +D +   D   L R+ + +D  K+
Sbjct: 61  LIGRTAQEKAVLDPEVRSFVDGLELSDQDLLERFNLTVDGRKL 103


>gi|295704387|ref|YP_003597462.1| transcriptional regulator [Bacillus megaterium DSM 319]
 gi|294802046|gb|ADF39112.1| transcriptional regulator [Bacillus megaterium DSM 319]
          Length = 297

 Score = 34.7 bits (78), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 25/87 (28%), Positives = 47/87 (54%), Gaps = 4/87 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG+ I+  R I  M+  +L E  GI T +++ ++E+G     +  L H+S+ L  P+++F
Sbjct: 7  VGQLIQDLRKIAEMTTVELSE--GICTEEELHRFEQGEIHASSEVLYHLSKRLGVPMNYF 64

Query: 74 FDVSPTVCSDISSE-ENNVMDFISTPD 99
          F+      +D S E ++ +  +I   D
Sbjct: 65 FEAGELTPNDYSKEIKSTIRHYIRKRD 91


>gi|262066507|ref|ZP_06026119.1| toxin-antitoxin system, antitoxin component, Xre family
          [Fusobacterium periodonticum ATCC 33693]
 gi|291379782|gb|EFE87300.1| toxin-antitoxin system, antitoxin component, Xre family
          [Fusobacterium periodonticum ATCC 33693]
          Length = 94

 Score = 34.7 bits (78), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 14/45 (31%), Positives = 27/45 (60%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE 48
          N K P  + + + K IR RR  L ++QE+  +  G++F  ++++E
Sbjct: 7  NMKTPKEIQLEIAKNIRKRRKELKLTQEEFSKKSGVSFGSIKRFE 51


>gi|255505928|ref|ZP_05348929.3| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
 gi|255265073|gb|EET58278.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
          Length = 112

 Score = 34.7 bits (78), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 3/70 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE---SPIS 71
          +G RI+  R     +QE++ + +G++ Q+  + E G N +    L  I+EVL+     I+
Sbjct: 7  LGGRIKALRNAKNFTQEQIADRIGVSRQKYARIENGANSITLDILSAIAEVLDVTVGDIT 66

Query: 72 FFFDVSPTVC 81
             D  P V 
Sbjct: 67 KVLDEKPAVA 76


>gi|320160790|ref|YP_004174014.1| Xre family DNA-binding protein [Anaerolinea thermophila UNI-1]
 gi|319994643|dbj|BAJ63414.1| Xre family DNA-binding protein [Anaerolinea thermophila UNI-1]
          Length = 224

 Score = 34.7 bits (78), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 29/61 (47%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +   +RL R   G+S  +L +  GI    +  YE G   +    L+  +E LE P+S F 
Sbjct: 100 IAASLRLFRQKKGISTGELAQKTGIEEDVLLAYENGTREIPLPELETFAEALEVPLSQFL 159

Query: 75  D 75
           D
Sbjct: 160 D 160


>gi|224542424|ref|ZP_03682963.1| hypothetical protein CATMIT_01606 [Catenibacterium mitsuokai DSM
          15897]
 gi|224524655|gb|EEF93760.1| hypothetical protein CATMIT_01606 [Catenibacterium mitsuokai DSM
          15897]
          Length = 117

 Score = 34.7 bits (78), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 16/63 (25%), Positives = 37/63 (58%), Gaps = 4/63 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +R++  R   G++Q++LG  +G+  +    ++ +YEKGV+    +  + I++ L  P++
Sbjct: 13 AQRLKAAREDAGLTQKELGMSVGLPQEAAAVRINRYEKGVHDADLATARRIAQSLGVPLA 72

Query: 72 FFF 74
          F +
Sbjct: 73 FLY 75


>gi|224476213|ref|YP_002633819.1| putative DNA binding protein [Staphylococcus carnosus subsp.
          carnosus TM300]
 gi|222420820|emb|CAL27634.1| putative DNA binding protein [Staphylococcus carnosus subsp.
          carnosus TM300]
          Length = 179

 Score = 34.7 bits (78), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 33/66 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G+++R  R I  ++QE+L E   ++   + + E G +        HI EVL +    
Sbjct: 1  MNIGQKLRNLRKIKDLTQEELAERTDLSKGYISQIESGQSSPSMESFLHILEVLGTSPEL 60

Query: 73 FFDVSP 78
          FF   P
Sbjct: 61 FFKEKP 66


>gi|37523824|ref|NP_927201.1| hypothetical protein glr4255 [Gloeobacter violaceus PCC 7421]
 gi|35214829|dbj|BAC92196.1| glr4255 [Gloeobacter violaceus PCC 7421]
          Length = 425

 Score = 34.7 bits (78), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 26/48 (54%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+SQ+ +G+ LG+    V   E G   V    L  ++++ + P++FF 
Sbjct: 27 GLSQQTIGDALGLKRTAVTNMESGKRAVSTLELTRLAQMYDQPVTFFL 74


>gi|301299974|ref|ZP_07206200.1| helix-turn-helix protein [Lactobacillus salivarius
          ACS-116-V-Col5a]
 gi|300852429|gb|EFK80087.1| helix-turn-helix protein [Lactobacillus salivarius
          ACS-116-V-Col5a]
          Length = 119

 Score = 34.7 bits (78), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 34/63 (53%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++  R+  G++++ L +  GI+ Q +  YE G    G+  L  I +VL+ P ++F   S
Sbjct: 9  KLKEARISRGLTKKALADRTGISRQMISNYELGKTNPGSKNLLSIIKVLDFPFTYFTAES 68

Query: 78 PTV 80
           T 
Sbjct: 69 KTF 71


>gi|242240628|ref|YP_002988809.1| XRE family transcriptional regulator [Dickeya dadantii Ech703]
 gi|242132685|gb|ACS86987.1| transcriptional regulator, XRE family [Dickeya dadantii Ech703]
          Length = 88

 Score = 34.7 bits (78), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 4/74 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + KR++  R+   ++QEKLG   GI     + ++  YE G ++         + VL  P 
Sbjct: 2  IPKRLKAARLRANLTQEKLGVLAGIEEATAYSRLSHYENGTHKPTFELACEFARVLNVPE 61

Query: 71 SFFFDVSPTVCSDI 84
           +F+ V      D+
Sbjct: 62 CYFYIVDDEFAEDV 75


>gi|303244719|ref|ZP_07331050.1| transcriptional regulator, XRE family [Methanothermococcus
           okinawensis IH1]
 gi|302484933|gb|EFL47866.1| transcriptional regulator, XRE family [Methanothermococcus
           okinawensis IH1]
          Length = 811

 Score = 34.7 bits (78), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 34/56 (60%), Gaps = 1/56 (1%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N+GK I+  R+   ++QE+L + LG+ T   ++ YE GVN    + L  I+E+L +
Sbjct: 558 NIGKLIKYYRLKNKLTQEELLDELGLKTKSLIRDYELGVNNPPRTILNKIAEILNA 613


>gi|160878258|ref|YP_001557226.1| XRE family transcriptional regulator [Clostridium phytofermentans
          ISDg]
 gi|160426924|gb|ABX40487.1| transcriptional regulator, XRE family [Clostridium
          phytofermentans ISDg]
          Length = 163

 Score = 34.7 bits (78), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 32/52 (61%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +GK I  RR + G++Q++L + LG+T + + K+E G      + L  ++E+L
Sbjct: 6  IGKFIADRRKVRGLTQQQLADDLGLTNKAISKWETGQGMPDITTLPILAEML 57


>gi|319936228|ref|ZP_08010648.1| HTH domain-containing protein [Coprobacillus sp. 29_1]
 gi|319808802|gb|EFW05335.1| HTH domain-containing protein [Coprobacillus sp. 29_1]
          Length = 151

 Score = 34.7 bits (78), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 18/41 (43%), Positives = 25/41 (60%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN 52
          DI  GK+IR  R   GM+QE+L   L +T Q +  +E+ VN
Sbjct: 7  DITTGKQIRHLRTQAGMTQEELARELNVTRQALSNWERDVN 47


>gi|242237765|ref|YP_002985946.1| XRE family transcriptional regulator [Dickeya dadantii Ech703]
 gi|242129822|gb|ACS84124.1| transcriptional regulator, XRE family [Dickeya dadantii Ech703]
          Length = 144

 Score = 34.7 bits (78), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 32/65 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI   R   G++Q +L + L ++ Q VQ +E G  R+  S L  ++  L   +    
Sbjct: 29 LGKRITALRKDAGLTQVQLAQALNVSQQAVQSWESGRRRIQISALPAVARQLSVSLDALL 88

Query: 75 DVSPT 79
            S T
Sbjct: 89 GDSHT 93


>gi|268592700|ref|ZP_06126921.1| DNA-binding protein [Providencia rettgeri DSM 1131]
 gi|291311842|gb|EFE52295.1| DNA-binding protein [Providencia rettgeri DSM 1131]
          Length = 112

 Score = 34.7 bits (78), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 34/61 (55%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N   I  G  IR  R   G+S  +L + + ++ QQ+ +YE+G+N++    L ++S  L+ 
Sbjct: 16 NLFSIYCGLVIRKIRKENGISACELAKQVNVSQQQMSRYERGINKISIDMLFNLSVALDC 75

Query: 69 P 69
          P
Sbjct: 76 P 76


>gi|312794292|ref|YP_004027215.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
           kristjanssonii 177R1B]
 gi|312181432|gb|ADQ41602.1| helix-turn-helix domain protein [Caldicellulosiruptor
           kristjanssonii 177R1B]
          Length = 144

 Score = 34.7 bits (78), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 23/98 (23%), Positives = 49/98 (50%), Gaps = 3/98 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS- 71
           +++GKRI   R   G ++ KL E  G++   + + E+G+ +   + +++I       ++ 
Sbjct: 1   MDIGKRIVELREKYGFTRYKLSELSGVSQSALSEIERGIKQPTITTIENICRAFNLTLAD 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           FF +  P +  ++ S  N   +   +P  +QL   F+Q
Sbjct: 61  FFAEKEPEIPPEVRSLINTAANL--SPTQIQLLDSFLQ 96


>gi|146339002|ref|YP_001204050.1| XRE family transcriptional regulator [Bradyrhizobium sp. ORS278]
 gi|146191808|emb|CAL75813.1| putative transcriptional regulator, XRE family [Bradyrhizobium
          sp. ORS278]
          Length = 481

 Score = 34.7 bits (78), Expect = 4.8,   Method: Composition-based stats.
 Identities = 21/53 (39%), Positives = 28/53 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          VG R R  R  LG+SQ +L E LGI+   V   E+    V A  L  ++EV +
Sbjct: 11 VGPRFRRIRQQLGLSQTQLAEGLGISPSYVNLIERNQRPVSAQILLRLAEVYD 63


>gi|86751755|ref|YP_488251.1| anaerobic benzoate catabolism transcriptional regulator
          [Rhodopseudomonas palustris HaA2]
 gi|86574783|gb|ABD09340.1| transcriptional regulator, XRE family with shikimate kinase
          activity [Rhodopseudomonas palustris HaA2]
          Length = 305

 Score = 34.7 bits (78), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 34/58 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +G+R+R  R + GMS++ L +  GI+ + + + E G   V    L+ +S+ L +P+
Sbjct: 13 LELGQRVRTLRGLRGMSRKVLAKVSGISERYIAQLESGKGNVSIMLLRRVSDALATPL 70


>gi|257064611|ref|YP_003144283.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
 gi|256792264|gb|ACV22934.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
          Length = 141

 Score = 34.7 bits (78), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 25/39 (64%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV 51
          + VG+RIR  R   G++Q++L   +G+T   V+ YE G+
Sbjct: 1  MGVGERIRALRRSAGLTQKELAASIGLTESAVRNYELGL 39


>gi|170699135|ref|ZP_02890189.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          IOP40-10]
 gi|170135930|gb|EDT04204.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          IOP40-10]
          Length = 108

 Score = 34.7 bits (78), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 8/79 (10%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGA 56
          M G+  IP+       +R++  R+  G++QE+LG   GI       +V +YEKG +    
Sbjct: 1  MPGDTTIPSVFS----QRLKQARLRSGLTQEQLGIQAGIDEFSASARVNQYEKGKHTPTV 56

Query: 57 SRLQHISEVLESPISFFFD 75
             Q ++  L  P SF ++
Sbjct: 57 QTSQRLARALLVPTSFLYE 75


>gi|169351011|ref|ZP_02867949.1| hypothetical protein CLOSPI_01788 [Clostridium spiroforme DSM 1552]
 gi|169292073|gb|EDS74206.1| hypothetical protein CLOSPI_01788 [Clostridium spiroforme DSM 1552]
          Length = 117

 Score = 34.7 bits (78), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 23/89 (25%), Positives = 38/89 (42%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRIR  R+   +SQ+ L E   I+   +   E+G  ++    L  I+  L     F  
Sbjct: 8   IGKRIREERISQNLSQQTLAEISNISPTNISHIERGATKLSLPTLVSIANALAVSADFLL 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL 103
             S      I  +E N +     P+ L++
Sbjct: 68  CDSLVEADKIYIDEINELLLDCNPNELKI 96


>gi|85707180|ref|ZP_01038267.1| transcriptional regulator, putative [Roseovarius sp. 217]
 gi|85668339|gb|EAQ23213.1| transcriptional regulator, putative [Roseovarius sp. 217]
          Length = 436

 Score = 34.7 bits (78), Expect = 4.8,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 30/58 (51%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P  + +G RIR RR++ G+ Q  L +  GI+   +   E    R+G   L  ++E L+
Sbjct: 2  PDRLMIGTRIRERRVLNGIRQSDLAQQAGISPSYLNLIEHNHRRIGGKTLLKLAEALK 59


>gi|251778290|ref|ZP_04821210.1| transcriptional regulator, Cro/CI family [Clostridium botulinum
          E1 str. 'BoNT E Beluga']
 gi|243082605|gb|EES48495.1| transcriptional regulator, Cro/CI family [Clostridium botulinum
          E1 str. 'BoNT E Beluga']
          Length = 183

 Score = 34.7 bits (78), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 13/39 (33%), Positives = 27/39 (69%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV 51
          + +G RI+ RR  L ++ +++G+ +G+    +Q+YEKG+
Sbjct: 13 LEIGNRIQERRKELKLTLQEVGDIVGVASSTIQRYEKGL 51


>gi|238855118|ref|ZP_04645444.1| transcriptional regulator, XRE family [Lactobacillus jensenii
          269-3]
 gi|260664951|ref|ZP_05865802.1| predicted protein [Lactobacillus jensenii SJ-7A-US]
 gi|282934260|ref|ZP_06339535.1| transcriptional repressor [Lactobacillus jensenii 208-1]
 gi|313472501|ref|ZP_07812991.1| DNA-binding protein [Lactobacillus jensenii 1153]
 gi|238832258|gb|EEQ24569.1| transcriptional regulator, XRE family [Lactobacillus jensenii
          269-3]
 gi|239529934|gb|EEQ68935.1| DNA-binding protein [Lactobacillus jensenii 1153]
 gi|260561434|gb|EEX27407.1| predicted protein [Lactobacillus jensenii SJ-7A-US]
 gi|281301669|gb|EFA93938.1| transcriptional repressor [Lactobacillus jensenii 208-1]
          Length = 138

 Score = 34.7 bits (78), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 34/58 (58%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +R++  R+  GMSQE+L   L ++ Q V K+E G +     +L+ +S++ +  I +
Sbjct: 4  INERLKEMRLNAGMSQEELASKLNVSRQSVSKWETGDSLPDILKLKQLSKLYDVSIDY 61


>gi|323693263|ref|ZP_08107481.1| HTH domain-containing protein [Clostridium symbiosum WAL-14673]
 gi|323502746|gb|EGB18590.1| HTH domain-containing protein [Clostridium symbiosum WAL-14673]
          Length = 151

 Score = 34.7 bits (78), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 30/100 (30%), Positives = 44/100 (44%), Gaps = 11/100 (11%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            DI  GK+IR  R   GM+QE+L   L +T Q +  +E+ VN    + L+         I
Sbjct: 6   TDITTGKQIRHLRTQSGMTQEELAGELNVTRQALSNWERDVNEPDLNTLK--------KI 57

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
            F F V      D + E    M+     +  Q N+Y + I
Sbjct: 58  CFLFGVHM---DDFAKEIITKMETCEKKEKRQFNKYDMAI 94


>gi|317502031|ref|ZP_07960214.1| XRE family Transcriptional regulator [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|316896573|gb|EFV18661.1| XRE family Transcriptional regulator [Lachnospiraceae bacterium
          8_1_57FAA]
          Length = 293

 Score = 34.7 bits (78), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 15/51 (29%), Positives = 29/51 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          ++I+  R   G+SQEK+ E +G++ Q + K+E G      + L  I+ + +
Sbjct: 5  EQIKYYRKQAGLSQEKMAEKIGVSRQAITKWENGTGTPDIANLMAIANLFQ 55


>gi|295696288|ref|YP_003589526.1| transcriptional regulator of molybdate metabolism, XRE family
          [Bacillus tusciae DSM 2912]
 gi|295411890|gb|ADG06382.1| transcriptional regulator of molybdate metabolism, XRE family
          [Bacillus tusciae DSM 2912]
          Length = 392

 Score = 34.7 bits (78), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 30/61 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           G+RI  RR  LG SQE L + LG++ Q +   E G +         ++ VL + +   F
Sbjct: 12 AGRRISERRKALGWSQELLADRLGVSRQFIGALEAGRSWPSVPVALELARVLGTSVEALF 71

Query: 75 D 75
          D
Sbjct: 72 D 72


>gi|218283651|ref|ZP_03489613.1| hypothetical protein EUBIFOR_02207 [Eubacterium biforme DSM 3989]
 gi|218215711|gb|EEC89249.1| hypothetical protein EUBIFOR_02207 [Eubacterium biforme DSM 3989]
          Length = 145

 Score = 34.7 bits (78), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 26/48 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          +G R++  R+  G+SQE+ GE +GI    V K E G N +    L  I
Sbjct: 23 IGTRVKKVRLRKGISQEQFGEIIGIKKAAVSKIENGENSLSKGNLLAI 70


>gi|27382331|ref|NP_773860.1| hypothetical protein bll7220 [Bradyrhizobium japonicum USDA 110]
 gi|27355502|dbj|BAC52485.1| bll7220 [Bradyrhizobium japonicum USDA 110]
          Length = 363

 Score = 34.7 bits (78), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 17/71 (23%), Positives = 29/71 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           G  +RL R + G  Q +  ECL +   ++ + E G+       L   +E+   P  FF 
Sbjct: 4  TGTMLRLARQLRGFPQNEAAECLRVPNAELSRIENGLKEPSEKLLAAAAEIFSVPQEFFA 63

Query: 75 DVSPTVCSDIS 85
                 + +S
Sbjct: 64 QTDAVYGAPVS 74


>gi|152965329|ref|YP_001361113.1| EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)
          [Kineococcus radiotolerans SRS30216]
 gi|151359846|gb|ABS02849.1| EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)
          [Kineococcus radiotolerans SRS30216]
          Length = 516

 Score = 34.7 bits (78), Expect = 5.0,   Method: Composition-based stats.
 Identities = 21/65 (32%), Positives = 30/65 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R   G++Q +L E LG +   V + E+G   V    LQ +   L+  I    
Sbjct: 18 IGALIRDARKHRGLTQVQLAERLGTSQSAVHRMEQGQQNVSIDMLQRVGHALQDDIVSIG 77

Query: 75 DVSPT 79
            SPT
Sbjct: 78 RPSPT 82


>gi|291326763|ref|ZP_06125781.2| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291313014|gb|EFE53467.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 87

 Score = 34.7 bits (78), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 28/45 (62%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          +G  +R  R+  G+S  +LG  + ++ QQV +YE G+N++   +L
Sbjct: 15 LGNHLRKARVSKGLSGNELGSIIHLSQQQVSRYELGINKLSLDKL 59


>gi|325267595|ref|ZP_08134247.1| DNA-binding protein [Kingella denitrificans ATCC 33394]
 gi|324980945|gb|EGC16605.1| DNA-binding protein [Kingella denitrificans ATCC 33394]
          Length = 124

 Score = 34.3 bits (77), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 27/117 (23%), Positives = 54/117 (46%), Gaps = 6/117 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
           V  +IR+ R I   SQE++ E L ++     K E+G   +   +L+ I+++     +   
Sbjct: 3   VHDKIRVMREINQWSQEEMAEKLAMSANGYAKIERGQTNINIEKLKQIAQIFNIDMVDLI 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVRSIVS 128
            +   T    I     N  +++++ D  QL    +   D  +K + K IE ++ I++
Sbjct: 63  ANQDKTFFFSIGDNNVNSHNYLNSMDKFQL---LLDAKDELLKQKDKEIEALKEIIA 116


>gi|221070070|ref|ZP_03546175.1| transcriptional regulator, XRE family [Comamonas testosteroni
          KF-1]
 gi|220715093|gb|EED70461.1| transcriptional regulator, XRE family [Comamonas testosteroni
          KF-1]
          Length = 104

 Score = 34.3 bits (77), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 24/41 (58%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV 54
          ++G+RIR RR  LG+SQ +L +   +T   + + E G  R 
Sbjct: 3  HLGERIRARRQALGLSQGRLAQMADVTASAISQIESGAIRT 43


>gi|168178698|ref|ZP_02613362.1| transcriptional regulator [Clostridium botulinum NCTC 2916]
 gi|182671003|gb|EDT82977.1| transcriptional regulator [Clostridium botulinum NCTC 2916]
          Length = 170

 Score = 34.3 bits (77), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 16/62 (25%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++++  R    +S   L E  GI    + K E G  ++    LQ I++ ++ PI  
Sbjct: 1  MEISEKLKDLRTFKNLSTYDLAEKTGIPQSTISKLENGNRKIDTDILQKIADAMDVPIDI 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|268529866|ref|XP_002630059.1| C. briggsae CBR-FUT-5 protein [Caenorhabditis briggsae]
          Length = 411

 Score = 34.3 bits (77), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 16/50 (32%), Positives = 31/50 (62%), Gaps = 7/50 (14%)

Query: 84  ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           I+ E +N  D+I  PD +     +I +DD K  ++ +E ++++ S+EK+Y
Sbjct: 308 IAFENSNCKDYI--PDNM-----YIAVDDFKTLKEFVEFIKNLTSNEKEY 350


>gi|307710044|ref|ZP_07646489.1| helix-turn-helix family protein [Streptococcus mitis SK564]
 gi|307619229|gb|EFN98360.1| helix-turn-helix family protein [Streptococcus mitis SK564]
          Length = 260

 Score = 34.3 bits (77), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 5/76 (6%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I +G++I+  R+  G +Q++LG  +GI+   +  YEKG      + +  ++      I
Sbjct: 6  IAIVIGEKIKQYRLANGWTQQELGAKIGISKNAIGNYEKGFRSPKKNTMFDLANAFNVSI 65

Query: 71 SFFF-----DVSPTVC 81
             F     D  PT  
Sbjct: 66 DDLFPPIQKDTPPTTS 81


>gi|293568750|ref|ZP_06680064.1| transcriptional regulator, putative [Enterococcus faecium E1071]
 gi|291588467|gb|EFF20301.1| transcriptional regulator, putative [Enterococcus faecium E1071]
          Length = 270

 Score = 34.3 bits (77), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEV 65
          VG RIR  R  L +S EK G+ +G +    V  +E+G+N      L  I+EV
Sbjct: 8  VGNRIRQIRQELKLSMEKFGKLIGDLPRSTVNNWERGINLPKTETLHQIAEV 59


>gi|323526715|ref|YP_004228868.1| XRE family transcriptional regulator with shikimate kinase activity
           [Burkholderia sp. CCGE1001]
 gi|323383717|gb|ADX55808.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia sp. CCGE1001]
          Length = 330

 Score = 34.3 bits (77), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 18/70 (25%), Positives = 35/70 (50%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            G ++  +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ 
Sbjct: 31  TGEREERDPFLTAMGERVRLLRARRGMTRKTLAAETGLSERHLANLESGVGNASVLVLRQ 90

Query: 62  ISEVLESPIS 71
           I+  L  P++
Sbjct: 91  IAATLNCPLA 100


>gi|257883805|ref|ZP_05663458.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,501]
 gi|257819643|gb|EEV46791.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,501]
          Length = 221

 Score = 34.3 bits (77), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNCKLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|163784885|ref|ZP_02179654.1| hypothetical protein HG1285_00035 [Hydrogenivirga sp. 128-5-R1-1]
 gi|159879846|gb|EDP73581.1| hypothetical protein HG1285_00035 [Hydrogenivirga sp. 128-5-R1-1]
          Length = 128

 Score = 34.3 bits (77), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 15/36 (41%), Positives = 22/36 (61%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
           GK IR  R  LG++QE+  + LG+ F  V ++E G
Sbjct: 2  TGKEIRELRKKLGLTQEEFAQLLGVGFTTVNRWENG 37


>gi|220928893|ref|YP_002505802.1| XRE family transcriptional regulator [Clostridium cellulolyticum
           H10]
 gi|219999221|gb|ACL75822.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
           H10]
          Length = 182

 Score = 34.3 bits (77), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 21/93 (22%), Positives = 44/93 (47%), Gaps = 8/93 (8%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++  RI+  R++ G ++E++ + LGI   Q + YE   + +  S L  ++E+ +  I+  
Sbjct: 7   DIAVRIKGLRLLAGYTEEEVADQLGIKLDQYKLYENAEDDIPVSLLYELAEIYKVNITEI 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
              +     DI          +   +GL++ RY
Sbjct: 67  LTGTSPKLHDICH--------VKKGEGLKVERY 91


>gi|157369784|ref|YP_001477773.1| XRE family transcriptional regulator [Serratia proteamaculans
          568]
 gi|157321548|gb|ABV40645.1| transcriptional regulator, XRE family [Serratia proteamaculans
          568]
          Length = 103

 Score = 34.3 bits (77), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+  G+SQEKLG   GI       ++ +YEKG +         +++VL  P S+
Sbjct: 4  KRLKEARLKAGLSQEKLGILAGIDEASASARMNQYEKGKHTPDFEMACSLAKVLGIPESY 63

Query: 73 FF 74
          F+
Sbjct: 64 FY 65


>gi|89055187|ref|YP_510638.1| XRE family transcriptional regulator [Jannaschia sp. CCS1]
 gi|88864736|gb|ABD55613.1| transcriptional regulator, XRE family [Jannaschia sp. CCS1]
          Length = 440

 Score = 34.3 bits (77), Expect = 5.1,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 42/98 (42%), Gaps = 11/98 (11%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS-----------R 58
           P D   G RIR RR+ +G+ Q  L E +G++   +   E    ++G              
Sbjct: 8   PDDHLTGSRIRERRLAMGLKQGVLAEIVGVSPSYLNLIEHNHRKIGGKLLLALARALEVE 67

Query: 59  LQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFIS 96
              ++E +++ IS   D +     D+ +E   V + ++
Sbjct: 68  ASALTEGVDAGISELLDAAARALGDVPAETARVDELVA 105


>gi|325912400|ref|ZP_08174795.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          143-D]
 gi|325475742|gb|EGC78913.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          143-D]
          Length = 109

 Score = 34.3 bits (77), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 18/64 (28%), Positives = 33/64 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK+++  R++  ++Q++L    G+T   ++ YE G       +LQ ISE  +  IS   +
Sbjct: 4  GKKLKKLRLMRNLTQKELAIKSGLTDAAIRNYELGNRSPSKEQLQKISETFDCDISALIN 63

Query: 76 VSPT 79
            P 
Sbjct: 64 HEPN 67


>gi|149175620|ref|ZP_01854240.1| hypothetical protein PM8797T_16353 [Planctomyces maris DSM 8797]
 gi|148845605|gb|EDL59948.1| hypothetical protein PM8797T_16353 [Planctomyces maris DSM 8797]
          Length = 566

 Score = 34.3 bits (77), Expect = 5.2,   Method: Composition-based stats.
 Identities = 28/111 (25%), Positives = 49/111 (44%), Gaps = 13/111 (11%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ + +++M L +     GE  G   Q ++ Y     R  A     I E++  P++ F  
Sbjct: 366 GQYVNVKQMGLALEALIRGEYPGDYLQFIEMYTFAKPRTAA----EIVELMPKPVTIF-- 419

Query: 76  VSPTVCSDISSEENNVMDFISTPD------GLQLNRYFIQIDDVKVRQKII 120
             P V   +   + N+ + I  P        LQL+R+F+ + D   RQ I+
Sbjct: 420 -DPVVRLKVDMSDENISEQIVPPHFTNIQHALQLSRHFLALQDTPNRQIIL 469


>gi|325264849|ref|ZP_08131577.1| putative helix-turn-helix protein [Clostridium sp. D5]
 gi|324029838|gb|EGB91125.1| putative helix-turn-helix protein [Clostridium sp. D5]
          Length = 538

 Score = 34.3 bits (77), Expect = 5.2,   Method: Composition-based stats.
 Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 12/63 (19%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK  +LR++    SQEK+ E   ++ Q VQK+E G +      L  I+E        +F
Sbjct: 6  IGKLRKLRKI----SQEKMAEMFSVSRQAVQKWENGTSVPDLDNLVRIAE--------YF 53

Query: 75 DVS 77
          DVS
Sbjct: 54 DVS 56


>gi|227113779|ref|ZP_03827435.1| hypothetical protein PcarbP_12478 [Pectobacterium carotovorum
          subsp. brasiliensis PBR1692]
          Length = 87

 Score = 34.3 bits (77), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 4/63 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+   ++QEKLG   GI       +V +YE G++R     +   ++VL  P S+F
Sbjct: 5  RLKSARLNAHLTQEKLGILAGIEEETARSRVSQYENGIHRPTFEMMCAFAKVLNVPESYF 64

Query: 74 FDV 76
          + V
Sbjct: 65 YTV 67


>gi|262370712|ref|ZP_06064037.1| conserved hypothetical protein [Acinetobacter johnsonii SH046]
 gi|262314512|gb|EEY95554.1| conserved hypothetical protein [Acinetobacter johnsonii SH046]
          Length = 182

 Score = 34.3 bits (77), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 16/54 (29%), Positives = 33/54 (61%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +V + +R  R + G+SQ++L +  G++ + V   E G + +  ++L  I++VLE
Sbjct: 9  HVSQNVRHYRSLKGLSQQQLADLAGLSRRMVAGVESGQDNISLAKLSLIADVLE 62


>gi|228930120|ref|ZP_04093130.1| TnsA endonuclease [Bacillus thuringiensis serovar pondicheriensis
           BGSC 4BA1]
 gi|228829619|gb|EEM75246.1| TnsA endonuclease [Bacillus thuringiensis serovar pondicheriensis
           BGSC 4BA1]
          Length = 887

 Score = 34.3 bits (77), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 5/77 (6%)

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL-----VRSIV 127
           ++D   T+  D + E    + F  TPD L L R  +QI++ K  +++I+L     VR   
Sbjct: 80  YYDQPITLKLDYTRENGRRISFFYTPDFLVLRRDGVQIEEWKTEEQLIKLSQKDPVRYFK 139

Query: 128 SSEKKYRTIEEECMVEQ 144
             E ++R    E    Q
Sbjct: 140 DEEGRWRCPPAEAAASQ 156


>gi|229084370|ref|ZP_04216650.1| HTH-type transcriptional regulator sinR [Bacillus cereus Rock3-44]
 gi|228698910|gb|EEL51615.1| HTH-type transcriptional regulator sinR [Bacillus cereus Rock3-44]
          Length = 107

 Score = 34.3 bits (77), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 26/106 (24%), Positives = 52/106 (49%), Gaps = 2/106 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR-LQHISEVLESPISFF 73
           +G+RI+  R+  G+S  +L E  G+    +   E+ + +  + + L+ I+ VL++P+   
Sbjct: 2   IGERIKRLRLQRGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIANVLQTPVDTL 61

Query: 74  FDVSPTVCSDISSEENN-VMDFISTPDGLQLNRYFIQIDDVKVRQK 118
               P   S + SE  + V + +S+    +  R F++    K  QK
Sbjct: 62  LHDEPAAESQLDSEWTHLVKEAMSSGVSKEQFREFLEFTKWKQNQK 107


>gi|297588232|ref|ZP_06946875.1| cro/CI family transcriptional regulator [Finegoldia magna ATCC
          53516]
 gi|297573605|gb|EFH92326.1| cro/CI family transcriptional regulator [Finegoldia magna ATCC
          53516]
          Length = 179

 Score = 34.3 bits (77), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 18/68 (26%), Positives = 36/68 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R+ LG++QE+L E   +T   + + E+ +       L  +   L + ++ 
Sbjct: 1  MEIGEKIRSLRLKLGLTQEELAERSDLTKGFISQLERDLTSPSVDSLNDLLNALGTDMAT 60

Query: 73 FFDVSPTV 80
          FF   P+V
Sbjct: 61 FFMDKPSV 68


>gi|217965105|ref|YP_002350783.1| DNA-binding protein [Listeria monocytogenes HCC23]
 gi|290893768|ref|ZP_06556748.1| DNA-binding protein [Listeria monocytogenes FSL J2-071]
 gi|217334375|gb|ACK40169.1| DNA-binding protein [Listeria monocytogenes HCC23]
 gi|290556717|gb|EFD90251.1| DNA-binding protein [Listeria monocytogenes FSL J2-071]
 gi|307570335|emb|CAR83514.1| transcriptional regulator, Cro/CI family [Listeria monocytogenes
          L99]
 gi|313609965|gb|EFR85345.1| DNA-binding protein [Listeria monocytogenes FSL F2-208]
          Length = 180

 Score = 34.3 bits (77), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 35/63 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MDIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFD 75
          FFD
Sbjct: 61 FFD 63


>gi|182625365|ref|ZP_02953138.1| putative helix-turn-helix domain protein [Clostridium perfringens D
           str. JGS1721]
 gi|177909362|gb|EDT71814.1| putative helix-turn-helix domain protein [Clostridium perfringens D
           str. JGS1721]
          Length = 224

 Score = 34.3 bits (77), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 27/100 (27%), Positives = 50/100 (50%), Gaps = 9/100 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ-HISEVLESPIS 71
           +N+ ++I   R   G+S+ +L   +G++   + K E G     +  L+  I+  LE P++
Sbjct: 1   MNLNEKITFYREKKGISKSQLAREIGVSPAYITKLENGEKTNPSLELKVKIANALEQPLT 60

Query: 72  FFFDVSPT--VCSDISSE------ENNVMDFISTPDGLQL 103
            F + +PT  + S I S       ++N +  I+  D LQL
Sbjct: 61  VFLENNPTNNIGSKIKSAKILNNLDDNQLSEITGIDKLQL 100


>gi|312864376|ref|ZP_07724609.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
 gi|311100097|gb|EFQ58308.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
          Length = 135

 Score = 34.3 bits (77), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 16/55 (29%), Positives = 34/55 (61%), Gaps = 6/55 (10%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG------VNRVGASRLQHIS 63
          VG++++  R++  ++QE++ + LG++ Q V  +E+G      V+ +  S L H+S
Sbjct: 4  VGQQLQSARLLSDLTQEEVADSLGVSRQTVSNWERGKTYPDIVSLIALSNLYHLS 58


>gi|307729113|ref|YP_003906337.1| XRE family transcriptional regulator [Burkholderia sp. CCGE1003]
 gi|307583648|gb|ADN57046.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia sp. CCGE1003]
          Length = 330

 Score = 34.3 bits (77), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 18/69 (26%), Positives = 35/69 (50%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G ++  +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ I
Sbjct: 32  GEREERDPFLTAMGERVRLLRARRGMTRKTLAAETGLSERHLANLESGVGNASVLVLRQI 91

Query: 63  SEVLESPIS 71
           +  L  P++
Sbjct: 92  AATLNCPLA 100


>gi|251794968|ref|YP_003009699.1| XRE family transcriptional regulator [Paenibacillus sp. JDR-2]
 gi|247542594|gb|ACS99612.1| transcriptional regulator, XRE family [Paenibacillus sp. JDR-2]
          Length = 272

 Score = 34.3 bits (77), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 19/56 (33%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + + I + R   G +QE+L   LGI+FQ V K+E  +     S L  +   LE  I
Sbjct: 5  LARSIAIYRKERGFTQEELATKLGISFQAVSKWENALTMPDLSLLPELCRTLEVSI 60


>gi|222084519|ref|YP_002543048.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221721967|gb|ACM25123.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 189

 Score = 34.3 bits (77), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 5/78 (6%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I +G RI+  R+  GM+ ++L     ++   + + E+      AS L  +   L   +
Sbjct: 5  LEIAIGARIKQLRIARGMTLDELANASAVSRAMISRIERAEASPTASLLARLCAALGLSL 64

Query: 71 SFFF-----DVSPTVCSD 83
          S FF     DVSP   SD
Sbjct: 65 SSFFAEEEEDVSPLARSD 82


>gi|325833019|ref|ZP_08165646.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|325485736|gb|EGC88201.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 242

 Score = 34.3 bits (77), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 19/80 (23%), Positives = 40/80 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ + +R+   R   G SQE+L E LG++ Q V K+E+  +      L  ++++    +
Sbjct: 11 MNVEIAQRLAAMRREQGYSQEELAERLGLSRQAVSKWERAESSPDTGNLIALAKLYGVSL 70

Query: 71 SFFFDVSPTVCSDISSEENN 90
               +   V  D++ EE +
Sbjct: 71 DDLLRIDEDVVDDVAFEEKD 90


>gi|293571244|ref|ZP_06682278.1| transcriptional regulator, xre family [Enterococcus faecium E980]
 gi|291608651|gb|EFF37939.1| transcriptional regulator, xre family [Enterococcus faecium E980]
          Length = 221

 Score = 34.3 bits (77), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNCKLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|15485441|emb|CAC67535.1| hypothetical transcriptional regulator [Streptococcus
          thermophilus]
          Length = 232

 Score = 34.3 bits (77), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 12/60 (20%), Positives = 35/60 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L ++Q+ + + LGI++Q    +E+G+      ++  + ++L+    +F ++
Sbjct: 5  EKLKARRKELKLTQKDIADQLGISYQAYSAWERGIKEPSKEKVNRLEQLLKVSKGYFTEI 64


>gi|260432990|ref|ZP_05786961.1| transcriptional regulator, XRE family [Silicibacter
          lacuscaerulensis ITI-1157]
 gi|260416818|gb|EEX10077.1| transcriptional regulator, XRE family [Silicibacter
          lacuscaerulensis ITI-1157]
          Length = 431

 Score = 34.3 bits (77), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 27/55 (49%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D   G RIR RR+I G+ Q +L   +GI+   +   E    R+G   L  I+  L
Sbjct: 3  DTLTGSRIRERRLISGLKQAQLARQVGISASYLNLIEHNRRRIGGKLLVDIASAL 57


>gi|251782746|ref|YP_002997049.1| hypothetical protein SDEG_1340 [Streptococcus dysgalactiae subsp.
          equisimilis GGS_124]
 gi|242391376|dbj|BAH81835.1| hypothetical protein SDEG_1340 [Streptococcus dysgalactiae subsp.
          equisimilis GGS_124]
          Length = 257

 Score = 34.3 bits (77), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 35/72 (48%), Gaps = 1/72 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G+++   R   G+SQE L E +G T Q + K+E         +L  +S V E  + +
Sbjct: 1  MNFGEKLFKLRKEKGISQENLAEQIGTTRQAISKWENNQGFPEVEKLLQLSNVFEVSVDY 60

Query: 73 FFDVSPTV-CSD 83
                TV CS+
Sbjct: 61 LLKDDKTVNCSN 72


>gi|148266629|ref|YP_001245572.1| XRE family transcriptional regulator [Staphylococcus aureus
          subsp. aureus JH9]
 gi|150392669|ref|YP_001315344.1| hypothetical protein SaurJH1_0195 [Staphylococcus aureus subsp.
          aureus JH1]
 gi|257793983|ref|ZP_05642962.1| transcriptional regulator [Staphylococcus aureus A9781]
 gi|258408610|ref|ZP_05680895.1| transcriptional regulator [Staphylococcus aureus A9763]
 gi|258421201|ref|ZP_05684128.1| transcriptional regulator [Staphylococcus aureus A9719]
 gi|258438949|ref|ZP_05690040.1| transcriptional regulator [Staphylococcus aureus A9299]
 gi|258444184|ref|ZP_05692518.1| transcriptional regulator [Staphylococcus aureus A8115]
 gi|258447065|ref|ZP_05695215.1| transcriptional regulator [Staphylococcus aureus A6300]
 gi|258448523|ref|ZP_05696636.1| transcriptional regulator [Staphylococcus aureus A6224]
 gi|258455756|ref|ZP_05703711.1| transcriptional regulator [Staphylococcus aureus A5937]
 gi|282893361|ref|ZP_06301594.1| transcriptional regulator [Staphylococcus aureus A8117]
 gi|282926312|ref|ZP_06333944.1| transcriptional regulator [Staphylococcus aureus A10102]
 gi|295405474|ref|ZP_06815284.1| transcriptional regulator [Staphylococcus aureus A8819]
 gi|296274946|ref|ZP_06857453.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus MR1]
 gi|297209290|ref|ZP_06925689.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          ATCC 51811]
 gi|297244811|ref|ZP_06928691.1| transcriptional regulator [Staphylococcus aureus A8796]
 gi|300911288|ref|ZP_07128737.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          TCH70]
 gi|147739698|gb|ABQ47996.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          JH9]
 gi|149945121|gb|ABR51057.1| helix-turn-helix domain protein [Staphylococcus aureus subsp.
          aureus JH1]
 gi|257787955|gb|EEV26295.1| transcriptional regulator [Staphylococcus aureus A9781]
 gi|257840619|gb|EEV65078.1| transcriptional regulator [Staphylococcus aureus A9763]
 gi|257842625|gb|EEV67047.1| transcriptional regulator [Staphylococcus aureus A9719]
 gi|257847825|gb|EEV71821.1| transcriptional regulator [Staphylococcus aureus A9299]
 gi|257850443|gb|EEV74391.1| transcriptional regulator [Staphylococcus aureus A8115]
 gi|257854078|gb|EEV77031.1| transcriptional regulator [Staphylococcus aureus A6300]
 gi|257858154|gb|EEV81042.1| transcriptional regulator [Staphylococcus aureus A6224]
 gi|257861968|gb|EEV84741.1| transcriptional regulator [Staphylococcus aureus A5937]
 gi|282591641|gb|EFB96712.1| transcriptional regulator [Staphylococcus aureus A10102]
 gi|282764047|gb|EFC04174.1| transcriptional regulator [Staphylococcus aureus A8117]
 gi|294969549|gb|EFG45568.1| transcriptional regulator [Staphylococcus aureus A8819]
 gi|296886223|gb|EFH25157.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          ATCC 51811]
 gi|297178328|gb|EFH37575.1| transcriptional regulator [Staphylococcus aureus A8796]
 gi|300887467|gb|EFK82663.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          TCH70]
          Length = 65

 Score = 34.3 bits (77), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 32/60 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +++ R+ L M+Q++L   +G+T Q +   EKGV+    S  ++I  VL   +   F   P
Sbjct: 5  LKIARVSLSMTQKELANKVGVTRQTISLIEKGVHNPSLSLCKNICSVLNKNLDEIFGEKP 64


>gi|293553401|ref|ZP_06674032.1| transcriptional regulator, xre family [Enterococcus faecium
          E1039]
 gi|291602414|gb|EFF32635.1| transcriptional regulator, xre family [Enterococcus faecium
          E1039]
          Length = 221

 Score = 34.3 bits (77), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 16/60 (26%), Positives = 32/60 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNCNLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60


>gi|228961895|ref|ZP_04123447.1| hypothetical protein bthur0005_53050 [Bacillus thuringiensis
          serovar pakistani str. T13001]
 gi|228797786|gb|EEM44847.1| hypothetical protein bthur0005_53050 [Bacillus thuringiensis
          serovar pakistani str. T13001]
          Length = 70

 Score = 34.3 bits (77), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 28/52 (53%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R+   +S EKL + + I  Q +   EKG + V A R + IS +   P+ +FF
Sbjct: 6  RVSKSISLEKLSQKIHIKPQVLHAIEKGKSGVNAERAEKISAIFNKPVEYFF 57


>gi|315180160|gb|ADT87074.1| hypothetical protein vfu_A01915 [Vibrio furnissii NCTC 11218]
 gi|315181548|gb|ADT88461.1| hypothetical protein vfu_B00214 [Vibrio furnissii NCTC 11218]
 gi|315181554|gb|ADT88467.1| hypothetical protein vfu_B00220 [Vibrio furnissii NCTC 11218]
          Length = 173

 Score = 34.3 bits (77), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 36/132 (27%), Positives = 62/132 (46%), Gaps = 19/132 (14%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL---ESPI 70
           +V KR R  +   G+ Q ++ E +G+T Q   K+E G N+  A  ++ ++E+L   ES I
Sbjct: 7   DVLKRTREAK---GLKQAQVAEYVGVTAQTYMKWENGKNQPKADDIKKLAEILGVSESEI 63

Query: 71  ----SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRS 125
               +F  +  P      ++   N +D ++    L     F  I D   ++K IE L + 
Sbjct: 64  CRGETFADNADPLTFMKKTAVMKNALDEVTFTSVL-----FEFIQD---KKKFIERLEQE 115

Query: 126 IVSSEKKYRTIE 137
             ++E  YR  E
Sbjct: 116 AFATEDAYRRYE 127


>gi|300825209|ref|ZP_07105298.1| helix-turn-helix protein [Escherichia coli MS 119-7]
 gi|300522328|gb|EFK43397.1| helix-turn-helix protein [Escherichia coli MS 119-7]
 gi|323968639|gb|EGB64044.1| helix-turn-helix protein [Escherichia coli M863]
          Length = 216

 Score = 34.3 bits (77), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 20/84 (23%), Positives = 45/84 (53%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF- 72
          ++G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+ 
Sbjct: 5  SLGIRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYL 64

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
           + VS T  + + +     + ++S
Sbjct: 65 LYGVSSTEPTLVQNNSGTQIPYLS 88


>gi|307276551|ref|ZP_07557669.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|306506661|gb|EFM75813.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
          Length = 270

 Score = 34.3 bits (77), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEV 65
          VG RIR  R  L +S EK G+ +G +    V  +E+G+N      L  I+EV
Sbjct: 8  VGNRIRQIRQELKLSMEKFGKLIGDLPRSTVNNWERGINLPKTETLHQIAEV 59


>gi|257125192|ref|YP_003163306.1| XRE family transcriptional regulator [Leptotrichia buccalis
          C-1013-b]
 gi|257049131|gb|ACV38315.1| transcriptional regulator, XRE family [Leptotrichia buccalis
          C-1013-b]
          Length = 255

 Score = 34.3 bits (77), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 43/81 (53%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPIS 71
          + + ++++  R+   M+Q +L E LGI+   +QKYE G  ++    +  + ++ + SP  
Sbjct: 1  MKINEKLKDLRLKNNMTQRELAEKLGISIPTLQKYEYGTLKIKNEVILSLCDIFDISPDD 60

Query: 72 FFFDVSPTVCSDISSEENNVM 92
          FF        +DI  E +N++
Sbjct: 61 FF----NEKRNDIFKETDNLL 77


>gi|212711743|ref|ZP_03319871.1| hypothetical protein PROVALCAL_02818 [Providencia alcalifaciens
          DSM 30120]
 gi|212685845|gb|EEB45373.1| hypothetical protein PROVALCAL_02818 [Providencia alcalifaciens
          DSM 30120]
          Length = 106

 Score = 34.3 bits (77), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 22/81 (27%), Positives = 40/81 (49%), Gaps = 3/81 (3%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           N +   VG  +R  R    M+ ++L + +GI+ QQ+ +YE G+  +   +L H   VL+
Sbjct: 3  SNIISGQVGAFLRKSRKEKNMTGKQLAKLIGISQQQISRYEMGITSITLEQLDHFLIVLD 62

Query: 68 SPISFFFDVSPTVCSDISSEE 88
               + DV   +  +  SE+
Sbjct: 63 KR---WIDVINYIEKNTESEK 80


>gi|16799870|ref|NP_470138.1| hypothetical protein lin0796 [Listeria innocua Clip11262]
 gi|16413247|emb|CAC96028.1| lin0796 [Listeria innocua Clip11262]
 gi|313619917|gb|EFR91474.1| DNA-binding protein [Listeria innocua FSL S4-378]
          Length = 180

 Score = 34.3 bits (77), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 35/63 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MDIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFD 75
          FFD
Sbjct: 61 FFD 63


>gi|314939175|ref|ZP_07846431.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|314941485|ref|ZP_07848373.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|314950591|ref|ZP_07853672.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|314992445|ref|ZP_07857868.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|314996689|ref|ZP_07861713.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313589173|gb|EFR68018.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313593020|gb|EFR71865.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|313597216|gb|EFR76061.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|313599702|gb|EFR78545.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|313641522|gb|EFS06102.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
          Length = 221

 Score = 34.3 bits (77), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNCKLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|293376903|ref|ZP_06623120.1| DNA-binding protein [Turicibacter sanguinis PC909]
 gi|292644449|gb|EFF62542.1| DNA-binding protein [Turicibacter sanguinis PC909]
          Length = 192

 Score = 34.3 bits (77), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 23/87 (26%), Positives = 45/87 (51%), Gaps = 4/87 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE--KGVNRVGASRLQHISEVLESPI 70
          + +G++I+  R   G+SQE+L E L ++ Q V K+E  KG+  +    LQ I+++    +
Sbjct: 3  MTLGEKIKKYRQAGGLSQEQLSEKLSVSRQAVTKWESDKGIPDI--HNLQAIAKLFNVSL 60

Query: 71 SFFFDVSPTVCSDISSEENNVMDFIST 97
               +   + S +  EE ++  +  T
Sbjct: 61 DSLLAMDEKIGSIVLKEEIDIEKYKKT 87


>gi|149909139|ref|ZP_01897797.1| hypothetical protein PE36_17760 [Moritella sp. PE36]
 gi|149807890|gb|EDM67835.1| hypothetical protein PE36_17760 [Moritella sp. PE36]
          Length = 68

 Score = 34.3 bits (77), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 32/55 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          INVG +I++RR  + +SQ+KL     I    V + E+G   +   +L  I+EVLE
Sbjct: 6  INVGLKIKVRRKEMRVSQDKLALLADIDRSYVGRIERGEVNITLEKLYQIAEVLE 60


>gi|316936268|ref|YP_004111250.1| XRE family transcriptional regulator with shikimate kinase
          activity [Rhodopseudomonas palustris DX-1]
 gi|315603982|gb|ADU46517.1| transcriptional regulator, XRE family with shikimate kinase
          activity [Rhodopseudomonas palustris DX-1]
          Length = 305

 Score = 34.3 bits (77), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 24/88 (27%), Positives = 48/88 (54%), Gaps = 7/88 (7%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ +R  R   GMS++ L +  GI+ + + + E G   V    L+ ISE L +P+  
Sbjct: 13 LDLGRHVRTMRGRRGMSRKVLAKVSGISERYIAQLESGKGNVSIMLLRRISEALATPLE- 71

Query: 73 FFDVSPTVCSDISSEENNVMDFI--STP 98
            D+ P+  ++ S++   + D +  +TP
Sbjct: 72 --DLLPS--NETSADWPVIRDLVRRATP 95


>gi|212224524|ref|YP_002307760.1| Hypothetical transcription regulator [Thermococcus onnurineus
          NA1]
 gi|212009481|gb|ACJ16863.1| Hypothetical transcription regulator [Thermococcus onnurineus
          NA1]
          Length = 243

 Score = 34.3 bits (77), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 1/52 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVL 66
          GK +R  R I G+SQ +L E LG++   +  YE G  +  GAS ++   E L
Sbjct: 24 GKTMRKWREIFGISQTELAEYLGVSSSVISDYEGGRRKSPGASTIRKFVEAL 75


>gi|37528130|ref|NP_931475.1| hypothetical protein plu4299 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36787567|emb|CAE16671.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 78

 Score = 34.3 bits (77), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 21/70 (30%), Positives = 32/70 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN +    G+R+R  RM  GMSQE   +  G+    +   E+GV       +  I+  
Sbjct: 2  KKPNTIKSIFGQRVRYIRMASGMSQEAFADKCGLDRTYISGIERGVRNPTLEVINVIASG 61

Query: 66 LESPISFFFD 75
          L+  +   FD
Sbjct: 62 LQIELKDLFD 71


>gi|237739262|ref|ZP_04569743.1| transcriptional regulator [Fusobacterium sp. 2_1_31]
 gi|229422870|gb|EEO37917.1| transcriptional regulator [Fusobacterium sp. 2_1_31]
          Length = 106

 Score = 34.3 bits (77), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 14/45 (31%), Positives = 27/45 (60%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE 48
          N K P  + + + K IR RR  L ++QE+  +  G++F  ++++E
Sbjct: 19 NMKTPKEIQLEIAKNIRKRRKELKLTQEEFSKKSGVSFGSIKRFE 63


>gi|330874849|gb|EGH08998.1| hypothetical protein PSYMP_08490 [Pseudomonas syringae pv.
          morsprunorum str. M302280PT]
          Length = 83

 Score = 34.3 bits (77), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 34/70 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +G++IR RR+  G++Q +L     +T Q+V   EKG   VG      +   L+  +
Sbjct: 6  ITTRLGEQIRQRRLNRGLTQARLAALAAVTRQKVIAIEKGDLSVGMMAYARVLGALDCEL 65

Query: 71 SFFFDVSPTV 80
          S      PT+
Sbjct: 66 SVIPAAMPTL 75


>gi|167957582|ref|ZP_02544656.1| UDP-N-acetylglucosamine transferase [candidate division TM7
          single-cell isolate TM7c]
          Length = 508

 Score = 34.3 bits (77), Expect = 5.7,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G  I+  R++ G +Q +L E L  +   + + EKG   +    +  I EVL  PI
Sbjct: 10 IGNLIQENRIMRGWTQAQLAEALDTSQSAINRIEKGGQNISLEMIARIGEVLARPI 65


>gi|313884124|ref|ZP_07817890.1| DNA-binding helix-turn-helix protein [Eremococcus coleocola
          ACS-139-V-Col8]
 gi|312620571|gb|EFR31994.1| DNA-binding helix-turn-helix protein [Eremococcus coleocola
          ACS-139-V-Col8]
          Length = 138

 Score = 34.3 bits (77), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 18/56 (32%), Positives = 34/56 (60%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          D ++G+ I  RR  LGM+Q  L   +G+T + V K+E+ ++    S + +++E L+
Sbjct: 3  DDSLGRLIANRRKELGMTQLDLARRMGVTDKAVSKWERDLSFPDLSSIPNLAETLD 58


>gi|299536255|ref|ZP_07049568.1| transcriptional regulator [Lysinibacillus fusiformis ZC1]
 gi|298728241|gb|EFI68803.1| transcriptional regulator [Lysinibacillus fusiformis ZC1]
          Length = 388

 Score = 34.3 bits (77), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 18/59 (30%), Positives = 32/59 (54%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+R++  R+   +S  +L E L +T Q V KYE G +     +   ++++L  P  FF+
Sbjct: 7  GQRLKEARLYNKLSITELAEKLNVTKQMVSKYESGKSDPSFEKSLLLTDILGYPREFFY 65


>gi|313624590|gb|EFR94572.1| DNA-binding protein [Listeria innocua FSL J1-023]
          Length = 180

 Score = 34.3 bits (77), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 35/63 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MDIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFD 75
          FFD
Sbjct: 61 FFD 63


>gi|224542005|ref|ZP_03682544.1| hypothetical protein CATMIT_01178 [Catenibacterium mitsuokai DSM
          15897]
 gi|224525062|gb|EEF94167.1| hypothetical protein CATMIT_01178 [Catenibacterium mitsuokai DSM
          15897]
          Length = 378

 Score = 34.3 bits (77), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 30/53 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +GK I   R   G++QE+LG  LG++ + + ++E G      S L  +SE L+
Sbjct: 6  IGKFISENRKRKGLTQEQLGNILGVSNKTISRWENGNYMPDLSLLIPLSETLD 58


>gi|207857403|ref|YP_002244054.1| phage encoded transcriptional regulator [Salmonella enterica
          subsp. enterica serovar Enteritidis str. P125109]
 gi|206709206|emb|CAR33539.1| phage encoded transcriptional regulator [Salmonella enterica
          subsp. enterica serovar Enteritidis str. P125109]
          Length = 231

 Score = 34.3 bits (77), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 24/88 (27%), Positives = 39/88 (44%), Gaps = 6/88 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M   +L E +G+    + + E G  +      L  +++ L   I+
Sbjct: 1  MNIGNRVRQLRRAKNMKIAELAEAIGVDAANISRLETGKQKQFTEQTLSRLADCLSVDIA 60

Query: 72 FFFDVSP---TVC--SDISSEENNVMDF 94
            F   P   TVC  SD+  +  NV D 
Sbjct: 61 ELFTSDPKGNTVCKHSDMRKDSANVKDL 88


>gi|22538252|ref|NP_689103.1| Cro/CI family transcriptional regulator [Streptococcus agalactiae
          2603V/R]
 gi|22535165|gb|AAN00976.1|AE014287_16 transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 2603V/R]
          Length = 306

 Score = 34.3 bits (77), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGKR+R  +  L +S    G  LG+    +  Y +G N      L+ +S++   P+ +F+
Sbjct: 12 VGKRLRQVKDELNLSFTDFGNRLGLKKSTINAYVRGDNLAPLEVLEKVSKIYGKPVGWFY 71


>gi|307149949|ref|YP_003885333.1| XRE family transcriptional regulator [Cyanothece sp. PCC 7822]
 gi|306980177|gb|ADN12058.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 7822]
          Length = 143

 Score = 34.3 bits (77), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 29/46 (63%), Gaps = 2/46 (4%)

Query: 23  RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           R++ G++QE+L E LG+  QQVQ+ E   N+   + L  I EV+ +
Sbjct: 88  RIVRGLTQEQLAESLGVKPQQVQRDE--ANKYSGASLAKILEVVRA 131


>gi|167580903|ref|ZP_02373777.1| transcriptional regulator, XRE family protein [Burkholderia
          thailandensis TXDOH]
          Length = 132

 Score = 34.3 bits (77), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 16/53 (30%), Positives = 29/53 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          VG  I  +R   G++Q KL E + +  + + ++E+G       RLQ +S+ L+
Sbjct: 21 VGTAIAEQRRARGLTQAKLAEMIDLEQEAISRWERGTRMPTLHRLQQLSDALD 73


>gi|154497828|ref|ZP_02036206.1| hypothetical protein BACCAP_01806 [Bacteroides capillosus ATCC
          29799]
 gi|150273326|gb|EDN00471.1| hypothetical protein BACCAP_01806 [Bacteroides capillosus ATCC
          29799]
          Length = 122

 Score = 34.3 bits (77), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 17/55 (30%), Positives = 30/55 (54%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          ++ +G R++  R   G++QE+L E + IT Q +   E+G   +    LQ +  VL
Sbjct: 8  NVQIGARVKEAREAAGLTQERLAELIDITAQYLSGVERGAVGLSVPVLQRLCSVL 62


>gi|133919924|emb|CAM12484.1| hypothetical protein [uncultured bacterium]
          Length = 136

 Score = 34.3 bits (77), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 16/73 (21%), Positives = 38/73 (52%), Gaps = 1/73 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +  G++++  R  LG++Q++L E +G+T + +  YE   +R  G  R + ++  L   ++
Sbjct: 1  MTFGEKVKAERTKLGLNQDELAEKIGVTRRVICSYENDKSRPRGTERYKKLAGALNVNVN 60

Query: 72 FFFDVSPTVCSDI 84
          +         +D+
Sbjct: 61 YLLSEDDAFIADV 73


>gi|325526296|gb|EGD03907.1| XRE family transcriptional regulator [Burkholderia sp. TJI49]
          Length = 132

 Score = 34.3 bits (77), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 16/60 (26%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  I  +R   G++Q KL E + +  + + ++E+G       RLQ +S+ L+  +    
Sbjct: 21 VGTAIAEQRRARGLTQAKLAEMIDLEQEAISRWERGTRMPTLHRLQQLSDALDCSVDQLL 80


>gi|325840878|ref|ZP_08167213.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
 gi|325490135|gb|EGC92473.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
          Length = 330

 Score = 34.3 bits (77), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 28/98 (28%), Positives = 47/98 (47%), Gaps = 8/98 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +I   R   GMSQE+L   LG+T Q +  +E+G+ +     L  ++ + E+ +    
Sbjct: 6   LGTQIATLRKRRGMSQEELANQLGVTRQAISNWERGMTQPDLEMLMKLAAIFETDL---- 61

Query: 75  DVSPTVCSDISSE--ENNV--MDFISTPDGLQLNRYFI 108
           D    + SDI  E  E N+  M ++       L  YF+
Sbjct: 62  DGLMGIKSDIKEEPVELNLKPMKWMYLTQLFSLIGYFV 99


>gi|313499032|gb|ADR60398.1| Prophage PSPPH03, Cro/CI family transcriptional regulator
          [Pseudomonas putida BIRD-1]
          Length = 293

 Score = 34.3 bits (77), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 3/65 (4%)

Query: 22 RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVC 81
          R+  L +SQ+K+ +  G+T   V  Y KG+N + A     ++ +LE P+  F   SP + 
Sbjct: 25 RKNELKLSQKKIADEAGMTPAAVNLYFKGLNPLNAKFAAVLARLLEVPVEQF---SPRLA 81

Query: 82 SDISS 86
           +I S
Sbjct: 82 DEIRS 86


>gi|196251156|ref|ZP_03149833.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
 gi|196209320|gb|EDY04102.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
          Length = 136

 Score = 34.3 bits (77), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 1/76 (1%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL-QHIS 63
          +K    V  N G  +R  R   G S ++L E  G++   + + EKG  R  +  +   I+
Sbjct: 2  RKSDRAVSNNFGSTLRYWREKRGYSLQQLYEKTGVSAGYLNRLEKGERRAPSIPIASKIA 61

Query: 64 EVLESPISFFFDVSPT 79
          E L  P+S   D+S T
Sbjct: 62 EALGIPLSLLLDISTT 77


>gi|253699444|ref|YP_003020633.1| XRE family transcriptional regulator [Geobacter sp. M21]
 gi|251774294|gb|ACT16875.1| transcriptional regulator, XRE family [Geobacter sp. M21]
          Length = 106

 Score = 34.3 bits (77), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 22/86 (25%), Positives = 44/86 (51%), Gaps = 1/86 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R    +SQE+L E +GI  + + + E G +     RL+ I+  L   +  FF
Sbjct: 8  LGARIKELRKGRKLSQEELAELIGIEPRHMSRIEVGKSYPSLDRLERIAMALNVDLRDFF 67

Query: 75 DVSPTVCSDISSEE-NNVMDFISTPD 99
          D +      ++ ++ N+++  ++  D
Sbjct: 68 DFAHLEARPVNVDQINDILKEMTDED 93


>gi|120435032|ref|YP_860718.1| HTH_3 family transcriptional regulator protein [Gramella forsetii
          KT0803]
 gi|117577182|emb|CAL65651.1| HTH_3 family transcriptional regulator protein [Gramella forsetii
          KT0803]
          Length = 136

 Score = 34.3 bits (77), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 32/53 (60%), Gaps = 1/53 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          ++G++I   R + GM QE L E LGI+ Q V K E+   +V   +L  I++VL
Sbjct: 9  HIGRKIGRIRELRGMKQETLAEELGISQQAVSKIEQS-EKVEDDKLNQIAKVL 60


>gi|307544496|ref|YP_003896975.1| XRE family transcriptional regulator [Halomonas elongata DSM
          2581]
 gi|307216520|emb|CBV41790.1| transcriptional regulator, XRE family [Halomonas elongata DSM
          2581]
          Length = 195

 Score = 34.3 bits (77), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 34/66 (51%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +P+  +VG R+R  R + G+SQ +L +  G+T   +   E+G      S L+ I + +  
Sbjct: 11 DPMADDVGARLRALRNLRGISQRELAKRCGVTHSSLSLIEQGKVSPSVSSLKKILDAIPM 70

Query: 69 PISFFF 74
           +  FF
Sbjct: 71 SVGDFF 76


>gi|325677790|ref|ZP_08157432.1| response regulator receiver domain protein [Ruminococcus albus 8]
 gi|324110344|gb|EGC04518.1| response regulator receiver domain protein [Ruminococcus albus 8]
          Length = 197

 Score = 34.3 bits (77), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 15/52 (28%), Positives = 29/52 (55%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +G++I+  R   G+++ +  E LG     +Q++E G      + L HI++VL
Sbjct: 137 IGRKIQKYREERGLTRNEFAEMLGCVMPTIQRWESGTRVPDVTMLMHIAKVL 188


>gi|54308994|ref|YP_130014.1| putative transcriptional regulator [Photobacterium profundum SS9]
 gi|46913424|emb|CAG20212.1| putative transcriptional regulator [Photobacterium profundum SS9]
          Length = 101

 Score = 34.3 bits (77), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 35/61 (57%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R   G+SQ++LG  LG+       ++  YEKG +    + L+ I++ L  P+S+F
Sbjct: 10 RLKEARKAAGISQKELGIRLGMDPSSASGRMNHYEKGRHMPDIATLRRIADELGVPLSYF 69

Query: 74 F 74
          F
Sbjct: 70 F 70


>gi|83648921|ref|YP_437356.1| Zn peptidase [Hahella chejuensis KCTC 2396]
 gi|83636964|gb|ABC32931.1| predicted Zn peptidase [Hahella chejuensis KCTC 2396]
          Length = 387

 Score = 34.3 bits (77), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 16/57 (28%), Positives = 29/57 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R  L R   G+++  L + +G+T + +  YE G     +  ++ I+  L  P+ FFF
Sbjct: 6  RFALARKRRGLTKRALAKEVGVTDRSITAYESGQTVPESQTVEKIASALRFPVEFFF 62


>gi|170696008|ref|ZP_02887146.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia graminis C4D1M]
 gi|170139088|gb|EDT07278.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia graminis C4D1M]
          Length = 330

 Score = 34.3 bits (77), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 18/69 (26%), Positives = 35/69 (50%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G ++  +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ I
Sbjct: 32  GEREERDPFLTAMGERVRLLRARRGMTRKTLAAETGLSERHLANLESGVGNASVLVLRQI 91

Query: 63  SEVLESPIS 71
           +  L  P++
Sbjct: 92  AATLNCPLA 100


>gi|317054120|ref|YP_004118145.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
 gi|316952115|gb|ADU71589.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
          Length = 199

 Score = 34.3 bits (77), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 35/71 (49%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N  D NVG R+R  R   GM  E++ E +G++   + + E+ V +   + L  + EV+  
Sbjct: 15 NTPDFNVGIRLRAVRKARGMRIEEVAEKVGVSKSFISRLERNVTQASIATLLKVCEVVGI 74

Query: 69 PISFFFDVSPT 79
            +  FD   T
Sbjct: 75 TPAKLFDPPST 85


>gi|58699195|ref|ZP_00374007.1| transcriptional regulator, putative [Wolbachia endosymbiont of
          Drosophila ananassae]
 gi|58534291|gb|EAL58478.1| transcriptional regulator, putative [Wolbachia endosymbiont of
          Drosophila ananassae]
          Length = 147

 Score = 34.3 bits (77), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 30/52 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +G++I   R++ G +Q +L   +G+T+Q+V  YE G   +    L  I+ VL
Sbjct: 29 IGQKIEDSRLMRGHTQVELASEIGLTYQEVNSYENGYIPIPIEVLYVIARVL 80


>gi|325838540|ref|ZP_08166562.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
 gi|325490835|gb|EGC93137.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
          Length = 110

 Score = 34.3 bits (77), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 23/87 (26%), Positives = 45/87 (51%), Gaps = 4/87 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE--KGVNRVGASRLQHISEVLESPI 70
          + +G++I+  R   G+SQE+L E L ++ Q V K+E  KG+  +    LQ I+++    +
Sbjct: 3  MTLGEKIKKYRQARGLSQEQLSEKLSVSRQAVTKWESDKGIPDI--HNLQAIAKLFNVSL 60

Query: 71 SFFFDVSPTVCSDISSEENNVMDFIST 97
               +   + S +  EE ++  +  T
Sbjct: 61 DSLLAMDEKIGSIVLKEEIDIEKYKKT 87


>gi|303246095|ref|ZP_07332376.1| transcriptional regulator, XRE family [Desulfovibrio
          fructosovorans JJ]
 gi|302492491|gb|EFL52362.1| transcriptional regulator, XRE family [Desulfovibrio
          fructosovorans JJ]
          Length = 107

 Score = 34.3 bits (77), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 16/61 (26%), Positives = 35/61 (57%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK+I+  R    ++QEKL +  G++ Q + + E+G      + ++ +S+ L+ P++  F 
Sbjct: 9  GKKIKSIRRARDITQEKLADLSGLSLQYIGEIERGRRNPSLTSIEQLSKALDIPMAELFS 68

Query: 76 V 76
          +
Sbjct: 69 L 69


>gi|296876453|ref|ZP_06900504.1| possible transcriptional regulator [Streptococcus parasanguinis
          ATCC 15912]
 gi|296432446|gb|EFH18242.1| possible transcriptional regulator [Streptococcus parasanguinis
          ATCC 15912]
          Length = 108

 Score = 34.3 bits (77), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 31/63 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KRIR+ R   GM+QE+L E   +      K E     +  S L+ I + L   +  FF
Sbjct: 8  ISKRIRILRTQSGMTQEQLEEKADLGTNYAYKLENLEPNIKISTLEKIIDALNVDLQTFF 67

Query: 75 DVS 77
          D++
Sbjct: 68 DLT 70


>gi|262283472|ref|ZP_06061238.1| transcriptional regulator [Streptococcus sp. 2_1_36FAA]
 gi|262260963|gb|EEY79663.1| transcriptional regulator [Streptococcus sp. 2_1_36FAA]
          Length = 170

 Score = 34.3 bits (77), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|126699363|ref|YP_001088260.1| putative transcriptional regulator [Clostridium difficile 630]
 gi|260683416|ref|YP_003214701.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260687012|ref|YP_003218145.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|296450990|ref|ZP_06892737.1| transcriptional regulator [Clostridium difficile NAP08]
 gi|296879044|ref|ZP_06903040.1| transcriptional regulator [Clostridium difficile NAP07]
 gi|115250800|emb|CAJ68624.1| Transcriptional regulator, HTH-type [Clostridium difficile]
 gi|260209579|emb|CBA63210.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260213028|emb|CBE04367.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|296260208|gb|EFH07056.1| transcriptional regulator [Clostridium difficile NAP08]
 gi|296429917|gb|EFH15768.1| transcriptional regulator [Clostridium difficile NAP07]
          Length = 87

 Score = 34.3 bits (77), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 2/62 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I++ R  LG++QE+LG  +G + Q +   E G N         IS +   PI   F F+
Sbjct: 4  KIKILREKLGLTQEQLGRLVGTSRQAINAIETGKNEPSIWLAYDISRIFNEPIESVFLFE 63

Query: 76 VS 77
           S
Sbjct: 64 ES 65


>gi|312279272|gb|ADQ63929.1| Transcriptional regulator, xre family [Streptococcus thermophilus
          ND03]
          Length = 170

 Score = 34.3 bits (77), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|312862452|ref|ZP_07722695.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
          F0396]
 gi|319945713|ref|ZP_08019964.1| cro/CI family transcriptional regulator [Streptococcus australis
          ATCC 700641]
 gi|311102095|gb|EFQ60295.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
          F0396]
 gi|319748073|gb|EFW00316.1| cro/CI family transcriptional regulator [Streptococcus australis
          ATCC 700641]
 gi|328945360|gb|EGG39513.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK1087]
 gi|332364441|gb|EGJ42213.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK1059]
          Length = 170

 Score = 34.3 bits (77), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|293567401|ref|ZP_06678750.1| transcriptional regulator, xre family, putative [Enterococcus
          faecium E1071]
 gi|291589918|gb|EFF21717.1| transcriptional regulator, xre family, putative [Enterococcus
          faecium E1071]
          Length = 221

 Score = 34.3 bits (77), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  +   L  PI F
Sbjct: 1  MNIGEKIRTYRRNCKLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHHTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|210630657|ref|ZP_03296539.1| hypothetical protein COLSTE_00424 [Collinsella stercoris DSM
          13279]
 gi|210160390|gb|EEA91361.1| hypothetical protein COLSTE_00424 [Collinsella stercoris DSM
          13279]
          Length = 152

 Score = 34.3 bits (77), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 31/72 (43%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+  G RIR  R   G+ Q +L E  G+T   V+ YE G+       L+ I+  LE   +
Sbjct: 11 DMADGSRIRELRTRRGLLQRELAEMAGVTESAVRNYELGLRTPRPQHLKAIARALEVDPA 70

Query: 72 FFFDVSPTVCSD 83
             D       D
Sbjct: 71 SLVDYGVDTARD 82


>gi|327393407|dbj|BAK10829.1| putative transcriptional regulator from phage origin [Pantoea
          ananatis AJ13355]
          Length = 230

 Score = 34.3 bits (77), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 24/87 (27%), Positives = 42/87 (48%), Gaps = 7/87 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR-LQHISEVLESPIS 71
          +N+G +IR  R   GM  E+L E +G+    + + E G  +    + +  I++ L+  +S
Sbjct: 1  MNIGNKIRSLRKARGMKIEELAEAVGVDGANISRLETGKQKSFTEQSINKIAKALKVDVS 60

Query: 72 FFFDVS---PTVCSD---ISSEENNVM 92
            F      PTV +D   +  +E N M
Sbjct: 61 ELFATGTAEPTVYNDSRNVQEQEPNAM 87


>gi|212709326|ref|ZP_03317454.1| hypothetical protein PROVALCAL_00361 [Providencia alcalifaciens
          DSM 30120]
 gi|212688238|gb|EEB47766.1| hypothetical protein PROVALCAL_00361 [Providencia alcalifaciens
          DSM 30120]
          Length = 112

 Score = 34.3 bits (77), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 29/60 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK +R  R   G S  K+ + LGI+ Q   +YE G  R+    L  I  VL+     FF
Sbjct: 19 IGKELRCIRKRKGFSGAKIAKQLGISQQHYSRYECGKCRISVDTLLSILFVLDFDFGDFF 78


>gi|309778439|ref|ZP_07673354.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 3_1_53]
 gi|308913802|gb|EFP59627.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 3_1_53]
          Length = 211

 Score = 34.3 bits (77), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 30/52 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +G+ I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I +VL
Sbjct: 11 LGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGMNYPTFDTLEKIMDVL 62


>gi|289434995|ref|YP_003464867.1| helix-turn-helix motif protein [Listeria seeligeri serovar 1/2b
          str. SLCC3954]
 gi|289171239|emb|CBH27781.1| helix-turn-helix motif protein [Listeria seeligeri serovar 1/2b
          str. SLCC3954]
          Length = 115

 Score = 34.3 bits (77), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 19/76 (25%), Positives = 38/76 (50%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
           G+RI+ RR  LG + + L E LG++   + +YE G + ++  + L  +S +L++  ++ 
Sbjct: 3  TGERIKKRRKELGYNADYLAEELGVSRSTIFRYENGEIEKLPITILDSLSNILKTTPAYL 62

Query: 74 FDVSPTVCSDISSEEN 89
                    +   EN
Sbjct: 63 MGWVDDGAEHLEDSEN 78


>gi|119387120|ref|YP_918175.1| XRE family transcriptional regulator [Paracoccus denitrificans
          PD1222]
 gi|119377715|gb|ABL72479.1| transcriptional regulator, XRE family [Paracoccus denitrificans
          PD1222]
          Length = 213

 Score = 34.3 bits (77), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 21/64 (32%), Positives = 31/64 (48%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D +VG R++  R    MSQ +L E  G+   QV   E G +    + L+ I   L   +S
Sbjct: 24 DFDVGARLKELRSAANMSQRQLAEASGVPHGQVSMIETGRSSPSVASLRKILGGLGVTMS 83

Query: 72 FFFD 75
           FF+
Sbjct: 84 EFFE 87


>gi|330875430|gb|EGH09579.1| Helix-turn-helix domain protein [Pseudomonas syringae pv.
          morsprunorum str. M302280PT]
          Length = 372

 Score = 34.3 bits (77), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 21/58 (36%), Positives = 32/58 (55%), Gaps = 3/58 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESPISFFF 74
          ++RL R   G S  ++GE LG+T Q   K E  +N +    +L+ + E+L    SFFF
Sbjct: 18 KLRLARCASGRSLAEIGELLGVTRQYAHKLE--INSIPNPGQLKQLCEILNVKESFFF 73


>gi|237736495|ref|ZP_04566976.1| transcriptional regulator [Fusobacterium mortiferum ATCC 9817]
 gi|229421537|gb|EEO36584.1| transcriptional regulator [Fusobacterium mortiferum ATCC 9817]
          Length = 187

 Score = 34.3 bits (77), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 17/64 (26%), Positives = 38/64 (59%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ +GK+I+  R+   ++ ++L E +G+T   + + E+ +     + L+ IS+ L+ P+
Sbjct: 6  LDLGLGKKIQNYRLNKKLTIKELSEKIGMTSSMLSQIERDLVNPSIATLRAISKALDVPL 65

Query: 71 SFFF 74
            FF
Sbjct: 66 FMFF 69


>gi|228478091|ref|ZP_04062702.1| transcriptional regulator, xre family [Streptococcus salivarius
          SK126]
 gi|228250271|gb|EEK09524.1| transcriptional regulator, xre family [Streptococcus salivarius
          SK126]
          Length = 169

 Score = 34.3 bits (77), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|225570544|ref|ZP_03779569.1| hypothetical protein CLOHYLEM_06646 [Clostridium hylemonae DSM
          15053]
 gi|225160741|gb|EEG73360.1| hypothetical protein CLOHYLEM_06646 [Clostridium hylemonae DSM
          15053]
          Length = 367

 Score = 34.3 bits (77), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 15/38 (39%), Positives = 24/38 (63%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          +N+GK I   R   G++QE+L E +G++   V K+E G
Sbjct: 4  VNIGKNIMKYRRETGITQEQLAEHMGVSKSSVSKWETG 41


>gi|163814737|ref|ZP_02206126.1| hypothetical protein COPEUT_00888 [Coprococcus eutactus ATCC
          27759]
 gi|158450372|gb|EDP27367.1| hypothetical protein COPEUT_00888 [Coprococcus eutactus ATCC
          27759]
          Length = 108

 Score = 34.3 bits (77), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 3/76 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R  + ++QE+LG  +    + + + E G +     RL  +S  L+    +F 
Sbjct: 12 IGQRIKYARKSMNLTQEELGRLMCTDGKYISRLESGKSLPSLKRLVQLSRALKCTCDYFL 71

Query: 75 ---DVSPTVCSDISSE 87
             DV  T   D+  E
Sbjct: 72 WDMDVPETGSEDVDIE 87


>gi|312144436|ref|YP_003995882.1| Cupin 2 conserved barrel domain protein [Halanaerobium sp.
           'sapolanicus']
 gi|311905087|gb|ADQ15528.1| Cupin 2 conserved barrel domain protein [Halanaerobium sp.
           'sapolanicus']
          Length = 178

 Score = 34.3 bits (77), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 32/136 (23%), Positives = 63/136 (46%), Gaps = 19/136 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR +R    MS   + + +  T   + + E+G+     + L+ I+  LE PI +F 
Sbjct: 2   LGQRIRNKRKSKSMSLNDVAQKINKTSSYLSQVERGLAEPSITALREIARALEVPIFYFL 61

Query: 75  DVSPTVCSDISSEENNVMDF--------ISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
               +  + +  E+  +++F        + +PD   LNR      D++V +  +E     
Sbjct: 62  IEEESHNAVVRKEQRRILNFPGSHLTFELLSPD---LNR------DMEVIEACME--PGA 110

Query: 127 VSSEKKYRTIEEECMV 142
            +SE+    + EEC +
Sbjct: 111 ETSEEPLNHLGEECTI 126


>gi|237742940|ref|ZP_04573421.1| transcriptional regulator [Fusobacterium sp. 4_1_13]
 gi|229430588|gb|EEO40800.1| transcriptional regulator [Fusobacterium sp. 4_1_13]
          Length = 94

 Score = 34.3 bits (77), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 14/45 (31%), Positives = 27/45 (60%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE 48
          N K P  + + + K IR RR  L ++QE+  +  G++F  ++++E
Sbjct: 7  NIKTPKEIQLEIAKNIRKRRKELKLTQEEFSKKSGVSFGSIKRFE 51


>gi|118445204|ref|YP_891173.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|196047678|ref|ZP_03114883.1| transcriptional regulator [Bacillus cereus 03BB108]
 gi|118419765|gb|ABK88183.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|196021503|gb|EDX60205.1| transcriptional regulator [Bacillus cereus 03BB108]
          Length = 116

 Score = 34.3 bits (77), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 21/89 (23%), Positives = 43/89 (48%), Gaps = 6/89 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    M+QE+LG+ +G++   +  +EKG    G   L+ I++       +  
Sbjct: 2  IGEKIKELRKNSKMTQEQLGDAIGVSKMAISYFEKGKKSPGRESLEKIADYFGVTTDYLL 61

Query: 75 DVS--PTVCSD----ISSEENNVMDFIST 97
            S  P +  +    +S E  N++  I +
Sbjct: 62 GRSEDPELNEEEDKTVSEEGKNILAIIES 90


>gi|69245018|ref|ZP_00603176.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|257879285|ref|ZP_05658938.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|257881898|ref|ZP_05661551.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,502]
 gi|257890113|ref|ZP_05669766.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,410]
 gi|258615689|ref|ZP_05713459.1| hypothetical protein EfaeD_08257 [Enterococcus faecium DO]
 gi|260558729|ref|ZP_05830918.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          C68]
 gi|293563230|ref|ZP_06677683.1| transcriptional regulator, putative [Enterococcus faecium E1162]
 gi|294622366|ref|ZP_06701395.1| transcriptional regulator, putative [Enterococcus faecium U0317]
 gi|314937319|ref|ZP_07844659.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|314943378|ref|ZP_07850149.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|314949074|ref|ZP_07852436.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|314953479|ref|ZP_07856395.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|314994167|ref|ZP_07859474.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|314995977|ref|ZP_07861057.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|68196019|gb|EAN10451.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|257813513|gb|EEV42271.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|257817556|gb|EEV44884.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,502]
 gi|257826473|gb|EEV53099.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,410]
 gi|260075188|gb|EEW63501.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          C68]
 gi|291598126|gb|EFF29229.1| transcriptional regulator, putative [Enterococcus faecium U0317]
 gi|291604825|gb|EFF34306.1| transcriptional regulator, putative [Enterococcus faecium E1162]
 gi|313589853|gb|EFR68698.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313591434|gb|EFR70279.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|313594512|gb|EFR73357.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|313597922|gb|EFR76767.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|313643270|gb|EFS07850.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|313644551|gb|EFS09131.1| helix-turn-helix protein [Enterococcus faecium TX0082]
          Length = 270

 Score = 34.3 bits (77), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEV 65
          VG RIR  R  L +S EK G+ +G +    V  +E+G+N      L  I+E+
Sbjct: 8  VGNRIRQIRQELKLSMEKFGKLIGDLPRSTVNNWERGINLPKTETLHQIAEI 59


>gi|325265770|ref|ZP_08132457.1| DNA-binding protein [Kingella denitrificans ATCC 33394]
 gi|324982753|gb|EGC18378.1| DNA-binding protein [Kingella denitrificans ATCC 33394]
          Length = 132

 Score = 34.3 bits (77), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 29/110 (26%), Positives = 53/110 (48%), Gaps = 21/110 (19%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI------ 70
           ++IRL R I   SQE++ E L ++     K E+G  ++   RLQ I+++ E  +      
Sbjct: 5   EKIRLIREIKQWSQEQMAEKLEMSANGYAKIERGETKLTLPRLQKIADIFEMNLNELAQE 64

Query: 71  ---SFFFDV--SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
              SF   +  + T C++I +         S   G ++N   I+I+ +K+
Sbjct: 65  NEQSFMVVIGENSTYCTNIHT---------SISSG-KINELIIEIEKLKL 104


>gi|212696814|ref|ZP_03304942.1| hypothetical protein ANHYDRO_01377 [Anaerococcus hydrogenalis DSM
          7454]
 gi|212676104|gb|EEB35711.1| hypothetical protein ANHYDRO_01377 [Anaerococcus hydrogenalis DSM
          7454]
          Length = 217

 Score = 34.3 bits (77), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 14/63 (22%), Positives = 37/63 (58%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          + +  RI+ +R  LG + E++G+ +G+T   +Q+YE G +  + + +++ ++  L +  +
Sbjct: 1  MKLADRIKYKRNQLGKTLEEVGQKVGVTKATIQRYENGNIQNIPSDKIELLAAALNTTPA 60

Query: 72 FFF 74
          +  
Sbjct: 61 YLM 63


>gi|118462695|ref|YP_881469.1| prophage regulatory ptotein [Mycobacterium avium 104]
 gi|118163982|gb|ABK64879.1| putative prophage regulatory ptotein [Mycobacterium avium 104]
          Length = 194

 Score = 34.3 bits (77), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 18/43 (41%), Positives = 21/43 (48%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV 54
          D  VG  IR  R   G+ Q  LGE LG+  Q + K E G   V
Sbjct: 4  DQEVGANIRRFRQARGLPQAALGEPLGLNQQAIAKIENGTRAV 46


>gi|312867912|ref|ZP_07728116.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
 gi|311096316|gb|EFQ54556.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
          Length = 170

 Score = 33.9 bits (76), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|297204967|ref|ZP_06922364.1| conserved hypothetical protein [Streptomyces sviceus ATCC 29083]
 gi|297148807|gb|EDY60951.2| conserved hypothetical protein [Streptomyces sviceus ATCC 29083]
          Length = 419

 Score = 33.9 bits (76), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 16/53 (30%), Positives = 32/53 (60%), Gaps = 1/53 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G  + LRR   G++Q +LG  +G++ +Q+  YE+G +     RL+ ++  L++
Sbjct: 11 GSLVLLRRKA-GLTQAQLGAAVGVSARQIASYEQGAHAPSPRRLRLMARALKT 62


>gi|260662347|ref|ZP_05863242.1| transcriptional regulator [Lactobacillus fermentum 28-3-CHN]
 gi|260553038|gb|EEX25981.1| transcriptional regulator [Lactobacillus fermentum 28-3-CHN]
          Length = 378

 Score = 33.9 bits (76), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 25/41 (60%)

Query: 33 LGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          L E +G++ Q + +YE+G  + G    Q I + L+ P++FF
Sbjct: 24 LSEEIGVSKQMISRYERGTAQPGLDVFQQIVKSLQFPVAFF 64


>gi|261208781|ref|ZP_05923218.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289565534|ref|ZP_06445981.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|294614441|ref|ZP_06694357.1| helix-turn-helix domain protein [Enterococcus faecium E1636]
 gi|294617957|ref|ZP_06697562.1| helix-turn-helix domain protein [Enterococcus faecium E1679]
 gi|260077283|gb|EEW65003.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289162616|gb|EFD10469.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|291592749|gb|EFF24342.1| helix-turn-helix domain protein [Enterococcus faecium E1636]
 gi|291595766|gb|EFF27054.1| helix-turn-helix domain protein [Enterococcus faecium E1679]
          Length = 270

 Score = 33.9 bits (76), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEV 65
          VG RIR  R  L +S EK G+ +G +    V  +E+G+N      L  I+E+
Sbjct: 8  VGNRIRQIRQELKLSMEKFGKLIGDLPRSTVNNWERGINLPKTETLHQIAEI 59


>gi|218134626|ref|ZP_03463430.1| hypothetical protein BACPEC_02529 [Bacteroides pectinophilus ATCC
          43243]
 gi|217990011|gb|EEC56022.1| hypothetical protein BACPEC_02529 [Bacteroides pectinophilus ATCC
          43243]
          Length = 107

 Score = 33.9 bits (76), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 33/61 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G+RI+  R    M++++L E +G++   ++K E GVN      L  I+E+    + +
Sbjct: 6  VNSGERIKELRAARRMTRQQLAEQIGLSVDALRKIEAGVNGAKIDTLISIAELFHITLDY 65

Query: 73 F 73
           
Sbjct: 66 L 66


>gi|294617175|ref|ZP_06696830.1| transcriptional regulator, xre family, putative [Enterococcus
          faecium E1679]
 gi|291596575|gb|EFF27813.1| transcriptional regulator, xre family, putative [Enterococcus
          faecium E1679]
          Length = 221

 Score = 33.9 bits (76), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  +   L  PI F
Sbjct: 1  MNIGEKIRTYRRNCKLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHHTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|227357001|ref|ZP_03841373.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
 gi|227162879|gb|EEI47838.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
          Length = 85

 Score = 33.9 bits (76), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 32/61 (52%), Gaps = 1/61 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          VGKRI+ RR  L +S  K+   LG+T Q   K E G  ++    L  I+ +L+ SP S  
Sbjct: 7  VGKRIQNRRKELNISSSKIALQLGMTEQYYLKLENGYTKITVDELICIAIILKVSPQSLL 66

Query: 74 F 74
           
Sbjct: 67 L 67


>gi|291543170|emb|CBL16280.1| Predicted transcriptional regulators [Ruminococcus bromii L2-63]
          Length = 164

 Score = 33.9 bits (76), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 16/38 (42%), Positives = 24/38 (63%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          I +GK I   R   G++QEKLGE +G+T + +  +E G
Sbjct: 4  IKIGKFIATLRRQSGLTQEKLGEKIGVTNKTISPWENG 41


>gi|169824019|ref|YP_001691630.1| putative transcriptional regulator [Finegoldia magna ATCC 29328]
 gi|167830824|dbj|BAG07740.1| putative transcriptional regulator [Finegoldia magna ATCC 29328]
          Length = 176

 Score = 33.9 bits (76), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 29/45 (64%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE+L   + +  Q V K+E+G++   +  L  +SE+L++ +S
Sbjct: 16 GLSQEQLANEMHVVRQTVSKWERGLSVPDSDSLIKLSEILQTSVS 60


>gi|83720019|ref|YP_443629.1| DNA-binding protein [Burkholderia thailandensis E264]
 gi|83653844|gb|ABC37907.1| DNA-binding protein [Burkholderia thailandensis E264]
          Length = 80

 Score = 33.9 bits (76), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 30/58 (51%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P  + +G+ IR  R   G+SQE+L    GI    + + E+G N      L +I+E L
Sbjct: 10 HPTLVALGRAIRRIRKDRGLSQEQLALTAGIDVSYLGRVERGDNNASVLALHYIAEAL 67


>gi|75676148|ref|YP_318569.1| XRE family transcriptional regulator [Nitrobacter winogradskyi
          Nb-255]
 gi|74421018|gb|ABA05217.1| transcriptional regulator, XRE family [Nitrobacter winogradskyi
          Nb-255]
          Length = 410

 Score = 33.9 bits (76), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 17/62 (27%), Positives = 29/62 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R+R  R   G+SQ+ + E LG+    V   E G   V    L  ++++     +FF 
Sbjct: 7  LGDRLRAARERRGLSQQAVAEALGLPRTAVTNMESGTRSVSTLELTRLADLYGQQATFFL 66

Query: 75 DV 76
           +
Sbjct: 67 SM 68


>gi|217978763|ref|YP_002362910.1| transcriptional regulator, XRE family [Methylocella silvestris BL2]
 gi|217504139|gb|ACK51548.1| transcriptional regulator, XRE family [Methylocella silvestris BL2]
          Length = 217

 Score = 33.9 bits (76), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 23/91 (25%), Positives = 40/91 (43%), Gaps = 9/91 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +IR+ R  L ++  +L    G++   + K E G      S LQ ++  L  P+S FF
Sbjct: 36  IGAQIRMHRKRLDITGGELAAAAGLSTGMLSKIENGQISPSLSTLQSLARALNQPLSSFF 95

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
                       EE++   F+    G+ + R
Sbjct: 96  ---------TPFEEHHDCSFVKAGRGVNIER 117


>gi|324992265|gb|EGC24187.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK405]
          Length = 169

 Score = 33.9 bits (76), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|70730925|ref|YP_260666.1| Cro/CI family transcriptional regulator [Pseudomonas fluorescens
          Pf-5]
 gi|68345224|gb|AAY92830.1| transcriptional regulator, Cro/CI family [Pseudomonas fluorescens
          Pf-5]
          Length = 126

 Score = 33.9 bits (76), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 23/84 (27%), Positives = 37/84 (44%), Gaps = 7/84 (8%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G R+R  R  LG+SQ+  GE  G+      KYE G     A +  ++S V    +   
Sbjct: 9  GIGSRLRQERERLGLSQKVFGEIGGVEANAQGKYESGDR---APKADYLSRVAAKGVDVL 65

Query: 74 FDVS----PTVCSDISSEENNVMD 93
          + ++    P     +S  E  V+D
Sbjct: 66 YVLTGSRIPIQSGGLSQTEEKVLD 89


>gi|89073167|ref|ZP_01159706.1| transcriptional regulator, putative [Photobacterium sp. SKA34]
 gi|89051120|gb|EAR56577.1| transcriptional regulator, putative [Photobacterium sp. SKA34]
          Length = 106

 Score = 33.9 bits (76), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 14/84 (16%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISE 64
          NP+ + + K IR +  I   SQ++LG  +GI       ++ +YEKG +    S L+ +++
Sbjct: 5  NPIPVRL-KEIRKKTKI---SQKELGIRIGIDESSASARMNQYEKGKHTPDISTLKKMAD 60

Query: 65 VLESPISFFFDVSPTVCSDISSEE 88
           L  P+++FF      C D SS E
Sbjct: 61 ELGVPLNYFF------CEDESSAE 78


>gi|34763122|ref|ZP_00144092.1| Transcriptional regulator [Fusobacterium nucleatum subsp.
          vincentii ATCC 49256]
 gi|27887220|gb|EAA24321.1| Transcriptional regulator [Fusobacterium nucleatum subsp.
          vincentii ATCC 49256]
          Length = 94

 Score = 33.9 bits (76), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 14/45 (31%), Positives = 27/45 (60%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE 48
          N K P  + + + K IR RR  L ++QE+  +  G++F  ++++E
Sbjct: 7  NIKTPKEIQLEIAKNIRKRRKELKLTQEEFSKKSGVSFGSIKRFE 51


>gi|332637123|ref|ZP_08415986.1| putative transcriptional regulator [Weissella cibaria KACC 11862]
          Length = 137

 Score = 33.9 bits (76), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 35/57 (61%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +DI   +++   R   G+SQ++L + L +T Q V K+E G +    +R+Q I+++L+
Sbjct: 1  MDIVFAQQLTNLRKQKGLSQQQLADKLYMTRQAVSKWETGESSPDLNRMQEIADILD 57


>gi|257437945|ref|ZP_05613700.1| toxin-antitoxin system, antitoxin component, Xre family
           [Faecalibacterium prausnitzii A2-165]
 gi|257199605|gb|EEU97889.1| toxin-antitoxin system, antitoxin component, Xre family
           [Faecalibacterium prausnitzii A2-165]
          Length = 231

 Score = 33.9 bits (76), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 24/91 (26%), Positives = 45/91 (49%), Gaps = 11/91 (12%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+L R   G++Q++  E LG++   +  YEKG+   G   +  +++        +++VS 
Sbjct: 7   IKLLRKERGITQKQAAEDLGVSQALLSHYEKGIRECGLDFVVRVAD--------YYNVSC 58

Query: 79  TVCSDISSEENNVM---DFISTPDGLQLNRY 106
                 S+E N +M   D +  PD ++ N Y
Sbjct: 59  DYLLGRSAERNGMMLNADDLPNPDKMKDNVY 89


>gi|227357992|ref|ZP_03842334.1| conserved hypothetical protein [Proteus mirabilis ATCC 29906]
 gi|227161727|gb|EEI46759.1| conserved hypothetical protein [Proteus mirabilis ATCC 29906]
          Length = 100

 Score = 33.9 bits (76), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 18/44 (40%), Positives = 28/44 (63%), Gaps = 2/44 (4%)

Query: 9  NPVDINV--GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          N V+INV  G  IR  R +LG+S + LG+ L ++ Q + + E+G
Sbjct: 4  NTVNINVRVGSFIRRHRTLLGISGKSLGKKLNLSQQHISRLERG 47


>gi|192293630|ref|YP_001994235.1| anaerobic benzoate catabolism transcriptional regulator
          [Rhodopseudomonas palustris TIE-1]
 gi|192287379|gb|ACF03760.1| transcriptional regulator, XRE family with shikimate kinase
          activity [Rhodopseudomonas palustris TIE-1]
          Length = 305

 Score = 33.9 bits (76), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 33/58 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++G+ +R  R   GMS++ L +  GI+ + + + E G   V    L+ ISE L +P+
Sbjct: 13 LDLGRHVRTMRGRRGMSRKVLAKVSGISERYIAQLESGKGNVSIMLLRRISEALATPL 70


>gi|327473031|gb|EGF18458.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK408]
          Length = 170

 Score = 33.9 bits (76), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|257414283|ref|ZP_04745847.2| putative transcriptional regulator [Roseburia intestinalis L1-82]
 gi|257200563|gb|EEU98847.1| putative transcriptional regulator [Roseburia intestinalis L1-82]
          Length = 107

 Score = 33.9 bits (76), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 33/61 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G+RI+  R    M++++L E +G++   ++K E GVN      L  I+E+    + +
Sbjct: 6  VNSGERIKELRAARRMTRQQLAEQIGLSVDALRKIEAGVNGAKIDTLISIAELFHISLDY 65

Query: 73 F 73
           
Sbjct: 66 L 66


>gi|146343555|ref|YP_001208603.1| anaerobic benzoate catabolism transcriptional regulator
          [Bradyrhizobium sp. ORS278]
 gi|146196361|emb|CAL80388.1| Shikimate kinase [Bradyrhizobium sp. ORS278]
          Length = 307

 Score = 33.9 bits (76), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 32/56 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+R+R  R + GMS++ L E  GI+ + + + E G   V    L+ I+  + +P+
Sbjct: 25 LGQRVRRMRGLAGMSRKVLAEVSGISERYIAQLESGKGNVSIVLLRRIANAINAPL 80


>gi|325688546|gb|EGD30563.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK72]
          Length = 170

 Score = 33.9 bits (76), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|225377903|ref|ZP_03755124.1| hypothetical protein ROSEINA2194_03563 [Roseburia inulinivorans
          DSM 16841]
 gi|260438260|ref|ZP_05792076.1| putative transcriptional regulator [Butyrivibrio crossotus DSM
          2876]
 gi|225210234|gb|EEG92588.1| hypothetical protein ROSEINA2194_03563 [Roseburia inulinivorans
          DSM 16841]
 gi|292809280|gb|EFF68485.1| putative transcriptional regulator [Butyrivibrio crossotus DSM
          2876]
          Length = 107

 Score = 33.9 bits (76), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 33/61 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G+RI+  R    M++++L E +G++   ++K E GVN      L  I+E+    + +
Sbjct: 6  VNSGERIKELRAARRMTRQQLAEQIGLSVDALRKIEAGVNGAKIDTLISIAELFHITLDY 65

Query: 73 F 73
           
Sbjct: 66 L 66


>gi|188491757|ref|ZP_02999027.1| putative DNA-binding protein [Escherichia coli 53638]
 gi|188486956|gb|EDU62059.1| putative DNA-binding protein [Escherichia coli 53638]
          Length = 130

 Score = 33.9 bits (76), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 30/49 (61%), Gaps = 1/49 (2%)

Query: 26 LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          L ++Q +LG  LG+  Q VQ + KGV      +L+ ++E+ + P+ +FF
Sbjct: 14 LNINQSELGRRLGVKPQSVQGWLKGV-MPRMDKLEKLAELSQHPVHWFF 61


>gi|296328537|ref|ZP_06871056.1| XRE family transcriptional regulator [Fusobacterium nucleatum
          subsp. nucleatum ATCC 23726]
 gi|296154346|gb|EFG95145.1| XRE family transcriptional regulator [Fusobacterium nucleatum
          subsp. nucleatum ATCC 23726]
          Length = 94

 Score = 33.9 bits (76), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 14/45 (31%), Positives = 27/45 (60%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE 48
          N K P  + + + K IR RR  L ++QE+  +  G++F  ++++E
Sbjct: 7  NIKTPKEIQLEIAKNIRKRRKELKLTQEEFSKKSGVSFGSIKRFE 51


>gi|229827176|ref|ZP_04453245.1| hypothetical protein GCWU000182_02561 [Abiotrophia defectiva ATCC
          49176]
 gi|229788794|gb|EEP24908.1| hypothetical protein GCWU000182_02561 [Abiotrophia defectiva ATCC
          49176]
          Length = 109

 Score = 33.9 bits (76), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 36/68 (52%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   ++I +GK+I+  R+  GM+QE+L E L      +  YE     +  S L+ I+++L
Sbjct: 1  MERKMEITLGKKIKEYRLKRGMTQEELAERLFSRKSTISDYENDKIDIKISILREIAKIL 60

Query: 67 ESPISFFF 74
            P+  F 
Sbjct: 61 GMPLFCFL 68


>gi|240144293|ref|ZP_04742894.1| toxin-antitoxin system, antitoxin component, Xre family
          [Roseburia intestinalis L1-82]
 gi|257203709|gb|EEV01994.1| toxin-antitoxin system, antitoxin component, Xre family
          [Roseburia intestinalis L1-82]
          Length = 111

 Score = 33.9 bits (76), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 14/60 (23%), Positives = 32/60 (53%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R+ +G+SQ+ L + L ++ Q + KYE   N      L+ ++++ +  + +    S
Sbjct: 3  RLKDLRLKMGLSQQALADKLNVSQQTICKYENNTNEPNIDMLEAMADIFDVSVDYLIGYS 62


>gi|225377886|ref|ZP_03755107.1| hypothetical protein ROSEINA2194_03546 [Roseburia inulinivorans
          DSM 16841]
 gi|225210255|gb|EEG92609.1| hypothetical protein ROSEINA2194_03546 [Roseburia inulinivorans
          DSM 16841]
          Length = 107

 Score = 33.9 bits (76), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 33/61 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G+RI+  R    M++++L E +G++   ++K E GVN      L  I+E+    + +
Sbjct: 6  VNSGERIKELRAARRMTRQQLAEQIGLSVDALRKIEAGVNGAKIDTLISIAELFHITLDY 65

Query: 73 F 73
           
Sbjct: 66 L 66


>gi|218547977|ref|YP_002381768.1| Cro/CI family transcriptional regulator [Escherichia fergusonii
          ATCC 35469]
 gi|218355518|emb|CAQ88129.1| putative transcriptional regulator, Cro/CI family from phage
          origin [Escherichia fergusonii ATCC 35469]
          Length = 228

 Score = 33.9 bits (76), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +R+++ R I GMSQ +L E +G++ Q V K E G   +   +++ I++VL
Sbjct: 3  TLAERLKIGREIAGMSQAQLAEKIGLSQQSVAKIENG-ETLQPRKIKEIAKVL 54


>gi|258510478|ref|YP_003183912.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
 gi|257477204|gb|ACV57523.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
          Length = 163

 Score = 33.9 bits (76), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 1/79 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+R+   R   G+SQ  L E L +T  Q+  YE+G        L+ +++  +  I F
Sbjct: 3  MTFGERLAQLRRSKGLSQYALAEQLKMTRGQIANYEQGTREPDIETLKKLADFFDVSIDF 62

Query: 73 FFDVSPTVCSDISSEENNV 91
               P V SD +   N V
Sbjct: 63 LVLGKPNV-SDFNGLTNEV 80


>gi|325697795|gb|EGD39679.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK160]
 gi|327466976|gb|EGF12490.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK330]
          Length = 170

 Score = 33.9 bits (76), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|310644824|ref|YP_003949583.1| transcriptional regulator [Paenibacillus polymyxa SC2]
 gi|309249775|gb|ADO59342.1| Transcriptional regulator [Paenibacillus polymyxa SC2]
          Length = 114

 Score = 33.9 bits (76), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 20/67 (29%), Positives = 30/67 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG RIR  R   G +QE+L E  G+ +  +   E+G   +    L+ I   L+ P    
Sbjct: 6  SVGNRIRELRKAKGWTQEQLAEAAGLHYSYIGGVERGDRNISLETLEKIILALKVPPFEL 65

Query: 74 FDVSPTV 80
          F    T 
Sbjct: 66 FQFDETT 72


>gi|257879451|ref|ZP_05659104.1| conserved hypothetical protein [Enterococcus faecium 1,230,933]
 gi|323142576|ref|ZP_08077392.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
 gi|332655057|ref|ZP_08420798.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
 gi|257813679|gb|EEV42437.1| conserved hypothetical protein [Enterococcus faecium 1,230,933]
 gi|322413009|gb|EFY03912.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
 gi|332515917|gb|EGJ45526.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
          Length = 149

 Score = 33.9 bits (76), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 17/67 (25%), Positives = 36/67 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G++I+  R+ + +SQ +L +  GI+ + +  YE+       S ++ ++E L   +S+
Sbjct: 1  MTFGEKIKEARLAMNLSQTELAQMTGISERSLYTYEQLGTLPRKSNIRKLAEALHISVSY 60

Query: 73 FFDVSPT 79
            D S T
Sbjct: 61 LLDESET 67


>gi|227519526|ref|ZP_03949575.1| possible transcriptional repressor [Enterococcus faecalis TX0104]
 gi|257090868|ref|ZP_05585229.1| predicted protein [Enterococcus faecalis CH188]
 gi|312902504|ref|ZP_07761710.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|227072975|gb|EEI10938.1| possible transcriptional repressor [Enterococcus faecalis TX0104]
 gi|256999680|gb|EEU86200.1| predicted protein [Enterococcus faecalis CH188]
 gi|310634174|gb|EFQ17457.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|315579687|gb|EFU91878.1| helix-turn-helix protein [Enterococcus faecalis TX0630]
          Length = 162

 Score = 33.9 bits (76), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 7/67 (10%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R+   ++QE+L    G+    + KYEKG        ++++   +   +S FF
Sbjct: 16 MGERIKRLRLEKNLTQEELASKFGLKRAAINKYEKG-------NVENMKRSVIEDMSKFF 68

Query: 75 DVSPTVC 81
           VSP+  
Sbjct: 69 GVSPSYL 75


>gi|330871213|gb|EGH05922.1| hypothetical protein PSYAE_28973 [Pseudomonas syringae pv.
          aesculi str. 0893_23]
          Length = 83

 Score = 33.9 bits (76), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 19/64 (29%), Positives = 33/64 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++IR RR+  G++Q +L     +T Q++   EKG   VG +    +   L+  +S    V
Sbjct: 12 EQIRQRRLNRGLTQARLAAMAAVTRQKIIAVEKGDLSVGMTAYARVLGALDCELSVIPAV 71

Query: 77 SPTV 80
           PT+
Sbjct: 72 MPTL 75


>gi|39937845|ref|NP_950121.1| anaerobic benzoate catabolism transcriptional regulator
          [Rhodopseudomonas palustris CGA009]
 gi|39651705|emb|CAE30227.1| possible Shikimate kinase with a Helix-turn-helix domain
          [Rhodopseudomonas palustris CGA009]
          Length = 305

 Score = 33.9 bits (76), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 33/58 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++G+ +R  R   GMS++ L +  GI+ + + + E G   V    L+ ISE L +P+
Sbjct: 13 LDLGRHVRTMRGRRGMSRKVLAKVSGISERYIAQLESGKGNVSIMLLRRISEALATPL 70


>gi|323353576|ref|ZP_08088109.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          VMC66]
 gi|322121522|gb|EFX93285.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          VMC66]
          Length = 170

 Score = 33.9 bits (76), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|303327942|ref|ZP_07358381.1| DNA-binding protein [Desulfovibrio sp. 3_1_syn3]
 gi|302861768|gb|EFL84703.1| DNA-binding protein [Desulfovibrio sp. 3_1_syn3]
          Length = 156

 Score = 33.9 bits (76), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 32/63 (50%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  I+ RR  LG++QE L E +G+  Q + + E+G       RL  ++  L   ++  F
Sbjct: 50  VGTNIQERRKKLGLTQECLAEKIGVGQQSLSRMERGDIAPKLERLPDVAATLRCSVADLF 109

Query: 75  DVS 77
             S
Sbjct: 110 RAS 112


>gi|302557707|ref|ZP_07310049.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          griseoflavus Tu4000]
 gi|302475325|gb|EFL38418.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          griseoflavus Tu4000]
          Length = 509

 Score = 33.9 bits (76), Expect = 7.4,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G +Q +L E L  +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWTQTQLAEALNTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|331090228|ref|ZP_08339116.1| hypothetical protein HMPREF1025_02699 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|330402174|gb|EGG81746.1| hypothetical protein HMPREF1025_02699 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 346

 Score = 33.9 bits (76), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 16/54 (29%), Positives = 31/54 (57%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + + + IR +R  L ++QE++ E LG++   V K+EKG      + L  ++ +L
Sbjct: 1  MKINQIIREKRKELSLTQEQIAELLGVSTPAVNKWEKGSTYPDITLLPALARLL 54


>gi|322376841|ref|ZP_08051334.1| putative transcriptional regulator PlcR [Streptococcus sp. M334]
 gi|321282648|gb|EFX59655.1| putative transcriptional regulator PlcR [Streptococcus sp. M334]
          Length = 288

 Score = 33.9 bits (76), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 31/104 (29%), Positives = 48/104 (46%), Gaps = 3/104 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  R++ RR  L MSQ +L E  GI  Q Q+ + E G    GA  L  +S+ L+  I +F
Sbjct: 5   LATRLKNRRKELKMSQRELAE--GICKQGQISRLENGEFTPGADFLYALSKKLKVSIDYF 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           F+       D  SE   +     T    +  +Y  +++ VKV  
Sbjct: 63  FNEQIVEEIDELSEFKKLAQTFITNRNYESLKYIYELESVKVHH 106


>gi|282866826|ref|ZP_06275862.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
 gi|282558318|gb|EFB63884.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
          Length = 509

 Score = 33.9 bits (76), Expect = 7.4,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G +Q +L E L  +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWTQTQLAEALATSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|260893514|ref|YP_003239611.1| transcriptional regulator, XRE family [Ammonifex degensii KC4]
 gi|260865655|gb|ACX52761.1| transcriptional regulator, XRE family [Ammonifex degensii KC4]
          Length = 256

 Score = 33.9 bits (76), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 35/62 (56%), Gaps = 1/62 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPIS 71
           INVG+RIRL R   G S ++L    GI+   + + E+G      S L+ ++E L  +P++
Sbjct: 72  INVGERIRLLRTEKGWSLQELACRAGISASYLSEIERGTVYPSLSTLKRLAEELGVAPVT 131

Query: 72  FF 73
           F 
Sbjct: 132 FL 133


>gi|332798162|ref|YP_004459661.1| helix-turn-helix domain-containing protein [Tepidanaerobacter sp.
          Re1]
 gi|332695897|gb|AEE90354.1| helix-turn-helix domain protein [Tepidanaerobacter sp. Re1]
          Length = 123

 Score = 33.9 bits (76), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 16/59 (27%), Positives = 32/59 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +GKRIR  R  LG+S+E+  E +G++   + + E+G  ++    L  ++  L   + + 
Sbjct: 8  IGKRIREEREKLGLSREEFAEIIGLSDYYIGQLERGERQMSMPTLIKVANCLHVSLDYL 66


>gi|237734947|ref|ZP_04565428.1| predicted protein [Mollicutes bacterium D7]
 gi|229381723|gb|EEO31814.1| predicted protein [Coprobacillus sp. D7]
          Length = 264

 Score = 33.9 bits (76), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 19/56 (33%), Positives = 32/56 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G RI   R  LG +Q++LG  + ++ + V K+E+G+     S L  +SE L+  I
Sbjct: 6  IGIRILSARKNLGYTQKQLGNLINVSDKAVSKWERGIGCPDISLLLPLSEALKMSI 61


>gi|254461150|ref|ZP_05074566.1| DNA-binding protein [Rhodobacterales bacterium HTCC2083]
 gi|206677739|gb|EDZ42226.1| DNA-binding protein [Rhodobacteraceae bacterium HTCC2083]
          Length = 190

 Score = 33.9 bits (76), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 20/98 (20%), Positives = 46/98 (46%), Gaps = 12/98 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G  +R  R   G++   L + L  +   + + E+ ++      L+ I+++L+ P+S  
Sbjct: 11  SLGADLRALRKSRGLTLSDLADALDRSLGWISQVERDLSEPSVFDLKQIAKILDVPVSIL 70

Query: 74  FDVSPTVCSD------------ISSEENNVMDFISTPD 99
           F  +PT   +            I S+E  +++ + +PD
Sbjct: 71  FGQAPTPAQEAGIIVRAHARRPIGSKEQGLVEELLSPD 108


>gi|182435303|ref|YP_001823022.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Streptomyces griseus subsp. griseus NBRC 13350]
 gi|326775942|ref|ZP_08235207.1| transcriptional regulator, XRE family [Streptomyces cf. griseus
          XylebKG-1]
 gi|178463819|dbj|BAG18339.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Streptomyces griseus subsp. griseus NBRC 13350]
 gi|326656275|gb|EGE41121.1| transcriptional regulator, XRE family [Streptomyces cf. griseus
          XylebKG-1]
          Length = 509

 Score = 33.9 bits (76), Expect = 7.5,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G +Q +L E L  +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWTQTQLAEALATSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|322390777|ref|ZP_08064288.1| cro/CI family transcriptional regulator [Streptococcus
          parasanguinis ATCC 903]
 gi|321142532|gb|EFX37999.1| cro/CI family transcriptional regulator [Streptococcus
          parasanguinis ATCC 903]
          Length = 169

 Score = 33.9 bits (76), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|89896705|ref|YP_520192.1| hypothetical protein DSY3959 [Desulfitobacterium hafniense Y51]
 gi|89336153|dbj|BAE85748.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 106

 Score = 33.9 bits (76), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 17/63 (26%), Positives = 33/63 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + + +R  R   G++Q++L + LG+    +  +EKG N +  S L +I   LE  +   +
Sbjct: 1  MAENLRKYRERKGITQKQLADHLGVRDNTISSWEKGTNSIDISTLLNICNFLEINLDDIY 60

Query: 75 DVS 77
           +S
Sbjct: 61 GIS 63


>gi|116628413|ref|YP_821032.1| XRE family transcriptional regulator [Streptococcus thermophilus
           LMD-9]
 gi|116101690|gb|ABJ66836.1| transcriptional regulator, XRE family [Streptococcus thermophilus
           LMD-9]
          Length = 289

 Score = 33.9 bits (76), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 35/109 (32%), Positives = 51/109 (46%), Gaps = 15/109 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  RI+ RR  L MSQ++L E  GI  Q Q+ + E G    G+  L  +S  L   + +F
Sbjct: 5   LASRIKNRRKELKMSQKELAE--GICKQGQISRLENGEYIPGSVLLHELSRKLNVSMDYF 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           FD        ISS  N + +F       +L++ FI   D +    I EL
Sbjct: 63  FD------EQISSGSNKLNNFK------KLSKTFITQRDYESLNYIYEL 99


>gi|322386654|ref|ZP_08060279.1| cro/CI family transcriptional regulator [Streptococcus cristatus
          ATCC 51100]
 gi|321269327|gb|EFX52262.1| cro/CI family transcriptional regulator [Streptococcus cristatus
          ATCC 51100]
          Length = 169

 Score = 33.9 bits (76), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|222153050|ref|YP_002562227.1| phage repressor-like protein [Streptococcus uberis 0140J]
 gi|222113863|emb|CAR42005.1| putative phage repressor-like protein [Streptococcus uberis
          0140J]
          Length = 230

 Score = 33.9 bits (76), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 30/52 (57%), Gaps = 3/52 (5%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          GK+++  R    MSQE LG+ LG+    +  +EKG N       +H++++LE
Sbjct: 4  GKQLKTIRQKHQMSQESLGQKLGVNKMTISNWEKGKN---VPNQKHLNQLLE 52


>gi|197287313|ref|YP_002153185.1| transcriptional regulator [Proteus mirabilis HI4320]
 gi|194684800|emb|CAR46871.1| putative transcriptional regulator [Proteus mirabilis HI4320]
          Length = 85

 Score = 33.9 bits (76), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 32/61 (52%), Gaps = 1/61 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          VGKRI+ RR  L +S  K+   LG+T Q   K E G  ++    L  I+ +L+ SP S  
Sbjct: 7  VGKRIQNRRKELNISSSKIALQLGMTEQYYLKLENGYTKITVDELICIAIILKVSPQSLL 66

Query: 74 F 74
           
Sbjct: 67 L 67


>gi|257792196|ref|YP_003182802.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|257476093|gb|ACV56413.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
          Length = 380

 Score = 33.9 bits (76), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 14/39 (35%), Positives = 25/39 (64%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK 49
          +++ + +R+  RR   G+SQE L   LG++ Q V K+E+
Sbjct: 1  MNVEIAQRLAERRKQAGLSQEALAARLGVSRQAVSKWER 39


>gi|145595679|ref|YP_001159976.1| helix-turn-helix domain-containing protein [Salinispora tropica
          CNB-440]
 gi|145305016|gb|ABP55598.1| helix-turn-helix domain protein [Salinispora tropica CNB-440]
          Length = 83

 Score = 33.9 bits (76), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 18/65 (27%), Positives = 30/65 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           V  RI + R   G+S+ +L + LG+ +Q +   E+G  R        I+   E P+   
Sbjct: 4  TVHNRIAVLRAERGISRRQLADALGVHYQTIGYLERGEFRPSLHLALRIAAYFEVPVEVV 63

Query: 74 FDVSP 78
          F + P
Sbjct: 64 FSIEP 68


>gi|116688944|ref|YP_834567.1| XRE family transcriptional regulator [Burkholderia cenocepacia
          HI2424]
 gi|116647033|gb|ABK07674.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
          HI2424]
          Length = 132

 Score = 33.9 bits (76), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 28/52 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          VG  I  +R   G++Q KL E + +  + V ++E+G       RLQ +S+ L
Sbjct: 21 VGTAIAEQRRARGLTQAKLAEMIDLEQEAVSRWERGTRVPTLHRLQQLSDAL 72


>gi|332523455|ref|ZP_08399707.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
           Jelinkova 176]
 gi|332314719|gb|EGJ27704.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
           Jelinkova 176]
          Length = 359

 Score = 33.9 bits (76), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 30/117 (25%), Positives = 54/117 (46%), Gaps = 11/117 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I L R  LGM+QEKL + L +T   + K+E    +     L  ++++        F
Sbjct: 2   IGDTIFLERTRLGMTQEKLSDYLHLTKATISKWENNQAKPDIDYLILLAKL--------F 53

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           D++     D+   +  + DF  T    QL     Q ++++  Q+I EL +  ++  K
Sbjct: 54  DMT---LDDLVGFQKTLTDFERTELFNQLKEKINQTEELEFFQEIEELSKHYINDFK 107


>gi|319654086|ref|ZP_08008178.1| hypothetical protein HMPREF1013_04798 [Bacillus sp. 2_A_57_CT2]
 gi|317394279|gb|EFV75025.1| hypothetical protein HMPREF1013_04798 [Bacillus sp. 2_A_57_CT2]
          Length = 312

 Score = 33.9 bits (76), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 36/62 (58%), Gaps = 3/62 (4%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++GK+I+  R + GM Q +L E  GI  Q Q+ K EKG     +S L  I+  L+  +S+
Sbjct: 6  SLGKKIKEIRKVRGMKQYELAE--GICSQAQISKIEKGQVEPLSSTLYLIANKLDVDVSY 63

Query: 73 FF 74
          FF
Sbjct: 64 FF 65


>gi|317490116|ref|ZP_07948605.1| hypothetical protein HMPREF1023_02305 [Eggerthella sp. 1_3_56FAA]
 gi|325833610|ref|ZP_08166059.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|316910821|gb|EFV32441.1| hypothetical protein HMPREF1023_02305 [Eggerthella sp. 1_3_56FAA]
 gi|325485534|gb|EGC88003.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 380

 Score = 33.9 bits (76), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 14/39 (35%), Positives = 25/39 (64%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK 49
          +++ + +R+  RR   G+SQE L   LG++ Q V K+E+
Sbjct: 1  MNVEIAQRLAERRKQAGLSQEALAARLGVSRQAVSKWER 39


>gi|225017440|ref|ZP_03706632.1| hypothetical protein CLOSTMETH_01366 [Clostridium methylpentosum
           DSM 5476]
 gi|224949850|gb|EEG31059.1| hypothetical protein CLOSTMETH_01366 [Clostridium methylpentosum
           DSM 5476]
          Length = 172

 Score = 33.9 bits (76), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 21/86 (24%), Positives = 41/86 (47%), Gaps = 3/86 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD-- 75
           +I+  R  +G+SQEKL E +G++ Q + K+E G+      ++  +SE  +    +     
Sbjct: 13  KIQRERKKMGLSQEKLAEKIGVSRQAITKWENGLASPELEKIVSLSECFKVSTDYLLKDN 72

Query: 76  -VSPTVCSDISSEENNVMDFISTPDG 100
              PT   + + + N  M + +   G
Sbjct: 73  ITEPTPPQESALKGNKRMSWRTWLGG 98


>gi|212709332|ref|ZP_03317460.1| hypothetical protein PROVALCAL_00367 [Providencia alcalifaciens
          DSM 30120]
 gi|212688244|gb|EEB47772.1| hypothetical protein PROVALCAL_00367 [Providencia alcalifaciens
          DSM 30120]
          Length = 99

 Score = 33.9 bits (76), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 6/81 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R+  G+S+++L   + ++ QQV +YE+GV+ +    +  +   L  P   F 
Sbjct: 7  IGNFIRNARVSKGLSEKELASLISVSQQQVSRYERGVSTLSIQNILILLNALNIP---FD 63

Query: 75 DVSPTVCSDISSEENNVMDFI 95
          + S  +   I  E+N + D +
Sbjct: 64 EFSHKI---IKPEQNRLFDLL 81


>gi|293376878|ref|ZP_06623096.1| DNA-binding protein [Turicibacter sanguinis PC909]
 gi|292644488|gb|EFF62580.1| DNA-binding protein [Turicibacter sanguinis PC909]
          Length = 330

 Score = 33.9 bits (76), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 17/54 (31%), Positives = 30/54 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G +I   R   GMSQE+L   LG+T Q +  +E+G+ +     L  ++ + E+
Sbjct: 6  LGTQIATLRKRRGMSQEELANQLGVTRQAISNWERGMTQPDLEMLMKLAAIFET 59


>gi|221232058|ref|YP_002511210.1| transcriptional regulator [Streptococcus pneumoniae ATCC 700669]
 gi|220674518|emb|CAR69079.1| transcriptional regulator [Streptococcus pneumoniae ATCC 700669]
          Length = 286

 Score = 33.9 bits (76), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 38/72 (52%), Gaps = 3/72 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +  +++ +R   G SQ+ L E  GI  Q Q+ K E+G     A  L  ++  L+ P+ +F
Sbjct: 4  LSDKLKAKRKEKGFSQKTLSE--GICEQSQISKIERGNYMPAADLLYKLANRLQVPLDYF 61

Query: 74 FDVSPTVCSDIS 85
          FD    + S+I+
Sbjct: 62 FDEQIEMTSNIT 73


>gi|89075656|ref|ZP_01162057.1| hypothetical protein SKA34_03965 [Photobacterium sp. SKA34]
 gi|89048663|gb|EAR54236.1| hypothetical protein SKA34_03965 [Photobacterium sp. SKA34]
          Length = 155

 Score = 33.9 bits (76), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 23/90 (25%), Positives = 48/90 (53%), Gaps = 7/90 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++RL+R   G SQE+L +  G++ + +Q+ E+G  + G   L+ ++ V E  +S    +
Sbjct: 4   RKLRLQR---GWSQEQLSQLSGLSIRTIQRIEQG-QKAGLESLKSLAAVFEIQVS-DLQM 58

Query: 77  SPTVCSDIS--SEENNVMDFISTPDGLQLN 104
            P +  +IS   +E   ++++    G   N
Sbjct: 59  EPPMNKEISVTEDEKKALNYVKGIKGFYSN 88


>gi|257892777|ref|ZP_05672430.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,408]
 gi|257829156|gb|EEV55763.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,408]
          Length = 221

 Score = 33.9 bits (76), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 16/60 (26%), Positives = 32/60 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNRNLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60


>gi|256849649|ref|ZP_05555081.1| transcriptional regulator [Lactobacillus crispatus MV-1A-US]
 gi|256713765|gb|EEU28754.1| transcriptional regulator [Lactobacillus crispatus MV-1A-US]
          Length = 187

 Score = 33.9 bits (76), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 33/63 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  +R  R  LG++Q+++ +   IT     K EKG NR+    L  I +     +S+
Sbjct: 1  MDIGTALRHLRDDLGLTQKQMIQGTKITVSHYSKLEKGQNRIFIENLVEILKQRNISLSY 60

Query: 73 FFD 75
          F D
Sbjct: 61 FVD 63


>gi|237733689|ref|ZP_04564170.1| phosphoribosylformylglycinamidine cyclo-ligase [Mollicutes
          bacterium D7]
 gi|229383287|gb|EEO33378.1| phosphoribosylformylglycinamidine cyclo-ligase [Coprobacillus sp.
          D7]
          Length = 415

 Score = 33.9 bits (76), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 16/41 (39%), Positives = 28/41 (68%), Gaps = 1/41 (2%)

Query: 11 VDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          +++N VG+ I L+R   G++Q++L   L ++FQ V K+E G
Sbjct: 2  INVNKVGEFITLKRKEKGLTQQQLANKLSVSFQAVSKWENG 42


>gi|15964249|ref|NP_384602.1| putative transcription regulator protein [Sinorhizobium meliloti
          1021]
 gi|15073425|emb|CAC41933.1| Putative HTH-type transcriptional regulator [Sinorhizobium
          meliloti 1021]
          Length = 89

 Score = 33.9 bits (76), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 33/60 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +RL R+  G+SQE+L     I    V + E+G+  V  S ++ ++  LE P++  F
Sbjct: 7  MGWNLRLLRVERGLSQERLAFEARIDRAYVGRVERGMENVTISTIEALARALEVPVAALF 66


>gi|167758894|ref|ZP_02431021.1| hypothetical protein CLOSCI_01240 [Clostridium scindens ATCC
          35704]
 gi|167663634|gb|EDS07764.1| hypothetical protein CLOSCI_01240 [Clostridium scindens ATCC
          35704]
          Length = 108

 Score = 33.9 bits (76), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 17/65 (26%), Positives = 35/65 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G+RI+  R+ L M+QE+L E + ++   + + E+G  ++    L +I+  L   + +
Sbjct: 4  IALGRRIKEERLKLNMTQERLAEEVNLSTSYIGQIERGERKLTLDSLINITNCLGVTVDY 63

Query: 73 FFDVS 77
              S
Sbjct: 64 LLQES 68


>gi|226948120|ref|YP_002803211.1| HTH domain protein [Clostridium botulinum A2 str. Kyoto]
 gi|226840862|gb|ACO83528.1| HTH domain protein [Clostridium botulinum A2 str. Kyoto]
          Length = 384

 Score = 33.9 bits (76), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 25/39 (64%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          D+N+GK I  +R   G++QE+L   +G++   V K+E G
Sbjct: 6  DLNIGKCIIHKRKEKGITQEQLANYIGVSKASVSKWESG 44


>gi|167755197|ref|ZP_02427324.1| hypothetical protein CLORAM_00702 [Clostridium ramosum DSM 1402]
 gi|167705247|gb|EDS19826.1| hypothetical protein CLORAM_00702 [Clostridium ramosum DSM 1402]
          Length = 264

 Score = 33.9 bits (76), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 19/56 (33%), Positives = 32/56 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G RI   R  LG +Q++LG  + ++ + V K+E+G+     S L  +SE L+  I
Sbjct: 6  IGIRILSARKNLGYTQKQLGNLINVSDKAVSKWERGIGCPDISLLLPLSEALKMSI 61


>gi|254881885|ref|ZP_05254595.1| conserved hypothetical protein [Bacteroides sp. 4_3_47FAA]
 gi|319641112|ref|ZP_07995815.1| hypothetical protein HMPREF9011_01412 [Bacteroides sp. 3_1_40A]
 gi|254834678|gb|EET14987.1| conserved hypothetical protein [Bacteroides sp. 4_3_47FAA]
 gi|317387243|gb|EFV68119.1| hypothetical protein HMPREF9011_01412 [Bacteroides sp. 3_1_40A]
          Length = 143

 Score = 33.9 bits (76), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 7/68 (10%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR--VGASRLQHISEVLESPI 70
          ++VG  I  RR+ LG+S+ +LG  +G+T Q V +    ++R  +  SRL  +SE L+   
Sbjct: 8  VHVGAEIEKRRVELGISKSELGRRIGVTQQHVNRI---LDRETMETSRLVKVSEALD--Y 62

Query: 71 SFFFDVSP 78
          +FF    P
Sbjct: 63 NFFLLFCP 70


>gi|253315441|ref|ZP_04838654.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus str. CF-Marseille]
 gi|315130180|gb|EFT86168.1| helix-turn-helix domain protein [Staphylococcus aureus subsp.
          aureus CGS03]
          Length = 61

 Score = 33.9 bits (76), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 32/60 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +++ R+ L M+Q++L   +G+T Q +   EKGV+    S  ++I  VL   +   F   P
Sbjct: 1  MKIARVSLSMTQKELANKVGVTRQTISLIEKGVHNPSLSLCKNICSVLNKNLDEIFGEKP 60


>gi|229015366|ref|ZP_04172383.1| Helix-turn-helix domain protein [Bacillus mycoides DSM 2048]
 gi|228745922|gb|EEL95908.1| Helix-turn-helix domain protein [Bacillus mycoides DSM 2048]
          Length = 157

 Score = 33.9 bits (76), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 6/62 (9%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI------SEVLES 68
          + K+I+L R   G +Q+K+ E LGI+ + + + EKG    G +    I      SEVL+S
Sbjct: 10 ISKKIKLIRTEKGYTQDKMAEVLGISKKTLVQIEKGRTNAGWTNTVAICALFRDSEVLQS 69

Query: 69 PI 70
           +
Sbjct: 70 SL 71


>gi|291286857|ref|YP_003503673.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
           DSM 12809]
 gi|290884017|gb|ADD67717.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
           DSM 12809]
          Length = 244

 Score = 33.9 bits (76), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 29/110 (26%), Positives = 50/110 (45%), Gaps = 19/110 (17%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G++I+  R I   +Q K+ + L IT+Q  Q +EK  N   + ++  I+  L    +  
Sbjct: 4   HIGEKIKDLRRIKNYTQVKIADILSITYQTYQHHEKTGN-FDSHKIIKIANALGVDYNTI 62

Query: 74  FDV------------SPTVCSDISSEENNVMDFISTPDGLQLNRY-FIQI 110
           FD+            SP V SD+     N+      PD +  N + FI +
Sbjct: 63  FDLETPASLAKNRYSSPLVSSDVQVYYGNI-----PPDVINKNAFEFIPV 107


>gi|148378839|ref|YP_001253380.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|153932486|ref|YP_001383224.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|153934537|ref|YP_001386771.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|148288323|emb|CAL82400.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|152928530|gb|ABS34030.1| HTH domain protein [Clostridium botulinum A str. ATCC 19397]
 gi|152930451|gb|ABS35950.1| HTH domain protein [Clostridium botulinum A str. Hall]
          Length = 373

 Score = 33.9 bits (76), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 25/39 (64%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          D+N+GK I  +R   G++QE+L   +G++   V K+E G
Sbjct: 3  DLNIGKCIIHKRKEKGITQEQLANYIGVSKASVSKWESG 41


>gi|295094125|emb|CBK83216.1| Predicted transcriptional regulators [Coprococcus sp. ART55/1]
          Length = 242

 Score = 33.9 bits (76), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 31/57 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G RI+  R   G++QE+  E +G++ Q V K+E+        RL  I E+L+  + 
Sbjct: 4  IGSRIQEYRKKAGLNQEEFAEKMGVSRQAVSKWERDKAYPDLDRLVCICEILDVQVG 60


>gi|223985675|ref|ZP_03635723.1| hypothetical protein HOLDEFILI_03029 [Holdemania filiformis DSM
          12042]
 gi|223962366|gb|EEF66830.1| hypothetical protein HOLDEFILI_03029 [Holdemania filiformis DSM
          12042]
          Length = 283

 Score = 33.9 bits (76), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 38/67 (56%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +K + N  +   G+ IR  R+  G +Q++LG  +GI+ + + K+E+G++    + L 
Sbjct: 5  MTEDKIMQNLTEERTGQLIRELRLKAGWTQKELGMKIGISDKAISKWERGLSFPDITLLP 64

Query: 61 HISEVLE 67
           ++EV  
Sbjct: 65 RLAEVFH 71


>gi|113460568|ref|YP_718632.1| transcriptional regulator [Haemophilus somnus 129PT]
 gi|112822611|gb|ABI24700.1| transcriptional regulator [Haemophilus somnus 129PT]
          Length = 146

 Score = 33.9 bits (76), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 34/69 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK+++  R+   ++Q++L    G+T   ++ YE G       +LQ I++ L   IS   D
Sbjct: 4  GKKLKQIRLFRKLTQKELAIMSGLTDAAIRNYELGNRSPNIEQLQKIADALNCDISALID 63

Query: 76 VSPTVCSDI 84
            P    +I
Sbjct: 64 HDPNSIFEI 72


>gi|322388761|ref|ZP_08062358.1| cro/CI family transcriptional regulator [Streptococcus infantis
          ATCC 700779]
 gi|321140380|gb|EFX35888.1| cro/CI family transcriptional regulator [Streptococcus infantis
          ATCC 700779]
          Length = 169

 Score = 33.9 bits (76), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E        +
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAE--------Y 58

Query: 74 FDVSPTVCSDISSE 87
          F+ +PT     S E
Sbjct: 59 FNATPTQLFGTSKE 72


>gi|227878081|ref|ZP_03996068.1| possible transcriptional regulator [Lactobacillus crispatus
          JV-V01]
 gi|227862319|gb|EEJ69851.1| possible transcriptional regulator [Lactobacillus crispatus
          JV-V01]
          Length = 196

 Score = 33.9 bits (76), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 33/63 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  +R  R  LG++Q+++ +   IT     K EKG NR+    L  I +     +S+
Sbjct: 1  MDIGTALRHLRDDLGLTQKQMIQGTKITVSHYSKLEKGQNRIFIENLVEILKQRNISLSY 60

Query: 73 FFD 75
          F D
Sbjct: 61 FVD 63


>gi|160933200|ref|ZP_02080589.1| hypothetical protein CLOLEP_02046 [Clostridium leptum DSM 753]
 gi|156868274|gb|EDO61646.1| hypothetical protein CLOLEP_02046 [Clostridium leptum DSM 753]
          Length = 187

 Score = 33.9 bits (76), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 18/59 (30%), Positives = 31/59 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +IR  R    ++QE+L + +G+    + KYE G+     S+LQ I+  L  P+    D+
Sbjct: 5  QIRRVRKAAHVTQEELAKRIGVNRALISKYETGIIEPSVSQLQKIASALGVPMMELLDL 63


>gi|324996098|gb|EGC28009.1| transcriptional regulator [Streptococcus sanguinis SK678]
          Length = 386

 Score = 33.9 bits (76), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 30/59 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G R++  R+    S  ++ E L ++ Q V KYEKG        L+ + + L+ P  FFF
Sbjct: 8  GARLKEARLFNKKSITQIAEFLNVSKQMVSKYEKGRATPSEESLEILEKKLKFPRDFFF 66


>gi|311278398|ref|YP_003940629.1| helix-turn-helix domain-containing protein [Enterobacter cloacae
          SCF1]
 gi|308747593|gb|ADO47345.1| helix-turn-helix domain protein [Enterobacter cloacae SCF1]
          Length = 83

 Score = 33.9 bits (76), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 34/69 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RIR  R+ +G+SQE   +  GI    +   E+GV       +  IS+ LE  +S  F
Sbjct: 11 LGERIRTLRLDMGLSQEAFADKCGIDRTYMSGIERGVRNPTLIVICAISDGLEMDLSHLF 70

Query: 75 DVSPTVCSD 83
            +    +D
Sbjct: 71 MFADGAHAD 79


>gi|302390193|ref|YP_003826014.1| helix-turn-helix domain protein [Thermosediminibacter oceani DSM
          16646]
 gi|302200821|gb|ADL08391.1| helix-turn-helix domain protein [Thermosediminibacter oceani DSM
          16646]
          Length = 121

 Score = 33.9 bits (76), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 19/74 (25%), Positives = 36/74 (48%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+GKRIR  R+   ++QE+LGE   + +  + + E+G        L  I++ L   + + 
Sbjct: 9  NIGKRIRQIRLQRDLTQEELGERANLHYSYIGQVERGDKLPSLKTLSKIAKALNVSLDYV 68

Query: 74 FDVSPTVCSDISSE 87
           +   T  +   +E
Sbjct: 69 LEDPATYEAQPDTE 82


>gi|291279081|ref|YP_003495916.1| transcriptional regulator [Deferribacter desulfuricans SSM1]
 gi|290753783|dbj|BAI80160.1| transcriptional regulator [Deferribacter desulfuricans SSM1]
          Length = 196

 Score = 33.9 bits (76), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 19/64 (29%), Positives = 33/64 (51%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DIN+G+RIR  R   GM+ + +    G +   + + E  V     + L  I+ VL   ++
Sbjct: 5  DINIGERIRKLRNDRGMTLQDVANLTGFSKALISQIENNVVMPPITTLAKIANVLNVKMT 64

Query: 72 FFFD 75
          +FF+
Sbjct: 65 YFFE 68


>gi|289168100|ref|YP_003446369.1| transcriptional regulator [Streptococcus mitis B6]
 gi|288907667|emb|CBJ22504.1| transcriptional regulator [Streptococcus mitis B6]
          Length = 288

 Score = 33.9 bits (76), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 31/104 (29%), Positives = 49/104 (47%), Gaps = 3/104 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  R++ RR  L MSQ +L E  GI  Q Q+ + E G    GA  L  +S+ L+  I +F
Sbjct: 5   LATRLKNRRKELKMSQRELAE--GICKQGQISRLENGEFTPGADFLYALSKKLKVSIDYF 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           F+       D  SE   +     T    +  +Y  +++ VKV +
Sbjct: 63  FNEQIVEEIDELSEFKKLAQTFITNRNYESLKYIYELESVKVHR 106


>gi|255024118|ref|ZP_05296104.1| transcription regulator, putative [Listeria monocytogenes FSL
          J1-208]
          Length = 110

 Score = 33.9 bits (76), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 34/63 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFD 75
          FFD
Sbjct: 61 FFD 63


>gi|239827077|ref|YP_002949701.1| XRE family transcriptional regulator [Geobacillus sp. WCH70]
 gi|239807370|gb|ACS24435.1| transcriptional regulator, XRE family [Geobacillus sp. WCH70]
          Length = 108

 Score = 33.9 bits (76), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 20/64 (31%), Positives = 34/64 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  VG+RIR  R    +S  +L + LGI+  ++ + E G   +  S +Q   E  + P+
Sbjct: 3  INKKVGERIREVRKKYNLSMMQLADELGISQPRLSRIENGDQEIPISLIQKFCERFDIPL 62

Query: 71 SFFF 74
          S FF
Sbjct: 63 SSFF 66


>gi|326201808|ref|ZP_08191679.1| Cupin 2 conserved barrel domain protein [Clostridium papyrosolvens
           DSM 2782]
 gi|325988408|gb|EGD49233.1| Cupin 2 conserved barrel domain protein [Clostridium papyrosolvens
           DSM 2782]
          Length = 182

 Score = 33.9 bits (76), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 20/93 (21%), Positives = 44/93 (47%), Gaps = 8/93 (8%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++  RI+  R++ G ++E++ E LG+   Q + YE   + +  S L  ++E+ +  I+  
Sbjct: 7   DIAVRIKGLRLLAGSTEEEVAEQLGVMLAQYKSYENAEDDIPVSLLYELAEIYKVNITEI 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
              +     DI          +   +GL++ R+
Sbjct: 67  LTGTSPKLHDICH--------VKKGEGLKVERF 91


>gi|256843791|ref|ZP_05549278.1| transcriptional regulator [Lactobacillus crispatus 125-2-CHN]
 gi|262047764|ref|ZP_06020716.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
 gi|293381647|ref|ZP_06627629.1| helix-turn-helix protein [Lactobacillus crispatus 214-1]
 gi|312977082|ref|ZP_07788831.1| helix-turn-helix domain-containing protein [Lactobacillus
          crispatus CTV-05]
 gi|256613696|gb|EEU18898.1| transcriptional regulator [Lactobacillus crispatus 125-2-CHN]
 gi|260571969|gb|EEX28537.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
 gi|290921789|gb|EFD98809.1| helix-turn-helix protein [Lactobacillus crispatus 214-1]
 gi|310896410|gb|EFQ45475.1| helix-turn-helix domain-containing protein [Lactobacillus
          crispatus CTV-05]
          Length = 270

 Score = 33.9 bits (76), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 33/63 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  +R  R  LG++Q+++ +   IT     K EKG NR+    L  I +     +S+
Sbjct: 1  MDIGTALRHLRDDLGLTQKQMIQGTKITVSHYSKLEKGQNRIFIENLVEILKQRNISLSY 60

Query: 73 FFD 75
          F D
Sbjct: 61 FVD 63


>gi|238912424|ref|ZP_04656261.1| XRE family transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Tennessee str. CDC07-0191]
          Length = 90

 Score = 33.9 bits (76), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 20/64 (31%), Positives = 34/64 (53%), Gaps = 4/64 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+   ++QEKLG   GI       +V +YE GV+R     +   + VL+ P  +F
Sbjct: 9  RLKTARLHAHLTQEKLGVLAGIEEETARSRVSQYESGVHRPTFEMMCAFARVLDVPECYF 68

Query: 74 FDVS 77
          + V+
Sbjct: 69 YVVN 72


>gi|328948101|ref|YP_004365438.1| hypothetical protein Tresu_1233 [Treponema succinifaciens DSM
          2489]
 gi|328448425|gb|AEB14141.1| helix-turn-helix domain protein [Treponema succinifaciens DSM
          2489]
          Length = 114

 Score = 33.5 bits (75), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 1/60 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          +G  IR  R+ L M+QE+L E  GIT   + K E G        ++   E+LE  P   F
Sbjct: 11 LGANIRCYRIKLKMTQEELAEKAGITSVGISKIETGKTWPKKETIEKFLEILEVKPFQLF 70


>gi|313634226|gb|EFS00863.1| DNA-binding protein [Listeria seeligeri FSL N1-067]
          Length = 104

 Score = 33.5 bits (75), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 34/63 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFD 75
          FFD
Sbjct: 61 FFD 63


>gi|229543521|ref|ZP_04432581.1| transcriptional regulator, XRE family [Bacillus coagulans 36D1]
 gi|229327941|gb|EEN93616.1| transcriptional regulator, XRE family [Bacillus coagulans 36D1]
          Length = 145

 Score = 33.5 bits (75), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 33/55 (60%), Gaps = 2/55 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N+G+ +   R+ +GMSQ +L E LG+   QV + E+  N    + ++ I +V+E+
Sbjct: 76  NIGRTLIAYRIYIGMSQAELTEKLGVAPSQVSRDER--NEYYGATIERIRDVMEA 128


>gi|311067372|ref|YP_003972295.1| putative HTH-type transcriptional regulator [Bacillus atrophaeus
          1942]
 gi|310867889|gb|ADP31364.1| putative HTH-type transcriptional regulator [Bacillus atrophaeus
          1942]
          Length = 66

 Score = 33.5 bits (75), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 18/34 (52%), Positives = 21/34 (61%), Gaps = 3/34 (8%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          K +R R    G SQEKLGE +G+T Q V   EKG
Sbjct: 6  KELRAR---FGYSQEKLGEAVGVTRQTVAAIEKG 36


>gi|91223886|ref|ZP_01259150.1| putative transcriptional regulator [Vibrio alginolyticus 12G01]
 gi|269966489|ref|ZP_06180573.1| putative transcriptional regulator [Vibrio alginolyticus 40B]
 gi|91191378|gb|EAS77643.1| putative transcriptional regulator [Vibrio alginolyticus 12G01]
 gi|269828946|gb|EEZ83196.1| putative transcriptional regulator [Vibrio alginolyticus 40B]
          Length = 185

 Score = 33.5 bits (75), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 27/60 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I   R   G+SQ +L E  GIT   +   E G      S LQ I  V    +S FF
Sbjct: 6  IGKNIVQLRKKHGLSQRELAERAGITHSAISSIENGKVSPSVSSLQKIVNVFSLSLSEFF 65


>gi|307324538|ref|ZP_07603745.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
 gi|306889782|gb|EFN20761.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
          Length = 410

 Score = 33.5 bits (75), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 14/43 (32%), Positives = 27/43 (62%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR 53
           D++VGKR+   R I  ++QE+L +  G++   +++ E+G  R
Sbjct: 2  TDLSVGKRLARLRDIRDLTQEQLADRAGVSVDTIRRLEQGTQR 44


>gi|219871029|ref|YP_002475404.1| transcriptional regulator/helix-turn-helix domain-containing
           protein [Haemophilus parasuis SH0165]
 gi|219691233|gb|ACL32456.1| transcriptional regulator/helix-turn-helix domain-containing
           protein [Haemophilus parasuis SH0165]
          Length = 129

 Score = 33.5 bits (75), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 33/130 (25%), Positives = 64/130 (49%), Gaps = 19/130 (14%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +NV ++IR  R     SQE++ E + ++     + E+G  ++   +L+ I+++L+  I  
Sbjct: 1   MNVHEKIRKLRETKLWSQEQMAEKMNMSLNGYARIERGETKLHLDKLEQIAQILDVDIVN 60

Query: 73  FFDVSP---TVCSDISS--------EENNVMDFISTPDGLQLN-RYFIQI-----DDVKV 115
              +SP    VC  I          + NN    I   + L+L+  Y  QI     D+++V
Sbjct: 61  L--ISPDDRNVCLQIGDNIHLSPVYQGNNDQSLIIEIEKLKLSLSYSQQIIEQKDDEIRV 118

Query: 116 RQKIIELVRS 125
            + +I+L++S
Sbjct: 119 LKDMIDLLKS 128


>gi|163813865|ref|ZP_02205259.1| hypothetical protein COPEUT_00018 [Coprococcus eutactus ATCC
          27759]
 gi|158450735|gb|EDP27730.1| hypothetical protein COPEUT_00018 [Coprococcus eutactus ATCC
          27759]
          Length = 351

 Score = 33.5 bits (75), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 17/62 (27%), Positives = 35/62 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R   G++QE++   LG++   V K+EKG      S L  ++ +L+  ++ 
Sbjct: 1  MRIGEQIKNYRKTAGLTQEQVANYLGVSTPAVNKWEKGNTYPDISLLPALARLLKIDMNE 60

Query: 73 FF 74
           F
Sbjct: 61 LF 62


>gi|295108966|emb|CBL22919.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 351

 Score = 33.5 bits (75), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 17/62 (27%), Positives = 35/62 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R   G++QE++   LG++   V K+EKG      S L  ++ +L+  ++ 
Sbjct: 1  MRIGEQIKNYRKTAGLTQEQVANYLGVSTPAVNKWEKGNTYPDISLLPALARLLKIDMNE 60

Query: 73 FF 74
           F
Sbjct: 61 LF 62


>gi|239814989|ref|YP_002943899.1| XRE family transcriptional regulator [Variovorax paradoxus S110]
 gi|239801566|gb|ACS18633.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 187

 Score = 33.5 bits (75), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 16/60 (26%), Positives = 31/60 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++R  RM   MS   L +  G++   + + E+G+       L+ +++ L  P+S FF
Sbjct: 6  IGAQVRALRMAAEMSAGSLAKASGVSASMLSRIERGLVSPSVETLERVAQGLHVPVSRFF 65


>gi|224024015|ref|ZP_03642381.1| hypothetical protein BACCOPRO_00732 [Bacteroides coprophilus DSM
          18228]
 gi|224017237|gb|EEF75249.1| hypothetical protein BACCOPRO_00732 [Bacteroides coprophilus DSM
          18228]
          Length = 106

 Score = 33.5 bits (75), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 16/37 (43%), Positives = 25/37 (67%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          N+G  IR  R+  G++QE+LGE +G+   Q+ K E+G
Sbjct: 7  NIGLMIRNERLRKGLTQEELGERVGVGKAQISKIERG 43


>gi|110678190|ref|YP_681197.1| transcription regulator, putative [Roseobacter denitrificans OCh
          114]
 gi|109454306|gb|ABG30511.1| transcription regulator, putative [Roseobacter denitrificans OCh
          114]
          Length = 192

 Score = 33.5 bits (75), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 23/72 (31%), Positives = 34/72 (47%), Gaps = 2/72 (2%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D +VG R++  R   GMSQ +L E  G+   Q+   E   +    + L+ I   L   +S
Sbjct: 3  DFDVGARLKAIRQQNGMSQRQLAEASGVPHGQISMIETNKSSPSVASLRKILGGLSLGMS 62

Query: 72 FFFDVSPTVCSD 83
           FF+  P V  D
Sbjct: 63 EFFE--PDVVED 72


>gi|196037154|ref|ZP_03104469.1| transcriptional regulator [Bacillus cereus W]
 gi|195990258|gb|EDX54311.1| transcriptional regulator [Bacillus cereus W]
          Length = 116

 Score = 33.5 bits (75), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 19/78 (24%), Positives = 39/78 (50%), Gaps = 2/78 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++QE+LG  +G++   +  +EKG    G   L+ I++       +  
Sbjct: 2  IGEKIKELRKNNKITQEQLGNAIGVSKMAISYFEKGKKSPGRESLEKIADYFNVTTDYLL 61

Query: 75 DVSPTVCSDISSEENNVM 92
            S     ++S EEN ++
Sbjct: 62 GRSED--PELSEEENKIV 77


>gi|282874480|ref|ZP_06283366.1| DNA-binding protein [Staphylococcus epidermidis SK135]
 gi|281296736|gb|EFA89244.1| DNA-binding protein [Staphylococcus epidermidis SK135]
          Length = 104

 Score = 33.5 bits (75), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 23/82 (28%), Positives = 43/82 (52%), Gaps = 2/82 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R +L M+QE L + L  T Q V K+EK +     + L  +S++    ++   
Sbjct: 3  LGEQIKKHRKLLNMTQEDLCQKLNTTRQTVSKWEKNMIEPDINTLLKLSDIFGISLNELI 62

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
                 ++  S+E NV +F+S
Sbjct: 63 TGEKEFINN--SKEMNVWEFLS 82


>gi|168183950|ref|ZP_02618614.1| transcriptional regulator [Clostridium botulinum Bf]
 gi|182672974|gb|EDT84935.1| transcriptional regulator [Clostridium botulinum Bf]
          Length = 92

 Score = 33.5 bits (75), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 18/59 (30%), Positives = 29/59 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G R+R  R    ++QE+LG+ L ++ Q V  YEKG N      L  I+ +    + +  
Sbjct: 3  GDRLRELREEKQLTQEELGKLLNVSRQAVSSYEKGENEPTIDALVKIANIFNVSLDYLL 61


>gi|153951325|ref|YP_001397968.1| helix-turn-helix domain-containing protein [Campylobacter jejuni
           subsp. doylei 269.97]
 gi|152938771|gb|ABS43512.1| helix-turn-helix domain protein [Campylobacter jejuni subsp. doylei
           269.97]
          Length = 188

 Score = 33.5 bits (75), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 26/45 (57%), Gaps = 3/45 (6%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
           KI N      GKR+RL R  L +SQ+++ + LGIT     + E+G
Sbjct: 84  KIHNAA---CGKRLRLLRTSLNLSQDRIAKILGITVAVYMRIERG 125


>gi|23505482|ref|NP_700411.1| regulatory protein [Salmonella phage ST64B]
 gi|168822352|ref|ZP_02834352.1| regulatory protein [Salmonella enterica subsp. enterica serovar
          Weltevreden str. HI_N05-537]
 gi|23379229|gb|AAL25916.1| Sb38 [Salmonella phage ST64B]
 gi|205341260|gb|EDZ28024.1| regulatory protein [Salmonella enterica subsp. enterica serovar
          Weltevreden str. HI_N05-537]
 gi|261247208|emb|CBG25032.1| phage encoded transcriptional regulator [Salmonella enterica
          subsp. enterica serovar Typhimurium str. D23580]
 gi|267994039|gb|ACY88924.1| regulatory protein [Salmonella enterica subsp. enterica serovar
          Typhimurium str. 14028S]
 gi|301158553|emb|CBW18064.1| predicted bacteriophage protein [Salmonella enterica subsp.
          enterica serovar Typhimurium str. SL1344]
 gi|320086315|emb|CBY96088.1| 26 kDa repressor protein Regulatory protein CI [Salmonella
          enterica subsp. enterica serovar Weltevreden str.
          2007-60-3289-1]
 gi|323130316|gb|ADX17746.1| regulatory protein [Salmonella enterica subsp. enterica serovar
          Typhimurium str. 4/74]
 gi|332988930|gb|AEF07913.1| hypothetical protein STMUK_2020 [Salmonella enterica subsp.
          enterica serovar Typhimurium str. UK-1]
          Length = 231

 Score = 33.5 bits (75), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 24/88 (27%), Positives = 39/88 (44%), Gaps = 6/88 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M   +L E +G+    + + E G  +      L  +++ L   I+
Sbjct: 1  MNIGNRVRQLRRAKNMKIAELAEAIGVDAANISRLETGKQKQFTEQTLSRLADCLGVDIA 60

Query: 72 FFFDVSP---TVC--SDISSEENNVMDF 94
            F   P   TVC  SD+  +  NV D 
Sbjct: 61 ELFTSDPKGNTVCKHSDMRKDSANVKDL 88


>gi|59801396|ref|YP_208108.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae FA 1090]
 gi|239998753|ref|ZP_04718677.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae 35/02]
 gi|240014330|ref|ZP_04721243.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae DGI18]
 gi|240016763|ref|ZP_04723303.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae FA6140]
 gi|240080961|ref|ZP_04725504.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae FA19]
 gi|240112680|ref|ZP_04727170.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae MS11]
 gi|240115427|ref|ZP_04729489.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae PID18]
 gi|240117722|ref|ZP_04731784.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae PID1]
 gi|240121893|ref|ZP_04734855.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae PID24-1]
 gi|240123275|ref|ZP_04736231.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae PID332]
 gi|240125529|ref|ZP_04738415.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae SK-92-679]
 gi|254493540|ref|ZP_05106711.1| transcriptional regulator [Neisseria gonorrhoeae 1291]
 gi|260440761|ref|ZP_05794577.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae DGI2]
 gi|268594599|ref|ZP_06128766.1| transcriptional regulator [Neisseria gonorrhoeae 35/02]
 gi|268597075|ref|ZP_06131242.1| transcriptional regulator [Neisseria gonorrhoeae FA19]
 gi|268598746|ref|ZP_06132913.1| transcriptional regulator [Neisseria gonorrhoeae MS11]
 gi|268601105|ref|ZP_06135272.1| transcriptional regulator [Neisseria gonorrhoeae PID18]
 gi|268603423|ref|ZP_06137590.1| transcriptional regulator [Neisseria gonorrhoeae PID1]
 gi|268681903|ref|ZP_06148765.1| transcriptional regulator [Neisseria gonorrhoeae PID332]
 gi|268684119|ref|ZP_06150981.1| transcriptional regulator [Neisseria gonorrhoeae SK-92-679]
 gi|291044074|ref|ZP_06569790.1| transcriptional regulator [Neisseria gonorrhoeae DGI2]
 gi|293399253|ref|ZP_06643418.1| phage repressor [Neisseria gonorrhoeae F62]
 gi|59718291|gb|AAW89696.1| putative phage repressor, putative phage associated protein
          [Neisseria gonorrhoeae FA 1090]
 gi|226512580|gb|EEH61925.1| transcriptional regulator [Neisseria gonorrhoeae 1291]
 gi|268547988|gb|EEZ43406.1| transcriptional regulator [Neisseria gonorrhoeae 35/02]
 gi|268550863|gb|EEZ45882.1| transcriptional regulator [Neisseria gonorrhoeae FA19]
 gi|268582877|gb|EEZ47553.1| transcriptional regulator [Neisseria gonorrhoeae MS11]
 gi|268585236|gb|EEZ49912.1| transcriptional regulator [Neisseria gonorrhoeae PID18]
 gi|268587554|gb|EEZ52230.1| transcriptional regulator [Neisseria gonorrhoeae PID1]
 gi|268622187|gb|EEZ54587.1| transcriptional regulator [Neisseria gonorrhoeae PID332]
 gi|268624403|gb|EEZ56803.1| transcriptional regulator [Neisseria gonorrhoeae SK-92-679]
 gi|291012537|gb|EFE04526.1| transcriptional regulator [Neisseria gonorrhoeae DGI2]
 gi|291610667|gb|EFF39777.1| phage repressor [Neisseria gonorrhoeae F62]
          Length = 126

 Score = 33.5 bits (75), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 16/50 (32%), Positives = 30/50 (60%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          GKR++  R+ LG++Q +  E  G + +   K+E+G NR  + +L   S++
Sbjct: 8  GKRLKEERIKLGLNQAEAAEKCGFSREMWGKWERGENRPSSEKLFSFSKI 57


>gi|302380010|ref|ZP_07268489.1| helix-turn-helix protein [Finegoldia magna ACS-171-V-Col3]
 gi|302312236|gb|EFK94238.1| helix-turn-helix protein [Finegoldia magna ACS-171-V-Col3]
          Length = 174

 Score = 33.5 bits (75), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 28/45 (62%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE+L   + +  Q V K+E+G++   +  L  +SE+L + +S
Sbjct: 14 GLSQEQLANEMHVVRQTVSKWERGLSVPDSDSLIKLSEILHTSVS 58


>gi|333025931|ref|ZP_08453995.1| putative DNA-binding protein [Streptomyces sp. Tu6071]
 gi|332745783|gb|EGJ76224.1| putative DNA-binding protein [Streptomyces sp. Tu6071]
          Length = 107

 Score = 33.5 bits (75), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 33/62 (53%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G+ +  RR+ LG+SQ +L E  G+T  QV + E G        L+ ++  L+  ++  
Sbjct: 33 DLGQAVHDRRVELGLSQSELAERAGMTQPQVSRMEGGDTVPTLPLLRRLARALDGALNLA 92

Query: 74 FD 75
           D
Sbjct: 93 ID 94


>gi|268686373|ref|ZP_06153235.1| transcriptional regulator [Neisseria gonorrhoeae SK-93-1035]
 gi|268626657|gb|EEZ59057.1| transcriptional regulator [Neisseria gonorrhoeae SK-93-1035]
          Length = 138

 Score = 33.5 bits (75), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 16/50 (32%), Positives = 30/50 (60%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          GKR++  R+ LG++Q +  E  G + +   K+E+G NR  + +L   S++
Sbjct: 20 GKRLKEERIKLGLNQAEAAEKCGFSREMWGKWERGENRPSSEKLFSFSKI 69


>gi|169830890|ref|YP_001716872.1| putative prophage repressor [Candidatus Desulforudis audaxviator
          MP104C]
 gi|169637734|gb|ACA59240.1| putative prophage repressor [Candidatus Desulforudis audaxviator
          MP104C]
          Length = 245

 Score = 33.5 bits (75), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 31/68 (45%), Gaps = 2/68 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G RI   R   GMSQ+KL E   +    + K E G        L  I E +   ++ 
Sbjct: 1  MDIGPRIARFRERAGMSQKKLAELAALDRSHISKIESGDTSPSLEALMRICESMGVTLAE 60

Query: 73 FF--DVSP 78
          FF  DV P
Sbjct: 61 FFGSDVQP 68


>gi|271499443|ref|YP_003332468.1| XRE family transcriptional regulator [Dickeya dadantii Ech586]
 gi|307129761|ref|YP_003881777.1| hypothetical protein Dda3937_03632 [Dickeya dadantii 3937]
 gi|270342998|gb|ACZ75763.1| transcriptional regulator, XRE family [Dickeya dadantii Ech586]
 gi|306527290|gb|ADM97220.1| hypothetical protein Dda3937_03632 [Dickeya dadantii 3937]
          Length = 88

 Score = 33.5 bits (75), Expect = 9.3,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 33/63 (52%), Gaps = 4/63 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+   ++QEKLG   GI       ++ +YE G++R     +   ++VL  P  +F
Sbjct: 5  RLKTARLQANLTQEKLGVLAGIEEATARSRISQYESGIHRPTFEMMCAFAKVLNVPECYF 64

Query: 74 FDV 76
          + V
Sbjct: 65 YTV 67


>gi|312879205|ref|ZP_07739005.1| transcriptional regulator, XRE family [Aminomonas paucivorans DSM
          12260]
 gi|310782496|gb|EFQ22894.1| transcriptional regulator, XRE family [Aminomonas paucivorans DSM
          12260]
          Length = 134

 Score = 33.5 bits (75), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 33/65 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + G RIR  R   G+ Q++L E +GI+   + + E+G        L+  S VL  P++  
Sbjct: 3  STGSRIREARKARGLEQKELAERMGISAAFLSRIERGERGCSLDLLRRASAVLGCPLAEL 62

Query: 74 FDVSP 78
           + +P
Sbjct: 63 AEETP 67


>gi|300716279|ref|YP_003741082.1| regulatory protein [Erwinia billingiae Eb661]
 gi|299062115|emb|CAX59231.1| Regulatory protein [Erwinia billingiae Eb661]
          Length = 229

 Score = 33.5 bits (75), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 30/121 (24%), Positives = 51/121 (42%), Gaps = 19/121 (15%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+RIR  R    M+   L   +G     + + E+GV     + LQ +++ L  PIS  F 
Sbjct: 4   GERIRQLRKAKKMTLNALAMQVGSDVGNLSRLERGVQGYSDALLQKLADALAVPISALFS 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNR---YFIQIDDVKVR-------QKIIELVRS 125
                    S E  N  D  S     ++ R   Y + + DV          +++++++RS
Sbjct: 64  ---------SGELKNTGDLYSVSSLTEMGRDDVYRVDVLDVSASAGEGSPAREVVQVIRS 114

Query: 126 I 126
           I
Sbjct: 115 I 115


>gi|257455466|ref|ZP_05620700.1| helix-turn-helix domain protein [Enhydrobacter aerosaccus SK60]
 gi|257447129|gb|EEV22138.1| helix-turn-helix domain protein [Enhydrobacter aerosaccus SK60]
          Length = 87

 Score = 33.5 bits (75), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 33/66 (50%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +P  +  GKRIR  R   G+SQEKL     I    + K E+G   +  +++  ISE L+ 
Sbjct: 13 HPQIVAFGKRIRTIRKQKGISQEKLALLAQIDRSYMGKIERGEFNLTLTKIYQISEALQV 72

Query: 69 PISFFF 74
           +   F
Sbjct: 73 SVVTLF 78


>gi|297587718|ref|ZP_06946362.1| DNA-binding protein [Finegoldia magna ATCC 53516]
 gi|297574407|gb|EFH93127.1| DNA-binding protein [Finegoldia magna ATCC 53516]
          Length = 172

 Score = 33.5 bits (75), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 28/45 (62%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE+L   + +  Q V K+E+G++   +  L  +SE+L + +S
Sbjct: 14 GLSQEQLANEMHVVRQTVSKWERGLSVPDSDSLIKLSEILHTSVS 58


>gi|169334705|ref|ZP_02861898.1| hypothetical protein ANASTE_01108 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169257443|gb|EDS71409.1| hypothetical protein ANASTE_01108 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 125

 Score = 33.5 bits (75), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 34/70 (48%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+GK+I+  R     SQ  L E +  + Q + K E+G+++     L  I+  L+  +   
Sbjct: 8  NLGKQIKKYRKQKKYSQSDLAEKIDKSVQHISKIERGISKASLQTLVDITNALDISMDEL 67

Query: 74 FDVSPTVCSD 83
           ++S    SD
Sbjct: 68 LNMSVKKSSD 77


>gi|84386363|ref|ZP_00989391.1| transcriptional regulator, putative [Vibrio splendidus 12B01]
 gi|84378787|gb|EAP95642.1| transcriptional regulator, putative [Vibrio splendidus 12B01]
          Length = 101

 Score = 33.5 bits (75), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 26/86 (30%), Positives = 44/86 (51%), Gaps = 14/86 (16%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHI 62
          I NP+ +    R++  R    +SQ++LG  +GI       ++ +YEKG +    S L+ +
Sbjct: 3  IDNPIPM----RLKEVRKKAKISQKELGVRIGIDESSASARMNQYEKGKHTPDISTLKKM 58

Query: 63 SEVLESPISFFFDVSPTVCSDISSEE 88
           + L  P+++FF      C D SS E
Sbjct: 59 GDELGVPLNYFF------CEDESSAE 78


>gi|303235344|ref|ZP_07321962.1| helix-turn-helix protein [Finegoldia magna BVS033A4]
 gi|302493658|gb|EFL53446.1| helix-turn-helix protein [Finegoldia magna BVS033A4]
          Length = 174

 Score = 33.5 bits (75), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 28/45 (62%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+SQE+L   + +  Q V K+E+G++   +  L  +SE+L + +S
Sbjct: 14 GLSQEQLANEMHVVRQTVSKWERGLSVPDSDSLIKLSEILHTSVS 58


>gi|295110793|emb|CBL24746.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 104

 Score = 33.5 bits (75), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          N+ K +   R    +SQE+  E +G+T Q V ++E GV+    + L  ISE    P+
Sbjct: 10 NIAKAVLKIRQDNKLSQEQFAEMVGVTRQAVSRWEMGVSVPNINTLILISEKFAIPV 66


>gi|255532160|ref|YP_003092532.1| helix-turn-helix domain-containing protein [Pedobacter heparinus
          DSM 2366]
 gi|255345144|gb|ACU04470.1| helix-turn-helix domain protein [Pedobacter heparinus DSM 2366]
          Length = 109

 Score = 33.5 bits (75), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 18/69 (26%), Positives = 34/69 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++ R+ R   G++Q+ + + L I+     K E G+     SR+  I+EV    +  F 
Sbjct: 4  LGEKFRILRQKKGVNQKAMADLLEISIPAYSKLETGITDPNFSRINQIAEVHNLTLREFL 63

Query: 75 DVSPTVCSD 83
          D+     S+
Sbjct: 64 DIGEEGVSE 72


>gi|163813936|ref|ZP_02205330.1| hypothetical protein COPEUT_00089 [Coprococcus eutactus ATCC
          27759]
 gi|158450806|gb|EDP27801.1| hypothetical protein COPEUT_00089 [Coprococcus eutactus ATCC
          27759]
          Length = 242

 Score = 33.5 bits (75), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 31/57 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G RI+  R   G++QE+  E +G++ Q V K+E+        RL  I E+L+  + 
Sbjct: 4  IGSRIQEYRKKAGLNQEEFAEKMGVSRQAVSKWERDKAYPDLDRLVCICEILDVQVG 60


>gi|154499890|ref|ZP_02037928.1| hypothetical protein BACCAP_03547 [Bacteroides capillosus ATCC
          29799]
 gi|150271488|gb|EDM98745.1| hypothetical protein BACCAP_03547 [Bacteroides capillosus ATCC
          29799]
          Length = 451

 Score = 33.5 bits (75), Expect = 9.6,   Method: Composition-based stats.
 Identities = 17/46 (36%), Positives = 27/46 (58%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          K++P+   I  G  I   R   GM+Q++L   LGI+ + V K+E+G
Sbjct: 30 KEVPHMDSIRTGSFIASLRREKGMTQKELASLLGISDKAVSKWERG 75


>gi|307292240|ref|ZP_07572104.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|306496746|gb|EFM66299.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
          Length = 270

 Score = 33.5 bits (75), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEV 65
          VG RIR  R  L +S EK G+ +G +    V  +E+G+N      L  I+E+
Sbjct: 8  VGNRIRQIRQELKLSMEKFGKLIGDLPRSTVNNWERGINLPKTETLHQIAEI 59


>gi|302189709|ref|ZP_07266382.1| prophage PSPPH03, Cro/CI family transcriptional regulator
          [Pseudomonas syringae pv. syringae 642]
          Length = 290

 Score = 33.5 bits (75), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 33/61 (54%), Gaps = 3/61 (4%)

Query: 26 LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDIS 85
          L +SQ+K+ +  G+T   V  Y KG+N +       +S +L+ P+  F   SP +  +I+
Sbjct: 29 LKLSQKKIADEAGMTPAAVNLYFKGINPLNTRFAAVLSRMLQEPVESF---SPRLAKEIA 85

Query: 86 S 86
          S
Sbjct: 86 S 86


>gi|283782998|ref|YP_003373752.1| DNA-binding protein [Gardnerella vaginalis 409-05]
 gi|283441145|gb|ADB13611.1| DNA-binding protein [Gardnerella vaginalis 409-05]
          Length = 210

 Score = 33.5 bits (75), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 25/105 (23%), Positives = 50/105 (47%), Gaps = 13/105 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++IR  R+  G++QE+L E + ++   V K+E G      + L+ I++ L   +    
Sbjct: 3   LGEKIRNARVEAGLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKVIADALGVTVDHLL 62

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           D            ++N +D       + L +Y +  + + VR+KI
Sbjct: 63  D------------KDNAIDLSIIKKPIDLAKYGLN-EKLSVRKKI 94


>gi|253987942|ref|YP_003039298.1| transcription regulator [Photorhabdus asymbiotica subsp.
          asymbiotica ATCC 43949]
 gi|253779392|emb|CAQ82553.1| similar to transcription regulator and to restriction enzyme
          contro elements [Photorhabdus asymbiotica]
          Length = 78

 Score = 33.5 bits (75), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 33/72 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN +    G+R+R  R   GMSQE   +  GI    +   E+G+       +  I+  
Sbjct: 2  KKPNAIKSLFGQRVRHLRQSSGMSQEAFADKCGIDRTYISGIERGIRNPTLEVINIIASG 61

Query: 66 LESPISFFFDVS 77
          L+  ++  FD S
Sbjct: 62 LQIELTDLFDFS 73


>gi|28631122|gb|AAO49680.1| Eag0009 [Haemophilus influenzae]
 gi|301169931|emb|CBW29535.1| unnamed protein product [Haemophilus influenzae 10810]
          Length = 130

 Score = 33.5 bits (75), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 31/128 (24%), Positives = 58/128 (45%), Gaps = 18/128 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI---- 70
           V  +IR+ R I   SQE++ E L ++     K E+G + +   +LQ I+ V    +    
Sbjct: 3   VHDKIRVMREINQWSQEEMAEKLSMSPNGYAKIERGQSSINLDKLQQIANVFNIDMGELI 62

Query: 71  -----SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI--------QIDDVKVRQ 117
                S FF V      ++++      + + T +  +LN            + D++K  +
Sbjct: 63  TCKDRSIFFAVGGDNSYNLTNSHFGTNEVL-TAENEKLNSLLTMKDTLLAQKDDEIKALK 121

Query: 118 KIIELVRS 125
           +IIEL++S
Sbjct: 122 EIIELLKS 129


>gi|315281473|ref|ZP_07870091.1| DNA-binding protein [Listeria marthii FSL S4-120]
 gi|313614873|gb|EFR88399.1| DNA-binding protein [Listeria marthii FSL S4-120]
          Length = 180

 Score = 33.5 bits (75), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 34/63 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFD 75
          FFD
Sbjct: 61 FFD 63


>gi|303239079|ref|ZP_07325609.1| helix-turn-helix domain protein [Acetivibrio cellulolyticus CD2]
 gi|302593417|gb|EFL63135.1| helix-turn-helix domain protein [Acetivibrio cellulolyticus CD2]
          Length = 147

 Score = 33.5 bits (75), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 37/65 (56%), Gaps = 4/65 (6%)

Query: 15 VGKRI--RLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + KRI  ++R +   +S+E+  E +   +T Q + + EKG+ +     LQ ISE    P+
Sbjct: 9  LAKRIGAKIRGIRGNLSREEFVEAIDRIVTPQSLYRVEKGLRKASDKVLQKISEKFNKPL 68

Query: 71 SFFFD 75
          S+F++
Sbjct: 69 SWFYE 73


>gi|296272112|ref|YP_003654743.1| XRE family transcriptional regulator [Arcobacter nitrofigilis DSM
          7299]
 gi|296096287|gb|ADG92237.1| transcriptional regulator, XRE family [Arcobacter nitrofigilis
          DSM 7299]
          Length = 197

 Score = 33.5 bits (75), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 21/80 (26%), Positives = 41/80 (51%), Gaps = 2/80 (2%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + NVGK+I+  R    M+ ++L +  GI++  +   E G  +     L+ +++VL   I+
Sbjct: 4  EFNVGKKIKFLRKEKKMNAKELAKDAGISYGMLSLLESGSTQGSVETLRKVAKVLGVTIA 63

Query: 72 FFFDVSPTVCSDISSEENNV 91
            F  S    SD+++   N+
Sbjct: 64 HLFTNSED--SDLATSPKNL 81


>gi|251779491|ref|ZP_04822411.1| helix-turn-helix domain protein [Clostridium botulinum E1 str.
          'BoNT E Beluga']
 gi|243083806|gb|EES49696.1| helix-turn-helix domain protein [Clostridium botulinum E1 str.
          'BoNT E Beluga']
          Length = 164

 Score = 33.5 bits (75), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 14/72 (19%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+GK I+  R + G++Q++ G  +  +   ++KYE G   +              P+S 
Sbjct: 9  INIGKNIKHYRKLEGLTQKEFGAKIHKSEISIRKYESGKGNI--------------PMST 54

Query: 73 FFDVSPTVCSDI 84
          FFD++ +   +I
Sbjct: 55 FFDIARSFNINI 66


>gi|223983505|ref|ZP_03633690.1| hypothetical protein HOLDEFILI_00971 [Holdemania filiformis DSM
          12042]
 gi|223964500|gb|EEF68827.1| hypothetical protein HOLDEFILI_00971 [Holdemania filiformis DSM
          12042]
          Length = 270

 Score = 33.5 bits (75), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 18/54 (33%), Positives = 31/54 (57%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +N  ++++ RR  +G SQE+L   L ++ Q V K+E G       +L  +SE+L
Sbjct: 1  MNFAQKLQKRRKEVGFSQEQLAFELNVSRQAVSKWESGQGYPEVEKLIQLSELL 54


>gi|328475511|gb|EGF46270.1| transcription regulator [Listeria monocytogenes 220]
          Length = 180

 Score = 33.5 bits (75), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 34/63 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFD 75
          FFD
Sbjct: 61 FFD 63


>gi|229008902|ref|ZP_04166256.1| hypothetical protein bmyco0002_56320 [Bacillus mycoides Rock1-4]
 gi|228752339|gb|EEM02013.1| hypothetical protein bmyco0002_56320 [Bacillus mycoides Rock1-4]
          Length = 218

 Score = 33.5 bits (75), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 16/52 (30%), Positives = 31/52 (59%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          +++GK I+  R    +SQ++LGE  G++ + V  +EKG+       +Q I++
Sbjct: 1  MSIGKNIKKLRDKHNLSQKELGEIAGVSDKAVSTWEKGLKEPRMGVIQKIAD 52


>gi|270262720|ref|ZP_06190991.1| transcriptional regulatory protein [Serratia odorifera 4Rx13]
 gi|270043404|gb|EFA16497.1| transcriptional regulatory protein [Serratia odorifera 4Rx13]
          Length = 185

 Score = 33.5 bits (75), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 20/64 (31%), Positives = 32/64 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V +  GKR+   R+ LG+SQ ++ E  G+T   +   E+       S LQ + +V    +
Sbjct: 4  VSLAPGKRLSQIRLQLGLSQRRVAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSL 63

Query: 71 SFFF 74
          S FF
Sbjct: 64 SAFF 67


>gi|222530625|ref|YP_002574507.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
          DSM 6725]
 gi|222457472|gb|ACM61734.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          bescii DSM 6725]
          Length = 118

 Score = 33.5 bits (75), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKR++  R   G +QE++ + LGIT +Q+  YE G   V    L  ++ +     ++  
Sbjct: 9  IGKRLQELRKQRGFTQEQVAKYLGITQEQLSHYENGKREVSVDILLQLARLYGCDYNYLL 68

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
                   I+   N   D IS  D
Sbjct: 69 GEEQNTDEQITM--NFRADEISDED 91


Searching..................................................done


Results from round 2




>gi|254780424|ref|YP_003064837.1| transcriptional regulator protein [Candidatus Liberibacter
           asiaticus str. psy62]
 gi|254040101|gb|ACT56897.1| transcriptional regulator protein [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 144

 Score =  227 bits (579), Expect = 4e-58,   Method: Composition-based stats.
 Identities = 144/144 (100%), Positives = 144/144 (100%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ
Sbjct: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII
Sbjct: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120

Query: 121 ELVRSIVSSEKKYRTIEEECMVEQ 144
           ELVRSIVSSEKKYRTIEEECMVEQ
Sbjct: 121 ELVRSIVSSEKKYRTIEEECMVEQ 144


>gi|315122130|ref|YP_004062619.1| transcriptional regulator protein [Candidatus Liberibacter
           solanacearum CLso-ZC1]
 gi|313495532|gb|ADR52131.1| transcriptional regulator protein [Candidatus Liberibacter
           solanacearum CLso-ZC1]
          Length = 145

 Score =  206 bits (526), Expect = 7e-52,   Method: Composition-based stats.
 Identities = 108/139 (77%), Positives = 119/139 (85%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+GNKK PNPVDINVGKRIRLRR ILGMSQEKLG+ LGITFQQVQKYEKGVNRVGASRLQ
Sbjct: 1   MIGNKKTPNPVDINVGKRIRLRRTILGMSQEKLGDSLGITFQQVQKYEKGVNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           +IS  L+ PISFFFD  P VCS   SEENN+MDF+S+ DGLQLNR+F QI DVKVRQKII
Sbjct: 61  NISRALDIPISFFFDDPPEVCSGALSEENNIMDFLSSSDGLQLNRHFTQIKDVKVRQKII 120

Query: 121 ELVRSIVSSEKKYRTIEEE 139
           +LV+SIVS EK    +EEE
Sbjct: 121 DLVKSIVSLEKSTIALEEE 139


>gi|163757744|ref|ZP_02164833.1| dna-binding protein [Hoeflea phototrophica DFL-43]
 gi|162285246|gb|EDQ35528.1| dna-binding protein [Hoeflea phototrophica DFL-43]
          Length = 139

 Score =  203 bits (517), Expect = 7e-51,   Method: Composition-based stats.
 Identities = 80/139 (57%), Positives = 106/139 (76%), Gaps = 6/139 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGEALGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+ +P   +        ++  N V+DF+S+ +GLQLNR FI+I D K
Sbjct: 61  NISTILNVPVSFFFEDAPGDPATGQPGMAEANSSNYVVDFLSSSEGLQLNRAFIKIPDPK 120

Query: 115 VRQKIIELVRSIVSSEKKY 133
           VR+++++LV+S+ S  +  
Sbjct: 121 VRRRLVDLVKSLASDPETD 139


>gi|241202771|ref|YP_002973867.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240856661|gb|ACS54328.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 138

 Score =  203 bits (516), Expect = 9e-51,   Method: Composition-based stats.
 Identities = 81/134 (60%), Positives = 105/134 (78%), Gaps = 5/134 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDIS-----SEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
           +IS +L  P+SFFF+ +P   S+       S  N V+DF+S+ +GLQLNR F++I D KV
Sbjct: 61  NISNILNVPVSFFFEDAPGEHSNAGGGMETSSSNYVVDFLSSSEGLQLNRAFVKISDPKV 120

Query: 116 RQKIIELVRSIVSS 129
           R+K++ELV+++ + 
Sbjct: 121 RRKVVELVKALAAE 134


>gi|116250159|ref|YP_765997.1| HTH-type transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|115254807|emb|CAK05881.1| putative HTH-type transcriptional regulator [Rhizobium
           leguminosarum bv. viciae 3841]
          Length = 138

 Score =  201 bits (512), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 81/134 (60%), Positives = 105/134 (78%), Gaps = 5/134 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
           +IS +L  P+SFFF+ +P   S       +S  N V+DF+S+ +GLQLNR F++I D KV
Sbjct: 61  NISNILNVPVSFFFEDAPGEHSSAGGGMEASSSNYVVDFLSSSEGLQLNRAFVKISDPKV 120

Query: 116 RQKIIELVRSIVSS 129
           R+K++ELV+++ + 
Sbjct: 121 RRKVVELVKALAAE 134


>gi|227820634|ref|YP_002824604.1| putative transcriptional regulator [Sinorhizobium fredii NGR234]
 gi|227339633|gb|ACP23851.1| putative transcriptional regulator [Sinorhizobium fredii NGR234]
          Length = 136

 Score =  200 bits (509), Expect = 5e-50,   Method: Composition-based stats.
 Identities = 80/135 (59%), Positives = 105/135 (77%), Gaps = 3/135 (2%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MVENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           +IS +L  P+SFFF+ +P       +E    N V+DF+S+ +GLQLNR F++I D KVR+
Sbjct: 61  NISSILNVPVSFFFEDAPGEAGSGMAEAPSSNYVVDFLSSSEGLQLNRAFVKISDPKVRR 120

Query: 118 KIIELVRSIVSSEKK 132
           K+++LV+++ +  + 
Sbjct: 121 KLVDLVKALAAEAES 135


>gi|190890041|ref|YP_001976583.1| transcriptional regulator protein [Rhizobium etli CIAT 652]
 gi|218510206|ref|ZP_03508084.1| probable transcriptional regulator protein [Rhizobium etli Brasil
           5]
 gi|218670147|ref|ZP_03519818.1| probable transcriptional regulator protein [Rhizobium etli GR56]
 gi|190695320|gb|ACE89405.1| probable transcriptional regulator protein [Rhizobium etli CIAT
           652]
 gi|327188600|gb|EGE55810.1| putative transcriptional regulator protein [Rhizobium etli
           CNPAF512]
          Length = 139

 Score =  200 bits (508), Expect = 7e-50,   Method: Composition-based stats.
 Identities = 81/135 (60%), Positives = 105/135 (77%), Gaps = 6/135 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+ +P   S        +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 61  NISSILNVPVSFFFEDAPGEHSGAIGGMAEASSSNYVVDFLSSSEGLQLNRAFVKISDPK 120

Query: 115 VRQKIIELVRSIVSS 129
           VR+K++ELV+++ + 
Sbjct: 121 VRRKVVELVKALAAE 135


>gi|159184276|ref|NP_353393.2| transcriptional regulator [Agrobacterium tumefaciens str. C58]
 gi|159139603|gb|AAK86178.2| transcriptional regulator [Agrobacterium tumefaciens str. C58]
          Length = 139

 Score =  199 bits (506), Expect = 1e-49,   Method: Composition-based stats.
 Identities = 79/135 (58%), Positives = 104/135 (77%), Gaps = 6/135 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSP------TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+ +P      T     +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 61  NISGILNVPVSFFFEDAPGDQVGGTSGMAEASSSNYVVDFLSSAEGLQLNRAFVKIADPK 120

Query: 115 VRQKIIELVRSIVSS 129
           VR+++++LV+++ + 
Sbjct: 121 VRRRLVDLVKALAAE 135


>gi|325291795|ref|YP_004277659.1| transcriptional regulator [Agrobacterium sp. H13-3]
 gi|325059648|gb|ADY63339.1| transcriptional regulator [Agrobacterium sp. H13-3]
          Length = 140

 Score =  198 bits (505), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 80/135 (59%), Positives = 104/135 (77%), Gaps = 6/135 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 2   MTENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 61

Query: 61  HISEVLESPISFFFDVSP------TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+ +P      T     +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 62  NISAILNVPVSFFFEDAPGDQAVGTTGMAEASSSNYVVDFLSSAEGLQLNRAFVKIADPK 121

Query: 115 VRQKIIELVRSIVSS 129
           VR+++++LV+S+ + 
Sbjct: 122 VRRRLVDLVKSLAAE 136


>gi|222084698|ref|YP_002543227.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221722146|gb|ACM25302.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 139

 Score =  197 bits (502), Expect = 4e-49,   Method: Composition-based stats.
 Identities = 80/135 (59%), Positives = 105/135 (77%), Gaps = 6/135 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+ +P   +        +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 61  NISSILNVPVSFFFEDAPGDHTTTAGGLAEASSSNYVVDFLSSSEGLQLNRAFVKISDGK 120

Query: 115 VRQKIIELVRSIVSS 129
           VR+K++ELV+++ + 
Sbjct: 121 VRRKVVELVKALAAE 135


>gi|222147356|ref|YP_002548313.1| transcriptional regulator [Agrobacterium vitis S4]
 gi|221734346|gb|ACM35309.1| transcriptional regulator [Agrobacterium vitis S4]
          Length = 140

 Score =  197 bits (501), Expect = 4e-49,   Method: Composition-based stats.
 Identities = 78/136 (57%), Positives = 105/136 (77%), Gaps = 7/136 (5%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MLENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTV-------CSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           +IS +L  P+SFFF+ +P             ++  N V+DF+S+ +GLQLNR F++I+D 
Sbjct: 61  NISSILNVPVSFFFEDAPGEQVVAGANGFSEAASSNYVVDFLSSSEGLQLNRAFVKINDP 120

Query: 114 KVRQKIIELVRSIVSS 129
           KVR+K+++LV+++ + 
Sbjct: 121 KVRRKVVDLVKALAAD 136


>gi|153008089|ref|YP_001369304.1| XRE family transcriptional regulator [Ochrobactrum anthropi ATCC
           49188]
 gi|151559977|gb|ABS13475.1| transcriptional regulator, XRE family [Ochrobactrum anthropi ATCC
           49188]
          Length = 135

 Score =  196 bits (500), Expect = 6e-49,   Method: Composition-based stats.
 Identities = 77/133 (57%), Positives = 102/133 (76%), Gaps = 4/133 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+D++VG RIRLRR +LG+SQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDVHVGSRIRLRRNMLGLSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENN----VMDFISTPDGLQLNRYFIQIDDVKVR 116
            IS +L  P+SFFF+ +P   +     E+N    V+DF+++ +G+QL R F +I D KVR
Sbjct: 61  AISAILNVPVSFFFEDAPGSSNQAGFAEDNEATYVVDFLNSNEGVQLTRAFTKISDPKVR 120

Query: 117 QKIIELVRSIVSS 129
           +KII+LV+S+ + 
Sbjct: 121 RKIIDLVKSLAAD 133


>gi|239833207|ref|ZP_04681536.1| DNA-binding-domin protein [Ochrobactrum intermedium LMG 3301]
 gi|239825474|gb|EEQ97042.1| DNA-binding-domin protein [Ochrobactrum intermedium LMG 3301]
          Length = 135

 Score =  196 bits (500), Expect = 7e-49,   Method: Composition-based stats.
 Identities = 77/133 (57%), Positives = 102/133 (76%), Gaps = 4/133 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+D++VG RIRLRR +LG+SQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDVHVGSRIRLRRNMLGLSQEKLGENLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENN----VMDFISTPDGLQLNRYFIQIDDVKVR 116
            IS +L  P+SFFF+ +P   +     E+N    V+DF+++ +G+QL R F +I D KVR
Sbjct: 61  AISAILNVPVSFFFEDAPGSSNQAGFAEDNEATYVVDFLNSNEGVQLTRAFTKISDPKVR 120

Query: 117 QKIIELVRSIVSS 129
           +KII+LV+S+ + 
Sbjct: 121 RKIIDLVKSLAAD 133


>gi|254470793|ref|ZP_05084196.1| dna-binding protein [Pseudovibrio sp. JE062]
 gi|211959935|gb|EEA95132.1| dna-binding protein [Pseudovibrio sp. JE062]
          Length = 135

 Score =  195 bits (497), Expect = 1e-48,   Method: Composition-based stats.
 Identities = 74/133 (55%), Positives = 103/133 (77%), Gaps = 5/133 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           +KK PNP+D++VG R+RLRRM+LGMSQEKLGE LGITFQQ+QKYEKG NR+GASRLQHI+
Sbjct: 3   SKKAPNPIDVHVGSRVRLRRMMLGMSQEKLGESLGITFQQIQKYEKGTNRIGASRLQHIA 62

Query: 64  EVLESPISFFFDVSPTVCSDISS-----EENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            +L+ P++FFF+ +P    +        +   V+DF+S+ DGL LN+ F++I++ KVR+K
Sbjct: 63  TILKVPVAFFFEDAPGTPDETPGVGDNPQTTYVVDFLSSSDGLALNKAFVRIENPKVRKK 122

Query: 119 IIELVRSIVSSEK 131
           ++ELV+SI   E 
Sbjct: 123 VVELVKSIAGDED 135


>gi|307942740|ref|ZP_07658085.1| transcriptional regulator protein [Roseibium sp. TrichSKD4]
 gi|307773536|gb|EFO32752.1| transcriptional regulator protein [Roseibium sp. TrichSKD4]
          Length = 135

 Score =  195 bits (497), Expect = 1e-48,   Method: Composition-based stats.
 Identities = 74/132 (56%), Positives = 104/132 (78%), Gaps = 5/132 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           +KK PNP+D++VG R+RLRRM+LGMSQEKLGE LGITFQQ+QKYEKG NR+GASRLQHI+
Sbjct: 3   SKKAPNPIDVHVGSRVRLRRMMLGMSQEKLGESLGITFQQIQKYEKGTNRIGASRLQHIA 62

Query: 64  EVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            +L+ P++FFF+ +P    +      +   + V+DF+S+ +GL LN+ F++IDD KVR++
Sbjct: 63  TILKVPVAFFFEDAPGTPEEAEGFGEAQPTSYVVDFLSSSEGLSLNKAFVRIDDPKVRRR 122

Query: 119 IIELVRSIVSSE 130
           I++LVRS+   E
Sbjct: 123 IVDLVRSLAGDE 134


>gi|90420537|ref|ZP_01228444.1| transcriptional regulator [Aurantimonas manganoxydans SI85-9A1]
 gi|90335265|gb|EAS49018.1| transcriptional regulator [Aurantimonas manganoxydans SI85-9A1]
          Length = 139

 Score =  195 bits (496), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 82/139 (58%), Positives = 106/139 (76%), Gaps = 5/139 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV NKK PNPVDI+VG R+RLRR +LGMSQEKLGE LGITFQQ+QKYEKG NR+GASRLQ
Sbjct: 1   MVDNKKKPNPVDIHVGSRVRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRIGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
            ISEV+  P+SFFF+ +PT  +        S  + V+DF+S+ +GLQLNR F++I D KV
Sbjct: 61  RISEVMTVPVSFFFEDAPTGMTGSESLQEPSSPDYVVDFLSSSEGLQLNRAFVRISDPKV 120

Query: 116 RQKIIELVRSIVSSEKKYR 134
           R+++I+LVR++  S +   
Sbjct: 121 RRRVIDLVRTLADSGETDS 139


>gi|110636247|ref|YP_676455.1| XRE family transcriptional regulator [Mesorhizobium sp. BNC1]
 gi|110287231|gb|ABG65290.1| transcriptional regulator, XRE family [Chelativorans sp. BNC1]
          Length = 140

 Score =  194 bits (493), Expect = 4e-48,   Method: Composition-based stats.
 Identities = 71/133 (53%), Positives = 99/133 (74%), Gaps = 5/133 (3%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
             +KK PNP+D++VG RIRLRR +LG+SQEKLGE LGITFQQ+QKYEKG NRVGASRLQ 
Sbjct: 3   TNDKKRPNPIDVHVGSRIRLRRNMLGISQEKLGESLGITFQQIQKYEKGTNRVGASRLQA 62

Query: 62  ISEVLESPISFFFDVSPTVCSD-----ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           I+ +L +P+SFFF+ +P    D            V DF+S+ +G+QLNR F++I D KVR
Sbjct: 63  IASILNAPVSFFFEGAPNEDGDPVAGLAEEGTPYVGDFLSSSEGIQLNRAFVRITDPKVR 122

Query: 117 QKIIELVRSIVSS 129
           +++++LV+++ + 
Sbjct: 123 RRVLDLVKALATD 135


>gi|209547626|ref|YP_002279543.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209533382|gb|ACI53317.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
          Length = 139

 Score =  193 bits (492), Expect = 6e-48,   Method: Composition-based stats.
 Identities = 79/135 (58%), Positives = 102/135 (75%), Gaps = 6/135 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDV------SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+               +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 61  NISNILNVPVSFFFEDAPGEHAGAGGGMAEASSSNYVVDFLSSSEGLQLNRAFVKISDPK 120

Query: 115 VRQKIIELVRSIVSS 129
           VR+K++ELV+++ + 
Sbjct: 121 VRRKVVELVKALAAE 135


>gi|86356028|ref|YP_467920.1| transcriptional regulator protein [Rhizobium etli CFN 42]
 gi|86280130|gb|ABC89193.1| probable transcriptional regulator protein [Rhizobium etli CFN 42]
          Length = 139

 Score =  192 bits (489), Expect = 1e-47,   Method: Composition-based stats.
 Identities = 79/135 (58%), Positives = 102/135 (75%), Gaps = 6/135 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDV------SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS +L  P+SFFF+               +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 61  NISSILNVPVSFFFEDAPGEHAGAAGGMAEASSSNYVVDFLSSSEGLQLNRAFVKISDPK 120

Query: 115 VRQKIIELVRSIVSS 129
           VR+K++ELV+++ + 
Sbjct: 121 VRRKVVELVKALAAE 135


>gi|15964163|ref|NP_384516.1| DNA-binding protein [Sinorhizobium meliloti 1021]
 gi|150395273|ref|YP_001325740.1| XRE family transcriptional regulator [Sinorhizobium medicae WSM419]
 gi|307301308|ref|ZP_07581070.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
 gi|307317979|ref|ZP_07597416.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|160358932|sp|A6U5H5|Y045_SINMW RecName: Full=Uncharacterized HTH-type transcriptional regulator
           Smed_0045
 gi|160358955|sp|P0C5S2|Y410_RHIME RecName: Full=Uncharacterized HTH-type transcriptional regulator
           R00410
 gi|2564960|gb|AAB81868.1| DNA-binding protein [Sinorhizobium medicae WSM419]
 gi|15073339|emb|CAC41847.1| Transcription regulator [Sinorhizobium meliloti 1021]
 gi|150026788|gb|ABR58905.1| transcriptional regulator, XRE family [Sinorhizobium medicae
           WSM419]
 gi|306896381|gb|EFN27130.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306903764|gb|EFN34351.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
          Length = 139

 Score =  192 bits (489), Expect = 1e-47,   Method: Composition-based stats.
 Identities = 79/138 (57%), Positives = 106/138 (76%), Gaps = 6/138 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDIHVGSRIRLRRTMLGMSQEKLGESLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +IS++L  P+SFFF+ +P            +S  N V+DF+S+ +GLQLNR F++I D K
Sbjct: 61  NISQILNVPVSFFFEDAPGDGGGTGPGMAEASSSNYVVDFLSSSEGLQLNRAFVKISDPK 120

Query: 115 VRQKIIELVRSIVSSEKK 132
           VR+K+++LV+++ +  + 
Sbjct: 121 VRRKLVDLVKALAAEAES 138


>gi|17988254|ref|NP_540888.1| transcriptional regulator [Brucella melitensis bv. 1 str. 16M]
 gi|23503007|ref|NP_699134.1| Cro/CI family transcriptional regulator [Brucella suis 1330]
 gi|62290996|ref|YP_222789.1| Cro/CI family transcriptional regulator [Brucella abortus bv. 1
           str. 9-941]
 gi|82700905|ref|YP_415479.1| helix-hairpin-helix DNA-binding domain-containing protein [Brucella
           melitensis biovar Abortus 2308]
 gi|148558969|ref|YP_001259953.1| Cro/CI family transcriptional regulator [Brucella ovis ATCC 25840]
 gi|161620067|ref|YP_001593954.1| hypothetical protein BCAN_A2201 [Brucella canis ATCC 23365]
 gi|163844172|ref|YP_001628577.1| hypothetical protein BSUIS_A1996 [Brucella suis ATCC 23445]
 gi|189025208|ref|YP_001935976.1| Helix-turn-helix motif [Brucella abortus S19]
 gi|225626524|ref|ZP_03784563.1| DNA-binding domain protein [Brucella ceti str. Cudo]
 gi|225853584|ref|YP_002733817.1| XRE family transcriptional regulator [Brucella melitensis ATCC
           23457]
 gi|237816498|ref|ZP_04595491.1| DNA-binding protein [Brucella abortus str. 2308 A]
 gi|254690290|ref|ZP_05153544.1| transcriptional regulator, XRE family protein [Brucella abortus bv.
           6 str. 870]
 gi|254694778|ref|ZP_05156606.1| transcriptional regulator, XRE family protein [Brucella abortus bv.
           3 str. Tulya]
 gi|254696406|ref|ZP_05158234.1| transcriptional regulator, XRE family protein [Brucella abortus bv.
           2 str. 86/8/59]
 gi|254700788|ref|ZP_05162616.1| transcriptional regulator, XRE family protein [Brucella suis bv. 5
           str. 513]
 gi|254705157|ref|ZP_05166985.1| transcriptional regulator, XRE family protein [Brucella suis bv. 3
           str. 686]
 gi|254707325|ref|ZP_05169153.1| transcriptional regulator, XRE family protein [Brucella
           pinnipedialis M163/99/10]
 gi|254709133|ref|ZP_05170944.1| transcriptional regulator, XRE family protein [Brucella
           pinnipedialis B2/94]
 gi|254713442|ref|ZP_05175253.1| transcriptional regulator, XRE family protein [Brucella ceti
           M644/93/1]
 gi|254716202|ref|ZP_05178013.1| transcriptional regulator, XRE family protein [Brucella ceti
           M13/05/1]
 gi|254718196|ref|ZP_05180007.1| transcriptional regulator, XRE family protein [Brucella sp. 83/13]
 gi|254731319|ref|ZP_05189897.1| transcriptional regulator, XRE family protein [Brucella abortus bv.
           4 str. 292]
 gi|256030658|ref|ZP_05444272.1| transcriptional regulator, XRE family protein [Brucella
           pinnipedialis M292/94/1]
 gi|256045762|ref|ZP_05448640.1| transcriptional regulator, XRE family protein [Brucella melitensis
           bv. 1 str. Rev.1]
 gi|256060119|ref|ZP_05450301.1| transcriptional regulator, XRE family protein [Brucella neotomae
           5K33]
 gi|256112481|ref|ZP_05453402.1| transcriptional regulator, XRE family protein [Brucella melitensis
           bv. 3 str. Ether]
 gi|256158660|ref|ZP_05456543.1| transcriptional regulator, XRE family protein [Brucella ceti
           M490/95/1]
 gi|256254064|ref|ZP_05459600.1| transcriptional regulator, XRE family protein [Brucella ceti B1/94]
 gi|256258543|ref|ZP_05464079.1| transcriptional regulator, XRE family protein [Brucella abortus bv.
           9 str. C68]
 gi|256262932|ref|ZP_05465464.1| helix-turn-helix domain-containing protein [Brucella melitensis bv.
           2 str. 63/9]
 gi|256370554|ref|YP_003108065.1| transcriptional regulator, Cro/CI family [Brucella microti CCM
           4915]
 gi|260169562|ref|ZP_05756373.1| transcriptional regulator, Cro/CI family protein [Brucella sp.
           F5/99]
 gi|260546259|ref|ZP_05821999.1| helix-turn-helix domain-containing protein [Brucella abortus NCTC
           8038]
 gi|260563058|ref|ZP_05833544.1| helix-turn-helix domain-containing protein [Brucella melitensis bv.
           1 str. 16M]
 gi|260567374|ref|ZP_05837844.1| helix-turn-helix domain-containing protein [Brucella suis bv. 4
           str. 40]
 gi|260755830|ref|ZP_05868178.1| transcriptional regulator [Brucella abortus bv. 6 str. 870]
 gi|260759053|ref|ZP_05871401.1| transcriptional regulator [Brucella abortus bv. 4 str. 292]
 gi|260760778|ref|ZP_05873121.1| transcriptional regulator [Brucella abortus bv. 2 str. 86/8/59]
 gi|260884855|ref|ZP_05896469.1| transcriptional regulator [Brucella abortus bv. 9 str. C68]
 gi|261215105|ref|ZP_05929386.1| transcriptional regulator [Brucella abortus bv. 3 str. Tulya]
 gi|261217976|ref|ZP_05932257.1| transcriptional regulator [Brucella ceti M13/05/1]
 gi|261221205|ref|ZP_05935486.1| transcriptional regulator [Brucella ceti B1/94]
 gi|261314807|ref|ZP_05954004.1| transcriptional regulator [Brucella pinnipedialis M163/99/10]
 gi|261316633|ref|ZP_05955830.1| transcriptional regulator [Brucella pinnipedialis B2/94]
 gi|261321174|ref|ZP_05960371.1| transcriptional regulator [Brucella ceti M644/93/1]
 gi|261324096|ref|ZP_05963293.1| transcriptional regulator [Brucella neotomae 5K33]
 gi|261751297|ref|ZP_05995006.1| transcriptional regulator [Brucella suis bv. 5 str. 513]
 gi|261755862|ref|ZP_05999571.1| transcriptional regulator [Brucella suis bv. 3 str. 686]
 gi|261759090|ref|ZP_06002799.1| helix-turn-helix domain-containing protein [Brucella sp. F5/99]
 gi|265983154|ref|ZP_06095889.1| transcriptional regulator [Brucella sp. 83/13]
 gi|265987705|ref|ZP_06100262.1| transcriptional regulator [Brucella pinnipedialis M292/94/1]
 gi|265992179|ref|ZP_06104736.1| transcriptional regulator [Brucella melitensis bv. 1 str. Rev.1]
 gi|265993917|ref|ZP_06106474.1| transcriptional regulator [Brucella melitensis bv. 3 str. Ether]
 gi|265997166|ref|ZP_06109723.1| transcriptional regulator [Brucella ceti M490/95/1]
 gi|294851383|ref|ZP_06792056.1| HTH-type transcriptional regulator [Brucella sp. NVSL 07-0026]
 gi|297247382|ref|ZP_06931100.1| HTH-type transcriptional regulator [Brucella abortus bv. 5 str.
           B3196]
 gi|306837710|ref|ZP_07470579.1| transcriptional regulator protein [Brucella sp. NF 2653]
 gi|306842733|ref|ZP_07475375.1| transcriptional regulator protein [Brucella sp. BO2]
 gi|306843576|ref|ZP_07476177.1| transcriptional regulator protein [Brucella sp. BO1]
 gi|17984022|gb|AAL53152.1| transcriptional regulator [Brucella melitensis bv. 1 str. 16M]
 gi|23349047|gb|AAN31049.1| transcriptional regulator, Cro/CI family [Brucella suis 1330]
 gi|62197128|gb|AAX75428.1| transcriptional regulator, Cro/CI family [Brucella abortus bv. 1
           str. 9-941]
 gi|82617006|emb|CAJ12115.1| Helix-turn-helix motif [Brucella melitensis biovar Abortus 2308]
 gi|148370226|gb|ABQ60205.1| transcriptional regulator, Cro/CI family [Brucella ovis ATCC 25840]
 gi|161336878|gb|ABX63183.1| hypothetical protein BCAN_A2201 [Brucella canis ATCC 23365]
 gi|163674895|gb|ABY39006.1| hypothetical protein BSUIS_A1996 [Brucella suis ATCC 23445]
 gi|189020780|gb|ACD73502.1| Helix-turn-helix motif [Brucella abortus S19]
 gi|225618181|gb|EEH15224.1| DNA-binding domain protein [Brucella ceti str. Cudo]
 gi|225641949|gb|ACO01863.1| transcriptional regulator, XRE family protein [Brucella melitensis
           ATCC 23457]
 gi|237788565|gb|EEP62780.1| DNA-binding protein [Brucella abortus str. 2308 A]
 gi|256000717|gb|ACU49116.1| transcriptional regulator, Cro/CI family [Brucella microti CCM
           4915]
 gi|260096366|gb|EEW80242.1| helix-turn-helix domain-containing protein [Brucella abortus NCTC
           8038]
 gi|260153074|gb|EEW88166.1| helix-turn-helix domain-containing protein [Brucella melitensis bv.
           1 str. 16M]
 gi|260156892|gb|EEW91972.1| helix-turn-helix domain-containing protein [Brucella suis bv. 4
           str. 40]
 gi|260669371|gb|EEX56311.1| transcriptional regulator [Brucella abortus bv. 4 str. 292]
 gi|260671210|gb|EEX58031.1| transcriptional regulator [Brucella abortus bv. 2 str. 86/8/59]
 gi|260675938|gb|EEX62759.1| transcriptional regulator [Brucella abortus bv. 6 str. 870]
 gi|260874383|gb|EEX81452.1| transcriptional regulator [Brucella abortus bv. 9 str. C68]
 gi|260916712|gb|EEX83573.1| transcriptional regulator [Brucella abortus bv. 3 str. Tulya]
 gi|260919789|gb|EEX86442.1| transcriptional regulator [Brucella ceti B1/94]
 gi|260923065|gb|EEX89633.1| transcriptional regulator [Brucella ceti M13/05/1]
 gi|261293864|gb|EEX97360.1| transcriptional regulator [Brucella ceti M644/93/1]
 gi|261295856|gb|EEX99352.1| transcriptional regulator [Brucella pinnipedialis B2/94]
 gi|261300076|gb|EEY03573.1| transcriptional regulator [Brucella neotomae 5K33]
 gi|261303833|gb|EEY07330.1| transcriptional regulator [Brucella pinnipedialis M163/99/10]
 gi|261739074|gb|EEY27070.1| helix-turn-helix domain-containing protein [Brucella sp. F5/99]
 gi|261741050|gb|EEY28976.1| transcriptional regulator [Brucella suis bv. 5 str. 513]
 gi|261745615|gb|EEY33541.1| transcriptional regulator [Brucella suis bv. 3 str. 686]
 gi|262551634|gb|EEZ07624.1| transcriptional regulator [Brucella ceti M490/95/1]
 gi|262764898|gb|EEZ10819.1| transcriptional regulator [Brucella melitensis bv. 3 str. Ether]
 gi|263003245|gb|EEZ15538.1| transcriptional regulator [Brucella melitensis bv. 1 str. Rev.1]
 gi|263092806|gb|EEZ16981.1| helix-turn-helix domain-containing protein [Brucella melitensis bv.
           2 str. 63/9]
 gi|264659902|gb|EEZ30163.1| transcriptional regulator [Brucella pinnipedialis M292/94/1]
 gi|264661746|gb|EEZ32007.1| transcriptional regulator [Brucella sp. 83/13]
 gi|294819972|gb|EFG36971.1| HTH-type transcriptional regulator [Brucella sp. NVSL 07-0026]
 gi|297174551|gb|EFH33898.1| HTH-type transcriptional regulator [Brucella abortus bv. 5 str.
           B3196]
 gi|306276267|gb|EFM57967.1| transcriptional regulator protein [Brucella sp. BO1]
 gi|306287077|gb|EFM58582.1| transcriptional regulator protein [Brucella sp. BO2]
 gi|306407268|gb|EFM63478.1| transcriptional regulator protein [Brucella sp. NF 2653]
 gi|326410157|gb|ADZ67222.1| Helix-turn-helix motif protein [Brucella melitensis M28]
 gi|326539875|gb|ADZ88090.1| transcriptional regulator, XRE family protein [Brucella melitensis
           M5-90]
          Length = 137

 Score =  191 bits (486), Expect = 2e-47,   Method: Composition-based stats.
 Identities = 77/137 (56%), Positives = 102/137 (74%), Gaps = 6/137 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ NKK PNP+D++VG RIRLRR +LG+SQEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MIENKKKPNPIDMHVGSRIRLRRNMLGLSQEKLGENLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
            IS +L  P+SFFF+ +P   S         +E   V+DF+++ +G+QL R F +I D K
Sbjct: 61  AISSILNVPVSFFFEDAPGSGSSGGDGFAEDNEATYVVDFLNSNEGVQLTRAFTKISDPK 120

Query: 115 VRQKIIELVRSIVSSEK 131
           VR+KII+LV+S+ +  +
Sbjct: 121 VRRKIIDLVKSLAADAE 137


>gi|304393079|ref|ZP_07375008.1| transcriptional regulator [Ahrensia sp. R2A130]
 gi|303294844|gb|EFL89215.1| transcriptional regulator [Ahrensia sp. R2A130]
          Length = 150

 Score =  188 bits (479), Expect = 2e-46,   Method: Composition-based stats.
 Identities = 68/134 (50%), Positives = 97/134 (72%), Gaps = 6/134 (4%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +  KK PNP+DI+VG R+RLRR + GMSQEKLG+ LGITFQQ+QKYEKG NR+GASR+Q 
Sbjct: 1   MAEKKTPNPIDIHVGSRVRLRRTMQGMSQEKLGDALGITFQQIQKYEKGTNRIGASRMQQ 60

Query: 62  ISEVLESPISFFFDVSP------TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
           IS  L+ P++FFF+ +P            +S    V+DF+S+P+G+QLNR F++I    +
Sbjct: 61  ISSALDVPVAFFFEDAPADVINNATGMHETSATTYVVDFLSSPEGIQLNRAFVRITSPAI 120

Query: 116 RQKIIELVRSIVSS 129
           R+++IE+VR++   
Sbjct: 121 RRRVIEMVRTLADE 134


>gi|182678047|ref|YP_001832193.1| XRE family transcriptional regulator [Beijerinckia indica subsp.
           indica ATCC 9039]
 gi|182633930|gb|ACB94704.1| transcriptional regulator, XRE family [Beijerinckia indica subsp.
           indica ATCC 9039]
          Length = 155

 Score =  188 bits (478), Expect = 2e-46,   Method: Composition-based stats.
 Identities = 71/139 (51%), Positives = 98/139 (70%), Gaps = 11/139 (7%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK+PNP+D +VG ++R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NR+GASRLQ IS 
Sbjct: 2   KKVPNPIDCHVGGKVRMRRVMLGMSQEKLGEALGLTFQQVQKYEKGTNRIGASRLQQISR 61

Query: 65  VLESPISFFFDVSPTVCS-----------DISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           +L+ P +FFFD +P                  +  + V +F++TP+GL LN  F +I D 
Sbjct: 62  ILDVPPAFFFDGAPAFEGMPRPNAPVIPTGDEASLSYVTEFLATPEGLHLNLAFRRIKDP 121

Query: 114 KVRQKIIELVRSIVSSEKK 132
           KVR++I+ELV +I   E++
Sbjct: 122 KVRKRIVELVMAIAGDEEQ 140


>gi|260461987|ref|ZP_05810232.1| transcriptional regulator, XRE family [Mesorhizobium opportunistum
           WSM2075]
 gi|259032234|gb|EEW33500.1| transcriptional regulator, XRE family [Mesorhizobium opportunistum
           WSM2075]
          Length = 139

 Score =  188 bits (477), Expect = 3e-46,   Method: Composition-based stats.
 Identities = 76/134 (56%), Positives = 100/134 (74%), Gaps = 6/134 (4%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ I
Sbjct: 4   ENKKKPNPIDIHVGSRIRLRRNMLGMSQEKLGENLGITFQQIQKYEKGTNRVGASRLQAI 63

Query: 63  SEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           + +L  P++FFF+ +P   S         +     ++F  +P+GLQLNR F++I DVKVR
Sbjct: 64  ASILGVPVAFFFEDAPGQESSANRGFAEDASMAFAVEFCGSPEGLQLNRAFVKIADVKVR 123

Query: 117 QKIIELVRSIVSSE 130
           ++II+LV+S+ + +
Sbjct: 124 RRIIDLVKSLAADD 137


>gi|13474622|ref|NP_106191.1| transcriptional regulator [Mesorhizobium loti MAFF303099]
 gi|14025376|dbj|BAB51977.1| transcriptional regulator [Mesorhizobium loti MAFF303099]
          Length = 139

 Score =  187 bits (475), Expect = 4e-46,   Method: Composition-based stats.
 Identities = 74/134 (55%), Positives = 100/134 (74%), Gaps = 6/134 (4%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            NKK PNP+DI+VG R+RLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ I
Sbjct: 4   ENKKKPNPIDIHVGSRVRLRRNMLGMSQEKLGENLGITFQQIQKYEKGTNRVGASRLQAI 63

Query: 63  SEVLESPISFFFDVSPTVCSDIS------SEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           + +L  P++FFF+ +P   +         +     ++F  +P+GLQLNR F++I DVKVR
Sbjct: 64  ASILGVPVAFFFEDAPGQEAAPGRGFSEDASMAFAVEFCGSPEGLQLNRAFVKIADVKVR 123

Query: 117 QKIIELVRSIVSSE 130
           ++II+LV+S+ + +
Sbjct: 124 RRIIDLVKSLAADD 137


>gi|298293906|ref|YP_003695845.1| XRE family transcriptional regulator [Starkeya novella DSM 506]
 gi|296930417|gb|ADH91226.1| transcriptional regulator, XRE family [Starkeya novella DSM 506]
          Length = 135

 Score =  186 bits (474), Expect = 6e-46,   Method: Composition-based stats.
 Identities = 72/131 (54%), Positives = 97/131 (74%), Gaps = 5/131 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
            KK PNP+D +VG R+R+RRM++GMSQEKLGE LGITFQQ+QKYEKG NR+GASRLQ+IS
Sbjct: 2   TKKSPNPIDKHVGSRVRMRRMMIGMSQEKLGENLGITFQQIQKYEKGTNRIGASRLQNIS 61

Query: 64  EVLESPISFFFDVSPTVCSDIS-----SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            VL  P+SFFF+ +P V    +     +    V DF++T +GL L R F++I D KVR++
Sbjct: 62  NVLGVPVSFFFEGAPNVGIANTGFAEDASPAYVSDFLATTEGLALTRAFLKIADSKVRRR 121

Query: 119 IIELVRSIVSS 129
           I++LV ++ S 
Sbjct: 122 IVDLVEALASE 132


>gi|319779776|ref|YP_004139252.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
 gi|317165664|gb|ADV09202.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
          Length = 139

 Score =  186 bits (474), Expect = 7e-46,   Method: Composition-based stats.
 Identities = 74/135 (54%), Positives = 98/135 (72%), Gaps = 6/135 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           NKK PNP+DI+VG RIRLRR +LGMSQEKLGE LGITFQQ+QKYEKG NRVGASRLQ I+
Sbjct: 5   NKKKPNPIDIHVGSRIRLRRNMLGMSQEKLGENLGITFQQIQKYEKGTNRVGASRLQAIA 64

Query: 64  EVLESPISFFFDVSPTVCSDIS------SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
            +L  P++FFF+ +P             +     ++F  +P+GLQLNR F++I D KVR+
Sbjct: 65  SILGVPVAFFFEDAPGQEPVAGRGFAEDASMAFAVEFCGSPEGLQLNRAFVKIADAKVRR 124

Query: 118 KIIELVRSIVSSEKK 132
           +II+LV+S+ + +  
Sbjct: 125 RIIDLVKSLSADDPD 139


>gi|158421637|ref|YP_001522929.1| putative transcriptional regulator [Azorhizobium caulinodans ORS
           571]
 gi|158328526|dbj|BAF86011.1| putative transcriptional regulator [Azorhizobium caulinodans ORS
           571]
          Length = 150

 Score =  185 bits (471), Expect = 1e-45,   Method: Composition-based stats.
 Identities = 73/133 (54%), Positives = 96/133 (72%), Gaps = 7/133 (5%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK PNP+D +VG R+R+RRM++GMSQEKLGE LGITFQQ+QKYEKG NR+GASRLQ IS 
Sbjct: 3   KKAPNPIDKHVGSRVRMRRMMVGMSQEKLGEHLGITFQQIQKYEKGTNRIGASRLQQISI 62

Query: 65  VLESPISFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           VL  P++FFF+ +P+   +   E          V DF++T DGL L R F++I D KVR+
Sbjct: 63  VLSVPVAFFFEGAPSANPEADGEGFAEGHSPAYVSDFLATSDGLALTRNFMRISDAKVRR 122

Query: 118 KIIELVRSIVSSE 130
           +I++LV +I   E
Sbjct: 123 RIVDLVSAIAGEE 135


>gi|209883668|ref|YP_002287525.1| transcriptional regulator of XRE family [Oligotropha
           carboxidovorans OM5]
 gi|209871864|gb|ACI91660.1| transcriptional regulator of XRE family [Oligotropha
           carboxidovorans OM5]
          Length = 148

 Score =  185 bits (469), Expect = 2e-45,   Method: Composition-based stats.
 Identities = 64/134 (47%), Positives = 93/134 (69%), Gaps = 5/134 (3%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           V + K PNPVD  VG R+R+RR++LG+SQEKLG+ LG+TFQQ+QKYEKG NR+GASRL  
Sbjct: 12  VMSAKTPNPVDKYVGSRVRMRRIMLGLSQEKLGDALGLTFQQIQKYEKGTNRIGASRLHQ 71

Query: 62  ISEVLESPISFFFDVSPTV-----CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           I+++L+ P+SF F+  P+          +     V DF++T +GL L R F +I D K+R
Sbjct: 72  IADILQVPVSFLFEGGPSSNVILDGLGEAPSPAYVSDFLATSEGLALTRAFTRITDAKLR 131

Query: 117 QKIIELVRSIVSSE 130
           + I++LV  I +++
Sbjct: 132 RSIVDLVEQIANTQ 145


>gi|299133379|ref|ZP_07026574.1| transcriptional regulator, XRE family [Afipia sp. 1NLS2]
 gi|298593516|gb|EFI53716.1| transcriptional regulator, XRE family [Afipia sp. 1NLS2]
          Length = 136

 Score =  185 bits (469), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 64/132 (48%), Positives = 93/132 (70%), Gaps = 5/132 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD  VG R+R+RR++LG+SQEKLG+ LG+TFQQ+QKYEKG NR+GASRL  I+
Sbjct: 2   SAKTPNPVDKYVGSRVRMRRIMLGLSQEKLGDALGLTFQQIQKYEKGTNRIGASRLHQIA 61

Query: 64  EVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           ++L+ P+SF F+  PT  + +     +     V DF++T +GL L R F +I D K+R+ 
Sbjct: 62  DILQVPVSFLFEGGPTSNTSVEGLGEAPSPAYVSDFLATSEGLALTRAFTKITDAKLRRS 121

Query: 119 IIELVRSIVSSE 130
           I++LV  I  ++
Sbjct: 122 IVDLVEQIAGTQ 133


>gi|154245759|ref|YP_001416717.1| XRE family transcriptional regulator [Xanthobacter autotrophicus
           Py2]
 gi|154159844|gb|ABS67060.1| transcriptional regulator, XRE family [Xanthobacter autotrophicus
           Py2]
          Length = 137

 Score =  184 bits (468), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 73/132 (55%), Positives = 95/132 (71%), Gaps = 5/132 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK PNP+D +VG R+R+RRM++ MSQEKLGE LGITFQQ+QKYEKG NR+GASRLQ IS 
Sbjct: 3   KKAPNPIDKHVGSRVRMRRMMVSMSQEKLGEHLGITFQQIQKYEKGTNRIGASRLQQIST 62

Query: 65  VLESPISFFFDVSPTVCSDISS-----EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           VL  P++FFF+ +PTV  +            V DF++T DGL L R F++I D KVR++I
Sbjct: 63  VLGVPVAFFFEGAPTVGPEGEGFSEDQSPAYVSDFLATSDGLTLTRNFMRITDPKVRRRI 122

Query: 120 IELVRSIVSSEK 131
           +ELV +I    +
Sbjct: 123 VELVIAIAGEAE 134


>gi|49473876|ref|YP_031918.1| transcriptional regulator [Bartonella quintana str. Toulouse]
 gi|49239379|emb|CAF25712.1| Transcriptional regulator [Bartonella quintana str. Toulouse]
          Length = 137

 Score =  184 bits (468), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 71/132 (53%), Positives = 96/132 (72%), Gaps = 2/132 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   KK P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NR+GASRLQ
Sbjct: 1   MTETKKNPDPIDIYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRIGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  +        +  +N+ MDF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGIDSQHVEGFAESDNSFMDFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSIVSSE 130
           II+L +++   +
Sbjct: 121 IIDLAKALSEED 132


>gi|92115659|ref|YP_575388.1| XRE family transcriptional regulator [Nitrobacter hamburgensis X14]
 gi|91798553|gb|ABE60928.1| transcriptional regulator, XRE family [Nitrobacter hamburgensis
           X14]
          Length = 139

 Score =  183 bits (465), Expect = 7e-45,   Method: Composition-based stats.
 Identities = 71/137 (51%), Positives = 95/137 (69%), Gaps = 6/137 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD +VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKHVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPTVCSDISS------EENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           ++L+ P+SF F+ SP     ++           V DF++T +GL L R F +I D K+R+
Sbjct: 62  DILQVPVSFLFEGSPGTGIAVAGGLSEAPSPAYVSDFLATSEGLALTRAFTRITDAKLRR 121

Query: 118 KIIELVRSIVSSEKKYR 134
            I++LV  I + E   R
Sbjct: 122 SIVDLVEQIAAREPPDR 138


>gi|86747721|ref|YP_484217.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           HaA2]
 gi|86570749|gb|ABD05306.1| transcriptional regulator, XRE family [Rhodopseudomonas palustris
           HaA2]
          Length = 139

 Score =  183 bits (464), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 72/137 (52%), Positives = 93/137 (67%), Gaps = 6/137 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPTVCSDISS------EENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           EVL+ P+SF F+  P+      S        + V DF++T +GL L R F +I D K+R+
Sbjct: 62  EVLQVPVSFLFEGGPSGGLANGSGFSEAPSPSYVSDFLATSEGLALTRAFTKITDAKLRR 121

Query: 118 KIIELVRSIVSSEKKYR 134
            I++LV  I + E    
Sbjct: 122 SIVDLVEQIAAREPNES 138


>gi|163867517|ref|YP_001608716.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161017163|emb|CAK00721.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 139

 Score =  182 bits (463), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 70/132 (53%), Positives = 97/132 (73%), Gaps = 2/132 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NR+GASRLQ
Sbjct: 1   MTETRKKPDPIDIYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRIGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  ++       +  ++N MDF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGLTSQQVEGFAESDHNFMDFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSIVSSE 130
           II+L +++   +
Sbjct: 121 IIDLAKALSEED 132


>gi|217979023|ref|YP_002363170.1| transcriptional regulator, XRE family [Methylocella silvestris BL2]
 gi|217504399|gb|ACK51808.1| transcriptional regulator, XRE family [Methylocella silvestris BL2]
          Length = 166

 Score =  182 bits (463), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 72/143 (50%), Positives = 98/143 (68%), Gaps = 12/143 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   KKIPNP+D +VG R+R+RR+ILGMSQEKLGE LG+TFQQVQKYEKG NR+GASRLQ
Sbjct: 8   MEKAKKIPNPIDRHVGSRVRMRRVILGMSQEKLGEALGLTFQQVQKYEKGANRIGASRLQ 67

Query: 61  HISEVLESPISFFFDVSPTVCSDIS------------SEENNVMDFISTPDGLQLNRYFI 108
            IS  L+ P +FFF+ +P+  +  +            +  + V DF+ST +GL LN  F 
Sbjct: 68  QISRTLDVPPAFFFEGAPSFEASATGGSPALGGVAEEANSSYVADFLSTAEGLHLNMAFA 127

Query: 109 QIDDVKVRQKIIELVRSIVSSEK 131
           +I D KVR++II+L+ ++   + 
Sbjct: 128 RIHDPKVRKRIIDLISALAGDDS 150


>gi|319408017|emb|CBI81671.1| transcriptional regulator [Bartonella schoenbuchensis R1]
          Length = 136

 Score =  182 bits (463), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 71/132 (53%), Positives = 97/132 (73%), Gaps = 1/132 (0%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+D+ VG RIRLRR +LG++QEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTETRKKPDPIDVYVGTRIRLRRNMLGLTQEKLGEQLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVC-SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
            I+E+++ P+S+FFD   T      +  E+N MDF S+ +G+QL R F  I D KVR+KI
Sbjct: 61  AIAEIMDVPVSYFFDKGITQSVEGFAESESNFMDFCSSSEGIQLMRAFTNILDAKVRRKI 120

Query: 120 IELVRSIVSSEK 131
           I+L +++   ++
Sbjct: 121 IDLAKALSEEDQ 132


>gi|39933520|ref|NP_945796.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           CGA009]
 gi|192288878|ref|YP_001989483.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           TIE-1]
 gi|39647366|emb|CAE25887.1| possible transcriptional regulator, XRE family [Rhodopseudomonas
           palustris CGA009]
 gi|192282627|gb|ACE99007.1| transcriptional regulator, XRE family [Rhodopseudomonas palustris
           TIE-1]
          Length = 139

 Score =  182 bits (462), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 70/133 (52%), Positives = 93/133 (69%), Gaps = 6/133 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q I+
Sbjct: 2   STKAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIA 61

Query: 64  EVLESPISFFFDVSPTV------CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           EVL+ P+SF F+  P+           +   + V DF++T +GL L R F +I D K+R+
Sbjct: 62  EVLQVPVSFLFEGGPSGGLANGNGFSEAPSPSYVSDFLATSEGLALTRAFTKITDAKLRR 121

Query: 118 KIIELVRSIVSSE 130
            I++LV  I + E
Sbjct: 122 SIVDLVERIAARE 134


>gi|49475033|ref|YP_033074.1| transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49237838|emb|CAF27033.1| Transcriptional regulator [Bartonella henselae str. Houston-1]
          Length = 138

 Score =  182 bits (462), Expect = 2e-44,   Method: Composition-based stats.
 Identities = 71/133 (53%), Positives = 96/133 (72%), Gaps = 2/133 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+D+ VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NR+GASRLQ
Sbjct: 1   MTETRKKPDPIDVYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRIGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  V        +  +N+ MDF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGVGTQQVEGFAESDNDFMDFCSSSEGIQLMRAFTNISDSKVRRK 120

Query: 119 IIELVRSIVSSEK 131
           II+L +++   E 
Sbjct: 121 IIDLAKALSEEED 133


>gi|323138533|ref|ZP_08073601.1| helix-turn-helix domain protein [Methylocystis sp. ATCC 49242]
 gi|322396167|gb|EFX98700.1| helix-turn-helix domain protein [Methylocystis sp. ATCC 49242]
          Length = 141

 Score =  181 bits (461), Expect = 2e-44,   Method: Composition-based stats.
 Identities = 69/135 (51%), Positives = 97/135 (71%), Gaps = 8/135 (5%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK P+P+D +VG R+R++R+++ MSQEKLGE LG+TFQQVQKYEKGVNR+GASRLQ IS+
Sbjct: 2   KKTPDPIDRHVGSRVRMQRILMKMSQEKLGEALGLTFQQVQKYEKGVNRIGASRLQQISK 61

Query: 65  VLESPISFFFDVSPTVCSDI--------SSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
            L  P SFFF+ +PT+   +         S    V+DF+ST +G+ LNR F +I D KVR
Sbjct: 62  TLNVPPSFFFEGAPTLNGAVDGAGGFAEESSSQYVVDFLSTAEGMHLNRAFARIKDPKVR 121

Query: 117 QKIIELVRSIVSSEK 131
           +++++LV ++   E 
Sbjct: 122 KRVLDLVTTLADQED 136


>gi|146337220|ref|YP_001202268.1| putative transcriptional regulator [Bradyrhizobium sp. ORS278]
 gi|146190026|emb|CAL74018.1| conserved hypothetical protein; putative transcriptional regulatory
           protein HTH type [Bradyrhizobium sp. ORS278]
          Length = 140

 Score =  181 bits (461), Expect = 2e-44,   Method: Composition-based stats.
 Identities = 70/132 (53%), Positives = 94/132 (71%), Gaps = 5/132 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD +VG R+R+RR++LGMSQEKLGE LG+TFQQ+QKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKHVGSRVRMRRIMLGMSQEKLGEALGLTFQQIQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           EVL+ P+SF F+  P+  ++       +    V DF++T +GL L R F +I D K+R+ 
Sbjct: 62  EVLQVPVSFLFEGVPSGGTNGEAFGEGASPAYVSDFLATSEGLALTRAFTRIHDSKLRRS 121

Query: 119 IIELVRSIVSSE 130
           I++LV  I   E
Sbjct: 122 IVDLVEQIADRE 133


>gi|316931572|ref|YP_004106554.1| helix-turn-helix domain-containing protein [Rhodopseudomonas
           palustris DX-1]
 gi|315599286|gb|ADU41821.1| helix-turn-helix domain protein [Rhodopseudomonas palustris DX-1]
          Length = 139

 Score =  181 bits (460), Expect = 2e-44,   Method: Composition-based stats.
 Identities = 71/132 (53%), Positives = 92/132 (69%), Gaps = 6/132 (4%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
            K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q I+E
Sbjct: 3   TKAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIAE 62

Query: 65  VLESPISFFFDVSPTVCSDISS------EENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           VL+ P+SF F+  P+      S        + V DF++T +GL L R F +I D K+R+ 
Sbjct: 63  VLQVPVSFLFEGGPSGGLANGSGFSEAPSPSYVSDFLATSEGLALTRAFTKITDAKLRRS 122

Query: 119 IIELVRSIVSSE 130
           I++LV  I + E
Sbjct: 123 IVDLVERIAARE 134


>gi|319405105|emb|CBI78709.1| transcriptional regulator [Bartonella sp. AR 15-3]
          Length = 137

 Score =  181 bits (460), Expect = 2e-44,   Method: Composition-based stats.
 Identities = 72/132 (54%), Positives = 97/132 (73%), Gaps = 2/132 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTKTRKKPDPIDIYVGARIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCS--DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD    + S    +  +NN +DF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGIAIQSIDGFTESDNNFIDFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSIVSSE 130
           II+L +++   +
Sbjct: 121 IIDLAKALSEED 132


>gi|240849887|ref|YP_002971275.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240267010|gb|ACS50598.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 137

 Score =  181 bits (460), Expect = 3e-44,   Method: Composition-based stats.
 Identities = 69/132 (52%), Positives = 97/132 (73%), Gaps = 2/132 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NR+GASRLQ
Sbjct: 1   MTETRKKPDPIDIYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRIGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  ++       +  ++N +DF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGITSQQVEGFAESDHNFIDFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSIVSSE 130
           II+L +++   +
Sbjct: 121 IIDLAKALSEED 132


>gi|27375901|ref|NP_767430.1| transcriptional regulator [Bradyrhizobium japonicum USDA 110]
 gi|27349039|dbj|BAC46055.1| bll0790 [Bradyrhizobium japonicum USDA 110]
          Length = 137

 Score =  181 bits (460), Expect = 3e-44,   Method: Composition-based stats.
 Identities = 67/130 (51%), Positives = 93/130 (71%), Gaps = 5/130 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQ+QKYEKG NRVGASR+Q I+E+
Sbjct: 3   KAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQIQKYEKGTNRVGASRIQQIAEI 62

Query: 66  LESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           L+ P+SF F+  P+  +        +  + V DF++T +GL L + F +I D K+R+ I+
Sbjct: 63  LQVPVSFLFEGGPSGVAGPNGFAEGASPSYVSDFLATSEGLALTKAFTRITDAKMRRSIV 122

Query: 121 ELVRSIVSSE 130
           +LV  I + E
Sbjct: 123 DLVEQIAARE 132


>gi|75674218|ref|YP_316639.1| XRE family transcriptional regulator [Nitrobacter winogradskyi
           Nb-255]
 gi|74419088|gb|ABA03287.1| transcriptional regulator, XRE family [Nitrobacter winogradskyi
           Nb-255]
          Length = 139

 Score =  181 bits (459), Expect = 3e-44,   Method: Composition-based stats.
 Identities = 71/137 (51%), Positives = 95/137 (69%), Gaps = 6/137 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD +VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKHVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSP------TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           E+L+ P+SF F+ SP      T     +     V DF++T +GL L R F +I D K+R+
Sbjct: 62  EILQVPVSFLFEGSPGTGVVRTGGMSEAPSPAYVSDFLATSEGLALTRAFTRITDAKLRR 121

Query: 118 KIIELVRSIVSSEKKYR 134
            I+++V  I + E   +
Sbjct: 122 SIVDMVEQIAAREPSDQ 138


>gi|319898343|ref|YP_004158436.1| transcriptional regulator [Bartonella clarridgeiae 73]
 gi|319402307|emb|CBI75846.1| transcriptional regulator [Bartonella clarridgeiae 73]
          Length = 137

 Score =  181 bits (459), Expect = 4e-44,   Method: Composition-based stats.
 Identities = 71/132 (53%), Positives = 95/132 (71%), Gaps = 2/132 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTETRKKPDPIDIYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  +           +NN M+F S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGIGIQSVEGFEESDNNFMNFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSIVSSE 130
           II+L +++   +
Sbjct: 121 IIDLAKALSEED 132


>gi|319406551|emb|CBI80193.1| transcriptional regulator [Bartonella sp. 1-1C]
          Length = 137

 Score =  180 bits (458), Expect = 4e-44,   Method: Composition-based stats.
 Identities = 72/136 (52%), Positives = 97/136 (71%), Gaps = 2/136 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTKTRKKPDPMDIYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  +S       +  +NN +DF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGISIQSLEGFTESDNNFIDFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSIVSSEKKYR 134
           II+L +++   +    
Sbjct: 121 IIDLAKALSEEDHNDE 136


>gi|319403635|emb|CBI77220.1| transcriptional regulator [Bartonella rochalimae ATCC BAA-1498]
          Length = 137

 Score =  180 bits (458), Expect = 5e-44,   Method: Composition-based stats.
 Identities = 71/136 (52%), Positives = 96/136 (70%), Gaps = 2/136 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR ILG++QEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTKTRKKPDPMDIYVGTRIRLRRNILGLTQEKLGEKLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  +        +  +NN +DF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGIGIQSLEGFTESDNNFIDFCSSSEGIQLMRAFTNISDAKVRRK 120

Query: 119 IIELVRSIVSSEKKYR 134
           II+L +++   +    
Sbjct: 121 IIDLAKALSEEDHNDE 136


>gi|121602273|ref|YP_989497.1| DNA-binding protein [Bartonella bacilliformis KC583]
 gi|120614450|gb|ABM45051.1| DNA-binding protein [Bartonella bacilliformis KC583]
          Length = 137

 Score =  180 bits (457), Expect = 5e-44,   Method: Composition-based stats.
 Identities = 70/133 (52%), Positives = 98/133 (73%), Gaps = 2/133 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K P+P+DI VG RIRLRR +LG++QEKLGE LGITFQQ+QKYEKG NRVGASRLQ
Sbjct: 1   MTETRKKPDPIDIYVGTRIRLRRNMLGLTQEKLGEQLGITFQQIQKYEKGTNRVGASRLQ 60

Query: 61  HISEVLESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            I+E+++ P+S+FFD  ++       +  ++N MDF S+ +G+QL R F  I D KVR+K
Sbjct: 61  AIAEIMDVPVSYFFDKGINNQPEESFAESDSNFMDFCSSNEGIQLMRAFTNILDAKVRRK 120

Query: 119 IIELVRSIVSSEK 131
           II+L +++   ++
Sbjct: 121 IIDLAKALSEEDQ 133


>gi|91974719|ref|YP_567378.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           BisB5]
 gi|91681175|gb|ABE37477.1| transcriptional regulator [Rhodopseudomonas palustris BisB5]
          Length = 139

 Score =  180 bits (457), Expect = 6e-44,   Method: Composition-based stats.
 Identities = 70/133 (52%), Positives = 92/133 (69%), Gaps = 6/133 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSP------TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           E+L+ P+SF F+  P            +   + V DF++T +GL L R F +I D K+R+
Sbjct: 62  EILQVPVSFLFEGGPSGGLANANGFSEAPSPSYVSDFLATSEGLALTRAFTKISDAKLRR 121

Query: 118 KIIELVRSIVSSE 130
            I++LV  I + E
Sbjct: 122 SIVDLVEQIAARE 134


>gi|148251675|ref|YP_001236260.1| XRE family transcriptional regulator [Bradyrhizobium sp. BTAi1]
 gi|146403848|gb|ABQ32354.1| transcriptional regulator, XRE family [Bradyrhizobium sp. BTAi1]
          Length = 138

 Score =  180 bits (457), Expect = 7e-44,   Method: Composition-based stats.
 Identities = 70/131 (53%), Positives = 94/131 (71%), Gaps = 4/131 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD +VG R+R+RR++LGMSQEKLGE LG+TFQQ+QKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKHVGSRVRMRRIMLGMSQEKLGEALGLTFQQIQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPTVCSDI----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           EVL+ P+SF F+  P+  ++      +    V DF++T +GL L R F +I D K+R+ I
Sbjct: 62  EVLQIPVSFLFEGVPSGSTNGEPFDGASPAYVSDFLATSEGLALTRAFTRIHDSKLRRSI 121

Query: 120 IELVRSIVSSE 130
           ++LV  I   E
Sbjct: 122 VDLVEQIADRE 132


>gi|296445773|ref|ZP_06887726.1| transcriptional regulator, XRE family [Methylosinus trichosporium
           OB3b]
 gi|296256753|gb|EFH03827.1| transcriptional regulator, XRE family [Methylosinus trichosporium
           OB3b]
          Length = 145

 Score =  180 bits (456), Expect = 7e-44,   Method: Composition-based stats.
 Identities = 69/135 (51%), Positives = 96/135 (71%), Gaps = 5/135 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK P+P+D +VG R+R++R++L MSQEKLGE LG+TFQQVQKYEKG NR+GASRLQ IS+
Sbjct: 2   KKAPDPIDRHVGSRVRMQRVLLKMSQEKLGEALGLTFQQVQKYEKGTNRIGASRLQQISK 61

Query: 65  VLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
            L  P SFFFD +P+V +        S    V++F+ST +GL LNR F +I D KVR+++
Sbjct: 62  TLNVPPSFFFDGAPSVGAPGDGFAEESSSQYVVEFLSTAEGLHLNRAFARIKDPKVRKRV 121

Query: 120 IELVRSIVSSEKKYR 134
           I+L+ ++    +   
Sbjct: 122 IDLISTLADQSEDGV 136


>gi|85714180|ref|ZP_01045169.1| transcriptional regulator, XRE family protein [Nitrobacter sp.
           Nb-311A]
 gi|85699306|gb|EAQ37174.1| transcriptional regulator, XRE family protein [Nitrobacter sp.
           Nb-311A]
          Length = 139

 Score =  179 bits (455), Expect = 1e-43,   Method: Composition-based stats.
 Identities = 70/137 (51%), Positives = 94/137 (68%), Gaps = 6/137 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD +VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKHVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPTVCS------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           E+L+ P+SF F+ SP            +     V DF++T +GL L R F +I D K+R+
Sbjct: 62  EILQVPVSFLFEGSPGTGVSRIDGLSEAPSPAYVSDFLATSEGLALTRAFTRITDAKLRR 121

Query: 118 KIIELVRSIVSSEKKYR 134
            I+++V  I + E   +
Sbjct: 122 SIVDMVEQIAAREPSDQ 138


>gi|300024991|ref|YP_003757602.1| XRE family transcriptional regulator [Hyphomicrobium denitrificans
           ATCC 51888]
 gi|299526812|gb|ADJ25281.1| transcriptional regulator, XRE family [Hyphomicrobium denitrificans
           ATCC 51888]
          Length = 154

 Score =  178 bits (453), Expect = 2e-43,   Method: Composition-based stats.
 Identities = 70/140 (50%), Positives = 97/140 (69%), Gaps = 9/140 (6%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +    +  NP+D++VG R+RLRRM+LGMSQEKLGE LG+TFQQVQKYEKGVNR+GASRL 
Sbjct: 15  VARGSRRANPMDVHVGSRVRLRRMLLGMSQEKLGEHLGLTFQQVQKYEKGVNRIGASRLF 74

Query: 61  HISEVLESPISFFFDVSPTVCSDIS---------SEENNVMDFISTPDGLQLNRYFIQID 111
            +++VL  P+ FF+D +P+                 E+ V+DF+ T +GL+LN+ F +I 
Sbjct: 75  DLAKVLGVPVQFFYDEAPSGVQTTGNVIAGFAEQPGESYVVDFLGTREGLELNKAFARIS 134

Query: 112 DVKVRQKIIELVRSIVSSEK 131
           D KVR+ I++LVRS+   E 
Sbjct: 135 DPKVRRSIVDLVRSLAGEES 154


>gi|154254053|ref|YP_001414877.1| XRE family transcriptional regulator [Parvibaculum lavamentivorans
           DS-1]
 gi|154158003|gb|ABS65220.1| transcriptional regulator, XRE family [Parvibaculum lavamentivorans
           DS-1]
          Length = 147

 Score =  178 bits (453), Expect = 2e-43,   Method: Composition-based stats.
 Identities = 66/137 (48%), Positives = 92/137 (67%), Gaps = 5/137 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
            +K+PNP+D++VG R+R+RRM++GMSQEKLGE LG+TFQQVQKYEKG NR+GASRL  I 
Sbjct: 2   TRKLPNPIDVHVGGRVRMRRMLIGMSQEKLGESLGLTFQQVQKYEKGSNRIGASRLYQIG 61

Query: 64  EVLESPISFFFDVSPTVCS-----DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            VL  PI +FF+            D +      MD +ST +G+QLN  F  I D K+R++
Sbjct: 62  SVLGVPIEYFFEGVEPGEGNGMEPDAAPSPGFDMDILSTAEGIQLNSAFFAIADPKLRKR 121

Query: 119 IIELVRSIVSSEKKYRT 135
           I++LV+++     +  T
Sbjct: 122 ILDLVKALGGLSDEVET 138


>gi|90421997|ref|YP_530367.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           BisB18]
 gi|90104011|gb|ABD86048.1| transcriptional regulator, XRE family [Rhodopseudomonas palustris
           BisB18]
          Length = 138

 Score =  178 bits (453), Expect = 2e-43,   Method: Composition-based stats.
 Identities = 71/132 (53%), Positives = 93/132 (70%), Gaps = 5/132 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           E+L+ P+SF F+  P   +       ++    V DF++T +GL L R F +I D K+R+ 
Sbjct: 62  EILQVPVSFLFEGGPGGLAKADGFAEAASPAYVSDFLATSEGLALTRAFTRITDSKLRRS 121

Query: 119 IIELVRSIVSSE 130
           I++LV  I S E
Sbjct: 122 IVDLVEQIASRE 133


>gi|115522230|ref|YP_779141.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           BisA53]
 gi|115516177|gb|ABJ04161.1| transcriptional regulator, XRE family [Rhodopseudomonas palustris
           BisA53]
          Length = 140

 Score =  177 bits (449), Expect = 5e-43,   Method: Composition-based stats.
 Identities = 69/132 (52%), Positives = 93/132 (70%), Gaps = 5/132 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNPVD  VG R+R+RR++LGMSQEKLGE LG+TFQQVQKYEKG NRVGASR+Q IS
Sbjct: 2   STKAPNPVDKYVGSRVRMRRIMLGMSQEKLGEALGLTFQQVQKYEKGTNRVGASRIQQIS 61

Query: 64  EVLESPISFFFDVSPTV-----CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           E+L+ P+SF F+  P           ++  + V DF++T +GL L R F +I D K+R+ 
Sbjct: 62  EILQVPVSFLFEGGPGANIKGEGFSEAASPSYVSDFLATSEGLALTRAFTRIADSKLRRS 121

Query: 119 IIELVRSIVSSE 130
           I++LV  I + +
Sbjct: 122 IVDLVEQIAARD 133


>gi|209966238|ref|YP_002299153.1| DNA-binding protein, putative [Rhodospirillum centenum SW]
 gi|209959704|gb|ACJ00341.1| DNA-binding protein, putative [Rhodospirillum centenum SW]
          Length = 149

 Score =  174 bits (441), Expect = 4e-42,   Method: Composition-based stats.
 Identities = 61/126 (48%), Positives = 90/126 (71%), Gaps = 3/126 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            PNPVD++VG R+RLRR +LGMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL
Sbjct: 19  KPNPVDVHVGSRVRLRRTLLGMSQEKLGEAIGLTFQQVQKYERGANRIGASRLYDLSRVL 78

Query: 67  ESPISFFFDVSPTVCSDISSEENNV---MDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           + P+SFFFD  P+  +  ++E+       D ++  + L+L R + +I +  VR++I EL 
Sbjct: 79  DVPVSFFFDDMPSDDAPRTAEQAQADGEPDPMAKRETLELVRAYYRITEPAVRKRIFELT 138

Query: 124 RSIVSS 129
           +++  +
Sbjct: 139 KAVAHA 144


>gi|149914411|ref|ZP_01902942.1| transcriptional regulator, XRE family protein [Roseobacter sp.
           AzwK-3b]
 gi|149811930|gb|EDM71763.1| transcriptional regulator, XRE family protein [Roseobacter sp.
           AzwK-3b]
          Length = 123

 Score =  173 bits (439), Expect = 7e-42,   Method: Composition-based stats.
 Identities = 51/122 (41%), Positives = 77/122 (63%), Gaps = 1/122 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVDI+VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I++ L
Sbjct: 1   MPHPVDIHVGKRIRHRRWLVGMTQQQLAESVGIKFQQIQKYETGANRVSASRLWDIADAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +  +SFFF+   T      + E    D +   + L L R +  I + + R+++ +L R +
Sbjct: 61  DVDVSFFFEGLETDSGKSEAGEKVPADLLGDKEALDLVRSYYAIPENQ-RRRLFDLARVL 119

Query: 127 VS 128
             
Sbjct: 120 SD 121


>gi|144899566|emb|CAM76430.1| transcriptional regulator [Magnetospirillum gryphiswaldense MSR-1]
          Length = 161

 Score =  173 bits (438), Expect = 8e-42,   Method: Composition-based stats.
 Identities = 64/137 (46%), Positives = 93/137 (67%), Gaps = 12/137 (8%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            PNP+D++VG R+RLRR +LGMSQEKLGE LG+TFQQVQKYE+G NRVGASRL  +S VL
Sbjct: 25  KPNPIDVHVGSRVRLRRTLLGMSQEKLGEALGLTFQQVQKYERGANRVGASRLFDLSRVL 84

Query: 67  ESPISFFFDV--------SPTVCSDISSEENNVM----DFISTPDGLQLNRYFIQIDDVK 114
           + P+SFFFD         SP + + +++ E        D ++  + L+L R + +I D +
Sbjct: 85  DVPVSFFFDDMNDELKAQSPALIAGMTALEEPPAHFEHDPLAKRETLELVRAYYRIADPQ 144

Query: 115 VRQKIIELVRSIVSSEK 131
           VR+++ EL +++  S+ 
Sbjct: 145 VRKRVYELAKALADSDS 161


>gi|312115567|ref|YP_004013163.1| helix-turn-helix domain protein [Rhodomicrobium vannielii ATCC
           17100]
 gi|311220696|gb|ADP72064.1| helix-turn-helix domain protein [Rhodomicrobium vannielii ATCC
           17100]
          Length = 174

 Score =  173 bits (438), Expect = 1e-41,   Method: Composition-based stats.
 Identities = 66/140 (47%), Positives = 101/140 (72%), Gaps = 8/140 (5%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           + PNPVDI+VG R+R RRMI+GMSQEKLGE + +TFQQ+QKYEKG NR+GASRL  +S++
Sbjct: 27  RKPNPVDIHVGSRVRYRRMIVGMSQEKLGEKMNLTFQQIQKYEKGTNRIGASRLFQLSKI 86

Query: 66  LESPISFFFDV-----SPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           LE P+ +FF+      +P+  S    E   E  ++DF+++ +GL+LN+ F +I D KVR+
Sbjct: 87  LEVPVGYFFEDAFAHSAPSSASHGLHEPEQEGFLLDFLNSREGLELNKAFAKIQDPKVRR 146

Query: 118 KIIELVRSIVSSEKKYRTIE 137
           ++I+LVR++   + + +  +
Sbjct: 147 RVIDLVRALSEEKPEAKESQ 166


>gi|83313567|ref|YP_423831.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82948408|dbj|BAE53272.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 164

 Score =  172 bits (437), Expect = 1e-41,   Method: Composition-based stats.
 Identities = 60/134 (44%), Positives = 86/134 (64%), Gaps = 13/134 (9%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVDI+VG R+RLRR ++GMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL+
Sbjct: 25  PNPVDIHVGARVRLRRTLMGMSQEKLGESIGLTFQQVQKYERGANRIGASRLFDLSRVLD 84

Query: 68  SPISFFFDVSPTVCSDIS-------------SEENNVMDFISTPDGLQLNRYFIQIDDVK 114
            P+SFFFD       D S                +   D ++  + L+L R +  I D +
Sbjct: 85  VPVSFFFDDMAETVQDQSPVAVARGTSGLNEEPASFEADPMTKRETLELVRAYYSITDPQ 144

Query: 115 VRQKIIELVRSIVS 128
           VR+++ +L +++ +
Sbjct: 145 VRRRVYDLAKALAA 158


>gi|148259042|ref|YP_001233169.1| XRE family transcriptional regulator [Acidiphilium cryptum JF-5]
 gi|326402169|ref|YP_004282250.1| Xre family transcriptional regulator [Acidiphilium multivorum
           AIU301]
 gi|146400723|gb|ABQ29250.1| transcriptional regulator, XRE family [Acidiphilium cryptum JF-5]
 gi|325049030|dbj|BAJ79368.1| Xre family transcriptional regulator [Acidiphilium multivorum
           AIU301]
          Length = 161

 Score =  172 bits (436), Expect = 2e-41,   Method: Composition-based stats.
 Identities = 64/141 (45%), Positives = 92/141 (65%), Gaps = 16/141 (11%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            P+P+D++VG RIRLRR +LGMSQEKLG+ LG+TFQQVQKYE+GVNRVGASRL  IS VL
Sbjct: 17  RPSPIDVHVGSRIRLRRTLLGMSQEKLGDALGLTFQQVQKYERGVNRVGASRLFDISRVL 76

Query: 67  ESPISFFFDVSPTVCSDIS-----------SEENNVM-----DFISTPDGLQLNRYFIQI 110
           + PISFFFD  P   +++            SE          D ++  + L+L R + +I
Sbjct: 77  DVPISFFFDDMPEGMNEMPMSGPRGRSNGLSEAQEPFGVGLDDHMTKRETLELVRAYYRI 136

Query: 111 DDVKVRQKIIELVRSIVSSEK 131
            +  VR+++ +L++S+  ++ 
Sbjct: 137 TEPTVRKRMFDLIKSLAPADS 157


>gi|144900187|emb|CAM77051.1| transcriptional regulators [Magnetospirillum gryphiswaldense MSR-1]
          Length = 161

 Score =  171 bits (434), Expect = 3e-41,   Method: Composition-based stats.
 Identities = 60/131 (45%), Positives = 87/131 (66%), Gaps = 9/131 (6%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            PNP+D++VG R+RLRR +LGMSQEKLGE LG+TFQQVQKYE+G NRVGASRL  +S VL
Sbjct: 26  KPNPIDVHVGARVRLRRTLLGMSQEKLGEALGLTFQQVQKYERGANRVGASRLFDLSRVL 85

Query: 67  ESPISFFFDVSPTVCSDIS---------SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           + P+SFFFD        +S            +   D ++  + L+L R + +I D  VR+
Sbjct: 86  DVPVSFFFDDMSEEVEALSPRLISGLAEEPASFETDPMTKRETLELVRAYYRITDPHVRK 145

Query: 118 KIIELVRSIVS 128
           ++++L +++ +
Sbjct: 146 RVLDLAKALGA 156


>gi|86358808|ref|YP_470700.1| transcriptional regulator protein [Rhizobium etli CFN 42]
 gi|86282910|gb|ABC91973.1| probable transcriptional regulator protein [Rhizobium etli CFN 42]
          Length = 141

 Score =  171 bits (433), Expect = 4e-41,   Method: Composition-based stats.
 Identities = 62/124 (50%), Positives = 86/124 (69%), Gaps = 2/124 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  P+ FFF+        I  E + +  F+S+ +GL LN+ FI I+D  VRQK++ L ++
Sbjct: 64  LRVPVGFFFE--NGGSGPIEGETSELNKFLSSKEGLALNKAFIAIEDPNVRQKLVALAKT 121

Query: 126 IVSS 129
           + ++
Sbjct: 122 LATA 125


>gi|167644301|ref|YP_001681964.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167346731|gb|ABZ69466.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 171

 Score =  170 bits (432), Expect = 4e-41,   Method: Composition-based stats.
 Identities = 57/135 (42%), Positives = 92/135 (68%), Gaps = 5/135 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           + PN VD++VG R+R+RR +LG+SQE L + LG+TFQQVQKYE+G NRV AS+L  I++ 
Sbjct: 36  RTPNVVDLHVGGRVRMRRKMLGISQEHLADALGLTFQQVQKYERGANRVSASKLYEIAKT 95

Query: 66  LESPISFFFDVSPTVCSDISSEENN-----VMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           L+ P+S+FF+      +D   +        + DF++TP+GL+L   F +I   +VR++I+
Sbjct: 96  LQVPVSYFFEGLADPVTDEGDDAGEAANRVITDFLNTPEGLELAAIFPKIGKGRVRRQIL 155

Query: 121 ELVRSIVSSEKKYRT 135
           +LVR++   E + ++
Sbjct: 156 DLVRAMADDEGQQKS 170


>gi|159045315|ref|YP_001534109.1| putative transcriptional regulator [Dinoroseobacter shibae DFL 12]
 gi|157913075|gb|ABV94508.1| putative transcriptional regulator [Dinoroseobacter shibae DFL 12]
          Length = 123

 Score =  170 bits (432), Expect = 5e-41,   Method: Composition-based stats.
 Identities = 47/123 (38%), Positives = 79/123 (64%), Gaps = 1/123 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKR+R RR ++GM+Q++L + +GI FQQ+QKYE G+NRV ASRL  I+  L
Sbjct: 1   MKHPVDVHVGKRVRHRRWMVGMTQQQLADKVGIKFQQIQKYETGMNRVSASRLWEIASSL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             P+SFFF+         + + +   D +S  + L+L R +  I + + R+++ +L R +
Sbjct: 61  GVPVSFFFEGLGAAQVAQTHDIDMPGDLLSDKEALELVRSYYAIPETQ-RRRLFDLARVL 119

Query: 127 VSS 129
             +
Sbjct: 120 SDA 122


>gi|150376667|ref|YP_001313263.1| XRE family transcriptional regulator [Sinorhizobium medicae WSM419]
 gi|150031214|gb|ABR63330.1| transcriptional regulator, XRE family [Sinorhizobium medicae
           WSM419]
          Length = 152

 Score =  170 bits (432), Expect = 5e-41,   Method: Composition-based stats.
 Identities = 65/137 (47%), Positives = 91/137 (66%), Gaps = 5/137 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           NKK PNP+D  VG R+R+RR+++G+SQEKL + LGITFQQVQKYEKG NR+GASRLQ I+
Sbjct: 2   NKKDPNPIDAFVGSRVRMRRLMIGLSQEKLADGLGITFQQVQKYEKGTNRIGASRLQAIA 61

Query: 64  EVLESPISFFFDVSPTVC-----SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           ++L    SFFF            S    E   +  F+++ +G+ LNR F++I D  +R+K
Sbjct: 62  DILGVHPSFFFQQEEGSTQSGRPSGDIHESQEISSFVASKEGIALNRAFLKIADPVLRKK 121

Query: 119 IIELVRSIVSSEKKYRT 135
           II LV ++  S +  +T
Sbjct: 122 IISLVAAMAQSPESDQT 138


>gi|85715705|ref|ZP_01046684.1| transcriptional regulator, XRE family protein [Nitrobacter sp.
           Nb-311A]
 gi|85697358|gb|EAQ35237.1| transcriptional regulator, XRE family protein [Nitrobacter sp.
           Nb-311A]
          Length = 149

 Score =  170 bits (431), Expect = 7e-41,   Method: Composition-based stats.
 Identities = 68/133 (51%), Positives = 90/133 (67%), Gaps = 5/133 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PN VD +VG R+R+RR++LGMSQE+LGE LG+TFQQVQKYEKG NRVGASR++ IS
Sbjct: 17  SIKSPNYVDKHVGSRVRMRRIMLGMSQEQLGEALGLTFQQVQKYEKGTNRVGASRIKQIS 76

Query: 64  EVLESPISFFFDVSPTVCSDIS-----SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           E+L  P+SF F+ SPT  S           ++V  F++T  GL L R F +I D K+R+ 
Sbjct: 77  EILGVPVSFLFEGSPTRISATEDPGQVPSPDSVSSFVATTQGLALIRAFTRITDPKLRRS 136

Query: 119 IIELVRSIVSSEK 131
           ++ LV  I   E 
Sbjct: 137 VVNLVEQIACRED 149


>gi|56697797|ref|YP_168167.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
 gi|56679534|gb|AAV96200.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
          Length = 123

 Score =  169 bits (430), Expect = 8e-41,   Method: Composition-based stats.
 Identities = 49/122 (40%), Positives = 78/122 (63%), Gaps = 1/122 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKR+R RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I+E L
Sbjct: 1   MTHPVDVHVGKRVRHRRWLIGMTQQQLAEQVGIKFQQIQKYETGANRVSASRLWDIAEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           + P+SFFF+        ++ + +   D +   + L L R +  I + + R+++ EL R +
Sbjct: 61  DVPVSFFFEGLEEAEKVVAEKPSVPADLMGDKEALDLVRSYYAIPENQ-RRRLFELARVL 119

Query: 127 VS 128
             
Sbjct: 120 SD 121


>gi|116253382|ref|YP_769220.1| transcriptional regulator [Rhizobium leguminosarum bv. viciae 3841]
 gi|15007265|gb|AAK77322.1| putative transcriptional regulator [Rhizobium leguminosarum bv.
           viciae]
 gi|115258030|emb|CAK09128.1| putative transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
          Length = 141

 Score =  169 bits (429), Expect = 1e-40,   Method: Composition-based stats.
 Identities = 62/124 (50%), Positives = 87/124 (70%), Gaps = 2/124 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQNGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  P+ FFF+   +   D ++  N +  F+S+ +GL LN+ FI I+D  +RQK++ L +S
Sbjct: 64  LRVPVGFFFENGGSGPIDGAT--NELNSFLSSKEGLALNKAFIAIEDPNIRQKLVALAKS 121

Query: 126 IVSS 129
           +  +
Sbjct: 122 LAVA 125


>gi|241205900|ref|YP_002976996.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240859790|gb|ACS57457.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 141

 Score =  169 bits (429), Expect = 1e-40,   Method: Composition-based stats.
 Identities = 63/122 (51%), Positives = 85/122 (69%), Gaps = 2/122 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQNGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  PI FFF+       D ++  N +  F+S+ +GL LN+ FI I+D  +RQK++ L +S
Sbjct: 64  LRVPIGFFFENGGAGPIDGAT--NELNSFLSSKEGLALNKAFIAIEDPNIRQKLVALAKS 121

Query: 126 IV 127
           + 
Sbjct: 122 LA 123


>gi|190893033|ref|YP_001979575.1| transcriptional regulator protein [Rhizobium etli CIAT 652]
 gi|218517003|ref|ZP_03513843.1| probable transcriptional regulator protein [Rhizobium etli 8C-3]
 gi|190698312|gb|ACE92397.1| probable transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 141

 Score =  169 bits (429), Expect = 1e-40,   Method: Composition-based stats.
 Identities = 62/122 (50%), Positives = 84/122 (68%), Gaps = 2/122 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  P+ FFF+        I  E + +  F+S+ +GL LN+ FI I+D  +RQK++ L +S
Sbjct: 64  LRVPVGFFFE--NGGSGPIEGETSELNKFLSSKEGLALNKAFIAIEDPNIRQKLVALAKS 121

Query: 126 IV 127
           + 
Sbjct: 122 LA 123


>gi|220920276|ref|YP_002495577.1| XRE family transcriptional regulator [Methylobacterium nodulans ORS
           2060]
 gi|219944882|gb|ACL55274.1| transcriptional regulator, XRE family [Methylobacterium nodulans
           ORS 2060]
          Length = 137

 Score =  169 bits (428), Expect = 1e-40,   Method: Composition-based stats.
 Identities = 59/131 (45%), Positives = 90/131 (68%), Gaps = 5/131 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK P+P+D +VG R+R+RR+++G+SQEKLG+ LG+TFQQ+QKYEKG NR+ ASRLQ I+E
Sbjct: 2   KKAPDPIDRHVGHRVRVRRLLVGVSQEKLGDALGVTFQQIQKYEKGANRISASRLQQIAE 61

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVM-----DFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +L  P+ FF++ +P   + +  E   V      D   T   LQL R F ++DD +VR+++
Sbjct: 62  MLGVPVGFFYEGAPRPENWLDEEHVEVARQPGSDLFWTSQDLQLVRAFQRVDDPQVRRRL 121

Query: 120 IELVRSIVSSE 130
           + LV ++   +
Sbjct: 122 VALVEALSGKD 132


>gi|218672917|ref|ZP_03522586.1| probable transcriptional regulator protein [Rhizobium etli GR56]
          Length = 141

 Score =  169 bits (428), Expect = 1e-40,   Method: Composition-based stats.
 Identities = 64/124 (51%), Positives = 85/124 (68%), Gaps = 2/124 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  P+ FFF+        I  E + +  F+S+ +GL LN+ FI I+D  +RQK++ L RS
Sbjct: 64  LRVPVGFFFE--NGGSGPIEGETSELNKFLSSKEGLALNKAFIAIEDPNIRQKLVALARS 121

Query: 126 IVSS 129
           +  S
Sbjct: 122 LAVS 125


>gi|209550535|ref|YP_002282452.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209536291|gb|ACI56226.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
          Length = 141

 Score =  168 bits (427), Expect = 2e-40,   Method: Composition-based stats.
 Identities = 63/124 (50%), Positives = 85/124 (68%), Gaps = 2/124 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  PI FFF+        I  E + +  F+S+ +GL LN+ FI I+D  +RQK++ L +S
Sbjct: 64  LRVPIGFFFE--NGGSGPIEGETSELNKFLSSKEGLALNKAFIAIEDPNIRQKLVALAKS 121

Query: 126 IVSS 129
           +  +
Sbjct: 122 LAVA 125


>gi|16264444|ref|NP_437236.1| putative transcriptional regulator protein [Sinorhizobium meliloti
           1021]
 gi|307306783|ref|ZP_07586524.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
 gi|307320821|ref|ZP_07600231.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|15140581|emb|CAC49096.1| putative transcriptional regulator protein [Sinorhizobium meliloti
           1021]
 gi|306893531|gb|EFN24307.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306902074|gb|EFN32672.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
          Length = 152

 Score =  168 bits (427), Expect = 2e-40,   Method: Composition-based stats.
 Identities = 62/137 (45%), Positives = 90/137 (65%), Gaps = 5/137 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           NKK PNP+D  VG R+R+RR+++G+SQEKL + LGITFQQVQKYEKG NR+GASRLQ I+
Sbjct: 2   NKKDPNPIDAFVGSRVRMRRLMIGLSQEKLADGLGITFQQVQKYEKGTNRIGASRLQAIA 61

Query: 64  EVLESPISFFFDVSPTVC-----SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           ++L    SFFF            +    E   +  F+++ +G+ LNR F++I D  +R+K
Sbjct: 62  DILGVHPSFFFQQDEGSVHSGKPAADVHESQEISSFVASKEGIALNRAFLKITDPVLRKK 121

Query: 119 IIELVRSIVSSEKKYRT 135
           II LV ++  + +  + 
Sbjct: 122 IISLVAAMAQTPEADQA 138


>gi|295687480|ref|YP_003591173.1| XRE family transcriptional regulator [Caulobacter segnis ATCC
           21756]
 gi|295429383|gb|ADG08555.1| transcriptional regulator, XRE family [Caulobacter segnis ATCC
           21756]
          Length = 140

 Score =  168 bits (427), Expect = 2e-40,   Method: Composition-based stats.
 Identities = 64/132 (48%), Positives = 93/132 (70%), Gaps = 1/132 (0%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           + G ++ PNPVD++VG RIR+RR ILG+SQE+L E LG+TFQQ+QKYE+G NRV AS+L 
Sbjct: 4   LSGAERHPNPVDLHVGARIRMRRKILGVSQERLAEDLGLTFQQIQKYERGANRVSASKLY 63

Query: 61  HISEVLESPISFFFDVSPTVCSDISSE-ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
            I++ L++ + +FF+   T    +S   E  V DF+ T +GL+L   F +I   KVR++I
Sbjct: 64  EIAKSLQASVGYFFEGLETTVDGVSEPGEPFVHDFLMTSEGLELAAQFPRITRSKVRRRI 123

Query: 120 IELVRSIVSSEK 131
           +ELVRS+   E+
Sbjct: 124 LELVRSMAEEEE 135


>gi|163737462|ref|ZP_02144879.1| transcriptional regulator, XRE family protein [Phaeobacter
           gallaeciensis BS107]
 gi|161388988|gb|EDQ13340.1| transcriptional regulator, XRE family protein [Phaeobacter
           gallaeciensis BS107]
          Length = 123

 Score =  168 bits (427), Expect = 2e-40,   Method: Composition-based stats.
 Identities = 51/123 (41%), Positives = 77/123 (62%), Gaps = 1/123 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L
Sbjct: 1   MAHPVDVHVGKRIRHRRWLIGMTQQQLAELVGIKFQQIQKYETGANRVSASRLWDISDAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             P+SFFF+      +  S +     D +   + L L R +  I + + R+++ EL R +
Sbjct: 61  SVPVSFFFEGLQDDDAPASDKAQVPDDLMGDKEALDLVRSYYAIPENQ-RRRLFELARVL 119

Query: 127 VSS 129
             +
Sbjct: 120 SDA 122


>gi|209552341|ref|YP_002284256.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209539453|gb|ACI59385.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
          Length = 152

 Score =  168 bits (426), Expect = 2e-40,   Method: Composition-based stats.
 Identities = 66/138 (47%), Positives = 94/138 (68%), Gaps = 5/138 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K PN +D  VG RIR+RR +LGMSQE+L E +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2   NVKTPNAIDGYVGARIRMRRQLLGMSQERLAEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64  EVLESPISFFFDVSPTV-----CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           +VL +  SFFF+   +        D+ +  + V +F+ T +GL LNR F++I D  +R+ 
Sbjct: 62  DVLHTSPSFFFEQENSEPLTLQGLDLPANSDPVAEFLQTKEGLVLNRAFLKIADRNIRET 121

Query: 119 IIELVRSIVSSEKKYRTI 136
           II LV+++  +E    T+
Sbjct: 122 IIALVKAMAQAESSGVTL 139


>gi|83595104|ref|YP_428856.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
           11170]
 gi|83578018|gb|ABC24569.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
           11170]
          Length = 210

 Score =  168 bits (426), Expect = 2e-40,   Method: Composition-based stats.
 Identities = 55/129 (42%), Positives = 81/129 (62%), Gaps = 9/129 (6%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            PNPVD++VG R+RLRR +LG+SQEKLGE +G+TFQQVQKYE+G NR+GASRL  +  VL
Sbjct: 66  KPNPVDVHVGARVRLRRTLLGLSQEKLGEAIGLTFQQVQKYERGANRIGASRLWDLGRVL 125

Query: 67  ESPISFFFDVSPTV---------CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           + P+++FFD                          D ++  + L+L R + +I D  VR+
Sbjct: 126 DVPMAYFFDEMDDSTQRHSPMNIAQHPGEPPVQGTDTMTRRETLELVRAYYRIGDPGVRR 185

Query: 118 KIIELVRSI 126
           ++ EL +++
Sbjct: 186 RVFELTKTL 194


>gi|260426926|ref|ZP_05780905.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
 gi|260421418|gb|EEX14669.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
          Length = 123

 Score =  168 bits (425), Expect = 3e-40,   Method: Composition-based stats.
 Identities = 50/122 (40%), Positives = 75/122 (61%), Gaps = 1/122 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I++ L
Sbjct: 1   MTHPVDVHVGKRIRHRRWLVGMTQQQLAEQVGIKFQQIQKYETGANRVSASRLWDIADAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +  +SFFF+   T      S      D +   + L L R +  I + + R+++ EL R +
Sbjct: 61  DVSVSFFFEGLETEQDAPVSAAAMPSDILGDKEALDLVRSYYAIPENQ-RRRLFELARVL 119

Query: 127 VS 128
             
Sbjct: 120 SD 121


>gi|167621874|ref|YP_001676659.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167351615|gb|ABZ74345.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 140

 Score =  168 bits (425), Expect = 3e-40,   Method: Composition-based stats.
 Identities = 58/131 (44%), Positives = 86/131 (65%), Gaps = 3/131 (2%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +    +PNPVD++VG R+R+RR +LGMSQE L   LGI+FQQ+QKYE+G NRV AS+L  
Sbjct: 5   IAPDHLPNPVDLHVGARVRVRRKVLGMSQEALANALGISFQQIQKYERGTNRVSASKLYD 64

Query: 62  ISEVLESPISFFFDVSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           I+  L +P+S+FF+     C   +S    E +V  F++T +GL+L   F +I    VR+ 
Sbjct: 65  IARTLGAPVSYFFEGLADPCDPDASSDPTEASVQQFLATSEGLELAAIFPKIQRAAVRRH 124

Query: 119 IIELVRSIVSS 129
           +++LVRS+   
Sbjct: 125 VLQLVRSMAED 135


>gi|218681409|ref|ZP_03529306.1| transcriptional regulator, XRE family protein [Rhizobium etli CIAT
           894]
          Length = 141

 Score =  168 bits (425), Expect = 3e-40,   Method: Composition-based stats.
 Identities = 63/122 (51%), Positives = 84/122 (68%), Gaps = 2/122 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGANRIGASRLQKISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  PI FFF+        I  E + +  F+S+ +GL LN+ FI I+D  +RQK++ L +S
Sbjct: 64  LRVPIGFFFE--NGGSGPIEGETSELNKFLSSKEGLALNKAFIAIEDPNIRQKLVALAKS 121

Query: 126 IV 127
           + 
Sbjct: 122 LA 123


>gi|218458068|ref|ZP_03498159.1| probable transcriptional regulator protein [Rhizobium etli Kim 5]
          Length = 127

 Score =  167 bits (424), Expect = 4e-40,   Method: Composition-based stats.
 Identities = 62/122 (50%), Positives = 84/122 (68%), Gaps = 2/122 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  P+ FFF+        I  E + +  F+S+ +GL LN+ FI I+D  +RQK++ L +S
Sbjct: 64  LRVPVGFFFE--NGGAGPIEGETSELNKFLSSKEGLALNKAFIAIEDPNIRQKLVALAKS 121

Query: 126 IV 127
           + 
Sbjct: 122 LA 123


>gi|254464668|ref|ZP_05078079.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
           Y4I]
 gi|206685576|gb|EDZ46058.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
           Y4I]
          Length = 123

 Score =  167 bits (423), Expect = 5e-40,   Method: Composition-based stats.
 Identities = 51/123 (41%), Positives = 77/123 (62%), Gaps = 1/123 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L
Sbjct: 1   MAHPVDVHVGKRIRHRRWLIGMTQQQLAEQVGIKFQQIQKYETGANRVSASRLWDISDAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           E P+SFFF+         + +     D +   + L L R +  I + + R+++ EL R +
Sbjct: 61  EVPVSFFFEGLQEEGKAPAEKSAVPEDLMGDKEALDLVRSYYAIPENQ-RRRLFELARVL 119

Query: 127 VSS 129
             +
Sbjct: 120 SDA 122


>gi|114705364|ref|ZP_01438272.1| dna-binding protein [Fulvimarina pelagi HTCC2506]
 gi|114540149|gb|EAU43269.1| dna-binding protein [Fulvimarina pelagi HTCC2506]
          Length = 138

 Score =  167 bits (423), Expect = 5e-40,   Method: Composition-based stats.
 Identities = 76/138 (55%), Positives = 108/138 (78%), Gaps = 5/138 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  NKK+PNP+DI+VG R+RLRR +L +SQEKLGE LGITFQQVQKYEKG NR+GASRLQ
Sbjct: 1   MPVNKKMPNPIDIHVGSRVRLRRTMLSLSQEKLGEALGITFQQVQKYEKGTNRIGASRLQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEE-----NNVMDFISTPDGLQLNRYFIQIDDVKV 115
            ISEVL+ P++FFF+ +PT  + ++        + ++DF+ST +GLQLN+ FI+I + KV
Sbjct: 61  RISEVLKVPVAFFFEDAPTNGNTVTGMSEPHGGDYMVDFLSTSEGLQLNKAFIKIGNQKV 120

Query: 116 RQKIIELVRSIVSSEKKY 133
           R+++++LVRS+  +++  
Sbjct: 121 RRRVVDLVRSLAENDEDD 138


>gi|16127394|ref|NP_421958.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
           CB15]
 gi|221236203|ref|YP_002518640.1| transcriptional regulator [Caulobacter crescentus NA1000]
 gi|13424834|gb|AAK25126.1| transcriptional regulator, Cro/CI family [Caulobacter crescentus
           CB15]
 gi|220965376|gb|ACL96732.1| hypothetical transcriptional regulatory protein [Caulobacter
           crescentus NA1000]
          Length = 156

 Score =  167 bits (423), Expect = 5e-40,   Method: Composition-based stats.
 Identities = 58/136 (42%), Positives = 92/136 (67%), Gaps = 6/136 (4%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           + PNPVD++VG R+R+RR +LG+SQE+L + LG+TFQQVQKYE+G NRV AS+L  I++ 
Sbjct: 21  RRPNPVDLHVGGRVRMRRKLLGVSQEQLADSLGLTFQQVQKYERGANRVSASKLYEIAKT 80

Query: 66  LESPISFFFDVSPTVCSDISSE------ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           L+ P+SFFFD      +   ++      E  V +F++TP+GL+L   F +I   +VR+++
Sbjct: 81  LQVPVSFFFDGLADPMNGAEADDAGLHAEKVVQEFLTTPEGLELAEVFPRIARGRVRRQV 140

Query: 120 IELVRSIVSSEKKYRT 135
           ++LVR++     +   
Sbjct: 141 LDLVRAMADEASRDGA 156


>gi|295688460|ref|YP_003592153.1| XRE family transcriptional regulator [Caulobacter segnis ATCC
           21756]
 gi|295430363|gb|ADG09535.1| transcriptional regulator, XRE family [Caulobacter segnis ATCC
           21756]
          Length = 132

 Score =  167 bits (423), Expect = 6e-40,   Method: Composition-based stats.
 Identities = 52/132 (39%), Positives = 82/132 (62%), Gaps = 3/132 (2%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +   K P+PVD++VG+R+R+RR  LG SQ+ L + LG+TFQQVQKYE G NR+ AS+L  
Sbjct: 1   MAEDKTPDPVDVHVGRRLRMRRKDLGYSQQALADALGLTFQQVQKYEGGANRISASKLHA 60

Query: 62  ISEVLESPISFFFDVSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            +  L++PI FFF+         ++     N + +F STP G +L R ++ I+   +R+ 
Sbjct: 61  TAMFLKTPIGFFFEGLDDPEGADTTAADLANEMAEFWSTPGGPELARAYVAIESTGMRRH 120

Query: 119 IIELVRSIVSSE 130
           + +L ++I   E
Sbjct: 121 LADLAKAIADDE 132


>gi|296532209|ref|ZP_06894960.1| cro/CI family transcriptional regulator [Roseomonas cervicalis ATCC
           49957]
 gi|296267465|gb|EFH13339.1| cro/CI family transcriptional regulator [Roseomonas cervicalis ATCC
           49957]
          Length = 149

 Score =  166 bits (422), Expect = 7e-40,   Method: Composition-based stats.
 Identities = 60/140 (42%), Positives = 87/140 (62%), Gaps = 11/140 (7%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
              +  P+P+D++VG R+RLRR +LGMSQEKLGE LG+TFQQVQKYE+GVNR+GASRL  
Sbjct: 10  SEREHRPSPIDVHVGSRVRLRRTLLGMSQEKLGEALGLTFQQVQKYERGVNRIGASRLFD 69

Query: 62  ISEVLESPISFFFDVSPTVCSD-----------ISSEENNVMDFISTPDGLQLNRYFIQI 110
           ++ VL+ PI FFFD  P                   +E    D +   + L+L R + +I
Sbjct: 70  LARVLDVPIGFFFDDMPDAMGGQTALRARIGGFAEQQEGFEDDTLHKRETLELVRAYYRI 129

Query: 111 DDVKVRQKIIELVRSIVSSE 130
            +  VR+++ EL++S+   +
Sbjct: 130 TEPSVRKRVFELIKSLAPID 149


>gi|260432963|ref|ZP_05786934.1| transcriptional regulator, XRE family [Silicibacter
           lacuscaerulensis ITI-1157]
 gi|260416791|gb|EEX10050.1| transcriptional regulator, XRE family [Silicibacter
           lacuscaerulensis ITI-1157]
          Length = 123

 Score =  166 bits (422), Expect = 7e-40,   Method: Composition-based stats.
 Identities = 47/122 (38%), Positives = 77/122 (63%), Gaps = 1/122 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + VD++VGKR+R RR ++GM+Q++L + +GI FQQ+QKYE G NR+ ASRL  I+E L
Sbjct: 1   MTHHVDVHVGKRVRHRRWLIGMTQQQLAQQVGIKFQQIQKYETGANRISASRLWDIAEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           + P+SFFF+         S +++   D +   + L L R +  I + + R+++ EL R +
Sbjct: 61  DVPVSFFFEGLEETQKADSDKQSVPADLMGDKEALDLVRSYYAIPENQ-RRRLFELARVL 119

Query: 127 VS 128
             
Sbjct: 120 SD 121


>gi|222080150|ref|YP_002540013.1| transcriptional regulator [Agrobacterium vitis S4]
 gi|221738795|gb|ACM39574.1| transcriptional regulator [Agrobacterium vitis S4]
          Length = 146

 Score =  166 bits (421), Expect = 8e-40,   Method: Composition-based stats.
 Identities = 67/131 (51%), Positives = 88/131 (67%), Gaps = 2/131 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M    K+PNPVDI VG+RI+ RR ILGMSQ KL E LG+TFQQVQKY+KG NRVGASRLQ
Sbjct: 7   MKRGPKVPNPVDIEVGERIKARRRILGMSQGKLAEALGVTFQQVQKYKKGKNRVGASRLQ 66

Query: 61  HISEVLESPISFFF-DVSPTVCSDISSEEN-NVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           +++ +   P S+FF D S     DI+S     +  F++  +GL LNR F  I    VR++
Sbjct: 67  NVATIFGVPFSYFFPDQSSGTEGDITSNPGKEITAFLANNEGLDLNRAFALISSPLVRKR 126

Query: 119 IIELVRSIVSS 129
           ++ LV+SI  +
Sbjct: 127 VVGLVKSISEA 137


>gi|294676430|ref|YP_003577045.1| XRE family transcriptional regulator [Rhodobacter capsulatus SB
           1003]
 gi|294475250|gb|ADE84638.1| transcriptional regulator, XRE family [Rhodobacter capsulatus SB
           1003]
          Length = 120

 Score =  166 bits (421), Expect = 9e-40,   Method: Composition-based stats.
 Identities = 48/122 (39%), Positives = 80/122 (65%), Gaps = 4/122 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++G++Q++L + +GI FQQ+QKYE G+NRV ASRL  I++ L
Sbjct: 1   MKHPVDVHVGKRIRHRRWLVGVTQQQLADKVGIKFQQIQKYETGMNRVSASRLWDIADAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           + P+SFFF+       + +++E    D  S  + L L R +  I + + R+++ EL + +
Sbjct: 61  DVPVSFFFEGLSGEDPNTAAQEG---DLFSDKEALALVRSYYAIPEAQ-RRRLFELAKVL 116

Query: 127 VS 128
             
Sbjct: 117 SD 118


>gi|295688227|ref|YP_003591920.1| XRE family transcriptional regulator [Caulobacter segnis ATCC
           21756]
 gi|295430130|gb|ADG09302.1| transcriptional regulator, XRE family [Caulobacter segnis ATCC
           21756]
          Length = 144

 Score =  166 bits (421), Expect = 9e-40,   Method: Composition-based stats.
 Identities = 57/133 (42%), Positives = 91/133 (68%), Gaps = 6/133 (4%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           + PNPVD++VG R+R+RR ++G+SQE+L + LG+TFQQVQKYE+G NRV AS+L  I++ 
Sbjct: 8   RRPNPVDLHVGGRVRMRRKLMGVSQEQLADSLGLTFQQVQKYERGANRVSASKLYDIAKT 67

Query: 66  LESPISFFFDVSPTVCSDIS------SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           L+ P+SFFF+      S           E  V +F++TP+GL+L   F +I   +VR+++
Sbjct: 68  LQVPVSFFFEGLADPMSGAEIDATAQHAEKVVQEFLTTPEGLELAEVFPRIGRGRVRRQV 127

Query: 120 IELVRSIVSSEKK 132
           ++LVR++    ++
Sbjct: 128 LDLVRAMADEAQR 140


>gi|89053723|ref|YP_509174.1| XRE family transcriptional regulator [Jannaschia sp. CCS1]
 gi|88863272|gb|ABD54149.1| transcriptional regulator, XRE family [Jannaschia sp. CCS1]
          Length = 126

 Score =  166 bits (421), Expect = 1e-39,   Method: Composition-based stats.
 Identities = 51/125 (40%), Positives = 83/125 (66%), Gaps = 3/125 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++G +Q++L E +GI FQQ+QKYE G+NRV ASRL  I E L
Sbjct: 1   MTHPVDVHVGKRIRHRRWMVGRTQQQLAETVGIKFQQIQKYETGMNRVSASRLWDIGEAL 60

Query: 67  ESPISFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           + P+++FF+   S  V SD ++ E    D ++  + L+L R +  I + + R+++ +L R
Sbjct: 61  DVPVAYFFEGVGSEEVASDTATGEALPGDLLADREALELVRSYYAIPENQ-RRRLFDLAR 119

Query: 125 SIVSS 129
            +  +
Sbjct: 120 VLSDA 124


>gi|116249754|ref|YP_765592.1| putative HTH transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|115254402|emb|CAK04035.1| putative HTH transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
          Length = 152

 Score =  166 bits (420), Expect = 1e-39,   Method: Composition-based stats.
 Identities = 65/138 (47%), Positives = 94/138 (68%), Gaps = 5/138 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K  N +D  VG RIR+RR +LGMSQE+L E +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2   NVKTANAIDSYVGARIRMRRQLLGMSQERLAEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64  EVLESPISFFFDVSPTV-----CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           EVL +  SFFF+   +        D+ +  + V +F+ T +GL LNR F++I D  +R+ 
Sbjct: 62  EVLHTSPSFFFEQENSEPLTLQGLDLPANMDPVAEFLRTKEGLVLNRAFLKIADSNIRET 121

Query: 119 IIELVRSIVSSEKKYRTI 136
           +I LV+++  +E +  T+
Sbjct: 122 VIALVKAMAQAESRGLTL 139


>gi|163797135|ref|ZP_02191090.1| Predicted transcriptional regulator [alpha proteobacterium BAL199]
 gi|159177651|gb|EDP62204.1| Predicted transcriptional regulator [alpha proteobacterium BAL199]
          Length = 150

 Score =  166 bits (420), Expect = 1e-39,   Method: Composition-based stats.
 Identities = 59/126 (46%), Positives = 81/126 (64%), Gaps = 3/126 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            PNPVD++VG RIRLRR +LGMSQE+LG+ LG+TFQQVQKYE+G NRVGASRL  ++  L
Sbjct: 19  NPNPVDVHVGVRIRLRRTLLGMSQERLGDALGLTFQQVQKYERGANRVGASRLFDLARAL 78

Query: 67  ESPISFFFDVSPTVCSDI---SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           + P+ FFFD       +     +      D +   + ++L R F +I D   R+++ EL 
Sbjct: 79  QVPVGFFFDDLADGTVEGKVPPASATPADDPMQQRETIELVRAFYRIPDPTARRRLYELT 138

Query: 124 RSIVSS 129
           RSI  +
Sbjct: 139 RSIADA 144


>gi|221232988|ref|YP_002515424.1| HTH transcriptional regulator [Caulobacter crescentus NA1000]
 gi|220962160|gb|ACL93516.1| HTH transcriptional regulator [Caulobacter crescentus NA1000]
          Length = 144

 Score =  166 bits (420), Expect = 1e-39,   Method: Composition-based stats.
 Identities = 64/131 (48%), Positives = 91/131 (69%), Gaps = 2/131 (1%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
              ++ PNPVD++VG RIR+RR ILG+SQE+L E LG+TFQQVQKYE+G NRV AS+L  
Sbjct: 7   SDTERHPNPVDLHVGARIRMRRRILGVSQERLAEDLGLTFQQVQKYERGANRVSASKLYE 66

Query: 62  ISEVLESPISFFFDVSPTVCSDISSE--ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           I+  L+SP+ +FF+          +E  E  V DF+ TP+GL+L   F ++   KVR++I
Sbjct: 67  IARSLQSPVDYFFEGLEDTTGGGMAERGEPFVHDFLMTPEGLELATLFPKVSRQKVRRRI 126

Query: 120 IELVRSIVSSE 130
           +ELVRS+ + +
Sbjct: 127 LELVRSMAAED 137


>gi|99081750|ref|YP_613904.1| XRE family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99038030|gb|ABF64642.1| transcriptional regulator, XRE family [Ruegeria sp. TM1040]
          Length = 123

 Score =  165 bits (419), Expect = 1e-39,   Method: Composition-based stats.
 Identities = 51/122 (41%), Positives = 75/122 (61%), Gaps = 1/122 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVDI+VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L
Sbjct: 1   MAHPVDIHVGKRIRHRRWLIGMTQQQLAEKVGIKFQQIQKYETGANRVSASRLWDISDAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +  ISFFF+        +  +     D +   + L L R +  I + + R+++ EL R +
Sbjct: 61  DVNISFFFEGLQDETKSVPDKARVPADLMGDKEALDLVRSYYAIPENQ-RRRLFELARVL 119

Query: 127 VS 128
             
Sbjct: 120 SD 121


>gi|83945000|ref|ZP_00957366.1| transcriptional regulator, Cro/CI family protein [Oceanicaulis
           alexandrii HTCC2633]
 gi|83851782|gb|EAP89637.1| transcriptional regulator, Cro/CI family protein [Oceanicaulis
           alexandrii HTCC2633]
          Length = 144

 Score =  165 bits (419), Expect = 1e-39,   Method: Composition-based stats.
 Identities = 67/128 (52%), Positives = 88/128 (68%), Gaps = 4/128 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  N + PN VD +VG RIRLRR +L +SQEKLGE LG+TFQQVQKYE+G NRVGA RL 
Sbjct: 1   MTANPRGPNAVDRHVGSRIRLRRQLLNLSQEKLGEELGVTFQQVQKYERGTNRVGAGRLW 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENN----VMDFISTPDGLQLNRYFIQIDDVKVR 116
           ++++VL+ P+SFF+D            E +    V DFI + DG+ L + F +I D KVR
Sbjct: 61  NLAKVLDVPVSFFYDGVAETVGQPGFSEGDQTPIVDDFIQSADGVALAQAFARIKDSKVR 120

Query: 117 QKIIELVR 124
           ++I+ELVR
Sbjct: 121 RRILELVR 128


>gi|218670209|ref|ZP_03519880.1| probable transcriptional regulator protein [Rhizobium etli GR56]
          Length = 152

 Score =  165 bits (419), Expect = 2e-39,   Method: Composition-based stats.
 Identities = 67/138 (48%), Positives = 91/138 (65%), Gaps = 5/138 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K PN +D  VG RIR RR +LGMSQE+L E +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2   NVKTPNAIDSYVGARIRTRRQLLGMSQERLAEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64  EVLESPISFFFDVSPTV-----CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           EVL +  SFFF+   +        D     + V +F+ T +GL LNR F++I D ++R+ 
Sbjct: 62  EVLHTSPSFFFEQGDSQPLAVRGLDGPDHADPVAEFLRTKEGLVLNRAFLKIADPEIRES 121

Query: 119 IIELVRSIVSSEKKYRTI 136
           II LV ++  +E +  T 
Sbjct: 122 IIALVTAMGQAESRGLTA 139


>gi|227820124|ref|YP_002824095.1| transcriptional regulator [Sinorhizobium fredii NGR234]
 gi|227339123|gb|ACP23342.1| probable transcriptional regulator protein [Sinorhizobium fredii
           NGR234]
          Length = 148

 Score =  165 bits (419), Expect = 2e-39,   Method: Composition-based stats.
 Identities = 64/132 (48%), Positives = 91/132 (68%), Gaps = 5/132 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           NKK P  +DI+VG RIRLRR+ L  SQ KLGE L ++FQQVQKYEKG+NRVGASRLQ  +
Sbjct: 6   NKKEPRAIDIHVGNRIRLRRLALDWSQTKLGEALDVSFQQVQKYEKGLNRVGASRLQRAA 65

Query: 64  EVLESPISFFFDVSPTVCSDIS-----SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           EVL   +S+FF+  P   +        +  + ++ F++T +G+ LNR F ++ D +VR+K
Sbjct: 66  EVLSVSVSYFFEGGPETSNGGEQSAAVTSSDEMLQFLATEEGVALNRAFARLSDPQVRRK 125

Query: 119 IIELVRSIVSSE 130
           I+ LV+++  SE
Sbjct: 126 IVALVKALAPSE 137


>gi|114571577|ref|YP_758257.1| XRE family transcriptional regulator [Maricaulis maris MCS10]
 gi|114342039|gb|ABI67319.1| transcriptional regulator, XRE family [Maricaulis maris MCS10]
          Length = 140

 Score =  165 bits (418), Expect = 2e-39,   Method: Composition-based stats.
 Identities = 67/133 (50%), Positives = 92/133 (69%), Gaps = 4/133 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N + PNP+DI+VG RIRLRR +L MSQE+LG+ LG+TFQQVQKYE+G NRVGASRL  +S
Sbjct: 5   NPRGPNPIDIHVGSRIRLRRQLLKMSQERLGDDLGVTFQQVQKYERGANRVGASRLYRMS 64

Query: 64  EVLESPISFFFDVSPTVCSDISSEENN----VMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
            VLE P+ FFF+      +     E++    V DFI + DG+ L   F +I D KVR+++
Sbjct: 65  RVLEVPVQFFFEGMGERSTMTGMAEDDQTPIVYDFIRSADGVSLAESFSRIKDAKVRKRV 124

Query: 120 IELVRSIVSSEKK 132
           +ELVR++   + +
Sbjct: 125 LELVRTLADEDDE 137


>gi|16124307|ref|NP_418871.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
           CB15]
 gi|13421145|gb|AAK22039.1| transcriptional regulator, Cro/CI family [Caulobacter crescentus
           CB15]
          Length = 142

 Score =  165 bits (418), Expect = 2e-39,   Method: Composition-based stats.
 Identities = 64/131 (48%), Positives = 91/131 (69%), Gaps = 2/131 (1%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
              ++ PNPVD++VG RIR+RR ILG+SQE+L E LG+TFQQVQKYE+G NRV AS+L  
Sbjct: 5   SDTERHPNPVDLHVGARIRMRRRILGVSQERLAEDLGLTFQQVQKYERGANRVSASKLYE 64

Query: 62  ISEVLESPISFFFDVSPTVCSDISSE--ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           I+  L+SP+ +FF+          +E  E  V DF+ TP+GL+L   F ++   KVR++I
Sbjct: 65  IARSLQSPVDYFFEGLEDTTGGGMAERGEPFVHDFLMTPEGLELATLFPKVSRQKVRRRI 124

Query: 120 IELVRSIVSSE 130
           +ELVRS+ + +
Sbjct: 125 LELVRSMAAED 135


>gi|288959693|ref|YP_003450034.1| HTH-type transcriptional regulator [Azospirillum sp. B510]
 gi|288912001|dbj|BAI73490.1| HTH-type transcriptional regulator [Azospirillum sp. B510]
          Length = 164

 Score =  165 bits (418), Expect = 2e-39,   Method: Composition-based stats.
 Identities = 60/131 (45%), Positives = 87/131 (66%), Gaps = 13/131 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            PNP+D++VG R+RLRR +LGMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL
Sbjct: 22  KPNPIDVHVGSRVRLRRTLLGMSQEKLGEAIGLTFQQVQKYERGANRIGASRLFDLSRVL 81

Query: 67  ESPISFFFDVSPTVCSDISSEENNVM-------------DFISTPDGLQLNRYFIQIDDV 113
           + P+SFFFD  P   +    E+++               D ++  + L+L R + +I+D 
Sbjct: 82  DVPVSFFFDDMPAEAAAARVEDDDEAGASDERSANTYEPDPMAKRETLELVRAYYKINDP 141

Query: 114 KVRQKIIELVR 124
            VR+++ EL +
Sbjct: 142 SVRKRLFELTK 152


>gi|126735102|ref|ZP_01750848.1| putative Cro/CI transcriptional regulator [Roseobacter sp. CCS2]
 gi|126715657|gb|EBA12522.1| putative Cro/CI transcriptional regulator [Roseobacter sp. CCS2]
          Length = 123

 Score =  164 bits (417), Expect = 2e-39,   Method: Composition-based stats.
 Identities = 48/123 (39%), Positives = 77/123 (62%), Gaps = 1/123 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVDI+VGKRIR RR + G +Q++L E +GI FQQ+QKYE G+NRV ASRL  I++VL
Sbjct: 1   MKHPVDIHVGKRIRHRRWMNGTTQQQLAEAVGIKFQQIQKYETGMNRVSASRLWDIAKVL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              +SFFF+         ++  +   D ++  + L L R +  I + + R+++ +L R +
Sbjct: 61  GVNVSFFFEGLDAQTDLDANNSDMPGDILTDKEALDLLRSYYAIPENQ-RRRLFDLARVL 119

Query: 127 VSS 129
             +
Sbjct: 120 SEA 122


>gi|254511979|ref|ZP_05124046.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
           KLH11]
 gi|221535690|gb|EEE38678.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
           KLH11]
          Length = 123

 Score =  164 bits (417), Expect = 2e-39,   Method: Composition-based stats.
 Identities = 49/122 (40%), Positives = 77/122 (63%), Gaps = 1/122 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + VD++VGKR+R RR ++GM+Q++L + +GI FQQ+QKYE G NRV ASRL  I+E L
Sbjct: 1   MTHHVDVHVGKRVRHRRWLIGMTQQQLAQQVGIKFQQIQKYETGANRVSASRLWDIAEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           E P+SFFF+         S +++   D +   + L L R +  I + + R+++ EL R +
Sbjct: 61  EVPVSFFFEGLEETQKSDSDKKSVPADLMGDKEALDLVRSYYAIPENQ-RRRLFELARVL 119

Query: 127 VS 128
             
Sbjct: 120 SD 121


>gi|190894495|ref|YP_001984788.1| putative transcriptional regulator [Rhizobium etli CIAT 652]
 gi|190700156|gb|ACE94238.1| probable transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 152

 Score =  164 bits (417), Expect = 3e-39,   Method: Composition-based stats.
 Identities = 69/138 (50%), Positives = 91/138 (65%), Gaps = 5/138 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K PN +D  VG RIR RR +LGMSQE+L E +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2   NVKTPNAIDSYVGARIRTRRQLLGMSQERLAEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64  EVLESPISFFF---DVSPTVCSDISSEE--NNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           EVL +  SFFF   D  P     +   +  + V +F+ T +GL LNR F++I D  +R  
Sbjct: 62  EVLHTSPSFFFEQGDSEPVAAPGLGGRDRTDPVAEFLQTKEGLVLNRAFLKIADPHIRAS 121

Query: 119 IIELVRSIVSSEKKYRTI 136
           II LV ++  +E +  TI
Sbjct: 122 IIALVTAMGQAESRGLTI 139


>gi|241258713|ref|YP_002978597.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240863183|gb|ACS60846.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 152

 Score =  164 bits (416), Expect = 3e-39,   Method: Composition-based stats.
 Identities = 67/138 (48%), Positives = 96/138 (69%), Gaps = 5/138 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K  N +D  VG RIR+RR +LGMSQE+LGE +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2   NVKTANAIDSYVGARIRMRRQLLGMSQERLGEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64  EVLESPISFFFDVSPTV-----CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           EVL++  SFFF+   +        D+S+    V +F+ T +GL LNR F++I D  +R+ 
Sbjct: 62  EVLQTSPSFFFEQENSEPLTLQGLDLSANMEPVAEFLRTKEGLVLNRAFLKIADSNIRET 121

Query: 119 IIELVRSIVSSEKKYRTI 136
           +I LV+++  +E +  T+
Sbjct: 122 VIALVKAMAQAESRGVTL 139


>gi|330991161|ref|ZP_08315114.1| Putative HTH-type transcriptional regulator [Gluconacetobacter sp.
           SXCC-1]
 gi|329761747|gb|EGG78238.1| Putative HTH-type transcriptional regulator [Gluconacetobacter sp.
           SXCC-1]
          Length = 158

 Score =  164 bits (416), Expect = 3e-39,   Method: Composition-based stats.
 Identities = 64/159 (40%), Positives = 89/159 (55%), Gaps = 33/159 (20%)

Query: 1   MVGNKKIP---NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           M G  K+P   NPVD++VG RIRLRR +LGMSQE+LG  LG+TFQQVQKYE+G NRVGAS
Sbjct: 1   MTG--KMPTTSNPVDVHVGNRIRLRRTLLGMSQERLGNALGLTFQQVQKYERGRNRVGAS 58

Query: 58  RLQHISEVLESPISFFFDVSPT--------------------------VCSDISSEENNV 91
           RL  ++ VL+ P++FFF   P                              D+     N 
Sbjct: 59  RLYDLACVLDVPVAFFFAGLPDPVGSMEPCPSGPEGVSEPAVPLGGSMAVGDMPPPATNT 118

Query: 92  MD--FISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            D    S  + ++L R +  I+D   R+++++LVRS+ +
Sbjct: 119 GDLALFSRRETIELVRAYYGIEDSSTRRRVLDLVRSMGA 157


>gi|222087623|ref|YP_002546160.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221725071|gb|ACM28227.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 152

 Score =  164 bits (416), Expect = 3e-39,   Method: Composition-based stats.
 Identities = 62/129 (48%), Positives = 94/129 (72%), Gaps = 5/129 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K+PNP+D  VG R+R+RR++LGMSQE+L + +G+TFQQVQKYEKG NR+GASRLQ I+
Sbjct: 2   SAKVPNPIDAYVGSRVRMRRLMLGMSQERLADQIGVTFQQVQKYEKGTNRIGASRLQAIA 61

Query: 64  EVLESPISFFF--DVSPTVCSDISSEE---NNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            VL  P++FFF  D S  + +D         ++ DF+++ +GL LN+ F++I+D  VRQ 
Sbjct: 62  SVLAVPVAFFFQQDNSQPLATDGLGAISGLEDLSDFLTSKEGLSLNKAFMKINDPSVRQS 121

Query: 119 IIELVRSIV 127
           ++ L++S+ 
Sbjct: 122 VLMLIKSLA 130


>gi|190014814|ref|YP_001967578.1| orf_Bo182 [Agrobacterium tumefaciens]
 gi|71849617|gb|AAZ50565.1| orf_Bo182 [Agrobacterium tumefaciens]
          Length = 140

 Score =  164 bits (416), Expect = 3e-39,   Method: Composition-based stats.
 Identities = 66/137 (48%), Positives = 90/137 (65%), Gaps = 5/137 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M    K PN +D+ VG RIRL+R  +GMSQ+ L   LG+TFQQVQKYEKG NRVGASRL 
Sbjct: 1   MSDAGKAPNAIDVEVGARIRLKRKPIGMSQQSLAGKLGVTFQQVQKYEKGTNRVGASRLS 60

Query: 61  HISEVLESPISFFFDVSPTVCSD-----ISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
            I+  L+ P+S+FFD +     D     I+ E + V  F+S+ +G  LNR F+QI    V
Sbjct: 61  QIATALDVPMSYFFDGNQGERQDDDNPHITRETDEVALFLSSTEGFNLNRAFMQIPSAAV 120

Query: 116 RQKIIELVRSIVSSEKK 132
           RQK++ LV+S+  +E++
Sbjct: 121 RQKVVLLVKSVARAEEE 137


>gi|167643999|ref|YP_001681662.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167346429|gb|ABZ69164.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 144

 Score =  164 bits (416), Expect = 4e-39,   Method: Composition-based stats.
 Identities = 65/132 (49%), Positives = 92/132 (69%), Gaps = 4/132 (3%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           V  ++ PNPVD++VG RIR+RR ILG+SQE+L + LG+TFQQVQKYE+G NRV AS+L  
Sbjct: 5   VDQERHPNPVDLHVGARIRMRRKILGVSQERLADDLGLTFQQVQKYERGANRVSASKLYE 64

Query: 62  ISEVLESPISFFFDV--SPTVCSDISS--EENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           I++ L+S +S+FF+    PT     S    E  V DF+ TP+GL+L   F +I   +VR+
Sbjct: 65  IAKSLQSSVSYFFEGLADPTDLEGFSENGSEQFVHDFLMTPEGLELAALFPRIGKSRVRR 124

Query: 118 KIIELVRSIVSS 129
           +I++LVRS+   
Sbjct: 125 RILDLVRSMAED 136


>gi|227819384|ref|YP_002823355.1| XRE family transcriptional regulator [Sinorhizobium fredii NGR234]
 gi|227338383|gb|ACP22602.1| probable transcriptional regulator protein, XRE familiy
           [Sinorhizobium fredii NGR234]
          Length = 150

 Score =  164 bits (415), Expect = 5e-39,   Method: Composition-based stats.
 Identities = 66/145 (45%), Positives = 94/145 (64%), Gaps = 5/145 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK PNP+D  VG R+R+RR+++GMSQEKL + LGITFQQVQKYEKG NR+GASRLQ I++
Sbjct: 2   KKNPNPIDTFVGSRVRMRRLMVGMSQEKLADGLGITFQQVQKYEKGTNRIGASRLQAIAD 61

Query: 65  VLESPISFFFDVSPTVCSDIS----SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           +L    SFFF       S  +     E + +  F+++ +G+ LNR F++I D  +R+KII
Sbjct: 62  ILGVHPSFFFQQDEKAQSRETAADVHESHEISSFVASKEGIALNRAFLKIVDPVLRKKII 121

Query: 121 ELVRSIVSS-EKKYRTIEEECMVEQ 144
            LV ++  S E +   +      E+
Sbjct: 122 ALVAAMAHSGEIEQAAVASAARHEE 146


>gi|170741362|ref|YP_001770017.1| XRE family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168195636|gb|ACA17583.1| transcriptional regulator, XRE family [Methylobacterium sp. 4-46]
          Length = 142

 Score =  163 bits (412), Expect = 9e-39,   Method: Composition-based stats.
 Identities = 56/129 (43%), Positives = 87/129 (67%), Gaps = 5/129 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK P+P+D +VG R+R+RR+++G+SQEKLG+ LG+TFQQ+QKYEKG NR+ ASRLQ I+E
Sbjct: 6   KKAPDPIDRHVGHRVRVRRLLMGVSQEKLGDALGVTFQQIQKYEKGANRISASRLQQIAE 65

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVM-----DFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +L  P+ FF++ +P   +    E  +       D   T   LQL R F +++D  +R+++
Sbjct: 66  MLGVPVGFFYEGAPRSENGHDEERGDAARAPSVDLFWTSQDLQLVRAFQRVNDPLLRRRV 125

Query: 120 IELVRSIVS 128
           + LV ++  
Sbjct: 126 VSLVEAMGG 134


>gi|167644800|ref|YP_001682463.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167347230|gb|ABZ69965.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 145

 Score =  163 bits (412), Expect = 1e-38,   Method: Composition-based stats.
 Identities = 59/137 (43%), Positives = 92/137 (67%), Gaps = 6/137 (4%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           + PNPVD++VG R+R+RR +LG+SQE+L + LG+TFQQVQKYE+G NRV AS+L  I++ 
Sbjct: 8   RRPNPVDLHVGGRVRMRRKLLGVSQEQLADSLGLTFQQVQKYERGANRVSASKLYEIAKT 67

Query: 66  LESPISFFFDVSPTVCSDISSE------ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           L+ P+SFFFD          ++      E  V +F++TP+GL+L   F +I   +VR+++
Sbjct: 68  LQVPVSFFFDGLADPMDGSENDEIGQQAERIVQEFLTTPEGLELAEVFPKIGRGRVRRQV 127

Query: 120 IELVRSIVSSEKKYRTI 136
           ++LVR++     +  T 
Sbjct: 128 LDLVRAMAEEAARTETA 144


>gi|144900588|emb|CAM77452.1| transcriptional regulator [Magnetospirillum gryphiswaldense MSR-1]
          Length = 160

 Score =  163 bits (412), Expect = 1e-38,   Method: Composition-based stats.
 Identities = 61/135 (45%), Positives = 84/135 (62%), Gaps = 9/135 (6%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            PNP+D++VG R+RLRR +LGMSQEKLGE LG+TFQQVQKYE+G NRVGASRL  +S VL
Sbjct: 24  KPNPIDVHVGNRVRLRRTLLGMSQEKLGEALGLTFQQVQKYERGANRVGASRLYDLSRVL 83

Query: 67  ESPISFFFDVSPTVCSDISS---------EENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           + P+S+FFD         S             +    ++  + L+L R + +I D  VR+
Sbjct: 84  DVPVSYFFDDMNDETMAASPRHMVRATEDPPESEEAILAQRETLELVRAYTRIKDPNVRR 143

Query: 118 KIIELVRSIVSSEKK 132
           ++ EL R++   E  
Sbjct: 144 QVQELARTLAVPEDS 158


>gi|85706845|ref|ZP_01037936.1| DNA-binding protein, putative [Roseovarius sp. 217]
 gi|85668638|gb|EAQ23508.1| DNA-binding protein, putative [Roseovarius sp. 217]
          Length = 124

 Score =  162 bits (411), Expect = 1e-38,   Method: Composition-based stats.
 Identities = 50/123 (40%), Positives = 76/123 (61%), Gaps = 2/123 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I+E L
Sbjct: 1   MPHPVDVHVGKRIRHRRWLVGMTQQQLAESVGIKFQQIQKYETGANRVSASRLWDIAESL 60

Query: 67  ESPISFFFDVSPTVCS-DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +  ISFFF+        +    +    D +   + L L R +  I + + R+++ +L R 
Sbjct: 61  DVTISFFFEGLEQDGGVEREKSDPARADLMGDKEALDLVRSYYAIPENQ-RRRLFDLARV 119

Query: 126 IVS 128
           +  
Sbjct: 120 LSE 122


>gi|86140033|ref|ZP_01058597.1| DNA-binding protein, putative [Roseobacter sp. MED193]
 gi|85823283|gb|EAQ43494.1| DNA-binding protein, putative [Roseobacter sp. MED193]
          Length = 122

 Score =  162 bits (411), Expect = 1e-38,   Method: Composition-based stats.
 Identities = 49/122 (40%), Positives = 75/122 (61%), Gaps = 2/122 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++G +Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ +
Sbjct: 1   MAHPVDVHVGKRIRHRRWLIGKTQQQLAEQVGIKFQQIQKYETGANRVSASRLWDISDAM 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           + P+SFFF+       D   +     D +   + L L R +  I + + R+++ EL R +
Sbjct: 61  DVPVSFFFEGLDEEAKD-GGKSAVPDDLMGDKEALDLVRSYYAIPENQ-RRRLFELARVL 118

Query: 127 VS 128
             
Sbjct: 119 SD 120


>gi|84515302|ref|ZP_01002664.1| DNA-binding protein, putative [Loktanella vestfoldensis SKA53]
 gi|84510585|gb|EAQ07040.1| DNA-binding protein, putative [Loktanella vestfoldensis SKA53]
          Length = 123

 Score =  162 bits (411), Expect = 1e-38,   Method: Composition-based stats.
 Identities = 49/123 (39%), Positives = 77/123 (62%), Gaps = 1/123 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD+ VGKRIR RR + G +Q++L E +GI FQQ+QKYE G+NRV ASRL  IS VL
Sbjct: 1   MKHPVDVYVGKRIRHRRWMNGTTQQQLAENVGIKFQQIQKYETGMNRVSASRLWDISNVL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             P+SFFF+      +  +   +   D ++  + L+L R +  I + + R+++ +L R +
Sbjct: 61  GVPVSFFFEGYDAQPAVETRISDMPGDILTDKEALELLRSYYAIPENQ-RRRLFDLARVL 119

Query: 127 VSS 129
             +
Sbjct: 120 SEA 122


>gi|259416694|ref|ZP_05740614.1| transcriptional regulator, XRE family [Silicibacter sp. TrichCH4B]
 gi|259348133|gb|EEW59910.1| transcriptional regulator, XRE family [Silicibacter sp. TrichCH4B]
          Length = 124

 Score =  162 bits (410), Expect = 2e-38,   Method: Composition-based stats.
 Identities = 53/123 (43%), Positives = 78/123 (63%), Gaps = 2/123 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVDI+VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L
Sbjct: 1   MAHPVDIHVGKRIRHRRWLIGMTQQQLAEKVGIKFQQIQKYETGANRVSASRLWDISDAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNV-MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +  ISFFF+      + +  E+  V  D +   + L L R +  I + + R+++ EL R 
Sbjct: 61  DVNISFFFEGLQDETAKVVPEKARVPADLMGDKEALDLVRSYYAIPENQ-RRRLFELARV 119

Query: 126 IVS 128
           +  
Sbjct: 120 LSD 122


>gi|16126908|ref|NP_421472.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
           CB15]
 gi|221235691|ref|YP_002518128.1| transcriptional regulator [Caulobacter crescentus NA1000]
 gi|13424258|gb|AAK24640.1| transcriptional regulator, Cro/CI family [Caulobacter crescentus
           CB15]
 gi|220964864|gb|ACL96220.1| transcriptional regulator [Caulobacter crescentus NA1000]
          Length = 153

 Score =  162 bits (410), Expect = 2e-38,   Method: Composition-based stats.
 Identities = 57/133 (42%), Positives = 84/133 (63%), Gaps = 4/133 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  +K  P+PVDI+VG+R+R+RR  LG SQ+ L + LG+TFQQVQKYE G NR+ AS+L 
Sbjct: 22  MAEDKS-PDPVDIHVGRRLRMRRKDLGYSQQALADALGLTFQQVQKYEGGSNRISASKLH 80

Query: 61  HISEVLESPISFFFDV--SPTVCSDISSE-ENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
             +  L++P++FFF+    P      ++E  N +  F S P G  L R F  I+ V +R+
Sbjct: 81  GAAMFLKTPVAFFFEGLEDPEGVDGTAAELANEMASFWSLPGGPDLARAFSAIESVSMRK 140

Query: 118 KIIELVRSIVSSE 130
            +++L R+I   E
Sbjct: 141 HLLDLARAIAGQE 153


>gi|209544249|ref|YP_002276478.1| XRE family transcriptional regulator [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|209531926|gb|ACI51863.1| transcriptional regulator, XRE family [Gluconacetobacter
           diazotrophicus PAl 5]
          Length = 174

 Score =  161 bits (409), Expect = 2e-38,   Method: Composition-based stats.
 Identities = 56/144 (38%), Positives = 88/144 (61%), Gaps = 21/144 (14%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD++VG RIRLRR ++G+SQE+LG+ LG+TFQQVQKYE+G NRV ASRL  +SEVL+
Sbjct: 31  PSPVDVHVGGRIRLRRTLMGLSQERLGDALGLTFQQVQKYERGTNRVSASRLYELSEVLD 90

Query: 68  SPISFFFDVSPT---------------------VCSDISSEENNVMDFISTPDGLQLNRY 106
            P+SFFFD   +                       +   +   + +   S  + ++L R 
Sbjct: 91  VPVSFFFDGLDSGQAGSKATNAIPGFAQAQEAFGGAPEGAAPASEIALFSRRETIELVRI 150

Query: 107 FIQIDDVKVRQKIIELVRSIVSSE 130
           + +I+D  +R+++++L+R +   E
Sbjct: 151 YYRIEDPAMRRRVLDLIRMMAPPE 174


>gi|149203704|ref|ZP_01880673.1| DNA-binding protein, putative [Roseovarius sp. TM1035]
 gi|149142821|gb|EDM30863.1| DNA-binding protein, putative [Roseovarius sp. TM1035]
          Length = 124

 Score =  161 bits (409), Expect = 2e-38,   Method: Composition-based stats.
 Identities = 50/123 (40%), Positives = 76/123 (61%), Gaps = 2/123 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I+E L
Sbjct: 1   MPHPVDVHVGKRIRHRRWLVGMTQQQLAESVGIKFQQIQKYETGANRVSASRLWDIAESL 60

Query: 67  ESPISFFFDVSPTVCS-DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +  ISFFF+        +    +    D +   + L L R +  I + + R+++ +L R 
Sbjct: 61  DVEISFFFEGLDQEGGVEREKSDPARADLMGDKEALDLVRSYYAIPENQ-RRRLFDLARV 119

Query: 126 IVS 128
           +  
Sbjct: 120 LSE 122


>gi|126739240|ref|ZP_01754934.1| DNA-binding protein, putative [Roseobacter sp. SK209-2-6]
 gi|126719857|gb|EBA16565.1| DNA-binding protein, putative [Roseobacter sp. SK209-2-6]
          Length = 122

 Score =  161 bits (408), Expect = 3e-38,   Method: Composition-based stats.
 Identities = 50/123 (40%), Positives = 75/123 (60%), Gaps = 2/123 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++G +Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L
Sbjct: 1   MAHPVDVHVGKRIRHRRWLIGKTQQQLAEQVGIKFQQIQKYETGANRVSASRLWDISDAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           E P+SFFF+         +       D +   + L L R +  I + + R+++ EL R +
Sbjct: 61  EVPVSFFFEGLEEDGK-AAGNTAVPDDLMGDKEALDLVRSYYSIPENQ-RRRLFELARVL 118

Query: 127 VSS 129
             +
Sbjct: 119 SDA 121


>gi|258541402|ref|YP_003186835.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-01]
 gi|256632480|dbj|BAH98455.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-01]
 gi|256635537|dbj|BAI01506.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-03]
 gi|256638592|dbj|BAI04554.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-07]
 gi|256641646|dbj|BAI07601.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-22]
 gi|256644701|dbj|BAI10649.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-26]
 gi|256647756|dbj|BAI13697.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-32]
 gi|256650809|dbj|BAI16743.1| transcriptional regulator [Acetobacter pasteurianus IFO
           3283-01-42C]
 gi|256653800|dbj|BAI19727.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-12]
          Length = 164

 Score =  161 bits (407), Expect = 3e-38,   Method: Composition-based stats.
 Identities = 63/149 (42%), Positives = 87/149 (58%), Gaps = 22/149 (14%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+      + +D +VGKRIRLRR +LG+SQEKLGE LGITFQQ+QKYE+G NRVGASRL 
Sbjct: 13  MIQPHAAASAIDAHVGKRIRLRRTLLGLSQEKLGEALGITFQQIQKYERGANRVGASRLY 72

Query: 61  HISEVLESPISFFFDVSPTVC----------------------SDISSEENNVMDFISTP 98
           HI+ VL+ PISFFFD    V                       +  ++   +      T 
Sbjct: 73  HIACVLDVPISFFFDDMHPVGAVSNKHAQFSETRKSFGTTSDKNTPAAPTTDTKSVFKTQ 132

Query: 99  DGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
           + L+L R +  I D ++R+KI+EL+ ++ 
Sbjct: 133 ETLELVRAYYSIPDTQMRRKILELMLTMS 161


>gi|10954734|ref|NP_066669.1| hypothetical protein pRi1724_p089 [Agrobacterium rhizogenes]
 gi|8918734|dbj|BAA97799.1| riorf88 [Agrobacterium rhizogenes]
 gi|10567398|dbj|BAB16207.1| riorf88 [Agrobacterium rhizogenes]
          Length = 169

 Score =  160 bits (406), Expect = 5e-38,   Method: Composition-based stats.
 Identities = 59/133 (44%), Positives = 85/133 (63%), Gaps = 4/133 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+P+D+ VG RIR RR +LGMSQ KL E LG+TFQQVQKYEKG NRVGASRL +++ V
Sbjct: 33  KTPSPIDVEVGARIRTRRRVLGMSQAKLAEALGVTFQQVQKYEKGTNRVGASRLLNVANV 92

Query: 66  LESPISFFFD----VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           L  P+S FF+             S+ E  +  F+ + +G  LN  F +I +  VR++++ 
Sbjct: 93  LGVPVSSFFNSDTRDGQAERPRGSTAETELGAFVQSDEGRDLNGAFARIAEPAVRRQVVS 152

Query: 122 LVRSIVSSEKKYR 134
           LV+++ ++E    
Sbjct: 153 LVKAMAATEVNGS 165


>gi|254502751|ref|ZP_05114902.1| Helix-turn-helix domain protein [Labrenzia alexandrii DFL-11]
 gi|222438822|gb|EEE45501.1| Helix-turn-helix domain protein [Labrenzia alexandrii DFL-11]
          Length = 112

 Score =  160 bits (406), Expect = 5e-38,   Method: Composition-based stats.
 Identities = 62/112 (55%), Positives = 85/112 (75%), Gaps = 5/112 (4%)

Query: 24  MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSD 83
           M+LGMSQEKLGE LGITFQQ+QKYEKG NR+GASRLQHI+ VL+ P+SFFF+ +P    +
Sbjct: 1   MMLGMSQEKLGEALGITFQQIQKYEKGTNRIGASRLQHIATVLKVPVSFFFEDAPGTPEE 60

Query: 84  ISS-----EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
                     + V+DF+S+ +GL LN+ F++I+D KVR++I++LVRS+   E
Sbjct: 61  AEGFGETQPTSYVVDFLSSSEGLSLNKAFVRIEDPKVRRRIVDLVRSLAGDE 112


>gi|260574596|ref|ZP_05842599.1| transcriptional regulator, XRE family [Rhodobacter sp. SW2]
 gi|259023013|gb|EEW26306.1| transcriptional regulator, XRE family [Rhodobacter sp. SW2]
          Length = 120

 Score =  160 bits (405), Expect = 6e-38,   Method: Composition-based stats.
 Identities = 49/123 (39%), Positives = 78/123 (63%), Gaps = 4/123 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD +VGKRIR RR ++GM+Q++L + +GI FQQ+QKYE G+NRV ASRL  I+E L
Sbjct: 1   MKHPVDAHVGKRIRHRRWMVGMTQQQLADRVGIKFQQIQKYETGMNRVSASRLWDIAETL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              ISFFF+          + +    DF++  + L+L R +  I + + R+++ +L R +
Sbjct: 61  GVAISFFFEGIDESRE---ASKTMDGDFLADKEALELVRSYYSIPEAQ-RRRLFDLARVL 116

Query: 127 VSS 129
             +
Sbjct: 117 SDA 119


>gi|197105969|ref|YP_002131346.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196479389|gb|ACG78917.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 143

 Score =  160 bits (405), Expect = 7e-38,   Method: Composition-based stats.
 Identities = 54/122 (44%), Positives = 83/122 (68%), Gaps = 2/122 (1%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD +VG RIR+RR  +G+SQE+L E LGITFQQVQKYE+G NRV AS+L  I++ L+
Sbjct: 23  PHPVDRHVGLRIRMRRKEIGVSQERLAEALGITFQQVQKYERGANRVSASKLWEIAQALK 82

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
           + +++F++       ++     N  DF+ T +GL+L   F +I    +R+K++ELVR++ 
Sbjct: 83  TGVTYFYEGLND--HELGDAGRNAQDFMLTGEGLELMSTFPRIAQPALRRKLVELVRAMA 140

Query: 128 SS 129
             
Sbjct: 141 EE 142


>gi|315497219|ref|YP_004086023.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
 gi|315415231|gb|ADU11872.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
          Length = 139

 Score =  160 bits (405), Expect = 7e-38,   Method: Composition-based stats.
 Identities = 59/139 (42%), Positives = 87/139 (62%), Gaps = 7/139 (5%)

Query: 1   MVGNKKI---PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           M  N K    PNPVD++VG R+R+RR  LGMSQE L E + +TFQQVQKYE+G NR+ AS
Sbjct: 1   MDENSKTDRSPNPVDLHVGARVRMRRKFLGMSQEALAETISLTFQQVQKYERGSNRISAS 60

Query: 58  RLQHISEVLESPISFFFDVSPTVCS----DISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           +L  IS  L++P+++FF+      +      S  E  V  F+ T +G++L   F +I + 
Sbjct: 61  KLHEISRALKAPVAYFFEGYGESEAVEGFSESQSEQFVHGFLMTTEGIELAEAFPRIKNA 120

Query: 114 KVRQKIIELVRSIVSSEKK 132
           K R++I+ELVR++    + 
Sbjct: 121 KHRRRILELVRALAEDSED 139


>gi|77462437|ref|YP_351941.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
           2.4.1]
 gi|126461314|ref|YP_001042428.1| XRE family transcriptional regulator [Rhodobacter sphaeroides ATCC
           17029]
 gi|146276727|ref|YP_001166886.1| XRE family transcriptional regulator [Rhodobacter sphaeroides ATCC
           17025]
 gi|332560321|ref|ZP_08414643.1| XRE family transcriptional regulator [Rhodobacter sphaeroides WS8N]
 gi|77386855|gb|ABA78040.1| transcriptional regulator, XRE family [Rhodobacter sphaeroides
           2.4.1]
 gi|126102978|gb|ABN75656.1| transcriptional regulator, XRE family [Rhodobacter sphaeroides ATCC
           17029]
 gi|145554968|gb|ABP69581.1| transcriptional regulator, XRE family [Rhodobacter sphaeroides ATCC
           17025]
 gi|332278033|gb|EGJ23348.1| XRE family transcriptional regulator [Rhodobacter sphaeroides WS8N]
          Length = 120

 Score =  160 bits (405), Expect = 7e-38,   Method: Composition-based stats.
 Identities = 51/123 (41%), Positives = 77/123 (62%), Gaps = 4/123 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD +VGKRIR RR ++GM+Q++L +C+GI FQQ+QKYE G+NRV ASRL  I+E L
Sbjct: 1   MKHPVDAHVGKRIRHRRWMVGMTQQQLADCVGIKFQQIQKYETGMNRVSASRLWDIAEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              ISFFF+            E    D I+  + L+L R +  I + + R+++ +L R +
Sbjct: 61  GVSISFFFEGLEGAGDQARQAEG---DRITDKEALELVRSYYAIPEAQ-RRRLFDLARVL 116

Query: 127 VSS 129
             +
Sbjct: 117 SEA 119


>gi|114762993|ref|ZP_01442423.1| DNA-binding protein, putative [Pelagibaca bermudensis HTCC2601]
 gi|114544317|gb|EAU47325.1| DNA-binding protein, putative [Roseovarius sp. HTCC2601]
          Length = 127

 Score =  159 bits (403), Expect = 1e-37,   Method: Composition-based stats.
 Identities = 50/126 (39%), Positives = 75/126 (59%), Gaps = 5/126 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I++ L
Sbjct: 1   MTHPVDVHVGKRIRHRRWLVGMTQQQLAEQVGIKFQQIQKYETGANRVSASRLWDIADAL 60

Query: 67  ESPISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           E P+SFFF+             +       D +   + L L R +  I + + R+++ EL
Sbjct: 61  EVPVSFFFEGIDAEQEAPEEAAAPAAAMPADILGDKEALDLVRSYYAIPENQ-RRRLFEL 119

Query: 123 VRSIVS 128
            R +  
Sbjct: 120 ARVLSD 125


>gi|18071257|ref|NP_542325.1| hypothetical protein PBC5p65 [Sinorhizobium phage PBC5]
 gi|17940363|gb|AAL49607.1|AF448724_44 unknown [Sinorhizobium phage PBC5]
          Length = 135

 Score =  159 bits (403), Expect = 1e-37,   Method: Composition-based stats.
 Identities = 68/121 (56%), Positives = 82/121 (67%), Gaps = 2/121 (1%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K PNP+D  VG RIRLRR I+GMSQE L   LGITFQQVQKYEKG NRVGASRLQ IS
Sbjct: 8   SPKKPNPIDTQVGARIRLRRNIIGMSQETLAAHLGITFQQVQKYEKGANRVGASRLQAIS 67

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           E L+   S+FFD           +E  VM FI++ +G+ LNR F +I D   R KI++LV
Sbjct: 68  EALKVAPSYFFDKPEGATEANGGDE--VMSFIASSEGIALNRAFARIQDSATRHKIVDLV 125

Query: 124 R 124
           +
Sbjct: 126 K 126


>gi|23011267|ref|ZP_00051678.1| COG1396: Predicted transcriptional regulators [Magnetospirillum
           magnetotacticum MS-1]
          Length = 160

 Score =  159 bits (403), Expect = 1e-37,   Method: Composition-based stats.
 Identities = 55/131 (41%), Positives = 81/131 (61%), Gaps = 13/131 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D++VG R+RLRR +LGMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL+ P+
Sbjct: 3   IDVHVGGRMRLRRTLLGMSQEKLGEAIGLTFQQVQKYERGANRIGASRLFDLSRVLDVPV 62

Query: 71  SFFFDVSPTVCSDIS-------------SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           S+FFD         S                    D ++  + L+L R +  I D +VR+
Sbjct: 63  SYFFDDMADGVQAQSPVNIIKGSVGLSEEPATFEADPMTKRETLELVRAYYNITDPQVRK 122

Query: 118 KIIELVRSIVS 128
           ++ EL +++ +
Sbjct: 123 RVYELAKALAA 133


>gi|162147196|ref|YP_001601657.1| transcriptional regulator [Gluconacetobacter diazotrophicus PAl 5]
 gi|161785773|emb|CAP55344.1| putative transcriptional Regulator [Gluconacetobacter
           diazotrophicus PAl 5]
          Length = 174

 Score =  159 bits (403), Expect = 1e-37,   Method: Composition-based stats.
 Identities = 56/144 (38%), Positives = 88/144 (61%), Gaps = 21/144 (14%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD++VG RIRLRR ++G+SQE+LG+ LG+TFQQVQKYE+G NRV ASRL  +SEVL+
Sbjct: 31  PSPVDVHVGGRIRLRRTLMGLSQERLGDALGLTFQQVQKYERGTNRVSASRLYELSEVLD 90

Query: 68  SPISFFFDVSPT---------------------VCSDISSEENNVMDFISTPDGLQLNRY 106
            P+SFFFD   +                       +   +   + +   S  + ++L R 
Sbjct: 91  VPVSFFFDGLDSGQAGSKATNAIPGFAQAQEAFGGAPEGAAPASEIALFSRREMIELVRI 150

Query: 107 FIQIDDVKVRQKIIELVRSIVSSE 130
           + +I+D  +R+++++L+R +   E
Sbjct: 151 YYRIEDPAMRRRVLDLIRMMAPPE 174


>gi|144897602|emb|CAM74466.1| transcriptional regulator [Magnetospirillum gryphiswaldense MSR-1]
          Length = 149

 Score =  159 bits (403), Expect = 1e-37,   Method: Composition-based stats.
 Identities = 53/123 (43%), Positives = 81/123 (65%), Gaps = 2/123 (1%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+P+D +VG R+RLRR ++G+SQ +L + +G+TFQQVQKYE G NR+ ASRL HISE L+
Sbjct: 20  PDPIDTHVGARLRLRRTLMGLSQTELAKSVGLTFQQVQKYESGANRISASRLYHISEALD 79

Query: 68  SPISFFFDVSPTVCSDISSEENNVM--DFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
            P+SFFFD            E+ V      S+ +GL++ R + +I D  +R+ + +L +S
Sbjct: 80  VPVSFFFDDMSRSSGKYGLHEDAVAFSAPESSREGLEMMRNYHRITDEAIRRSVYDLTKS 139

Query: 126 IVS 128
           + +
Sbjct: 140 LAA 142


>gi|227819239|ref|YP_002823210.1| XRE family transcriptional regulator [Sinorhizobium fredii NGR234]
 gi|227338238|gb|ACP22457.1| transcriptional regulator, XRE family [Sinorhizobium fredii NGR234]
          Length = 149

 Score =  159 bits (402), Expect = 2e-37,   Method: Composition-based stats.
 Identities = 58/132 (43%), Positives = 93/132 (70%), Gaps = 2/132 (1%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           ++ P+P+D +VG++IR++R++L MSQ +L + LG+T+QQVQKYE G  RV ASRLQ I+ 
Sbjct: 8   RRRPDPIDSHVGQKIRMQRLLLHMSQTELAKALGVTYQQVQKYENGRTRVSASRLQAIAN 67

Query: 65  VLESPISFFFDVSPTVCSDIS--SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           VLE P++FFF+ S +  SD +  +   + ++F+S+P GL LNR F +I DV+VR+  + L
Sbjct: 68  VLEVPLTFFFESSASDHSDDAGLAASRSTVEFVSSPMGLALNRAFSRIADVRVRRSFLGL 127

Query: 123 VRSIVSSEKKYR 134
           V+ +   +  + 
Sbjct: 128 VQRLAEDDGTHA 139


>gi|83310845|ref|YP_421109.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82945686|dbj|BAE50550.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 167

 Score =  158 bits (401), Expect = 2e-37,   Method: Composition-based stats.
 Identities = 57/134 (42%), Positives = 83/134 (61%), Gaps = 14/134 (10%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            PNPVD++VG R+RLRR +LGMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL
Sbjct: 28  APNPVDVHVGGRMRLRRTLLGMSQEKLGEAIGLTFQQVQKYERGANRIGASRLFDLSRVL 87

Query: 67  ESPISFFFDVS-------------PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           + PIS+FFD                       +      D +   + L+L R + ++ + 
Sbjct: 88  DVPISYFFDDMADQVQAQSPVNIIKGSAEPSETPAGFEPDPMMKRETLELVRAYYRVPEQ 147

Query: 114 KVRQKIIELVRSIV 127
           + R++I +L++S+ 
Sbjct: 148 Q-RRRIYDLIKSMA 160


>gi|83311372|ref|YP_421636.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82946213|dbj|BAE51077.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 155

 Score =  158 bits (401), Expect = 2e-37,   Method: Composition-based stats.
 Identities = 59/129 (45%), Positives = 80/129 (62%), Gaps = 13/129 (10%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            PNPVD++VG R+RLRR +LGMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL
Sbjct: 16  APNPVDVHVGGRMRLRRTLLGMSQEKLGEAIGLTFQQVQKYERGANRIGASRLFDLSRVL 75

Query: 67  ESPISFFFDVSPTVCSDIS-------------SEENNVMDFISTPDGLQLNRYFIQIDDV 113
           + P+S+FFD         S                    D ++  + L+L R +  I D 
Sbjct: 76  DVPVSYFFDDMADGVQAQSPVNIIKGSVGLSEEPATFEADPMTKRETLELVRAYYNITDP 135

Query: 114 KVRQKIIEL 122
           +VR+++ EL
Sbjct: 136 QVRKRVYEL 144


>gi|110679288|ref|YP_682295.1| Cro/CI family transcriptional regulator putative [Roseobacter
           denitrificans OCh 114]
 gi|109455404|gb|ABG31609.1| transcriptional regulator, Cro/CI family, putative [Roseobacter
           denitrificans OCh 114]
          Length = 125

 Score =  158 bits (400), Expect = 2e-37,   Method: Composition-based stats.
 Identities = 48/124 (38%), Positives = 76/124 (61%), Gaps = 3/124 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + VD++VGKRIR RR ++GM+Q+KL EC+GI FQQ+QKYE G NRV ASRL  I++ L
Sbjct: 1   MAHLVDVHVGKRIRQRRWLVGMTQQKLAECVGIKFQQIQKYETGANRVSASRLWDIADAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENN--VMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +  ++FFF+         + E  +    D +   + + L R +  I + + R+++ EL R
Sbjct: 61  DVDVAFFFEGLREEAGKDAPEPTSSVPADMMGDKEAMDLVRSYYAIPENQ-RRRLFELAR 119

Query: 125 SIVS 128
            +  
Sbjct: 120 VLSD 123


>gi|126727971|ref|ZP_01743794.1| DNA-binding protein, putative [Rhodobacterales bacterium HTCC2150]
 gi|126702744|gb|EBA01854.1| DNA-binding protein, putative [Rhodobacterales bacterium HTCC2150]
          Length = 122

 Score =  158 bits (399), Expect = 3e-37,   Method: Composition-based stats.
 Identities = 49/123 (39%), Positives = 78/123 (63%), Gaps = 2/123 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKR+R RR ++GM+Q++L E +GI FQQ+QKYE G+NR+ ASRL  I+E L
Sbjct: 1   MKHPVDVHVGKRVRHRRWMVGMTQQQLAEKVGIKFQQIQKYETGMNRISASRLWAIAENL 60

Query: 67  ESPISFFFDVSPTVCSDISSE-ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +  ISFFF+           + E    +  S  + L+L R +  I + + R+++ EL R 
Sbjct: 61  DVQISFFFEGLEGNEKASDQKFEGMPENVFSDKEALELVRCYYAIPENQ-RKRLFELARV 119

Query: 126 IVS 128
           + +
Sbjct: 120 LSA 122


>gi|163733431|ref|ZP_02140874.1| transcriptional regulator, Cro/CI family, putative [Roseobacter
           litoralis Och 149]
 gi|161393219|gb|EDQ17545.1| transcriptional regulator, Cro/CI family, putative [Roseobacter
           litoralis Och 149]
          Length = 125

 Score =  158 bits (399), Expect = 4e-37,   Method: Composition-based stats.
 Identities = 48/124 (38%), Positives = 76/124 (61%), Gaps = 3/124 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + VD++VGKRIR RR ++GM+Q+KL EC+GI FQQ+QKYE G NRV ASRL  I++ L
Sbjct: 1   MAHLVDVHVGKRIRQRRWLVGMTQQKLAECVGIKFQQIQKYETGANRVSASRLWDIADAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENN--VMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +  ++FFF+         + E  +    D +   + + L R +  I + + R+++ EL R
Sbjct: 61  DVDVAFFFEGLREEAGKDAPEPASSVPADMMGDKEAMDLVRSYYAIPENQ-RRRLFELAR 119

Query: 125 SIVS 128
            +  
Sbjct: 120 VLSD 123


>gi|119384129|ref|YP_915185.1| XRE family transcriptional regulator [Paracoccus denitrificans
           PD1222]
 gi|119373896|gb|ABL69489.1| transcriptional regulator, XRE family [Paracoccus denitrificans
           PD1222]
          Length = 119

 Score =  157 bits (397), Expect = 6e-37,   Method: Composition-based stats.
 Identities = 49/123 (39%), Positives = 79/123 (64%), Gaps = 5/123 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + VD++VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G+NRV ASRL  I++ +
Sbjct: 1   MKHNVDVHVGKRIRHRRWMIGMTQQQLAEKVGIKFQQIQKYETGMNRVSASRLWDIAQAV 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           + P+SFFF+         + E     D ++  + LQL R +  + + + R++I EL R +
Sbjct: 61  DVPVSFFFEGLEDGHVHNAVE----GDILADKEALQLVRAYYAMPEAQ-RRQIFELARVL 115

Query: 127 VSS 129
             +
Sbjct: 116 SDA 118


>gi|46201366|ref|ZP_00055177.2| COG1396: Predicted transcriptional regulators [Magnetospirillum
           magnetotacticum MS-1]
          Length = 137

 Score =  156 bits (396), Expect = 7e-37,   Method: Composition-based stats.
 Identities = 55/137 (40%), Positives = 86/137 (62%), Gaps = 13/137 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +DI+VG R+RLRR ++GMSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL+ P+
Sbjct: 1   MDIHVGGRVRLRRTLMGMSQEKLGESIGLTFQQVQKYERGANRIGASRLFDLSRVLDVPV 60

Query: 71  SFFFDVSPTVCSDIS-------------SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           SFFFD       + S                +   D ++  + L+L R +  I D +VR+
Sbjct: 61  SFFFDDMAETVQEQSPVAVSRGASGLSEEPASFEADPMTKRETLELVRAYYAIIDPQVRR 120

Query: 118 KIIELVRSIVSSEKKYR 134
           ++ +L +++ ++ +  +
Sbjct: 121 RVYDLAKALAATGETKK 137


>gi|329114990|ref|ZP_08243745.1| Putative HTH-type transcriptional regulator [Acetobacter pomorum
           DM001]
 gi|326695433|gb|EGE47119.1| Putative HTH-type transcriptional regulator [Acetobacter pomorum
           DM001]
          Length = 164

 Score =  156 bits (394), Expect = 1e-36,   Method: Composition-based stats.
 Identities = 62/151 (41%), Positives = 90/151 (59%), Gaps = 22/151 (14%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+      + +D +VGKRIRLRR +LG+SQEKLGE LGITFQQ+QKYE+G NRVGASRL 
Sbjct: 13  MIQPHAAASAIDAHVGKRIRLRRTLLGLSQEKLGEALGITFQQIQKYERGANRVGASRLY 72

Query: 61  HISEVLESPISFFFD----------------------VSPTVCSDISSEENNVMDFISTP 98
           HI+  L+ PISFFFD                       +P+  +   +  ++  +     
Sbjct: 73  HIACALDVPISFFFDDMHSAEVVSNKQAHFSETRKSFGAPSDKNVSVAPTSDTKNIFKKQ 132

Query: 99  DGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           + L+L R +  I D ++R+KI+EL++++  S
Sbjct: 133 ETLELVRVYYSIPDAQMRRKILELMQTMSVS 163


>gi|222102467|ref|YP_002539506.1| transcriptional regulator [Agrobacterium vitis S4]
 gi|221739068|gb|ACM39801.1| transcriptional regulator [Agrobacterium vitis S4]
          Length = 138

 Score =  155 bits (392), Expect = 2e-36,   Method: Composition-based stats.
 Identities = 56/128 (43%), Positives = 83/128 (64%), Gaps = 4/128 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K  + +D++VG RIRL+R++ GMSQ+ L E +G+TFQQVQKYE G NR+G+SRLQ ++ +
Sbjct: 8   KASDVIDVHVGCRIRLQRVLKGMSQKALAEGVGVTFQQVQKYETGTNRIGSSRLQAVARI 67

Query: 66  LESPISFFFDVSPTVCSDISSEEN----NVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           L  P++FFF+  P   S     E      +  FI + +GL LN  F +I D  VR+K+I 
Sbjct: 68  LSVPVAFFFEDGPQSSSPSQLPEAGIGKEITRFIRSEEGLALNLAFTKIQDANVRRKVIG 127

Query: 122 LVRSIVSS 129
           LV+++   
Sbjct: 128 LVKTLAKE 135


>gi|332716362|ref|YP_004443828.1| transcriptional regulator [Agrobacterium sp. H13-3]
 gi|325063047|gb|ADY66737.1| transcriptional regulator [Agrobacterium sp. H13-3]
          Length = 146

 Score =  154 bits (391), Expect = 2e-36,   Method: Composition-based stats.
 Identities = 58/132 (43%), Positives = 83/132 (62%), Gaps = 3/132 (2%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +   K+P+P+D++VG +IR+RR  LGMSQ  L   LGITFQQVQKYEKG NRVGASRLQ 
Sbjct: 1   MMQAKLPSPIDVHVGTQIRMRRKSLGMSQSALAGRLGITFQQVQKYEKGANRVGASRLQA 60

Query: 62  ISEVLESPISFFFDVSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           I+ VL   +S  F  +     + +      N +  F+++ +G  LN+ F +I    VR+ 
Sbjct: 61  IASVLGVDVSSLFANATPDVGNANPALGTINAMQSFVASNEGFSLNQAFARIKSATVRKS 120

Query: 119 IIELVRSIVSSE 130
           I+ LV S+ ++E
Sbjct: 121 IVALVTSLAATE 132


>gi|254461884|ref|ZP_05075300.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
           HTCC2083]
 gi|206678473|gb|EDZ42960.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
           HTCC2083]
          Length = 135

 Score =  154 bits (391), Expect = 3e-36,   Method: Composition-based stats.
 Identities = 50/124 (40%), Positives = 78/124 (62%), Gaps = 3/124 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR ++G++Q++L E +GI FQQ+QKYE G NRV ASRL  I+E L
Sbjct: 11  MAHPVDVHVGKRIRHRRWLVGVTQQRLAETVGIKFQQIQKYETGANRVSASRLWDIAESL 70

Query: 67  ESPISFFFDVSPTVCSDISSEENNVM--DFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           E  +SFFF       + I   E+  +  D ++  + L L R +  I + + R+++ +L R
Sbjct: 71  EVDVSFFFSGLQNEDAAIGDAESGAVPSDILNDKEALDLVRSYYAIPEEQ-RRRLFDLAR 129

Query: 125 SIVS 128
            +  
Sbjct: 130 VLSD 133


>gi|15891368|ref|NP_357040.1| transcriptional regulator [Agrobacterium tumefaciens str. C58]
 gi|15159757|gb|AAK89825.1| transcriptional regulator, HTH family [Agrobacterium tumefaciens
           str. C58]
          Length = 145

 Score =  154 bits (390), Expect = 3e-36,   Method: Composition-based stats.
 Identities = 59/128 (46%), Positives = 81/128 (63%), Gaps = 3/128 (2%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K+P+P+D++VG +IR+RR  LGMSQ  L   LGITFQQVQKYEKG NRVGASRLQ I+ +
Sbjct: 4   KLPSPIDVHVGTQIRMRRKSLGMSQSALAGRLGITFQQVQKYEKGANRVGASRLQAIASI 63

Query: 66  LESPISFFF---DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           L   +S  F          +      N +  F+++ +G  LN+ F +I  V VR+ I+ L
Sbjct: 64  LGVEVSSLFANATPDGGAANPALGTINAMQTFVASNEGFSLNQAFSRIKSVAVRRSIVAL 123

Query: 123 VRSIVSSE 130
           V S+ +SE
Sbjct: 124 VTSLAASE 131


>gi|254449883|ref|ZP_05063320.1| transcriptional regulator, XRE family [Octadecabacter antarcticus
           238]
 gi|198264289|gb|EDY88559.1| transcriptional regulator, XRE family [Octadecabacter antarcticus
           238]
          Length = 122

 Score =  154 bits (389), Expect = 4e-36,   Method: Composition-based stats.
 Identities = 46/125 (36%), Positives = 74/125 (59%), Gaps = 6/125 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRIR RR + G +Q+ L + +GI FQQ+QKYE G+NRV ASRL  I+  L
Sbjct: 1   MKHPVDVHVGKRIRHRRWVSGTTQQHLADQVGIKFQQIQKYETGMNRVSASRLWDIAHAL 60

Query: 67  ESPISFFFDVSPT--VCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
              ++FFF+      +  DI        D ++  + L L R +  I + + R+++ +L R
Sbjct: 61  GVEVAFFFEGLEGNLIGKDIGG---MPSDILTDKEALDLLRSYYAIPENQ-RRRLFDLAR 116

Query: 125 SIVSS 129
            +  +
Sbjct: 117 VLSEA 121


>gi|118590494|ref|ZP_01547896.1| probable transcriptional regulator protein [Stappia aggregata IAM
           12614]
 gi|118436957|gb|EAV43596.1| probable transcriptional regulator protein [Stappia aggregata IAM
           12614]
          Length = 108

 Score =  154 bits (389), Expect = 5e-36,   Method: Composition-based stats.
 Identities = 58/108 (53%), Positives = 81/108 (75%), Gaps = 5/108 (4%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISS- 86
           MSQEKLGE LGITFQQ+QKYEKG NR+GASRLQHI+ VL+ P+SFFF+ +P    +    
Sbjct: 1   MSQEKLGESLGITFQQIQKYEKGTNRIGASRLQHIATVLKVPVSFFFEDAPGTPDEAEGF 60

Query: 87  ----EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
                 + V+DF+S+ +GL LN+ F++I+D KVR++I++LVRS+   +
Sbjct: 61  GETQPTSYVVDFLSSSEGLSLNKAFVRIEDPKVRRRIVDLVRSLAGDD 108


>gi|83311180|ref|YP_421444.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82946021|dbj|BAE50885.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 175

 Score =  153 bits (387), Expect = 7e-36,   Method: Composition-based stats.
 Identities = 60/132 (45%), Positives = 85/132 (64%), Gaps = 11/132 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           NP+D++VG RIRLRR +LGMSQEKLGECLG+TFQQVQKYE+G NRVGASRL  +S VL+ 
Sbjct: 43  NPIDVHVGARIRLRRTLLGMSQEKLGECLGLTFQQVQKYERGANRVGASRLFDLSRVLDV 102

Query: 69  PISFFFDVSPTVCSDISSEE---NNVM--------DFISTPDGLQLNRYFIQIDDVKVRQ 117
            + +FF+         S  E    NV         D ++  + L+L R +  I+D KVR 
Sbjct: 103 RVGYFFEEISATAQAASPVEVIRGNVTKSVDVPDDDPMTKRETLELVRAYFSINDPKVRD 162

Query: 118 KIIELVRSIVSS 129
           +++ + +++  +
Sbjct: 163 QVLSMAKALGGA 174


>gi|83944525|ref|ZP_00956977.1| DNA-binding protein, putative [Sulfitobacter sp. EE-36]
 gi|83844631|gb|EAP82516.1| DNA-binding protein, putative [Sulfitobacter sp. EE-36]
          Length = 124

 Score =  152 bits (385), Expect = 1e-35,   Method: Composition-based stats.
 Identities = 46/123 (37%), Positives = 71/123 (57%), Gaps = 2/123 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+ VD++VG+RIR RR + GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I+  L
Sbjct: 1   MPHKVDVHVGQRIRQRRWLTGMTQQRLAELVGIKFQQIQKYETGANRVSASRLWDIAFAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNV-MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
              +S FF+             +N+  D     + + L R +  I + + R+++ EL R 
Sbjct: 61  NVDVSHFFEGLEAEKPQPEKALDNIPADLSGDKEAMDLIRSYYAIPENQ-RRRLFELARV 119

Query: 126 IVS 128
           +  
Sbjct: 120 LSD 122


>gi|329847816|ref|ZP_08262844.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328842879|gb|EGF92448.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 138

 Score =  152 bits (385), Expect = 1e-35,   Method: Composition-based stats.
 Identities = 51/122 (41%), Positives = 83/122 (68%), Gaps = 1/122 (0%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PN VD++VG R+RLRR +LG+SQ+ L   + +TFQQVQKYE+G NR+ AS+L  I++ L+
Sbjct: 14  PNKVDLHVGARVRLRRKLLGLSQDGLAARIDLTFQQVQKYERGSNRISASKLYEIAQALQ 73

Query: 68  SPISFFFDVSPTVCSDISSE-ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             +  FF+   TV ++   + E +V  F+ TP+G++L   F +I   K+R++++ELV ++
Sbjct: 74  CKVEHFFEGLETVETEAPVQVEQDVNSFLCTPEGIELAGGFPKIRSAKLRRRVLELVNTL 133

Query: 127 VS 128
             
Sbjct: 134 AE 135


>gi|83311279|ref|YP_421543.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82946120|dbj|BAE50984.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 201

 Score =  152 bits (384), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 59/132 (44%), Positives = 85/132 (64%), Gaps = 11/132 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           NP+D++VG RIRLRR +LGMSQEKLGECLG+TFQQVQKYE+G NRVGASRL  +S VL+ 
Sbjct: 69  NPIDVHVGARIRLRRTLLGMSQEKLGECLGLTFQQVQKYERGANRVGASRLFDLSRVLDV 128

Query: 69  PISFFFDVSPTVCSDISSEEN---------NVMD--FISTPDGLQLNRYFIQIDDVKVRQ 117
            + +FF+   +     S  E          +V D   ++  + L+L R +  I D KVR 
Sbjct: 129 RVGYFFEEISSTAQAASPVEVIRGNVTKAIDVADDNPMTKRETLELVRAYFSISDPKVRD 188

Query: 118 KIIELVRSIVSS 129
           +++ + +++  +
Sbjct: 189 QVLSMAKALGGA 200


>gi|16520003|ref|NP_444123.1| transcriptional regulator (Cro/CI family) [Sinorhizobium fredii
           NGR234]
 gi|2496761|sp|P55681|Y4WC_RHISN RecName: Full=Uncharacterized HTH-type transcriptional regulator
           y4wC
 gi|2182692|gb|AAB91910.1| transcriptional regulator (Cro/CI family) [Sinorhizobium fredii
           NGR234]
          Length = 143

 Score =  152 bits (384), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 59/136 (43%), Positives = 88/136 (64%), Gaps = 7/136 (5%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
             ++ PN VD +VG+RIR RR    MSQ  LGE +G+TFQQVQKYEKGVNRVGA RLQ I
Sbjct: 8   QTRRKPNAVDAHVGQRIRQRREWQNMSQTTLGEAIGVTFQQVQKYEKGVNRVGAGRLQQI 67

Query: 63  SEVLESPISFFFDV-------SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
           S+ L+   S+FF+             S+  +    V++F+ + +G++L R F ++ D +V
Sbjct: 68  SKALKVEPSYFFEDTLNKIRSEERSASNQINIPPEVVEFVVSKEGIELIRAFSRVGDYRV 127

Query: 116 RQKIIELVRSIVSSEK 131
           R++I+ LV+S+ + E+
Sbjct: 128 RRRIVMLVKSLGAHER 143


>gi|197103164|ref|YP_002128542.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196480440|gb|ACG79967.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 171

 Score =  151 bits (383), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 53/140 (37%), Positives = 82/140 (58%), Gaps = 5/140 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M      P+P+D++VG R+RLRR  LG++Q+ L E L +TFQQVQKYE+G NR+ AS L 
Sbjct: 16  MARADTGPDPIDVHVGLRVRLRRKALGLTQQSLAEALDLTFQQVQKYERGANRISASTLF 75

Query: 61  HISEVLESPISFFFDVSPTVCSDISSE-----ENNVMDFISTPDGLQLNRYFIQIDDVKV 115
            IS+VLE P+S+FFD                 +  + D +  P+G  L   F+ I    +
Sbjct: 76  RISQVLEVPVSYFFDGLHDPAKVAGERFAQVYDTVLQDLLLEPNGPALAEAFLSIRRRGI 135

Query: 116 RQKIIELVRSIVSSEKKYRT 135
           R+ + +LVR+I ++++  + 
Sbjct: 136 RKSVTDLVRAIAANDEAGQV 155


>gi|167646240|ref|YP_001683903.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167348670|gb|ABZ71405.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 136

 Score =  151 bits (382), Expect = 3e-35,   Method: Composition-based stats.
 Identities = 49/127 (38%), Positives = 86/127 (67%), Gaps = 4/127 (3%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD++VG+RIRLRR + G SQ ++ + LG+TFQQ+QKYE+G NR+ AS+LQ ++  L 
Sbjct: 6   PHPVDLHVGQRIRLRRKLAGASQTQVADALGLTFQQLQKYERGTNRISASKLQALALHLR 65

Query: 68  SPISFFFDVSPTVCSDISS---EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            PI++FF+      ++ ++    +  V  F+++ +G++L   F +I   + R +I+ LVR
Sbjct: 66  VPINWFFEGLEEPTAEDAAINRRQTAVDAFLASREGVELALAFPRIGSGQ-RNQILALVR 124

Query: 125 SIVSSEK 131
           ++ + E+
Sbjct: 125 TLAAEEE 131


>gi|328545923|ref|YP_004306032.1| transcriptional regulator protein [polymorphum gilvum SL003B-26A1]
 gi|326415663|gb|ADZ72726.1| Probable transcriptional regulator protein [Polymorphum gilvum
           SL003B-26A1]
          Length = 109

 Score =  151 bits (382), Expect = 3e-35,   Method: Composition-based stats.
 Identities = 55/108 (50%), Positives = 82/108 (75%), Gaps = 5/108 (4%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI--- 84
           MSQEKLGE LGITFQQ+QKYEKG NR+GASRLQHI+ +L+ P++FFF+ +P    +    
Sbjct: 1   MSQEKLGESLGITFQQIQKYEKGTNRIGASRLQHIATILKVPVAFFFEDAPGSPEEAEGF 60

Query: 85  --SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
             +   + V+DF+S+ +GL LN+ F++I+D KVR++I++LVR++   +
Sbjct: 61  GEAQPTSYVVDFLSSSEGLSLNKAFVRIEDPKVRRRIVDLVRALAGDD 108


>gi|310816677|ref|YP_003964641.1| transcriptional regulator, XRE family [Ketogulonicigenium vulgare
           Y25]
 gi|308755412|gb|ADO43341.1| transcriptional regulator, XRE family [Ketogulonicigenium vulgare
           Y25]
          Length = 119

 Score =  151 bits (381), Expect = 4e-35,   Method: Composition-based stats.
 Identities = 46/123 (37%), Positives = 78/123 (63%), Gaps = 5/123 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + VD+ VGKRIR RR ++GM+Q++L E +GI FQQ+QKYE G NRV ASRL  I+  L
Sbjct: 1   MAHTVDVYVGKRIRQRRWLIGMTQQQLAEHVGIKFQQIQKYETGANRVSASRLWEIAHAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
            + IS+F++      +  ++E++ + + +   + ++L R +  I + + R+ I EL R +
Sbjct: 61  GTSISYFYEGM----NAAATEDSTLNEELWGREAMELLRSYYAIPEDQ-RRHIFELARVL 115

Query: 127 VSS 129
             +
Sbjct: 116 SDA 118


>gi|209963989|ref|YP_002296904.1| DNA-binding protein, putative [Rhodospirillum centenum SW]
 gi|209957455|gb|ACI98091.1| DNA-binding protein, putative [Rhodospirillum centenum SW]
          Length = 156

 Score =  150 bits (380), Expect = 4e-35,   Method: Composition-based stats.
 Identities = 55/127 (43%), Positives = 86/127 (67%), Gaps = 3/127 (2%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNP+DI+VG+R+RLRR +LG+SQE LGE +GITFQQ+QKYE+G NR+ ASRL ++S+VL 
Sbjct: 25  PNPIDIHVGQRLRLRRTLLGLSQETLGEAVGITFQQLQKYERGANRISASRLFNLSQVLG 84

Query: 68  SPISFFFDVSPTVCSDI---SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            P++FFF+  P    +       E    + ++  + L+L R + +I D  VR++  +LV+
Sbjct: 85  VPVTFFFEDLPASGPEAPLDGGSETQEFESMARRETLELVRAYYRIPDEGVRRRAFDLVK 144

Query: 125 SIVSSEK 131
           ++    +
Sbjct: 145 ALAGEPE 151


>gi|58039234|ref|YP_191198.1| transcriptional regulator [Gluconobacter oxydans 621H]
 gi|58001648|gb|AAW60542.1| Transcriptional regulator [Gluconobacter oxydans 621H]
          Length = 212

 Score =  148 bits (373), Expect = 3e-34,   Method: Composition-based stats.
 Identities = 57/174 (32%), Positives = 83/174 (47%), Gaps = 53/174 (30%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           PVD++VG RIRLRR ++G+SQEKLGE LG+TFQQ+QKYE+G NRVGASRL  +++VL+ P
Sbjct: 35  PVDVHVGNRIRLRRTLMGLSQEKLGEALGLTFQQIQKYERGANRVGASRLYDLAQVLDVP 94

Query: 70  ISFFFDVSPTVCSDISSEEN---------------------------------------- 89
           I FFFD          S                                           
Sbjct: 95  IGFFFDDMQEARPSAPSSAPRPFPGSAPTFNPAFGQASAAQAPVPGFAETQSAFGAPPPR 154

Query: 90  -------------NVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
                        +     S  + + L R + +I D  VR+++++L+RS+  ++
Sbjct: 155 PAAPPPRLFDLPVDEAALFSRRETVDLVRSYYRIPDPAVRKRMLDLIRSLGPAD 208


>gi|294084637|ref|YP_003551395.1| putative transcriptional regulator [Candidatus Puniceispirillum
           marinum IMCC1322]
 gi|292664210|gb|ADE39311.1| Predicted transcriptional regulator [Candidatus Puniceispirillum
           marinum IMCC1322]
          Length = 155

 Score =  147 bits (372), Expect = 4e-34,   Method: Composition-based stats.
 Identities = 57/133 (42%), Positives = 83/133 (62%), Gaps = 12/133 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N VD++VGKR+RLRR +LGMSQE+LG  L ITFQQVQKYE+G NR+ ASRL  I ++L+ 
Sbjct: 19  NAVDMHVGKRVRLRRTLLGMSQEQLGTELNITFQQVQKYERGANRISASRLWDIGQILDV 78

Query: 69  PISFFFDVSPTVCSDISSE------------ENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           PI++FFD         S              +  + D ++  + L+L R +  I+   VR
Sbjct: 79  PINYFFDDMTENTMQSSPRRISRGGEILDLVDEQIKDPMARRETLELVRSYYSIEKPLVR 138

Query: 117 QKIIELVRSIVSS 129
           ++I E+V+SI ++
Sbjct: 139 KRISEMVKSIATT 151


>gi|288958165|ref|YP_003448506.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288910473|dbj|BAI71962.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 155

 Score =  147 bits (372), Expect = 4e-34,   Method: Composition-based stats.
 Identities = 56/128 (43%), Positives = 88/128 (68%), Gaps = 6/128 (4%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNP+DI+VG R+RLRR +LG+SQEKLGE +GITFQQ+QKYE+G NR+ ASRL ++S+VL 
Sbjct: 21  PNPIDIHVGARLRLRRTLLGLSQEKLGEAVGITFQQLQKYERGSNRISASRLYNLSQVLG 80

Query: 68  SPISFFFDVSPTVCSDISS------EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
            P+S+FFD  P+     +        E +  + ++  + L+L R + +I+D  VR++  +
Sbjct: 81  VPVSYFFDDMPSPDQITAETPSESMSETDEFESMARRETLELVRAYYRIEDPGVRKRTFD 140

Query: 122 LVRSIVSS 129
           L++++   
Sbjct: 141 LLKALGGD 148


>gi|190404401|ref|YP_001961032.1| rcorf57 [Agrobacterium rhizogenes]
 gi|158322197|gb|ABW33614.1| rcorf57 [Agrobacterium rhizogenes]
          Length = 163

 Score =  146 bits (369), Expect = 9e-34,   Method: Composition-based stats.
 Identities = 52/133 (39%), Positives = 79/133 (59%), Gaps = 10/133 (7%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+P+D+ VG  +R      GMSQ  L E LG+TFQQVQKYEKG NRVGASRL +++ +
Sbjct: 33  KAPSPIDVEVGASVR------GMSQSTLAEALGVTFQQVQKYEKGTNRVGASRLLNVATL 86

Query: 66  LESPISFFFDVSPTVCSD----ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           L  P+S+FFD             +  E  +  F+ T +G  LN  F +I    +R++++ 
Sbjct: 87  LGVPVSYFFDSQSRDGKPDGLTGTGAEMELSAFLDTDEGRDLNVAFARIARPALRRQVLS 146

Query: 122 LVRSIVSSEKKYR 134
           LV+++ +++ K  
Sbjct: 147 LVKAMAATDVKGS 159


>gi|222109145|ref|YP_002551410.1| transcriptional regulator Cro/CI family [Agrobacterium vitis S4]
 gi|221738419|gb|ACM39284.1| transcriptional regulator Cro/CI family [Agrobacterium vitis S4]
          Length = 141

 Score =  146 bits (369), Expect = 9e-34,   Method: Composition-based stats.
 Identities = 59/138 (42%), Positives = 80/138 (57%), Gaps = 4/138 (2%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K  P+ VD+ VG+ IR RRMI G+SQ  LG  +G+TFQQVQKYEKG NRV AS L  I+ 
Sbjct: 2   KDEPHAVDVAVGRAIRKRRMINGVSQSDLGARIGVTFQQVQKYEKGTNRVSASMLMEIAC 61

Query: 65  VLESPISFFFDVSPTVCS-DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            L   +  FFD        +          F  T + + LN+ F QI+D  +R+KI++LV
Sbjct: 62  ALHVDVRSFFDGIDAPSGKEPLHHTATPAAFSITRETVALNQAFAQINDALLRRKIVDLV 121

Query: 124 RSIVSSEKKYRTIEEECM 141
           R++ SS     T E+E +
Sbjct: 122 RAVASS---SSTSEDELL 136


>gi|254559382|ref|YP_003066477.1| XRE family transcriptional regulator [Methylobacterium extorquens
           DM4]
 gi|254266660|emb|CAX22437.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens DM4]
          Length = 158

 Score =  145 bits (366), Expect = 2e-33,   Method: Composition-based stats.
 Identities = 50/126 (39%), Positives = 78/126 (61%), Gaps = 4/126 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    +D  VG+RI++ R   G++Q  LG+ +G+TFQQVQKYE G+NRVGASRL  I+ V
Sbjct: 33  KRATDLDRLVGERIQVLRKSKGLTQTALGQAIGVTFQQVQKYENGMNRVGASRLSDIARV 92

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE  +S F+D       D +     V  F+ T   + L R F +I+D ++R++++ +VR+
Sbjct: 93  LEVRVSSFYDGDEGEGEDRA----EVFGFLRTHGAIDLLRAFSEIEDDQLRREVLAIVRT 148

Query: 126 IVSSEK 131
           +   E+
Sbjct: 149 VARVEQ 154


>gi|46200999|ref|ZP_00056012.2| COG1396: Predicted transcriptional regulators [Magnetospirillum
           magnetotacticum MS-1]
          Length = 133

 Score =  144 bits (363), Expect = 4e-33,   Method: Composition-based stats.
 Identities = 51/124 (41%), Positives = 76/124 (61%), Gaps = 9/124 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG R+RLRR ++G+SQE LGE LG+TFQQ+QKYE+G NR+GASRL  +S  LE P+ +
Sbjct: 1   MHVGSRLRLRRTLMGLSQEALGEALGLTFQQIQKYERGANRIGASRLFDLSRALEVPVEY 60

Query: 73  FFDVSPTVCSDIS---------SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           F+D         S               +D +S  + L L R + +I D+ VR+++ EL 
Sbjct: 61  FYDEMSADVMAASPRHMVRATEEPAPQRIDPMSKRETLDLVRTYYKIGDLNVRKRVYELA 120

Query: 124 RSIV 127
           R++ 
Sbjct: 121 RALA 124


>gi|86360708|ref|YP_472596.1| Cro/CI family transcriptional regulator [Rhizobium etli CFN 42]
 gi|86284810|gb|ABC93869.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli CFN 42]
          Length = 134

 Score =  144 bits (363), Expect = 5e-33,   Method: Composition-based stats.
 Identities = 51/134 (38%), Positives = 83/134 (61%), Gaps = 1/134 (0%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+ P+ VD++VGK IR++R++  +SQ +LG+ +G+TFQQ+QKYEKG NRV AS L  I+ 
Sbjct: 2   KEEPHAVDVHVGKTIRIQRLLRKVSQTELGDRVGVTFQQIQKYEKGSNRVSASMLVEIAG 61

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            L   +  FFD   T  +  +       +F+ + +G+ LN  F  I +  +R+KI++LV+
Sbjct: 62  ALNVDVRTFFDDLSTPVT-ANDNPAPSEEFVISREGVLLNAAFFSIKNEALRKKILKLVQ 120

Query: 125 SIVSSEKKYRTIEE 138
           +I  +E+      E
Sbjct: 121 AIAHTEQVDGEAAE 134


>gi|209546420|ref|YP_002278310.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209539277|gb|ACI59210.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
          Length = 134

 Score =  143 bits (362), Expect = 7e-33,   Method: Composition-based stats.
 Identities = 53/136 (38%), Positives = 86/136 (63%), Gaps = 5/136 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+ P+ VD++VGK IR++R++  +SQ +LG+ +G+TFQQ+QKYEKG NRV AS L  I+ 
Sbjct: 2   KEEPHSVDVHVGKTIRIQRLLRKVSQTELGDRVGVTFQQIQKYEKGSNRVSASMLVEIAG 61

Query: 65  VLESPISFFFDV--SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
            L+  +  FFD   +P   +D  +      +FI + +G+ LN  F  I +  +R+KI++L
Sbjct: 62  ALKVDVRTFFDDLSAPDTANDNPAPSE---EFIISREGVLLNAAFFSIKNEALRKKILKL 118

Query: 123 VRSIVSSEKKYRTIEE 138
           V++I  +E+      E
Sbjct: 119 VQAIAHTEQLDGEAAE 134


>gi|116255803|ref|YP_771636.1| HTH family transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|115260451|emb|CAK03555.1| putative HTH family transcriptional regulator [Rhizobium
           leguminosarum bv. viciae 3841]
          Length = 134

 Score =  143 bits (361), Expect = 7e-33,   Method: Composition-based stats.
 Identities = 51/134 (38%), Positives = 84/134 (62%), Gaps = 1/134 (0%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+ P+ VD++VGK IR++R++  +SQ +LG+ +G+TFQQ+QKYEKG NRV AS L  I+ 
Sbjct: 2   KEEPHSVDVHVGKTIRIQRLLRKVSQTELGDRVGVTFQQIQKYEKGSNRVSASMLVEIAG 61

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            L+  +  FFD   T  +  +       +F+ + +G+ LN  F  I +  +R+KI++LV+
Sbjct: 62  ALKVDVRTFFDDLSTPDN-ANDNPAPSEEFVISREGVLLNAAFFSIKNEALRKKILKLVQ 120

Query: 125 SIVSSEKKYRTIEE 138
           +I  +E+      E
Sbjct: 121 AIAHTEQVESEAAE 134


>gi|241667081|ref|YP_002985165.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240862538|gb|ACS60203.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 134

 Score =  143 bits (361), Expect = 8e-33,   Method: Composition-based stats.
 Identities = 51/134 (38%), Positives = 85/134 (63%), Gaps = 1/134 (0%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+ P+ VD++VGK IR++R++  +SQ +LG+ +G+TFQQ+QKYEKG NRV AS L  I+ 
Sbjct: 2   KEEPHSVDVHVGKTIRIQRLLRKVSQTELGDRVGVTFQQIQKYEKGSNRVSASMLVEIAG 61

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            L+  +  FFD   T  +  +       +F+ + +G+ LN  F  I +  +R+KI++LV+
Sbjct: 62  ALKVDVRTFFDDLSTPDN-ANDNPAPSEEFVISREGVLLNAAFFSIKNEALRKKILKLVQ 120

Query: 125 SIVSSEKKYRTIEE 138
           +I ++E+      E
Sbjct: 121 AIANTEQLDTEAAE 134


>gi|190895672|ref|YP_001985964.1| transcriptional regulator Cro/CI family [Rhizobium etli CIAT 652]
 gi|218658231|ref|ZP_03514161.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli IE4771]
 gi|190699617|gb|ACE93701.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli CIAT 652]
 gi|327194885|gb|EGE61716.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli CNPAF512]
          Length = 134

 Score =  143 bits (361), Expect = 9e-33,   Method: Composition-based stats.
 Identities = 52/136 (38%), Positives = 86/136 (63%), Gaps = 5/136 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+ P+ VD++VGK IR++R++  +SQ +LG+ +G+TFQQ+QKYEKG NRV AS L  I+ 
Sbjct: 2   KEEPHAVDVHVGKTIRIQRLLRKVSQTELGDRVGVTFQQIQKYEKGSNRVSASMLVEIAG 61

Query: 65  VLESPISFFFDV--SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
            L+  +  FFD   +P   +D  +      +F+ + +G+ LN  F  I +  +R+KI++L
Sbjct: 62  ALKVDVRTFFDDLSTPDTANDNPAPSE---EFVISREGVLLNAAFFSIKNEALRKKILKL 118

Query: 123 VRSIVSSEKKYRTIEE 138
           V++I  +E+      E
Sbjct: 119 VQAIAHTEQMDGEAAE 134


>gi|218512667|ref|ZP_03509507.1| probable transcriptional regulator protein [Rhizobium etli 8C-3]
          Length = 108

 Score =  143 bits (361), Expect = 9e-33,   Method: Composition-based stats.
 Identities = 55/103 (53%), Positives = 76/103 (73%), Gaps = 6/103 (5%)

Query: 33  LGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI------SS 86
           L + LGITFQQ+QKYEKG NRVGASRLQ+IS +L  P+SFFF+ +P   S        +S
Sbjct: 2   LAKALGITFQQIQKYEKGTNRVGASRLQNISSILNVPVSFFFEDAPGEHSGAIGGMAEAS 61

Query: 87  EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
             N V+DF+S+ +GLQLNR F++I D KVR+K++ELV+++ + 
Sbjct: 62  SSNYVVDFLSSSEGLQLNRAFVKISDPKVRRKVVELVKALAAE 104


>gi|167645114|ref|YP_001682777.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167347544|gb|ABZ70279.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 120

 Score =  143 bits (360), Expect = 9e-33,   Method: Composition-based stats.
 Identities = 49/117 (41%), Positives = 80/117 (68%), Gaps = 5/117 (4%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
           +RR +LG+SQE L + LG+TFQQVQKYE+G NRV AS+L  I++ L+ P+S+FFD     
Sbjct: 1   MRRKMLGVSQEALADALGLTFQQVQKYERGANRVSASKLYEIAKTLQVPVSYFFDGLADP 60

Query: 81  CSD-----ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
            ++      ++ E  V +F++TP+GL+L   F +I   +VR+++++LVR++   E +
Sbjct: 61  MTNDVDEVGAAAERVVTEFLNTPEGLELAEMFPKIGRGRVRRQVLDLVRAMAEDETR 117


>gi|197106910|ref|YP_002132287.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196480330|gb|ACG79858.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 144

 Score =  141 bits (357), Expect = 2e-32,   Method: Composition-based stats.
 Identities = 53/125 (42%), Positives = 84/125 (67%), Gaps = 1/125 (0%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PNPVD +VG RIR+RR  LGMSQE+L E +G+TFQQVQKYE+  NRV AS+L  ++  L+
Sbjct: 16  PNPVDRHVGLRIRMRRKELGMSQERLAEAIGLTFQQVQKYERATNRVSASKLFEMARALQ 75

Query: 68  SPISFFFDVSPTVC-SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           + I++F++        + S   + V  F+ + DG++L   F +I   +VR++I++LVR++
Sbjct: 76  TSIAYFYEGLEEAGAGEASPPSDEVQTFLMSHDGMELAHAFPRIRQARVRRRILDLVRAV 135

Query: 127 VSSEK 131
             + +
Sbjct: 136 AETPE 140


>gi|218678050|ref|ZP_03525947.1| transcriptional regulator, XRE family protein [Rhizobium etli CIAT
           894]
          Length = 125

 Score =  141 bits (357), Expect = 2e-32,   Method: Composition-based stats.
 Identities = 58/111 (52%), Positives = 77/111 (69%), Gaps = 5/111 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K PN +D  VG RIR RR +LGMSQE+L E +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2   NVKTPNAIDGYVGARIRTRRQLLGMSQERLAEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64  EVLESPISFFFDVSPTV-----CSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           EVL +  SFFF+   +        D+ +  + V +F+ T +GL LNR F++
Sbjct: 62  EVLHTSPSFFFEQENSEPLTLQGLDLPANTDPVAEFLRTKEGLVLNRAFLR 112


>gi|83594927|ref|YP_428679.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
           11170]
 gi|83577841|gb|ABC24392.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
           11170]
          Length = 156

 Score =  141 bits (355), Expect = 4e-32,   Method: Composition-based stats.
 Identities = 56/144 (38%), Positives = 86/144 (59%), Gaps = 16/144 (11%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G  K P+PVD++VG+R+RLRR +LGMSQE+L   +G+TFQQ+QKYE+G NRV ASRL  I
Sbjct: 13  GINKSPDPVDVHVGRRLRLRRTLLGMSQEQLANAVGVTFQQIQKYERGSNRVSASRLYDI 72

Query: 63  SEVLESPISFFFDVS-------------PTVCSDISSE---ENNVMDFISTPDGLQLNRY 106
           S+VL  P++FFF+               P +     SE        D +   + L+L R 
Sbjct: 73  SKVLGVPVAFFFEDIGDEVTSARLAPIVPDITGSGLSEPAIPAYEQDPLQKNETLELIRA 132

Query: 107 FIQIDDVKVRQKIIELVRSIVSSE 130
           + ++    VR++ ++L++S+   +
Sbjct: 133 YWRLPTDTVRKRALDLLKSLSGRD 156


>gi|170740688|ref|YP_001769343.1| XRE family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168194962|gb|ACA16909.1| transcriptional regulator, XRE family [Methylobacterium sp. 4-46]
          Length = 134

 Score =  141 bits (355), Expect = 4e-32,   Method: Composition-based stats.
 Identities = 54/123 (43%), Positives = 76/123 (61%), Gaps = 4/123 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    VD  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKG NRVGA RL+ I+ +
Sbjct: 3   KQTTEVDRLVGIRITALRKAKGLSQTALGNAVGVTFQQVQKYEKGQNRVGAGRLREIARL 62

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE P+S FF+      SD    + NV  F+ST   + + R ++QI+D ++R++++ +VRS
Sbjct: 63  LEVPVSAFFEDP----SDTQGNDENVFGFLSTQGAIDVLRAYVQIEDDQLRREVLAIVRS 118

Query: 126 IVS 128
              
Sbjct: 119 AAR 121


>gi|114571474|ref|YP_758154.1| XRE family transcriptional regulator [Maricaulis maris MCS10]
 gi|114341936|gb|ABI67216.1| transcriptional regulator, XRE family [Maricaulis maris MCS10]
          Length = 128

 Score =  140 bits (354), Expect = 5e-32,   Method: Composition-based stats.
 Identities = 59/123 (47%), Positives = 85/123 (69%), Gaps = 2/123 (1%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P  +D +VG R+RLRR +L MSQ +LGE LG+TFQQVQKYE+G NR+GASRL ++++V E
Sbjct: 6   PTSIDQHVGARLRLRRSLLEMSQSELGEKLGVTFQQVQKYERGTNRIGASRLFNVAKVTE 65

Query: 68  SPISFFFDVSPTVCSDI--SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
            P+S+FF+      S      + + + DFI++PDGL L   F  I D  VR+++I+L+RS
Sbjct: 66  VPVSYFFEGLEEDGSSELKGGDSDTLYDFIASPDGLALASAFAGIKDQTVRRRVIDLLRS 125

Query: 126 IVS 128
           +  
Sbjct: 126 LAD 128


>gi|220922145|ref|YP_002497446.1| XRE family transcriptional regulator [Methylobacterium nodulans ORS
           2060]
 gi|219946751|gb|ACL57143.1| transcriptional regulator, XRE family [Methylobacterium nodulans
           ORS 2060]
          Length = 134

 Score =  140 bits (354), Expect = 5e-32,   Method: Composition-based stats.
 Identities = 53/123 (43%), Positives = 78/123 (63%), Gaps = 4/123 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    VD  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKG NRVGA RL+ I+ +
Sbjct: 3   KQTTEVDRLVGIRITALRKAKGLSQTALGNAVGVTFQQVQKYEKGQNRVGAGRLREIARL 62

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE P+S FF+      +D +  ++NV  F+ST   + + R ++QI+D ++R++++ +VRS
Sbjct: 63  LEVPVSAFFEEP----NDAAGRDDNVFGFLSTQGAVDILRAYVQIEDDQLRREVLAIVRS 118

Query: 126 IVS 128
              
Sbjct: 119 AAR 121


>gi|83859888|ref|ZP_00953408.1| DNA-binding protein, putative [Oceanicaulis alexandrii HTCC2633]
 gi|83852247|gb|EAP90101.1| DNA-binding protein, putative [Oceanicaulis alexandrii HTCC2633]
          Length = 130

 Score =  140 bits (354), Expect = 6e-32,   Method: Composition-based stats.
 Identities = 48/121 (39%), Positives = 80/121 (66%), Gaps = 2/121 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + N +D +VGKRIR RR +LG++Q++L + +GI FQQ+QKYE G NRV ASRL  ++E L
Sbjct: 1   MTNAIDHHVGKRIRRRRRLLGLTQQQLAQSVGIRFQQIQKYESGANRVSASRLFELAEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSE-ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           + P+ +F++         + E EN   D +S  + L L R + ++++ + R++++EL RS
Sbjct: 61  DVPVQYFYEGLQGTGESAAPEGENVAADVLSQKETLDLVRAYYKLNE-RPRRRLLELARS 119

Query: 126 I 126
           +
Sbjct: 120 L 120


>gi|218532679|ref|YP_002423495.1| XRE family transcriptional regulator [Methylobacterium
           chloromethanicum CM4]
 gi|218524982|gb|ACK85567.1| transcriptional regulator, XRE family [Methylobacterium
           chloromethanicum CM4]
          Length = 134

 Score =  140 bits (354), Expect = 6e-32,   Method: Composition-based stats.
 Identities = 50/130 (38%), Positives = 72/130 (55%), Gaps = 4/130 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K     D  VG+RI + R   G+SQ  LG  +G+TFQQVQKYE G+NRVGASRL  I+ V
Sbjct: 9   KRATEQDRIVGERIHVLRKSKGLSQTALGSAIGVTFQQVQKYENGMNRVGASRLSDIARV 68

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L   ++ FF+         + E+      +  P  + L R FI I+D ++R++++ LVRS
Sbjct: 69  LGVSVAVFFEEGDAA----APEKTEAFGLLHAPGAVDLLRAFITIEDDQLRREVLALVRS 124

Query: 126 IVSSEKKYRT 135
               E+    
Sbjct: 125 AARMEQDQGA 134


>gi|163849609|ref|YP_001637652.1| helix-turn-helix domain-containing protein [Methylobacterium
           extorquens PA1]
 gi|163661214|gb|ABY28581.1| helix-turn-helix domain protein [Methylobacterium extorquens PA1]
          Length = 135

 Score =  140 bits (353), Expect = 6e-32,   Method: Composition-based stats.
 Identities = 50/134 (37%), Positives = 75/134 (55%), Gaps = 3/134 (2%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
             + K     D+ VG RI+  R   G+SQ  LG  +G++FQQ+QKYE G NRVGA RL  
Sbjct: 5   SASPKQATKEDVIVGLRIQTLRKSRGISQTALGIAIGVSFQQIQKYEIGANRVGAGRLSD 64

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           I+ VL +P+S FF+         + E+  V D +  P  + L   FI I+D ++R++++ 
Sbjct: 65  IARVLGAPVSVFFEEGDAA---AAQEKTEVFDLLRAPGAVDLLNAFITIEDDRLRREVLA 121

Query: 122 LVRSIVSSEKKYRT 135
           LVRS    E+ +  
Sbjct: 122 LVRSAARMEQDHGA 135


>gi|218532713|ref|YP_002423529.1| XRE family transcriptional regulator [Methylobacterium
           chloromethanicum CM4]
 gi|218525016|gb|ACK85601.1| transcriptional regulator, XRE family [Methylobacterium
           chloromethanicum CM4]
          Length = 135

 Score =  140 bits (353), Expect = 7e-32,   Method: Composition-based stats.
 Identities = 52/124 (41%), Positives = 76/124 (61%), Gaps = 3/124 (2%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D  VG+RI++ R   G+SQ  LG  LG+TFQQ+QKYE GVNRVGASRL  ++ VLE P+S
Sbjct: 15  DRLVGERIKVLRKSKGISQTALGSALGVTFQQIQKYENGVNRVGASRLSEVARVLEVPVS 74

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
            FF+        +   +  V +F+     + L   FI I+D ++R++++ LVR     ++
Sbjct: 75  TFFE---EGGGLVEQGQQEVFEFLRVRGAVDLLNAFIAIEDDQLRREVLALVRCAARMKQ 131

Query: 132 KYRT 135
           K RT
Sbjct: 132 KQRT 135


>gi|188582991|ref|YP_001926436.1| XRE family transcriptional regulator [Methylobacterium populi
           BJ001]
 gi|179346489|gb|ACB81901.1| transcriptional regulator, XRE family [Methylobacterium populi
           BJ001]
          Length = 135

 Score =  140 bits (353), Expect = 8e-32,   Method: Composition-based stats.
 Identities = 50/118 (42%), Positives = 73/118 (61%), Gaps = 3/118 (2%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKG+NRVGA RL  I+ +LE P+S
Sbjct: 15  DRIVGLRITTLRKARGLSQTALGTAVGVTFQQVQKYEKGLNRVGAGRLSEIAHLLEVPVS 74

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
            FF+         + ++  V+DF+     + L R F  I+D ++R+K++ +VRS+  +
Sbjct: 75  AFFE---EADGATAQKQTEVVDFLRVHGAVDLLRAFATIEDDQLRRKVLAIVRSVART 129


>gi|114570052|ref|YP_756732.1| XRE family transcriptional regulator [Maricaulis maris MCS10]
 gi|114340514|gb|ABI65794.1| transcriptional regulator, XRE family [Maricaulis maris MCS10]
          Length = 136

 Score =  139 bits (352), Expect = 8e-32,   Method: Composition-based stats.
 Identities = 45/128 (35%), Positives = 76/128 (59%), Gaps = 1/128 (0%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             + P  +D +VG R+R+ R+   +SQE LGE  G++F Q+QKYE+G  R+ ASRL  ++
Sbjct: 7   GHQFPLQIDQHVGARLRVGRIEFCLSQEALGERFGVSFHQIQKYERGAYRISASRLFVLA 66

Query: 64  EVLESPISFFFDV-SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
             L  P+ FFFD           SE+ ++  FI++  G+ L   F +I + ++RQ++I+L
Sbjct: 67  NALLVPVQFFFDGLDDDGPQSAGSEDTDLYRFIASSAGVTLALAFSRIGNHEIRQRVIDL 126

Query: 123 VRSIVSSE 130
           V ++   +
Sbjct: 127 VHALAKQD 134


>gi|170749530|ref|YP_001755790.1| XRE family transcriptional regulator [Methylobacterium
           radiotolerans JCM 2831]
 gi|170656052|gb|ACB25107.1| transcriptional regulator, XRE family [Methylobacterium
           radiotolerans JCM 2831]
          Length = 162

 Score =  139 bits (351), Expect = 1e-31,   Method: Composition-based stats.
 Identities = 54/127 (42%), Positives = 75/127 (59%), Gaps = 4/127 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    VD  VG RI   R   GMSQ  LG  +G+TFQQVQKYEKG NRVGA RL+ I+ +
Sbjct: 32  KQTTDVDRLVGIRITALRKARGMSQTALGNAVGVTFQQVQKYEKGQNRVGAGRLREIARL 91

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE P+S FF+ S    +     + +V  F+S    ++L R + QI+D ++R+ ++ LVRS
Sbjct: 92  LEVPVSAFFEESEPREN----AQEDVFGFLSAHGAIELLRAYAQIEDEQMRRDVLALVRS 147

Query: 126 IVSSEKK 132
                + 
Sbjct: 148 AARLAQN 154


>gi|329848346|ref|ZP_08263374.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328843409|gb|EGF92978.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 115

 Score =  139 bits (350), Expect = 1e-31,   Method: Composition-based stats.
 Identities = 43/114 (37%), Positives = 73/114 (64%), Gaps = 3/114 (2%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD---VS 77
           +RR  +G+SQ+ LG+ +G+TFQQVQKYE+G NR+ AS+L HI +VL+ PI +FFD     
Sbjct: 1   MRRKFMGISQQVLGDSIGLTFQQVQKYERGSNRISASKLWHIGQVLKVPIDYFFDGFAGG 60

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
                     E  +  F++T +G++L   F ++   K+R+K+++LV+++    +
Sbjct: 61  EAPEDAPGGTEAKINAFLTTTEGIELAEVFPKVSGPKLRRKVLDLVKALADDSE 114


>gi|163850474|ref|YP_001638517.1| helix-turn-helix domain-containing protein [Methylobacterium
           extorquens PA1]
 gi|240137535|ref|YP_002962006.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens AM1]
 gi|254560007|ref|YP_003067102.1| XRE family transcriptional regulator [Methylobacterium extorquens
           DM4]
 gi|163662079|gb|ABY29446.1| helix-turn-helix domain protein [Methylobacterium extorquens PA1]
 gi|240007503|gb|ACS38729.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens AM1]
 gi|254267285|emb|CAX23117.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens DM4]
          Length = 142

 Score =  139 bits (350), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 51/123 (41%), Positives = 71/123 (57%), Gaps = 3/123 (2%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    VD  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKG NRVGA RL+ I+ +
Sbjct: 4   KQTTDVDRLVGLRITALRKARGLSQTALGTAVGVTFQQVQKYEKGQNRVGAGRLREIARL 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE P+S FF+         + E+  V  F+     + L R F  I+D ++R++++ +VRS
Sbjct: 64  LEVPVSAFFEEGDGA---AAQEQTEVFGFLRAHGAVDLLRAFATIEDDQMRREVLAIVRS 120

Query: 126 IVS 128
              
Sbjct: 121 AAR 123


>gi|167644985|ref|YP_001682648.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167347415|gb|ABZ70150.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 149

 Score =  139 bits (350), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 50/133 (37%), Positives = 83/133 (62%), Gaps = 9/133 (6%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +   + P+ VDI+VG R+R+RR  LG+SQ +L + +GITFQQ+QKYE+G NRV AS+L  
Sbjct: 1   MAADQEPHLVDIHVGARVRMRRKALGLSQTQLADSVGITFQQLQKYERGANRVSASKLYG 60

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMD--------FISTPDGLQLNRYFIQIDDV 113
           ++  L++ +S+FF     V    ++EE  + +        F+ + +GL+L   F QI   
Sbjct: 61  MAVTLQTSVSWFFQGLSAVDVANATEEQMLEEHRLKGLQRFLLSSEGLELASLFPQIPPT 120

Query: 114 KVRQKIIELVRSI 126
           + RQ+++ L +S+
Sbjct: 121 Q-RQQLLALAKSL 132


>gi|163849608|ref|YP_001637651.1| helix-turn-helix domain-containing protein [Methylobacterium
           extorquens PA1]
 gi|163661213|gb|ABY28580.1| helix-turn-helix domain protein [Methylobacterium extorquens PA1]
          Length = 134

 Score =  138 bits (349), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 50/126 (39%), Positives = 78/126 (61%), Gaps = 4/126 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    +D  VG+RI++ R   G++Q  LG+ +G+TFQQVQKYE G+NRVGASRL  I+ V
Sbjct: 9   KRATDLDRLVGERIQVLRKSKGLTQTALGQAIGVTFQQVQKYENGMNRVGASRLSDIARV 68

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE  +S F+D       D +     V  F+ T   + L R F +I+D ++R++++ +VR+
Sbjct: 69  LEVRVSSFYDGDEGEGEDRA----EVFGFLRTHGAIDLLRAFSEIEDDQLRREVLAIVRT 124

Query: 126 IVSSEK 131
           +   E+
Sbjct: 125 VARVEQ 130


>gi|218459687|ref|ZP_03499778.1| probable transcriptional regulator protein [Rhizobium etli Kim 5]
          Length = 104

 Score =  138 bits (349), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 54/99 (54%), Positives = 74/99 (74%), Gaps = 6/99 (6%)

Query: 37  LGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI------SSEENN 90
           LGITFQQ+QKYEKG NRVGASRLQ+IS +L  P+SFFF+ +P   S        +S  N 
Sbjct: 2   LGITFQQIQKYEKGTNRVGASRLQNISSILNVPVSFFFEDAPGEHSGAIGGMAETSSSNY 61

Query: 91  VMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           V+DF+S+ +GLQLNR F++I D KVR+K++ELV+++ + 
Sbjct: 62  VVDFLSSSEGLQLNRAFVKISDPKVRRKVVELVKALAAE 100


>gi|218529168|ref|YP_002419984.1| XRE family transcriptional regulator [Methylobacterium
           chloromethanicum CM4]
 gi|218521471|gb|ACK82056.1| transcriptional regulator, XRE family [Methylobacterium
           chloromethanicum CM4]
          Length = 142

 Score =  138 bits (348), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 51/123 (41%), Positives = 71/123 (57%), Gaps = 3/123 (2%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    VD  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKG NRVGA RL+ I+ +
Sbjct: 4   KQTTDVDRLVGLRITALRKARGLSQTALGTAVGVTFQQVQKYEKGQNRVGAGRLREIARL 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE P+S FF+         + E+  V  F+     + L R F  I+D ++R++++ +VRS
Sbjct: 64  LEVPVSAFFEEGDGA---AAQEQTEVFGFLRAHGAVDLLRAFATIEDDQMRREVLAIVRS 120

Query: 126 IVS 128
              
Sbjct: 121 AAR 123


>gi|307315947|ref|ZP_07595440.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
 gi|307322835|ref|ZP_07602141.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306891521|gb|EFN22401.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306898408|gb|EFN29102.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
          Length = 144

 Score =  138 bits (348), Expect = 3e-31,   Method: Composition-based stats.
 Identities = 56/133 (42%), Positives = 85/133 (63%), Gaps = 7/133 (5%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K  P PVD++VG+RIR+RR+ + ++   L + +G+TFQQVQKYEKG NRVGASRLQ I++
Sbjct: 10  KGKPEPVDVHVGRRIRMRRIWMQVTLTALADAIGVTFQQVQKYEKGTNRVGASRLQQIAD 69

Query: 65  VLESPISFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
            L +P+S+FF+  P                +  +++F S+  GL L R F QI D +VR 
Sbjct: 70  ALVAPVSYFFEDMPGAAPVGGDNRSGQKKLQPEIIEFASSDVGLALIRAFSQITDKRVRD 129

Query: 118 KIIELVRSIVSSE 130
           +I+ LV+++   +
Sbjct: 130 RILGLVKALAKQD 142


>gi|218510909|ref|ZP_03508787.1| putative transcriptional regulator protein [Rhizobium etli Brasil
           5]
          Length = 157

 Score =  138 bits (348), Expect = 3e-31,   Method: Composition-based stats.
 Identities = 45/134 (33%), Positives = 81/134 (60%), Gaps = 3/134 (2%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           +++  +PVDI+VG+++R+RR+   +SQ +LG+ +G+++QQVQKYE G NR+ AS L  I+
Sbjct: 24  SEQASHPVDIHVGQQLRIRRVHSNLSQSELGQKVGLSYQQVQKYESGKNRISASMLYEIA 83

Query: 64  EVLESPISFFFDVSPTVCSD--ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
             L  P+  FFD  P       I+ E +  + F++T +G +     +++   K+R + + 
Sbjct: 84  GGLNVPVGCFFDGLPQPGESATIAPEADERIAFLATAEGRRFVEEILRLP-PKLRTRTLA 142

Query: 122 LVRSIVSSEKKYRT 135
           ++R+I   E K   
Sbjct: 143 VIRAIAGDEDKAEE 156


>gi|188580238|ref|YP_001923683.1| XRE family transcriptional regulator [Methylobacterium populi
           BJ001]
 gi|179343736|gb|ACB79148.1| transcriptional regulator, XRE family [Methylobacterium populi
           BJ001]
          Length = 135

 Score =  138 bits (348), Expect = 3e-31,   Method: Composition-based stats.
 Identities = 51/123 (41%), Positives = 71/123 (57%), Gaps = 3/123 (2%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    VD  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKG NRVGA RL+ I+ +
Sbjct: 4   KQTTDVDRLVGLRITALRKARGLSQTALGTAVGVTFQQVQKYEKGQNRVGAGRLREIARL 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE P+S FF+         + E+  V  F+     + L R F  I+D ++R++++ +VRS
Sbjct: 64  LEVPVSAFFEEGDGA---AAQEQTEVFGFLRAHGAVDLLRAFASIEDDQMRREVLAIVRS 120

Query: 126 IVS 128
              
Sbjct: 121 AAR 123


>gi|304321344|ref|YP_003854987.1| DNA-binding protein [Parvularcula bermudensis HTCC2503]
 gi|303300246|gb|ADM09845.1| DNA-binding protein, putative [Parvularcula bermudensis HTCC2503]
          Length = 128

 Score =  138 bits (347), Expect = 3e-31,   Method: Composition-based stats.
 Identities = 44/128 (34%), Positives = 80/128 (62%), Gaps = 6/128 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +P+D +VG+R+R RR +LGM+Q++L E +GI FQQ+QKYE G NRV ASRL  ++E L
Sbjct: 1   MAHPIDSHVGRRLRQRRSLLGMTQQRLAESVGIKFQQIQKYESGANRVSASRLWALAEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMD-----FISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           E P+S+FF+   +   + S+      D      ++  + + L R +  + +   R+++++
Sbjct: 61  EVPVSYFFEGLSSPEMEESTAAKAEADTISPEVLTNKETIDLIRAYYGLKE-GPRRRLLD 119

Query: 122 LVRSIVSS 129
           L +++  +
Sbjct: 120 LAKTLAGA 127


>gi|83591618|ref|YP_425370.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
           11170]
 gi|83574532|gb|ABC21083.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
           11170]
          Length = 145

 Score =  137 bits (346), Expect = 4e-31,   Method: Composition-based stats.
 Identities = 46/136 (33%), Positives = 78/136 (57%), Gaps = 8/136 (5%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G     +  D +VGKRIR RR++LG+SQ+++ + +G+T+QQ  KYE+G+NR+ A RL  I
Sbjct: 12  GPTNRASEADRHVGKRIRERRVMLGLSQQQMADMIGVTYQQAHKYERGINRISAGRLFEI 71

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           ++VL  P+++FFD      S+  S    +         L+L R F  I + + ++ + +L
Sbjct: 72  AQVLHVPVNYFFDGLDDEASETLSPRQRMC--------LELARNFAMIQNERHQEALSQL 123

Query: 123 VRSIVSSEKKYRTIEE 138
            R++ +       IEE
Sbjct: 124 ARALAAQVSVVEVIEE 139


>gi|167647540|ref|YP_001685203.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167349970|gb|ABZ72705.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 140

 Score =  137 bits (346), Expect = 5e-31,   Method: Composition-based stats.
 Identities = 44/104 (42%), Positives = 70/104 (67%), Gaps = 2/104 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD+ VG R+R+RR +LG+SQ +L + LGITFQQ+QKYE+G NR+ AS+L   + +L
Sbjct: 9   MAHPVDLYVGARLRIRRKVLGLSQTQLADALGITFQQIQKYERGANRISASKLYEAARLL 68

Query: 67  ESPISFFFDVSPTVCSDISSE--ENNVMDFISTPDGLQLNRYFI 108
           +SP+++FFD       +   +     +  F++TP+GL+L   F 
Sbjct: 69  QSPVAYFFDGLDDTAQNGLDDGFAQRMTQFVATPEGLELASLFP 112


>gi|170746516|ref|YP_001752776.1| XRE family transcriptional regulator [Methylobacterium
           radiotolerans JCM 2831]
 gi|170653038|gb|ACB22093.1| transcriptional regulator, XRE family [Methylobacterium
           radiotolerans JCM 2831]
          Length = 146

 Score =  137 bits (345), Expect = 5e-31,   Method: Composition-based stats.
 Identities = 48/123 (39%), Positives = 66/123 (53%), Gaps = 6/123 (4%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    +D  VG RI   R   G+SQ  L   LG++FQQVQKYE G NRVGA RLQ I+E 
Sbjct: 9   KQTTAIDHGVGSRIAFLRAANGLSQSALASALGVSFQQVQKYETGKNRVGAGRLQAIAER 68

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  P+S FF+  P   +D           +     ++L R + QI D ++R+ ++ LV+S
Sbjct: 69  LGVPVSSFFEPEPEATTDSGPA------LLRVAGAVELLRAYNQIADDQMRRDVLSLVKS 122

Query: 126 IVS 128
              
Sbjct: 123 AAR 125


>gi|218507453|ref|ZP_03505331.1| transcriptional regulator protein [Rhizobium etli Brasil 5]
          Length = 111

 Score =  137 bits (345), Expect = 6e-31,   Method: Composition-based stats.
 Identities = 54/111 (48%), Positives = 74/111 (66%), Gaps = 5/111 (4%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +D+ VG R+R+RR  LGM+Q  L E LGITFQQ+QKYEKG NR+GASRLQ ISE+
Sbjct: 4   KSPNSIDVYVGNRVRVRRKTLGMTQHGLAELLGITFQQIQKYEKGTNRIGASRLQRISEI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           L  P+ FFF+        I  E + +  F+S+ +GL LN+   ++   ++R
Sbjct: 64  LRVPVGFFFE--NGGSGPIEGETSELNKFLSSKEGLALNK---RLSPSRIR 109


>gi|163794400|ref|ZP_02188372.1| Predicted transcriptional regulator [alpha proteobacterium BAL199]
 gi|159180568|gb|EDP65089.1| Predicted transcriptional regulator [alpha proteobacterium BAL199]
          Length = 157

 Score =  136 bits (343), Expect = 1e-30,   Method: Composition-based stats.
 Identities = 56/132 (42%), Positives = 84/132 (63%), Gaps = 11/132 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           NP+D++VG+R+RLRR +LGMSQE+LG+ L ITFQQVQKYE+G NR+ ASRL  I ++L+ 
Sbjct: 21  NPIDVHVGRRVRLRRTLLGMSQEQLGDALNITFQQVQKYERGSNRISASRLWDIGQILDV 80

Query: 69  PISFFFDVSPT-----------VCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           P+SFFFD                       E N  D ++  + L+L R +  I +  +R+
Sbjct: 81  PVSFFFDDISDDTAAHSPRRMKAGGAKDEYEENPADPMARRETLELVRAYYSIKNPNLRK 140

Query: 118 KIIELVRSIVSS 129
           +I E+V+S+ ++
Sbjct: 141 RITEMVKSVATA 152


>gi|57239584|ref|YP_180720.1| putative transcriptional regulator [Ehrlichia ruminantium str.
           Welgevonden]
 gi|58579573|ref|YP_197785.1| putative transcriptional regulator [Ehrlichia ruminantium str.
           Welgevonden]
 gi|38098396|gb|AAR10929.1| hypothetical transcriptional regulator [Ehrlichia ruminantium]
 gi|57161663|emb|CAH58593.1| putative transcriptional regulator [Ehrlichia ruminantium str.
           Welgevonden]
 gi|58418199|emb|CAI27403.1| Hypothetical transcriptional regulator [Ehrlichia ruminantium str.
           Welgevonden]
          Length = 201

 Score =  136 bits (342), Expect = 1e-30,   Method: Composition-based stats.
 Identities = 53/149 (35%), Positives = 76/149 (51%), Gaps = 17/149 (11%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
            K  P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  ++
Sbjct: 53  PKSRPHPVDECVGKEIKRQRIMRGMSQNQLANKLGITFQQVQKYEKGTNRIVISRLYQLA 112

Query: 64  EVLESPISFFFDVSPTVCSDIS-------------SEENNVMDF----ISTPDGLQLNRY 106
            VL   +            +IS             +EE  V +F    I + + L + R 
Sbjct: 113 SVLNVEVRDIMLKLQEDLKNISCGNDIVSTPSLKDNEEKFVPEFHDSKIDSKEVLMMVRA 172

Query: 107 FIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
           +  I + KVR  I  LV+++ +  K   +
Sbjct: 173 YTCIKNEKVRNIIYNLVKALSTDNKTSVS 201


>gi|315499301|ref|YP_004088105.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
 gi|315417313|gb|ADU13954.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
          Length = 125

 Score =  136 bits (342), Expect = 1e-30,   Method: Composition-based stats.
 Identities = 48/120 (40%), Positives = 71/120 (59%), Gaps = 2/120 (1%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N VD++VG RIR RR  +GMSQ  L   L +TFQQVQKYE+G NR+ AS++   +  L  
Sbjct: 5   NKVDVHVGHRIRSRRKEIGMSQTDLANHLSLTFQQVQKYERGFNRISASKMHDAARALGV 64

Query: 69  PISFFFDVSPTVCS-DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
            I +FF+        D S  E +V  F+ T +G +L+ +F ++     R+ ++ LVR +V
Sbjct: 65  HIEYFFEGLDNETELDRSESEASVTQFLLTREGAELSSHFSKL-SANQRKGVLALVRMLV 123


>gi|58617626|ref|YP_196825.1| putative transcriptional regulator [Ehrlichia ruminantium str.
           Gardel]
 gi|58417238|emb|CAI28351.1| Hypothetical transcriptional regulator [Ehrlichia ruminantium str.
           Gardel]
          Length = 201

 Score =  136 bits (342), Expect = 1e-30,   Method: Composition-based stats.
 Identities = 53/151 (35%), Positives = 76/151 (50%), Gaps = 17/151 (11%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
              K  P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  
Sbjct: 51  ATPKSRPHPVDECVGKEIKRQRIMRGMSQNQLANKLGITFQQVQKYEKGTNRIVISRLYQ 110

Query: 62  ISEVLESPISFFFDVSPTVCSDIS-------------SEENNVMDF----ISTPDGLQLN 104
           ++ VL   +            +IS             +EE  V +F    I + + L + 
Sbjct: 111 LASVLNVEVRDIMLKLQEDLKNISCGNDIVSTPSLKDNEEKFVPEFHDSKIDSKEVLMMV 170

Query: 105 RYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
           R +  I + KVR  I  LV+++ +  K   +
Sbjct: 171 RAYTCIKNEKVRNIIYNLVKALSTDNKTSVS 201


>gi|144901303|emb|CAM78167.1| transcriptional regulator, Cro/CI family [Magnetospirillum
           gryphiswaldense MSR-1]
          Length = 131

 Score =  135 bits (341), Expect = 2e-30,   Method: Composition-based stats.
 Identities = 41/131 (31%), Positives = 75/131 (57%), Gaps = 8/131 (6%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +       N  D +VG RIR RR++LG+SQ+++ + +G+T+QQ  KYE+G+NR+ A RL 
Sbjct: 9   ISRPVNRANDTDRHVGTRIRERRIMLGLSQQQMADLIGVTYQQAHKYERGINRISAGRLY 68

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            I++VL  P+S+FF+      +   +    +         L+L R F  I + K ++ + 
Sbjct: 69  EIAQVLGVPVSYFFEGLDNQRATDLTARQRMC--------LELARNFSSIQNEKHQEALS 120

Query: 121 ELVRSIVSSEK 131
           ++ R++ ++E 
Sbjct: 121 QMARALAAAED 131


>gi|16126569|ref|NP_421133.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
           CB15]
 gi|221235351|ref|YP_002517788.1| HTH transcriptional regulator [Caulobacter crescentus NA1000]
 gi|13423855|gb|AAK24301.1| transcriptional regulator, Cro/CI family [Caulobacter crescentus
           CB15]
 gi|220964524|gb|ACL95880.1| HTH transcriptional regulator [Caulobacter crescentus NA1000]
          Length = 135

 Score =  134 bits (339), Expect = 3e-30,   Method: Composition-based stats.
 Identities = 42/101 (41%), Positives = 70/101 (69%), Gaps = 1/101 (0%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD+ VG R+R+RR ++G+SQ ++ + LGITFQQ+QKYE+G NR+ AS+L   +++L++
Sbjct: 11  HPVDLYVGARLRIRRKMMGLSQTQVADALGITFQQIQKYERGANRISASKLYDAAKLLQA 70

Query: 69  PISFFFDVSPTVCSDISSE-ENNVMDFISTPDGLQLNRYFI 108
           P+S+FF+        +       + +F+STP+GL+L   F 
Sbjct: 71  PVSYFFEGLEDTDGGVDDGFAQRMTEFVSTPEGLELASLFP 111


>gi|114799525|ref|YP_758842.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114739699|gb|ABI77824.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 145

 Score =  134 bits (339), Expect = 3e-30,   Method: Composition-based stats.
 Identities = 58/128 (45%), Positives = 82/128 (64%), Gaps = 4/128 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K+P+ +D  VG+ I  +R  L ++QEKLGE LG+TFQQVQKYEKGVNRV A RL  I+ V
Sbjct: 5   KLPSDIDRVVGQNIHRQRRKLKLTQEKLGELLGLTFQQVQKYEKGVNRVSAGRLYEIAGV 64

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMD----FISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           LE P+ FFFD + TV S+  +E    +D     + + + LQL   F +I+D  +R  ++ 
Sbjct: 65  LEVPVEFFFDGADTVVSNGVAELAEDLDDTQLAVLSDEVLQLIEAFQKIEDAALRGSLLA 124

Query: 122 LVRSIVSS 129
            VR+  S+
Sbjct: 125 TVRAAASA 132


>gi|114328663|ref|YP_745820.1| transcriptional regulator [Granulibacter bethesdensis CGDNIH1]
 gi|114316837|gb|ABI62897.1| transcriptional regulator [Granulibacter bethesdensis CGDNIH1]
          Length = 184

 Score =  134 bits (339), Expect = 3e-30,   Method: Composition-based stats.
 Identities = 49/137 (35%), Positives = 77/137 (56%), Gaps = 14/137 (10%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +VG RIR RR++LG+SQ++L + +G+T+QQ  KYE+G+NR+ A RL  IS VL  PIS+F
Sbjct: 53  HVGNRIRERRVMLGLSQQQLAQMIGVTYQQAHKYERGLNRISAGRLYQISHVLNVPISWF 112

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS----- 128
           FD         ++E             L+L R F  ID+ K ++ + ++ R++ +     
Sbjct: 113 FDG-------FATESKTADLTTRQRMCLELARNFAAIDNEKHQEALSQMARALAAQSVAN 165

Query: 129 --SEKKYRTIEEECMVE 143
             ++  Y T  EE   E
Sbjct: 166 KMAQDGYATALEESREE 182


>gi|99077913|ref|YP_611172.1| XRE family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99034856|gb|ABF61910.1| transcriptional regulator XRE family [Ruegeria sp. TM1040]
          Length = 125

 Score =  134 bits (338), Expect = 4e-30,   Method: Composition-based stats.
 Identities = 44/124 (35%), Positives = 71/124 (57%), Gaps = 10/124 (8%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVDI+VGKRIR RR  +  +Q+ L E +G+  QQ+Q YE   NRV ASRL  IS+VL
Sbjct: 1   MPHPVDIHVGKRIRTRRWTVDETQKYLAEKVGVKCQQIQNYEVASNRVSASRLWDISKVL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFIST----PDGLQLNRYFIQIDDVKVRQKIIEL 122
              +++FF+       D   E ++  +F  T     + + L + + +I   + R   ++L
Sbjct: 61  GVDVTYFFEGF-----DPRQETSDTHEFHRTASQEKEAIALVQSYYKIPKHQ-RPIFLQL 114

Query: 123 VRSI 126
            +S+
Sbjct: 115 AKSL 118


>gi|167645186|ref|YP_001682849.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167347616|gb|ABZ70351.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 127

 Score =  134 bits (337), Expect = 5e-30,   Method: Composition-based stats.
 Identities = 42/124 (33%), Positives = 76/124 (61%), Gaps = 1/124 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + N +D+ +GKR+R RR +LG +Q++L   +G+ FQQ+QKYE G NR+ A+RL  +SE L
Sbjct: 1   MGNDIDVYLGKRLRRRRRLLGFTQQQLASTVGVRFQQIQKYECGANRISAARLWQLSEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           E P+ +F+D      +  +S E    +  +  + L L R +  + + + R+++++L +S+
Sbjct: 61  EVPVGYFYDGLSDRTAKDASTEAEGGEMFARKETLDLVRAYYLLGE-RPRRRLLDLAKSL 119

Query: 127 VSSE 130
              E
Sbjct: 120 NGGE 123


>gi|83594572|ref|YP_428324.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
           11170]
 gi|83577486|gb|ABC24037.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
           11170]
          Length = 149

 Score =  134 bits (337), Expect = 5e-30,   Method: Composition-based stats.
 Identities = 44/139 (31%), Positives = 71/139 (51%), Gaps = 11/139 (7%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + +  + VD +VG+R+R RR  L + QE L   +G++FQQ+QKYE+G NR+ ASRL  I+
Sbjct: 11  DTRTIHHVDAHVGQRVRQRRTALILDQETLARRIGVSFQQIQKYERGRNRISASRLYDIA 70

Query: 64  EVLESPISFFFDVSP-----------TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
           + L  PI +FF                    ++   +   D +     L L + F  + D
Sbjct: 71  KALAVPIDYFFSDLERGDPRHDGALAEDMGRLAQGGSAPPDPLRLTQSLDLAQAFWALPD 130

Query: 113 VKVRQKIIELVRSIVSSEK 131
             +RQ  I L++++ S E 
Sbjct: 131 DGMRQSFIALLKAMSSFED 149


>gi|254295330|ref|YP_003061353.1| XRE family transcriptional regulator [Hirschia baltica ATCC 49814]
 gi|254043861|gb|ACT60656.1| transcriptional regulator, XRE family [Hirschia baltica ATCC 49814]
          Length = 132

 Score =  134 bits (337), Expect = 5e-30,   Method: Composition-based stats.
 Identities = 44/133 (33%), Positives = 75/133 (56%), Gaps = 4/133 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   VDI VGKR+R RR +LGM+Q+ L   +G+ FQQ+QKYE G NR+ ASRL  ++  L
Sbjct: 1   MATDVDIYVGKRLRRRRRLLGMTQQDLASEIGVRFQQIQKYECGANRITASRLFDLANAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
              +S+FFD          + + N     D +S  + L+L R + ++ + + R+++++L 
Sbjct: 61  TVNVSYFFDGLAPDGKQAPANDGNDTLSGDILSQKETLELVRAYYRLSE-RPRRRLLDLA 119

Query: 124 RSIVSSEKKYRTI 136
           +++    K     
Sbjct: 120 KALEEDNKDQGAA 132


>gi|189184272|ref|YP_001938057.1| hypothetical protein OTT_1365 [Orientia tsutsugamushi str. Ikeda]
 gi|189181043|dbj|BAG40823.1| hypothetical protein OTT_1365 [Orientia tsutsugamushi str. Ikeda]
          Length = 146

 Score =  134 bits (337), Expect = 5e-30,   Method: Composition-based stats.
 Identities = 46/133 (34%), Positives = 83/133 (62%), Gaps = 11/133 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + +D+ V KR+++RR+ILG+SQ+KL E + ++ QQ+QKYEK  NR+ + +L  ++ +L+ 
Sbjct: 14  DSIDLYVSKRLKMRRVILGLSQKKLAEAVDVSIQQIQKYEKSTNRISSGKLYSLANLLKV 73

Query: 69  PISFFFDVSPT------VCSDISSEENNVMDFIST-----PDGLQLNRYFIQIDDVKVRQ 117
           PI +FF+ + +        + IS    +  +F+S       + L L + F ++ +  VR+
Sbjct: 74  PIGYFFENASSYTDCKNNVNTISVFAEDQENFLSDDTVTEKEVLNLIKAFNEVKNSHVRK 133

Query: 118 KIIELVRSIVSSE 130
           KII+LV+SI + E
Sbjct: 134 KIIDLVKSIKAME 146


>gi|148284085|ref|YP_001248175.1| putative transcriptional regulator [Orientia tsutsugamushi str.
           Boryong]
 gi|146739524|emb|CAM79234.1| putative transcriptional regulator [Orientia tsutsugamushi str.
           Boryong]
          Length = 146

 Score =  133 bits (336), Expect = 6e-30,   Method: Composition-based stats.
 Identities = 46/133 (34%), Positives = 83/133 (62%), Gaps = 11/133 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + +D+ V KR+++RR+ILG+SQ+KL E + ++ QQ+QKYEK  NR+ + +L  ++ +L+ 
Sbjct: 14  DSIDLYVSKRLKMRRVILGLSQKKLAEAVDVSIQQIQKYEKSTNRISSGKLYSLANLLKV 73

Query: 69  PISFFFDVSPT------VCSDISSEENNVMDFIST-----PDGLQLNRYFIQIDDVKVRQ 117
           PI +FF+ + +        + IS    +  +F+S       + L L + F ++ +  VR+
Sbjct: 74  PIGYFFENASSYTDCKNNVNTISIFAEDQENFLSDDTVTEKEVLNLIKAFNEVKNSHVRK 133

Query: 118 KIIELVRSIVSSE 130
           KII+LV+SI + E
Sbjct: 134 KIIDLVKSIKAME 146


>gi|83309880|ref|YP_420144.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82944721|dbj|BAE49585.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 151

 Score =  133 bits (336), Expect = 6e-30,   Method: Composition-based stats.
 Identities = 40/125 (32%), Positives = 71/125 (56%), Gaps = 8/125 (6%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
              N  D +VG RIR RR++LG+SQ+++ + +G+T+QQ  KYE+G+NR+ A RL  I++V
Sbjct: 35  NRANDTDRHVGSRIRERRIMLGLSQQQMADLIGVTYQQAHKYERGINRISAGRLFEIAQV 94

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L  P+ FF++          S    +         L+L R F  I + + ++ + +L R+
Sbjct: 95  LGVPVGFFYEGLENRRGSDLSARQRMC--------LELARNFTSITNERHQEALSQLARA 146

Query: 126 IVSSE 130
           + + +
Sbjct: 147 LAAED 151


>gi|88657852|ref|YP_507902.1| putative transcriptional regulator [Ehrlichia chaffeensis str.
           Arkansas]
 gi|88599309|gb|ABD44778.1| putative transcriptional regulator [Ehrlichia chaffeensis str.
           Arkansas]
          Length = 213

 Score =  133 bits (336), Expect = 7e-30,   Method: Composition-based stats.
 Identities = 52/146 (35%), Positives = 75/146 (51%), Gaps = 17/146 (11%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
            K  P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  ++
Sbjct: 68  TKIRPHPVDECVGKEIKRQRIMRGMSQNQLANKLGITFQQVQKYEKGTNRIVISRLYQLA 127

Query: 64  EVLESPISFFFDVSPTVCSDIS-------------SEENNVMDF----ISTPDGLQLNRY 106
            VL   +            +IS             +EE  + +F    I + + L + R 
Sbjct: 128 SVLNVEVRDIMLKLQEDLKNISCDHTVASTSTLKDNEEKFIPEFHDSKIDSKEVLMMVRA 187

Query: 107 FIQIDDVKVRQKIIELVRSIVSSEKK 132
           +  I + KVR  I  LV+++    K+
Sbjct: 188 YTCIKNEKVRNIIYNLVKALSLDNKQ 213


>gi|16519652|ref|NP_443772.1| uncharacterized transcription regulator (Cro/CI family)
           [Sinorhizobium fredii NGR234]
 gi|2496579|sp|P55360|Y4AM_RHISN RecName: Full=Uncharacterized HTH-type transcriptional regulator
           y4aM
 gi|2182302|gb|AAB91610.1| uncharacterized transcription regulator (Cro/CI family)
           [Sinorhizobium fredii NGR234]
          Length = 143

 Score =  133 bits (336), Expect = 7e-30,   Method: Composition-based stats.
 Identities = 58/133 (43%), Positives = 83/133 (62%), Gaps = 7/133 (5%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           +   N VDI VG+RIR RR    MSQ  LGE +G+TFQQVQKYEKG NRVGA RLQ IS+
Sbjct: 10  RAKANAVDIYVGRRIRQRRRWQNMSQAALGEAIGVTFQQVQKYEKGSNRVGAGRLQQISD 69

Query: 65  VLESPISFFFDVSPTVCSDISSEENN-------VMDFISTPDGLQLNRYFIQIDDVKVRQ 117
            LE   S+FF+  P     I     N       V++F ++ +G++L R F ++ ++ VR 
Sbjct: 70  ALEVHPSYFFEDMPDDTQSIGQGAPNQAYIPPEVIEFAASDEGVELIRAFSRVGNLNVRC 129

Query: 118 KIIELVRSIVSSE 130
           +I++L++S+   +
Sbjct: 130 RIVKLLKSLGEHD 142


>gi|68171793|ref|ZP_00545135.1| Helix-turn-helix motif [Ehrlichia chaffeensis str. Sapulpa]
 gi|13511828|gb|AAC02808.2| hypothetical transcriptional regulator [Ehrlichia chaffeensis]
 gi|67998784|gb|EAM85494.1| Helix-turn-helix motif [Ehrlichia chaffeensis str. Sapulpa]
          Length = 213

 Score =  133 bits (335), Expect = 8e-30,   Method: Composition-based stats.
 Identities = 52/146 (35%), Positives = 75/146 (51%), Gaps = 17/146 (11%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
            K  P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  ++
Sbjct: 68  TKIRPHPVDECVGKEIKRQRIMRGMSQNQLANKLGITFQQVQKYEKGTNRIVISRLYQLA 127

Query: 64  EVLESPISFFFDVSPTVCSDIS-------------SEENNVMDF----ISTPDGLQLNRY 106
            VL   +            +IS             +EE  + +F    I + + L + R 
Sbjct: 128 SVLNVEVRDIMLKLQEDLKNISCDHTVASTSTLKDNEEKFIPEFHDSKIDSKEVLMMVRA 187

Query: 107 FIQIDDVKVRQKIIELVRSIVSSEKK 132
           +  I + KVR  I  LV+++    K+
Sbjct: 188 YTCIKNEKVRNIIYNLVKALSLDNKQ 213


>gi|222087820|ref|YP_002546358.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221725268|gb|ACM28424.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 159

 Score =  133 bits (335), Expect = 8e-30,   Method: Composition-based stats.
 Identities = 40/136 (29%), Positives = 82/136 (60%), Gaps = 5/136 (3%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G+ ++ +PVD +VG+++R+ R+   +SQ +LG  +G+++QQVQKYE G NR+ AS L  I
Sbjct: 23  GDGQMIHPVDRHVGQQLRILRIHSNLSQTELGHEVGLSYQQVQKYESGKNRISASMLYVI 82

Query: 63  SEVLESPISFFFDVSPTVCSDIS----SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           +  L  P++ FFD  P   S+++     E +  + +I+T +G +     +++   ++R +
Sbjct: 83  ASRLNVPVNRFFDGLPPSESEVTDGIVPEVDERIAYIATAEGRRFVEEILRLP-PRLRTR 141

Query: 119 IIELVRSIVSSEKKYR 134
            + +++ +   E++  
Sbjct: 142 TLAVIKVLAGDEEETA 157


>gi|188580819|ref|YP_001924264.1| XRE family transcriptional regulator [Methylobacterium populi
           BJ001]
 gi|179344317|gb|ACB79729.1| transcriptional regulator, XRE family [Methylobacterium populi
           BJ001]
          Length = 135

 Score =  133 bits (335), Expect = 9e-30,   Method: Composition-based stats.
 Identities = 52/130 (40%), Positives = 76/130 (58%), Gaps = 3/130 (2%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K     D  VG+RI   R   G+SQ  LG  +G+TFQQVQKYE+G NRVGA RLQ I+ +
Sbjct: 9   KRATEQDRLVGERIVALRKARGLSQAALGAAVGVTFQQVQKYERGTNRVGAGRLQEIARL 68

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE P+S FFD       D+   + +V  F+     + L R F  I+D ++R++++ +VRS
Sbjct: 69  LEVPVSAFFDEGNGAAGDM---QADVFGFLRIHGAIDLLRAFATIEDDQLRREVLAIVRS 125

Query: 126 IVSSEKKYRT 135
                ++ R+
Sbjct: 126 ASRLGREERS 135


>gi|21492894|ref|NP_659969.1| putative transcriptional regulator protein [Rhizobium etli CFN 42]
 gi|190894068|ref|YP_001984362.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
 gi|21467319|gb|AAM54982.1| putative transcriptional regulator protein [Rhizobium etli CFN 42]
 gi|190699729|gb|ACE93812.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 254

 Score =  133 bits (334), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 53/135 (39%), Positives = 79/135 (58%), Gaps = 15/135 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ 
Sbjct: 117 HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKI 176

Query: 69  PISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKI 119
           P+S FF+  P    T    I +E +  + +IST +G +L      IDD      +VR ++
Sbjct: 177 PVSRFFEGLPDPETTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRVRSRV 230

Query: 120 IELVRSIVSSEKKYR 134
           + LV SIV  E + +
Sbjct: 231 VALVSSIVDEEMEEQ 245


>gi|126729205|ref|ZP_01745019.1| DNA-binding protein, putative [Sagittula stellata E-37]
 gi|126710195|gb|EBA09247.1| DNA-binding protein, putative [Sagittula stellata E-37]
          Length = 102

 Score =  132 bits (333), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 37/101 (36%), Positives = 63/101 (62%), Gaps = 1/101 (0%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q++L E +GI FQQ+QKYE G NRV ASRL  I++ L+ P+SFFF+      +++++ 
Sbjct: 1   MTQQQLAEKVGIKFQQIQKYETGANRVSASRLWDIADALDVPVSFFFEGIENENAEVAAG 60

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           ++   D +   + L L R +  I + + R+++ EL R +  
Sbjct: 61  DHVPADILGDKEALDLVRSYYAIPENQ-RRRLFELARVLSD 100


>gi|295690474|ref|YP_003594167.1| XRE family transcriptional regulator [Caulobacter segnis ATCC
           21756]
 gi|295432377|gb|ADG11549.1| transcriptional regulator, XRE family [Caulobacter segnis ATCC
           21756]
          Length = 135

 Score =  132 bits (333), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 41/101 (40%), Positives = 70/101 (69%), Gaps = 1/101 (0%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD+ VG R+R+RR ++G+SQ ++ + LGITFQQ+QKYE+G NR+ AS+L   +++L++
Sbjct: 11  HPVDLYVGARLRIRRKMMGLSQTQVADALGITFQQIQKYERGANRISASKLYDAAKLLQA 70

Query: 69  PISFFFDVSPTVCSDISSE-ENNVMDFISTPDGLQLNRYFI 108
           P+S+F++        +       + +F+STP+GL+L   F 
Sbjct: 71  PVSYFYEGLEDTDGGLDDGFAQRMTEFVSTPEGLELAGLFP 111


>gi|27377896|ref|NP_769425.1| transcriptional regulator [Bradyrhizobium japonicum USDA 110]
 gi|27351042|dbj|BAC48050.1| bll2785 [Bradyrhizobium japonicum USDA 110]
          Length = 134

 Score =  131 bits (331), Expect = 2e-29,   Method: Composition-based stats.
 Identities = 55/119 (46%), Positives = 83/119 (69%), Gaps = 6/119 (5%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           DI +GKRIRLRR+ + +SQ +LGE LG++FQQVQKYEKGVNRVGA+RLQ I+  L+ P++
Sbjct: 21  DIELGKRIRLRRVEMKISQAELGEKLGVSFQQVQKYEKGVNRVGAARLQQIATALDVPVT 80

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           FF+D       D  + E   + F+ +   L+L R + +I D  V+++++ L+ SI ++E
Sbjct: 81  FFYDG------DNKAREVESLLFLDSAFSLRLLRAYSKIKDQTVQRQLVSLMESIAANE 133


>gi|148254259|ref|YP_001238844.1| putative transcriptional regulator [Bradyrhizobium sp. BTAi1]
 gi|146406432|gb|ABQ34938.1| putative transcriptional regulatory protein [Bradyrhizobium sp.
           BTAi1]
          Length = 131

 Score =  131 bits (331), Expect = 2e-29,   Method: Composition-based stats.
 Identities = 55/120 (45%), Positives = 83/120 (69%), Gaps = 6/120 (5%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           DI +GKRIRLRR+   +SQ +LGE LG++FQQVQKYEKGVNRVGA+RLQ I+  L+ P++
Sbjct: 18  DIELGKRIRLRRVEQKISQAELGEKLGVSFQQVQKYEKGVNRVGAARLQQIATALDVPVT 77

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           FF+D       D  + E   + F+ +   L+L R + +I D  V+++++ L+ SI ++E+
Sbjct: 78  FFYDG------DNKAREVESLLFLDSAFSLRLLRAYSKIKDQTVQRQLVALMESIAANEE 131


>gi|329847359|ref|ZP_08262387.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328842422|gb|EGF91991.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 116

 Score =  131 bits (331), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 48/115 (41%), Positives = 72/115 (62%), Gaps = 4/115 (3%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
           +RR  LGMSQE L E + +TFQQVQKYE+G NR+ AS+L  I+  L++P+++FF+     
Sbjct: 1   MRRKFLGMSQEGLAEVIDLTFQQVQKYERGSNRISASKLYEIARALKAPVAYFFEGYGET 60

Query: 81  CS----DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
            +      S  E  V  F+ T +G++L   F +I   K+R+K++ELVR +  SE 
Sbjct: 61  EAVEGFSESESEQFVHGFLMTTEGIELAEAFPRIRSAKLRRKVLELVRVLGESED 115


>gi|90309028|gb|ABD93637.1| hypothetical transcriptional regulator [Ehrlichia muris]
          Length = 216

 Score =  131 bits (330), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 51/145 (35%), Positives = 75/145 (51%), Gaps = 17/145 (11%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K  P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  ++ 
Sbjct: 72  KARPHPVDECVGKEIKRQRIMRGMSQNQLATKLGITFQQVQKYEKGTNRIVISRLYQLAT 131

Query: 65  VLESPISFFFDVSPTVCSDIS-------------SEENNVMDF----ISTPDGLQLNRYF 107
           VL   +            +I+             +EE  + +F    I + + L + R +
Sbjct: 132 VLNVEVRDIMLKLQEDLKNIACDHTVACTSILRDNEEKFIPEFHDNKIDSKEVLMMVRAY 191

Query: 108 IQIDDVKVRQKIIELVRSIVSSEKK 132
             I + KVR  I  LV+++    K+
Sbjct: 192 TCIKNEKVRNIIYNLVKALSLDNKQ 216


>gi|83313460|ref|YP_423724.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82948301|dbj|BAE53165.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 127

 Score =  131 bits (330), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 50/122 (40%), Positives = 69/122 (56%), Gaps = 11/122 (9%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +RLRR +LG+SQEKLGE +G+TFQQVQKYE+G NR+  SRL  +S  LE PIS+FFD  P
Sbjct: 1   MRLRRTLLGLSQEKLGELIGLTFQQVQKYERGANRISCSRLFDLSRSLEVPISYFFDDMP 60

Query: 79  TVCSDIS-----------SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                +S                  D     + L+L R +  I D  VR++I +L +++ 
Sbjct: 61  EETKGLSPVQMVREPPKEEPPAAEADPRLRRETLELVRNYYSIVDPDVRRRIYDLAKALS 120

Query: 128 SS 129
             
Sbjct: 121 DR 122


>gi|146339475|ref|YP_001204523.1| putative transcriptional regulator [Bradyrhizobium sp. ORS278]
 gi|146192281|emb|CAL76286.1| putative transcriptional regulatory protein [Bradyrhizobium sp.
           ORS278]
          Length = 131

 Score =  131 bits (330), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 55/120 (45%), Positives = 83/120 (69%), Gaps = 6/120 (5%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           DI +GKRIRLRR+   +SQ +LGE LG++FQQVQKYEKGVNRVGA+RLQ I+  L+ P++
Sbjct: 18  DIELGKRIRLRRVEQKISQAELGEKLGVSFQQVQKYEKGVNRVGAARLQQIATALDVPVT 77

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           FF+D       D  + E   + F+ +   L+L R + +I D  V+++++ L+ SI ++E+
Sbjct: 78  FFYDG------DNKAREVESLLFLDSAFSLRLLRAYSKIKDQTVQRQLVSLMESIAANEE 131


>gi|296114432|ref|ZP_06833086.1| HTH-type transcriptional regulator [Gluconacetobacter hansenii ATCC
           23769]
 gi|295979193|gb|EFG85917.1| HTH-type transcriptional regulator [Gluconacetobacter hansenii ATCC
           23769]
          Length = 207

 Score =  131 bits (330), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 50/95 (52%), Positives = 61/95 (64%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
             P+PVD+ VG RIRLRR +LGMSQE+LG  LG+TFQQVQKYE+G NRVGASRL  ++ V
Sbjct: 7   STPSPVDVYVGSRIRLRRTLLGMSQERLGTALGLTFQQVQKYERGANRVGASRLYDLARV 66

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           L+ PI+FFFD  P   +           F      
Sbjct: 67  LDVPIAFFFDGMPDEAAIAPVASMPAESFAEARGA 101


>gi|254796616|ref|YP_003081452.1| DNA-binding protein [Neorickettsia risticii str. Illinois]
 gi|254589843|gb|ACT69205.1| DNA-binding protein [Neorickettsia risticii str. Illinois]
          Length = 144

 Score =  131 bits (330), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 43/134 (32%), Positives = 69/134 (51%), Gaps = 5/134 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +  N K     D+ +GK+IR  R + G SQ  + + +G+TFQQ+QKYE G NR+  SRL 
Sbjct: 4   ISENFKKRAETDVMIGKQIRRLRTLKGYSQAAIAKEIGVTFQQLQKYECGANRLCVSRLL 63

Query: 61  HISEVLESPISFFF-DVSPTVCSDISSEENNVMDFIS----TPDGLQLNRYFIQIDDVKV 115
            I +  +   S+FF  ++     D   +  N ++F        + L L R F  I    V
Sbjct: 64  DICKFCKVSPSYFFASLNKEQEGDTLHDSENSIEFEHENECNKELLVLVRAFKSITQDSV 123

Query: 116 RQKIIELVRSIVSS 129
           R K++ LV+++  +
Sbjct: 124 RSKVLSLVKTMSQA 137


>gi|56697146|ref|YP_167509.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
 gi|56678883|gb|AAV95549.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
          Length = 134

 Score =  131 bits (329), Expect = 4e-29,   Method: Composition-based stats.
 Identities = 47/124 (37%), Positives = 70/124 (56%), Gaps = 4/124 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD  VG+RIR RR  LG+SQ +LG  +G+ FQQVQKYE G NRV ASRL  I+EVL+  I
Sbjct: 4   VDTVVGRRIRARRSALGLSQAELGRAVGVRFQQVQKYESGANRVSASRLWAIAEVLDVHI 63

Query: 71  SFFFDVSPTVCSDISSEENNVMD---FISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
           S FF+      S +    +  +D   F+   D +++   +  +   + R  ++  VR++ 
Sbjct: 64  SHFFEGIQAPDSGVIDGSDAPVDRLMFLQDRDSVEMVEIYSSLPPAQKR-AVLAFVRTMA 122

Query: 128 SSEK 131
              +
Sbjct: 123 VDTQ 126


>gi|88607013|ref|YP_505749.1| DNA-binding protein [Anaplasma phagocytophilum HZ]
 gi|35057062|gb|AAN15209.1| putative transcriptional regulator [Anaplasma phagocytophilum]
 gi|88598076|gb|ABD43546.1| DNA-binding protein [Anaplasma phagocytophilum HZ]
          Length = 183

 Score =  131 bits (329), Expect = 5e-29,   Method: Composition-based stats.
 Identities = 52/148 (35%), Positives = 77/148 (52%), Gaps = 16/148 (10%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +  K  P+PVD  VG+ I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  
Sbjct: 17  IEGKAKPHPVDEYVGREIKKQRIMKGMSQNQLASRLGITFQQVQKYEKGTNRIVISRLYE 76

Query: 62  ISEVLESPISFFFDV------SPTVCSDIS------SEENNVMDFIST----PDGLQLNR 105
           ++ VL   I+           S T  +DIS       +E ++ +F        + L L R
Sbjct: 77  LARVLGIEINDLMSKLQNDIRSITEGTDISITCLQEGDEASLEEFDHNYNDGKEVLMLVR 136

Query: 106 YFIQIDDVKVRQKIIELVRSIVSSEKKY 133
            + +I   K+R  I  LV+ + + +   
Sbjct: 137 AYRRIKSEKMRGAIHTLVKVMCAEQSND 164


>gi|163852933|ref|YP_001640976.1| helix-turn-helix domain-containing protein [Methylobacterium
           extorquens PA1]
 gi|163664538|gb|ABY31905.1| helix-turn-helix domain protein [Methylobacterium extorquens PA1]
          Length = 135

 Score =  131 bits (329), Expect = 5e-29,   Method: Composition-based stats.
 Identities = 50/124 (40%), Positives = 74/124 (59%), Gaps = 3/124 (2%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D   G+RI++ R   G+SQ  LG  L +TFQQ+QKYE GVNRVGASRL  ++ VLE P+S
Sbjct: 15  DRLDGQRIKMLRKSKGISQSVLGRALSVTFQQIQKYENGVNRVGASRLSEVARVLEVPVS 74

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
            FF+    +   +   +    +F+  P  + L   FI I+D ++R++++ LVRS    E+
Sbjct: 75  TFFEEGSGL---VEQGQKEAFEFLRVPGAVDLLNAFITIEDDRLRREVLALVRSATRREQ 131

Query: 132 KYRT 135
              T
Sbjct: 132 DQGT 135


>gi|302381344|ref|YP_003817167.1| hypothetical protein Bresu_0229 [Brevundimonas subvibrioides ATCC
           15264]
 gi|302191972|gb|ADK99543.1| helix-turn-helix domain protein [Brevundimonas subvibrioides ATCC
           15264]
          Length = 139

 Score =  130 bits (328), Expect = 5e-29,   Method: Composition-based stats.
 Identities = 41/124 (33%), Positives = 71/124 (57%), Gaps = 4/124 (3%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD +VG+R+  +R+ LG +Q  LG  LG+TFQQ+QKYEKG NR+ AS+L  I+   +
Sbjct: 10  PHPVDRHVGRRVCEKRISLGYNQSDLGRALGLTFQQIQKYEKGANRISASKLWDIARFFK 69

Query: 68  SPISFFFDV---SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
             +++FF          +D +       DF ST   +++ R   Q+   + ++  ++++R
Sbjct: 70  VDVAYFFQGLNNEQPGVADGAGPAAFEHDFPSTRHTIEIARLAPQLSS-RQQKLALDMIR 128

Query: 125 SIVS 128
            +  
Sbjct: 129 EMAG 132


>gi|222087277|ref|YP_002545812.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221724725|gb|ACM27881.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 180

 Score =  130 bits (328), Expect = 6e-29,   Method: Composition-based stats.
 Identities = 36/135 (26%), Positives = 77/135 (57%), Gaps = 5/135 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + +  +P+D +VG+++R+ R+   +SQ +LG  + +++QQ+QKYE G NR+ AS L  I+
Sbjct: 26  DTQAIHPIDRHVGQQLRIIRIHSNLSQTELGHKVDLSYQQIQKYESGKNRMSASVLYEIA 85

Query: 64  EVLESPISFFFDVSPTVCSDI----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
             L  PIS F+D  P   S++      E +  + +++T +G +     +++   ++R + 
Sbjct: 86  NCLNVPISRFYDGLPQAGSELVNGGLPEIDERIAYLATSEGRRFVEEILRLP-PRLRTRT 144

Query: 120 IELVRSIVSSEKKYR 134
             L++ +   +++  
Sbjct: 145 FALIQVLTGDDEETA 159


>gi|88608440|ref|YP_506124.1| DNA-binding protein [Neorickettsia sennetsu str. Miyayama]
 gi|88600609|gb|ABD46077.1| DNA-binding protein [Neorickettsia sennetsu str. Miyayama]
          Length = 144

 Score =  130 bits (328), Expect = 6e-29,   Method: Composition-based stats.
 Identities = 43/134 (32%), Positives = 69/134 (51%), Gaps = 5/134 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +  N K     D+ +GK+IR  R + G SQ  + + +G+TFQQ+QKYE G NR+  SRL 
Sbjct: 4   ISENFKKRAETDVMIGKQIRRLRTLKGYSQAAIAKEIGVTFQQLQKYECGANRLCVSRLL 63

Query: 61  HISEVLESPISFFF-DVSPTVCSDISSEENNVMDFIS----TPDGLQLNRYFIQIDDVKV 115
            I +  +   S+FF  ++     D   +  N ++F        + L L R F  I    V
Sbjct: 64  DICKFCKVSPSYFFASLNKEQEGDTLHDSENSIEFEHENEYNKELLVLVRAFKSITQDSV 123

Query: 116 RQKIIELVRSIVSS 129
           R K++ LV+++  +
Sbjct: 124 RSKVLSLVKTMSQA 137


>gi|190894008|ref|YP_001984302.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
 gi|190699669|gb|ACE93752.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 246

 Score =  130 bits (327), Expect = 7e-29,   Method: Composition-based stats.
 Identities = 53/135 (39%), Positives = 79/135 (58%), Gaps = 15/135 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ 
Sbjct: 117 HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKI 176

Query: 69  PISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKI 119
           P+S FF+  P    T    I +E +  + +IST +G +L      IDD      +VR ++
Sbjct: 177 PVSRFFEGLPDPETTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRVRSRV 230

Query: 120 IELVRSIVSSEKKYR 134
           + LV SIV  E + +
Sbjct: 231 VALVSSIVDEEMEEQ 245


>gi|23013262|ref|ZP_00053178.1| COG1396: Predicted transcriptional regulators [Magnetospirillum
           magnetotacticum MS-1]
          Length = 118

 Score =  130 bits (327), Expect = 7e-29,   Method: Composition-based stats.
 Identities = 48/117 (41%), Positives = 68/117 (58%), Gaps = 13/117 (11%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSD---- 83
           MSQEKLGE +G+TFQQVQKYE+G NR+GASRL  +S VL+ P+SFFFD            
Sbjct: 1   MSQEKLGEAIGLTFQQVQKYERGANRIGASRLFDLSRVLDVPVSFFFDDMGEDAQSSSPA 60

Query: 84  ---------ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
                     ++   +  D ++  + L+L R +  I D  VR+K  EL +++  S+K
Sbjct: 61  AVIKGEAVTTAASPGDERDPMAKRETLELVRAYYSITDESVRRKAYELAKTLGGSDK 117


>gi|56417165|ref|YP_154239.1| hypothetical protein AM1138 [Anaplasma marginale str. St. Maries]
 gi|255004638|ref|ZP_05279439.1| hypothetical protein AmarV_05075 [Anaplasma marginale str.
           Virginia]
 gi|23168718|gb|AAN08687.1| transcriptional regulator [Anaplasma marginale str. South Idaho]
 gi|23168730|gb|AAN08693.1| transcriptional regulator [Anaplasma marginale]
 gi|23168742|gb|AAN08699.1| transcriptional regulator [Anaplasma marginale]
 gi|23168754|gb|AAN08705.1| transcriptional regulator [Anaplasma marginale]
 gi|23168766|gb|AAN08711.1| transcriptional regulator [Anaplasma marginale str. Washington
           Okanogan]
 gi|56388397|gb|AAV86984.1| hypothetical protein AM1138 [Anaplasma marginale str. St. Maries]
          Length = 187

 Score =  130 bits (327), Expect = 7e-29,   Method: Composition-based stats.
 Identities = 51/149 (34%), Positives = 81/149 (54%), Gaps = 16/149 (10%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +V  K  P+PVD  VG+ I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL 
Sbjct: 16  IVEGKARPHPVDEYVGREIKKQRIMKGMSQNQLASRLGITFQQVQKYEKGTNRIVISRLY 75

Query: 61  HISEVLESPISFFF-----DVSPTVCSDISS-------EENNVMDFIST----PDGLQLN 104
            ++ VL   I         D+ P   +  ++       EE+++ +F  +     + L L 
Sbjct: 76  ELARVLGIEIKDLIAKLQNDLRPITDAGDATDAALREGEESSLEEFGQSYNDGKEVLMLV 135

Query: 105 RYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           R + +I   K+R  I  LV+ + + +++ 
Sbjct: 136 RAYRRIKSDKMRGAIHTLVKVMCAEQQQD 164


>gi|114571049|ref|YP_757729.1| XRE family transcriptional regulator [Maricaulis maris MCS10]
 gi|114341511|gb|ABI66791.1| transcriptional regulator, XRE family [Maricaulis maris MCS10]
          Length = 128

 Score =  130 bits (327), Expect = 7e-29,   Method: Composition-based stats.
 Identities = 43/124 (34%), Positives = 82/124 (66%), Gaps = 2/124 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + +D++VGKR+R RR +LG++Q++L E +GI FQQ+QKYE G NRV ASRL  ++E L
Sbjct: 1   MTSDIDLHVGKRLRRRRRLLGLTQQQLAESVGIRFQQIQKYECGANRVSASRLFELAESL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           + P+ +F++       +++ ++    D +S  + + L R + ++ + + R++++EL +S+
Sbjct: 61  DVPVQYFYEGLSKR-DEVNGDDTLAADVLSQKETVDLIRAYYRLGE-RPRKRLLELAKSL 118

Query: 127 VSSE 130
              E
Sbjct: 119 EPEE 122


>gi|222081446|ref|YP_002540809.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221726125|gb|ACM29214.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 222

 Score =  129 bits (326), Expect = 8e-29,   Method: Composition-based stats.
 Identities = 36/130 (27%), Positives = 75/130 (57%), Gaps = 5/130 (3%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P+D +VG+++R+ R+   +SQ +LG  + +++QQ+QKYE G NR+ AS L  I+  L  
Sbjct: 73  HPIDRHVGQQLRIIRIHSNLSQTELGHKVDLSYQQIQKYESGKNRMSASVLYEIANCLNV 132

Query: 69  PISFFFDVSPTVCSDI----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           PIS F+D  P   S++      E +  + +++T +G +     +++   ++R +   L++
Sbjct: 133 PISRFYDGLPQAGSELVNGGLPEIDERIAYLATSEGRRFVEEILRLP-PRLRTRTFALIQ 191

Query: 125 SIVSSEKKYR 134
            +   +++  
Sbjct: 192 VLTGDDEETA 201


>gi|254995332|ref|ZP_05277522.1| hypothetical protein AmarM_05275 [Anaplasma marginale str.
           Mississippi]
          Length = 187

 Score =  129 bits (326), Expect = 9e-29,   Method: Composition-based stats.
 Identities = 51/149 (34%), Positives = 81/149 (54%), Gaps = 16/149 (10%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +V  K  P+PVD  VG+ I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL 
Sbjct: 16  IVEGKARPHPVDEYVGREIKKQRIMKGMSQNQLASRLGITFQQVQKYEKGTNRIVISRLY 75

Query: 61  HISEVLESPISFFF-----DVSPTVCSDISS-------EENNVMDFIST----PDGLQLN 104
            ++ VL   I         D+ P   +  ++       EE+++ +F  +     + L L 
Sbjct: 76  ELARVLGIEIKDLIAKLQNDLRPITDAGDATDAALREGEESSLEEFGQSYNDGKEVLMLV 135

Query: 105 RYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           R + +I   K+R  I  LV+ + + +++ 
Sbjct: 136 RAYRRIKSDKMRGAIHTLVKVMCAEQQQD 164


>gi|222082024|ref|YP_002541389.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221726703|gb|ACM29792.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 160

 Score =  129 bits (326), Expect = 9e-29,   Method: Composition-based stats.
 Identities = 35/130 (26%), Positives = 75/130 (57%), Gaps = 5/130 (3%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P+D +VG+++R+ R+   +SQ +LG  + +++QQ+QKYE G NR+ AS L  I+  L  
Sbjct: 31  HPIDRHVGQQLRIIRIHSNLSQTELGHKVDLSYQQIQKYESGKNRMSASVLYEIANCLNV 90

Query: 69  PISFFFDVSPTVCSDI----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           PIS F++  P   S++      E +  + +++T +G +     +++   ++R +   L++
Sbjct: 91  PISRFYEGLPQAGSELVNGGLPEIDERIAYLATSEGRRFVEEILRLP-PRLRTRTFALIQ 149

Query: 125 SIVSSEKKYR 134
            +   +++  
Sbjct: 150 VLTGDDEETA 159


>gi|114327057|ref|YP_744214.1| transcriptional regulator [Granulibacter bethesdensis CGDNIH1]
 gi|114315231|gb|ABI61291.1| transcriptional regulator [Granulibacter bethesdensis CGDNIH1]
          Length = 152

 Score =  129 bits (326), Expect = 9e-29,   Method: Composition-based stats.
 Identities = 50/140 (35%), Positives = 76/140 (54%), Gaps = 13/140 (9%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
                PN +D++VG+RIRLRR  LG+S++KLG+ +GI+  Q+QKYE G  R GA RL  +
Sbjct: 13  EKDDQPNTLDLHVGRRIRLRRAFLGVSEQKLGDLIGISASQIQKYETGTLRAGAVRLFDL 72

Query: 63  SEVLESPISFFFDVSPTVC------------SDISSEENNVMDF-ISTPDGLQLNRYFIQ 109
           +  ++  ISFFFD  P                  +  +    D      + L+L + F +
Sbjct: 73  ARAMDVSISFFFDEMPEQEVANHGVAAISRLGGFAEPQEGFGDGDTMRQEALELIQAFFR 132

Query: 110 IDDVKVRQKIIELVRSIVSS 129
           I D  VR++I+EL+RS+   
Sbjct: 133 ITDPAVRERILELIRSLAKE 152


>gi|73667507|ref|YP_303523.1| transcriptional regulator [Ehrlichia canis str. Jake]
 gi|72394648|gb|AAZ68925.1| transcriptional regulator [Ehrlichia canis str. Jake]
          Length = 215

 Score =  129 bits (326), Expect = 1e-28,   Method: Composition-based stats.
 Identities = 52/148 (35%), Positives = 74/148 (50%), Gaps = 17/148 (11%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
              K  P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  
Sbjct: 68  SATKVRPHPVDECVGKEIKRQRIMRGMSQNQLANKLGITFQQVQKYEKGTNRIVISRLYQ 127

Query: 62  ISEVLESPISFFFDVSPTVCSDIS-------------SEENNVMDF----ISTPDGLQLN 104
           ++ VL   +            +IS             +EE  + +F    I + + L + 
Sbjct: 128 LASVLNVEVRDIMLKLQEDLKNISCDNPITPPHALRDNEEKFLPEFNDSKIDSKEVLMMV 187

Query: 105 RYFIQIDDVKVRQKIIELVRSIVSSEKK 132
           R +  I + KVR  I  LV+++    K 
Sbjct: 188 RAYTCIKNEKVRNIIYNLVKALSLDNKS 215


>gi|114798925|ref|YP_758959.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114739099|gb|ABI77224.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 132

 Score =  129 bits (325), Expect = 1e-28,   Method: Composition-based stats.
 Identities = 41/126 (32%), Positives = 76/126 (60%), Gaps = 4/126 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +  D++VGKR+R RR +LGM+Q+ L   +G+ FQQ+QKYE G NR+ ASRL  ++  +
Sbjct: 1   MADETDLHVGKRLRRRRRLLGMTQQDLASQVGVRFQQIQKYECGANRITASRLYDLARAM 60

Query: 67  ESPISFFFDV---SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
              + +F+D      TV +  +  E    D +S  + L+L R + ++ + + R++++EL 
Sbjct: 61  NVSVQYFYDGMVVPGTVPNAANDAEQMEGDILSQKETLELVRAYYRLSE-RPRRRLLELA 119

Query: 124 RSIVSS 129
           +++   
Sbjct: 120 KALEQD 125


>gi|13512585|gb|AAK28679.1| hypothetical transcriptional regulator [Ehrlichia canis]
          Length = 204

 Score =  129 bits (325), Expect = 1e-28,   Method: Composition-based stats.
 Identities = 52/148 (35%), Positives = 74/148 (50%), Gaps = 17/148 (11%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
              K  P+PVD  VGK I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL  
Sbjct: 57  SATKVRPHPVDECVGKEIKRQRIMRGMSQNQLANKLGITFQQVQKYEKGTNRIVISRLYQ 116

Query: 62  ISEVLESPISFFFDVSPTVCSDIS-------------SEENNVMDF----ISTPDGLQLN 104
           ++ VL   +            +IS             +EE  + +F    I + + L + 
Sbjct: 117 LASVLNVEVRDIMLKLQEDLKNISCDNPITPPHALRDNEEKFLPEFNDSKIDSKEVLMMV 176

Query: 105 RYFIQIDDVKVRQKIIELVRSIVSSEKK 132
           R +  I + KVR  I  LV+++    K 
Sbjct: 177 RAYTCIKNEKVRNIIYNLVKALSLDNKS 204


>gi|304320427|ref|YP_003854070.1| hypothetical protein PB2503_04267 [Parvularcula bermudensis
           HTCC2503]
 gi|303299329|gb|ADM08928.1| hypothetical protein PB2503_04267 [Parvularcula bermudensis
           HTCC2503]
          Length = 122

 Score =  129 bits (325), Expect = 1e-28,   Method: Composition-based stats.
 Identities = 51/117 (43%), Positives = 81/117 (69%), Gaps = 9/117 (7%)

Query: 24  MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSD 83
           M+ G+SQEKLGE LG+TFQQVQKYEKGVNR+GA RL  I+++L+ P+ FF+D   +   D
Sbjct: 1   MMQGISQEKLGEDLGLTFQQVQKYEKGVNRIGAGRLFEIAQILDVPVQFFYDDFQSDEDD 60

Query: 84  IS---------SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
            +         +E  ++   ++T DG+QL + F++I+DV +R++I++LV++I   + 
Sbjct: 61  STLSEETTGYEAERTDLFASLATSDGMQLAQAFLRINDVTIRRRIVDLVKAIAEPDS 117


>gi|114799059|ref|YP_759118.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114739233|gb|ABI77358.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 143

 Score =  129 bits (325), Expect = 1e-28,   Method: Composition-based stats.
 Identities = 50/130 (38%), Positives = 79/130 (60%), Gaps = 11/130 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N VD  VG+R+R RR++LG++Q+++ + LGI++QQ+QKYE G NR+ A RL  I+EVLE 
Sbjct: 10  NQVDRQVGERMRRRRILLGLTQDQVADALGISYQQIQKYETGANRISAGRLAQIAEVLEV 69

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
              +FF V     +  S          S+   ++L R F +I+D +VR  ++ L+RS+  
Sbjct: 70  LPGWFFGVPEAADAPGS----------SSRAVIELVRNFSRIEDERVRTHLMALMRSLSG 119

Query: 129 S-EKKYRTIE 137
           S E +   +E
Sbjct: 120 SGEGESAELE 129


>gi|86651824|gb|ABD14429.1| transcriptional regulator [Anaplasma centrale]
          Length = 187

 Score =  129 bits (325), Expect = 1e-28,   Method: Composition-based stats.
 Identities = 49/149 (32%), Positives = 76/149 (51%), Gaps = 16/149 (10%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +VG K  P+PVD  VG+ I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL 
Sbjct: 16  IVGGKARPHPVDEYVGREIKKQRIMKGMSQNQLASRLGITFQQVQKYEKGTNRIVISRLY 75

Query: 61  HISEVLESPISFFF-----------DVSPTVCSDISSEENNVMDFIST-----PDGLQLN 104
            ++ VL   I               D      + +  ++ + ++  S       + L L 
Sbjct: 76  ELARVLGIEIKDLISKLQNDLRSITDTGDAPDAALREDDESSLEEFSHGYNDGKEVLMLV 135

Query: 105 RYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           R + +I   K+R  I  LV+ +   +++ 
Sbjct: 136 RAYRRIKSDKMRGAIHTLVKVMCMEQQRD 164


>gi|163740854|ref|ZP_02148247.1| DNA-binding protein, putative [Phaeobacter gallaeciensis 2.10]
 gi|161385845|gb|EDQ10221.1| DNA-binding protein, putative [Phaeobacter gallaeciensis 2.10]
          Length = 102

 Score =  129 bits (324), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 39/102 (38%), Positives = 59/102 (57%), Gaps = 1/102 (0%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L  P+SFFF+      +  S +
Sbjct: 1   MTQQQLAELVGIKFQQIQKYETGANRVSASRLWDISDALSVPVSFFFEGLQDDDAPASDK 60

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
                D +   + L L R +  I + + R+++ EL R +  +
Sbjct: 61  AQVPDDLMGDKEALDLVRSYYAIPENQ-RRRLFELARVLSDA 101


>gi|269958434|ref|YP_003328221.1| putative transcriptional regulator [Anaplasma centrale str. Israel]
 gi|269848263|gb|ACZ48907.1| putative transcriptional regulator [Anaplasma centrale str. Israel]
          Length = 187

 Score =  128 bits (323), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 49/149 (32%), Positives = 76/149 (51%), Gaps = 16/149 (10%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +VG K  P+PVD  VG+ I+ +R++ GMSQ +L   LGITFQQVQKYEKG NR+  SRL 
Sbjct: 16  IVGGKARPHPVDEYVGREIKKQRIMKGMSQNQLASRLGITFQQVQKYEKGTNRIVISRLY 75

Query: 61  HISEVLESPISFFF-----------DVSPTVCSDISSEENNVMDFIST-----PDGLQLN 104
            ++ VL   I               D      + +  ++ + ++  S       + L L 
Sbjct: 76  ELARVLGIEIKDLISKLQNDLRSITDTGDAPDAALREDDESSLEEFSHGYNDGKEVLMLV 135

Query: 105 RYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           R + +I   K+R  I  LV+ +   +++ 
Sbjct: 136 RAYRRIKSDKMRGAIHTLVKVMCMEQQRD 164


>gi|83312661|ref|YP_422925.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82947502|dbj|BAE52366.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 121

 Score =  128 bits (323), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 44/111 (39%), Positives = 64/111 (57%), Gaps = 9/111 (8%)

Query: 26  LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDIS 85
           +G+SQE LGE LG+TFQQ+QKYE+G NR+GASRL  +S  LE P+ +F+D         S
Sbjct: 1   MGLSQEALGEALGLTFQQIQKYERGANRIGASRLFDLSRALEVPVEYFYDEMSPDVMAAS 60

Query: 86  SEE---------NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                          +D +S  + L L R + +I D  VR+++ EL R++ 
Sbjct: 61  PRHMVRATQEPVPQQIDPMSKRETLDLVRTYYKIGDPNVRKRVYELARALA 111


>gi|84686223|ref|ZP_01014118.1| DNA-binding protein, putative [Maritimibacter alkaliphilus
           HTCC2654]
 gi|84665750|gb|EAQ12225.1| DNA-binding protein, putative [Rhodobacterales bacterium HTCC2654]
          Length = 104

 Score =  128 bits (323), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 40/105 (38%), Positives = 66/105 (62%), Gaps = 2/105 (1%)

Query: 25  ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI 84
           ++GM+Q++L E +GI FQQ+QKYE G+NRV ASRL  IS+ L  P+SFFF+      ++ 
Sbjct: 1   MVGMTQQQLAEKVGIKFQQIQKYETGMNRVSASRLWDISDALSVPVSFFFEGL-EGGAER 59

Query: 85  SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
            +E     D ++  + L+L R +  I + + R+++ EL R +  +
Sbjct: 60  EAEHALPDDILADKEALELVRSYYAIPENQ-RRRLFELARVLSDA 103


>gi|222082679|ref|YP_002542044.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221727358|gb|ACM30447.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 140

 Score =  128 bits (321), Expect = 3e-28,   Method: Composition-based stats.
 Identities = 50/122 (40%), Positives = 75/122 (61%), Gaps = 7/122 (5%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD  VG++IRL R    MSQE L +CLG+TFQQVQKYE G NRV AS+L  I+  L+ 
Sbjct: 21  HPVDTYVGQQIRLARKQQRMSQEALAKCLGVTFQQVQKYEIGANRVSASKLFEIATALQR 80

Query: 69  PISFFFDV----SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           P+S+FF+     +    +D+  E   V+ +  T +G +L + F+      VR+ ++ L+ 
Sbjct: 81  PVSYFFEGFANAAERDPTDVERESVTVIQY--TAEGRRLAKAFVAAM-PDVRKAVVGLLE 137

Query: 125 SI 126
           S+
Sbjct: 138 SM 139


>gi|329851244|ref|ZP_08266001.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328840090|gb|EGF89662.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 152

 Score =  128 bits (321), Expect = 3e-28,   Method: Composition-based stats.
 Identities = 41/121 (33%), Positives = 73/121 (60%), Gaps = 2/121 (1%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P+D++VG+R+RL+R  LG++Q  L   L ++FQQ+QKYE+G NR+ AS+L  I+  L+ 
Sbjct: 21  HPIDLHVGERVRLKRKELGITQPALATQLKVSFQQLQKYERGFNRISASKLYEIAGALDV 80

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           PI +FFD +    +  S +   V + + T +  +L   F ++   + R+ +   VR + +
Sbjct: 81  PIGYFFDGAKGTAAAASPKVPVVPETL-TAEEARLLEDFRRLK-PEGRKFVTNAVRRLAA 138

Query: 129 S 129
            
Sbjct: 139 Q 139


>gi|163745937|ref|ZP_02153296.1| transcriptional regulator, Cro/CI family, putative [Oceanibulbus
           indolifex HEL-45]
 gi|161380682|gb|EDQ05092.1| transcriptional regulator, Cro/CI family, putative [Oceanibulbus
           indolifex HEL-45]
          Length = 103

 Score =  128 bits (321), Expect = 4e-28,   Method: Composition-based stats.
 Identities = 37/102 (36%), Positives = 62/102 (60%), Gaps = 2/102 (1%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q+KL E +GI FQQ+QKYE G NRV ASRL  I++ L  P+SFFF+      ++ ++ 
Sbjct: 1   MTQQKLAELVGIKFQQIQKYETGANRVSASRLWDIADALGVPVSFFFEGIKDDQAEGTAP 60

Query: 88  -ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            +    D ++  + ++L R +  I + + R+++ EL R +  
Sbjct: 61  LDGLPADLMADKEAMELVRSYYAIPENQ-RRRLFELARVLSD 101


>gi|254420054|ref|ZP_05033778.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
 gi|196186231|gb|EDX81207.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
          Length = 142

 Score =  127 bits (320), Expect = 5e-28,   Method: Composition-based stats.
 Identities = 43/132 (32%), Positives = 76/132 (57%), Gaps = 4/132 (3%)

Query: 1   MVGNK-KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M   K + P+PVD +VG+R++ +R+ LG++Q  L   +G++FQQVQKYEKG NRV AS+L
Sbjct: 6   MAREKLEEPHPVDRHVGRRVQEKRLDLGLTQTALARAVGVSFQQVQKYEKGANRVSASKL 65

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFIS--TPDGLQLNRYFIQIDDVKVRQ 117
             ++E ++  I FFF         +  EE    D     T   +++ R   ++   + ++
Sbjct: 66  FEMAEFMKVDIPFFFQGFHDAQPGVGEEEAPGFDHEHKPTKHSVEIARLAPRLP-ARNQK 124

Query: 118 KIIELVRSIVSS 129
            I++++R ++  
Sbjct: 125 LILDMMREMLGE 136


>gi|222475530|ref|YP_002563947.1| transcriptional regulator [Anaplasma marginale str. Florida]
 gi|222419668|gb|ACM49691.1| transcriptional regulator [Anaplasma marginale str. Florida]
          Length = 187

 Score =  127 bits (319), Expect = 5e-28,   Method: Composition-based stats.
 Identities = 50/149 (33%), Positives = 81/149 (54%), Gaps = 16/149 (10%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +V  K  P+PVD  VG+ I+ +R++ GMS+ +L   LGITFQQVQKYEKG NR+  SRL 
Sbjct: 16  IVEGKARPHPVDEYVGREIKKQRIMKGMSRNQLASRLGITFQQVQKYEKGTNRIVISRLY 75

Query: 61  HISEVLESPISFFF-----DVSPTVCSDISS-------EENNVMDFIST----PDGLQLN 104
            ++ VL   I         D+ P   +  ++       EE+++ +F  +     + L L 
Sbjct: 76  ELARVLGIEIKDLIAKLQNDLRPITDAGDATDAALREGEESSLEEFGQSYNDGKEVLMLV 135

Query: 105 RYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           R + +I   K+R  I  LV+ + + +++ 
Sbjct: 136 RAYRRIKSDKMRGAIHTLVKVMCAEQQQD 164


>gi|170748847|ref|YP_001755107.1| XRE family transcriptional regulator [Methylobacterium
           radiotolerans JCM 2831]
 gi|170655369|gb|ACB24424.1| transcriptional regulator, XRE family [Methylobacterium
           radiotolerans JCM 2831]
          Length = 143

 Score =  126 bits (318), Expect = 8e-28,   Method: Composition-based stats.
 Identities = 43/133 (32%), Positives = 66/133 (49%), Gaps = 4/133 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K     D  +G RI   R+  G+SQ  LG+ +G++FQQVQKYEKG NR+GA RLQ I+++
Sbjct: 8   KSATETDRTIGGRIAALRVAQGLSQTDLGQAIGVSFQQVQKYEKGRNRIGAGRLQAIADL 67

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L+ P+  FF        D              P  ++L   F  I D   R  I+ +V++
Sbjct: 68  LKVPVDTFF----ADPRDTGGGRVGPAALFEDPKVMELVLAFTSITDETTRGGILSIVKA 123

Query: 126 IVSSEKKYRTIEE 138
             + ++     + 
Sbjct: 124 AAALQESRAGAQR 136


>gi|46201107|ref|ZP_00055727.2| COG1396: Predicted transcriptional regulators [Magnetospirillum
           magnetotacticum MS-1]
          Length = 127

 Score =  126 bits (317), Expect = 9e-28,   Method: Composition-based stats.
 Identities = 47/122 (38%), Positives = 67/122 (54%), Gaps = 11/122 (9%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +RLRR +LG+SQEKLGE +G+TFQQVQKYE+G NR+  SRL  +S  LE  IS+FF+   
Sbjct: 1   MRLRRTLLGLSQEKLGEMIGLTFQQVQKYERGANRISCSRLFDLSRSLEVTISYFFEDMA 60

Query: 79  TVCSDIS-----------SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                +S                  D     + L+L R +  I D  VR++I +L +++ 
Sbjct: 61  EETKGLSPVQMVREPPKEEPAAAEADPRLRRETLELVRNYYSITDPDVRRRIYDLAKALS 120

Query: 128 SS 129
             
Sbjct: 121 DR 122


>gi|296532393|ref|ZP_06895122.1| DNA-binding protein [Roseomonas cervicalis ATCC 49957]
 gi|296267280|gb|EFH13176.1| DNA-binding protein [Roseomonas cervicalis ATCC 49957]
          Length = 144

 Score =  126 bits (317), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 43/128 (33%), Positives = 76/128 (59%), Gaps = 7/128 (5%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + +     D +VG RIR RR++LG+SQ++L   +G+T+QQ  KYE+G+NR+ A RL  I+
Sbjct: 19  STQRARQADRHVGMRIRERRLMLGLSQQQLASMIGVTYQQAHKYERGLNRISAGRLFEIA 78

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            VL  P+S+FF+       D S++   V   +     L+L R F  ID+ + ++ + ++ 
Sbjct: 79  TVLAVPVSWFFEGLDE---DGSTQPLGVRQRMC----LELARNFALIDNERHQEALSQMA 131

Query: 124 RSIVSSEK 131
           R++ +  +
Sbjct: 132 RALAAQSQ 139


>gi|329891162|ref|ZP_08269505.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
 gi|328846463|gb|EGF96027.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
          Length = 122

 Score =  126 bits (317), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 40/124 (32%), Positives = 65/124 (52%), Gaps = 4/124 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           +  + +D  VG RI  RR  LG SQ  LG  LG++FQQ+QKYE G NRV ASRL   +  
Sbjct: 3   RRSHHIDQAVGLRIAARRSALGWSQSVLGRELGVSFQQIQKYETGANRVSASRLHQAATA 62

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +   ++ FF   P+   ++      V   +++ +G  L   F +I D   R+ +  + ++
Sbjct: 63  MGCSVADFFPARPSAEGEVEL----VHPVLASAEGRGLAEAFARIPDAGARRALTRVAQA 118

Query: 126 IVSS 129
           +  +
Sbjct: 119 MAGA 122


>gi|197105530|ref|YP_002130907.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196478950|gb|ACG78478.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 128

 Score =  126 bits (316), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 48/125 (38%), Positives = 70/125 (56%), Gaps = 4/125 (3%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
              + I +PVD+ VG RIRL R + G+SQ+ L E  G+TFQQ+QKYE+G NRV AS L  
Sbjct: 3   SKPEAIADPVDVAVGARIRLLRKLKGLSQQALAEAAGVTFQQIQKYERGANRVSASMLAR 62

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           I+  L  P++  F       S  SS  + V   ++ P  L+L + +  +     R  ++E
Sbjct: 63  IARTLGVPVAEMF----GEASPTSSAVDEVAALLAEPGALELLKAYADLPRGASRSALVE 118

Query: 122 LVRSI 126
            VRS+
Sbjct: 119 FVRSL 123


>gi|163868821|ref|YP_001610047.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018494|emb|CAK02052.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 129

 Score =  126 bits (316), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 50/120 (41%), Positives = 77/120 (64%), Gaps = 5/120 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+  DI++GK+IR +R I+G+SQ++LG  LG+TFQQ+QKYEKG+NRV A  LQ I+
Sbjct: 5   QTKNPHFYDISLGKKIRFKRKIMGISQKQLGNHLGVTFQQIQKYEKGLNRVSARCLQEIA 64

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           + L+ PISFF+  S    + +        D IS+ +   L + F +I   K ++ I++L+
Sbjct: 65  DRLDVPISFFYADSAQKENSLC----YYDDQISSKEEYLLLKNF-RILTRKKQKAILQLI 119


>gi|240851141|ref|YP_002972543.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268264|gb|ACS51852.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 151

 Score =  126 bits (316), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 51/118 (43%), Positives = 79/118 (66%), Gaps = 6/118 (5%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+  DI++G++IR +R ++GMSQ+KLG  LG+TFQQ+QKYEKG NR+GA RLQ I+++
Sbjct: 38  KNPHFNDISIGRKIRFKRTMIGMSQKKLGSQLGVTFQQIQKYEKGSNRIGAGRLQEIADI 97

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           LE PISFF+    T  +  + +E      IS+ +   L + F ++   K ++ I+ L+
Sbjct: 98  LEVPISFFYTDLSTKENASTCDER-----ISSKEEQVLLKSFRELK-PKKQKAILCLI 149


>gi|254477432|ref|ZP_05090818.1| transcriptional regulator, XRE family [Ruegeria sp. R11]
 gi|214031675|gb|EEB72510.1| transcriptional regulator, XRE family [Ruegeria sp. R11]
          Length = 101

 Score =  125 bits (315), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 38/101 (37%), Positives = 57/101 (56%), Gaps = 2/101 (1%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q++L E +GI FQQ+QKYE G NRV ASRL  IS+ L  P+SFFF+         + +
Sbjct: 1   MTQQQLAELVGIKFQQIQKYETGANRVSASRLWDISDALGVPVSFFFEGLQEDDG-AAEK 59

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
                D +   + L L R +  I + + R+++ EL R +  
Sbjct: 60  SQVPDDLMGDKEALDLVRSYYAIPENQ-RRRLFELARVLSD 99


>gi|307942085|ref|ZP_07657436.1| Cro/CI family transcriptional regulator [Roseibium sp. TrichSKD4]
 gi|307774371|gb|EFO33581.1| Cro/CI family transcriptional regulator [Roseibium sp. TrichSKD4]
          Length = 126

 Score =  125 bits (314), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 40/126 (31%), Positives = 66/126 (52%), Gaps = 2/126 (1%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             + PNPVD  VG R+R RR  L MSQE L + LG +FQQ+QKYE G NR+ A RL  I+
Sbjct: 2   TTRKPNPVDTYVGIRVRQRRQALNMSQETLADKLGTSFQQLQKYENGTNRISAGRLHAIA 61

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
             L +    F++  P    ++ ++ + V   ++ P    L   F +      ++ ++ + 
Sbjct: 62  SALGATPGHFYEGLPDAPEEVETDLD-VQKLLTIPGATDLLMTFSRCT-GNAQRSLVNVA 119

Query: 124 RSIVSS 129
            +  ++
Sbjct: 120 EAAATT 125


>gi|240851106|ref|YP_002972508.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268229|gb|ACS51817.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 157

 Score =  125 bits (314), Expect = 3e-27,   Method: Composition-based stats.
 Identities = 49/122 (40%), Positives = 77/122 (63%), Gaps = 4/122 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+ +DI +GKRIR RR+ +G+SQ+ LG  LG++FQQ+QKYEKG+NRV A  L  I+
Sbjct: 36  PTKNPHFIDILIGKRIRHRRISMGLSQKALGSHLGVSFQQIQKYEKGLNRVSAKCLLEIA 95

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNV-MDFISTPD-GLQLNRYFIQIDDVKVRQKIIE 121
           + LE PISFF+     +  D+S++E  +  D  +  +    L + F ++   K ++ I+ 
Sbjct: 96  QKLEVPISFFY-ADIAIKEDLSTKETLLHHDQCTYSEKEHTLLKNFRELKS-KKQKAILW 153

Query: 122 LV 123
           L+
Sbjct: 154 LI 155


>gi|221638300|ref|YP_002524562.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
           KD131]
 gi|221159081|gb|ACM00061.1| Transcriptional regulator, XRE family [Rhodobacter sphaeroides
           KD131]
          Length = 102

 Score =  124 bits (313), Expect = 3e-27,   Method: Composition-based stats.
 Identities = 40/105 (38%), Positives = 63/105 (60%), Gaps = 4/105 (3%)

Query: 25  ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI 84
           ++GM+Q++L +C+GI FQQ+QKYE G+NRV ASRL  I+E L   ISFFF+         
Sbjct: 1   MVGMTQQQLADCVGIKFQQIQKYETGMNRVSASRLWDIAEALGVSISFFFEGLEGAGDQA 60

Query: 85  SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
              E    D I+  + L+L R +  I + + R+++ +L R +  +
Sbjct: 61  RQAEG---DRITDKEALELVRSYYAIPEAQ-RRRLFDLARVLSEA 101


>gi|163868976|ref|YP_001610205.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018652|emb|CAK02210.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 135

 Score =  124 bits (313), Expect = 3e-27,   Method: Composition-based stats.
 Identities = 46/128 (35%), Positives = 80/128 (62%), Gaps = 11/128 (8%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+ +D+++GKRIR RRM + +SQ+ LG  LG++FQQ+QKYEKG+NRV A  L  I+
Sbjct: 9   QTKNPHFIDVSIGKRIRHRRMTMWLSQKTLGNFLGVSFQQIQKYEKGLNRVSAKCLLEIA 68

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMD--------FISTPDGLQLNRYFIQIDDVKV 115
           + L+ PISFF++    + +D++++E+ V +        +  +     L + F ++   K 
Sbjct: 69  QKLQVPISFFYEDL--LATDLATKEDLVSEGNPSHHDQYTYSEKEHALLKNFREL-QPKK 125

Query: 116 RQKIIELV 123
           ++ I+ L+
Sbjct: 126 QKAILWLL 133


>gi|16126490|ref|NP_421054.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
           CB15]
 gi|221235270|ref|YP_002517707.1| transcriptional regulator of stalk biogenesis staR [Caulobacter
           crescentus NA1000]
 gi|13423760|gb|AAK24222.1| transcriptional regulator, Cro/CI family [Caulobacter crescentus
           CB15]
 gi|78057842|gb|ABB17333.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
           CB15]
 gi|220964443|gb|ACL95799.1| transcriptional regulator of stalk biogenesis staR [Caulobacter
           crescentus NA1000]
          Length = 131

 Score =  124 bits (313), Expect = 3e-27,   Method: Composition-based stats.
 Identities = 41/121 (33%), Positives = 77/121 (63%), Gaps = 1/121 (0%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
            + N +D+++GKR+R RR +LG++Q++L   +G+ FQQ+QKYE G NR+ A+RL  +SE 
Sbjct: 3   SMGNDIDVHLGKRLRRRRRLLGLTQQQLAGTVGVRFQQIQKYECGANRISAARLWQLSEA 62

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE P+ +F+D       + +SE     +  +  + L L R +  + + + R+++++L +S
Sbjct: 63  LEVPVGYFYDGLSDTRRETTSESAEGGEMFARKETLDLIRAYYLLGE-RPRRRLLDLAKS 121

Query: 126 I 126
           +
Sbjct: 122 L 122


>gi|190894160|ref|YP_001984454.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
 gi|190699821|gb|ACE93904.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 170

 Score =  124 bits (312), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 53/133 (39%), Positives = 78/133 (58%), Gaps = 15/133 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ 
Sbjct: 37  HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKI 96

Query: 69  PISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKI 119
           P+S FF+  P    T    I +E +  + +IST +G +L      IDD      +VR ++
Sbjct: 97  PVSRFFEGLPDPETTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRVRSRV 150

Query: 120 IELVRSIVSSEKK 132
           + LV SIV  E +
Sbjct: 151 VALVSSIVDEEME 163


>gi|218675040|ref|ZP_03524709.1| putative transcriptional regulator protein [Rhizobium etli GR56]
          Length = 180

 Score =  124 bits (312), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 52/133 (39%), Positives = 77/133 (57%), Gaps = 15/133 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ 
Sbjct: 47  HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKI 106

Query: 69  PISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKI 119
           P+S FF+  P    T      +E +  + +IST +G +L      IDD      +VR ++
Sbjct: 107 PVSRFFEGLPDPETTQGQQFITEIDGKIAYISTAEGRRL------IDDVLLLSPRVRSRV 160

Query: 120 IELVRSIVSSEKK 132
           + LV SIV  E +
Sbjct: 161 VALVSSIVDEEME 173


>gi|218681208|ref|ZP_03529105.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           894]
          Length = 170

 Score =  124 bits (312), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 53/133 (39%), Positives = 78/133 (58%), Gaps = 15/133 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ 
Sbjct: 37  HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKI 96

Query: 69  PISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKI 119
           P+S FF+  P    T    I +E +  + +IST +G +L      IDD      +VR ++
Sbjct: 97  PVSRFFEGLPDPETTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRVRSRV 150

Query: 120 IELVRSIVSSEKK 132
           + LV SIV  E +
Sbjct: 151 VALVSSIVDEEME 163


>gi|240851449|ref|YP_002972836.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268572|gb|ACS52159.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 118

 Score =  124 bits (312), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 49/120 (40%), Positives = 75/120 (62%), Gaps = 5/120 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+  DI+VGK+IR RR  +G+SQEKLG+ +G++FQQ+QKYE G NRVGA RLQ I+
Sbjct: 2   QNKTPHLNDISVGKKIRCRRKYMGISQEKLGKKIGVSFQQIQKYENGSNRVGAGRLQEIA 61

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            +L+  ISFF+    T  S+  +      + + + +   L + F ++   K ++ I+ LV
Sbjct: 62  NILDVDISFFY----TDISEKRNISYPYNEGLHSKEEYSLLKGFRKLK-HKKQKAILWLV 116


>gi|218674449|ref|ZP_03524118.1| putative transcriptional regulator protein [Rhizobium etli GR56]
          Length = 174

 Score =  124 bits (311), Expect = 5e-27,   Method: Composition-based stats.
 Identities = 53/135 (39%), Positives = 79/135 (58%), Gaps = 15/135 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ 
Sbjct: 37  HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKI 96

Query: 69  PISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKI 119
           P+S FF+  P    T    I +E +  + +IST +G +L      IDD      +VR ++
Sbjct: 97  PVSRFFEGLPDPETTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRVRSRV 150

Query: 120 IELVRSIVSSEKKYR 134
           + LV SIV  E + +
Sbjct: 151 VALVSSIVEEEMEEQ 165


>gi|254295424|ref|YP_003061447.1| XRE family transcriptional regulator [Hirschia baltica ATCC 49814]
 gi|254043955|gb|ACT60750.1| transcriptional regulator, XRE family [Hirschia baltica ATCC 49814]
          Length = 141

 Score =  124 bits (311), Expect = 5e-27,   Method: Composition-based stats.
 Identities = 58/141 (41%), Positives = 81/141 (57%), Gaps = 10/141 (7%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  N K+PN +D +VG+R+R RR  L  SQEKLGE LG+TFQQ+QKYEKGVNR+ A RL 
Sbjct: 1   MSEN-KLPNSIDKHVGRRVRWRRRELNFSQEKLGELLGLTFQQIQKYEKGVNRISAGRLF 59

Query: 61  HISEVLESPISFFFDVSPTVCSD-----ISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
            +S VLE+ I +FF     +          S+++  +  +   D + L   F  I D K+
Sbjct: 60  EMSRVLETTIGYFFMGVEEMDEAMNRSFAESDKDQALTGLIDADAVDLVVAFQSIPDPKL 119

Query: 116 RQKIIELVR----SIVSSEKK 132
           RQ I+ +VR    +   +E  
Sbjct: 120 RQSILTMVRNSAEAFADNESN 140


>gi|163868974|ref|YP_001610203.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018650|emb|CAK02208.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 130

 Score =  124 bits (311), Expect = 5e-27,   Method: Composition-based stats.
 Identities = 53/117 (45%), Positives = 73/117 (62%), Gaps = 6/117 (5%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K PN +DI++GKRIR RR+ +G+SQ++LG  LG++FQQVQKYEKG NRV A RLQ I+  
Sbjct: 11  KNPNFIDISIGKRIRHRRISMGLSQKELGSHLGVSFQQVQKYEKGFNRVSAGRLQEIANR 70

Query: 66  LESPISFFFDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKI 119
           LE PI FF+        DI ++EN      +  S  +   L R F ++   K ++ I
Sbjct: 71  LEVPIHFFY-ADIATKEDIPTKENLSHHDQETYSEKE-HALVRNFRELH-PKKQKAI 124


>gi|163868999|ref|YP_001610229.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018676|emb|CAK02234.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 129

 Score =  123 bits (310), Expect = 7e-27,   Method: Composition-based stats.
 Identities = 49/123 (39%), Positives = 77/123 (62%), Gaps = 7/123 (5%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K  N VD ++G RIR RR+ +G+SQ+ LG  LG++FQQ+QKYEKG+NRV A  L  I+
Sbjct: 9   QTKNSNFVDTSIGARIRHRRISMGLSQKALGNTLGVSFQQIQKYEKGLNRVSAGCLLEIA 68

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKII 120
           + L+ PISFF+  +  + +DI+++EN      D  S  +   L + F ++   K ++ I+
Sbjct: 69  QKLQVPISFFY--ADLLTTDIATKENLSHCNQDIYSEKE-HALLKNFREL-QPKKQKAIL 124

Query: 121 ELV 123
            L+
Sbjct: 125 WLL 127


>gi|21492787|ref|NP_659862.1| putative transcriptional regulator protein [Rhizobium etli CFN 42]
 gi|21467212|gb|AAM54875.1| putative transcriptional regulator protein [Rhizobium etli CFN 42]
          Length = 161

 Score =  123 bits (310), Expect = 7e-27,   Method: Composition-based stats.
 Identities = 53/133 (39%), Positives = 78/133 (58%), Gaps = 15/133 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ 
Sbjct: 28  HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKI 87

Query: 69  PISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKI 119
           P+S FF+  P    T    I +E +  + +IST +G +L      IDD      +VR ++
Sbjct: 88  PVSRFFEGLPDPETTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRVRSRV 141

Query: 120 IELVRSIVSSEKK 132
           + LV SIV  E +
Sbjct: 142 VALVSSIVDEEME 154


>gi|218507310|ref|ZP_03505188.1| putative transcriptional regulator protein [Rhizobium etli Brasil
           5]
          Length = 166

 Score =  123 bits (310), Expect = 8e-27,   Method: Composition-based stats.
 Identities = 51/133 (38%), Positives = 76/133 (57%), Gaps = 15/133 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ 
Sbjct: 37  HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKI 96

Query: 69  PISFFFDVSPT----VCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKI 119
           P+S FF+  P           +E +  + +IST +G +L      IDD      +VR ++
Sbjct: 97  PVSRFFEGLPDPETLQGQQFITEIDEKIAYISTAEGRRL------IDDVLLLSPRVRSRV 150

Query: 120 IELVRSIVSSEKK 132
           + LV SIV  E +
Sbjct: 151 VALVSSIVDEEME 163


>gi|163868981|ref|YP_001610211.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018658|emb|CAK02216.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 129

 Score =  123 bits (309), Expect = 8e-27,   Method: Composition-based stats.
 Identities = 47/122 (38%), Positives = 76/122 (62%), Gaps = 5/122 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K  N VD ++G RIR RR+ +G+SQ+ LG  LG++FQQ+QKYEKG+NRV A  L  I+
Sbjct: 9   QTKNSNFVDTSIGARIRHRRISMGLSQKALGNTLGVSFQQIQKYEKGLNRVSAGCLLEIA 68

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVM--DFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           + L+ PISFF+  +  + +DI+++EN      +  +     L + F ++   K ++ I+ 
Sbjct: 69  QKLQVPISFFY--ADLLTADIATKENPSHHDQYTYSEKEHALLKNFREL-QPKKQKAILW 125

Query: 122 LV 123
           L+
Sbjct: 126 LL 127


>gi|49476099|ref|YP_034140.1| DNA-binding protein [Bartonella henselae str. Houston-1]
 gi|49238907|emb|CAF28202.1| DNA-binding protein [Bartonella henselae str. Houston-1]
          Length = 152

 Score =  123 bits (309), Expect = 8e-27,   Method: Composition-based stats.
 Identities = 53/120 (44%), Positives = 76/120 (63%), Gaps = 5/120 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+  DI+VGKRIR RR +LG+SQ++LG  LG+TFQQ+QKYEKG+NRVGA RLQ I+
Sbjct: 36  QNKNPHFNDISVGKRIRYRRKMLGLSQKQLGHSLGVTFQQIQKYEKGINRVGAGRLQEIA 95

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            +L+  ISFF+    +    +S   N     IS  +   L + F ++   K ++ I+ L+
Sbjct: 96  TLLDVSISFFY-ADISTKEHVSYPRNKG---ISNKEEDFLLKSFRELK-PKKQKAILCLL 150


>gi|163868997|ref|YP_001610227.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018674|emb|CAK02232.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 129

 Score =  123 bits (308), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 50/123 (40%), Positives = 77/123 (62%), Gaps = 7/123 (5%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K  N VD ++G RIR RR+ +G+SQ+ LG  LG++FQQVQKYEKG+NRV A  L  I+
Sbjct: 9   QTKNSNFVDTSIGARIRHRRISMGLSQKALGNTLGVSFQQVQKYEKGLNRVSAGCLLEIA 68

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKII 120
           + L+ PISFF+  +  + +DI+++EN      D  S  +   L + F ++   K ++ I+
Sbjct: 69  QKLQVPISFFY--ADLLTTDIATKENLSHCNQDTYSEKE-HALLKNFREL-QPKKQKAIL 124

Query: 121 ELV 123
            L+
Sbjct: 125 CLL 127


>gi|295690271|ref|YP_003593964.1| XRE family transcriptional regulator [Caulobacter segnis ATCC
           21756]
 gi|295432174|gb|ADG11346.1| transcriptional regulator, XRE family [Caulobacter segnis ATCC
           21756]
          Length = 127

 Score =  122 bits (307), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 41/124 (33%), Positives = 78/124 (62%), Gaps = 1/124 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + N +D+++GKR+R RR +LG++Q++L E +G+ FQQ+QKYE G NR+ A+RL  ++E L
Sbjct: 1   MGNDIDVHLGKRLRRRRRLLGLTQQQLAEVVGVRFQQIQKYECGANRISAARLWQLAEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           E P+ +F+D    V  + + E     +  +  +   L R +  + + + R+++++L +S+
Sbjct: 61  EVPVGYFYDGLSEVRREAAGEIAESGEMFARKETQDLVRAYYLLGE-RPRRRLLDLAKSL 119

Query: 127 VSSE 130
              E
Sbjct: 120 HGGE 123


>gi|240851130|ref|YP_002972532.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268253|gb|ACS51841.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 117

 Score =  122 bits (307), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 48/120 (40%), Positives = 71/120 (59%), Gaps = 6/120 (5%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K PN +DI +GKRIR RR+ +G+SQ+ LG  LG++FQQ+QKYEKG NRV A  L  I+
Sbjct: 2   QTKNPNFIDILIGKRIRHRRISIGLSQKALGSHLGVSFQQIQKYEKGFNRVSAGCLLEIA 61

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           + L+ PISFF+    T   + S  +       S  +   L + F ++   K ++ I+ L+
Sbjct: 62  QKLDVPISFFY-ADITTKENASHYDQETY---SEKE-HALLKNFRELK-AKKQKAILWLI 115


>gi|254485635|ref|ZP_05098840.1| transcriptional regulator, Cro/CI family, putative [Roseobacter sp.
           GAI101]
 gi|214042504|gb|EEB83142.1| transcriptional regulator, Cro/CI family, putative [Roseobacter sp.
           GAI101]
          Length = 103

 Score =  122 bits (307), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 36/102 (35%), Positives = 59/102 (57%), Gaps = 2/102 (1%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q+KL E +GI FQQ+QKYE G NRV ASRL  I++ L   +++FF+   +  +     
Sbjct: 1   MTQQKLAELVGIKFQQIQKYETGANRVSASRLWDIADALNVSVAYFFEGMDSEQTKNQDV 60

Query: 88  ENNV-MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            +N+  D I   + + L R +  I + + R+++ EL R +  
Sbjct: 61  PDNIPADLIGDKEAMDLVRSYYAIPENQ-RRRLFELARVLSD 101


>gi|240851140|ref|YP_002972542.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268263|gb|ACS51851.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 151

 Score =  122 bits (306), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 49/117 (41%), Positives = 77/117 (65%), Gaps = 6/117 (5%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+  DI++G++IR +R ++GMSQ++LG  LG+TFQQ+QKYEKG NR+GA RLQ I+++
Sbjct: 38  KNPHFNDISIGRKIRFKRTMIGMSQKQLGSQLGVTFQQIQKYEKGSNRIGAGRLQEIADI 97

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           LE P SFF+    T  +  + +E      IS+ +   L + F ++   K ++ I+ L
Sbjct: 98  LEVPSSFFYTDLSTKENASTCDER-----ISSKEEQILLKSFRELK-PKKQKAILRL 148


>gi|144900186|emb|CAM77050.1| transcriptional regulators [Magnetospirillum gryphiswaldense MSR-1]
          Length = 153

 Score =  121 bits (305), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 41/125 (32%), Positives = 66/125 (52%), Gaps = 3/125 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            PNP+D+++GKRIR RR  +G+S E L + + +  + +   E G  RVG   L  +S VL
Sbjct: 24  RPNPLDLHLGKRIRARRNAIGLSLEDLAQAMAVATETLLAMENGSQRVGPQLLHRLSIVL 83

Query: 67  ESPISFFFDVSP-TVCSDISSEENNVMDFIST--PDGLQLNRYFIQIDDVKVRQKIIELV 123
           + P  +FFD  P  + +D      +  D +     + L+L R ++ I D K RQ + +L 
Sbjct: 84  DVPFGYFFDGMPRELDADFPGTPFDDCDPVGDDMREALELVRAYLAISDEKKRQMVHQLA 143

Query: 124 RSIVS 128
           R +  
Sbjct: 144 RKLSE 148


>gi|163869009|ref|YP_001610239.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018686|emb|CAK02244.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 146

 Score =  121 bits (305), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 49/123 (39%), Positives = 83/123 (67%), Gaps = 11/123 (8%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+  DI++G++IR RR +L +SQ++LG+ LG+TFQQ+QKYEKG+NRVGA RLQ I+
Sbjct: 9   PTKNPHSNDISIGRKIRFRRKMLKISQKELGDRLGVTFQQIQKYEKGLNRVGAGRLQEIA 68

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKII 120
           ++L+  I FF+       +DIS++E+ ++   +  S+ +   L + F ++   K ++ I+
Sbjct: 69  DILDISIFFFY-------ADISTKEHVLLPYEEMTSSQEEHTLLKSFRELK-PKQQKAIL 120

Query: 121 ELV 123
            L+
Sbjct: 121 CLI 123


>gi|254559380|ref|YP_003066475.1| XRE family transcriptional regulator [Methylobacterium extorquens
           DM4]
 gi|254266658|emb|CAX22435.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens DM4]
          Length = 111

 Score =  121 bits (304), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 42/113 (37%), Positives = 64/113 (56%), Gaps = 3/113 (2%)

Query: 23  RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
           R   G+SQ  LG  +G++FQQ+QKYE G N VGA RL  I+ VL  P+S FF+       
Sbjct: 2   RKSRGLSQIALGIAIGVSFQQIQKYEIGANCVGAGRLSDIARVLGGPVSVFFEEGDAA-- 59

Query: 83  DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
             + E+  V D +  P  + L   FI I+D ++R++++ LVR+    E+ +  
Sbjct: 60  -AAQEKTEVFDLLRAPGAVDLLNAFITIEDDRLRREVLALVRNAARMEQDHGA 111


>gi|49476100|ref|YP_034141.1| DNA binding protein [Bartonella henselae str. Houston-1]
 gi|49238908|emb|CAF28203.1| DNA binding protein [Bartonella henselae str. Houston-1]
          Length = 152

 Score =  121 bits (304), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 52/120 (43%), Positives = 76/120 (63%), Gaps = 5/120 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+  DI+VGKRIR RR +LG+SQ++LG  LG+TFQQ+QKYEKG+NRVGA RLQ I+
Sbjct: 36  QNKNPHFNDISVGKRIRYRRKMLGLSQKQLGHSLGVTFQQIQKYEKGINRVGAGRLQEIA 95

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            +L+  ISFF+    +    +S   +     IS  +   L + F ++   K ++ I+ L+
Sbjct: 96  TLLDVSISFFY-ADISKKEHVSYPRDKG---ISNKEEDFLLKSFRELK-PKKQKAILCLL 150


>gi|49475984|ref|YP_034025.1| DNA-binding protein [Bartonella henselae str. Houston-1]
 gi|49238792|emb|CAF28061.1| DNA-binding protein [Bartonella henselae str. Houston-1]
          Length = 118

 Score =  121 bits (304), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 55/122 (45%), Positives = 80/122 (65%), Gaps = 11/122 (9%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
            K P+  DI+VGK+IR RR I+G+SQ++LG  LGITFQQ+QKYEKG+NRV A RLQ I++
Sbjct: 3   TKNPHFNDISVGKKIRFRRSIMGLSQKQLGSHLGITFQQIQKYEKGINRVSAGRLQEIAD 62

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
            L+ P+SFF+       +DIS +E+ +    D IS      L + F  + + K ++ I+ 
Sbjct: 63  RLDVPVSFFY-------ADISKKEDTLYPDNDRISNKAEHLLLKNFRGL-NPKKQRAILR 114

Query: 122 LV 123
           L+
Sbjct: 115 LI 116


>gi|240851142|ref|YP_002972544.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268265|gb|ACS51853.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 130

 Score =  121 bits (304), Expect = 4e-26,   Method: Composition-based stats.
 Identities = 48/118 (40%), Positives = 78/118 (66%), Gaps = 5/118 (4%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+  DI++G++IR +R ++GMSQ++LG  LG+TFQQ+QKYEKG NR+GA RLQ I+++
Sbjct: 16  KNPHFNDISIGRKIRFKRTMIGMSQKQLGSQLGVTFQQIQKYEKGSNRIGAGRLQEIADI 75

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           LE P SFF+    T  + +    +   + IS+ +   L + F ++   K ++ I+ L+
Sbjct: 76  LEVPSSFFYADLSTKENAL----DPCDERISSKEEHILLKSFRELK-PKKQKAILCLI 128


>gi|288957911|ref|YP_003448252.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288910219|dbj|BAI71708.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 353

 Score =  121 bits (303), Expect = 4e-26,   Method: Composition-based stats.
 Identities = 49/124 (39%), Positives = 74/124 (59%), Gaps = 6/124 (4%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VD +VG+R+R+RR +LGMSQEKLGE +G+TFQQVQKYE+G NR+ A  L  + +VL+ P
Sbjct: 124 SVDAHVGQRVRMRRTLLGMSQEKLGEAIGLTFQQVQKYERGSNRISAGTLYRLGQVLDVP 183

Query: 70  ISFFFDV----SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +SFFFD      P        E ++    IS  +  +L R + +     V  +++ L+ +
Sbjct: 184 VSFFFDTYNDAGPRRSRGGFEEPDDNNSQISRREA-RLLRLW-RAAPSHVSDEMLSLLSA 241

Query: 126 IVSS 129
           +   
Sbjct: 242 LSPE 245


>gi|88657049|gb|ABD47298.1| RegA [Rhizobium leguminosarum bv. trifolii TA1]
          Length = 99

 Score =  121 bits (303), Expect = 4e-26,   Method: Composition-based stats.
 Identities = 49/94 (52%), Positives = 64/94 (68%), Gaps = 2/94 (2%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN +D+ VG R+R+RR  LGM+Q  L E LGITF+Q+QKYEKG NR+GASRLQ ISE+
Sbjct: 4  KSPNSIDVYVGNRVRVRRKTLGMTQNGLAELLGITFRQIQKYEKGTNRIGASRLQRISEI 63

Query: 66 LESPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
          L  P+ FFF+        I  + N +  F+S+ D
Sbjct: 64 LRVPVGFFFE--NGGSGPIDGQTNELNSFLSSKD 95


>gi|163868998|ref|YP_001610228.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018675|emb|CAK02233.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 130

 Score =  121 bits (303), Expect = 4e-26,   Method: Composition-based stats.
 Identities = 49/123 (39%), Positives = 77/123 (62%), Gaps = 7/123 (5%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K  N VD ++G RIR RR+ +G+SQ+ LG  LG++FQQ+QKYEKG+NRV A  L  I+
Sbjct: 9   QTKNSNFVDTSIGARIRHRRISMGLSQKALGNTLGVSFQQIQKYEKGLNRVSAGCLLEIA 68

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKII 120
           + L+ PISFF+  +  + +DI+++EN      D  S  +   L + F ++   K ++ I+
Sbjct: 69  QKLQVPISFFY--ADLLTTDIATKENLSHCNQDTYSEKE-HALLKNFREL-QPKKQKAIL 124

Query: 121 ELV 123
            L+
Sbjct: 125 CLL 127


>gi|188581972|ref|YP_001925417.1| XRE family transcriptional regulator [Methylobacterium populi
           BJ001]
 gi|179345470|gb|ACB80882.1| transcriptional regulator, XRE family [Methylobacterium populi
           BJ001]
          Length = 133

 Score =  121 bits (303), Expect = 5e-26,   Method: Composition-based stats.
 Identities = 45/128 (35%), Positives = 69/128 (53%), Gaps = 4/128 (3%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           + + K    +D+ +G+RI   R+   MSQ +LG  +G+TFQQVQKYEKG NRVG  RLQ 
Sbjct: 3   IKSNKAATDIDVRIGQRIAALRVNRRMSQTELGTAIGVTFQQVQKYEKGRNRVGGGRLQQ 62

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           I+  L   +S F+        D +     V D +  P G+++ R     +  + R  I+ 
Sbjct: 63  IATALGVRVSDFYGDEQPAGGDAT----VVFDLLRDPHGIRIARALQSANSAEARNAIVG 118

Query: 122 LVRSIVSS 129
           +V ++ SS
Sbjct: 119 VVEAVASS 126


>gi|84500271|ref|ZP_00998537.1| DNA-binding protein, putative [Oceanicola batsensis HTCC2597]
 gi|84392205|gb|EAQ04473.1| DNA-binding protein, putative [Oceanicola batsensis HTCC2597]
          Length = 100

 Score =  121 bits (303), Expect = 5e-26,   Method: Composition-based stats.
 Identities = 38/101 (37%), Positives = 57/101 (56%), Gaps = 3/101 (2%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q++L E +GI FQQ+QKYE G NRV ASRL  I++ LE  +SFFF+       D  + 
Sbjct: 1   MTQQQLAERVGIKFQQIQKYETGANRVSASRLWDIADALEVSVSFFFEGLNE--EDTKAS 58

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
                D +   + L L R +  I + + R+++ EL R +  
Sbjct: 59  NKIPADILGDKEALDLVRSYYAIPEAQ-RRRLFELARVLSD 98


>gi|190895203|ref|YP_001985496.1| putative transcriptional regulator [Rhizobium etli CIAT 652]
 gi|190700864|gb|ACE94946.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 162

 Score =  121 bits (303), Expect = 5e-26,   Method: Composition-based stats.
 Identities = 48/135 (35%), Positives = 83/135 (61%), Gaps = 5/135 (3%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           ++  +PVD++VG++IR+RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++ 
Sbjct: 25  RESAHPVDLHVGQQIRIRRMQSDVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELAN 84

Query: 65  VLESPISFFFDVSPTVCSDI----SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            L+ P+S FF+  P   +      +++ ++ + +IST +G +L    + +   +VR +++
Sbjct: 85  CLKIPVSKFFEGLPDPETSQDAIHATKIDDRIAYISTAEGRRLIEDVLLLP-ARVRSRVV 143

Query: 121 ELVRSIVSSEKKYRT 135
            LV SIV  E K ++
Sbjct: 144 ALVSSIVDEEMKEQS 158


>gi|163869006|ref|YP_001610236.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018683|emb|CAK02241.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 142

 Score =  120 bits (302), Expect = 5e-26,   Method: Composition-based stats.
 Identities = 50/123 (40%), Positives = 82/123 (66%), Gaps = 11/123 (8%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+  DI++G++IR RR +L MSQ++LG+ LG+TFQQ+QKYEKG+NRVGA RLQ I+
Sbjct: 9   PTKNPHFNDISIGRKIRFRREMLKMSQKQLGDRLGVTFQQIQKYEKGLNRVGAGRLQEIA 68

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKII 120
           ++L+  I FF+       +DIS++E+ ++   +  S  +   L + F ++   K ++ I+
Sbjct: 69  DILDISIFFFY-------ADISTKEHVLLPYEEMTSNQEEHTLLKSFRELK-PKQQKAIL 120

Query: 121 ELV 123
            L+
Sbjct: 121 CLI 123


>gi|218510475|ref|ZP_03508353.1| probable transcriptional regulator protein [Rhizobium etli Brasil
          5]
          Length = 98

 Score =  120 bits (301), Expect = 7e-26,   Method: Composition-based stats.
 Identities = 51/97 (52%), Positives = 65/97 (67%), Gaps = 5/97 (5%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N K PN +D  VG RIR RR +LGMSQE+L E +G+TFQQVQKYEKG+NR+GASRLQ I+
Sbjct: 2  NVKTPNAIDSYVGARIRTRRQLLGMSQERLAEQIGVTFQQVQKYEKGINRIGASRLQRIA 61

Query: 64 EVLESPISFFFDVSPTV-----CSDISSEENNVMDFI 95
          EVL +  SFFF+   +        D     + V +F+
Sbjct: 62 EVLHTSPSFFFEQGDSGPVAVRGLDGPDHTDPVAEFL 98


>gi|197106408|ref|YP_002131785.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196479828|gb|ACG79356.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 124

 Score =  119 bits (300), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 33/121 (27%), Positives = 73/121 (60%), Gaps = 1/121 (0%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + +D+++G+++R RR +LG++Q++L    G+ FQQ+QKYE   NR+ A+RL  ++E+L++
Sbjct: 2   DEIDLHLGRKLRRRRKMLGLTQQELAGACGVRFQQIQKYECAANRMSAARLWKLAEILDA 61

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           P+S+F++                 D  +  +  +L + +  + D + R++++EL +++  
Sbjct: 62  PVSYFYEGLSEAQRQAHEAFREPDDVFTRKETRELIQAYYAL-DERPRRQLLELAKAMNG 120

Query: 129 S 129
            
Sbjct: 121 D 121


>gi|288960030|ref|YP_003450370.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288912338|dbj|BAI73826.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 196

 Score =  119 bits (299), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 45/122 (36%), Positives = 65/122 (53%), Gaps = 6/122 (4%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N VD+ VG+R+R  RM+ G+SQ  +   LG+TFQQ+QKYE+G NRV +SRL  + +    
Sbjct: 44  NEVDVFVGQRLRELRMLAGLSQSDVASALGLTFQQLQKYERGFNRVSSSRLFTLGQFFRV 103

Query: 69  PISFFFDV----SPTVCSDISSEE--NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           P+S FF+      P     +          + + + + L L RYF  I D  +R  I EL
Sbjct: 104 PVSVFFEGLENREPVAEGGVRPAAGGEEQENTLQSREALMLARYFQSIRDPHIRGAIREL 163

Query: 123 VR 124
             
Sbjct: 164 AE 165


>gi|240850955|ref|YP_002972355.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268078|gb|ACS51666.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 119

 Score =  119 bits (298), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 47/113 (41%), Positives = 72/113 (63%), Gaps = 5/113 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ VGK+IR RR +L MSQ+ LG  LG+TFQQ+QKYEKG+NRV A RL+ IS++L+ PI
Sbjct: 8   IDLFVGKKIRFRRKMLKMSQKTLGHHLGVTFQQIQKYEKGLNRVSAGRLKEISDILDVPI 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           +FF+    T        +    +  S+ +   L + F  +  VK ++ I++L+
Sbjct: 68  AFFYADIITKKHTPYHHD----EIASSKEEYLLLKSFRILTSVK-QKAILKLI 115


>gi|197104103|ref|YP_002129480.1| transcriptional regulator, XRE family [Phenylobacterium zucineum
           HLK1]
 gi|196477523|gb|ACG77051.1| transcriptional regulator, XRE family [Phenylobacterium zucineum
           HLK1]
          Length = 136

 Score =  119 bits (298), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 41/126 (32%), Positives = 73/126 (57%), Gaps = 2/126 (1%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + K P+P+DI +G  +R+RR  +GMSQE L E  G++FQQ+QKYE G NR+  SRL  I+
Sbjct: 5   STKAPDPMDIALGAAVRIRRRTIGMSQEALAEQCGVSFQQIQKYENGANRISFSRLVQIA 64

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
             L   ++   DV      + +++ + ++  + TP  L+L   + ++   + R  ++ L+
Sbjct: 65  RALRCRVTDLMDVFDGPDRETATDLD-LLTRMRTPGALELLAAYERLA-PEARSSLVSLL 122

Query: 124 RSIVSS 129
           R++   
Sbjct: 123 RTVAPE 128


>gi|197103372|ref|YP_002128750.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196480648|gb|ACG80175.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 145

 Score =  119 bits (298), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 51/133 (38%), Positives = 83/133 (62%), Gaps = 5/133 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            PNPVD++VG+R+RLRR  LG+SQ  L + LG+TFQQ+QKYE+G NR+ AS+L  I+++L
Sbjct: 4   APNPVDVHVGRRVRLRRRELGVSQAWLADRLGLTFQQIQKYERGANRISASKLYAIAKLL 63

Query: 67  ESPISFFFDVSPTVCSDIS-----SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           E PI++FF+      +        +    V + ++ P+G QL   F+ I    +R+ + E
Sbjct: 64  EVPITYFFEGLDDPATPTGRQYAQAFTGVVEELLAEPNGPQLAEAFLSIRRRSIRKGLAE 123

Query: 122 LVRSIVSSEKKYR 134
           L  +I ++++   
Sbjct: 124 LAPAIAANDQAQA 136


>gi|329891157|ref|ZP_08269500.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
 gi|328846458|gb|EGF96022.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
          Length = 123

 Score =  118 bits (297), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 40/118 (33%), Positives = 68/118 (57%), Gaps = 4/118 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R+  +R+ LG +Q  LG+ LG+TFQQVQKYEKG NR+ AS+L  I+      I +FF+
Sbjct: 2   GRRVCEKRIALGYNQTDLGQALGVTFQQVQKYEKGANRISASKLWDIARFFRVDIGYFFE 61

Query: 76  VSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
                     +E   E  V DF +T   +++ R   ++   + ++ +++L+R +V  +
Sbjct: 62  GLTGAAQPGMAEGEAEPFVHDFPATRQTIEIGRLAPRLSS-RQQKLVVDLMRELVEDD 118


>gi|220926095|ref|YP_002501397.1| XRE family transcriptional regulator [Methylobacterium nodulans ORS
           2060]
 gi|219950702|gb|ACL61094.1| transcriptional regulator, XRE family [Methylobacterium nodulans
           ORS 2060]
          Length = 121

 Score =  118 bits (297), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 45/124 (36%), Positives = 67/124 (54%), Gaps = 6/124 (4%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           KI   VD  VG RI   R   G+SQ  LG  +G+TFQQVQKYEKGVNRVGASRL+  + V
Sbjct: 3   KITTDVDRAVGARITTLRKAKGLSQTALGAAIGVTFQQVQKYEKGVNRVGASRLRESARV 62

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L+ P++  F    +   D       +   ++    + L R +  +   + R+ ++ L+ +
Sbjct: 63  LDVPVAALFGTEESQAGD-----GEIFGLLTMAGAVDLLRAYEAMSPER-RRALLTLLTA 116

Query: 126 IVSS 129
           +  S
Sbjct: 117 VEGS 120


>gi|240851124|ref|YP_002972526.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268247|gb|ACS51835.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 123

 Score =  118 bits (297), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 47/123 (38%), Positives = 73/123 (59%), Gaps = 6/123 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+ +DI +GKRIR RR+ +G+SQ+ LG  LG++FQQ+QKYEKG NRV    L  I+
Sbjct: 2   PTKNPHFIDILIGKRIRHRRISIGLSQKALGSHLGVSFQQIQKYEKGFNRVSVGCLLKIA 61

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKII 120
           + LE P++FF+        DIS++E       +  S  +   L + F ++   K ++ I+
Sbjct: 62  QKLEVPMNFFY-ADIVTKEDISTKETLSHHDQETYSEKEQ-ALLKNFRELKS-KKQKAIL 118

Query: 121 ELV 123
            L+
Sbjct: 119 WLI 121


>gi|167647751|ref|YP_001685414.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167350181|gb|ABZ72916.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 129

 Score =  118 bits (296), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 45/125 (36%), Positives = 72/125 (57%), Gaps = 6/125 (4%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+P+D+ VG RIR++R  L +SQ+ L + LG+TFQQVQKYE+G NRV AS L  I+  L+
Sbjct: 7   PDPIDVAVGTRIRVQRRHLKISQDDLAQVLGLTFQQVQKYERGTNRVSASMLVRIAAKLQ 66

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
           + +            D++     ++  +STP  + L R + Q    K R+ I+ + R++V
Sbjct: 67  TTVGSLVGEDVVAEQDVA-----MLTALSTPGAIDLLRAYGQAT-PKGRKAILNVARTLV 120

Query: 128 SSEKK 132
             +  
Sbjct: 121 EPDDS 125


>gi|163868772|ref|YP_001609996.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018443|emb|CAK02001.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 119

 Score =  117 bits (295), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 48/113 (42%), Positives = 74/113 (65%), Gaps = 5/113 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ VGK+IRL+R ILGMSQ+ LG+ LG++FQQ+QKYEKG+NRV A RL+ IS++L  P+
Sbjct: 8   IDLFVGKKIRLKRKILGMSQKTLGDALGVSFQQIQKYEKGLNRVSAGRLKEISDILNVPV 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            FF+    T  +     E    +  S+ +   L + F  +  VK ++ I++L+
Sbjct: 68  FFFYTDIITNENTSYPHE----EIASSKEEFLLLKSFRVLTSVK-QKTILKLI 115


>gi|13475238|ref|NP_106802.1| hypothetical protein mlr6265 [Mesorhizobium loti MAFF303099]
 gi|14025989|dbj|BAB52588.1| mlr6265 [Mesorhizobium loti MAFF303099]
          Length = 215

 Score =  117 bits (295), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 37/119 (31%), Positives = 67/119 (56%), Gaps = 4/119 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           +K  P+P D +VG++I   R+   +SQ +L   +G++FQQ+QKYE   NRV AS L  I+
Sbjct: 24  SKSRPHPADQHVGRQIATVRLQSDVSQAQLARAIGVSFQQLQKYENARNRVSASMLYEIA 83

Query: 64  EVLESPISFFFDVSPTVCSDISSEE---NNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
             L+ P+S FF+          +     +  ++FI++ +G +L    +++   +VR ++
Sbjct: 84  RSLDVPVSRFFEGLLGNEISGETSPLPIDERIEFIASAEGRRLIEGLMRLH-PRVRSRV 141


>gi|240851107|ref|YP_002972509.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268230|gb|ACS51818.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 156

 Score =  117 bits (295), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 44/122 (36%), Positives = 77/122 (63%), Gaps = 4/122 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+ +DI +GKRIR RR+ +G+SQ++LG  L ++FQQ+QKYEK +NRV A  L  I+
Sbjct: 35  PTKNPHFIDILIGKRIRHRRISIGLSQKELGSHLSVSFQQIQKYEKDLNRVSAKCLLEIA 94

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNV-MDFISTPD-GLQLNRYFIQIDDVKVRQKIIE 121
           + L+ P++FF+     +  D+S++E  + +D  +  +    L + F ++   K ++ I+ 
Sbjct: 95  QKLDVPVNFFY-ADLAIKEDLSTKETLLHLDQCTYSEKEHTLLKNFRELK-AKKQKAILW 152

Query: 122 LV 123
           L+
Sbjct: 153 LI 154


>gi|163869008|ref|YP_001610238.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018685|emb|CAK02243.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 126

 Score =  117 bits (295), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 52/123 (42%), Positives = 82/123 (66%), Gaps = 11/123 (8%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+  DI +GKRIRLRR +L +SQ++LG+ LG+TFQQ+QKYEKG+NRVGA RLQ I+
Sbjct: 9   PTKNPHSNDILIGKRIRLRREMLKISQKQLGDRLGVTFQQIQKYEKGLNRVGAGRLQEIA 68

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKII 120
           ++L+  I FF+       +DIS++E+ ++   +  S  +   L + F ++   K ++ I+
Sbjct: 69  DILDISIFFFY-------ADISTKEHVLLPYEEMTSNQEEHTLLKSFRELK-PKQQKAIL 120

Query: 121 ELV 123
            L+
Sbjct: 121 CLI 123


>gi|83949849|ref|ZP_00958582.1| DNA-binding protein, putative [Roseovarius nubinhibens ISM]
 gi|83837748|gb|EAP77044.1| DNA-binding protein, putative [Roseovarius nubinhibens ISM]
          Length = 99

 Score =  117 bits (294), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 37/101 (36%), Positives = 56/101 (55%), Gaps = 4/101 (3%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q++L E +GI FQQ+QKYE G NRV ASRL  I+  ++  +SFFFD      +   S 
Sbjct: 1   MTQQQLAESVGIKFQQIQKYETGANRVSASRLWDIAGAMDVDVSFFFDGLERADAAAPSA 60

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
                D +   + L L R +  I + + R+++ EL R +  
Sbjct: 61  AG---DLLGDKEALDLVRSYYSIPENQ-RRRLFELARVLSD 97


>gi|240851129|ref|YP_002972531.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268252|gb|ACS51840.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 121

 Score =  117 bits (293), Expect = 6e-25,   Method: Composition-based stats.
 Identities = 45/120 (37%), Positives = 71/120 (59%), Gaps = 2/120 (1%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K PN +DI +GKRIR RR+ + +SQ+ LG  LG++FQQ+QKYEKG NRV    L  I+
Sbjct: 2   QTKNPNFIDILIGKRIRQRRIAMELSQKALGSHLGVSFQQIQKYEKGFNRVSVGCLLKIA 61

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           + LE P+SFF+    T  +  ++  +   +  S  +   L + F ++   K ++ I+ L+
Sbjct: 62  QKLEVPMSFFYADLATKENLSTNASHCEQETYSEKEQ-ALLKNFRELK-TKKQKAILWLI 119


>gi|222825161|dbj|BAH22318.1| transcriptional regulator [Wolbachia endosymbiont of Cadra
           cautella]
          Length = 133

 Score =  117 bits (293), Expect = 6e-25,   Method: Composition-based stats.
 Identities = 37/121 (30%), Positives = 67/121 (55%), Gaps = 5/121 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           I +P+D  +G+RIR RR++ G SQ  LG+ LGI+FQ +Q YE G  R+   RL  ++E L
Sbjct: 3   IQHPIDKQIGERIRKRRLMCGFSQRDLGKKLGISFQHIQGYETGEVRLIVDRLYKLAEAL 62

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              +S+FF  +     D +   +     + + +  +L R + +I D  +R  +  +++++
Sbjct: 63  SVDMSYFFTKASEDLHDKAFRSD-----VGSEEISRLVREYRKIKDEALRDIVHLVIKAL 117

Query: 127 V 127
            
Sbjct: 118 A 118


>gi|163869150|ref|YP_001610390.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018837|emb|CAK02395.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 157

 Score =  117 bits (293), Expect = 7e-25,   Method: Composition-based stats.
 Identities = 49/113 (43%), Positives = 69/113 (61%), Gaps = 5/113 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ VGK+IRLRR +L MSQ  LG  LG++FQQ+QKYEKG+NRV A RL  IS++L  PI
Sbjct: 44  IDLLVGKKIRLRRQMLKMSQTTLGHALGVSFQQIQKYEKGLNRVSAGRLMQISDILNVPI 103

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           SFF+    T        +    + IS+ +   L + F  +  +K R  I+ L+
Sbjct: 104 SFFYADIITKQQPPHHHD----EVISSTEEYLLLKRFRTLTSIKQR-AILHLI 151


>gi|163869143|ref|YP_001610382.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018829|emb|CAK02387.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 121

 Score =  116 bits (291), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 54/113 (47%), Positives = 72/113 (63%), Gaps = 5/113 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ VGK+IRLRR  L MSQ  LG  LGI+FQQVQKYEKG+NRV A RL  IS++L  PI
Sbjct: 8   IDLFVGKKIRLRRKRLKMSQTTLGNALGISFQQVQKYEKGLNRVSAGRLMEISDILNVPI 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           SFF+    T    +SS +    + IS  +  QL + F  +  +K R  I++L+
Sbjct: 68  SFFYADIITKQHALSSHD----EVISNTEEYQLLKKFRVLTTIKKR-AILQLL 115


>gi|302381689|ref|YP_003817512.1| hypothetical protein Bresu_0574 [Brevundimonas subvibrioides ATCC
           15264]
 gi|302192317|gb|ADK99888.1| helix-turn-helix domain protein [Brevundimonas subvibrioides ATCC
           15264]
          Length = 128

 Score =  116 bits (291), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 43/123 (34%), Positives = 78/123 (63%), Gaps = 1/123 (0%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D+++G+R+R RR +LG++Q++L   +GI FQQ+QKYE G NR+ A+RL  +SE L
Sbjct: 1   MATDIDLHLGRRLRRRRRLLGLTQQQLAIQVGIRFQQIQKYECGANRISAARLWQLSEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           E+PIS+F+D          +   N  +  S  + L L + + Q+ + + R+++++L +S+
Sbjct: 61  ETPISYFYDGLAEAMERRETASANGGEMFSRKETLDLIQAYYQLGE-RPRRRLLDLAKSL 119

Query: 127 VSS 129
            S 
Sbjct: 120 HSE 122


>gi|240851111|ref|YP_002972513.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268234|gb|ACS51822.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 123

 Score =  116 bits (291), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 46/123 (37%), Positives = 71/123 (57%), Gaps = 6/123 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+ +DI +GKRIR RR+ + +SQ+ LG  LG++FQQ+QKYEKG NRV    L  I+
Sbjct: 2   PTKNPHFIDILIGKRIRHRRISIELSQKALGSHLGVSFQQIQKYEKGFNRVSVGCLLKIA 61

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKII 120
           + LE P++FF+        DIS++E       +  S  +   L + F  +   K ++ I+
Sbjct: 62  QKLEVPMNFFY-ADIVTKEDISTKETLSHHDQETYSEKE-HALLKNFRDL-QPKKQKAIL 118

Query: 121 ELV 123
            L+
Sbjct: 119 WLI 121


>gi|163869148|ref|YP_001610388.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018835|emb|CAK02393.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 121

 Score =  116 bits (291), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 49/113 (43%), Positives = 69/113 (61%), Gaps = 5/113 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ VGK+IRLRR +L MSQ  LG  LG++FQQ+QKYEKG+NRV A RL  IS++L  PI
Sbjct: 8   IDLLVGKKIRLRRQMLKMSQTTLGHALGVSFQQIQKYEKGLNRVSAGRLMQISDILNVPI 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           SFF+    T        +    + IS+ +   L + F  +  +K R  I+ L+
Sbjct: 68  SFFYADIITKQQPPHHHD----EVISSTEEYLLLKRFRTLTSIKQR-AILHLI 115


>gi|315498606|ref|YP_004087410.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
 gi|315416618|gb|ADU13259.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
          Length = 127

 Score =  116 bits (290), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 29/98 (29%), Positives = 66/98 (67%), Gaps = 1/98 (1%)

Query: 29  SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEE 88
           +Q++L   +GI FQQ+QKYE G NR+ A+RL  +++ LE+P+++F+D      +++++ +
Sbjct: 23  TQQQLALAVGIRFQQIQKYECGANRISAARLFQLAKALETPVTYFYDGLEDNTTEVAAVQ 82

Query: 89  NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           N  ++  S  + L L + + ++ + + R+++++L +S+
Sbjct: 83  NEGIEVFSRKETLDLIQAYYRLSE-RPRRRLLDLAKSL 119


>gi|240851105|ref|YP_002972507.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268228|gb|ACS51816.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 123

 Score =  115 bits (289), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 44/122 (36%), Positives = 77/122 (63%), Gaps = 4/122 (3%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K P+ +DI +GKRIR RR+ +G+SQ++LG  L ++FQQ+QKYEK +NRV A  L  I+
Sbjct: 2   PTKNPHFIDILIGKRIRHRRIAMGVSQKELGCHLSVSFQQIQKYEKDLNRVSAKCLLEIA 61

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNV-MDFISTPD-GLQLNRYFIQIDDVKVRQKIIE 121
           + L+ P++FF+     +  D+S++E  + +D  +  +    L + F ++   K ++ I+ 
Sbjct: 62  QKLDVPVNFFY-ADLAIKEDLSTKETLLHLDQCTYSEKEHTLLKNFRELKS-KKQKAILW 119

Query: 122 LV 123
           L+
Sbjct: 120 LI 121


>gi|317016318|gb|ADU85831.1| transcriptional regulator [Bartonella sp. TT0105]
          Length = 118

 Score =  115 bits (289), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 50/120 (41%), Positives = 75/120 (62%), Gaps = 5/120 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             K  +  D++VGK+IRLRR +L MSQ++LGE LG+TFQQ+QKYEK  NR+GA RLQ I+
Sbjct: 2   QSKNQHVNDLSVGKKIRLRREMLKMSQKQLGELLGVTFQQIQKYEKATNRIGAGRLQEIA 61

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           ++    ISFF+    T  S      +   + IS+ +   L + F Q+ + K ++ I+ L+
Sbjct: 62  DIFNVDISFFY----TDISKEKKFPHPYDEGISSKEEYFLLKGFRQL-NPKKQKAILWLI 116


>gi|329849657|ref|ZP_08264503.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328841568|gb|EGF91138.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 127

 Score =  115 bits (288), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 30/104 (28%), Positives = 67/104 (64%), Gaps = 1/104 (0%)

Query: 29  SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEE 88
           +Q++L   +GI FQQ+QKYE G NR+ A+RL  +++ LE+PI++F+D      +++++  
Sbjct: 23  TQQQLALAVGIRFQQIQKYECGANRISAARLFQLAKALETPINYFYDGLSDEKTEVAAVN 82

Query: 89  NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
           N  ++  S  + L L + + ++ + + R+++++L +S+    ++
Sbjct: 83  NEGIEVFSRKETLDLIQAYYRLSE-RPRRRLLDLAKSLNGESEQ 125


>gi|83955346|ref|ZP_00964001.1| DNA-binding protein, putative [Sulfitobacter sp. NAS-14.1]
 gi|83840339|gb|EAP79513.1| DNA-binding protein, putative [Sulfitobacter sp. NAS-14.1]
          Length = 103

 Score =  114 bits (287), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 35/102 (34%), Positives = 54/102 (52%), Gaps = 2/102 (1%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q++L E +GI FQQ+QKYE G NRV ASRL  I+  L   +S FF+            
Sbjct: 1   MTQQRLAELVGIKFQQIQKYETGANRVSASRLWDIAFALNVDVSHFFEGLEAEKPQPEKA 60

Query: 88  ENNV-MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            +N+  D     + + L R +  I + + R+++ EL R +  
Sbjct: 61  LDNIPADLSGDKEAMDLIRSYYAIPENQ-RRRLFELARVLSD 101


>gi|254419275|ref|ZP_05032999.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
 gi|196185452|gb|EDX80428.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
          Length = 118

 Score =  114 bits (287), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 46/120 (38%), Positives = 68/120 (56%), Gaps = 4/120 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  VG RI  RR  LG+SQ  LG  +G++ QQVQKYE G NR+ ASRL +++  L  P+
Sbjct: 1   MDAVVGARIASRRTALGLSQTALGALIGVSCQQVQKYEGGQNRISASRLHNLALALGLPV 60

Query: 71  SFFFDVSPTVCSDISSEENNVMDFI-STPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
             FF   P    +    E ++M  + +TP+G  +   F +I+D  VRQ +  LV  +  +
Sbjct: 61  GAFF---PEPADEAEIPELSMMRTMAATPEGRAMAAGFSRIEDRAVRQALTRLVEVLSRA 117


>gi|222101983|ref|YP_002546573.1| hypothetical protein Arad_12024 [Agrobacterium radiobacter K84]
 gi|221728100|gb|ACM31109.1| conserved hypothetical protein [Agrobacterium radiobacter K84]
          Length = 150

 Score =  114 bits (286), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 42/108 (38%), Positives = 61/108 (56%), Gaps = 4/108 (3%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
                  +PVD  VG++IR++R+   +SQ +LG+ +GI++QQVQKYE G NRV AS L  
Sbjct: 20  AETLSRIHPVDFYVGQQIRIQRVRANLSQTELGKGVGISYQQVQKYEVGTNRVSASMLWE 79

Query: 62  ISEVLESPISFFFDVSPTVC----SDISSEENNVMDFISTPDGLQLNR 105
           I   L    + FFD  P       + IS + N  + FI+T +G +L  
Sbjct: 80  IGNFLNVLPAMFFDGLPESGAGDLTQISPQANESLAFIATTEGRELVE 127


>gi|302383125|ref|YP_003818948.1| hypothetical protein Bresu_2014 [Brevundimonas subvibrioides ATCC
           15264]
 gi|302193753|gb|ADL01325.1| helix-turn-helix domain protein [Brevundimonas subvibrioides ATCC
           15264]
          Length = 130

 Score =  114 bits (286), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 38/122 (31%), Positives = 71/122 (58%), Gaps = 5/122 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D++VG+++   R ++G+SQ  +G  +G+TFQQVQKYE+G NR+ AS L  ++E L  P+
Sbjct: 13  LDVHVGRQLIAARTLMGLSQSDVGRLVGVTFQQVQKYERGTNRISASVLWTLAEKLNLPV 72

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           ++FF+             + V   +    G+++   F ++   K ++ +++L RS  SS+
Sbjct: 73  TYFFEGLDEGTVRT---PDFVFASLG-KVGVEMADAFAKL-SPKRQRLLLDLARSFASSD 127

Query: 131 KK 132
             
Sbjct: 128 DS 129


>gi|163869007|ref|YP_001610237.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018684|emb|CAK02242.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 135

 Score =  114 bits (286), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 50/121 (41%), Positives = 81/121 (66%), Gaps = 11/121 (9%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K P+  DI +GKRIRLRR +L +SQ++LG+ L +TFQQ+QKYEKG+NRVGA RLQ I+++
Sbjct: 4   KNPHSNDILIGKRIRLRREMLKISQKQLGDRLSVTFQQIQKYEKGLNRVGAGRLQEIADI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           L+  I FF+       +DIS++E+ ++   +   + +   L + F ++   K ++ I+ L
Sbjct: 64  LDISIFFFY-------ADISTKEHVLLPYEEMTLSQEEHTLLKSFRELK-PKQQKAILCL 115

Query: 123 V 123
           +
Sbjct: 116 I 116


>gi|240851038|ref|YP_002972438.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268161|gb|ACS51749.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 126

 Score =  114 bits (286), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 48/118 (40%), Positives = 74/118 (62%), Gaps = 5/118 (4%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K  +  DI++GK+IR RR ++G SQ++LG  LG+TFQQ+QKYEKG+NRV A RLQ I+ +
Sbjct: 4   KNLHFYDISLGKKIRFRRNLMGFSQKQLGSHLGVTFQQIQKYEKGLNRVSARRLQEIAHI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           L+ P+SFF+  +      +   ++ V    S  + L L + F  +   K R  I++L+
Sbjct: 64  LDVPVSFFYADNTKKEDPLYHCDDRVE---SKAEYL-LLKSFRMMTRKKQR-AILQLI 116


>gi|254487347|ref|ZP_05100552.1| transcriptional Regulator, XRE family [Roseobacter sp. GAI101]
 gi|214044216|gb|EEB84854.1| transcriptional Regulator, XRE family [Roseobacter sp. GAI101]
          Length = 121

 Score =  113 bits (284), Expect = 6e-24,   Method: Composition-based stats.
 Identities = 36/122 (29%), Positives = 66/122 (54%), Gaps = 10/122 (8%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVDI+VGK+++  R +  +SQ  + + L ++FQQ+QKYE G NRV ASRL  ++++L
Sbjct: 3   MSHPVDIHVGKKLKQIRTLRRLSQTDVAKQLKLSFQQIQKYEIGSNRVAASRLFELAQIL 62

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +   SFFF+      +D    + +          +++      I D  ++ +I+  +  I
Sbjct: 63  DVSPSFFFEGLHDNTNDAPKSDPS----------IEIVSALASIKDDAIKSRIVTFIEDI 112

Query: 127 VS 128
             
Sbjct: 113 SG 114


>gi|163869151|ref|YP_001610391.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018838|emb|CAK02396.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 121

 Score =  113 bits (284), Expect = 7e-24,   Method: Composition-based stats.
 Identities = 48/113 (42%), Positives = 68/113 (60%), Gaps = 5/113 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ VGK+IRLRR +L MSQ  LG  LG++FQQ+QKYEKG+NRV A RL  IS++L   I
Sbjct: 8   IDLFVGKKIRLRRQMLKMSQTTLGHALGVSFQQIQKYEKGLNRVSAGRLMQISDILNVSI 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           SFF+    T        +    + IS  +   L + F  +  +K R  I++L+
Sbjct: 68  SFFYADIITKQQPPHHHD----EVISNTEEYLLLKRFRTLTSIKQR-AILQLI 115


>gi|83855020|ref|ZP_00948550.1| DNA-binding protein, putative [Sulfitobacter sp. NAS-14.1]
 gi|83842863|gb|EAP82030.1| DNA-binding protein, putative [Sulfitobacter sp. NAS-14.1]
          Length = 119

 Score =  113 bits (284), Expect = 7e-24,   Method: Composition-based stats.
 Identities = 34/118 (28%), Positives = 66/118 (55%), Gaps = 10/118 (8%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVDI+VGK+++  R +  +SQ  + + L ++FQQ+QKYE G NRV ASRL  +S++L
Sbjct: 1   MSHPVDIHVGKKLKQIRTLRRLSQTDVAKRLNLSFQQIQKYEIGSNRVAASRLFELSQIL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +   ++FF+      +D    + +          +++      I+D  ++ +I+  + 
Sbjct: 61  DVTPAYFFEGLHDNTNDAPKADPS----------IEIVNALAAINDDALKTRIVTFIE 108


>gi|58699289|ref|ZP_00374080.1| transcriptional regulator [Wolbachia endosymbiont of Drosophila
           ananassae]
 gi|58534197|gb|EAL58405.1| transcriptional regulator [Wolbachia endosymbiont of Drosophila
           ananassae]
          Length = 124

 Score =  113 bits (283), Expect = 9e-24,   Method: Composition-based stats.
 Identities = 38/121 (31%), Positives = 68/121 (56%), Gaps = 5/121 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           I +P+D  +G+RIR RR++ G SQ  LG+ L I+FQ VQ YE G  R+   RL  ++EVL
Sbjct: 3   IQHPIDKQIGERIRKRRLMCGFSQRDLGKKLEISFQHVQGYESGEIRLVVDRLYKLAEVL 62

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              +S+FF  +     D +   +     + + +  +L R + +I+D  +R  +  +++++
Sbjct: 63  SVDMSYFFTKASEDLHDKAFHSD-----VGSEEISRLVREYRKIEDETLRDIVHLVIKAL 117

Query: 127 V 127
            
Sbjct: 118 A 118


>gi|83941543|ref|ZP_00954005.1| DNA-binding protein, putative [Sulfitobacter sp. EE-36]
 gi|83847363|gb|EAP85238.1| DNA-binding protein, putative [Sulfitobacter sp. EE-36]
          Length = 119

 Score =  112 bits (282), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 34/118 (28%), Positives = 66/118 (55%), Gaps = 10/118 (8%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVDI+VGK+++  R +  +SQ  + + L ++FQQ+QKYE G NRV ASRL  +S++L
Sbjct: 1   MSHPVDIHVGKKLKQIRTLRRLSQTDVAKRLNLSFQQIQKYEIGSNRVAASRLFELSQIL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +   ++FF+      +D    + +          +++      I+D  ++ +I+  + 
Sbjct: 61  DVTPAYFFEGLHDNTNDAPKADPS----------IEIVSALAAINDDALKTRIVTFIE 108


>gi|86360041|ref|YP_471931.1| Cro/CI family transcriptional regulator [Rhizobium etli CFN 42]
 gi|86284143|gb|ABC93204.1| probable transcriptional regulator protein, Cro/CI family
           [Rhizobium etli CFN 42]
          Length = 114

 Score =  112 bits (282), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 44/98 (44%), Positives = 65/98 (66%), Gaps = 5/98 (5%)

Query: 39  ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPT-----VCSDISSEENNVMD 93
           +TFQQVQKYEKG+NR+GASRLQ I+EVL +  SFFF+ + +         +    + V +
Sbjct: 1   MTFQQVQKYEKGINRIGASRLQRIAEVLHTSPSFFFEQNESQPLSLQGLALPDGADPVAE 60

Query: 94  FISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           F+ T +GL LNR F++I D  +R+ II LV+++  +E 
Sbjct: 61  FLRTKEGLVLNRAFLKIADPDIRETIIALVKAMAQAES 98


>gi|163744744|ref|ZP_02152104.1| HTH-type transcriptional regulator, putative [Oceanibulbus
           indolifex HEL-45]
 gi|161381562|gb|EDQ05971.1| HTH-type transcriptional regulator, putative [Oceanibulbus
           indolifex HEL-45]
          Length = 127

 Score =  112 bits (282), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 33/122 (27%), Positives = 60/122 (49%), Gaps = 11/122 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVDI+VG+R++  R +   SQ  +   L ++FQQ+QKYE G NR+ ASRL  ++ +L
Sbjct: 10  MSHPVDIHVGRRLKQARTLRKQSQTDVARELKLSFQQIQKYEIGSNRIAASRLHELARIL 69

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +    +FF+       +  ++             L +      I D  +R +I+  +  +
Sbjct: 70  DVTPGYFFEGLNDDAPETKNDP-----------ALDIVNAIGSIKDDAIRARILTFIEDV 118

Query: 127 VS 128
             
Sbjct: 119 AG 120


>gi|209964814|ref|YP_002297729.1| DNA-binding protein, putative [Rhodospirillum centenum SW]
 gi|209958280|gb|ACI98916.1| DNA-binding protein, putative [Rhodospirillum centenum SW]
          Length = 232

 Score =  112 bits (281), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 45/121 (37%), Positives = 65/121 (53%), Gaps = 5/121 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++ +V  RIRLRR +LGMSQ  L   LGITFQQVQKYE+G NRV   +L  ++E+L+ P+
Sbjct: 17  IESHVASRIRLRRGLLGMSQSDLARTLGITFQQVQKYERGSNRVSVGKLYRLAEILDVPL 76

Query: 71  SFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +FFFD             ++        I +   L L R +      +V   +  L+R+I
Sbjct: 77  TFFFDGLDLPDLKKPPQTTTGFAEQQSPILSRRELDLLRAWKN-SPPEVSDAVASLLRAI 135

Query: 127 V 127
            
Sbjct: 136 A 136


>gi|254419648|ref|ZP_05033372.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
 gi|196185825|gb|EDX80801.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
          Length = 139

 Score =  112 bits (280), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 40/122 (32%), Positives = 68/122 (55%), Gaps = 10/122 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           NPVD++VG+R+  RR  L  SQ +L +  G+TFQQ+QKYE+G NR+ ASRL  I+E L  
Sbjct: 15  NPVDLHVGRRVAERRQALRYSQAQLAQAAGVTFQQIQKYERGSNRIAASRLWEIAEFLNV 74

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK--IIELVRSI 126
            +++FF+        +       M    T    ++ R   +  ++ VR +  +++L++ +
Sbjct: 75  DLNYFFEGL-----GLPDGPEARMGGAPTKQTAEIAR---RAPELSVRNQKLVLDLIQQL 126

Query: 127 VS 128
             
Sbjct: 127 AR 128


>gi|240851231|ref|YP_002972634.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268354|gb|ACS51942.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 121

 Score =  112 bits (280), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 45/114 (39%), Positives = 70/114 (61%), Gaps = 5/114 (4%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +D+ +GK+IRL+R +L MSQ  LG+ LG+TFQQ+QKYEKG+NRV A RL  IS++L  P
Sbjct: 7   DIDLFIGKKIRLKRKMLKMSQTTLGQHLGVTFQQIQKYEKGLNRVSAGRLMEISDILNVP 66

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           I+FF+    T        +    +  S+ +   L + F  +  VK ++  ++L+
Sbjct: 67  ITFFYADIITKQQPPYHHD----EIASSTEEYLLLKRFRTLTTVK-KKAFLQLI 115


>gi|222149186|ref|YP_002550143.1| transcriptional regulator HTH family [Agrobacterium vitis S4]
 gi|221736171|gb|ACM37134.1| transcriptional regulator HTH family [Agrobacterium vitis S4]
          Length = 134

 Score =  112 bits (280), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 45/121 (37%), Positives = 64/121 (52%), Gaps = 4/121 (3%)

Query: 1   MVGNKKIPNPVDINV--GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
           M   KK P+  D N+  G+R++  R   GMSQ  +   LG+TFQQ+ KYEKG+N + ASR
Sbjct: 1   MTLLKKTPDVHDYNILAGERLKSARKNKGMSQADVARKLGVTFQQLHKYEKGINGMSASR 60

Query: 59  LQHISEVLESPISFFFDVSPTVCS--DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           L   + +L     FF+     V    D SSE  +++   S  D L+LN  F  I +   R
Sbjct: 61  LAAAATLLGMDPDFFYTADSAVAPSKDTSSELTDLVKATSRSDALELNTCFASIKNSNTR 120

Query: 117 Q 117
           +
Sbjct: 121 K 121


>gi|254420597|ref|ZP_05034321.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
 gi|196186774|gb|EDX81750.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
          Length = 133

 Score =  112 bits (280), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 39/123 (31%), Positives = 76/123 (61%), Gaps = 4/123 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D+++G+R+R RR +LG++Q++L   +GI FQQ+QKYE G NR+ A+RL  ++E L
Sbjct: 4   MATDIDLHLGRRLRRRRRLLGLTQQQLAVQVGIRFQQIQKYECGANRISAARLWQLAEAL 63

Query: 67  ESPISFFFDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           E+P+S+F+D          +         +  S  + L L + + Q+ + + R+++++L 
Sbjct: 64  ETPVSYFYDGVTEALERKDAAPGTSAGGGEMFSRKETLDLIQAYYQLGE-RPRRRLLDLA 122

Query: 124 RSI 126
           +S+
Sbjct: 123 KSL 125


>gi|218670926|ref|ZP_03520597.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli GR56]
          Length = 98

 Score =  111 bits (279), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 40/101 (39%), Positives = 64/101 (63%), Gaps = 5/101 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D++VGK IR++R++  +SQ +LG+ +G+TFQQ+QKYEKG NRV AS L  I+  L+  +
Sbjct: 1   MDVHVGKTIRIQRLLRKVSQTELGDRVGVTFQQIQKYEKGSNRVSASMLVEIAGALKVDV 60

Query: 71  SFFFDV--SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
             FFD   +P   +D  +      +F+ + +G+ LN  F  
Sbjct: 61  RTFFDDLSTPDTANDNPAPSE---EFVISREGVLLNAAFFS 98


>gi|240851232|ref|YP_002972635.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268355|gb|ACS51943.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 116

 Score =  111 bits (279), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 43/104 (41%), Positives = 64/104 (61%), Gaps = 4/104 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ +GK+IRL+R +L MSQ+ LG+ LG+TFQQ+QKYEKG+NRV A RL  IS++L  P+
Sbjct: 8   IDLFIGKKIRLKRKMLKMSQKTLGQHLGVTFQQIQKYEKGLNRVSAGRLMEISDILNVPL 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           SFF+    T        +    +  S+ +   L + F  +  V 
Sbjct: 68  SFFYADIITKKQPPYHHD----EIASSTEEYLLLKRFRTLTTVN 107


>gi|118785|sp|P15017|DNU4_RHORU RecName: Full=Uncharacterized transcriptional regulator in ATPase
          CF(0) region; AltName: Full=URF4
 gi|46375|emb|CAA31250.1| ORF 4 (AA 1 - 108); homolog. to DNA-binding proteins
          [Rhodospirillum rubrum]
 gi|152603|gb|AAA26459.1| pot. DNA-binding protein (URF4); putative [Rhodospirillum rubrum]
          Length = 108

 Score =  111 bits (279), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 33/75 (44%), Positives = 49/75 (65%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          + +  + VD +VG+R+R RR  L + QE L   +G++FQQ+QKYE+G NR+ ASRL  I+
Sbjct: 5  DTRTIHHVDAHVGQRVRQRRTALILDQETLARRIGVSFQQIQKYERGRNRISASRLYDIA 64

Query: 64 EVLESPISFFFDVSP 78
          + L  PI +FF    
Sbjct: 65 KALAVPIDYFFSDLE 79


>gi|255263044|ref|ZP_05342386.1| transcriptional regulator, XRE family [Thalassiobium sp. R2A62]
 gi|255105379|gb|EET48053.1| transcriptional regulator, XRE family [Thalassiobium sp. R2A62]
          Length = 118

 Score =  111 bits (278), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 39/124 (31%), Positives = 65/124 (52%), Gaps = 8/124 (6%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD++VGKRI+  R++ G SQ ++   L I+FQQ+QKYE G NR+ ASRL  +S++ 
Sbjct: 1   MVHPVDVHVGKRIKEARILRGQSQSEIARELDISFQQIQKYESGKNRISASRLFELSQLF 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
               SFFFD       +               +  ++    ++I + + R  +I L + +
Sbjct: 61  GISPSFFFDGLEEGADERKQP--------MDAETARIALAILKIPNKRTRSLLISLAQEV 112

Query: 127 VSSE 130
              E
Sbjct: 113 SREE 116


>gi|67459118|ref|YP_246742.1| transcriptional regulator [Rickettsia felis URRWXCal2]
 gi|67004651|gb|AAY61577.1| Predicted transcriptional regulator [Rickettsia felis URRWXCal2]
          Length = 130

 Score =  111 bits (277), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 41/134 (30%), Positives = 71/134 (52%), Gaps = 12/134 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M     I   +D  +GK+I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL 
Sbjct: 1   MGRKNDIIQKIDSFIGKKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQ 117
            I+E L+  I +FF+           EE N    + T      ++++R F++I+  + +Q
Sbjct: 61  LIAEALDRNIDYFFEGL---------EEANKPQPVHTQHQRMCIEVSRNFMKINSTEEQQ 111

Query: 118 KIIELVRSIVSSEK 131
            +  LV+ +   EK
Sbjct: 112 AVNNLVKCLAGKEK 125


>gi|15604357|ref|NP_220873.1| hypothetical protein RP497 [Rickettsia prowazekii str. Madrid E]
 gi|51473681|ref|YP_067438.1| hypothetical protein RT0484 [Rickettsia typhi str. Wilmington]
 gi|7388420|sp|Q9ZD50|Y497_RICPR RecName: Full=Uncharacterized HTH-type transcriptional regulator
           RP497
 gi|3861049|emb|CAA14949.1| unknown [Rickettsia prowazekii]
 gi|51459993|gb|AAU03956.1| conserved hypothetical protein [Rickettsia typhi str. Wilmington]
 gi|292572112|gb|ADE30027.1| Putative transcriptional regulator [Rickettsia prowazekii Rp22]
          Length = 130

 Score =  111 bits (277), Expect = 5e-23,   Method: Composition-based stats.
 Identities = 41/134 (30%), Positives = 71/134 (52%), Gaps = 12/134 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M     I   +D  +G++I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL 
Sbjct: 1   MGRKNDIIQKIDSFIGQKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQ 117
            I+E L+  I +FF+           EE N    + T      ++++R F++I+  + +Q
Sbjct: 61  LIAEALDRNIDYFFEGL---------EEANKPQPVHTQHQRMCIEVSRNFMKINSTEEQQ 111

Query: 118 KIIELVRSIVSSEK 131
            I  LV+ +   EK
Sbjct: 112 AINNLVKCLAGKEK 125


>gi|240851233|ref|YP_002972636.1| transcriptional regulator [Bartonella grahamii as4aup]
 gi|240268356|gb|ACS51944.1| transcriptional regulator [Bartonella grahamii as4aup]
          Length = 121

 Score =  110 bits (276), Expect = 5e-23,   Method: Composition-based stats.
 Identities = 45/113 (39%), Positives = 70/113 (61%), Gaps = 5/113 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ +GK+IRL+R +L MSQ  LG+ LG+TFQQ+QKYEKG+NRV A RL  IS++L  P+
Sbjct: 8   IDLFIGKKIRLKRKMLKMSQTTLGQHLGVTFQQIQKYEKGLNRVSAGRLMEISDILNVPL 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           SFF+    T        +    +  S+ +   L + F  +  VK ++  ++L+
Sbjct: 68  SFFYADIITKKQPPYHHD----EIASSTEEYLLLKRFRTLTMVK-KKAFLQLI 115


>gi|157964557|ref|YP_001499381.1| putative transcriptional regulator [Rickettsia massiliae MTU5]
 gi|157844333|gb|ABV84834.1| Putative transcriptional regulator [Rickettsia massiliae MTU5]
          Length = 131

 Score =  110 bits (276), Expect = 6e-23,   Method: Composition-based stats.
 Identities = 43/135 (31%), Positives = 74/135 (54%), Gaps = 13/135 (9%)

Query: 1   MVGNKK-IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M+G K  I   +D  +GK+I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL
Sbjct: 1   MMGRKNDIIQKIDSFIGKKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRL 60

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVR 116
             I+E L+  I +FF+           EE N    + T      ++++R F++I+  + +
Sbjct: 61  VLIAEALDRNIDYFFEGL---------EEANKPRPVHTQHQRMCIEVSRNFMKINSTEEQ 111

Query: 117 QKIIELVRSIVSSEK 131
           Q +  LV+ +   EK
Sbjct: 112 QAVNNLVKCLAGKEK 126


>gi|254418112|ref|ZP_05031836.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
 gi|196184289|gb|EDX79265.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
          Length = 124

 Score =  110 bits (276), Expect = 6e-23,   Method: Composition-based stats.
 Identities = 44/124 (35%), Positives = 67/124 (54%), Gaps = 6/124 (4%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           +K  +P+DI VG RIR  R   G+SQ  LG+ +GITFQQVQKYE G NRV AS+L  I+ 
Sbjct: 2   EKQVHPIDIQVGARIRTFREAAGISQHHLGKDIGITFQQVQKYETGANRVSASKLYLIAR 61

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            L   I+        +      E   V++ ++     +L   + QID  + R  +I++ +
Sbjct: 62  RLGVSIA------EIIGEVEDGERATVVESLTVARTHELLAAWNQIDTPEKRALLIDVAQ 115

Query: 125 SIVS 128
           +  +
Sbjct: 116 TFAA 119


>gi|157803756|ref|YP_001492305.1| transcriptional regulator [Rickettsia canadensis str. McKiel]
 gi|157785019|gb|ABV73520.1| Predicted transcriptional regulator [Rickettsia canadensis str.
           McKiel]
          Length = 130

 Score =  110 bits (276), Expect = 6e-23,   Method: Composition-based stats.
 Identities = 42/134 (31%), Positives = 71/134 (52%), Gaps = 12/134 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M     I   +D  +GK+I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL 
Sbjct: 1   MGRKNDIIQKIDSFIGKKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQ 117
            I+E L+  I +FF+           EE N    + T      ++++R F++I+  + +Q
Sbjct: 61  LIAEALDRNIDYFFEGL---------EEANKPQPVHTQHQRMCIEVSRNFMKINSTEEQQ 111

Query: 118 KIIELVRSIVSSEK 131
            I  LV+ +   EK
Sbjct: 112 AINNLVKCLAGKEK 125


>gi|254462264|ref|ZP_05075680.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
           HTCC2083]
 gi|206678853|gb|EDZ43340.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
           HTCC2083]
          Length = 133

 Score =  110 bits (275), Expect = 8e-23,   Method: Composition-based stats.
 Identities = 43/128 (33%), Positives = 68/128 (53%), Gaps = 13/128 (10%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ +G RI+ RR+ L +SQ KL E +G+ FQQVQKYE G NRV ASRL  ++E L  PI
Sbjct: 4   IDVLIGARIKGRRIALKISQTKLAEAVGVRFQQVQKYESGANRVSASRLLMVAETLGVPI 63

Query: 71  SFFFDVSPTVCSDISSE------ENNVMDFIST---PDGLQLNRYFIQIDDVKVRQKIIE 121
           S+FF       S  S++          M+ +S     + L L     +    + +  ++ 
Sbjct: 64  SYFFQGLDNAGSADSTDVQPSARATAPMNALSDARVSEILALVETLPK----EQQMAVLA 119

Query: 122 LVRSIVSS 129
            +R++  +
Sbjct: 120 FLRTLAKT 127


>gi|83594727|ref|YP_428479.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
           11170]
 gi|83577641|gb|ABC24192.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
           11170]
          Length = 180

 Score =  109 bits (274), Expect = 9e-23,   Method: Composition-based stats.
 Identities = 47/141 (33%), Positives = 79/141 (56%), Gaps = 13/141 (9%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            +   P+P+D  VG+R+RLRR +LG+SQ++L + +GITFQQVQKYE+GVNR+ +SRL   
Sbjct: 12  YSSDNPDPLDKEVGRRLRLRRKLLGLSQQQLADAVGITFQQVQKYERGVNRLSSSRLWDF 71

Query: 63  SEVLESPISFFFDVSPTV------------CSDISSEENNVMDFISTPDGLQLNRYFIQI 110
           + +L   +SFFF+                   D +  +    D +   + L+L   F   
Sbjct: 72  ATILGVSVSFFFEDLEAADVDRTIPRARRDAQDETITQTTAEDPLVRTETLELCYAFWA- 130

Query: 111 DDVKVRQKIIELVRSIVSSEK 131
              +VR++ ++ +++  + EK
Sbjct: 131 TTPRVRKRYLDFLKTAATLEK 151


>gi|110678693|ref|YP_681700.1| HTH-type transcriptional regulator, putative [Roseobacter
           denitrificans OCh 114]
 gi|109454809|gb|ABG31014.1| HTH-type transcriptional regulator, putative [Roseobacter
           denitrificans OCh 114]
          Length = 119

 Score =  109 bits (274), Expect = 9e-23,   Method: Composition-based stats.
 Identities = 32/118 (27%), Positives = 60/118 (50%), Gaps = 10/118 (8%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD +VG++++  R +  +SQ  +   L ++FQQ+QKYE G NR+ ASRL  +S + 
Sbjct: 1   MSHPVDAHVGRKLKQIRTMRRLSQTDVARELNLSFQQIQKYEIGSNRIAASRLYELSRIF 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           + P S+FF+            + +          +++      I D  V+ +I+  + 
Sbjct: 61  DVPTSYFFEGLDAATKTTCERDPS----------MEIVTALANIRDDSVKSRIVTFIE 108


>gi|222825165|dbj|BAH22322.1| transcriptional regulator [Wolbachia endosymbiont of Cadra
           cautella]
          Length = 120

 Score =  109 bits (274), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 34/119 (28%), Positives = 66/119 (55%), Gaps = 5/119 (4%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P+D  +G+RIR RR++ G+SQ  LG+ L I+FQ +Q YE G  R+   RL +++E L  
Sbjct: 5   HPIDKQIGERIRKRRLMCGLSQRDLGKKLEISFQHIQGYETGEVRLIVDRLYNLAEALSV 64

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
            +S+FF  +     D +   +     + + +  +L R + +I D  +   +  +++++ 
Sbjct: 65  DMSYFFTKASEDLHDNAFRSD-----VGSKEISRLVREYRKIKDEILCNIVHSVIKALA 118


>gi|163869145|ref|YP_001610384.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018831|emb|CAK02389.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 82

 Score =  109 bits (273), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 41/63 (65%), Positives = 50/63 (79%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ VGK+IRLRR +L MSQ  LG  LGI+FQQ+QKYEKG+NRV A RL  IS++L  PI
Sbjct: 8  IDLFVGKKIRLRRQMLKMSQTTLGNALGISFQQIQKYEKGLNRVSAGRLMEISDILTVPI 67

Query: 71 SFF 73
          SFF
Sbjct: 68 SFF 70


>gi|163733855|ref|ZP_02141297.1| HTH-type transcriptional regulator, putative [Roseobacter litoralis
           Och 149]
 gi|161392966|gb|EDQ17293.1| HTH-type transcriptional regulator, putative [Roseobacter litoralis
           Och 149]
          Length = 119

 Score =  109 bits (273), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 32/118 (27%), Positives = 60/118 (50%), Gaps = 10/118 (8%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +PVD +VG++++  R +  +SQ  +   L ++FQQ+QKYE G NR+ ASRL  +S + 
Sbjct: 1   MSHPVDAHVGRKLKQIRTMRRLSQTDVARELNLSFQQIQKYEIGSNRIAASRLYELSRIF 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           + P S+FF+            + +          +++      I D  V+ +I+  + 
Sbjct: 61  DVPTSYFFEGLDAATKTTCERDPS----------MEIVTALANIRDDSVKSRIVTFIE 108


>gi|157825788|ref|YP_001493508.1| hypothetical protein A1C_03595 [Rickettsia akari str. Hartford]
 gi|157799746|gb|ABV75000.1| hypothetical protein A1C_03595 [Rickettsia akari str. Hartford]
          Length = 130

 Score =  108 bits (271), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 40/138 (28%), Positives = 72/138 (52%), Gaps = 12/138 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M     I   +D  +G++I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL 
Sbjct: 1   MGRKNDIIQKIDSFIGQKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQ 117
            I+E L+  I +FF+           EE N    + T      ++++R F++I+  + +Q
Sbjct: 61  LIAEALDRNIDYFFEGL---------EEANKPQPVYTQHQRMCIEVSRNFMKINSTEEQQ 111

Query: 118 KIIELVRSIVSSEKKYRT 135
            I  LV+ +   +K   +
Sbjct: 112 AINNLVKCLAGKDKLKAS 129


>gi|91205491|ref|YP_537846.1| putative transcriptional regulator [Rickettsia bellii RML369-C]
 gi|157827144|ref|YP_001496208.1| putative transcriptional regulator [Rickettsia bellii OSU 85-389]
 gi|91069035|gb|ABE04757.1| Putative transcriptional regulator [Rickettsia bellii RML369-C]
 gi|157802448|gb|ABV79171.1| Putative transcriptional regulator [Rickettsia bellii OSU 85-389]
          Length = 137

 Score =  108 bits (271), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 39/134 (29%), Positives = 69/134 (51%), Gaps = 12/134 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M     I   +D  +GK+I   R+  G+S+++L E + +T QQ+QKYE+ +NR+   RL 
Sbjct: 1   MARKNDIIQKIDSFIGKKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYERAINRISVGRLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQ 117
            I+E L+  I +FF+           EE N    + T      ++++R F++I     +Q
Sbjct: 61  LIAEALDRNIDYFFEGL---------EEANKPQPVHTQHQRMCIEVSRNFMKIQSTDEQQ 111

Query: 118 KIIELVRSIVSSEK 131
            +  LV+ +   +K
Sbjct: 112 AVNNLVKCLAGKDK 125


>gi|89069702|ref|ZP_01157039.1| DNA-binding protein, putative [Oceanicola granulosus HTCC2516]
 gi|89044782|gb|EAR50888.1| DNA-binding protein, putative [Oceanicola granulosus HTCC2516]
          Length = 96

 Score =  108 bits (270), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 33/97 (34%), Positives = 56/97 (57%), Gaps = 2/97 (2%)

Query: 33  LGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVM 92
           + E +GI FQQ+QKYE G+NRV ASRL  I+ VL   I FFF+      +  ++  +   
Sbjct: 1   MAEKVGIKFQQIQKYETGMNRVSASRLWDIASVLGVKIDFFFEGLGETETPANAN-DLPG 59

Query: 93  DFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           + ++  + L+L R +  I + + R+++ EL R +  +
Sbjct: 60  NILTDREALELLRSYYAIPENQ-RKRLFELARVLSEA 95


>gi|34580426|ref|ZP_00141906.1| hypothetical protein [Rickettsia sibirica 246]
 gi|28261811|gb|EAA25315.1| unknown [Rickettsia sibirica 246]
          Length = 125

 Score =  108 bits (270), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 39/131 (29%), Positives = 68/131 (51%), Gaps = 12/131 (9%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M     I   +D  +GK+I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL 
Sbjct: 1   MGRKNDIIQKIDSFIGKKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQ 117
            I+E L+  I +FF+           EE N    + T      +++ R F++I+  + +Q
Sbjct: 61  LIAEALDRNIDYFFEGL---------EEANKPQPVHTQHQRMCIEVARNFMKINSTEEQQ 111

Query: 118 KIIELVRSIVS 128
            +  LV+ +  
Sbjct: 112 AVNNLVKCLAG 122


>gi|163868802|ref|YP_001610026.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018473|emb|CAK02031.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 96

 Score =  108 bits (270), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 39/68 (57%), Positives = 55/68 (80%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ VGKRIR RR +L MSQ+ LG+ LG++FQQ+QKYEKG+NRV A RL+ IS++L  P+
Sbjct: 8  IDLFVGKRIRFRRKMLKMSQKTLGQHLGVSFQQIQKYEKGLNRVSAGRLKEISDILNVPL 67

Query: 71 SFFFDVSP 78
          +FF+ +S 
Sbjct: 68 AFFYTISS 75


>gi|15892591|ref|NP_360305.1| hypothetical protein RC0668 [Rickettsia conorii str. Malish 7]
 gi|157828542|ref|YP_001494784.1| hypothetical protein A1G_03795 [Rickettsia rickettsii str. 'Sheila
           Smith']
 gi|165933258|ref|YP_001650047.1| transcriptional regulator [Rickettsia rickettsii str. Iowa]
 gi|229586759|ref|YP_002845260.1| Putative transcriptional regulator [Rickettsia africae ESF-5]
 gi|238650247|ref|YP_002916098.1| transcriptional regulator [Rickettsia peacockii str. Rustic]
 gi|38503361|sp|Q92HV3|Y668_RICCN RecName: Full=Uncharacterized HTH-type transcriptional regulator
           RC0668
 gi|15619757|gb|AAL03206.1| unknown [Rickettsia conorii str. Malish 7]
 gi|157801023|gb|ABV76276.1| hypothetical protein A1G_03795 [Rickettsia rickettsii str. 'Sheila
           Smith']
 gi|165908345|gb|ABY72641.1| transcriptional regulator [Rickettsia rickettsii str. Iowa]
 gi|228021809|gb|ACP53517.1| Putative transcriptional regulator [Rickettsia africae ESF-5]
 gi|238624345|gb|ACR47051.1| transcriptional regulator [Rickettsia peacockii str. Rustic]
          Length = 125

 Score =  107 bits (268), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 39/131 (29%), Positives = 69/131 (52%), Gaps = 12/131 (9%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M     I   +D  +GK+I   R+  G+S+++L E + +T QQ+QKYEK +NR+   RL 
Sbjct: 1   MGRKNDIIQKIDSFIGKKIYSLRLAKGLSRQQLAEVIDVTHQQLQKYEKAINRISVGRLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQ 117
            I+E L+  I +FF+           EE N    + T      ++++R F++I+  + +Q
Sbjct: 61  LIAEALDRNIDYFFEGL---------EEANKPQPVHTQHQRMCIEVSRNFMKINSTEEQQ 111

Query: 118 KIIELVRSIVS 128
            +  LV+ +  
Sbjct: 112 AVNNLVKCLAG 122


>gi|114704610|ref|ZP_01437518.1| Transcriptional Regulator, XRE family protein [Fulvimarina pelagi
           HTCC2506]
 gi|114539395|gb|EAU42515.1| Transcriptional Regulator, XRE family protein [Fulvimarina pelagi
           HTCC2506]
          Length = 117

 Score =  107 bits (267), Expect = 6e-22,   Method: Composition-based stats.
 Identities = 41/127 (32%), Positives = 70/127 (55%), Gaps = 11/127 (8%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           + + K  + +D +VG +I+L R++ G+S+EKLG  LGI++QQ+QKYE G NRV A RL  
Sbjct: 1   MYDTKAASHIDKSVGAKIKLGRLMAGLSREKLGVQLGISWQQIQKYESGANRVSAGRLHQ 60

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           I+ +L   I +FFD +    SDI     ++           + R F ++   + ++ +  
Sbjct: 61  IAHILGREIQWFFDEADNEPSDIGPSPRDIG----------MARKFNRLASDR-KKALEA 109

Query: 122 LVRSIVS 128
           L+  +  
Sbjct: 110 LIDEMAR 116


>gi|46201614|ref|ZP_00054686.2| COG1396: Predicted transcriptional regulators [Magnetospirillum
           magnetotacticum MS-1]
          Length = 98

 Score =  107 bits (267), Expect = 6e-22,   Method: Composition-based stats.
 Identities = 32/106 (30%), Positives = 59/106 (55%), Gaps = 8/106 (7%)

Query: 25  ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI 84
           +LG+SQ+++ + +G+T+QQ  KYE+G+NR+ A RL  I++VL  P+ FF++         
Sbjct: 1   MLGLSQQQMADLIGVTYQQAHKYERGINRISAGRLFEIAQVLGVPVGFFYEGLENRRGSD 60

Query: 85  SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
            S    +         L+L R F  I + + ++ + +L R + + E
Sbjct: 61  LSARQRMC--------LELARNFTSITNERHQEALSQLARVLAAEE 98


>gi|49476080|ref|YP_034121.1| transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49476154|ref|YP_034195.1| transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49238888|emb|CAF28181.1| Transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49238962|emb|CAF28260.1| Transcriptional regulator [Bartonella henselae str. Houston-1]
          Length = 128

 Score =  106 bits (266), Expect = 8e-22,   Method: Composition-based stats.
 Identities = 41/112 (36%), Positives = 67/112 (59%), Gaps = 5/112 (4%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           DI VGK+IR RR +L MSQ+ L + L ++ QQ+QKYE G+NRV A RL+ I+++L  PI+
Sbjct: 15  DIFVGKKIRFRRKMLKMSQKTLADHLKVSSQQIQKYETGLNRVSAGRLKEIADILSVPIA 74

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           FF+        D  ++ + +    S  +   L + F ++   K ++ I+ L+
Sbjct: 75  FFY-ADLFTKQDTPTQHDEIA---SNREEYFLLKSFRELK-PKKQKAILWLI 121


>gi|91206072|ref|YP_538427.1| hypothetical protein RBE_1257 [Rickettsia bellii RML369-C]
 gi|157826572|ref|YP_001495636.1| hypothetical protein A1I_01005 [Rickettsia bellii OSU 85-389]
 gi|91069616|gb|ABE05338.1| unknown [Rickettsia bellii RML369-C]
 gi|157801876|gb|ABV78599.1| hypothetical protein A1I_01005 [Rickettsia bellii OSU 85-389]
          Length = 186

 Score =  106 bits (266), Expect = 8e-22,   Method: Composition-based stats.
 Identities = 42/153 (27%), Positives = 80/153 (52%), Gaps = 36/153 (23%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D    +R++ RR+ +G+SQ++LGE L I+  Q++KYE+G++ +  SRL  ++++L +P+
Sbjct: 31  IDKIASERLKQRRIAIGLSQKELGETLDISAIQIKKYEEGISTIPVSRLYVLAKILNTPL 90

Query: 71  SFFFDVSPTVCSDISSEEN---NVMDFIST------------------------------ 97
             FF+ S +    +++++N   N ++++S                               
Sbjct: 91  KHFFNTSISEEERLNTDDNIFDNEIEYLSNEIDEHLLNNVAEEDEDYEYNIPFSREDLTR 150

Query: 98  ---PDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
               + L L R F +I +  VR+ IIELVRS+ 
Sbjct: 151 TLEREILSLTRAFTKIQNPDVRKIIIELVRSLA 183


>gi|116249916|ref|YP_765754.1| HTH-type transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|115254564|emb|CAK05638.1| putative HTH-type transcriptional regulator [Rhizobium
           leguminosarum bv. viciae 3841]
          Length = 121

 Score =  106 bits (264), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 42/123 (34%), Positives = 66/123 (53%), Gaps = 8/123 (6%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVDI VG+ +R  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1   MPDPVDIIVGRNVRQFRALRRVSQLELGEALGLTFQQIQKYEKGANRVSASKLHQIAVFL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +  IS  F+ +         E         +PD   L   + +++    ++ +  +V  +
Sbjct: 61  DVDISALFEGAGMSPFGSRVE--------LSPDAYALALSYDKLNSPAGKEAVKTIVTLM 112

Query: 127 VSS 129
              
Sbjct: 113 TGE 115


>gi|218458185|ref|ZP_03498276.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli Kim 5]
          Length = 110

 Score =  106 bits (264), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 42/113 (37%), Positives = 63/113 (55%), Gaps = 8/113 (7%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVDI VG+ IR  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1   MPDPVDIIVGRNIRQLRALRRVSQLELGEALGLTFQQIQKYEKGTNRVSASKLHQIAVFL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +  IS  F+ +         E         +PD   L   + +++    ++ +
Sbjct: 61  DVEISVLFEGADMPQFGSRIE--------LSPDAYALALSYDKLNSPAGKEAV 105


>gi|190889812|ref|YP_001976354.1| transcriptional regulator protein, Cro/CI family [Rhizobium etli
           CIAT 652]
 gi|218512245|ref|ZP_03509085.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli 8C-3]
 gi|190695091|gb|ACE89176.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli CIAT 652]
          Length = 122

 Score =  105 bits (262), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 42/113 (37%), Positives = 62/113 (54%), Gaps = 8/113 (7%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVDI VG  IR  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1   MPDPVDIIVGHNIRQLRALRRVSQLELGEALGLTFQQIQKYEKGTNRVSASKLHQIAVFL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +  IS  F+ +         E         +PD   L   + +++    ++ +
Sbjct: 61  DVEISVLFEGADMPQFGSRIE--------LSPDAYALALSYDKLNSPAGKEAV 105


>gi|218659215|ref|ZP_03515145.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli IE4771]
          Length = 122

 Score =  105 bits (262), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 42/113 (37%), Positives = 63/113 (55%), Gaps = 8/113 (7%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVDI VG+ IR  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1   MPDPVDIIVGRNIRQLRALRRVSQLELGEALGLTFQQIQKYEKGTNRVSASKLHQIAVFL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +  IS  F+ +         E         +PD   L   + +++    ++ +
Sbjct: 61  DVEISVLFEGADMPQFGSRIE--------LSPDAYALALSYDKLNSPAGKEAV 105


>gi|222825162|dbj|BAH22319.1| transcriptional regulator [Wolbachia endosymbiont of Cadra
           cautella]
          Length = 115

 Score =  104 bits (260), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 32/118 (27%), Positives = 65/118 (55%), Gaps = 11/118 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GK+I+  R+  G++Q +LG+ +G++++Q+Q+YE G N + ASRL  +++ L   ++ 
Sbjct: 7   VQLGKKIKQLRLDRGLTQTELGKRIGVSYRQIQRYENGSNYILASRLYDLAKALSIDVAD 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           FF    T   +   E           + L+L + + +I   ++R  +  LV+S   S+
Sbjct: 67  FFTGMHTDSHEAYDE-----------EILKLVKGYNEIKSKRLRSVVYILVKSFSQSD 113


>gi|241207094|ref|YP_002978190.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240860984|gb|ACS58651.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 121

 Score =  104 bits (259), Expect = 6e-21,   Method: Composition-based stats.
 Identities = 42/123 (34%), Positives = 66/123 (53%), Gaps = 8/123 (6%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVDI VG+ +R  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1   MPDPVDIIVGRNVRQFRALRRVSQLELGEALGLTFQQIQKYEKGANRVSASKLHQIAVFL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +  IS  F+ +         E         +PD   L   + +++    ++ +  +V  +
Sbjct: 61  DVEISALFEGAGMSPFGSRVE--------LSPDAYALALSYDKLNSPAGKEAVKTIVTLM 112

Query: 127 VSS 129
              
Sbjct: 113 TGE 115


>gi|86355802|ref|YP_467694.1| Cro/CI family transcriptional regulator [Rhizobium etli CFN 42]
 gi|86279904|gb|ABC88967.1| putative transcriptional regulator protein, Cro/CI family
           [Rhizobium etli CFN 42]
          Length = 121

 Score =  103 bits (258), Expect = 7e-21,   Method: Composition-based stats.
 Identities = 43/113 (38%), Positives = 61/113 (53%), Gaps = 8/113 (7%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVDI VG+ IR  R I  +SQ  LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1   MPDPVDIIVGRNIRQLRAIRRVSQLDLGEALGLTFQQIQKYEKGTNRVSASKLHQIAVFL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
              IS  F+ +         E         +PD   L   + +++    ++ +
Sbjct: 61  GVEISALFEGTDISEFGGRIE--------LSPDAYALALSYDKLNSTAGKEAV 105


>gi|84684043|ref|ZP_01011945.1| DNA-binding protein, putative [Maritimibacter alkaliphilus
           HTCC2654]
 gi|84667796|gb|EAQ14264.1| DNA-binding protein, putative [Rhodobacterales bacterium HTCC2654]
          Length = 120

 Score =  102 bits (256), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 42/122 (34%), Positives = 67/122 (54%), Gaps = 10/122 (8%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +P+D+ +G+RIR  R+  G++Q++L   +G+ FQQ+QKYE   NRV  SRL  IS+ L
Sbjct: 1   MKHPIDVFIGRRIREERVAAGLTQKELSILIGVKFQQLQKYETAANRVSGSRLWMISKAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             P+S F  +   V   IS ++    D     D L L        + K++ ++I  VR+I
Sbjct: 61  AVPMSSF--LPDGVELPISEKDAEPSDARLMRDILML--------EPKLKLELIRFVRAI 110

Query: 127 VS 128
             
Sbjct: 111 SR 112


>gi|218508788|ref|ZP_03506666.1| putative transcriptional regulator protein [Rhizobium etli Brasil
           5]
          Length = 125

 Score =  102 bits (255), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 46/122 (37%), Positives = 67/122 (54%), Gaps = 15/122 (12%)

Query: 22  RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP--- 78
           RRM   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ P+S FF+  P   
Sbjct: 1   RRMQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKIPVSRFFEGLPDPE 60

Query: 79  -TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKIIELVRSIVSSEKK 132
            T    I +E +  + +IST +G +L      IDD      +VR +++ LV SIV  E +
Sbjct: 61  TTQGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRVRSRVVALVSSIVDEEME 114

Query: 133 YR 134
            +
Sbjct: 115 EQ 116


>gi|209551664|ref|YP_002283581.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209537420|gb|ACI57355.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
          Length = 121

 Score =  102 bits (255), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 42/123 (34%), Positives = 66/123 (53%), Gaps = 8/123 (6%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVDI VG+ +R  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1   MPDPVDIIVGRNVRQFRALRRVSQLELGEALGLTFQQIQKYEKGTNRVSASKLHQIAVFL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +  IS  F+ +         E         +PD   L   + +++    ++ +  +V  +
Sbjct: 61  DVEISALFEGAGMSQFGSRIE--------LSPDAYALALSYDRLNSSAGKEAVKTIVTIM 112

Query: 127 VSS 129
              
Sbjct: 113 SGE 115


>gi|222825166|dbj|BAH22323.1| transcriptional regulator [Wolbachia endosymbiont of Cadra
           cautella]
          Length = 110

 Score =  102 bits (254), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 32/117 (27%), Positives = 68/117 (58%), Gaps = 11/117 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GK+I+  R+  G++Q +LG+ +G++++Q+Q+YE G N + ASRL  +++ L   ++ 
Sbjct: 1   MELGKKIKELRLYCGLTQTELGKRIGVSYRQIQRYENGSNHILASRLYDLAKALSINVAD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           FF       +D+ ++ +   D     + L+L + + +I   ++R  +  LV+S   S
Sbjct: 61  FF-------TDVHADSHETYD----EEILKLVKGYNEIRSKRLRSVVYTLVKSFSQS 106


>gi|49476037|ref|YP_034078.1| transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49238845|emb|CAF28129.1| Transcriptional regulator [Bartonella henselae str. Houston-1]
          Length = 119

 Score =  102 bits (254), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 38/75 (50%), Positives = 53/75 (70%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI VGK+IR RR +L MSQ+ L + L ++ QQ+QKYE G+NRV A RL+ I+++L  PI+
Sbjct: 15 DIFVGKKIRFRRKMLKMSQKTLADHLKVSPQQIQKYETGLNRVSAGRLKEIADILSVPIA 74

Query: 72 FFFDVSPTVCSDISS 86
          FF  +S    S +SS
Sbjct: 75 FFMLISSHNKSTLSS 89


>gi|218658899|ref|ZP_03514829.1| probable transcriptional regulator protein [Rhizobium etli IE4771]
          Length = 85

 Score =  101 bits (253), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 38/81 (46%), Positives = 57/81 (70%), Gaps = 6/81 (7%)

Query: 55  GASRLQHISEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFI 108
           GASRLQ+IS +L  P+SFFF+ +P   S        +S  N V+DF+S+ +GLQLNR F+
Sbjct: 1   GASRLQNISSILNVPVSFFFEDAPGEHSGAIGGMAETSSSNYVVDFLSSSEGLQLNRAFV 60

Query: 109 QIDDVKVRQKIIELVRSIVSS 129
           +I D KVR+K++ELV+++ + 
Sbjct: 61  KISDPKVRRKVVELVKALAAE 81


>gi|58699287|ref|ZP_00374078.1| transcriptional regulator [Wolbachia endosymbiont of Drosophila
           ananassae]
 gi|58534195|gb|EAL58403.1| transcriptional regulator [Wolbachia endosymbiont of Drosophila
           ananassae]
          Length = 109

 Score =  101 bits (252), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 33/118 (27%), Positives = 64/118 (54%), Gaps = 11/118 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GK+I+  R+   ++Q +LG+ +G++++Q+QKYE G N V ASRL  +++ L   ++ 
Sbjct: 1   MQLGKKIKQLRLDRALTQTELGKRIGVSYRQIQKYENGSNCVLASRLYDLAKALSIDVAN 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           FF    T   +   E           + L+L + + +I   ++R  +  LV+S   S+
Sbjct: 61  FFTDMHTDSHEAYDE-----------EILKLVKGYNEIKSKRLRSAVYILVKSFSQSD 107


>gi|254419929|ref|ZP_05033653.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
 gi|196186106|gb|EDX81082.1| Helix-turn-helix domain protein [Brevundimonas sp. BAL3]
          Length = 117

 Score =  101 bits (252), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 40/118 (33%), Positives = 66/118 (55%), Gaps = 8/118 (6%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +PVDI +G RIR RR  L ++Q +L    G+TFQQ+QKYE+GVNRV A+RL  I+ VL+ 
Sbjct: 6   DPVDIAIGARIRARREELRITQAQLAAGAGVTFQQIQKYERGVNRVSAARLLQIAAVLK- 64

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                      +  ++ + E + +  ++ P   +L   F  I D + R  ++ + + +
Sbjct: 65  ------STGAALLGELETAEGDELA-LAAPGVAELLSAFRSIRDAEKRDALLVVAKGL 115


>gi|254562707|ref|YP_003069802.1| XRE family transcriptional regulator [Methylobacterium extorquens
           DM4]
 gi|254269985|emb|CAX25965.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens DM4]
          Length = 94

 Score =  101 bits (251), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 38/97 (39%), Positives = 58/97 (59%), Gaps = 3/97 (3%)

Query: 39  ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTP 98
           +TFQQ+QKYE GVNRVGASRL  ++  LE P+S FF+    +   +   +    +F+  P
Sbjct: 1   MTFQQIQKYENGVNRVGASRLSEVARALEVPVSTFFEEGSGL---VEQGQKEAFEFLRVP 57

Query: 99  DGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
             + L   FI I+D ++R++++ LVRS    E+   T
Sbjct: 58  GAVDLLNAFITIEDDRLRREVLALVRSATRREQDQGT 94


>gi|49476040|ref|YP_034081.1| transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49238848|emb|CAF28132.1| Transcriptional regulator [Bartonella henselae str. Houston-1]
          Length = 125

 Score =  100 bits (250), Expect = 6e-20,   Method: Composition-based stats.
 Identities = 33/66 (50%), Positives = 47/66 (71%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           DI VGK+IR RR +L MSQ+ L + L ++ QQ+QKYE G+NRV A  L+ I+++L   I+
Sbjct: 60  DIFVGKKIRFRRKMLKMSQKTLADHLRVSSQQIQKYETGLNRVSAGCLKEIADILNVSIA 119

Query: 72  FFFDVS 77
           FF  +S
Sbjct: 120 FFMPIS 125


>gi|218682257|ref|ZP_03529858.1| transcriptional regulator, XRE family protein [Rhizobium etli CIAT
           894]
          Length = 119

 Score =  100 bits (249), Expect = 8e-20,   Method: Composition-based stats.
 Identities = 41/113 (36%), Positives = 62/113 (54%), Gaps = 10/113 (8%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+PVDI VG+ +R  R +  +SQ +LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1   MPDPVDIIVGRNVRQFRALRRVSQLELGEALGLTFQQIQKYEKGANRVSASKLHQIAVFL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +  IS  F+      S +            +PD   L   + ++     ++ +
Sbjct: 61  DVEISALFEGVSQFGSRVEL----------SPDAYALALTYDKLSSSAGKEAV 103


>gi|319409214|emb|CBI82858.1| transcriptional regulator (fragment) [Bartonella schoenbuchensis
           R1]
          Length = 95

 Score =  100 bits (249), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 39/96 (40%), Positives = 61/96 (63%), Gaps = 5/96 (5%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           MSQ+ L   LGI+FQQ+QKYEKG+NRVGA RL+ I+++ + PISFF+  + T    +   
Sbjct: 1   MSQKTLAHHLGISFQQIQKYEKGLNRVGAGRLKDIADIFDVPISFFYPDTTTKEGGVHHH 60

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           +    + IS+ +   L + F  +  VK ++ I+EL+
Sbjct: 61  D----EIISSKEEYLLLKSFRVLTSVK-QKAILELI 91


>gi|67458969|ref|YP_246593.1| hypothetical protein RF_0577 [Rickettsia felis URRWXCal2]
 gi|67004502|gb|AAY61428.1| unknown [Rickettsia felis URRWXCal2]
          Length = 163

 Score = 99.9 bits (248), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 44/159 (27%), Positives = 79/159 (49%), Gaps = 36/159 (22%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N  I +P D    +R++ RR+ +G+SQ++LG+ L I+  QV+KYE+G++ +  SRL   +
Sbjct: 2   NDSIKHP-DKLASERLKERRLAVGISQKELGQALDISALQVKKYEEGLSNIPISRLYVFA 60

Query: 64  EVLESPISFFF-------------------------DVSPTVCSDISSEENNVMDFIS-- 96
           +VL +P+ +FF                         ++     ++I+ EE    + +S  
Sbjct: 61  KVLNTPLKYFFNSSEEEKLKTDDENTSNNKIEYLFKEIESDFLNNIAEEEGQYENDVSFD 120

Query: 97  --------TPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                     + L L R F ++ +  +R+ IIELVRS+ 
Sbjct: 121 YKELSRTMERELLSLTRAFTRVQNPNIRKIIIELVRSVS 159


>gi|71083650|ref|YP_266370.1| transcription regulator [Candidatus Pelagibacter ubique HTCC1062]
 gi|91763309|ref|ZP_01265273.1| transcription regulator [Candidatus Pelagibacter ubique HTCC1002]
 gi|71062763|gb|AAZ21766.1| transcription regulator [Candidatus Pelagibacter ubique HTCC1062]
 gi|91717722|gb|EAS84373.1| transcription regulator [Candidatus Pelagibacter ubique HTCC1002]
          Length = 123

 Score = 99.9 bits (248), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 28/114 (24%), Positives = 64/114 (56%), Gaps = 16/114 (14%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +  + ++G +++LRR+ LG++Q K+ + + +TFQQ+QKYEKG N V + RL  ++  L
Sbjct: 1   MEDNFNKHLGNKLKLRRLALGLTQTKVAKAINVTFQQIQKYEKGTNGVSSIRLLQLANYL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ------LNRYFIQIDDVK 114
           + P+++FF+               +++   + +G        L + + ++++ +
Sbjct: 61  KVPVNYFFEDFSE----------YLINLERSQEGHMNVNYNFLVKLYSELNNDQ 104


>gi|254456421|ref|ZP_05069850.1| transcription regulator [Candidatus Pelagibacter sp. HTCC7211]
 gi|207083423|gb|EDZ60849.1| transcription regulator [Candidatus Pelagibacter sp. HTCC7211]
          Length = 123

 Score = 99.5 bits (247), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 28/83 (33%), Positives = 53/83 (63%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +  + ++G +++LRR+ LG++Q K+ + + +TFQQ+QKYEKG N V + RL  +S  L
Sbjct: 1  MEDNFNKHLGNKLKLRRLALGLTQTKVAKAINVTFQQIQKYEKGTNGVSSIRLLQLSNYL 60

Query: 67 ESPISFFFDVSPTVCSDISSEEN 89
          + PI++FF+       ++   + 
Sbjct: 61 KVPINYFFEDFSEYLINLEKSQE 83


>gi|163869144|ref|YP_001610383.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018830|emb|CAK02388.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 156

 Score = 99.1 bits (246), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 54/113 (47%), Positives = 71/113 (62%), Gaps = 5/113 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ VGKRIRLRR  L MSQ  LG  LGI+FQQVQKYEKG+NRV A RL  IS++L  PI
Sbjct: 43  IDLLVGKRIRLRRKRLKMSQTTLGNALGISFQQVQKYEKGLNRVSAGRLMEISDILNVPI 102

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           SFF+    T    +SS +    + IS  +   L + F  +  VK R+  ++L+
Sbjct: 103 SFFYADIITKQHALSSHD----EIISNTEEYLLLKRFRTLTTVK-RKAFLQLI 150


>gi|218462730|ref|ZP_03502821.1| putative transcriptional regulator protein [Rhizobium etli Kim 5]
 gi|218516609|ref|ZP_03513449.1| putative transcriptional regulator protein [Rhizobium etli 8C-3]
          Length = 123

 Score = 98.7 bits (245), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 44/120 (36%), Positives = 65/120 (54%), Gaps = 15/120 (12%)

Query: 24  MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP----T 79
           M   +S   LG  +G++ QQVQKYE G NRV AS L  ++  L+ P+S FF+  P    T
Sbjct: 1   MQSNVSLGDLGAGIGVSLQQVQKYESGKNRVSASMLYELANCLKIPVSRFFEGLPDPETT 60

Query: 80  VCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKIIELVRSIVSSEKKYR 134
               I +E +  + +IST +G +L      IDD      +VR +++ LV SIV  E + +
Sbjct: 61  HGQQIITEIDEKIAYISTAEGRRL------IDDVLLLSPRVRSRVVALVSSIVDEEMEEQ 114


>gi|253700083|ref|YP_003021272.1| XRE family transcriptional regulator [Geobacter sp. M21]
 gi|251774933|gb|ACT17514.1| transcriptional regulator, XRE family [Geobacter sp. M21]
          Length = 114

 Score = 98.7 bits (245), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 38/109 (34%), Positives = 61/109 (55%), Gaps = 12/109 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  IR  R   G+SQEKL E +G++FQQ+QKYE G   +   +LQHI+  L+  ++ FF
Sbjct: 10  IGTLIRRYRQDAGLSQEKLAEMVGVSFQQIQKYENGHTTLNIIKLQHIAAALKVAVTDFF 69

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           D +P     ++ EE+            QL + F ++   ++R  I++LV
Sbjct: 70  DAAPVKGVRLTGEED------------QLLQAFRKVKSGELRGCILKLV 106


>gi|330814062|ref|YP_004358301.1| transcriptional regulator, Cro/CI family [Candidatus Pelagibacter
          sp. IMCC9063]
 gi|327487157|gb|AEA81562.1| transcriptional regulator, Cro/CI family [Candidatus Pelagibacter
          sp. IMCC9063]
          Length = 120

 Score = 98.7 bits (245), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 29/84 (34%), Positives = 54/84 (64%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ ++GK++RLRR  LG++Q ++ + + +TFQQ+QKYEKG N V ++RL  ++  L+ PI
Sbjct: 5  LNQHLGKKLRLRRTSLGLTQTQVAQAINVTFQQIQKYEKGTNGVSSARLLQLANFLKVPI 64

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
           FFF+          ++    +++
Sbjct: 65 KFFFEDYQDFSETTQNDGTQSLNY 88


>gi|167041371|gb|ABZ06124.1| putative helix-turn-helix motif protein [uncultured marine
          microorganism HF4000_005K23]
          Length = 121

 Score = 98.3 bits (244), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 24/78 (30%), Positives = 50/78 (64%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + ++G ++R RR+ LG++Q K+ + + +TFQQ+QKYEKG N + + R+  ++  L+ P+ 
Sbjct: 6  NRHLGTKLRTRRLALGLTQTKVAQAINVTFQQIQKYEKGTNGISSLRIMQLANFLKVPVV 65

Query: 72 FFFDVSPTVCSDISSEEN 89
          +F++   +   +  + E 
Sbjct: 66 YFYEDFSSYEGETFANEK 83


>gi|37524779|ref|NP_928123.1| MrfJ protein [Photorhabdus luminescens subsp. laumondii TTO1]
 gi|36784204|emb|CAE13073.1| MrfJ protein [Photorhabdus luminescens subsp. laumondii TTO1]
          Length = 101

 Score = 98.3 bits (244), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 31/62 (50%), Positives = 46/62 (74%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VGKRI+ RR  LGM+  KL E +GI+ QQ+ +YE+G+NR+  S L  I+ +LE+PI++
Sbjct: 8  LLVGKRIQKRRKELGMTAVKLAEKIGISQQQLSRYERGINRINLSHLVQIASILETPINW 67

Query: 73 FF 74
          FF
Sbjct: 68 FF 69


>gi|262277238|ref|ZP_06055031.1| transcription regulator [alpha proteobacterium HIMB114]
 gi|262224341|gb|EEY74800.1| transcription regulator [alpha proteobacterium HIMB114]
          Length = 121

 Score = 98.0 bits (243), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 39/116 (33%), Positives = 70/116 (60%), Gaps = 12/116 (10%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++ ++GK++RLRR  LG++Q ++ + + +TFQQ+QKYEKG N V ++RL  +S  L+ PI
Sbjct: 5   LNQHLGKKLRLRRTSLGLTQTQVAKAINVTFQQIQKYEKGTNGVSSARLLQLSSFLKVPI 64

Query: 71  SFFFDVSPTVCS---DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            +FF+      S   D SS ++    F        L R F  + + + ++K++E++
Sbjct: 65  KYFFEDYQDFASSNEDNSSSKDVNYSF--------LLRIFSDL-EPQQKEKLLEVL 111


>gi|156936184|ref|YP_001440100.1| hypothetical protein ESA_04083 [Cronobacter sakazakii ATCC BAA-894]
 gi|46093560|dbj|BAD14974.1| hypothetical protein [Escherichia coli]
 gi|156534438|gb|ABU79264.1| hypothetical protein ESA_04083 [Cronobacter sakazakii ATCC BAA-894]
          Length = 125

 Score = 98.0 bits (243), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 39/119 (32%), Positives = 65/119 (54%), Gaps = 7/119 (5%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
            +  D  VG+RI++RR  LG++ + L E + I+ QQ+ +YE+G N++  + L +I+  L 
Sbjct: 6   SDSADKQVGQRIQMRRKELGITAQHLAELVDISHQQLSRYERGTNKINVAHLVNIAIKLN 65

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV---KVRQKIIELV 123
           +PIS+FF       S + +E  N  DF+   D   L   F QI      + R+ +I L+
Sbjct: 66  TPISWFF---IDCFSTLDNESKNQQDFVPVKDA-DLKNRFDQIWPRLTHEQRRVLIMLL 120


>gi|319409074|emb|CBI82722.1| Transcriptional regulator [Bartonella schoenbuchensis R1]
          Length = 94

 Score = 97.6 bits (242), Expect = 5e-19,   Method: Composition-based stats.
 Identities = 39/99 (39%), Positives = 62/99 (62%), Gaps = 9/99 (9%)

Query: 25  ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI 84
           +LGMSQ+ L   LGI+FQQ+QKYEKG+NRVGA RL+ I+++   PISFF+  + T    +
Sbjct: 1   MLGMSQKTLAHHLGISFQQIQKYEKGLNRVGAGRLKDIADIFRVPISFFYPDTTTKEGAV 60

Query: 85  SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
              +    + IS+ +     + F  +  +K ++ I+EL+
Sbjct: 61  HHHD----EMISSKE----VKSFRVLTPIK-QKVILELI 90


>gi|253988215|ref|YP_003039571.1| hypothetical protein PAU_00734 [Photorhabdus asymbiotica subsp.
          asymbiotica ATCC 43949]
 gi|211638791|emb|CAR67408.1| hypothetical protein PA-RVA13-1279 [Photorhabdus asymbiotica
          subsp. asymbiotica ATCC 43949]
 gi|253779665|emb|CAQ82826.1| conserved hypothetical protein [Photorhabdus asymbiotica]
          Length = 101

 Score = 97.2 bits (241), Expect = 7e-19,   Method: Composition-based stats.
 Identities = 29/62 (46%), Positives = 45/62 (72%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VGKRI+ RR  LGM+  KL   +GI+ QQ+ +YE+G+NR+  S L  I+ +L++PI++
Sbjct: 8  LLVGKRIQKRRKELGMTAVKLAGQIGISQQQLSRYERGINRIDLSHLVQIASILDTPINW 67

Query: 73 FF 74
          FF
Sbjct: 68 FF 69


>gi|23168698|gb|AAN08677.1| transcriptional regulator [Anaplasma marginale str. Florida]
          Length = 148

 Score = 96.0 bits (238), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 39/125 (31%), Positives = 64/125 (51%), Gaps = 16/125 (12%)

Query: 25  ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-----DVSPT 79
           + GMS+ +    LGITFQQVQKYEKG NR+  SRL  ++ VL   I         D+ P 
Sbjct: 1   MKGMSRNQPASRLGITFQQVQKYEKGTNRIVISRLYELARVLGIEIKDLIAKLQNDLRPI 60

Query: 80  VCSDISS-------EENNVMDFIST----PDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
             +  ++       EE+++ +F  +     + L L R + +I   K+R  I  LV+ + +
Sbjct: 61  TDAGDATDAALREGEESSLEEFGQSYNDGKEVLMLVRAYRRIKSDKMRGAIHTLVKVMCA 120

Query: 129 SEKKY 133
            +++ 
Sbjct: 121 EQQQD 125


>gi|254805385|ref|YP_003083606.1| hypothetical transcriptional regulator [Neisseria meningitidis
           alpha14]
 gi|254668927|emb|CBA07148.1| hypothetical transcriptional regulator [Neisseria meningitidis
           alpha14]
 gi|254670077|emb|CBA04959.1| transcriptional regulator [Neisseria meningitidis alpha153]
 gi|254672200|emb|CBA05097.1| transcriptional regulator [Neisseria meningitidis alpha275]
          Length = 126

 Score = 96.0 bits (238), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 32/87 (36%), Positives = 50/87 (57%), Gaps = 1/87 (1%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D  +G++IR RR  LG S EKL E + ++ QQ+ +YE+GV ++  S L  I+  LE+PI+
Sbjct: 19  DRLIGEKIRQRRKELGYSAEKLAEHINLSQQQISRYERGVGKINISHLVDIAVFLETPIA 78

Query: 72  FFF-DVSPTVCSDISSEENNVMDFIST 97
           +FF D  P   +   + EN       +
Sbjct: 79  WFFQDCLPKPLTVACTPENTPEQQWHS 105


>gi|58699199|ref|ZP_00374010.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
 gi|58534286|gb|EAL58474.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
          Length = 119

 Score = 95.7 bits (237), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 33/122 (27%), Positives = 58/122 (47%), Gaps = 12/122 (9%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +D  VG++++  R+  G +Q+ L E LG+ +  + +YEKG  R+   RL  I+E L   
Sbjct: 8   SLDYKVGEKLKSWRLERGYTQKDLAEKLGVKYWVILQYEKGNRRISIERLYAITEALSIS 67

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           I+    +S +   D               + L L R + +I+D ++R+    L   +  S
Sbjct: 68  ITDLIPISKSCLEDEGE------------EILNLVREYKKINDQELRKMFCLLTNFVPVS 115

Query: 130 EK 131
           EK
Sbjct: 116 EK 117


>gi|227822741|ref|YP_002826713.1| putative transcriptional regulator, XRE familiy [Sinorhizobium
          fredii NGR234]
 gi|227341742|gb|ACP25960.1| putative transcriptional regulator, XRE familiy [Sinorhizobium
          fredii NGR234]
          Length = 122

 Score = 95.3 bits (236), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 35/79 (44%), Positives = 50/79 (63%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
            PN +D  VG RIRLRR  LGM +E LG  LG+   QV++YE+G  RV A++L  +++V
Sbjct: 3  SQPNSIDAFVGHRIRLRRKALGMDEENLGAALGVPVAQVRRYEQGTRRVCAAQLLAMADV 62

Query: 66 LESPISFFFDVSPTVCSDI 84
          L+   +FFF+ SP     +
Sbjct: 63 LQVHFTFFFEESPASGGGL 81


>gi|261392144|emb|CAX49650.1| putative HTH-type transcriptional regulator [Neisseria
          meningitidis 8013]
          Length = 117

 Score = 95.3 bits (236), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 32/87 (36%), Positives = 50/87 (57%), Gaps = 1/87 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +G++IR RR  LG S EKL E + ++ QQ+ +YE+GV ++  S L  I+  LE+PI+
Sbjct: 10 DRLIGEKIRQRRKELGYSAEKLAEHINLSQQQISRYERGVGKINISHLVDIAVFLETPIA 69

Query: 72 FFF-DVSPTVCSDISSEENNVMDFIST 97
          +FF D  P   +   + EN       +
Sbjct: 70 WFFQDCLPKPLTVACTPENTPEQQWHS 96


>gi|197284169|ref|YP_002150041.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227357957|ref|ZP_03842299.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|194681656|emb|CAR40714.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227161692|gb|EEI46724.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 106

 Score = 94.1 bits (233), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 31/102 (30%), Positives = 54/102 (52%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV  ++    V+  VGKRI+ RR  LG +  +L   LG++ QQ  +YE+G+N++  + L 
Sbjct: 1   MVKYRRANIDVNALVGKRIQKRRKELGYTGSQLAAKLGVSQQQFSRYERGLNKIDLTYLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            +++ L +PI +FF+   T  S  S +  +    +     L 
Sbjct: 61  LLAKFLNTPIYWFFEDCITSTSVKSGKPLSRRSNLLAKKALD 102


>gi|258543105|ref|YP_003188538.1| XRE family transcriptional regulator [Acetobacter pasteurianus IFO
           3283-01]
 gi|256634183|dbj|BAI00159.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-01]
 gi|256637243|dbj|BAI03212.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-03]
 gi|256640295|dbj|BAI06257.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-07]
 gi|256643352|dbj|BAI09307.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-22]
 gi|256646407|dbj|BAI12355.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-26]
 gi|256649460|dbj|BAI15401.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-32]
 gi|256652446|dbj|BAI18380.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-01-42C]
 gi|256655504|dbj|BAI21431.1| transcriptional regulator Xre [Acetobacter pasteurianus IFO
           3283-12]
          Length = 138

 Score = 93.7 bits (232), Expect = 7e-18,   Method: Composition-based stats.
 Identities = 32/77 (41%), Positives = 46/77 (59%), Gaps = 2/77 (2%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
             K+I N  D  +G RIR RR  L MS E+LG  +G T+QQ+QKYE G N + A+ L   
Sbjct: 64  APKRIRN--DKRLGFRIRQRRHELHMSLEQLGHAIGCTYQQMQKYETGKNAIKATLLPTF 121

Query: 63  SEVLESPISFFFDVSPT 79
           +  L+ P+++FF+    
Sbjct: 122 ATALDVPLTWFFEGLEA 138


>gi|42520475|ref|NP_966390.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|42410214|gb|AAS14324.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
          Length = 302

 Score = 93.7 bits (232), Expect = 7e-18,   Method: Composition-based stats.
 Identities = 33/123 (26%), Positives = 58/123 (47%), Gaps = 12/123 (9%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +D  VG++++  R+  G +Q+ L E LG+ +  + +YEKG  R+   RL  I+E L   
Sbjct: 8   SLDYKVGEKLKSWRLERGYTQKDLAEKLGVKYWVILQYEKGNRRISIERLYAITEALSIS 67

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           I+    +S +   D               + L L R + +I+D ++R+    L   +  S
Sbjct: 68  ITDLIPISKSCLEDEGE------------EILNLVREYKKINDQELRKMFCLLTNFVQVS 115

Query: 130 EKK 132
           EK 
Sbjct: 116 EKS 118



 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 29/126 (23%), Positives = 57/126 (45%), Gaps = 16/126 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++   +Q+ L E +  T  ++  YE+G   V   +L  ++E L   I   
Sbjct: 163 QIGKKIKEWRLVREYTQKDLVEKMSTTRDEISNYEQGRTAVPLDKLYEMAEALSINI--- 219

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII-ELVRSIVSSEKK 132
                   +D+  +E + +      +   L + + +I+  ++R  +I  L   I   E+K
Sbjct: 220 --------TDLLIKEGSKV----KNELPDLIKEYKEIESQELRHALIKSLFEGIRICEEK 267

Query: 133 YRTIEE 138
            R IE 
Sbjct: 268 VREIER 273


>gi|133711095|gb|ABO36239.1| hypothetical translational regulator [Ehrlichia ewingii]
          Length = 118

 Score = 93.7 bits (232), Expect = 8e-18,   Method: Composition-based stats.
 Identities = 36/117 (30%), Positives = 53/117 (45%), Gaps = 17/117 (14%)

Query: 30  QEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEEN 89
           Q +L   LGITFQQVQKYEKG NR+  SRL  ++ VL   +            +IS + +
Sbjct: 1   QNQLANKLGITFQQVQKYEKGTNRIVISRLYQLASVLNVEVRDIMLKLQEDLKNISCDND 60

Query: 90  NVM-----------------DFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
            V                  + I + + L + R +  I + KVR  I  LV+++   
Sbjct: 61  VVSIPHLKDNEDKFIPELHDNKIDSKEVLMMVRAYTCIKNEKVRNIIYNLVKALSVD 117


>gi|58696656|ref|ZP_00372210.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila simulans]
 gi|58699194|ref|ZP_00374006.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
 gi|225630362|ref|YP_002727153.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|225630756|ref|YP_002727547.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|58534290|gb|EAL58477.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
 gi|58537180|gb|EAL60282.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila simulans]
 gi|225592343|gb|ACN95362.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|225592737|gb|ACN95756.1| transcriptional regulator, putative [Wolbachia sp. wRi]
          Length = 302

 Score = 93.7 bits (232), Expect = 8e-18,   Method: Composition-based stats.
 Identities = 33/123 (26%), Positives = 58/123 (47%), Gaps = 12/123 (9%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +D  VG++++  R+  G +Q+ L E LG+ +  + +YEKG  R+   RL  I+E L   
Sbjct: 8   SLDYKVGEKLKSWRLERGYTQKDLAEKLGVKYWVILQYEKGNRRISIERLYAITEALSIS 67

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           I+    +S +   D               + L L R + +I+D ++R+    L   +  S
Sbjct: 68  ITDLIPISKSCLEDEGE------------EILNLVREYKKINDQELRKMFCLLTNFVQVS 115

Query: 130 EKK 132
           EK 
Sbjct: 116 EKS 118



 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 30/126 (23%), Positives = 57/126 (45%), Gaps = 16/126 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++   +Q+ L E +  T  ++  YE+G   V   +L  ++E L   I   
Sbjct: 163 QIGKKIKEWRLVREYTQKDLVEKMSTTRDEISNYEQGRTAVPLDKLYEMAEALSINI--- 219

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII-ELVRSIVSSEKK 132
                   +D+  EE + +      +   L + + +I+  ++R  +I  L   I   E+K
Sbjct: 220 --------TDLLIEEGSKV----KNELPDLIKEYKEIESQELRHALIKSLFEGIRICEEK 267

Query: 133 YRTIEE 138
            R IE 
Sbjct: 268 VREIER 273


>gi|42520148|ref|NP_966063.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|42409885|gb|AAS13997.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
          Length = 308

 Score = 93.3 bits (231), Expect = 9e-18,   Method: Composition-based stats.
 Identities = 33/129 (25%), Positives = 60/129 (46%), Gaps = 10/129 (7%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +D  VG++++  R+  G +Q+ L E +G+ +  + +YEKG   +   RL  I+E L   
Sbjct: 8   SLDCKVGEKVKNWRLERGYTQKDLAEKIGVKYWVILQYEKGNRGISIKRLYAIAEALSVS 67

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           I+     S       + E           + L L R + +I+D ++R+    L + +  S
Sbjct: 68  ITNLIPASKEKIGFKNEEG----------EILNLVREYKKINDHELRRMFCLLTKFVQVS 117

Query: 130 EKKYRTIEE 138
           EK  R  E+
Sbjct: 118 EKSSRKSEK 126



 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 31/125 (24%), Positives = 58/125 (46%), Gaps = 14/125 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK+I+  R++   +Q+ LGE +  T  +V  YE+G   V   +L  ++E L   I+   
Sbjct: 166 IGKKIKEWRLVREYTQKDLGEKMSTTRHEVSNYEQGRTAVPLDKLYEMAEALSINITDLL 225

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII-ELVRSIVSSEKKY 133
                    I  +E + ++     +   L + + +I+  ++R  +I  L   I   E+K 
Sbjct: 226 ---------IEKDEGSRVE----NELPNLIKEYKEIESQELRNALIKSLFEGIRICEEKV 272

Query: 134 RTIEE 138
           R IE 
Sbjct: 273 REIER 277


>gi|268589692|ref|ZP_06123913.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291315003|gb|EFE55456.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 103

 Score = 93.3 bits (231), Expect = 9e-18,   Method: Composition-based stats.
 Identities = 29/95 (30%), Positives = 53/95 (55%), Gaps = 4/95 (4%)

Query: 11  VDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +DI+  +G +I+ RR  LG+S   L + L ++ QQ+ +YE G+N++  + L  I+E L  
Sbjct: 1   MDIHTIIGIKIKNRRKELGLSGANLADKLNLSQQQISRYENGINKIPINHLVDIAEALNC 60

Query: 69  PISFFFDVSPTVCSDISSEENNVM--DFISTPDGL 101
           PI +FF    +      +E +N +  + I T + +
Sbjct: 61  PIEWFFQGYVSNSKSNKNEPSNELNQELIYTAESV 95


>gi|300721858|ref|YP_003711136.1| NilR transcription factor [Xenorhabdus nematophila ATCC 19061]
 gi|106635962|gb|ABF82228.1| NilR [Xenorhabdus nematophila]
 gi|297628353|emb|CBJ88916.1| NilR transcription factor [Xenorhabdus nematophila ATCC 19061]
          Length = 101

 Score = 93.3 bits (231), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 28/91 (30%), Positives = 53/91 (58%), Gaps = 1/91 (1%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++ VG+RI+ +R  L ++   L + +GI+ QQ+ +YE+G NR+    L  I+++LE+PI 
Sbjct: 5   NLLVGQRIQTKRKELSITATALAKQIGISQQQLSRYERGTNRINLDHLVVIADILETPID 64

Query: 72  FFF-DVSPTVCSDISSEENNVMDFISTPDGL 101
           +FF D + +   D S+       +I   + +
Sbjct: 65  WFFLDCNKSKKKDGSTVNKITDQYIPIAETI 95


>gi|222087278|ref|YP_002545813.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221724726|gb|ACM27882.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 200

 Score = 93.3 bits (231), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 26/125 (20%), Positives = 64/125 (51%), Gaps = 5/125 (4%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + +  + +D +VG+++R+ RM   +SQ +LG+ +G+  QQ++++E   NR+  + L  ++
Sbjct: 29  DTQSTHLIDRHVGQQLRIIRMHSNLSQTELGQLVGLRHQQIEQFESSKNRMNTAVLCEVA 88

Query: 64  EVLESPISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
             L  PI+  F+  P            E    +  + T +  +  +  +++   ++R + 
Sbjct: 89  NCLNVPIARVFEALPLTELASSDGSLPEIGECIADLPTSESCRYVKEILRLP-PQLRTRA 147

Query: 120 IELVR 124
           + L++
Sbjct: 148 LALIK 152


>gi|209966969|ref|YP_002299884.1| transcriptional regulator, Cro [Rhodospirillum centenum SW]
 gi|209960435|gb|ACJ01072.1| transcriptional regulator, Cro [Rhodospirillum centenum SW]
          Length = 191

 Score = 93.0 bits (230), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 35/129 (27%), Positives = 63/129 (48%), Gaps = 8/129 (6%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V   +G+R+R RR +LGM+Q++LG  +G+TFQQVQKYE+G NRV    L  ++  L++  
Sbjct: 21  VSAALGERVRARRGLLGMTQQELGRRVGLTFQQVQKYERGSNRVAVPTLIKLANALDTTP 80

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           +   +        + + +    D     + L L     +I    VR  ++ L +++    
Sbjct: 81  ADLLEG-------LGATQVGSRDAALDRESLNLLSASRRIP-AGVRHAMVGLAKALAEGR 132

Query: 131 KKYRTIEEE 139
                  ++
Sbjct: 133 SVDAAFLDQ 141


>gi|227357946|ref|ZP_03842289.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|6453635|emb|CAB61440.1| mrpJ [Proteus mirabilis HI4320]
 gi|227161855|gb|EEI46884.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 107

 Score = 93.0 bits (230), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 29/104 (27%), Positives = 57/104 (54%), Gaps = 4/104 (3%)

Query: 1   MVGNKKIPN-PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M+ N    N  V+ +VGK+I+ +R  LG +  +L + +G++ QQ  +YE+G+N++    L
Sbjct: 1   MMMNFDFANIDVNASVGKKIQKKRKELGYTGMQLAKKIGVSQQQFSRYERGMNKIDLRHL 60

Query: 60  QHISEVLESPISFFFDV---SPTVCSDISSEENNVMDFISTPDG 100
             ++  L +PI +FF+         ++   ++ N +   +TPD 
Sbjct: 61  VLLALYLNTPIYWFFEDCYVKKPSLNNKGIDKRNYVIAQATPDA 104


>gi|261343818|ref|ZP_05971463.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282568202|gb|EFB73737.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 103

 Score = 93.0 bits (230), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 26/85 (30%), Positives = 46/85 (54%), Gaps = 2/85 (2%)

Query: 11 VDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +DI+  +G RI+ RR  LG+S   L   L ++ QQ+ +YE G+N++    L  I+++L  
Sbjct: 1  MDIHSIIGTRIKNRRKELGLSGANLASKLNLSQQQISRYENGINKIPIDHLLDIADILMC 60

Query: 69 PISFFFDVSPTVCSDISSEENNVMD 93
          PI +FF       +D      ++ +
Sbjct: 61 PIEWFFKGYKNEDNDNEQVPFDITN 85


>gi|48527206|gb|AAT45743.1| putative Cro/CI family trancriptional regulator [Rhizobium etli]
          Length = 76

 Score = 92.6 bits (229), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 38/65 (58%), Positives = 46/65 (70%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+PVDI VG+ IR  R I  +SQ  LGE LG+TFQQ+QKYEKG NRV AS+L  I+  L
Sbjct: 1  MPDPVDIIVGRNIRQLRAIRRVSQLDLGEALGLTFQQIQKYEKGTNRVSASKLHQIAVFL 60

Query: 67 ESPIS 71
             IS
Sbjct: 61 GVEIS 65


>gi|223041436|ref|ZP_03611639.1| hypothetical protein AM202_0055 [Actinobacillus minor 202]
 gi|223017694|gb|EEF16101.1| hypothetical protein AM202_0055 [Actinobacillus minor 202]
          Length = 127

 Score = 92.6 bits (229), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 34/127 (26%), Positives = 61/127 (48%), Gaps = 17/127 (13%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VD  +GKRI+ RR  LG++   L E +GI  QQ+ +YE+G N++  S L  I+  L++ 
Sbjct: 8   DVDRFIGKRIQQRRKELGLTASALSEQIGIAQQQLSRYERGDNKINVSHLVEIATALDTS 67

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           I +FF       S  +                   R FI + + +VR+++   +  + + 
Sbjct: 68  IGWFFIDCLAEDSKTTH-----------------TRKFIPVGEDEVRERLTYHMDQLSAD 110

Query: 130 EKKYRTI 136
           E++   +
Sbjct: 111 ERRGLLV 117


>gi|290473639|ref|YP_003466511.1| transcriptional regulator (MrfJ protein) [Xenorhabdus bovienii
           SS-2004]
 gi|289172944|emb|CBJ79715.1| Transcriptional regulator (MrfJ protein) [Xenorhabdus bovienii
           SS-2004]
          Length = 100

 Score = 92.6 bits (229), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 29/87 (33%), Positives = 49/87 (56%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VGKRI  +R  LG++   L + +GI+ QQ+ +YE+G NR+  + L  IS+ L +PIS+FF
Sbjct: 8   VGKRICTKRKELGITATALAKQIGISQQQLSRYERGTNRININHLVVISKQLGTPISWFF 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL 101
           +       + S+       +I   + +
Sbjct: 68  EECFKDEKEDSTVNKLTDQYIPIAETV 94


>gi|213019728|ref|ZP_03335533.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212994769|gb|EEB55412.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 300

 Score = 92.2 bits (228), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 32/126 (25%), Positives = 59/126 (46%), Gaps = 12/126 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D  VG++++  R+  G +Q+ L E +G+ +  + +YEKG  R+   RL  I+E L
Sbjct: 1   MEKSLDCEVGEKVKNWRLERGYTQKDLAEKIGVKYWVILQYEKGNRRISIERLYAITEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              I+    +S +   D               + L L R + +I+D ++R+    L   +
Sbjct: 61  SISITDLIPISKSCLEDEGE------------EILNLVREYKKINDQELRKMFCLLTNFV 108

Query: 127 VSSEKK 132
             SEK 
Sbjct: 109 QISEKS 114



 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 29/126 (23%), Positives = 56/126 (44%), Gaps = 14/126 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++   +Q+ L E +  T  ++  YE+G   V   +L  ++E L   I+  
Sbjct: 159 QIGKKIKEWRLVREYTQKDLAEKMNTTRDEISNYEQGRTAVPLDKLYEMAEALSINITDL 218

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII-ELVRSIVSSEKK 132
                    + S+ EN + D         L + + +I+  ++R  +I  L   +   E+K
Sbjct: 219 L----IEKDEGSTVENELPD---------LIKEYKEIESQELRNALIKSLFEGMHICEEK 265

Query: 133 YRTIEE 138
            R  E 
Sbjct: 266 VRKAER 271


>gi|163869149|ref|YP_001610389.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018836|emb|CAK02394.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 128

 Score = 92.2 bits (228), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 35/87 (40%), Positives = 49/87 (56%), Gaps = 4/87 (4%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           MSQ  LG  LG++FQQ+QKYEKG+NRV A RL  IS++L  PISFF+    T        
Sbjct: 1   MSQTTLGHALGVSFQQIQKYEKGLNRVSAGRLMQISDILNVPISFFYADIITKQQPPHHH 60

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +    + IS+ +   L + F  +  + 
Sbjct: 61  D----EVISSTEEYLLLKRFRTLTSIN 83


>gi|190570721|ref|YP_001975079.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|190356993|emb|CAQ54382.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
          Length = 304

 Score = 91.8 bits (227), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 32/123 (26%), Positives = 58/123 (47%), Gaps = 12/123 (9%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +D  VG++++  R+  G +Q+ L E +G+ +  + +YEKG  R+   RL  I+E L   
Sbjct: 8   SLDCEVGEKVKNWRLERGYTQKDLAEKIGVKYWVILQYEKGNRRISIERLYAITEALSIS 67

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           I+    +S +   D               + L L R + +I+D ++R+    L   +  S
Sbjct: 68  ITDLIPISKSCLEDEGE------------EILNLVREYKKINDQELRKMFCLLTNFVQIS 115

Query: 130 EKK 132
           EK 
Sbjct: 116 EKS 118



 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 29/126 (23%), Positives = 56/126 (44%), Gaps = 14/126 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++   +Q+ L E +  T  ++  YE+G   V   +L  ++E L   I+  
Sbjct: 163 QIGKKIKEWRLVREYTQKDLAEKMNTTRDEISNYEQGRTAVPLDKLYEMAEALSINITDL 222

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII-ELVRSIVSSEKK 132
                    + S+ EN + D         L + + +I+  ++R  +I  L   +   E+K
Sbjct: 223 L----IEKDEGSTVENELPD---------LIKEYKEIESQELRNALIKSLFEGMHICEEK 269

Query: 133 YRTIEE 138
            R  E 
Sbjct: 270 VRKAER 275


>gi|212711887|ref|ZP_03320015.1| hypothetical protein PROVALCAL_02962 [Providencia alcalifaciens
          DSM 30120]
 gi|212685409|gb|EEB44937.1| hypothetical protein PROVALCAL_02962 [Providencia alcalifaciens
          DSM 30120]
          Length = 103

 Score = 91.8 bits (227), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 28/68 (41%), Positives = 43/68 (63%), Gaps = 2/68 (2%)

Query: 11 VDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +DI+  +G RI+ RR  LG+S   L + L ++ QQ+ +YE GVN++    L  ISE+L  
Sbjct: 1  MDIHSVIGLRIKNRRKELGLSGANLADRLHLSQQQISRYENGVNKIPIDHLLDISEILMC 60

Query: 69 PISFFFDV 76
          PI +FF+ 
Sbjct: 61 PIEWFFNG 68


>gi|99035917|ref|ZP_01314965.1| hypothetical protein Wendoof_01000195 [Wolbachia endosymbiont of
           Drosophila willistoni TSC#14030-0811.24]
          Length = 306

 Score = 91.8 bits (227), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 28/114 (24%), Positives = 53/114 (46%), Gaps = 10/114 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  VG++++  R+  G +Q+ L E +G+ +  + +YEKG  R+   RL  I+  L   I
Sbjct: 9   LDYEVGEKVKSWRLERGYTQKDLAEKIGVKYWVILQYEKGNRRISIERLYAIAGALSVSI 68

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +     S       + E           + L L R + +I+D ++R+    L +
Sbjct: 69  TDLITASKEKIGFKNEEG----------EILNLVREYKKINDQELRRMFCLLTK 112



 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 31/126 (24%), Positives = 56/126 (44%), Gaps = 14/126 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VGK+I+  R++   +Q+ L E +  T  ++  YE+G       +L  I+E L   I   
Sbjct: 165 QVGKKIKEWRLVREYTQKDLAEKMNTTRDEISNYEQGRVATPLGKLYEIAEALSISI--- 221

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII-ELVRSIVSSEKK 132
                   +D+ +EE+         +   L + + +I+  ++R  +I  L   I   E+K
Sbjct: 222 --------TDLLTEEDEGSRV--ENELPDLIKEYKEIESQELRHALIKSLFEGIRICEEK 271

Query: 133 YRTIEE 138
            R IE 
Sbjct: 272 VREIER 277


>gi|197284179|ref|YP_002150051.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|194681666|emb|CAR40739.1| fimbrial operon regulator [Proteus mirabilis HI4320]
          Length = 106

 Score = 91.4 bits (226), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 53/94 (56%), Gaps = 3/94 (3%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            V+ +VGK+I+ +R  LG +  +L + +G++ QQ  +YE+G+N++    L  ++  L +P
Sbjct: 10  DVNASVGKKIQKKRKELGYTGMQLAKKIGVSQQQFSRYERGMNKIDLRHLVLLALYLNTP 69

Query: 70  ISFFFDV---SPTVCSDISSEENNVMDFISTPDG 100
           I +FF+         ++   ++ N +   +TPD 
Sbjct: 70  IYWFFEDCYVKKPSLNNKGIDKRNYVIAQATPDA 103


>gi|150378060|ref|YP_001314655.1| XRE family transcriptional regulator [Sinorhizobium medicae
          WSM419]
 gi|150032607|gb|ABR64722.1| transcriptional regulator, XRE family [Sinorhizobium medicae
          WSM419]
          Length = 148

 Score = 91.0 bits (225), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 30/67 (44%), Positives = 42/67 (62%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           VD  VG  IR  R I G+SQ+KLG+ +G+TFQQ+QKY+ G +R+ ASRL   +  L   
Sbjct: 9  DVDATVGTNIRRFREISGISQKKLGDAIGVTFQQIQKYDSGKDRISASRLVETARALGCD 68

Query: 70 ISFFFDV 76
          ++  F  
Sbjct: 69 LNSLFAG 75


>gi|148262670|ref|YP_001229376.1| XRE family transcriptional regulator [Geobacter uraniireducens Rf4]
 gi|146396170|gb|ABQ24803.1| transcriptional regulator, XRE family [Geobacter uraniireducens
           Rf4]
          Length = 113

 Score = 90.6 bits (224), Expect = 6e-17,   Method: Composition-based stats.
 Identities = 29/108 (26%), Positives = 53/108 (49%), Gaps = 13/108 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G R+R  R   G +QE+L E +G++ QQ+QKYE G N++   RLQ +++ L  PI  
Sbjct: 8   REIGHRLRQLRQQAGWTQERLAEQIGVSTQQIQKYECGTNKMNTDRLQQVAQALSIPIQS 67

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            F  +                 ++  + L L   +  I + ++++ I+
Sbjct: 68  LFTDTNDSLP------------LAVAEKL-LIDSYRAIPNKEIQESIL 102


>gi|302337126|ref|YP_003802332.1| XRE family transcriptional regulator [Spirochaeta smaragdinae DSM
           11293]
 gi|301634311|gb|ADK79738.1| transcriptional regulator, XRE family [Spirochaeta smaragdinae DSM
           11293]
          Length = 132

 Score = 90.6 bits (224), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 34/121 (28%), Positives = 62/121 (51%), Gaps = 3/121 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ IR  R   G+SQ  LGE +G+++QQ+QKYE G + + A +L  I+E+L  PI  FF
Sbjct: 8   IGRNIRSYRKACGLSQASLGEKVGVSYQQIQKYENGASSISAFQLGRIAEILAVPIDCFF 67

Query: 75  --DVSPTVCSDISSEENNVMDFIS-TPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
             D      +  +       +F+  + D  +L   + +I    +++ +   + +I   E+
Sbjct: 68  HLDTESGAEAPPAYSSEIGDEFLRVSQDERKLLLRYREIKTPLIKKYLQNHMNAIRELER 127

Query: 132 K 132
            
Sbjct: 128 N 128


>gi|226328868|ref|ZP_03804386.1| hypothetical protein PROPEN_02769 [Proteus penneri ATCC 35198]
 gi|225202054|gb|EEG84408.1| hypothetical protein PROPEN_02769 [Proteus penneri ATCC 35198]
          Length = 112

 Score = 90.3 bits (223), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 23/66 (34%), Positives = 43/66 (65%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+  VGKRI+ +R  LG +  ++ + +G++ QQ  +YE+G+N++  S L  ++  L +PI
Sbjct: 17 VNALVGKRIQKKRKELGYTGMQIAKKIGVSQQQFSRYERGMNKIDLSYLVLLANYLNTPI 76

Query: 71 SFFFDV 76
           +FF+ 
Sbjct: 77 YWFFED 82


>gi|220925738|ref|YP_002501040.1| XRE family transcriptional regulator [Methylobacterium nodulans
          ORS 2060]
 gi|219950345|gb|ACL60737.1| transcriptional regulator, XRE family [Methylobacterium nodulans
          ORS 2060]
          Length = 149

 Score = 90.3 bits (223), Expect = 8e-17,   Method: Composition-based stats.
 Identities = 29/95 (30%), Positives = 48/95 (50%), Gaps = 2/95 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G  K  +  D+++G+RI   R    +S+E L + LGI+  Q  KYEKG+NR+ A+ L 
Sbjct: 1  MAG--KPADARDVHIGQRIERLRKQAKLSREALAQRLGISDSQFGKYEKGLNRMSAADLD 58

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENNVMDFI 95
           +  + + PI +FF+  P   +            +
Sbjct: 59 FVGRLFDVPIGYFFEGLPRGEAAGPGLAERPQAVL 93


>gi|206889709|ref|YP_002248181.1| DNA binding protein [Thermodesulfovibrio yellowstonii DSM 11347]
 gi|206741647|gb|ACI20704.1| DNA binding protein [Thermodesulfovibrio yellowstonii DSM 11347]
          Length = 107

 Score = 90.3 bits (223), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 35/115 (30%), Positives = 63/115 (54%), Gaps = 10/115 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+ I+  R   G SQ +L E +GIT+QQ+QKYEKG +++   RL  I+  L+ P+S 
Sbjct: 1   MKIGEIIKRLRKAKGFSQMELAEKIGITYQQLQKYEKGKSKITVDRLIDIARALDVPLS- 59

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                  + S+I  +EN     I + + +    YF +I D ++R+  +++   + 
Sbjct: 60  ------AILSEIYKKENIE---IYSEEEIVFLEYFRKISDPELRKSFLKIFEQLS 105


>gi|154247535|ref|YP_001418493.1| XRE family transcriptional regulator [Xanthobacter autotrophicus
           Py2]
 gi|154161620|gb|ABS68836.1| transcriptional regulator, XRE family [Xanthobacter autotrophicus
           Py2]
          Length = 130

 Score = 90.3 bits (223), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 33/104 (31%), Positives = 52/104 (50%), Gaps = 5/104 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   K     +D+ +G R++  R+  G+SQE LGE LGITFQQ+QKYE G NR+  S L 
Sbjct: 1   MPTLKDKTKELDVVIGFRVKQSRLRSGVSQEALGEHLGITFQQIQKYENGKNRIACSTLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            I++ L+    F    +      +    +      ++ + + L 
Sbjct: 61  MIADFLKVSALFLLRGTEKDAGALPQARDT-----ASVEAVDLL 99


>gi|183599041|ref|ZP_02960534.1| hypothetical protein PROSTU_02486 [Providencia stuartii ATCC
          25827]
 gi|188021257|gb|EDU59297.1| hypothetical protein PROSTU_02486 [Providencia stuartii ATCC
          25827]
          Length = 104

 Score = 89.5 bits (221), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 28/81 (34%), Positives = 45/81 (55%), Gaps = 2/81 (2%)

Query: 11 VDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +DI+  +G +I+ RR  LG+S   L + L I+ QQV +YE G+N++  + L  I+  L+ 
Sbjct: 1  MDIHYFIGIKIKTRRKELGLSGADLAKKLNISQQQVSRYENGINKIPLNHLVSIAIALKC 60

Query: 69 PISFFFDVSPTVCSDISSEEN 89
          PI +FF    T       +E 
Sbjct: 61 PIDWFFQGCITEEDYSMQDET 81


>gi|307317593|ref|ZP_07597032.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
 gi|306896751|gb|EFN27498.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
          Length = 89

 Score = 89.1 bits (220), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 35/81 (43%), Positives = 44/81 (54%), Gaps = 4/81 (4%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K     +D  +G R+R  R++ GMSQ  L E LGITFQQ+QKYEKG NR+ AS L  I +
Sbjct: 6  KAQTTHIDQKIGARVREFRLLRGMSQGALAEKLGITFQQMQKYEKGANRISASALILICK 65

Query: 65 VLESPISF----FFDVSPTVC 81
           L    +     FFD      
Sbjct: 66 ELGITPNHILGAFFDNDEDTE 86


>gi|296491936|ref|YP_003662403.1| hypothetical protein XNC1_p0124 [Xenorhabdus nematophila ATCC
           19061]
 gi|289176823|emb|CBJ92992.1| hypothetical protein XNC1_p0124 [Xenorhabdus nematophila ATCC
           19061]
          Length = 291

 Score = 89.1 bits (220), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 34/132 (25%), Positives = 61/132 (46%), Gaps = 10/132 (7%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V  N+G RI++ R  + ++   LG  +G++ QQ+ + E G NR+    L +I+  L  PI
Sbjct: 104 VTKNIGLRIQIWRKTMMLTAAALGLSVGLSQQQISRNEHGKNRIHIDHLVNIALALGIPI 163

Query: 71  SFFF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-VKVRQKIIE-----LV 123
           S+FF D  P +  + SS        I     L++      I   ++VR+K +      L 
Sbjct: 164 SWFFIDCHPDLEVNTSSHLPTTPTKIMDKPELEMMA--KNIGQRIRVRRKKLNVTLQGLA 221

Query: 124 RSIVSSEKKYRT 135
           +      ++  +
Sbjct: 222 KQ-AGMNQQTLS 232



 Score = 78.7 bits (193), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 23/73 (31%), Positives = 41/73 (56%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            N+G+RIR+RR  L ++ + L +  G+  Q + +YE G  R+ ++ L  I+  L +PI +
Sbjct: 200 KNIGQRIRVRRKKLNVTLQGLAKQAGMNQQTLSRYETGKKRITSTDLVIIAIALNTPIDW 259

Query: 73  FFDVSPTVCSDIS 85
           FF    ++  D  
Sbjct: 260 FFIDYSSLDDDFP 272



 Score = 69.5 bits (169), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 35/62 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G+R+ +RR   G+S   L +  GI+  Q+  YE G++ +  S L  IS  L +P  +
Sbjct: 11 KSIGQRVCIRRKEAGLSTHTLAQHTGISEAQLIMYETGLDDIPLSHLIQISAGLNTPTGW 70

Query: 73 FF 74
          FF
Sbjct: 71 FF 72


>gi|300724595|ref|YP_003713920.1| Repressor of flagellae, MrxJ [Xenorhabdus nematophila ATCC 19061]
 gi|22094605|gb|AAM91936.1|AF525420_7 putative repressor of flagellae [Xenorhabdus nematophila]
 gi|297631137|emb|CBJ91828.1| Repressor of flagellae, MrxJ [Xenorhabdus nematophila ATCC 19061]
          Length = 91

 Score = 89.1 bits (220), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 22/66 (33%), Positives = 41/66 (62%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V + VGKRI+++R   G++  +L + +G++ QQ+ +YE+G N++    L  IS  L +P 
Sbjct: 3  VSMLVGKRIQIKRKETGVTAAELADKIGVSHQQLSRYERGTNKISLEHLVAISIALNTPA 62

Query: 71 SFFFDV 76
           +F + 
Sbjct: 63 DWFLED 68


>gi|49476087|ref|YP_034128.1| transcriptional regulator [Bartonella henselae str. Houston-1]
 gi|49238895|emb|CAF28188.1| Transcriptional regulator [Bartonella henselae str. Houston-1]
          Length = 108

 Score = 89.1 bits (220), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 33/71 (46%), Positives = 47/71 (66%), Gaps = 4/71 (5%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI VGK+IR RR +L MSQ+ L + L ++ QQ+QKYE G+NRV A RL+ I++ +++   
Sbjct: 15 DIFVGKKIRFRRKMLKMSQKTLADHLRVSSQQIQKYETGLNRVSAGRLKEIADRVKT--- 71

Query: 72 FFFDVSPTVCS 82
           FFD      S
Sbjct: 72 -FFDDLSGGFS 81


>gi|255600423|ref|XP_002537454.1| conserved hypothetical protein [Ricinus communis]
 gi|223516285|gb|EEF24927.1| conserved hypothetical protein [Ricinus communis]
          Length = 89

 Score = 88.7 bits (219), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 29/87 (33%), Positives = 52/87 (59%), Gaps = 3/87 (3%)

Query: 44  VQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMD---FISTPDG 100
           +QKYE+G NR+ AS+L  I+  L++P+S FF+       D ++ + +      F STP+G
Sbjct: 1   IQKYERGDNRISASKLYAIAVFLKTPVSVFFEGLAKPGEDGATVDGSAQAAQMFASTPEG 60

Query: 101 LQLNRYFIQIDDVKVRQKIIELVRSIV 127
           ++L     QI    +R+ I+E++R++ 
Sbjct: 61  IELAGLLPQIGSQALRRHIVEIIRALA 87


>gi|222056285|ref|YP_002538647.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221565574|gb|ACM21546.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 126

 Score = 88.3 bits (218), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 36/120 (30%), Positives = 61/120 (50%), Gaps = 7/120 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  IR RR  L +SQE+L   L +++QQ+Q+YE G N++    +Q +++ L  P+ +FF
Sbjct: 12  IGAAIRRRRHELSLSQEELAARLEVSYQQIQRYESGKNKLNVENIQLVADALSVPVGYFF 71

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            V        S+ E         P   +L   F  I D +++  +I L R + +  K+ R
Sbjct: 72  QVVHQETVIESTIEQPC------PKEQELLAQFRSIRDDQMKTLVINLSR-LAAQGKEAR 124


>gi|261345516|ref|ZP_05973160.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282566568|gb|EFB72103.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 106

 Score = 88.3 bits (218), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 42/68 (61%), Gaps = 2/68 (2%)

Query: 11 VDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +DI+  +G +I+ RR  LG+S   L + L I+ QQ+ +YE G+N++  + L  I+  L+ 
Sbjct: 1  MDIHYFIGIKIKARRKELGLSGAGLAKILNISQQQISRYENGINKIPLNHLVSIAVALKC 60

Query: 69 PISFFFDV 76
          PI +FF  
Sbjct: 61 PIDWFFQG 68


>gi|163869010|ref|YP_001610241.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018688|emb|CAK02246.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 112

 Score = 87.9 bits (217), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 40/102 (39%), Positives = 68/102 (66%), Gaps = 12/102 (11%)

Query: 25  ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI 84
           +L +SQ++LG+ LG+TFQQ+QKYEKG+NRVGA RLQ I+++L+  I FF+       +DI
Sbjct: 1   MLKISQKQLGDRLGVTFQQIQKYEKGLNRVGAGRLQEIADILDISI-FFY-------ADI 52

Query: 85  SSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           S++E+ ++   +  S  +   L + F ++   K ++ I+ L+
Sbjct: 53  STKEHVLLPYEEMTSNQEEHTLLKSFRELK-PKQQKAILCLI 93


>gi|239947476|ref|ZP_04699229.1| helix-turn-helix domain protein [Rickettsia endosymbiont of Ixodes
           scapularis]
 gi|239921752|gb|EER21776.1| helix-turn-helix domain protein [Rickettsia endosymbiont of Ixodes
           scapularis]
          Length = 158

 Score = 87.9 bits (217), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 44/159 (27%), Positives = 75/159 (47%), Gaps = 41/159 (25%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N  I +P D    +R++ RR+ +G+SQ++LG+ L I+  QV+KYE+G      SRL   +
Sbjct: 2   NDSIKHP-DKLASERLKERRLAVGISQKELGQALDISALQVKKYEEG-----LSRLYVFA 55

Query: 64  EVLESPISFFF-------------------------DVSPTVCSDISSEENNVMDFIS-- 96
           +VL + + +FF                         ++     ++I+ EE    + IS  
Sbjct: 56  KVLNTSLKYFFNSSEEEKLKTDDENTSNNKIEYLFKEIESDFLNNIAEEEGQYENDISFD 115

Query: 97  --------TPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                     + L L R F ++ +  +R+ IIELVRS+ 
Sbjct: 116 YKELSRTMERELLSLTRAFTRVQNPNIRKIIIELVRSVS 154


>gi|329891045|ref|ZP_08269388.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
 gi|328846346|gb|EGF95910.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
          Length = 90

 Score = 87.2 bits (215), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 33/90 (36%), Positives = 62/90 (68%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P  +D+++G+R+R RR +LG++Q++LG+ +GI FQQ+QKYE G NR+ A+RL  ++E L
Sbjct: 1  MPAEIDLHLGRRLRRRRRLLGLTQQQLGDRVGIRFQQIQKYECGANRISAARLWELAEAL 60

Query: 67 ESPISFFFDVSPTVCSDISSEENNVMDFIS 96
          ++P+S+F+D +     +     +  +   +
Sbjct: 61 QTPVSYFYDGAGESPDNSQPRPDAPLAAAA 90


>gi|152979702|ref|YP_001345331.1| XRE family transcriptional regulator [Actinobacillus succinogenes
          130Z]
 gi|150841425|gb|ABR75396.1| transcriptional regulator, XRE family [Actinobacillus
          succinogenes 130Z]
          Length = 114

 Score = 86.8 bits (214), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 24/65 (36%), Positives = 43/65 (66%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +G+RI+ +R  +G S EKL E + ++ QQ+ +YE+G +++  + L  I+  L++PIS
Sbjct: 10 DKLIGQRIQQKRKEMGFSAEKLAEYIDLSQQQLSRYERGASKINVAHLIDIAIFLKTPIS 69

Query: 72 FFFDV 76
          +FF  
Sbjct: 70 WFFQD 74


>gi|163868978|ref|YP_001610208.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
 gi|161018655|emb|CAK02213.1| transcriptional regulator [Bartonella tribocorum CIP 105476]
          Length = 52

 Score = 86.0 bits (212), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 26/49 (53%), Positives = 36/49 (73%)

Query: 26 LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+SQ+ LG  LG++FQQ+QKYEKG NR+ A     I++ L+ PISFF 
Sbjct: 1  MGLSQKALGNFLGVSFQQIQKYEKGANRISAKCFLEIAQKLQVPISFFM 49


>gi|58699659|ref|ZP_00374339.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
 gi|58533824|gb|EAL58143.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
          Length = 226

 Score = 86.0 bits (212), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 33/124 (26%), Positives = 58/124 (46%), Gaps = 10/124 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + +++R  R+  G +Q+ L   +G+T+Q V +YEKG  ++   +L  I+EVL   I    
Sbjct: 19  IAQKVRSWRLKRGYTQKDLAGKIGVTYQVVLQYEKGTRKISIEKLYAIAEVLSVGIIDLI 78

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            VS       + EE          + L L R +  I+D ++R+    L +     EK  +
Sbjct: 79  PVSSEKICLKNEEE----------EILNLVRKYKTINDQELRKVFYLLTKFTRVGEKSSK 128

Query: 135 TIEE 138
             E+
Sbjct: 129 KAEK 132



 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 29/56 (51%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +GK+I+  R++   +Q+ L E +  T  ++  YE+G   +   +L  I+E L   
Sbjct: 171 QIGKKIKEWRLVREYTQKDLAEKMDTTRDEISNYEQGRVAIPLEKLYAIAETLSIS 226


>gi|148284913|ref|YP_001249003.1| putative transcriptional regulator [Orientia tsutsugamushi str.
          Boryong]
 gi|189183368|ref|YP_001937153.1| hypothetical protein OTT_0461 [Orientia tsutsugamushi str. Ikeda]
 gi|146740352|emb|CAM80780.1| putative transcriptional regulator [Orientia tsutsugamushi str.
          Boryong]
 gi|189180139|dbj|BAG39919.1| hypothetical protein OTT_0461 [Orientia tsutsugamushi str. Ikeda]
          Length = 79

 Score = 85.6 bits (211), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 25/78 (32%), Positives = 44/78 (56%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  + +  +  +  +G RI + R+   +S+  L   +G+T QQ+ KYEKG+NR+   RL 
Sbjct: 1  MAKHHEYIDRANRFIGNRIYMVRLEQKLSRNNLAASIGVTHQQLHKYEKGINRISIGRLM 60

Query: 61 HISEVLESPISFFFDVSP 78
           I++ L   + FF+D + 
Sbjct: 61 LIAKALNKNVDFFYDGAD 78


>gi|307315880|ref|ZP_07595384.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
 gi|306898470|gb|EFN29153.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
          Length = 123

 Score = 85.6 bits (211), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 33/120 (27%), Positives = 57/120 (47%), Gaps = 7/120 (5%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D  +G  IR  R I G+SQ KLG  +G+TFQQVQK E G +R+ + +L   +  L   ++
Sbjct: 11  DAALGTNIRRFREISGISQNKLGAAIGVTFQQVQKDESGKDRISSKKLVETARTLGCYLN 70

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
             +       + ++  +++          L+L     +I   + R  I  LV  + + E+
Sbjct: 71  SLYAGIGIGDATLAFPDHSTA-------ALKLAANLDRIASSEQRAAIALLVAGLATQEE 123


>gi|240140055|ref|YP_002964532.1| putative transcriptional regulator [Methylobacterium extorquens
           AM1]
 gi|254562480|ref|YP_003069575.1| transcriptional regulator [Methylobacterium extorquens DM4]
 gi|240010029|gb|ACS41255.1| putative transcriptional regulator [Methylobacterium extorquens
           AM1]
 gi|254269758|emb|CAX25730.1| putative transcriptional regulator [Methylobacterium extorquens
           DM4]
          Length = 140

 Score = 85.3 bits (210), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 34/139 (24%), Positives = 61/139 (43%), Gaps = 17/139 (12%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M G K   +  D+ +G+RI  +R    ++Q  + +  G++  Q+QKYEKGVNR+ A  L 
Sbjct: 6   MAGQK--TDERDVLLGRRIAEQRKRSKLTQRAVADSFGMSAAQLQKYEKGVNRISAIHLA 63

Query: 61  HISEVLESPISFFFDVSPTVCSDIS------SEENNVMDFISTPDGLQLNRYFIQ----I 110
            +S +  +P+S F D  P    +         +    ++  S      L R F +     
Sbjct: 64  ILSRLTNTPVSDFLDGIPHPDPETERGFSDNGQHAYAVEPWS-----DLARAFARQFTET 118

Query: 111 DDVKVRQKIIELVRSIVSS 129
              + R+++   V  +   
Sbjct: 119 FTEQQRRELSAAVEILSQE 137


>gi|307133110|ref|YP_003885126.1| putative transcriptional regulator [Dickeya dadantii 3937]
 gi|306530639|gb|ADN00570.1| Putative transcriptional regulator [Dickeya dadantii 3937]
          Length = 106

 Score = 85.3 bits (210), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 30/126 (23%), Positives = 60/126 (47%), Gaps = 26/126 (20%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQ 60
           K  PN  D+   +R++  R+  G+SQ+KLG   G    +   ++ +YEKGV+       Q
Sbjct: 2   KSRPNYHDVF-CQRLKQARLAKGLSQKKLGIAAGIDEFVASTRINRYEKGVHEASIDTAQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            +++ L+ P++FF+                     +  +  +L   F+++   K R +I+
Sbjct: 61  QLADALDVPLAFFY--------------------TADDELAELMLAFLRLSPEK-RAEIL 99

Query: 121 ELVRSI 126
            LV+++
Sbjct: 100 TLVKTV 105


>gi|163852720|ref|YP_001640763.1| helix-turn-helix domain-containing protein [Methylobacterium
           extorquens PA1]
 gi|218531560|ref|YP_002422376.1| XRE family transcriptional regulator [Methylobacterium
           chloromethanicum CM4]
 gi|163664325|gb|ABY31692.1| helix-turn-helix domain protein [Methylobacterium extorquens PA1]
 gi|218523863|gb|ACK84448.1| transcriptional regulator, XRE family [Methylobacterium
           chloromethanicum CM4]
          Length = 135

 Score = 85.3 bits (210), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 34/139 (24%), Positives = 61/139 (43%), Gaps = 17/139 (12%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M G K   +  D+ +G+RI  +R    ++Q  + +  G++  Q+QKYEKGVNR+ A  L 
Sbjct: 1   MAGQK--TDERDVLLGRRIAEQRKRSKLTQRAVADSFGMSAAQLQKYEKGVNRISAIHLA 58

Query: 61  HISEVLESPISFFFDVSPTVCSDIS------SEENNVMDFISTPDGLQLNRYFIQ----I 110
            +S +  +P+S F D  P    +         +    ++  S      L R F +     
Sbjct: 59  ILSRLTNTPVSDFLDGIPHPDPETERGFSDNGQHAYAVEPWS-----DLARAFARQFTET 113

Query: 111 DDVKVRQKIIELVRSIVSS 129
              + R+++   V  +   
Sbjct: 114 FTEQQRRELSAAVEILSQE 132


>gi|170743390|ref|YP_001772045.1| XRE family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168197664|gb|ACA19611.1| transcriptional regulator, XRE family [Methylobacterium sp. 4-46]
          Length = 149

 Score = 84.9 bits (209), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 31/136 (22%), Positives = 58/136 (42%), Gaps = 17/136 (12%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M G  K  +  D ++G+RI   R+   + ++ +   LGI+  Q  KYEKG NR+ A+ L 
Sbjct: 1   MAG--KPADARDAHIGQRIEQLRLKAKIPRDVVAGRLGISASQFGKYEKGANRMSAADLD 58

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ----------I 110
            +  + + PI +FF+  P                ++  +       F            +
Sbjct: 59  AVGRLFDVPIGYFFEGMPRDEGTGPGLRERPQPPLAGAESWT---GFAGAVARAADAHLL 115

Query: 111 DDVKVRQKIIELVRSI 126
            D   R+++  +VR++
Sbjct: 116 TDD--RRRLAAVVRAL 129


>gi|114797386|ref|YP_760560.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114737560|gb|ABI75685.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 127

 Score = 84.9 bits (209), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 29/86 (33%), Positives = 43/86 (50%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
              + P  VD  VG++IR  R+    +  +LG+ LGI+ QQ+QKYE G NR+ A  L  
Sbjct: 8  AAGSRSPTKVDQQVGEKIRELRIAQNFTLSELGQELGISHQQLQKYETGTNRLSAGMLSS 67

Query: 62 ISEVLESPISFFFDVSPTVCSDISSE 87
          ++  L  PI+  F  S     +    
Sbjct: 68 VARALRVPIAELFQTSDATSQEARDP 93


>gi|268592295|ref|ZP_06126516.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291312076|gb|EFE52529.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 94

 Score = 84.1 bits (207), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 27/89 (30%), Positives = 47/89 (52%), Gaps = 2/89 (2%)

Query: 7  IPNP--VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          +PN   +   +G +I   R + GM+ E L   +G++ QQ  +YE+G+NR+   RL H S+
Sbjct: 1  MPNYYLISKIIGNKITYYRKMKGMTLENLSNIVGVSEQQQSRYERGINRINIDRLYHYSK 60

Query: 65 VLESPISFFFDVSPTVCSDISSEENNVMD 93
          + E  I  FF  +    ++I   E   ++
Sbjct: 61 IFEIDIMAFFIFNSREINEIEHAEEKYLN 89


>gi|213019847|ref|ZP_03335649.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212994595|gb|EEB55241.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 310

 Score = 84.1 bits (207), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 30/129 (23%), Positives = 57/129 (44%), Gaps = 10/129 (7%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +   + +++R  R+  G +Q+ L   +G+T+Q V +YEKG  ++   +L  I+E L   
Sbjct: 12  SIRYQIAQKVRSWRLKRGYTQKDLAGKIGVTYQIVLQYEKGTRKISIEKLYAIAEALSVS 71

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           I+    VS       + EE          + L L R + +I   ++R+    L +     
Sbjct: 72  IADLIPVSNEKIYLENKEE----------EILNLIREYKKISGQELRKVFCLLTKFARVG 121

Query: 130 EKKYRTIEE 138
           E+  +  E 
Sbjct: 122 EENSKKTER 130



 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 15/113 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++ G +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I   
Sbjct: 169 QIGKKIKEWRLVRGYTQKDLAEKMSTTRDEISNYEQGRVAIPLEKLYAIAETLSINIMDL 228

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
            +++      + +E  N            L   + +I+  ++R     L++ +
Sbjct: 229 LELTEDADDKVENELPN------------LIEEYKEIESQELR---YALIKFL 266


>gi|58699142|ref|ZP_00373967.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
 gi|58534342|gb|EAL58516.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
          Length = 312

 Score = 84.1 bits (207), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 33/124 (26%), Positives = 58/124 (46%), Gaps = 10/124 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + +++R  R+  G +Q+ L   +G+T+Q V +YEKG  ++   +L  I+EVL   I    
Sbjct: 19  IAQKVRSWRLKRGYTQKDLAGKIGVTYQVVLQYEKGTRKISIEKLYAIAEVLSVGIIDLI 78

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            VS       + EE          + L L R +  I+D ++R+    L +     EK  +
Sbjct: 79  PVSSEKICLKNEEE----------EILNLVRKYKTINDQELRKVFYLLTKFTRVGEKSSK 128

Query: 135 TIEE 138
             E+
Sbjct: 129 KAEK 132



 Score = 68.3 bits (166), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 54/113 (47%), Gaps = 18/113 (15%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++   +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I   
Sbjct: 171 QIGKKIKEWRLVREYTQKDLAEKMDTTRDEISNYEQGRVAIPLEKLYAIAETLSISI--- 227

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                   +D+  EE+ +++     +   L + + +I+  ++R     L++S+
Sbjct: 228 --------TDLLIEEDEIVE----SELPDLIKEYKKIESQELR---YALIKSL 265


>gi|329889881|ref|ZP_08268224.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
 gi|328845182|gb|EGF94746.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
          Length = 133

 Score = 84.1 bits (207), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 33/124 (26%), Positives = 58/124 (46%), Gaps = 13/124 (10%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +  +G+R+R RR  LG+SQ  LG  +G++ QQ+QKYE G N V ASRL  +S  L +   
Sbjct: 11  NRAIGERVRRRRKELGLSQTALGAKIGVSCQQIQKYENGRNSVAASRLHQLSLALATTAP 70

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
               +      +   E              +L + +  + + + R+ ++  V ++  S  
Sbjct: 71  ALIGLKSWDEGEDGGERA------------RLLQAWSVLPNHQ-REPLLRYVEALALSAD 117

Query: 132 KYRT 135
            + T
Sbjct: 118 PHVT 121


>gi|212710089|ref|ZP_03318217.1| hypothetical protein PROVALCAL_01142 [Providencia alcalifaciens
          DSM 30120]
 gi|212687296|gb|EEB46824.1| hypothetical protein PROVALCAL_01142 [Providencia alcalifaciens
          DSM 30120]
          Length = 94

 Score = 84.1 bits (207), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 39/71 (54%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+   VG RI+  R   G++  ++   L ++ QQ  +YE+G+NR+    L  I++  +  
Sbjct: 11 PIAKIVGSRIKKLRKEYGLTGTEIAAYLNVSQQQFSRYERGINRIDIDSLVMIADFFKIS 70

Query: 70 ISFFFDVSPTV 80
          I +FF+   TV
Sbjct: 71 IHYFFEDISTV 81


>gi|58697513|ref|ZP_00372774.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila simulans]
 gi|58536024|gb|EAL59708.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila simulans]
          Length = 247

 Score = 84.1 bits (207), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 33/124 (26%), Positives = 58/124 (46%), Gaps = 10/124 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + +++R  R+  G +Q+ L   +G+T+Q V +YEKG  ++   +L  I+EVL   I    
Sbjct: 10  IAQKVRSWRLKRGYTQKDLAGKIGVTYQVVLQYEKGTRKISIEKLYAIAEVLSVGIIDLI 69

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            VS       + EE          + L L R +  I+D ++R+    L +     EK  +
Sbjct: 70  PVSSEKICLKNEEE----------EILNLVRKYKTINDQELRKVFYLLTKFTRVGEKSSK 119

Query: 135 TIEE 138
             E+
Sbjct: 120 KAEK 123



 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 47/101 (46%), Gaps = 15/101 (14%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++   +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I   
Sbjct: 162 QIGKKIKEWRLVREYTQKDLAEKMDTTRDEISNYEQGRVAIPLEKLYAIAETLSISI--- 218

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
                   +D+  EE+ +++     +   L + + +I+  +
Sbjct: 219 --------TDLLIEEDEIVE----SELPDLIKEYKKIESQE 247


>gi|226330186|ref|ZP_03805704.1| hypothetical protein PROPEN_04099 [Proteus penneri ATCC 35198]
 gi|225200981|gb|EEG83335.1| hypothetical protein PROPEN_04099 [Proteus penneri ATCC 35198]
          Length = 94

 Score = 84.1 bits (207), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 25/83 (30%), Positives = 44/83 (53%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +K I   ++  +G RI  +R   G +  ++   LGI+ QQ  +YE+G N++   +L  IS
Sbjct: 3  DKNIKLSINEVIGNRISKKRREQGWTGNQVASLLGISQQQFSRYERGRNQISVYQLMKIS 62

Query: 64 EVLESPISFFFDVSPTVCSDISS 86
           +L + I++FFD    + S    
Sbjct: 63 RILNTSINWFFDDYEKIDSSTGE 85


>gi|85704294|ref|ZP_01035397.1| hypothetical protein ROS217_14886 [Roseovarius sp. 217]
 gi|85671614|gb|EAQ26472.1| hypothetical protein ROS217_14886 [Roseovarius sp. 217]
          Length = 136

 Score = 84.1 bits (207), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 34/137 (24%), Positives = 58/137 (42%), Gaps = 7/137 (5%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
              N +D+ VG+ +R  R+  G +   L    G+T QQ+QKYE G NRV  SRL  +S  
Sbjct: 3   SKQNDIDVIVGRVLRRTRLASGHTMTSLAAQCGVTHQQLQKYESGSNRVSVSRLFILSNA 62

Query: 66  LESPISFFFDVSPTVCSDISSEENNV----MDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           L  P +   D    +     S+  +     + F       ++      + D +V Q ++ 
Sbjct: 63  LGIPPAELIDQVQELLGRDRSDPVDSAWHRLQFAKPEHCRKIISGLASVRDTEVLQSVLN 122

Query: 122 LVRSIVSSEKKYRTIEE 138
           L   +   ++    +E 
Sbjct: 123 L---LAVLDQNEGRVER 136


>gi|42520477|ref|NP_966392.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|225630365|ref|YP_002727156.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|225630759|ref|YP_002727550.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|42410216|gb|AAS14326.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|225592346|gb|ACN95365.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|225592740|gb|ACN95759.1| transcriptional regulator, putative [Wolbachia sp. wRi]
          Length = 303

 Score = 83.7 bits (206), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 33/124 (26%), Positives = 58/124 (46%), Gaps = 10/124 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + +++R  R+  G +Q+ L   +G+T+Q V +YEKG  ++   +L  I+EVL   I    
Sbjct: 10  IAQKVRSWRLKRGYTQKDLAGKIGVTYQVVLQYEKGTRKISIEKLYAIAEVLSVGIIDLI 69

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            VS       + EE          + L L R +  I+D ++R+    L +     EK  +
Sbjct: 70  PVSSEKICLKNEEE----------EILNLVRKYKTINDQELRKVFYLLTKFTRVGEKSSK 119

Query: 135 TIEE 138
             E+
Sbjct: 120 KAEK 123



 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 54/113 (47%), Gaps = 18/113 (15%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++   +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I   
Sbjct: 162 QIGKKIKEWRLVREYTQKDLAEKMDTTRDEISNYEQGRVAIPLEKLYAIAETLSISI--- 218

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                   +D+  EE+ +++     +   L + + +I+  ++R     L++S+
Sbjct: 219 --------TDLLIEEDEIVE----SELPDLIKEYKKIESQELR---YALIKSL 256


>gi|316933837|ref|YP_004108819.1| helix-turn-helix domain-containing protein [Rhodopseudomonas
           palustris DX-1]
 gi|315601551|gb|ADU44086.1| helix-turn-helix domain protein [Rhodopseudomonas palustris DX-1]
          Length = 152

 Score = 83.7 bits (206), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 30/98 (30%), Positives = 52/98 (53%), Gaps = 2/98 (2%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +D  +  R+R+ R+  G+SQEK  E LG++FQQVQKYE G NR+   +L  ++ +   P
Sbjct: 26  YIDSRIAARLRVARIEAGLSQEKTAEALGLSFQQVQKYESGKNRISPGKLAVLAALYGKP 85

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
           I+ F+          ++  + V   + +  G ++   F
Sbjct: 86  IASFY--HELEQPPATTSRDLVERVLESRTGRRMVLGF 121


>gi|213019778|ref|ZP_03335581.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212994608|gb|EEB55253.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 306

 Score = 83.3 bits (205), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 34/133 (25%), Positives = 64/133 (48%), Gaps = 11/133 (8%)

Query: 1   MVGNKKIPNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M       N +D   VG+++R  R+  G +Q+ L + +G T+Q + +YEKG  R+  ++L
Sbjct: 1   MKKENNYSNFLDYKVVGQKVRSCRIAKGYTQKDLAKKIGTTYQVILQYEKGTRRISITKL 60

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
             ++E L +              ++S+EE    +     + L L R   +I D ++R+  
Sbjct: 61  YELAEALSTTARDL-----ACVQEVSNEERYEGE-----EVLNLVRRHKEIKDQELRETF 110

Query: 120 IELVRSIVSSEKK 132
             L + I  SE++
Sbjct: 111 YLLTKFIRISEEE 123



 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 30/112 (26%), Positives = 54/112 (48%), Gaps = 16/112 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+RI+  R+  G +QE L   +GI  Q++ +YE+G   V    L  I++VL   I+   
Sbjct: 167 VGQRIKEWRLRRGYTQEDLASKVGIINQRIYEYEQGRAAVSLEMLNEIAKVLLINIT--- 223

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           D+ P    + +SE           +  +L   + +I   ++R     L++S+
Sbjct: 224 DLLPEARENENSEA----------ELSRLIEEYKKIKSQELR---HVLIKSL 262


>gi|170745337|ref|YP_001766794.1| XRE family transcriptional regulator [Methylobacterium
           radiotolerans JCM 2831]
 gi|170658938|gb|ACB27992.1| transcriptional regulator, XRE family [Methylobacterium
           radiotolerans JCM 2831]
          Length = 138

 Score = 83.3 bits (205), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 26/97 (26%), Positives = 52/97 (53%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P+D ++G+RIR  R    +   +LG  LG + QQ++KYE+G++R+ AS L  I+ +L+ P
Sbjct: 24  PLDRDIGERIRKHRQDRRLGYGQLGGMLGFSGQQMRKYERGLSRIPASTLYVIAHILDVP 83

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           +++       + + I      +   +S  + ++    
Sbjct: 84  VNYLLPDEKRMLNPIQQRIQEITTKLSYIEDVRFLVA 120


>gi|307322435|ref|ZP_07601790.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
 gi|306891921|gb|EFN22752.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
          Length = 147

 Score = 83.3 bits (205), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 29/67 (43%), Positives = 40/67 (59%), Gaps = 1/67 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           VD  V   IR  R   G+SQ+KLG+ +G+TFQQVQKYE G +R+ AS+L   +  L   
Sbjct: 9  DVDATV-ANIRRFRETSGISQKKLGDAIGVTFQQVQKYESGKDRISASKLVETARALGCD 67

Query: 70 ISFFFDV 76
          ++  F  
Sbjct: 68 LNSLFAG 74


>gi|94266062|ref|ZP_01289781.1| Helix-turn-helix motif [delta proteobacterium MLMS-1]
 gi|93453384|gb|EAT03812.1| Helix-turn-helix motif [delta proteobacterium MLMS-1]
          Length = 109

 Score = 83.3 bits (205), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 31/93 (33%), Positives = 50/93 (53%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +NVG+RIR RR +LG+SQ +L   LGITFQ +Q++E+G        L  +  +LE    +
Sbjct: 1   MNVGQRIRSRRQVLGLSQRELAARLGITFQAIQRWERGETFPRKETLPQLLAILEVGADW 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
                     D+S+   +V++ +  P   Q+ R
Sbjct: 61  LVGTPSLAGPDVSTIPPDVLEAVRDPRIQQIVR 93


>gi|192361971|ref|YP_001984171.1| MrfJ protein [Cellvibrio japonicus Ueda107]
 gi|190688136|gb|ACE85814.1| MrfJ protein [Cellvibrio japonicus Ueda107]
          Length = 131

 Score = 82.9 bits (204), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 24/71 (33%), Positives = 41/71 (57%), Gaps = 1/71 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  +G R++  R    +S   L + +G T QQ+ +YE G N++ A++L  +++ L  P
Sbjct: 8  DLDRQIGLRLKKLRQQADISAVALADAIGSTQQQISRYENGQNKLSAAQLYLLAQSLCVP 67

Query: 70 ISFFF-DVSPT 79
          IS+FF D  P 
Sbjct: 68 ISWFFLDCDPD 78


>gi|170750881|ref|YP_001757141.1| XRE family transcriptional regulator [Methylobacterium
           radiotolerans JCM 2831]
 gi|170657403|gb|ACB26458.1| transcriptional regulator, XRE family [Methylobacterium
           radiotolerans JCM 2831]
          Length = 135

 Score = 82.9 bits (204), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 34/131 (25%), Positives = 63/131 (48%), Gaps = 7/131 (5%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M G K   +  D+ VG+RI  +R    ++Q ++ +  G++  Q+QKYEKG NR+ A  L 
Sbjct: 1   MAGQK--TDQRDVYVGQRIAEQRRKASLTQRRVAQSFGMSAAQLQKYEKGTNRISAVHLD 58

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ-LNRYFIQ-IDDV---KV 115
             S +   P+ +FF   P     I+   +       +  GL+ L     + I +    + 
Sbjct: 59  IFSRMTGVPMDYFFKGMPRNDDFIAPGFSEREQSTLSEAGLKGLAEVVGRHITENFSEEA 118

Query: 116 RQKIIELVRSI 126
           R+ + + +R++
Sbjct: 119 RRDVADAIRAL 129


>gi|268590899|ref|ZP_06125120.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
 gi|291313692|gb|EFE54145.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
          Length = 102

 Score = 82.9 bits (204), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 22/81 (27%), Positives = 42/81 (51%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+   VG RI+  R   G++  ++   L ++ QQ  +YE+G+NR+    L  I++ L+  
Sbjct: 6  PIAKIVGSRIKKLRREYGLTGTEVAMALNVSQQQFSRYERGINRIDIDSLVMIADFLKVS 65

Query: 70 ISFFFDVSPTVCSDISSEENN 90
          + +F +      S+  + E N
Sbjct: 66 VHYFLEDIDLEQSNSWTSEYN 86


>gi|167855531|ref|ZP_02478293.1| transcriptional regulator, XRE family protein [Haemophilus
          parasuis 29755]
 gi|219871292|ref|YP_002475667.1| XRE family transcriptional regulator [Haemophilus parasuis
          SH0165]
 gi|167853332|gb|EDS24584.1| transcriptional regulator, XRE family protein [Haemophilus
          parasuis 29755]
 gi|219691496|gb|ACL32719.1| XRE family transcriptional regulator [Haemophilus parasuis
          SH0165]
          Length = 113

 Score = 82.6 bits (203), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 26/81 (32%), Positives = 49/81 (60%), Gaps = 1/81 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +G+RI+ +R   G S EKL EC+ ++ QQ+ +YE+G +++  + L  I+   ++PI+
Sbjct: 10 DKLIGQRIQQKRKEFGYSAEKLSECINLSQQQLSRYERGASKINVNHLIDIAIFFKTPIN 69

Query: 72 FFF-DVSPTVCSDISSEENNV 91
          +FF D  P   ++   +E  +
Sbjct: 70 WFFQDCIPAEFTEKELKEIEI 90


>gi|240949478|ref|ZP_04753818.1| XRE family transcriptional regulator [Actinobacillus minor NM305]
 gi|240296051|gb|EER46712.1| XRE family transcriptional regulator [Actinobacillus minor NM305]
          Length = 113

 Score = 82.6 bits (203), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 26/81 (32%), Positives = 49/81 (60%), Gaps = 1/81 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +G+RI+ +R   G S EKL EC+ ++ QQ+ +YE+G +++  + L  I+   ++PI+
Sbjct: 10 DKLIGQRIQQKRKEFGYSAEKLSECINLSQQQLSRYERGASKINVNHLIDIAIFFKTPIN 69

Query: 72 FFF-DVSPTVCSDISSEENNV 91
          +FF D  P   ++   +E  +
Sbjct: 70 WFFQDCIPANFTEKELKEIEI 90


>gi|154497138|ref|ZP_02035834.1| hypothetical protein BACCAP_01431 [Bacteroides capillosus ATCC
          29799]
 gi|150273537|gb|EDN00665.1| hypothetical protein BACCAP_01431 [Bacteroides capillosus ATCC
          29799]
          Length = 417

 Score = 82.6 bits (203), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 40/81 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG+RI L+R  LG+SQE LG+ LG++ Q + K+E   +     +L  +S +   P+ +
Sbjct: 1  MTVGQRIALKRKELGLSQEGLGDKLGVSRQAIYKWESDASLPEVEKLVALSRIFSVPVGW 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
                       ++   + +
Sbjct: 61 LLGEEEHPSGQTDTQPAELTE 81


>gi|290476510|ref|YP_003469415.1| putative repressor of flagellae [Xenorhabdus bovienii SS-2004]
 gi|289175848|emb|CBJ82651.1| putative repressor of flagellae [Xenorhabdus bovienii SS-2004]
          Length = 92

 Score = 82.2 bits (202), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 21/66 (31%), Positives = 42/66 (63%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V + VGKRI+++R  +GM+  +L + + ++ QQ+ +YE+G N++    L  +S  L++P 
Sbjct: 3  VSMLVGKRIQIKRKEIGMTVAELADRISVSQQQLSRYERGTNKISLEHLVDVSIALKTPA 62

Query: 71 SFFFDV 76
           +F + 
Sbjct: 63 DWFLED 68


>gi|268592288|ref|ZP_06126509.1| DNA-binding protein [Providencia rettgeri DSM 1131]
 gi|291312067|gb|EFE52520.1| DNA-binding protein [Providencia rettgeri DSM 1131]
          Length = 92

 Score = 82.2 bits (202), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 25/75 (33%), Positives = 39/75 (52%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   +G +I+  R   G+S   L + +GI+ QQ  +YE+G NR+   RL+  S   +  
Sbjct: 6  PVSAVIGNKIKSLRKNKGLSLTALAKTVGISEQQQLRYERGNNRISIDRLKQYSNYFDIN 65

Query: 70 ISFFFDVSPTVCSDI 84
          I +FF  S    + I
Sbjct: 66 IIYFFSFSEDEKTKI 80


>gi|183598411|ref|ZP_02959904.1| hypothetical protein PROSTU_01807 [Providencia stuartii ATCC
          25827]
 gi|188020590|gb|EDU58630.1| hypothetical protein PROSTU_01807 [Providencia stuartii ATCC
          25827]
          Length = 76

 Score = 82.2 bits (202), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 27/73 (36%), Positives = 43/73 (58%), Gaps = 1/73 (1%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M GN   P   +I VGK+I+  R  + ++ E+LG  +G++ QQ+ +YE GVN +    L 
Sbjct: 1  MSGNIIKPTF-NIIVGKKIKRYRKEMNLTAEELGRYIGVSQQQISRYESGVNHINIDFLS 59

Query: 61 HISEVLESPISFF 73
           +SE+ + PI  F
Sbjct: 60 QLSELFKVPIQVF 72


>gi|114762814|ref|ZP_01442246.1| DNA-binding protein, putative [Pelagibaca bermudensis HTCC2601]
 gi|114544424|gb|EAU47431.1| DNA-binding protein, putative [Roseovarius sp. HTCC2601]
          Length = 130

 Score = 82.2 bits (202), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 32/112 (28%), Positives = 57/112 (50%), Gaps = 9/112 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            ++RL R   G++Q +L + +G   QQ+ +YE G  R+ A++L  IS+ L+ P+  FF  
Sbjct: 7   AQLRLYRRSAGLTQNELAKRIGAHVQQIYRYETGAGRIPAAQLWLISQALDMPLDQFF-- 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
                  +S +E  V D + T   L      ++    + R  +IEL+R++  
Sbjct: 65  -IDADMPVSEQEQAVFDDVRTAATL------LRPLAPEQRNAVIELLRTMAQ 109


>gi|327191928|gb|EGE58913.1| hypothetical protein RHECNPAF_258003 [Rhizobium etli CNPAF512]
          Length = 114

 Score = 81.8 bits (201), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 29/108 (26%), Positives = 53/108 (49%), Gaps = 9/108 (8%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +R  R+  G +Q  LG+ +G+ +QQ+QKYE+G NR+  SR    + +L   ++  FD   
Sbjct: 1   MRTARLQAGYTQTALGDAVGVAYQQIQKYERGANRISLSRASQFASILRISVATLFDDPD 60

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
            V S  S     +  ++      +L   + +  + K   +I+E+   I
Sbjct: 61  AVVSQASPPHAPLAQWM------EL---YARACNTKSLSEIVEVAEEI 99


>gi|227356569|ref|ZP_03840956.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|227163325|gb|EEI48252.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 113

 Score = 81.8 bits (201), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 24/87 (27%), Positives = 44/87 (50%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
               P    VGK+I   R + G++  +L + +GI+ QQ  +YE+G+NRV   RL   +  
Sbjct: 18  NRSYPASKMVGKKIAYYRRVNGLTLSELAKKIGISQQQQSRYERGINRVSLDRLYQYACF 77

Query: 66  LESPISFFFDVSPTVCSDISSEENNVM 92
               +S  F +      +I ++ +N++
Sbjct: 78  FGISLSDLFQLDDEEKVEIENKISNMV 104


>gi|226328632|ref|ZP_03804150.1| hypothetical protein PROPEN_02527 [Proteus penneri ATCC 35198]
 gi|225203365|gb|EEG85719.1| hypothetical protein PROPEN_02527 [Proteus penneri ATCC 35198]
          Length = 73

 Score = 81.8 bits (201), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 23/65 (35%), Positives = 38/65 (58%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   +G++I   R + G+S ++L   +G++ QQ  +YE+GVNR+   RL   +E+    
Sbjct: 6  PVSKAIGRKITYYRKMKGISLDELAALIGVSQQQQSRYERGVNRINLDRLNQYAEIFNIH 65

Query: 70 ISFFF 74
          I  FF
Sbjct: 66 IKDFF 70


>gi|99035914|ref|ZP_01314962.1| hypothetical protein Wendoof_01000192 [Wolbachia endosymbiont of
           Drosophila willistoni TSC#14030-0811.24]
          Length = 306

 Score = 81.0 bits (199), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 30/124 (24%), Positives = 55/124 (44%), Gaps = 10/124 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + +++R  R+  G +Q+ L   +G+T+Q V +YEKG  ++   +L  I+E L   I    
Sbjct: 10  IAQKVRSWRLKRGYTQKDLAGKIGVTYQIVLQYEKGTRKISIEKLYAIAEALSVSIVDLI 69

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            VS       + EE          + L L R + +I   ++R+    L +     E+  +
Sbjct: 70  PVSNEKIYLENKEE----------EILNLIREYKKISGQELRKVFCLLTKFARVGEENSK 119

Query: 135 TIEE 138
             E 
Sbjct: 120 KTER 123



 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 24/112 (21%), Positives = 51/112 (45%), Gaps = 15/112 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK+I+  R++ G +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I    
Sbjct: 163 IGKKIKEWRIVRGYTQKDLAEKMSTTRDEISNYEQGRVAIPLEKLYAIAETLSINIMDLL 222

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +++      + +E  N            L   + +I+  ++R     L++S+
Sbjct: 223 ELTEDADDKVENELPN------------LIEEYKEIESQELR---YVLIKSL 259


>gi|190570724|ref|YP_001975082.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|213019732|ref|ZP_03335537.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|190356996|emb|CAQ54385.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|212994773|gb|EEB55416.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 306

 Score = 81.0 bits (199), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 34/133 (25%), Positives = 62/133 (46%), Gaps = 11/133 (8%)

Query: 1   MVGNKKIPNPVDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M    K  N +D  V G+ +R RR+  G +Q+ L + +  T+Q + +YEKG  R+   +L
Sbjct: 1   MKKENKCSNFLDYKVIGQEVRNRRLAKGYTQKDLAKKIDTTYQVILQYEKGTRRISIKKL 60

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
             ++E L +               +S+E+    +     + L L R   +I D ++R+  
Sbjct: 61  YELAEALSTTARDL-----ACVQGVSNEKRYEEE-----EVLNLVRRHKEIKDQELRETF 110

Query: 120 IELVRSIVSSEKK 132
             L + I  SE++
Sbjct: 111 YLLTKFIRISEEE 123



 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 29/106 (27%), Positives = 53/106 (50%), Gaps = 13/106 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+RI+  R+  G +QE L   +GI  Q++ +YE+G + V    L  I++VL   I+   
Sbjct: 167 VGQRIKEWRLRRGYTQEDLASKVGIINQRIYEYEQGRSAVSLEMLDEIAKVLLINIT--- 223

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           D+ P    + +SE           +  +L + + +I   ++R  +I
Sbjct: 224 DLLPETRENENSEV----------ELSRLIKEYKKIKSQELRNVLI 259


>gi|150378104|ref|YP_001314699.1| XRE family transcriptional regulator [Sinorhizobium medicae WSM419]
 gi|150032651|gb|ABR64766.1| transcriptional regulator, XRE family [Sinorhizobium medicae
           WSM419]
          Length = 139

 Score = 81.0 bits (199), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 30/112 (26%), Positives = 55/112 (49%), Gaps = 7/112 (6%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D  +G  I   R I G+SQ++LG+ +G+TFQQV+KYE G +R+ + +L   +  +   ++
Sbjct: 11  DAALGTNICRFREISGISQKELGDAIGVTFQQVRKYESGKDRISSKKLVETARTIGCDLN 70

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
             +       + I  ++  +     +   L+L   F  I   + R  I  L+
Sbjct: 71  SLY-------AGIGIDDATLAFLDHSRAALKLAANFDGIASSEERAAIALLL 115


>gi|329848452|ref|ZP_08263480.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328843515|gb|EGF93084.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 127

 Score = 80.6 bits (198), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 29/68 (42%), Positives = 40/68 (58%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  IR  R  L MSQ+ L + +G+TFQQVQKYE+G NRV AS+L  I++ L    +    
Sbjct: 2  GLNIRRIRRDLNMSQQVLADRIGLTFQQVQKYERGANRVSASKLVAIAKALGVSPASLLP 61

Query: 76 VSPTVCSD 83
           S    ++
Sbjct: 62 DSQAAAAE 69


>gi|197286055|ref|YP_002151927.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|194683542|emb|CAR44394.1| fimbrial operon regulator [Proteus mirabilis HI4320]
          Length = 97

 Score = 80.2 bits (197), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 24/87 (27%), Positives = 44/87 (50%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
              P    VGK+I   R + G++  +L + +GI+ QQ  +YE+G+NRV   RL   +  
Sbjct: 2  NRSYPASKMVGKKIAYYRRVNGLTLSELAKKIGISQQQQSRYERGINRVSLDRLYQYACF 61

Query: 66 LESPISFFFDVSPTVCSDISSEENNVM 92
              +S  F +      +I ++ +N++
Sbjct: 62 FGISLSDLFQLDDEDKVEIENKISNII 88


>gi|329889919|ref|ZP_08268262.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
 gi|328845220|gb|EGF94784.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
          Length = 143

 Score = 80.2 bits (197), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 35/127 (27%), Positives = 61/127 (48%), Gaps = 13/127 (10%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +  +G+RIR RR  LG SQ  LG  +G++FQQ+QKYEKG+N + A RL  ++  L + + 
Sbjct: 11  NRAIGRRIRDRRKALGFSQAALGSKVGLSFQQIQKYEKGLNGLAAVRLGQLALALATTV- 69

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
                       +  E++   D         L + + ++   + R+ ++  V ++  S  
Sbjct: 70  -------PRLLGLGEEDHPASDEQRHR----LLQAWERLTQAQ-REPLLRYVEALALSPS 117

Query: 132 KYRTIEE 138
              T  E
Sbjct: 118 SATTAVE 124


>gi|213019781|ref|ZP_03335584.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Culex quinquefasciatus JHB]
 gi|212994611|gb|EEB55256.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Culex quinquefasciatus JHB]
          Length = 302

 Score = 79.9 bits (196), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 25/127 (19%), Positives = 58/127 (45%), Gaps = 7/127 (5%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D  VG++++  R+  G +Q+ L E +G+ +  + +YEKG  ++   +L  I+E L
Sbjct: 1   MEKSLDCEVGQKVKSWRLERGYTQKDLAEKVGVKYWAILQYEKGSRKIPIKKLYAIAEAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFI------STPDGLQLNRYFIQIDDVKVRQKI- 119
              +                E+  +++ +         +   L   FI++ + + R+ + 
Sbjct: 61  SVNVKGLVCGETLPNEKRYFEDEEILNLVKGYKDEELSEVFYLLTKFIRLSEERSRKAVK 120

Query: 120 IELVRSI 126
           IE+ R +
Sbjct: 121 IEVARGL 127



 Score = 70.2 bits (171), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 29/111 (26%), Positives = 47/111 (42%), Gaps = 13/111 (11%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P+   VG+RI+  R+I G +Q+ L   +GIT Q + +YE+G   V    L  I++VL   
Sbjct: 154 PIPYKVGQRIKEWRLIRGYTQKDLANKVGITNQGIYEYEQGRAAVSLEMLHEIAKVLSIS 213

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           I      S           N             L   + +I+  ++R  +I
Sbjct: 214 IIDLLPESDEDSEAEEKLSN-------------LIEEYKKIESRELRDMLI 251


>gi|284006480|emb|CBA71741.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 96

 Score = 79.5 bits (195), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 27/94 (28%), Positives = 46/94 (48%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            + IN+GK I+ +R   G+S E L + +G++ Q + +YE+GVN +  + L  I++ L  P
Sbjct: 2   SISINIGKMIKFKRKEKGLSGELLAKKIGVSQQPLSRYERGVNDIKVNTLYSITQALNIP 61

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           I  FF       S          +F    + + L
Sbjct: 62  IDSFFAELIENESKKKQSNAQSDEFSLLAESIIL 95


>gi|321272295|gb|ADW80180.1| putative transcriptional regulator [Wolbachia endosymbiont wVitA of
           Nasonia vitripennis phage WOVitA1]
          Length = 306

 Score = 79.5 bits (195), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 24/127 (18%), Positives = 58/127 (45%), Gaps = 7/127 (5%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D  VG++++  R+  G +Q+ L E +G+ +  + +YEKG  ++   +L  I+E L
Sbjct: 5   MEKSLDYEVGQKVKNWRLERGYTQKDLAEKVGVKYWAILQYEKGNRKIPIKKLYAIAEAL 64

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFI------STPDGLQLNRYFIQIDDVKVRQKI- 119
              +                E+  +++ +         +   L   FI++ + + R+ + 
Sbjct: 65  SVNVKGLVCGETLPNEKRYFEDEEILNLVKGYKDKELSEVFYLLTKFIRLSEERSRKAVK 124

Query: 120 IELVRSI 126
           +E+ R +
Sbjct: 125 MEVARGL 131



 Score = 68.7 bits (167), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 33/111 (29%), Positives = 53/111 (47%), Gaps = 13/111 (11%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           PV   VG+RI+  R+I G +Q+ L   +GIT Q + +YE+G + V    L  I++VL   
Sbjct: 158 PVPYKVGQRIKEWRLIRGYTQKDLANKVGITNQGIYEYEQGRSAVSLEMLDEIAKVLSIS 217

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           I    D+ P    D  +EE              L   + +I+  ++R  +I
Sbjct: 218 I---IDLLPESDEDSEAEEKLSK----------LIEEYKKIESRELRNVLI 255


>gi|197286562|ref|YP_002152434.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227357636|ref|ZP_03841989.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|194684049|emb|CAR45374.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227162346|gb|EEI47350.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 105

 Score = 79.1 bits (194), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 24/73 (32%), Positives = 41/73 (56%), Gaps = 3/73 (4%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M+ + K    ++  +G+RIR  R  L  S +   + LGI+ QQ+ +YE+G NR+    + 
Sbjct: 1  MIDSSKT---INFRIGQRIRHLRKNLKYSGKLFAKELGISQQQLSRYERGTNRISIEFVY 57

Query: 61 HISEVLESPISFF 73
           I+E  +  IS+F
Sbjct: 58 LITEKFDVHISYF 70


>gi|188582745|ref|YP_001926190.1| XRE family transcriptional regulator [Methylobacterium populi
           BJ001]
 gi|179346243|gb|ACB81655.1| transcriptional regulator, XRE family [Methylobacterium populi
           BJ001]
          Length = 135

 Score = 79.1 bits (194), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 33/135 (24%), Positives = 63/135 (46%), Gaps = 9/135 (6%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M G K   +  D+ +G+RI  +R    ++Q  + +  G++  Q+QKYEKGVNR+ A  L 
Sbjct: 1   MAGQK--TDERDVLLGRRIAEQRKRSKLTQRAVADSFGMSAAQLQKYEKGVNRISAIHLA 58

Query: 61  HISEVLESPISFFFDVSPTVCSDI------SSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
            +  +  +PIS F D  P    +       S +++  ++  S      + R F++     
Sbjct: 59  ILGRLTNTPISEFLDGIPHPDPETERGFSESGQQSYAVEPWSDL-ARAIARQFVETFSED 117

Query: 115 VRQKIIELVRSIVSS 129
            R+++   +  +   
Sbjct: 118 QRRELSAAIEVLSRE 132


>gi|167755401|ref|ZP_02427528.1| hypothetical protein CLORAM_00915 [Clostridium ramosum DSM 1402]
 gi|237733631|ref|ZP_04564112.1| SOS-response transcriptional repressor [Mollicutes bacterium D7]
 gi|167704340|gb|EDS18919.1| hypothetical protein CLORAM_00915 [Clostridium ramosum DSM 1402]
 gi|229383229|gb|EEO33320.1| SOS-response transcriptional repressor [Coprobacillus sp. D7]
          Length = 206

 Score = 78.7 bits (193), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 28/104 (26%), Positives = 49/104 (47%), Gaps = 18/104 (17%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFF 74
           G+RI+  R   G++QE+LG  LG+    + KYE   V  +    +Q +SE+ + P S+F 
Sbjct: 3   GERIKKLRKEKGLTQEQLGNLLGVKKSAIAKYENNRVENLKKDTIQKLSEIFDVPASYFL 62

Query: 75  DVSPTVCSDISSE-----------------ENNVMDFISTPDGL 101
            +  +    I+                   ++NV ++IS P+ L
Sbjct: 63  GIDESNQPIITDSITIPLYSDISCGTGLFVDDNVDEYISLPETL 106


>gi|268591032|ref|ZP_06125253.1| DNA-binding protein [Providencia rettgeri DSM 1131]
 gi|291313838|gb|EFE54291.1| DNA-binding protein [Providencia rettgeri DSM 1131]
          Length = 88

 Score = 78.7 bits (193), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 24/70 (34%), Positives = 40/70 (57%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K I N V  N+GK+I+L R    +S   L   +GI+ QQ+ +YE G++ +  S++  IS 
Sbjct: 16 KNITNIVAKNIGKKIKLLRSEYRLSGSDLARIIGISQQQLSRYENGLSDISTSKIMLISV 75

Query: 65 VLESPISFFF 74
            +  + +FF
Sbjct: 76 YFKVDVCYFF 85


>gi|291326970|ref|ZP_06126519.2| toxin-antitoxin system, antitoxin component, Xre family
           [Providencia rettgeri DSM 1131]
 gi|291312079|gb|EFE52532.1| toxin-antitoxin system, antitoxin component, Xre family
           [Providencia rettgeri DSM 1131]
          Length = 95

 Score = 78.7 bits (193), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 22/95 (23%), Positives = 41/95 (43%), Gaps = 2/95 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +  +VG +IR  R   GMS + L   LGI+ Q   +YE G   +    +  ++++ 
Sbjct: 1   MKRKISKSVGLKIRSLRESHGMSGKDLSILLGISQQHQSRYENGEVNIHVDTIYQLAQIF 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
               ++FF  + T  +      N    F  + + L
Sbjct: 61  NVSPTYFFTETITDINSTELSVNKKNYF--SAEAL 93


>gi|295084668|emb|CBK66191.1| Helix-turn-helix. [Bacteroides xylanisolvens XB1A]
          Length = 138

 Score = 78.7 bits (193), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 36/133 (27%), Positives = 65/133 (48%), Gaps = 10/133 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE--SPI 70
            +VG+ ++  R+ LGM QE L   LG++ Q++ K EK  + +    L  I+EVL   + +
Sbjct: 12  RHVGRNLQRIRVYLGMKQEALASDLGVSQQEISKIEKQ-DEIEDGLLTKIAEVLGISTDV 70

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
              FDV   +C+      NN  D   +P  +     +     +   +K++EL   ++ SE
Sbjct: 71  IKDFDVEKAICN-----INNYKDATISPGAIATV--YAHNQQINPLEKVVELYERLLKSE 123

Query: 131 KKYRTIEEECMVE 143
           ++   I  EC+ +
Sbjct: 124 QEKIEILRECIKQ 136


>gi|222055067|ref|YP_002537429.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221564356|gb|ACM20328.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 115

 Score = 78.7 bits (193), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 27/106 (25%), Positives = 53/106 (50%), Gaps = 16/106 (15%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++R R    G+SQEKL E +G++  Q+QKYE G +++   +LQ +++ L   +  FF
Sbjct: 13  LGNQLRER---AGISQEKLAEHVGVSKGQIQKYEYGKDKMNTDKLQRVADALSVSVQEFF 69

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
                V              ++  + L L   +  I + ++++ I+
Sbjct: 70  ATGEDVLP------------LAVSEKL-LLDAYRSIPNKEIKESIL 102


>gi|319945880|ref|ZP_08020130.1| hypothetical transcriptional regulator [Streptococcus australis
          ATCC 700641]
 gi|319747945|gb|EFW00189.1| hypothetical transcriptional regulator [Streptococcus australis
          ATCC 700641]
          Length = 228

 Score = 78.3 bits (192), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 43/73 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L M+Q+ + + LGIT+Q    +E+GV +    +++ + ++L+ PI +F ++
Sbjct: 5  EKLKARRKELKMTQKDIADQLGITYQAYSAWERGVKKPSKEKVKLLEQILDVPIGYFTEL 64

Query: 77 SPTVCSDISSEEN 89
                +  S+E 
Sbjct: 65 EIVRLYNTLSDEG 77


>gi|22023151|gb|AAM88940.1|AF313446_1 putative transcriptional regulator [Rhizobium etli]
          Length = 94

 Score = 78.3 bits (192), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 27/78 (34%), Positives = 45/78 (57%), Gaps = 5/78 (6%)

Query: 59  LQHISEVLESPISFFFDVSPTV-----CSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           LQ I+EVL +  SFFF+ + +         +    + V +F+ T +GL LNR F++I D 
Sbjct: 1   LQRIAEVLHTSPSFFFEQNESQPLSLQGLALPDGADPVAEFLRTKEGLVLNRAFLKIADP 60

Query: 114 KVRQKIIELVRSIVSSEK 131
            +R+ II LV+++  +E 
Sbjct: 61  DIRETIIALVKAMAQAES 78


>gi|114798188|ref|YP_761228.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114738362|gb|ABI76487.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 126

 Score = 77.9 bits (191), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 26/84 (30%), Positives = 40/84 (47%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          + PN +D  VG  IR  R    ++ + L   +G++ QQ+QKYE   NR+ A  L  ++E 
Sbjct: 12 RSPNDLDRIVGSNIRALRQSQNITLQALATEIGVSHQQLQKYETSANRLSAGMLPIVAEA 71

Query: 66 LESPISFFFDVSPTVCSDISSEEN 89
          L   +S  +       SD   E  
Sbjct: 72 LGVEVSDLYFNEQCAKSDQHDEAA 95


>gi|254440856|ref|ZP_05054349.1| hypothetical protein OA307_271 [Octadecabacter antarcticus 307]
 gi|198250934|gb|EDY75249.1| hypothetical protein OA307_271 [Octadecabacter antarcticus 307]
          Length = 78

 Score = 77.9 bits (191), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 22/80 (27%), Positives = 39/80 (48%), Gaps = 6/80 (7%)

Query: 52  NRVGASRLQHISEVLESPISFFFDVSPT--VCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           NRV ASRL  I+  L   ++FFF+      +  D+        D +S  + L L R +  
Sbjct: 2   NRVSASRLWGIAHALGVEVAFFFEGLDGDLIGKDLGG---MPSDILSDKEALDLLRSYYA 58

Query: 110 IDDVKVRQKIIELVRSIVSS 129
           I + + R+++ +L R +  +
Sbjct: 59  IPEHQ-RRRLFDLARVLSEA 77


>gi|148988905|ref|ZP_01820320.1| Transcriptional regulator, Cro/CI family protein [Streptococcus
           pneumoniae SP6-BS73]
 gi|147925716|gb|EDK76792.1| Transcriptional regulator, Cro/CI family protein [Streptococcus
           pneumoniae SP6-BS73]
          Length = 245

 Score = 77.9 bits (191), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 22/125 (17%), Positives = 50/125 (40%), Gaps = 16/125 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +VG++I+  R   G +Q  L E +  + Q + KYEKG+ +V    +  ++++    I  F
Sbjct: 7   HVGEKIKFFRKENGWTQSVLAEKMSTSKQTISKYEKGIIKVNQDTIFKLADIFGVSIDSF 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           F       +  S  ++                 + Q+   +  + +  L + ++  + + 
Sbjct: 67  FPSIIEEIATTSPIQS----------------IYDQLTPPRQEKALTYLKKQLLEQKNEN 110

Query: 134 RTIEE 138
              E 
Sbjct: 111 IVSEN 115


>gi|261366338|ref|ZP_05979221.1| toxin-antitoxin system, antitoxin component, Xre family
           [Subdoligranulum variabile DSM 15176]
 gi|282571941|gb|EFB77476.1| toxin-antitoxin system, antitoxin component, Xre family
           [Subdoligranulum variabile DSM 15176]
          Length = 399

 Score = 77.5 bits (190), Expect = 6e-13,   Method: Composition-based stats.
 Identities = 23/106 (21%), Positives = 45/106 (42%), Gaps = 12/106 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+ I+  R   G+SQE L E +G++ Q + K+EK         LQ ++  L+  +  
Sbjct: 1   MTLGENIQAARKKKGLSQEALAEQVGVSRQALGKWEKDTALPSLDNLQALAAALDVSV-- 58

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
             D          + E ++         L   R  ++  D + R++
Sbjct: 59  --DGLLGTARPGGTPEPSL--------TLDTLRALLEARDAEKRRR 94


>gi|183597672|ref|ZP_02959165.1| hypothetical protein PROSTU_00963 [Providencia stuartii ATCC
          25827]
 gi|188022942|gb|EDU60982.1| hypothetical protein PROSTU_00963 [Providencia stuartii ATCC
          25827]
          Length = 100

 Score = 77.5 bits (190), Expect = 6e-13,   Method: Composition-based stats.
 Identities = 25/67 (37%), Positives = 39/67 (58%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+  VGK IR RR  LG+S  +L   +GI+ QQV +YE+G   +    L  +++ LE+ +
Sbjct: 4  VNQIVGKEIRKRRKELGLSGAELAGLVGISQQQVSRYERGECNITLDNLLSLAKALETDL 63

Query: 71 SFFFDVS 77
            FF+  
Sbjct: 64 ICFFNDE 70


>gi|321272298|gb|ADW80183.1| putative transcriptional regulator [Wolbachia endosymbiont wVitA of
           Nasonia vitripennis phage WOVitA1]
 gi|321272350|gb|ADW80231.1| putative transcriptional regulator [Wolbachia endosymbiont wVitB of
           Nasonia vitripennis phage WOVitB]
          Length = 312

 Score = 77.2 bits (189), Expect = 6e-13,   Method: Composition-based stats.
 Identities = 36/133 (27%), Positives = 63/133 (47%), Gaps = 11/133 (8%)

Query: 1   MVGNKKIPNPVDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M    K  N +D  V G+ +R RR+  G +Q+ L + +  T+Q + +YEKG  R+   +L
Sbjct: 1   MKKENKCSNFLDYKVIGQEVRNRRLAKGYTQKDLAKKIDTTYQVILQYEKGTRRISIKKL 60

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
             ++E L +              ++S+EE    + I     L L R   +I D ++R+  
Sbjct: 61  YELAEALSTTARDL-----ACGQEVSNEERYEEEEI-----LNLVRRHKEIKDQELRETF 110

Query: 120 IELVRSIVSSEKK 132
             L + I  SE++
Sbjct: 111 YLLTKFIRISEEE 123



 Score = 66.8 bits (162), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 30/112 (26%), Positives = 54/112 (48%), Gaps = 16/112 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+RI+  R+  G +QE L   +GI  Q++ +YE+G   V    L  I++VL   I+   
Sbjct: 170 VGQRIKEWRLRRGYTQEDLASKVGIINQRIYEYEQGRAGVSLEMLDEIAKVLSISIT--- 226

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           D+ P    + +SE           +  +L   + +I   ++R     L++S+
Sbjct: 227 DLLPETTENENSEV----------ELSRLIEEYKKIKSQELR---HVLIKSL 265


>gi|240949581|ref|ZP_04753918.1| hypothetical protein AM305_11555 [Actinobacillus minor NM305]
 gi|240295989|gb|EER46659.1| hypothetical protein AM305_11555 [Actinobacillus minor NM305]
          Length = 356

 Score = 77.2 bits (189), Expect = 6e-13,   Method: Composition-based stats.
 Identities = 27/71 (38%), Positives = 39/71 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R++L R   G+S   LG  +GI+   ++KYE  VN   +S L  +S+VL  PI FFF
Sbjct: 2  IGNRLKLARNAAGLSMAALGNAVGISANMIKKYEHNVNMPTSSILLKLSQVLHIPIEFFF 61

Query: 75 DVSPTVCSDIS 85
            +P     I 
Sbjct: 62 RTTPPSLGAIE 72


>gi|169349664|ref|ZP_02866602.1| hypothetical protein CLOSPI_00402 [Clostridium spiroforme DSM 1552]
 gi|169293739|gb|EDS75872.1| hypothetical protein CLOSPI_00402 [Clostridium spiroforme DSM 1552]
          Length = 206

 Score = 77.2 bits (189), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 29/112 (25%), Positives = 54/112 (48%), Gaps = 19/112 (16%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFF 74
           G+RI+  R   G++QE+LG  LG+    + KYE   V  +    +Q +SE+ E P ++F 
Sbjct: 3   GQRIKKLRKEKGLTQEQLGNLLGVKKSAIAKYENNRVENLKKETIQKLSEIFEVPATYFL 62

Query: 75  DVSPTVCSDISSE-----------------ENNVMDFISTPDG-LQLNRYFI 108
            +  T    I++                  ++N+ ++I+ P+  L LN+ + 
Sbjct: 63  GIDETNQPTITNSITIPLYNDISCGTGIFVDDNIDEYIALPESLLTLNKEYF 114


>gi|237718063|ref|ZP_04548544.1| transcriptional regulator [Bacteroides sp. 2_2_4]
 gi|293370030|ref|ZP_06616597.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides ovatus SD CMC 3f]
 gi|299147754|ref|ZP_07040817.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides sp. 3_1_23]
 gi|229452704|gb|EEO58495.1| transcriptional regulator [Bacteroides sp. 2_2_4]
 gi|292634948|gb|EFF53470.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides ovatus SD CMC 3f]
 gi|298513937|gb|EFI37823.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides sp. 3_1_23]
          Length = 138

 Score = 77.2 bits (189), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 36/133 (27%), Positives = 65/133 (48%), Gaps = 10/133 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE--SPI 70
            +VG+ ++  R+ LGM QE L   LG++ Q++ K EK  + +    L  I+EVL   + +
Sbjct: 12  RHVGRNLQRIRVYLGMKQEALASDLGVSQQEISKIEKQ-DEIEDGLLTKIAEVLGISTDV 70

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
              FDV   +C+      NN  D   +P  +     +     +   +K++EL   ++ SE
Sbjct: 71  IKDFDVEKAICN-----INNYKDATISPGAIATV--YAHNQQINPIEKVVELYERLLKSE 123

Query: 131 KKYRTIEEECMVE 143
           ++   I  EC+ +
Sbjct: 124 QEKIEILRECIKQ 136


>gi|170752102|ref|YP_001758362.1| XRE family transcriptional regulator [Methylobacterium
          radiotolerans JCM 2831]
 gi|170658624|gb|ACB27679.1| transcriptional regulator, XRE family [Methylobacterium
          radiotolerans JCM 2831]
          Length = 124

 Score = 77.2 bits (189), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 29/82 (35%), Positives = 44/82 (53%), Gaps = 2/82 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G       VD+ +G RI   R+   ++Q  +   +G+T  Q+QKYEKG NR+    L 
Sbjct: 1  MAGQPAT--DVDVRIGGRISAARIRARLTQRTVAAEIGVTAAQLQKYEKGTNRISGVALS 58

Query: 61 HISEVLESPISFFFDVSPTVCS 82
           I+++  +PI+ FFDV  T   
Sbjct: 59 IIAKLTGAPIASFFDVPETPAP 80


>gi|42520374|ref|NP_966289.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|42410112|gb|AAS14223.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
          Length = 312

 Score = 77.2 bits (189), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 36/133 (27%), Positives = 63/133 (47%), Gaps = 11/133 (8%)

Query: 1   MVGNKKIPNPVDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M    K  N +D  V G+ +R RR+  G +Q+ L + +  T+Q + +YEKG  R+   +L
Sbjct: 1   MKKENKCSNFLDYKVIGQEVRNRRLAKGYTQKDLAKKIDTTYQVILQYEKGTRRISIKKL 60

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
             ++E L +              ++S+EE    + I     L L R   +I D ++R+  
Sbjct: 61  YELAEALSTTARDL-----ACGQEVSNEERYEEEEI-----LNLVRRHKEIKDQELRETF 110

Query: 120 IELVRSIVSSEKK 132
             L + I  SE++
Sbjct: 111 YLLTKFIRISEEE 123



 Score = 66.8 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 32/113 (28%), Positives = 55/113 (48%), Gaps = 14/113 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+RI+  R+  G +QE L   +GI  Q++ +YE+G   V    L  I++VL   I+   
Sbjct: 170 VGQRIKEWRLRRGYTQEDLASKVGIINQRIYEYEQGRAAVSLEMLNEIAKVLLINIT--- 226

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII-ELVRSI 126
           D+ P    + +SE           +  +L   + +I   ++R  +I  L+ SI
Sbjct: 227 DLLPETRENENSEA----------ELSRLIEEYKKIKSQELRDVLIKSLLESI 269


>gi|268592297|ref|ZP_06126518.1| DNA-binding protein [Providencia rettgeri DSM 1131]
 gi|291312078|gb|EFE52531.1| DNA-binding protein [Providencia rettgeri DSM 1131]
          Length = 73

 Score = 77.2 bits (189), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 36/68 (52%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P      +GK+I   R   G+S  +L E +GI+ QQ  +YE+GVNR+   RL   +   
Sbjct: 1  MPYSTSHLIGKKILYYRKTNGLSVNELSEVIGISPQQQSRYERGVNRITLDRLFQYATYF 60

Query: 67 ESPISFFF 74
          E  I  FF
Sbjct: 61 EIDIKTFF 68


>gi|268590993|ref|ZP_06125214.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291313798|gb|EFE54251.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 90

 Score = 76.8 bits (188), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 41/71 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+RI  +R  LG +  +L + LG++ QQ+ +YE+G  ++    L  ++ ++ +PI +F 
Sbjct: 14 VGQRILEKRRELGYTGFQLAQLLGVSQQQISRYERGKIKIDLFHLFKLAFLMGTPIDWFL 73

Query: 75 DVSPTVCSDIS 85
          +   +  S+  
Sbjct: 74 EDISSQLSENG 84


>gi|251777920|ref|ZP_04820840.1| conserved hypothetical protein [Clostridium botulinum E1 str.
          'BoNT E Beluga']
 gi|243082235|gb|EES48125.1| conserved hypothetical protein [Clostridium botulinum E1 str.
          'BoNT E Beluga']
          Length = 376

 Score = 76.8 bits (188), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 42/68 (61%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RI+  R++ G+SQE+LG+ +G+T Q +   EK    +  + L  +SE L+ P+SFF+ 
Sbjct: 10 GQRIKQGRILRGLSQEQLGKKVGVTRQAISNCEKDNINLSTTNLLKLSETLDLPLSFFYR 69

Query: 76 VSPTVCSD 83
          +     SD
Sbjct: 70 IPEEDNSD 77


>gi|160885067|ref|ZP_02066070.1| hypothetical protein BACOVA_03064 [Bacteroides ovatus ATCC 8483]
 gi|298483201|ref|ZP_07001381.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides sp. D22]
 gi|156109417|gb|EDO11162.1| hypothetical protein BACOVA_03064 [Bacteroides ovatus ATCC 8483]
 gi|298270718|gb|EFI12299.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides sp. D22]
          Length = 139

 Score = 76.8 bits (188), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 36/133 (27%), Positives = 63/133 (47%), Gaps = 9/133 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE--SPI 70
            +VG+ ++  R+ LGM QE L   LG++ Q++ K EK  + +    L  I+EVL   + +
Sbjct: 12  RHVGRNLQRIRVYLGMKQEALASDLGVSQQEISKIEKQ-DEIEDGLLTKIAEVLGISTDV 70

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
              FDV   +C+      NN  D   +P              +   +K++EL   ++ SE
Sbjct: 71  IKDFDVEKAICN-----INNYKDATISPGATATVYA-AHTQQINPLEKVVELYERLLKSE 124

Query: 131 KKYRTIEEECMVE 143
           ++   I  EC+ +
Sbjct: 125 QEKIEILRECIKQ 137


>gi|307710044|ref|ZP_07646489.1| helix-turn-helix family protein [Streptococcus mitis SK564]
 gi|307619229|gb|EFN98360.1| helix-turn-helix family protein [Streptococcus mitis SK564]
          Length = 260

 Score = 76.8 bits (188), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 21/108 (19%), Positives = 48/108 (44%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           + I +G++I+  R+  G +Q++LG  +GI+   +  YEKG      + +  ++      I
Sbjct: 6   IAIVIGEKIKQYRLANGWTQQELGAKIGISKNAIGNYEKGFRSPKKNTMFDLANAFNVSI 65

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
              F          +S    + D +  P   ++  Y  ++ D + +++
Sbjct: 66  DDLFPPIQKDTPPTTSPIQTIYDQLEPPGQRKVITYAEKLRDEQEKRR 113


>gi|315499434|ref|YP_004088237.1| transcriptional regulator, xre family [Asticcacaulis excentricus
          CB 48]
 gi|315417446|gb|ADU14086.1| transcriptional regulator, XRE family [Asticcacaulis excentricus
          CB 48]
          Length = 276

 Score = 76.4 bits (187), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 27/66 (40%), Positives = 42/66 (63%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N VD +VG R+R+RR ++ MS++ L   LGIT  Q++K E+G  R+G   L   +E L+ 
Sbjct: 9  NEVDTHVGLRLRVRRELVQMSEDWLAGHLGITSAQLRKIEEGRARIGNRELLLCAEALDV 68

Query: 69 PISFFF 74
          P  +F+
Sbjct: 69 PERYFY 74


>gi|226328955|ref|ZP_03804473.1| hypothetical protein PROPEN_02857 [Proteus penneri ATCC 35198]
 gi|225202141|gb|EEG84495.1| hypothetical protein PROPEN_02857 [Proteus penneri ATCC 35198]
          Length = 125

 Score = 76.4 bits (187), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 22/76 (28%), Positives = 42/76 (55%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P+   +G +IR +R  L +S + + E +GI+ QQ  +YE G+ ++    L HI++ L+  
Sbjct: 36  PISQIIGHKIRKQRQQLRLSAKVVAERVGISQQQFSRYENGLCKIDVDMLFHIAQELKVT 95

Query: 70  ISFFFDVSPTVCSDIS 85
            +FF   +    S ++
Sbjct: 96  PAFFLPPNEEQVSAVA 111


>gi|268590938|ref|ZP_06125159.1| DNA-binding protein [Providencia rettgeri DSM 1131]
 gi|291313738|gb|EFE54191.1| DNA-binding protein [Providencia rettgeri DSM 1131]
          Length = 78

 Score = 76.4 bits (187), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 21/64 (32%), Positives = 37/64 (57%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+  VG+ IR RR  LG+S  +L   +G++ QQ+ +YE+G   +    L  ++  L++ +
Sbjct: 4  VNRIVGREIRKRRKHLGLSGIELANLVGVSQQQISRYERGECNINIENLHTLANALDTEM 63

Query: 71 SFFF 74
            FF
Sbjct: 64 ICFF 67


>gi|268591879|ref|ZP_06126100.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291312853|gb|EFE53306.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 82

 Score = 76.0 bits (186), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 24/72 (33%), Positives = 42/72 (58%), Gaps = 3/72 (4%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          V N +I N     +G+++R RR++LG S   LG+  G++ QQ+ +YE+G       RL  
Sbjct: 3  VYNTEISNS---FIGQQVRKRRLLLGWSASTLGKKSGLSQQQISRYERGTQNFTIYRLCI 59

Query: 62 ISEVLESPISFF 73
           + +LE  +++F
Sbjct: 60 FANILECDLNYF 71


>gi|321272347|gb|ADW80228.1| putative transcriptional regulator [Wolbachia endosymbiont wVitB of
           Nasonia vitripennis phage WOVitB]
          Length = 306

 Score = 76.0 bits (186), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 23/127 (18%), Positives = 56/127 (44%), Gaps = 7/127 (5%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D  VG++++  R+  G +Q+ L E +G+ +  +  YE G  ++   +L  I+E L
Sbjct: 5   MEKSLDYEVGQKVKNWRLERGYTQKDLAEKVGVKYWAILXYEXGNRKIPIKKLYAIAEAL 64

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFI------STPDGLQLNRYFIQIDDVKVRQKI- 119
              +                E+  +++ +         +   L   FI++ + + R+ + 
Sbjct: 65  SVNVKGLVCGETLPNEKRYFEDEXILNLVKGYKDKELSEVFYLLTKFIRLSEERSRKAVK 124

Query: 120 IELVRSI 126
           +E+ R +
Sbjct: 125 MEVARGL 131



 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 33/111 (29%), Positives = 53/111 (47%), Gaps = 13/111 (11%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           PV   VG+RI+  R+I G +Q+ L   +GIT Q + +YE+G + V    L  I++VL   
Sbjct: 158 PVPYKVGQRIKEWRLIRGYTQKDLANKVGITNQGIYEYEQGRSAVSLEMLDEIAKVLSIS 217

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           I    D+ P    D  +EE              L   + +I+  ++R  +I
Sbjct: 218 I---IDLLPESDEDSEAEEKLSK----------LIEEYKKIESRELRNVLI 255


>gi|294478947|gb|ADE87512.1| transcriptional regulator [Deep-sea thermophilic phage D6E]
          Length = 206

 Score = 76.0 bits (186), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 23/82 (28%), Positives = 45/82 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ I   R + G+S E+LG  +G+T + +++YE G  R+   R+  I+E L+   +  +
Sbjct: 8  VGQNIEKYRKMKGLSAEELGNRVGLTKKTIRRYETGEIRIINDRVLAIAEALDVDPADLY 67

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
          + +  V     +E+  ++  IS
Sbjct: 68 EGTDVVEFTDETEKLPIVGAIS 89


>gi|89095957|ref|ZP_01168851.1| hypothetical protein B14911_04469 [Bacillus sp. NRRL B-14911]
 gi|89089703|gb|EAR68810.1| hypothetical protein B14911_04469 [Bacillus sp. NRRL B-14911]
          Length = 292

 Score = 76.0 bits (186), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 29/101 (28%), Positives = 49/101 (48%), Gaps = 1/101 (0%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++IR  R +LG+SQ++L E +  T  Q+ K EKG     AS L  IS+ L   +++FF
Sbjct: 6   IGQKIRDLRKLLGLSQKELAEGI-CTQAQISKIEKGDVYPYASTLYLISQKLGVDVNYFF 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
            +  T   D   E    ++        +  R  I+ ++   
Sbjct: 65  HIGTTPRLDYILEVERQLEITRRSFDYETMRSIIKGEENNP 105


>gi|295135558|ref|YP_003586234.1| XRE family transcriptional regulator [Zunongwangia profunda SM-A87]
 gi|294983573|gb|ADF54038.1| XRE family transcriptional regulator [Zunongwangia profunda SM-A87]
          Length = 140

 Score = 76.0 bits (186), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 41/132 (31%), Positives = 62/132 (46%), Gaps = 13/132 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G++I   R + GM QE L   LGI+ Q V   EK  N V    L+ ISEVL       
Sbjct: 21  HIGRKISRIRELRGMKQEALAAELGISQQSVSNLEKSEN-VDEGTLKKISEVLNV----- 74

Query: 74  FDVSPTVCSDISSEE-NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
              SP      + E   N+++     +    N YF  ID V+   KI+EL   +V +EK+
Sbjct: 75  ---SPEAIRHFTEEAVFNIINNTFKDNSANNNNYFCTIDPVE---KIVELYERLVQAEKE 128

Query: 133 YRTIEEECMVEQ 144
                E+ + ++
Sbjct: 129 KNAYLEKLLDKK 140


>gi|271502480|ref|YP_003335506.1| XRE family transcriptional regulator [Dickeya dadantii Ech586]
 gi|270346035|gb|ACZ78800.1| transcriptional regulator, XRE family [Dickeya dadantii Ech586]
          Length = 106

 Score = 75.6 bits (185), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 29/125 (23%), Positives = 55/125 (44%), Gaps = 26/125 (20%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQ 60
           K   N  D+   +R++  R+  G+SQ+KLG   G    +   ++ +YEKGV+       Q
Sbjct: 2   KAKQNYHDVF-CQRLKQARLAKGLSQKKLGIAAGIDEFVASTRINRYEKGVHEASIDTAQ 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            +S+ L+ P++FF+     +                     +L   F ++   K R +I+
Sbjct: 61  QLSDALDVPLAFFYTADDQLA--------------------ELMLAFWEMPPEK-RAEIL 99

Query: 121 ELVRS 125
            L ++
Sbjct: 100 VLAKT 104


>gi|312868402|ref|ZP_07728602.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
 gi|311096147|gb|EFQ54391.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
          Length = 228

 Score = 75.6 bits (185), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 42/73 (57%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L M+Q+ + + LGIT+Q    +E+GV +    ++Q + ++L  P  +F ++
Sbjct: 5  EKLKARRKELKMTQKDIADQLGITYQAYSAWERGVKQPSREKVQQLEQILNVPKGYFTEL 64

Query: 77 SPTVCSDISSEEN 89
                +I S+E 
Sbjct: 65 EIARLYNILSDEA 77


>gi|213019906|ref|ZP_03335697.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212994507|gb|EEB55164.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 314

 Score = 75.2 bits (184), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 54/115 (46%), Gaps = 10/115 (8%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +   + +++R  R+  G +Q+ L   +G+T+Q V +YEKG+ ++   +L  I++VL   
Sbjct: 14  SIRYQIAQKVRSWRLKRGYTQKDLAGKIGVTYQIVLQYEKGIRKISIEKLYAIAKVLSVD 73

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           I    D+ P     I  E+                R + +I+D ++R+    L +
Sbjct: 74  I---IDLIPVSNEKICLEDEEEEILDL-------VREYKKINDQELRKMFCLLTK 118



 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 29/126 (23%), Positives = 59/126 (46%), Gaps = 13/126 (10%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++ G +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I   
Sbjct: 171 QIGKKIKEWRLVRGYTQKDLAEKMSTTRDEISNYEQGRVAIPLEKLYAIAETLSINIMDL 230

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRSIVSSEKK 132
            +++      + +E  N            L   + +I+  ++R  +I+ L  SI   E+K
Sbjct: 231 LELTEDADDKVENELPN------------LIEEYKEIESQELRYALIKFLFESIQICEEK 278

Query: 133 YRTIEE 138
            + +E+
Sbjct: 279 VKRVEK 284


>gi|190570687|ref|YP_001975045.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|190356959|emb|CAQ54347.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
          Length = 305

 Score = 75.2 bits (184), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 54/115 (46%), Gaps = 10/115 (8%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +   + +++R  R+  G +Q+ L   +G+T+Q V +YEKG+ ++   +L  I++VL   
Sbjct: 5   SIRYQIAQKVRSWRLKRGYTQKDLAGKIGVTYQIVLQYEKGIRKISIEKLYAIAKVLSVD 64

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           I    D+ P     I  E+                R + +I+D ++R+    L +
Sbjct: 65  I---IDLIPVSNEKICLEDEEEEILDL-------VREYKKINDQELRKMFCLLTK 109



 Score = 67.1 bits (163), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 29/126 (23%), Positives = 59/126 (46%), Gaps = 13/126 (10%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++ G +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I   
Sbjct: 162 QIGKKIKEWRLVRGYTQKDLAEKMSTTRDEISNYEQGRVAIPLEKLYAIAETLSINIMDL 221

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRSIVSSEKK 132
            +++      + +E  N            L   + +I+  ++R  +I+ L  SI   E+K
Sbjct: 222 LELTEDADDKVENELPN------------LIEEYKEIESQELRYALIKFLFESIQICEEK 269

Query: 133 YRTIEE 138
            + +E+
Sbjct: 270 VKRVEK 275


>gi|308181771|ref|YP_003925899.1| XRE family transcriptional regulator [Lactobacillus plantarum
          subsp. plantarum ST-III]
 gi|308047262|gb|ADN99805.1| XRE family transcriptional regulator [Lactobacillus plantarum
          subsp. plantarum ST-III]
          Length = 188

 Score = 75.2 bits (184), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 19/63 (30%), Positives = 39/63 (61%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+ +R+ L ++Q ++ E L +T Q V ++E G + +    +Q +SE+ + P ++FF
Sbjct: 5  IGQRIKAKRLELKLTQNQVAEKLFVTQQTVARWENGKHTLPVKAVQDLSELFDVPTAYFF 64

Query: 75 DVS 77
             
Sbjct: 65 GED 67


>gi|261344499|ref|ZP_05972143.1| prophage Sa05, DNA-binding protein [Providencia rustigianii DSM
          4541]
 gi|282567408|gb|EFB72943.1| prophage Sa05, DNA-binding protein [Providencia rustigianii DSM
          4541]
          Length = 89

 Score = 75.2 bits (184), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 22/75 (29%), Positives = 38/75 (50%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   +G +I+L R   G+S   + + +GI+ QQ  +YE+G NR+   RL+  +      
Sbjct: 6  PVSAIIGNKIKLLRKEKGLSLIAVAKGVGISEQQQLRYERGNNRISIDRLKQYANYFNIS 65

Query: 70 ISFFFDVSPTVCSDI 84
          ++ FF  +      I
Sbjct: 66 LNQFFSFNENEKEKI 80


>gi|83951416|ref|ZP_00960148.1| probable transcriptional regulator [Roseovarius nubinhibens ISM]
 gi|83836422|gb|EAP75719.1| probable transcriptional regulator [Roseovarius nubinhibens ISM]
          Length = 219

 Score = 74.8 bits (183), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 3/86 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD  +G+ IR  R    ++   L E  G++   + + E+  NR   + L  IS  L   +
Sbjct: 24  VDPGLGEEIRNLRKARRLTLGALAEATGLSTGFISQIERAQNRPSVTALFRISRALGVSV 83

Query: 71  SFFF---DVSPTVCSDISSEENNVMD 93
           S+FF   +V  +   D  S + N  D
Sbjct: 84  SWFFPGPEVPDSGAPDPDSPDQNTAD 109


>gi|147677060|ref|YP_001211275.1| hypothetical protein PTH_0725 [Pelotomaculum thermopropionicum
          SI]
 gi|146273157|dbj|BAF58906.1| hypothetical protein [Pelotomaculum thermopropionicum SI]
          Length = 355

 Score = 74.8 bits (183), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 20/60 (33%), Positives = 36/60 (60%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+R+RL R   G+S  +L   +G++ Q + KYE+G++   +  L  ++E L   + +FF
Sbjct: 2  VGERLRLARRAAGLSLRELANRVGVSPQAISKYERGLDIPSSGVLLRLAEALGVNVEYFF 61


>gi|319650688|ref|ZP_08004827.1| hypothetical protein HMPREF1013_01432 [Bacillus sp. 2_A_57_CT2]
 gi|317397545|gb|EFV78244.1| hypothetical protein HMPREF1013_01432 [Bacillus sp. 2_A_57_CT2]
          Length = 294

 Score = 74.8 bits (183), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 27/73 (36%), Positives = 40/73 (54%), Gaps = 1/73 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RIR  R ++ +SQ +L + +  T  Q+ K EKG     AS L  ISE L   +++FF
Sbjct: 6  IGQRIRELRKLMNLSQGELAKGI-CTQAQISKIEKGDVYPYASTLYLISERLGVDVNYFF 64

Query: 75 DVSPTVCSDISSE 87
          D+  T   D   E
Sbjct: 65 DIGTTPRLDYVQE 77


>gi|226327970|ref|ZP_03803488.1| hypothetical protein PROPEN_01852 [Proteus penneri ATCC 35198]
 gi|225203674|gb|EEG86028.1| hypothetical protein PROPEN_01852 [Proteus penneri ATCC 35198]
          Length = 100

 Score = 74.8 bits (183), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 24/66 (36%), Positives = 38/66 (57%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   VG++I+  R   G +  +L + + I+ QQ+ +YE+GVNR+    L  + EVL   
Sbjct: 6  PVAYAVGQKIKSLRKSQGYTVFQLAKEIDISEQQLFRYERGVNRIDIDCLVKVLEVLGVN 65

Query: 70 ISFFFD 75
          I  FF+
Sbjct: 66 IGSFFE 71


>gi|212697366|ref|ZP_03305494.1| hypothetical protein ANHYDRO_01936 [Anaerococcus hydrogenalis DSM
          7454]
 gi|212675558|gb|EEB35165.1| hypothetical protein ANHYDRO_01936 [Anaerococcus hydrogenalis DSM
          7454]
          Length = 199

 Score = 74.8 bits (183), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 20/59 (33%), Positives = 35/59 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G++I+ +R  L ++QE L + L I+ Q V K+EKG++      L  +SE+    I +F
Sbjct: 34 IGEKIKNKRKELNLTQEYLAKELNISRQAVSKWEKGLSEPSMDNLVKLSEIFGVDIKYF 92


>gi|325847281|ref|ZP_08169999.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
 gi|325480912|gb|EGC83961.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
          Length = 167

 Score = 74.5 bits (182), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 20/59 (33%), Positives = 35/59 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G++I+ +R  L ++QE L + L I+ Q V K+EKG++      L  +SE+    I +F
Sbjct: 2  IGEKIKNKRKELNLTQEYLAKELNISRQAVSKWEKGLSEPSMDNLVKLSEIFGVDIKYF 60


>gi|229135297|ref|ZP_04264092.1| hypothetical phagelike protein [Bacillus cereus BDRD-ST196]
 gi|228648166|gb|EEL04206.1| hypothetical phagelike protein [Bacillus cereus BDRD-ST196]
          Length = 242

 Score = 74.5 bits (182), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 32/68 (47%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   +   VG++I+  R +  M+Q++LG  +G     +  YE G N      L  I+  L
Sbjct: 15 MKQNISKYVGQQIKHYRKLKKMTQKELGLRIGKKHNTISSYENGTNEPEQDALFAIANAL 74

Query: 67 ESPISFFF 74
          +  I+  F
Sbjct: 75 DVSINDLF 82


>gi|317484279|ref|ZP_07943203.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
          3_1_6]
 gi|316924460|gb|EFV45622.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
          3_1_6]
          Length = 272

 Score = 74.5 bits (182), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 25/73 (34%), Positives = 39/73 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+ RR  +G+SQE L +  G++ Q V K+E G +     RL  +S+VL   + F
Sbjct: 6  LNIGGKIQARRKAMGLSQEDLAQLTGVSRQSVTKWETGQSAPDLDRLVEVSDVLGVSLDF 65

Query: 73 FFDVSPTVCSDIS 85
                 V S  S
Sbjct: 66 LLREPQQVSSPPS 78


>gi|160943186|ref|ZP_02090422.1| hypothetical protein FAEPRAM212_00671 [Faecalibacterium
          prausnitzii M21/2]
 gi|158445425|gb|EDP22428.1| hypothetical protein FAEPRAM212_00671 [Faecalibacterium
          prausnitzii M21/2]
          Length = 392

 Score = 74.1 bits (181), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 26/67 (38%), Positives = 38/67 (56%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+ L R I  +S  KL E +G+T Q V +YE G+ +  A ++  IS+ L+ P  FFF+
Sbjct: 11 GMRLTLAREIQNISSPKLAEKIGVTKQTVSQYENGLIKPSADKVLAISQELKFPPKFFFE 70

Query: 76 VSPTVCS 82
           S    S
Sbjct: 71 GSSDNFS 77


>gi|197285673|ref|YP_002151545.1| transcriptional regulator [Proteus mirabilis HI4320]
 gi|227356180|ref|ZP_03840569.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
 gi|194683160|emb|CAR43778.1| putative transcriptional regulator [Proteus mirabilis HI4320]
 gi|227163644|gb|EEI48560.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
          Length = 100

 Score = 74.1 bits (181), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 24/81 (29%), Positives = 40/81 (49%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
              PV   VG++I+  R   G +  +L + + I+ QQ+ +YE+GVNR+    L  + +V
Sbjct: 2  SNKYPVAYAVGQKIKSLRKSQGYTVFQLAKEIDISEQQLFRYERGVNRIDIDCLVKVLDV 61

Query: 66 LESPISFFFDVSPTVCSDISS 86
          L   I  FF+       D+  
Sbjct: 62 LGINIGNFFEDVMGGMVDVPE 82


>gi|212711619|ref|ZP_03319747.1| hypothetical protein PROVALCAL_02694 [Providencia alcalifaciens
          DSM 30120]
 gi|212685721|gb|EEB45249.1| hypothetical protein PROVALCAL_02694 [Providencia alcalifaciens
          DSM 30120]
          Length = 91

 Score = 74.1 bits (181), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 23/69 (33%), Positives = 36/69 (52%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K   PV   +G +IR  R   G+S   + + +GI+ QQ  +YE+G NR+   RL+  +  
Sbjct: 2  KNSYPVSAVIGYKIRELRKEKGLSLLAVAKTIGISEQQQLRYERGHNRISIDRLKQYAIY 61

Query: 66 LESPISFFF 74
              I+ FF
Sbjct: 62 FNININDFF 70


>gi|227507921|ref|ZP_03937970.1| XRE family transcriptional regulator [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
 gi|227192635|gb|EEI72702.1| XRE family transcriptional regulator [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
          Length = 187

 Score = 74.1 bits (181), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 37/63 (58%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI+  R+   ++Q +L E L +T Q V ++E   ++   + +Q ++++ +  +S+FF
Sbjct: 7  IGKRIKKIRIKNQLTQNQLAEKLFVTQQTVARWENDKHQPPITAVQDLAKLFDVDVSYFF 66

Query: 75 DVS 77
             
Sbjct: 67 GED 69


>gi|190570881|ref|YP_001975239.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|190571713|ref|YP_001976071.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|213019313|ref|ZP_03335120.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|213019394|ref|ZP_03335200.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|190357153|emb|CAQ54565.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|190357985|emb|CAQ55448.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|212994816|gb|EEB55458.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212995422|gb|EEB56063.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 325

 Score = 73.7 bits (180), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 30/132 (22%), Positives = 60/132 (45%), Gaps = 11/132 (8%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           +K+  +    N G+ I+  R+I G +QE+L + L +   Q+  YE+G  ++ + RL  I+
Sbjct: 163 DKESIHYTSQNGGQEIKKWRIIRGYTQEELAKKLNVGPSQIHHYEQGSVKILSERLWEIA 222

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           E L                D+  E++   D     + L L R   +I++ + R ++   V
Sbjct: 223 EKLSV-----------NAEDLIREKDCYEDDEGEKELLSLARELKKINNQESRDELDIWV 271

Query: 124 RSIVSSEKKYRT 135
             +   ++ Y+ 
Sbjct: 272 EFLSQRKQVYKE 283



 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/129 (18%), Positives = 54/129 (41%), Gaps = 12/129 (9%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K  +P    + + +R  R+    + + L +  GI +  + +YE+G   +   +L+ I+
Sbjct: 11  NTKNISPARYKIAQNVRSWRLKQKYALKDLVDKTGIKYHTLLRYEQGACGIPIEKLKVIA 70

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           E L   +   F     +      +E+ + +++           +  I   + R+ I  L 
Sbjct: 71  EGLSIHVRNLFPRRKALRESGCFDESKI-EWM-----------YNFIAKTRGRKAIYALT 118

Query: 124 RSIVSSEKK 132
           +SI + E+ 
Sbjct: 119 KSIGAEEEN 127


>gi|212709228|ref|ZP_03317356.1| hypothetical protein PROVALCAL_00263 [Providencia alcalifaciens
          DSM 30120]
 gi|212688140|gb|EEB47668.1| hypothetical protein PROVALCAL_00263 [Providencia alcalifaciens
          DSM 30120]
          Length = 83

 Score = 73.7 bits (180), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 21/67 (31%), Positives = 41/67 (61%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +  + ++G ++R RR++LG S   LG+  G++ QQ+ +YE+G      SRL   + VL+ 
Sbjct: 7  HISNTDIGAKVRKRRLLLGWSASILGKKTGLSQQQISRYERGTQNFTISRLCIFANVLQC 66

Query: 69 PISFFFD 75
           +++F +
Sbjct: 67 DLNYFLE 73


>gi|322388880|ref|ZP_08062472.1| hypothetical transcriptional regulator [Streptococcus infantis ATCC
           700779]
 gi|321140263|gb|EFX35776.1| hypothetical transcriptional regulator [Streptococcus infantis ATCC
           700779]
          Length = 228

 Score = 73.7 bits (180), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 26/128 (20%), Positives = 59/128 (46%), Gaps = 27/128 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q+++ E LGI+FQ    +E+GV      +++ + E+L+ P  +F   
Sbjct: 5   EKLKARRKELKLTQKEIAEQLGISFQAYSAWERGVKEPSKEKVKQLEEILKVPKGYFTQ- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK-KYRT 135
                                   +++ R +  + + K ++K++   R++   E+ K  T
Sbjct: 64  ------------------------IEIVRLYNSLSN-KGKEKVVVYARNLAQEEQAKKVT 98

Query: 136 IEEECMVE 143
              E + E
Sbjct: 99  AISEKLYE 106


>gi|148243675|ref|YP_001219915.1| XRE family transcriptional regulator [Acidiphilium cryptum JF-5]
 gi|148243717|ref|YP_001219957.1| XRE family transcriptional regulator [Acidiphilium cryptum JF-5]
 gi|146400238|gb|ABQ28773.1| transcriptional regulator, XRE family [Acidiphilium cryptum JF-5]
 gi|146400280|gb|ABQ28815.1| transcriptional regulator, XRE family [Acidiphilium cryptum JF-5]
          Length = 185

 Score = 73.7 bits (180), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 27/140 (19%), Positives = 59/140 (42%), Gaps = 13/140 (9%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +D ++G +I  RR  +G+S+ +L   L +  + +  YE+G+  V  + L  +++ L   
Sbjct: 18  SLDAHIGGQITARRAEIGLSRRQLAMTLRVPVRGIAAYERGIQHVAPADLFRLAQALGVD 77

Query: 70  ISFFFDVS-------------PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           +++F+  S             P             +D     D  Q+   F +I +  +R
Sbjct: 78  LAYFYTDSASSPQAPKAETGCPVGGRAAGGVGQAAVDMRQYDDIDQIADRFSRIRNPAIR 137

Query: 117 QKIIELVRSIVSSEKKYRTI 136
           + +  ++ S+   E    T+
Sbjct: 138 RCVTRMLDSLAEHEVSSVTV 157


>gi|253690483|ref|YP_003019673.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
           subsp. carotovorum PC1]
 gi|251757061|gb|ACT15137.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
           subsp. carotovorum PC1]
          Length = 111

 Score = 73.3 bits (179), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 55/120 (45%), Gaps = 26/120 (21%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISE 64
           N  D+   +R++  R+  G+SQ+KLG   G    +   ++ +YEKGV+       Q ++E
Sbjct: 6   NYHDVF-CQRLKQARLAKGLSQKKLGIAAGIDEFVASTRINRYEKGVHEASIETAQQLAE 64

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            L+ P+++F+  +                     +  ++   F+ +   K R +++ LV+
Sbjct: 65  ALDVPLAYFYTEND--------------------ELAEMMLAFLALSPEK-RAEVLALVK 103


>gi|282600090|ref|ZP_05972947.2| DNA-binding protein [Providencia rustigianii DSM 4541]
 gi|282566637|gb|EFB72172.1| DNA-binding protein [Providencia rustigianii DSM 4541]
          Length = 99

 Score = 73.3 bits (179), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 27/90 (30%), Positives = 46/90 (51%), Gaps = 3/90 (3%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  N K   PV   VG++I+  R   G +  +L + + I+ QQ+ +YE+GVNR+    L 
Sbjct: 1  MFMNTK--YPVACAVGQKIKSLRKAQGYTVFQLAKEIDISEQQLFRYERGVNRIDIDCLV 58

Query: 61 HISEVLESPISFFF-DVSPTVCSDISSEEN 89
           + +VL   +  FF +V     +    +E+
Sbjct: 59 RVLKVLGVNMGEFFGEVLQDDMNATEGKES 88


>gi|296877345|ref|ZP_06901385.1| hypothetical transcriptional regulator [Streptococcus
          parasanguinis ATCC 15912]
 gi|296431865|gb|EFH17672.1| hypothetical transcriptional regulator [Streptococcus
          parasanguinis ATCC 15912]
          Length = 228

 Score = 73.3 bits (179), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 42/73 (57%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +++++RR  L ++Q+ + + LG+++Q    +E+GV +    ++Q + ++L  P  FF ++
Sbjct: 5  EKLKIRRKELKLTQKDIADQLGVSYQAYSAWERGVKQPSREKVQQLEQILNVPKGFFTEI 64

Query: 77 SPTVCSDISSEEN 89
                +  S+E 
Sbjct: 65 EIVRLYNTLSDEG 77


>gi|212711628|ref|ZP_03319756.1| hypothetical protein PROVALCAL_02703 [Providencia alcalifaciens
          DSM 30120]
 gi|212685730|gb|EEB45258.1| hypothetical protein PROVALCAL_02703 [Providencia alcalifaciens
          DSM 30120]
          Length = 95

 Score = 73.3 bits (179), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 21/75 (28%), Positives = 39/75 (52%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+   +GK+I   R + GMS   + + + ++ QQ  +YE+GVNR+   RL   + +    
Sbjct: 7  PISRIIGKKITYYRKMNGMSLCDISKMIHVSEQQQSRYERGVNRINLDRLHQYARIFSID 66

Query: 70 ISFFFDVSPTVCSDI 84
          +  FF ++     +I
Sbjct: 67 LIDFFVLNEHDADNI 81


>gi|146296429|ref|YP_001180200.1| XRE family transcriptional regulator [Caldicellulosiruptor
          saccharolyticus DSM 8903]
 gi|145410005|gb|ABP67009.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          saccharolyticus DSM 8903]
          Length = 122

 Score = 73.3 bits (179), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 40/71 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++++  R   G++QE++ + LGI   Q+  YE GV  +    LQ ++++    +++FF
Sbjct: 10 IGQKLQEARKKAGLTQEQVADYLGINKVQLSYYENGVREISIGTLQQLADLYGYTLNYFF 69

Query: 75 DVSPTVCSDIS 85
          D   +    +S
Sbjct: 70 DDEKSTDPAVS 80


>gi|302672234|ref|YP_003832194.1| HTH/TPR domain-containing protein [Butyrivibrio proteoclasticus
           B316]
 gi|302396707|gb|ADL35612.1| HTH/TPR domain-containing protein [Butyrivibrio proteoclasticus
           B316]
          Length = 374

 Score = 73.3 bits (179), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 23/95 (24%), Positives = 44/95 (46%), Gaps = 4/95 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G +I+  R+   ++QEKL E L ++FQ + ++E G++    S +  I+        + 
Sbjct: 3   NLGSKIKELRIAENLTQEKLAEELNVSFQSISRWENGISTPDISLIPAIARFFGVSTDYL 62

Query: 74  FDVSPTVCSDISSE-ENNVMDFISTPDGLQLNRYF 107
           F +         SE E    D+    +G  L+  +
Sbjct: 63  FGLQDEESEAEKSELEAAYWDY--RKEG-NLDEAY 94


>gi|197284093|ref|YP_002149965.1| transcriptional regulator [Proteus mirabilis HI4320]
 gi|227358035|ref|ZP_03842377.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
 gi|194681580|emb|CAR40549.1| putative transcriptional regulator [Proteus mirabilis HI4320]
 gi|227161770|gb|EEI46802.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
          Length = 98

 Score = 72.9 bits (178), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 35/64 (54%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+   +G +IR +R  L +S + + E +G++ QQ  +YE G+ ++    L  I++ L   
Sbjct: 6  PISQIIGHKIRQQRQHLRLSAKAVAERVGVSQQQFSRYENGLCKIDVDMLFLIAKELNVT 65

Query: 70 ISFF 73
           + F
Sbjct: 66 PTAF 69


>gi|183599870|ref|ZP_02961363.1| hypothetical protein PROSTU_03389 [Providencia stuartii ATCC
          25827]
 gi|188022143|gb|EDU60183.1| hypothetical protein PROSTU_03389 [Providencia stuartii ATCC
          25827]
          Length = 113

 Score = 72.9 bits (178), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 21/60 (35%), Positives = 33/60 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I+  R     S  K+   LGI+ QQ  +YE+GVN +    L +I  +L+  +S FF
Sbjct: 14 IGEEIKRLRKASSFSGTKMASELGISQQQYSRYERGVNTISVDALLNILCILDCDVSSFF 73


>gi|229119313|ref|ZP_04248616.1| hypothetical phagelike protein [Bacillus cereus Rock1-3]
 gi|228664179|gb|EEL19717.1| hypothetical phagelike protein [Bacillus cereus Rock1-3]
          Length = 228

 Score = 72.5 bits (177), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 33/68 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   V   VG++I+  R +  M+Q++LG  +G     +  YE G N      L  I++ L
Sbjct: 1  MKQDVSKYVGQQIKNFRKLKKMTQKELGLRIGKKHNTISSYENGTNEPEQDVLFAIAQAL 60

Query: 67 ESPISFFF 74
          +  I+  F
Sbjct: 61 DISINDLF 68


>gi|225419785|ref|ZP_03762088.1| hypothetical protein CLOSTASPAR_06123 [Clostridium asparagiforme
           DSM 15981]
 gi|225041568|gb|EEG51814.1| hypothetical protein CLOSTASPAR_06123 [Clostridium asparagiforme
           DSM 15981]
          Length = 264

 Score = 72.5 bits (177), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 22/79 (27%), Positives = 36/79 (45%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V  ++G RIR+ R    M+ ++L + +  +   V KYE G   +    L  I++VL    
Sbjct: 26  VSEHIGGRIRMYRKAREMTLQQLADSIHKSRASVSKYENGEITLDVETLFEIAQVLMVSP 85

Query: 71  SFFFDVSPTVCSDISSEEN 89
           S   DV P +     +  N
Sbjct: 86  SQLMDVRPPMPKSAETSPN 104


>gi|238027673|ref|YP_002911904.1| putative phage repressor [Burkholderia glumae BGR1]
 gi|237876867|gb|ACR29200.1| Putative phage repressor [Burkholderia glumae BGR1]
          Length = 241

 Score = 72.5 bits (177), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 20/84 (23%), Positives = 46/84 (54%), Gaps = 3/84 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G RIR +R+  G++ +++G+  GI+   V  +E+G  R    +L  ++ +L++ I+F
Sbjct: 1  MDIGSRIREKRLAHGLTLQQVGDMFGISRSAVASWERGATRPDQDKLPRLARILKTSIAF 60

Query: 73 FFDVS---PTVCSDISSEENNVMD 93
                      SD  ++++ V +
Sbjct: 61 LLSGERRHDIGGSDSPTDDDEVTE 84


>gi|46019830|emb|CAE52354.1| putative transcriptional regulator [Streptococcus thermophilus]
          Length = 228

 Score = 72.5 bits (177), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 22/120 (18%), Positives = 56/120 (46%), Gaps = 26/120 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q+ + + LGI++Q    +E+GV      +++ + ++L+ P  +F + 
Sbjct: 5   EKLKARRKELKLTQKNIADQLGISYQAYSAWERGVKEPSKEKVKRLEQILKVPRGYFTE- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
                                   +++ R +  + + K + +++E  R +V  EK  + I
Sbjct: 64  ------------------------IEIVRLYNTLSN-KGKNQVVEYARDLVQKEKTQQVI 98


>gi|261344511|ref|ZP_05972155.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282567421|gb|EFB72956.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 95

 Score = 72.5 bits (177), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 2/89 (2%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +  +VG +IR  R   GMS +KL E +GI+ Q   +YE G   +    +  +S++     
Sbjct: 5  ISKSVGLKIRTLRESHGMSGKKLSELMGISQQHQSRYENGEVNIHVDTIYLLSQIFSVEP 64

Query: 71 SFFFDVSPTVCSDISSEENNVMDFISTPD 99
           +FF       +   +EEN +     T +
Sbjct: 65 IYFFSEFDRHNNH--NEENALQKNYYTAE 91


>gi|167751674|ref|ZP_02423801.1| hypothetical protein EUBSIR_02680 [Eubacterium siraeum DSM 15702]
 gi|167655482|gb|EDR99611.1| hypothetical protein EUBSIR_02680 [Eubacterium siraeum DSM 15702]
          Length = 271

 Score = 72.5 bits (177), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 36/71 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  I  +R  LG++Q+ L E L ++FQ + K+E G +      L  I+ +L++ I  
Sbjct: 1  MNIGNVISEKRKALGLTQQALAEKLHVSFQAISKWENGTSCPDIELLPQIAAILKTTIDS 60

Query: 73 FFDVSPTVCSD 83
                   +D
Sbjct: 61 LLGYPSQSVTD 71


>gi|212712199|ref|ZP_03320327.1| hypothetical protein PROVALCAL_03284 [Providencia alcalifaciens
          DSM 30120]
 gi|212684945|gb|EEB44473.1| hypothetical protein PROVALCAL_03284 [Providencia alcalifaciens
          DSM 30120]
          Length = 99

 Score = 72.5 bits (177), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 27/90 (30%), Positives = 45/90 (50%), Gaps = 2/90 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  N K   PV   VG++I+  R   G +  +L + + I+ QQ+ +YE+GVNR+    L 
Sbjct: 1  MFMNTK--YPVACAVGQKIKSLRKAQGYTVFQLAKEIDISEQQLFRYERGVNRIDIDCLV 58

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENN 90
           + +VL   +  FF       ++ S E  +
Sbjct: 59 RVLKVLGVNMGEFFSEVLQDDTNASEERES 88


>gi|295094125|emb|CBK83216.1| Predicted transcriptional regulators [Coprococcus sp. ART55/1]
          Length = 242

 Score = 72.5 bits (177), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 23/91 (25%), Positives = 43/91 (47%), Gaps = 3/91 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G RI+  R   G++QE+  E +G++ Q V K+E+        RL  I E+L+  +  
Sbjct: 2   LLIGSRIQEYRKKAGLNQEEFAEKMGVSRQAVSKWERDKAYPDLDRLVCICEILDVQVG- 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
             ++      +  + E    D  ST + + L
Sbjct: 61  --ELIYGKGDEPEAPEEVSGDGTSTNNAVHL 89


>gi|225374593|ref|ZP_03751814.1| hypothetical protein ROSEINA2194_00208 [Roseburia inulinivorans
          DSM 16841]
 gi|225213545|gb|EEG95899.1| hypothetical protein ROSEINA2194_00208 [Roseburia inulinivorans
          DSM 16841]
          Length = 179

 Score = 72.5 bits (177), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 24/71 (33%), Positives = 37/71 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++I+  R + G+SQE LG+  GI    ++KYE G+      +L  I+  L   I+ F D
Sbjct: 4  GEKIKYFRNMRGISQETLGQLSGINSATIKKYEYGIRNPKPDQLLKIANALGISINIFMD 63

Query: 76 VSPTVCSDISS 86
                SD+ S
Sbjct: 64 FDIETVSDVLS 74


>gi|331086447|ref|ZP_08335527.1| hypothetical protein HMPREF0987_01830 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|330406213|gb|EGG85736.1| hypothetical protein HMPREF0987_01830 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 179

 Score = 72.2 bits (176), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 24/71 (33%), Positives = 37/71 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++I+  R + G+SQE LG+  GI    ++KYE G+      +L  I+  L   I+ F D
Sbjct: 4  GEKIKYFRNMRGISQETLGQLSGINSSTIKKYEYGIRNPKPDQLLKIANALGISINIFMD 63

Query: 76 VSPTVCSDISS 86
                SD+ S
Sbjct: 64 FDIETVSDVLS 74


>gi|269120018|ref|YP_003308195.1| XRE family transcriptional regulator [Sebaldella termitidis ATCC
          33386]
 gi|268613896|gb|ACZ08264.1| transcriptional regulator, XRE family [Sebaldella termitidis ATCC
          33386]
          Length = 108

 Score = 72.2 bits (176), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 23/78 (29%), Positives = 39/78 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G  I+  R    ++Q++L + +G     V KYE G   V  + L  ISE+L++P+S 
Sbjct: 3  KLIGSNIKNYRKTNKLTQQELADKIGKHKITVAKYESGKISVPMAVLHEISEILDTPMSD 62

Query: 73 FFDVSPTVCSDISSEENN 90
          FF  +P    +   +E  
Sbjct: 63 FFKENPISIDNFEPKEKY 80


>gi|229822080|ref|YP_002883606.1| XRE family transcriptional regulator [Beutenbergia cavernae DSM
           12333]
 gi|229567993|gb|ACQ81844.1| transcriptional regulator, XRE family [Beutenbergia cavernae DSM
           12333]
          Length = 488

 Score = 72.2 bits (176), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 29/132 (21%), Positives = 50/132 (37%), Gaps = 5/132 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG+RIR  R    ++ + L    G    Q+   E G   V  S LQ I+  L+   + 
Sbjct: 10  LTVGRRIRHFRTERRLTLDDLARLTGSAASQLSLVENGRREVRVSLLQQIARALDVSPAD 69

Query: 73  FFDVSPTVCS---DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
             +  P       +I+ EE       +T  GL   R   ++    + + ++ L   +   
Sbjct: 70  LLEAEPPTRRAALEIALEEAQRGSLYATL-GLPAVRASKRLPTEAL-EALVGLHSELARR 127

Query: 130 EKKYRTIEEECM 141
           E +     EE  
Sbjct: 128 ESEASATPEEAR 139


>gi|332654251|ref|ZP_08419995.1| putative transcriptional regulator [Ruminococcaceae bacterium
          D16]
 gi|332517337|gb|EGJ46942.1| putative transcriptional regulator [Ruminococcaceae bacterium
          D16]
          Length = 230

 Score = 71.8 bits (175), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 33/70 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI L R   G+SQE+LGE LG++ Q V K+E G N    + L  +  +      +    
Sbjct: 5  ERIALARKQAGLSQEQLGEKLGVSRQAVSKWESGQNNPDVAYLAEMCRLFGVSSDWLLLG 64

Query: 77 SPTVCSDISS 86
            T  +   +
Sbjct: 65 KETEQASAPA 74


>gi|210610934|ref|ZP_03288659.1| hypothetical protein CLONEX_00849 [Clostridium nexile DSM 1787]
 gi|210152234|gb|EEA83241.1| hypothetical protein CLONEX_00849 [Clostridium nexile DSM 1787]
          Length = 157

 Score = 71.8 bits (175), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 26/74 (35%), Positives = 38/74 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG++I+  R I G+SQE LG   GI    ++KYE G+      +L  I+  L   I+ 
Sbjct: 1  MTVGEKIKYYRNIRGISQEMLGNLSGINPATIKKYEYGIRNPKPDQLLKITNALGISINL 60

Query: 73 FFDVSPTVCSDISS 86
          F D      SD+ S
Sbjct: 61 FMDFDIETVSDVLS 74


>gi|323126526|gb|ADX23823.1| transcriptional regulator [Streptococcus dysgalactiae subsp.
          equisimilis ATCC 12394]
          Length = 227

 Score = 71.8 bits (175), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 38/73 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L ++Q+ + E LGI++Q    +E+GV    A ++  + ++L  P  +F ++
Sbjct: 5  EKLKERRKELKLTQKDIAEKLGISYQAYSAWERGVKEPSAEKVSQLEKLLNVPKGYFTEI 64

Query: 77 SPTVCSDISSEEN 89
                +  S   
Sbjct: 65 EIVRLYNTLSSSG 77


>gi|183597904|ref|ZP_02959397.1| hypothetical protein PROSTU_01240 [Providencia stuartii ATCC
          25827]
 gi|188022666|gb|EDU60706.1| hypothetical protein PROSTU_01240 [Providencia stuartii ATCC
          25827]
          Length = 119

 Score = 71.8 bits (175), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 22/73 (30%), Positives = 35/73 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VGK I   R   G++ ++L + L ++ QQ+ +YE+GV  +    L  I   L   +S 
Sbjct: 14 IAVGKEIFRLRKKRGLTGKQLAKKLNVSQQQISRYERGVCNINVDTLFVILHELGCSLSN 73

Query: 73 FFDVSPTVCSDIS 85
          FF       +D  
Sbjct: 74 FFSAVYLSINDTE 86


>gi|150020298|ref|YP_001305652.1| XRE family transcriptional regulator [Thermosipho melanesiensis
          BI429]
 gi|149792819|gb|ABR30267.1| transcriptional regulator, XRE family [Thermosipho melanesiensis
          BI429]
          Length = 244

 Score = 71.8 bits (175), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 39/76 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++I+  R+   +SQE+L + LGI+ + +  YE          L+ I+++    +++
Sbjct: 1  MDLGEKIKQLRLERDISQEQLAKRLGISRESISHYENNRIVPPVHILREIAKIFNVSVNY 60

Query: 73 FFDVSPTVCSDISSEE 88
          FF+      +     E
Sbjct: 61 FFEEEHYDKNVKGESE 76


>gi|311064246|ref|YP_003970971.1| hypothetical protein BBPR_0856 [Bifidobacterium bifidum PRL2010]
 gi|310866565|gb|ADP35934.1| Conserved hypothetical protein with helix-turn-helix motif
          [Bifidobacterium bifidum PRL2010]
          Length = 405

 Score = 71.8 bits (175), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 20/58 (34%), Positives = 33/58 (56%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+++R  R+  G++  +L E  G++ Q + KYEK  N    S L  ++  L  PIS+F
Sbjct: 16 GEKLRKARLYRGLTLTELAEETGVSKQALSKYEKNQNEPTPSNLFALARSLNFPISYF 73


>gi|197286053|ref|YP_002151925.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227356567|ref|ZP_03840954.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|194683540|emb|CAR44391.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227163323|gb|EEI48250.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 117

 Score = 71.8 bits (175), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 4/75 (5%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          + NKK    +   VG RI++ R   GM+  +LG  LG++ Q   ++E G   +    +  
Sbjct: 17 IMNKK----ISKIVGARIKMLRQQHGMTGSELGALLGVSQQHQSRFENGECNIHVDVIYL 72

Query: 62 ISEVLESPISFFFDV 76
          +S + +  +++FF  
Sbjct: 73 LSYIFKVKLNYFFQD 87


>gi|259047500|ref|ZP_05737901.1| Cro/CI family transcriptional regulator [Granulicatella adiacens
          ATCC 49175]
 gi|259035691|gb|EEW36946.1| Cro/CI family transcriptional regulator [Granulicatella adiacens
          ATCC 49175]
          Length = 180

 Score = 71.8 bits (175), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 22/80 (27%), Positives = 38/80 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G ++R  R+  G++QE+L E   ++   + + E  ++         I EVL  P + 
Sbjct: 1  MEIGHQLRALRIQKGLTQEELAERTDLSKGYISQLENDLSSPSMDTFFDILEVLGCPAAD 60

Query: 73 FFDVSPTVCSDISSEENNVM 92
          FFD  P     I  EE+  M
Sbjct: 61 FFDEGPEEALTIYREEDMTM 80


>gi|254447927|ref|ZP_05061391.1| helix-turn-helix domain protein [gamma proteobacterium HTCC5015]
 gi|198262353|gb|EDY86634.1| helix-turn-helix domain protein [gamma proteobacterium HTCC5015]
          Length = 363

 Score = 71.8 bits (175), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 1/70 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +RIR  R + GM+ +++ + +G I+ Q + KYEKG +   ++RL  +++VL     +FF 
Sbjct: 4  ERIRRARALKGMTLQEVADQIGGISKQAISKYEKGKDAPNSTRLIQLADVLGVKPEYFFR 63

Query: 76 VSPTVCSDIS 85
                 ++ 
Sbjct: 64 ADSVELGEVD 73


>gi|212711630|ref|ZP_03319758.1| hypothetical protein PROVALCAL_02705 [Providencia alcalifaciens
          DSM 30120]
 gi|212685732|gb|EEB45260.1| hypothetical protein PROVALCAL_02705 [Providencia alcalifaciens
          DSM 30120]
          Length = 95

 Score = 71.4 bits (174), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 22/79 (27%), Positives = 37/79 (46%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V   VG +IR  R   G+S +KL E +GI+ Q + +YE G   +    L H S +     
Sbjct: 5  VSKAVGLKIRALRESRGISGKKLSELMGISQQHLSRYENGDVNIHVDTLYHFSLIFSVDP 64

Query: 71 SFFFDVSPTVCSDISSEEN 89
          ++FF        +   +++
Sbjct: 65 AYFFAEFNERTGNREEQDS 83


>gi|222530426|ref|YP_002574308.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
           DSM 6725]
 gi|222457273|gb|ACM61535.1| transcriptional regulator, XRE family [Caldicellulosiruptor bescii
           DSM 6725]
          Length = 122

 Score = 71.4 bits (174), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 22/97 (22%), Positives = 44/97 (45%), Gaps = 8/97 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++++  R   G++QE++ + LG+   Q+  YE G   +    LQ ++++    +++F 
Sbjct: 10  IGQKLQEARKKAGLTQEQVADYLGVNKVQLSYYENGAREISIETLQQLADLYGYTLNYFL 69

Query: 75  DV----SPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
           D      P V      EE    D     + + L   F
Sbjct: 70  DDEKSTDPAVSFSFRGEELEKEDL----EVIALANRF 102


>gi|228966936|ref|ZP_04127974.1| Transcriptional regulator, Cro/CI [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228792670|gb|EEM40234.1| Transcriptional regulator, Cro/CI [Bacillus thuringiensis serovar
          sotto str. T04001]
          Length = 118

 Score = 71.4 bits (174), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 41/85 (48%), Gaps = 4/85 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R    ++QEK+GE +G++ Q + KYEKG        ++ +++    PI + F
Sbjct: 4  IGERIFELRKERKLTQEKIGENIGVSKQTISKYEKGTKIPSRENIEKLADFFNVPIDYLF 63

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            S           NN+ +   + +
Sbjct: 64 GKSDNSIK----SSNNIKEIFESDE 84


>gi|154500477|ref|ZP_02038515.1| hypothetical protein BACCAP_04149 [Bacteroides capillosus ATCC
          29799]
 gi|150270708|gb|EDM98004.1| hypothetical protein BACCAP_04149 [Bacteroides capillosus ATCC
          29799]
          Length = 259

 Score = 71.4 bits (174), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 34/82 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+   R   G+SQE+L   +G++ Q VQK+E G ++     L  ISE     + +    
Sbjct: 4  ERLYQLRRERGISQEELANIIGVSRQAVQKWESGASQPNIDNLVAISEYFGVTLDYLLKG 63

Query: 77 SPTVCSDISSEENNVMDFISTP 98
                +      +    I  P
Sbjct: 64 DEPGWEESDIPFEDTSQVICAP 85


>gi|325662713|ref|ZP_08151310.1| hypothetical protein HMPREF0490_02050 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|325471052|gb|EGC74279.1| hypothetical protein HMPREF0490_02050 [Lachnospiraceae bacterium
          4_1_37FAA]
          Length = 180

 Score = 71.4 bits (174), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 26/74 (35%), Positives = 38/74 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG++I+  R I G+SQE LG   GI    ++KYE G+      +L  I+  L   I+ 
Sbjct: 1  MTVGEKIKYYRNIRGISQEMLGNLSGINPATIKKYEYGIRNPKPDQLLKITNALGISINL 60

Query: 73 FFDVSPTVCSDISS 86
          F D      SD+ S
Sbjct: 61 FMDFDIETVSDVLS 74


>gi|322373520|ref|ZP_08048056.1| putative repressor protein [Streptococcus sp. C150]
 gi|321278562|gb|EFX55631.1| putative repressor protein [Streptococcus sp. C150]
          Length = 227

 Score = 71.4 bits (174), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 22/127 (17%), Positives = 55/127 (43%), Gaps = 26/127 (20%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q+ + + LGI++Q    +E+GV      ++  + ++L  P  +F + 
Sbjct: 5   EKLKARRKELKITQKDIADQLGISYQAYSAWERGVKEPSKEKVNRLEQILRVPKGYFTE- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
                                   +++ R +  + + K + +++E  R +V  E +    
Sbjct: 64  ------------------------IEIARLYNVLSN-KGQNQVLEYTRRLVQEESRKIVT 98

Query: 137 EEECMVE 143
             E + E
Sbjct: 99  VSENLYE 105


>gi|188026190|ref|ZP_02961203.2| hypothetical protein PROSTU_03206 [Providencia stuartii ATCC
          25827]
 gi|188021969|gb|EDU60009.1| hypothetical protein PROSTU_03206 [Providencia stuartii ATCC
          25827]
          Length = 99

 Score = 71.4 bits (174), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 27/94 (28%), Positives = 47/94 (50%), Gaps = 3/94 (3%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  N K   PV   VG++I+  R   G +  +L + + I+ QQ+ +YE+GVNR+    L 
Sbjct: 1  MFMNTK--YPVACAVGQKIKSLRKSQGYTVFQLAKEIDISEQQLFRYERGVNRIDIDCLV 58

Query: 61 HISEVLESPISFFF-DVSPTVCSDISSEENNVMD 93
           + +VL+  +  FF ++          +E+   D
Sbjct: 59 RVLKVLDVNMGEFFSEILQDDTHANEDKESKGFD 92


>gi|228960178|ref|ZP_04121835.1| Transcriptional regulator, Cro/CI [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|228799446|gb|EEM46406.1| Transcriptional regulator, Cro/CI [Bacillus thuringiensis serovar
          pakistani str. T13001]
          Length = 118

 Score = 71.4 bits (174), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 41/85 (48%), Gaps = 4/85 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R    ++QEK+GE +G++ Q + KYEKG        ++ +++    PI + F
Sbjct: 4  IGERIFELRKERKLTQEKIGENIGVSKQTISKYEKGTKIPSRENIEKLADFFNVPIDYLF 63

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            S           NN+ +   + +
Sbjct: 64 GKSDNSIK----SSNNIKEIFESDE 84


>gi|268591987|ref|ZP_06126208.1| putative transcriptional regulator [Providencia rettgeri DSM
          1131]
 gi|291312378|gb|EFE52831.1| putative transcriptional regulator [Providencia rettgeri DSM
          1131]
          Length = 87

 Score = 71.0 bits (173), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 39/74 (52%), Gaps = 3/74 (4%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +   +I N     +G ++R RR+ +G +   LG+  G++ QQ+ +YE+G       RL  
Sbjct: 3  IYQTEISN---AYIGLQVRKRRLQMGWTAHTLGKKSGLSQQQISRYERGTQNFTIHRLCI 59

Query: 62 ISEVLESPISFFFD 75
           + VL+  + +F +
Sbjct: 60 FANVLQCDLDYFLE 73


>gi|327439445|dbj|BAK15810.1| predicted transcriptional regulator [Solibacillus silvestris
           StLB046]
          Length = 133

 Score = 71.0 bits (173), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 29/124 (23%), Positives = 53/124 (42%), Gaps = 21/124 (16%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G +I+  R+    SQ  L + +G+T   V +YE+G   + A  L  I++VLE+ +  F
Sbjct: 9   FIGNKIKDYRLKKKYSQADLAKLIGVTNTSVSEYERGKVNIDADTLFQIADVLEAKVDDF 68

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID-DVK---VRQKIIELVRSIVSS 129
           F                     S  + + L   F  I+ D K   + +++ +   S+   
Sbjct: 69  FPARK-----------------SDSEPIDLMNEFRNINLDAKYLLMFKEMFDKANSMNEE 111

Query: 130 EKKY 133
           E+K 
Sbjct: 112 ERKK 115


>gi|126179337|ref|YP_001047302.1| hypothetical protein Memar_1391 [Methanoculleus marisnigri JR1]
 gi|125862131|gb|ABN57320.1| protein of unknown function DUF955 [Methanoculleus marisnigri
          JR1]
          Length = 342

 Score = 71.0 bits (173), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 20/62 (32%), Positives = 35/62 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RI+  R+  G+SQ  L E +G++   + KYE G     +  L  +SE+L   + +
Sbjct: 1  MTIGERIKSARIGAGLSQRNLAEKMGLSAMAISKYENGEVTPRSGLLIQMSEMLGVNVDY 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|45597387|ref|NP_996677.1| phage repressor [Lactococcus phage phiLC3]
 gi|21617869|gb|AAK07510.2|AF242738_1 phage repressor [Lactococcus phage phiLC3]
          Length = 286

 Score = 71.0 bits (173), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 23/89 (25%), Positives = 44/89 (49%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  VG +I+  R   G+SQE+L + +G+    +  YE G+      +L  +SEV +  I
Sbjct: 6  INKYVGSKIKDYRKSFGLSQEELAKKIGVGKTTISNYEVGIRSPKKPQLIKLSEVFDVAI 65

Query: 71 SFFFDVSPTVCSDISSEENNVMDFISTPD 99
            FF  + +   ++SS  + +    S  +
Sbjct: 66 DDFFPQTDSTRMNVSSILSEINKISSQLE 94


>gi|321157314|emb|CBW39296.1| Helix-turn-helix DNA binding protein [Streptococcus pneumoniae]
          Length = 228

 Score = 71.0 bits (173), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 41/73 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L M+Q+ + + LGIT+Q    +E+G+ +    +++ + ++L  P  +F +V
Sbjct: 5  EKLKARRKELKMTQKDIADQLGITYQAYSTWERGIKQPSREKIKLLEQILNVPKGYFTEV 64

Query: 77 SPTVCSDISSEEN 89
                +  S+E 
Sbjct: 65 EIVRLYNTLSDEG 77


>gi|319650747|ref|ZP_08004886.1| hypothetical protein HMPREF1013_01491 [Bacillus sp. 2_A_57_CT2]
 gi|317397604|gb|EFV78303.1| hypothetical protein HMPREF1013_01491 [Bacillus sp. 2_A_57_CT2]
          Length = 196

 Score = 71.0 bits (173), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 39/75 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR +R  L ++ +++ E +G++   V + E+G  +     L  +S + + P+SFFF
Sbjct: 15 IGGKIRSKRKTLQLTVDEVAERIGLSQSMVSQIERGKAKPSLDTLWKLSILFDVPLSFFF 74

Query: 75 DVSPTVCSDISSEEN 89
          +        +S  E 
Sbjct: 75 EGIEKQSVIVSRREE 89


>gi|212711629|ref|ZP_03319757.1| hypothetical protein PROVALCAL_02704 [Providencia alcalifaciens
          DSM 30120]
 gi|212685731|gb|EEB45259.1| hypothetical protein PROVALCAL_02704 [Providencia alcalifaciens
          DSM 30120]
          Length = 75

 Score = 70.6 bits (172), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 38/68 (55%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +G +I   R + G++ +KL + +G++ QQ  +YE+GVNR+   RL   +   +  +
Sbjct: 7  ISKMIGSKIIYYRKMNGVTLQKLADTIGVSKQQQSRYERGVNRINLDRLAQYANYFDIDL 66

Query: 71 SFFFDVSP 78
          +   D++ 
Sbjct: 67 NRLLDIND 74


>gi|307708176|ref|ZP_07644643.1| transcriptional regulator [Streptococcus mitis NCTC 12261]
 gi|307615622|gb|EFN94828.1| transcriptional regulator [Streptococcus mitis NCTC 12261]
          Length = 228

 Score = 70.6 bits (172), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 53/119 (44%), Gaps = 26/119 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q+++ E LGI+FQ    +E+G+      ++  +  +L+ P  +F   
Sbjct: 5   EKLKARRKELKLTQKEIAEQLGISFQAYSAWERGIKEPSKEKVFQLENILKVPKGYFTQ- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                                   +++ R +  +   + ++K++   R++   E+ ++ 
Sbjct: 64  ------------------------IEIVRLYHSL-SKQGQEKVVLYARNLSQEEQAHKV 97


>gi|256545968|ref|ZP_05473323.1| transcriptional regulator [Anaerococcus vaginalis ATCC 51170]
 gi|256398390|gb|EEU12012.1| transcriptional regulator [Anaerococcus vaginalis ATCC 51170]
          Length = 166

 Score = 70.6 bits (172), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 34/59 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G++I+ +R  L ++QE L + L I+ Q V K+EK ++      L  +SE+    I +F
Sbjct: 2  IGQKIKNKRKELNLTQEYLAKELNISRQAVSKWEKEISEPSMDNLIKLSEIFGVDIGYF 60


>gi|218459941|ref|ZP_03500032.1| probable transcriptional regulator protein [Rhizobium etli Kim 5]
          Length = 90

 Score = 70.6 bits (172), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 5/77 (6%)

Query: 65  VLESPISFFFDVSPTV-----CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +L +  SFFF+   +        D     + V +F+ T +GL LNR F++I D ++R  I
Sbjct: 1   MLHTSPSFFFEQDDSERLAVRELDAPDHADPVAEFLRTKEGLVLNRAFLKIADPQIRATI 60

Query: 120 IELVRSIVSSEKKYRTI 136
           I LV ++  +E +  T+
Sbjct: 61  IALVTAMGQAESRGPTL 77


>gi|268593156|ref|ZP_06127377.1| transcriptional regulator, XRE family [Providencia rettgeri DSM
          1131]
 gi|291311202|gb|EFE51655.1| transcriptional regulator, XRE family [Providencia rettgeri DSM
          1131]
          Length = 99

 Score = 70.6 bits (172), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 2/74 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  N K   PV   VG++I+  R   G +  +L + + I+ QQ+ +YE+GVNR+    L 
Sbjct: 1  MFMNTK--YPVACAVGQKIKALRRAQGFTVFQLAKEIDISEQQLFRYERGVNRIDIDCLV 58

Query: 61 HISEVLESPISFFF 74
           + +VL+  +  FF
Sbjct: 59 RVLKVLDVNMGEFF 72


>gi|13487804|ref|NP_108682.1| cI2009 [Lactococcus phage Tuc2009]
 gi|509672|gb|AAA21825.1| cI2009 [Bacteriophage Tuc2009]
          Length = 286

 Score = 70.6 bits (172), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 23/89 (25%), Positives = 44/89 (49%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  VG +I+  R   G+SQE+L + +G+    +  YE G+      +L  +SEV +  I
Sbjct: 6  INKYVGSKIKDYRKSFGLSQEELAKKIGVGKTTISNYEVGIRSPKKPQLIKLSEVFDVAI 65

Query: 71 SFFFDVSPTVCSDISSEENNVMDFISTPD 99
            FF  + +   ++SS  + +    S  +
Sbjct: 66 DDFFPQTDSTRMNVSSILSEINKISSQLE 94


>gi|291288131|ref|YP_003504947.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
 gi|290885291|gb|ADD68991.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
          Length = 141

 Score = 70.6 bits (172), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 25/66 (37%), Positives = 38/66 (57%), Gaps = 1/66 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R  LG+SQ +LG+ L +  Q +  YEKG + + AS+L  IS      I +
Sbjct: 23 MNIGIKIKELRAELGISQNELGQLLNVKQQVISYYEKG-DDIDASKLATISSEYNIDIRY 81

Query: 73 FFDVSP 78
          FF   P
Sbjct: 82 FFSDKP 87


>gi|325263078|ref|ZP_08129813.1| DNA-binding protein [Clostridium sp. D5]
 gi|324031471|gb|EGB92751.1| DNA-binding protein [Clostridium sp. D5]
          Length = 207

 Score = 70.6 bits (172), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 23/87 (26%), Positives = 46/87 (52%), Gaps = 3/87 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I++ R + G++Q++L E +GI  Q + K E+G+N      LQ ++E+L+   +   
Sbjct: 11  LGHNIQVIRKLKGLTQQELSEQIGINLQSLSKIERGINYPTFDTLQKLAEILDVTPN--- 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL 101
           ++        S  E N++ F+   + L
Sbjct: 68  ELLAGELKSTSHIEANILKFLEHEERL 94


>gi|229061582|ref|ZP_04198926.1| Transcriptional regulator, Cro/CI [Bacillus cereus AH603]
 gi|228717816|gb|EEL69466.1| Transcriptional regulator, Cro/CI [Bacillus cereus AH603]
          Length = 118

 Score = 70.6 bits (172), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 23/85 (27%), Positives = 43/85 (50%), Gaps = 4/85 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R    ++QEK+GE +G++ Q + KYEKG+       ++ +++    PI + F
Sbjct: 4  IGERIFDLRKERKLTQEKIGENIGVSKQTISKYEKGIKIPSRENIEKLADFFNVPIDYLF 63

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            S T         NN+ +   + +
Sbjct: 64 GKSDTSIK----SSNNIKEIFESDE 84


>gi|329889812|ref|ZP_08268155.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
 gi|328845113|gb|EGF94677.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
          Length = 132

 Score = 70.6 bits (172), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 22/106 (20%), Positives = 47/106 (44%), Gaps = 3/106 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +G+R+R  R+  G +Q ++   L ++ Q  QKYE G  R+           L++  
Sbjct: 7   IEQAIGQRLRAARLKAGKTQAEVAAALDVSHQAYQKYEDGDVRITIGAFVRACAELQTDP 66

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           +   ++ P + SD     +      S+  G +L   + ++   + R
Sbjct: 67  A---EILPRLMSDRGPAPDPFAALGSSIGGYELADCYARMSGFQRR 109


>gi|332653067|ref|ZP_08418812.1| transcriptional regulator [Ruminococcaceae bacterium D16]
 gi|332518213|gb|EGJ47816.1| transcriptional regulator [Ruminococcaceae bacterium D16]
          Length = 285

 Score = 70.6 bits (172), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 24/78 (30%), Positives = 38/78 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ I+  R  LG+SQEKL E +G++ Q V K+E G       +L  ++ VLE  +  
Sbjct: 3  MTIGEIIQRERTRLGLSQEKLAEQVGVSRQAVSKWELGDAVPDTDKLVPLARVLEISVDT 62

Query: 73 FFDVSPTVCSDISSEENN 90
            D  P    +   E   
Sbjct: 63 LLDHHPQETEETPKEIEE 80


>gi|183597550|ref|ZP_02959043.1| hypothetical protein PROSTU_00829 [Providencia stuartii ATCC
          25827]
 gi|188023147|gb|EDU61187.1| hypothetical protein PROSTU_00829 [Providencia stuartii ATCC
          25827]
          Length = 132

 Score = 70.2 bits (171), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 20/60 (33%), Positives = 34/60 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I   R    M+ ++LGE L ++ QQ+ +YE GV  +    L  +  +L+ PI  FF
Sbjct: 33 IGRQIYFIRKARCMTGKQLGEQLNVSQQQISRYENGVCHIDVDTLIRLLYILDMPIDQFF 92


>gi|295696288|ref|YP_003589526.1| transcriptional regulator of molybdate metabolism, XRE family
           [Bacillus tusciae DSM 2912]
 gi|295411890|gb|ADG06382.1| transcriptional regulator of molybdate metabolism, XRE family
           [Bacillus tusciae DSM 2912]
          Length = 392

 Score = 70.2 bits (171), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 26/90 (28%), Positives = 40/90 (44%), Gaps = 4/90 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+RI  RR  LG SQE L + LG++ Q +   E G +         ++ VL + +   FD
Sbjct: 13  GRRISERRKALGWSQELLADRLGVSRQFIGALEAGRSWPSVPVALELARVLGTSVEALFD 72

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNR 105
             P    +I   +  V   + T   L+  R
Sbjct: 73  --PQEAGEIVWGDPEVGATVGTR--LRFAR 98


>gi|319934812|ref|ZP_08009257.1| transcriptional regulator [Coprobacillus sp. 29_1]
 gi|319810189|gb|EFW06551.1| transcriptional regulator [Coprobacillus sp. 29_1]
          Length = 302

 Score = 70.2 bits (171), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 1/96 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G +++  R   G+SQE L E L ++ Q V K+E G       +L  IS++    I +
Sbjct: 1   MDFGMKLQSLRKEKGLSQEALAEKLHVSRQAVSKWESGAGYPEMDKLILISDLFGVTIDY 60

Query: 73  FF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
              D   +V  D  +E    M+     + +   R+F
Sbjct: 61  LIKDSHESVPDDQRAESKYFMNSQKIKEYMNFKRHF 96


>gi|261366423|ref|ZP_05979306.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
 gi|282571685|gb|EFB77220.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
          Length = 200

 Score = 70.2 bits (171), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 20/93 (21%), Positives = 41/93 (44%), Gaps = 2/93 (2%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N  +  +G+RI+  R    ++Q +L + LG + + VQ YE G +R+    +  I+  L  
Sbjct: 2  NLTNEQIGQRIKEVRTEKNITQTQLAKFLGKSLRTVQSYESGESRIFFDTVCSIANFLGV 61

Query: 69 PISFF--FDVSPTVCSDISSEENNVMDFISTPD 99
            S+   F+      + +S     + +     +
Sbjct: 62 TPSYLLGFEEPQLQLNSLSDVIAVLYELNKKKE 94


>gi|152967479|ref|YP_001363263.1| helix-turn-helix domain protein [Kineococcus radiotolerans
           SRS30216]
 gi|151361996|gb|ABS04999.1| helix-turn-helix domain protein [Kineococcus radiotolerans
           SRS30216]
          Length = 513

 Score = 70.2 bits (171), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 27/130 (20%), Positives = 49/130 (37%), Gaps = 4/130 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+RIR  R + G +  +LGE +G    Q+ + E G      S +  ++  LE   +   
Sbjct: 33  VGRRIRYHRGVRGWTLAQLGEAVGTAQSQLSQVENGKREPRLSLVAAVARALEVTPADLL 92

Query: 75  DVSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           D +P      + E   +      ++   GL   R    +    + + ++ L R +     
Sbjct: 93  DPAPPPSRRAALEIELDRAQRSPLARALGLTEVRAGRALPTDAL-EALVRLHRELARRHD 151

Query: 132 KYRTIEEECM 141
                 EE  
Sbjct: 152 AANATPEEAR 161


>gi|48697234|ref|YP_024964.1| putative prophage repressor protein [Burkholderia phage BcepC6B]
 gi|47779040|gb|AAT38403.1| putative prophage repressor protein [Burkholderia phage BcepC6B]
          Length = 244

 Score = 70.2 bits (171), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 38/77 (49%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G RIR  R   G++ ++L +  GI+   V ++E G ++  A++L  +++ L + + + 
Sbjct: 6  HIGTRIRELRKAKGLTLQQLADVFGISRASVSEWESGRSKPDANKLVLLAKELHTAVEYL 65

Query: 74 FDVSPTVCSDISSEENN 90
           +         +    +
Sbjct: 66 LNGDTNDAMSFADSAAS 82


>gi|328955378|ref|YP_004372711.1| XRE family transcriptional regulator [Coriobacterium glomerans
          PW2]
 gi|328455702|gb|AEB06896.1| transcriptional regulator, XRE family [Coriobacterium glomerans
          PW2]
          Length = 210

 Score = 70.2 bits (171), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 35/70 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I   R   G SQ +L + +G T QQ+ +YE G N V +S L  +S  L   IS+   + 
Sbjct: 5  KISEARHAKGWSQAELAKRIGTTQQQIARYESGDNDVKSSVLIKLSSALGVTISYLLGLE 64

Query: 78 PTVCSDISSE 87
           TV +  +  
Sbjct: 65 NTVAAQPAPS 74


>gi|312868437|ref|ZP_07728637.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
 gi|311096182|gb|EFQ54426.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
          Length = 248

 Score = 70.2 bits (171), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 46/83 (55%), Gaps = 2/83 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L  +Q+ + + LG+++Q    +E+GV +    ++Q + ++L  P  FF ++
Sbjct: 5  EKLKARRKELKKTQKDIADQLGVSYQAYSAWERGVKQPSREKVQQLEQILNVPKGFFTEI 64

Query: 77 SPTVCSDISSEE--NNVMDFIST 97
                +  S+E  NN ++++  
Sbjct: 65 EIVRLYNTLSDEGKNNALNYVRN 87


>gi|187778336|ref|ZP_02994809.1| hypothetical protein CLOSPO_01928 [Clostridium sporogenes ATCC
           15579]
 gi|187771961|gb|EDU35763.1| hypothetical protein CLOSPO_01928 [Clostridium sporogenes ATCC
           15579]
          Length = 111

 Score = 70.2 bits (171), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 30/119 (25%), Positives = 50/119 (42%), Gaps = 25/119 (21%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I  G R++  R   GM+QE+LG+ L IT Q V  YEKG N      L  I+++    + +
Sbjct: 18  ILFGDRLKELREEKGMTQEQLGKLLNITKQAVYSYEKGDNEPTIDALVKIADIFNVSLDY 77

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
                                   T +   LN     + D K ++ +++L++ I   +K
Sbjct: 78  LLG--------------------RTKERYNLN-----LKDKKNKELLLDLIKVIEKHKK 111


>gi|227824270|ref|ZP_03989102.1| conserved hypothetical protein [Acidaminococcus sp. D21]
 gi|229827135|ref|ZP_04453204.1| hypothetical protein GCWU000182_02520 [Abiotrophia defectiva ATCC
          49176]
 gi|331084539|ref|ZP_08333639.1| hypothetical protein HMPREF0992_02563 [Lachnospiraceae bacterium
          6_1_63FAA]
 gi|157816229|gb|ABV82121.1| HTH domain protein [Eubacterium saburreum]
 gi|157816232|gb|ABV82123.1| HTH domain protein [Streptococcus salivarius]
 gi|226904769|gb|EEH90687.1| conserved hypothetical protein [Acidaminococcus sp. D21]
 gi|229788753|gb|EEP24867.1| hypothetical protein GCWU000182_02520 [Abiotrophia defectiva ATCC
          49176]
 gi|330401089|gb|EGG80683.1| hypothetical protein HMPREF0992_02563 [Lachnospiraceae bacterium
          6_1_63FAA]
          Length = 114

 Score = 70.2 bits (171), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 32/62 (51%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI  GK+IR  R   GM+QE+L   L +T Q +  +E+ VN    + L+ I  +    + 
Sbjct: 7  DITTGKQIRHLRTQSGMTQEELAGKLNVTRQALSNWERDVNEPDLNTLKKICFLFGVHMD 66

Query: 72 FF 73
           F
Sbjct: 67 DF 68


>gi|163813936|ref|ZP_02205330.1| hypothetical protein COPEUT_00089 [Coprococcus eutactus ATCC 27759]
 gi|158450806|gb|EDP27801.1| hypothetical protein COPEUT_00089 [Coprococcus eutactus ATCC 27759]
          Length = 242

 Score = 70.2 bits (171), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 22/91 (24%), Positives = 42/91 (46%), Gaps = 3/91 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G RI+  R   G++QE+  E +G++ Q V K+E+        RL  I E+L+  +  
Sbjct: 2   LLIGSRIQEYRKKAGLNQEEFAEKMGVSRQAVSKWERDKAYPDLDRLVCICEILDVQVG- 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
             ++      +  + E    D  S  + + L
Sbjct: 61  --ELVYGKGEESETPEEVSRDGTSANNAVHL 89


>gi|261344094|ref|ZP_05971738.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282567684|gb|EFB73219.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 91

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 20/56 (35%), Positives = 32/56 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+RI+  R+  G S + LG+  GI+ QQ+ +YE+GVNR+    L   +      I
Sbjct: 12 IGQRIKSLRLQNGWSGDALGKVTGISQQQISRYERGVNRIDVESLAKFANAFNVSI 67


>gi|154503587|ref|ZP_02040647.1| hypothetical protein RUMGNA_01411 [Ruminococcus gnavus ATCC
          29149]
 gi|153795687|gb|EDN78107.1| hypothetical protein RUMGNA_01411 [Ruminococcus gnavus ATCC
          29149]
          Length = 120

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 35/81 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI   R  LG++Q +LGE +G++ Q + KYE G   +    L  +S+    PI +    
Sbjct: 10 NRIAELRKKLGLTQTRLGEEIGVSQQTISKYENGDENIPGDMLLALSKFFRVPIDYILRK 69

Query: 77 SPTVCSDISSEENNVMDFIST 97
                   ++   +M+    
Sbjct: 70 EEEQQQREQNDRKEIMELYRD 90


>gi|147677806|ref|YP_001212021.1| SOS-response transcriptional repressors [Pelotomaculum
          thermopropionicum SI]
 gi|146273903|dbj|BAF59652.1| SOS-response transcriptional repressors [Pelotomaculum
          thermopropionicum SI]
          Length = 224

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 32/59 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R    ++Q +LG  LG++   +  YEKG  ++G   L  ++  L  P+ +F
Sbjct: 5  IGARIKKAREEKYLTQAELGVKLGVSATAINYYEKGKRKIGIDDLYRMANALGKPLEYF 63


>gi|325833019|ref|ZP_08165646.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|325485736|gb|EGC88201.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 242

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 43/90 (47%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M    K  + +++ + +R+   R   G SQE+L E LG++ Q V K+E+  +      L 
Sbjct: 1  MSPTSKKGSFMNVEIAQRLAAMRREQGYSQEELAERLGLSRQAVSKWERAESSPDTGNLI 60

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENN 90
           ++++    +     +   V  D++ EE +
Sbjct: 61 ALAKLYGVSLDDLLRIDEDVVDDVAFEEKD 90


>gi|217967072|ref|YP_002352578.1| XRE family transcriptional regulator [Dictyoglomus turgidum DSM
           6724]
 gi|217336171|gb|ACK41964.1| transcriptional regulator, XRE family [Dictyoglomus turgidum DSM
           6724]
          Length = 105

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 31/114 (27%), Positives = 49/114 (42%), Gaps = 19/114 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +NVGKRIR  R    M  E L E  G++   +   E+G+       L+ I++ L  P S+
Sbjct: 1   MNVGKRIREIRKKHNMKLEDLAEKTGLSLSYISLIERGLKNPSLKALERIAQALNLPTSY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           FF             +  +  F+ T   L          D   R+ II+L++S+
Sbjct: 61  FFSEDN---------DETIETFLRTKTSL----------DEDERRMIIQLIKSL 95


>gi|219667464|ref|YP_002457899.1| XRE family transcriptional regulator [Desulfitobacterium hafniense
           DCB-2]
 gi|219537724|gb|ACL19463.1| transcriptional regulator, XRE family [Desulfitobacterium hafniense
           DCB-2]
          Length = 113

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 27/121 (22%), Positives = 54/121 (44%), Gaps = 13/121 (10%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           + + V + +R  R   G++Q++L + LG+    +  +EKG N +  S L +I   LE  +
Sbjct: 4   IKLRVAENLRKYRERKGITQKQLADHLGVRDNTISSWEKGTNSIDISTLLNICNFLEINL 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID-DVKVRQKIIELVRSIVSS 129
              + +S    S +   E+           L L   F ++  D K+  K++ +V    + 
Sbjct: 64  DDIYGISDKKISPVELTEDE----------LALISNFRKLSHDNKM--KVLGMVELKAAE 111

Query: 130 E 130
           +
Sbjct: 112 D 112


>gi|332637123|ref|ZP_08415986.1| putative transcriptional regulator [Weissella cibaria KACC 11862]
          Length = 137

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 45/90 (50%), Gaps = 1/90 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +DI   +++   R   G+SQ++L + L +T Q V K+E G +    +R+Q I+++L+  +
Sbjct: 1   MDIVFAQQLTNLRKQKGLSQQQLADKLYMTRQAVSKWETGESSPDLNRMQEIADILDVSV 60

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDG 100
                    V    +S  + V +++   + 
Sbjct: 61  QVLL-FGTQVEPGKTSFRDKVSEYMQQDEA 89


>gi|323693263|ref|ZP_08107481.1| HTH domain-containing protein [Clostridium symbiosum WAL-14673]
 gi|323502746|gb|EGB18590.1| HTH domain-containing protein [Clostridium symbiosum WAL-14673]
          Length = 151

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 32/62 (51%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI  GK+IR  R   GM+QE+L   L +T Q +  +E+ VN    + L+ I  +    + 
Sbjct: 7  DITTGKQIRHLRTQSGMTQEELAGELNVTRQALSNWERDVNEPDLNTLKKICFLFGVHMD 66

Query: 72 FF 73
           F
Sbjct: 67 DF 68


>gi|317500621|ref|ZP_07958840.1| HTH domain-containing protein [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|316897939|gb|EFV19991.1| HTH domain-containing protein [Lachnospiraceae bacterium
          8_1_57FAA]
          Length = 151

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 32/62 (51%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI  GK+IR  R   GM+QE+L   L +T Q +  +E+ VN    + L+ I  +    + 
Sbjct: 7  DITTGKQIRHLRTQSGMTQEELAGELNVTRQALSNWERDVNEPDLNTLKKICFLFGVHMD 66

Query: 72 FF 73
           F
Sbjct: 67 DF 68


>gi|323487601|ref|ZP_08092891.1| hypothetical protein HMPREF9474_04642 [Clostridium symbiosum
          WAL-14163]
 gi|157816226|gb|ABV82119.1| HTH domain protein [Streptococcus parasanguinis]
 gi|198387264|gb|ACH87089.1| helix-turn-helix XRE-family-like protein [Escherichia coli]
 gi|323399100|gb|EGA91508.1| hypothetical protein HMPREF9474_04642 [Clostridium symbiosum
          WAL-14163]
          Length = 151

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 32/62 (51%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI  GK+IR  R   GM+QE+L   L +T Q +  +E+ VN    + L+ I  +    + 
Sbjct: 7  DITTGKQIRHLRTQSGMTQEELAGELNVTRQALSNWERDVNEPDLNTLKKICFLFGVHMD 66

Query: 72 FF 73
           F
Sbjct: 67 DF 68


>gi|328954840|ref|YP_004372173.1| XRE family transcriptional regulator [Coriobacterium glomerans PW2]
 gi|328455164|gb|AEB06358.1| transcriptional regulator, XRE family [Coriobacterium glomerans
           PW2]
          Length = 211

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 22/105 (20%), Positives = 44/105 (41%), Gaps = 23/105 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + IRL R I+G++Q +L E +G+    V ++E G +      +Q +++ L  P++     
Sbjct: 5   ENIRLIRKIIGLTQAQLAERIGVARTTVTQWENGTSNPPIKTIQRLAQTLGVPVTI---- 60

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV--KVRQKI 119
                             +   D   L R   +I     ++R++I
Sbjct: 61  -----------------VVGDNDANDLKRALDKIRAPCARLRRRI 88


>gi|167755999|ref|ZP_02428126.1| hypothetical protein CLORAM_01519 [Clostridium ramosum DSM 1402]
 gi|167703991|gb|EDS18570.1| hypothetical protein CLORAM_01519 [Clostridium ramosum DSM 1402]
          Length = 384

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 43/85 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GKRI+  R   G+SQE+L   L I+ Q + K+E  +N     ++  +++ LE  ++ 
Sbjct: 1  MSLGKRIQSYRKQKGLSQEQLASRLNISRQALSKWESDINVPNIDKIMDVAKALEITLNE 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
             +      + +  E+ +   + T
Sbjct: 61 LLGLEEDSNDEYAKLESILNQVVLT 85


>gi|124486416|ref|YP_001031032.1| adenine deaminase [Methanocorpusculum labreanum Z]
 gi|124363957|gb|ABN07765.1| helix-turn-helix domain protein [Methanocorpusculum labreanum Z]
          Length = 347

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 36/71 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R + G++QE+LGE + +    + KYE G     +S L  +S  L   I +FF 
Sbjct: 3  GERLKQARKLSGLTQEELGELVSVEKMTISKYEAGKISPSSSTLISLSRALHVDIDYFFR 62

Query: 76 VSPTVCSDISS 86
           +  V +    
Sbjct: 63 ETSVVLASTPQ 73


>gi|307704993|ref|ZP_07641880.1| transcriptional regulator [Streptococcus mitis SK597]
 gi|307621444|gb|EFO00494.1| transcriptional regulator [Streptococcus mitis SK597]
          Length = 288

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 32/106 (30%), Positives = 51/106 (48%), Gaps = 4/106 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++ RR  L MSQ +L E  GI  Q Q+ + E G    GA  L  +S+ L+  I +FF+ 
Sbjct: 8   RLKNRRKELKMSQRELAE--GICKQGQISRLENGEFTPGADFLYALSKKLKVSIDYFFNE 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV-RQKIIE 121
                 D  SE   +     T    +  +Y  +++ VKV R  +++
Sbjct: 66  QIGEEIDELSEFKKLAQTFITNRNYESLKYIYELESVKVHRLSLVD 111


>gi|257460926|ref|ZP_05626027.1| putative transcriptional regulator [Campylobacter gracilis
          RM3268]
 gi|257442257|gb|EEV17399.1| putative transcriptional regulator [Campylobacter gracilis
          RM3268]
          Length = 233

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/61 (34%), Positives = 33/61 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G RI+  R   G++Q +L    GI+   +Q YE     +   +L  IS+VL+  I F
Sbjct: 1  MNLGLRIKNLREERGLTQLELANLSGISRASIQLYEADKVEIPVKKLSDISKVLDVDIDF 60

Query: 73 F 73
          F
Sbjct: 61 F 61


>gi|169335178|ref|ZP_02862371.1| hypothetical protein ANASTE_01585 [Anaerofustis stercorihominis DSM
           17244]
 gi|169257916|gb|EDS71882.1| hypothetical protein ANASTE_01585 [Anaerofustis stercorihominis DSM
           17244]
          Length = 172

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 24/107 (22%), Positives = 52/107 (48%), Gaps = 6/107 (5%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPI 70
           ++ +G RI+  R   G+S  +LGE +GI+   +Q+YE G +NR+    ++ I+  L    
Sbjct: 3   NLEIGNRIKQVRQEKGLSLRELGEIIGISGATIQRYENGLINRLKLPVIESIANALGVNP 62

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           S+    S      + +++N +     + +   L   F ++   + ++
Sbjct: 63  SWLIFKSKNKYKTLVNDKNTI-----SSENKDLLNKFNKLSPNRQKR 104


>gi|253583791|ref|ZP_04860989.1| conserved hypothetical protein [Fusobacterium varium ATCC 27725]
 gi|251834363|gb|EES62926.1| conserved hypothetical protein [Fusobacterium varium ATCC 27725]
          Length = 168

 Score = 69.8 bits (170), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 25/74 (33%), Positives = 38/74 (51%), Gaps = 1/74 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DV 76
          +I+  R   GMSQEKL + LG++ Q V K+E G +     ++  +S + E    +   DV
Sbjct: 6  KIQQLRKQNGMSQEKLAQLLGVSKQSVSKWESGQSLPEIDKIIQLSNIFEVTTDYLLKDV 65

Query: 77 SPTVCSDISSEENN 90
          S   C DI  +E  
Sbjct: 66 SEEKCIDILRKEKE 79


>gi|257469363|ref|ZP_05633457.1| hypothetical protein FulcA4_08479 [Fusobacterium ulcerans ATCC
          49185]
 gi|317063609|ref|ZP_07928094.1| conserved hypothetical protein [Fusobacterium ulcerans ATCC
          49185]
 gi|313689285|gb|EFS26120.1| conserved hypothetical protein [Fusobacterium ulcerans ATCC
          49185]
          Length = 168

 Score = 69.5 bits (169), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 1/74 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DV 76
          +I+  R   GMSQEKL + LG++ Q V K+E G +     ++  +S + E    +   DV
Sbjct: 6  KIQQLRKQNGMSQEKLAQLLGVSRQSVSKWESGQSLPEIDKIIQLSNIFEVTTDYLLKDV 65

Query: 77 SPTVCSDISSEENN 90
          +   C DI  +E  
Sbjct: 66 AEEKCIDILRKEKE 79


>gi|297543547|ref|YP_003675849.1| XRE family transcriptional regulator [Thermoanaerobacter mathranii
           subsp. mathranii str. A3]
 gi|296841322|gb|ADH59838.1| transcriptional regulator, XRE family [Thermoanaerobacter mathranii
           subsp. mathranii str. A3]
          Length = 129

 Score = 69.5 bits (169), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 28/128 (21%), Positives = 56/128 (43%), Gaps = 8/128 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI+  R   G++Q++L   LG++ + V  YE G        LQ I++     + +  
Sbjct: 2   LGERIKELRKKKGVTQKELALYLGVSDRAVGYYESGQRTPPPDILQKIADFFNVSVDYLL 61

Query: 75  D-----VSPTVCSDISSEENNVMDFIST-PDGLQLNRYFIQID--DVKVRQKIIELVRSI 126
                       ++  S++  + +F +T  +   L   F Q      K  ++II ++++I
Sbjct: 62  GRTGVYNPTDEITEAISDDPELFEFWNTLKEREDLKLLFKQTKKLSPKDIKQIIRIIKAI 121

Query: 127 VSSEKKYR 134
              E K  
Sbjct: 122 EDEEDKEE 129


>gi|222087768|ref|YP_002546305.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221725216|gb|ACM28372.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 227

 Score = 69.5 bits (169), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 22/97 (22%), Positives = 42/97 (43%), Gaps = 9/97 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ ++  L  
Sbjct: 35  NNLEMAIGHEVRAYRKKLGITGADLASATGISLGMLSKIENGNTSPSLTTLQSLARALGV 94

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P++ FF       + +         F+   +GL++ R
Sbjct: 95  PVTAFFRRFEEKRNAV---------FVKAGEGLEMER 122


>gi|150378020|ref|YP_001314615.1| XRE family transcriptional regulator [Sinorhizobium medicae WSM419]
 gi|150032567|gb|ABR64682.1| transcriptional regulator, XRE family [Sinorhizobium medicae
           WSM419]
          Length = 219

 Score = 69.5 bits (169), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 25/99 (25%), Positives = 44/99 (44%), Gaps = 9/99 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
             N +++ +G  +R  R  LG++   L +  G++   + K E G      + LQ +S+ L
Sbjct: 27  RANNLEMAIGHEVRTYRKKLGITVADLAQATGMSIGMLSKIENGNISPSLTTLQALSKAL 86

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
             P++ FF            EE N   F+   +G+ L R
Sbjct: 87  GVPLTAFFRGF---------EEPNSASFVKAGEGVNLER 116


>gi|78485682|ref|YP_391607.1| XRE family transcriptional regulator [Thiomicrospira crunogena
           XCL-2]
 gi|78363968|gb|ABB41933.1| transcriptional regulator, XRE family [Thiomicrospira crunogena
           XCL-2]
          Length = 198

 Score = 69.5 bits (169), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 23/95 (24%), Positives = 37/95 (38%), Gaps = 8/95 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+++GK I   R   G++   + E  GI+   + K E G        L  IS  L  PI
Sbjct: 9   LDLHIGKIINNARKKQGLTIADIAEQSGISRGMLSKIENGQVSPSLDSLLKISRTLGVPI 68

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           S FF                    + + + L++ R
Sbjct: 69  SSFFREFDNEEGGA--------QLVRSEEKLEVVR 95


>gi|317490283|ref|ZP_07948769.1| hypothetical protein HMPREF1023_02469 [Eggerthella sp. 1_3_56FAA]
 gi|316910573|gb|EFV32196.1| hypothetical protein HMPREF1023_02469 [Eggerthella sp. 1_3_56FAA]
          Length = 143

 Score = 69.5 bits (169), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 35/65 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+ RR ++G++QE+L E LG++ Q V K+E G +    +    ++E L+  +    
Sbjct: 5  IGSNIQSRRKMVGLTQEQLAERLGVSRQTVTKWETGDSTPDLANAGALAEALDVSLDALV 64

Query: 75 DVSPT 79
             P 
Sbjct: 65 GYDPH 69


>gi|332638348|ref|ZP_08417211.1| XRE family transcriptional regulator [Weissella cibaria KACC
          11862]
          Length = 180

 Score = 69.5 bits (169), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 34/77 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  I+ RR   GMSQ+ L + LGI+ Q + K+E G        +  +S++    +  
Sbjct: 1  MEIGHNIQQRREDKGMSQQDLADYLGISRQSISKWENGSALPSFKNVLALSDLFVVSLDE 60

Query: 73 FFDVSPTVCSDISSEEN 89
                 +     S E+
Sbjct: 61 LVKGDEALIEKFESGES 77


>gi|183601014|ref|ZP_02962507.1| hypothetical protein PROSTU_04634 [Providencia stuartii ATCC
          25827]
 gi|188019351|gb|EDU57391.1| hypothetical protein PROSTU_04634 [Providencia stuartii ATCC
          25827]
          Length = 91

 Score = 69.5 bits (169), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/56 (37%), Positives = 32/56 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG+RI+  R+  G S E LG+  GI+ QQ+ ++E+GVNR+    L   +      I
Sbjct: 12 VGQRIKSLRLQNGWSGEALGKITGISQQQISRFERGVNRIDVESLAKFANAFNVDI 67


>gi|315644486|ref|ZP_07897618.1| transcriptional regulator, XRE family protein [Paenibacillus
          vortex V453]
 gi|315279993|gb|EFU43290.1| transcriptional regulator, XRE family protein [Paenibacillus
          vortex V453]
          Length = 272

 Score = 69.5 bits (169), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 28/84 (33%), Positives = 39/84 (46%), Gaps = 1/84 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K I   R   G++QE L   LG+TFQ V K+E G      + L  +S++LE  +   F  
Sbjct: 7  KNINRYRKERGLTQEALAHKLGVTFQAVSKWETGQTMPDVALLPELSQLLEVSMDKLFGY 66

Query: 77 SPTVCS-DISSEENNVMDFISTPD 99
          S T  S  I  EE    D+    +
Sbjct: 67 SSTGKSLSIYEEEYKTPDYYWGTE 90


>gi|325833547|ref|ZP_08165996.1| transcriptional regulator, AbrB family [Eggerthella sp. HGA1]
 gi|325485471|gb|EGC87940.1| transcriptional regulator, AbrB family [Eggerthella sp. HGA1]
          Length = 140

 Score = 69.5 bits (169), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 35/65 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+ RR ++G++QE+L E LG++ Q V K+E G +    +    ++E L+  +    
Sbjct: 2  IGSNIQSRRKMVGLTQEQLAERLGVSRQTVTKWETGDSTPDLANAGALAEALDVSLDALV 61

Query: 75 DVSPT 79
             P 
Sbjct: 62 GYDPH 66


>gi|215486344|ref|YP_002328775.1| transcriptional repressor DicA [Escherichia coli O127:H6 str.
           E2348/69]
 gi|254792795|ref|YP_003077632.1| transcriptional repressor DicA [Escherichia coli O157:H7 str.
           TW14359]
 gi|260843554|ref|YP_003221332.1| putative phage repressor protein CI [Escherichia coli O103:H2 str.
           12009]
 gi|261257017|ref|ZP_05949550.1| putative phage repressor protein CI [Escherichia coli O157:H7 str.
           FRIK966]
 gi|215264416|emb|CAS08774.1| predicted phage repressor protein [Escherichia coli O127:H6 str.
           E2348/69]
 gi|254592195|gb|ACT71556.1| transcriptional repressor DicA [Escherichia coli O157:H7 str.
           TW14359]
 gi|257758701|dbj|BAI30198.1| predicted phage repressor protein CI [Escherichia coli O103:H2 str.
           12009]
 gi|323977164|gb|EGB72251.1| helix-turn-helix protein [Escherichia coli TW10509]
          Length = 135

 Score = 69.5 bits (169), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 25/110 (22%), Positives = 49/110 (44%), Gaps = 2/110 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+RIR RR  +G+SQ  L +  G++   +  +E          L  ++EVL+   ++
Sbjct: 4   KTLGQRIRERRKQVGLSQNDLSKAAGVSGSSISLWESDHTAPRGQNLHRLAEVLQCSPTW 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                     D     N+ +D   + D L++ R +  +   + + +I EL
Sbjct: 64  ILFGDEDKTPDPPVALNSALDL--SEDELEMLRLYRALPKSEQQAQISEL 111


>gi|150021357|ref|YP_001306711.1| putative prophage repressor [Thermosipho melanesiensis BI429]
 gi|149793878|gb|ABR31326.1| putative prophage repressor [Thermosipho melanesiensis BI429]
          Length = 206

 Score = 69.5 bits (169), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 35/70 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++I+  R+  G++QE+LG  + +  + +  YE G        L+ +++  +  + +
Sbjct: 1  MNIGEKIKFLRLQKGLTQEQLGNIINVGQRTISAYESGKATPSVEVLKSLADYFDVAVDY 60

Query: 73 FFDVSPTVCS 82
          F    P    
Sbjct: 61 FLSDKPGQTE 70


>gi|294502078|ref|YP_003566143.1| Transcriptional regulator containing Lambda repressor-like,
           DNA-binding domain [Salinibacter ruber M8]
 gi|294342062|emb|CBH22727.1| Transcriptional regulator containing Lambda repressor-like,
           DNA-binding domain [Salinibacter ruber M8]
          Length = 392

 Score = 69.5 bits (169), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 28/116 (24%), Positives = 52/116 (44%), Gaps = 16/116 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+R  R    MSQ+++   LG+T   + +YE G  ++GA  L+ ++ +   P+S  F
Sbjct: 9   LGQRLRQARKQAHMSQKEVAGHLGVTASALSQYESGKRKIGALALERLARLYSVPLSSLF 68

Query: 75  -----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR--QKIIELV 123
                +  P     +  E  N+          +L R        +VR  +++ EL 
Sbjct: 69  SEEGGEERPDWERALLGETENM-SPEGRKGVAKLVR--------RVRQFRELHELA 115


>gi|296533524|ref|ZP_06896097.1| DNA-binding protein [Roseomonas cervicalis ATCC 49957]
 gi|296266156|gb|EFH12208.1| DNA-binding protein [Roseomonas cervicalis ATCC 49957]
          Length = 208

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 24/71 (33%), Positives = 40/71 (56%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +G+ +RL R  LG+S ++LG   G++   + + E+G+       L+ +S  L+ PIS
Sbjct: 25 DRRLGECVRLLRQRLGLSIQELGRRTGLSIGMISQLERGLATPSVRTLRLLSLALQVPIS 84

Query: 72 FFFDVSPTVCS 82
          FFF+  P   S
Sbjct: 85 FFFEERPEGAS 95


>gi|327404285|ref|YP_004345123.1| helix-turn-helix domain-containing protein [Fluviicola taffensis
          DSM 16823]
 gi|327319793|gb|AEA44285.1| helix-turn-helix domain protein [Fluviicola taffensis DSM 16823]
          Length = 121

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 24/67 (35%), Positives = 35/67 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +IR  R + G+SQ+ L   LGI+ Q  QK E GV ++   R   I+  L   + F
Sbjct: 8  LNLGIKIRFFRDMKGLSQQALAMQLGISQQAYQKIESGVTKLDVERANVIANELGVQLDF 67

Query: 73 FFDVSPT 79
              SP 
Sbjct: 68 LISFSPA 74


>gi|237737130|ref|ZP_04567611.1| transcriptional regulator [Fusobacterium mortiferum ATCC 9817]
 gi|229420992|gb|EEO36039.1| transcriptional regulator [Fusobacterium mortiferum ATCC 9817]
          Length = 181

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 23/89 (25%), Positives = 43/89 (48%), Gaps = 1/89 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V++N G +I+L+R   GM+QE+LGE L ++ Q + K+E   +     ++  +S   +  I
Sbjct: 17  VNMNFGDKIQLQRKKKGMTQEELGEELNVSRQTITKWESNQSFPEIKKIIKLSYFFDVTI 76

Query: 71  SFFF-DVSPTVCSDISSEENNVMDFISTP 98
            +   D       ++   E    +  ST 
Sbjct: 77  DYLLKDEIEDEERNVIKIEKEEKNIFSTK 105


>gi|291544659|emb|CBL17768.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Ruminococcus sp. 18P13]
          Length = 208

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 39/72 (54%), Gaps = 1/72 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          +N+G+RI+  R  +  +Q++L + +G T Q V KYE G +  + + +++ I++ L    +
Sbjct: 1  MNIGERIKTARKEIDKTQQELADAIGTTKQNVYKYENGIITNIPSDKIEAIAKFLHVSPA 60

Query: 72 FFFDVSPTVCSD 83
          + F        D
Sbjct: 61 YLFGWEEESLYD 72


>gi|257413316|ref|ZP_05591602.1| toxin-antitoxin system, antitoxin component, Xre family
          [Roseburia intestinalis L1-82]
 gi|257203934|gb|EEV02219.1| toxin-antitoxin system, antitoxin component, Xre family
          [Roseburia intestinalis L1-82]
          Length = 187

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 36/83 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I   R + GM+QE+L E L ++ Q + K+E          +  IS +    +  
Sbjct: 15 MEIGNKINQLRKLSGMTQEQLAEKLNVSRQTISKWESDSTSPDLESIVKISRIFHVSLDD 74

Query: 73 FFDVSPTVCSDISSEENNVMDFI 95
                   ++ + E+  + D +
Sbjct: 75 LLKEGEAGVANKTDEQITLEDLM 97


>gi|163847710|ref|YP_001635754.1| cupin 2 domain-containing protein [Chloroflexus aurantiacus
          J-10-fl]
 gi|222525574|ref|YP_002570045.1| XRE family transcriptional regulator [Chloroflexus sp. Y-400-fl]
 gi|163668999|gb|ABY35365.1| Cupin 2 conserved barrel domain protein [Chloroflexus aurantiacus
          J-10-fl]
 gi|222449453|gb|ACM53719.1| transcriptional regulator, XRE family [Chloroflexus sp. Y-400-fl]
          Length = 211

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 24/78 (30%), Positives = 35/78 (44%), Gaps = 4/78 (5%)

Query: 1  MVGNKKIPNPV----DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA 56
          MV     P+ V    +++VG RIR  R    +S   L E  G+    +   E G      
Sbjct: 1  MVDPVSSPHLVGEIGNVDVGTRIRTLREQRRLSIRALAEASGLAVNTLSLIENGRTSPSV 60

Query: 57 SRLQHISEVLESPISFFF 74
          S LQ ++  L+ P+S FF
Sbjct: 61 STLQRLAVALQVPVSTFF 78


>gi|119385143|ref|YP_916199.1| XRE family transcriptional regulator [Paracoccus denitrificans
          PD1222]
 gi|119374910|gb|ABL70503.1| transcriptional regulator, XRE family [Paracoccus denitrificans
          PD1222]
          Length = 108

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 22/44 (50%), Positives = 33/44 (75%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          MSQ+++ E +G++ QQ+QKYE  VNR+ ASRL  I+ VL+ P +
Sbjct: 1  MSQKQVAERIGVSMQQLQKYETAVNRISASRLVEIANVLQVPPA 44


>gi|291279081|ref|YP_003495916.1| transcriptional regulator [Deferribacter desulfuricans SSM1]
 gi|290753783|dbj|BAI80160.1| transcriptional regulator [Deferribacter desulfuricans SSM1]
          Length = 196

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 33/66 (50%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DIN+G+RIR  R   GM+ + +    G +   + + E  V     + L  I+ VL   ++
Sbjct: 5  DINIGERIRKLRNDRGMTLQDVANLTGFSKALISQIENNVVMPPITTLAKIANVLNVKMT 64

Query: 72 FFFDVS 77
          +FF+  
Sbjct: 65 YFFEEE 70


>gi|89896705|ref|YP_520192.1| hypothetical protein DSY3959 [Desulfitobacterium hafniense Y51]
 gi|89336153|dbj|BAE85748.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 106

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 26/115 (22%), Positives = 51/115 (44%), Gaps = 13/115 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + +R  R   G++Q++L + LG+    +  +EKG N +  S L +I   LE  +   + +
Sbjct: 3   ENLRKYRERKGITQKQLADHLGVRDNTISSWEKGTNSIDISTLLNICNFLEINLDDIYGI 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID-DVKVRQKIIELVRSIVSSE 130
           S    S +   E+           L L   F ++  D K+  K++ +V    + +
Sbjct: 63  SDKKISPVELTEDE----------LALISNFRKLSHDNKM--KVLGMVELKAAED 105


>gi|260892597|ref|YP_003238694.1| transcriptional regulator, XRE family [Ammonifex degensii KC4]
 gi|260864738|gb|ACX51844.1| transcriptional regulator, XRE family [Ammonifex degensii KC4]
          Length = 151

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 22/81 (27%), Positives = 43/81 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R+  G++Q +L + L +  + + KYE+G NR  A  L+ ++++LE    F  
Sbjct: 9  LGLRIKFARLRKGLTQAELAQKLNVHPETLGKYERGTNRPDAETLRKLADILEVSTDFLV 68

Query: 75 DVSPTVCSDISSEENNVMDFI 95
            +       SS + +V  ++
Sbjct: 69 GRTNDPSPIPSSLDADVETYL 89


>gi|183601133|ref|ZP_02962626.1| hypothetical protein PROSTU_04762 [Providencia stuartii ATCC
          25827]
 gi|188019477|gb|EDU57517.1| hypothetical protein PROSTU_04762 [Providencia stuartii ATCC
          25827]
          Length = 131

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 31/61 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I   R    M+ + L + + ++ QQ+ +YE GV  +    L  I   L+  ++ FF
Sbjct: 24 IGKEIHKLRKERSMTGKDLAKLVNVSQQQISRYECGVCNITIDTLIVILNALDVSLTDFF 83

Query: 75 D 75
          +
Sbjct: 84 N 84


>gi|327405730|ref|YP_004346568.1| helix-turn-helix domain-containing protein [Fluviicola taffensis
          DSM 16823]
 gi|327321238|gb|AEA45730.1| helix-turn-helix domain protein [Fluviicola taffensis DSM 16823]
          Length = 298

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 24/84 (28%), Positives = 44/84 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R    +SQ +L E L I+ Q V K+E+G +      L  +SE+L+  +++F 
Sbjct: 7  IGQRIADARKKTTISQAQLSERLFISPQAVGKWERGESMPDIITLNRLSEILDVDLNYFS 66

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
          D   +  S+     N++ + +  P
Sbjct: 67 DGFTSAVSEEKKSSNSLQELLEKP 90


>gi|160894719|ref|ZP_02075494.1| hypothetical protein CLOL250_02270 [Clostridium sp. L2-50]
 gi|156863653|gb|EDO57084.1| hypothetical protein CLOL250_02270 [Clostridium sp. L2-50]
          Length = 416

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 36/73 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VG  I  +R  LGM+Q++L + L ++FQ + K+E G        L+ ++ VL+  +  
Sbjct: 5  IKVGNFIMGKRKSLGMTQQQLADKLKVSFQAISKWENGTTYPNIEILRDLAIVLDVSVDE 64

Query: 73 FFDVSPTVCSDIS 85
              S      +S
Sbjct: 65 ILAGSERDAEGLS 77


>gi|194337612|ref|YP_002019406.1| helix-turn-helix domain protein [Pelodictyon phaeoclathratiforme
          BU-1]
 gi|194310089|gb|ACF44789.1| helix-turn-helix domain protein [Pelodictyon phaeoclathratiforme
          BU-1]
          Length = 359

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RIR  R   G++   LG  +G+T   +QKYEKG+    +S L  +++       +FF
Sbjct: 5  RIRQARQAAGLTLAALGAKIGVTHTAIQKYEKGIITPSSSILLKLAQACGVRTEYFF 61


>gi|295396255|ref|ZP_06806433.1| helix-turn-helix motif protein [Brevibacterium mcbrellneri ATCC
           49030]
 gi|294970909|gb|EFG46806.1| helix-turn-helix motif protein [Brevibacterium mcbrellneri ATCC
           49030]
          Length = 502

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 29/136 (21%), Positives = 53/136 (38%), Gaps = 18/136 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++IR  R   G++ E+LGE +G    Q+  +E G      + L  +++ L++  +   
Sbjct: 36  IGRKIRHFRTEQGLTLEQLGERVGRAASQISAFESGNREPSIAVLTALAKALDTSAAELL 95

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR---------QKIIELVRS 125
           D +P         E        +P        +  ++   VR         + I+ L RS
Sbjct: 96  DPTPVSQRQALELEAERAQ--RSP-------LYSSLNLPTVRVKSLPNDALEAIVGLQRS 146

Query: 126 IVSSEKKYRTIEEECM 141
           +    KK     EE  
Sbjct: 147 LHDMTKKRAATPEEAR 162


>gi|289168100|ref|YP_003446369.1| transcriptional regulator [Streptococcus mitis B6]
 gi|288907667|emb|CBJ22504.1| transcriptional regulator [Streptococcus mitis B6]
          Length = 288

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 33/107 (30%), Positives = 51/107 (47%), Gaps = 5/107 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++ RR  L MSQ +L E  GI  Q Q+ + E G    GA  L  +S+ L+  I +FF+ 
Sbjct: 8   RLKNRRKELKMSQRELAE--GICKQGQISRLENGEFTPGADFLYALSKKLKVSIDYFFNE 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
                 D  SE   +     T    +  +Y  +++ VKV +  + LV
Sbjct: 66  QIVEEIDELSEFKKLAQTFITNRNYESLKYIYELESVKVHR--LSLV 110


>gi|317501737|ref|ZP_07959924.1| hypothetical protein HMPREF1026_01868 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|316896859|gb|EFV18943.1| hypothetical protein HMPREF1026_01868 [Lachnospiraceae bacterium
          8_1_57FAA]
          Length = 177

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 25/72 (34%), Positives = 36/72 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK+IR  R   G SQ +L E  GI    ++KYE G+      +L+ I+  L   +S F 
Sbjct: 2  VGKKIRAYREFRGYSQIQLAELSGINVGTIRKYELGIRNPKPDQLEKIATALGLNVSVFL 61

Query: 75 DVSPTVCSDISS 86
          D +     D+ S
Sbjct: 62 DFNIETVGDVLS 73


>gi|331091855|ref|ZP_08340687.1| hypothetical protein HMPREF9477_01330 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330402754|gb|EGG82321.1| hypothetical protein HMPREF9477_01330 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 177

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 25/72 (34%), Positives = 36/72 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK+IR  R   G SQ +L E  GI    ++KYE G+      +L+ I+  L   +S F 
Sbjct: 2  VGKKIRAYREFRGYSQIQLAELSGINVGTIRKYELGIRNPKPDQLEKIATALGLNVSVFL 61

Query: 75 DVSPTVCSDISS 86
          D +     D+ S
Sbjct: 62 DFNIETVGDVLS 73


>gi|319937527|ref|ZP_08011932.1| hypothetical protein HMPREF9488_02768 [Coprobacillus sp. 29_1]
 gi|319807367|gb|EFW03976.1| hypothetical protein HMPREF9488_02768 [Coprobacillus sp. 29_1]
          Length = 182

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 22/89 (24%), Positives = 42/89 (47%), Gaps = 1/89 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++IR  R+   +SQE + + L ++ Q V K+EKG+++     L  +SE+    +  
Sbjct: 1   MFIGEKIRELRIRNQLSQESIAQLLDVSRQSVSKWEKGLSKPSTDNLLRLSEIFSVSVED 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
             D       D  S  +   +F+     L
Sbjct: 61  LIDNDIQFKKDYES-TSFFKEFLFRKKVL 88


>gi|266626094|ref|ZP_06119029.1| transcriptional regulator [Clostridium hathewayi DSM 13479]
 gi|288861999|gb|EFC94297.1| transcriptional regulator [Clostridium hathewayi DSM 13479]
          Length = 102

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 3/75 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI   R + G+SQEK+ E +GI+ Q V K+E   +R     L  +S + E P++   
Sbjct: 4  LGKRIAYYRKLQGLSQEKVAEHIGISRQAVTKWENDNSRPNTDNLLQLSALFEIPLN--- 60

Query: 75 DVSPTVCSDISSEEN 89
          ++  +   D S EE 
Sbjct: 61 ELVSSYSEDHSPEEK 75


>gi|322392726|ref|ZP_08066186.1| hypothetical transcriptional regulator [Streptococcus peroris
          ATCC 700780]
 gi|321144718|gb|EFX40119.1| hypothetical transcriptional regulator [Streptococcus peroris
          ATCC 700780]
          Length = 228

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 36/57 (63%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  L ++Q+++ + LGI+FQ    +E+GV      +++ + ++L+ P  +F
Sbjct: 5  EKLKARRKELKLTQKEIADQLGISFQAYSAWERGVKEPSEEKVKQLEKILKVPKGYF 61


>gi|312976783|ref|ZP_07788532.1| putative zinc-binding transcriptional regulator, Cro/CI family
          [Lactobacillus crispatus CTV-05]
 gi|310896111|gb|EFQ45176.1| putative zinc-binding transcriptional regulator, Cro/CI family
          [Lactobacillus crispatus CTV-05]
          Length = 385

 Score = 69.1 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 35/71 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GKR++  R+   ++   L + +G++ Q + KYE     + ++  Q I +VL  P+ FF D
Sbjct: 12 GKRLKEARLFNHLTMSALADQIGVSKQAISKYEHNKIEISSAVFQKIVQVLNFPLYFFTD 71

Query: 76 VSPTVCSDISS 86
                 D  +
Sbjct: 72 FEKVPYQDDGT 82


>gi|319654086|ref|ZP_08008178.1| hypothetical protein HMPREF1013_04798 [Bacillus sp. 2_A_57_CT2]
 gi|317394279|gb|EFV75025.1| hypothetical protein HMPREF1013_04798 [Bacillus sp. 2_A_57_CT2]
          Length = 312

 Score = 68.7 bits (167), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 24/85 (28%), Positives = 40/85 (47%), Gaps = 1/85 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK+I+  R + GM Q +L E +  +  Q+ K EKG     +S L  I+  L+  +S+FF
Sbjct: 7  LGKKIKEIRKVRGMKQYELAEGI-CSQAQISKIEKGQVEPLSSTLYLIANKLDVDVSYFF 65

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
                 +  +     + D  S  D
Sbjct: 66 SNIKVKRNGQAHMLEKLKDARSNSD 90


>gi|268318350|ref|YP_003292068.1| helix-turn-helix domain protein [Rhodothermus marinus DSM 4252]
 gi|262335884|gb|ACY49680.1| helix-turn-helix domain protein [Rhodothermus marinus DSM 4252]
          Length = 347

 Score = 68.7 bits (167), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 20/61 (32%), Positives = 35/61 (57%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G RI+  R+  G+S  KL + +G++   + KYEKGV    +  L  ++  L+   SF
Sbjct: 1  MSIGARIKQARIRQGLSLRKLAKEVGVSQTAISKYEKGVITPDSQMLIRLARALDVKPSF 60

Query: 73 F 73
          F
Sbjct: 61 F 61


>gi|237733315|ref|ZP_04563796.1| predicted protein [Mollicutes bacterium D7]
 gi|229383696|gb|EEO33787.1| predicted protein [Coprobacillus sp. D7]
          Length = 138

 Score = 68.7 bits (167), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 43/85 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GKRI+  R   G+SQE+L   L I+ Q + K+E  +N     ++  +++ LE  ++ 
Sbjct: 1  MSLGKRIQSYRKQKGLSQEQLASRLNISRQALSKWESDINVPNIDKIMDVAKALEITLNE 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
             +      + +  E+ +   + T
Sbjct: 61 LLGLEEDSNDEYAKLESILNQVVLT 85


>gi|296268292|ref|YP_003650924.1| helix-turn-helix domain-containing protein [Thermobispora bispora
           DSM 43833]
 gi|296091079|gb|ADG87031.1| helix-turn-helix domain protein [Thermobispora bispora DSM 43833]
          Length = 370

 Score = 68.7 bits (167), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 24/99 (24%), Positives = 46/99 (46%), Gaps = 8/99 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+R  R+  G+SQ +L + + +    + K E G  R+ A  L  +++ L+ PI  F 
Sbjct: 15  IGERVRQARLAKGLSQLQLAQKVDLDRTMITKIEAGSRRLDALELARLAQALDVPIGHFL 74

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
             +P V S  +    +     S P        + ++D+ 
Sbjct: 75  HPAPEVLSHRTPLAEDTATDASQP--------YYRLDNA 105


>gi|332654130|ref|ZP_08419874.1| RNA polymerase ECF-type sigma factor [Ruminococcaceae bacterium
          D16]
 gi|332517216|gb|EGJ46821.1| RNA polymerase ECF-type sigma factor [Ruminococcaceae bacterium
          D16]
          Length = 259

 Score = 68.7 bits (167), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 29/66 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+   R   G+SQE L + LG++ Q VQK+E G +R     L  +       + +    
Sbjct: 7  QRLYELRKQSGLSQEGLADLLGVSRQAVQKWEAGTSRPDLDNLAALGRYFNVSLDYLVTG 66

Query: 77 SPTVCS 82
               S
Sbjct: 67 QEAQVS 72


>gi|167756126|ref|ZP_02428253.1| hypothetical protein CLORAM_01646 [Clostridium ramosum DSM 1402]
 gi|167704118|gb|EDS18697.1| hypothetical protein CLORAM_01646 [Clostridium ramosum DSM 1402]
          Length = 156

 Score = 68.7 bits (167), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 34/69 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G +I+  R   G++Q++LGE  GI    ++KYE         +L  I+  L  P++ F++
Sbjct: 4  GDKIKKIRNYRGLTQKQLGELSGIHEVAIRKYELNKVMPKQEQLLKIANALNVPLNTFYE 63

Query: 76 VSPTVCSDI 84
                 DI
Sbjct: 64 YHIDEKPDI 72


>gi|282600408|ref|ZP_05974197.2| putative transcriptional regulatory protein [Providencia
          rustigianii DSM 4541]
 gi|282565257|gb|EFB70792.1| putative transcriptional regulatory protein [Providencia
          rustigianii DSM 4541]
          Length = 185

 Score = 68.7 bits (167), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 24/92 (26%), Positives = 42/92 (45%), Gaps = 4/92 (4%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N ++I +G++IRL R    +S  +L +  GI+   + K E G +      L+ I+  L
Sbjct: 1  MSNKINIKIGQKIRLLRQARNLSLNELSQLSGISKAALSKLESGDSNPRIDTLESIAAAL 60

Query: 67 ESPISFFF----DVSPTVCSDISSEENNVMDF 94
            P+S  F    +  P     I  E + +  F
Sbjct: 61 RFPLSDLFTRQNESYPYFVKAIPQEGDYLEQF 92


>gi|291563729|emb|CBL42545.1| Predicted transcriptional regulators [butyrate-producing bacterium
           SS3/4]
          Length = 116

 Score = 68.7 bits (167), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 31/110 (28%), Positives = 48/110 (43%), Gaps = 1/110 (0%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK  +  DI +G+RIR  R    M+Q+KL E + ++   + + E G   V    +  I+E
Sbjct: 3   KKNVSKGDIAIGQRIRKIREEKSMTQKKLAEKVMVSPSSITRLESGQTMVSVFTIIKIAE 62

Query: 65  VLESPISFFFDVSPTVCSDISS-EENNVMDFISTPDGLQLNRYFIQIDDV 113
           VL + ISF         +     E    +D  +T     L + F  I D 
Sbjct: 63  VLNTSISFLLSGDEDDLNKSDILEIAKKLDRCTTEQREILLQSFGNILDA 112


>gi|293433714|ref|ZP_06662142.1| transcriptional repressor DicA [Escherichia coli B088]
 gi|291324533|gb|EFE63955.1| transcriptional repressor DicA [Escherichia coli B088]
          Length = 135

 Score = 68.7 bits (167), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 25/110 (22%), Positives = 48/110 (43%), Gaps = 2/110 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+RIR RR  +G+SQ  L +  G++   +  +E          L  ++EVL+   ++
Sbjct: 4   KTLGQRIRERRKQVGLSQNDLSKAAGVSGSSISLWESDHTAPRGQNLHRLAEVLQCSPTW 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                     D     NN +D   + D  ++ R +  +   + + +I EL
Sbjct: 64  ILFGDEDKTPDPPVALNNALDL--SEDEFEMLRLYRALPKSEQQAQISEL 111


>gi|197303199|ref|ZP_03168241.1| hypothetical protein RUMLAC_01922 [Ruminococcus lactaris ATCC
          29176]
 gi|197297739|gb|EDY32297.1| hypothetical protein RUMLAC_01922 [Ruminococcus lactaris ATCC
          29176]
          Length = 108

 Score = 68.7 bits (167), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 45/88 (51%), Gaps = 1/88 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G RI+ +R+  G++QEK  E + ++   + + E+G+++V   RL  ISE     I F
Sbjct: 6  KTLGDRIKTKRISQGITQEKFAEHMDVSVGYISQLERGISKVSLERLVSISEYFNCNIDF 65

Query: 73 FFDVSPTVCSD-ISSEENNVMDFISTPD 99
          F D   +     ++ +   +   +S+ +
Sbjct: 66 FIDGINSNTEHYLAQDFEELYAQLSSHE 93


>gi|268592412|ref|ZP_06126633.1| toxin-antitoxin system, antitoxin component, Xre family
           [Providencia rettgeri DSM 1131]
 gi|291312199|gb|EFE52652.1| toxin-antitoxin system, antitoxin component, Xre family
           [Providencia rettgeri DSM 1131]
          Length = 129

 Score = 68.7 bits (167), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 25/107 (23%), Positives = 45/107 (42%), Gaps = 10/107 (9%)

Query: 2   VGNKKIPNPVDIN-------VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV 54
           + + K+   +D         +G  +   R   G+S   L + L I+ QQ+ +YE+G+  +
Sbjct: 1   MKSNKLKTSIDSFQKILTEQIGMELSHLRKEKGLSGSDLAKKLKISQQQISRYERGICSI 60

Query: 55  GASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
               L  I   LE   S FF+      ++ +   N+   FI   + L
Sbjct: 61  NCGMLFSILFYLEISPSAFFESVSLKINEKNPSANS---FIHNSECL 104


>gi|153954565|ref|YP_001395330.1| hypothetical protein CKL_1947 [Clostridium kluyveri DSM 555]
 gi|219855059|ref|YP_002472181.1| hypothetical protein CKR_1716 [Clostridium kluyveri NBRC 12016]
 gi|146347423|gb|EDK33959.1| Phage-related protein [Clostridium kluyveri DSM 555]
 gi|219568783|dbj|BAH06767.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 261

 Score = 68.7 bits (167), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NVG +I+  R    ++Q++L E +G+T   + +YE          L  I++ L+  I+ 
Sbjct: 1  MNVGAKIKEIRESKNLTQKQLAEKIGVTPVTITRYENNKREPSIETLNKIAKALDVTIND 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|323357780|ref|YP_004224176.1| transcriptional regulator [Microbacterium testaceum StLB037]
 gi|323274151|dbj|BAJ74296.1| predicted transcriptional regulator [Microbacterium testaceum
           StLB037]
          Length = 211

 Score = 68.7 bits (167), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 26/100 (26%), Positives = 41/100 (41%), Gaps = 2/100 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG RIR  R   G+S   L   LGI+   V + E+GV +   SRL  I++ L  P+   F
Sbjct: 27  VGARIRDLRQARGISARALAATLGISPSAVSQIERGVMQPSVSRLIAITDALGVPLVAAF 86

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNR--YFIQIDD 112
           D +     +        +   +    + L     F ++  
Sbjct: 87  DPASDRPVEPVGPSGFTLQRAAQAADIVLESGVSFRRLTP 126


>gi|307711376|ref|ZP_07647794.1| peptidase S24-like family protein [Streptococcus mitis SK321]
 gi|307616794|gb|EFN95976.1| peptidase S24-like family protein [Streptococcus mitis SK321]
          Length = 228

 Score = 68.7 bits (167), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 20/119 (16%), Positives = 51/119 (42%), Gaps = 26/119 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q ++ E LGI+FQ    +E+GV      ++  +  +L+ P  +F   
Sbjct: 5   EKLKARRKELKLTQREIAEQLGISFQAYSAWERGVKEPSKEKVVQLENILKVPKGYFTQ- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                                   +++ R +  +   + ++K++   R++   E+  + 
Sbjct: 64  ------------------------IEIVRLYHSL-SKQGQEKVVLYARNLSQEEQAQKV 97


>gi|190151419|ref|YP_001974330.1| putative transcriptional repressor [Streptococcus phage PH15]
 gi|190014413|emb|CAQ57799.1| hypothetical protein [Streptococcus phage PH15]
          Length = 249

 Score = 68.7 bits (167), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R+  G +Q++LG  +GI+   +  YEKG+       +  ++      I   F
Sbjct: 10 IGEKIKQYRLENGWTQQELGSKIGISKNAIGNYEKGIRSPKKDTMFDLANAFGISIDDLF 69


>gi|239623932|ref|ZP_04666963.1| predicted protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239521963|gb|EEQ61829.1| predicted protein [Clostridiales bacterium 1_7_47FAA]
          Length = 242

 Score = 68.7 bits (167), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 34/70 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ ++G RIR+ R    ++ ++L + +  +   V KYE G   +    L  I++VL    
Sbjct: 4  INEHIGGRIRMYRKARELTLQQLADLIHKSRASVSKYENGEITLDVETLSEIADVLMVSP 63

Query: 71 SFFFDVSPTV 80
              D SP V
Sbjct: 64 GQLMDFSPPV 73


>gi|288871456|ref|ZP_06117657.2| DNA-binding protein [Clostridium hathewayi DSM 13479]
 gi|288863406|gb|EFC95704.1| DNA-binding protein [Clostridium hathewayi DSM 13479]
          Length = 222

 Score = 68.7 bits (167), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 39/77 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+++G+ I+ +R  L +SQE + E LG++ Q V K+E   ++  A  L  ++ V    +
Sbjct: 21 IDMSLGENIKTKRNELKLSQEYVAEQLGVSRQAVSKWETDQSQPKAKNLTELATVFHVGL 80

Query: 71 SFFFDVSPTVCSDISSE 87
          S   +         + E
Sbjct: 81 SGLVEPQKYQAEQAAQE 97


>gi|284008034|emb|CBA74134.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 232

 Score = 68.7 bits (167), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 29/66 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RIR  R    M+QE LG+ +G++   + ++E G        L  +++ L   I +  D 
Sbjct: 4  ERIRQARNHNKMTQESLGKRIGVSKATISQWESGTTEPNGKNLVSLAKALGVTIEWLLDG 63

Query: 77 SPTVCS 82
                
Sbjct: 64 DEKNAE 69


>gi|206900818|ref|YP_002250397.1| transcriptional regulator, AraC family [Dictyoglomus thermophilum
           H-6-12]
 gi|206739921|gb|ACI18979.1| transcriptional regulator, AraC family [Dictyoglomus thermophilum
           H-6-12]
          Length = 105

 Score = 68.3 bits (166), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 30/114 (26%), Positives = 48/114 (42%), Gaps = 19/114 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +NVGKRIR  R    M  E L E  G++   +   E+G+       L+ I++    P S+
Sbjct: 1   MNVGKRIRETRKKHNMKLEDLAEKTGLSLSYISLIERGLKNPSLKALERIAKAFNLPTSY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           FF             +  +  F+ T   L          D   R+ II+L++S+
Sbjct: 61  FFSEDN---------DETIETFLRTKTSL----------DEDERRMIIQLIKSL 95


>gi|295402356|ref|ZP_06812311.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
 gi|294975629|gb|EFG51252.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
          Length = 206

 Score = 68.3 bits (166), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 37/64 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I   R + G+S E+LG  +G+T + +++YE G  R+   R+  I++ L+   +  +
Sbjct: 8  IGKNIEKYRKLKGISAEELGNRVGLTKKTIRRYETGEIRIINDRVLAIADALDIDPADLY 67

Query: 75 DVSP 78
          + + 
Sbjct: 68 EGTD 71


>gi|322388682|ref|ZP_08062281.1| hypothetical transcriptional regulator [Streptococcus infantis
          ATCC 700779]
 gi|321140471|gb|EFX35977.1| hypothetical transcriptional regulator [Streptococcus infantis
          ATCC 700779]
          Length = 228

 Score = 68.3 bits (166), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 41/73 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR  L M+Q+ + + LG+++Q    +E+GV +    +++ +  +L+    +F ++
Sbjct: 5  EKLKARRKELKMTQKDIADQLGVSYQAYSAWERGVKQPSREKVKLLEHILKVSKGYFTEL 64

Query: 77 SPTVCSDISSEEN 89
                +  S+E+
Sbjct: 65 EIVRLYNTLSDED 77


>gi|315037492|ref|YP_004031060.1| transcriptional regulator [Lactobacillus amylovorus GRL 1112]
 gi|325955952|ref|YP_004286562.1| transcriptional regulator [Lactobacillus acidophilus 30SC]
 gi|312275625|gb|ADQ58265.1| putative transcriptional regulator [Lactobacillus amylovorus GRL
           1112]
 gi|325332517|gb|ADZ06425.1| transcriptional regulator [Lactobacillus acidophilus 30SC]
          Length = 169

 Score = 68.3 bits (166), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 22/117 (18%), Positives = 45/117 (38%), Gaps = 18/117 (15%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++I   R   G+SQE L E + ++ Q V K+E   +     ++  +SE+      +
Sbjct: 1   MKLGQKIAELRKKSGLSQEALAEKMNVSRQAVSKWESNQSIPDIEKIVDLSELFGVTTDY 60

Query: 73  F-------FDVSPTVCSDISSEENNVMDFISTP-----------DGLQLNRYFIQID 111
                   F++      + + +   + D   T            + L L   F+ I 
Sbjct: 61  LLKNGTPSFELPGKTTEEETKKLPKISDHEITQYLEVAKNAAHFESLALALIFLSIA 117


>gi|295107669|emb|CBL05212.1| Predicted transcriptional regulators [Gordonibacter pamelaeae
           7-10-1-b]
          Length = 137

 Score = 68.3 bits (166), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 29/97 (29%), Positives = 47/97 (48%), Gaps = 5/97 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG+ IR  R   GM+Q +L E +G+T   V+ YE G+  V    L+ I++ L   ++ 
Sbjct: 1   MSVGENIRRYRKSRGMTQAQLAEAVGLTEGAVRHYESGIRTVKPELLESIADTLGVSVNA 60

Query: 73  FFDVSPTVCSDISS-----EENNVMDFISTPDGLQLN 104
             D       D+ S     E++  +   S   GL LN
Sbjct: 61  LKDYGVETAGDLMSLLVRLEDSFGIAPASDGSGLTLN 97


>gi|299536270|ref|ZP_07049583.1| hypothetical protein BFZC1_09630 [Lysinibacillus fusiformis ZC1]
 gi|298728256|gb|EFI68818.1| hypothetical protein BFZC1_09630 [Lysinibacillus fusiformis ZC1]
          Length = 182

 Score = 68.3 bits (166), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 23/102 (22%), Positives = 41/102 (40%), Gaps = 6/102 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG +I+  R    MSQ+ L   + +T   + K E G        L  I+E+ + P+++
Sbjct: 4   LEVGVKIKQMRKKNKMSQDDLASQINLTKSHISKIENGKATPSLVTLSKIAEIFDVPMAW 63

Query: 73  F-----FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           F     FD    V      E     +     + L  N+ ++ 
Sbjct: 64  FVIQDQFDGISIVSKKERHETVETNELGYQYELLA-NKSYMS 104


>gi|332533845|ref|ZP_08409701.1| regulatory protein Cro [Pseudoalteromonas haloplanktis ANT/505]
 gi|332036776|gb|EGI73239.1| regulatory protein Cro [Pseudoalteromonas haloplanktis ANT/505]
          Length = 206

 Score = 68.3 bits (166), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 24/78 (30%), Positives = 45/78 (57%), Gaps = 2/78 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++VG+RI+ RR+ LG++Q  L E  GI  Q +QK E G  +     L+ +++ L+    F
Sbjct: 1  MSVGERIKKRRVELGLTQANLAELAGIIQQSLQKIESGSTK-NPRNLKALADALDCTPEF 59

Query: 73 F-FDVSPTVCSDISSEEN 89
            F ++ ++ S++S   +
Sbjct: 60 LQFGIAESINSNVSPGPD 77


>gi|18309709|ref|NP_561643.1| hypothetical protein CPE0727 [Clostridium perfringens str. 13]
 gi|18144386|dbj|BAB80433.1| conserved hypothetical protein [Clostridium perfringens str. 13]
          Length = 268

 Score = 68.3 bits (166), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 42/88 (47%), Gaps = 4/88 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--- 73
           ++++L R   G+SQE L E LGI+ Q V K+E G +    ++L  +SE+    I +    
Sbjct: 5   EKLQLMRKREGLSQEDLAEKLGISRQAVSKWESGQSVPDLNKLIILSELYNVTIDYLVKE 64

Query: 74  -FDVSPTVCSDISSEENNVMDFISTPDG 100
            ++   +   +I +      + +   + 
Sbjct: 65  TYEFEGSQEKEIGNTGKQYGENLGNKET 92


>gi|261404033|ref|YP_003240274.1| XRE family transcriptional regulator [Paenibacillus sp. Y412MC10]
 gi|261280496|gb|ACX62467.1| transcriptional regulator, XRE family [Paenibacillus sp. Y412MC10]
          Length = 272

 Score = 68.3 bits (166), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 32/113 (28%), Positives = 47/113 (41%), Gaps = 13/113 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           K I   R    ++QE L   LG+TFQ V K+E G      + L  +S +L+  I   F  
Sbjct: 7   KNINRYRKERRLTQEGLAHKLGVTFQAVSKWETGQTMPDIALLPELSRLLDVSIDKLFGY 66

Query: 77  SPTVCSDISSEENNVMDFISTPD---GLQLNRYFIQ----IDDVKVRQKIIEL 122
           S T       EE        TP+   G + N    Q    I   K R +++++
Sbjct: 67  SSTGKPISIYEEEYK-----TPEYYWGTEPNAACYQVLEMIPPTK-RVRLLDI 113


>gi|301066917|ref|YP_003788940.1| XRE family transcriptional regulator [Lactobacillus casei str.
          Zhang]
 gi|300439324|gb|ADK19090.1| Transcriptional regulator, xre family [Lactobacillus casei str.
          Zhang]
          Length = 344

 Score = 68.3 bits (166), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 38/59 (64%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++ + IR RR+ LG++QE+L   +G++   V K+EKGV+    + L  ++ +L + ++
Sbjct: 1  MHIDQVIRERRLALGLTQEELANKIGVSAPAVSKWEKGVSYPDITLLPALARILGTDVN 59


>gi|239629798|ref|ZP_04672829.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|239527410|gb|EEQ66411.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
          Length = 344

 Score = 68.3 bits (166), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 38/59 (64%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++ + IR RR+ LG++QE+L   +G++   V K+EKGV+    + L  ++ +L + ++
Sbjct: 1  MHIDQVIRERRLALGLTQEELANKIGVSAPAVSKWEKGVSYPDITLLPALARILGTDVN 59


>gi|229192127|ref|ZP_04319095.1| Transcriptional regulator, Cro/CI [Bacillus cereus ATCC 10876]
 gi|228591334|gb|EEK49185.1| Transcriptional regulator, Cro/CI [Bacillus cereus ATCC 10876]
          Length = 118

 Score = 68.3 bits (166), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 21/85 (24%), Positives = 39/85 (45%), Gaps = 4/85 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R    ++QEK+GE +G++ Q + KYEKG        ++ +++    P  + F
Sbjct: 4  IGERIFELRKERKLTQEKIGENIGVSKQTISKYEKGTKIPSRENIEKLADFFNVPTDYLF 63

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            S           NN+ +     +
Sbjct: 64 GKSDNSIK----SSNNIKEIFENDE 84


>gi|328479204|gb|EGF48603.1| XRE family transcriptional regulator [Lactobacillus rhamnosus MTCC
           5462]
          Length = 298

 Score = 68.3 bits (166), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 30/155 (19%), Positives = 65/155 (41%), Gaps = 32/155 (20%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++ + IR +R+  G++QE L + +G+T   V K+EKG++    + L  ++  L + ++ 
Sbjct: 4   MHLNQIIRNKRLAAGLTQEALAQKVGVTAPAVSKWEKGISYPDITLLPILARNLNTDVNT 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDG----LQLN----RYFIQIDD------------ 112
             D S  +           +   +  DG    + L     R +  +              
Sbjct: 64  LLDFSADLDPAALRRFYTKLTATAQKDGWKAAVALVDEELREYPSVPQLQMMVPSFLQGL 123

Query: 113 ---------VKVRQKIIELVRSIVSSEKKYRTIEE 138
                      VR++II+L ++   SE+ + ++ E
Sbjct: 124 KSDIPTNEWPAVRERIIQLYQA---SERPHSSLPE 155


>gi|116495345|ref|YP_807079.1| XRE family transcriptional regulator [Lactobacillus casei ATCC
          334]
 gi|116105495|gb|ABJ70637.1| Transcriptional regulator, xre family [Lactobacillus casei ATCC
          334]
          Length = 344

 Score = 68.3 bits (166), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 38/59 (64%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++ + IR RR+ LG++QE+L   +G++   V K+EKGV+    + L  ++ +L + ++
Sbjct: 1  MHIDQVIRERRLALGLTQEELANKIGVSAPAVSKWEKGVSYPDITLLPALARILGTDVN 59


>gi|227873147|ref|ZP_03991438.1| conserved hypothetical protein [Oribacterium sinus F0268]
 gi|227840978|gb|EEJ51317.1| conserved hypothetical protein [Oribacterium sinus F0268]
          Length = 300

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 23/87 (26%), Positives = 44/87 (50%), Gaps = 1/87 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK I  +R  LGM+Q++L E +G++ + V K+E+G+     S    +  +L   I+ 
Sbjct: 4  VKIGKYISEKRKNLGMTQKQLAEKIGMSDKSVSKWERGICLPDVSLYFDLCSILGISINE 63

Query: 73 FFDVSPTVCSDIS-SEENNVMDFISTP 98
          F      V  +I    E N++  ++  
Sbjct: 64 FLAGEDIVHENIEKKSEENIISVVTDS 90


>gi|261344508|ref|ZP_05972152.1| DNA-binding protein [Providencia rustigianii DSM 4541]
 gi|282567418|gb|EFB72953.1| DNA-binding protein [Providencia rustigianii DSM 4541]
          Length = 91

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 31/55 (56%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          PV   +G +I   R   G++  +L + +G++ QQ  +YE+G+NR+   RL   + 
Sbjct: 6  PVSKMIGSKITYYRKSNGITLNQLAKMIGVSQQQQSRYERGLNRINLDRLNQYAN 60


>gi|225575479|ref|ZP_03784089.1| hypothetical protein RUMHYD_03569 [Blautia hydrogenotrophica DSM
          10507]
 gi|225037331|gb|EEG47577.1| hypothetical protein RUMHYD_03569 [Blautia hydrogenotrophica DSM
          10507]
          Length = 123

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 24/74 (32%), Positives = 35/74 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG++I+  R I G+SQ  LGE  GI    + KYE G       +L  I+  L   I+ 
Sbjct: 1  MTVGEKIKTFRTIRGISQNMLGELAGIGGTTILKYELGSQNPKPDQLLKIANALGVSINV 60

Query: 73 FFDVSPTVCSDISS 86
            D      SD+ +
Sbjct: 61 LTDFDIETASDVLT 74


>gi|218437353|ref|YP_002375682.1| transcriptional regulator of molybdate metabolism, XRE family
           [Cyanothece sp. PCC 7424]
 gi|218170081|gb|ACK68814.1| transcriptional regulator of molybdate metabolism, XRE family
           [Cyanothece sp. PCC 7424]
          Length = 377

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 24/118 (20%), Positives = 43/118 (36%), Gaps = 12/118 (10%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D  +   I+  R  LG+SQ+ L +  G++ Q +   E G     A+    +++ L   + 
Sbjct: 4   DRELRNNIKQIRTRLGLSQQDLAQVAGVSRQAISGVESGQYAPSATVALRLAKALGCRVE 63

Query: 72  FFF--DVSPTVCSDISSEENNVMDFISTPDGLQLNR------YFIQIDDVKVRQKIIE 121
             F  D   T+     +    +         L L +       +  I D   R +II 
Sbjct: 64  DLFWLDNDETMIEAFPTSTVPIAQPFR----LTLAQVGSKLIAYPLIKDDAFRTEIIA 117


>gi|166033610|ref|ZP_02236439.1| hypothetical protein DORFOR_03336 [Dorea formicigenerans ATCC
           27755]
 gi|210608449|ref|ZP_03287825.1| hypothetical protein CLONEX_00004 [Clostridium nexile DSM 1787]
 gi|317500066|ref|ZP_07958301.1| hypothetical protein HMPREF1026_00243 [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|166026795|gb|EDR45552.1| hypothetical protein DORFOR_03336 [Dorea formicigenerans ATCC
           27755]
 gi|210153068|gb|EEA84074.1| hypothetical protein CLONEX_00004 [Clostridium nexile DSM 1787]
 gi|316898551|gb|EFV20587.1| hypothetical protein HMPREF1026_00243 [Lachnospiraceae bacterium
           8_1_57FAA]
          Length = 211

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 43/88 (48%), Gaps = 3/88 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL+   +  
Sbjct: 10  HLGNNIQTIRKFRGMKQQELADKIGINMQSLSKIERGLNYPAYETLEKIMEVLDVTPN-- 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            ++       ++  E  V  F+ T + L
Sbjct: 68  -ELLSGEWKYVNQSEKEVCQFLRTEERL 94


>gi|75761153|ref|ZP_00741144.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228904571|ref|ZP_04068647.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 4222]
 gi|74491352|gb|EAO54577.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228855052|gb|EEM99635.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 4222]
          Length = 194

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 33/58 (56%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          N+GK I+  R   G+S   LGE +G++ Q + +YE G  ++    L +I++ L  P+ 
Sbjct: 4  NIGKVIKEIRKAKGISAFVLGEMIGVSQQAISQYENGKRKISFEVLNNIAKALNVPMD 61


>gi|253579257|ref|ZP_04856527.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849355|gb|EES77315.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 177

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 25/72 (34%), Positives = 36/72 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK+IR  R   G SQ +L E  GI    ++KYE G+      +L+ I+  L   +S F 
Sbjct: 2  VGKKIRAFREFRGYSQIQLAELSGINVGTIRKYELGIRNPKPDQLEKIATALGLNVSVFL 61

Query: 75 DVSPTVCSDISS 86
          D +     D+ S
Sbjct: 62 DFNIETVGDVLS 73


>gi|37678457|ref|NP_933066.1| hypothetical protein VV0273 [Vibrio vulnificus YJ016]
 gi|37197197|dbj|BAC93037.1| hypothetical protein [Vibrio vulnificus YJ016]
          Length = 350

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 35/71 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R   G+S + LGE +GI+   V+KYE   +   +  L  ++  L     +FF
Sbjct: 2  IGERIKRARAAAGLSMQALGEQVGISANMVKKYEHDQSMPSSGVLLKLATALSVRTEYFF 61

Query: 75 DVSPTVCSDIS 85
            +     ++ 
Sbjct: 62 RPAQVTLGEVE 72


>gi|220931033|ref|YP_002507941.1| transcriptional regulator, XRE family [Halothermothrix orenii H
           168]
 gi|219992343|gb|ACL68946.1| transcriptional regulator, XRE family [Halothermothrix orenii H
           168]
          Length = 182

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 23/93 (24%), Positives = 40/93 (43%), Gaps = 10/93 (10%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N ++ N+GK++R  R+  G S   L E  G++   + + E+G        L  ++  L  
Sbjct: 2   NEINANIGKKLRKLRIGKGYSLGDLEEIAGVSKSMLGQIERGKTNPTVKTLWKVARSLNV 61

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
           P SFF +           E + V  F  + + L
Sbjct: 62  PFSFFIE----------EETSPVKVFSPSKEVL 84


>gi|56965066|ref|YP_176798.1| transcriptional regulator [Bacillus clausii KSM-K16]
 gi|56911310|dbj|BAD65837.1| transcriptional regulator [Bacillus clausii KSM-K16]
          Length = 193

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 29/141 (20%), Positives = 57/141 (40%), Gaps = 15/141 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +GK +R  R   GMS E L + +G++   + K E+G      S +  I+  L  PI+ 
Sbjct: 17  KQIGKNLRQLRTSKGMSIEALAQQIGVSKLTLLKIEQGEGNPTLSVIWKIANGLHIPITA 76

Query: 73  F--FDVSPTVCSD------ISSEENNVMDFISTPDGL-QLNRYF----IQIDDVKVRQKI 119
              F+    +          SS++  +++ +    GL +  R +     + +    R  +
Sbjct: 77  LLSFEADVAIARANKAMKLSSSDDEFIVEPLFRSQGLMECYRGYLQPQCRYESEAHRLGV 136

Query: 120 IELVRSIVSSEKKYRTIEEEC 140
           +E V  +    +    +E E 
Sbjct: 137 VETVTVMAG--QLTIEVEGES 155


>gi|169335255|ref|ZP_02862448.1| hypothetical protein ANASTE_01663 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169257993|gb|EDS71959.1| hypothetical protein ANASTE_01663 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 143

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 31/58 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G RI+  R    ++Q++LGE LG+    +  YEKG  +V A     +SE+    + +
Sbjct: 20 IGDRIKELRKENKLTQQELGEKLGVHSNTISMYEKGNRKVSAEMANKLSEIFNVSVGY 77


>gi|146300326|ref|YP_001194917.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
           UW101]
 gi|146154744|gb|ABQ05598.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
           UW101]
          Length = 131

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 30/129 (23%), Positives = 51/129 (39%), Gaps = 8/129 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            ++G+ I   R +  M QE L + LGIT Q +   E     V   RL  I++ L+  +  
Sbjct: 8   KHIGRNISRIRELKDMKQEALADALGITQQTISNIENSET-VDEQRLIEIAKALDVSVEA 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
             + S     +I          +ST  G      +    +     K++EL   +V +EK 
Sbjct: 67  IKNFSEEAVFNIIGNTIQDHGTLSTTTG-----NYNCTFNPL--DKVVELYERLVQAEKD 119

Query: 133 YRTIEEECM 141
                E+ +
Sbjct: 120 KVEYLEKLL 128


>gi|262276707|ref|ZP_06054501.1| transcriptional regulator, Cro/CI family [alpha proteobacterium
          HIMB114]
 gi|262225129|gb|EEY75587.1| transcriptional regulator, Cro/CI family [alpha proteobacterium
          HIMB114]
          Length = 104

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 23/60 (38%), Positives = 37/60 (61%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
          +SQ ++G+ +  TFQQ+QKYEKG N++ AS++  +SE    P+S +F        +I  E
Sbjct: 36 ISQTQVGKYMNCTFQQIQKYEKGKNQLSASKIYKLSEFFNIPVSSWFTPIEDFYKEIRDE 95


>gi|322376841|ref|ZP_08051334.1| putative transcriptional regulator PlcR [Streptococcus sp. M334]
 gi|321282648|gb|EFX59655.1| putative transcriptional regulator PlcR [Streptococcus sp. M334]
          Length = 288

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 31/99 (31%), Positives = 47/99 (47%), Gaps = 3/99 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++ RR  L MSQ +L E  GI  Q Q+ + E G    GA  L  +S+ L+  I +FF+ 
Sbjct: 8   RLKNRRKELKMSQRELAE--GICKQGQISRLENGEFTPGADFLYALSKKLKVSIDYFFNE 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                 D  SE   +     T    +  +Y  +++ VKV
Sbjct: 66  QIVEEIDELSEFKKLAQTFITNRNYESLKYIYELESVKV 104


>gi|226328630|ref|ZP_03804148.1| hypothetical protein PROPEN_02525 [Proteus penneri ATCC 35198]
 gi|225203363|gb|EEG85717.1| hypothetical protein PROPEN_02525 [Proteus penneri ATCC 35198]
          Length = 97

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 23/72 (31%), Positives = 35/72 (48%), Gaps = 4/72 (5%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            NKK    +   VGK+IR  R +  M+ ++LG  LGI+ Q   +YE G   + A  L  
Sbjct: 5  AMNKK----ISKLVGKKIRSLREMYCMTGDELGALLGISQQHQSRYENGETNIHAETLYC 60

Query: 62 ISEVLESPISFF 73
          +S   +    +F
Sbjct: 61 LSYFFDVEPEYF 72


>gi|261885710|ref|ZP_06009749.1| hypothetical protein CfetvA_11544 [Campylobacter fetus subsp.
          venerealis str. Azul-94]
          Length = 207

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 35/62 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R   G+SQ++  +  GI +  +Q YE G+ +     ++ +++  +  +++F+
Sbjct: 2  IGNKIRALREENGISQKEFAKEFGIAYGTLQSYEYGLTKPKTDFIEQLAKKFKIDVNYFY 61

Query: 75 DV 76
          D 
Sbjct: 62 DD 63


>gi|168209895|ref|ZP_02635520.1| helix-turn-helix domain protein [Clostridium perfringens B str.
           ATCC 3626]
 gi|170711951|gb|EDT24133.1| helix-turn-helix domain protein [Clostridium perfringens B str.
           ATCC 3626]
          Length = 268

 Score = 67.9 bits (165), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 4/88 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--- 73
           ++++L R   G+SQE L E LGI+ Q V K+E G +    ++L  +SE+    I +    
Sbjct: 5   EKLQLIRKREGLSQEDLAEKLGISRQAVSKWESGQSVPDLNKLIILSELYNVTIDYLVKE 64

Query: 74  -FDVSPTVCSDISSEENNVMDFISTPDG 100
            ++   +   +IS+      + +   + 
Sbjct: 65  TYEFEGSQEKEISNTGKQYGENLENKET 92


>gi|325696215|gb|EGD38106.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK160]
          Length = 180

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 33/66 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R   G+SQ+ L + +G++++ +Q +E GVN++   + Q ++      + +    
Sbjct: 2  NRIKEIRQKEGLSQQALAKKIGVSYRTIQNWENGVNQIKPDKAQQLANFFRVGVGYLLGY 61

Query: 77 SPTVCS 82
          +     
Sbjct: 62 NDEEKE 67


>gi|210608450|ref|ZP_03287826.1| hypothetical protein CLONEX_00005 [Clostridium nexile DSM 1787]
 gi|210153061|gb|EEA84067.1| hypothetical protein CLONEX_00005 [Clostridium nexile DSM 1787]
          Length = 157

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 43/88 (48%), Gaps = 3/88 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL+   +  
Sbjct: 10  HLGNNIQTIRKFRGMKQQELADKIGINMQSLSKIERGLNYPAYETLEKIMEVLDVTPN-- 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            ++       ++  E  V  F+ T + L
Sbjct: 68  -ELLSGEWKYVNQSEKEVCQFLRTEERL 94


>gi|153954474|ref|YP_001395239.1| phage transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|146347355|gb|EDK33891.1| Predicted phage transcriptional regulator [Clostridium kluyveri
          DSM 555]
          Length = 268

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 33/61 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G+ I+  R   G++Q++L + + +T   +Q YE    +     L  I++VL   I+ 
Sbjct: 1  MNIGENIKRIRTQKGLTQKELAKSIHVTPTTIQNYENNRRKPSVDTLDKIAKVLGVTINS 60

Query: 73 F 73
          F
Sbjct: 61 F 61


>gi|152999279|ref|YP_001364960.1| putative phage repressor [Shewanella baltica OS185]
 gi|151363897|gb|ABS06897.1| putative phage repressor [Shewanella baltica OS185]
          Length = 240

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 40/75 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+RIR +R  LG++Q+ LG  +G++   V ++EK       + L  +++ L+  +S+
Sbjct: 11 KTLGQRIREKRKELGITQKALGALVGVSAVAVTQWEKDETAPKGANLFALAKSLKCDLSW 70

Query: 73 FFDVSPTVCSDISSE 87
            +       + ++E
Sbjct: 71 LLNGQIATKPESNAE 85


>gi|110347043|ref|YP_665861.1| XRE family transcriptional regulator [Mesorhizobium sp. BNC1]
 gi|110283154|gb|ABG61214.1| transcriptional regulator, XRE family [Chelativorans sp. BNC1]
          Length = 154

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 44/76 (57%), Gaps = 1/76 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFF 73
           +G+ +R +R    +++E+L   +G++ Q   +YEK ++++  +RL H+ E+L+  P+   
Sbjct: 48  LGRALRAKRSERKLTREQLATMIGLSTQVFGRYEKAISKMNVTRLIHLCEILDVSPVDLI 107

Query: 74  FDVSPTVCSDISSEEN 89
           ++ +P +  D   E  
Sbjct: 108 YEAAPHLFGDTPQEAK 123


>gi|332716566|ref|YP_004444032.1| transcriptional regulator [Agrobacterium sp. H13-3]
 gi|325063251|gb|ADY66941.1| transcriptional regulator [Agrobacterium sp. H13-3]
          Length = 225

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 20/76 (26%), Positives = 34/76 (44%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    G++   + K E G      + LQ +S+ L  
Sbjct: 31  NNLEMAIGHEVRAYRKKLGITVTDLASATGVSVGMLSKIENGNISPSLTTLQTLSKALGV 90

Query: 69  PISFFFDVSPTVCSDI 84
           PI+ FF       S  
Sbjct: 91  PITAFFRGFEEPRSAT 106


>gi|225388149|ref|ZP_03757873.1| hypothetical protein CLOSTASPAR_01884 [Clostridium asparagiforme
           DSM 15981]
 gi|225045810|gb|EEG56056.1| hypothetical protein CLOSTASPAR_01884 [Clostridium asparagiforme
           DSM 15981]
          Length = 179

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 22/97 (22%), Positives = 35/97 (36%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +R  R   G+SQE L E L ++ Q V K+E+G        L  +S  L   +        
Sbjct: 7   LRQIRKEKGLSQEDLAELLDVSRQAVSKWEQGAGYPEVETLLLLSNRLNISLDSLMATEI 66

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                    E      I++P    +   +  I   K+
Sbjct: 67  AREGGGGRAEVTGTILITSPHENVVVSCYKVISSQKM 103


>gi|169349646|ref|ZP_02866584.1| hypothetical protein CLOSPI_00384 [Clostridium spiroforme DSM 1552]
 gi|169293721|gb|EDS75854.1| hypothetical protein CLOSPI_00384 [Clostridium spiroforme DSM 1552]
          Length = 211

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 43/88 (48%), Gaps = 3/88 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL+   +  
Sbjct: 10  HLGNNIQTIRKFRGMKQQELADKIGINMQSLSKIERGLNYPAYETLEKIMEVLDVTPN-- 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            ++       ++  E  V  F+ T + L
Sbjct: 68  -ELLSGEWKYVNQSEKEVCQFLRTEERL 94


>gi|309792582|ref|ZP_07687044.1| cupin 2 domain-containing protein [Oscillochloris trichoides DG6]
 gi|308225396|gb|EFO79162.1| cupin 2 domain-containing protein [Oscillochloris trichoides DG6]
          Length = 206

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 2/79 (2%)

Query: 3  GNKKIPNPVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
            +  P+P D  ++VG R+R  R    +S   L E  G+    +   E G      S LQ
Sbjct: 18 EARDCPSPQDGKVDVGARLRFLREGRQLSIRALAEASGLAVNTLSLIENGKTSPSVSTLQ 77

Query: 61 HISEVLESPISFFFDVSPT 79
           ++  L  PI+ FF+    
Sbjct: 78 QVAVALGVPITSFFEPDSP 96


>gi|326201072|ref|ZP_08190944.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
          2782]
 gi|325988640|gb|EGD49464.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
          2782]
          Length = 213

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 20/84 (23%), Positives = 41/84 (48%), Gaps = 1/84 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R   G+SQE+L + LG++ Q V K+E G +     ++  +SE  +    +
Sbjct: 1  MNISDRIQSLRKTKGISQEQLADELGVSRQAVSKWESGQSMPDIEKIILMSEYFKITTDY 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
                 +  D + ++ +   F +
Sbjct: 61 LLKG-IDLPKDTTEKKPSAAIFAA 83


>gi|268608708|ref|ZP_06142435.1| hypothetical protein RflaF_04317 [Ruminococcus flavefaciens FD-1]
          Length = 322

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 34/71 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          ++   R   GMSQE+L E LG++ Q V K+E   +    +R+  IS++ +    +     
Sbjct: 6  KLIELRKKSGMSQEELAEKLGVSRQSVSKWEGAQSTPDLNRILEISKIFDVSTDYLLKDE 65

Query: 78 PTVCSDISSEE 88
               +IS + 
Sbjct: 66 IEAGKEISEKS 76


>gi|159186071|ref|NP_356428.2| transcriptional regulator [Agrobacterium tumefaciens str. C58]
 gi|159141205|gb|AAK89213.2| transcriptional regulator [Agrobacterium tumefaciens str. C58]
          Length = 208

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 20/76 (26%), Positives = 34/76 (44%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +++ +G  +R  R  LG++   L    G++   + K E G      + LQ +S+ L  
Sbjct: 14 NNLEMAIGHEVRAYRKKLGITVTDLASATGVSVGMLSKIENGNISPSLTTLQTLSKALGV 73

Query: 69 PISFFFDVSPTVCSDI 84
          PI+ FF       S  
Sbjct: 74 PITAFFRGFEEPRSAT 89


>gi|116512822|ref|YP_811729.1| XRE family transcriptional regulator [Lactococcus lactis subsp.
           cremoris SK11]
 gi|116108476|gb|ABJ73616.1| Transcriptional regulator, xre family [Lactococcus lactis subsp.
           cremoris SK11]
          Length = 175

 Score = 67.9 bits (165), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 23/109 (21%), Positives = 47/109 (43%), Gaps = 1/109 (0%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  VG +I+  R    ++Q+ L + +G+    +  YE+G        L  ++  L   I
Sbjct: 6   INKFVGMKIKEFRKNKKLTQQGLADLVGVKNSAISNYEQGTRIPKRDFLFRVANALGVSI 65

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTP-DGLQLNRYFIQIDDVKVRQK 118
             FF +     S   SE N +   +  P   + LN    Q+++ +  ++
Sbjct: 66  DEFFPIQNEETSSTLSEINKISSQLEEPRQKIVLNTASSQLEEQEKAKR 114


>gi|168187848|ref|ZP_02622483.1| transcriptional regulator, MerR family [Clostridium botulinum C
          str. Eklund]
 gi|169294305|gb|EDS76438.1| transcriptional regulator, MerR family [Clostridium botulinum C
          str. Eklund]
          Length = 155

 Score = 67.5 bits (164), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 37/78 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++I+  R +  ++QE+L   L I+   + KYE+   +     L  I++ L+  ++ 
Sbjct: 1  MNLGEKIKKYRKLFKLTQEELAAKLEISKHTLSKYEQNQRKPNIEMLNKIAKALDVTVND 60

Query: 73 FFDVSPTVCSDISSEENN 90
            +         S EE  
Sbjct: 61 LMEFEELKKEVTSIEETE 78


>gi|297582579|ref|YP_003698359.1| XRE family transcriptional regulator [Bacillus selenitireducens
          MLS10]
 gi|297141036|gb|ADH97793.1| transcriptional regulator, XRE family [Bacillus selenitireducens
          MLS10]
          Length = 210

 Score = 67.5 bits (164), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 36/77 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  I  RR  L +SQ  + E +G++ Q V K+E G +    + L  ++EVL   +  
Sbjct: 1  MALGTTISQRRKELNLSQAFVAEEMGVSRQAVSKWETGQSVPSTAHLIRLAEVLGCDVQD 60

Query: 73 FFDVSPTVCSDISSEEN 89
            +          +EE+
Sbjct: 61 LAEPDQEAQPAQPAEES 77


>gi|288947737|ref|YP_003445120.1| transcriptional regulator, XRE family [Allochromatium vinosum DSM
           180]
 gi|288898253|gb|ADC64088.1| transcriptional regulator, XRE family [Allochromatium vinosum DSM
           180]
          Length = 273

 Score = 67.5 bits (164), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 29/127 (22%), Positives = 55/127 (43%), Gaps = 17/127 (13%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           ++ ++G RIR RR  LG+S  KL E +   I+   +  YE G+ R G   +  +S + E 
Sbjct: 157 LNRSIGARIRTRRKQLGLSLRKLSERIDGAISSVALNNYEIGLRRPGIEEVMQLSAIFEV 216

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
             ++   +      D                  +L R+F +  D + R  I +L  ++ S
Sbjct: 217 SPAWLLCIDDRPPPD--------------EHERELIRHFRR-TDERGRGLIFQLSAALAS 261

Query: 129 SEKKYRT 135
           + ++  +
Sbjct: 262 NTREQTS 268


>gi|188025844|ref|ZP_02960023.2| hypothetical protein PROSTU_01924 [Providencia stuartii ATCC
          25827]
 gi|188020707|gb|EDU58747.1| hypothetical protein PROSTU_01924 [Providencia stuartii ATCC
          25827]
          Length = 116

 Score = 67.5 bits (164), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 1/74 (1%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHI 62
          N K  N +   VG  ++  R+  G++  +L +  GI + QQ+ +YE+G+NR+G   L   
Sbjct: 9  NMKSTNSISKLVGFHLKKLRIQSGLTAFQLAKQAGIKSEQQLYRYERGINRIGIDELISS 68

Query: 63 SEVLESPISFFFDV 76
           +VL+  I  FF++
Sbjct: 69 LQVLDIDIGEFFEL 82


>gi|325677861|ref|ZP_08157503.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324110415|gb|EGC04589.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 180

 Score = 67.5 bits (164), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 33/70 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ IR  R   GM+QE L E +G++ Q V K+E G       +L  +S +L      
Sbjct: 1  MDIGENIRNARKKKGMTQEMLAEKMGVSRQAVSKWESGKGMPETEKLAELSALLGVSADR 60

Query: 73 FFDVSPTVCS 82
             + P    
Sbjct: 61 LIGIRPQEEQ 70


>gi|299820781|ref|ZP_07052670.1| XRE family transcriptional regulator [Listeria grayi DSM 20601]
 gi|299817802|gb|EFI85037.1| XRE family transcriptional regulator [Listeria grayi DSM 20601]
          Length = 111

 Score = 67.5 bits (164), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 26/111 (23%), Positives = 50/111 (45%), Gaps = 5/111 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +G +IR  R   G SQEKL + L  + Q V +YE G  +     L  ++++    +
Sbjct: 3   LNKYIGNKIRFFREENGYSQEKLAQLLRTSRQTVSRYENGDRKASQDVLYELAQLFGKSM 62

Query: 71  SFFF---DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
             FF   ++ P   + ++   +   D   T + L+    +I++     R K
Sbjct: 63  DDFFPPREIDPPNKNGLTIAAHIDDDV--TEEELRDILAYIEMKKRLHRGK 111


>gi|27381826|ref|NP_773355.1| transcriptional regulator [Bradyrhizobium japonicum USDA 110]
 gi|27354995|dbj|BAC51980.1| blr6715 [Bradyrhizobium japonicum USDA 110]
          Length = 210

 Score = 67.5 bits (164), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 25/108 (23%), Positives = 49/108 (45%), Gaps = 14/108 (12%)

Query: 3   GNKKIP-----NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           G K  P     + VD  +G+ +RL R   G+S + +    G++   + + E+        
Sbjct: 9   GPKDAPTIETDDAVDQRLGETVRLLRQRAGLSIQDVANKTGLSNGMISQLERARAMPSIR 68

Query: 58  RLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            L+ +S  L+ PIS+FF+         +++  +V  +I   +  +L R
Sbjct: 69  TLRLLSIALDVPISYFFE---------TTDPGDVQRYIVRKNSRRLLR 107


>gi|88858936|ref|ZP_01133577.1| Transcriptional regulator [Pseudoalteromonas tunicata D2]
 gi|88819162|gb|EAR28976.1| Transcriptional regulator [Pseudoalteromonas tunicata D2]
          Length = 119

 Score = 67.5 bits (164), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 27/122 (22%), Positives = 51/122 (41%), Gaps = 24/122 (19%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           ++R  R+   +SQ+ L + L I+ Q +Q +E+G N    +R+  ++E+L  P+ +     
Sbjct: 11  KLRKARLEKDLSQQNLADHLKISVQSIQHWERGANTPKLARMNQLAEILSVPVEYLM--- 67

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTIE 137
                 I S E   +   +     Q+ + F             +LV      +K   TIE
Sbjct: 68  ------IQSNETENVQHTAGKKIPQILKAFAA-----------DLVNC----DKSDETIE 106

Query: 138 EE 139
           + 
Sbjct: 107 QL 108


>gi|318057356|ref|ZP_07976079.1| hypothetical protein SSA3_05416 [Streptomyces sp. SA3_actG]
 gi|318075878|ref|ZP_07983210.1| hypothetical protein SSA3_03995 [Streptomyces sp. SA3_actF]
          Length = 388

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 36/68 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+   R + G+++ ++ + +G++   V +YE G NR     +  +++VL+ PI FF    
Sbjct: 29 RLTQARRLAGLTKREVADGIGVSAAAVGQYEAGTNRPRPELIPRLADVLDVPIQFFVAGR 88

Query: 78 PTVCSDIS 85
          P    D S
Sbjct: 89 PMGKVDSS 96


>gi|329930359|ref|ZP_08283948.1| methyltransferase domain protein [Paenibacillus sp. HGF5]
 gi|328935085|gb|EGG31571.1| methyltransferase domain protein [Paenibacillus sp. HGF5]
          Length = 272

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 32/113 (28%), Positives = 47/113 (41%), Gaps = 13/113 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           K I   R    ++QE L   LG+TFQ V K+E G      + L  +S +L+  I   F  
Sbjct: 7   KNINRYRKEQRLTQEGLAHKLGVTFQAVSKWETGQTMPDIALLPELSRLLDVSIDKLFGY 66

Query: 77  SPTVCSDISSEENNVMDFISTPD---GLQLNRYFIQ----IDDVKVRQKIIEL 122
           S T       EE        TP+   G + N    Q    I   K R +++++
Sbjct: 67  SSTGKPISIYEEEYK-----TPEYYWGTEPNAACYQVLEMIPPTK-RVRLLDI 113


>gi|154496775|ref|ZP_02035471.1| hypothetical protein BACCAP_01068 [Bacteroides capillosus ATCC
           29799]
 gi|150274027|gb|EDN01127.1| hypothetical protein BACCAP_01068 [Bacteroides capillosus ATCC
           29799]
          Length = 348

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 23/95 (24%), Positives = 42/95 (44%), Gaps = 1/95 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +I+  R+   ++QE L + L I+ Q V K+E G +      L  I+      I   F
Sbjct: 5   LGNKIKQLRLQKSVTQETLAKTLHISCQTVSKWENGTSMPDILLLPEIAVYFGCTIDDLF 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           D+S     +       + + +ST +  Q    F++
Sbjct: 65  DLSEQARFERIEHMLEMQEALSTEEFRQ-TEAFLK 98


>gi|167036463|ref|YP_001664041.1| XRE family transcriptional regulator [Thermoanaerobacter
           pseudethanolicus ATCC 33223]
 gi|320114889|ref|YP_004185048.1| helix-turn-helix domain-containing protein [Thermoanaerobacter
           brockii subsp. finnii Ako-1]
 gi|166855297|gb|ABY93705.1| transcriptional regulator, XRE family [Thermoanaerobacter
           pseudethanolicus ATCC 33223]
 gi|319927980|gb|ADV78665.1| helix-turn-helix domain protein [Thermoanaerobacter brockii subsp.
           finnii Ako-1]
          Length = 129

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 28/128 (21%), Positives = 53/128 (41%), Gaps = 8/128 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRI+  R   G++Q++L   LGI+ + V  YE G        LQ I++       +  
Sbjct: 2   LGKRIKELRKKKGITQKELASYLGISDRAVGYYESGQRTPPPDILQKIADFFNVSTDYLL 61

Query: 75  D-----VSPTVCSDISSEENNVMDFIST-PDGLQLNRYFIQID--DVKVRQKIIELVRSI 126
                       ++   ++  +++F     +   L   F Q      K  ++II ++++I
Sbjct: 62  GRTNIYNPADEITEAVFDDPELLEFWRELKEREDLKLLFKQTKKLSPKDIKQIIRIIKAI 121

Query: 127 VSSEKKYR 134
              E K  
Sbjct: 122 EDEEDKGE 129


>gi|138893994|ref|YP_001124447.1| hypothetical protein GTNG_0320 [Geobacillus thermodenitrificans
          NG80-2]
 gi|196250338|ref|ZP_03149031.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
 gi|134265507|gb|ABO65702.1| Conserved hypothetical protein [Geobacillus thermodenitrificans
          NG80-2]
 gi|196210227|gb|EDY04993.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
          Length = 260

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G+++   R   G+SQE L E L  T Q + K+E G       +L  I+ + E  I +
Sbjct: 1  MNFGEKLVKLRKEKGLSQEALAEKLNTTRQAISKWENGQGFPETEKLLMIANIFEVSIDY 60

Query: 73 FFDVSPTVCSD 83
              S     D
Sbjct: 61 LLKESAENNDD 71


>gi|240144293|ref|ZP_04742894.1| toxin-antitoxin system, antitoxin component, Xre family [Roseburia
           intestinalis L1-82]
 gi|257203709|gb|EEV01994.1| toxin-antitoxin system, antitoxin component, Xre family [Roseburia
           intestinalis L1-82]
          Length = 111

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 18/96 (18%), Positives = 42/96 (43%), Gaps = 5/96 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R+ +G+SQ+ L + L ++ Q + KYE   N      L+ ++++ +  + +    
Sbjct: 2   NRLKDLRLKMGLSQQALADKLNVSQQTICKYENNTNEPNIDMLEAMADIFDVSVDYL--- 58

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
                S  + +   V +     D L   + +  I+ 
Sbjct: 59  --IGYSSCAHKVEEVSETALNEDELAFLKKYRSINP 92


>gi|172041518|ref|YP_001801232.1| HTH family transcriptional regulator [Corynebacterium urealyticum
           DSM 7109]
 gi|171852822|emb|CAQ05798.1| putative transcriptional regulator (HTH_3 family) [Corynebacterium
           urealyticum DSM 7109]
          Length = 514

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 26/144 (18%), Positives = 55/144 (38%), Gaps = 17/144 (11%)

Query: 2   VGNKKIPNPVDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
             + + P+  +   VG R+R  R    +SQ +L   LG++   V + E     +  + LQ
Sbjct: 21  SQSPRTPDETNRNFVGSRLRQLRKERDISQAQLATTLGLSASYVNQIEHDQRPLTLAVLQ 80

Query: 61  HISEVLESPISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
            I+       +FF +           D+ ++ +     +   +  +L R+   I      
Sbjct: 81  KITRAFGVDATFFANEDSLRLLAEVQDVMADRDIWPTPVDVTELAELVRHHPAI------ 134

Query: 117 QKIIELVRSIVSSEKKYRTIEEEC 140
                  R++V    +YR + ++ 
Sbjct: 135 ------ARAMVDMHSRYRNVSDKL 152


>gi|213019902|ref|ZP_03335694.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212994511|gb|EEB55167.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 243

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 29/126 (23%), Positives = 59/126 (46%), Gaps = 13/126 (10%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK+I+  R++ G +Q+ L E +  T  ++  YE+G   +   +L  I+E L   I   
Sbjct: 100 QIGKKIKEWRLVRGYTQKDLAEKMSTTRDEISNYEQGRVAIPLEKLYAIAETLSINIMDL 159

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRSIVSSEKK 132
            +++      + +E  N            L   + +I+  ++R  +I+ L  SI   E+K
Sbjct: 160 LELTEDADDKVENELPN------------LIEEYKEIESQELRYALIKFLFESIQICEEK 207

Query: 133 YRTIEE 138
            + +E+
Sbjct: 208 VKRVEK 213


>gi|291540195|emb|CBL13306.1| Predicted transcriptional regulators [Roseburia intestinalis
          XB6B4]
          Length = 107

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 22/72 (30%), Positives = 37/72 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R +  M+Q++L +  GI    ++KYE G       +LQ I+E L   ++ F 
Sbjct: 7  IGSKIQKYRKLKDMTQDELSKQSGIYLSTIKKYESGERNPKPDQLQKIAEALGISVTVFL 66

Query: 75 DVSPTVCSDISS 86
          D      SD+ S
Sbjct: 67 DYDINTISDVLS 78


>gi|255067367|ref|ZP_05319222.1| HTH-type transcriptional regulator DicA [Neisseria sicca ATCC
          29256]
 gi|255048337|gb|EET43801.1| HTH-type transcriptional regulator DicA [Neisseria sicca ATCC
          29256]
          Length = 218

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 34/73 (46%), Gaps = 1/73 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          ++  +G+RIR +R     +Q++L + L  I+   + ++E    +  A  L  +S+VL   
Sbjct: 1  MNKTIGQRIRQKRKEFKWTQQELAKKLKDISHVAISQWESNTTKPNAENLYELSQVLGCD 60

Query: 70 ISFFFDVSPTVCS 82
          + +         +
Sbjct: 61 LGWLLKGEGEDTN 73


>gi|325695610|gb|EGD37510.1| transcriptional regulator [Streptococcus sanguinis SK150]
          Length = 228

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 17/120 (14%), Positives = 53/120 (44%), Gaps = 26/120 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q+ + + L I++Q    +E+GV      +++ + ++L  P  +F + 
Sbjct: 5   EKLKARRKELKLTQKDIADKLRISYQAYSAWERGVKEPSTEKVRLLEKLLNVPKGYFTE- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
                                   +++ R +  +     +++++   R +V+ E+  + +
Sbjct: 64  ------------------------IEIVRLYNTL-SPNGKEQVVSYARDLVTEEQNKKVL 98


>gi|332686910|ref|YP_004456684.1| repressor protein [Melissococcus plutonius ATCC 35311]
 gi|332370919|dbj|BAK21875.1| repressor protein [Melissococcus plutonius ATCC 35311]
          Length = 239

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 32/65 (49%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +   +G +I+  R    ++QE L + L  T Q + +YE G  +     L  +SE+ E  
Sbjct: 3  DLSKFIGNKIKEYRERRNLTQEDLADMLNTTRQSISRYETGERKANQDMLFKLSEIYEIS 62

Query: 70 ISFFF 74
          I+ FF
Sbjct: 63 INDFF 67


>gi|291537380|emb|CBL10492.1| Predicted transcriptional regulators [Roseburia intestinalis M50/1]
          Length = 110

 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 29/121 (23%), Positives = 54/121 (44%), Gaps = 22/121 (18%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           NP+D  +G RI+  R +  ++QE L E + ++   + + EKG+  +  + L  +S VL  
Sbjct: 2   NPID--LGVRIKQCRTMRKLTQENLAERIDVSSHYIYEIEKGLKNMSLNTLIDLSTVLNV 59

Query: 69  PISF--FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVR 124
              +  F   S T C+D   ++N           L L      I D   + R  + +++ 
Sbjct: 60  STDYLLFGTTSDTPCTDTIPQDN-----------LALL-----IKDLSPQKRDSLADIIS 103

Query: 125 S 125
           +
Sbjct: 104 A 104


>gi|330719160|ref|ZP_08313760.1| transcription regulator [Leuconostoc fallax KCTC 3537]
          Length = 134

 Score = 67.1 bits (163), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++  +I+  R+   ++Q++L + + ++ Q V K+E G N      +  +SE L   I 
Sbjct: 1  MHISNKIKQLRIENHLTQDQLAQKINVSRQSVLKWEAGTNYPNIENILALSEALNVSID 59


>gi|307126198|ref|YP_003878229.1| phage transcriptional repressor [Streptococcus pneumoniae 670-6B]
 gi|306483260|gb|ADM90129.1| phage transcriptional repressor [Streptococcus pneumoniae 670-6B]
 gi|321157139|emb|CBW39125.1| Putative phage repressor protein [Streptococcus phage 23782]
 gi|321157188|emb|CBW39173.1| Putative phage repressor protein [Streptococcus phage 11865]
          Length = 244

 Score = 67.1 bits (163), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 22/63 (34%), Positives = 37/63 (58%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          +NVG+RI+ RR  L MS ++L E +G++   + +YEKG + +VG   L+ I++ L     
Sbjct: 1  MNVGERIKQRRKALKMSADELAESVGVSRSTIFRYEKGDIEKVGPEVLKKIADKLNVSPG 60

Query: 72 FFF 74
             
Sbjct: 61 DLM 63


>gi|297242658|ref|ZP_06926596.1| hypothetical protein GVAMD_0670 [Gardnerella vaginalis AMD]
 gi|296888869|gb|EFH27603.1| hypothetical protein GVAMD_0670 [Gardnerella vaginalis AMD]
          Length = 214

 Score = 67.1 bits (163), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 27/94 (28%), Positives = 45/94 (47%), Gaps = 12/94 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G++IR  R+  G++QE+L E L ++   V K+E          L+ I+  L   + +
Sbjct: 5   ISLGEKIRKARLEAGLTQEELSELLMVSRAAVAKWETNRGLPDIENLKFIASALSVSVDY 64

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             D            ENN +DF  T   + LN+Y
Sbjct: 65  LLD------------ENNSVDFSITKKPINLNKY 86


>gi|291540762|emb|CBL13873.1| Predicted transcriptional regulators [Roseburia intestinalis XB6B4]
          Length = 111

 Score = 67.1 bits (163), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 18/96 (18%), Positives = 41/96 (42%), Gaps = 5/96 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R  +G+SQ+ L + L ++ Q + KYE   N      L+ ++++ +  + +    
Sbjct: 2   NRLKDLRREMGLSQQALADKLNVSQQTICKYENNTNEPNIDMLEAMADIFDVSVDYL--- 58

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
                S  + +   V +     D L   + +  I+ 
Sbjct: 59  --IGYSSYAHKVEEVSETALNEDELSFLKKYRSINP 92


>gi|126650379|ref|ZP_01722607.1| hypothetical protein BB14905_18535 [Bacillus sp. B14905]
 gi|126593029|gb|EAZ87011.1| hypothetical protein BB14905_18535 [Bacillus sp. B14905]
          Length = 182

 Score = 67.1 bits (163), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 30/61 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG +I+  R    MSQ+ L   + +T   + K E G        L  I+E+ + P+++
Sbjct: 4  LEVGVKIKQMRKKNKMSQDDLASQINLTKSHISKIENGKATPSLVTLSKIAEIFDVPMAW 63

Query: 73 F 73
          F
Sbjct: 64 F 64


>gi|260892586|ref|YP_003238683.1| helix-turn-helix domain protein [Ammonifex degensii KC4]
 gi|260864727|gb|ACX51833.1| helix-turn-helix domain protein [Ammonifex degensii KC4]
          Length = 349

 Score = 67.1 bits (163), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 34/61 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G RI+  R+  G+S   L E +G++ Q + KYE+G++  G+  L  ++E L     +
Sbjct: 9  RQIGLRIKEARLSRGLSLRALAEKVGVSAQAISKYERGLDIPGSGVLLRLAEALGVKWEY 68

Query: 73 F 73
          F
Sbjct: 69 F 69


>gi|853809|emb|CAA60798.1| unnamed protein product [Clostridium perfringens]
          Length = 265

 Score = 67.1 bits (163), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 4/88 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--- 73
           ++++L R   G+SQE L E LGI+ Q V K+E G +    ++L  +SE+    I +    
Sbjct: 5   EKLQLMRKREGLSQEDLAEKLGISRQAVSKWESGQSVPDLNKLIILSELYNVTIDYLVKE 64

Query: 74  -FDVSPTVCSDISSEENNVMDFISTPDG 100
            ++   +   +IS+      + +   + 
Sbjct: 65  TYEFEGSQEKEISNTGKQYGENLENKET 92


>gi|15894856|ref|NP_348205.1| transcriptional regulator [Clostridium acetobutylicum ATCC 824]
 gi|15024531|gb|AAK79545.1|AE007667_10 Predicted transcriptional regulator [Clostridium acetobutylicum
           ATCC 824]
 gi|325508994|gb|ADZ20630.1| transcriptional regulator [Clostridium acetobutylicum EA 2018]
          Length = 110

 Score = 67.1 bits (163), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 4/98 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R     +QE L E L ++   V K E G  ++    L  I + L    S+  
Sbjct: 8   IGDRIRNSRKSKNYTQENLAEYLDVSTVYVSKIECGKTKINLETLMKICKFLNITPSYIL 67

Query: 75  DVSPTVCSDISSEENNVMDFIST--PDGLQLNRYFIQI 110
             S T   +   ++N + D + T  P+ ++L    I++
Sbjct: 68  TGSTTDSENY--QKNEITDMLKTCPPEKIKLISSMIKL 103


>gi|218515232|ref|ZP_03512072.1| putative transcriptional regulator protein [Rhizobium etli 8C-3]
          Length = 238

 Score = 67.1 bits (163), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 42/97 (43%), Gaps = 9/97 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 45  NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 104

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P++ FF       + +         F+   +G++L R
Sbjct: 105 PLTAFFRRYEEPRNAV---------FVKAGEGVELER 132


>gi|66395390|ref|YP_239683.1| ORF020 [Staphylococcus phage 53]
 gi|62635740|gb|AAX90851.1| ORF020 [Staphylococcus phage 53]
          Length = 239

 Score = 67.1 bits (163), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 32/74 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G +IR  R  L ++Q++LGE L      +  YE G        L  I+ +L   I  
Sbjct: 8  KFIGNKIRYYRTKLNLTQDQLGEKLNTKKATISNYETGYRTPKQDDLFEIAHILNISIDD 67

Query: 73 FFDVSPTVCSDISS 86
           F       +DI+S
Sbjct: 68 LFPTRNNKKNDITS 81


>gi|300722701|ref|YP_003711991.1| putative DNA binding protein [Xenorhabdus nematophila ATCC 19061]
 gi|297629208|emb|CBJ89805.1| putative DNA binding protein [Xenorhabdus nematophila ATCC 19061]
          Length = 123

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 36/73 (49%), Gaps = 5/73 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          KR+   R  LG+SQ +LGE LG     +    + +YE+G+N    S +  I+ +L+ P  
Sbjct: 4  KRLSESRKALGLSQRELGEKLGLYDEDVAKATISRYERGLNAPAYSTVCQIANILKVPPC 63

Query: 72 FFFDVSPTVCSDI 84
          +F+         +
Sbjct: 64 YFYIDDDIFAEQV 76


>gi|218135227|ref|ZP_03464031.1| hypothetical protein BACPEC_03132 [Bacteroides pectinophilus ATCC
          43243]
 gi|217990612|gb|EEC56623.1| hypothetical protein BACPEC_03132 [Bacteroides pectinophilus ATCC
          43243]
          Length = 167

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 22/72 (30%), Positives = 37/72 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R +  M+Q++L +  GI    ++KYE G       +LQ I+E L   ++ F 
Sbjct: 7  IGSKIQKYRKLKDMTQDELSKQSGIYLSTIKKYESGERNPKPDQLQKIAEALGISVTVFL 66

Query: 75 DVSPTVCSDISS 86
          D      SD+ S
Sbjct: 67 DYDINTISDVLS 78


>gi|218508625|ref|ZP_03506503.1| putative transcriptional regulator protein [Rhizobium etli Brasil
           5]
          Length = 225

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 42/97 (43%), Gaps = 9/97 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 32  NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 91

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P++ FF       + +         F+   +G++L R
Sbjct: 92  PLTAFFRRYEEPRNAV---------FVKAGEGVELER 119


>gi|325680803|ref|ZP_08160341.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324107583|gb|EGC01861.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 217

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 25/77 (32%), Positives = 39/77 (50%), Gaps = 1/77 (1%)

Query: 1  MVGNKKIPNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M+G ++    +D I +GK I   R    M+Q +L E LGI+ + V K+E G     AS +
Sbjct: 6  MIGTERRIRRMDQIMIGKFIAACRKEKKMTQAQLAEKLGISDRAVSKWETGKCMPDASLM 65

Query: 60 QHISEVLESPISFFFDV 76
            + E L   I+  F+ 
Sbjct: 66 PELCEQLGISINDLFNG 82


>gi|66395312|ref|YP_239602.1| ORF019 [Staphylococcus phage 69]
 gi|66396425|ref|YP_240780.1| ORF019 [Staphylococcus phage 92]
 gi|151221206|ref|YP_001332028.1| phage cI-like repressor [Staphylococcus aureus subsp. aureus str.
          Newman]
 gi|257433183|ref|ZP_05609541.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus E1410]
 gi|296277282|ref|ZP_06859789.1| phage cI-like repressor [Staphylococcus aureus subsp. aureus MR1]
 gi|62635663|gb|AAX90774.1| ORF019 [Staphylococcus phage 69]
 gi|62636839|gb|AAX91950.1| ORF019 [Staphylococcus phage 92]
 gi|104641720|gb|ABF73098.1| cI-like repressor [Staphylococcus aureus phage phiNM2]
 gi|150374006|dbj|BAF67266.1| phage cI-like repressor [Staphylococcus aureus subsp. aureus str.
          Newman]
 gi|257281276|gb|EEV11413.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus E1410]
          Length = 239

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 32/74 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G +IR  R  L ++Q++LGE L      +  YE G        L  I+ +L   I  
Sbjct: 8  KFIGNKIRYYRTKLNLTQDQLGEKLNTKKATISNYETGYRTPKQDDLFEIAHILNISIDD 67

Query: 73 FFDVSPTVCSDISS 86
           F       +DI+S
Sbjct: 68 LFPTRNNKKNDITS 81


>gi|310828390|ref|YP_003960747.1| toxin-antitoxin system [Eubacterium limosum KIST612]
 gi|308740124|gb|ADO37784.1| toxin-antitoxin system [Eubacterium limosum KIST612]
          Length = 178

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 34/59 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R ++ +SQ  L + L  + + VQKYE G   +  + +  I++VL++  ++ 
Sbjct: 7  IGARIKESRKLMKLSQTDLADALNKSLRTVQKYESGEIELNIATINEIAKVLKTSPAYL 65


>gi|282882172|ref|ZP_06290811.1| phage related transcriptional regulator [Peptoniphilus lacrimalis
          315-B]
 gi|281297937|gb|EFA90394.1| phage related transcriptional regulator [Peptoniphilus lacrimalis
          315-B]
          Length = 235

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 38/67 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R++  ++ ++L E LG++   +QKYE G        +Q IS++L  PI+ 
Sbjct: 1  MTLGEKIRKYRILNNLTMKELSEKLGMSISAIQKYENGTVIPKTDIIQKISKILNVPINK 60

Query: 73 FFDVSPT 79
            + +  
Sbjct: 61 LLEETSA 67


>gi|288561750|ref|YP_003429156.1| transcriptional regulator XRE [Bacillus pseudofirmus OF4]
 gi|288548382|gb|ADC52264.1| transcriptional regulator, XRE [Bacillus pseudofirmus OF4]
          Length = 292

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 25/73 (34%), Positives = 39/73 (53%), Gaps = 1/73 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I+  R   G+SQ +L + +  T   +   EKG N V A  L  I+E L   I++FF
Sbjct: 6  IGKNIKDLREYYGISQRELAKGI-CTQPTISNIEKGENFVAAQLLHMIAERLGVDINYFF 64

Query: 75 DVSPTVCSDISSE 87
          +++ T   D  +E
Sbjct: 65 NIAETPKIDYMNE 77


>gi|257785038|ref|YP_003180255.1| transcriptional regulator, XRE family [Atopobium parvulum DSM
          20469]
 gi|257473545|gb|ACV51664.1| transcriptional regulator, XRE family [Atopobium parvulum DSM
          20469]
          Length = 235

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 36/82 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R+    +QE+L + L ++ Q V K+E  +N    S L  ++  L   +    
Sbjct: 8  LGRRIARLRLAKTATQERLAKELNVSPQAVSKWESDINYPDISLLPDLARFLGVSVDELL 67

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
            +     +  + +    + +S
Sbjct: 68 SGASAFAQESVAAQEGTAEVVS 89


>gi|229826230|ref|ZP_04452299.1| hypothetical protein GCWU000182_01602 [Abiotrophia defectiva ATCC
          49176]
 gi|229789100|gb|EEP25214.1| hypothetical protein GCWU000182_01602 [Abiotrophia defectiva ATCC
          49176]
          Length = 243

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 44/92 (47%), Gaps = 2/92 (2%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N ++  +G  I+  R    ++Q +L + +  +   + KYEKG   +  + L  I++VL+ 
Sbjct: 2  NNIESVLGNSIKKCRTNRHLTQMELAKLINKSNTTLAKYEKGEISIDVATLVEIAKVLQV 61

Query: 69 PISFFFDVSPTVCSDISSEENN--VMDFISTP 98
          P+ +F +         +  +++  +  F S+ 
Sbjct: 62 PLEYFIEAIKEKSEKTAPPQSDSIIPVFFSSK 93


>gi|29028568|ref|NP_803258.1| cI-like repressor [Staphylococcus phage 11]
 gi|57651248|ref|YP_185213.1| prophage L54a, repressor protein, putative [Staphylococcus aureus
          subsp. aureus COL]
 gi|66395526|ref|YP_239894.1| ORF018 [Staphylococcus phage 42E]
 gi|88195767|ref|YP_500576.1| phage repressor protein [Staphylococcus aureus subsp. aureus NCTC
          8325]
 gi|18920492|gb|AAL82233.1| cI-like repressor [Staphylococcus phage 11]
 gi|57285434|gb|AAW37528.1| prophage L54a, repressor protein, putative [Staphylococcus aureus
          subsp. aureus COL]
 gi|62636019|gb|AAX91130.1| ORF018 [Staphylococcus phage 42E]
 gi|87203325|gb|ABD31135.1| phage repressor protein, putative [Staphylococcus aureus subsp.
          aureus NCTC 8325]
 gi|315193399|gb|EFU23796.1| phage repressor protein, putative [Staphylococcus aureus subsp.
          aureus CGS00]
          Length = 239

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 32/74 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G +IR  R  L ++Q++LGE L      +  YE G        L  I+ +L   I  
Sbjct: 8  KFIGNKIRYYRTKLNLTQDQLGEKLNTKKATISNYETGYRTPKQDDLFEIAHILNISIDD 67

Query: 73 FFDVSPTVCSDISS 86
           F       +DI+S
Sbjct: 68 LFPTRNNKKNDITS 81


>gi|213019843|ref|ZP_03335645.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Culex quinquefasciatus JHB]
 gi|212994591|gb|EEB55237.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Culex quinquefasciatus JHB]
          Length = 328

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 31/122 (25%), Positives = 56/122 (45%), Gaps = 7/122 (5%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            V   +GK+I   R++ G +Q KL   +G+T +++  +E G   +       I+  L   
Sbjct: 23  SVSYELGKKIEGCRIVQGYTQAKLASKIGLTHKEIHNFELGCKAITIKESYIIAGALSVN 82

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           +       PTV  + S  E+         + + L +   +I D ++R+K+  LVR +  S
Sbjct: 83  VIDLLPG-PTVLRENSWYEDE------DKEIVYLTKIHREIKDQELRKKLYPLVRFVYIS 135

Query: 130 EK 131
           EK
Sbjct: 136 EK 137



 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 24/110 (21%), Positives = 47/110 (42%), Gaps = 9/110 (8%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +  +   + +   VGKRI+ +R+I   +QE L   +G T +++  YE+G   +    L  
Sbjct: 175 IEKEICTDSILYKVGKRIKEQRLIREYTQEDLANKIGSTPKEIHDYERGYTDIPIEILYK 234

Query: 62  ISEVLESPISFF----FDVSPTVCSDISSEENNVMDFIST-----PDGLQ 102
           I++ L   I       ++  P        E+    + + T      +G+Q
Sbjct: 235 IAKTLSVNIKALGLTEYENEPVFGFIGKCEKIEDQELLDTVARSLSEGMQ 284


>gi|313898798|ref|ZP_07832332.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956380|gb|EFR38014.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 206

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 25/88 (28%), Positives = 42/88 (47%), Gaps = 3/88 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL+   +  
Sbjct: 5   FLGNNIQTIRKYRGMKQQELADKIGINMQSLSKIERGLNYPAYDTLEKIMEVLDVTPN-- 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            ++       I+  E  V  F+ T + L
Sbjct: 63  -ELLSGEWKYINQAEKEVCQFLRTEERL 89


>gi|153810274|ref|ZP_01962942.1| hypothetical protein RUMOBE_00655 [Ruminococcus obeum ATCC 29174]
 gi|149833453|gb|EDM88534.1| hypothetical protein RUMOBE_00655 [Ruminococcus obeum ATCC 29174]
          Length = 124

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 24/84 (28%), Positives = 43/84 (51%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D+ + ++IR  R   G+SQE L E  GI    ++KYE G+ +    +L+ I++ LE  + 
Sbjct: 26  DMEINEKIRYFRKQRGLSQELLAERTGINVNTIRKYEIGIRKPKVEQLKKIADGLEISVI 85

Query: 72  FFFDVSPTVCSDISSEENNVMDFI 95
            F D+     +D+ +    +  F 
Sbjct: 86  EFLDIEIENEADLIAMLKKISPFF 109


>gi|213019782|ref|ZP_03335585.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Culex quinquefasciatus JHB]
 gi|212994612|gb|EEB55257.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Culex quinquefasciatus JHB]
          Length = 328

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 31/122 (25%), Positives = 56/122 (45%), Gaps = 7/122 (5%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            V   +GK+I   R++ G +Q KL   +G+T +++  +E G   +       I+  L   
Sbjct: 23  SVSYELGKKIEGCRIVQGYTQAKLASKIGLTHKEIHNFELGCKAITIKESYIIAGALSVN 82

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           +       PTV  + S  E+         + + L +   +I D ++R+K+  LVR +  S
Sbjct: 83  VIDLLPG-PTVLRENSWYEDE------DKEIVYLTKIHREIKDQELRKKLYPLVRFVYIS 135

Query: 130 EK 131
           EK
Sbjct: 136 EK 137



 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 24/110 (21%), Positives = 47/110 (42%), Gaps = 9/110 (8%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +  +   + +   VGKRI+ +R+I   +QE L   +G T +++  YE+G   +    L  
Sbjct: 175 IEKEICTDSILYKVGKRIKEQRLIREYTQEDLANKIGSTPKEIHDYERGYTDIPIEILYK 234

Query: 62  ISEVLESPISFF----FDVSPTVCSDISSEENNVMDFIST-----PDGLQ 102
           I++ L   I       ++  P        E+    + + T      +G+Q
Sbjct: 235 IAKTLSVNIKALGLTEYENEPVFGFIGKCEKIEDQELLDTVARSLSEGMQ 284


>gi|160873890|ref|YP_001553206.1| putative phage repressor [Shewanella baltica OS195]
 gi|160859412|gb|ABX47946.1| putative phage repressor [Shewanella baltica OS195]
          Length = 240

 Score = 67.1 bits (163), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 40/75 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+RIR +R  LG++Q+ LG  +G++   V ++EK       + L  +++ L+  +S+
Sbjct: 11 KTLGQRIREKRKELGITQKALGALVGVSAVAVTQWEKDETAPKGANLFALAKSLKCDLSW 70

Query: 73 FFDVSPTVCSDISSE 87
            +       + ++E
Sbjct: 71 LLNGQVAAKPESNAE 85


>gi|223984327|ref|ZP_03634469.1| hypothetical protein HOLDEFILI_01763 [Holdemania filiformis DSM
           12042]
 gi|223963684|gb|EEF68054.1| hypothetical protein HOLDEFILI_01763 [Holdemania filiformis DSM
           12042]
          Length = 647

 Score = 66.8 bits (162), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 17/102 (16%), Positives = 40/102 (39%), Gaps = 11/102 (10%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + I+ RR   G +QE+L +   ++ Q V K+E G +     +L+ ++      +      
Sbjct: 5   ENIQRRRKAAGWTQEQLAQKCAVSRQAVSKWEAGQSVPSLDKLRQLANCFGISVDELVQD 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            P      + +         +P  ++L++        + R+ 
Sbjct: 65  DPAAEPADAHQ-------TGSPSLVELDQA----RQTRQRRH 95


>gi|323693266|ref|ZP_08107484.1| HTH domain-containing protein [Clostridium symbiosum WAL-14673]
 gi|323502749|gb|EGB18593.1| HTH domain-containing protein [Clostridium symbiosum WAL-14673]
          Length = 151

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 20/62 (32%), Positives = 32/62 (51%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI  GK+IR  R   GM+QE+L   L +T Q +  +E+ V+    + L+ I  +    + 
Sbjct: 7  DITTGKQIRHLRTQSGMTQEELAGELNVTRQALSNWERDVSEPDLNTLKKICYLFGVHMD 66

Query: 72 FF 73
           F
Sbjct: 67 DF 68


>gi|315648384|ref|ZP_07901483.1| putative transcriptional regulator [Paenibacillus vortex V453]
 gi|315276078|gb|EFU39424.1| putative transcriptional regulator [Paenibacillus vortex V453]
          Length = 420

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 30/59 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G  I   R  LGM+QE+L   LG+++Q V K+E G        +  +++V  + I   F
Sbjct: 9  GNNIVRLRKQLGMTQEQLANGLGVSYQAVSKWENGQTCPDIIHIPLLADVFGTTIDEIF 67


>gi|327191632|gb|EGE58643.1| putative transcriptional regulator protein [Rhizobium etli
           CNPAF512]
          Length = 225

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 42/97 (43%), Gaps = 9/97 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 32  NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 91

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P++ FF       + +         F+   +G++L R
Sbjct: 92  PLTAFFRRYEEPRNAV---------FVKAGEGVELER 119


>gi|282599891|ref|ZP_05972255.2| transcriptional regulator [Providencia rustigianii DSM 4541]
 gi|282567526|gb|EFB73061.1| transcriptional regulator [Providencia rustigianii DSM 4541]
          Length = 96

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 2/74 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  N+K P  +   VG++++  R   G +  +L     I+ QQ+ +YE+GVNR+    L 
Sbjct: 1  MFMNRKFP--IAYAVGQKVKSLRKSQGYTVFQLARECNISEQQLFRYERGVNRIDIDCLA 58

Query: 61 HISEVLESPISFFF 74
           +S++L   IS  F
Sbjct: 59 RVSKILNVNISDIF 72


>gi|317490116|ref|ZP_07948605.1| hypothetical protein HMPREF1023_02305 [Eggerthella sp. 1_3_56FAA]
 gi|325833610|ref|ZP_08166059.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|316910821|gb|EFV32441.1| hypothetical protein HMPREF1023_02305 [Eggerthella sp. 1_3_56FAA]
 gi|325485534|gb|EGC88003.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 380

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 39/80 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ + +R+  RR   G+SQE L   LG++ Q V K+E+  +      L  ++++    +
Sbjct: 1  MNVEIAQRLAERRKQAGLSQEALAARLGVSRQAVSKWERSESSPDTDNLIALAQLYGLSL 60

Query: 71 SFFFDVSPTVCSDISSEENN 90
               V   +  D++ E  +
Sbjct: 61 DDLLYVDEEIRDDVTFEAAD 80


>gi|282909328|ref|ZP_06317144.1| repressor [Staphylococcus aureus subsp. aureus WW2703/97]
 gi|283958772|ref|ZP_06376218.1| putative prophage L54a, repressor protein [Staphylococcus aureus
          subsp. aureus A017934/97]
 gi|282326896|gb|EFB57193.1| repressor [Staphylococcus aureus subsp. aureus WW2703/97]
 gi|283789812|gb|EFC28634.1| putative prophage L54a, repressor protein [Staphylococcus aureus
          subsp. aureus A017934/97]
          Length = 239

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 32/74 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G +IR  R  L ++Q++LGE L      +  YE G        L  I+ +L   I  
Sbjct: 8  KFIGNKIRYYRTKLNLTQDQLGEKLNTKKATISNYETGYRTPKQDDLFEIAHILNISIDD 67

Query: 73 FFDVSPTVCSDISS 86
           F       +DI+S
Sbjct: 68 LFPTRNNKKNDITS 81


>gi|257792196|ref|YP_003182802.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|257476093|gb|ACV56413.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
          Length = 380

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 39/80 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ + +R+  RR   G+SQE L   LG++ Q V K+E+  +      L  ++++    +
Sbjct: 1  MNVEIAQRLAERRKQAGLSQEALAARLGVSRQAVSKWERSESSPDTDNLIALAQLYGLSL 60

Query: 71 SFFFDVSPTVCSDISSEENN 90
               V   +  D++ E  +
Sbjct: 61 DDLLYVDEEIRDDVTFEAAD 80


>gi|295098436|emb|CBK87526.1| Helix-turn-helix [Enterobacter cloacae subsp. cloacae NCTC 9394]
          Length = 102

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 23/81 (28%), Positives = 46/81 (56%), Gaps = 4/81 (4%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQH 61
          K  NP +    +R++  R+ + +SQ+ LG   GI       ++ +YEKGV++     ++H
Sbjct: 2  KTSNPHNQLFSRRLKEVRLDMALSQKSLGILAGIDEFAASARINRYEKGVHQASIEVVRH 61

Query: 62 ISEVLESPISFFFDVSPTVCS 82
          +++VLE P+++F+     + S
Sbjct: 62 LAKVLEVPVAYFYTEDDELAS 82


>gi|190895653|ref|YP_001985945.1| transcriptional regulator [Rhizobium etli CIAT 652]
 gi|190699598|gb|ACE93682.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 231

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 42/97 (43%), Gaps = 9/97 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 34  NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 93

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P++ FF       + +         F+   +G++L R
Sbjct: 94  PLTAFFRRYEEPRNAV---------FVKAGEGVELER 121


>gi|170722756|ref|YP_001750444.1| XRE family transcriptional regulator [Pseudomonas putida W619]
 gi|169760759|gb|ACA74075.1| transcriptional regulator, XRE family [Pseudomonas putida W619]
          Length = 76

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 33/71 (46%), Gaps = 1/71 (1%)

Query: 8  PNPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          P+P   +  G RIR  R+ +GMSQE   +  G     + + E G      + ++ +++ L
Sbjct: 6  PSPALQHQFGTRIRELRVAMGMSQEAFADRCGFARTYMSRIETGGANPSINAIKVLADAL 65

Query: 67 ESPISFFFDVS 77
             IS  F+  
Sbjct: 66 GVSISALFEGM 76


>gi|319936228|ref|ZP_08010648.1| HTH domain-containing protein [Coprobacillus sp. 29_1]
 gi|319808802|gb|EFW05335.1| HTH domain-containing protein [Coprobacillus sp. 29_1]
          Length = 151

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 23/78 (29%), Positives = 35/78 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI  GK+IR  R   GM+QE+L   L +T Q +  +E+ VN    + L+ I  +    + 
Sbjct: 7  DITTGKQIRHLRTQAGMTQEELARELNVTRQALSNWERDVNEPDLNMLKKICFLFGVYMD 66

Query: 72 FFFDVSPTVCSDISSEEN 89
           F     T       +E 
Sbjct: 67 DFAKGVITKMETYEKKEK 84


>gi|260589352|ref|ZP_05855265.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
          hansenii DSM 20583]
 gi|260540433|gb|EEX21002.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
          hansenii DSM 20583]
          Length = 203

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 27/101 (26%), Positives = 48/101 (47%), Gaps = 5/101 (4%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M+ N+K+ N     +G RIR  R   G++Q +L   LG + + +QKYE G   V  + L 
Sbjct: 1  MMSNEKLHNN---QIGLRIRTARKEKGINQTELANLLGKSLRTIQKYESGEIEVSIAMLN 57

Query: 61 HISEVLESPISFF--FDVSPTVCSDISSEENNVMDFISTPD 99
           I++VL+   ++   +D       ++S   N +       +
Sbjct: 58 EIAKVLDCESTYLIGYDAERKPLENLSDIMNFLFQLDKIKE 98


>gi|237733521|ref|ZP_04564002.1| conserved hypothetical protein [Mollicutes bacterium D7]
 gi|229383354|gb|EEO33445.1| conserved hypothetical protein [Coprobacillus sp. D7]
          Length = 211

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 3/88 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL+   +  
Sbjct: 10  HLGNNIQTIRKFRGMKQQELADKIGINMQSLSKIERGLNYPAYETLEKIMEVLDVTPN-- 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            ++       I+  E  V  F+   + L
Sbjct: 68  -ELLSGEWKYINQSEKEVCQFLRAEERL 94


>gi|212711722|ref|ZP_03319850.1| hypothetical protein PROVALCAL_02797 [Providencia alcalifaciens
          DSM 30120]
 gi|212685824|gb|EEB45352.1| hypothetical protein PROVALCAL_02797 [Providencia alcalifaciens
          DSM 30120]
          Length = 94

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 22/65 (33%), Positives = 37/65 (56%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          PV   VG++I+  R   G +  +L     I+ QQ+ +YE+GVNR+    L  ++++L+  
Sbjct: 6  PVAYAVGQKIKSLRKSQGYTVFQLARECNISEQQLFRYERGVNRIDIDCLARVTKILDVN 65

Query: 70 ISFFF 74
          IS  F
Sbjct: 66 ISDIF 70


>gi|169351319|ref|ZP_02868257.1| hypothetical protein CLOSPI_02099 [Clostridium spiroforme DSM 1552]
 gi|169291541|gb|EDS73674.1| hypothetical protein CLOSPI_02099 [Clostridium spiroforme DSM 1552]
          Length = 212

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 23/88 (26%), Positives = 42/88 (47%), Gaps = 3/88 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL+   +  
Sbjct: 10  HLGNNIQTIRKFRGMKQQELADKIGINMQSLSKIERGLNYPAYETLEKIMEVLDVTPN-- 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            ++       ++  E  V  F+   + L
Sbjct: 68  -ELLSGEWKYVNQSEKEVCKFLRAEERL 94


>gi|118445169|ref|YP_879281.1| MerR family transcriptional regulator [Clostridium novyi NT]
 gi|118135625|gb|ABK62669.1| Transcriptional regulator, MerR family [Clostridium novyi NT]
          Length = 147

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 23/82 (28%), Positives = 38/82 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NVG+ IR  R   G++Q +L E   +    +Q+YEKG  +     L+ I++ L  P+  
Sbjct: 1  MNVGENIRKYRKEKGLTQSELAEKTHLATNTIQRYEKGHRQPTMQVLEKIADALGIPVYR 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
                     I   EN + +F
Sbjct: 61 LTFNDEESLKAIEKAENILKNF 82


>gi|315266122|gb|ADT92975.1| putative phage repressor [Shewanella baltica OS678]
          Length = 240

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 41/75 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+RIR +R  LG++Q+ LG  +G++   V ++EK       + L  +++ L+  +S+
Sbjct: 11 KTLGQRIREKRKELGITQKALGALVGVSAVAVTQWEKDETAPKGANLFALAKSLKCDLSW 70

Query: 73 FFDVSPTVCSDISSE 87
            +    V  + ++E
Sbjct: 71 LLNGQVAVKPESNAE 85


>gi|332798069|ref|YP_004459568.1| helix-turn-helix domain-containing protein [Tepidanaerobacter sp.
           Re1]
 gi|332695804|gb|AEE90261.1| helix-turn-helix domain protein [Tepidanaerobacter sp. Re1]
          Length = 190

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 41/86 (47%), Gaps = 1/86 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFFFD 75
            RI+  R    M+ ++L E   IT   + + E+G+     + ++ I+  L+ P+  FF +
Sbjct: 13  SRIKKFRKAKKMTIKELAEKANITSSMLSQIERGLANPSINTMKLIANALDVPLFKFFME 72

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL 101
               + S + + EN    ++   +G+
Sbjct: 73  EEDDIRSQVVTPENRRRVYLPDSNGV 98


>gi|313887742|ref|ZP_07821424.1| DNA-binding helix-turn-helix protein [Peptoniphilus harei
          ACS-146-V-Sch2b]
 gi|312846351|gb|EFR33730.1| DNA-binding helix-turn-helix protein [Peptoniphilus harei
          ACS-146-V-Sch2b]
          Length = 185

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 33/58 (56%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G++I+ +R  L +SQE L + L +T Q + K+E        + L+ +SEV    +++F
Sbjct: 6  GEKIKSKRRELNLSQEDLADKLFVTRQAISKWENDKATPTMTNLRELSEVFGVDMAYF 63


>gi|209808837|ref|YP_002274408.1| Cro/CI family transcriptional regulator [Enterococcus faecium]
 gi|257880760|ref|ZP_05660413.1| conserved hypothetical protein [Enterococcus faecium 1,230,933]
 gi|257892130|ref|ZP_05671783.1| predicted protein [Enterococcus faecium 1,231,410]
 gi|257895014|ref|ZP_05674667.1| transcriptional regulator [Enterococcus faecium 1,231,408]
 gi|260562584|ref|ZP_05833092.1| CRO/CI family transcriptional regulator [Enterococcus faecium C68]
 gi|209528674|dbj|BAG74975.1| Cro/CI family transcriptional regulator [Enterococcus faecium]
 gi|257814988|gb|EEV43746.1| conserved hypothetical protein [Enterococcus faecium 1,230,933]
 gi|257828490|gb|EEV55116.1| predicted protein [Enterococcus faecium 1,231,410]
 gi|257831393|gb|EEV58000.1| transcriptional regulator [Enterococcus faecium 1,231,408]
 gi|260073094|gb|EEW61441.1| CRO/CI family transcriptional regulator [Enterococcus faecium C68]
          Length = 460

 Score = 66.8 bits (162), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 20/111 (18%), Positives = 45/111 (40%), Gaps = 5/111 (4%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++N+G  I+  R    M+Q    E +G++   +   E   +      L+ I+  L+ PI 
Sbjct: 203 NLNIGNNIKNIRKSKNMTQTDFAELMGLSRSYIGDLENNRSNPSIKTLEAIARALDVPIV 262

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
              + S T       E     + +   +  +L     + +   +R+++ E+
Sbjct: 263 ALINDSSTDNIVEPYESLTAENILLKQENEEL-----KYEVESLRKRLYEI 308



 Score = 48.3 bits (114), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 22/62 (35%), Positives = 30/62 (48%), Gaps = 3/62 (4%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQH 61
             K IPN  D  V KRI+  R  LGM+ E+ G  L  +    +  +E G N     +LQ 
Sbjct: 316 AEKMIPNLKD--VSKRIKYIRKKLGMTMEQFGSHLSNSPKSTIATWESGRNIPSQKKLQL 373

Query: 62  IS 63
           I+
Sbjct: 374 IA 375



 Score = 35.6 bits (81), Expect = 2.7,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 29/57 (50%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +RIR      G++ E+ G+ +G T    V  + +GV+    +RL  I+ +  + + +
Sbjct: 10 ERIRKIIESKGLTLERFGDLIGDTPISSVNNWLRGVSLPNKNRLLTIANIGNTSVDW 66


>gi|225026540|ref|ZP_03715732.1| hypothetical protein EUBHAL_00789 [Eubacterium hallii DSM 3353]
 gi|224956154|gb|EEG37363.1| hypothetical protein EUBHAL_00789 [Eubacterium hallii DSM 3353]
          Length = 177

 Score = 66.8 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 25/72 (34%), Positives = 36/72 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK+IR  R   G SQ +L E  GI    ++KYE G+      +L+ I+  L   +S F 
Sbjct: 2  VGKKIRAYREFRGFSQIQLAELSGINVGTIRKYELGIRNPKPEQLEKIAAALGLNVSIFL 61

Query: 75 DVSPTVCSDISS 86
          D +     D+ S
Sbjct: 62 DFNIETVGDVLS 73


>gi|15485441|emb|CAC67535.1| hypothetical transcriptional regulator [Streptococcus thermophilus]
          Length = 232

 Score = 66.8 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 19/120 (15%), Positives = 54/120 (45%), Gaps = 26/120 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q+ + + LGI++Q    +E+G+      ++  + ++L+    +F + 
Sbjct: 5   EKLKARRKELKLTQKDIADQLGISYQAYSAWERGIKEPSKEKVNRLEQLLKVSKGYFTE- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
                                   +++ R +  + + K + +++E  R +V  EK  + +
Sbjct: 64  ------------------------IEIVRLYNTLSN-KGKNQVVEYARDLVQKEKTRQVM 98


>gi|321272294|gb|ADW80179.1| putative transcriptional regulator [Wolbachia endosymbiont wVitA of
           Nasonia vitripennis phage WOVitA1]
          Length = 325

 Score = 66.8 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 30/122 (24%), Positives = 56/122 (45%), Gaps = 7/122 (5%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            V+  +GK+I   R++ G +Q KL   +G+T +++  +E G   +       I+  L   
Sbjct: 23  SVNYELGKKIEGCRIVQGYTQAKLASKIGLTHKEIHNFELGCKAITIKESYIIAGALSVN 82

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           +       PTV  +    E+         + + L +   +I D ++R+K+  LVR +  S
Sbjct: 83  VVDLLPG-PTVLRENGWYEDE------DKEIVYLTKIHREIKDQELRKKLYPLVRFVYIS 135

Query: 130 EK 131
           EK
Sbjct: 136 EK 137



 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 35/69 (50%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +  +   + +   VGKRI+ +R+I   +QE L   +G T +++  YE+G   +    L  
Sbjct: 175 IEKEICTDSILYKVGKRIKEQRLIREYTQEDLANKIGSTPKEIHDYERGYTDIPIEILYK 234

Query: 62  ISEVLESPI 70
           I++ L   I
Sbjct: 235 IAKTLSVNI 243


>gi|319746123|gb|EFV98396.1| prophage Sa05 protein [Streptococcus agalactiae ATCC 13813]
          Length = 164

 Score = 66.8 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 17/97 (17%), Positives = 43/97 (44%), Gaps = 11/97 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R   G++Q+ L + +G+ F+ +Q +E G   + + + Q +++     + +    
Sbjct: 2   NRLKELRKEKGLTQQGLADDIGVHFRTLQNWENGKADIKSDKAQALADYFNVSVGYLLGY 61

Query: 77  SPTVCSDISSEENNVMD-----------FISTPDGLQ 102
           S  +   I    N + D           F++ P+ ++
Sbjct: 62  SDDLDLFIHGNLNELEDLPTVKVITNLHFLTNPEEIE 98


>gi|227357914|ref|ZP_03842260.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|227161887|gb|EEI46911.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 94

 Score = 66.8 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 3/72 (4%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            + K  +     +GK IR +R  +G++ E L + L ++ QQV +YE   +++   +L  
Sbjct: 11 TYDTKAIH---QYLGKEIRSKRKAIGLTGEDLAKKLNVSQQQVSRYETAESKISFEKLLL 67

Query: 62 ISEVLESPISFF 73
          IS+VL+  I + 
Sbjct: 68 ISDVLDLNIQYL 79


>gi|239624744|ref|ZP_04667775.1| DNA-binding protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239521130|gb|EEQ60996.1| DNA-binding protein [Clostridiales bacterium 1_7_47FAA]
          Length = 183

 Score = 66.8 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 31/109 (28%), Positives = 49/109 (44%), Gaps = 8/109 (7%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           DIN+GK+++  R   GMS  +L +  G+T   + + E+ +       L+ I++ L+ P+ 
Sbjct: 3   DINLGKKVQDFRNKSGMSLRELAKRSGLTASMLSQIERDLVNPSIGTLKAIAQALDVPMF 62

Query: 72  FFF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
            FF D  P V   +   EN     I  PD   L      +    VR  I
Sbjct: 63  KFFKDDEPQVQMIVRRGENKT---IGHPDA-DLA---YTLLTPDVRGSI 104


>gi|302387287|ref|YP_003823109.1| transcriptional regulator, XRE family [Clostridium saccharolyticum
           WM1]
 gi|302197915|gb|ADL05486.1| transcriptional regulator, XRE family [Clostridium saccharolyticum
           WM1]
          Length = 331

 Score = 66.8 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 21/100 (21%), Positives = 46/100 (46%), Gaps = 3/100 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + ++I   R  +G SQE+L   +G++ Q V K+E G +     R+  +S+V      +
Sbjct: 1   MILAEKITALRKKVGWSQEELAYQMGVSRQSVSKWESGTSIPDLERILKLSQVFGVSTDY 60

Query: 73  FF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
              +   T  + ++ E +   ++      L+    F++I 
Sbjct: 61  LLKEEIETAPTAVTQESDRDEEYKMVS--LETANEFMEIK 98


>gi|139438180|ref|ZP_01771733.1| Hypothetical protein COLAER_00721 [Collinsella aerofaciens ATCC
           25986]
 gi|133776377|gb|EBA40197.1| Hypothetical protein COLAER_00721 [Collinsella aerofaciens ATCC
           25986]
          Length = 137

 Score = 66.8 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 28/97 (28%), Positives = 47/97 (48%), Gaps = 5/97 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG+ IR  R + GM+Q +L E +G+T   V+ YE G+  V    L+ I+  L   ++ 
Sbjct: 1   MSVGENIRRYRKLRGMTQAQLAEAVGLTEGAVRHYESGIRAVKPELLESIAAALGVSVNA 60

Query: 73  FFDVSPTVCSDISS-----EENNVMDFISTPDGLQLN 104
             D       D+ S     E++  +   +   GL LN
Sbjct: 61  LKDYGVETAGDLMSLLVRLEDSFGIVPAADGSGLSLN 97


>gi|94967298|ref|YP_589346.1| XRE family transcriptional regulator [Candidatus Koribacter
           versatilis Ellin345]
 gi|94549348|gb|ABF39272.1| transcriptional regulator, XRE family [Candidatus Koribacter
           versatilis Ellin345]
          Length = 118

 Score = 66.8 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 25/119 (21%), Positives = 54/119 (45%), Gaps = 8/119 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G+ IR  R+  GMSQ  + +  G+    + + E G        L  I+  ++  ++ 
Sbjct: 1   MNIGETIRNFRLQKGMSQGDIEKRTGLLRCYLSRVENGHTIPSLDTLAKIASAMDVALAT 60

Query: 73  FFDVSPTVCSDISSEE--NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           FF  +P      SS +  + V+ F++        R +    +   R+ ++ +V+ + +S
Sbjct: 61  FFSDAPADNGTKSSPQVSDEVLRFLNQ------IRRYSSGLNDSDRRLVLTMVKKMAAS 113


>gi|309777464|ref|ZP_07672419.1| toxin-antitoxin system, antitoxin component, Xre family
           [Erysipelotrichaceae bacterium 3_1_53]
 gi|308914778|gb|EFP60563.1| toxin-antitoxin system, antitoxin component, Xre family
           [Erysipelotrichaceae bacterium 3_1_53]
          Length = 118

 Score = 66.8 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 51/110 (46%), Gaps = 4/110 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G +I+  R   G+SQ++L   +GI+   +   EK  +     +LQ +  VL     +
Sbjct: 7   MHIGGKIKDLRKQRGLSQKELASSIGISASFLSDIEKERSNPSFDKLQRLCVVLNVQPGY 66

Query: 73  FF--DVSPTVCSDISSEENNVMDFISTPDGLQLNR--YFIQIDDVKVRQK 118
           F   + + +  + + +E   +M  + T D   L     ++++  +  R K
Sbjct: 67  FLSHENTYSEYNSLYTEIMKLMKCVETWDEADLLELYNYLKVKTITQRNK 116


>gi|291326603|ref|ZP_06125112.2| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291313684|gb|EFE54137.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 121

 Score = 66.8 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 22/74 (29%), Positives = 35/74 (47%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   K     +   VGK ++  R  LG+S E + + LGI+ QQ+ +YE+G N +    L 
Sbjct: 9  MKKKKDTTYYISQLVGKCLQEYRQELGISGENIAKELGISQQQLSRYERGENALTVDVLF 68

Query: 61 HISEVLESPISFFF 74
              +L      F+
Sbjct: 69 KFILILGINFPDFY 82


>gi|154499775|ref|ZP_02037813.1| hypothetical protein BACCAP_03432 [Bacteroides capillosus ATCC
          29799]
 gi|150271373|gb|EDM98630.1| hypothetical protein BACCAP_03432 [Bacteroides capillosus ATCC
          29799]
          Length = 267

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 37/79 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R   G+SQE L E + +T Q + K+E G +      +  +S++      +
Sbjct: 1  MTLGEKIQKLRKQRGLSQEALAEKVTVTRQTISKWELGQSLPDLDFIAQLSDIFNVSSDY 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                T   ++  ++ N 
Sbjct: 61 LIKDEMTEPDELPYKKRNY 79


>gi|320546716|ref|ZP_08041027.1| transcriptional regulator [Streptococcus equinus ATCC 9812]
 gi|320448595|gb|EFW89327.1| transcriptional regulator [Streptococcus equinus ATCC 9812]
          Length = 228

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 21/86 (24%), Positives = 44/86 (51%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR+ LG+ Q +L + LGI+ Q    +EKG ++   + L  + E+L+ P  +F ++
Sbjct: 5   EKLKNRRLELGLKQTELAKQLGISKQSYFAWEKGTSQPTKANLLKLEELLQVPHGYFSEL 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ 102
                    +++N         D L+
Sbjct: 65  EIATLYKQLTDQNQEHALTYVRDLLE 90


>gi|228926912|ref|ZP_04089978.1| Transcriptional regulator [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|228936979|ref|ZP_04099721.1| Transcriptional regulator [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|228822694|gb|EEM68584.1| Transcriptional regulator [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|228832647|gb|EEM78218.1| Transcriptional regulator [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
          Length = 118

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 41/85 (48%), Gaps = 4/85 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R    + QE+LG+ +G++ Q + KYEKG        ++ +++    P+ +  
Sbjct: 4  IGERIFELRKEKKLVQEELGKYIGVSKQTISKYEKGTKIPSRENIEKLADFFSVPVDYLL 63

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            S +     +   NN+ +   + +
Sbjct: 64 GKSDS----TNKSSNNIKEIFESDE 84


>gi|291548332|emb|CBL21440.1| Predicted transcriptional regulators [Ruminococcus sp. SR1/5]
          Length = 242

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 33/76 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG++IR  R    M+ + L + +  +   + KYE G   V    L  IS++L+  +S  
Sbjct: 7  YVGEQIRKYRKAGKMTLQDLADAIHKSRATICKYENGDISVDIETLYEISQILQVSMSQL 66

Query: 74 FDVSPTVCSDISSEEN 89
              P    + S+   
Sbjct: 67 TTGLPETAIEPSNAPG 82


>gi|212711620|ref|ZP_03319748.1| hypothetical protein PROVALCAL_02695 [Providencia alcalifaciens DSM
           30120]
 gi|212685722|gb|EEB45250.1| hypothetical protein PROVALCAL_02695 [Providencia alcalifaciens DSM
           30120]
          Length = 107

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 31/91 (34%), Positives = 46/91 (50%), Gaps = 6/91 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI---- 70
           VG RIR  R    MS ++L + LGI+ Q   ++E G  R+    L  ISE+LE  I    
Sbjct: 10  VGARIRTLRKDRNMSIQQLSKLLGISQQHQSRHELGEMRIHVDTLYSISEILELDIQELM 69

Query: 71  SFFFDVSPTVCSDISSEENN--VMDFISTPD 99
           S F D     C+    E++N  V + + +P+
Sbjct: 70  SDFIDSYSCTCTSDKKEKDNLLVAELLLSPE 100


>gi|293400018|ref|ZP_06644164.1| toxin-antitoxin system, antitoxin component, Xre family
           [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291306418|gb|EFE47661.1| toxin-antitoxin system, antitoxin component, Xre family
           [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 108

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 27/106 (25%), Positives = 56/106 (52%), Gaps = 8/106 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
           +G+RIR  R    M+ ++L + +G + Q +Q+YE G +N + + +++ I+ +L +  +F 
Sbjct: 4   IGERIRTARKKQNMTLDELAKKVGTSKQTIQRYETGIINNIPSDKIKAIAAILCTTPAFL 63

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ--IDDVKVRQ 117
                T  S I++  N  +D ++   GL   + +I   +   K R+
Sbjct: 64  --TGWTEKSPITTLSN--IDLLNDK-GLAKVQEYINDLLLSDKYRK 104


>gi|317501524|ref|ZP_07959721.1| hypothetical protein HMPREF1026_01665 [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|316897079|gb|EFV19153.1| hypothetical protein HMPREF1026_01665 [Lachnospiraceae bacterium
           8_1_57FAA]
          Length = 211

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 27/101 (26%), Positives = 45/101 (44%), Gaps = 7/101 (6%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  + K  N     +G+ I+  R    M Q++L + +GI  Q + K E+GVN      L+
Sbjct: 1   MEHDTKKIN----FLGENIQTIRKHRKMKQQELADAIGINMQSLSKIERGVNYPTFDTLE 56

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
            I +VLE   +   ++       +   E  V  F+ T + L
Sbjct: 57  KIMDVLEVTPN---ELLSGEWKFVQQAEKEVNQFLRTEERL 94


>gi|291525583|emb|CBK91170.1| Predicted transcriptional regulators [Eubacterium rectale DSM
          17629]
 gi|291528262|emb|CBK93848.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
          Length = 167

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 22/72 (30%), Positives = 37/72 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R +  M+Q++L +  GI    ++KYE G       +LQ I+E L   ++ F 
Sbjct: 7  IGSKIQKYRKLKDMTQDELSKQSGIYLSTIKKYESGERNPKPDQLQKIAEALGISVTVFL 66

Query: 75 DVSPTVCSDISS 86
          D      SD+ S
Sbjct: 67 DYDINTVSDVLS 78


>gi|262282005|ref|ZP_06059774.1| conserved hypothetical protein [Streptococcus sp. 2_1_36FAA]
 gi|262262459|gb|EEY81156.1| conserved hypothetical protein [Streptococcus sp. 2_1_36FAA]
          Length = 190

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 32/56 (57%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I+  R+  GM+Q++L + +G+T Q +  YEKG       RL+ I++ L+  +   F
Sbjct: 18 IKSARLKAGMTQKELAKIIGVTKQTIINYEKGTTDPSWERLEDIAKALKVDVDALF 73


>gi|257883596|ref|ZP_05663249.1| conserved hypothetical protein [Enterococcus faecium 1,231,502]
 gi|257819254|gb|EEV46582.1| conserved hypothetical protein [Enterococcus faecium 1,231,502]
          Length = 383

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 20/111 (18%), Positives = 45/111 (40%), Gaps = 5/111 (4%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++N+G  I+  R    M+Q    E +G++   +   E   +      L+ I+  L+ PI 
Sbjct: 126 NLNIGNNIKNIRKSKNMTQTDFAELMGLSRSYIGDLENNRSNPSIKTLEAIARALDVPIV 185

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
              + S T       E     + +   +  +L     + +   +R+++ E+
Sbjct: 186 ALINDSSTDNIVEPYESLTAENILLKQENEEL-----KYEVESLRKRLYEI 231



 Score = 47.9 bits (113), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 22/62 (35%), Positives = 30/62 (48%), Gaps = 3/62 (4%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQH 61
             K IPN  D  V KRI+  R  LGM+ E+ G  L  +    +  +E G N     +LQ 
Sbjct: 239 AEKMIPNLKD--VSKRIKYIRKKLGMTMEQFGSHLSNSPKSTIATWESGRNIPSQKKLQL 296

Query: 62  IS 63
           I+
Sbjct: 297 IA 298


>gi|295693589|ref|YP_003602199.1| transcriptional regulator [Lactobacillus crispatus ST1]
 gi|295031695|emb|CBL51174.1| Transcriptional regulator [Lactobacillus crispatus ST1]
          Length = 381

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 35/71 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R++  R+   ++   L + +G++ Q + KYE     + ++  Q + +VL  P+ FF D
Sbjct: 7  GTRLKEARLFNHLTMSSLADQVGVSKQAISKYEHNKIEISSNVFQKLVQVLNFPLYFFTD 66

Query: 76 VSPTVCSDISS 86
          V      D  +
Sbjct: 67 VEKVPYQDDGT 77


>gi|253572160|ref|ZP_04849564.1| conserved hypothetical protein [Bacteroides sp. 1_1_6]
 gi|251838340|gb|EES66427.1| conserved hypothetical protein [Bacteroides sp. 1_1_6]
          Length = 135

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 31/128 (24%), Positives = 56/128 (43%), Gaps = 10/128 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP--I 70
            +VG+ ++  R+ LGM QE L   LGI+ Q++ K EK  + +    L  I+  L     +
Sbjct: 12  RHVGRNLQRIRVYLGMKQEALAADLGISQQEISKIEKQ-DEIEDKLLTQIATALGVSAEV 70

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
              FDV   + +      N+  D   +P        +     +    KI+EL   ++ SE
Sbjct: 71  IRDFDVERAIYN-----INSYKDATISPGATATV--YAHTQQINPLDKIVELYERLLQSE 123

Query: 131 KKYRTIEE 138
           ++   + +
Sbjct: 124 REKIELLK 131


>gi|228969787|ref|ZP_04130551.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228789939|gb|EEM37757.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          sotto str. T04001]
          Length = 184

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 26/78 (33%), Positives = 41/78 (52%), Gaps = 6/78 (7%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +INVG++I+  R   G++ ++L E   IT   + + EKG+       L+ IS  L+ PI
Sbjct: 2  HNINVGQKIKAFRKAAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALKIPI 61

Query: 71 SFFFDVSPTVCSDISSEE 88
            FF        DI++EE
Sbjct: 62 FNFF------LEDINTEE 73


>gi|116494736|ref|YP_806470.1| XRE family transcriptional regulator [Lactobacillus casei ATCC 334]
 gi|239631670|ref|ZP_04674701.1| transcriptional regulator [Lactobacillus paracasei subsp. paracasei
           8700:2]
 gi|301066285|ref|YP_003788308.1| XRE family transcriptional regulator [Lactobacillus casei str.
           Zhang]
 gi|116104886|gb|ABJ70028.1| Transcriptional regulator, xre family [Lactobacillus casei ATCC
           334]
 gi|239526135|gb|EEQ65136.1| transcriptional regulator [Lactobacillus paracasei subsp. paracasei
           8700:2]
 gi|300438692|gb|ADK18458.1| Transcriptional regulator, xre family [Lactobacillus casei str.
           Zhang]
          Length = 185

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 29/143 (20%), Positives = 55/143 (38%), Gaps = 24/143 (16%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R+   R   G+SQ  L E +GI+ Q + KYE G+      ++  + ++L    +    
Sbjct: 3   GERLTQLRKQKGLSQNDLAEAIGISRQAISKYENGLAEPDLDKIAKLRDILGVSYADLLG 62

Query: 76  VSPT---VCSDISSEENNVMDFISTP----------DGLQLNRY--FIQIDDVKVRQ--- 117
             P      +++SS    +   I+            +G+       F+ I +   R    
Sbjct: 63  KEPKQQITSNNVSSASITITSLINDRLGSYTGFQVAEGIPSKTAPSFLLIGESSQRGFLG 122

Query: 118 --KIIEL----VRSIVSSEKKYR 134
             +++EL     R    +E K  
Sbjct: 123 TTRLVELGWYQTRQAAETEIKKI 145


>gi|331089018|ref|ZP_08337925.1| hypothetical protein HMPREF1025_01508 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|330406470|gb|EGG85983.1| hypothetical protein HMPREF1025_01508 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 126

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 21/58 (36%), Positives = 31/58 (53%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            G  IR  R   G++Q+KLGE  GI    ++KYE G        LQ I++ L+ P++
Sbjct: 4  YTGDMIRKYRTEKGLTQKKLGELCGIADSNIRKYESGNQNPKIETLQKIADALDIPVN 61


>gi|167759352|ref|ZP_02431479.1| hypothetical protein CLOSCI_01699 [Clostridium scindens ATCC
          35704]
 gi|167662909|gb|EDS07039.1| hypothetical protein CLOSCI_01699 [Clostridium scindens ATCC
          35704]
          Length = 257

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 1/75 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+LRR   GMSQE+L + LGIT Q V K+E G      S+L  +SE+ +  I +    + 
Sbjct: 8  IQLRRK-QGMSQEQLADRLGITRQSVSKWESGSAAPELSKLITLSEMFQVSIDYLVKDAE 66

Query: 79 TVCSDISSEENNVMD 93
                  E   + +
Sbjct: 67 EPKGAEKEESRRLEE 81


>gi|226311800|ref|YP_002771694.1| DNA-binding protein [Brevibacillus brevis NBRC 100599]
 gi|226094748|dbj|BAH43190.1| putative DNA-binding protein [Brevibacillus brevis NBRC 100599]
          Length = 183

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 42/85 (49%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +V K+IR  R+   ++ + L E  G +   + + E+G + +  + LQ I+E L  PI++F
Sbjct: 3  HVYKKIRALRIQQELTLKDLSEKSGFSVSFLSQVERGNSSLAITSLQKIAECLGVPITYF 62

Query: 74 FDVSPTVCSDISSEENNVMDFISTP 98
          F+V   V       +   +    +P
Sbjct: 63 FEVDKDVTYHTPIAKRKTLQIEGSP 87


>gi|313123989|ref|YP_004034248.1| peptidase s24-like protein [Lactobacillus delbrueckii subsp.
           bulgaricus ND02]
 gi|312280552|gb|ADQ61271.1| Peptidase S24-like protein [Lactobacillus delbrueckii subsp.
           bulgaricus ND02]
          Length = 209

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 28/124 (22%), Positives = 47/124 (37%), Gaps = 27/124 (21%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECL-------GITFQQVQKYEKGVNRVGASRLQHISEV 65
           +++G RIRL R    M+ E+L   L       G T  ++ K+E        S L  ++  
Sbjct: 1   MSIGTRIRLLRKSKKMTLEELANQLNSRSSSSGFTKGRLSKWENDREEPKLSSLNQVARF 60

Query: 66  LESPISFFFDVSPT-------------------VCSDISSEENNVMDFISTPDGLQLNRY 106
               I +FF+ S                      C D    + N++D+I+ P+ +     
Sbjct: 61  FNVDIDYFFNDSHPSNTLPLSRNTIRVPVIGTIACGDPIDADENIVDYINVPEPIP-ANA 119

Query: 107 FIQI 110
           F  I
Sbjct: 120 FALI 123


>gi|199598451|ref|ZP_03211869.1| Transcriptional regulator, xre family protein [Lactobacillus
           rhamnosus HN001]
 gi|258508930|ref|YP_003171681.1| XRE family transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|199590635|gb|EDY98723.1| Transcriptional regulator, xre family protein [Lactobacillus
           rhamnosus HN001]
 gi|257148857|emb|CAR87830.1| Transcriptional regulator, xre family [Lactobacillus rhamnosus GG]
 gi|259650223|dbj|BAI42385.1| transcriptional regulator [Lactobacillus rhamnosus GG]
          Length = 343

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 31/155 (20%), Positives = 70/155 (45%), Gaps = 32/155 (20%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++ + IR +R+  G++QE L + +G+T   V K+EKG++    + L  ++  L + ++ 
Sbjct: 1   MHLNQIIRNKRLAAGLTQEALAQKVGVTAPAVSKWEKGISYPDITLLPILARNLNTDVNT 60

Query: 73  FFDVSPTV---------------------CSDISSEENNVMDFISTPDGLQLNRYFIQ-- 109
             D S  +                      + ++  +  + ++ S P    +   F+Q  
Sbjct: 61  LLDFSADLDPAALRRFYTKLTATAQKDGWKAAVALVDEELREYPSVPQLQMMVPAFLQGL 120

Query: 110 ---IDD---VKVRQKIIELVRSIVSSEKKYRTIEE 138
              I       VR++II+L ++   SE+ + ++ E
Sbjct: 121 KSDIPTNEWPAVRERIIQLYQA---SERPHSSLPE 152


>gi|148263396|ref|YP_001230102.1| XRE family transcriptional regulator [Geobacter uraniireducens Rf4]
 gi|146396896|gb|ABQ25529.1| transcriptional regulator, XRE family [Geobacter uraniireducens
           Rf4]
          Length = 174

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 28/98 (28%), Positives = 50/98 (51%), Gaps = 7/98 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECL--GITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           + +G R++  RM   ++Q++L   +  G+ +  + K E+G        L  ISE L  P+
Sbjct: 29  LEIGSRLKRLRMERSLTQKELAVRVSGGLDYTYIGKIERGEQLPSLKILLKISEALSVPV 88

Query: 71  SFFF-DVSPTVCSDISSEENNVMDFISTPD-GLQLNRY 106
           + FF D +    SDISS E   + ++ + + G +L R 
Sbjct: 89  ASFFQDEAVAAVSDISSSE---LRYLVSEETGRELVRA 123


>gi|229553274|ref|ZP_04441999.1| xre family transcriptional regulator [Lactobacillus rhamnosus
           LMS2-1]
 gi|258540114|ref|YP_003174613.1| transcriptional regulator xre family [Lactobacillus rhamnosus Lc
           705]
 gi|229313360|gb|EEN79333.1| xre family transcriptional regulator [Lactobacillus rhamnosus
           LMS2-1]
 gi|257151790|emb|CAR90762.1| Transcriptional regulator, xre family [Lactobacillus rhamnosus Lc
           705]
          Length = 346

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 31/155 (20%), Positives = 70/155 (45%), Gaps = 32/155 (20%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++ + IR +R+  G++QE L + +G+T   V K+EKG++    + L  ++  L + ++ 
Sbjct: 4   MHLNQIIRTKRLAAGLTQEALAQKVGVTSPAVSKWEKGISYPDITLLPILARNLNTDVNT 63

Query: 73  FFDVSPTV---------------------CSDISSEENNVMDFISTPDGLQLNRYFIQ-- 109
             D S  +                      + ++  +  + ++ S P    +   F+Q  
Sbjct: 64  LLDFSADLDPAALRRFYTKLTATAQKDGWKAAVALVDEELREYPSVPQLQMMVPAFLQGL 123

Query: 110 ---IDD---VKVRQKIIELVRSIVSSEKKYRTIEE 138
              I       VR++II+L ++   SE+ + ++ E
Sbjct: 124 KSDIPTNEWPAVRERIIQLYQA---SERPHSSLPE 155


>gi|197284203|ref|YP_002150075.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|194681690|emb|CAR40796.1| fimbrial operon regulator [Proteus mirabilis HI4320]
          Length = 94

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 3/72 (4%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            + K  +     +GK IR +R  +G++ E L + L ++ QQV +YE   +++   +L  
Sbjct: 11 TYDTKAIH---QYLGKEIRSKRKAIGLTGEDLAKKLNVSQQQVSRYETAESKISFEKLLL 67

Query: 62 ISEVLESPISFF 73
          IS+VL+  I + 
Sbjct: 68 ISDVLDLNIQYL 79


>gi|319743893|gb|EFV96285.1| XRE family transcriptional regulator [Streptococcus agalactiae
          ATCC 13813]
          Length = 150

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 34/64 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  VG +I+  R+   ++Q +L + L  T Q + +YEKG  +     L  +S++ E  I
Sbjct: 3  LNQYVGNKIKQFRLEKKLTQTQLADLLDTTKQTISRYEKGDRKANQDVLFALSDLFEKTI 62

Query: 71 SFFF 74
            FF
Sbjct: 63 DDFF 66


>gi|304403726|ref|ZP_07385388.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
 gi|304346704|gb|EFM12536.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
          Length = 116

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 25/85 (29%), Positives = 41/85 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG RIR  R   G++Q++L E     +  +   E+G   V    L  I++ L+  +S FF
Sbjct: 8  VGARIREIRKSKGLTQDQLAEISQFHYSYIGGVERGERNVSLENLAKIADALQVKLSLFF 67

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
          D      S + SE + ++  +S  D
Sbjct: 68 DYEEPKSSAVDSELDEIIYLLSKRD 92


>gi|240147061|ref|ZP_04745662.1| putative helix-turn-helix protein [Roseburia intestinalis L1-82]
 gi|257200784|gb|EEU99068.1| putative helix-turn-helix protein [Roseburia intestinalis L1-82]
          Length = 334

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 23/98 (23%), Positives = 41/98 (41%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + ++I   R   G SQE+L E L ++ Q V K+E   +     R+  +SE+L     +
Sbjct: 1   MILAEKIMEERKKNGWSQEELAEKLSVSRQAVSKWESAQSIPDLQRVIQLSEILGVSTDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
                      I   E +  DF      ++    F++I
Sbjct: 61  LLKDECETPQLIEGVEPSNKDFPLKKVSMEEANDFMEI 98


>gi|194467035|ref|ZP_03073022.1| transcriptional regulator, XRE family [Lactobacillus reuteri
           100-23]
 gi|194454071|gb|EDX42968.1| transcriptional regulator, XRE family [Lactobacillus reuteri
           100-23]
          Length = 115

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 24/116 (20%), Positives = 54/116 (46%), Gaps = 10/116 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESP 69
           ++  +GK I  RR  L M+QE+L E   ++   + K E+G    + A  L  +++ L  P
Sbjct: 1   MNKTIGKNITTRRHQLKMTQEQLAELSNLSVNYISKIERGTTPNISAKTLYRLAKGLNVP 60

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +        T  ++I   +  +  F++          + + +  ++ + I++L++S
Sbjct: 61  MENLLKEETTYTTNIGPYQQQLETFLNQ---------YPREEAEQLSKSILKLLKS 107


>gi|261344646|ref|ZP_05972290.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282567562|gb|EFB73097.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 91

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 38/70 (54%), Gaps = 3/70 (4%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +P+  N+GK ++  R   G++  +L + + ++ QQ+ +YE GVN +   +L  +   LE 
Sbjct: 5  DPLSNNIGKMLKSYRRRTGLTGTELAKRINVSQQQISRYENGVNNITFDKLMILFNALEM 64

Query: 69 ---PISFFFD 75
              I  FF+
Sbjct: 65 NRYDIDIFFE 74


>gi|328948780|ref|YP_004366117.1| hypothetical protein Tresu_1938 [Treponema succinifaciens DSM
          2489]
 gi|328449104|gb|AEB14820.1| helix-turn-helix domain protein [Treponema succinifaciens DSM
          2489]
          Length = 151

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 33/62 (53%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I  GK+IR  R  LGM+QE+L   L +T Q +  +E+ VN    + L+ I  +    + 
Sbjct: 7  NITTGKQIRHLRTQLGMTQEELAGELNVTRQALSNWERDVNEPDLNMLKKICFLFGVNMD 66

Query: 72 FF 73
           F
Sbjct: 67 DF 68


>gi|292557941|gb|ADE30942.1| Helix-turn-helix type 3 [Streptococcus suis GZ1]
          Length = 149

 Score = 66.4 bits (161), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 33/62 (53%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I  GK+IR  R  LGM+QE+L   L +T Q +  +E+ VN    + L+ I  +    + 
Sbjct: 7  NITTGKQIRHLRTQLGMTQEELAGELNVTRQALSNWERDVNEPDLNMLKKICFLFGVNMD 66

Query: 72 FF 73
           F
Sbjct: 67 DF 68


>gi|309774998|ref|ZP_07670014.1| transcriptional regulator, PbsX family [Erysipelotrichaceae
           bacterium 3_1_53]
 gi|319936258|ref|ZP_08010677.1| hypothetical protein HMPREF9488_01509 [Coprobacillus sp. 29_1]
 gi|325262574|ref|ZP_08129311.1| transcriptional regulator, PbsX family [Clostridium sp. D5]
 gi|308917252|gb|EFP62976.1| transcriptional regulator, PbsX family [Erysipelotrichaceae
           bacterium 3_1_53]
 gi|319808690|gb|EFW05232.1| hypothetical protein HMPREF9488_01509 [Coprobacillus sp. 29_1]
 gi|324032406|gb|EGB93684.1| transcriptional regulator, PbsX family [Clostridium sp. D5]
          Length = 211

 Score = 66.0 bits (160), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 23/88 (26%), Positives = 42/88 (47%), Gaps = 3/88 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL+   +  
Sbjct: 10  HLGNNIQTIRKFRGMKQQELADKIGINMQSLSKIERGLNYPAYETLEKIMEVLDVTPN-- 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            ++       ++  E  V  F+   + L
Sbjct: 68  -ELLSGEWKYVNQSEKEVCQFLRAEERL 94


>gi|257065271|ref|YP_003144943.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
 gi|256792924|gb|ACV23594.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
          Length = 272

 Score = 66.0 bits (160), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 32/69 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + V + I+  R   G++QE+L   + +T Q V ++E G +       + ++ VL  P   
Sbjct: 1  MKVSEAIQNARKEAGLTQEQLAAKVYVTRQAVSRWETGESEPSIDMRKLLASVLGVPAVG 60

Query: 73 FFDVSPTVC 81
           FD+     
Sbjct: 61 LFDLPDAPA 69


>gi|223985675|ref|ZP_03635723.1| hypothetical protein HOLDEFILI_03029 [Holdemania filiformis DSM
           12042]
 gi|223962366|gb|EEF66830.1| hypothetical protein HOLDEFILI_03029 [Holdemania filiformis DSM
           12042]
          Length = 283

 Score = 66.0 bits (160), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 48/98 (48%), Gaps = 2/98 (2%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  +K + N  +   G+ IR  R+  G +Q++LG  +GI+ + + K+E+G++    + L 
Sbjct: 5   MTEDKIMQNLTEERTGQLIRELRLKAGWTQKELGMKIGISDKAISKWERGLSFPDITLLP 64

Query: 61  HISEVLESPISFFFDVSPTVCSDISSE--ENNVMDFIS 96
            ++EV    +             ++ E  ++ V D ++
Sbjct: 65  RLAEVFHVSVGEIISGQQLSEPALNPEQLDDVVADTLA 102


>gi|223986671|ref|ZP_03636661.1| hypothetical protein HOLDEFILI_03983 [Holdemania filiformis DSM
          12042]
 gi|223961357|gb|EEF65879.1| hypothetical protein HOLDEFILI_03983 [Holdemania filiformis DSM
          12042]
          Length = 124

 Score = 66.0 bits (160), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 1/69 (1%)

Query: 4  NKKIPNPVDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          +K+  + VD   +G+R+R  RM L ++QE L E +G++   +   E G N+V       I
Sbjct: 2  SKEKKDHVDYCLLGQRVRRARMKLNLTQEVLAEKVGVSIPTISHIETGTNKVSLELFVSI 61

Query: 63 SEVLESPIS 71
          +  L     
Sbjct: 62 ANALNVTPD 70


>gi|302555572|ref|ZP_07307914.1| transcriptional regulator [Streptomyces viridochromogenes DSM
          40736]
 gi|302473190|gb|EFL36283.1| transcriptional regulator [Streptomyces viridochromogenes DSM
          40736]
          Length = 212

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 33/78 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG RIR  R+  G S   L   +G++   V + E G ++   S L  I+  L   +   F
Sbjct: 9  VGARIRQARLERGTSLRALAREVGVSASLVSQIETGKSQPSVSTLYAITTALGISVESLF 68

Query: 75 DVSPTVCSDISSEENNVM 92
          D   +     +S    V+
Sbjct: 69 DARASAPVAAASPPGTVL 86


>gi|225377956|ref|ZP_03755177.1| hypothetical protein ROSEINA2194_03616 [Roseburia inulinivorans
          DSM 16841]
 gi|225210207|gb|EEG92561.1| hypothetical protein ROSEINA2194_03616 [Roseburia inulinivorans
          DSM 16841]
          Length = 339

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 32/65 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G +I+  R   GMSQ+ + + LG+T Q V K+E   +    + L  I+ +    I  
Sbjct: 2  KTIGNKIKELRRSKGMSQKDIADKLGVTSQAVSKWENDGSLPEMTMLPDIASLFGIQIDD 61

Query: 73 FFDVS 77
           F+ S
Sbjct: 62 LFEYS 66


>gi|153954446|ref|YP_001395211.1| transcription regulator [Clostridium kluyveri DSM 555]
 gi|153954541|ref|YP_001395306.1| transcription regulator [Clostridium kluyveri DSM 555]
 gi|146347327|gb|EDK33863.1| Predicted transcriptional regulator with an addtional conserved
          domain [Clostridium kluyveri DSM 555]
 gi|146347399|gb|EDK33935.1| Predicted transcriptional regulator with an addtional conserved
          domain [Clostridium kluyveri DSM 555]
          Length = 381

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 25/80 (31%), Positives = 39/80 (48%), Gaps = 1/80 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N  DI V  RI+  R   G+S  +L E + +T Q + +YEKG+       L+ +S  L
Sbjct: 2  VKNNFDI-VPARIKEARESRGLSMSELSELIEVTSQAISQYEKGIMNPSVFVLKKMSNAL 60

Query: 67 ESPISFFFDVSPTVCSDISS 86
            PI FF+        + S+
Sbjct: 61 NFPIQFFYKSENERTCENSA 80


>gi|321272346|gb|ADW80227.1| putative transcriptional regulator [Wolbachia endosymbiont wVitB of
           Nasonia vitripennis phage WOVitB]
          Length = 236

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 32/134 (23%), Positives = 60/134 (44%), Gaps = 10/134 (7%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            V+  +G +I   R++ G +Q KL   +G+T +++  +E G   +       I+  L   
Sbjct: 23  SVNYELGXKIEGCRIVQGYTQAKLASKIGLTHKEIHNFELGCKAITIKESYIIAGALSVN 82

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           +       PTV  +    E+         + + L +   +I D ++R+K+  LVR +  S
Sbjct: 83  VVDLLPG-PTVLRENGWYEDE------DKEIVYLTKIHREIKDQELRKKLYPLVRFVYIS 135

Query: 130 EKKYRTIEEECMVE 143
           EK     +EE  +E
Sbjct: 136 EK---ISQEEAKIE 146



 Score = 47.9 bits (113), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 30/61 (49%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +  +   + +   VGKRI+ +R+I   +QE L   +G T +++  YE+G   +       
Sbjct: 175 IEKEICTDSILYKVGKRIKEQRLIREYTQEDLANKIGSTPKEIHDYERGYTDIPICNSLD 234

Query: 62  I 62
           +
Sbjct: 235 L 235


>gi|294813464|ref|ZP_06772107.1| Transcriptional regulator, XRE family [Streptomyces clavuligerus
           ATCC 27064]
 gi|294326063|gb|EFG07706.1| Transcriptional regulator, XRE family [Streptomyces clavuligerus
           ATCC 27064]
          Length = 457

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 32/120 (26%), Positives = 55/120 (45%), Gaps = 10/120 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I+  R   G+SQE+L E  G++   VQK E+G   V    L  I+  L    S  F
Sbjct: 42  IGDNIKRYRRAEGLSQEELAEKAGLSVSTVQKAEQGRGAVRTQTLHTIARGLGVTTSALF 101

Query: 75  DVSP--TVCSDISSEENNVM--DFISTPDGLQ--LNRYFIQIDD-VKVRQKII---ELVR 124
              P   V  D +++++ V     +  P G+   L     ++ D   +R++++   +L R
Sbjct: 102 VAGPPEPVVGDDATKQSLVAIRAALMPPIGIDGVLVASVPKVGDLSALRRRVLAIHDLYR 161


>gi|120400369|gb|ABM21424.1| transcriptional regulator [Lactobacillus johnsonii]
 gi|120400393|gb|ABM21447.1| transcriptional regulator [Lactobacillus johnsonii]
          Length = 374

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 29/63 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R++  R    M+   L E +G+T Q + +YE+          Q I   L+ P++FF +
Sbjct: 5  GTRLKEARYFRKMTITDLAEKIGVTKQMISRYERETGEPSLETFQKIVSALKFPVNFFTE 64

Query: 76 VSP 78
             
Sbjct: 65 SDS 67


>gi|320354394|ref|YP_004195733.1| XRE family transcriptional regulator [Desulfobulbus propionicus DSM
           2032]
 gi|320122896|gb|ADW18442.1| transcriptional regulator, XRE family [Desulfobulbus propionicus
           DSM 2032]
          Length = 436

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 32/67 (47%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R   G+SQ++L E  G+T   + + EK +       L  ++E L   ++ FF
Sbjct: 256 LGARIKAVRKKQGLSQKELAEKAGVTPSSISQIEKNLIYPSLPALFRLAESLSIGVASFF 315

Query: 75  DVSPTVC 81
           +      
Sbjct: 316 EGLAAEA 322


>gi|302390667|ref|YP_003826488.1| helix-turn-helix domain protein [Thermosediminibacter oceani DSM
           16646]
 gi|302201295|gb|ADL08865.1| helix-turn-helix domain protein [Thermosediminibacter oceani DSM
           16646]
          Length = 114

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/105 (18%), Positives = 48/105 (45%), Gaps = 4/105 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + N    ++G+R++  R   G++Q+++ + LGI   Q+  YE G   +  + LQ ++ + 
Sbjct: 1   MNNSFLKSLGERLQEARKKCGLTQDQVAKILGINKVQLSYYETGAREINITLLQELANLY 60

Query: 67  ESPISFFF--DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
              I +F   +       +I+   +   +     + +   + F++
Sbjct: 61  GYSIDYFLGNEDKKEPEVEIAFRADEFCE--EDLETIAFAKTFLR 103


>gi|240948773|ref|ZP_04753145.1| phage repressor [Actinobacillus minor NM305]
 gi|240296989|gb|EER47567.1| phage repressor [Actinobacillus minor NM305]
          Length = 218

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RIR RR  L ++Q+ L   L G++   + ++E    +  A  +  +S VL+  IS+ 
Sbjct: 6  LGDRIRNRRKELKLTQKDLATALKGVSHVAISQWESNTTKPNAENILDLSTVLQCEISWL 65

Query: 74 FDVSPTV 80
             +   
Sbjct: 66 LRGNGES 72


>gi|251782746|ref|YP_002997049.1| hypothetical protein SDEG_1340 [Streptococcus dysgalactiae subsp.
          equisimilis GGS_124]
 gi|242391376|dbj|BAH81835.1| hypothetical protein SDEG_1340 [Streptococcus dysgalactiae subsp.
          equisimilis GGS_124]
          Length = 257

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G+++   R   G+SQE L E +G T Q + K+E         +L  +S V E  + +
Sbjct: 1  MNFGEKLFKLRKEKGISQENLAEQIGTTRQAISKWENNQGFPEVEKLLQLSNVFEVSVDY 60

Query: 73 FFDVSPTV 80
                TV
Sbjct: 61 LLKDDKTV 68


>gi|229827219|ref|ZP_04453288.1| hypothetical protein GCWU000182_02605 [Abiotrophia defectiva ATCC
          49176]
 gi|229788837|gb|EEP24951.1| hypothetical protein GCWU000182_02605 [Abiotrophia defectiva ATCC
          49176]
          Length = 202

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 37/75 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ +RI+  R   G+SQE+L + + ++ Q V K+E G +     ++  +SE  E    +
Sbjct: 1  MNISERIQELRKAKGISQEELADKIDVSRQAVSKWENGQSIPDLEKVILLSEYFEVTTDY 60

Query: 73 FFDVSPTVCSDISSE 87
                 V  + + +
Sbjct: 61 ILKGIEPVKKNGTDK 75


>gi|228953531|ref|ZP_04115575.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|229079669|ref|ZP_04212202.1| Transcriptional regulator, MerR [Bacillus cereus Rock4-2]
 gi|228703509|gb|EEL55962.1| Transcriptional regulator, MerR [Bacillus cereus Rock4-2]
 gi|228806155|gb|EEM52730.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
          Length = 184

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 25/84 (29%), Positives = 42/84 (50%), Gaps = 1/84 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
          DINVG +IR  R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  DINVGHKIRAFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          +FF + + T    + + +   + F
Sbjct: 63 NFFLEDTNTEELVVRANQRKKITF 86


>gi|225017440|ref|ZP_03706632.1| hypothetical protein CLOSTMETH_01366 [Clostridium methylpentosum
          DSM 5476]
 gi|224949850|gb|EEG31059.1| hypothetical protein CLOSTMETH_01366 [Clostridium methylpentosum
          DSM 5476]
          Length = 172

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 35/72 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++I+  R  +G+SQEKL E +G++ Q + K+E G+      ++  +SE  +    +    
Sbjct: 12 EKIQRERKKMGLSQEKLAEKIGVSRQAITKWENGLASPELEKIVSLSECFKVSTDYLLKD 71

Query: 77 SPTVCSDISSEE 88
          + T  +      
Sbjct: 72 NITEPTPPQESA 83


>gi|312136006|ref|YP_004003344.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
          owensensis OL]
 gi|311776057|gb|ADQ05544.1| helix-turn-helix domain protein [Caldicellulosiruptor owensensis
          OL]
          Length = 177

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 39/84 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+R+ R   G + +++ E LGIT     KYE+        +L  I+++    + F   
Sbjct: 3  GERLRMLRNEKGFTMQQMAEMLGITIGSWAKYERNEAEPSFDKLVKIADIFNVSVDFLLG 62

Query: 76 VSPTVCSDISSEENNVMDFISTPD 99
           +      + + E N+ ++I   +
Sbjct: 63 RTNVRNDKLGNNETNIKNYIVDIE 86


>gi|262283491|ref|ZP_06061257.1| transcriptional regulator, PlcR [Streptococcus sp. 2_1_36FAA]
 gi|262260982|gb|EEY79682.1| transcriptional regulator, PlcR [Streptococcus sp. 2_1_36FAA]
          Length = 288

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 29/107 (27%), Positives = 53/107 (49%), Gaps = 14/107 (13%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
            R++ RR  L +SQ++L +  GI  Q Q+ + E G    G+  L  +++ L+  + +FFD
Sbjct: 7   SRLKQRRKELKLSQKELAD--GICKQGQISRLENGEYTPGSDLLHELAKRLKVSMDYFFD 64

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                  + SS  + ++DF        L++ FI   + +  + I EL
Sbjct: 65  -----EENNSSRNSELLDFK------NLSKKFIHYRNYESLRYIYEL 100


>gi|259501148|ref|ZP_05744050.1| xre family toxin-antitoxin system [Lactobacillus iners DSM 13335]
 gi|302190406|ref|ZP_07266660.1| DNA-binding protein [Lactobacillus iners AB-1]
 gi|309804359|ref|ZP_07698435.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          11V1-d]
 gi|312871026|ref|ZP_07731129.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          3008A-a]
 gi|325913257|ref|ZP_08175625.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          60-B]
 gi|259167842|gb|EEW52337.1| xre family toxin-antitoxin system [Lactobacillus iners DSM 13335]
 gi|308163571|gb|EFO65842.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          11V1-d]
 gi|311093521|gb|EFQ51862.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          3008A-a]
 gi|325477360|gb|EGC80504.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          60-B]
          Length = 210

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 41/82 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R+  G++QE+L E + ++   V K+E G      + L+ I++ L   + +
Sbjct: 1  MLLGEKIRNARVEAGLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKVIADALGVTVDY 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
            D    +   I  +  +V  +
Sbjct: 61 LLDKDNAIDLSIIKKPIDVAKY 82


>gi|218694781|ref|YP_002402448.1| transcriptional repressor DicA [Escherichia coli 55989]
 gi|309793330|ref|ZP_07687757.1| transcriptional repressor DicA [Escherichia coli MS 145-7]
 gi|218351513|emb|CAU97222.1| putative repressor protein of division inhibition from phage origin
           [Escherichia coli 55989]
 gi|308122917|gb|EFO60179.1| transcriptional repressor DicA [Escherichia coli MS 145-7]
          Length = 152

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 48/110 (43%), Gaps = 2/110 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+RIR RR  +G+SQ  L +  G++   +  +E          L  ++EVL+   ++
Sbjct: 21  KTLGQRIRERRKQVGLSQNGLSKAAGVSGSSISLWESDHTAPRGQNLHRLAEVLQCSPTW 80

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                           ++ +D   + D L++ R +  +   + + ++ EL
Sbjct: 81  ILFGDEDKTPAPPVSLDSTLDL--SEDELEMLRLYRALPKSEQQAQLSEL 128


>gi|83593475|ref|YP_427227.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
          11170]
 gi|83576389|gb|ABC22940.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
          11170]
          Length = 196

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 30/61 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GKRI   R   GMSQ  L + LG+    +  YE+G N      ++ ++ +L    +F
Sbjct: 2  IEIGKRIAEARKDQGMSQYALAKLLGVNQSTIAYYERGRNTPKPWIVEDLARILNVSAAF 61

Query: 73 F 73
           
Sbjct: 62 L 62


>gi|219855036|ref|YP_002472158.1| hypothetical protein CKR_1693 [Clostridium kluyveri NBRC 12016]
 gi|219568760|dbj|BAH06744.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 384

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 25/80 (31%), Positives = 39/80 (48%), Gaps = 1/80 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N  DI V  RI+  R   G+S  +L E + +T Q + +YEKG+       L+ +S  L
Sbjct: 5  VKNNFDI-VPARIKEARESRGLSMSELSELIEVTSQAISQYEKGIMNPSVFVLKKMSNAL 63

Query: 67 ESPISFFFDVSPTVCSDISS 86
            PI FF+        + S+
Sbjct: 64 NFPIQFFYKSENERTCENSA 83


>gi|218705070|ref|YP_002412589.1| transcriptional repressor DicA [Escherichia coli UMN026]
 gi|291283201|ref|YP_003500019.1| DicA-like protein [Escherichia coli O55:H7 str. CB9615]
 gi|300895972|ref|ZP_07114540.1| transcriptional repressor DicA [Escherichia coli MS 198-1]
 gi|301326444|ref|ZP_07219796.1| transcriptional repressor DicA [Escherichia coli MS 78-1]
 gi|218432167|emb|CAR13055.1| putative repressor protein of division inhibition from phage origin
           [Escherichia coli UMN026]
 gi|290763074|gb|ADD57035.1| DicA-like protein [Escherichia coli O55:H7 str. CB9615]
 gi|300360122|gb|EFJ75992.1| transcriptional repressor DicA [Escherichia coli MS 198-1]
 gi|300846860|gb|EFK74620.1| transcriptional repressor DicA [Escherichia coli MS 78-1]
 gi|320652127|gb|EFX20458.1| transcriptional repressor DicA [Escherichia coli O157:H- str. H
           2687]
 gi|320657721|gb|EFX25510.1| transcriptional repressor DicA [Escherichia coli O55:H7 str.
           3256-97 TW 07815]
          Length = 152

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 48/110 (43%), Gaps = 2/110 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+RIR RR  +G+SQ  L +  G++   +  +E          L  ++EVL+   ++
Sbjct: 21  KTLGQRIRERRKQVGLSQNGLSKAAGVSGSSISLWESDHTAPRGQNLHRLAEVLQCSPTW 80

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                           ++ +D   + D L++ R +  +   + + ++ EL
Sbjct: 81  ILFGDEDKTPAPPVSLDSALDL--SEDELEMLRLYRALPKSEQQAQLSEL 128


>gi|222106747|ref|YP_002547538.1| transcriptional regulator [Agrobacterium vitis S4]
 gi|221737926|gb|ACM38822.1| transcriptional regulator [Agrobacterium vitis S4]
          Length = 219

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 24/99 (24%), Positives = 41/99 (41%), Gaps = 9/99 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
             N +++ +G  +R  R  LG++   L    G++   + K E G        LQ +S+ L
Sbjct: 27  RANNLEMAIGHEVRTFRKKLGITVADLATATGMSVGMLSKIENGNISASLGTLQSLSKAL 86

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
             P++ FF            EE     F+   +G+ L R
Sbjct: 87  GVPMTAFFKGY---------EEPRSASFVKAGEGVHLER 116


>gi|320160947|ref|YP_004174171.1| hypothetical protein ANT_15430 [Anaerolinea thermophila UNI-1]
 gi|319994800|dbj|BAJ63571.1| hypothetical protein ANT_15430 [Anaerolinea thermophila UNI-1]
          Length = 206

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 2/78 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G  K    +D  VG+R+R  R    +S   L    G++   +   E+G+     S L 
Sbjct: 1  MEGFDKQAESID--VGQRLRALREERNISIRALARLSGLSANALSMIERGMTSPSVSTLN 58

Query: 61 HISEVLESPISFFFDVSP 78
           ++  L+ P++ FF   P
Sbjct: 59 KLAIALKVPVTAFFRTMP 76


>gi|289168608|ref|YP_003446877.1| transcriptional regulator [Streptococcus mitis B6]
 gi|288908175|emb|CBJ23017.1| transcriptional regulator [Streptococcus mitis B6]
          Length = 228

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/120 (15%), Positives = 51/120 (42%), Gaps = 26/120 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q+++ E LG++FQ    +E+G+      ++  +  +L+    +F   
Sbjct: 5   EKLKARRKELKLTQKEIAEQLGVSFQAYSAWERGIKEPSKEKVSQLENILKVAKGYFTQ- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
                                   +++ R +  +   + ++K++   R +   E+  + I
Sbjct: 64  ------------------------IEIVRLYHSL-SKQGKEKVVLYARDLAQEEQVQKVI 98


>gi|160936303|ref|ZP_02083673.1| hypothetical protein CLOBOL_01196 [Clostridium bolteae ATCC
          BAA-613]
 gi|158440772|gb|EDP18503.1| hypothetical protein CLOBOL_01196 [Clostridium bolteae ATCC
          BAA-613]
          Length = 199

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 33/58 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+RI+  R   G++Q +L   +G + + VQKYE G   V    +  I++ L++  +F
Sbjct: 9  IGQRIKTLRKRKGLNQTQLANLIGKSLRTVQKYETGEIEVSIDVVNEIAKHLDTTPTF 66


>gi|309804464|ref|ZP_07698531.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          09V1-c]
 gi|309809826|ref|ZP_07703678.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          2503V10-D]
 gi|312873153|ref|ZP_07733212.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2062A-h1]
 gi|312873404|ref|ZP_07733455.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2052A-d]
 gi|325911527|ref|ZP_08173936.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          143-D]
 gi|308166217|gb|EFO68433.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          09V1-c]
 gi|308169868|gb|EFO71909.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          2503V10-D]
 gi|311091088|gb|EFQ49481.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2052A-d]
 gi|311091386|gb|EFQ49771.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2062A-h1]
 gi|325476657|gb|EGC79814.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          143-D]
          Length = 210

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 41/82 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R+  G++QE+L E + ++   V K+E G      + L+ I++ L   + +
Sbjct: 1  MLLGEKIRNARVEAGLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKVIADALGVTVDY 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
            D    +   I  +  +V  +
Sbjct: 61 LLDKDNAIDLSIIKKPIDVAKY 82


>gi|332653138|ref|ZP_08418883.1| DNA-binding protein [Ruminococcaceae bacterium D16]
 gi|332518284|gb|EGJ47887.1| DNA-binding protein [Ruminococcaceae bacterium D16]
          Length = 348

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 46/101 (45%), Gaps = 2/101 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+ IR +R  L ++QE+L + LG++   V K+EKG      + L  ++ VL + ++ 
Sbjct: 1   MKLGEIIREKRKALSLTQEQLADYLGVSAPAVHKWEKGTTYPDITTLPALARVLRTDLNT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
                  +  +  +     +D + + +       F +  D 
Sbjct: 61  LLSFQEELTDEEITRFLEELDRMISQESYD--AAFQRAMDQ 99


>gi|295425417|ref|ZP_06818113.1| conserved hypothetical protein [Lactobacillus amylolyticus DSM
          11664]
 gi|295064868|gb|EFG55780.1| conserved hypothetical protein [Lactobacillus amylolyticus DSM
          11664]
          Length = 143

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 39/87 (44%), Gaps = 1/87 (1%)

Query: 1  MVGNK-KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M+ +K K+     +N+ ++I   R     SQE L E + ++ Q V K+E G  +    ++
Sbjct: 1  MIFSKIKLSEVTSMNLNQKITQLRNDKKWSQEDLAEKINVSRQSVSKWESGQTKPDLDKI 60

Query: 60 QHISEVLESPISFFFDVSPTVCSDISS 86
            +SE+      +         ++ S+
Sbjct: 61 IVLSEIFNVSTDYLLKDDEKEINNAST 87


>gi|258508248|ref|YP_003170999.1| XRE family transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|257148175|emb|CAR87148.1| Transcriptional regulator, xre family protein [Lactobacillus
          rhamnosus GG]
 gi|259649565|dbj|BAI41727.1| putative transcriptional regulator [Lactobacillus rhamnosus GG]
          Length = 176

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 36/81 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+   R   G+SQ +L E +GI+ Q + KYE  +      ++Q  + +L    +    
Sbjct: 3  GERLMQLRKRSGLSQNELAEAMGISRQAISKYENNLAEPDLQKIQQFTMILGVSYADLLG 62

Query: 76 VSPTVCSDISSEENNVMDFIS 96
            P      ++  ++ +   S
Sbjct: 63 NEPPEPKPAANRPSSAITITS 83


>gi|295111675|emb|CBL28425.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Synergistetes bacterium SGP1]
          Length = 233

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 22/76 (28%), Positives = 36/76 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI  RR  LGM + +L E LG+    + +YE G   +  S    I++ L   +++  
Sbjct: 9  IGARIMARRKALGMKRPELAERLGVKPNTLYRYEIGSIGIRDSMKSRIAKELGVSLAYLV 68

Query: 75 DVSPTVCSDISSEENN 90
            +  V  +  SEE  
Sbjct: 69 SGTAEVGRERGSEETP 84


>gi|254520499|ref|ZP_05132555.1| transcriptional regulator [Clostridium sp. 7_2_43FAA]
 gi|226914248|gb|EEH99449.1| transcriptional regulator [Clostridium sp. 7_2_43FAA]
          Length = 111

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 34/72 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G RIR  R+ L ++QE+L E + ++   + + E+G   +    L  I + L   I +
Sbjct: 4  KLLGNRIRQERLKLNLTQEQLAEKVDLSTSYIGQIERGERNISLDTLVVICKSLGVTIDY 63

Query: 73 FFDVSPTVCSDI 84
              S  +  DI
Sbjct: 64 LLQDSINIEEDI 75


>gi|329725145|gb|EGG61635.1| DNA-binding helix-turn-helix protein [Staphylococcus aureus
          subsp. aureus 21189]
          Length = 112

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 32/74 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G +IR  R  L ++Q++LGE L      +  YE G        L  I+ +L   I  
Sbjct: 8  KFIGNKIRYYRTKLNLTQDQLGEKLNTKKATISNYETGYRTPKQDDLFEIAHILNISIDD 67

Query: 73 FFDVSPTVCSDISS 86
           F       +DI+S
Sbjct: 68 LFPTRNNKKNDITS 81


>gi|148272654|ref|YP_001222215.1| Cro/CI family transcriptional regulator [Clavibacter michiganensis
           subsp. michiganensis NCPPB 382]
 gi|147830584|emb|CAN01520.1| putative transcriptional regulator, Cro/CI family [Clavibacter
           michiganensis subsp. michiganensis NCPPB 382]
          Length = 475

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 28/129 (21%), Positives = 46/129 (35%), Gaps = 3/129 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R   G++ + LGE  GI   Q+   E G      S L  I+  L   ++   
Sbjct: 6   IGRRIRHARKGAGLTLQALGERAGILPSQLSMIENGRRETRLSTLGRIAGALGVDVTHLL 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL--NRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
                        E +     S   GL L        +    + + ++ L R +   E++
Sbjct: 66  AADAPDARSALEIELDRAQRSSLYGGLGLPAVPASRALPQETL-EALVGLHRELARRERE 124

Query: 133 YRTIEEECM 141
                EE  
Sbjct: 125 SIATPEEAR 133


>gi|311111466|ref|ZP_07712863.1| toxin-antitoxin system, antitoxin component, Xre family
           [Lactobacillus gasseri MV-22]
 gi|311066620|gb|EFQ46960.1| toxin-antitoxin system, antitoxin component, Xre family
           [Lactobacillus gasseri MV-22]
          Length = 116

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/87 (22%), Positives = 37/87 (42%), Gaps = 1/87 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R    +SQ +L + L ++ Q + K+E G     +  L  ++E  +    +  
Sbjct: 2   IGDRIRELRTSHRLSQTELSKLLHVSQQTITKWENGKAEPSSGALAKLAEYFDVSADYLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL 101
             S       S +    + F++  D L
Sbjct: 62  -GSDKTSEPKSVDLEKTLSFLAMVDAL 87


>gi|199597505|ref|ZP_03210934.1| Transcriptional regulator, xre family protein [Lactobacillus
          rhamnosus HN001]
 gi|199591528|gb|EDY99605.1| Transcriptional regulator, xre family protein [Lactobacillus
          rhamnosus HN001]
          Length = 176

 Score = 66.0 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 36/81 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+   R   G+SQ +L E +GI+ Q + KYE  +      ++Q  + +L    +    
Sbjct: 3  GERLMQLRKRSGLSQNELAEAMGISRQAISKYENNLAEPDLQKIQQFTMILGVSYADLLG 62

Query: 76 VSPTVCSDISSEENNVMDFIS 96
            P      ++  ++ +   S
Sbjct: 63 NEPPEPKPAANRPSSAITITS 83


>gi|226362101|ref|YP_002779879.1| Xre family DNA-binding protein [Rhodococcus opacus B4]
 gi|226240586|dbj|BAH50934.1| putative Xre family DNA-binding protein [Rhodococcus opacus B4]
          Length = 186

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 34/70 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +IR  R   G++  +L +  G++   V + E+G+     + L  ++  L+ P+  FF
Sbjct: 4  VGNKIRTMRKEKGLTLAQLSDITGLSPAIVSQIERGLANPSFTTLAQLAHGLDIPVGRFF 63

Query: 75 DVSPTVCSDI 84
             P   S +
Sbjct: 64 IGQPDTTSPV 73


>gi|260664721|ref|ZP_05865573.1| transcriptional regulator [Lactobacillus jensenii SJ-7A-US]
 gi|260561786|gb|EEX27758.1| transcriptional regulator [Lactobacillus jensenii SJ-7A-US]
          Length = 103

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 17/97 (17%), Positives = 40/97 (41%), Gaps = 3/97 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+  RI+  R    ++Q++L + L +    +  +E G N      L+ +S +      +
Sbjct: 1   MNISSRIKYLRNEHHLTQKELAKMLNVKPTTISGWELGRNEPSIDTLKKLSSLFNVSTEY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFIS---TPDGLQLNRY 106
                    + I  +  +V+ +     +P+ L + R 
Sbjct: 61  LIGGEDNSSNTIDLKTTDVLSYDGKPVSPEDLAIIRA 97


>gi|158318022|ref|YP_001510530.1| helix-turn-helix domain-containing protein [Frankia sp. EAN1pec]
 gi|158113427|gb|ABW15624.1| helix-turn-helix domain protein [Frankia sp. EAN1pec]
          Length = 366

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 30/99 (30%), Positives = 40/99 (40%), Gaps = 7/99 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
           G+RIR  R +LG+SQ  L E  G+    + K E G        L  I+ V  +P SFF  
Sbjct: 14  GERIRAARTLLGLSQGDLAEASGVGQTMISKIESGAKYPSDDLLDTIAAVTGTPRSFFDV 73

Query: 74  --FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
              D+ P       S +    D   T    QL     +I
Sbjct: 74  VPLDIPPMTLRFRKSSQAKRGD---TKRVDQLLAEAYRI 109


>gi|237809770|ref|YP_002894210.1| helix-turn-helix domain-containing protein [Tolumonas auensis DSM
          9187]
 gi|237502031|gb|ACQ94624.1| helix-turn-helix domain protein [Tolumonas auensis DSM 9187]
          Length = 355

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 33/60 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+   R   G+S + LG+ +G++   ++KYE   N   +  +  +++VL     +FF
Sbjct: 2  IGERLLRARAAAGLSMKALGDLVGVSANMIKKYEHNQNMPSSGVMIKLAKVLSVRSEYFF 61


>gi|297617997|ref|YP_003703156.1| XRE family transcriptional regulator [Syntrophothermus
          lipocalidus DSM 12680]
 gi|297145834|gb|ADI02591.1| transcriptional regulator, XRE family [Syntrophothermus
          lipocalidus DSM 12680]
          Length = 216

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 31/59 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG RI+  R   G++QE+LG+ L +    + KYEKG     +  L+ +++     + + 
Sbjct: 4  VGSRIKQLREERGLTQEQLGKILNVQKAAISKYEKGHTLPDSEALKKLAKFFNVSVDYL 62


>gi|259909785|ref|YP_002650141.1| putative prophage regulatory ptotein [Erwinia pyrifoliae Ep1/96]
 gi|224965407|emb|CAX56939.1| putative prophage regulatory ptotein [Erwinia pyrifoliae Ep1/96]
 gi|283479880|emb|CAY75796.1| putative HTH-type transcriptional regulatory protein PF1851
          [Erwinia pyrifoliae DSM 12163]
          Length = 133

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 36/67 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G+R+   R   G++Q +L + L ++ Q VQ +E G  R+  S L  ++++   P+  
Sbjct: 24 IALGERMTRLRKEQGITQSELADKLNVSQQTVQAWEAGRRRIKVSSLPFVAQIFSVPLEE 83

Query: 73 FFDVSPT 79
           F  SP 
Sbjct: 84 LFGGSPE 90


>gi|253579354|ref|ZP_04856624.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849452|gb|EES77412.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 298

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 25/86 (29%), Positives = 44/86 (51%), Gaps = 1/86 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GK I  +R  LGM+Q++L E LG++ + V K+E+GV     S  + +  +L   ++ 
Sbjct: 4  IKIGKYIAGKRKSLGMTQKQLAEKLGMSDKSVSKWERGVCLPDVSVYKELCSILGISLNE 63

Query: 73 FFDVSPTVCSD-ISSEENNVMDFIST 97
          F         + I   E N+++ I  
Sbjct: 64 FLAGEDIAQENMIQKSETNIIEVIRD 89


>gi|325261368|ref|ZP_08128106.1| DNA-binding protein [Clostridium sp. D5]
 gi|324032822|gb|EGB94099.1| DNA-binding protein [Clostridium sp. D5]
          Length = 182

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 36/80 (45%), Gaps = 3/80 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R    MSQE+L   LG++ Q V K+E          +  + ++LE  + +
Sbjct: 1  MTLGEKIQKHRKEKSMSQEELAALLGVSRQAVSKWELNDTIPDTENVIQLGKILEVSLDY 60

Query: 73 FFDVS---PTVCSDISSEEN 89
                  P    D ++  N
Sbjct: 61 LLKPERETPDEGGDTATAGN 80


>gi|299534571|ref|ZP_07047903.1| hypothetical protein BFZC1_01042 [Lysinibacillus fusiformis ZC1]
 gi|298729944|gb|EFI70487.1| hypothetical protein BFZC1_01042 [Lysinibacillus fusiformis ZC1]
          Length = 180

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 39/77 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R+  G++QE+LGE   ++   + + E+ +N      L  I EVL S    
Sbjct: 1  MQIGAKIKALRLKKGLTQEELGERTDLSKGYISQLERDLNSPSIETLFSILEVLGSRPKD 60

Query: 73 FFDVSPTVCSDISSEEN 89
          FFD        + +EE+
Sbjct: 61 FFDDESPEQKVVYTEED 77


>gi|260855310|ref|YP_003229201.1| putative phage repressor CI [Escherichia coli O26:H11 str. 11368]
 gi|260868064|ref|YP_003234466.1| putative phage repressor protein CI [Escherichia coli O111:H- str.
           11128]
 gi|293405073|ref|ZP_06649065.1| transcriptional repressor DicA [Escherichia coli FVEC1412]
 gi|298380719|ref|ZP_06990318.1| transcriptional repressor DicA [Escherichia coli FVEC1302]
 gi|331652950|ref|ZP_08353955.1| HTH-type transcriptional regulator DicA (Repressor protein of
           divisioninhibition protein dicA) [Escherichia coli M718]
 gi|331683077|ref|ZP_08383678.1| HTH-type transcriptional regulator DicA (Repressor protein of
           divisioninhibition protein dicA) [Escherichia coli H299]
 gi|257753959|dbj|BAI25461.1| predicted phage repressor CI [Escherichia coli O26:H11 str. 11368]
 gi|257764420|dbj|BAI35915.1| predicted phage repressor protein CI [Escherichia coli O111:H- str.
           11128]
 gi|291427281|gb|EFF00308.1| transcriptional repressor DicA [Escherichia coli FVEC1412]
 gi|298278161|gb|EFI19675.1| transcriptional repressor DicA [Escherichia coli FVEC1302]
 gi|320646852|gb|EFX15716.1| transcriptional repressor DicA [Escherichia coli O157:H- str.
           493-89]
 gi|320663403|gb|EFX30700.1| transcriptional repressor DicA [Escherichia coli O55:H7 str. USDA
           5905]
 gi|331049048|gb|EGI21120.1| HTH-type transcriptional regulator DicA (Repressor protein of
           divisioninhibition protein dicA) [Escherichia coli M718]
 gi|331079292|gb|EGI50489.1| HTH-type transcriptional regulator DicA (Repressor protein of
           divisioninhibition protein dicA) [Escherichia coli H299]
          Length = 135

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 48/110 (43%), Gaps = 2/110 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+RIR RR  +G+SQ  L +  G++   +  +E          L  ++EVL+   ++
Sbjct: 4   KTLGQRIRERRKQVGLSQNGLSKAAGVSGSSISLWESDHTAPRGQNLHRLAEVLQCSPTW 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                           ++ +D   + D L++ R +  +   + + ++ EL
Sbjct: 64  ILFGDEDKTPAPPVSLDSALDL--SEDELEMLRLYRALPKSEQQAQLSEL 111


>gi|168183950|ref|ZP_02618614.1| transcriptional regulator [Clostridium botulinum Bf]
 gi|182672974|gb|EDT84935.1| transcriptional regulator [Clostridium botulinum Bf]
          Length = 92

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 29/58 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R+R  R    ++QE+LG+ L ++ Q V  YEKG N      L  I+ +    + + 
Sbjct: 3  GDRLRELREEKQLTQEELGKLLNVSRQAVSSYEKGENEPTIDALVKIANIFNVSLDYL 60


>gi|161505000|ref|YP_001572112.1| hypothetical protein SARI_03130 [Salmonella enterica subsp.
          arizonae serovar 62:z4,z23:-- str. RSK2980]
 gi|160866347|gb|ABX22970.1| hypothetical protein SARI_03130 [Salmonella enterica subsp.
          arizonae serovar 62:z4,z23:--]
          Length = 94

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 4/70 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGIT----FQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR+R+ R +  MSQE L    G++      ++  YE G +R     +  ++ VL  P  +
Sbjct: 4  KRLRIARELADMSQEDLAAAAGVSEETGSSRISHYEHGRHRPKFELVCQLARVLNVPEGY 63

Query: 73 FFDVSPTVCS 82
          F+ +  +   
Sbjct: 64 FYTLDDSFAE 73


>gi|326388802|ref|ZP_08210386.1| conserved domain protein [Novosphingobium nitrogenifigens DSM
          19370]
 gi|326206712|gb|EGD57545.1| conserved domain protein [Novosphingobium nitrogenifigens DSM
          19370]
          Length = 395

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 30/69 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+   R   G+S   L + +G++ Q + KYE          + +++  L+ P  +F
Sbjct: 8  FVGARLTEARKARGISATDLADMVGVSVQSISKYENDRQSPKLDVVHNLAATLKFPHDYF 67

Query: 74 FDVSPTVCS 82
             +P    
Sbjct: 68 LRPTPERDE 76


>gi|312126619|ref|YP_003991493.1| XRE family transcriptional regulator [Caldicellulosiruptor
          hydrothermalis 108]
 gi|311776638|gb|ADQ06124.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          hydrothermalis 108]
          Length = 118

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 37/71 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+++R  R   G +QE++ + LGIT +Q+  YE G   +  + LQ ++ +     ++  
Sbjct: 9  IGEKLRELRKQRGFTQEQVAKYLGITQEQLSYYETGAREISVATLQALARLYGCDYNYLL 68

Query: 75 DVSPTVCSDIS 85
               + + ++
Sbjct: 69 SDDEQLNTQVA 79


>gi|311068514|ref|YP_003973437.1| putative Xre family transcriptional regulator [Bacillus atrophaeus
           1942]
 gi|310869031|gb|ADP32506.1| putative transcriptional regulator (Xre family); phage SPbeta
           [Bacillus atrophaeus 1942]
          Length = 108

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/85 (24%), Positives = 38/85 (44%), Gaps = 8/85 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R   G SQ+++ + LGIT Q   KYE G      + L  +S +L     F    
Sbjct: 4   ERLKKCRTSKGYSQQQMADFLGITRQGYGKYETGKAEPDLTTLTKLSNILGVSTDFLLKG 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGL 101
                   +  + ++ + +S P+ L
Sbjct: 64  --------THAQFDLDEILSDPETL 80


>gi|218290870|ref|ZP_03494934.1| transcriptional regulator, XRE family [Alicyclobacillus
           acidocaldarius LAA1]
 gi|218239137|gb|EED06339.1| transcriptional regulator, XRE family [Alicyclobacillus
           acidocaldarius LAA1]
          Length = 161

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 26/128 (20%), Positives = 54/128 (42%), Gaps = 10/128 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R+RL R +   +QE+ G  L ++   V  YE GV    A  L  I+++ +  + +    
Sbjct: 9   SRLRLLRQMKNWTQEEFGRKLNVSKVTVSSYESGVRTPDAKTLIKIADLFDVSVDYL--- 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
              +       E    + + + D  +L   F  + +    + +++L R +   E++ +  
Sbjct: 66  ---LGRTDGKNEGYTSEVLVSEDEKELLERFRNLSENDA-KVLLQLARVL---ERRGQIS 118

Query: 137 EEECMVEQ 144
           +E   V Q
Sbjct: 119 DELSPVTQ 126


>gi|291551194|emb|CBL27456.1| Predicted transcriptional regulators [Ruminococcus torques L2-14]
          Length = 170

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 45/88 (51%), Gaps = 1/88 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK I L+R    ++QE+L E LG++ + + K+E G      S ++ + E LE  ++   D
Sbjct: 23  GKFIALKRKQKNLTQEQLAEKLGVSNKTISKWETGKCMPDYSIVKSLCEELEVTVAELMD 82

Query: 76  VSPTVCSDISS-EENNVMDFISTPDGLQ 102
              +  + + + ++  ++D +     L+
Sbjct: 83  GEISEENSVRTYDDEQILDLLRRTQELE 110


>gi|322375904|ref|ZP_08050415.1| putative repressor protein [Streptococcus sp. C300]
 gi|321279172|gb|EFX56214.1| putative repressor protein [Streptococcus sp. C300]
          Length = 228

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/120 (15%), Positives = 50/120 (41%), Gaps = 26/120 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q+++ E LGI+FQ    +E+G+      ++  +  +L+    +F   
Sbjct: 5   EKLKARRKELKLTQKEIAEQLGISFQAYSAWERGIKEPSKEKVAQLENILKVAKGYFTQ- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
                                   +++ R +  +   + + K++   R++   E+  +  
Sbjct: 64  ------------------------IEIVRLYNSL-SKQGKDKVVLYARNLAQEEQTQKVA 98


>gi|300856997|ref|YP_003781981.1| putative transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
 gi|300437112|gb|ADK16879.1| predicted transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
          Length = 120

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 33/78 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ +R++  R   G SQE+L E LG+T Q + K+E        + +  +SE+      +
Sbjct: 1  MSISERLQKLRKHEGYSQEQLAEKLGVTRQAISKWESNQGNPDINNIIKLSEIYNVSTDY 60

Query: 73 FFDVSPTVCSDISSEENN 90
                 +   I      
Sbjct: 61 LLKGEEQISKPIEINSKE 78


>gi|163761537|ref|ZP_02168609.1| hypothetical protein HPDFL43_21337 [Hoeflea phototrophica DFL-43]
 gi|162281251|gb|EDQ31550.1| hypothetical protein HPDFL43_21337 [Hoeflea phototrophica DFL-43]
          Length = 216

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 32/76 (42%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N ++  +G  +R  R  LG++   L    G++   + K E G      + LQ +S  L  
Sbjct: 27  NNLERAIGHEVRAYRKKLGITVTDLSAATGVSIGMLSKIENGNISPSLTTLQSLSRALGV 86

Query: 69  PISFFFDVSPTVCSDI 84
           P++ FF       +  
Sbjct: 87  PVTAFFKGFEEPRNAT 102


>gi|291548789|emb|CBL25051.1| Predicted transcriptional regulators [Ruminococcus torques L2-14]
          Length = 294

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 42/86 (48%), Gaps = 2/86 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + + I+  R   GMSQE++   L +  Q V K+EKG++   A  L  ++ +L+  +S   
Sbjct: 2  INENIKHFRKTRGMSQEEMAVKLNVVRQTVSKWEKGLSIPDADVLIEMANLLDVSVSQLL 61

Query: 75 --DVSPTVCSDISSEENNVMDFISTP 98
            + S     +++ E   + + ++  
Sbjct: 62 GIEESIHSNGNLAEELAELNEQLARK 87


>gi|116751481|ref|YP_848168.1| XRE family transcriptional regulator [Syntrophobacter fumaroxidans
           MPOB]
 gi|116700545|gb|ABK19733.1| transcriptional regulator, XRE family [Syntrophobacter fumaroxidans
           MPOB]
          Length = 432

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 27/103 (26%), Positives = 45/103 (43%), Gaps = 2/103 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G R++  R   G+SQ +L + +G+T   + + E  +       L  ++EVL   IS 
Sbjct: 251 IDLGLRLKELRTKRGISQTELAKSVGVTPSTISQVESNLIYPSLPALMKMAEVLSVDISS 310

Query: 73  FFDVSPTVCSD--ISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           FF            S+ E+  + F   P+G    R    ID  
Sbjct: 311 FFQERLAGKKKFVFSAMESLQVKFADFPEGSIYARALTPIDSD 353


>gi|270307510|ref|YP_003329568.1| hypothetical protein DhcVS_67 [Dehalococcoides sp. VS]
 gi|270153402|gb|ACZ61240.1| hypothetical protein DhcVS_67 [Dehalococcoides sp. VS]
          Length = 72

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 32/64 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++   G+RIR  R   G+SQE+L +  G+    +   E+G        +  IS+ L+ P+
Sbjct: 7  IEQRFGERIRNLRKQAGVSQEELADRAGVHRTYLGGIERGERNPSLKNIYAISKALKVPV 66

Query: 71 SFFF 74
          S  F
Sbjct: 67 SDLF 70


>gi|260550789|ref|ZP_05824996.1| transcriptional regulator [Acinetobacter sp. RUH2624]
 gi|260406099|gb|EEW99584.1| transcriptional regulator [Acinetobacter sp. RUH2624]
          Length = 210

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/99 (20%), Positives = 40/99 (40%), Gaps = 4/99 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +  +    + V  +VG  IR  R   G+SQ++L +  G++ + +   E G   +  ++L 
Sbjct: 24  LTYSMSQSSTVLQHVGTNIRSLRDERGLSQQELADQAGVSRRTIAALETGQVNISLAKLD 83

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
            I+ VL       F    +          NV+ +    +
Sbjct: 84  AIAIVLGVN----FRTIVSAPEHKEHALVNVLAWQGEKE 118


>gi|197285329|ref|YP_002151201.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|194682816|emb|CAR43084.1| fimbrial operon regulator [Proteus mirabilis HI4320]
          Length = 111

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/61 (34%), Positives = 36/61 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  + L R    M+  +LG+ L I+ QQ+ +YE+G+N++    L HI  + +  IS FF
Sbjct: 23 IGYELFLLRQRNSMTGAELGKLLNISQQQISRYERGINKIPIDILFHILNIFDISISDFF 82

Query: 75 D 75
          +
Sbjct: 83 E 83


>gi|302337267|ref|YP_003802473.1| XRE family transcriptional regulator [Spirochaeta smaragdinae DSM
          11293]
 gi|301634452|gb|ADK79879.1| transcriptional regulator, XRE family [Spirochaeta smaragdinae
          DSM 11293]
          Length = 222

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 26/83 (31%), Positives = 41/83 (49%), Gaps = 2/83 (2%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V++ +G RIR +R    M   +L E  G+T   + + E+ +     + L+ I + +  PI
Sbjct: 10 VNLTLGSRIRAQRNKHNMKISELAELTGLTSSTISQVERALISPSIATLKKICDAMNIPI 69

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          SF FD      +D  SEEN V  
Sbjct: 70 SFLFDG--VEENDSQSEENVVTQ 90


>gi|289168188|ref|YP_003446457.1| transcriptional regulator [Streptococcus mitis B6]
 gi|288907755|emb|CBJ22592.1| transcriptional regulator [Streptococcus mitis B6]
          Length = 287

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 29/98 (29%), Positives = 50/98 (51%), Gaps = 4/98 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + ++ R++R  LG+SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +F
Sbjct: 4   LSEKFRVKRKELGLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYF 61

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
           F+    V S++S  +      +   +   L  Y  +I+
Sbjct: 62  FNEQIEVKSNLSHFKQLSARLLDDRNYDDL-EYIYRIE 98


>gi|302342128|ref|YP_003806657.1| XRE family transcriptional regulator [Desulfarculus baarsii DSM
           2075]
 gi|301638741|gb|ADK84063.1| transcriptional regulator, XRE family [Desulfarculus baarsii DSM
           2075]
          Length = 432

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 25/94 (26%), Positives = 41/94 (43%), Gaps = 4/94 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRI+  R   G+SQ  L + +G+T   + + E          L  ++EVL   I+ FF
Sbjct: 253 LGKRIKELRGKKGLSQTDLAKMVGVTPSTISQVESNHIYPSLPALIKMAEVLSVEIASFF 312

Query: 75  DVSPTVCSDI--SSEENNVMDFISTPDGLQLNRY 106
           +        +  S+EE   +  +  P G    R 
Sbjct: 313 NDGAEDRQRVVFSAEEAVEVKLVDMPAGA--VRA 344


>gi|154499861|ref|ZP_02037899.1| hypothetical protein BACCAP_03518 [Bacteroides capillosus ATCC
           29799]
 gi|150271459|gb|EDM98716.1| hypothetical protein BACCAP_03518 [Bacteroides capillosus ATCC
           29799]
          Length = 409

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/106 (19%), Positives = 44/106 (41%), Gaps = 5/106 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+RI   R   G+SQE LGE +G++ Q V K+E        +    +S V    ++ 
Sbjct: 1   MTLGQRIAALRKEKGLSQEGLGELVGVSRQAVSKWEADKTVPDVNNCIAMSRVFGISLAG 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY-FIQIDDVKVRQ 117
             +V  ++           +    + + L +      +  + + R+
Sbjct: 61  LLEVEESLGDGAERTGGEQL----SEEQLAMVEAVVTRYLEKRKRR 102


>gi|268592700|ref|ZP_06126921.1| DNA-binding protein [Providencia rettgeri DSM 1131]
 gi|291311842|gb|EFE52295.1| DNA-binding protein [Providencia rettgeri DSM 1131]
          Length = 112

 Score = 65.6 bits (159), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 34/61 (55%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N   I  G  IR  R   G+S  +L + + ++ QQ+ +YE+G+N++    L ++S  L+ 
Sbjct: 16 NLFSIYCGLVIRKIRKENGISACELAKQVNVSQQQMSRYERGINKISIDMLFNLSVALDC 75

Query: 69 P 69
          P
Sbjct: 76 P 76


>gi|240948468|ref|ZP_04752844.1| transcription regulator [Actinobacillus minor NM305]
 gi|240297209|gb|EER47771.1| transcription regulator [Actinobacillus minor NM305]
          Length = 239

 Score = 65.2 bits (158), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 43/101 (42%), Gaps = 4/101 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR +R  LG+S+ ++ + L ++   +Q +E       AS +  I+E L    ++  
Sbjct: 11  IGNRIREQREKLGLSRNEMADRLDVSLSALQNWEMNEREPQASMIIKIAEFLGVAPNYLL 70

Query: 75  DVSPTVCSDISSEENNVMDFI----STPDGLQLNRYFIQID 111
               +   +         + +    +  D +++   F  I+
Sbjct: 71  TGEQSQPQEAKGIVARAFEALEKERTEQDEVEMLSSFESIE 111


>gi|260438757|ref|ZP_05792573.1| DNA-binding protein [Butyrivibrio crossotus DSM 2876]
 gi|292808744|gb|EFF67949.1| DNA-binding protein [Butyrivibrio crossotus DSM 2876]
          Length = 267

 Score = 65.2 bits (158), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 37/79 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R   G+SQE L E + +T Q + K+E G +      +  +S++      +
Sbjct: 1  MTLGEKIQKLRKQRGLSQEALAEKVTVTRQTISKWELGQSLPDLDFIAQLSDIFSVSSDY 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                T   ++  ++ N 
Sbjct: 61 LIKDEMTEPDELPYKKRNY 79


>gi|323140527|ref|ZP_08075454.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
 gi|322414979|gb|EFY05771.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
          Length = 71

 Score = 65.2 bits (158), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 33/63 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R++  + Q  L E +GIT Q + K E G  R     +  I++ L+  +S 
Sbjct: 7  VEMGRKIRYYRIMQELGQGMLAEQIGITPQYLSKIEHGSARPSMDLVFRIADKLQVKVSH 66

Query: 73 FFD 75
            +
Sbjct: 67 LLE 69


>gi|153955926|ref|YP_001396691.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219856268|ref|YP_002473390.1| hypothetical protein CKR_2925 [Clostridium kluyveri NBRC 12016]
 gi|146348784|gb|EDK35320.1| Predicted transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219569992|dbj|BAH07976.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 200

 Score = 65.2 bits (158), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 30/69 (43%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R+ L R    MSQ +L E LG+T Q + KYE G        L+ +S +    I +    
Sbjct: 70  NRLSLLRKSHNMSQAELAEKLGVTQQTISKYENGSREPDTETLKLLSSIFNVSIDYLLGA 129

Query: 77  SPTVCSDIS 85
           +     D +
Sbjct: 130 TNIRNHDTT 138



 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 28/58 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G++++  RM   M+Q++L + L I+   +  YE+         L+ I++  +    + 
Sbjct: 3  GEKLKKLRMDKNMTQQELAKILKISSSTIGMYEQNRRSPDIETLKLIADYFQCSTDYL 60


>gi|227892270|ref|ZP_04010075.1| XRE family transcriptional regulator [Lactobacillus salivarius ATCC
           11741]
 gi|227865911|gb|EEJ73332.1| XRE family transcriptional regulator [Lactobacillus salivarius ATCC
           11741]
          Length = 220

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 24/116 (20%), Positives = 46/116 (39%), Gaps = 15/116 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK I   R     +Q  L E LGIT Q V K+E G +   AS +  + ++L+  ++   
Sbjct: 23  IGKFIAKCRKEQNFTQANLAEKLGITNQAVSKWENGKSMPDASLMLELCQLLKISVNELL 82

Query: 75  DVSPTVCSDISS-EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           +    +  D     E N+++     +                 +K++   R + + 
Sbjct: 83  NGEKIIMKDYKKIAEQNLIELEKQKEMAD--------------KKLLTTARVLATM 124


>gi|104783607|ref|YP_610105.1| hypothetical protein PSEEN4650 [Pseudomonas entomophila L48]
 gi|95112594|emb|CAK17322.1| conserved hypothetical protein; putative DNA-binding [Pseudomonas
          entomophila L48]
          Length = 360

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 32/60 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R++  R   G+S + LG+ +G++   ++KYE   +   +  L  + + L     +FF
Sbjct: 2  IGERLKRARAAAGLSMQALGDQVGVSANMIKKYEHDQSMPSSGVLVRLCKALSVRAEYFF 61


>gi|150018438|ref|YP_001310692.1| XRE family transcriptional regulator [Clostridium beijerinckii
          NCIMB 8052]
 gi|149904903|gb|ABR35736.1| transcriptional regulator, XRE family [Clostridium beijerinckii
          NCIMB 8052]
          Length = 226

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 29/86 (33%), Positives = 45/86 (52%), Gaps = 8/86 (9%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++  R   G+SQEKL E LGI+ Q V K+E G +    +RL  +SE  +  I    + 
Sbjct: 5  EQLQTLRKAKGLSQEKLAEFLGISRQSVAKWEVGQSYPDIARLIALSEFFKVSIDKLVND 64

Query: 77 SPTVCSDISSEEN-------NVMDFI 95
              C  +S EEN       N++DF+
Sbjct: 65 YEENCR-LSIEENKVNNINRNIIDFL 89


>gi|226325615|ref|ZP_03801133.1| hypothetical protein COPCOM_03428 [Coprococcus comes ATCC 27758]
 gi|225205739|gb|EEG88093.1| hypothetical protein COPCOM_03428 [Coprococcus comes ATCC 27758]
          Length = 279

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 36/70 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R   G++QE++ + L ++   V K+EKG      S L  I+ +L+  ++ 
Sbjct: 1  MQIGEKIKNYRKTAGLTQEQVADYLDVSTPAVNKWEKGNTYPDISLLPAIARLLKIDMNE 60

Query: 73 FFDVSPTVCS 82
           F     +  
Sbjct: 61 LFSFREELTE 70


>gi|154501006|ref|ZP_02039044.1| hypothetical protein BACCAP_04693 [Bacteroides capillosus ATCC
          29799]
 gi|150270030|gb|EDM97549.1| hypothetical protein BACCAP_04693 [Bacteroides capillosus ATCC
          29799]
          Length = 297

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 24/81 (29%), Positives = 39/81 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ IR  R   GM+Q++L + L IT + V K+E+G+     S L+ ++E L   +     
Sbjct: 7  GQLIRDLRKEKGMTQKELADKLHITDRAVSKWERGLCAPEISLLEPLAEALGCSVLDLMA 66

Query: 76 VSPTVCSDISSEENNVMDFIS 96
             T  +  S EE    D + 
Sbjct: 67 GERTAKAADSQEEARTRDVLH 87


>gi|317120863|ref|YP_004100866.1| hypothetical protein Tmar_0014 [Thermaerobacter marianensis DSM
           12885]
 gi|315590843|gb|ADU50139.1| helix-turn-helix domain protein [Thermaerobacter marianensis DSM
           12885]
          Length = 131

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 29/110 (26%), Positives = 52/110 (47%), Gaps = 9/110 (8%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--- 74
           R+R  R   G++Q +L   +G++ Q +  YE G      + +Q ++ VL + IS+     
Sbjct: 6   RLRKMREARGLTQRELATAIGVSRQAIGLYEAGEREPDLTTIQKLAHVLRTSISYLVGET 65

Query: 75  -DVSPTVCSDISS--EENNVMDFISTPDGLQLNRYFIQID---DVKVRQK 118
            D SP   S +++  E  +  D +     L + R F +I    + K RQ+
Sbjct: 66  DDPSPLPRSGVAAHREGTDPGDPLDPEVQLIMERAFREISRKLEEKWRQR 115


>gi|331087042|ref|ZP_08336117.1| hypothetical protein HMPREF0987_02420 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330409492|gb|EGG88935.1| hypothetical protein HMPREF0987_02420 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 296

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 38/88 (43%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +I+  R    MSQE+L   L +  Q V K+E  ++   A  L  ++EVL   ++   
Sbjct: 2   LGDQIKKYRKEKKMSQEELAIPLNVVRQTVSKWENNLSVPDAELLIRLAEVLGISVAELL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQ 102
                  S+  S E   ++     + L 
Sbjct: 62  GTDEQPHSESLSAETLAIELARLNEELA 89


>gi|325663518|ref|ZP_08151928.1| hypothetical protein HMPREF0490_02669 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|325470417|gb|EGC73648.1| hypothetical protein HMPREF0490_02669 [Lachnospiraceae bacterium
           4_1_37FAA]
          Length = 296

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 38/88 (43%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +I+  R    MSQE+L   L +  Q V K+E  ++   A  L  ++EVL   ++   
Sbjct: 2   LGDQIKKYRKEKKMSQEELAIPLNVVRQTVSKWENNLSVPDAELLIRLAEVLGISVAELL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQ 102
                  S+  S E   ++     + L 
Sbjct: 62  GTDEQPHSESLSAETLAIELARLNEELA 89


>gi|167761576|ref|ZP_02433703.1| hypothetical protein CLOSCI_03987 [Clostridium scindens ATCC 35704]
 gi|167660719|gb|EDS04849.1| hypothetical protein CLOSCI_03987 [Clostridium scindens ATCC 35704]
          Length = 476

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 23/104 (22%), Positives = 44/104 (42%), Gaps = 5/104 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++GK I  RR     SQE +   +G++ Q V K+EK ++      +  ++E+L   +  
Sbjct: 6   MSLGKNIASRRKSQNFSQEDIATLVGVSRQAVSKWEKDLSSPSTENIIRLAEILRVSVEE 65

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN---RYFIQIDDV 113
                P        + +     +S    L L    R FI++ + 
Sbjct: 66  LTGGRPAAAGRDREDRSVYR--VSDSRYLWLLIKDRLFIRLANP 107


>gi|291456538|ref|ZP_06595928.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bifidobacterium breve DSM 20213]
 gi|291381815|gb|EFE89333.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bifidobacterium breve DSM 20213]
          Length = 137

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 28/97 (28%), Positives = 48/97 (49%), Gaps = 5/97 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG+ IR  R + GM+Q +L E +G+T   V+ YE G+  V    L+ I++ L   ++ 
Sbjct: 1   MSVGENIRRYRKLRGMTQAQLAEAVGLTEGAVRHYESGIRAVKPELLESIADTLGVSVNA 60

Query: 73  FFDVSPTVCSDISS-----EENNVMDFISTPDGLQLN 104
             D       D+ S     E++  +   +   GL LN
Sbjct: 61  LKDYGVENAGDLMSLLVRLEDSFGIVPAADGAGLSLN 97


>gi|166032918|ref|ZP_02235747.1| hypothetical protein DORFOR_02639 [Dorea formicigenerans ATCC
          27755]
 gi|166027275|gb|EDR46032.1| hypothetical protein DORFOR_02639 [Dorea formicigenerans ATCC
          27755]
          Length = 298

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 25/86 (29%), Positives = 44/86 (51%), Gaps = 1/86 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GK I  +R  LGM+Q++L E LG++ + V K+E+GV     S  + +  +L   ++ 
Sbjct: 4  IKIGKYIASKRKSLGMTQKQLAEKLGMSDKSVSKWERGVCLPDVSVYKELCSILGISLNE 63

Query: 73 FFDVSPTVCSD-ISSEENNVMDFIST 97
          F         + I   E N+++ I  
Sbjct: 64 FLAGEDIAQENLIQKSETNIIEVIKD 89


>gi|116617221|ref|YP_817592.1| hypothetical protein LEUM_0067 [Leuconostoc mesenteroides subsp.
          mesenteroides ATCC 8293]
 gi|116096068|gb|ABJ61219.1| hypothetical protein LEUM_0067 [Leuconostoc mesenteroides subsp.
          mesenteroides ATCC 8293]
          Length = 240

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 43/85 (50%), Gaps = 1/85 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R   G++Q++  E L I+FQ V  +E+         +  I E  + P+  
Sbjct: 1  MEIGNKIKALRKKNGLTQQQFAEKLYISFQSVSNWERHKGHPTTEMMLLIIEKFDLPLD- 59

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
          FF + PT   + + EE  ++ F++ 
Sbjct: 60 FFIIPPTNSCEDNDEELILLSFLAN 84


>gi|291535748|emb|CBL08860.1| Predicted transcription factor, homolog of eukaryotic MBF1
           [Roseburia intestinalis M50/1]
 gi|291538243|emb|CBL11354.1| Predicted transcription factor, homolog of eukaryotic MBF1
           [Roseburia intestinalis XB6B4]
          Length = 334

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 5/106 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + ++I   R   G SQE+L E L ++ Q V K+E   +     R+  +SE+      +
Sbjct: 1   MILAEKIMEERKKNGWSQEELAEKLSVSRQAVSKWESAQSIPDLQRVIQLSEIFGVSTDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
                      I   E +  DF      ++    F+     +VR+K
Sbjct: 61  LLKDECETPQPIEGVEPSDKDFPLKKVSVEDANDFM-----EVRKK 101


>gi|54022032|ref|YP_116274.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
 gi|54013540|dbj|BAD54910.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
          Length = 202

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 21/64 (32%), Positives = 34/64 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ IR RR  LG+ Q +L E +G+T +Q+ +YE G     AS  + ++  L    +  F
Sbjct: 5  IGEIIRDRREALGLGQRELSERVGVTERQIGRYESGAQEPAASTCRLLARALHLSFAQLF 64

Query: 75 DVSP 78
             P
Sbjct: 65 GEVP 68


>gi|306824522|ref|ZP_07457868.1| hypothetical transcriptional regulator [Streptococcus sp. oral
           taxon 071 str. 73H25AP]
 gi|304433309|gb|EFM36279.1| hypothetical transcriptional regulator [Streptococcus sp. oral
           taxon 071 str. 73H25AP]
          Length = 228

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 18/121 (14%), Positives = 53/121 (43%), Gaps = 26/121 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q+++ E LGI+FQ    +E+G+      ++  + ++L+    +F   
Sbjct: 5   EKLKARRKELKLTQKEIAEELGISFQAYSAWERGIKEPSKEKVAQLEKILKVAKGYFTQ- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
                                   +++ R +  +   + + K++   R++   E+  + +
Sbjct: 64  ------------------------IEIVRLYNSL-SKQGKDKVVLYARNLAQEEQAQKVM 98

Query: 137 E 137
           +
Sbjct: 99  D 99


>gi|293397473|ref|ZP_06641725.1| conserved hypothetical protein [Serratia odorifera DSM 4582]
 gi|291420052|gb|EFE93329.1| conserved hypothetical protein [Serratia odorifera DSM 4582]
          Length = 138

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 26/117 (22%), Positives = 52/117 (44%), Gaps = 15/117 (12%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           KR++  R+  G +QE+L E +GI    +  ++  YE G      S +  I+ +L+ P  +
Sbjct: 22  KRLKYARISNGYTQEQLAELVGIQGANSSSRLSSYEVGRTEPPFSLVVKIANLLDYPEYY 81

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ--IDDVKVRQKIIELVRSIV 127
           F+ +   + SD+     N  +             F    I++ K+ +K+ E  + + 
Sbjct: 82  FYTIDDDLASDLLEMHRNRTNPTKNK--------FYSSVIEEKKLSKKVDE-AKRLA 129


>gi|212709326|ref|ZP_03317454.1| hypothetical protein PROVALCAL_00361 [Providencia alcalifaciens
          DSM 30120]
 gi|212688238|gb|EEB47766.1| hypothetical protein PROVALCAL_00361 [Providencia alcalifaciens
          DSM 30120]
          Length = 112

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 23/71 (32%), Positives = 32/71 (45%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +K   N     +GK +R  R   G S  K+ + LGI+ Q   +YE G  R+    L  I 
Sbjct: 8  SKPESNIYSFIIGKELRCIRKRKGFSGAKIAKQLGISQQHYSRYECGKCRISVDTLLSIL 67

Query: 64 EVLESPISFFF 74
           VL+     FF
Sbjct: 68 FVLDFDFGDFF 78


>gi|78222436|ref|YP_384183.1| XRE family transcriptional regulator [Geobacter metallireducens
           GS-15]
 gi|78193691|gb|ABB31458.1| transcriptional regulator, XRE family [Geobacter metallireducens
           GS-15]
          Length = 173

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 22/97 (22%), Positives = 44/97 (45%), Gaps = 3/97 (3%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECL--GITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+  ++G+ ++  R    ++Q+ L   +  G+ +  + K E+G        L  +S  L 
Sbjct: 30  PLSCDIGRELKRLRKDRELTQKDLAARVDGGLDYTYIGKIERGEQLPSLKMLMGLSAALG 89

Query: 68  SPISFFF-DVSPTVCSDISSEENNVMDFISTPDGLQL 103
            P+S FF + SP   S +   +++V       +  QL
Sbjct: 90  VPVSHFFQEESPATNSPLRMADSDVKSMELHKELRQL 126


>gi|269122513|ref|YP_003310690.1| XRE family transcriptional regulator [Sebaldella termitidis ATCC
          33386]
 gi|268616391|gb|ACZ10759.1| transcriptional regulator, XRE family [Sebaldella termitidis ATCC
          33386]
          Length = 127

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 39/71 (54%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++GKRI+ RR  LG +QE+L E +G  +   + K E G+N +  S++   +++L++  S
Sbjct: 1  MSIGKRIKKRREELGYTQEQLAEKMGYKSKSTINKIEAGINDITQSKITAFAKILKTTPS 60

Query: 72 FFFDVSPTVCS 82
          +          
Sbjct: 61 YLMGWEDEESE 71


>gi|160915490|ref|ZP_02077701.1| hypothetical protein EUBDOL_01498 [Eubacterium dolichum DSM 3991]
 gi|158432610|gb|EDP10899.1| hypothetical protein EUBDOL_01498 [Eubacterium dolichum DSM 3991]
          Length = 110

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 39/77 (50%), Gaps = 1/77 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++  R   G+SQ  LG+ LG+  Q +  +E G +      +  + E L+ P+ +F + 
Sbjct: 15 EKLKAVRKQKGLSQAALGKLLGVQTQTISNWENGKSEPNLKTINKLCEALDVPLRYFIN- 73

Query: 77 SPTVCSDISSEENNVMD 93
             V   ++ EE  V++
Sbjct: 74 EERVDYQLTLEEAFVIN 90


>gi|308273674|emb|CBX30276.1| hypothetical protein N47_D30850 [uncultured Desulfobacterium sp.]
          Length = 433

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 2/80 (2%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+    +D  +G R++  R   G SQ +L + +G+T   + + E          L  I+E
Sbjct: 246 KRTQTQLD--LGTRLKEIRSKRGFSQTELAKLIGVTSSTISQIESNQIYPSLPALIKIAE 303

Query: 65  VLESPISFFFDVSPTVCSDI 84
            L   IS FF    TV   +
Sbjct: 304 TLSVKISSFFGELDTVSEQV 323


>gi|254390107|ref|ZP_05005328.1| transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|326441822|ref|ZP_08216556.1| helix-turn-helix domain protein [Streptomyces clavuligerus ATCC
           27064]
 gi|197703815|gb|EDY49627.1| transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
          Length = 420

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 32/120 (26%), Positives = 55/120 (45%), Gaps = 10/120 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I+  R   G+SQE+L E  G++   VQK E+G   V    L  I+  L    S  F
Sbjct: 5   IGDNIKRYRRAEGLSQEELAEKAGLSVSTVQKAEQGRGAVRTQTLHTIARGLGVTTSALF 64

Query: 75  DVSP--TVCSDISSEENNVM--DFISTPDGLQ--LNRYFIQIDD-VKVRQKII---ELVR 124
              P   V  D +++++ V     +  P G+   L     ++ D   +R++++   +L R
Sbjct: 65  VAGPPEPVVGDDATKQSLVAIRAALMPPIGIDGVLVASVPKVGDLSALRRRVLAIHDLYR 124


>gi|169826912|ref|YP_001697070.1| hypothetical protein Bsph_1332 [Lysinibacillus sphaericus C3-41]
 gi|168991400|gb|ACA38940.1| conserved hypothetical protein [Lysinibacillus sphaericus C3-41]
          Length = 180

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 39/77 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R+  G++QE+LGE   ++   + + E+ +N      L  I EVL S    
Sbjct: 1  MQIGAKIKALRLKKGLTQEELGERTDLSKGYISQLERDLNSPSIETLFSILEVLGSTPKE 60

Query: 73 FFDVSPTVCSDISSEEN 89
          FFD        + +EE+
Sbjct: 61 FFDDESPEQKVVYTEED 77


>gi|149013606|ref|ZP_01834177.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP19-BS75]
 gi|147762797|gb|EDK69752.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP19-BS75]
 gi|301793448|emb|CBW35821.1| Transcriptional regulator [Streptococcus pneumoniae INV104]
          Length = 288

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 28/98 (28%), Positives = 47/98 (47%), Gaps = 3/98 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++ RR  L MSQ +L E  GI  Q Q+ + E G    GA  L  +++ L+  + +FFD 
Sbjct: 8   RLKNRRKELKMSQRELAE--GICKQGQISRLESGEFTPGADFLHALAKKLKVSMDYFFDE 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
                 +  SE   +     T    +  +Y  ++++VK
Sbjct: 66  QVVEKVEELSEFKKLAQTFITNRNYESLKYIYELENVK 103


>gi|57235098|ref|YP_182252.1| DNA-binding protein [Dehalococcoides ethenogenes 195]
 gi|57225546|gb|AAW40603.1| DNA-binding protein [Dehalococcoides ethenogenes 195]
          Length = 72

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 31/64 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++   G+RIR  R   G+SQE+L +  G+    +   E+G        +  IS  L+ P+
Sbjct: 7  IEQRFGERIRDLRKKAGVSQEELADRAGVHRTYLGGIERGERNPSLKNIYAISRALKVPV 66

Query: 71 SFFF 74
          S  F
Sbjct: 67 SDLF 70


>gi|331265721|ref|YP_004325351.1| transcriptional regulator, putative [Streptococcus oralis Uo5]
 gi|326682393|emb|CBZ00010.1| transcriptional regulator, putative [Streptococcus oralis Uo5]
          Length = 228

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 18/119 (15%), Positives = 50/119 (42%), Gaps = 26/119 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q+++ E LGI+FQ    +E+G+      ++  +  +L+    +F   
Sbjct: 5   EKLKARRKELKLTQKEIAEGLGISFQAYSAWERGIKEPSKEKVAQLENILKVAKGYFTQ- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                                   +++ R +  +   + + K++   R++   E+  + 
Sbjct: 64  ------------------------IEIVRLYNSL-SKQGKDKVVLYARNLAQEEQTQKV 97


>gi|290968677|ref|ZP_06560215.1| DNA-binding protein [Megasphaera genomosp. type_1 str. 28L]
 gi|290781330|gb|EFD93920.1| DNA-binding protein [Megasphaera genomosp. type_1 str. 28L]
          Length = 226

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 26/82 (31%), Positives = 44/82 (53%), Gaps = 3/82 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          VGKRI+ +R    M+ + +   LG+T   VQ+YE G ++ V    LQ I ++L    +F 
Sbjct: 10 VGKRIKKQRKQNNMTLKDIAVKLGVTESTVQRYETGNISNVSIEMLQKIGKILLVSPAFL 69

Query: 74 F--DVSPTVCSDISSEENNVMD 93
             D +  V SD+ + ++  +D
Sbjct: 70 LGWDSAEKVVSDLEAHKHKFLD 91


>gi|225390137|ref|ZP_03759861.1| hypothetical protein CLOSTASPAR_03887 [Clostridium asparagiforme
          DSM 15981]
 gi|225043790|gb|EEG54036.1| hypothetical protein CLOSTASPAR_03887 [Clostridium asparagiforme
          DSM 15981]
          Length = 194

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 20/58 (34%), Positives = 31/58 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G++Q +L   + I+ Q V K+E+G+     S L  +SEVL    
Sbjct: 4  VKIGKLIRALRKDQGLTQRQLAAAMNISEQAVSKWERGLGFPDVSLLPELSEVLGVSP 61


>gi|293376878|ref|ZP_06623096.1| DNA-binding protein [Turicibacter sanguinis PC909]
 gi|292644488|gb|EFF62580.1| DNA-binding protein [Turicibacter sanguinis PC909]
          Length = 330

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 4/78 (5%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G +I   R   GMSQE+L   LG+T Q +  +E+G+ +     L  ++ + E+ +   
Sbjct: 5  QLGTQIATLRKRRGMSQEELANQLGVTRQAISNWERGMTQPDLEMLMKLAAIFETDL--- 61

Query: 74 FDVSPTVCSDISSEENNV 91
           D    + SDI  E   +
Sbjct: 62 -DGLIGIKSDIKEEPVEL 78


>gi|291521206|emb|CBK79499.1| Helix-turn-helix [Coprococcus catus GD/7]
          Length = 128

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 2/94 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GKRIR RR+ L M Q +L E + I+   +   E+G+ R G      I +VL+    +
Sbjct: 9   VEMGKRIRTRRLSLKMKQMELAEEVDISNNHISSIERGIERPGLDSFIRICDVLDVTPDY 68

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
               S    +   +  +N+   + T + ++L   
Sbjct: 69  LLLGSMKSNNVPKNITDNLK--LCTDEEIRLVEA 100


>gi|158522276|ref|YP_001530146.1| XRE family transcriptional regulator [Desulfococcus oleovorans
           Hxd3]
 gi|158511102|gb|ABW68069.1| transcriptional regulator, XRE family [Desulfococcus oleovorans
           Hxd3]
          Length = 433

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 31/78 (39%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R   GMSQ  L   +G+T   + + E          L  +SE+L   + +FF
Sbjct: 253 LGLRIKELRTKKGMSQVALARGIGVTPSTISQVENNQIFPSVPALIKMSEILSVDVGYFF 312

Query: 75  DVSPTVCSDISSEENNVM 92
                    +   E   M
Sbjct: 313 QTGAGSAPRVVFSEFEAM 330


>gi|219856265|ref|YP_002473387.1| hypothetical protein CKR_2922 [Clostridium kluyveri NBRC 12016]
 gi|219569989|dbj|BAH07973.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 108

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 28/102 (27%), Positives = 44/102 (43%), Gaps = 7/102 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G R+   R +  +SQ KL   L +    + K EKG  +     L  I E     +S 
Sbjct: 6   IDIGNRVIKLRKLHKISQNKLAISLNVAAATINKIEKGTAKPSIDLLIKICEFFSITLSE 65

Query: 73  FFDVSPTVCSDISSEE-----NNVMDFISTPDGLQLNRYFIQ 109
           FF+        I + +     +N  D   TP+ L+L   FI+
Sbjct: 66  FFNNGNNSEPVILNPQLKELLDNAKDL--TPEQLELLSKFIK 105


>gi|268611043|ref|ZP_06144770.1| transcriptional regulator [Ruminococcus flavefaciens FD-1]
          Length = 78

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 31/63 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GKRI+  R    ++Q +L E L ++   V KYE G       R+  I+++ +    + + 
Sbjct: 10 GKRIKALRKKNNLTQCQLAELLHMSRSTVLKYETGRQIPPVDRICDIADIFDVSTDYLYG 69

Query: 76 VSP 78
          VS 
Sbjct: 70 VSD 72


>gi|313885249|ref|ZP_07819001.1| DNA-binding helix-turn-helix protein [Eremococcus coleocola
          ACS-139-V-Col8]
 gi|312619940|gb|EFR31377.1| DNA-binding helix-turn-helix protein [Eremococcus coleocola
          ACS-139-V-Col8]
          Length = 371

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 31/60 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I++ R   G++QE L E LG+T   V K+E+G        L  I++  +  +   F
Sbjct: 7  VGPQIKIFRKQKGLTQEALAEALGVTVSAVSKWERGQTLPDLPTLLEIAQFFQISLDVLF 66


>gi|319637930|ref|ZP_07992696.1| XRE family Transcriptional regulator [Neisseria mucosa C102]
 gi|317401085|gb|EFV81740.1| XRE family Transcriptional regulator [Neisseria mucosa C102]
          Length = 86

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 23/66 (34%), Positives = 37/66 (56%), Gaps = 4/66 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R +  R    ++QEKLG  +G    +   ++ +YEKG ++   + LQ I+EVLE P +F
Sbjct: 9  RRFKEARKAKNLTQEKLGLAIGLDEFVASTRINRYEKGNHQPDLNTLQKIAEVLEVPPAF 68

Query: 73 FFDVSP 78
          FF    
Sbjct: 69 FFSDDE 74


>gi|160945921|ref|ZP_02093147.1| hypothetical protein FAEPRAM212_03454 [Faecalibacterium
          prausnitzii M21/2]
 gi|158443652|gb|EDP20657.1| hypothetical protein FAEPRAM212_03454 [Faecalibacterium
          prausnitzii M21/2]
          Length = 169

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 32/57 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++I+  R  +G+SQEKL E +G++ Q + K+E G+      ++  +SE  +    + 
Sbjct: 12 EKIQRERKKMGLSQEKLAEKIGVSRQAITKWENGLASPELEKIVSLSECFKVSTDYL 68


>gi|134298741|ref|YP_001112237.1| XRE family transcriptional regulator [Desulfotomaculum reducens
          MI-1]
 gi|134051441|gb|ABO49412.1| transcriptional regulator, XRE family [Desulfotomaculum reducens
          MI-1]
          Length = 77

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 34/68 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G +I+  R   G+SQ +L   +G+T   + K E G        L+ I+  L+  ++ 
Sbjct: 5  IQLGHKIKNLREKKGLSQVQLAHMVGVTNSLICKIETGQTSGSIHTLKKIANKLDVSVNI 64

Query: 73 FFDVSPTV 80
          FF+   +V
Sbjct: 65 FFEDDSSV 72


>gi|315611793|ref|ZP_07886715.1| hypothetical transcriptional regulator [Streptococcus sanguinis
           ATCC 49296]
 gi|315316208|gb|EFU64238.1| hypothetical transcriptional regulator [Streptococcus sanguinis
           ATCC 49296]
          Length = 228

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 18/120 (15%), Positives = 50/120 (41%), Gaps = 26/120 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q+++ E LGI+FQ    +E+G+      ++  +  +L+    +F   
Sbjct: 5   EKLKARRKELKLTQKEIAEELGISFQAYSAWERGIKEPSKEKVAQLENILKVARGYFTQ- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
                                   +++ R +  +   + + K++   R++   E+  +  
Sbjct: 64  ------------------------IEIVRLYNSL-SKQGKDKVVLYARNLAQEEQTQKVA 98


>gi|326797834|ref|YP_004315653.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
 gi|326548598|gb|ADZ76983.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
          Length = 130

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 29/131 (22%), Positives = 56/131 (42%), Gaps = 11/131 (8%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G++I   R + GM QE L   LG++ Q V   EK    + A  L  ++ +L       
Sbjct: 9   HIGRKISRIRELRGMKQEALAIELGVSQQTVSNMEKSAA-IEADLLAQVASILGV----- 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
              +  + +       N+++          N Y   I+ +    KI+EL   ++ +EK+ 
Sbjct: 63  --TTEAIENFSEEAVFNIINNTFQDSSSNNNNYLCTINPL---DKIVELYERLLEAEKEK 117

Query: 134 RTIEEECMVEQ 144
            T   + + E+
Sbjct: 118 NTYLGKLLEER 128


>gi|291548676|emb|CBL24938.1| Helix-turn-helix [Ruminococcus torques L2-14]
          Length = 129

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 58/120 (48%), Gaps = 2/120 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           + +G+RI+ RR  LGMSQE+L   +G  +   + K E G+  +  S+++ I++ L++  +
Sbjct: 1   MTIGERIKARRDELGMSQEELAHKIGYKSKTSINKIELGIQELRQSKIKQIADALQTTPA 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           +      T       +   +       D   +   ++ + D   +  +  ++ S++S+EK
Sbjct: 61  YIMGWKETEEDQQLKKCRELFKKCHGSDAYDVVSLYLTL-DESDKNVVKTMIESLLSAEK 119


>gi|166032287|ref|ZP_02235116.1| hypothetical protein DORFOR_01990 [Dorea formicigenerans ATCC
          27755]
 gi|166028010|gb|EDR46767.1| hypothetical protein DORFOR_01990 [Dorea formicigenerans ATCC
          27755]
          Length = 351

 Score = 65.2 bits (158), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 36/70 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R   G++QE++ + L ++   V K+EKG      S L  I+ +L+  ++ 
Sbjct: 1  MQIGEKIKNYRKTAGLTQEQVADYLDVSTPAVNKWEKGNTYPDISLLPAIARLLKIDMNE 60

Query: 73 FFDVSPTVCS 82
           F     +  
Sbjct: 61 LFSFREELTE 70


>gi|225861745|ref|YP_002743254.1| transcriptional activator [Streptococcus pneumoniae Taiwan19F-14]
 gi|298229349|ref|ZP_06963030.1| transcriptional activator [Streptococcus pneumoniae str. Canada
           MDR_19F]
 gi|298255903|ref|ZP_06979489.1| transcriptional activator [Streptococcus pneumoniae str. Canada
           MDR_19A]
 gi|298503691|ref|YP_003725631.1| transcriptional activator [Streptococcus pneumoniae TCH8431/19A]
 gi|225726429|gb|ACO22280.1| transcriptional activator [Streptococcus pneumoniae Taiwan19F-14]
 gi|298239286|gb|ADI70417.1| transcriptional activator [Streptococcus pneumoniae TCH8431/19A]
          Length = 287

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  LG+SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELGLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +      Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRN-YDNLEYIYRIE 98


>gi|114326843|ref|YP_744000.1| transcriptional regulator [Granulibacter bethesdensis CGDNIH1]
 gi|114315017|gb|ABI61077.1| transcriptional regulator [Granulibacter bethesdensis CGDNIH1]
          Length = 225

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 32/72 (44%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P  ++  +G ++R  R  LG++   L     ++   + K E G      + LQ +S  L 
Sbjct: 37  PASLEAAIGAKVRRLRQRLGITAADLAVEADLSAGMLSKIENGSTSPSLATLQALSRALN 96

Query: 68  SPISFFFDVSPT 79
           +PIS FF     
Sbjct: 97  TPISSFFSDFDE 108


>gi|295107448|emb|CBL04991.1| Helix-turn-helix. [Gordonibacter pamelaeae 7-10-1-b]
          Length = 137

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 24/74 (32%), Positives = 37/74 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++VG+ IR  R   GM+Q +L E +G+T   V+ YE G+  V    L+ IS  L   ++ 
Sbjct: 1  MSVGENIRRYRKSRGMTQAQLAEAVGLTEGAVRHYESGIRAVKPELLESISAALGVSVNA 60

Query: 73 FFDVSPTVCSDISS 86
            D       D+ S
Sbjct: 61 LKDYGVETAGDLMS 74


>gi|261823599|ref|YP_003261705.1| XRE family transcriptional regulator [Pectobacterium wasabiae
           WPP163]
 gi|261607612|gb|ACX90098.1| transcriptional regulator, XRE family [Pectobacterium wasabiae
           WPP163]
          Length = 108

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 25/112 (22%), Positives = 51/112 (45%), Gaps = 25/112 (22%)

Query: 17  KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +R++  R++ G+SQ+ LG   G    +   ++ +YEKGV        Q ++E L+ P+++
Sbjct: 13  QRLKDARLLRGLSQKGLGIAAGIDEFVASARINRYEKGVYEASIETAQQLAEALDVPLAY 72

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           F+  +                     +  ++   F+ +   K R +I+ LVR
Sbjct: 73  FYTEND--------------------ELAEMMLAFLALSPEK-RAEILALVR 103


>gi|261346297|ref|ZP_05973941.1| DNA-binding protein [Providencia rustigianii DSM 4541]
 gi|282565609|gb|EFB71144.1| DNA-binding protein [Providencia rustigianii DSM 4541]
          Length = 113

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 30/63 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ +R  R + G S  K+ + LG++ Q   +YE G  R+    L     +L+   S FF+
Sbjct: 20 GRELRRIRKMKGFSGAKIAKQLGVSQQHYSRYECGKCRISIDTLLISLAILDFDFSDFFN 79

Query: 76 VSP 78
             
Sbjct: 80 EMK 82


>gi|291532130|emb|CBK97715.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
          Length = 106

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 37/91 (40%), Gaps = 2/91 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G+R++  R+  GM+QE+L E + +T   +  YE          +  I+ V      +
Sbjct: 2   VKFGERVKQLRLSAGMTQEQLAERIWVTKAAISNYELSERNPSPETIIKIAGVFGVTTDY 61

Query: 73  FFDVSPTVCS--DISSEENNVMDFISTPDGL 101
            F +        DIS      + F+ +   L
Sbjct: 62  LFGLEDKRSRTLDISGLCEEDIRFLQSAAAL 92


>gi|257438372|ref|ZP_05614127.1| toxin-antitoxin system, antitoxin component, Xre family
           [Faecalibacterium prausnitzii A2-165]
 gi|257199203|gb|EEU97487.1| toxin-antitoxin system, antitoxin component, Xre family
           [Faecalibacterium prausnitzii A2-165]
          Length = 119

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 55/123 (44%), Gaps = 16/123 (13%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +PN     +G+++R  R + G++QE+L E   ++ + +   EKG        L  I+ +L
Sbjct: 2   MPNSDLKVLGEKVRKERKLAGLTQEQLAERCHVSTKHIANIEKGSMNPSYEILLAIARIL 61

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             P+S    +   +   +   E  + +F         NR ++   +  VR+ +++  R++
Sbjct: 62  --PVS----LDALITPGMGKTEIELKEF---------NRIYLSCPEA-VRETLMDSTRTL 105

Query: 127 VSS 129
              
Sbjct: 106 AKH 108


>gi|222530625|ref|YP_002574507.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
          DSM 6725]
 gi|222457472|gb|ACM61734.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          bescii DSM 6725]
          Length = 118

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 33/71 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKR++  R   G +QE++ + LGIT +Q+  YE G   V    L  ++ +     ++  
Sbjct: 9  IGKRLQELRKQRGFTQEQVAKYLGITQEQLSHYENGKREVSVDILLQLARLYGCDYNYLL 68

Query: 75 DVSPTVCSDIS 85
                   I+
Sbjct: 69 GEEQNTDEQIT 79


>gi|153953935|ref|YP_001394700.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219854549|ref|YP_002471671.1| hypothetical protein CKR_1206 [Clostridium kluyveri NBRC 12016]
 gi|146346816|gb|EDK33352.1| Transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219568273|dbj|BAH06257.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 179

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 17/92 (18%), Positives = 39/92 (42%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G +IR  R    +S E+L E   ++   + + E+ +     + L  I++ L   I++
Sbjct: 1   MEFGLKIRKLRQEKSISIEQLAERAKLSTGLISQVERNITGPSVTTLWKIAKALNVSINY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           FFD      + +  ++   +    +    +L 
Sbjct: 61  FFDEYEEKDNVVRKDKRKTIILPDSKITYELL 92


>gi|284009381|emb|CBA76570.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 137

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 21/121 (17%), Positives = 54/121 (44%), Gaps = 1/121 (0%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            ++G+RIRLRR  L ++Q++LG+ +G++   + ++EK         L  +++ L     +
Sbjct: 4   KSIGERIRLRRKELELTQKQLGKRVGVSHVAISQWEKEETEPKGDNLLSLADALMCTAEY 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
               + +        +      ++  +   L   F  + + + +  + E+  +  + E+ 
Sbjct: 64  ILRGTTSEKPIRCDNDTYKYSRLTKREE-NLLEMFNALTEDEQKNYLKEITETRANLERI 122

Query: 133 Y 133
           Y
Sbjct: 123 Y 123


>gi|296450909|ref|ZP_06892658.1| helix-turn-helix domain protein [Clostridium difficile NAP08]
 gi|296878611|ref|ZP_06902616.1| helix-turn-helix domain protein [Clostridium difficile NAP07]
 gi|296260281|gb|EFH07127.1| helix-turn-helix domain protein [Clostridium difficile NAP08]
 gi|296430418|gb|EFH16260.1| helix-turn-helix domain protein [Clostridium difficile NAP07]
          Length = 258

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++I   R   G+SQE L E +G T Q + K+E         +L  +S + E    +
Sbjct: 1  MSLGEKIFKLRKEKGISQEALAEQIGTTRQAISKWENNQGFPETEKLLQLSNIFEVSTDY 60

Query: 73 FFDVSPTVCS 82
                 V +
Sbjct: 61 LLKDEKNVKN 70


>gi|310644824|ref|YP_003949583.1| transcriptional regulator [Paenibacillus polymyxa SC2]
 gi|309249775|gb|ADO59342.1| Transcriptional regulator [Paenibacillus polymyxa SC2]
          Length = 114

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 2/89 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG RIR  R   G +QE+L E  G+ +  +   E+G   +    L+ I   L+ P    F
Sbjct: 7   VGNRIRELRKAKGWTQEQLAEAAGLHYSYIGGVERGDRNISLETLEKIILALKVPPFELF 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL 103
               T   D     N +M  I++ +  +L
Sbjct: 67  QFDETT--DRKQIINELMLLINSRETTEL 93


>gi|218516214|ref|ZP_03513054.1| putative transcriptional regulator protein [Rhizobium etli 8C-3]
          Length = 89

 Score = 64.8 bits (157), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 22/43 (51%), Positives = 31/43 (72%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV 51
          +PVD +VG++IR+RRM   +S   LG  +G++ QQVQKYE G 
Sbjct: 47 HPVDRHVGQQIRIRRMQSNVSLGDLGAGIGVSLQQVQKYESGK 89


>gi|311031583|ref|ZP_07709673.1| transcriptional regulator [Bacillus sp. m3-13]
          Length = 295

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/63 (36%), Positives = 38/63 (60%), Gaps = 1/63 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I++ R  L +SQ +L E +  T  Q+ K EKG     A+ L +I+E L   I++F+
Sbjct: 6  IGKEIKVLRSALNLSQAELSEGI-CTQSQISKIEKGEVFPLANTLYYIAERLGVDINYFY 64

Query: 75 DVS 77
          D++
Sbjct: 65 DLA 67


>gi|206559569|ref|YP_002230330.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
 gi|198035607|emb|CAR51494.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
          Length = 122

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 28/108 (25%), Positives = 52/108 (48%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VGK I  +R+  G++QEK+ E LGI  + V + E+G       RL  ++++     + 
Sbjct: 11  VAVGKAIAKQRIASGLTQEKVAERLGIGLEAVSRMERGTVIPTVVRLFELADIFACDAAD 70

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
               +    SD +S  N ++  +ST D   L   F ++     R++ +
Sbjct: 71  LLTEASNRSSDQASHLNRLLSRLSTSDRAMLLEVFERLSTRLTRRETV 118


>gi|94986009|ref|YP_605373.1| hypothetical protein Dgeo_1909 [Deinococcus geothermalis DSM
          11300]
 gi|94556290|gb|ABF46204.1| Zn peptidase and DNA-binding HTH-like domain [Deinococcus
          geothermalis DSM 11300]
          Length = 376

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 32/68 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R++  R   G+S E LGE +G++ Q + K E  V+         I + L+ P  FF+ 
Sbjct: 9  GWRLKQAREAYGLSLESLGELVGVSKQAISKMENDVSEPSPEVFLKICQSLKRPAEFFYS 68

Query: 76 VSPTVCSD 83
                ++
Sbjct: 69 SESADFTN 76


>gi|50122315|ref|YP_051482.1| putative prophage regulatory ptotein [Pectobacterium atrosepticum
          SCRI1043]
 gi|49612841|emb|CAG76291.1| putative prophage regulatory ptotein [Pectobacterium atrosepticum
          SCRI1043]
          Length = 133

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 36/69 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RI   R   G++Q +L E LG++ Q VQ +E G  R+  S L  ++++    +  
Sbjct: 24 MALGERITTLRKERGITQAELAEKLGVSQQTVQAWEAGRRRIKVSSLPSVAQIFSVSLEE 83

Query: 73 FFDVSPTVC 81
           F  +P   
Sbjct: 84 VFGEAPEPA 92


>gi|312862721|ref|ZP_07722961.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
           F0396]
 gi|322516899|ref|ZP_08069796.1| transcriptional regulator [Streptococcus vestibularis ATCC 49124]
 gi|311101581|gb|EFQ59784.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
           F0396]
 gi|322124522|gb|EFX96004.1| transcriptional regulator [Streptococcus vestibularis ATCC 49124]
          Length = 229

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 46/109 (42%), Gaps = 7/109 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R++  R   GMSQ  + + LGI+      +E G  +     L  ++E+     ++F  
Sbjct: 4   GQRLKEIREAQGMSQAAVAKHLGISRSSYFNWENGKTKPNQKNLSILAELFGVAETYFLS 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK-IIELV 123
               V   +   E N        + L+L +  ++  + + ++  +I L 
Sbjct: 64  EHEIVEVYLELNEEN------RQEALRLTKALLEEQEAEKQKAPVISLY 106


>gi|262373689|ref|ZP_06066967.1| y4mF family transcriptional regulator [Acinetobacter junii SH205]
 gi|262311442|gb|EEY92528.1| y4mF family transcriptional regulator [Acinetobacter junii SH205]
          Length = 183

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 32/63 (50%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
            P+ V   VG+ IR  R    +SQ++L E  G++ + +   E G+  +  ++L  I+  
Sbjct: 2  NHPDAVLQYVGQNIRFYRNQHQLSQQELAERAGVSRRTIASLETGMVNISLTKLDAIANA 61

Query: 66 LES 68
          L+ 
Sbjct: 62 LDV 64


>gi|254502876|ref|ZP_05115027.1| Helix-turn-helix domain protein [Labrenzia alexandrii DFL-11]
 gi|222438947|gb|EEE45626.1| Helix-turn-helix domain protein [Labrenzia alexandrii DFL-11]
          Length = 182

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 24/111 (21%), Positives = 40/111 (36%), Gaps = 7/111 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + K I+  R+  GMS   L +  G+    + + E G        L  I+  L  P SF F
Sbjct: 7   IAKAIQRERLKAGMSLSALAKTAGLAKSTLSQLEAGQGNPSVETLWAIASALNVPFSFLF 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +   T  + I + E   +   +      L            R+   +L R+
Sbjct: 67  ETGTTDKTLIRAGEGEPVASEAAGFTAVLLAN----CPPGRRR---DLYRT 110


>gi|210634420|ref|ZP_03298108.1| hypothetical protein COLSTE_02030 [Collinsella stercoris DSM 13279]
 gi|210158823|gb|EEA89794.1| hypothetical protein COLSTE_02030 [Collinsella stercoris DSM 13279]
          Length = 351

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 46/90 (51%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++ + IR RR  LGM+QE++ + LG++   V K+E+G+     + +  ++ + E+  + 
Sbjct: 1   MHISEIIRSRRRELGMTQEQVAQRLGVSAPAVNKWERGICYPDITLIPSLARLFETDANT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
                P +  + S      +D +   +G +
Sbjct: 61  LLSFEPELREEESLAIQREVDRLVREEGYE 90


>gi|312144436|ref|YP_003995882.1| Cupin 2 conserved barrel domain protein [Halanaerobium sp.
           'sapolanicus']
 gi|311905087|gb|ADQ15528.1| Cupin 2 conserved barrel domain protein [Halanaerobium sp.
           'sapolanicus']
          Length = 178

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 43/90 (47%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR +R    MS   + + +  T   + + E+G+     + L+ I+  LE PI +F 
Sbjct: 2   LGQRIRNKRKSKSMSLNDVAQKINKTSSYLSQVERGLAEPSITALREIARALEVPIFYFL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
               +  + +  E+  +++F  +    +L 
Sbjct: 62  IEEESHNAVVRKEQRRILNFPGSHLTFELL 91


>gi|153955923|ref|YP_001396688.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|146348781|gb|EDK35317.1| Transcriptional regulator [Clostridium kluyveri DSM 555]
          Length = 104

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 28/102 (27%), Positives = 44/102 (43%), Gaps = 7/102 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G R+   R +  +SQ KL   L +    + K EKG  +     L  I E     +S 
Sbjct: 2   IDIGNRVIKLRKLHKISQNKLAISLNVAAATINKIEKGTAKPSIDLLIKICEFFSITLSE 61

Query: 73  FFDVSPTVCSDISSEE-----NNVMDFISTPDGLQLNRYFIQ 109
           FF+        I + +     +N  D   TP+ L+L   FI+
Sbjct: 62  FFNNGNNSEPVILNPQLKELLDNAKDL--TPEQLELLSKFIK 101


>gi|88858937|ref|ZP_01133578.1| hypothetical protein PTD2_08034 [Pseudoalteromonas tunicata D2]
 gi|88819163|gb|EAR28977.1| hypothetical protein PTD2_08034 [Pseudoalteromonas tunicata D2]
          Length = 170

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 34/68 (50%), Gaps = 6/68 (8%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           +PN     +G+R+   R  LG++Q  L E +G+T Q +   E   NR  + RL  I+E 
Sbjct: 10 NMPN----TIGERVAAERKKLGLTQTALAEKVGVTQQAIGNIEN--NRSDSKRLADIAEA 63

Query: 66 LESPISFF 73
          L    ++ 
Sbjct: 64 LGVTYTYL 71


>gi|332980702|ref|YP_004462143.1| helix-turn-helix domain-containing protein [Mahella australiensis
          50-1 BON]
 gi|332698380|gb|AEE95321.1| helix-turn-helix domain protein [Mahella australiensis 50-1 BON]
          Length = 80

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 35/67 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++ RR   G++QE+L   +G+    + K E G  R   +  + I++ L+   + FF+++ 
Sbjct: 14 LKERRNAKGLTQEQLAALIGVDRTTITKIENGSARPSVNNAKKIAQALDFDWTIFFNIND 73

Query: 79 TVCSDIS 85
             S+ +
Sbjct: 74 NQTSETA 80


>gi|291542133|emb|CBL15243.1| Predicted transcriptional regulators [Ruminococcus bromii L2-63]
          Length = 108

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 26/113 (23%), Positives = 54/113 (47%), Gaps = 11/113 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R+   MSQ +L E L +    + KYEKG+ +     L++++E+    + +   +S
Sbjct: 6   RLKELRVDNDMSQTELAEKLNLKASAISKYEKGITQPSIDTLKNLAEIFSVTVDYLIGMS 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQID-DVKVRQKIIELVRSIVSS 129
                     +N   +   TP+   L  +F Q+  + K+R  I E ++++  +
Sbjct: 66  DI--------KNPYSNSQITPNEADLIEHFRQLTYENKIR--IDERIKTMADA 108


>gi|13476100|ref|NP_107670.1| hypothetical protein mll7326 [Mesorhizobium loti MAFF303099]
 gi|14026860|dbj|BAB53456.1| mll7326 [Mesorhizobium loti MAFF303099]
          Length = 192

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 22/95 (23%), Positives = 41/95 (43%), Gaps = 9/95 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R  LG++   L     I+   + K E G+     + LQ +S  L  P+
Sbjct: 2   LEVAIGREVRAFRKKLGITVADLAVATDISLGMLSKIENGITSPSLTTLQALSRALGVPV 61

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           + FF       S +         F+   +GL + R
Sbjct: 62  TAFFRRFEEERSAV---------FVKAGEGLDVER 87


>gi|332076616|gb|EGI87078.1| helix-turn-helix family protein [Streptococcus pneumoniae GA17545]
          Length = 288

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 28/101 (27%), Positives = 48/101 (47%), Gaps = 3/101 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++ RR  L MSQ +L E  GI  Q Q+ + E G    GA  L  +++ L+  + +FFD 
Sbjct: 8   RLKNRRKELKMSQRELAE--GICKQGQISRLESGEFTPGADFLHALAKKLKVSMDYFFDE 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
                 +  SE   +     T    +  +Y  ++++VK  +
Sbjct: 66  QVVEKVEELSEFKKLAQTFITNRNYESLKYIYELENVKAHR 106


>gi|329920508|ref|ZP_08277240.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          1401G]
 gi|328936184|gb|EGG32637.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          1401G]
          Length = 87

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 41/82 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R+  G++QE+L E + ++   V K+E G      + L+ I++ L   + +
Sbjct: 1  MLLGEKIRNARVEAGLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKVIADALGVTVDY 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
            D    +   I  +  +V  +
Sbjct: 61 LLDKDNAIDLSIIKKPIDVAKY 82


>gi|289449565|ref|YP_003474504.1| DNA-binding helix-turn-helix protein [Clostridiales genomosp.
          BVAB3 str. UPII9-5]
 gi|289184112|gb|ADC90537.1| DNA-binding helix-turn-helix protein [Clostridiales genomosp.
          BVAB3 str. UPII9-5]
          Length = 210

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 36/68 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R+  G++QE+L E + ++   V K+E G      + L+ I++ L   + +
Sbjct: 1  MLLGEKIRNARVEAGLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKMIADALGVTVDY 60

Query: 73 FFDVSPTV 80
            D    +
Sbjct: 61 LLDKDNAI 68


>gi|225376377|ref|ZP_03753598.1| hypothetical protein ROSEINA2194_02018 [Roseburia inulinivorans DSM
           16841]
 gi|225211753|gb|EEG94107.1| hypothetical protein ROSEINA2194_02018 [Roseburia inulinivorans DSM
           16841]
          Length = 380

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 3/98 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+L E LG+T Q + KYE   +     ++  +SE+      +     
Sbjct: 54  KIINLRKKNGWSQEELAEKLGVTRQSISKYEGAQSIPDLDKILKLSEIFGVTTDYLIKDE 113

Query: 78  PTVCSDISS---EENNVMDFISTPDGLQLNRYFIQIDD 112
                  SS   E  +  D       +++   ++QI D
Sbjct: 114 LEEEEYASSQMQENESESDRSVHKVTMEMANEYLQIID 151


>gi|108803433|ref|YP_643370.1| XRE family transcriptional regulator [Rubrobacter xylanophilus DSM
           9941]
 gi|108764676|gb|ABG03558.1| transcriptional regulator, XRE family [Rubrobacter xylanophilus DSM
           9941]
          Length = 134

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/131 (17%), Positives = 48/131 (36%), Gaps = 9/131 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G ++R  R  +G SQ +L    G+    +   E G      S ++ +++ L  P++  + 
Sbjct: 2   GPKLRQLRRQMGWSQHELARRSGVDRATISAIESGKRDPSGSTMRKLADALGVPVAELYK 61

Query: 76  VSPTVCSDISSEENNVMDFISTPD-------GLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
                 + I    ++    +  P+       G  L      I D    + ++E  R +  
Sbjct: 62  EPLEQLTAIYERTDDGWWIVEVPEIPGAVSQGRTLEEARFMIRDAV--RLLLEARRELAE 119

Query: 129 SEKKYRTIEEE 139
            E +   +  E
Sbjct: 120 QEHEGHEVIRE 130


>gi|303327942|ref|ZP_07358381.1| DNA-binding protein [Desulfovibrio sp. 3_1_syn3]
 gi|302861768|gb|EFL84703.1| DNA-binding protein [Desulfovibrio sp. 3_1_syn3]
          Length = 156

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 41/93 (44%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             VG  I+ RR  LG++QE L E +G+  Q + + E+G       RL  ++  L   ++ 
Sbjct: 48  KLVGTNIQERRKKLGLTQECLAEKIGVGQQSLSRMERGDIAPKLERLPDVAATLRCSVAD 107

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            F  S      ++    + +  ++  +   L R
Sbjct: 108 LFRASGADDHALTRALEDALAGLNIHEKEYLVR 140


>gi|218960438|ref|YP_001740213.1| hypothetical protein CLOAM0093 [Candidatus Cloacamonas
           acidaminovorans]
 gi|167729095|emb|CAO80006.1| hypothetical protein CLOAM0093 [Candidatus Cloacamonas
           acidaminovorans]
          Length = 356

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 24/101 (23%), Positives = 47/101 (46%), Gaps = 5/101 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +NVG++I+  R  L +S ++L + LG+T   +  YE+G  +V    L  ISE+++ P+ +
Sbjct: 1   MNVGEKIKKYRKRLNISGKELAQKLGVTPALISYYEQGKRQVPLKTLMQISEIIKVPLEY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
                  +       +  +     T +  +    F +I D 
Sbjct: 61  LVTDKEYIAYSAYRGKGRI-----TKEEKEEVALFQEIVDN 96


>gi|325662744|ref|ZP_08151338.1| hypothetical protein HMPREF0490_02078 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|325470981|gb|EGC74209.1| hypothetical protein HMPREF0490_02078 [Lachnospiraceae bacterium
          4_1_37FAA]
          Length = 194

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 34/59 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RI+  R   G +Q+ L   LG + + +QKYE G   V  + +  +++VL++  ++ 
Sbjct: 9  IGERIKTLRKKRGYNQKDLATLLGKSLRTIQKYESGEIEVSIAMVNELAKVLDTTSTYL 67


>gi|36958742|gb|AAQ87210.1| Transcriptional regulator [Sinorhizobium fredii NGR234]
          Length = 181

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 45/92 (48%), Gaps = 2/92 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G +IR  R + G++ +++ +   ++   + + E+   ++    L+ IS+ L   +++
Sbjct: 1   MAIGGQIRELRKVKGLTLQQVADAADVSVGYLSQIERNQTKLPIGVLKKISDTLGVHMNW 60

Query: 73  FFDVS--PTVCSDISSEENNVMDFISTPDGLQ 102
           FF  S  P    D+    +N   F  T  G++
Sbjct: 61  FFHGSDVPAQEKDVVVRSHNRRKFTFTGLGIE 92


>gi|157158980|ref|YP_001463318.1| transcriptional repressor DicA [Escherichia coli E24377A]
 gi|157081010|gb|ABV20718.1| putative transcriptional regulator DicA [Escherichia coli E24377A]
          Length = 131

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 28/126 (22%), Positives = 51/126 (40%), Gaps = 20/126 (15%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+  RR  LG++Q++L + +G +   V K+E G N      L  ++  L+   ++     
Sbjct: 5   RLSQRRKQLGLTQQQLADMVGRSSVSVFKWESGQNEPKGQNLLALANALKCSATWLLFGD 64

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTIE 137
                    E    +D                      +++++EL  S+  SEK+ + IE
Sbjct: 65  EDQAPTPVDELPTELD--------------------SRQKRLLELFDSLPESEKEKQLIE 104

Query: 138 EECMVE 143
            E  VE
Sbjct: 105 LEDKVE 110


>gi|332653080|ref|ZP_08418825.1| DNA-binding protein [Ruminococcaceae bacterium D16]
 gi|332518226|gb|EGJ47829.1| DNA-binding protein [Ruminococcaceae bacterium D16]
          Length = 208

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 21/95 (22%), Positives = 41/95 (43%), Gaps = 3/95 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ +G+ ++  R   G+SQE +   L ++ Q + K+E      G   L+ ++++ E  +
Sbjct: 16  IDMTLGENLQRLRKEKGLSQEDVARALFVSRQTISKWETDKAEPGVDNLKALADLYEVTL 75

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
                 + T      S E    D   T   + L R
Sbjct: 76  DQLTGRARTGTDSKESHEQTPSDQYRT---MALIR 107


>gi|300172874|ref|YP_003772039.1| PbsX transcriptional repressor [Leuconostoc gasicomitatum LMG
           18811]
 gi|299887252|emb|CBL91220.1| transcriptional repressor of pbsx genes,putative [Leuconostoc
           gasicomitatum LMG 18811]
          Length = 154

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 38/93 (40%), Gaps = 3/93 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +RI+  R I G++Q+ L + +  +   V + E          L  I+   + PI +    
Sbjct: 6   QRIKQLRKIYGLTQKDLADKINSSRTNVARIETDKVHPSYPMLSTIANAFDVPIEYL--- 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
              V +DI +   NV+ F    + L  N  F  
Sbjct: 63  QGIVNADIDNNHENVLYFYDDGEQLDPNMSFYA 95


>gi|293402557|ref|ZP_06646692.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291304071|gb|EFE45325.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 173

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 27/104 (25%), Positives = 48/104 (46%), Gaps = 9/104 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + I+  R   G+SQE+L   L +  Q + K+E G++   +  L  ISE+ E+P+S     
Sbjct: 4   ENIKAIRKAKGLSQEELAIKLNVVRQTISKWENGLSVPDSDMLISISEIFETPVSALLGE 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           S      I  E ++V       + + L          ++R+KI+
Sbjct: 64  SI-----IEQEADDVKVIAEKLEVINLQLA----KRKEIRRKIL 98


>gi|114766076|ref|ZP_01445085.1| transcriptional regulator, putative [Pelagibaca bermudensis
           HTCC2601]
 gi|114541631|gb|EAU44672.1| transcriptional regulator, putative [Roseovarius sp. HTCC2601]
          Length = 436

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 25/95 (26%), Positives = 40/95 (42%), Gaps = 6/95 (6%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D   G RIR RR+ILGM Q +L   + I+   +   E    R+G   L  ++E+L    S
Sbjct: 4   DTLTGSRIRERRIILGMKQAELARRVDISASYLNLIEHNRRRIGGKLLLDLAEILGVEPS 63

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPD-GLQLNR 105
              + +         E       +   + G +L+R
Sbjct: 64  VLTEGAEATLIGALREAA-----LREAEAGAELDR 93


>gi|227819893|ref|YP_002823864.1| XRE family transcriptional regulator [Sinorhizobium fredii NGR234]
 gi|227338892|gb|ACP23111.1| putative transcriptional regulator Xre familiy [Sinorhizobium
           fredii NGR234]
          Length = 201

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 45/92 (48%), Gaps = 2/92 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G +IR  R + G++ +++ +   ++   + + E+   ++    L+ IS+ L   +++
Sbjct: 21  MAIGGQIRELRKVKGLTLQQVADAADVSVGYLSQIERNQTKLPIGVLKKISDTLGVHMNW 80

Query: 73  FFDVS--PTVCSDISSEENNVMDFISTPDGLQ 102
           FF  S  P    D+    +N   F  T  G++
Sbjct: 81  FFHGSDVPAQEKDVVVRSHNRRKFTFTGLGIE 112


>gi|317057522|ref|YP_004105989.1| helix-turn-helix domain-containing protein [Ruminococcus albus 7]
 gi|315449791|gb|ADU23355.1| helix-turn-helix domain protein [Ruminococcus albus 7]
          Length = 135

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 28/120 (23%), Positives = 58/120 (48%), Gaps = 7/120 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G ++   R  +G SQE L + L ++ Q V K+E G +   A ++  IS        F
Sbjct: 1   MNIGDKLLFLRNRVGCSQETLADALDVSRQTVSKWELGQSLPDAEKIVAISNYFNVTTDF 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ-LNRYFIQID-----DVKVRQKIIELVRSI 126
               +  V  + + +   V++F ++   L  ++R  + I      D + R ++ E+V+++
Sbjct: 61  LLRDTSPVKIEKNLD-RIVIEFANSAADLDQISRALVDIARDGIIDEEERLRLFEMVKTV 119


>gi|212704889|ref|ZP_03313017.1| hypothetical protein DESPIG_02956 [Desulfovibrio piger ATCC
          29098]
 gi|212671660|gb|EEB32143.1| hypothetical protein DESPIG_02956 [Desulfovibrio piger ATCC
          29098]
          Length = 183

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 20/59 (33%), Positives = 35/59 (59%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I +G+ I  RR  +GM+QE+L   +G++ Q V K+E G +     RL  + +VL++ + 
Sbjct: 10 IRLGQEILRRRKAMGMTQEELASRMGVSRQSVAKWETGQSSPDIDRLSLLRDVLQTSLD 68


>gi|297203904|ref|ZP_06921301.1| transcriptional regulator [Streptomyces sviceus ATCC 29083]
 gi|297148527|gb|EDY57126.2| transcriptional regulator [Streptomyces sviceus ATCC 29083]
          Length = 234

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 25/116 (21%), Positives = 45/116 (38%), Gaps = 23/116 (19%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RIR  R+  G+    L   +G++   V + E G ++   S L  I+  L   +   FD
Sbjct: 34  GARIRQARLERGLGLRALAREVGVSASLVSQIETGKSQPSVSTLYAITTALGISVEALFD 93

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR---------QKIIEL 122
              T    +++ E  V+  ++          F    D   R         ++++EL
Sbjct: 94  GRETA---VAASEAIVVHALA---------AFAA--DPGRRIGPLVTPGEREVLEL 135


>gi|15892419|ref|NP_360133.1| hypothetical protein RC0496 [Rickettsia conorii str. Malish 7]
 gi|15619571|gb|AAL03034.1| unknown [Rickettsia conorii str. Malish 7]
          Length = 161

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 39/161 (24%), Positives = 68/161 (42%), Gaps = 42/161 (26%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILG--MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           N  I +P D    +R++ RR+ +G    +        I+  QV+KYE+G++ +  SRL  
Sbjct: 2   NYSIKHP-DKLASERLKERRLAVGRYYPKRIRASFFDISALQVKKYEEGLSNIPISRLYV 60

Query: 62  ISEVLESPISFFFDVSPTVCSDISSE--------------ENNVMDFISTPDG------- 100
            ++VL +P+ +FF+ S        +E              E++ ++ I+  +G       
Sbjct: 61  FAKVLNTPLKYFFNSSEEEKLKADNENTPNNKIEYLFKEIESDFLNNIAEAEGQYEHEVS 120

Query: 101 --------------LQLNRYFIQIDDVKVRQKIIELVRSIV 127
                         L L R F       +R+ IIE VRS+ 
Sbjct: 121 FDYKELSRTMERALLSLTRAFTT----NIRKIIIEHVRSVS 157


>gi|325679534|ref|ZP_08159114.1| peptidase S24-like protein [Ruminococcus albus 8]
 gi|324108821|gb|EGC03057.1| peptidase S24-like protein [Ruminococcus albus 8]
          Length = 228

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/93 (24%), Positives = 45/93 (48%), Gaps = 1/93 (1%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPI 70
           ++ +GKRI+ RR  LGM+QE LG  LG     +Q+YE G   ++    ++ +++ L    
Sbjct: 4   NVEIGKRIKKRREELGMTQEALGSPLGFNKSTIQRYEAGKVAKIKLPIIEAMAQRLNVSP 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
            +    S  +     + ++ +   +S+     L
Sbjct: 64  EWLALKSDDMGEYHGAPDSLLESKVSSNVAAVL 96


>gi|260663676|ref|ZP_05864565.1| predicted protein [Lactobacillus fermentum 28-3-CHN]
 gi|260551902|gb|EEX25017.1| predicted protein [Lactobacillus fermentum 28-3-CHN]
          Length = 78

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 30/69 (43%), Positives = 41/69 (59%), Gaps = 3/69 (4%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES---PISFFF 74
          R+R  R+  GM+QE++ E LGI+     K E G+  +GA+ L  ISEVL      IS FF
Sbjct: 7  RLRAERIAKGMTQEEMAERLGISRAAYAKREAGIVDIGANELAAISEVLGIDRDHISIFF 66

Query: 75 DVSPTVCSD 83
          DVS  + +D
Sbjct: 67 DVSSPIGND 75


>gi|227432755|ref|ZP_03914721.1| conserved hypothetical protein [Leuconostoc mesenteroides subsp.
           cremoris ATCC 19254]
 gi|227351491|gb|EEJ41751.1| conserved hypothetical protein [Leuconostoc mesenteroides subsp.
           cremoris ATCC 19254]
          Length = 256

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 43/85 (50%), Gaps = 1/85 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G +I+  R   G++Q++  E L I+FQ V  +E+         +  I E  + P+  
Sbjct: 17  MEIGNKIKALRKKNGLTQQQFAEKLYISFQSVSNWERHKGYPTTEMMLLIIEKFDLPLD- 75

Query: 73  FFDVSPTVCSDISSEENNVMDFIST 97
           FF + PT   + + EE  ++ F++ 
Sbjct: 76  FFIIPPTNSCEDNDEELILLSFLAN 100


>gi|257451797|ref|ZP_05617096.1| SOS-response transcriptional repressors [Fusobacterium sp.
          3_1_5R]
 gi|317058353|ref|ZP_07922838.1| SOS-response transcriptional repressor [Fusobacterium sp. 3_1_5R]
 gi|313684029|gb|EFS20864.1| SOS-response transcriptional repressor [Fusobacterium sp. 3_1_5R]
          Length = 208

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 30/59 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G +I   R    ++QE+  +  G+T   + KYE G   +    L +I+   + PIS+F
Sbjct: 10 IGDKILKLRKETALTQEQFSKIAGVTPLSILKYESGERLISIETLLNIANYFKIPISYF 68


>gi|119387120|ref|YP_918175.1| XRE family transcriptional regulator [Paracoccus denitrificans
           PD1222]
 gi|119377715|gb|ABL72479.1| transcriptional regulator, XRE family [Paracoccus denitrificans
           PD1222]
          Length = 213

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/85 (27%), Positives = 34/85 (40%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D +VG R++  R    MSQ +L E  G+   QV   E G +    + L+ I   L   +S
Sbjct: 24  DFDVGARLKELRSAANMSQRQLAEASGVPHGQVSMIETGRSSPSVASLRKILGGLGVTMS 83

Query: 72  FFFDVSPTVCSDISSEENNVMDFIS 96
            FF+               + D  S
Sbjct: 84  EFFEPDLPQSPQPFFTPAELRDLTS 108


>gi|227534216|ref|ZP_03964265.1| xre family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
 gi|227188150|gb|EEI68217.1| xre family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
          Length = 344

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 38/59 (64%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++ + IR RR+ LG++QE+L + +G++   V K+EK V+    + L  ++ +L + ++
Sbjct: 1  MHIDQVIRERRLALGLTQEELADKIGVSAPAVSKWEKRVSYPDITLLPALARILGTDVN 59


>gi|269955724|ref|YP_003325513.1| XRE family transcriptional regulator [Xylanimonas cellulosilytica
           DSM 15894]
 gi|269304405|gb|ACZ29955.1| transcriptional regulator, XRE family [Xylanimonas cellulosilytica
           DSM 15894]
          Length = 505

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 25/112 (22%), Positives = 43/112 (38%), Gaps = 3/112 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+RIR  R   GM+ + L   +G    QV   E G      +RLQ ++  L + +  
Sbjct: 27  LTIGRRIRHLRTERGMTLDDLAAAIGKAPSQVSLLENGKREPTIARLQAVARALGAGVED 86

Query: 73  FFDVSPTVCSDISSEENNVMD--FISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
             D  P    D    E        +    G++  R    +    + + I+ L
Sbjct: 87  LLDPRPPSRRDALELELERTQRGPLFDALGIRPVRVGRSLPTDAL-EAILAL 137


>gi|153816336|ref|ZP_01969004.1| hypothetical protein RUMTOR_02588 [Ruminococcus torques ATCC
          27756]
 gi|145846297|gb|EDK23215.1| hypothetical protein RUMTOR_02588 [Ruminococcus torques ATCC
          27756]
          Length = 126

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 21/58 (36%), Positives = 31/58 (53%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            G  IR  R   G++Q+KLGE  GI    ++KYE G        LQ I++ L+ P++
Sbjct: 4  YTGDMIRKCRTEKGLTQKKLGELCGIADSNIRKYESGNQNPKIETLQKIADALDIPVN 61


>gi|83590834|ref|YP_430843.1| MerR family transcriptional regulator [Moorella thermoacetica ATCC
           39073]
 gi|83573748|gb|ABC20300.1| transcriptional regulator, MerR family [Moorella thermoacetica ATCC
           39073]
          Length = 178

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 29/131 (22%), Positives = 55/131 (41%), Gaps = 9/131 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK+IR  R   GMS + + E  G+T   + + E+ +     + L+ I+E L+ PI +F 
Sbjct: 2   LGKKIRQLRRERGMSLKDVAEKTGLTSSFLSQVERDLADPSITSLRKIAEALDIPIFYFL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR---SIVSSEK 131
                    +  ++  V+ F  +    +L      +     R   + + R      S ++
Sbjct: 62  LNPEDHSPVVRKDQRKVLRFPQSHLTYEL------LSPDLNRNMEVMMARLEPGAASCDE 115

Query: 132 KYRTIEEECMV 142
                 EEC+V
Sbjct: 116 PLAHPGEECIV 126


>gi|47093927|ref|ZP_00231665.1| DNA-binding protein [Listeria monocytogenes str. 4b H7858]
 gi|47017687|gb|EAL08482.1| DNA-binding protein [Listeria monocytogenes str. 4b H7858]
          Length = 194

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 24/78 (30%), Positives = 38/78 (48%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D+ +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S 
Sbjct: 12 DIDMEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGST 71

Query: 70 ISFFFDVSPTVCSDISSE 87
             FFD        I  E
Sbjct: 72 PKDFFDEEEHNQKVIYGE 89


>gi|291548981|emb|CBL25243.1| Predicted transcriptional regulator [Ruminococcus torques L2-14]
 gi|295110023|emb|CBL23976.1| Predicted transcriptional regulator [Ruminococcus obeum A2-162]
          Length = 211

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/88 (26%), Positives = 41/88 (46%), Gaps = 3/88 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I +VL    +  
Sbjct: 10  FLGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNYPTFDTLEKIMDVLGVTPN-- 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            ++       ++  E  V  F+   + L
Sbjct: 68  -ELLSGEWKYVNQAEKEVCQFLRIEERL 94


>gi|257869747|ref|ZP_05649400.1| conserved hypothetical protein [Enterococcus gallinarum EG2]
 gi|257803911|gb|EEV32733.1| conserved hypothetical protein [Enterococcus gallinarum EG2]
          Length = 211

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/88 (26%), Positives = 41/88 (46%), Gaps = 3/88 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I +VL    +  
Sbjct: 10  FLGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNYPTFDTLEKIMDVLGVTPN-- 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            ++       ++  E  V  F+   + L
Sbjct: 68  -ELLSGEWKYVNQAEKEVCQFLRIEERL 94


>gi|209546022|ref|YP_002277912.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209538879|gb|ACI58812.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
          Length = 227

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 41/97 (42%), Gaps = 9/97 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 34  NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 93

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P++ FF       + +         F+    G++L R
Sbjct: 94  PMTAFFRRFEEPRNAV---------FVKAGQGIELER 121


>gi|200389135|ref|ZP_03215747.1| I C protein [Salmonella enterica subsp. enterica serovar Virchow
          str. SL491]
 gi|199606233|gb|EDZ04778.1| I C protein [Salmonella enterica subsp. enterica serovar Virchow
          str. SL491]
          Length = 107

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 22/78 (28%), Positives = 43/78 (55%), Gaps = 5/78 (6%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISE 64
          +  DI   +R++  R+  G+SQ++LG   G    +   ++ +YEKGV+  G   +Q ++E
Sbjct: 6  HYNDIF-CRRLKQARLASGLSQKRLGIAAGIDEFVASTRINRYEKGVHEPGTEIVQKLAE 64

Query: 65 VLESPISFFFDVSPTVCS 82
          VL  P+++F+     +  
Sbjct: 65 VLRVPLAYFYAEDDDLAE 82


>gi|91211688|ref|YP_541674.1| repressor protein [Escherichia coli UTI89]
 gi|117624572|ref|YP_853485.1| putative phage repressor protein [Escherichia coli APEC O1]
 gi|218559304|ref|YP_002392217.1| Repressor protein CII [Escherichia coli S88]
 gi|218695990|ref|YP_002403657.1| Repressor protein CII [Escherichia coli 55989]
 gi|91073262|gb|ABE08143.1| repressor protein [Escherichia coli UTI89]
 gi|115513696|gb|ABJ01771.1| putative phage repressor protein [Escherichia coli APEC O1]
 gi|148566149|gb|ABQ88424.1| prophage repressor [Enterobacteria phage CUS-3]
 gi|218352722|emb|CAU98505.1| Repressor protein CII [Escherichia coli 55989]
 gi|218366073|emb|CAR03818.1| Repressor protein CII [Escherichia coli S88]
 gi|294490247|gb|ADE89003.1| repressor protein C2 [Escherichia coli IHE3034]
 gi|307626074|gb|ADN70378.1| Repressor protein CII [Escherichia coli UM146]
 gi|312945519|gb|ADR26346.1| Repressor protein CII [Escherichia coli O83:H1 str. NRG 857C]
 gi|323948802|gb|EGB44701.1| peptidase S24 [Escherichia coli H252]
 gi|324117735|gb|EGC11634.1| peptidase S24 [Escherichia coli E1167]
          Length = 216

 Score = 64.8 bits (157), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 33/76 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L + Q  LG+ +G++   + ++E+         L  ++  L+    +   
Sbjct: 7  GERIRARRKELKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALANALKCSPDYLMK 66

Query: 76 VSPTVCSDISSEENNV 91
             ++ +      ++ 
Sbjct: 67 GEESLSNIAYHSRHDP 82


>gi|325123768|gb|ADY83291.1| hypothetical protein BDGL_002705 [Acinetobacter calcoaceticus
           PHEA-2]
          Length = 209

 Score = 64.4 bits (156), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 22/91 (24%), Positives = 41/91 (45%), Gaps = 7/91 (7%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
              N V  +VG  IRL R    +SQ+ L +  G++ + +   E G   +  ++L  I+ V
Sbjct: 28  SQSNTVLQHVGTNIRLLRDERDLSQQDLADQAGVSRRTIAALETGQVNISLAKLDAIAAV 87

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFIS 96
           L            T+ S    +E+ V++ ++
Sbjct: 88  LGVD-------FKTIVSAPEHKEHAVVNALA 111


>gi|266623939|ref|ZP_06116874.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium hathewayi DSM 13479]
 gi|288864240|gb|EFC96538.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium hathewayi DSM 13479]
          Length = 147

 Score = 64.4 bits (156), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 32/106 (30%), Positives = 52/106 (49%), Gaps = 5/106 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
           +N+G+RIR  R    M+Q +L E +G T Q V KYE G V  +   +L  +++ L +  S
Sbjct: 1   MNIGERIRGLREKQEMTQTELAEKIGSTKQTVYKYENGVVTNIPYDKLILLAKALGTTPS 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGL--QLNRYFIQIDDVKV 115
                      +  +EE   +D ++    L  +LN Y I + D +V
Sbjct: 61  SLMGWDK--IEEAINEEFTRLDNLTKQYILLFELNGYKIDVGDEQV 104


>gi|259503754|ref|ZP_05746656.1| DNA-binding protein [Lactobacillus antri DSM 16041]
 gi|259168270|gb|EEW52765.1| DNA-binding protein [Lactobacillus antri DSM 16041]
          Length = 112

 Score = 64.4 bits (156), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 21/104 (20%), Positives = 43/104 (41%), Gaps = 5/104 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+RI+  R     +Q+ L E L ++ Q + K+E G       RL  IS + +  +  
Sbjct: 1   MTLGQRIKEEREKRQWTQDYLAETLNVSRQAISKWEVGSAYPDIDRLVQISNLFDITLDS 60

Query: 73  FFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQID 111
                 ++   I     +  + NV +F+ +   + +      I 
Sbjct: 61  LIKGDDSLKKSIVITKNAKAQTNVWEFMRSTGWMMVIAIIYLIT 104


>gi|116255759|ref|YP_771592.1| putative transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|115260407|emb|CAK03511.1| putative transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
          Length = 243

 Score = 64.4 bits (156), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 41/97 (42%), Gaps = 9/97 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 50  NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 109

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P++ FF       + +         F+    G++L R
Sbjct: 110 PLTAFFRRFEEPRNAV---------FVKAGQGIELER 137


>gi|319650690|ref|ZP_08004829.1| hypothetical protein HMPREF1013_01434 [Bacillus sp. 2_A_57_CT2]
 gi|317397547|gb|EFV78246.1| hypothetical protein HMPREF1013_01434 [Bacillus sp. 2_A_57_CT2]
          Length = 297

 Score = 64.4 bits (156), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 1/73 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R I  ++Q++L E +  T  Q+ K E G     AS L  IS+ L   +++FF
Sbjct: 6  IGDKIKELRRIQRITQKELAEDI-CTQAQISKLENGEVIPCASTLFLISQKLGIDVNYFF 64

Query: 75 DVSPTVCSDISSE 87
          ++  T   D   E
Sbjct: 65 NIGLTPRLDYVEE 77


>gi|313899162|ref|ZP_07832684.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956040|gb|EFR37686.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 206

 Score = 64.4 bits (156), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 3/88 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G  I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I EVL+   +  
Sbjct: 5   FLGNNIQTIRKYRGMKQQELADKIGINMQSLSKIERGLNYPAYDTLEKIMEVLDVTPN-- 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            ++       I+  E  V  F+   + L
Sbjct: 63  -ELLSGEWKYINQAEKEVCQFLRAEERL 89


>gi|307707493|ref|ZP_07643975.1| transcriptional activator [Streptococcus mitis NCTC 12261]
 gi|307616445|gb|EFN95636.1| transcriptional activator [Streptococcus mitis NCTC 12261]
          Length = 287

 Score = 64.4 bits (156), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 28/96 (29%), Positives = 50/96 (52%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ R++R  LG+SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRVKRKELGLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +   L  Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRNYDDL-EYIYRIE 98


>gi|241666493|ref|YP_002984577.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240861950|gb|ACS59615.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 227

 Score = 64.4 bits (156), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 41/97 (42%), Gaps = 9/97 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 34  NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 93

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P++ FF       + +         F+    G++L R
Sbjct: 94  PLTAFFRRFEEPRNAV---------FVKAGQGIELER 121


>gi|146296435|ref|YP_001180206.1| XRE family transcriptional regulator [Caldicellulosiruptor
           saccharolyticus DSM 8903]
 gi|145410011|gb|ABP67015.1| transcriptional regulator, XRE family [Caldicellulosiruptor
           saccharolyticus DSM 8903]
          Length = 103

 Score = 64.4 bits (156), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 26/119 (21%), Positives = 48/119 (40%), Gaps = 16/119 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VGK+I+  R     SQEKL    GI+   +   E+G+ +     L +I   L   +  
Sbjct: 1   MEVGKKIKELRKQKKWSQEKLAAEAGISQSALSAIERGIKQPTVETLNNICNALNITLVD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           FF    T                 +P  L+L     ++ + K+ + I + +R +  ++ 
Sbjct: 61  FFSEEKTEL---------------SPALLELINVASKMPENKL-KLISDFIRGLSENDD 103


>gi|227873925|ref|ZP_03992145.1| transcriptional regulator [Oribacterium sinus F0268]
 gi|227840231|gb|EEJ50641.1| transcriptional regulator [Oribacterium sinus F0268]
          Length = 213

 Score = 64.4 bits (156), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 19/98 (19%), Positives = 41/98 (41%), Gaps = 2/98 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +I+  RM    +QE++ E LG++ Q +  +E G +      +  +SE     + +  
Sbjct: 5   IGSKIKAARMEKKFTQEQVAEVLGVSRQTISNWENGKSYPDIISVIKMSECYGVSLDYLL 64

Query: 75  DVSPTVCS--DISSEENNVMDFISTPDGLQLNRYFIQI 110
                +    D   E  NV+      + + +   ++ I
Sbjct: 65  KGEEKMSGYYDFLEESTNVVKSTGNRNKIIIILSYMLI 102


>gi|15900927|ref|NP_345531.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           TIGR4]
 gi|237650284|ref|ZP_04524536.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           CCRI 1974]
 gi|237822126|ref|ZP_04597971.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           CCRI 1974M2]
 gi|14972531|gb|AAK75171.1| putative transcriptional regulator PlcR [Streptococcus pneumoniae
           TIGR4]
          Length = 288

 Score = 64.4 bits (156), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 28/101 (27%), Positives = 48/101 (47%), Gaps = 3/101 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++ RR  L MSQ +L E  GI  Q Q+ + E G    GA  L  +++ L+  + +FFD 
Sbjct: 8   RLKNRRKELKMSQRELAE--GICKQGQISRLESGEFTPGADFLHALAKKLKVSMDYFFDE 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
                 +  SE   +     T    +  +Y  ++++VK  +
Sbjct: 66  QVVEEVNELSEFKKLAQTFITNRNYESLKYIYELENVKAHR 106


>gi|325840878|ref|ZP_08167213.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
 gi|325490135|gb|EGC92473.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
          Length = 330

 Score = 64.4 bits (156), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 4/78 (5%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G +I   R   GMSQE+L   LG+T Q +  +E+G+ +     L  ++ + E+ +   
Sbjct: 5  QLGTQIATLRKRRGMSQEELANQLGVTRQAISNWERGMTQPDLEMLMKLAAIFETDL--- 61

Query: 74 FDVSPTVCSDISSEENNV 91
           D    + SDI  E   +
Sbjct: 62 -DGLMGIKSDIKEEPVEL 78


>gi|126649830|ref|ZP_01722066.1| hypothetical protein BB14905_16570 [Bacillus sp. B14905]
 gi|126593549|gb|EAZ87494.1| hypothetical protein BB14905_16570 [Bacillus sp. B14905]
          Length = 180

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 39/77 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R+  G++QE+LGE   ++   + + E+ +N      L  I EVL S    
Sbjct: 1  MQIGAKIKALRLKKGLTQEELGERTDLSKGYISQLERDLNSPSIETLFSILEVLGSTPKE 60

Query: 73 FFDVSPTVCSDISSEEN 89
          FFD        + +EE+
Sbjct: 61 FFDDGTPEQKVVYTEED 77


>gi|116669644|ref|YP_830577.1| XRE family transcriptional regulator [Arthrobacter sp. FB24]
 gi|116609753|gb|ABK02477.1| transcriptional regulator, XRE family with cupin sensor
          [Arthrobacter sp. FB24]
          Length = 199

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 35/75 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG ++R  R   GM+  +L +  G++   V + E+G+     + L  ++  L+ P+  FF
Sbjct: 18 VGNKVRTMRKAKGMTLARLSDITGLSQAIVSQIERGLANPSFTTLAQLAHGLDVPVGRFF 77

Query: 75 DVSPTVCSDISSEEN 89
                 S +  + +
Sbjct: 78 IGQDESKSPVVRKSD 92


>gi|319939951|ref|ZP_08014306.1| serine hydroxymethyltransferase [Streptococcus anginosus 1_2_62CV]
 gi|319810962|gb|EFW07281.1| serine hydroxymethyltransferase [Streptococcus anginosus 1_2_62CV]
          Length = 290

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 25/101 (24%), Positives = 51/101 (50%), Gaps = 4/101 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++ +R+ LG+SQ++L E  G+  Q Q+ + EKG    G+  L  +S+ +  P+++FFD 
Sbjct: 8   RLKSKRLELGVSQKELAE--GVCEQGQISRMEKGKYMPGSDLLYSLSKKMNVPMNYFFDD 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID-DVKVR 116
           S    +    +   +++           +Y   ++ D + R
Sbjct: 66  SVLGETSKLVQFKELVESFLVKREYDSLKYLYSLEIDKQHR 106


>gi|9630190|ref|NP_046617.1| putative SPbeta phage repressor [Bacillus phage SPBc2]
 gi|16079161|ref|NP_389985.1| Xre family transcriptional regulator [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221310009|ref|ZP_03591856.1| hypothetical protein Bsubs1_11581 [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221314331|ref|ZP_03596136.1| hypothetical protein BsubsN3_11502 [Bacillus subtilis subsp.
           subtilis str. NCIB 3610]
 gi|221319253|ref|ZP_03600547.1| hypothetical protein BsubsJ_11428 [Bacillus subtilis subsp.
           subtilis str. JH642]
 gi|221323529|ref|ZP_03604823.1| hypothetical protein BsubsS_11557 [Bacillus subtilis subsp.
           subtilis str. SMY]
 gi|81342058|sp|O31943|YONR_BACSU RecName: Full=SPBc2 prophage-derived uncharacterized HTH-type
           transcriptional regulator yonR
 gi|2634522|emb|CAB14020.1| putative transcriptional regulator (Xre family); phage SPbeta
           [Bacillus subtilis subsp. subtilis str. 168]
 gi|3025543|gb|AAC13038.1| putative SPbeta phage repressor [Bacillus phage SPbeta]
          Length = 108

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 48/110 (43%), Gaps = 11/110 (10%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R++  R   G SQ+++ + LGIT Q   KYE G        L  +S +L     F   
Sbjct: 3   GERLKKCRTSKGYSQQRMADFLGITRQGYGKYEIGKAEPDLKTLTKLSNILGVSTDFLLK 62

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFI-QIDDVKVRQKIIELVR 124
                    +  + ++ + ++ P+   L   +   I + + ++ +  L++
Sbjct: 63  G--------THAQFDLDEILNDPET--LIAGYNGMISEEQAKELLYYLLK 102


>gi|313116082|ref|ZP_07801505.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii KLE1255]
 gi|310621588|gb|EFQ05120.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii KLE1255]
          Length = 120

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 28/123 (22%), Positives = 54/123 (43%), Gaps = 16/123 (13%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +PN     +G+++R  R + G++QE+L E   ++ + +   EKG        L  I+ VL
Sbjct: 3   MPNSDLKVLGEKVRTERKLAGLTQEQLAERCHVSTKHIANIEKGSMNPSYEILLAIARVL 62

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             P+S   D   T   D +  E             + NR ++   +  VR+ +++  R++
Sbjct: 63  --PVS--LDALITPGMDKTEIELK-----------EFNRIYLSCPEA-VRETLMDSTRTL 106

Query: 127 VSS 129
              
Sbjct: 107 AKH 109


>gi|242240629|ref|YP_002988810.1| XRE family transcriptional regulator [Dickeya dadantii Ech703]
 gi|242132686|gb|ACS86988.1| transcriptional regulator, XRE family [Dickeya dadantii Ech703]
          Length = 93

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 41/89 (46%), Gaps = 5/89 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +R++  R+   ++QE+LG   GI     + ++ +YE G +      +   +  L  P S+
Sbjct: 4   ERLKNARLRANLTQEQLGVLAGIGEETAYSRLSQYESGTHTPSFKTVCAFAHALNVPESY 63

Query: 73  FFDVSPTVCSDISS-EENNVMDFISTPDG 100
           F+ V  +    I +      + +  TP+G
Sbjct: 64  FYTVDDSFAEAILTLYAGETVRWQRTPEG 92


>gi|226948120|ref|YP_002803211.1| HTH domain protein [Clostridium botulinum A2 str. Kyoto]
 gi|226840862|gb|ACO83528.1| HTH domain protein [Clostridium botulinum A2 str. Kyoto]
          Length = 384

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 36/77 (46%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N  D+N+GK I  +R   G++QE+L   +G++   V K+E G +      L  ++   
Sbjct: 1  MINLRDLNIGKCIIHKRKEKGITQEQLANYIGVSKASVSKWESGSSYPDIVLLPELATYF 60

Query: 67 ESPISFFFDVSPTVCSD 83
             +      SP +  +
Sbjct: 61 NISVDELLGYSPQLTKE 77


>gi|289578606|ref|YP_003477233.1| XRE family transcriptional regulator [Thermoanaerobacter italicus
           Ab9]
 gi|289528319|gb|ADD02671.1| transcriptional regulator, XRE family [Thermoanaerobacter italicus
           Ab9]
          Length = 129

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 22/128 (17%), Positives = 55/128 (42%), Gaps = 8/128 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N  KR+   R   G++Q++L + LG++   +  YE G        LQ +S++    + +
Sbjct: 1   MNFAKRLATLRKEAGLTQKELADKLGVSRGTIGMYEIGQRDPDTETLQKLSDIFGVSVDY 60

Query: 73  FFD-----VSPTVCSDISSEENNVMDF---ISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                         ++   ++  +++F   +   + L+L     +    K  +++I +++
Sbjct: 61  LLGKTDIRNPSDEITEAVEDDPELLEFWNELKQREDLKLLFKQTRKLSPKDIKQVIRIIK 120

Query: 125 SIVSSEKK 132
           +I   E  
Sbjct: 121 AIEEEESN 128


>gi|197105901|ref|YP_002131278.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
 gi|196479321|gb|ACG78849.1| transcriptional regulator, Cro/CI family [Phenylobacterium zucineum
           HLK1]
          Length = 206

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 22/96 (22%), Positives = 44/96 (45%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           IN+G  +R+RR  LG++ ++L E  G++   + + E+G        L  IS+ L   ++ 
Sbjct: 22  INIGPAVRVRRKELGLTLKELAERSGLSVAFISQIERGKTAPSIISLLQISDALGVGVNH 81

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
           F + +          +   +D  S    ++L+  F 
Sbjct: 82  FVEATQEEKLIRRGRDPEFIDVDSPTTYIRLSNSFP 117


>gi|306830136|ref|ZP_07463320.1| hypothetical transcriptional regulator [Streptococcus mitis ATCC
           6249]
 gi|304427662|gb|EFM30758.1| hypothetical transcriptional regulator [Streptococcus mitis ATCC
           6249]
          Length = 228

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 18/120 (15%), Positives = 51/120 (42%), Gaps = 26/120 (21%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR  L ++Q+++ E LGI+FQ    +E+G+      ++  +  +L+    +F   
Sbjct: 5   EKLKARRKELKLTQKEIAEELGISFQAYSAWERGIKEPSQEKVAQLENILKVAKGYFTQ- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
                                   +++ R +  +   + + K++   R++   E+  + +
Sbjct: 64  ------------------------IEIVRLYNSL-SKQGKDKVVLYARNLAKEEQTQKVM 98


>gi|222081886|ref|YP_002541251.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221726565|gb|ACM29654.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 227

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 41/97 (42%), Gaps = 9/97 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 34  NNLEMAIGHEVRAYRKKLGITVTDLAASTGISLGMLSKIENGNISPSLTTLQSLSRALGV 93

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P++ FF       + +         F+    G++L R
Sbjct: 94  PLTAFFRRYEEPRNAV---------FVKAGQGIELER 121


>gi|332983435|ref|YP_004464876.1| helix-turn-helix domain-containing protein [Mahella australiensis
           50-1 BON]
 gi|332701113|gb|AEE98054.1| helix-turn-helix domain protein [Mahella australiensis 50-1 BON]
          Length = 127

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 14/120 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RI+  R    +SQ +L   LG+T Q +  YE G+       +  I+      I +    
Sbjct: 2   NRIKELREEAKISQAELASILGVTQQALSNYENGLREPDLDTINKIANYFGVSIDYLLCR 61

Query: 77  SPTVCSDISSEE-------NNVMDFISTPDGLQLNRYFIQIDDVK---VRQ--KIIELVR 124
           +    SD+  E          + + ++  + ++L   F +I D+K   V++  KIIE+V 
Sbjct: 62  TNVRNSDVIEEAIKDDPELERIWNMLNNREEVRLM--FKKIADLKPADVKRILKIIEIVE 119


>gi|126173068|ref|YP_001049217.1| helix-turn-helix domain-containing protein [Shewanella baltica
          OS155]
 gi|125996273|gb|ABN60348.1| helix-turn-helix domain protein [Shewanella baltica OS155]
          Length = 367

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R+   R   G+S   L   +G++   ++KYE G     +S L  +++ L+    +FF
Sbjct: 4  ERLERARKAAGLSMNALANEVGLSANAIKKYEHGTAMPSSSNLLKLAKALDVRTEYFF 61


>gi|327441218|dbj|BAK17583.1| predicted transcriptional regulator [Solibacillus silvestris
          StLB046]
          Length = 180

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 40/77 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R+  G++QE+LGE   ++   + + E+ +N      L ++ EVL      
Sbjct: 1  MQIGSKIKALRIKKGLTQEELGERTDLSKGYISQLERDLNSPSIETLFNLLEVLGCTPRD 60

Query: 73 FFDVSPTVCSDISSEEN 89
          FFD +      + ++++
Sbjct: 61 FFDDTQENEKIVFTKDD 77


>gi|163731540|ref|ZP_02138987.1| transcriptional regulator, putative [Roseobacter litoralis Och
          149]
 gi|161394994|gb|EDQ19316.1| transcriptional regulator, putative [Roseobacter litoralis Och
          149]
          Length = 429

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 35/85 (41%), Gaps = 1/85 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR RR + G+ Q  L   LGI+   +   E    R+G   L  I+ VL    S   
Sbjct: 7  IGSRIRERRSVAGLKQADLARSLGISPSYLNLIEHNRRRIGGKLLLDIARVLSVEPSLLT 66

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
          + +         E     + +S+ +
Sbjct: 67 EGAEAALIATLREAAKSAN-LSSAE 90


>gi|266622984|ref|ZP_06115919.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium hathewayi DSM 13479]
 gi|288865257|gb|EFC97555.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium hathewayi DSM 13479]
          Length = 365

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 26/96 (27%), Positives = 40/96 (41%), Gaps = 11/96 (11%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
           G+RI   R    M+Q +L E LGI+ Q V K+E G++      L  +S+VL         
Sbjct: 33  GERITYLRKRKKMTQAQLAEQLGISAQAVSKWESGLSCPDIMTLVPLSQVLGVSTDELLG 92

Query: 74  ---------FDVSPTVCSDISSEENNVMDFISTPDG 100
                    F+ S T+ +   +E N      S  + 
Sbjct: 93  VQGGMGAGGFEASGTMEAGEHAESNTEPITESNAEA 128


>gi|239626413|ref|ZP_04669444.1| conserved hypothetical protein [Clostridiales bacterium
          1_7_47_FAA]
 gi|239516559|gb|EEQ56425.1| conserved hypothetical protein [Clostridiales bacterium
          1_7_47FAA]
          Length = 232

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK IR  R    MSQE+L   L +T Q V  +E G  +     L+ I+   ++ I
Sbjct: 4  IGKNIRNLRKQKKMSQEQLAGLLHVTRQAVSNWETGRTQPDIETLEAIAGAFDTDI 59


>gi|219848414|ref|YP_002462847.1| XRE family transcriptional regulator [Chloroflexus aggregans DSM
          9485]
 gi|219542673|gb|ACL24411.1| transcriptional regulator, XRE family [Chloroflexus aggregans DSM
          9485]
          Length = 211

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 22/62 (35%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++VGKR+R  R    MS   L E  G+    +   E G      S LQ ++  L+ PIS 
Sbjct: 20 VDVGKRLRTLRERQRMSIRALAEASGLAVNTLSLIENGRTSPSVSTLQRLAVALQVPISA 79

Query: 73 FF 74
          FF
Sbjct: 80 FF 81


>gi|114563122|ref|YP_750635.1| helix-turn-helix domain-containing protein [Shewanella
          frigidimarina NCIMB 400]
 gi|114334415|gb|ABI71797.1| helix-turn-helix domain protein [Shewanella frigidimarina NCIMB
          400]
          Length = 367

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R+   R   G+S   L   +G++   ++KYE G     +S L  +++ L+    +FF
Sbjct: 4  ERLERARKAAGLSMNALASEVGLSANAIKKYEHGTTMPSSSNLLKLAKALDVRSEYFF 61


>gi|227821998|ref|YP_002825969.1| transcriptional regulator, XRE family [Sinorhizobium fredii NGR234]
 gi|227340998|gb|ACP25216.1| transcriptional regulator, XRE family [Sinorhizobium fredii NGR234]
          Length = 244

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 35/83 (42%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G  +R  R  LG++   +     I+   + K E G      + LQ ++  L  PI
Sbjct: 53  LEVAIGHEVRAFRKKLGITVSDVAAATDISVGMLSKIENGNTSPSLTTLQTLARALGVPI 112

Query: 71  SFFFDVSPTVCSDISSEENNVMD 93
           + FF       S +  +    +D
Sbjct: 113 TSFFRGFEEEHSAVFVKAGEGVD 135


>gi|255505928|ref|ZP_05348929.3| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
 gi|255265073|gb|EET58278.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
          Length = 112

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 39/87 (44%), Gaps = 6/87 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
          +G RI+  R     +QE++ + +G++ Q+  + E G N +    L  I+EVL+  +    
Sbjct: 7  LGGRIKALRNAKNFTQEQIADRIGVSRQKYARIENGANSITLDILSAIAEVLDVTVGDIT 66

Query: 74 --FDVSPTV---CSDISSEENNVMDFI 95
             D  P V     +  S    + D +
Sbjct: 67 KVLDEKPAVAYRAGEGGSSSAKIFDML 93


>gi|291526890|emb|CBK92476.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
          Length = 97

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 33/57 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G RI+  R+   ++QE++ + +G++ Q+  + E G N +    L  ++E+L+  + 
Sbjct: 5  LGSRIKALRIAKNLTQEQVADQIGVSRQKYARVESGTNSITLDILSKVAEILDVTVG 61


>gi|110677426|ref|YP_680433.1| DNA-binding protein [Roseobacter denitrificans OCh 114]
 gi|109453542|gb|ABG29747.1| DNA-binding protein [Roseobacter denitrificans OCh 114]
          Length = 215

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 18/99 (18%), Positives = 41/99 (41%), Gaps = 9/99 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R   GM+  +L     ++   + K E G      + LQ ++  L  P+
Sbjct: 27  LEVAIGREVRAYRKQKGMTVAELSRLTDLSIGMLSKIENGNTSPSLTTLQALANALSVPL 86

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           + FF         + ++           +GL++ R   +
Sbjct: 87  TAFFKGFEEHREAVHTKAG---------EGLEIERAGTR 116


>gi|56965322|ref|YP_177054.1| transcriptional regulator [Bacillus clausii KSM-K16]
 gi|56911566|dbj|BAD66093.1| transcriptional regulator [Bacillus clausii KSM-K16]
          Length = 303

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 2/96 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  +G  IR  RM LGMSQE +   + ++   + K E G        L+ I+  L  P+
Sbjct: 1   MDNRIGMEIRNLRMKLGMSQENISSSV-VSQSAISKIENGKYIPNIIVLEAIASKLGVPV 59

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGL-QLNR 105
             F  +S +   +       +++ +S  +   +LNR
Sbjct: 60  DHFLTLSTSYNGEYIETTYEMIEQLSLHEEYEELNR 95


>gi|303242127|ref|ZP_07328617.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
           CD2]
 gi|302590314|gb|EFL60072.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
           CD2]
          Length = 196

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 29/129 (22%), Positives = 53/129 (41%), Gaps = 18/129 (13%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +RI+  R    ++Q +L E LG+  Q +  YE G        L  +++       F    
Sbjct: 13  QRIKQLREENKINQHQLAEILGVKNQTISNYEAGEREPSYGVLLKLADYFNVSTDFLLGR 72

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ--LNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
           +    SD+  +   +++  +  D LQ   N Y+          K I+LV      +K+Y 
Sbjct: 73  TNISHSDLGQKTEYLLEHDAYSDTLQEIFNEYY----------KFIDLV------DKEYE 116

Query: 135 TIEEECMVE 143
             +E C+ +
Sbjct: 117 KTQENCLEQ 125


>gi|160939733|ref|ZP_02087080.1| hypothetical protein CLOBOL_04624 [Clostridium bolteae ATCC
          BAA-613]
 gi|158437167|gb|EDP14932.1| hypothetical protein CLOBOL_04624 [Clostridium bolteae ATCC
          BAA-613]
          Length = 185

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 40/78 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G++++  R   G SQE+L + L ++ Q + K+E G +      +  +S++    I F
Sbjct: 1  MTFGEKLKFLRKQKGFSQERLSQQLTVSRQAISKWELGESLPDTENVIQLSKLFSVSIDF 60

Query: 73 FFDVSPTVCSDISSEENN 90
            + +    +DI + ++N
Sbjct: 61 LLNDNICSEADIPAVQHN 78


>gi|94495587|ref|ZP_01302167.1| hypothetical protein SKA58_06045 [Sphingomonas sp. SKA58]
 gi|94424975|gb|EAT09996.1| hypothetical protein SKA58_06045 [Sphingomonas sp. SKA58]
          Length = 470

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 24/130 (18%), Positives = 56/130 (43%), Gaps = 10/130 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G ++R+ R  LG+SQ ++ E LG++   +   E+    + A  +  ++   +  I  
Sbjct: 9   LYLGPKLRVLRRELGLSQTQMAEELGVSPSYLNHLERNQRPLTAQMMLRLANTYDIDIRD 68

Query: 73  FF----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR--QKIIELVR-- 124
           F     D  P    +I S+       IS  + L++   +  + +   R  + + +L R  
Sbjct: 69  FAAPSTDGGPRELGEILSDALVRDIGISRDEVLEVAENYPGVTEAVARFYRALTDLRRVP 128

Query: 125 --SIVSSEKK 132
             ++    ++
Sbjct: 129 GEALAGGAER 138


>gi|331092227|ref|ZP_08341055.1| hypothetical protein HMPREF9477_01698 [Lachnospiraceae bacterium
           2_1_46FAA]
 gi|330401659|gb|EGG81238.1| hypothetical protein HMPREF9477_01698 [Lachnospiraceae bacterium
           2_1_46FAA]
          Length = 154

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 29/122 (23%), Positives = 56/122 (45%), Gaps = 27/122 (22%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK I L+R    M+QE+L E LG++ + + K+E G      S ++++ + LE  ++  F
Sbjct: 6   IGKYISLKRKQKNMTQEQLAEKLGVSNKTISKWETGKCMPDYSIIKNLCDELEITVAELF 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
           D       + S E++               R + +       ++ + L+R I   EK+  
Sbjct: 66  DG------ETSGEKS--------------VRVYDK-------EQFLNLLRRIQELEKQKN 98

Query: 135 TI 136
           T+
Sbjct: 99  TL 100


>gi|329666628|gb|AEB92576.1| putative transcriptional regulator, Xre family [Lactobacillus
           johnsonii DPC 6026]
          Length = 288

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 21/113 (18%), Positives = 45/113 (39%), Gaps = 4/113 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++I   R    +SQE L E + ++ Q V K+E   +     ++  +SE+      +
Sbjct: 1   MRLGQKITELRKKNNLSQEGLAEKMNVSRQAVSKWESDQSIPDIEKIVSLSELFGVTTDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI--DDVKVRQKIIELV 123
                       +++       +  PD  +L + ++       K+R   I L 
Sbjct: 61  LLKSGAPSFEIKTADIPAEDKLLILPD--ELVQKYLSTAKKSSKLRALSIALA 111


>gi|291530756|emb|CBK96341.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
          Length = 302

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 1/66 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K++++ R   G++QE+L + LG+T Q V K+E G        L  I+++ +  I   +  
Sbjct: 7  KQLQMLRKQSGITQEQLADKLGVTAQAVSKWENGS-YPDGDLLPKIADIFDVSIDNLYGR 65

Query: 77 SPTVCS 82
              CS
Sbjct: 66 GEERCS 71


>gi|255531981|ref|YP_003092353.1| helix-turn-helix domain-containing protein [Pedobacter heparinus
          DSM 2366]
 gi|255344965|gb|ACU04291.1| helix-turn-helix domain protein [Pedobacter heparinus DSM 2366]
          Length = 327

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 32/59 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G +I   R  + +SQ +L + L I+ Q V K+E+G +         +SE+L   +++F
Sbjct: 7  IGNKITEARKKINISQVQLAQRLFISPQAVGKWERGESMPDIITFNRLSEILGVDLNYF 65


>gi|255100973|ref|ZP_05329950.1| putative regulatory protein [Clostridium difficile QCD-63q42]
          Length = 122

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 32/57 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GKRI++ R+   ++QE + + +G+T Q V   E G + V  + L  I+ +L   + 
Sbjct: 8  IGKRIKIARIRTNLTQETVADKIGVTPQHVSNIETGNSSVSLTTLVAIANLLNVSVD 64


>gi|332638098|ref|ZP_08416961.1| hypothetical protein WcibK1_05343 [Weissella cibaria KACC 11862]
          Length = 112

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 39/90 (43%), Gaps = 5/90 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RI+  R     +Q+ L E L ++ Q + K+E G       RL  IS +    +  
Sbjct: 1  MILGQRIKEEREKRQWTQDYLAETLNVSRQTISKWEVGSTYPDIDRLVQISNLFGITLDS 60

Query: 73 FFDVSPTVCSDI-----SSEENNVMDFIST 97
                ++   I     +  + NV +F+ +
Sbjct: 61 LIKGDDSLKKSIVITKNAKAQTNVWEFMRS 90


>gi|282874480|ref|ZP_06283366.1| DNA-binding protein [Staphylococcus epidermidis SK135]
 gi|281296736|gb|EFA89244.1| DNA-binding protein [Staphylococcus epidermidis SK135]
          Length = 104

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 23/86 (26%), Positives = 44/86 (51%), Gaps = 2/86 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R +L M+QE L + L  T Q V K+EK +     + L  +S++    ++ 
Sbjct: 1  MVLGEQIKKHRKLLNMTQEDLCQKLNTTRQTVSKWEKNMIEPDINTLLKLSDIFGISLNE 60

Query: 73 FFDVSPTVCSDISSEENNVMDFISTP 98
                   ++  S+E NV +F+S  
Sbjct: 61 LITGEKEFINN--SKEMNVWEFLSEK 84


>gi|217974624|ref|YP_002359375.1| helix-turn-helix domain-containing protein [Shewanella baltica
          OS223]
 gi|217499759|gb|ACK47952.1| helix-turn-helix domain protein [Shewanella baltica OS223]
 gi|319428169|gb|ADV56243.1| helix-turn-helix domain protein [Shewanella putrefaciens 200]
          Length = 367

 Score = 64.4 bits (156), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R+   R   G+S   L   +G++   ++KYE G     +S L  +++ L+    +FF
Sbjct: 4  ERLERARKAAGLSMNALANEVGLSANAIKKYEHGTAMPSSSNLLKLAKALDVRTEYFF 61


>gi|315274405|ref|ZP_07869367.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
           marthii FSL S4-120]
 gi|313615952|gb|EFR89134.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
           marthii FSL S4-120]
          Length = 111

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 44/98 (44%), Gaps = 2/98 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +
Sbjct: 3   LNKFVGNKIKQYREERGLNQEALAEKLHTTRQTISRYENGDRKANQDVLFELAKIFNKRL 62

Query: 71  SFFFD--VSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             FF     P V   + +   ++ D ++  +   +  Y
Sbjct: 63  DDFFPERSLPPVDERLVTIAAHIDDDVTDEEMRDILAY 100


>gi|32266247|ref|NP_860279.1| hypothetical protein HH0748 [Helicobacter hepaticus ATCC 51449]
 gi|32262297|gb|AAP77345.1| hypothetical protein HH_0748 [Helicobacter hepaticus ATCC 51449]
          Length = 228

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 39/90 (43%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++   R    M+Q+   E  GI++  +Q YE G        L  +S++   P+ FF 
Sbjct: 2   IGSKLVALRNEHQMTQKDFAERTGISYGTLQAYEYGTQSPRYDYLTKVSDIFNVPMIFFL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           D   ++ +  ++ +  V D +       L 
Sbjct: 62  DDDTSLGNSYTNPKGFVSDSLDVRKSDSLV 91


>gi|291521205|emb|CBK79498.1| Predicted transcriptional regulators [Coprococcus catus GD/7]
          Length = 111

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 24/94 (25%), Positives = 43/94 (45%), Gaps = 1/94 (1%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K  N   + +GKRI+ RR+ LGM Q +L E + I+   +   E+G+ R G      I +V
Sbjct: 2  KNENERFVEMGKRIKARRVSLGMKQMELAERIDISNNHISSIERGIERPGLESFIRICDV 61

Query: 66 LESPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
          L+    +   +     +DI     + +   +  +
Sbjct: 62 LDVTPDYLL-LGSMKANDIPKNITDNLKLCTDEE 94


>gi|28210633|ref|NP_781577.1| putative transcriptional regulator [Clostridium tetani E88]
 gi|28203071|gb|AAO35514.1| putative transcriptional regulator [Clostridium tetani E88]
          Length = 126

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 31/60 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + +R++  R +   SQE+L + LG++ Q + K+E G +    S +  +S +      +
Sbjct: 1  MEISERLQQLRKLANYSQEQLADMLGVSRQAISKWESGQSNPDISNVIKLSGIYNVSTDY 60


>gi|304392640|ref|ZP_07374580.1| transcriptional regulator [Ahrensia sp. R2A130]
 gi|303295270|gb|EFL89630.1| transcriptional regulator [Ahrensia sp. R2A130]
          Length = 197

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 16/89 (17%), Positives = 40/89 (44%), Gaps = 1/89 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G  IR  R    ++  +L   +G +   + + E+G++      L+ ++   + PIS+
Sbjct: 17  MALGNEIRQLRKSRSLTLAELALRIGRSVGFISQIERGLSSPSIDDLRALAAAFDVPISW 76

Query: 73  FFDVSPTVCSDISS-EENNVMDFISTPDG 100
           FF   P   ++  +    +    + + +G
Sbjct: 77  FFATEPLNEAERGTVMRADYRRQLGSREG 105


>gi|225575526|ref|ZP_03784136.1| hypothetical protein RUMHYD_03618 [Blautia hydrogenotrophica DSM
          10507]
 gi|225037276|gb|EEG47522.1| hypothetical protein RUMHYD_03618 [Blautia hydrogenotrophica DSM
          10507]
          Length = 124

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 20/58 (34%), Positives = 35/58 (60%), Gaps = 1/58 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +  G+R++  R+  G+SQ +LGE +G IT Q + +YEK  N      ++ I++ L+ P
Sbjct: 1  MTFGERVKELRLKKGLSQRELGERMGGITQQTIAQYEKSENYPKLETIRRIAKALDVP 58


>gi|238755351|ref|ZP_04616693.1| hypothetical protein yruck0001_7650 [Yersinia ruckeri ATCC 29473]
 gi|238706386|gb|EEP98761.1| hypothetical protein yruck0001_7650 [Yersinia ruckeri ATCC 29473]
          Length = 123

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 24/74 (32%), Positives = 37/74 (50%), Gaps = 4/74 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITF----QQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V KR++  R   G+SQEKL E +GI       ++  YE G N      +  I++ L+ P 
Sbjct: 2  VPKRLKAAREAAGLSQEKLAELVGIEGVSLNSRLSNYEVGRNTPSFDFIVRIAKALDYPE 61

Query: 71 SFFFDVSPTVCSDI 84
          S+F+ +   V   I
Sbjct: 62 SYFYTIDDDVAEAI 75


>gi|308071595|ref|YP_003873200.1| transcriptional regulator yazB [Paenibacillus polymyxa E681]
 gi|305860874|gb|ADM72662.1| Putative HTH-type transcriptional regulator yazB [Paenibacillus
           polymyxa E681]
          Length = 114

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 24/89 (26%), Positives = 37/89 (41%), Gaps = 2/89 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG RIR  R   G +QE+L E  G+ +  +   E+G   +    L+ I   L  P    F
Sbjct: 7   VGNRIRELRKAKGWTQEQLAEAAGLHYSYIGGVERGDRNISLETLEKIILALNVPAFELF 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL 103
                   D     N +M  I++ +  +L
Sbjct: 67  QFDENT--DRKQIINELMLLINSRETTEL 93


>gi|326386490|ref|ZP_08208113.1| putative transcriptional regulator [Novosphingobium
          nitrogenifigens DSM 19370]
 gi|326209151|gb|EGD59945.1| putative transcriptional regulator [Novosphingobium
          nitrogenifigens DSM 19370]
          Length = 204

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++IR  R   G++   L E  G++   V + E+G++      L  ++  L   + +FF
Sbjct: 24 LGQQIRALRRDRGLTLAHLAETTGLSLGLVSQIERGLSEPSVKALHLLASALGVTVGWFF 83

Query: 75 DVSPTVCSDISSEE 88
                   +   +
Sbjct: 84 RDDGEREDTLPESD 97


>gi|89899047|ref|YP_521518.1| transcriptional regulator [Rhodoferax ferrireducens T118]
 gi|89343784|gb|ABD67987.1| transcriptional regulator, XRE family with cupin sensor domain
          [Rhodoferax ferrireducens T118]
          Length = 197

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 34/64 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++R RR I G++  +L +  G++   + + E+G++      +  I   L  P+S+ F
Sbjct: 16 LGMQVRQRRRIKGLTLTELSQQSGLSVGLLSQIERGLSSPSLKSMTQICTALGVPLSWLF 75

Query: 75 DVSP 78
          D  P
Sbjct: 76 DNGP 79


>gi|323156532|gb|EFZ42685.1| repressor protein C2 [Escherichia coli EPECa14]
          Length = 211

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 34/76 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L + Q  LG+ +G++   + ++E+         L  +++ L+    +   
Sbjct: 2  GERIRARRKELKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALAKALQCSPDYLLK 61

Query: 76 VSPTVCSDISSEENNV 91
             ++ +      ++ 
Sbjct: 62 GEDSLSNIAYHSRHDP 77


>gi|313635253|gb|EFS01552.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
           seeligeri FSL N1-067]
 gi|313639938|gb|EFS04624.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
           seeligeri FSL S4-171]
          Length = 111

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 21/98 (21%), Positives = 42/98 (42%), Gaps = 2/98 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +
Sbjct: 3   LNKFVGNKIKQYREERGLNQEALAERLHTTRQTISRYENGDRKANQDVLFELAKIFNKRL 62

Query: 71  SFFFDV--SPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             FF     P       +   ++ D ++  +   +  Y
Sbjct: 63  DDFFPERNLPPADERGMTIAAHIDDDVTDEELRDILAY 100


>gi|309701005|emb|CBJ00303.1| putative prophage repressor [Escherichia coli ETEC H10407]
          Length = 211

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 34/76 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L + Q  LG+ +G++   + ++E+         L  +++ L+    +   
Sbjct: 2  GERIRARRKELKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALAKALQCSPDYLLK 61

Query: 76 VSPTVCSDISSEENNV 91
             ++ +      ++ 
Sbjct: 62 GEDSLSNIAYHSRHDP 77


>gi|331657741|ref|ZP_08358703.1| repressor protein C2 [Escherichia coli TA206]
 gi|315299798|gb|EFU59038.1| peptidase S24-like domain protein [Escherichia coli MS 16-3]
 gi|331055989|gb|EGI27998.1| repressor protein C2 [Escherichia coli TA206]
          Length = 216

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 34/76 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L + Q  LG+ +G++   + ++E+         L  +++ L+    +   
Sbjct: 7  GERIRARRKELKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALAKALQCSPDYLLK 66

Query: 76 VSPTVCSDISSEENNV 91
             ++ +      ++ 
Sbjct: 67 GEDSLSNIAYHSRHDP 82


>gi|260585081|ref|ZP_05852823.1| transcriptional regulator, Cro/CI family [Granulicatella elegans
          ATCC 700633]
 gi|260157277|gb|EEW92351.1| transcriptional regulator, Cro/CI family [Granulicatella elegans
          ATCC 700633]
          Length = 180

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 34/80 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  ++  R+  G++QE+L E   ++   + + E  ++         I EVL      
Sbjct: 1  MEIGSHLKALRVQKGLTQEELAERTDLSKGYISQLENDLSSPSMDTFFDILEVLGCAPKD 60

Query: 73 FFDVSPTVCSDISSEENNVM 92
          FF+  P     +   E+  +
Sbjct: 61 FFEDGPEEALTVYGPEDMTV 80


>gi|157159743|ref|YP_001457061.1| P22 repressor protein c2 [Escherichia coli HS]
 gi|253774261|ref|YP_003037092.1| XRE family transcriptional regulator [Escherichia coli
          'BL21-Gold(DE3)pLysS AG']
 gi|260856262|ref|YP_003230153.1| putative phage repressor protein CI [Escherichia coli O26:H11
          str. 11368]
 gi|291283947|ref|YP_003500765.1| P22 repressor protein c2 [Escherichia coli O55:H7 str. CB9615]
 gi|157065423|gb|ABV04678.1| P22 repressor protein c2 [Escherichia coli HS]
 gi|194021560|gb|ACF32369.1| repressor protein C2 [Enterobacteria phage DE3]
 gi|253325305|gb|ACT29907.1| transcriptional regulator, XRE family [Escherichia coli
          'BL21-Gold(DE3)pLysS AG']
 gi|253976933|gb|ACT42603.1| Repressor protein C2 [Escherichia coli BL21(DE3)]
 gi|257754911|dbj|BAI26413.1| putative phage repressor protein CI [Escherichia coli O26:H11
          str. 11368]
 gi|290763820|gb|ADD57781.1| P22 repressor protein c2 [Escherichia coli O55:H7 str. CB9615]
 gi|313848585|emb|CBY77813.1| P22 repressor protein c2 [Escherichia coli BL21(DE3)]
 gi|324114861|gb|EGC08828.1| peptidase S24 [Escherichia fergusonii B253]
          Length = 216

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 34/76 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L + Q  LG+ +G++   + ++E+         L  +++ L+    +   
Sbjct: 7  GERIRARRKELKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALAKALQCSPDYLLK 66

Query: 76 VSPTVCSDISSEENNV 91
             ++ +      ++ 
Sbjct: 67 GEDSLSNIAYHSRHDP 82


>gi|313114612|ref|ZP_07800120.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii KLE1255]
 gi|310623076|gb|EFQ06523.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii KLE1255]
          Length = 210

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 3/83 (3%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           ++  R   G+SQ +L   LG+T Q V K+E G +    S +  I+E+L +   +   +  
Sbjct: 7   LKQCRKKQGISQAELASKLGVTQQAVGKWESGKSSPDPSTVARIAELLNTTADYLLGLYR 66

Query: 79  TVCSDISSEENNVMDFISTPDGL 101
            V +  + EE     F S  + L
Sbjct: 67  PVSNVSAPEERF---FGSYSESL 86


>gi|308068399|ref|YP_003870004.1| transcriptional regulator y4dJ [Paenibacillus polymyxa E681]
 gi|305857678|gb|ADM69466.1| Putative HTH-type transcriptional regulator y4dJ [Paenibacillus
           polymyxa E681]
          Length = 112

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 27/98 (27%), Positives = 43/98 (43%), Gaps = 4/98 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             VG RIR  R   G+SQE LGE  G  F  + + E+G   V    +  I+  L+  +  
Sbjct: 8   KLVGARIRALRKEKGLSQESLGEKGGFHFSYIGQIERGEKNVSLINIAKIANALDVNLIQ 67

Query: 73  FFDVSPTVCSDISSEE--NNVMDFI--STPDGLQLNRY 106
            F            EE    +++ +  S+P+ ++L R 
Sbjct: 68  LFAYVNEDIKVTKHEEGIQEIVNILQKSSPEKVRLARN 105


>gi|295101168|emb|CBK98713.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Faecalibacterium prausnitzii L2-6]
          Length = 210

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 20/76 (26%), Positives = 37/76 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G+SQ +L   LG+T Q V K+E G +    + +  I+E+L +   F   +  
Sbjct: 7  LKQCRKQKGISQAELASKLGVTQQAVGKWESGKSSPDPATVARIAEILSTTADFLLGLYR 66

Query: 79 TVCSDISSEENNVMDF 94
           V +  + EE    ++
Sbjct: 67 PVSNVTTPEERFFGNY 82


>gi|191638861|ref|YP_001988027.1| Transcriptional regulator, xre family [Lactobacillus casei BL23]
 gi|190713163|emb|CAQ67169.1| Transcriptional regulator, xre family [Lactobacillus casei BL23]
 gi|327382909|gb|AEA54385.1| hypothetical protein LC2W_2053 [Lactobacillus casei LC2W]
 gi|327386093|gb|AEA57567.1| hypothetical protein LCBD_2071 [Lactobacillus casei BD-II]
          Length = 344

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 37/59 (62%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++ + IR RR+ LG++QE+L   +G++   V  +EKGV+    + L  ++ +L + ++
Sbjct: 1  MHIDQVIRERRLALGLTQEELANKIGVSAPAVSIWEKGVSYPDITLLPALARILGTDVN 59


>gi|318062605|ref|ZP_07981326.1| helix-turn-helix domain-containing protein [Streptomyces sp.
          SA3_actG]
 gi|318080566|ref|ZP_07987898.1| helix-turn-helix domain-containing protein [Streptomyces sp.
          SA3_actF]
          Length = 365

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 31/66 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R+  GMSQ  L   + +    + + E G  RV A  L  +++ L  P++ F 
Sbjct: 7  IGERIAEARLAAGMSQGDLASKVALDRTAMVRIEAGDRRVSALELSRLAQALGVPVAHFL 66

Query: 75 DVSPTV 80
             P  
Sbjct: 67 SRPPAA 72


>gi|289433492|ref|YP_003463364.1| Lambda repressor-like, DNA-binding domain protein [Listeria
           seeligeri serovar 1/2b str. SLCC3954]
 gi|289169736|emb|CBH26272.1| Lambda repressor-like, DNA-binding domain protein [Listeria
           seeligeri serovar 1/2b str. SLCC3954]
          Length = 111

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 21/98 (21%), Positives = 42/98 (42%), Gaps = 2/98 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +
Sbjct: 3   LNKFVGNKIKQYREERGLNQEALAERLHTTRQTISRYENGDRKANQDILFELAKIFNKRL 62

Query: 71  SFFFDV--SPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             FF     P       +   ++ D ++  +   +  Y
Sbjct: 63  DDFFPERNLPPADERGMTIAAHIDDDVTDEELRDILAY 100


>gi|289168842|ref|YP_003447111.1| transcriptional regulator [Streptococcus mitis B6]
 gi|288908409|emb|CBJ23251.1| transcriptional regulator [Streptococcus mitis B6]
          Length = 141

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 40/77 (51%), Gaps = 2/77 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--F 74
           R++  R    +SQ++L E +G+ ++ +Q +E G +++   + Q +++     + +   +
Sbjct: 2  NRLKELRQEKKLSQKELAENIGVHYRTLQNWENGESQIKPEKAQQLADFFGVSVGYLLGY 61

Query: 75 DVSPTVCSDISSEENNV 91
          + + T+ + +   E  +
Sbjct: 62 EEAKTLENILKDAEEYL 78


>gi|266619976|ref|ZP_06112911.1| helix-turn-helix protein [Clostridium hathewayi DSM 13479]
 gi|288868440|gb|EFD00739.1| helix-turn-helix protein [Clostridium hathewayi DSM 13479]
          Length = 260

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 24/99 (24%), Positives = 45/99 (45%), Gaps = 6/99 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N G+++   R   G+SQE L E L  T Q + K+E         +L  +S++ + P+ F
Sbjct: 1   MNFGEKLFNLRKEKGLSQEALAEQLNTTRQAISKWENNHGYPETEKLLKLSDIFQVPVDF 60

Query: 73  FFDVSPTVCSDISSE----ENNVMDFISTPDGLQLNRYF 107
               +  + +  S          + ++S+     +NRYF
Sbjct: 61  LLKETTGIENQNSGNIYVTREMAVSYLSSES--MVNRYF 97


>gi|309778439|ref|ZP_07673354.1| toxin-antitoxin system, antitoxin component, Xre family
           [Erysipelotrichaceae bacterium 3_1_53]
 gi|308913802|gb|EFP59627.1| toxin-antitoxin system, antitoxin component, Xre family
           [Erysipelotrichaceae bacterium 3_1_53]
          Length = 211

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 41/88 (46%), Gaps = 3/88 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G+ I+  R   GM Q++L + +GI  Q + K E+G+N      L+ I +VL    +  
Sbjct: 10  FLGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGMNYPTFDTLEKIMDVLGVTPN-- 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            ++       ++  E  V  F+   + L
Sbjct: 68  -ELLSGEWKYVNQAEKEVCQFLRIEERL 94


>gi|160916303|ref|ZP_02078510.1| hypothetical protein EUBDOL_02334 [Eubacterium dolichum DSM 3991]
 gi|158432027|gb|EDP10316.1| hypothetical protein EUBDOL_02334 [Eubacterium dolichum DSM 3991]
          Length = 258

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 32/74 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++I   R   G+SQE L E +G T Q + K+E         +L  +S + E    +
Sbjct: 1  MSLGEKIFKLRKEKGLSQEALAEQVGTTRQAISKWENDQGFPETEKLLRLSNIFEVSTDY 60

Query: 73 FFDVSPTVCSDISS 86
                TV      
Sbjct: 61 LLKDEKTVKDSEEH 74


>gi|302670002|ref|YP_003829962.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
 gi|302394475|gb|ADL33380.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
          Length = 174

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G RI+  R    +SQ +L   LG T + VQKYE G        L  I+  L    +
Sbjct: 7  IGNRIKEARKAQHLSQTELANRLGKTMRTVQKYESGEIEPSIGVLNEIANNLNISPA 63


>gi|224476213|ref|YP_002633819.1| putative DNA binding protein [Staphylococcus carnosus subsp.
          carnosus TM300]
 gi|222420820|emb|CAL27634.1| putative DNA binding protein [Staphylococcus carnosus subsp.
          carnosus TM300]
          Length = 179

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 36/81 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G+++R  R I  ++QE+L E   ++   + + E G +        HI EVL +    
Sbjct: 1  MNIGQKLRNLRKIKDLTQEELAERTDLSKGYISQIESGQSSPSMESFLHILEVLGTSPEL 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF   P         E  + D
Sbjct: 61 FFKEKPKEKVLYPKAEQAIYD 81


>gi|167628808|ref|YP_001679307.1| helix-turn-helix domain protein [Heliobacterium modesticaldum Ice1]
 gi|167591548|gb|ABZ83296.1| helix-turn-helix domain protein [Heliobacterium modesticaldum Ice1]
          Length = 119

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 28/121 (23%), Positives = 54/121 (44%), Gaps = 8/121 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
           +G RI+  R   G++Q +L + L ++ Q +  +E+G    +    +  ++ +LE+   F 
Sbjct: 4   IGNRIKHLRKQRGLTQPQLAKLLNVSPQVISNWERGYTPTIAPESIDKLASILETTSDFL 63

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL-QLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
              S    S             S P+G+  L R   ++   K R  I+EL+ + V +E  
Sbjct: 64  LGRSTASISSSLEALEK-----SWPEGIKVLRRANEKLTPEKKR-VILELIDTYVRTEGN 117

Query: 133 Y 133
           +
Sbjct: 118 H 118


>gi|315300972|ref|ZP_07872315.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
           ivanovii FSL F6-596]
 gi|313630659|gb|EFR98449.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
           ivanovii FSL F6-596]
          Length = 111

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 43/98 (43%), Gaps = 2/98 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +
Sbjct: 3   LNKFVGNKIKQYREERGLNQEALAERLHTTRQTISRYENGDRKANQDVLFELAKIFNKRL 62

Query: 71  SFFFDV--SPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             FF     P V     +   ++ D ++  +   +  Y
Sbjct: 63  DDFFPERNLPPVDERGMTVAAHIDDDVTDEELRDILAY 100


>gi|322373053|ref|ZP_08047589.1| putative repressor protein [Streptococcus sp. C150]
 gi|321278095|gb|EFX55164.1| putative repressor protein [Streptococcus sp. C150]
          Length = 229

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 20/103 (19%), Positives = 43/103 (41%), Gaps = 6/103 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R++  R   GMSQ  + + LGI+      +E G  +     L  ++E+     ++F  
Sbjct: 4   GQRLKEIREAQGMSQAAVAKHLGISRSSYFNWENGKTKPNQKNLSVLAELFGVAETYFLS 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
               V   +   E N        + L+L +  ++  + + ++ 
Sbjct: 64  EHEIVEVYLELNEEN------RQEALRLTKALLEEQEAEKQKA 100


>gi|313897568|ref|ZP_07831110.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312957520|gb|EFR39146.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 302

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 35/87 (40%), Gaps = 7/87 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G++++  R   GMSQE+L   L ++ Q V K+E         ++  I  +    + +
Sbjct: 1  MKFGEKLQKLRKEKGMSQEELAARLHVSRQAVSKWENDQGYPETEKMLMIGNIFSVTMDY 60

Query: 73 FFDVSPTVCSDISSEENNVMDFISTPD 99
                    D   ++     F ++ +
Sbjct: 61 L-------LKDEGGDQPQEQGFYASRE 80


>gi|260174286|ref|ZP_05760698.1| transcriptional regulator [Bacteroides sp. D2]
 gi|315922556|ref|ZP_07918796.1| transcriptional regulator [Bacteroides sp. D2]
 gi|313696431|gb|EFS33266.1| transcriptional regulator [Bacteroides sp. D2]
          Length = 135

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 33/55 (60%), Gaps = 1/55 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++G++I   R + GM+Q  LGE LG+T Q + K E+   ++   +L+ +++ L  
Sbjct: 11 HLGRKIERIRRLRGMTQTDLGELLGVTKQAISKMEQSE-KIDDDKLKQVADALGV 64


>gi|58338178|ref|YP_194763.1| hypothetical protein LBA1936 [Lactobacillus acidophilus NCFM]
 gi|227902636|ref|ZP_04020441.1| XRE family transcriptional regulator [Lactobacillus acidophilus
           ATCC 4796]
 gi|58255495|gb|AAV43732.1| hypothetical protein LBA1936 [Lactobacillus acidophilus NCFM]
 gi|227869542|gb|EEJ76963.1| XRE family transcriptional regulator [Lactobacillus acidophilus
           ATCC 4796]
          Length = 174

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 32/70 (45%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++I   R     SQE+L E L ++ Q V K+E G  +    ++  +S++ +    +    
Sbjct: 46  QKIAQLRNDNNWSQEELAEKLNVSRQSVSKWESGQAKPDLDKIIALSDIFDVSTDYLLKD 105

Query: 77  SPTVCSDISS 86
                S+ S+
Sbjct: 106 DNEEKSNPST 115


>gi|89098807|ref|ZP_01171688.1| hypothetical protein B14911_05089 [Bacillus sp. NRRL B-14911]
 gi|89086483|gb|EAR65603.1| hypothetical protein B14911_05089 [Bacillus sp. NRRL B-14911]
          Length = 299

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 32/125 (25%), Positives = 59/125 (47%), Gaps = 19/125 (15%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+GK+I+  R+  G+ Q +L E +  T  Q+ K E+G     +S L  I+  L   IS+F
Sbjct: 7   NLGKKIKDLRVSRGLKQSELSEGI-CTQAQISKIERGDIIPLSSTLYLIARRLGVDISYF 65

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           F ++    ++       V + ++     QL     +++  +VR    ++V+     EK  
Sbjct: 66  FGMNGIASNE------YVEEVMT-----QLYNARKKLEYDQVR----DIVK---VEEKNP 107

Query: 134 RTIEE 138
           R +E 
Sbjct: 108 RILEN 112


>gi|223933764|ref|ZP_03625736.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
 gi|223897568|gb|EEF63957.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
          Length = 289

 Score = 64.1 bits (155), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 22/69 (31%), Positives = 38/69 (55%), Gaps = 3/69 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +  R++ RR  LG SQ++L E  G+  Q Q+ + EKG    GA  L  +++ L+  + 
Sbjct: 3  VLLATRLKNRRKELGWSQKELAE--GVCDQGQISRIEKGTYMPGADLLHALAKKLQVRMD 60

Query: 72 FFFDVSPTV 80
          +FFD   + 
Sbjct: 61 YFFDEEESE 69


>gi|166030939|ref|ZP_02233768.1| hypothetical protein DORFOR_00620 [Dorea formicigenerans ATCC
          27755]
 gi|166029206|gb|EDR47963.1| hypothetical protein DORFOR_00620 [Dorea formicigenerans ATCC
          27755]
          Length = 179

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 39/76 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK+I+  R+  G++QE+L +   ++   + + E+ +     + L  I + L + +S 
Sbjct: 1  MDIGKKIKELRVAKGLTQEELADRSELSKGFISQLERDLTSPSIATLMDILQCLGTTVSE 60

Query: 73 FFDVSPTVCSDISSEE 88
          FF   P       +E+
Sbjct: 61 FFQEEPEDQIVFQNED 76


>gi|262280383|ref|ZP_06058167.1| conserved hypothetical protein [Acinetobacter calcoaceticus
          RUH2202]
 gi|262258161|gb|EEY76895.1| conserved hypothetical protein [Acinetobacter calcoaceticus
          RUH2202]
          Length = 209

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 28/56 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +VG  IR  R   G+SQ+ L +  G++ + +   E G   +  ++L  I+ VL   
Sbjct: 36 HVGTNIRSLRDERGLSQQDLADQAGVSRRTIAALETGQVNISLAKLDAIAAVLSVD 91


>gi|253573993|ref|ZP_04851335.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
           D14]
 gi|251846470|gb|EES74476.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
           D14]
          Length = 111

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 37/90 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VGKRIR  R     +QE+L E   + +  +   E+G   +    L+ I+  L+ P    F
Sbjct: 7   VGKRIREYRKQKNWTQEQLAEAASLHYSYIGGVERGDRNISLETLEKIAVALDVPAGDLF 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
                +      +E+  +    + + + L 
Sbjct: 67  RTEVVLDKQQLLDEHMKLVSSRSAEEIALI 96


>gi|291557731|emb|CBL34848.1| Predicted transcriptional regulators [Eubacterium siraeum
          V10Sc8a]
          Length = 302

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 1/66 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K+++  R   G++QE+L + LG+T Q V K+E G        L  I+++ +  I   +  
Sbjct: 7  KQLQKLRKQSGITQEQLADKLGVTAQAVSKWENGS-YPDGDLLPKIADIFDVSIDNLYGR 65

Query: 77 SPTVCS 82
              CS
Sbjct: 66 GEEKCS 71


>gi|56695338|ref|YP_165686.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
 gi|56677075|gb|AAV93741.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
          Length = 193

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 33/73 (45%), Gaps = 1/73 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R+R  R   G++ ++L    G++   + + E+         L  IS  L   I++FF
Sbjct: 13 IGTRMRELRKARGLTLKQLAAATGLSIGYLSQLERQAADPSVRALNVISTALGVGINWFF 72

Query: 75 DVSPTVCSDISSE 87
             P   SD  ++
Sbjct: 73 -PDPDTVSDPEAD 84


>gi|239827077|ref|YP_002949701.1| XRE family transcriptional regulator [Geobacillus sp. WCH70]
 gi|239807370|gb|ACS24435.1| transcriptional regulator, XRE family [Geobacillus sp. WCH70]
          Length = 108

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 22/83 (26%), Positives = 38/83 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  VG+RIR  R    +S  +L + LGI+  ++ + E G   +  S +Q   E  + P+
Sbjct: 3  INKKVGERIREVRKKYNLSMMQLADELGISQPRLSRIENGDQEIPISLIQKFCERFDIPL 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          S FF           S  N  ++
Sbjct: 63 SSFFRSLEKDEKAGDSLINEQLE 85


>gi|332300885|ref|YP_004442806.1| helix-turn-helix domain protein [Porphyromonas asaccharolytica
          DSM 20707]
 gi|332177948|gb|AEE13638.1| helix-turn-helix domain protein [Porphyromonas asaccharolytica
          DSM 20707]
          Length = 355

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 33/58 (56%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+RIR  R + GM+  +L + +G++   +   E+G   +  + L  +SE L+ PI +F
Sbjct: 6  GERIRKGRALRGMTLRELADKVGVSHTHISNLERGGKEITGATLIALSEALDLPIDYF 63


>gi|322412563|gb|EFY03471.1| phage transcriptional repressor [Streptococcus dysgalactiae subsp.
           dysgalactiae ATCC 27957]
          Length = 248

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 30/134 (22%), Positives = 63/134 (47%), Gaps = 16/134 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPIS 71
           +++G +++ RR+ + +S E+L + LG++   + +YEKG   +V    L+ IS++L +  +
Sbjct: 1   MDIGAKLKQRRLEVNVSVEELAKKLGVSKTTIYRYEKGEILKVPTEVLEKISKILNTNPA 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ-KIIELVRSIVSSE 130
           +F   S T       +   + + I T   L+           + RQ K++      +  +
Sbjct: 61  YFMGWSDTP---TPVQTQTLQEIIVTSKQLE-----------QPRQEKVLSFANEQLEEQ 106

Query: 131 KKYRTIEEECMVEQ 144
            K  ++ EE    Q
Sbjct: 107 SKVVSMHEELFSVQ 120


>gi|322420390|ref|YP_004199613.1| helix-turn-helix domain-containing protein [Geobacter sp. M18]
 gi|320126777|gb|ADW14337.1| helix-turn-helix domain protein [Geobacter sp. M18]
          Length = 106

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 23/74 (31%), Positives = 37/74 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R    +SQEKL E +G+  +Q+ + E G +      L+ I++ L+  I   F
Sbjct: 8  LGLRIREVRKARQLSQEKLAEKVGVDPKQISRIEGGKSAPSLDTLEAIAKHLQVEIKDLF 67

Query: 75 DVSPTVCSDISSEE 88
          D    V  D   ++
Sbjct: 68 DFQHLVPEDKIEDQ 81


>gi|260460417|ref|ZP_05808669.1| transcriptional regulator, XRE family [Mesorhizobium opportunistum
           WSM2075]
 gi|259034062|gb|EEW35321.1| transcriptional regulator, XRE family [Mesorhizobium opportunistum
           WSM2075]
          Length = 238

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 35/78 (44%), Gaps = 8/78 (10%)

Query: 5   KKIPNPV--------DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA 56
            + P+ +        ++ +G+ +R  R  LG++   L     I+   + K E G+     
Sbjct: 35  TQNPHAIRDTREKVLEVAIGREVRAFRKKLGITVADLAVATDISLGMLSKIENGITSPSL 94

Query: 57  SRLQHISEVLESPISFFF 74
           + LQ +S  L  P++ FF
Sbjct: 95  TTLQALSRALGVPVTAFF 112


>gi|291456508|ref|ZP_06595898.1| putative helix-turn-helix protein [Bifidobacterium breve DSM
          20213]
 gi|291381785|gb|EFE89303.1| putative helix-turn-helix protein [Bifidobacterium breve DSM
          20213]
          Length = 161

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 34/66 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ I++ R   G++Q +    L +T Q + ++EKG        ++ IS   E P++ 
Sbjct: 1  MSIGQVIKVVREERGLTQSQFAHKLFVTQQALSRWEKGTAEPSIDMIRLISTRFEVPMAR 60

Query: 73 FFDVSP 78
            ++  
Sbjct: 61 LMEMPD 66


>gi|187477795|ref|YP_785819.1| phage repressor [Bordetella avium 197N]
 gi|115422381|emb|CAJ48906.1| Putative phage repressor [Bordetella avium 197N]
          Length = 360

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 27/103 (26%), Positives = 48/103 (46%), Gaps = 17/103 (16%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +RI+  R    +S E+L E +G+++Q VQ++E G      +RL+ +++ L + + +    
Sbjct: 32  QRIKQLREQRQLSMEQLAELVGVSWQTVQQWENGKTAPKRARLEAVAKALMTTVEYL--- 88

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRY---FIQIDDVKVR 116
                +  +S E  V   IS        R    F  I + KVR
Sbjct: 89  -----AMGASSEGRVDSSISD------ARAPWPFQSIPEDKVR 120


>gi|326692332|ref|ZP_08229337.1| transcriptional regulator [Leuconostoc argentinum KCTC 3773]
          Length = 248

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 1/85 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R  LG++Q+   + L I++Q V  +E+  +   A  +  I E    P++F
Sbjct: 1  MAIGNQIKALRKSLGLTQQTFADKLFISYQSVSNWERAKSHPTAEMMLTIIETFHLPLNF 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
          F   S     D+  E+  +  FI +
Sbjct: 61 FM-PSDQNSQDLDDEQLILAAFIKS 84


>gi|332364707|gb|EGJ42476.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1059]
          Length = 205

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R   G+SQE L + LG++ Q V K+E   +     ++  +S+  +    +
Sbjct: 1  MNLSDRIQYLRKARGISQEGLADQLGVSRQAVSKWESEQSMPDLDKIISMSDYFDVTTDY 60

Query: 73 FFDVSPTVCS 82
                 V  
Sbjct: 61 LLKGIEPVVQ 70


>gi|81428204|ref|YP_395204.1| prophage lsa1 XRE family DNA-binding protein [Lactobacillus sakei
          subsp. sakei 23K]
 gi|78609846|emb|CAI54893.1| Putative prophage lsa1 DNA-binding protein, XRE family
          [Lactobacillus sakei subsp. sakei 23K]
          Length = 259

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 32/68 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            IR  R+   +SQ +L E L I+ Q +  YEKG+        + +++  + PI +   V
Sbjct: 3  NNIRKLRLEQNVSQAELAEVLKISRQAISNYEKGLREPKLETWKKLADYFDVPIGYLQGV 62

Query: 77 SPTVCSDI 84
               +D+
Sbjct: 63 DGVNINDL 70


>gi|172057739|ref|YP_001814199.1| XRE family transcriptional regulator [Exiguobacterium sibiricum
           255-15]
 gi|171990260|gb|ACB61182.1| transcriptional regulator, XRE family [Exiguobacterium sibiricum
           255-15]
          Length = 294

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 31/146 (21%), Positives = 60/146 (41%), Gaps = 22/146 (15%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++++G  I+  R     +Q +L + +  +  ++ K E G N      LQ I+E    
Sbjct: 2   NQLNVSIGNEIKRIRQERNWTQSELCQGI-CSQAEISKIENGRNSPTVDLLQQIAERFHV 60

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY------FIQIDD---VKVRQKI 119
           P+S FF           +EE      +   + + L R       F +ID     +  ++I
Sbjct: 61  PVSSFF----------INEEKKTNFRMRDQEIIHLTRLNQYAEIFKRIDQYLAEETDKEI 110

Query: 120 IELVR--SIVSSEKKYRTIEEECMVE 143
           I L+R   ++  E+        C+ +
Sbjct: 111 IILLRYHKLIIEEQTNIIDYRTCISQ 136


>gi|332967905|gb|EGK06997.1| XRE family transcriptional regulator [Kingella kingae ATCC 23330]
          Length = 89

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 20/62 (32%), Positives = 36/62 (58%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR +  R    M+QEKLG  +G    +   ++ +YEKG ++   + L  I+++L+ P ++
Sbjct: 10 KRFKEARKAKKMTQEKLGLAIGLDEFVASTRINRYEKGNHQPDLNTLVWIAQILDVPPAY 69

Query: 73 FF 74
          FF
Sbjct: 70 FF 71


>gi|313886599|ref|ZP_07820312.1| DNA-binding helix-turn-helix protein [Porphyromonas
          asaccharolytica PR426713P-I]
 gi|312923955|gb|EFR34751.1| DNA-binding helix-turn-helix protein [Porphyromonas
          asaccharolytica PR426713P-I]
          Length = 363

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 33/58 (56%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+RIR  R + GM+  +L + +G++   +   E+G   +  + L  +SE L+ PI +F
Sbjct: 14 GERIRKGRALRGMTLRELADKVGVSHTHISNLERGGKEITGATLIALSEALDLPIDYF 71


>gi|253572159|ref|ZP_04849563.1| transcriptional regulator [Bacteroides sp. 1_1_6]
 gi|251838339|gb|EES66426.1| transcriptional regulator [Bacteroides sp. 1_1_6]
          Length = 136

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 27/118 (22%), Positives = 54/118 (45%), Gaps = 17/118 (14%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP--- 69
           +++G++I   R + GM+Q  LG+ LGIT Q V K E    ++   R++ ++E L      
Sbjct: 10  LHIGRKIERVRRLRGMTQTDLGDLLGITKQAVSKME-QTEKLDDERVKQVAEALGVTEEG 68

Query: 70  ------------ISFFFDVSPTVCSDISSEEN-NVMDFISTPDGLQLNRYFIQIDDVK 114
                        + F++ S    ++I +  N   ++  S    ++L    ++I+  K
Sbjct: 69  LKKFTEETVLYYTNNFYENSNATATNIGTISNLENINHFSMDQAVKLFEELLKIEREK 126


>gi|163813865|ref|ZP_02205259.1| hypothetical protein COPEUT_00018 [Coprococcus eutactus ATCC
          27759]
 gi|158450735|gb|EDP27730.1| hypothetical protein COPEUT_00018 [Coprococcus eutactus ATCC
          27759]
          Length = 351

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 36/70 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R   G++QE++   LG++   V K+EKG      S L  ++ +L+  ++ 
Sbjct: 1  MRIGEQIKNYRKTAGLTQEQVANYLGVSTPAVNKWEKGNTYPDISLLPALARLLKIDMNE 60

Query: 73 FFDVSPTVCS 82
           F     +  
Sbjct: 61 LFSFHEELTE 70


>gi|148378839|ref|YP_001253380.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|153932486|ref|YP_001383224.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|153934537|ref|YP_001386771.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|148288323|emb|CAL82400.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|152928530|gb|ABS34030.1| HTH domain protein [Clostridium botulinum A str. ATCC 19397]
 gi|152930451|gb|ABS35950.1| HTH domain protein [Clostridium botulinum A str. Hall]
          Length = 373

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 34/72 (47%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+N+GK I  +R   G++QE+L   +G++   V K+E G +      L  ++      + 
Sbjct: 3  DLNIGKCIIHKRKEKGITQEQLANYIGVSKASVSKWESGSSYPDIVLLPELATYFNISVD 62

Query: 72 FFFDVSPTVCSD 83
               SP +  +
Sbjct: 63 ELLGYSPQLTKE 74


>gi|295094077|emb|CBK83168.1| Predicted transcriptional regulators [Coprococcus sp. ART55/1]
          Length = 189

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 26/110 (23%), Positives = 47/110 (42%), Gaps = 12/110 (10%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  +R  R    ++QE+L E  G+T + V ++E G N    S L  +++  +  I    D
Sbjct: 7   GSFLRELRKEKQLTQEQLAERFGVTSRSVSRWETGSNMPDLSILVELADFYDVDIRDIID 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK--VRQKIIELV 123
                  D++ EE          + LQL   + + +     +R +I  +V
Sbjct: 67  GE-RKGEDMNKEE---------KERLQLVADYAETEKNTLLMRLRIFSIV 106


>gi|291520506|emb|CBK75727.1| Predicted transcription factor, homolog of eukaryotic MBF1
          [Butyrivibrio fibrisolvens 16/4]
          Length = 97

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 27/57 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G RI+  R    +SQ +L   LG T + VQKYE G        L  I+ +L    +
Sbjct: 7  IGNRIKQARKAQHLSQTELANRLGKTMRTVQKYESGEIEPSIGILNEIANILNISPA 63


>gi|264679862|ref|YP_003279771.1| XRE family transcriptional regulator [Comamonas testosteroni CNB-2]
 gi|262210377|gb|ACY34475.1| transcriptional regulator, XRE family [Comamonas testosteroni
           CNB-2]
          Length = 104

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 19/100 (19%), Positives = 49/100 (49%), Gaps = 9/100 (9%)

Query: 16  GKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           G+R++  R+  G+SQ+ LG   G    +   ++ +YE G+++     ++ ++ VL  P++
Sbjct: 9   GERLKQARLAAGLSQKMLGIEAGLDPFVASTRINRYELGIHKPDLLTVRKLATVLRVPVA 68

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
           FF+  +    +++          +++ +  +  R  + I 
Sbjct: 69  FFYADTDDEIAELLLRYG-----LTSKEIREKIRNLLAIS 103


>gi|269794016|ref|YP_003313471.1| transcriptional regulator [Sanguibacter keddieii DSM 10542]
 gi|269096201|gb|ACZ20637.1| transcriptional regulator [Sanguibacter keddieii DSM 10542]
          Length = 489

 Score = 64.1 bits (155), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 36/89 (40%), Gaps = 1/89 (1%)

Query: 1  MVGNKKIPNPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M    +     D+  +G+R+R  R   G++ E L E  G+   Q+ + E G+     S L
Sbjct: 1  MTERSERTTSTDLLTLGRRVRHFRTGAGLTLEDLAERTGVDTSQLSRIENGLREPRLSLL 60

Query: 60 QHISEVLESPISFFFDVSPTVCSDISSEE 88
            ++  L  P++     +P         E
Sbjct: 61 DAVAGALGVPVATLLASTPPTRRAGLEIE 89


>gi|303326709|ref|ZP_07357151.1| toxin-antitoxin system, antitoxin component, Xre family
          [Desulfovibrio sp. 3_1_syn3]
 gi|302862697|gb|EFL85629.1| toxin-antitoxin system, antitoxin component, Xre family
          [Desulfovibrio sp. 3_1_syn3]
          Length = 108

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 23/76 (30%), Positives = 39/76 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GKRIR  R+  G+SQEKL E  GI+ + + + E+G +      ++ ++  L   +  
Sbjct: 7  ILLGKRIRELRVKHGLSQEKLSELSGISSRHISEMERGESNPSFQVMEQLTFALGVSMKE 66

Query: 73 FFDVSPTVCSDISSEE 88
          FFD       +   +E
Sbjct: 67 FFDFEHHADDEAIRDE 82


>gi|295108419|emb|CBL22372.1| Helix-turn-helix. [Ruminococcus obeum A2-162]
          Length = 124

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 24/84 (28%), Positives = 42/84 (50%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D+ + ++IR  R   G+SQE L E  GI    ++KYE G+ +    +L+ I++ LE    
Sbjct: 26  DMEINEKIRYFRKQRGISQELLAERTGINVNTIRKYEIGIRKPKVEQLKKIADGLEISAI 85

Query: 72  FFFDVSPTVCSDISSEENNVMDFI 95
            F D+     +D+ +    +  F 
Sbjct: 86  EFLDIEIENEADLIAMLKKISPFF 109


>gi|291549706|emb|CBL25968.1| Predicted transcriptional regulators [Ruminococcus torques L2-14]
          Length = 345

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 40/90 (44%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G  I+  R   GM+QE++   LG+T   V K+E   ++     L  I+ +L+  +  
Sbjct: 1   MDIGVVIKKYRKEAGMTQEEMANRLGVTTPAVNKWENSNSKPDIELLAPIARLLDISLDT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
                  +      E    MD + + +G +
Sbjct: 61  LLSFHEKLSDTEIEEIIRKMDRMFSEEGYE 90


>gi|50914507|ref|YP_060479.1| Phage transcriptional repressor [Streptococcus pyogenes
          MGAS10394]
 gi|40218541|gb|AAR83195.1| phage repressor protein [Streptococcus pyogenes]
 gi|50261586|gb|AAT72354.1| UmuD/MucA-like protein [Streptococcus pyogenes]
 gi|50903581|gb|AAT87296.1| Phage transcriptional repressor [Streptococcus pyogenes
          MGAS10394]
          Length = 229

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 28/56 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++ RR+ + +SQ  +   L +       +E G N      L  ++ +L+ P+++F
Sbjct: 6  RLKQRRLEIKLSQTAIANQLNVHRSAYHNWENGRNTPNQKNLTALAAILDVPVTYF 61


>gi|323353424|ref|ZP_08087957.1| XRE family transcriptional regulator [Streptococcus sanguinis
          VMC66]
 gi|322121370|gb|EFX93133.1| XRE family transcriptional regulator [Streptococcus sanguinis
          VMC66]
          Length = 205

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R   G+SQE L + LG++ Q V K+E   +     ++  +S+  +    +
Sbjct: 1  MNLSDRIQYLRKARGISQEGLADQLGVSRQAVSKWESEQSMPDLDKIISMSDYFDVTTDY 60

Query: 73 FFDVSPTVCS 82
                 V  
Sbjct: 61 LLKGIEPVVQ 70


>gi|320120590|gb|EFE29126.2| GTP pyrophosphokinase [Filifactor alocis ATCC 35896]
          Length = 271

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 21/67 (31%), Positives = 35/67 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  IR  R   G +QEKL E L ++FQ V  +E+   +     L  ++E+L+  +S 
Sbjct: 1  MNIGMNIRRLREERGFTQEKLAEKLNVSFQAVSAWEREEYKPDLDNLIKLTEILDVSLSA 60

Query: 73 FFDVSPT 79
            +   T
Sbjct: 61 IVEQQET 67


>gi|125717272|ref|YP_001034405.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK36]
 gi|125497189|gb|ABN43855.1| Transcriptional regulator, XRE family, putative [Streptococcus
          sanguinis SK36]
          Length = 205

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R   G+SQE L + LG++ Q V K+E   +     ++  +S+  E    +
Sbjct: 1  MNLSDRIQYLRKARGISQEGLADQLGVSRQAVSKWESEQSMPDLDKIISMSDYFEVTTDY 60

Query: 73 FFDVSPTVCS 82
                 V  
Sbjct: 61 LLKGMEPVVQ 70


>gi|325957710|ref|YP_004293122.1| hypothetical protein LAC30SC_10450 [Lactobacillus acidophilus
          30SC]
 gi|325334275|gb|ADZ08183.1| hypothetical protein LAC30SC_10450 [Lactobacillus acidophilus
          30SC]
          Length = 125

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 36/73 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++I   R     SQE+L E L ++ Q V K+E G ++    ++  +S + +    +    
Sbjct: 5  QKITQLRNDNNWSQEELAEKLNVSRQSVSKWESGQSKPDLDKIVVLSNIFDVSTDYLLKD 64

Query: 77 SPTVCSDISSEEN 89
          +    S+ S++++
Sbjct: 65 NNEKESNSSTKKH 77


>gi|260905597|ref|ZP_05913919.1| transcriptional regulator [Brevibacterium linens BL2]
          Length = 483

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 27/137 (19%), Positives = 55/137 (40%), Gaps = 11/137 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R   G++  +LGE +G    Q+   E G      + L  I++ L + ++   
Sbjct: 20  IGRRIRFFRKQRGLTLTELGEQVGRAASQISTIENGKRETSVTLLSAIAKALHTEVAELI 79

Query: 75  DVSPTVCSDI--SSEENNVMDFISTPDGLQLNR-------YFIQIDDVKVRQKIIELVRS 125
           D +P           E N    + +  GL   R           I  V +++++ +++  
Sbjct: 80  DPTPVDGRQALELEAERNQASPMYSALGLPQVRIKSLPHDALEAI--VGLQRQLGQVLER 137

Query: 126 IVSSEKKYRTIEEECMV 142
             ++ ++ R    E   
Sbjct: 138 RAATPEEARRANRELRE 154


>gi|323126871|gb|ADX24168.1| putative transcriptional regulator [Streptococcus dysgalactiae
           subsp. equisimilis ATCC 12394]
          Length = 227

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 28/127 (22%), Positives = 56/127 (44%), Gaps = 26/127 (20%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++L+R   G SQ  + E +G++ Q   K+EKG+++     L  +  + + P  +F + 
Sbjct: 5   EKLKLKRTEHGFSQLSIAERIGVSKQAYSKWEKGISQPTNENLIKLENLFKVPAGYFNEE 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
                                 + L L   + Q++     + I   VRS+VSS+ K   +
Sbjct: 65  ----------------------EILNL---YHQLNSPNQSKAI-TYVRSLVSSQNKVSHL 98

Query: 137 EEECMVE 143
            +E + E
Sbjct: 99  IQETLYE 105


>gi|254393361|ref|ZP_05008507.1| transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|294811335|ref|ZP_06769978.1| Putative transcriptional regulator [Streptomyces clavuligerus ATCC
           27064]
 gi|326439932|ref|ZP_08214666.1| XRE family transcriptional regulator [Streptomyces clavuligerus
           ATCC 27064]
 gi|197706994|gb|EDY52806.1| transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|294323934|gb|EFG05577.1| Putative transcriptional regulator [Streptomyces clavuligerus ATCC
           27064]
          Length = 400

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 20/97 (20%), Positives = 44/97 (45%), Gaps = 3/97 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P+  D ++G RI   R +  ++Q  L +  G++   V K E G++      +  ++ VL
Sbjct: 1   MPHSQDDHIGARIADYRKLRHLTQAGLAQRAGVSRTTVAKIEAGLSPATPPIVAAVARVL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           E  ++   +  P +    +   + ++  +S    L L
Sbjct: 61  EVDVAVL-NGQPYLSELQADHLDRMIAPLSD--ALDL 94


>gi|222053908|ref|YP_002536270.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221563197|gb|ACM19169.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 150

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 31/134 (23%), Positives = 68/134 (50%), Gaps = 8/134 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECL--GITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +G R+++ RM   ++Q++L   +  G+ +  + K E+G        L  IS+ L  P++ 
Sbjct: 5   IGSRLKMLRMERSLTQKELAVMVSGGLDYTYIGKIERGEQLPSLKILLKISDALSVPVAS 64

Query: 73  FF-DVSPTVCSDISSEENNVMDFISTPD-GLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           FF D      SDI+S E   + ++ + + G QL +  +++ D +    +IE+++ +    
Sbjct: 65  FFQDELFAAASDIASSE---LRYLISEETGRQLVKA-LKLVDKEDFPLLIEIIKVLGRHR 120

Query: 131 KKYRTIEEECMVEQ 144
           K  ++ + E   ++
Sbjct: 121 KTTKSDQGEETEQE 134


>gi|313669549|ref|YP_004049974.1| hypothetical protein Sulku_2772 [Sulfuricurvum kujiense DSM
          16994]
 gi|313156746|gb|ADR35421.1| protein of unknown function DUF955 [Sulfuricurvum kujiense DSM
          16994]
          Length = 354

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 28/59 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+RI   R   G+S   L + +G++   + KYEK      +  L  +S+ L     +FF
Sbjct: 3  GERIARARKTAGLSLRGLADQVGVSQTAIAKYEKNQIHPDSQMLLKLSQALGVKSGYFF 61


>gi|228961481|ref|ZP_04123092.1| Prophage Lp3 protein 2 [Bacillus thuringiensis serovar pakistani
          str. T13001]
 gi|228798195|gb|EEM45197.1| Prophage Lp3 protein 2 [Bacillus thuringiensis serovar pakistani
          str. T13001]
          Length = 206

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 22/66 (33%), Positives = 34/66 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KRI++ R   G+SQ++L E L +T Q V  YEKG      + L  IS +L  P+ +  + 
Sbjct: 2  KRIKIARQRKGVSQKELAEKLNMTQQAVSYYEKGSRVPDENILLEISRILTVPVEYLTEE 61

Query: 77 SPTVCS 82
          +     
Sbjct: 62 TNDPEG 67


>gi|331002934|ref|ZP_08326447.1| hypothetical protein HMPREF0491_01309 [Lachnospiraceae oral taxon
           107 str. F0167]
 gi|330413227|gb|EGG92601.1| hypothetical protein HMPREF0491_01309 [Lachnospiraceae oral taxon
           107 str. F0167]
          Length = 177

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 20/98 (20%), Positives = 44/98 (44%), Gaps = 6/98 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G +++  R++ G++QE+L +   ++   + + E  +     + L  I + L   I  
Sbjct: 1   MEIGSKLKRLRVLAGLTQEELADRAELSKGFISQLENDITSPSIATLLDILQCLGVEIKD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
           FFD   T    + +EE+  +      +  +LN     I
Sbjct: 61  FFD-EETETQVVFTEEDYFI-----KEDKELNNTIKWI 92


>gi|325289343|ref|YP_004265524.1| helix-turn-helix domain protein [Syntrophobotulus glycolicus DSM
           8271]
 gi|324964744|gb|ADY55523.1| helix-turn-helix domain protein [Syntrophobotulus glycolicus DSM
           8271]
          Length = 109

 Score = 63.7 bits (154), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 24/99 (24%), Positives = 42/99 (42%), Gaps = 1/99 (1%)

Query: 11  VDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  V G+RI  RR +L ++Q+ + E  G++   +   E   +      L  I EVL+  
Sbjct: 3   IDYKVLGERIAKRRKVLNLTQDDVAEATGLSNNHISNIENNHSIPSIETLLKICEVLDIT 62

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
             +F        +D    + N    +     L+L  +FI
Sbjct: 63  PDYFLLGIVRHKNDGLLSQINQKIKLCETKKLELVDHFI 101


>gi|295108966|emb|CBL22919.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 351

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 36/70 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R   G++QE++   LG++   V K+EKG      S L  ++ +L+  ++ 
Sbjct: 1  MRIGEQIKNYRKTAGLTQEQVANYLGVSTPAVNKWEKGNTYPDISLLPALARLLKIDMNE 60

Query: 73 FFDVSPTVCS 82
           F     +  
Sbjct: 61 LFSFHEELTE 70


>gi|21218451|ref|NP_632000.1| hypothetical protein pLP9000_09 [Lactobacillus plantarum]
 gi|20853812|gb|AAM26929.1| unknown [Lactobacillus plantarum]
          Length = 112

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 20/104 (19%), Positives = 43/104 (41%), Gaps = 5/104 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+RI+  R     +Q+ L E L ++ Q + K+E G       RL  IS + +  +  
Sbjct: 1   MTLGQRIKEEREKRQWTQDYLAETLNVSRQAISKWEVGSAYPDIDRLVQISNLFDITLDS 60

Query: 73  FFDVSPTVCSDI-----SSEENNVMDFISTPDGLQLNRYFIQID 111
                 ++   I     +  + N+ +F+ +   + +      I 
Sbjct: 61  LIKGDDSLKKSIVITKNAKAQTNIWEFMRSTGWMMVIAIIYLIT 104


>gi|304439932|ref|ZP_07399826.1| XRE family transcriptional regulator [Peptoniphilus duerdenii
          ATCC BAA-1640]
 gi|304371671|gb|EFM25283.1| XRE family transcriptional regulator [Peptoniphilus duerdenii
          ATCC BAA-1640]
          Length = 138

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 36/70 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RIR  R I G+SQ++L E LG++ Q + K+E   +     ++  +S+  E    +
Sbjct: 1  MNLSDRIRELRKIKGISQDELAEKLGVSRQAISKWENEQSIPDIDKIIMLSDYFEVSTDY 60

Query: 73 FFDVSPTVCS 82
                TV S
Sbjct: 61 LLKGVETVKS 70


>gi|239617046|ref|YP_002940368.1| protein of unknown function DUF955 [Kosmotoga olearia TBF 19.5.1]
 gi|239505877|gb|ACR79364.1| protein of unknown function DUF955 [Kosmotoga olearia TBF 19.5.1]
          Length = 351

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 34/62 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G RI+  R+   MS  KL E +G++   + KYE+  +   +  L  +S+ L   + +
Sbjct: 1  MSIGSRIKQARIRNNMSLRKLSEKVGVSAMAISKYERDEDVPSSKVLIRLSKALNVKVEY 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|324992103|gb|EGC24025.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK405]
 gi|324994197|gb|EGC26111.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK678]
 gi|327472822|gb|EGF18249.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK408]
          Length = 205

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R   G+SQE L + LG++ Q V K+E   +     ++  +S+  E    +
Sbjct: 1  MNLSDRIQYLRKARGISQEGLADQLGVSRQAVSKWESEQSMPDLDKIISMSDYFEVTTDY 60

Query: 73 FFDVSPTVCS 82
                 V  
Sbjct: 61 LLKGMEPVVQ 70


>gi|210610950|ref|ZP_03288675.1| hypothetical protein CLONEX_00865 [Clostridium nexile DSM 1787]
 gi|210152250|gb|EEA83257.1| hypothetical protein CLONEX_00865 [Clostridium nexile DSM 1787]
          Length = 198

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 43/99 (43%), Gaps = 1/99 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-ISFF 73
           +GK I+ +R    ++Q++  + LG + + +QKYE G   +    L+ I+  L  P     
Sbjct: 17  IGKAIQKQRRAQKITQKEFAQRLGKSERTIQKYESGEILLKIDVLKQIANELNVPWQELL 76

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
           F        D ++ E    +F +  D +       ++ D
Sbjct: 77  FAKDTNTPKDNTTAEYPAYEFHTMSDVINALFAITELTD 115


>gi|284007380|emb|CBA72775.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 100

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 22/64 (34%), Positives = 36/64 (56%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ N+G+ IR +R  L +S   L   LGI+ Q + +YE+G  R+    L  +S VL+  I
Sbjct: 12 INYNIGQMIRKKRQKLQISAADLSALLGISQQHLSRYERGEVRINVEWLIKVSRVLDIAI 71

Query: 71 SFFF 74
            +F
Sbjct: 72 ESYF 75


>gi|323485286|ref|ZP_08090635.1| hypothetical protein HMPREF9474_02386 [Clostridium symbiosum
           WAL-14163]
 gi|323401322|gb|EGA93671.1| hypothetical protein HMPREF9474_02386 [Clostridium symbiosum
           WAL-14163]
          Length = 141

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 34/135 (25%), Positives = 55/135 (40%), Gaps = 11/135 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGIT----FQQVQKYEKGVNRVGA 56
           MV  KK        +G  I+  R   G+SQE L    G         + K E G N V  
Sbjct: 1   MVDKKK---DFLKILGNNIKKYRDDKGLSQEALANLCGWNTDNARSTISKIESGTNDVPT 57

Query: 57  SRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           S+L+ I+E L   +    + S        SE   ++  +   +   +   F ++ D   R
Sbjct: 58  SKLKIIAEKLGVSVCDLMNCSNIQEQ---SESVELVKQVYDEETKFVISSFTKL-DAVDR 113

Query: 117 QKIIELVRSIVSSEK 131
            K+IE + +++  EK
Sbjct: 114 IKVIERINTLLDDEK 128


>gi|251795604|ref|YP_003010335.1| XRE family transcriptional regulator [Paenibacillus sp. JDR-2]
 gi|247543230|gb|ACT00249.1| transcriptional regulator, XRE family [Paenibacillus sp. JDR-2]
          Length = 215

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 37/76 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  I+  R +   S + L E +G+T + +Q+YE+G +R+   RL+ ++  L+  +    +
Sbjct: 15 GANIKKYRDLRNYSLQVLAEKVGLTKKTIQRYEQGEHRIDTERLKALAAALDVTVLQLTE 74

Query: 76 VSPTVCSDISSEENNV 91
           +         E  NV
Sbjct: 75 GAYEKLGIEVDESENV 90


>gi|229029511|ref|ZP_04185592.1| Transcriptional regulator, MerR [Bacillus cereus AH1271]
 gi|228731793|gb|EEL82694.1| Transcriptional regulator, MerR [Bacillus cereus AH1271]
          Length = 181

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 38/69 (55%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +  GIT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMAGITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|146298395|ref|YP_001192986.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
           UW101]
 gi|146152813|gb|ABQ03667.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
           UW101]
          Length = 131

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 29/129 (22%), Positives = 49/129 (37%), Gaps = 10/129 (7%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G++I   R +  M QE L + LG   Q +   E     +  ++L  I++ L       
Sbjct: 9   HIGRKISRIRELRDMKQEALAQALGTNQQAISTIENSET-IDEAKLIEIAKALGV----- 62

Query: 74  FDVSPTVCSDISSEE-NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
              +P      S E   N  +  +   G   N     I +     K++EL   +V  EK 
Sbjct: 63  ---TPEAIKSFSEENVFNYFNTFTDSHGNFGNFASGAICNFNPLDKVVELYERLVQVEKD 119

Query: 133 YRTIEEECM 141
                E+ M
Sbjct: 120 KVEYLEKLM 128


>gi|115334658|ref|YP_764504.1| immunity repressor protein [Geobacillus phage GBSV1]
 gi|84688608|gb|ABC61304.1| immunity repressor protein [Geobacillus phage GBSV1]
          Length = 148

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 33/68 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R+ R   G++QE+LG  + +T   +  YE G        L+ +++ L+  I +    
Sbjct: 5  QRLRMLRKAKGLTQEELGRKVNVTKVSISGYESGNRTPDMDTLKALADALDVSIDYLLGR 64

Query: 77 SPTVCSDI 84
            T  +D 
Sbjct: 65 DNTQPTDT 72


>gi|84685724|ref|ZP_01013621.1| probable transcriptional regulator [Maritimibacter alkaliphilus
           HTCC2654]
 gi|84666390|gb|EAQ12863.1| probable transcriptional regulator [Rhodobacterales bacterium
           HTCC2654]
          Length = 201

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 28/117 (23%), Positives = 50/117 (42%), Gaps = 15/117 (12%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N V  +VG+ IR  R    M+  +L    G +   + + E+G        L+ ++++L  
Sbjct: 16  NAVAHHVGEDIRSLRKTRAMTLAQLAGAAGRSVGWLSQVERGRTTPSVRDLEQLADLLGV 75

Query: 69  PISFFFDVSPTVCSD------------ISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
            ISFFF  S     +            I S+E+ +++ + +P    L+  F  I  V
Sbjct: 76  NISFFFRSSRRAPEEQGLVLRAADRPTIGSDESGLVEELLSP---TLSGSFEMIRSV 129


>gi|283835271|ref|ZP_06355012.1| toxin-antitoxin system, antitoxin component, Xre family
          [Citrobacter youngae ATCC 29220]
 gi|291068429|gb|EFE06538.1| toxin-antitoxin system, antitoxin component, Xre family
          [Citrobacter youngae ATCC 29220]
          Length = 108

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 22/82 (26%), Positives = 42/82 (51%), Gaps = 5/82 (6%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQ 60
          K I +  DI   +R++  R+  G+SQ++LG   G    +   ++ +YEKGV+      + 
Sbjct: 2  KTINHYNDIF-CRRLKQARLASGLSQKRLGIAAGIDEFVASTRINRYEKGVHEPNTEIVL 60

Query: 61 HISEVLESPISFFFDVSPTVCS 82
           +S VL  P+++F+     +  
Sbjct: 61 KLSAVLRVPVAYFYAEDDDLAE 82


>gi|302875363|ref|YP_003843996.1| helix-turn-helix domain-containing protein [Clostridium
          cellulovorans 743B]
 gi|307688943|ref|ZP_07631389.1| helix-turn-helix domain-containing protein [Clostridium
          cellulovorans 743B]
 gi|302578220|gb|ADL52232.1| helix-turn-helix domain protein [Clostridium cellulovorans 743B]
          Length = 226

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 30/55 (54%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R   G++QE+  E +G++ Q V K+E G +     RL  IS + +  I 
Sbjct: 5  QKLQALRKEKGLTQEEFAETIGVSRQAVAKWEAGQSYPDLDRLIEISNLYKVSID 59


>gi|222032723|emb|CAP75462.1| Repressor protein [Escherichia coli LF82]
          Length = 216

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 33/76 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L + Q  LG+ +G++   + ++E+         L  ++  L+    +   
Sbjct: 7  GERIRARRKELKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALANALKCSPDYLIK 66

Query: 76 VSPTVCSDISSEENNV 91
             ++ +      ++ 
Sbjct: 67 GEESLSNIAYHSRHDP 82


>gi|168784916|ref|ZP_02809923.1| irep [Escherichia coli O157:H7 str. EC869]
 gi|261225385|ref|ZP_05939666.1| XRE family transcriptional regulator [Escherichia coli O157:H7
          str. FRIK2000]
 gi|261255362|ref|ZP_05947895.1| XRE family transcriptional regulator [Escherichia coli O157:H7
          str. FRIK966]
 gi|6318606|gb|AAF06963.1|AF157599_2 Eco0109IREP [Escherichia coli]
 gi|189374949|gb|EDU93365.1| irep [Escherichia coli O157:H7 str. EC869]
 gi|240119359|dbj|BAH79222.1| putative transcriptional regulator C.EcoO109I [Escherichia coli
          O157:H7]
          Length = 101

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 38/69 (55%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+  G++QE+LG  +GI       ++ +YEKG +    S  + I+++L  P+S+F
Sbjct: 5  RLKKARLNAGLTQEQLGILVGIDECSASARMNQYEKGKHMPDFSLTKKIADLLNVPVSYF 64

Query: 74 FDVSPTVCS 82
          +     +  
Sbjct: 65 YTPEDDLAE 73


>gi|302544943|ref|ZP_07297285.1| putative DNA-binding protein [Streptomyces hygroscopicus ATCC
          53653]
 gi|302462561|gb|EFL25654.1| putative DNA-binding protein [Streptomyces himastatinicus ATCC
          53653]
          Length = 397

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 21/82 (25%), Positives = 37/82 (45%), Gaps = 5/82 (6%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV---NRVGASRLQHISEVL 66
          P D ++G R+R  R   G+SQ  L     ++   ++K E+G     R+      H++  L
Sbjct: 2  PDDAHIGARLRTIRKRRGLSQRDLAAASDVSLSLIRKLEQGEIADTRM--ETAHHLAVAL 59

Query: 67 ESPISFFFDVSPTVCSDISSEE 88
            P S   +      +D ++EE
Sbjct: 60 RVPTSSLLERDDEEPADETAEE 81


>gi|317133873|ref|YP_004089784.1| transcriptional regulator, XRE family [Ruminococcus albus 7]
 gi|315450335|gb|ADU23898.1| transcriptional regulator, XRE family [Ruminococcus albus 7]
          Length = 208

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +GKRI+  R+  G+SQ +L   LG  +   + K E G   +  S++  I+E+L+   S+ 
Sbjct: 5  IGKRIKEARIKKGLSQTELAGKLGYKSRSSINKIETGGRDIPKSQVVKIAEILDLTPSYL 64

Query: 74 FDVSPTVCSDISSEEN 89
               +   +I S E 
Sbjct: 65 MGWENSPAHNILSREK 80


>gi|222084519|ref|YP_002543048.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221721967|gb|ACM25123.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 189

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 18/94 (19%), Positives = 40/94 (42%), Gaps = 2/94 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + ++I +G RI+  R+  GM+ ++L     ++   + + E+      AS L  +   L
Sbjct: 1   MDDDLEIAIGARIKQLRIARGMTLDELANASAVSRAMISRIERAEASPTASLLARLCAAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
              +S FF       S ++  +   +     P+ 
Sbjct: 61  GLSLSSFFAEEEEDVSPLARSDAQPI--WRDPET 92


>gi|255282221|ref|ZP_05346776.1| LexA repressor [Bryantella formatexigens DSM 14469]
 gi|255267169|gb|EET60374.1| LexA repressor [Bryantella formatexigens DSM 14469]
          Length = 206

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 1/69 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RIR +R  +GM+QE+L   LG      + K E G N +  S++   ++ L + +S+ 
Sbjct: 4  IGIRIREQREAIGMTQEELASKLGYKNKSSIAKIETGANDIVQSKVIEFADALNTTVSYL 63

Query: 74 FDVSPTVCS 82
               T  +
Sbjct: 64 MGWEKTNVN 72


>gi|225575279|ref|ZP_03783889.1| hypothetical protein RUMHYD_03368 [Blautia hydrogenotrophica DSM
           10507]
 gi|225037475|gb|EEG47721.1| hypothetical protein RUMHYD_03368 [Blautia hydrogenotrophica DSM
           10507]
          Length = 341

 Score = 63.7 bits (154), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 18/94 (19%), Positives = 40/94 (42%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + ++I   R   G SQE+L E  G++ Q + K+E  ++    S++  +SE+ +    +
Sbjct: 1   MLLSEKILTLRKKNGWSQEELAEKCGVSRQSISKWEGNLSTPELSKIVLLSELFQVSTDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                    +D  +E   +     +   + L   
Sbjct: 61  LLKEDVQPQTDTDAELPPMEAPSHSLRQVTLAEA 94


>gi|291521013|emb|CBK79306.1| Predicted transcriptional regulators [Coprococcus catus GD/7]
          Length = 345

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 40/90 (44%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G  I+  R   GM+QE++   LG+T   V K+E   ++     L  I+ +L+  +  
Sbjct: 1   MDIGVVIKKYRKEAGMTQEEMANRLGVTTPAVNKWENSNSKPDIELLAPIARLLDISLDT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
                  +      E    MD + + +G +
Sbjct: 61  LLSFHENLSDTEIEEIIRKMDRMFSEEGYE 90


>gi|183600898|ref|ZP_02962391.1| hypothetical protein PROSTU_04505 [Providencia stuartii ATCC
          25827]
 gi|188019224|gb|EDU57264.1| hypothetical protein PROSTU_04505 [Providencia stuartii ATCC
          25827]
          Length = 95

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 39/73 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G+ IR+ R+  G++  +LG+ +G++ QQ+ +YE+G + +  S    I  V+    
Sbjct: 12 INSEIGEFIRMIRIKKGLTGAELGKLIGVSQQQISRYERGYHTLSLSDFTFILSVMNVSF 71

Query: 71 SFFFDVSPTVCSD 83
            F   S    SD
Sbjct: 72 LDFISYSSFFKSD 84


>gi|332798146|ref|YP_004459645.1| helix-turn-helix domain-containing protein [Tepidanaerobacter sp.
           Re1]
 gi|332695881|gb|AEE90338.1| helix-turn-helix domain protein [Tepidanaerobacter sp. Re1]
          Length = 100

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 27/98 (27%), Positives = 45/98 (45%), Gaps = 3/98 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS- 71
           +N+G RI+  R+  G+   +L E +GIT   +   E G        LQ I + L   +S 
Sbjct: 1   MNIGHRIKQIRIAKGLQGIQLAEKVGITNVYLSYLENGTKIPSIETLQKICDALGITLSE 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           FF D +  +  +      NV   + +P  L+L   F++
Sbjct: 61  FFMDENANLPPEYQELIENVK--VLSPKQLELLNEFLK 96


>gi|330467327|ref|YP_004405070.1| helix-turn-helix domain-containing protein [Verrucosispora maris
           AB-18-032]
 gi|328810298|gb|AEB44470.1| helix-turn-helix domain-containing protein [Verrucosispora maris
           AB-18-032]
          Length = 363

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 24/92 (26%), Positives = 45/92 (48%), Gaps = 2/92 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+++R  R+ LG+SQ+ L   +G+    + K E G  R+ A  L  +S  L+  + +  
Sbjct: 10  VGEQVRQARLSLGISQQDLATMVGLDRTMLAKVEAGSRRLDALELAKLSRALKVSMEYLI 69

Query: 75  DVSPTVCSDISSE--ENNVMDFISTPDGLQLN 104
              PTV S  ++   E    +   + + L++ 
Sbjct: 70  QPPPTVLSRRAAPLTEETDTEAARSSERLEIA 101


>gi|297528604|ref|YP_003669879.1| XRE family transcriptional regulator [Geobacillus sp. C56-T3]
 gi|297251856|gb|ADI25302.1| transcriptional regulator, XRE family [Geobacillus sp. C56-T3]
          Length = 148

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 33/68 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R+ R   G++QE+LG  + +T   +  YE G        L+ +++ L+  I +    
Sbjct: 5  QRLRMLRKAKGLTQEELGRKVNVTKVSISGYESGNRTPDMDTLKALADALDVSIDYLLGR 64

Query: 77 SPTVCSDI 84
            T  +D 
Sbjct: 65 DNTQPTDT 72


>gi|225567835|ref|ZP_03776860.1| hypothetical protein CLOHYLEM_03908 [Clostridium hylemonae DSM
          15053]
 gi|225163313|gb|EEG75932.1| hypothetical protein CLOHYLEM_03908 [Clostridium hylemonae DSM
          15053]
          Length = 255

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 26/64 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            VG+RIR  R    M+ E L   +  +   + KYE G   +    L   ++V   P+  
Sbjct: 29 KQVGERIRFYRKQEKMTLEMLAAKMNKSKATISKYENGTIVMDIGTLYDFADVFRIPVYC 88

Query: 73 FFDV 76
            D 
Sbjct: 89 LIDD 92


>gi|332664458|ref|YP_004447246.1| helix-turn-helix domain-containing protein [Haliscomenobacter
           hydrossis DSM 1100]
 gi|332333272|gb|AEE50373.1| helix-turn-helix domain protein [Haliscomenobacter hydrossis DSM
           1100]
          Length = 352

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 26/97 (26%), Positives = 45/97 (46%), Gaps = 5/97 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECL--GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           G+R+   R + G+S + L + +   +T Q + KYEKG    G++ L  +S+ L   + FF
Sbjct: 6   GQRLTSARKMAGLSLQNLADKMENAVTRQALNKYEKGEMMPGSTVLIRLSKALNVTVDFF 65

Query: 74  FDVSPTVCSDISSEENNVMDFIS-TPD--GLQLNRYF 107
           F          S E    +  +S T +   ++  R F
Sbjct: 66  FSEPDQKVELQSIEFRKKISRLSKTAEVAVIEKARAF 102


>gi|322411261|gb|EFY02169.1| Hypothetical phage associated protein [Streptococcus dysgalactiae
          subsp. dysgalactiae ATCC 27957]
          Length = 169

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 30/57 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R   G++Q+ L + +G+ F+ +Q +E G   + + + Q +++     + + 
Sbjct: 2  NRLKELRKEKGLTQQGLADDIGVHFRTLQNWENGKADIKSDKAQTLADFFGVSVGYL 58


>gi|219853616|ref|YP_002470738.1| hypothetical protein CKR_0273 [Clostridium kluyveri NBRC 12016]
 gi|219567340|dbj|BAH05324.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 186

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 21/107 (19%), Positives = 49/107 (45%), Gaps = 15/107 (14%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G++++  R   G++ + + E  G++   + ++E+G+  +    L  I+ VL   I++
Sbjct: 8   MNIGEKVKELRNKKGLTLKTMSEKTGLSTGFLSQFERGITTIAVEHLSTIATVLNVRINY 67

Query: 73  FFDVSPTVCSDISSEENNV---------------MDFISTPDGLQLN 104
           FFD         S ++  V                D + +P+ ++L 
Sbjct: 68  FFDDEEKELIIRSYDQPFVRQINKAIYKSLSRYPEDKMLSPELIELL 114


>gi|153952958|ref|YP_001393723.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|146345839|gb|EDK32375.1| Transcriptional regulator [Clostridium kluyveri DSM 555]
          Length = 179

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 21/107 (19%), Positives = 49/107 (45%), Gaps = 15/107 (14%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G++++  R   G++ + + E  G++   + ++E+G+  +    L  I+ VL   I++
Sbjct: 1   MNIGEKVKELRNKKGLTLKTMSEKTGLSTGFLSQFERGITTIAVEHLSTIATVLNVRINY 60

Query: 73  FFDVSPTVCSDISSEENNV---------------MDFISTPDGLQLN 104
           FFD         S ++  V                D + +P+ ++L 
Sbjct: 61  FFDDEEKELIIRSYDQPFVRQINKAIYKSLSRYPEDKMLSPELIELL 107


>gi|319946274|ref|ZP_08020514.1| transcriptional regulator PlcR [Streptococcus australis ATCC
           700641]
 gi|319747656|gb|EFV99909.1| transcriptional regulator PlcR [Streptococcus australis ATCC
           700641]
          Length = 288

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 25/95 (26%), Positives = 44/95 (46%), Gaps = 9/95 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++ RR  L MSQ++L E  GI  Q Q+ + E G    GA  L  +S  L+  + +FF+ 
Sbjct: 8   RLKNRRKELKMSQKELAE--GICKQGQISRLESGEYTPGADFLYALSRKLKVSMDYFFE- 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                  +  + + + +F        +NR +  + 
Sbjct: 65  -----EHVEQKIDELTEFKKIARIFIMNRNYESLK 94


>gi|239625419|ref|ZP_04668450.1| predicted protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239519649|gb|EEQ59515.1| predicted protein [Clostridiales bacterium 1_7_47FAA]
          Length = 141

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 27/110 (24%), Positives = 45/110 (40%), Gaps = 15/110 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
           + +G+RIR  R   G++QE+L   LG+    V KYE G V  +  + L  ++E+LE    
Sbjct: 1   MELGERIRSLRKKKGLTQEELASKLGLQKSAVAKYENGRVTNIKRATLFKMAEILEVSPG 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                      D                GL +   +  + +   R K++E
Sbjct: 61  ELMYGKEDKGQD--------------DHGLAVLSGYYGMLNKAGRTKVLE 96


>gi|319784815|ref|YP_004144291.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
 gi|317170703|gb|ADV14241.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
          Length = 238

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 35/78 (44%), Gaps = 8/78 (10%)

Query: 5   KKIPNPV--------DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA 56
            + P+ +        ++ +G+ +R  R  LG++   L     I+   + K E G+     
Sbjct: 35  TQNPHAIRDTREKVLEVAIGREVRAFRKKLGITVADLAVATDISLGMLSKIENGITSPSL 94

Query: 57  SRLQHISEVLESPISFFF 74
           + LQ +S  L  P++ FF
Sbjct: 95  TTLQALSRALGVPVTAFF 112


>gi|262201416|ref|YP_003272624.1| XRE family transcriptional regulator [Gordonia bronchialis DSM
          43247]
 gi|262084763|gb|ACY20731.1| helix-turn-helix domain protein [Gordonia bronchialis DSM 43247]
          Length = 93

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 27/84 (32%), Positives = 37/84 (44%), Gaps = 1/84 (1%)

Query: 1  MVGNKKIP-NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M  N K    PV +  G+RIR RR  LG+SQE     +GI + Q+ K E+G   V    +
Sbjct: 6  MSENAKSALKPVLVEFGRRIRARREELGLSQEAAAVSIGIHWTQLGKVERGQRSVRVENI 65

Query: 60 QHISEVLESPISFFFDVSPTVCSD 83
            I+  L +      D       D
Sbjct: 66 VKIAAGLSTTPGALLDGISAHVGD 89


>gi|291539157|emb|CBL12268.1| Predicted transcriptional regulators [Roseburia intestinalis XB6B4]
          Length = 184

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 43/99 (43%), Gaps = 1/99 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-ISFF 73
           +GK I+ +R    ++Q++  + LG + + +QKYE G   +    L+ I+  L  P     
Sbjct: 7   IGKAIQKQRRAQKITQKEFAQRLGKSERTIQKYESGEILLKIDVLKQIANELNVPWQELL 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
           F        D ++ E    +F +  D +       ++ D
Sbjct: 67  FAKDTNTPKDNTTAEYPSYEFHTMSDVINALFAITELTD 105


>gi|325264127|ref|ZP_08130859.1| putative helix-turn-helix protein [Clostridium sp. D5]
 gi|324030611|gb|EGB91894.1| putative helix-turn-helix protein [Clostridium sp. D5]
          Length = 201

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 37/77 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + + I+ RR  L MSQE + + LGI+ Q V K+E G +   +  L  ++ + E  IS 
Sbjct: 1  MALSENIKARRTQLKMSQEYVADQLGISRQAVAKWEAGTSEPTSKNLSELAFLFEISISE 60

Query: 73 FFDVSPTVCSDISSEEN 89
            D         + E+ 
Sbjct: 61 LVDPQTYAEEQAAQEQK 77


>gi|225376313|ref|ZP_03753534.1| hypothetical protein ROSEINA2194_01953 [Roseburia inulinivorans
          DSM 16841]
 gi|225211689|gb|EEG94043.1| hypothetical protein ROSEINA2194_01953 [Roseburia inulinivorans
          DSM 16841]
          Length = 110

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G +I+ RR  LG++QE +   L +    +   E G      + L  I+ +L   + +F
Sbjct: 9  IGLKIKQRRQELGITQEYIANALDVNPSHISNIECGRANPSLTALIKIANILSCSVDYF 67


>gi|314935353|ref|ZP_07842706.1| putative helix-turn-helix containing protein [Staphylococcus
          hominis subsp. hominis C80]
 gi|313656688|gb|EFS20427.1| putative helix-turn-helix containing protein [Staphylococcus
          hominis subsp. hominis C80]
          Length = 137

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G +I+  R    MSQEKL E LG++   +  +E+ V+      +  I+++    ++
Sbjct: 5  IGHQIQKLRKSKNMSQEKLAEKLGVSRHSISNWERQVSNPDLKTILEITKLFNVSLN 61


>gi|221232058|ref|YP_002511210.1| transcriptional regulator [Streptococcus pneumoniae ATCC 700669]
 gi|220674518|emb|CAR69079.1| transcriptional regulator [Streptococcus pneumoniae ATCC 700669]
          Length = 286

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 23/88 (26%), Positives = 42/88 (47%), Gaps = 5/88 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++ +R   G SQ+ L E  GI  Q Q+ K E+G     A  L  ++  L+ P+ +FFD 
Sbjct: 7   KLKAKRKEKGFSQKTLSE--GICEQSQISKIERGNYMPAADLLYKLANRLQVPLDYFFDE 64

Query: 77  SPTVCSDISSEENNVMDFISTP--DGLQ 102
              + S+I+  +      +     + L+
Sbjct: 65  QIEMTSNITPFKKLAEKLLEDRNYEDLE 92


>gi|24461679|gb|AAN62248.1|AF440524_35 putative transcriptional regulator [Pseudomonas aeruginosa]
          Length = 181

 Score = 63.7 bits (154), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 31/65 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR +R + G+S   L   LGI+  Q+ K E G  ++  S    I+++L+ P S F     
Sbjct: 7  IRNQRNLKGISLRSLARELGISASQLSKIETGKAKLTVSVALKIADILQVPASKFLSTGK 66

Query: 79 TVCSD 83
             + 
Sbjct: 67 PQATG 71


>gi|313897216|ref|ZP_07830760.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312957937|gb|EFR39561.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 212

 Score = 63.3 bits (153), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 32/66 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+  R + G+SQE+L E  G++ Q V K+E   +     ++  +S+       +    
Sbjct: 5  ERIQYLRKMKGISQEELAEKAGVSRQAVSKWESDQSTPDVEKIIIMSDYFGVTTDYILKG 64

Query: 77 SPTVCS 82
            TV S
Sbjct: 65 IQTVES 70


>gi|218673688|ref|ZP_03523357.1| putative transcriptional regulator protein [Rhizobium etli GR56]
          Length = 99

 Score = 63.3 bits (153), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 32/66 (48%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +++ +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  
Sbjct: 32 NNLEMAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGV 91

Query: 69 PISFFF 74
          P++ FF
Sbjct: 92 PLTAFF 97


>gi|166033118|ref|ZP_02235947.1| hypothetical protein DORFOR_02840 [Dorea formicigenerans ATCC
          27755]
 gi|166027475|gb|EDR46232.1| hypothetical protein DORFOR_02840 [Dorea formicigenerans ATCC
          27755]
          Length = 295

 Score = 63.3 bits (153), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 35/77 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+   + +++ R   GMSQE+L E LG++ Q V K+E G        +  IS + +  I
Sbjct: 1  MDMTFAENVKMLRKQAGMSQEQLAEKLGVSRQAVTKWETGAGIPDIENIMAISMLFDISI 60

Query: 71 SFFFDVSPTVCSDISSE 87
                       + +E
Sbjct: 61 DDLLSNERDSKKVVETE 77


>gi|58696655|ref|ZP_00372209.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila simulans]
 gi|58537179|gb|EAL60281.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila simulans]
          Length = 279

 Score = 63.3 bits (153), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 23/121 (19%), Positives = 50/121 (41%), Gaps = 23/121 (19%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R+I   +Q+ L + +G+T +++ +YE+G   +   +L  I+  L   I    
Sbjct: 145 IGQRIREWRLIRRYTQKDLADKVGVTLKEIHEYERGYTTILFDKLYEIAGALSVNIKVLL 204

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
                                  P+  +  +    I++ +  + +  LV+S+    K  +
Sbjct: 205 -----------------------PETRESKKLLSLINEYREPESLDALVKSLSEDMKSGK 241

Query: 135 T 135
            
Sbjct: 242 E 242



 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 26/107 (24%), Positives = 45/107 (42%), Gaps = 13/107 (12%)

Query: 25  ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI 84
           + G +Q +L   +G+T+Q+V  YE G   +    L  I+ VL             V  D 
Sbjct: 1   MRGHTQVELASEIGLTYQEVNSYENGYIPIPIEVLYVIARVLSVNAIDLLPEPVIVREDS 60

Query: 85  SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
             +E          + L L + +   ++ K+ + +  LVR +  SEK
Sbjct: 61  YEDE----------EILYLTKIY---ENQKLGKIVPSLVRFVHISEK 94


>gi|253574140|ref|ZP_04851482.1| SOS-response transcriptional repressor [Paenibacillus sp. oral
           taxon 786 str. D14]
 gi|251846617|gb|EES74623.1| SOS-response transcriptional repressor [Paenibacillus sp. oral
           taxon 786 str. D14]
          Length = 290

 Score = 63.3 bits (153), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 24/103 (23%), Positives = 43/103 (41%), Gaps = 3/103 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI+  R+  GM+  +LG  +G+T   + K EKG   + +  L  ISE     + +  
Sbjct: 8   LGERIKKCRLEKGMTLRELGSQVGMTSSALSKVEKGSVSITSENLFAISEAFGVSVDWLL 67

Query: 75  DVSPTVCSDISSEENNV---MDFISTPDGLQLNRYFIQIDDVK 114
                   D   + N V      I   +  ++   F  + D +
Sbjct: 68  TGKEAQFKDEGYDTNEVRKEATPIFFDEEWEVVSQFRNLSDEE 110


>gi|220921966|ref|YP_002497267.1| XRE family transcriptional regulator [Methylobacterium nodulans ORS
           2060]
 gi|219946572|gb|ACL56964.1| transcriptional regulator, XRE family [Methylobacterium nodulans
           ORS 2060]
          Length = 227

 Score = 63.3 bits (153), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 4/88 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  +R  R+ LGM+QE+L E   ++   + K E+G+ +        I+  L   IS   
Sbjct: 4   IGNNVRNARLRLGMTQEQLAEAANVSQTTIDKIERGLTKRSKYLPW-IAIALSVDIS--- 59

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQ 102
           ++  ++    + +E +V + +S P  L 
Sbjct: 60  ELDNSLRYSPTEKEKDVGEVVSRPHLLA 87


>gi|160895181|ref|ZP_02075954.1| hypothetical protein CLOL250_02741 [Clostridium sp. L2-50]
 gi|156863215|gb|EDO56646.1| hypothetical protein CLOL250_02741 [Clostridium sp. L2-50]
          Length = 101

 Score = 63.3 bits (153), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 20/97 (20%), Positives = 41/97 (42%), Gaps = 5/97 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++ +RIR  R ++G++Q  L   L I+   V  ++ G ++     L  +++       +
Sbjct: 3   MDISERIRELREVIGITQSNLASALNISRSAVNAWKMGTSKPSIDTLVDLADFFHVSTDY 62

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
               +     +IS      +D I     L+L  YF  
Sbjct: 63  LLGRNELQLIEISGVSPEGVDII-----LRLVHYFSA 94


>gi|15900101|ref|NP_344705.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           TIGR4]
 gi|14971630|gb|AAK74345.1| putative transcriptional regulator PlcR [Streptococcus pneumoniae
           TIGR4]
          Length = 288

 Score = 63.3 bits (153), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 28/98 (28%), Positives = 47/98 (47%), Gaps = 3/98 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++ RR  L MSQ +L E  GI  Q Q+ + E G    GA  L  +++ L+  + +FFD 
Sbjct: 8   RLKNRRKELKMSQRELAE--GICKQGQISRLESGEFTPGADFLNALAKKLKVSMDYFFDE 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
                 +  SE   +     T    +  +Y  ++++VK
Sbjct: 66  QVVEKVEELSEFKKLAQTFITNRNYESLKYIYELENVK 103


>gi|294792345|ref|ZP_06757493.1| toxin-antitoxin system, antitoxin component, Xre family
           [Veillonella sp. 6_1_27]
 gi|294457575|gb|EFG25937.1| toxin-antitoxin system, antitoxin component, Xre family
           [Veillonella sp. 6_1_27]
          Length = 128

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 22/122 (18%), Positives = 46/122 (37%), Gaps = 12/122 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+RI+  R    ++ ++LGE L +    +  +E       A  ++ I+ V    I +
Sbjct: 2   KTLGQRIKQLRKFQHLTGDELGEKLNVGRSAISLWETDARMPSAEMIKLIANVFNVSIDY 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
                     D          +   P+  +L       +D  +R  +++  RS+  SE +
Sbjct: 62  LLTGEHPTTDDG---------YYYDPEVAELAEEIK--NDPDLR-LLLDAKRSLSKSEME 109

Query: 133 YR 134
             
Sbjct: 110 SI 111


>gi|315499237|ref|YP_004088041.1| transcriptional regulator, xre family [Asticcacaulis excentricus CB
           48]
 gi|315417249|gb|ADU13890.1| transcriptional regulator, XRE family [Asticcacaulis excentricus CB
           48]
          Length = 267

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 28/112 (25%), Positives = 50/112 (44%), Gaps = 7/112 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ IRL R    ++   +   +GIT  ++++ E G  +  AS L  +S +LE P+S FF
Sbjct: 16  IGRNIRLFREQKRVTLSDMALGIGITSDRLKRIESGKLKPSASELLRVSRILERPVSDFF 75

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI--DDVKVRQKIIELVR 124
                +   +       +D   +   L   R +  I     K R+   +LV+
Sbjct: 76  GGEGHLPPGVRP-----IDLWFSQSILPHARAYFGIAYSLTKHREAANDLVQ 122


>gi|297587580|ref|ZP_06946224.1| conserved hypothetical protein [Finegoldia magna ATCC 53516]
 gi|297574269|gb|EFH92989.1| conserved hypothetical protein [Finegoldia magna ATCC 53516]
          Length = 327

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/92 (25%), Positives = 41/92 (44%), Gaps = 2/92 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
           +I L R    ++QE+L E LG++ Q V K+E G +    +++  +S+V      +    +
Sbjct: 6   KIILLRKKNNLTQEELAEKLGVSRQSVSKWEMGNSIPDINKIIQLSDVFGVKTDYLLKDE 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
           +     SD + EE      IS  D       +
Sbjct: 66  IDDIEYSDDTVEELETKKTISVEDANDFMSAY 97


>gi|86360696|ref|YP_472584.1| MerR family transcriptional regulator [Rhizobium etli CFN 42]
 gi|86284798|gb|ABC93857.1| probable transcriptional regulator protein, MerR family
          [Rhizobium etli CFN 42]
          Length = 190

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 29/62 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  +R  R  LG++   L    GI+   + K E G      + LQ +S  L  P++ 
Sbjct: 1  MAIGHEVRAYRKKLGITVTDLAAATGISLGMLSKIENGNISPSLTTLQSLSRALGVPLTA 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|307265008|ref|ZP_07546569.1| transcriptional regulator, XRE family [Thermoanaerobacter wiegelii
           Rt8.B1]
 gi|306919993|gb|EFN50206.1| transcriptional regulator, XRE family [Thermoanaerobacter wiegelii
           Rt8.B1]
          Length = 130

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 25/127 (19%), Positives = 53/127 (41%), Gaps = 12/127 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R    ++QE L + LGI+   +  YE          L+ I++     I +    +
Sbjct: 6   RLKELRKEKNLTQEDLAKILGISRSTIAGYETERKEPDYETLKKIADFFNVSIDYLLGRT 65

Query: 78  P-----TVCSDISSEENNVMDF---ISTPDGLQLNRYFIQID--DVKVRQKIIELVRSIV 127
                    ++  S++  +++F   +   + L+L   F Q      K  ++II ++++I 
Sbjct: 66  DIRSPVDEITEAVSDDPELLEFWNELKDREDLKLL--FKQTKKLSPKEIKQIIRIIKAIE 123

Query: 128 SSEKKYR 134
             E K  
Sbjct: 124 EEEDKGE 130


>gi|296491938|ref|YP_003662405.1| putative DNA binding protein [Xenorhabdus nematophila ATCC 19061]
 gi|289176825|emb|CBJ92994.1| putative DNA binding protein [Xenorhabdus nematophila ATCC 19061]
          Length = 136

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 22/72 (30%), Positives = 38/72 (52%), Gaps = 5/72 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGIT-----FQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           R+   R   G+SQ +LGE LGIT      Q + KYE+GV       ++ I+++L+ P  
Sbjct: 19 NRLIEARKFRGLSQRELGEALGITDSETAGQHISKYERGVRLPPYKTVREIAKILDMPPC 78

Query: 72 FFFDVSPTVCSD 83
          +F+     + ++
Sbjct: 79 YFYIDDDDLSAE 90


>gi|228994652|ref|ZP_04154474.1| hypothetical protein bpmyx0001_53290 [Bacillus pseudomycoides DSM
          12442]
 gi|228765084|gb|EEM13816.1| hypothetical protein bpmyx0001_53290 [Bacillus pseudomycoides DSM
          12442]
          Length = 188

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 33/77 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R     SQ +L + L +T Q V K+E          L  +S++    + +
Sbjct: 18 MELGSKLKKLRKEHNYSQNQLADKLNVTAQAVSKWENDKCAPDIINLVQLSDLYNVSLDY 77

Query: 73 FFDVSPTVCSDISSEEN 89
                 + + +S E N
Sbjct: 78 LIKSDKELQNHLSLENN 94


>gi|229000364|ref|ZP_04159924.1| hypothetical protein bmyco0003_49110 [Bacillus mycoides Rock3-17]
 gi|228759391|gb|EEM08377.1| hypothetical protein bmyco0003_49110 [Bacillus mycoides Rock3-17]
          Length = 188

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 33/77 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R     SQ +L + L +T Q V K+E          L  +S++    + +
Sbjct: 18 MELGSKLKKLRKEHNYSQNQLADKLNVTAQAVSKWENDKCAPDIINLVQLSDLYNVSLDY 77

Query: 73 FFDVSPTVCSDISSEEN 89
                 + + +S E N
Sbjct: 78 LIKSDKELQNHLSLENN 94


>gi|268592006|ref|ZP_06126227.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291312398|gb|EFE52851.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 101

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 32/61 (52%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            N +  +VG  +R  R    M+ ++L E + I+ QQV +YE G + +   +L  I  VL
Sbjct: 2  KANIISSHVGNYLRKSRKEKNMTGKQLAELINISQQQVSRYETGSSSLSLDQLNEILTVL 61

Query: 67 E 67
          +
Sbjct: 62 D 62


>gi|154500021|ref|ZP_02038059.1| hypothetical protein BACCAP_03679 [Bacteroides capillosus ATCC
          29799]
 gi|150271619|gb|EDM98876.1| hypothetical protein BACCAP_03679 [Bacteroides capillosus ATCC
          29799]
          Length = 296

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 22/73 (30%), Positives = 34/73 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K I+  R   GMSQE++   L +  Q V K+E G++   A  L  ++E+L   +S    +
Sbjct: 6  KNIKHFRKAKGMSQEEMAVKLNVVRQTVSKWENGLSVPDADVLIRMAELLNVSVSQLLGI 65

Query: 77 SPTVCSDISSEEN 89
               SD    E 
Sbjct: 66 EAEDKSDKDLSEK 78


>gi|83951509|ref|ZP_00960241.1| DNA-binding protein, putative [Roseovarius nubinhibens ISM]
 gi|83836515|gb|EAP75812.1| DNA-binding protein, putative [Roseovarius nubinhibens ISM]
          Length = 143

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/101 (22%), Positives = 46/101 (45%), Gaps = 5/101 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R   GM+Q +L   LG+  + ++K+E  ++   A+RL  ++ +L   I +   
Sbjct: 31  GDRLAGAREASGMTQTQLARRLGVKEKTIEKWENDLSEPRANRLSMLAGLLNVSILWLIS 90

Query: 76  VS---PTVCSDISSEENNVMDFISTPDGLQ--LNRYFIQID 111
                P    + ++ E  + D +     +Q  L R   +I+
Sbjct: 91  GDGDAPEAPGESAASEATLDDLLRELRQVQAVLTRSAARIE 131


>gi|259502231|ref|ZP_05745133.1| conserved hypothetical protein [Lactobacillus antri DSM 16041]
 gi|259169849|gb|EEW54344.1| conserved hypothetical protein [Lactobacillus antri DSM 16041]
          Length = 126

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 29/54 (53%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++   R   G+SQE+L + L ++ Q V K+E G       ++  I+++L+  + 
Sbjct: 7  QLANLRQAAGLSQEQLADQLHVSRQAVSKWENGSTLPDIDKIVQIADILQVSLD 60


>gi|225180882|ref|ZP_03734330.1| transcriptional regulator, XRE family [Dethiobacter alkaliphilus
           AHT 1]
 gi|225168363|gb|EEG77166.1| transcriptional regulator, XRE family [Dethiobacter alkaliphilus
           AHT 1]
          Length = 255

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 42/101 (41%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK+IR+ R   GM+Q++L     I+   V + E G  +     ++ IS+ L   + +   
Sbjct: 138 GKKIRMTRETKGMTQKQLANAAQISPGLVAQLETGKVQPSLKTIERISKALSVSVCYLIL 197

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
                   I+     + + +  P    L  +   +D  ++R
Sbjct: 198 EQEDAEGIIAGITPELRELLFDPRVQMLIGHICTLDSEQLR 238



 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           G ++R  R   G++ E+LG  L ++   + + E G        LQ IS     PIS F
Sbjct: 70  GDKLRAMREEKGLTLEELGRHLDLSVTYLSEIELGERTPSIQTLQKISRYFNVPISLF 127


>gi|254360461|ref|ZP_04976610.1| possible LexA family repressor/S24 family protease [Mannheimia
          haemolytica PHL213]
 gi|153091001|gb|EDN73006.1| possible LexA family repressor/S24 family protease [Mannheimia
          haemolytica PHL213]
          Length = 218

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+ RR  L ++Q+ L   L G++   V ++E    +  +  +  +S VL+  IS+ 
Sbjct: 6  LGDRIKSRRKELKLTQKDLATALKGVSHVAVSQWESSTTKPNSENILDLSTVLQCDISWL 65

Query: 74 FDVSPTV 80
             +   
Sbjct: 66 LRGNGES 72


>gi|310828555|ref|YP_003960912.1| hypothetical protein ELI_2980 [Eubacterium limosum KIST612]
 gi|308740289|gb|ADO37949.1| hypothetical protein ELI_2980 [Eubacterium limosum KIST612]
          Length = 268

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 3/75 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+   R   G SQE L E +G++ Q V K+E G++    + L  +SE+ E  +    ++
Sbjct: 5  ERLFQLRKQKGFSQETLAERMGVSRQAVSKWESGLSNPDINNLVFLSEIFEVSLD---EL 61

Query: 77 SPTVCSDISSEENNV 91
                  S +E  +
Sbjct: 62 IKGEAPQASEKEETI 76


>gi|16129529|ref|NP_416088.1| Qin prophage; predicted regulator for DicB [Escherichia coli str.
           K-12 substr. MG1655]
 gi|89108412|ref|AP_002192.1| predicted regulator for DicB [Escherichia coli str. K-12 substr.
           W3110]
 gi|170020075|ref|YP_001725029.1| transcriptional repressor DicA [Escherichia coli ATCC 8739]
 gi|170081237|ref|YP_001730557.1| Qin prophage; regulator for DicB [Escherichia coli str. K-12
           substr. DH10B]
 gi|218554136|ref|YP_002387049.1| transcriptional repressor DicA [Escherichia coli IAI1]
 gi|238900790|ref|YP_002926586.1| Qin prophage; putative regulator for DicB [Escherichia coli BW2952]
 gi|300939073|ref|ZP_07153765.1| transcriptional repressor DicA [Escherichia coli MS 21-1]
 gi|307310860|ref|ZP_07590506.1| transcriptional regulator, XRE family [Escherichia coli W]
 gi|118631|sp|P06966|DICA_ECOLI RecName: Full=HTH-type transcriptional regulator dicA; AltName:
           Full=Repressor protein of division inhibition gene dicA
 gi|41278|emb|CAA30349.1| unnamed protein product [Escherichia coli]
 gi|1742572|dbj|BAA15275.1| predicted regulator for DicB [Escherichia coli str. K12 substr.
           W3110]
 gi|1787853|gb|AAC74643.1| Qin prophage; predicted regulator for DicB [Escherichia coli str.
           K-12 substr. MG1655]
 gi|169755003|gb|ACA77702.1| transcriptional regulator, XRE family [Escherichia coli ATCC 8739]
 gi|169889072|gb|ACB02779.1| Qin prophage; predicted regulator for DicB [Escherichia coli str.
           K-12 substr. DH10B]
 gi|218360904|emb|CAQ98476.1| putative transcriptional regulator for DicB; Qin prophage
           [Escherichia coli IAI1]
 gi|238863388|gb|ACR65386.1| Qin prophage; predicted regulator for DicB [Escherichia coli
           BW2952]
 gi|260449307|gb|ACX39729.1| transcriptional regulator, XRE family [Escherichia coli DH1]
 gi|284921476|emb|CBG34547.1| repressor protein of division inhibition gene [Escherichia coli
           042]
 gi|300456019|gb|EFK19512.1| transcriptional repressor DicA [Escherichia coli MS 21-1]
 gi|306909038|gb|EFN39534.1| transcriptional regulator, XRE family [Escherichia coli W]
 gi|315060877|gb|ADT75204.1| Qin prophage; predicted regulator for DicB [Escherichia coli W]
 gi|315136211|dbj|BAJ43370.1| transcriptional repressor DicA [Escherichia coli DH1]
 gi|323378556|gb|ADX50824.1| helix-turn-helix domain protein [Escherichia coli KO11]
 gi|323940355|gb|EGB36547.1| helix-turn-helix protein [Escherichia coli E482]
          Length = 135

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 24/115 (20%), Positives = 50/115 (43%), Gaps = 11/115 (9%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++ +G+RIR RR  L  +Q  L + L I+   V ++E+G +      L  +S+VL+   +
Sbjct: 5   NLTIGERIRYRRKNLKHTQRSLAKALKISHVSVSQWERGDSEPTGKNLFALSKVLQCSPT 64

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-------VKVRQKI 119
           +              E+   +    +P  L+L   F  + +        ++R ++
Sbjct: 65  WILFGDEDKQPTPPVEKPVAL----SPKELELLELFNALPESEQDTQLAEMRARV 115


>gi|291550659|emb|CBL26921.1| Predicted transcription factor, homolog of eukaryotic MBF1
          [Ruminococcus torques L2-14]
          Length = 298

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 39/78 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK I  +R  LGM+Q++L E L ++ + V K+E+G+     S    + E+L   I+ 
Sbjct: 4  VKIGKYIAGKRKALGMTQKQLAEKLNMSDKSVSKWERGICLPDVSVYMELCEILGISINE 63

Query: 73 FFDVSPTVCSDISSEENN 90
          F         ++  +  +
Sbjct: 64 FLAGEDIDAENVEKKSED 81


>gi|224823653|ref|ZP_03696762.1| putative phage repressor [Lutiella nitroferrum 2002]
 gi|224604108|gb|EEG10282.1| putative phage repressor [Lutiella nitroferrum 2002]
          Length = 324

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/102 (22%), Positives = 49/102 (48%), Gaps = 5/102 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKR+   R + G++Q +L + +G++ Q +   E G N+ G   L  I++ L    ++  
Sbjct: 97  LGKRVTHARELKGLTQLELAKRVGVSAQTINFVENGRNK-GTKHLLAIAKALGVSATWL- 154

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           D      +++S     V +     + L  +  +I + ++ VR
Sbjct: 155 DSGKGSMTEVSLRPIEVWE---DEEQLAQSGEYIFLPELSVR 193


>gi|42520474|ref|NP_966389.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|225630361|ref|YP_002727152.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|225630755|ref|YP_002727546.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|42410213|gb|AAS14323.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|225592342|gb|ACN95361.1| transcriptional regulator, putative [Wolbachia sp. wRi]
 gi|225592736|gb|ACN95755.1| transcriptional regulator, putative [Wolbachia sp. wRi]
          Length = 303

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/128 (17%), Positives = 52/128 (40%), Gaps = 23/128 (17%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
            + +   +G+RIR  R+I   +Q+ L + +G+T +++ +YE+G   +   +L  I+  L 
Sbjct: 162 TDSIYYRIGQRIREWRLIRRYTQKDLADKVGVTLKEIHEYERGYTTILFDKLYEIAGALS 221

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
             I                           P+  +  +    I++ +  + +  LV+S+ 
Sbjct: 222 VNIKVLL-----------------------PETRESKKLLSLINEYREPESLDALVKSLS 258

Query: 128 SSEKKYRT 135
              K  + 
Sbjct: 259 EDMKSGKE 266



 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 29/117 (24%), Positives = 52/117 (44%), Gaps = 13/117 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I   R++ G +Q +L   +G+T+Q+V  YE G   +    L  I+ VL        
Sbjct: 15  IGQKIEDSRLMRGHTQVELASEIGLTYQEVNSYENGYIPIPIEVLYVIARVLSVNAIDLL 74

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
                V  D   +E          + L L + +   ++ K+ + +  LVR +  SEK
Sbjct: 75  PEPVIVREDSYEDE----------EILYLTKIY---ENQKLGKIVPSLVRFVHISEK 118


>gi|58699926|ref|ZP_00374515.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
 gi|58533557|gb|EAL57967.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
          Length = 293

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/128 (17%), Positives = 52/128 (40%), Gaps = 23/128 (17%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
            + +   +G+RIR  R+I   +Q+ L + +G+T +++ +YE+G   +   +L  I+  L 
Sbjct: 176 TDSIYYRIGQRIREWRLIRRYTQKDLADKVGVTLKEIHEYERGYTTILFDKLYEIAGALS 235

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
             I                           P+  +  +    I++ +  + +  LV+S+ 
Sbjct: 236 VNIKVLL-----------------------PETRESKKLLSLINEYREPESLDALVKSLS 272

Query: 128 SSEKKYRT 135
              K  + 
Sbjct: 273 EDMKSGKE 280



 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 29/117 (24%), Positives = 52/117 (44%), Gaps = 13/117 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I   R++ G +Q +L   +G+T+Q+V  YE G   +    L  I+ VL        
Sbjct: 29  IGQKIEDSRLMRGHTQVELASEIGLTYQEVNSYENGYIPIPIEVLYVIARVLSVNAIDLL 88

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
                V  D   +E          + L L + +   ++ K+ + +  LVR +  SEK
Sbjct: 89  PEPVIVREDSYEDE----------EILYLTKIY---ENQKLGKIVPSLVRFVHISEK 132


>gi|315652455|ref|ZP_07905442.1| cro/CI family transcriptional regulator [Eubacterium saburreum DSM
           3986]
 gi|315485293|gb|EFU75688.1| cro/CI family transcriptional regulator [Eubacterium saburreum DSM
           3986]
          Length = 177

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 44/92 (47%), Gaps = 6/92 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G +++  R++ G++QE+L +   ++   + + E  +     + L  I + L   I  
Sbjct: 1   MDIGSKLKRLRVLAGLTQEELADRAELSKGFISQLENNITSPSIATLLDILQCLGVQIKD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           FFD   T    + +EE+  +      +  +LN
Sbjct: 61  FFD-EETETQVVFTEEDYFI-----KEDKELN 86


>gi|315612466|ref|ZP_07887379.1| XRE family transcriptional regulator [Streptococcus sanguinis ATCC
           49296]
 gi|315315447|gb|EFU63486.1| XRE family transcriptional regulator [Streptococcus sanguinis ATCC
           49296]
          Length = 188

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 31/87 (35%), Gaps = 1/87 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R   G++Q  L + L     Q  KYE G   +     + ++E       +   +
Sbjct: 3   NRLKKLRKEKGLTQADLAKVLNTNQSQYGKYENGKTNLSIENAKILAEYFGVSTPYLLGL 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQL 103
                +D S +       +    GL L
Sbjct: 63  DDDSATDESRKMTPFQSLVRDR-GLSL 88



 Score = 37.1 bits (85), Expect = 0.88,   Method: Composition-based stats.
 Identities = 28/109 (25%), Positives = 47/109 (43%), Gaps = 10/109 (9%)

Query: 24  MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSD 83
              G+S +++ E  GI +  V  Y +G     A   Q +SE     I +         ++
Sbjct: 82  RDRGLSLKEISEATGIGYSTVGNYNQGSRIPNARNAQLLSEYFGVSIPYLLGYEENFTAN 141

Query: 84  -----ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR---QKIIELVR 124
                IS E    + FIS     +L + +I++ D K R   ++I E+VR
Sbjct: 142 KPNATISIELVKELSFISEKKS-KLLQEYIEL-DKKERDIIKQIKEIVR 188


>gi|225019677|ref|ZP_03708869.1| hypothetical protein CLOSTMETH_03630 [Clostridium methylpentosum
          DSM 5476]
 gi|224947522|gb|EEG28731.1| hypothetical protein CLOSTMETH_03630 [Clostridium methylpentosum
          DSM 5476]
          Length = 261

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 31/55 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++++ R   G+SQE+L E LG++ Q V K+E G +      L  +S++    + 
Sbjct: 5  EKLQILRKEAGLSQERLAEKLGVSRQAVSKWESGQSTPDIENLSALSDLFGVTLD 59


>gi|258611915|ref|ZP_05243102.2| conserved hypothetical protein [Listeria monocytogenes FSL R2-503]
 gi|290892307|ref|ZP_06555302.1| conserved hypothetical protein [Listeria monocytogenes FSL J2-071]
 gi|293596363|ref|ZP_05230968.2| conserved hypothetical protein [Listeria monocytogenes FSL J1-194]
 gi|293597004|ref|ZP_05266446.2| conserved hypothetical protein [Listeria monocytogenes HPB2262]
 gi|300764870|ref|ZP_07074859.1| prophage repressor protein [Listeria monocytogenes FSL N1-017]
 gi|258607134|gb|EEW19742.1| conserved hypothetical protein [Listeria monocytogenes FSL R2-503]
 gi|290558133|gb|EFD91652.1| conserved hypothetical protein [Listeria monocytogenes FSL J2-071]
 gi|293584645|gb|EFF96677.1| conserved hypothetical protein [Listeria monocytogenes HPB2262]
 gi|293595206|gb|EFG02967.1| conserved hypothetical protein [Listeria monocytogenes FSL J1-194]
 gi|300514357|gb|EFK41415.1| prophage repressor protein [Listeria monocytogenes FSL N1-017]
          Length = 117

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 44/98 (44%), Gaps = 2/98 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +
Sbjct: 9   LNKFVGNKIKQYREERGLNQEALAEKLHTTRQTISRYENGDRKANQDVLFELAKIFNKRL 68

Query: 71  SFFFDV--SPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             FF     P V   + +   ++ D ++  +   +  Y
Sbjct: 69  DDFFPERNLPPVDERLVTIAAHIDDDVTEEEMRDILAY 106


>gi|16799238|ref|NP_469506.1| hypothetical protein lin0161 [Listeria innocua Clip11262]
 gi|16412580|emb|CAC95394.1| lin0161 [Listeria innocua Clip11262]
          Length = 117

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 32/64 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +
Sbjct: 9  LNKFVGNKIKQYREERGLNQEALAEKLHTTRQTISRYENGDRKANQDVLFELAKIFNKRL 68

Query: 71 SFFF 74
            FF
Sbjct: 69 DDFF 72


>gi|229827176|ref|ZP_04453245.1| hypothetical protein GCWU000182_02561 [Abiotrophia defectiva ATCC
           49176]
 gi|229788794|gb|EEP24908.1| hypothetical protein GCWU000182_02561 [Abiotrophia defectiva ATCC
           49176]
          Length = 109

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 28/118 (23%), Positives = 49/118 (41%), Gaps = 15/118 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I +GK+I+  R+  GM+QE+L E L      +  YE     +  S L+ I+++L  P+  
Sbjct: 7   ITLGKKIKEYRLKRGMTQEELAERLFSRKSTISDYENDKIDIKISILREIAKILGMPLFC 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           F         D               + +Q+     QI   ++R+  I+ V  +   E
Sbjct: 67  FLCEQNADTDD---------------EIMQMAMALKQIKSKELRKAAIKQVMILAEME 109


>gi|326790576|ref|YP_004308397.1| hypothetical protein Clole_1473 [Clostridium lentocellum DSM
          5427]
 gi|326541340|gb|ADZ83199.1| helix-turn-helix domain protein [Clostridium lentocellum DSM
          5427]
          Length = 189

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 26/59 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I +G RI+  R   G SQ  + E +G+       YE          ++ I E+L+  IS
Sbjct: 7  IQIGTRIKEIRKSKGFSQAYMAEKIGVNRTTYSNYENNNREPNLKTIEKICEILDVTIS 65


>gi|170742019|ref|YP_001770674.1| XRE family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168196293|gb|ACA18240.1| transcriptional regulator, XRE family [Methylobacterium sp. 4-46]
          Length = 201

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 42/79 (53%), Gaps = 3/79 (3%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N  ++ +G++IR  R I G++ +++   +G++   + + E+  +++    L+ I+ +L  
Sbjct: 16 NEQELLLGEQIRALRKIKGLTLQQIAGEIGVSIGYLSQIERNRSKLPIGVLKRIATILGV 75

Query: 69 PISFFFD---VSPTVCSDI 84
           +S+FF    + P    D 
Sbjct: 76 QLSWFFQPQTLGPPEEQDF 94


>gi|210634335|ref|ZP_03298071.1| hypothetical protein COLSTE_01993 [Collinsella stercoris DSM
          13279]
 gi|210158862|gb|EEA89833.1| hypothetical protein COLSTE_01993 [Collinsella stercoris DSM
          13279]
          Length = 152

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 5/71 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ V       R   G++QE+L   L IT Q V ++E G    G   ++ I+  L+ P+ 
Sbjct: 6  DVLV-----QLRHERGLTQEELASRLYITRQAVSRWETGATEPGIDMIKLIARELDVPVM 60

Query: 72 FFFDVSPTVCS 82
             D+    C 
Sbjct: 61 RLLDMPEHYCQ 71


>gi|322688843|ref|YP_004208577.1| hypothetical protein BLIF_0656 [Bifidobacterium longum subsp.
          infantis 157F]
 gi|320460179|dbj|BAJ70799.1| conserved hypothetical protein [Bifidobacterium longum subsp.
          infantis 157F]
          Length = 161

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 34/66 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ I++ R   G++Q +    L +T Q + ++EKG        ++ IS   E P++ 
Sbjct: 1  MSIGQVIKVVREERGLTQSQFAHELFVTQQALSRWEKGTAEPSIDMIRLISTRFEVPMAR 60

Query: 73 FFDVSP 78
            ++  
Sbjct: 61 LMEMPD 66


>gi|251782740|ref|YP_002997043.1| putative transcriptional regulator PlcR [Streptococcus dysgalactiae
           subsp. equisimilis GGS_124]
 gi|242391370|dbj|BAH81829.1| putative transcriptional regulator PlcR [Streptococcus dysgalactiae
           subsp. equisimilis GGS_124]
          Length = 290

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 28/98 (28%), Positives = 51/98 (52%), Gaps = 4/98 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + ++ +L+R  LG+SQ+ L +  GI  Q Q+ K E+G     A  L  +S+ LE  + +F
Sbjct: 5   LSEKFKLKRKELGISQQSLAD--GICEQSQISKIERGNFIPSADLLYKLSQRLEVTLDYF 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
           F+    V S +S+ +N  +  +   +   L  Y  +I+
Sbjct: 63  FNDEIEVKSSLSNFKNLSIHLLDDRNYDDL-EYIYKIE 99


>gi|256828945|ref|YP_003157673.1| PAS/PAC sensor hybrid histidine kinase [Desulfomicrobium
          baculatum DSM 4028]
 gi|256578121|gb|ACU89257.1| PAS/PAC sensor hybrid histidine kinase [Desulfomicrobium
          baculatum DSM 4028]
          Length = 1143

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/60 (33%), Positives = 32/60 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+RL R +  M+QE L E +G+T Q + + E+G        L   +  L + ++ FF
Sbjct: 6  VGGRLRLYRQLRDMTQESLSEVIGVTKQHLGQIERGQCNPSLDFLSKAAAALNTQVANFF 65


>gi|27366450|ref|NP_761978.1| putative transcriptional regulator [Vibrio vulnificus CMCP6]
 gi|27362651|gb|AAO11505.1| Putative transcriptional regulator [Vibrio vulnificus CMCP6]
          Length = 105

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 22/118 (18%), Positives = 51/118 (43%), Gaps = 25/118 (21%)

Query: 18  RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R    ++Q+ LG  +G+       ++  YEKG +    S L+ +++ L  P+++F
Sbjct: 9   RLKKARKHAKITQKNLGIMIGMDESSASGRMNHYEKGRHTPDISTLRKMADALGVPLNYF 68

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           F                           +L     ++ + K R ++++ V+S+  S++
Sbjct: 69  FCEDEASA--------------------ELATAISRLSEAK-RNQVLKFVKSLEESDE 105


>gi|300909985|ref|ZP_07127445.1| probable transcriptional regulator [Lactobacillus reuteri SD2112]
 gi|300892633|gb|EFK85993.1| probable transcriptional regulator [Lactobacillus reuteri SD2112]
          Length = 234

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/119 (16%), Positives = 43/119 (36%), Gaps = 17/119 (14%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  NKK P+        RI   R   G++ +++ + +G+    + +YE G         Q
Sbjct: 1   MSENKK-PH-------NRIAELRKEKGLTLQQVADAIGVGNNTISRYETGKREPKLETWQ 52

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTP--DGLQLNRY---FIQIDDVK 114
            ++   +  + +           I   +N V+  I     +  +L      +++    K
Sbjct: 53  KLANYFDVTVYYL----QGYGLSIDQAKNKVISIIHNAYFEDTELTSAVDSYLRTISPK 107


>gi|228476741|ref|ZP_04061407.1| transcriptional regulator [Streptococcus salivarius SK126]
 gi|228251612|gb|EEK10713.1| transcriptional regulator [Streptococcus salivarius SK126]
          Length = 229

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/103 (19%), Positives = 43/103 (41%), Gaps = 6/103 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R++  R   GMSQ  + + LGI+      +E G  +     L  ++E+     ++F  
Sbjct: 4   GQRLKEIREAQGMSQASVAKHLGISRSSYFNWENGKTKPNQKNLSVLAELFGVAETYFLS 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
               V   +   E N        + L+L +  ++  + + ++ 
Sbjct: 64  EHEIVEVYLELNEEN------RQEALRLTKALLEEQEAEKQKA 100


>gi|240143885|ref|ZP_04742486.1| DNA-binding protein [Roseburia intestinalis L1-82]
 gi|257204077|gb|EEV02362.1| DNA-binding protein [Roseburia intestinalis L1-82]
          Length = 298

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 40/80 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  I  +R  LGM+Q++L E LG + + V K+E+G+     S    + E+L   ++ 
Sbjct: 4  VKIGSYIAEKRKKLGMTQKQLAEKLGKSDKSVSKWERGICLPDVSVYLELCEILGISLNE 63

Query: 73 FFDVSPTVCSDISSEENNVM 92
          F        +++  +  + +
Sbjct: 64 FLAGEDIEVTNVEKKSEDTL 83


>gi|254478231|ref|ZP_05091612.1| Helix-turn-helix domain protein [Carboxydibrachium pacificum DSM
           12653]
 gi|214035827|gb|EEB76520.1| Helix-turn-helix domain protein [Carboxydibrachium pacificum DSM
           12653]
          Length = 218

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 27/126 (21%), Positives = 53/126 (42%), Gaps = 8/126 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R+R  R   G+ Q+ + + LGIT      YE+G        L+ +S+     I +    
Sbjct: 93  QRLRQLREEKGLLQKDVAKILGITPSAYGYYEQGKREPSMEVLKKLSDFFNVSIDYLLGR 152

Query: 77  SP-----TVCSDISSEENNVMDFIST-PDGLQLNRYFIQID--DVKVRQKIIELVRSIVS 128
           +         ++  S++  + +F +T  +   L   F Q      K  ++II ++++I  
Sbjct: 153 TDIRSPVDEITEAVSDDPELFEFWNTLKEREDLKLLFKQTKKLSPKDIKQIIRIIKAIED 212

Query: 129 SEKKYR 134
            E K  
Sbjct: 213 EEDKEE 218


>gi|187777057|ref|ZP_02993530.1| hypothetical protein CLOSPO_00602 [Clostridium sporogenes ATCC
          15579]
 gi|187773985|gb|EDU37787.1| hypothetical protein CLOSPO_00602 [Clostridium sporogenes ATCC
          15579]
          Length = 181

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 39/84 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + ++IR  R    ++ + LGE  G++   + + E   + +  + L+ I++ L  PI++FF
Sbjct: 5  IAEKIRNLRKEKNLTLKDLGEKTGLSISFLSQVENNSSSLAITSLKKIADALNVPITYFF 64

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
                   +  +E  V +   + 
Sbjct: 65 KSPELHKYLVKKQEREVFELEGSA 88


>gi|253699444|ref|YP_003020633.1| XRE family transcriptional regulator [Geobacter sp. M21]
 gi|251774294|gb|ACT16875.1| transcriptional regulator, XRE family [Geobacter sp. M21]
          Length = 106

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/87 (26%), Positives = 42/87 (48%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R    +SQE+L E +GI  + + + E G +     RL+ I+  L   +  FF
Sbjct: 8   LGARIKELRKGRKLSQEELAELIGIEPRHMSRIEVGKSYPSLDRLERIAMALNVDLRDFF 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL 101
           D +      ++ ++ N +    T + L
Sbjct: 68  DFAHLEARPVNVDQINDILKEMTDEDL 94


>gi|160938794|ref|ZP_02086145.1| hypothetical protein CLOBOL_03688 [Clostridium bolteae ATCC
          BAA-613]
 gi|158437757|gb|EDP15517.1| hypothetical protein CLOBOL_03688 [Clostridium bolteae ATCC
          BAA-613]
          Length = 230

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 4/68 (5%)

Query: 3  GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          G   + N     VGK I   R   GMSQE+L + + +T Q V  +E G ++     L+ +
Sbjct: 4  GGTAMKN----TVGKNIVKLRKEQGMSQEQLAQKIHVTRQAVSNWETGRSQPDLDMLETL 59

Query: 63 SEVLESPI 70
          +    + I
Sbjct: 60 ASAFGTDI 67


>gi|332654275|ref|ZP_08420019.1| transcriptional regulator, Cro/CI family [Ruminococcaceae
          bacterium D16]
 gi|332517361|gb|EGJ46966.1| transcriptional regulator, Cro/CI family [Ruminococcaceae
          bacterium D16]
          Length = 394

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 39/78 (50%), Gaps = 1/78 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R  R   GM+Q++L + LG++ + V ++E G      + L  ++ VL   +    D 
Sbjct: 8  QRLRQYRKNKGMTQQELADQLGVSNKTVSRWESGS-YPDVTTLVALARVLGVTVDELLDP 66

Query: 77 SPTVCSDISSEENNVMDF 94
             V +   S+  N++ F
Sbjct: 67 KAPVRTLEKSDWQNLLSF 84


>gi|304315786|ref|YP_003850931.1| XRE family transcriptional regulator [Thermoanaerobacterium
           thermosaccharolyticum DSM 571]
 gi|302777288|gb|ADL67847.1| transcriptional regulator, XRE family [Thermoanaerobacterium
           thermosaccharolyticum DSM 571]
          Length = 126

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 14/98 (14%), Positives = 40/98 (40%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +++  R I  ++Q+ + + LG++   +  YE+         +Q I++     + +  
Sbjct: 2   IGDKLKSLRKIKNVTQKDIADYLGVSPSAIGLYEQNRREPDLETVQKIADFFNVSVDYLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
             +     D S + +  +  +    G  +   F  + +
Sbjct: 62  GRTNKRNVDTSDDVDERLHKVMQELGPDILLAFYDLPN 99


>gi|261344638|ref|ZP_05972282.1| DNA-binding protein [Providencia rustigianii DSM 4541]
 gi|282567554|gb|EFB73089.1| DNA-binding protein [Providencia rustigianii DSM 4541]
          Length = 117

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 31/61 (50%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N   +  G  IR  R   G+S  +L + + I+ QQ+ +YE+G+N+     L  I+  L  
Sbjct: 21 NVFSLYCGLVIRKIRKENGISACELAKKVNISQQQMSRYERGINKFSIDMLFDITVALNI 80

Query: 69 P 69
          P
Sbjct: 81 P 81


>gi|225571052|ref|ZP_03780069.1| hypothetical protein CLOHYLEM_07151 [Clostridium hylemonae DSM
          15053]
 gi|225160133|gb|EEG72752.1| hypothetical protein CLOHYLEM_07151 [Clostridium hylemonae DSM
          15053]
          Length = 279

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 38/84 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK I + R    ++Q+ L + L +T + + K+E+G++    S L  +++VL+   S   +
Sbjct: 10 GKFICVMRKEKNLTQKDLAQKLDVTDKAISKWERGISCPDISLLIPLAKVLDVTTSELLN 69

Query: 76 VSPTVCSDISSEENNVMDFISTPD 99
                      E  V + +   D
Sbjct: 70 GERASEEQPEHAEAMVEEALHYSD 93


>gi|225572879|ref|ZP_03781634.1| hypothetical protein RUMHYD_01070 [Blautia hydrogenotrophica DSM
           10507]
 gi|317500124|ref|ZP_07958358.1| hypothetical protein HMPREF1026_00300 [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|331087647|ref|ZP_08336575.1| hypothetical protein HMPREF1025_00158 [Lachnospiraceae bacterium
           3_1_46FAA]
 gi|225039744|gb|EEG49990.1| hypothetical protein RUMHYD_01070 [Blautia hydrogenotrophica DSM
           10507]
 gi|316898479|gb|EFV20516.1| hypothetical protein HMPREF1026_00300 [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|330399826|gb|EGG79486.1| hypothetical protein HMPREF1025_00158 [Lachnospiraceae bacterium
           3_1_46FAA]
          Length = 211

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/88 (26%), Positives = 41/88 (46%), Gaps = 3/88 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I +VL    +  
Sbjct: 10  FLGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNFPTFDTLEKIMDVLGVMPN-- 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            ++       ++  E  V  F+   + L
Sbjct: 68  -ELLSGEWKYVNQSEKEVCQFLRIEERL 94


>gi|225017175|ref|ZP_03706367.1| hypothetical protein CLOSTMETH_01100 [Clostridium methylpentosum
           DSM 5476]
 gi|224950094|gb|EEG31303.1| hypothetical protein CLOSTMETH_01100 [Clostridium methylpentosum
           DSM 5476]
          Length = 131

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 30/115 (26%), Positives = 53/115 (46%), Gaps = 7/115 (6%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPI 70
           +  +GKR++L R   G++ + + + +G+    VQ+YE  G+ ++    L  I++VL    
Sbjct: 3   NREIGKRMKLAREQSGLTLQAVADRVGVAASTVQRYEAGGIEKLKLPVLNAIADVLGVDP 62

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
            +      T      +  +NV         L L R   Q+   K RQKII++  S
Sbjct: 63  GWL-----TGSETACAPADNVAQTGEERKLLMLCRRAEQLPPEK-RQKIIDIFES 111


>gi|167768818|ref|ZP_02440871.1| hypothetical protein ANACOL_00135 [Anaerotruncus colihominis DSM
           17241]
 gi|167668990|gb|EDS13120.1| hypothetical protein ANACOL_00135 [Anaerotruncus colihominis DSM
           17241]
          Length = 138

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 25/102 (24%), Positives = 42/102 (41%), Gaps = 4/102 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           KR+R  R   G +QE+LG+ +G+T   +  YEK  +      +  + + L    +F F  
Sbjct: 12  KRLREAREKAGFTQEELGKMIGVTGSAITNYEKETSHPKEPIMYALIDALNVEPNFLFQD 71

Query: 77  ----SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
                    S  ++E     D IS  +   L R    I + +
Sbjct: 72  CVHLPQKAKSPGTTEVVPGEDNISLEESNYLLRALGLIQEGQ 113


>gi|167771688|ref|ZP_02443741.1| hypothetical protein ANACOL_03060 [Anaerotruncus colihominis DSM
          17241]
 gi|167666328|gb|EDS10458.1| hypothetical protein ANACOL_03060 [Anaerotruncus colihominis DSM
          17241]
          Length = 110

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 30/59 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RIR  R   G+SQE L E +GI+   +   E G  ++    L  +++ L+     F
Sbjct: 6  IGQRIRKIRKAHGLSQESLAERVGISNTHMSHIETGNTKLSLPVLVALADALDVCTDDF 64


>gi|222081796|ref|YP_002541161.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221726475|gb|ACM29564.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 204

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 36/76 (47%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N VD+ VG+R+R  R+   +S  +L    GI+   + + E+G++ +    +  ++  L+ 
Sbjct: 16 NEVDVLVGRRVRALRLERNLSLAELATRTGISIGALSQIERGMSSLRVRVIWPLAAALDV 75

Query: 69 PISFFFDVSPTVCSDI 84
            S          +D+
Sbjct: 76 EPSALIVDGGEPVNDL 91


>gi|167749516|ref|ZP_02421643.1| hypothetical protein EUBSIR_00472 [Eubacterium siraeum DSM 15702]
 gi|167657544|gb|EDS01674.1| hypothetical protein EUBSIR_00472 [Eubacterium siraeum DSM 15702]
          Length = 159

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 24/121 (19%), Positives = 48/121 (39%), Gaps = 11/121 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++  R   G++Q+ L E LGI+    QKYE+         L  I++       +    
Sbjct: 3   EQLQQLRKSRGLTQDDLAEILGISLSSYQKYERDAISPSYETLCKIADFYHVTTDYLLGR 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGL-QLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
            P           +  D +  P+    +   F    D  VR  I++ ++ +  + KK + 
Sbjct: 63  EPA---------TDPFDMLQLPEDQKSVMERFASFPDD-VRAIILDAIKELAEAAKKRQR 112

Query: 136 I 136
           +
Sbjct: 113 L 113


>gi|332980703|ref|YP_004462144.1| helix-turn-helix domain-containing protein [Mahella australiensis
           50-1 BON]
 gi|332698381|gb|AEE95322.1| helix-turn-helix domain protein [Mahella australiensis 50-1 BON]
          Length = 130

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 26/118 (22%), Positives = 56/118 (47%), Gaps = 14/118 (11%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+  R+  G+SQ+++   +G+      KYE G ++     +Q +++     + +    S 
Sbjct: 7   IKQLRLEKGLSQKEIANAIGVDRTTYNKYETGKSQPDFDTVQKLADFFGVSVDYLLGRSD 66

Query: 79  TVCSDISSEE-------NNVMDFISTPDGLQLNRYFIQIDDVK---VRQ--KIIELVR 124
           T  SD+  E          + + ++  + +++   F +I D+K   V++  KIIE+V 
Sbjct: 67  TRNSDVIEEAIKDDPELERIWNMLNNREEVRVM--FKKIADLKPADVKRILKIIEIVE 122


>gi|229815060|ref|ZP_04445397.1| hypothetical protein COLINT_02102 [Collinsella intestinalis DSM
          13280]
 gi|229809290|gb|EEP45055.1| hypothetical protein COLINT_02102 [Collinsella intestinalis DSM
          13280]
          Length = 155

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +   R   G++QE+L   L IT Q V ++E G    G   ++ I+  L+ P++   D+  
Sbjct: 8  LAQTRRERGLTQEELAARLFITRQAVSRWETGATEPGIDMIKLIARELDVPVTRLLDMPE 67

Query: 79 TVCS 82
            C 
Sbjct: 68 HYCQ 71


>gi|319776198|ref|YP_004138686.1| putative phage repressor [Haemophilus influenzae F3047]
 gi|301168972|emb|CBW28569.1| unnamed protein product [Haemophilus influenzae 10810]
 gi|317450789|emb|CBY87011.1| Putative phage repressor [Haemophilus influenzae F3047]
          Length = 219

 Score = 63.3 bits (153), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 34/69 (49%), Gaps = 1/69 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +GKRIR RR  L ++Q+ +   + G++   + ++E    +  +  L  +S VLE  + + 
Sbjct: 6  IGKRIRQRRTELKLTQKDVANAIKGVSHVAISQWESDTTKPNSENLVDLSTVLECDLLWL 65

Query: 74 FDVSPTVCS 82
               +  +
Sbjct: 66 LRGEGSSSN 74


>gi|167749663|ref|ZP_02421790.1| hypothetical protein EUBSIR_00621 [Eubacterium siraeum DSM 15702]
 gi|167657416|gb|EDS01546.1| hypothetical protein EUBSIR_00621 [Eubacterium siraeum DSM 15702]
          Length = 302

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 1/66 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K++++ R   G++QE+L   LG+T Q V K+E G        L  I+++ +  I   +  
Sbjct: 7  KQLQMLRKQSGITQEQLAAKLGVTAQAVSKWENGS-YPDGDLLPKIADIFDVSIDNLYGR 65

Query: 77 SPTVCS 82
              CS
Sbjct: 66 GEERCS 71


>gi|160914687|ref|ZP_02076901.1| hypothetical protein EUBDOL_00694 [Eubacterium dolichum DSM 3991]
 gi|158433227|gb|EDP11516.1| hypothetical protein EUBDOL_00694 [Eubacterium dolichum DSM 3991]
          Length = 313

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 41/89 (46%), Gaps = 2/89 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + IR  R   G+SQE++   L +  Q + K+E  ++   A  L  I+++L+  +    D 
Sbjct: 22  ENIRKYRKECGLSQEEMAVKLHVVRQTISKWETNLSVPDADMLVEIAKLLQVSVEQLLDY 81

Query: 77  SPTVCSDISSEENNVMDFIST--PDGLQL 103
           S      + +E   + + ++    +  +L
Sbjct: 82  SGKDSLSVDTELARLNEELAKHIKEERRL 110


>gi|323357088|ref|YP_004223484.1| transcriptional regulator [Microbacterium testaceum StLB037]
 gi|323273459|dbj|BAJ73604.1| predicted transcriptional regulator [Microbacterium testaceum
           StLB037]
          Length = 479

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 31/142 (21%), Positives = 52/142 (36%), Gaps = 29/142 (20%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R+  G++ ++LG  +G+   Q+   E G      S LQ I+   E+ ++   
Sbjct: 10  LGHRIRHHRLARGLTLDELGALVGVAGSQLSLIENGKREPKLSLLQEIARATETEVTELL 69

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY----FIQ---IDDVKVRQ--------KI 119
              P                      ++L R     F Q   I  VKV +         +
Sbjct: 70  STEPPNRRAALE--------------IELERAQSSPFFQQLGIPPVKVTKGTTDETIEAV 115

Query: 120 IELVRSIVSSEKKYRTIEEECM 141
           + L R +   E++     EE  
Sbjct: 116 LGLHRELQRRERETIASPEEAR 137


>gi|296332860|ref|ZP_06875320.1| helix-turn-helix domain-containing protein [Bacillus subtilis
          subsp. spizizenii ATCC 6633]
 gi|305673206|ref|YP_003864878.1| helix-turn-helix domain-containing protein [Bacillus subtilis
          subsp. spizizenii str. W23]
 gi|296150140|gb|EFG91029.1| helix-turn-helix domain-containing protein [Bacillus subtilis
          subsp. spizizenii ATCC 6633]
 gi|305411450|gb|ADM36569.1| helix-turn-helix domain-containing protein [Bacillus subtilis
          subsp. spizizenii str. W23]
          Length = 261

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 31/71 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+++   R   G+SQE L E +  T Q + K+E G       +L  I  + E  I +
Sbjct: 1  MTFGEKLFKLRKEKGLSQEALAEKVNTTRQAISKWENGQGFPETEKLLMIGNIFEVSIDY 60

Query: 73 FFDVSPTVCSD 83
              S    +D
Sbjct: 61 LLKDSVEPRTD 71


>gi|260662799|ref|ZP_05863693.1| predicted protein [Lactobacillus fermentum 28-3-CHN]
 gi|260552880|gb|EEX25879.1| predicted protein [Lactobacillus fermentum 28-3-CHN]
          Length = 167

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 1/77 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  +I+  R+   +SQE+L E   ++ + +Q+ E G +      L  ++  L   +   F
Sbjct: 2  VNNKIKQLRLSKNLSQEQLAEKAKVSVRTIQRMEAG-DDASIETLNLVAGALGVSVKELF 60

Query: 75 DVSPTVCSDISSEENNV 91
          D SP   + I + E N+
Sbjct: 61 DDSPAQKNKIRNAEENL 77


>gi|254513703|ref|ZP_05125766.1| DNA-binding protein [Rhodobacteraceae bacterium KLH11]
 gi|221531933|gb|EEE34990.1| DNA-binding protein [Rhodobacteraceae bacterium KLH11]
          Length = 209

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 21/115 (18%), Positives = 47/115 (40%), Gaps = 19/115 (16%)

Query: 1   MVGN-KKIPNPV---------DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
           M  N  + P+ V         ++ +G+ +R  R    ++  +L +  G++   + K E G
Sbjct: 1   MAANLTQNPHSVRSGDREKVLEVAIGREVRAFRKQQNITVAELAQLTGLSIGMLSKIENG 60

Query: 51  VNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
                 + LQ +++ L  P++ FF         + ++           +G++L R
Sbjct: 61  NTSPSLTTLQSLADALSVPLTSFFRQFEERREAVHTKAG---------EGVELER 106


>gi|217978763|ref|YP_002362910.1| transcriptional regulator, XRE family [Methylocella silvestris
          BL2]
 gi|217504139|gb|ACK51548.1| transcriptional regulator, XRE family [Methylocella silvestris
          BL2]
          Length = 217

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR+ R  L ++  +L    G++   + K E G      S LQ ++  L  P+S FF
Sbjct: 36 IGAQIRMHRKRLDITGGELAAAAGLSTGMLSKIENGQISPSLSTLQSLARALNQPLSSFF 95


>gi|229541996|ref|ZP_04431056.1| transcriptional regulator, XRE family [Bacillus coagulans 36D1]
 gi|229326416|gb|EEN92091.1| transcriptional regulator, XRE family [Bacillus coagulans 36D1]
          Length = 189

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 38/77 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+I+  R+  G++QE+LGE   ++   + + E+ ++        +I EVL      
Sbjct: 10 MKIGKKIKNLRLKKGLTQEELGERTDLSKGYISQLERDLSSPSIDTFFNILEVLGCTPKE 69

Query: 73 FFDVSPTVCSDISSEEN 89
          FFD        +  EE+
Sbjct: 70 FFDEEEREQKVVYGEED 86


>gi|21221957|ref|NP_627736.1| DNA-binding protein [Streptomyces coelicolor A3(2)]
 gi|4678664|emb|CAB41077.1| putative DNA-binding protein [Streptomyces coelicolor A3(2)]
          Length = 390

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 35/71 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+   R + G ++++L   + +T   V +YE G  R    +++ ++E L  P +FF  
Sbjct: 19 GARLTQARRLAGWTKKELATKINVTPAAVGQYEAGAIRPRPEQVRRLAEALGMPSAFFTA 78

Query: 76 VSPTVCSDISS 86
            P    D ++
Sbjct: 79 GRPRAGLDTAA 89


>gi|302523093|ref|ZP_07275435.1| transcriptional regulator [Streptomyces sp. SPB78]
 gi|302431988|gb|EFL03804.1| transcriptional regulator [Streptomyces sp. SPB78]
          Length = 191

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 31/71 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+   R   G++   L    G++   V + E+G      + L  +++ L  P+  FF
Sbjct: 12 LGRRLSALRARAGLTISALAAAAGVSQGLVSQIERGAGNPSYTTLIKLADALRVPVGAFF 71

Query: 75 DVSPTVCSDIS 85
          D S       +
Sbjct: 72 DGSEDAWEPAA 82


>gi|318057227|ref|ZP_07975950.1| hypothetical protein SSA3_04771 [Streptomyces sp. SA3_actG]
 gi|318075235|ref|ZP_07982567.1| hypothetical protein SSA3_00560 [Streptomyces sp. SA3_actF]
          Length = 210

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 31/71 (43%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+   R   G++   L    G++   V + E+G      + L  +++ L  P+  FF
Sbjct: 31  LGRRLSALRARAGLTISALAAAAGVSQGLVSQIERGAGNPSYTTLIKLADALRVPVGAFF 90

Query: 75  DVSPTVCSDIS 85
           D S       +
Sbjct: 91  DGSEDAWEPAA 101


>gi|289434995|ref|YP_003464867.1| helix-turn-helix motif protein [Listeria seeligeri serovar 1/2b
           str. SLCC3954]
 gi|289171239|emb|CBH27781.1| helix-turn-helix motif protein [Listeria seeligeri serovar 1/2b
           str. SLCC3954]
          Length = 115

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/103 (22%), Positives = 49/103 (47%), Gaps = 7/103 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
           +  G+RI+ RR  LG + + L E LG++   + +YE G + ++  + L  +S +L++  +
Sbjct: 1   MQTGERIKKRRKELGYNADYLAEELGVSRSTIFRYENGEIEKLPITILDSLSNILKTTPA 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +           +   EN     +S  + + L   + +I D +
Sbjct: 61  YLMGWVDDGAEHLEDSEN-----LSNDE-INLITNYRKISDRQ 97


>gi|288906392|ref|YP_003431614.1| transcriptional regulator [Streptococcus gallolyticus UCN34]
 gi|306832439|ref|ZP_07465592.1| XRE family transcriptional regulator [Streptococcus gallolyticus
          subsp. gallolyticus TX20005]
 gi|325979406|ref|YP_004289122.1| HTH-type transcriptional regulator rdgA [Streptococcus
          gallolyticus subsp. gallolyticus ATCC BAA-2069]
 gi|288733118|emb|CBI14699.1| putative transcriptional regulator [Streptococcus gallolyticus
          UCN34]
 gi|304425479|gb|EFM28598.1| XRE family transcriptional regulator [Streptococcus gallolyticus
          subsp. gallolyticus TX20005]
 gi|325179334|emb|CBZ49378.1| HTH-type transcriptional regulator rdgA [Streptococcus
          gallolyticus subsp. gallolyticus ATCC BAA-2069]
          Length = 166

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 32/61 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G++++  R    +SQEKL E + ++ Q + K+E+G        +  +S+  + PI +
Sbjct: 1  MEFGEKLKQLRKANHLSQEKLSERIHVSRQAISKWEQGSAIPDTDNIVLLSKFFQVPIEY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|37524551|ref|NP_927895.1| hypothetical protein plu0545 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|37525105|ref|NP_928449.1| hypothetical protein plu1137 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|37525114|ref|NP_928458.1| hypothetical protein plu1146 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36783975|emb|CAE12840.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36784531|emb|CAE13431.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36784540|emb|CAE13440.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 111

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 34/68 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RI   R   G++Q +L + L ++ Q VQ +E G  R+  S L  I+++L   +  
Sbjct: 2  MTLGQRISALRKHAGLTQAQLAQALNVSQQAVQSWEAGRRRIQISVLPEIAKLLSVSLEE 61

Query: 73 FFDVSPTV 80
           F      
Sbjct: 62 LFGEESDT 69


>gi|332798977|ref|YP_004460476.1| helix-turn-helix domain-containing protein [Tepidanaerobacter sp.
           Re1]
 gi|332696712|gb|AEE91169.1| helix-turn-helix domain protein [Tepidanaerobacter sp. Re1]
          Length = 131

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 30/130 (23%), Positives = 52/130 (40%), Gaps = 7/130 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RIR  R   G+SQ +L + L I+   +  YE G      +  Q +++    P+ +   VS
Sbjct: 5   RIRKLRNDKGLSQRELAKMLKISPSTIAMYELGKREPDIAMFQRLADFFNVPVEYVMGVS 64

Query: 78  PTV----CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
                    D    +  + +FI     ++L        D K +  ++  +R+     K+ 
Sbjct: 65  DEPKPWWEKDEEPTDIELEEFIKNNSNIKLM---GDPLDEKAKDDVLMFLRAAHQMIKEK 121

Query: 134 RTIEEECMVE 143
           R  EEE   E
Sbjct: 122 RKAEEEVGKE 131


>gi|319938810|ref|ZP_08013174.1| cro/CI family Transcriptional regulator [Streptococcus anginosus
          1_2_62CV]
 gi|319811860|gb|EFW08126.1| cro/CI family Transcriptional regulator [Streptococcus anginosus
          1_2_62CV]
          Length = 189

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 33/74 (44%), Gaps = 2/74 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--F 74
           R+++ R   G++Q  L + L     Q  KYE G   +     + ++E     I +    
Sbjct: 3  NRLKVLRKEKGLTQADLAKVLNTNQSQYGKYENGKTNLSIENAKILAEYFGVSIPYLLGL 62

Query: 75 DVSPTVCSDISSEE 88
          D +P + +  S++E
Sbjct: 63 DDNPVLVNPGSAKE 76


>gi|310287452|ref|YP_003938710.1| helix-turn-helix motif [Bifidobacterium bifidum S17]
 gi|311064368|ref|YP_003971093.1| hypothetical protein BBPR_0984 [Bifidobacterium bifidum PRL2010]
 gi|309251388|gb|ADO53136.1| Conserved hypothetical protein with helix-turn-helix motif
          [Bifidobacterium bifidum S17]
 gi|310866687|gb|ADP36056.1| Conserved hypothetical protein with helix-turn-helix motif
          [Bifidobacterium bifidum PRL2010]
          Length = 161

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 34/66 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ I++ R   G++Q +    L +T Q + ++EKG        ++ IS   E P++ 
Sbjct: 1  MSIGQVIKVVREERGLTQSQFAHELFVTQQALSRWEKGTAEPSIDMIRLISTRFEVPMAR 60

Query: 73 FFDVSP 78
            ++  
Sbjct: 61 LMEMPD 66


>gi|291548443|emb|CBL21551.1| Predicted transcriptional regulators [Ruminococcus sp. SR1/5]
          Length = 345

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 39/90 (43%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G  I+  R   G +QE++   LG+T   V K+E G +      L  I+ +L   +  
Sbjct: 1   MNIGNVIKKYRKESGFTQEEMANRLGVTTPAVNKWETGNSNPDIELLAPIARLLHISLDT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
                  +     +E    MD + + +G +
Sbjct: 61  LLSFHENLTDVEITELIQEMDKMFSAEGYE 90


>gi|218528591|ref|YP_002419407.1| XRE family transcriptional regulator [Methylobacterium
           chloromethanicum CM4]
 gi|218520894|gb|ACK81479.1| transcriptional regulator, XRE family [Methylobacterium
           chloromethanicum CM4]
          Length = 198

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 35/93 (37%), Gaps = 2/93 (2%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P++  +G +IR  R    +S   L     ++   + K E G      + +  I+  L  P
Sbjct: 15  PLEKALGHQIRRLRRERDLSLSDLSSAADVSQSMISKIEHGAISPSLASINAIASALNVP 74

Query: 70  ISFFFDVSPTV--CSDISSEENNVMDFISTPDG 100
           I+  F        CS +   +   ++   T  G
Sbjct: 75  ITALFAAFEETRDCSHVKHGQGVPIERHGTKSG 107


>gi|16802162|ref|NP_463647.1| hypothetical protein lmo0114 [Listeria monocytogenes EGD-e]
 gi|46906354|ref|YP_012743.1| repressor protein [Listeria monocytogenes serotype 4b str. F2365]
 gi|47092250|ref|ZP_00230042.1| repressor protein, putative [Listeria monocytogenes str. 4b H7858]
 gi|47095185|ref|ZP_00232797.1| repressor protein, putative [Listeria monocytogenes str. 1/2a
           F6854]
 gi|116871527|ref|YP_848308.1| bacteriophage-type repressor, putative [Listeria welshimeri serovar
           6b str. SLCC5334]
 gi|217965783|ref|YP_002351461.1| helix-turn-helix domain protein [Listeria monocytogenes HCC23]
 gi|224498185|ref|ZP_03666534.1| helix-turn-helix domain protein [Listeria monocytogenes Finland
           1988]
 gi|224502962|ref|ZP_03671269.1| helix-turn-helix domain protein [Listeria monocytogenes FSL R2-561]
 gi|226222753|ref|YP_002756860.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
           monocytogenes Clip81459]
 gi|254827546|ref|ZP_05232233.1| conserved hypothetical protein [Listeria monocytogenes FSL N3-165]
 gi|254832362|ref|ZP_05237017.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
           monocytogenes 10403S]
 gi|254899558|ref|ZP_05259482.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
           monocytogenes J0161]
 gi|254913239|ref|ZP_05263251.1| conserved hypothetical protein [Listeria monocytogenes J2818]
 gi|254937620|ref|ZP_05269317.1| conserved hypothetical protein [Listeria monocytogenes F6900]
 gi|254991791|ref|ZP_05273981.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
           monocytogenes FSL J2-064]
 gi|255016940|ref|ZP_05289066.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
           monocytogenes FSL F2-515]
 gi|255022366|ref|ZP_05294352.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
           monocytogenes FSL J1-208]
 gi|255025309|ref|ZP_05297295.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
           monocytogenes FSL J2-003]
 gi|255028080|ref|ZP_05300031.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
           monocytogenes LO28]
 gi|255519835|ref|ZP_05387072.1| repressor C1 from lactococcal bacteriophage Tuc2009 [Listeria
           monocytogenes FSL J1-175]
 gi|284803147|ref|YP_003415012.1| hypothetical protein LM5578_2904 [Listeria monocytogenes 08-5578]
 gi|284996288|ref|YP_003418056.1| hypothetical protein LM5923_2853 [Listeria monocytogenes 08-5923]
 gi|12054764|emb|CAC20620.1| AX protein [Listeria monocytogenes]
 gi|16409473|emb|CAC98329.1| lmo0114 [Listeria monocytogenes EGD-e]
 gi|46879618|gb|AAT02920.1| putative prophage LambdaLm01, repressor protein [Listeria
           monocytogenes serotype 4b str. F2365]
 gi|47016530|gb|EAL07451.1| repressor protein, putative [Listeria monocytogenes str. 1/2a
           F6854]
 gi|47019452|gb|EAL10193.1| repressor protein, putative [Listeria monocytogenes str. 4b H7858]
 gi|116740405|emb|CAK19525.1| bacteriophage-type repressor, putative [Listeria welshimeri serovar
           6b str. SLCC5334]
 gi|217335053|gb|ACK40847.1| helix-turn-helix domain protein [Listeria monocytogenes HCC23]
 gi|225875215|emb|CAS03909.1| Putative repressor C1 from lactococcal bacteriophage Tuc2009
           [Listeria monocytogenes serotype 4b str. CLIP 80459]
 gi|258599922|gb|EEW13247.1| conserved hypothetical protein [Listeria monocytogenes FSL N3-165]
 gi|258610220|gb|EEW22828.1| conserved hypothetical protein [Listeria monocytogenes F6900]
 gi|284058709|gb|ADB69650.1| hypothetical protein LM5578_2904 [Listeria monocytogenes 08-5578]
 gi|284061755|gb|ADB72694.1| hypothetical protein LM5923_2853 [Listeria monocytogenes 08-5923]
 gi|293591239|gb|EFF99573.1| conserved hypothetical protein [Listeria monocytogenes J2818]
 gi|307569672|emb|CAR82851.1| repressor protein, putative [Listeria monocytogenes L99]
 gi|313611579|gb|EFR86184.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
           monocytogenes FSL F2-208]
 gi|328468450|gb|EGF39456.1| hypothetical protein LM1816_04172 [Listeria monocytogenes 1816]
 gi|328472713|gb|EGF43568.1| hypothetical protein LM220_04442 [Listeria monocytogenes 220]
 gi|332310528|gb|EGJ23623.1| Bacteriophage-type repressor [Listeria monocytogenes str. Scott A]
          Length = 111

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 44/98 (44%), Gaps = 2/98 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +
Sbjct: 3   LNKFVGNKIKQYREERGLNQEALAEKLHTTRQTISRYENGDRKANQDVLFELAKIFNKRL 62

Query: 71  SFFFDV--SPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             FF     P V   + +   ++ D ++  +   +  Y
Sbjct: 63  DDFFPERNLPPVDERLVTIAAHIDDDVTEEEMRDILAY 100


>gi|257084636|ref|ZP_05578997.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          Fly1]
 gi|256992666|gb|EEU79968.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          Fly1]
          Length = 246

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 44/80 (55%), Gaps = 2/80 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRL 59
          M   + IPN  +I  G RI++ R  L ++ ++  + +G++    V ++EKG ++   + +
Sbjct: 1  MNEKENIPNS-NIEFGNRIKVVRTDLNLTMDEFAKRIGVSGKSTVNEWEKGRSKPNKNAM 59

Query: 60 QHISEVLESPISFFFDVSPT 79
          + ISE+   P+ +F+   P 
Sbjct: 60 KKISEISNVPLEWFYFGDPE 79


>gi|83954282|ref|ZP_00963002.1| transcriptional regulator, putative [Sulfitobacter sp. NAS-14.1]
 gi|83841319|gb|EAP80489.1| transcriptional regulator, putative [Sulfitobacter sp. NAS-14.1]
          Length = 431

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 36/89 (40%), Gaps = 1/89 (1%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D   G RIR RR++ G  Q  L + +GI+   +   E    R+G   L +I+  L    +
Sbjct: 4   DALTGSRIRERRVMAGQKQADLAKRIGISASYLNLIEHNRRRIGGKLLLNIAAALGVEPT 63

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDG 100
              + +         E  +    +S P+ 
Sbjct: 64  ALTEGAEAALIATLREAADDAR-LSGPEA 91


>gi|226323100|ref|ZP_03798618.1| hypothetical protein COPCOM_00872 [Coprococcus comes ATCC 27758]
 gi|225208290|gb|EEG90644.1| hypothetical protein COPCOM_00872 [Coprococcus comes ATCC 27758]
          Length = 316

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 39/78 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GK I  +R  LG++Q++L E L ++ + V K+E+G+     S    +  +L   I+ 
Sbjct: 4  IKIGKYIAEKRKALGLTQKQLAEKLNMSDKSVSKWERGICLPDVSIYMELCSILRISINE 63

Query: 73 FFDVSPTVCSDISSEENN 90
          F         ++  + ++
Sbjct: 64 FLAGEDIGAENVIEKSDS 81


>gi|310828173|ref|YP_003960530.1| transcription regulator [Eubacterium limosum KIST612]
 gi|308739907|gb|ADO37567.1| transcription regulator [Eubacterium limosum KIST612]
          Length = 99

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 29/67 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G ++R  R   G +Q++L + LGIT   V  YE          L+ I+  L +   F
Sbjct: 2  VYFGSKLRQLRQEKGYTQQQLADKLGITKGSVSAYETSAKYPSVDVLRKIAVTLNTSTDF 61

Query: 73 FFDVSPT 79
             +S  
Sbjct: 62 LLGLSDE 68


>gi|257440049|ref|ZP_05615804.1| SOS-response transcriptional repressor [Faecalibacterium
          prausnitzii A2-165]
 gi|257197401|gb|EEU95685.1| SOS-response transcriptional repressor [Faecalibacterium
          prausnitzii A2-165]
          Length = 209

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 32/69 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R    MSQ +L   LG+T Q V K+E G +    + +  ++E+L++   +   +  
Sbjct: 7  LRQCRKQKHMSQAELASLLGVTQQAVGKWESGKSSPDPTTVAKLAEILDTTADYLLGLFD 66

Query: 79 TVCSDISSE 87
                + E
Sbjct: 67 PTAEGQTEE 75


>gi|227894470|ref|ZP_04012275.1| helix-turn-helix motif protein [Lactobacillus ultunensis DSM 16047]
 gi|227863629|gb|EEJ71050.1| helix-turn-helix motif protein [Lactobacillus ultunensis DSM 16047]
          Length = 325

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 26/117 (22%), Positives = 52/117 (44%), Gaps = 12/117 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++I   R    +SQE L E + ++ Q V K+E   +     ++ ++SE       +
Sbjct: 1   MRLGQKIADLRKKNNLSQEDLAEEMNVSRQAVSKWESDQSIPDIEKIVNLSEFFGVTTDY 60

Query: 73  FF-DVSPTVC---SDISSEENNVMDFISTPDGLQLNR--YFIQIDDVKVRQKIIELV 123
              + +P+      DI++EE   +  +S      L +   F    + K+R  +  LV
Sbjct: 61  LLKNGTPSFEFKSEDIATEEKMPV--LSD----DLVQKYLFAVKRNSKLRALVAALV 111


>gi|218781614|ref|YP_002432932.1| XRE family transcriptional regulator [Desulfatibacillum
          alkenivorans AK-01]
 gi|218762998|gb|ACL05464.1| transcriptional regulator, XRE family [Desulfatibacillum
          alkenivorans AK-01]
          Length = 184

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 31/75 (41%), Gaps = 3/75 (4%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   KK  N   I+ G+RI   R    M  E L    G+    ++K E G N      L 
Sbjct: 1  MPPKKKAKN---ISTGQRIHDLRKDKDMDLETLANETGLAVDTLEKIESGENMPSVGSLL 57

Query: 61 HISEVLESPISFFFD 75
           I+  LE   +FF +
Sbjct: 58 QIARALEVDSAFFLE 72


>gi|288554829|ref|YP_003426764.1| hypothetical protein BpOF4_09080 [Bacillus pseudofirmus OF4]
 gi|288545989|gb|ADC49872.1| hypothetical protein BpOF4_09080 [Bacillus pseudofirmus OF4]
          Length = 290

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 31/123 (25%), Positives = 53/123 (43%), Gaps = 20/123 (16%)

Query: 11  VDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +DI+ +GK I+  R + G++Q  L E +  T  Q+   E G     ++ L  IS  L   
Sbjct: 1   MDIHTIGKNIKFYRTLKGLTQNDLAEGI-CTQAQISNIEAGKFIPLSTTLFEISRRLGVD 59

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           ++ FF  +     D       + DFI       +NR +         +++ EL   I++ 
Sbjct: 60  MTHFFHEASNPRYD------YIQDFIQDVRKQTVNRNY---------KEVYEL---ILAE 101

Query: 130 EKK 132
           EK 
Sbjct: 102 EKN 104


>gi|315031865|gb|EFT43797.1| helix-turn-helix protein [Enterococcus faecalis TX0017]
 gi|315171137|gb|EFU15154.1| helix-turn-helix protein [Enterococcus faecalis TX1342]
          Length = 184

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 33/75 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G++IR  RM   +SQ +L   L ++ Q +  +E G  R     L  IS   + P+  
Sbjct: 18 MNTGEKIRKYRMEKNLSQVELSSILLVSRQTISNWENGRTRPEMENLVLISNFFDVPLEV 77

Query: 73 FFDVSPTVCSDISSE 87
          F     +      +E
Sbjct: 78 FLSEDISEIKKQHTE 92


>gi|291526868|emb|CBK92454.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
          Length = 190

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 38/83 (45%), Gaps = 1/83 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++  R  +G++QE+  E L ++ + + ++E G N    S L +I+E+    I    
Sbjct: 6  IGSFLKELRKEMGITQEEFAEKLDVSSRTISRWETGANMPDISLLVNIAEIFNVSIPEII 65

Query: 75 DVSPTVCSDISSEENNVMDFIST 97
          +        +  E   V + +S 
Sbjct: 66 NGE-RKSEIMEKEAKKVAEAMSD 87


>gi|256544850|ref|ZP_05472222.1| helix-turn-helix domain protein [Anaerococcus vaginalis ATCC
          51170]
 gi|256399739|gb|EEU13344.1| helix-turn-helix domain protein [Anaerococcus vaginalis ATCC
          51170]
          Length = 78

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/63 (31%), Positives = 29/63 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI   R  LG+SQ +LG+ +GI+   + K E G           I+  L+  I   FD+
Sbjct: 3  NRIEKYRKPLGLSQHRLGKKVGISRTSINKIETGKTIPSLKTANDIANALDVCIYQIFDL 62

Query: 77 SPT 79
            T
Sbjct: 63 DGT 65


>gi|224024133|ref|ZP_03642499.1| hypothetical protein BACCOPRO_00855 [Bacteroides coprophilus DSM
          18228]
 gi|224017355|gb|EEF75367.1| hypothetical protein BACCOPRO_00855 [Bacteroides coprophilus DSM
          18228]
          Length = 192

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 37/82 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++ E+L E  G++ +Q++  E+ +N    + L  I+  L   +  F 
Sbjct: 7  IGEKIKALRTAQEITLEELAERTGLSKEQIESIEQNINIPSLAPLVKIARALGVRLGTFL 66

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
          D  P     +        D IS
Sbjct: 67 DDQPNENGPVVCRCGEADDTIS 88


>gi|153940644|ref|YP_001392517.1| putative transcriptional regulator [Clostridium botulinum F str.
           Langeland]
 gi|152936540|gb|ABS42038.1| putative transcriptional regulator [Clostridium botulinum F str.
           Langeland]
 gi|295320504|gb|ADG00882.1| putative transcriptional regulator [Clostridium botulinum F str.
           230613]
          Length = 121

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 37/89 (41%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G+R++  R    +SQ+ L + LG++   V   E G        +Q I+      I + 
Sbjct: 3   NLGERLKELRNEAKLSQKDLAKKLGLSSSTVGMIESGKREGNKETIQKIANFFGVSIDYL 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQ 102
           +       +   S  +N +D +     +Q
Sbjct: 63  YGNDVEEITKTESLIDNFLDRLIQEGIIQ 91


>gi|76787968|ref|YP_330681.1| prophage Sa05, DNA-binding protein [Streptococcus agalactiae
          A909]
 gi|77406878|ref|ZP_00783904.1| Helix-turn-helix domain protein [Streptococcus agalactiae H36B]
 gi|76563025|gb|ABA45609.1| prophage Sa05, DNA-binding protein [Streptococcus agalactiae
          A909]
 gi|77174510|gb|EAO77353.1| Helix-turn-helix domain protein [Streptococcus agalactiae H36B]
          Length = 204

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 10/68 (14%), Positives = 31/68 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    ++QE+L   +G++   + ++E G  ++   + + +++     + +    
Sbjct: 2  NRLKELRKEKKLTQEELAGEIGVSKITILRWENGERQIKPDKAKELAKYFNVSVGYLLGY 61

Query: 77 SPTVCSDI 84
          +P    D 
Sbjct: 62 APNKKIDF 69


>gi|327459012|gb|EGF05360.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1057]
          Length = 205

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R   G+SQE L + LG++ Q V K+E   +     ++  +S+  E    +
Sbjct: 1  MNLSDRIQYLRKARGISQEGLADQLGVSRQAVSKWESEQSMPDLDKIISMSDYFEVTTDY 60

Query: 73 FFDVSPTVCS 82
                 V  
Sbjct: 61 LLKGIEPVVQ 70


>gi|153011903|ref|YP_001373116.1| helix-turn-helix domain-containing protein [Ochrobactrum anthropi
           ATCC 49188]
 gi|151563791|gb|ABS17287.1| helix-turn-helix domain protein [Ochrobactrum anthropi ATCC 49188]
          Length = 176

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 28/106 (26%), Positives = 53/106 (50%), Gaps = 4/106 (3%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G   +   ++  +  +IR  R I  M +  L   LG+  Q + +YEK  +++  +RL H+
Sbjct: 42  GPMALTGEIEELISSQIRELREIREMPRTVLAPLLGLHHQVLSRYEKATSKLTVARLIHL 101

Query: 63  SEVLES-PISFFFDVSPTVCSDISSEEN---NVMDFISTPDGLQLN 104
            EVL++ P+   + V+P +  + + E     ++ D + T D L L 
Sbjct: 102 CEVLDTSPMELLYPVAPHLFGETAQEAEMTKSIYDKLRTLDALTLA 147


>gi|295107201|emb|CBL04744.1| Predicted transcriptional regulators [Gordonibacter pamelaeae
          7-10-1-b]
          Length = 148

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 30/62 (48%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            R   G++QE+L + L IT Q V ++E G    G    + I+  L+ PI+   ++    
Sbjct: 9  ELRRERGLTQEQLAKRLYITRQAVSRWETGETTPGIDMTKLIARELDVPITELLEMPDHY 68

Query: 81 CS 82
          C 
Sbjct: 69 CQ 70


>gi|229815069|ref|ZP_04445406.1| hypothetical protein COLINT_02111 [Collinsella intestinalis DSM
          13280]
 gi|229809299|gb|EEP45064.1| hypothetical protein COLINT_02111 [Collinsella intestinalis DSM
          13280]
          Length = 206

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 35/85 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  I+  R  LG+SQ+ L E + ++ Q +  +E G        L  +S V    +  
Sbjct: 1  MELGSHIKEHRTELGLSQDDLAERIYVSRQTISNWECGRTYPDVQSLLLLSNVFGVTVDS 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
                   + + +E     + +ST
Sbjct: 61 LIKGDVETMAQVMNEAVKKYNALST 85


>gi|296453887|ref|YP_003661030.1| hypothetical protein BLJ_0729 [Bifidobacterium longum subsp.
          longum JDM301]
 gi|296183318|gb|ADH00200.1| hypothetical protein BLJ_0729 [Bifidobacterium longum subsp.
          longum JDM301]
          Length = 161

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 34/66 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ I++ R   G++Q +    L +T Q + ++EKG        ++ IS   E P++ 
Sbjct: 1  MSIGQVIKVVREERGLTQSQFAHELFVTQQALSRWEKGTAEPSIDMIRLISTRFEVPMAK 60

Query: 73 FFDVSP 78
            ++  
Sbjct: 61 LMEMPD 66


>gi|295103878|emb|CBL01422.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Faecalibacterium prausnitzii SL3/3]
          Length = 210

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 37/79 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G+SQ +L   LG+T Q V K+E G +    S +  I+E+L +   +   +  
Sbjct: 7  LKQCRKKQGVSQAELASRLGVTQQAVGKWESGKSSPDPSTVARIAELLNTTADYLLGLYR 66

Query: 79 TVCSDISSEENNVMDFIST 97
           V +  + EE     +  +
Sbjct: 67 PVSNVSAPEERFFGSYTES 85


>gi|227544982|ref|ZP_03975031.1| transcriptional regulator [Lactobacillus reuteri CF48-3A]
 gi|227185043|gb|EEI65114.1| transcriptional regulator [Lactobacillus reuteri CF48-3A]
          Length = 247

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/119 (16%), Positives = 43/119 (36%), Gaps = 17/119 (14%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  NKK P+        RI   R   G++ +++ + +G+    + +YE G         Q
Sbjct: 14  MSENKK-PH-------NRIAELRKEKGLTLQQVADAIGVGNNTISRYETGKREPKLETWQ 65

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTP--DGLQLNRY---FIQIDDVK 114
            ++   +  + +           I   +N V+  I     +  +L      +++    K
Sbjct: 66  KLANYFDVTVYYL----QGYGLSIDQAKNKVISIIHNAYFEDTELTSAVDSYLRTISPK 120


>gi|327459409|gb|EGF05755.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1]
          Length = 205

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 33/70 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R   G+SQE L + LG++ Q V K+E   +     ++  +S+  E    +
Sbjct: 1  MNLSDRIQYLRKARGISQEGLADQLGVSRQAVSKWESEQSMPDLDKIISMSDYFEVTTDY 60

Query: 73 FFDVSPTVCS 82
                +V  
Sbjct: 61 LLKGIESVVQ 70


>gi|313625620|gb|EFR95300.1| toxin-antitoxin system, antitoxin component, Xre family [Listeria
          innocua FSL J1-023]
          Length = 111

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 32/64 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  VG +I+  R   G++QE L E L  T Q + +YE G  +     L  ++++    +
Sbjct: 3  LNKFVGNKIKQYREERGLNQEALAEKLHTTRQTISRYENGDRKANQDVLFELAKIFNKRL 62

Query: 71 SFFF 74
            FF
Sbjct: 63 DDFF 66


>gi|220927095|ref|YP_002502397.1| XRE family transcriptional regulator [Methylobacterium nodulans ORS
           2060]
 gi|219951702|gb|ACL62094.1| XRE family transcriptional regulator [Methylobacterium nodulans ORS
           2060]
          Length = 84

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 26/82 (31%), Positives = 43/82 (52%), Gaps = 8/82 (9%)

Query: 47  YEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           YEKG+NRVGA RLQ I+++LE P+S  +       SD       V+  ++TP   +L + 
Sbjct: 7   YEKGLNRVGAGRLQAIADLLEVPVSTLYGGDGHAGSD-------VVALLNTPHAAELLQL 59

Query: 107 FIQIDDVKVRQKIIELVRSIVS 128
           F  +     R  ++ + R ++ 
Sbjct: 60  FDAMP-ATYRGSLLTIARGLLG 80


>gi|229542977|ref|ZP_04432037.1| transcriptional regulator, XRE family [Bacillus coagulans 36D1]
 gi|229327397|gb|EEN93072.1| transcriptional regulator, XRE family [Bacillus coagulans 36D1]
          Length = 139

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 24/98 (24%), Positives = 47/98 (47%), Gaps = 5/98 (5%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           GN+ + N V      R++  R   G SQ +L + +G++ + +  YE G +      L  I
Sbjct: 5   GNENMDN-VKAIFAARLKKVRAAQGYSQPELAKRVGVSDRNISNYETGYSFPSIKVLYRI 63

Query: 63  SEVLESPISFFFDVSPTVC----SDISSEENNVMDFIS 96
           S+VL+  I +   ++  V       +S+ E  +++ +S
Sbjct: 64  SQVLKVSIDYLLGLTNHVGLKTNEAVSNPEKKLLETLS 101


>gi|319757788|gb|ADV69730.1| phage repressor protein [Streptococcus suis JS14]
          Length = 229

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 31/58 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R++ +R+    +Q ++   LGI      K+E G +      L  I+++L+ P+++F
Sbjct: 4  GIRLKEKRIERKFNQSEIAYKLGINRASYSKWESGKSIPNQKNLSAIAKILDVPVTYF 61


>gi|160942797|ref|ZP_02090038.1| hypothetical protein FAEPRAM212_00274 [Faecalibacterium
          prausnitzii M21/2]
 gi|158445962|gb|EDP22965.1| hypothetical protein FAEPRAM212_00274 [Faecalibacterium
          prausnitzii M21/2]
          Length = 210

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 37/79 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G+SQ +L   LG+T Q V K+E G +    S +  I+E+L +   +   +  
Sbjct: 7  LKQCRKKQGVSQAELASRLGVTQQAVGKWESGKSSPDPSTVARIAELLNTTADYLLGLYR 66

Query: 79 TVCSDISSEENNVMDFIST 97
           V +  + EE     +  +
Sbjct: 67 PVSNVSAPEERFFGSYTES 85


>gi|330863911|emb|CBX74000.1| uncharacterized HTH-type transcriptional regulator ydcN [Yersinia
          enterocolitica W22703]
          Length = 206

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 31/72 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G +++  R   G S  +  E  G++   + + E+G +    + L  I+  L    S 
Sbjct: 24 RHIGNQLKNVRRERGWSLNQTAEQTGVSKAMLGQIERGESSPTVATLWKIASGLNVSFSQ 83

Query: 73 FFDVSPTVCSDI 84
          F +  P   + +
Sbjct: 84 FLETPPAQSAAL 95


>gi|332161859|ref|YP_004298436.1| putative DNA-binding protein [Yersinia enterocolitica subsp.
          palearctica 105.5R(r)]
 gi|325666089|gb|ADZ42733.1| putative DNA-binding protein [Yersinia enterocolitica subsp.
          palearctica 105.5R(r)]
          Length = 188

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 31/72 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G +++  R   G S  +  E  G++   + + E+G +    + L  I+  L    S 
Sbjct: 6  RHIGNQLKNVRRERGWSLNQTAEQTGVSKAMLGQIERGESSPTVATLWKIASGLNVSFSQ 65

Query: 73 FFDVSPTVCSDI 84
          F +  P   + +
Sbjct: 66 FLETPPAQSAAL 77


>gi|315037973|ref|YP_004031541.1| Cro/CI family transcriptional regulator [Lactobacillus amylovorus
           GRL 1112]
 gi|312276106|gb|ADQ58746.1| Cro/CI family transcriptional regulator [Lactobacillus amylovorus
           GRL 1112]
          Length = 147

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/108 (17%), Positives = 43/108 (39%), Gaps = 5/108 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RIR  R   G++Q +L   +G++ Q +  YE           Q +++ L   + +    
Sbjct: 2   NRIRQVRSEKGITQAELANAIGMSRQGLAYYENNQREPKLETWQKLADYLGVSVPYLQGF 61

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           S ++ +  S   N    F  + +  +      +I+D  +   +  + +
Sbjct: 62  SDSLANGASRNSNGFGFFNFSEEANE-----AKINDQSLIDMLYMIYK 104


>gi|325697585|gb|EGD39470.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK160]
          Length = 205

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R   G+SQE L E LG++ Q V K+E   +     ++  +S+  E    +
Sbjct: 1  MNLSDRIQYLRKARGISQEGLAEQLGVSRQAVSKWESEQSMPDLDKIISMSDYFEVTTDY 60

Query: 73 FFDVSPTVCS 82
                 V  
Sbjct: 61 LLKGIEPVVQ 70


>gi|240139328|ref|YP_002963803.1| putative transcriptional regulator, XRE family [Methylobacterium
          extorquens AM1]
 gi|240009300|gb|ACS40526.1| putative transcriptional regulator, XRE family [Methylobacterium
          extorquens AM1]
          Length = 198

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 29/65 (44%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P++  +G +IR+ R    +S   L    GI+   + K E G      + +  I+  L  P
Sbjct: 15 PLEKALGYQIRMLRRERDLSVGDLAAAAGISQGMISKIENGTISPSLASINAIASALNVP 74

Query: 70 ISFFF 74
          I+  F
Sbjct: 75 ITGLF 79


>gi|56419028|ref|YP_146346.1| transcriptional regulator [Geobacillus kaustophilus HTA426]
 gi|56378870|dbj|BAD74778.1| transcriptional regulator [Geobacillus kaustophilus HTA426]
          Length = 125

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 50/119 (42%), Gaps = 17/119 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  R    ++QE+LG+ + +T   +  YE G        LQ +++       +  
Sbjct: 7   LGDRLRKLRQEKKLTQEELGKKINVTKVSISGYENGNRTPDTETLQKLADFFNVTTDYL- 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPD-GL---QLNRYFIQIDDVKVRQ----KIIELVRS 125
                       +++++ + +  P+ GL   +L          + R+    KI E+++S
Sbjct: 66  --LGRTDHPNPPDQDDIPEELKDPELGLFFKELAEA------PEERREQLLKIWEILKS 116


>gi|15615472|ref|NP_243775.1| hypothetical protein BH2909 [Bacillus halodurans C-125]
 gi|10175531|dbj|BAB06628.1| BH2909 [Bacillus halodurans C-125]
          Length = 189

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 36/76 (47%), Gaps = 3/76 (3%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          NK++   +   +G+R++  R   GM+ ++L +  G++   + + E+G +    S L  I+
Sbjct: 2  NKEM---LSKRIGQRLKRIRSDRGMTLDQLAKKTGVSKPMLGQIERGESNPTVSTLWKIA 58

Query: 64 EVLESPISFFFDVSPT 79
            L    + F +    
Sbjct: 59 TGLHVSFTAFIEDEKP 74


>gi|83943125|ref|ZP_00955585.1| transcriptional regulator, putative [Sulfitobacter sp. EE-36]
 gi|83846133|gb|EAP84010.1| transcriptional regulator, putative [Sulfitobacter sp. EE-36]
          Length = 431

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 36/89 (40%), Gaps = 1/89 (1%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D   G RIR RR++ G  Q  L + +GI+   +   E    R+G   L +I+  L    +
Sbjct: 4   DALTGSRIRERRVMAGQKQADLAKRIGISASYLNLIEHNRRRIGGKLLLNIAAALGVEPT 63

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDG 100
              + +         E  +    +S P+ 
Sbjct: 64  ALTEGAEAALIATLREAADDAR-LSGPEA 91


>gi|289579057|ref|YP_003477684.1| XRE family transcriptional regulator [Thermoanaerobacter italicus
           Ab9]
 gi|289528770|gb|ADD03122.1| transcriptional regulator, XRE family [Thermoanaerobacter italicus
           Ab9]
          Length = 182

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 24/121 (19%), Positives = 52/121 (42%), Gaps = 10/121 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+++ R   G++ +++GE +G++     KYEK         L  I++  +  + F  
Sbjct: 2   IGDRLKMLRKEKGLTMKEIGEIIGVSDAAWTKYEKNRAEPSIESLIKIADYFQVSLDFLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
             +         E N   +F+   +       + +I D     ++  LV ++ +S +KY 
Sbjct: 62  GRTNIREPQFVEEANIQSEFLKEFE-------WSKIGDP---SQMYFLVENLSTSIRKYN 111

Query: 135 T 135
            
Sbjct: 112 E 112


>gi|254465943|ref|ZP_05079354.1| DNA-binding protein [Rhodobacterales bacterium Y4I]
 gi|206686851|gb|EDZ47333.1| DNA-binding protein [Rhodobacterales bacterium Y4I]
          Length = 218

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 35/83 (42%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R   G++   L    G++   + K E G      + LQ ++  L  PI
Sbjct: 30  LEVAIGREVRSFRRQQGITVADLANLTGLSIGMLSKIENGNTSPSLTTLQLLANALSVPI 89

Query: 71  SFFFDVSPTVCSDISSEENNVMD 93
           + FF         + ++     +
Sbjct: 90  TSFFRRFEETREAVHTKAGEGAE 112


>gi|159184228|ref|NP_353276.2| transcriptional regulator [Agrobacterium tumefaciens str. C58]
 gi|159139556|gb|AAK86061.2| transcriptional regulator [Agrobacterium tumefaciens str. C58]
          Length = 193

 Score = 62.9 bits (152), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/105 (21%), Positives = 46/105 (43%), Gaps = 5/105 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++ ++G+RI++ R   G++ E+L    G++   + + E+G     AS L  I   L   +
Sbjct: 9   LERSIGERIKVLRAESGLTLERLASESGVSRAMISRIERGEASPTASLLARICAALGLSL 68

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
           S FF  +    S +  + +        P+   + R    I   +V
Sbjct: 69  SGFFAENEEAVSPLVKKRD--QQLWKDPETGYVRRA---ISPPRV 108


>gi|257887265|ref|ZP_05666918.1| predicted protein [Enterococcus faecium 1,141,733]
 gi|257823319|gb|EEV50251.1| predicted protein [Enterococcus faecium 1,141,733]
          Length = 130

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/79 (24%), Positives = 38/79 (48%), Gaps = 1/79 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +  G++++  R+  G+   +L    G++  Q+ ++EKG  +      L+ +S  L   IS
Sbjct: 1  MEFGEKLKKLRISRGLGVNQLALKSGVSASQISRFEKGERKDPTLETLKKLSTALGVSIS 60

Query: 72 FFFDVSPTVCSDISSEENN 90
          +F + SP   + I    N 
Sbjct: 61 YFEENSPVNVNTIPEWANE 79


>gi|189439596|ref|YP_001954677.1| putative transcriptional regulator [Bifidobacterium longum
          DJO10A]
 gi|317481901|ref|ZP_07940928.1| helix-turn-helix protein [Bifidobacterium sp. 12_1_47BFAA]
 gi|189428031|gb|ACD98179.1| Hypothetical transcriptional regulator [Bifidobacterium longum
          DJO10A]
 gi|316916692|gb|EFV38087.1| helix-turn-helix protein [Bifidobacterium sp. 12_1_47BFAA]
          Length = 161

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 34/66 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ I++ R   G++Q +    L +T Q + ++EKG        ++ IS   E P++ 
Sbjct: 1  MSIGQVIKVVREERGLTQSQFAHELFVTQQALSRWEKGTAEPSIDMIRLISTRFEVPMAR 60

Query: 73 FFDVSP 78
            ++  
Sbjct: 61 LMEMPD 66


>gi|315222273|ref|ZP_07864179.1| helix-turn-helix protein [Streptococcus anginosus F0211]
 gi|315188606|gb|EFU22315.1| helix-turn-helix protein [Streptococcus anginosus F0211]
          Length = 290

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 25/108 (23%), Positives = 53/108 (49%), Gaps = 4/108 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESP 69
           + I +  R++ +R+ LG+SQ++L E  G+  Q Q+ + EKG    G+  L  +S+ +   
Sbjct: 1   MSILLATRLKSKRLELGLSQKELAE--GVCEQGQISRMEKGKYMPGSDLLYSLSKKMNVT 58

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID-DVKVR 116
           +++FFD S    +    +   +++           +Y   ++ D + R
Sbjct: 59  MNYFFDDSVLDETSKLVQFKELVESFLVKREYDSLKYLYSLEIDKQHR 106


>gi|311111417|ref|ZP_07712814.1| toxin-antitoxin system, antitoxin component, Xre family
          [Lactobacillus gasseri MV-22]
 gi|311111482|ref|ZP_07712879.1| toxin-antitoxin system, antitoxin component, Xre family
          [Lactobacillus gasseri MV-22]
 gi|311066571|gb|EFQ46911.1| toxin-antitoxin system, antitoxin component, Xre family
          [Lactobacillus gasseri MV-22]
 gi|311066636|gb|EFQ46976.1| toxin-antitoxin system, antitoxin component, Xre family
          [Lactobacillus gasseri MV-22]
          Length = 112

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 32/78 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R    +SQ +L + L ++ Q + K+E G     +  L  ++E  +    +  
Sbjct: 2  IGDRIRELRTSHRLSQTELSKLLHVSQQTITKWENGKAEPSSGALAKLAEYFDVSADYLL 61

Query: 75 DVSPTVCSDISSEENNVM 92
              T        E + +
Sbjct: 62 GSDKTSEPKSVDLEKDPV 79


>gi|261369061|ref|ZP_05981944.1| toxin-antitoxin system, antitoxin component, Xre family
           [Subdoligranulum variabile DSM 15176]
 gi|282568797|gb|EFB74332.1| toxin-antitoxin system, antitoxin component, Xre family
           [Subdoligranulum variabile DSM 15176]
          Length = 90

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 40/93 (43%), Gaps = 5/93 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I VGKR++  R  +G SQ K+ + LG T   + +YE G +       +  ++  +  + +
Sbjct: 2   IEVGKRLKALRESIGFSQVKMAQALGTTQSSINRYENGQSSPSVELFRRYADYFDVSLDY 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            F       +D    E       + P+  +L R
Sbjct: 62  IF-----ARTDKPQGETYHFKPKAAPEREELRR 89


>gi|257440458|ref|ZP_05616213.1| LexA repressor [Faecalibacterium prausnitzii A2-165]
 gi|257197080|gb|EEU95364.1| LexA repressor [Faecalibacterium prausnitzii A2-165]
          Length = 206

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 1/75 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +RI  RR+ LG+SQE+L + +G  +   + K EKGVN +  S+++  +  LE+  ++ 
Sbjct: 4  LSRRILQRRLELGLSQEELAQRMGYRSKSSITKLEKGVNDIPQSKVEEFAAALETTPAWL 63

Query: 74 FDVSPTVCSDISSEE 88
            +  T       E 
Sbjct: 64 MGLENTAFVPPGFEP 78


>gi|312875437|ref|ZP_07735441.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2053A-b]
 gi|315653809|ref|ZP_07906725.1| XRE family transcriptional regulator [Lactobacillus iners ATCC
          55195]
 gi|311089100|gb|EFQ47540.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2053A-b]
 gi|315488505|gb|EFU78151.1| XRE family transcriptional regulator [Lactobacillus iners ATCC
          55195]
          Length = 210

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 40/82 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R+   ++QE+L E + ++   V K+E G      + L+ I++ L   + +
Sbjct: 1  MLLGEKIRNARVEASLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKVIADALGVTVDY 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
            D    +   I  +  +V  +
Sbjct: 61 LLDKDNAIDLSIIKKPIDVAKY 82


>gi|282601309|ref|ZP_06257987.1| toxin-antitoxin system, antitoxin component, Xre family
           [Subdoligranulum variabile DSM 15176]
 gi|282569451|gb|EFB74986.1| toxin-antitoxin system, antitoxin component, Xre family
           [Subdoligranulum variabile DSM 15176]
          Length = 117

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 40/93 (43%), Gaps = 5/93 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I VG+R++  R  +G SQ K+ + LG T   + +YE G +       +  ++  +  + +
Sbjct: 2   IEVGRRLKALRESIGFSQVKMAQALGTTQSSINRYENGQSSPSVELFRRYADYFDVSLDY 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            F       +D    E       + P+  +L R
Sbjct: 62  IF-----ARTDKPQGETYHFKPKAAPEREELRR 89


>gi|281492863|ref|YP_003354843.1| phage Cro/CI transcriptional regulator [Lactococcus lactis subsp.
          lactis KF147]
 gi|281376515|gb|ADA66001.1| Phage protein, transcriptional regulator, Cro/CI family
          [Lactococcus lactis subsp. lactis KF147]
          Length = 203

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/58 (36%), Positives = 34/58 (58%), Gaps = 2/58 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPISFF 73
          +RI++ R   G+SQ++L + LG+T Q V  YEKG  R+    +   IS++L  P  + 
Sbjct: 2  ERIKIARQKKGISQKELADLLGLTQQAVSYYEKGS-RIPDEHILSVISDILNVPTEYL 58


>gi|331702633|ref|YP_004399592.1| helix-turn-helix domain-containing protein [Lactobacillus
          buchneri NRRL B-30929]
 gi|329129976|gb|AEB74529.1| helix-turn-helix domain protein [Lactobacillus buchneri NRRL
          B-30929]
          Length = 110

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 32/66 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RI+  R  LG +Q++L E L ++ Q + K+E G       RL  +S++    +  
Sbjct: 1  MVLGQRIKEEREKLGWTQDRLAEELHVSRQAISKWEVGSAYPDIERLIQLSDLFGVSLDS 60

Query: 73 FFDVSP 78
                
Sbjct: 61 LIKGDE 66


>gi|307711152|ref|ZP_07647574.1| putative transcriptional regulator [Streptococcus mitis SK321]
 gi|307617114|gb|EFN96292.1| putative transcriptional regulator [Streptococcus mitis SK321]
          Length = 149

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 11/83 (13%), Positives = 38/83 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    +SQ++L E +G+ ++ +Q +E G +++   + + +++     + +  + 
Sbjct: 2  NRLKELRQEKKLSQKELAENIGVHYRTLQNWENGESQIKPEKAKQLADYFGVSVGYLLNY 61

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
          + +             ++ S  +
Sbjct: 62 TNSKKDPFDGYIPTPREYRSWQE 84


>gi|307319507|ref|ZP_07598934.1| putative phage repressor [Sinorhizobium meliloti AK83]
 gi|306894879|gb|EFN25638.1| putative phage repressor [Sinorhizobium meliloti AK83]
          Length = 263

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 37/85 (43%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RIR RR  +G++Q++L +   I    V ++E  +      ++  ++++L     +  
Sbjct: 4  IGQRIRQRRKQIGITQQQLADAFDIKRVSVTQWEGDITAPDRDKIAKLADLLGCDPEWLL 63

Query: 75 --DVSPTVCSDISSEENNVMDFIST 97
               P    D+          +S+
Sbjct: 64 RGSGDPPRALDLGPGSRGSRAVVSS 88


>gi|257876621|ref|ZP_05656274.1| predicted protein [Enterococcus casseliflavus EC20]
 gi|257810787|gb|EEV39607.1| predicted protein [Enterococcus casseliflavus EC20]
          Length = 207

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 35/71 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + IR RR  LGM+QE+L + L ++   +  +E G N    + L  ++++ +  +   F  
Sbjct: 5  QMIRERRKQLGMTQEELAKELNVSRSAISNWEIGRNYPDITTLIELAQMYQVSLDELFYD 64

Query: 77 SPTVCSDISSE 87
             + +  + +
Sbjct: 65 DIDLVNKFAED 75


>gi|237802182|ref|ZP_04590643.1| transcriptional regulator, XRE family protein [Pseudomonas
          syringae pv. oryzae str. 1_6]
 gi|331025039|gb|EGI05095.1| transcriptional regulator, XRE family protein [Pseudomonas
          syringae pv. oryzae str. 1_6]
          Length = 160

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 33/87 (37%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   +    G R+R  R+  GMSQE   +   I    + + E+G        +Q ++E L
Sbjct: 1  MKTSLRKRFGLRVRELRIASGMSQEAFADHASIARSYMSRIERGGANPSLDAIQVLAEAL 60

Query: 67 ESPISFFFDVSPTVCSDISSEENNVMD 93
                 F++     S  + E     D
Sbjct: 61 GVDAGALFEIVEPATSYDAVEVPYAED 87


>gi|228920891|ref|ZP_04084230.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
 gi|228838822|gb|EEM84124.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
          Length = 126

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/104 (20%), Positives = 47/104 (45%), Gaps = 7/104 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R +  +SQ++L + LG+T  Q+ +YE+G        ++ I++  +    +  
Sbjct: 7   LGDRIRYLRELNNLSQKRLSDALGLTNTQLSRYERGERNPEPETIKLIADYFDVTTDYL- 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
                  ++I+    +  + +   +   L  +F  I D    ++
Sbjct: 66  ---HGRTNNINYTNPDFKNILDDAE---LGLWFKDIKDASPEKR 103


>gi|221065568|ref|ZP_03541673.1| transcriptional regulator, XRE family [Comamonas testosteroni
          KF-1]
 gi|220710591|gb|EED65959.1| transcriptional regulator, XRE family [Comamonas testosteroni
          KF-1]
          Length = 108

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 43/77 (55%), Gaps = 4/77 (5%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          D   G R++  R+  G+SQ+ LG   G    +   ++ +YE G+++     ++ ++EVL+
Sbjct: 5  DEQWGARLKQARLAAGLSQKMLGIEAGIDAFVASTRINRYELGIHKPDLLTVRKLAEVLK 64

Query: 68 SPISFFFDVSPTVCSDI 84
           P++FF+  +    +++
Sbjct: 65 VPVAFFYADTDDEIAEL 81


>gi|324990276|gb|EGC22214.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK353]
          Length = 205

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 33/70 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R   G+SQE L + LG++ Q V K+E   +     ++  +S+  E    +
Sbjct: 1  MNLSDRIQYLRKARGISQEGLADQLGVSRQAVSKWESEQSMPDLDKIISMSDYFEVTTDY 60

Query: 73 FFDVSPTVCS 82
                +V  
Sbjct: 61 LLKGIESVVQ 70


>gi|315150068|gb|EFT94084.1| helix-turn-helix protein [Enterococcus faecalis TX0012]
          Length = 183

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/112 (16%), Positives = 41/112 (36%), Gaps = 6/112 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3   INTIIGNNLKKIRQEKKLTLDELAGITGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           ++  +      + +  +   V  +          R F    D + R    EL
Sbjct: 63  TYLLEDDYVKENPVVKKTETVTQYSEDHS----YRVFNYYSDNQERN--FEL 108


>gi|229168347|ref|ZP_04296072.1| Helix-turn-helix domain protein [Bacillus cereus AH621]
 gi|228615173|gb|EEK72273.1| Helix-turn-helix domain protein [Bacillus cereus AH621]
          Length = 277

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/82 (25%), Positives = 33/82 (40%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  
Sbjct: 8  KKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGN 67

Query: 65 VLESPISFFFDVSPTVCSDISS 86
          V E  + +    +    ++   
Sbjct: 68 VFEVSLDYLLKETAEQINETEH 89


>gi|308235770|ref|ZP_07666507.1| DNA-binding protein [Gardnerella vaginalis ATCC 14018]
 gi|311114942|ref|YP_003986163.1| XRE family transcriptional regulator [Gardnerella vaginalis ATCC
          14019]
 gi|310946436|gb|ADP39140.1| XRE family transcriptional regulator [Gardnerella vaginalis ATCC
          14019]
          Length = 210

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 35/68 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R+  G++QE+L E + ++   V K+E G      + L+ I++ L   +  
Sbjct: 1  MLLGEKIRNARVEAGLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKVIADALGVTVDH 60

Query: 73 FFDVSPTV 80
            D    +
Sbjct: 61 LLDKDNAI 68


>gi|229172472|ref|ZP_04300031.1| Transcriptional regulator, MerR [Bacillus cereus MM3]
 gi|228610943|gb|EEK68206.1| Transcriptional regulator, MerR [Bacillus cereus MM3]
          Length = 181

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L    GIT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELATMAGITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|222529019|ref|YP_002572901.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
           DSM 6725]
 gi|222455866|gb|ACM60128.1| transcriptional regulator, XRE family [Caldicellulosiruptor bescii
           DSM 6725]
          Length = 321

 Score = 62.9 bits (152), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 31/75 (41%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R    ++Q +L E LGI    +  YE GV +     LQ I+        +   ++
Sbjct: 51  RLKELREEANLTQNELAEKLGIGRATLSNYELGVRKPDIDTLQKIANYFNVSSDYLLGMT 110

Query: 78  PTVCSDISSEENNVM 92
           P    D  +    ++
Sbjct: 111 PIKKRDSLNSIEEII 125


>gi|332654058|ref|ZP_08419802.1| DNA-binding protein [Ruminococcaceae bacterium D16]
 gi|332517144|gb|EGJ46749.1| DNA-binding protein [Ruminococcaceae bacterium D16]
          Length = 223

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + K IR  R   G++QE+L + L +T Q V  +E G  R     LQ I++ L   +
Sbjct: 7  IAKHIRSLRKRAGLTQEELAQRLYVTRQTVSLWELGKTRPDVETLQAIADCLGVDL 62


>gi|83310829|ref|YP_421093.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82945670|dbj|BAE50534.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 164

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 35/63 (55%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G ++R  R+   ++QE+L E +  T + +   E+G        L  I++ L++P++FF
Sbjct: 51  QIGLKVRAARLKRSLTQEQLAERVDKTAESISNIERGHVTPPLDTLARIAQELDTPMTFF 110

Query: 74  FDV 76
           F+ 
Sbjct: 111 FED 113


>gi|322830791|ref|YP_004210818.1| XRE family transcriptional regulator [Rahnella sp. Y9602]
 gi|321165992|gb|ADW71691.1| transcriptional regulator, XRE family [Rahnella sp. Y9602]
          Length = 188

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/95 (20%), Positives = 38/95 (40%), Gaps = 1/95 (1%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G +++  R   G S  +  E  G++   + + E+G +    + L  I+  L    S F
Sbjct: 7   HIGSQLKAVRSERGWSLSQTAEHTGVSKAMLGQIERGESSPTVATLWKIASGLNVSFSEF 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
            +  P   S        +  F S   G+++   F 
Sbjct: 67  LETPPAQ-SAALHRHGLLTTFNSDTSGMRVVPLFP 100


>gi|253755127|ref|YP_003028267.1| DNA-binding protein [Streptococcus suis BM407]
 gi|251817591|emb|CAZ55338.1| putative DNA-binding protein [Streptococcus suis BM407]
          Length = 230

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 32/58 (55%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GKR++ RR+ LG SQ +L + L I       +E    +   S L+ ++ +L+ P ++F
Sbjct: 4  GKRLKERRITLGYSQSELADKLHINRSSYFNWENEKTKPNQSNLKQLAILLDVPETYF 61


>gi|309807458|ref|ZP_07701419.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          01V1-a]
 gi|308169278|gb|EFO71335.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          01V1-a]
          Length = 210

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 40/82 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R+   ++QE+L E + ++   V K+E G      + L+ I++ L   + +
Sbjct: 1  MLLGEKIRNARVEASLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKVIADALGVTVDY 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
            D    +   I  +  +V  +
Sbjct: 61 LLDKDNAIDLSIIKKPIDVAKY 82


>gi|256618071|ref|ZP_05474917.1| predicted protein [Enterococcus faecalis ATCC 4200]
 gi|256597598|gb|EEU16774.1| predicted protein [Enterococcus faecalis ATCC 4200]
 gi|295114477|emb|CBL33114.1| Predicted transcriptional regulators [Enterococcus sp. 7L76]
          Length = 167

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 33/75 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G++IR  RM   +SQ +L   L ++ Q +  +E G  R     L  IS   + P+  
Sbjct: 1  MNTGEKIRKYRMEKNLSQVELSSILLVSRQTISNWENGRTRPEMENLVLISNFFDVPLEV 60

Query: 73 FFDVSPTVCSDISSE 87
          F     +      +E
Sbjct: 61 FLSEDISEIKKQHTE 75


>gi|257453722|ref|ZP_05619008.1| transcriptional regulator, XRE family [Enhydrobacter aerosaccus
          SK60]
 gi|257448905|gb|EEV23862.1| transcriptional regulator, XRE family [Enhydrobacter aerosaccus
          SK60]
          Length = 106

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 34/61 (55%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R +  R    ++QE+LG  +G    +   ++ +YEKG++      L  I+E+L+ P +FF
Sbjct: 10 RFKQARKAKKLTQEQLGIAIGLDEFVASTRINRYEKGIHLPDLQTLARIAEILDVPPAFF 69

Query: 74 F 74
          F
Sbjct: 70 F 70


>gi|238060409|ref|ZP_04605118.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
          39149]
 gi|237882220|gb|EEP71048.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
          39149]
          Length = 409

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/80 (33%), Positives = 38/80 (47%), Gaps = 1/80 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLESPISFF 73
          VG+RI   R    MSQ+ L + LG +   V K E+GV R+   S LQ I+ VL   + F 
Sbjct: 6  VGRRIAYWRTRRRMSQQALADTLGKSKSWVDKVERGVRRLDKLSNLQEIAGVLRIDVQFL 65

Query: 74 FDVSPTVCSDISSEENNVMD 93
              P      ++E   + D
Sbjct: 66 IGTEPASSGSGAAEGGPLSD 85


>gi|332798913|ref|YP_004460412.1| helix-turn-helix domain-containing protein [Tepidanaerobacter sp.
          Re1]
 gi|332696648|gb|AEE91105.1| helix-turn-helix domain protein [Tepidanaerobacter sp. Re1]
          Length = 184

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 32/69 (46%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + N+GK+++L R    ++  +L E  GIT   + + E G      + L+ IS  L  P+ 
Sbjct: 3  NANIGKKLQLYREQKKITMRELAEKAGITPSMLSQIENGQVNPSINTLKMISIALNVPMF 62

Query: 72 FFFDVSPTV 80
           FF      
Sbjct: 63 KFFITDDDT 71


>gi|257455479|ref|ZP_05620712.1| helix-turn-helix domain protein [Enhydrobacter aerosaccus SK60]
 gi|257447104|gb|EEV22114.1| helix-turn-helix domain protein [Enhydrobacter aerosaccus SK60]
          Length = 115

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/122 (18%), Positives = 51/122 (41%), Gaps = 16/122 (13%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
                +D  VG+ +   R+   M+Q ++ E LGI+   + + E+G   +   +L   +++
Sbjct: 2   NSKYDIDKVVGQSLARHRLACNMTQAQVAEALGISVDAISRMERGTISLNLPKLMQFAKL 61

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
            +  +S F   S  +  +       +M+ +                D+  R  +I+++ S
Sbjct: 62  FKCKLSDFVIESSPLIDEQLQYLAKIMEPL----------------DINQRNHLIKIIES 105

Query: 126 IV 127
           +V
Sbjct: 106 MV 107


>gi|253987942|ref|YP_003039298.1| transcription regulator [Photorhabdus asymbiotica subsp.
          asymbiotica ATCC 43949]
 gi|253779392|emb|CAQ82553.1| similar to transcription regulator and to restriction enzyme
          contro elements [Photorhabdus asymbiotica]
          Length = 78

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 35/77 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN +    G+R+R  R   GMSQE   +  GI    +   E+G+       +  I+  
Sbjct: 2  KKPNAIKSLFGQRVRHLRQSSGMSQEAFADKCGIDRTYISGIERGIRNPTLEVINIIASG 61

Query: 66 LESPISFFFDVSPTVCS 82
          L+  ++  FD S  + +
Sbjct: 62 LQIELTDLFDFSTELKN 78


>gi|116628413|ref|YP_821032.1| XRE family transcriptional regulator [Streptococcus thermophilus
          LMD-9]
 gi|116101690|gb|ABJ66836.1| transcriptional regulator, XRE family [Streptococcus thermophilus
          LMD-9]
          Length = 289

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 24/68 (35%), Positives = 35/68 (51%), Gaps = 3/68 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           RI+ RR  L MSQ++L E  GI  Q Q+ + E G    G+  L  +S  L   + +FFD
Sbjct: 7  SRIKNRRKELKMSQKELAE--GICKQGQISRLENGEYIPGSVLLHELSRKLNVSMDYFFD 64

Query: 76 VSPTVCSD 83
             +  S+
Sbjct: 65 EQISSGSN 72


>gi|86355908|ref|YP_467800.1| LacI family transcription regulator [Rhizobium etli CFN 42]
 gi|86280010|gb|ABC89073.1| probable transcriptional regulator protein, LacI family [Rhizobium
           etli CFN 42]
          Length = 189

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/100 (21%), Positives = 41/100 (41%), Gaps = 2/100 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   ++  +G RIR  R+  G++ ++L E  G++   + + E+      AS L  +   L
Sbjct: 1   MEQELEQAIGIRIRTLRLEKGLTLDELAEASGVSRAMISRIERAEASPTASLLARVCAAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
              +S FF       S ++  +         P+   L R 
Sbjct: 61  GLSLSAFFAEEGQQASPLARRQE--QQVWRDPETGYLRRA 98


>gi|260460388|ref|ZP_05808640.1| transcriptional regulator, XRE family [Mesorhizobium
          opportunistum WSM2075]
 gi|259034033|gb|EEW35292.1| transcriptional regulator, XRE family [Mesorhizobium
          opportunistum WSM2075]
          Length = 202

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 38/80 (47%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          +K  +  D+ VG+R+R  R+  G+S  +L    G++   + + E+G++ +    +  ++ 
Sbjct: 9  EKPKDDADVRVGRRVRALRLERGLSLAELAAKAGVSIGALSQIERGMSSLRVKVIWPLAA 68

Query: 65 VLESPISFFFDVSPTVCSDI 84
           L+   S          +D+
Sbjct: 69 ALDIEPSALIADGNDAVNDL 88


>gi|224543830|ref|ZP_03684369.1| hypothetical protein CATMIT_03051 [Catenibacterium mitsuokai DSM
          15897]
 gi|224523249|gb|EEF92354.1| hypothetical protein CATMIT_03051 [Catenibacterium mitsuokai DSM
          15897]
          Length = 217

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 37/80 (46%), Gaps = 2/80 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R+   ++QE++ E LG++ Q +  +E   +      +  +SE  +  + +  
Sbjct: 5  IGSKIKAARIEKKLTQEQVAELLGVSRQTISNWENEKSYPDIISVIKMSECYDVSLDYLL 64

Query: 75 DVSPTVCS--DISSEENNVM 92
               + +  D   E  NV+
Sbjct: 65 KGEEKMKNYYDYLEESTNVV 84


>gi|295094523|emb|CBK83614.1| Predicted transcriptional regulators [Coprococcus sp. ART55/1]
          Length = 97

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/97 (17%), Positives = 37/97 (38%), Gaps = 3/97 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+++R  R    M+Q++L   L + FQ +  +E        S +  I+E       +  
Sbjct: 2   IGEQLRTLRTANKMTQKELAGELSVAFQTISNWENNSIDPSVSMILRIAEYFNCSTDYLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               +    I + +            L L + F +++
Sbjct: 62  KGDDSSAKYIDTTQLTEHQH---AQLLGLAKEFSKLN 95


>gi|251794968|ref|YP_003009699.1| XRE family transcriptional regulator [Paenibacillus sp. JDR-2]
 gi|247542594|gb|ACS99612.1| transcriptional regulator, XRE family [Paenibacillus sp. JDR-2]
          Length = 272

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 40/110 (36%), Gaps = 14/110 (12%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + I + R   G +QE+L   LGI+FQ V K+E  +     S L  +   LE  I      
Sbjct: 7   RSIAIYRKERGFTQEELATKLGISFQAVSKWENALTMPDLSLLPELCRTLEVSIDKLLGY 66

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                +    EE    +             +    +      + E+++++
Sbjct: 67  VSQDKTITIYEEEYKTE------------NYYWGTEPN--SGVYEVLKAM 102


>gi|227544810|ref|ZP_03974859.1| transcriptional regulator [Lactobacillus reuteri CF48-3A]
 gi|300908944|ref|ZP_07126407.1| cro/CI family transcriptional regulator [Lactobacillus reuteri
          SD2112]
 gi|227185211|gb|EEI65282.1| transcriptional regulator [Lactobacillus reuteri CF48-3A]
 gi|300894351|gb|EFK87709.1| cro/CI family transcriptional regulator [Lactobacillus reuteri
          SD2112]
          Length = 108

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 1/70 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPISF 72
          N+G  IR RR  LG++QE+L    G++   + + E G  N V A  L  I+EVL++ +  
Sbjct: 3  NLGANIRARRHELGITQEQLSNNTGLSINYISRLEVGTANNVSAKTLLKIAEVLKTSMDK 62

Query: 73 FFDVSPTVCS 82
            + S    +
Sbjct: 63 LVNGSSDTAN 72


>gi|116629237|ref|YP_814409.1| XRE family transcriptional regulator [Lactobacillus gasseri ATCC
          33323]
 gi|116629297|ref|YP_814469.1| XRE family transcriptional regulator [Lactobacillus gasseri ATCC
          33323]
 gi|116094819|gb|ABJ59971.1| Transcriptional regulator, xre family [Lactobacillus gasseri ATCC
          33323]
 gi|116094879|gb|ABJ60031.1| Transcriptional regulator, xre family [Lactobacillus gasseri ATCC
          33323]
          Length = 115

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 32/78 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R    +SQ +L + L ++ Q + K+E G     +  L  ++E  +    +  
Sbjct: 5  IGDRIRELRTSHRLSQTELSKLLHVSQQTITKWENGKAEPSSGALAKLAEYFDVSADYLL 64

Query: 75 DVSPTVCSDISSEENNVM 92
              T        E + +
Sbjct: 65 GSDKTSEPKSVDLEKDPV 82


>gi|160878226|ref|YP_001557194.1| XRE family transcriptional regulator [Clostridium phytofermentans
          ISDg]
 gi|160426892|gb|ABX40455.1| transcriptional regulator, XRE family [Clostridium
          phytofermentans ISDg]
          Length = 273

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 36/76 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          ++   R   G+SQE+L + L ++ Q V K+E        S+L  +SE+ E  + +     
Sbjct: 6  KLIELRRERGLSQEQLADQLDVSRQSVSKWESDQTMPELSKLITLSEIFEVSLDYLMRDY 65

Query: 78 PTVCSDISSEENNVMD 93
              S    +++N +D
Sbjct: 66 IMDRSGTREKKDNTVD 81


>gi|197103371|ref|YP_002128749.1| transcriptional regulator, MerR family [Phenylobacterium zucineum
           HLK1]
 gi|196480647|gb|ACG80174.1| transcriptional regulator, MerR family [Phenylobacterium zucineum
           HLK1]
          Length = 120

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 45/94 (47%), Gaps = 1/94 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +VG+ IR+ R  +G++Q  L E +G+T Q +   E+G        L+ ++  L++P+  
Sbjct: 17  KSVGRAIRMHRERVGLTQAALAEAVGLTEQYIGVVERGARAPSFRTLEALARTLKTPVRD 76

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           FF   P    +     ++V+  ++     +  R 
Sbjct: 77  FF-PHPLAQEEADEALSDVIGLLAPLTAEERARA 109


>gi|312865414|ref|ZP_07725641.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
 gi|311098932|gb|EFQ57149.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
          Length = 193

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/82 (25%), Positives = 43/82 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R+R  R+  G++QE + + L +T Q V ++E+  N      LQ +S++ E  +++
Sbjct: 1  MKIGERLRQARINAGLTQEDVSKELFVTRQTVSRWEQEKNLPNLYVLQDLSKLYEVEVAY 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
          F        ++  S+ N    F
Sbjct: 61 FLTKEVENQTEKKSQINFYALF 82


>gi|189009165|ref|YP_001928047.1| putative transcriptional regulator [Klebsiella pneumoniae]
 gi|171850706|gb|ACB55445.1| putative transcriptional regulator [Klebsiella pneumoniae]
          Length = 119

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 29/114 (25%), Positives = 52/114 (45%), Gaps = 6/114 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           KR++  R  +G+SQEKL E +GI    T  ++  YE G      S +Q I++VL  P  +
Sbjct: 4   KRLKEARKAVGLSQEKLSELIGIEGVSTRSRLSSYEIGRTEPPFSLVQKIADVLGYPEYY 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           F+  +      +     N     +     +  +   Q+DD   R+ +++L   +
Sbjct: 64  FYTANDVTAKILLEMHKNGKQPTNASIADEARKMAEQLDDA--RKLVVQLTECL 115


>gi|318605629|emb|CBY27127.1| transcriptional regulator yidN, Cro/CI family [Yersinia
          enterocolitica subsp. palearctica Y11]
          Length = 188

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 31/72 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G +++  R   G S  +  E  G++   + + E+G +    + L  I+  L    S 
Sbjct: 6  RHIGNQLKNVRRERGWSLSQTAEQTGVSKAMLGQIERGESSPTVATLWKIASGLNVSFSQ 65

Query: 73 FFDVSPTVCSDI 84
          F +  P   + +
Sbjct: 66 FLETPPAQSAAL 77


>gi|227500718|ref|ZP_03930767.1| transcriptional regulator [Anaerococcus tetradius ATCC 35098]
 gi|227217176|gb|EEI82525.1| transcriptional regulator [Anaerococcus tetradius ATCC 35098]
          Length = 143

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 36/71 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++++  R++  ++Q++L    G+T   ++ YE G       +LQ ISE L+  IS   D
Sbjct: 4  GEKLKKLRLMRNLTQKELAIKSGLTDAAIRNYELGNRSPSKEQLQKISEALDCDISALID 63

Query: 76 VSPTVCSDISS 86
            P    +I  
Sbjct: 64 HEPNSIFEIMH 74


>gi|160933518|ref|ZP_02080906.1| hypothetical protein CLOLEP_02364 [Clostridium leptum DSM 753]
 gi|156867395|gb|EDO60767.1| hypothetical protein CLOLEP_02364 [Clostridium leptum DSM 753]
          Length = 169

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 26/104 (25%), Positives = 45/104 (43%), Gaps = 9/104 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + I+  R   G+SQE+L   L +  Q + K+E G++   +  L  ISE LE+P+S     
Sbjct: 4   ENIKAIRKSKGLSQEELAVKLNVVRQTISKWENGLSVPDSDMLISISEALETPVSVLL-G 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            P        E +++       + + L            R+KI+
Sbjct: 63  EPVA----EPEADDLKAVCEKLEIINLQLA----QRKAARRKIL 98


>gi|160885068|ref|ZP_02066071.1| hypothetical protein BACOVA_03065 [Bacteroides ovatus ATCC 8483]
 gi|298483202|ref|ZP_07001382.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides sp. D22]
 gi|156109418|gb|EDO11163.1| hypothetical protein BACOVA_03065 [Bacteroides ovatus ATCC 8483]
 gi|295084669|emb|CBK66192.1| Helix-turn-helix. [Bacteroides xylanisolvens XB1A]
 gi|298270719|gb|EFI12300.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides sp. D22]
          Length = 134

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 36/70 (51%), Gaps = 3/70 (4%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +  +K  N +  ++G++I   R + GM+Q +LG+ LGIT Q V K E    +    RL  
Sbjct: 1  METEKYTNTI--HLGRKIERVRRLRGMTQAELGDLLGITKQAVSKIE-QTEKFDDERLGE 57

Query: 62 ISEVLESPIS 71
          I+  L   + 
Sbjct: 58 IASALGVTVD 67


>gi|163851665|ref|YP_001639708.1| helix-turn-helix domain-containing protein [Methylobacterium
          extorquens PA1]
 gi|218530471|ref|YP_002421287.1| XRE family transcriptional regulator [Methylobacterium
          chloromethanicum CM4]
 gi|240138832|ref|YP_002963307.1| putative transcriptional regulator, XRE family [Methylobacterium
          extorquens AM1]
 gi|254561435|ref|YP_003068530.1| XRE family transcriptional regulator [Methylobacterium extorquens
          DM4]
 gi|163663270|gb|ABY30637.1| helix-turn-helix domain protein [Methylobacterium extorquens PA1]
 gi|218522774|gb|ACK83359.1| transcriptional regulator, XRE family [Methylobacterium
          chloromethanicum CM4]
 gi|240008804|gb|ACS40030.1| putative transcriptional regulator, XRE family [Methylobacterium
          extorquens AM1]
 gi|254268713|emb|CAX24672.1| putative transcriptional regulator, XRE family [Methylobacterium
          extorquens DM4]
          Length = 201

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 30/65 (46%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P++  +G ++RL R    +S   LG   GI+   + K E G      + +  I+  L  P
Sbjct: 15 PLEKALGHQVRLLRRERDLSVADLGSAAGISPGMISKIENGAISPSLASINAIASALNVP 74

Query: 70 ISFFF 74
          I+  F
Sbjct: 75 ITALF 79


>gi|76798009|ref|ZP_00780267.1| phage repressor protein [Streptococcus agalactiae 18RS21]
 gi|76586632|gb|EAO63132.1| phage repressor protein [Streptococcus agalactiae 18RS21]
 gi|323127145|gb|ADX24442.1| repressor protein, putative [Streptococcus dysgalactiae subsp.
          equisimilis ATCC 12394]
          Length = 230

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 32/58 (55%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GKR++ RR+ LG SQ +L + L I       +E    +   S L+ ++ +L+ P ++F
Sbjct: 4  GKRLKKRRITLGYSQSELADKLHINRSSYFNWENEKTKPNQSNLKQLAILLDVPETYF 61


>gi|325970144|ref|YP_004246335.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
 gi|324025382|gb|ADY12141.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
          Length = 112

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 24/105 (22%), Positives = 49/105 (46%), Gaps = 1/105 (0%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFF 73
           +G+RIR  R+  GM+Q  L   +G++       E G  ++    L  I++ L++ I S  
Sbjct: 8   LGQRIREARIKTGMTQATLSGIIGLSPSHYSHIESGKAKINLPTLVAIAQALDTTIDSLL 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           +D  P +      +  ++++  +  +   L +  IQ+  V  R +
Sbjct: 68  YDSIPVLIDSYDKDFKDLLEDCTRDEKETLLQNTIQMKTVMRRNR 112


>gi|146302466|ref|YP_001197057.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
           UW101]
 gi|146156884|gb|ABQ07738.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
           UW101]
          Length = 132

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/129 (21%), Positives = 51/129 (39%), Gaps = 7/129 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            ++G+ I   R + GM Q  L + +G + Q +   E     V   +L  I++ L   +  
Sbjct: 8   KHIGRNISRIRELRGMKQGALADAIGTSQQTISSIETSET-VDFDKLVQIAKALGVTVEA 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
              +       + +  NN  D  +     Q+N  F       +  K++EL   +V +EK 
Sbjct: 67  ---IENFTEESVFNFFNNFYDNSANHG--QVNGPFNSCTFNAL-DKVVELYERLVQAEKD 120

Query: 133 YRTIEEECM 141
                E+ M
Sbjct: 121 KVEYLEKLM 129


>gi|317132933|ref|YP_004092247.1| transcriptional regulator, XRE family [Ethanoligenens harbinense
          YUAN-3]
 gi|315470912|gb|ADU27516.1| transcriptional regulator, XRE family [Ethanoligenens harbinense
          YUAN-3]
          Length = 262

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 32/59 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +   +R++  R   G+SQEKL E  G++ Q V K+E G ++    +L  +S++    + 
Sbjct: 1  MEFSERLQALRKQAGLSQEKLAEACGVSRQAVSKWEAGQSQPDMDKLVLLSKLFGISLD 59


>gi|284007818|emb|CBA73695.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 137

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 30/131 (22%), Positives = 55/131 (41%), Gaps = 12/131 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+RI+ RR  L +SQ  L   LGI    + ++E+  +      L  +++ L    S+
Sbjct: 4   KTLGERIKARRQELKLSQRALASILGIAHVSISQWERNESTPKGENLMALAKTLHCEPSW 63

Query: 73  FFDV---SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
            F+     P   S++      + D   T     L   F ++ D +      ELV S+   
Sbjct: 64  LFEEQGNLPISASELPEAPIKLSDLQKT-----LLDLFDELPDSEQE----ELVESLREK 114

Query: 130 EKKYRTIEEEC 140
           ++ Y  + E+ 
Sbjct: 115 KQYYDQLFEQL 125


>gi|22537417|ref|NP_688268.1| repressor protein [Streptococcus agalactiae 2603V/R]
 gi|77406937|ref|ZP_00783958.1| repressor protein, putative [Streptococcus agalactiae H36B]
 gi|22534293|gb|AAN00141.1|AE014250_4 repressor protein, putative [Streptococcus agalactiae 2603V/R]
 gi|77174457|gb|EAO77305.1| repressor protein, putative [Streptococcus agalactiae H36B]
          Length = 230

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 32/58 (55%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GKR++ RR+ LG SQ +L + L I       +E    +   S L+ ++ +L+ P ++F
Sbjct: 4  GKRLKKRRITLGYSQSELADKLHINRSSYFNWENEKTKPNQSNLKQLAILLDVPETYF 61


>gi|260596321|ref|YP_003208892.1| hypothetical protein CTU_05290 [Cronobacter turicensis z3032]
 gi|260215498|emb|CBA27640.1| hypothetical protein CTU_05290 [Cronobacter turicensis z3032]
          Length = 103

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 39/86 (45%), Gaps = 8/86 (9%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGA 56
          M      P        KR++  R   G+SQ+KLG   G    +   ++ +YEKGV++   
Sbjct: 1  MSETTNTPT----VFCKRLKTAREAKGLSQKKLGILAGIDEFVASARINRYEKGVHQASI 56

Query: 57 SRLQHISEVLESPISFFFDVSPTVCS 82
             + +++ L  P+++F+     +  
Sbjct: 57 EIARKLADALAVPLAYFYTEDDELAE 82


>gi|255316610|ref|ZP_05358193.1| putative regulatory protein [Clostridium difficile QCD-76w55]
          Length = 116

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 43/88 (48%), Gaps = 3/88 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRIR  R   G SQE L +  G+    + + E+G ++     +  I+  LE P+   F
Sbjct: 10 IGKRIRNYRKRAGYSQEALAKKAGLFHAYLGQIERGESKASLRSIFKIANALEMPLEILF 69

Query: 75 DVSPTVCSD---ISSEENNVMDFISTPD 99
          +       D   +SSE   ++D +++ +
Sbjct: 70 ENIIQNEKDPETLSSEAYELIDSLTSKE 97


>gi|149920973|ref|ZP_01909434.1| transcriptional regulator, XRE family with cupin sensor
          [Plesiocystis pacifica SIR-1]
 gi|149818245|gb|EDM77700.1| transcriptional regulator, XRE family with cupin sensor
          [Plesiocystis pacifica SIR-1]
          Length = 199

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 32/73 (43%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +    ++GK IR RR  LG+S + L +  G++   + + E+            I+  L  
Sbjct: 2  HDPSSSIGKNIRSRRQALGLSLDALAQASGVSSTMLSEVERARKNPTVKLAYQIARALGC 61

Query: 69 PISFFFDVSPTVC 81
           ++   + SP V 
Sbjct: 62 SLTDLLEDSPAVE 74


>gi|319440538|ref|ZP_07989694.1| putative DNA-binding protein [Corynebacterium variabile DSM
          44702]
          Length = 221

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 33/70 (47%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +++ +G R+R  R   GMS   L E  G++   + K E        + + H++  L+ 
Sbjct: 22 HSIEVGLGHRVRALRTSRGMSVAALSERAGLSKAMLSKIENAQTSCSLTSVAHLAAALDV 81

Query: 69 PISFFFDVSP 78
          P++  F  S 
Sbjct: 82 PVATLFQDSS 91


>gi|257792132|ref|YP_003182738.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|257476029|gb|ACV56349.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
          Length = 247

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 34/69 (49%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M    K  + +++ + +R+   R   G SQE+L E LG++ Q V K+E+  +      L 
Sbjct: 1  MSPTSKKGSFMNVEIAQRLAAMRREQGYSQEELAERLGLSRQAVSKWERAESSPDTGNLI 60

Query: 61 HISEVLESP 69
           ++++    
Sbjct: 61 ALAKLYGVS 69


>gi|307153159|ref|YP_003888543.1| transcriptional regulator of molybdate metabolism, XRE family
           [Cyanothece sp. PCC 7822]
 gi|306983387|gb|ADN15268.1| transcriptional regulator of molybdate metabolism, XRE family
           [Cyanothece sp. PCC 7822]
          Length = 377

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 23/118 (19%), Positives = 42/118 (35%), Gaps = 12/118 (10%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D  +   I+  R  LG+SQ+ L +  G++ Q +   E G     A+    +++ L   + 
Sbjct: 4   DKELRNNIKQIRTRLGLSQQDLAQVAGVSRQAISGVESGQYAPSATVALRLAKALGCRVE 63

Query: 72  FFF--DVSPTVCSDISSEENNVMDFISTPDGLQLNR------YFIQIDDVKVRQKIIE 121
             F  +    V     +E   +         L L +          I +   R +II 
Sbjct: 64  DLFWLEDDDAVIEAQPTESVPMGQPFR----LSLAQVGGQLVAHPLIQEDAFRTEIIA 117


>gi|297588232|ref|ZP_06946875.1| cro/CI family transcriptional regulator [Finegoldia magna ATCC
           53516]
 gi|297573605|gb|EFH92326.1| cro/CI family transcriptional regulator [Finegoldia magna ATCC
           53516]
          Length = 179

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 43/89 (48%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++IR  R+ LG++QE+L E   +T   + + E+ +       L  +   L + ++ 
Sbjct: 1   MEIGEKIRSLRLKLGLTQEELAERSDLTKGFISQLERDLTSPSVDSLNDLLNALGTDMAT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
           FF   P+V    + ++    + +S    +
Sbjct: 61  FFMDKPSVKEIFTKDDYQSSEDLSMNSTI 89


>gi|257468157|ref|ZP_05632253.1| SOS-response transcriptional repressor [Fusobacterium ulcerans
          ATCC 49185]
 gi|317062443|ref|ZP_07926928.1| predicted protein [Fusobacterium ulcerans ATCC 49185]
 gi|313688119|gb|EFS24954.1| predicted protein [Fusobacterium ulcerans ATCC 49185]
          Length = 205

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/61 (32%), Positives = 33/61 (54%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G++I L R    M+Q++L E L I+ Q +  YE     +    L +I+++   PI  F
Sbjct: 3  NLGQKIMLLRKKENMTQDELAEKLNISKQSILNYETEKRLIPIDVLSNIAKLFNFPIENF 62

Query: 74 F 74
          F
Sbjct: 63 F 63


>gi|110680047|ref|YP_683054.1| transcriptional regulator, putative [Roseobacter denitrificans
          OCh 114]
 gi|109456163|gb|ABG32368.1| transcriptional regulator, putative [Roseobacter denitrificans
          OCh 114]
          Length = 429

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/65 (30%), Positives = 28/65 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RIR RR + G+ Q  L   LGI+   +   E    R+G   L  I+ VL    S   +
Sbjct: 8  GSRIRERRSVAGLKQADLARALGISPSYLNLIEHNRRRIGGKLLLDIARVLGVEPSMLTE 67

Query: 76 VSPTV 80
           +   
Sbjct: 68 GAEAA 72


>gi|238790799|ref|ZP_04634557.1| hypothetical protein yfred0001_12660 [Yersinia frederiksenii ATCC
          33641]
 gi|238721114|gb|EEQ12796.1| hypothetical protein yfred0001_12660 [Yersinia frederiksenii ATCC
          33641]
          Length = 234

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 32/56 (57%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          RIR+RR+ L ++Q +L + +G++   V K+E G+ +     L  +++VL     + 
Sbjct: 22 RIRIRRLQLDLTQVQLAKAIGVSRVSVTKWESGITKPDGENLHRLAQVLSCTPEWL 77


>gi|323140461|ref|ZP_08075389.1| restriction-modification system control element Bcll family protein
           [Phascolarctobacterium sp. YIT 12067]
 gi|322415029|gb|EFY05820.1| restriction-modification system control element Bcll family protein
           [Phascolarctobacterium sp. YIT 12067]
          Length = 104

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/107 (26%), Positives = 52/107 (48%), Gaps = 6/107 (5%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
            +    +  +GKR++++R+   +SQ +L + LG+T   +   E G   +    L  + ++
Sbjct: 4   NMTEEYNRLIGKRVKMQRISAKVSQTELAKELGVTQTHLSNIENGRAGLTIPNLIKLHQI 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
           LE PIS FF     V  +   E +N  D I+  + ++L R   +  D
Sbjct: 64  LECPISSFF-----VDIEWEKEADNSSD-ITLENVMELARLLKKARD 104


>gi|323487309|ref|ZP_08092609.1| hypothetical protein HMPREF9474_04360 [Clostridium symbiosum
           WAL-14163]
 gi|323694251|ref|ZP_08108427.1| hypothetical protein HMPREF9475_03291 [Clostridium symbiosum
           WAL-14673]
 gi|323399354|gb|EGA91752.1| hypothetical protein HMPREF9474_04360 [Clostridium symbiosum
           WAL-14163]
 gi|323501724|gb|EGB17610.1| hypothetical protein HMPREF9475_03291 [Clostridium symbiosum
           WAL-14673]
          Length = 126

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/93 (21%), Positives = 47/93 (50%), Gaps = 7/93 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD- 75
           +R++  R+ +G +Q+++ + +GIT      YE G  +   ++++ ++++L++   F  + 
Sbjct: 5   ERLKEARISVGYTQQQVADAMGITNSTYCGYETGKRQPDVAKIKQLAKILKTSGDFLLET 64

Query: 76  -----VSPTVCSDIS-SEENNVMDFISTPDGLQ 102
                 S    +DIS   E+ V D  +  + L 
Sbjct: 65  GFVPVGSEEDKTDISCCHEDYVADIFANFELLD 97


>gi|292557937|gb|ADE30938.1| Transcriptional regulator, Cro/CI family [Streptococcus suis GZ1]
          Length = 190

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 40/78 (51%), Gaps = 1/78 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESP 69
           + +  G++++  R  LGMSQ++L   +G+T + +  YE   +R  G  R + ++E L   
Sbjct: 53  ITMTFGEKVKAERTKLGMSQDELAAKIGVTRRIIGSYENDKSRPRGMERYKKLAESLNVN 112

Query: 70  ISFFFDVSPTVCSDISSE 87
           +++         +D+  +
Sbjct: 113 VNYLLSEDDAFIADVEDK 130


>gi|238023271|ref|ZP_04603697.1| hypothetical protein GCWU000324_03198 [Kingella oralis ATCC
          51147]
 gi|237865391|gb|EEP66531.1| hypothetical protein GCWU000324_03198 [Kingella oralis ATCC
          51147]
          Length = 214

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 12/66 (18%), Positives = 32/66 (48%), Gaps = 1/66 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RI+ +R  L ++Q  L + + G++   + ++E  + +  A  L  +S++ +    + 
Sbjct: 6  IGQRIKQKRKELHLTQADLAKKVQGVSHAAISQWETDITKPNAENLYDLSQIFKCDFVWL 65

Query: 74 FDVSPT 79
                
Sbjct: 66 LRGEGE 71


>gi|325838540|ref|ZP_08166562.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
 gi|325490835|gb|EGC93137.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
          Length = 110

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 40/82 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R   G+SQE+L E L ++ Q V K+E          LQ I+++    +  
Sbjct: 3  MTLGEKIKKYRQARGLSQEQLSEKLSVSRQAVTKWESDKGIPDIHNLQAIAKLFNVSLDS 62

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
             +   + S +  EE ++  +
Sbjct: 63 LLAMDEKIGSIVLKEEIDIEKY 84


>gi|268593023|ref|ZP_06127244.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291311286|gb|EFE51739.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 132

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/60 (35%), Positives = 33/60 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  +   R   G+S  +LG+ LG++ QQ+ +YE GV R+  S L      L++ +  FF
Sbjct: 24 VGNELAYMRKNKGISGAELGKLLGMSQQQISRYENGVTRLDLSTLLSFLLRLDTTLDDFF 83


>gi|261207839|ref|ZP_05922524.1| conserved hypothetical protein [Enterococcus faecium TC 6]
 gi|289566390|ref|ZP_06446818.1| conserved hypothetical protein [Enterococcus faecium D344SRF]
 gi|83940994|gb|ABC48899.1| hypothetical protein [Enterococcus faecium]
 gi|260078222|gb|EEW65928.1| conserved hypothetical protein [Enterococcus faecium TC 6]
 gi|289161828|gb|EFD09700.1| conserved hypothetical protein [Enterococcus faecium D344SRF]
          Length = 122

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 39/91 (42%), Gaps = 1/91 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRI++ R+    +QE + + +G++ Q V   E G + V    L  I+ +L   +    
Sbjct: 8   IGKRIKIARIKKNFTQEAVADRIGVSPQHVSNIETGNSSVSLPTLVAIANMLSVSVDELL 67

Query: 75  -DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            D   T       E  ++ +  +  +   L 
Sbjct: 68  CDTVLTSKPIFEREAKDIFEDCNEYEVRVLV 98


>gi|237718064|ref|ZP_04548545.1| transcriptional regulator [Bacteroides sp. 2_2_4]
 gi|293370031|ref|ZP_06616598.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides ovatus SD CMC 3f]
 gi|299147755|ref|ZP_07040818.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides sp. 3_1_23]
 gi|229452705|gb|EEO58496.1| transcriptional regulator [Bacteroides sp. 2_2_4]
 gi|292634949|gb|EFF53471.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides ovatus SD CMC 3f]
 gi|298513938|gb|EFI37824.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides sp. 3_1_23]
          Length = 134

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 36/70 (51%), Gaps = 3/70 (4%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +  +K  N +  ++G++I   R + GM+Q +LG+ LGIT Q V K E    +    RL  
Sbjct: 1  METEKYTNTI--HLGRKIERVRRLRGMTQAELGDLLGITKQAVSKIE-QTEKFDDERLGE 57

Query: 62 ISEVLESPIS 71
          I+  L   + 
Sbjct: 58 IASALGVTVD 67


>gi|303241397|ref|ZP_07327900.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
 gi|302591006|gb|EFL60751.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
          Length = 128

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/93 (18%), Positives = 37/93 (39%), Gaps = 8/93 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G ++++ R+   ++Q  L + L ++   V +YE G  +     L  IS      I +
Sbjct: 2  VNFGDKLKMLRLEKNLTQNGLAKHLNVSKANVSRYELGTRQPNFDTLISISAFFNVSIDW 61

Query: 73 F--------FDVSPTVCSDISSEENNVMDFIST 97
                   F        +    +  +++F+ T
Sbjct: 62 LLGRSTIRNFSSVNDKPRNFEESDLEILEFLHT 94


>gi|319936892|ref|ZP_08011303.1| hypothetical protein HMPREF9488_02137 [Coprobacillus sp. 29_1]
 gi|319807991|gb|EFW04566.1| hypothetical protein HMPREF9488_02137 [Coprobacillus sp. 29_1]
          Length = 375

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 37/83 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R    ++QE+L E L ++ Q + ++E   N      L  ++ + E  +  
Sbjct: 1  MTLGKRIQYYRKRKQLTQEELAEKLMVSRQAISRWESDNNEPDVKTLLILANIFEITVDE 60

Query: 73 FFDVSPTVCSDISSEENNVMDFI 95
              +     + +  EN   D I
Sbjct: 61 LVRENEVNIDNQNIIENGSEDII 83


>gi|307266068|ref|ZP_07547614.1| transcriptional regulator, XRE family [Thermoanaerobacter wiegelii
           Rt8.B1]
 gi|306918937|gb|EFN49165.1| transcriptional regulator, XRE family [Thermoanaerobacter wiegelii
           Rt8.B1]
          Length = 182

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/99 (18%), Positives = 42/99 (42%), Gaps = 7/99 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+++ R   G++ +++GE +G++     KYEK         L  I++  +  + F  
Sbjct: 2   IGERLKMLRKEKGLTMKEIGEIIGVSDAAWTKYEKNRAEPSIESLIKIADYFQVSLDFLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
             +         + N   +F+   +       + +I D 
Sbjct: 62  GRTNIREPQFVEKANIQSEFLKEFE-------WSKIGDP 93


>gi|295702409|ref|YP_003595484.1| transcriptional regulator [Bacillus megaterium DSM 319]
 gi|294800068|gb|ADF37134.1| transcriptional regulator [Bacillus megaterium DSM 319]
          Length = 180

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 39/78 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+I+  R+  G++QE+LGE   ++   + + E+ ++         I EVL      
Sbjct: 1  MEIGKKIKNLRLKKGLTQEELGERTDLSKGYISQLERDLSSPSLETFFSILEVLGCEPKE 60

Query: 73 FFDVSPTVCSDISSEENN 90
          FF++   V   +  EE+ 
Sbjct: 61 FFEIDTHVQKVVYREEDY 78


>gi|229545190|ref|ZP_04433915.1| helix-turn-helix motif:protein of hypothetical function DUF955
          [Enterococcus faecalis TX1322]
 gi|229309735|gb|EEN75722.1| helix-turn-helix motif:protein of hypothetical function DUF955
          [Enterococcus faecalis TX1322]
          Length = 390

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 34/59 (57%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+R++  RM  GM+ E+L E +G++ Q + KYE+ ++      L  + + L  P  FF+
Sbjct: 11 GQRLKEARMYRGMTLEELKEKIGVSKQMISKYEQNISAPTPEILFSLLQALRFPKEFFY 69


>gi|154482431|ref|ZP_02024879.1| hypothetical protein EUBVEN_00098 [Eubacterium ventriosum ATCC
          27560]
 gi|149736708|gb|EDM52594.1| hypothetical protein EUBVEN_00098 [Eubacterium ventriosum ATCC
          27560]
          Length = 293

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 31/55 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++I+  R   G+SQEK+ E +G++ Q + K+E G      + L  I+++ +  + 
Sbjct: 5  EQIKHYRKQAGLSQEKMAEKIGVSRQAITKWENGTGTPDIANLMAIADLFQISVD 59


>gi|228920539|ref|ZP_04083884.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
 gi|228839169|gb|EEM84465.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
          Length = 181

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 47/110 (42%), Gaps = 8/110 (7%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
           +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3   NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71  SFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDV 113
           SF  + + T    + S        +N   + +S      L    + I   
Sbjct: 63  SFLLEDTNTDDLIVRSHKRKKMIIDNLSYEMLSPDFTGNLATAIMTIPPN 112


>gi|254515458|ref|ZP_05127518.1| conserved domain protein [gamma proteobacterium NOR5-3]
 gi|219675180|gb|EED31546.1| conserved domain protein [gamma proteobacterium NOR5-3]
          Length = 394

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 28/63 (44%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V   VG+R+   R   G+S     + +G+    + +YE G      S +  ++E L  P 
Sbjct: 4  VSSFVGERLTQARKARGVSAGDFADMVGLDRVTISRYETGKMDPKPSTIYKMAEALNFPT 63

Query: 71 SFF 73
           +F
Sbjct: 64 GYF 66


>gi|323498569|ref|ZP_08103562.1| transcriptional regulator [Vibrio sinaloensis DSM 21326]
 gi|323316458|gb|EGA69476.1| transcriptional regulator [Vibrio sinaloensis DSM 21326]
          Length = 103

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/98 (20%), Positives = 46/98 (46%), Gaps = 8/98 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +R+R  R   G++QE+LG  LG+       ++ +YE G +    + ++ I++VL++P+++
Sbjct: 7   RRLRHIRKKQGITQEELGYKLGMEPAGASARISQYETGKHAPDYATVKRIADVLQAPVAY 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP-DGLQLNRYFIQ 109
           F+     +   +           +T  + L     +  
Sbjct: 67  FYCEDDLLAEIVVQAARYSS---ATKLEILDFVETYCA 101


>gi|254975392|ref|ZP_05271864.1| putative transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255092781|ref|ZP_05322259.1| putative transcriptional regulator [Clostridium difficile CIP
          107932]
 gi|255100891|ref|ZP_05329868.1| putative transcriptional regulator [Clostridium difficile
          QCD-63q42]
 gi|255306781|ref|ZP_05350952.1| putative transcriptional regulator [Clostridium difficile ATCC
          43255]
 gi|255314521|ref|ZP_05356104.1| putative transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255517196|ref|ZP_05384872.1| putative transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255650302|ref|ZP_05397204.1| putative transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|255655775|ref|ZP_05401184.1| putative transcriptional regulator [Clostridium difficile
          QCD-23m63]
 gi|306520271|ref|ZP_07406618.1| putative transcriptional regulator [Clostridium difficile
          QCD-32g58]
          Length = 92

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +I++ R  LG++QE+LG  +G + Q +   E G N         IS +   PI   F F
Sbjct: 8  NKIKILREKLGLTQEQLGRLVGTSRQAINAIETGKNEPSIWLAYDISRIFNEPIESVFLF 67

Query: 75 DVSP 78
          + S 
Sbjct: 68 EESE 71


>gi|29347770|ref|NP_811273.1| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482]
 gi|29339671|gb|AAO77467.1| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482]
          Length = 136

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 1/55 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++G++I   R + GM+Q  LGE LG+T Q + K E    ++   +L+ ++  L  
Sbjct: 11 HLGRKIERIRRLRGMTQTDLGELLGVTKQAISKME-QAEKIDDEKLKQVATALGV 64


>gi|317057326|ref|YP_004105793.1| helix-turn-helix domain-containing protein [Ruminococcus albus 7]
 gi|315449595|gb|ADU23159.1| helix-turn-helix domain protein [Ruminococcus albus 7]
          Length = 117

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 1/86 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+RIR RR+ LG+SQE+L E  GIT   V   E+   ++  +    IS VLE  + +  
Sbjct: 13 VGERIRSRRVKLGLSQEQLAELCGITPSYVGHIERASRQLSLNTAISISTVLEISLDYLL 72

Query: 75 DVSPTVCSDISSEENNVMDFI-STPD 99
                  D+   E+   +    +P+
Sbjct: 73 LDVKNENGDVGVLESISAELKNHSPE 98


>gi|299536255|ref|ZP_07049568.1| transcriptional regulator [Lysinibacillus fusiformis ZC1]
 gi|298728241|gb|EFI68803.1| transcriptional regulator [Lysinibacillus fusiformis ZC1]
          Length = 388

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 35/71 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R+   +S  +L E L +T Q V KYE G +     +   ++++L  P  FF+ 
Sbjct: 7  GQRLKEARLYNKLSITELAEKLNVTKQMVSKYESGKSDPSFEKSLLLTDILGYPREFFYS 66

Query: 76 VSPTVCSDISS 86
                ++  +
Sbjct: 67 EETFTINNEGT 77


>gi|160946089|ref|ZP_02093303.1| hypothetical protein PEPMIC_00038 [Parvimonas micra ATCC 33270]
 gi|158447821|gb|EDP24816.1| hypothetical protein PEPMIC_00038 [Parvimonas micra ATCC 33270]
          Length = 207

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 36/71 (50%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
          M+Q +L + LG+    V  +E+  N      +  ++E+ + P+S+FFD    +  +  + 
Sbjct: 1  MTQAQLAKKLGVAPTTVSSWERNDNNPLMDNITLMAEIFDVPVSYFFDKKDGIIVNEPAI 60

Query: 88 ENNVMDFISTP 98
          E +V   + TP
Sbjct: 61 EYSVSPVLKTP 71


>gi|118594424|ref|ZP_01551771.1| N-acetylglutamate synthase [Methylophilales bacterium HTCC2181]
 gi|118440202|gb|EAV46829.1| N-acetylglutamate synthase [Methylophilales bacterium HTCC2181]
          Length = 516

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/80 (27%), Positives = 36/80 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  IR  R + G++     E L ++   + + E+G   +  S LQ I+EVL +    FF
Sbjct: 5  VGNNIRELRTLHGLTLNAFAEKLALSPSNLSRIERGSLNIKVSLLQKIAEVLGTSPHVFF 64

Query: 75 DVSPTVCSDISSEENNVMDF 94
          +        I S ++    F
Sbjct: 65 NKYGQNTGPIKSIKDFTHQF 84


>gi|300854388|ref|YP_003779372.1| transcriptional regulator [Clostridium ljungdahlii DSM 13528]
 gi|300434503|gb|ADK14270.1| transcriptional regulator [Clostridium ljungdahlii DSM 13528]
          Length = 181

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G +IR  R    +S E+L E   ++   + + E+ +     + L  I++ L   +++
Sbjct: 1  MKFGFKIRKLRQEKSISIEQLAEMAKLSTGLISQVERNITGPSVTTLWKIAKALNVSMNY 60

Query: 73 FFDVSPTVCSD 83
          FFD       D
Sbjct: 61 FFDEDEYEEKD 71


>gi|283782998|ref|YP_003373752.1| DNA-binding protein [Gardnerella vaginalis 409-05]
 gi|283441145|gb|ADB13611.1| DNA-binding protein [Gardnerella vaginalis 409-05]
          Length = 210

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 35/68 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R+  G++QE+L E + ++   V K+E G      + L+ I++ L   +  
Sbjct: 1  MLLGEKIRNARVEAGLTQEELAEMIMVSRAAVAKWEGGRGLPDVANLKVIADALGVTVDH 60

Query: 73 FFDVSPTV 80
            D    +
Sbjct: 61 LLDKDNAI 68


>gi|225573403|ref|ZP_03782158.1| hypothetical protein RUMHYD_01595 [Blautia hydrogenotrophica DSM
          10507]
 gi|225039213|gb|EEG49459.1| hypothetical protein RUMHYD_01595 [Blautia hydrogenotrophica DSM
          10507]
          Length = 75

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 31/72 (43%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+ ++   G  +R  R   G SQE+  E   I+     + E+G + +   +   I++ L 
Sbjct: 4  PDKINYYFGNNLRKFREAKGCSQEEFAEICKISRAYYGRIERGEHSITIEKCALIAQALG 63

Query: 68 SPISFFFDVSPT 79
            IS  F   P 
Sbjct: 64 IHISVLFTDLPD 75


>gi|222083000|ref|YP_002542365.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221727679|gb|ACM30768.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 205

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 39/94 (41%), Gaps = 3/94 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+RL R +LGM+ + L      +   + K E G        L  + EVL + I + F
Sbjct: 24  LGTRLRLARQMLGMTLKALAVAADCSESLLSKIENGKASPSLPMLHRLVEVLGTNIGWMF 83

Query: 75  DVSPTVCS---DISSEENNVMDFISTPDGLQLNR 105
           + +           +     +D +   +G+ L R
Sbjct: 84  EEADGEEGIVFRAGTRPLIGLDPLRRGEGISLER 117


>gi|218780466|ref|YP_002431784.1| XRE family transcriptional regulator [Desulfatibacillum
          alkenivorans AK-01]
 gi|218761850|gb|ACL04316.1| transcriptional regulator, XRE family [Desulfatibacillum
          alkenivorans AK-01]
          Length = 115

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 34/71 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI   R+   ++Q +L E +G++ + + + E+GV       L  ++E L S +  FF
Sbjct: 8  IGKRIAELRIENNLTQAQLAEAMGLSVESISRMERGVTFPSVKTLARVAEALGSSLKQFF 67

Query: 75 DVSPTVCSDIS 85
          D          
Sbjct: 68 DFDEDEGQGDG 78


>gi|149021903|ref|ZP_01835890.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP23-BS72]
 gi|147929941|gb|EDK80929.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP23-BS72]
          Length = 287

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/96 (28%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +  +   Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRN-YENLEYIYRIE 98


>gi|325693715|gb|EGD35634.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK150]
 gi|332364198|gb|EGJ41974.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK355]
          Length = 205

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 33/70 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R + G+SQE L E LG++ Q V K+E   +     ++  +S+  E    +
Sbjct: 1  MNLSDRIQYLRKVRGISQEGLAEKLGVSRQAVSKWESEQSMPDLDKIISMSDYFEVTTDY 60

Query: 73 FFDVSPTVCS 82
                 V  
Sbjct: 61 LLKGIEPVVQ 70


>gi|314937221|ref|ZP_07844566.1| putative helix-turn-helix containing protein [Staphylococcus
          hominis subsp. hominis C80]
 gi|313654654|gb|EFS18401.1| putative helix-turn-helix containing protein [Staphylococcus
          hominis subsp. hominis C80]
          Length = 137

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G +I+  R    MSQEKL E LG++   +  +E+ V+      +  I+++    ++
Sbjct: 5  IGHQIQKLRKSKNMSQEKLAEKLGVSRHSISNWEREVSNPDLKTILEITKLFNVSLN 61


>gi|257784356|ref|YP_003179573.1| transcriptional regulator, XRE family [Atopobium parvulum DSM
          20469]
 gi|257472863|gb|ACV50982.1| transcriptional regulator, XRE family [Atopobium parvulum DSM
          20469]
          Length = 210

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 36/74 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I   R +  ++Q +L E +G T Q VQ+YE     +   ++  +SE+L   +++   +S
Sbjct: 4  QIAEARKLRNITQAELAEKMGTTQQTVQRYETNQVNIRMDKMIEMSEILNVSLAYLLGMS 63

Query: 78 PTVCSDISSEENNV 91
           +      S+   V
Sbjct: 64 SSPEISEVSDMAPV 77


>gi|14141827|ref|NP_115293.1| hypothetical protein SAVP004 [Staphylococcus aureus subsp. aureus
          Mu50]
 gi|228475859|ref|ZP_04060571.1| putative bacteriophage CI repressor protein [Staphylococcus
          hominis SK119]
 gi|14020888|dbj|BAB47512.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus Mu50]
 gi|228270091|gb|EEK11556.1| putative bacteriophage CI repressor protein [Staphylococcus
          hominis SK119]
          Length = 137

 Score = 62.5 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G +I+  R    MSQEKL E LG++   +  +E+ V+      +  I+++    ++
Sbjct: 5  IGHQIQKLRKSKNMSQEKLAEKLGVSRHSISNWEREVSNPDLKTILEITKLFNVSLN 61


>gi|317403702|gb|EFV84189.1| transcriptional regulator [Achromobacter xylosoxidans C54]
          Length = 189

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 28/55 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +VG  ++  R   G+SQ  L E  GI+ + +   E G + +  S L  +++ LE 
Sbjct: 17 HVGANLKRLRKAAGLSQGALAEASGISRRMIAGLEAGNSNISLSSLDKLAQALEV 71


>gi|183597291|ref|ZP_02958784.1| hypothetical protein PROSTU_00538 [Providencia stuartii ATCC
          25827]
 gi|188023308|gb|EDU61348.1| hypothetical protein PROSTU_00538 [Providencia stuartii ATCC
          25827]
          Length = 185

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 32/64 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I +G+++RL R    +S  +L    GI+   + K E G +      L+ I+  L  P+
Sbjct: 5  INIKIGQKVRLLRQARNLSLNELARLSGISKAALSKLESGDSNPRVDTLEAIAIALRFPL 64

Query: 71 SFFF 74
          S  F
Sbjct: 65 SDLF 68


>gi|218779224|ref|YP_002430542.1| XRE family transcriptional regulator [Desulfatibacillum
           alkenivorans AK-01]
 gi|218760608|gb|ACL03074.1| transcriptional regulator, XRE family [Desulfatibacillum
           alkenivorans AK-01]
          Length = 433

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 30/65 (46%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            ++G RI+  R+  G+SQ ++ + +G+T   + + E          L  ++E+L     +
Sbjct: 252 RDLGTRIKQLRVKKGLSQVQMAKMVGVTASTISQVENNSIYPSIPGLLKMAEILNVSPGY 311

Query: 73  FFDVS 77
            F   
Sbjct: 312 LFSSD 316


>gi|255524707|ref|ZP_05391659.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296185668|ref|ZP_06854077.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium carboxidivorans P7]
 gi|255511601|gb|EET87889.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296049796|gb|EFG89221.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium carboxidivorans P7]
          Length = 120

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 31/76 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + +R++  R     SQE+L E LG+T Q + K+E        + +  +SE+      +  
Sbjct: 3  ISERLQKLRKDERYSQEQLAEKLGVTRQAISKWESNQGNPDINNIIKLSEIYNVSTDYLL 62

Query: 75 DVSPTVCSDISSEENN 90
               +   I  +   
Sbjct: 63 KGEEQISKPIEIDSKE 78


>gi|227486486|ref|ZP_03916802.1| conserved hypothetical protein [Anaerococcus lactolyticus ATCC
          51172]
 gi|227235534|gb|EEI85549.1| conserved hypothetical protein [Anaerococcus lactolyticus ATCC
          51172]
          Length = 77

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/63 (31%), Positives = 28/63 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI   R  LG+SQ +LG+ +GI+   + K E G           I+  L   I   FD+
Sbjct: 3  NRIEKYRKPLGLSQHRLGKKVGISRTSINKIETGKTIPSLKTANDIANALGVCIYQIFDL 62

Query: 77 SPT 79
            T
Sbjct: 63 DGT 65


>gi|58336583|ref|YP_193168.1| transcriptional regulator [Lactobacillus acidophilus NCFM]
 gi|227903134|ref|ZP_04020939.1| helix-turn-helix motif protein [Lactobacillus acidophilus ATCC
           4796]
 gi|58253900|gb|AAV42137.1| putative transcriptional regulator [Lactobacillus acidophilus NCFM]
 gi|227869120|gb|EEJ76541.1| helix-turn-helix motif protein [Lactobacillus acidophilus ATCC
           4796]
          Length = 321

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/120 (17%), Positives = 48/120 (40%), Gaps = 14/120 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++I   R    +SQE L E + ++ Q V K+E   +     ++  +SE+      +
Sbjct: 1   MKLGQKITQLRKKSHLSQEALAEKMNVSRQAVSKWESNQSIPDIEKIVDLSELFGVTTDY 60

Query: 73  FF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
              + +P+      + E   +  +              IDD ++  + +E+ +     E 
Sbjct: 61  LLKNGTPSFELPGKTTEEKQIKKL------------PSIDDQQI-TQYLEVAKKTAHFES 107


>gi|302671595|ref|YP_003831555.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
 gi|302396068|gb|ADL34973.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
          Length = 370

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 23/98 (23%), Positives = 41/98 (41%), Gaps = 9/98 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--F 74
           + I+  R  + ++QE+L E  G+T   V K+E G N      L  +++     +     +
Sbjct: 7   ENIKKYRKSMNLTQEELAEAFGVTVGAVSKWESGANVPDILTLMQLADFFSISVDVLLGY 66

Query: 75  DVSPTVCSDISS------EENNVMDFISTPDGLQLNRY 106
            +S     DIS        E+   + I+  +   L RY
Sbjct: 67  SMSSKNIKDISDRLDALLHEDKYDEAIAEAEK-ALARY 103


>gi|296129256|ref|YP_003636506.1| transcriptional regulator, XRE family [Cellulomonas flavigena DSM
          20109]
 gi|296021071|gb|ADG74307.1| transcriptional regulator, XRE family [Cellulomonas flavigena DSM
          20109]
          Length = 75

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/67 (31%), Positives = 27/67 (40%), Gaps = 1/67 (1%)

Query: 15 VGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          V  RIR  R   G M+Q +L   LG+T Q V   E+G           I+  L  P+   
Sbjct: 8  VTNRIRALRTERGDMTQAELARHLGVTRQTVIAIEQGRYSPSLETAFQIARALGVPLDEV 67

Query: 74 FDVSPTV 80
          FD     
Sbjct: 68 FDYPDDA 74


>gi|291287070|ref|YP_003503886.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
 gi|290884230|gb|ADD67930.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
          Length = 196

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 32/65 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R+R  R   G++ + +    G +   + + E  +     + L  I++VL   +++
Sbjct: 6  VKIGERVRKIRNERGLTLQDVANFTGFSKALISQIENNIVMPPINTLSKIAKVLNVKMTY 65

Query: 73 FFDVS 77
          FF+  
Sbjct: 66 FFEEE 70


>gi|218510037|ref|ZP_03507915.1| hypothetical protein RetlB5_22605 [Rhizobium etli Brasil 5]
          Length = 167

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/121 (22%), Positives = 53/121 (43%), Gaps = 10/121 (8%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFFDVS 77
           ++  R   G+S+  +   LG++     +YE+  +++  +R+ H+ E+L   PI   F+ +
Sbjct: 50  LKKTREAQGLSRADVAPMLGLSIPVYGRYERAFSKMTVTRMIHLCEILGFMPIDMIFEAA 109

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTIE 137
           P +    S E  +          L L R   ++ +   R  I  L R I   ++  R I 
Sbjct: 110 PHLWGRTSEEAEDC---------LTLARILRRLPNGTTRDLIRLLQRMIPDDDESDRDIS 160

Query: 138 E 138
           +
Sbjct: 161 D 161


>gi|154484069|ref|ZP_02026517.1| hypothetical protein EUBVEN_01780 [Eubacterium ventriosum ATCC
          27560]
 gi|149735111|gb|EDM50997.1| hypothetical protein EUBVEN_01780 [Eubacterium ventriosum ATCC
          27560]
          Length = 177

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 38/76 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK+I+  R++ G++QE+L +   +T   + + E+       + L  I + L + +  
Sbjct: 1  MDIGKKIKELRILKGLTQEELADRAELTKGFISQVERNHTSPSIATLVDILQCLGTDLKN 60

Query: 73 FFDVSPTVCSDISSEE 88
          FF+         S E+
Sbjct: 61 FFEDDEDNQIVFSKED 76


>gi|229083904|ref|ZP_04216210.1| Helix-turn-helix domain protein [Bacillus cereus Rock3-44]
 gi|228699402|gb|EEL52081.1| Helix-turn-helix domain protein [Bacillus cereus Rock3-44]
          Length = 262

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 30/71 (42%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  + Q + K+E G       +L  I  + E  + +   
Sbjct: 4  GEKLFKLRKEKGLSQEALAEKLNTSRQAISKWENGQGFPETEKLLMIGNIFEVSVDYLLK 63

Query: 76 VSPTVCSDISS 86
           +    ++   
Sbjct: 64 DTAKQSNENEP 74


>gi|190889915|ref|YP_001976457.1| transcriptional regulator protein, LacI family [Rhizobium etli CIAT
           652]
 gi|190695194|gb|ACE89279.1| probable transcriptional regulator protein, LacI family [Rhizobium
           etli CIAT 652]
          Length = 189

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 37/92 (40%), Gaps = 2/92 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R+  G++ + L    G++   + + E+      AS L  I   L   +S FF
Sbjct: 9   IGIRIRKLRLEKGLTLDDLATASGVSRAMISRIERAEASPTASLLARICAALGLSLSAFF 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                  S ++  ++        P+   L R 
Sbjct: 69  AEEGQQASPLARRQD--QQVWRDPETGYLRRS 98


>gi|256847452|ref|ZP_05552898.1| transcriptional regulator [Lactobacillus coleohominis 101-4-CHN]
 gi|256716116|gb|EEU31091.1| transcriptional regulator [Lactobacillus coleohominis 101-4-CHN]
          Length = 110

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/112 (19%), Positives = 43/112 (38%), Gaps = 12/112 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +I   R    MSQ  L + +  + Q + K+E G +   +S +  I+        +  
Sbjct: 2   IGDKIHELRTQKRMSQTDLAKAIHASQQAITKWENGKSEPSSSVINSIANYFNVSTDYLL 61

Query: 75  DVSPTVCSDIS-SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
             +     D   S+   ++ +   PD              + R  IIE+V++
Sbjct: 62  GRTSEKLPDKDLSKNQKLIAYSIDPDT-----------SDEERDAIIEMVQA 102


>gi|218513526|ref|ZP_03510366.1| probable transcriptional regulator protein, LacI family [Rhizobium
           etli 8C-3]
          Length = 219

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 37/92 (40%), Gaps = 2/92 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R+  G++ + L    G++   + + E+      AS L  I   L   +S FF
Sbjct: 9   IGIRIRKLRLEKGLTLDDLATASGVSRAMISRIERAEASPTASLLARICAALGLSLSAFF 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                  S ++  ++        P+   L R 
Sbjct: 69  AEEGQQASPLARRQD--QQVWRDPETGYLRRS 98


>gi|310829026|ref|YP_003961383.1| transcriptional regulator [Eubacterium limosum KIST612]
 gi|308740760|gb|ADO38420.1| transcriptional regulator [Eubacterium limosum KIST612]
          Length = 232

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 35/74 (47%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + ++  +G ++R+ R +  +S +++   +G +   + KYE G   +  S L  I+  L  
Sbjct: 4  DSLNAQIGAQVRMYRKMAKISIDEMARTIGKSRATISKYETGAIGMDVSTLFEIASTLNI 63

Query: 69 PISFFFDVSPTVCS 82
           +S   D+     +
Sbjct: 64 GVSHLLDIPKEDKT 77


>gi|149003610|ref|ZP_01828475.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP14-BS69]
 gi|147758342|gb|EDK65342.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP14-BS69]
          Length = 287

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/96 (28%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +  +   Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRN-YENLEYIYRIE 98


>gi|300933761|ref|ZP_07149017.1| putative transcriptional regulator RamB [Corynebacterium resistens
           DSM 45100]
          Length = 497

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 25/132 (18%), Positives = 47/132 (35%), Gaps = 16/132 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG R+R  R    +SQ +L E LGI+   V + E     +  + L  ++       +F
Sbjct: 6   VFVGSRLRELRKDRSLSQAQLAEKLGISASYVNQIEHNSRPLTLAVLDKLTATFGVDATF 65

Query: 73  FFDVSPT----VCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           F     T       D+  +       +   +   L +                L R++V 
Sbjct: 66  FSRGDATRLLAEVQDVVHDREVCPTPVDVAELADLVKNHPT------------LARAMVE 113

Query: 129 SEKKYRTIEEEC 140
              +YR + ++ 
Sbjct: 114 MHSRYRNVSDKL 125


>gi|288353334|ref|YP_003422632.1| protein of unknown function DUF955 [Zymomonas mobilis subsp.
          mobilis ZM4]
 gi|285026735|gb|ADC33829.1| protein of unknown function DUF955 [Zymomonas mobilis subsp.
          mobilis ZM4]
          Length = 401

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 35/57 (61%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R++  R  + +SQE+LG+ +G++ Q + ++E+G     A  L  I  VL+ PI FF
Sbjct: 26 ERLKDARKFMRLSQEELGKEIGVSRQAISQFERGDRNPDARTLVGIQSVLKQPIEFF 82


>gi|195978893|ref|YP_002124137.1| hypothetical protein Sez_1797 [Streptococcus equi subsp.
           zooepidemicus MGCS10565]
 gi|195975598|gb|ACG63124.1| hypothetical protein Sez_1797 [Streptococcus equi subsp.
           zooepidemicus MGCS10565]
          Length = 189

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 25/106 (23%), Positives = 47/106 (44%), Gaps = 8/106 (7%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+  R+  G +Q++L + +G+T Q +   EKG       RLQ I+  L   I   F  + 
Sbjct: 17  IKNARLKAGKTQKELAKLIGVTKQTIINDEKGTTEPSWDRLQEIATALNVDIDTLFPYN- 75

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV-RQKIIELV 123
                    E     ++   + L+ N  + ++ + +V  QKI++  
Sbjct: 76  ------MLGEKRDFKWMEHLERLENNWLYSRMAEEEVLLQKILDFA 115


>gi|84515424|ref|ZP_01002786.1| transcriptional regulator, putative [Loktanella vestfoldensis
           SKA53]
 gi|84510707|gb|EAQ07162.1| transcriptional regulator, putative [Loktanella vestfoldensis
           SKA53]
          Length = 456

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 23/133 (17%), Positives = 50/133 (37%), Gaps = 14/133 (10%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++   G RIR +RM +G+ Q  L   +GI+   +   E    R+G   L  ++  L    
Sbjct: 27  IERMTGTRIREKRMDIGLRQASLASAVGISPSYLNLIEHNRRRIGGKLLTDLARALGVDP 86

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR----QKIIEL-VRS 125
           S     +     D       +   ++     ++ R     +++  R      +I L  R 
Sbjct: 87  SHLAGGADRDLLDQLHSAATLAGDMA-----EIARA----EELAARFPGWAGLIALQARR 137

Query: 126 IVSSEKKYRTIEE 138
           +   +++   + +
Sbjct: 138 LAVLDERIGALTD 150


>gi|229489782|ref|ZP_04383639.1| transcriptional regulator, XRE family [Rhodococcus erythropolis
          SK121]
 gi|229323292|gb|EEN89056.1| transcriptional regulator, XRE family [Rhodococcus erythropolis
          SK121]
          Length = 211

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 34/81 (41%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   K+   PV   +G R++  R    ++ + L E  G+T   + K E+       + L 
Sbjct: 1  MAKAKEAVEPVGPRIGARLKAARQSKRLTLDDLAEACGVTKGYLSKLERDHVNASVATLI 60

Query: 61 HISEVLESPISFFFDVSPTVC 81
           +  VLE P+   F+ +    
Sbjct: 61 KVCAVLEIPVGSLFENASAGE 81


>gi|227498382|ref|ZP_03928532.1| conserved hypothetical protein [Acidaminococcus sp. D21]
 gi|226903844|gb|EEH89762.1| conserved hypothetical protein [Acidaminococcus sp. D21]
          Length = 249

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 29/124 (23%), Positives = 52/124 (41%), Gaps = 9/124 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G +I+  R+   M+ + L E +  +   + KYEKG   +  S L  I+  L  P++ 
Sbjct: 5   KEIGSKIKFYRIQKHMTIKDLAESICKSQATLYKYEKGQIALDLSVLYDIASALSIPVTA 64

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRSIVSSEK 131
                P    ++++    V  F S   GL     F        ++KI E L+  I  +E+
Sbjct: 65  LLYEPPLPKKEMAASI--VPAFFS---GLT---SFYAYTYDGRQKKIRESLIECIQKAEE 116

Query: 132 KYRT 135
              +
Sbjct: 117 TDSS 120


>gi|253750928|ref|YP_003024069.1| DNA-binding protein [Streptococcus suis SC84]
 gi|253752827|ref|YP_003025967.1| DNA-binding protein [Streptococcus suis P1/7]
 gi|251815217|emb|CAZ50781.1| putative DNA-binding protein [Streptococcus suis SC84]
 gi|251819072|emb|CAR44086.1| putative DNA-binding protein [Streptococcus suis P1/7]
 gi|319757177|gb|ADV69119.1| putative DNA-binding protein [Streptococcus suis JS14]
          Length = 119

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            + ++IR+ R    +SQ++L E L I+ Q V K+E G       +L  ++E+    + +
Sbjct: 2  KQLAQQIRVLRTAKNLSQDELAEKLYISRQAVSKWENGEATPDIDKLVQLAEIFGVSLDY 61

Query: 73 F 73
           
Sbjct: 62 L 62


>gi|162454793|ref|YP_001617160.1| putative transcriptional regulator [Sorangium cellulosum 'So ce
           56']
 gi|161165375|emb|CAN96680.1| putative transcriptional regulator [Sorangium cellulosum 'So ce
           56']
          Length = 357

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG  +R  R   G+S E+L +  G++   + + E G +    + L  I+  L  P S
Sbjct: 177 VGANLRRLRTKRGLSLERLAKASGVSRAMLSQIELGQSTPTINVLWKIARALGVPFS 233


>gi|148998484|ref|ZP_01825925.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP11-BS70]
 gi|168576644|ref|ZP_02722510.1| transcriptional activator [Streptococcus pneumoniae MLV-016]
 gi|307068564|ref|YP_003877530.1| putative transcriptional regulator [Streptococcus pneumoniae AP200]
 gi|147755677|gb|EDK62723.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP11-BS70]
 gi|183577638|gb|EDT98166.1| transcriptional activator [Streptococcus pneumoniae MLV-016]
 gi|306410101|gb|ADM85528.1| Predicted transcriptional regulator [Streptococcus pneumoniae
           AP200]
          Length = 287

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +   L  Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRNYDDL-EYIYRIE 98


>gi|237745238|ref|ZP_04575719.1| phage transcriptional repressor [Fusobacterium sp. 7_1]
 gi|229432467|gb|EEO42679.1| phage transcriptional repressor [Fusobacterium sp. 7_1]
          Length = 204

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 34/71 (47%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G++I   R    ++Q++L + L I+ Q +  YE    ++    L  I+   + PI  F
Sbjct: 3  NIGEKIIFLRKKNKITQDELADALEISKQSILNYETEKRQIPIDVLSKIATFFKIPIEAF 62

Query: 74 FDVSPTVCSDI 84
          F  +     +I
Sbjct: 63 FSDNYDNFEEI 73


>gi|146319855|ref|YP_001199566.1| transcriptional regulator [Streptococcus suis 98HAH33]
 gi|145690661|gb|ABP91166.1| Predicted transcriptional regulator [Streptococcus suis 98HAH33]
 gi|292557469|gb|ADE30470.1| Helix-turn-helix motif-containing protein [Streptococcus suis
          GZ1]
          Length = 121

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            + ++IR+ R    +SQ++L E L I+ Q V K+E G       +L  ++E+    + +
Sbjct: 4  KQLAQQIRVLRTAKNLSQDELAEKLYISRQAVSKWENGEATPDIDKLVQLAEIFGVSLDY 63

Query: 73 F 73
           
Sbjct: 64 L 64


>gi|89255372|ref|NP_659801.2| hypothetical protein RHE_PD00237 [Rhizobium etli CFN 42]
 gi|190894245|ref|YP_001984539.1| hypothetical protein RHECIAT_PB0000282 [Rhizobium etli CIAT 652]
 gi|218682580|ref|ZP_03530181.1| hypothetical protein RetlC8_27503 [Rhizobium etli CIAT 894]
 gi|89213326|gb|AAM54815.2| hypothetical protein RHE_PD00237 [Rhizobium etli CFN 42]
 gi|190699906|gb|ACE93989.1| hypothetical conserved protein [Rhizobium etli CIAT 652]
          Length = 167

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/121 (22%), Positives = 53/121 (43%), Gaps = 10/121 (8%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFFDVS 77
           ++  R   G+S+  +   LG++     +YE+  +++  +R+ H+ E+L   PI   F+ +
Sbjct: 50  LKKTREAQGLSRADVAPMLGLSIPVYGRYERAFSKMTVTRMIHLCEILGFMPIDMIFEAA 109

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTIE 137
           P +    S E  +          L L R   ++ +   R  I  L R I   ++  R I 
Sbjct: 110 PHLWGRTSEEAEDC---------LTLARILRRLPNGTTRDLIRLLQRMIPDDDESDRGIS 160

Query: 138 E 138
           +
Sbjct: 161 D 161


>gi|332299188|ref|YP_004441110.1| helix-turn-helix domain protein [Treponema brennaborense DSM
          12168]
 gi|332182291|gb|AEE17979.1| helix-turn-helix domain protein [Treponema brennaborense DSM
          12168]
          Length = 165

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 40/85 (47%), Gaps = 2/85 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++GK+I   R   G++Q++L E L ++ Q V K+E  V+    + L  ++ VL   +  
Sbjct: 4  ISIGKKIAELRKAKGLTQDELSEQLNVSPQAVSKWENDVSYPDITLLPKLAAVLGVTVDD 63

Query: 73 FF--DVSPTVCSDISSEENNVMDFI 95
                 P       ++  NV D +
Sbjct: 64 LLTPGKQPETKLVPQADRKNVDDMM 88


>gi|260437610|ref|ZP_05791426.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
 gi|292809963|gb|EFF69168.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
          Length = 108

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 30/69 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RIR  R   GMSQE+L E L      +  YE     + +S +  I++ L    S+  +
Sbjct: 11 GTRIREMRKAAGMSQEQLAEILCTKKATISAYENDHIDIKSSIVLEIAKALNCSGSYLLE 70

Query: 76 VSPTVCSDI 84
                 D+
Sbjct: 71 GKKAEALDV 79


>gi|326790508|ref|YP_004308329.1| hypothetical protein Clole_1405 [Clostridium lentocellum DSM
          5427]
 gi|326541272|gb|ADZ83131.1| helix-turn-helix domain protein [Clostridium lentocellum DSM
          5427]
          Length = 159

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 34/63 (53%), Gaps = 1/63 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFF 74
          G++++  R    +SQ++L E  G++   +Q+ E G  N      L  I++VL++P+    
Sbjct: 3  GEKLKQLRKEKKISQKELAELSGLSISYIQQIESGKKNNPSLEALTAIAKVLDTPMYHLL 62

Query: 75 DVS 77
          D S
Sbjct: 63 DES 65


>gi|194397893|ref|YP_002038537.1| transcriptional activator [Streptococcus pneumoniae G54]
 gi|194357560|gb|ACF56008.1| transcriptional activator, putative [Streptococcus pneumoniae G54]
          Length = 287

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +   L  Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRNYEDL-EYIYRIE 98


>gi|15901770|ref|NP_346374.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           TIGR4]
 gi|15903805|ref|NP_359355.1| transcriptional activator [Streptococcus pneumoniae R6]
 gi|116517204|ref|YP_817168.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           D39]
 gi|168484245|ref|ZP_02709197.1| transcriptional activator [Streptococcus pneumoniae CDC1873-00]
 gi|221232674|ref|YP_002511828.1| transcriptional regulator [Streptococcus pneumoniae ATCC 700669]
 gi|14973451|gb|AAK76014.1| putative transcriptional regulator PlcR [Streptococcus pneumoniae
           TIGR4]
 gi|15459444|gb|AAL00566.1| Transcriptional activator [Streptococcus pneumoniae R6]
 gi|116077780|gb|ABJ55500.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           D39]
 gi|172042485|gb|EDT50531.1| transcriptional activator [Streptococcus pneumoniae CDC1873-00]
 gi|220675136|emb|CAR69719.1| putative transcriptional regulator [Streptococcus pneumoniae ATCC
           700669]
 gi|332199372|gb|EGJ13449.1| helix-turn-helix family protein [Streptococcus pneumoniae GA47368]
          Length = 287

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 29/96 (30%), Positives = 50/96 (52%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               V S++S+ ++     +   +   L  Y  +I+
Sbjct: 64  EQIEVKSNLSNFKHLSARLLDDRNYDDL-EYLYKIE 98


>gi|19745754|ref|NP_606890.1| repressor protein [Streptococcus pyogenes MGAS8232]
 gi|139474145|ref|YP_001128861.1| phage repressor protein [Streptococcus pyogenes str. Manfredo]
 gi|306827718|ref|ZP_07460990.1| phage transcriptional repressor [Streptococcus pyogenes ATCC
          10782]
 gi|19747895|gb|AAL97389.1| putative repressor protein [Streptococcus pyogenes MGAS8232]
 gi|134272392|emb|CAM30648.1| putative phage repressor protein [Streptococcus pyogenes str.
          Manfredo]
 gi|304430036|gb|EFM33073.1| phage transcriptional repressor [Streptococcus pyogenes ATCC
          10782]
          Length = 254

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 34/76 (44%), Gaps = 2/76 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R   G++Q++L   + +    +  YEKG      + L  ++  L   I  
Sbjct: 8  LYIGSKIKELRKNKGLTQKELAILVNMGDTTIANYEKGFRTPKKNTLFKLANALSVTIDD 67

Query: 73 FFDVSPTVCSDISSEE 88
           F   P   SD +S E
Sbjct: 68 LF--PPIKKSDKTSHE 81


>gi|78046656|ref|YP_362831.1| XRE family transcriptional regulator [Xanthomonas campestris pv.
           vesicatoria str. 85-10]
 gi|78035086|emb|CAJ22731.1| putative transcriptional regulator, XRE family [Xanthomonas
           campestris pv. vesicatoria str. 85-10]
          Length = 118

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 40/96 (41%), Gaps = 7/96 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQ-----QVQKYEKGVNRVGASRLQHISEVLESPI 70
           G+R+R  R+ LG+ Q  LG  LG+  Q     ++ +YE G +         +++ L  P+
Sbjct: 19  GRRLRTARLSLGLRQADLGRMLGMEEQNTGAPRISRYETGQHDPDPETAAELAQALGLPL 78

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           ++F+     +   I        D     + +   R 
Sbjct: 79  AYFYATPDMLAEAILLIAKLPED--RQQEAIAALRA 112


>gi|294497044|ref|YP_003560744.1| transcriptional regulator [Bacillus megaterium QM B1551]
 gi|294346981|gb|ADE67310.1| transcriptional regulator [Bacillus megaterium QM B1551]
          Length = 180

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 39/78 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+I+  R+  G++QE+LGE   ++   + + E+ ++         I EVL      
Sbjct: 1  MEIGKKIKNLRLKKGLTQEELGERTDLSKGYISQLERDLSSPSLETFFSILEVLGCEPKE 60

Query: 73 FFDVSPTVCSDISSEENN 90
          FF++   V   +  EE+ 
Sbjct: 61 FFEIDTHVQKVVYREEDY 78


>gi|225855439|ref|YP_002736951.1| transcriptional activator [Streptococcus pneumoniae JJA]
 gi|225723117|gb|ACO18970.1| transcriptional activator [Streptococcus pneumoniae JJA]
          Length = 287

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 29/96 (30%), Positives = 50/96 (52%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               V S++S+ ++     +   +   L  Y  +I+
Sbjct: 64  EQIEVKSNLSNFKHLSARLLDDRNYDDL-EYLYKIE 98


>gi|303239088|ref|ZP_07325618.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
 gi|302593426|gb|EFL63144.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
          Length = 67

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 29/61 (47%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+   VG+ IR  R    MSQE+L    G T + + + E G        L +I+  L+ P
Sbjct: 2  PIRKEVGQNIRKERDRKRMSQEELAGLAGTTQEYISRIENGTRNPSMDLLYNIAGALKCP 61

Query: 70 I 70
          +
Sbjct: 62 V 62


>gi|295102328|emb|CBK99873.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Faecalibacterium prausnitzii L2-6]
          Length = 208

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 41/78 (52%), Gaps = 1/78 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          D ++  RIR RR  L +SQE+L   +G  +   + K EKG+N +  ++L+ ++  L++  
Sbjct: 3  DTDLSSRIRQRREQLSLSQEELAARMGYRSKSSITKLEKGINDLPRAKLEELAAALDTTP 62

Query: 71 SFFFDVSPTVCSDISSEE 88
          ++   ++   C     E 
Sbjct: 63 AWLMGLADLPCPPPGFEP 80


>gi|295704048|ref|YP_003597123.1| transcriptional regulator [Bacillus megaterium DSM 319]
 gi|294801707|gb|ADF38773.1| transcriptional regulator [Bacillus megaterium DSM 319]
          Length = 291

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 1/69 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R + G++Q++L   +  T  Q+ K E G     +  L  IS+ L   +++FF
Sbjct: 6  IGSVMRDLRKMAGLTQQELSRDI-CTQAQISKIENGEEYPSSITLYKISKRLGVDVNYFF 64

Query: 75 DVSPTVCSD 83
          D   +   D
Sbjct: 65 DSVESPRLD 73


>gi|269928987|ref|YP_003321308.1| transcriptional regulator of molybdate metabolism, XRE family
          [Sphaerobacter thermophilus DSM 20745]
 gi|269788344|gb|ACZ40486.1| transcriptional regulator of molybdate metabolism, XRE family
          [Sphaerobacter thermophilus DSM 20745]
          Length = 378

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 3/76 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  ++R RR+  G+SQ+ L E  G+T Q V   E G      +    ++  L  P+   F
Sbjct: 10 VESQVRERRIAAGLSQQALAERAGLTRQAVSAIEAGRYLPNTAVALRLARALGCPVEELF 69

Query: 75 ---DVSPTVCSDISSE 87
             DV P V +D+  +
Sbjct: 70 RLPDVPPRVRADLVGD 85


>gi|237713408|ref|ZP_04543889.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262406781|ref|ZP_06083330.1| transcriptional regulator [Bacteroides sp. 2_1_22]
 gi|229446647|gb|EEO52438.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262355484|gb|EEZ04575.1| transcriptional regulator [Bacteroides sp. 2_1_22]
          Length = 136

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 26/117 (22%), Positives = 54/117 (46%), Gaps = 17/117 (14%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP---- 69
           ++G++I   R + GM+Q  LG+ LGIT Q V K E+   ++   R++ +++ L       
Sbjct: 11  HIGRKIERIRRLRGMTQTDLGDLLGITKQAVSKMEQSE-KIEDERIKRVADALGVTEEGL 69

Query: 70  -----------ISFFFDVSPTVCSDISSEEN-NVMDFISTPDGLQLNRYFIQIDDVK 114
                       + F++ S    ++I +  N   ++  S    ++L    ++I+  K
Sbjct: 70  KKFTEETVLYYTNNFYENSNATATNIGTISNLENINHFSMEQAVKLFEELLKIEREK 126


>gi|167749402|ref|ZP_02421529.1| hypothetical protein EUBSIR_00356 [Eubacterium siraeum DSM 15702]
 gi|167657574|gb|EDS01704.1| hypothetical protein EUBSIR_00356 [Eubacterium siraeum DSM 15702]
          Length = 124

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 19/91 (20%), Positives = 36/91 (39%), Gaps = 2/91 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G+R++  R+  GM+QE+L E + +T   +  YE          +  I+ V      +
Sbjct: 20  VKFGERVKQLRLSAGMTQEQLAERIWVTKAAISNYELSERNPSPETIIKIAGVFGVTTDY 79

Query: 73  FFDVSPTVCS--DISSEENNVMDFISTPDGL 101
              +        DIS      + F+ +   L
Sbjct: 80  LLGLEDKRSRTLDISGLCEEDIRFLQSAAAL 110


>gi|160933444|ref|ZP_02080832.1| hypothetical protein CLOLEP_02290 [Clostridium leptum DSM 753]
 gi|156867321|gb|EDO60693.1| hypothetical protein CLOLEP_02290 [Clostridium leptum DSM 753]
          Length = 169

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/105 (26%), Positives = 50/105 (47%), Gaps = 11/105 (10%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + I+  R   G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S     
Sbjct: 4   ENIKAIRKSKGLSQQELAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVSTL--- 60

Query: 77  SPTVCSDISSEENNVMDFISTP-DGLQLNRYFIQIDDVKVRQKII 120
              +   +   E + +  IS   + + L           +R+KII
Sbjct: 61  ---LGEAVVETEADTLKAISEKLEVINLQLA----QKKTMRRKII 98


>gi|303254120|ref|ZP_07340235.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           BS455]
 gi|302598953|gb|EFL65984.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           BS455]
          Length = 287

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +   L  Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRNYDDL-EYIYRIE 98


>gi|319892096|ref|YP_004148971.1| transcriptional regulator, MerR family, near polyamine
          transporter [Staphylococcus pseudintermedius HKU10-03]
 gi|317161792|gb|ADV05335.1| transcriptional regulator, MerR family, near polyamine
          transporter [Staphylococcus pseudintermedius HKU10-03]
          Length = 179

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 32/77 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R +  ++QE+LGE   ++   + + E            +I EVL +    
Sbjct: 1  MEIGQKIKNLRRLKNLTQEELGERTDLSKGYISQIESNKTSPNMETFLNILEVLGTSPRD 60

Query: 73 FFDVSPTVCSDISSEEN 89
          FFD            E 
Sbjct: 61 FFDDKQVAKVHYPKSEQ 77


>gi|261207860|ref|ZP_05922545.1| conserved hypothetical protein [Enterococcus faecium TC 6]
 gi|289566605|ref|ZP_06447025.1| conserved hypothetical protein [Enterococcus faecium D344SRF]
 gi|260078243|gb|EEW65949.1| conserved hypothetical protein [Enterococcus faecium TC 6]
 gi|289161595|gb|EFD09475.1| conserved hypothetical protein [Enterococcus faecium D344SRF]
          Length = 203

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/100 (22%), Positives = 43/100 (43%), Gaps = 9/100 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+  RI+  R   G+SQE+L + +G++ Q V K+E   +     ++  +S+       +
Sbjct: 1   MNMSDRIQYLRKTKGISQEELADKVGVSRQAVSKWESEQSTPDLEKVIIMSDFFGVTTDY 60

Query: 73  FFDVSPTV--CSDISSEENNVMDFISTPDGLQLNRYFIQI 110
                  V      S E  + + +IS+         F+ I
Sbjct: 61  ILKGIEPVNDKEQKSKEIASKILYISST-------AFVAI 93


>gi|197302037|ref|ZP_03167098.1| hypothetical protein RUMLAC_00765 [Ruminococcus lactaris ATCC
           29176]
 gi|197298846|gb|EDY33385.1| hypothetical protein RUMLAC_00765 [Ruminococcus lactaris ATCC
           29176]
          Length = 336

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 42/94 (44%), Gaps = 4/94 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ + ++I   R   G SQE+L E L ++ Q V K+E   +     +L  ++++ E   
Sbjct: 1   MDMILSEKIAEERKKNGWSQEELAEKLSVSRQAVSKWESASSVPDLQKLLRMAKIFEVST 60

Query: 71  SFFF--DVSPTVCSDISS--EENNVMDFISTPDG 100
            +    ++       IS    E+ V   +S  + 
Sbjct: 61  DYLLKDEMGKEEVEKISDYRTEDTVYRNVSMEEA 94


>gi|83940972|gb|ABC48877.1| hypothetical protein [Enterococcus faecium]
          Length = 203

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/100 (22%), Positives = 43/100 (43%), Gaps = 9/100 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+  RI+  R   G+SQE+L + +G++ Q V K+E   +     ++  +S+       +
Sbjct: 1   MNMSDRIQYLRKTKGISQEELADKVGVSRQAVSKWESEQSTPDLEKVIIMSDFFGVTTDY 60

Query: 73  FFDVSPTV--CSDISSEENNVMDFISTPDGLQLNRYFIQI 110
                  V      S E  + + +IS+         F+ I
Sbjct: 61  ILKGIEPVNDKEQKSKEIASKILYISST-------AFVAI 93


>gi|327389117|gb|EGE87463.1| helix-turn-helix family protein [Streptococcus pneumoniae GA04375]
          Length = 287

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/96 (28%), Positives = 48/96 (50%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +      Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRN-YDNLEYIYRIE 98


>gi|323464795|gb|ADX76948.1| transcriptional regulator, Cro/CI family [Staphylococcus
          pseudintermedius ED99]
          Length = 179

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 32/77 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R +  ++QE+LGE   ++   + + E            +I EVL +    
Sbjct: 1  MEIGQKIKNLRRLKNLTQEELGERTDLSKGYISQIESNKTSPNMETFLNILEVLGTSPRD 60

Query: 73 FFDVSPTVCSDISSEEN 89
          FFD            E 
Sbjct: 61 FFDDKQVAKVHYPKSEQ 77


>gi|307287627|ref|ZP_07567670.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|306501365|gb|EFM70668.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|315165024|gb|EFU09041.1| helix-turn-helix protein [Enterococcus faecalis TX1302]
          Length = 183

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3  INTIIGNNLKKIRQEKKLTLDELAGITGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          ++  +      + +  +   V  
Sbjct: 63 TYLLEGDYVKENPVVKKTETVTQ 85


>gi|294850380|ref|ZP_06791112.1| conserved hypothetical protein [Staphylococcus aureus A9754]
 gi|294822723|gb|EFG39160.1| conserved hypothetical protein [Staphylococcus aureus A9754]
          Length = 197

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/97 (20%), Positives = 44/97 (45%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  IR  R    M+QE++   LG+T   V K+E G +    + L  I+ +L+  +    
Sbjct: 3   IGDVIREYRKRKNMTQEQMANYLGVTAPAVNKWENGNSLPDITLLAPIARLLDISLDTLL 62

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               T+ ++  ++    +DF    +      ++ +++
Sbjct: 63  SFHETLSNEEINKIITELDFKLREETYDEAFHYAKLN 99


>gi|228994922|ref|ZP_04154700.1| Transcriptional regulator, Cro/CI [Bacillus pseudomycoides DSM
           12442]
 gi|228764824|gb|EEM13600.1| Transcriptional regulator, Cro/CI [Bacillus pseudomycoides DSM
           12442]
          Length = 116

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 25/120 (20%), Positives = 53/120 (44%), Gaps = 22/120 (18%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I+  R    ++QE+LG  +G++   +  +EKG    G   L+ I++       +  
Sbjct: 2   IGEKIKELRKNNKITQEQLGNAIGVSKMAISYFEKGKKSPGRESLEKIADYFGVTTDYL- 60

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            +  +   ++S EEN ++    T +G                + I+ L+ S+   E+K  
Sbjct: 61  -LGRSEDPELSEEENKIV----TEEG----------------KNILALIESLPEDERKKA 99


>gi|223933458|ref|ZP_03625443.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
 gi|330831854|ref|YP_004400679.1| XRE family transcriptional regulator [Streptococcus suis ST3]
 gi|223897896|gb|EEF64272.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
 gi|329306077|gb|AEB80493.1| transcriptional regulator, XRE family [Streptococcus suis ST3]
          Length = 121

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 30/57 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++IR+ R    +SQ++L E L I+ Q V K+E G       +L  ++E+    + + 
Sbjct: 6  QQIRILRTAKNLSQDELAEKLYISRQAVSKWENGEATPDIDKLVQLAEIFGVSLDYL 62


>gi|153955922|ref|YP_001396687.1| hypothetical protein CKL_3313 [Clostridium kluyveri DSM 555]
 gi|219856264|ref|YP_002473386.1| hypothetical protein CKR_2921 [Clostridium kluyveri NBRC 12016]
 gi|146348780|gb|EDK35316.1| Hypothetical protein CKL_3313 [Clostridium kluyveri DSM 555]
 gi|219569988|dbj|BAH07972.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 80

 Score = 62.1 bits (150), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R  LGM+   L E +G+    + K E          L  I+E L +  S   
Sbjct: 2  LGTKIREYRKSLGMTATSLAEKVGVELATISKIENNKANPSMPTLYKIAEALNTTPSELI 61

Query: 75 DVSPTVCSDISSE 87
            +     +I+SE
Sbjct: 62 KDTEIKSFNINSE 74


>gi|307709969|ref|ZP_07646416.1| transcriptional regulator [Streptococcus mitis SK564]
 gi|307619340|gb|EFN98469.1| transcriptional regulator [Streptococcus mitis SK564]
          Length = 287

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/96 (28%), Positives = 48/96 (50%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +      Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRN-YDNLEYIYRIE 98


>gi|302391895|ref|YP_003827715.1| XRE family transcriptional regulator [Acetohalobium arabaticum
          DSM 5501]
 gi|302203972|gb|ADL12650.1| transcriptional regulator, XRE family [Acetohalobium arabaticum
          DSM 5501]
          Length = 184

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 36/83 (43%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D+N+G ++   R   G S  KL E   ++   + + E+G +      L  I++ L   
Sbjct: 3  DIDLNIGTKLHQIRKKKGYSLSKLEEVTEVSKSMLGQIERGTSNPTVKTLWKIAKGLNVS 62

Query: 70 ISFFFDVSPTVCSDISSEENNVM 92
           S F +   +  S +S  +   +
Sbjct: 63 FSTFIEEESSEVSIVSPADTKPL 85


>gi|212710259|ref|ZP_03318387.1| hypothetical protein PROVALCAL_01318 [Providencia alcalifaciens DSM
           30120]
 gi|212687066|gb|EEB46594.1| hypothetical protein PROVALCAL_01318 [Providencia alcalifaciens DSM
           30120]
          Length = 125

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 26/81 (32%), Positives = 38/81 (46%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  IR  R+   ++ E+LG  L I+ QQ+ +YE+G+  V    L  I   L    S FF
Sbjct: 23  VGSFIREARLNCSLTGEELGRMLHISQQQISRYERGITSVSIETLDAILNKLGKDWSDFF 82

Query: 75  DVSPTVCSDISSEENNVMDFI 95
                  SD  +E     +F+
Sbjct: 83  FKVIANYSDEVAEIKLQDNFL 103


>gi|67078396|ref|YP_246013.1| DNA-binding protein [Bacillus cereus E33L]
 gi|66970702|gb|AAY60674.1| possible transcriptional regulator [Bacillus cereus E33L]
          Length = 143

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 31/82 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G +++  R   G SQE L   + ++ Q V K+E G N      +  +S++    I  
Sbjct: 1  MFFGDKLKKEREKKGWSQEYLATKIHVSRQSVSKWETGKNYPSIGVIIDLSDLFGITIDE 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
                 +   I  +     D 
Sbjct: 61 LLRSDGELKEKIIQDSKGSTDL 82


>gi|302388210|ref|YP_003824032.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
 gi|302198838|gb|ADL06409.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
          Length = 177

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 37/68 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +++  R++ G++QE+L +   ++   + + E+ +     + L  I + L + +  
Sbjct: 1  MDIGAKLKELRVLKGLTQEELADRAELSKGFISQLERDLTSPSIATLLDILQCLGTSVGE 60

Query: 73 FFDVSPTV 80
          FF+ SP  
Sbjct: 61 FFNESPEE 68


>gi|323339906|ref|ZP_08080175.1| DNA-binding protein [Lactobacillus ruminis ATCC 25644]
 gi|323092779|gb|EFZ35382.1| DNA-binding protein [Lactobacillus ruminis ATCC 25644]
          Length = 179

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 36/79 (45%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+GKR++  R+  G +QE++ E L ++ Q +  +E G        +  +S++ +  +  
Sbjct: 45  LNIGKRLKDARIESGYTQEQVAEQLDVSRQTISSWENGRTFPDIVSVVSLSDIYDVSLDV 104

Query: 73  FFDVSPTVCSDISSEENNV 91
                  +   +    N V
Sbjct: 105 LIKGDEKMLEHLEESTNIV 123


>gi|226366458|ref|YP_002784241.1| Xre family DNA-binding protein [Rhodococcus opacus B4]
 gi|226244948|dbj|BAH55296.1| putative Xre family DNA-binding protein [Rhodococcus opacus B4]
          Length = 184

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/117 (17%), Positives = 36/117 (30%), Gaps = 18/117 (15%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G  +R  R   GMS  ++    G+    + + E G        L  +   L+ P+S  
Sbjct: 9   YIGPSLRRERERSGMSLTEVARRAGVAKSTLSQLESGGGNPSVETLWALCVALDVPMSQL 68

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLN--RYFIQID-----DVKVRQKIIELV 123
            D                +  I   +G +L   R   +           R+ +  L 
Sbjct: 69  LD-----------PPRPRVQVIRADEGPELTSDRADYRATLVASCPPSARRDLYRLA 114


>gi|322806814|emb|CBZ04383.1| DNA-binding protein [Clostridium botulinum H04402 065]
          Length = 92

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R++  R     +QE+LG+ L ++ Q +  YE G      S L  I+ +    + + 
Sbjct: 3  GDRLKELREEKEFTQEELGKFLNVSRQTISGYESGAIEPSISNLVKIANIFNVSLDYL 60


>gi|317502031|ref|ZP_07960214.1| XRE family Transcriptional regulator [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|316896573|gb|EFV18661.1| XRE family Transcriptional regulator [Lachnospiraceae bacterium
          8_1_57FAA]
          Length = 293

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 30/55 (54%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++I+  R   G+SQEK+ E +G++ Q + K+E G      + L  I+ + +  + 
Sbjct: 5  EQIKYYRKQAGLSQEKMAEKIGVSRQAITKWENGTGTPDIANLMAIANLFQISVD 59


>gi|313897846|ref|ZP_07831387.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312957381|gb|EFR39008.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 223

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I +VL    +  
Sbjct: 10 FLGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNYPTFDTLEKIMDVLGVTPN-- 67

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
           ++       I   E  +MD I
Sbjct: 68 -ELLSGEWKYIDHTEPYIMDII 88


>gi|326390746|ref|ZP_08212299.1| helix-turn-helix domain protein [Thermoanaerobacter ethanolicus
          JW 200]
 gi|325993140|gb|EGD51579.1| helix-turn-helix domain protein [Thermoanaerobacter ethanolicus
          JW 200]
          Length = 160

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 2/75 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI+  R   G++Q+ L   LG++ + V  YE          LQ I++     + +  
Sbjct: 2  LGKRIKELRKKKGLTQKDLALYLGVSDRAVGYYENEQRTPPPDILQKIADFFNVSVDYLL 61

Query: 75 D--VSPTVCSDISSE 87
              +P+   + S E
Sbjct: 62 GRTDNPSEIKNFSKE 76


>gi|227892275|ref|ZP_04010080.1| DNA-binding protein [Lactobacillus salivarius ATCC 11741]
 gi|227865916|gb|EEJ73337.1| DNA-binding protein [Lactobacillus salivarius ATCC 11741]
          Length = 211

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 48/114 (42%), Gaps = 15/114 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK I  RR  L  +Q  L + LGIT + V K+E G +   AS +  + ++LE  ++   
Sbjct: 14  IGKFIAKRRKDLHFTQANLAKKLGITDRAVSKWENGKSIPDASLMLDLCQLLEINVNELL 73

Query: 75  DVSPTVCSDISS-EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                V  D     E N+++  +  +                 ++++  V+ + 
Sbjct: 74  TGEQIVMKDYKKIAEQNLIELRNQKEKAD--------------RRLLTTVKILA 113


>gi|223985560|ref|ZP_03635614.1| hypothetical protein HOLDEFILI_02920 [Holdemania filiformis DSM
           12042]
 gi|223962467|gb|EEF66925.1| hypothetical protein HOLDEFILI_02920 [Holdemania filiformis DSM
           12042]
          Length = 174

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 25/129 (19%), Positives = 52/129 (40%), Gaps = 9/129 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ +RL R   G+SQE LG+ L ++   + +YE        + L  ++E+     ++  
Sbjct: 19  LGENLRLLREERGISQEALGQDLSLSDGAISRYENNAAEPDINTLFGMAEIFGVDFNYLL 78

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
           D    V            D +     ++L   F Q      ++ I  L + +   ++ + 
Sbjct: 79  DYHGHV--------RKSQDIVLQNKDVELLTCFHQ-CSSGHQRVIRMLAKELARQDRLWP 129

Query: 135 TIEEECMVE 143
            + E   +E
Sbjct: 130 KLTELTSLE 138


>gi|168186644|ref|ZP_02621279.1| helix-turn-helix domain protein [Clostridium botulinum C str.
          Eklund]
 gi|169295453|gb|EDS77586.1| helix-turn-helix domain protein [Clostridium botulinum C str.
          Eklund]
          Length = 210

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 38/75 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G+RI++ R+   ++Q +L +  GI+   +  YE+G        L +IS+ L   I+ 
Sbjct: 1  MNLGERIKMLRLEKNLTQSELAKIAGISRVAIGNYERGTRIPNIDILLNISKALGVTINN 60

Query: 73 FFDVSPTVCSDISSE 87
            +    + +  ++ 
Sbjct: 61 LLEFDVKLDNGGTAS 75


>gi|148985532|ref|ZP_01818721.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP3-BS71]
 gi|148990157|ref|ZP_01821397.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP6-BS73]
 gi|149007428|ref|ZP_01831071.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP18-BS74]
 gi|168492078|ref|ZP_02716221.1| transcriptional activator [Streptococcus pneumoniae CDC0288-04]
 gi|225857528|ref|YP_002739039.1| transcriptional activator [Streptococcus pneumoniae P1031]
 gi|307128154|ref|YP_003880185.1| transcriptional activator [Streptococcus pneumoniae 670-6B]
 gi|147761000|gb|EDK67969.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP18-BS74]
 gi|147922252|gb|EDK73373.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP3-BS71]
 gi|147924551|gb|EDK75639.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP6-BS73]
 gi|183573649|gb|EDT94177.1| transcriptional activator [Streptococcus pneumoniae CDC0288-04]
 gi|225724859|gb|ACO20711.1| transcriptional activator [Streptococcus pneumoniae P1031]
 gi|301800717|emb|CBW33365.1| putative transcriptional regulator [Streptococcus pneumoniae
           OXC141]
 gi|306485216|gb|ADM92085.1| transcriptional activator [Streptococcus pneumoniae 670-6B]
 gi|332071931|gb|EGI82419.1| helix-turn-helix family protein [Streptococcus pneumoniae GA17545]
 gi|332072142|gb|EGI82628.1| helix-turn-helix family protein [Streptococcus pneumoniae GA41301]
 gi|332199268|gb|EGJ13346.1| helix-turn-helix family protein [Streptococcus pneumoniae GA41317]
          Length = 287

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +   L  Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRNYDDL-EYIYRIE 98


>gi|126732539|ref|ZP_01748337.1| transcriptional regulator, putative [Sagittula stellata E-37]
 gi|126706985|gb|EBA06053.1| transcriptional regulator, putative [Sagittula stellata E-37]
          Length = 433

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 33/81 (40%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P D   G RIR +R+  GM Q +L +  GI+   +   E    R+G   L  I++ L   
Sbjct: 2  PRDTLTGSRIREKRIAQGMRQSELAKIAGISASYLNLIEHNRRRIGGKLLLEIADALSVE 61

Query: 70 ISFFFDVSPTVCSDISSEENN 90
           +   + +         E  +
Sbjct: 62 PTHLTEGAGAALIAGLREAAS 82


>gi|329767054|ref|ZP_08258582.1| hypothetical protein HMPREF0428_00279 [Gemella haemolysans M341]
 gi|328837779|gb|EGF87404.1| hypothetical protein HMPREF0428_00279 [Gemella haemolysans M341]
          Length = 181

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 1/90 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R++  R+   ++QE+LGE   ++   + + E+ +         +I +VL      FF
Sbjct: 4   IGERLKRLRIQKNLTQEELGERTDLSKGYISQVERDLASPSMETFFNILQVLGCAPKDFF 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           D   T      S E+    +  T +G +L 
Sbjct: 64  DKESTSQKVYYSLEDQ-TSYEETDEGYELT 92


>gi|284006697|emb|CBA71956.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 237

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 34/71 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  RIR RR  L ++Q ++ + LG++   V K+E G  +     L  +++VL   I +  
Sbjct: 21 ISNRIRDRRKELRLTQNEIAKALGVSRVSVTKWENGDTKPDGENLHILTKVLACNIEWLL 80

Query: 75 DVSPTVCSDIS 85
              +   D +
Sbjct: 81 YGKDSRSEDDT 91


>gi|54308994|ref|YP_130014.1| putative transcriptional regulator [Photobacterium profundum SS9]
 gi|46913424|emb|CAG20212.1| putative transcriptional regulator [Photobacterium profundum SS9]
          Length = 101

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/92 (29%), Positives = 49/92 (53%), Gaps = 9/92 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R   G+SQ++LG  LG+       ++  YEKG +    + L+ I++ L  P+S+F
Sbjct: 10  RLKEARKAAGISQKELGIRLGMDPSSASGRMNHYEKGRHMPDIATLRRIADELGVPLSYF 69

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           F       SD S++   +++ +S  D  +L R
Sbjct: 70  F-----CDSDNSAKLACLIEKLSEEDKKELIR 96


>gi|317488245|ref|ZP_07946813.1| hypothetical protein HMPREF1023_00511 [Eggerthella sp. 1_3_56FAA]
 gi|316912657|gb|EFV34198.1| hypothetical protein HMPREF1023_00511 [Eggerthella sp. 1_3_56FAA]
          Length = 197

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/64 (32%), Positives = 32/64 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           N G  IR  R   G++Q +L + LG+T + V K+E+G        L  +SE L +P+  
Sbjct: 4  RNTGTLIRALREERGLTQRQLADALGVTDKAVSKWERGGGCPDIELLPGLSERLGTPVET 63

Query: 73 FFDV 76
            D 
Sbjct: 64 LLDG 67


>gi|256823110|ref|YP_003147073.1| XRE family transcriptional regulator [Kangiella koreensis DSM
          16069]
 gi|256796649|gb|ACV27305.1| transcriptional regulator, XRE family [Kangiella koreensis DSM
          16069]
          Length = 175

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 22/84 (26%), Positives = 41/84 (48%), Gaps = 3/84 (3%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF---FD 75
          +R  R+  G SQE+L E  G++ + +Q+ E+G  +      + ++ V E  I+ F     
Sbjct: 3  VRKLRLKRGWSQEQLAELTGVSTRTIQRIERGQTKPSLETQKSLAAVFEVDIATFEPSLS 62

Query: 76 VSPTVCSDISSEENNVMDFISTPD 99
          +  T   D+S+ + N  +    PD
Sbjct: 63 MDSTGEPDMSTTDTNATEPKQQPD 86


>gi|257791038|ref|YP_003181644.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|257474935|gb|ACV55255.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
          Length = 197

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/64 (32%), Positives = 32/64 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           N G  IR  R   G++Q +L + LG+T + V K+E+G        L  +SE L +P+  
Sbjct: 4  RNTGTLIRALREERGLTQRQLADALGVTDKAVSKWERGGGCPDIELLPGLSERLGTPVET 63

Query: 73 FFDV 76
            D 
Sbjct: 64 LLDG 67


>gi|225870539|ref|YP_002746486.1| phage repressor-like protein [Streptococcus equi subsp. equi 4047]
 gi|225699943|emb|CAW93888.1| putative phage repressor-like protein [Streptococcus equi subsp.
           equi 4047]
          Length = 232

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 39/86 (45%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G +++  R+   +SQE+LG+ LG+    +  +EK  NR      + +  + + P  +F+ 
Sbjct: 6   GIQLKTARLSRHISQEQLGQLLGVNKMTISNWEKEKNRPNQKHFEELVSIFQLPAEYFYQ 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL 101
            +  +        +N    IS  + L
Sbjct: 66  ENRLLLPYSQLSASNKEKVISYSESL 91


>gi|169833072|ref|YP_001695308.1| transcriptional activator [Streptococcus pneumoniae Hungary19A-6]
 gi|168995574|gb|ACA36186.1| transcriptional activator [Streptococcus pneumoniae Hungary19A-6]
          Length = 287

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/96 (28%), Positives = 48/96 (50%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +      Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRN-YDNLEYIYRIE 98


>gi|53748387|emb|CAH58723.1| hypothetical protein [Clostridium sp. RKD]
          Length = 114

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/90 (18%), Positives = 36/90 (40%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+ I   R    ++QE+L   +GI+   V K+E G +    + L  I+      I  
Sbjct: 4   LLIGEVIYRLRKEKAITQEQLANFIGISTAAVSKWESGTSYPDITLLPVIATFFNVTIDT 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
             +    +  +   +  N  + + +   L 
Sbjct: 64  LLNFKIQLSDEEVMDIFNKCEKLFSSGDLD 93


>gi|325266458|ref|ZP_08133135.1| LexA family repressor/S24 family protease [Kingella denitrificans
           ATCC 33394]
 gi|324981901|gb|EGC17536.1| LexA family repressor/S24 family protease [Kingella denitrificans
           ATCC 33394]
          Length = 217

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/94 (18%), Positives = 39/94 (41%), Gaps = 8/94 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+RI+  R    ++Q  L + + G++   + ++E  + +  A  L  +S V     ++ 
Sbjct: 5   IGQRIKQMRKERHLTQNDLAKKIQGVSHAAISQWEADLTKPNADNLYDLSLVFNCDFAWL 64

Query: 74  FDVSPTVCS-----DISSEENNVMDFISTPDGLQ 102
                   +     DIS       D++   + L+
Sbjct: 65  LRGGSGNVTQHELLDISKIPVVSYDYL--KEILE 96


>gi|322377175|ref|ZP_08051667.1| putative transcriptional regulator PlcR [Streptococcus sp. M334]
 gi|321281888|gb|EFX58896.1| putative transcriptional regulator PlcR [Streptococcus sp. M334]
          Length = 287

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/96 (28%), Positives = 48/96 (50%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +      Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRN-YDNLEYIYRIE 98


>gi|240144766|ref|ZP_04743367.1| toxin-antitoxin system, antitoxin component, Xre family
          [Roseburia intestinalis L1-82]
 gi|257203287|gb|EEV01572.1| toxin-antitoxin system, antitoxin component, Xre family
          [Roseburia intestinalis L1-82]
          Length = 94

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 13/74 (17%), Positives = 32/74 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++++  R+   ++Q++L + LG+    +  YE          L   + +      +
Sbjct: 1  MNLGEKLKQLRLEKNLTQKQLADRLGVAISAISSYESDTRCPTFDTLIKYARIFHVSTDY 60

Query: 73 FFDVSPTVCSDISS 86
             + P    D+S 
Sbjct: 61 LLGLEPIHTLDVSG 74


>gi|212640460|ref|YP_002316980.1| putative xre family transcriptional regulator [Anoxybacillus
           flavithermus WK1]
 gi|212561940|gb|ACJ34995.1| Predicted transcriptional regulator, xre family [Anoxybacillus
           flavithermus WK1]
          Length = 162

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/109 (18%), Positives = 45/109 (41%), Gaps = 2/109 (1%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G++IR  R     +QE+L + L ++  +V K+E G        +  +S++      F 
Sbjct: 29  HIGEQIRRLRNAHDWTQEQLAQRLNVSRSKVSKWENGEVLPDLQSIIDMSDLFRVSTDFL 88

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
               PT    +            + + L + RY    +  ++ +++  L
Sbjct: 89  LGKHPTDEQLLQEVRLAYGTNDMSDEQLSVIRYMN--EQPRLAKRLYAL 135


>gi|210635071|ref|ZP_03298410.1| hypothetical protein COLSTE_02340 [Collinsella stercoris DSM 13279]
 gi|210158511|gb|EEA89482.1| hypothetical protein COLSTE_02340 [Collinsella stercoris DSM 13279]
          Length = 226

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/84 (21%), Positives = 35/84 (41%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G RIR  R I GMSQ+ L   + ++ Q +  +E G        L  +SE+  + +  
Sbjct: 18  MKIGGRIRELRAIHGMSQDDLAARVYVSRQTISSWENGKTYPDVQSLLLLSEIFGASVDS 77

Query: 73  FFDVSPTVCSDISSEENNVMDFIS 96
                    ++    +   M  ++
Sbjct: 78  LIKGDVNAMNETIDRDAKTMKRLT 101


>gi|169333918|ref|ZP_02861111.1| hypothetical protein ANASTE_00304 [Anaerofustis stercorihominis DSM
           17244]
 gi|169259483|gb|EDS73449.1| hypothetical protein ANASTE_00304 [Anaerofustis stercorihominis DSM
           17244]
          Length = 155

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 40/87 (45%), Gaps = 8/87 (9%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G++I   R  + ++Q++L E L ++ Q + K+E  +    A +L+ +++ L   I +   
Sbjct: 12  GEKIAKARKNISLTQDQLAEVLDVSRQTISKWESDIAYPEAGKLKLLADTLNVSIDYLLK 71

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
                      EE  + +   T +G +
Sbjct: 72  DE--------VEETKIPEMKQTSNGYE 90


>gi|307708163|ref|ZP_07644630.1| transcriptional regulator [Streptococcus mitis NCTC 12261]
 gi|307615609|gb|EFN94815.1| transcriptional regulator [Streptococcus mitis NCTC 12261]
          Length = 225

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 44/86 (51%), Gaps = 6/86 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++ +R  LG+ Q++L E +G++ Q   K+EKG+++     +  + +VL+ P  +  +  
Sbjct: 6  KLKQKREELGLEQQELAELIGVSKQAYFKWEKGLSKPTKVNIAKLEKVLKIPEGYLSEDE 65

Query: 78 PTVCSDISSEEN------NVMDFIST 97
           +      +E N       V D +S+
Sbjct: 66 ISSLYKQLTEPNQEKAITYVRDLLSS 91


>gi|295107575|emb|CBL05118.1| Helix-turn-helix. [Gordonibacter pamelaeae 7-10-1-b]
          Length = 143

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/121 (23%), Positives = 56/121 (46%), Gaps = 14/121 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG++I+  R   G + ++L E LGI+   ++KYE G        +  I+  LE   S 
Sbjct: 1   MKVGEKIQRIRKERGYTADQLAEMLGISAVSLRKYEYGERTPKDPMIDEIARCLEVNPS- 59

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK-IIELVRSIVSSEK 131
                 ++ SD  S+ N+ +  +      +L   F  ++ +KV    ++ L   + S ++
Sbjct: 60  ------SLKSDWGSDANDAIHML-----FELEEAFC-LEPIKVGGTVVLALPEDLGSEDQ 107

Query: 132 K 132
           +
Sbjct: 108 E 108


>gi|197284938|ref|YP_002150810.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227355341|ref|ZP_03839742.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|194682425|emb|CAR42298.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227164565|gb|EEI49436.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 91

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 35/70 (50%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +  + +  +   G  I+ +R  LG++ + L   L ++ QQ+ +YE G   +  + L  I 
Sbjct: 12 SVSMSDFFNKKTGLFIKYKRKELGLTGQDLAIILNVSQQQISRYENGTTNITVTLLNKIL 71

Query: 64 EVLESPISFF 73
           +L+S  S F
Sbjct: 72 MILDSSWSEF 81


>gi|37528124|ref|NP_931469.1| hypothetical protein plu4293 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36787561|emb|CAE16665.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 78

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 23/72 (31%), Positives = 33/72 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN V    G+R+R  R   GMSQE   +  GI    +   E+GV       +  I+  
Sbjct: 2  KKPNAVKFLFGQRVRYFRQSSGMSQEAFADKCGIDRTYISGIERGVRNPTLEIINIIASG 61

Query: 66 LESPISFFFDVS 77
          L+  ++  FD S
Sbjct: 62 LQIELTDLFDFS 73


>gi|329298588|ref|ZP_08255924.1| LexA repressor [Plautia stali symbiont]
          Length = 211

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 34/74 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L ++Q+ L   +G++   V ++EK         L  ++E+L+   ++  D
Sbjct: 8  GERIRQRRKALKLTQQALANGIGVSHVAVSQWEKEETVPRGKHLLRLAELLQCSAAWIID 67

Query: 76 VSPTVCSDISSEEN 89
                +   +   
Sbjct: 68 GDGQPFASTHASPA 81


>gi|19551915|ref|NP_599917.1| transcriptional regulator [Corynebacterium glutamicum ATCC 13032]
 gi|62389574|ref|YP_224976.1| transcriptional regulator [Corynebacterium glutamicum ATCC 13032]
 gi|41324909|emb|CAF19390.1| transcriptional regulator [Corynebacterium glutamicum ATCC 13032]
          Length = 124

 Score = 62.1 bits (150), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 35/89 (39%), Gaps = 6/89 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR------VGASRLQHISEVLESPI 70
            R++  R + G SQE+L +  G++   +  YE+  N          S +  +++ L+ P 
Sbjct: 15  SRLKKLRTLRGFSQEELADLSGVSRNTISNYERNENNKGNAVDPQLSNIYRLAQALDVPP 74

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPD 99
                      + I  +E   +D     +
Sbjct: 75  IALMPAGSVPVAKICVDETAAIDVRWPSE 103


>gi|182416964|ref|ZP_02625290.2| putative phage repressor [Clostridium butyricum 5521]
 gi|237666135|ref|ZP_04526122.1| putative phage repressor [Clostridium butyricum E4 str. BoNT E
           BL5262]
 gi|182379140|gb|EDT76642.1| putative phage repressor [Clostridium butyricum 5521]
 gi|237658225|gb|EEP55778.1| putative phage repressor [Clostridium butyricum E4 str. BoNT E
           BL5262]
          Length = 198

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 32/122 (26%), Positives = 55/122 (45%), Gaps = 13/122 (10%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRL 59
           M  NKK+       +  RI+ RR  L +S E L +  G     +Q+YE G  NR+   R 
Sbjct: 1   MNDNKKM-----REIVARIKKRREELNLSYEDLSKRTGFGSSTLQRYETGAINRIPIDRF 55

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           + +++ LE                +S +  N  D     D + L+  F+++++   R+KI
Sbjct: 56  EELAKGLEIEPYKLMGWDEDYL--LSQDRKNETDG----DIVDLHNAFLKLNETG-RKKI 108

Query: 120 IE 121
           +E
Sbjct: 109 LE 110


>gi|167767646|ref|ZP_02439699.1| hypothetical protein CLOSS21_02179 [Clostridium sp. SS2/1]
 gi|167710663|gb|EDS21242.1| hypothetical protein CLOSS21_02179 [Clostridium sp. SS2/1]
 gi|291560781|emb|CBL39581.1| Predicted transcriptional regulators [butyrate-producing
          bacterium SSC/2]
          Length = 204

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 29/65 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R   G+SQE+L + +G++ Q V K+E   +     ++  +S+       +     
Sbjct: 6  RIQYLRKSKGISQEELADKVGVSRQAVSKWESEQSTPDLEKIIIMSDFFGVTTDYILKGI 65

Query: 78 PTVCS 82
            V  
Sbjct: 66 EPVAD 70


>gi|307243365|ref|ZP_07525525.1| toxin-antitoxin system, antitoxin component, Xre family
          [Peptostreptococcus stomatis DSM 17678]
 gi|306493257|gb|EFM65250.1| toxin-antitoxin system, antitoxin component, Xre family
          [Peptostreptococcus stomatis DSM 17678]
          Length = 104

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 29/59 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+L R    M+Q  L   L +T   + KYE G+       L+ +S++ E  + + 
Sbjct: 4  LGNRIKLLRKEFNMTQTDLANRLNLTKSNISKYENGIVEPSLDILRSMSDLFEVSVDYL 62


>gi|229134433|ref|ZP_04263246.1| Helix-turn-helix domain protein [Bacillus cereus BDRD-ST196]
 gi|228649054|gb|EEL05076.1| Helix-turn-helix domain protein [Bacillus cereus BDRD-ST196]
          Length = 277

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 33/80 (41%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I 
Sbjct: 7  GKKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIG 66

Query: 64 EVLESPISFFFDVSPTVCSD 83
           V E  + +    +    ++
Sbjct: 67 NVFEVSLDYLLKETAEQSNE 86


>gi|227519769|ref|ZP_03949818.1| transcriptional regulator [Enterococcus faecalis TX0104]
 gi|227072857|gb|EEI10820.1| transcriptional regulator [Enterococcus faecalis TX0104]
          Length = 183

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 22/126 (17%), Positives = 48/126 (38%), Gaps = 6/126 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3   INTIIGNNLKKIRQEKKLTLDELAGITGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           ++  +      + +  +   V             R F    D + R    EL +  + S 
Sbjct: 63  TYLLEDDYVKENPVVKKTETVTQHSEDHS----YRVFNYYSDNQKRN--FELFQFELDSG 116

Query: 131 KKYRTI 136
           KKY+ +
Sbjct: 117 KKYQAV 122


>gi|325830857|ref|ZP_08164241.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|325487264|gb|EGC89707.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 197

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 22/74 (29%), Positives = 34/74 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           N G  IR  R   G++Q +L + LG+T + V K+E+G        L  +SE L +P+  
Sbjct: 4  RNTGTLIRALREERGLTQRQLADALGVTDKAVSKWERGGGCPDVELLPGLSERLGTPVET 63

Query: 73 FFDVSPTVCSDISS 86
            D    V +    
Sbjct: 64 LLDGRLAVDARTGG 77


>gi|167465684|ref|ZP_02330773.1| Predicted transcriptional regulator with an addtional conserved
          domain [Paenibacillus larvae subsp. larvae BRL-230010]
          Length = 355

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 32/79 (40%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +  N     +  R+   R   G +   L   + I+ Q + KYEK         L+ +S+ 
Sbjct: 2  EASNRFSKFIPDRLIEAREARGFTLTDLANIVEISHQAISKYEKEKATPNHDTLEKLSDA 61

Query: 66 LESPISFFFDVSPTVCSDI 84
          L  P+++F+   P     +
Sbjct: 62 LHVPVTYFYKSYPKKVDGV 80


>gi|160894531|ref|ZP_02075307.1| hypothetical protein CLOL250_02083 [Clostridium sp. L2-50]
 gi|156863842|gb|EDO57273.1| hypothetical protein CLOL250_02083 [Clostridium sp. L2-50]
          Length = 118

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 34/79 (43%), Gaps = 1/79 (1%)

Query: 11 VDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D  + G+R+R  R   GM+Q +LGE  G+  + + + E G   V       +    + P
Sbjct: 7  IDKEMFGQRLREIRKKHGMTQAELGEKTGLADKYISRIETGKADVSLDCFVKLVNAFDVP 66

Query: 70 ISFFFDVSPTVCSDISSEE 88
            ++   S +    +   E
Sbjct: 67 ADYYLQDSISYDYKVEGGE 85


>gi|296395188|ref|YP_003660072.1| XRE family transcriptional regulator [Segniliparus rotundus DSM
           44985]
 gi|296182335|gb|ADG99241.1| transcriptional regulator, XRE family [Segniliparus rotundus DSM
           44985]
          Length = 204

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 29/124 (23%), Positives = 49/124 (39%), Gaps = 19/124 (15%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVL 66
           D  +G RI+  R   G+ Q  L + +       T Q V K E G   +       I+ +L
Sbjct: 18  DRMIGSRIKELREARGLPQSALADAVNTRGERFTQQIVGKIENGQRSLKYQEAILIAHIL 77

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             P+  F+ ++    +D  +E +   D         LNR   + D     + + EL+ +I
Sbjct: 78  RVPVGVFW-MTGESATDEYAELDVKFD--------NLNRVASRAD-----RALWELLEAI 123

Query: 127 VSSE 130
              E
Sbjct: 124 AEVE 127


>gi|227355761|ref|ZP_03840154.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|227164080|gb|EEI48977.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 76

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/48 (37%), Positives = 31/48 (64%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          M+  +LG+ L I+ QQ+ +YE+G+N++    L HI  + +  IS FF+
Sbjct: 1  MTGAELGKLLNISQQQISRYERGINKIPIDILFHILNIFDISISDFFE 48


>gi|255690854|ref|ZP_05414529.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides finegoldii DSM 17565]
 gi|260623486|gb|EEX46357.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides finegoldii DSM 17565]
          Length = 132

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 24/67 (35%), Positives = 37/67 (55%), Gaps = 4/67 (5%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          + N K  +   +++GK+I   R + GM+Q +LGE LGIT Q V K E    ++   RL+ 
Sbjct: 4  IENIKSNH---LHLGKKIERVRRLRGMTQTELGELLGITKQAVSKME-QTEKIDDERLEK 59

Query: 62 ISEVLES 68
          I+  L  
Sbjct: 60 IASALGV 66


>gi|77745351|gb|ABB02576.1| putative transcriptional regulator [Lactobacillus reuteri]
          Length = 234

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 30/73 (41%), Gaps = 8/73 (10%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  NKK P+        RI   R   G++ +++ + +G+    + +YE G         Q
Sbjct: 1  MSENKK-PH-------NRIAELRKEKGLTLQQVADAIGVGNNTISRYETGKREPKLETWQ 52

Query: 61 HISEVLESPISFF 73
           +S   +  + + 
Sbjct: 53 KLSNYFDVTVYYL 65


>gi|331088392|ref|ZP_08337309.1| hypothetical protein HMPREF1025_00892 [Lachnospiraceae bacterium
           3_1_46FAA]
 gi|330408267|gb|EGG87747.1| hypothetical protein HMPREF1025_00892 [Lachnospiraceae bacterium
           3_1_46FAA]
          Length = 336

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/90 (20%), Positives = 30/90 (33%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+L   LG++ Q V K+E         R+  +SE+      +     
Sbjct: 6   KITEERKKNGWSQEELANQLGVSRQAVSKWESAGAVPDLQRILQMSELFGVSTDYLLKDE 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYF 107
               +    E             ++    F
Sbjct: 66  MQAENITYHESTESYAEPLKKVTMENANEF 95


>gi|266619410|ref|ZP_06112345.1| transcriptional regulator, Cro/CI family [Clostridium hathewayi
          DSM 13479]
 gi|288869037|gb|EFD01336.1| transcriptional regulator, Cro/CI family [Clostridium hathewayi
          DSM 13479]
          Length = 177

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 37/68 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +++  R++ G++QE+L +   ++   + + E+ +     + L  I + L + I  
Sbjct: 1  MDIGAKLKELRILKGLTQEELADRAELSKGFISQLERDLTSPSIATLMDILQCLGTSIGE 60

Query: 73 FFDVSPTV 80
          FF+ +P  
Sbjct: 61 FFNETPEE 68


>gi|221640096|ref|YP_002526358.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
          KD131]
 gi|221160877|gb|ACM01857.1| Transcriptional regulator, XRE family [Rhodobacter sphaeroides
          KD131]
          Length = 211

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 33/69 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+R  R  L +S   L E  G++   + + E+G+ R     ++ IS+ L  P  +  
Sbjct: 7  IGQRLRQIRKNLALSLSGLSERSGVSVGTLSQLERGLGRPSLRTIERISQALGVPPFWLL 66

Query: 75 DVSPTVCSD 83
          ++      +
Sbjct: 67 EMPDQHNPE 75


>gi|206576130|ref|YP_002237033.1| DNA-binding protein [Klebsiella pneumoniae 342]
 gi|206565188|gb|ACI06964.1| DNA-binding protein [Klebsiella pneumoniae 342]
          Length = 189

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/95 (18%), Positives = 36/95 (37%), Gaps = 1/95 (1%)

Query: 1  MVGNKK-IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M  +++  P  + +N+G +IR  R   G+S   L +  G++   + K E G +      L
Sbjct: 1  MADSERDKPAALSLNIGSKIRRLRQSRGISLNDLSKLSGVSKGALSKLESGSSSPRVDTL 60

Query: 60 QHISEVLESPISFFFDVSPTVCSDISSEENNVMDF 94
            I+  L  P+         +            ++
Sbjct: 61 DAIATALRLPVGDLLSGGSRMYPRFEKHRPVPGEY 95


>gi|188581450|ref|YP_001924895.1| XRE family transcriptional regulator [Methylobacterium populi
          BJ001]
 gi|179344948|gb|ACB80360.1| transcriptional regulator, XRE family [Methylobacterium populi
          BJ001]
          Length = 201

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 30/65 (46%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P++  +G ++R+ R    +S   LG   GI+   + K E G      + +  I+  L  P
Sbjct: 15 PLEKALGHQVRVLRRERDLSVADLGSAAGISPGMISKIENGAISPSLASINAIASALNVP 74

Query: 70 ISFFF 74
          I+  F
Sbjct: 75 ITALF 79


>gi|90962310|ref|YP_536226.1| DNA-binding protein [Lactobacillus salivarius UCC118]
 gi|90821504|gb|ABE00143.1| DNA-binding protein [Lactobacillus salivarius UCC118]
          Length = 203

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 48/114 (42%), Gaps = 15/114 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK I  RR  L  +Q  L + LGIT + V K+E G +   AS +  + ++LE  ++   
Sbjct: 6   IGKFIAKRRKDLHFTQANLAKKLGITDRAVSKWENGKSIPDASLMLDLCQLLEINVNELL 65

Query: 75  DVSPTVCSDISS-EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                V  D     E N+++  +  +                 ++++  V+ + 
Sbjct: 66  TGEQIVMKDYKKIAEQNLIELRNQKEKAD--------------RRLLTTVKILA 105


>gi|68537028|ref|YP_251733.1| putative transcriptional regulator RamB [Corynebacterium jeikeium
           K411]
 gi|260579374|ref|ZP_05847256.1| DNA-binding protein [Corynebacterium jeikeium ATCC 43734]
 gi|68264627|emb|CAI38115.1| putative transcriptional regulator RamB [Corynebacterium jeikeium
           K411]
 gi|258602503|gb|EEW15798.1| DNA-binding protein [Corynebacterium jeikeium ATCC 43734]
          Length = 501

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 26/105 (24%), Positives = 43/105 (40%), Gaps = 11/105 (10%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G+SQ +L E L ++   V + E     + A+ L+ I+       +FF
Sbjct: 21  FVGSRLRQLRKERGISQARLAEILDLSASYVNQIEHDGRPLTAAVLERITAAFGVDPTFF 80

Query: 74  FDVSP----------TVCSDISSEENNVMDFIS-TPDGLQLNRYF 107
            D             T+  +IS    +V +  +   +   L R F
Sbjct: 81  ADQDSTRLLAEVQDVTLDPEISPTPADVTELAALVKNHPDLARAF 125


>gi|117922291|ref|YP_871483.1| XRE family transcriptional regulator [Shewanella sp. ANA-3]
 gi|117614623|gb|ABK50077.1| transcriptional regulator, XRE family [Shewanella sp. ANA-3]
          Length = 103

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 22/78 (28%), Positives = 39/78 (50%), Gaps = 10/78 (12%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGA 56
          M      P P+      R++  R   G+SQ++LG  LG+       ++ +YEKG +    
Sbjct: 1  MADKIINPLPL------RLKQARTAKGISQKQLGIQLGMEVGTASARMNQYEKGKHTPDY 54

Query: 57 SRLQHISEVLESPISFFF 74
            L+ I++ L  P+++FF
Sbjct: 55 QTLKAIADELGVPVAYFF 72


>gi|293376903|ref|ZP_06623120.1| DNA-binding protein [Turicibacter sanguinis PC909]
 gi|292644449|gb|EFF62542.1| DNA-binding protein [Turicibacter sanguinis PC909]
          Length = 192

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 40/82 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R   G+SQE+L E L ++ Q V K+E          LQ I+++    +  
Sbjct: 3  MTLGEKIKKYRQAGGLSQEQLSEKLSVSRQAVTKWESDKGIPDIHNLQAIAKLFNVSLDS 62

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
             +   + S +  EE ++  +
Sbjct: 63 LLAMDEKIGSIVLKEEIDIEKY 84


>gi|145294858|ref|YP_001137679.1| hypothetical protein cgR_0805 [Corynebacterium glutamicum R]
 gi|140844778|dbj|BAF53777.1| hypothetical protein [Corynebacterium glutamicum R]
          Length = 124

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 35/89 (39%), Gaps = 6/89 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR------VGASRLQHISEVLESPI 70
            R++  R + G SQE+L +  G++   +  YE+  N          S +  +++ L+ P 
Sbjct: 15  SRLKKLRTLRGFSQEELADLSGVSRNTISNYERNENNKGNAVDPQLSNIYRLAQALDVPP 74

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPD 99
                      + I  +E   +D     +
Sbjct: 75  IVLMPAGSVPVAKICVDETAAIDVRWPSE 103


>gi|325291680|ref|YP_004277544.1| transcriptional regulator [Agrobacterium sp. H13-3]
 gi|325059533|gb|ADY63224.1| transcriptional regulator [Agrobacterium sp. H13-3]
          Length = 197

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 24/115 (20%), Positives = 48/115 (41%), Gaps = 7/115 (6%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ N+   + ++ ++G RI+  R   G++ ++L    G++   + + E+G     AS L 
Sbjct: 5   MMENED--HILERSIGDRIKTLRAQNGLTLDRLAAESGVSRAMISRIERGEASPTASLLA 62

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
            I   L   +S FF       S +  + +        P+   + R    I   +V
Sbjct: 63  RICAALGLSLSGFFAEDEEAVSPLVKKRD--QQLWKDPETGYVRRA---ISPPRV 112


>gi|315651060|ref|ZP_07904094.1| XRE family transcriptional regulator [Eubacterium saburreum DSM
           3986]
 gi|315486650|gb|EFU76998.1| XRE family transcriptional regulator [Eubacterium saburreum DSM
           3986]
          Length = 166

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/99 (21%), Positives = 43/99 (43%), Gaps = 2/99 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-FF 74
           G+ I+  R   G++Q+++ + LGI+ Q   +YE+         LQ+I++ L+  +    +
Sbjct: 6   GENIKRIRKSKGLTQKEVAKKLGISQQSFAQYERIDAIPKFKTLQNIADALDVSVGDIIY 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPD-GLQLNRYFIQIDD 112
           D        +      + D     + G +    F+ I D
Sbjct: 66  DGPKDKSRYLIEFTKYLYDHGFKYEYGDESLAAFMGIGD 104


>gi|312127026|ref|YP_003991900.1| XRE family transcriptional regulator [Caldicellulosiruptor
          hydrothermalis 108]
 gi|311777045|gb|ADQ06531.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          hydrothermalis 108]
          Length = 267

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 23/91 (25%), Positives = 37/91 (40%), Gaps = 9/91 (9%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R    ++Q +L E LGI    +  YE GV +     LQ I+   +    +   +S
Sbjct: 9  RLKELREEANLTQNELAEKLGIGRATLSNYELGVRKPDIDTLQKIAMYFDVSSDYLLGIS 68

Query: 78 PTVCSD-------ISSEEN--NVMDFISTPD 99
               D       I+ EEN   + DF    +
Sbjct: 69 SIKKRDFLNSLGKITKEENIKELKDFFKNKE 99


>gi|257871225|ref|ZP_05650878.1| transcriptional regulator [Enterococcus gallinarum EG2]
 gi|257805389|gb|EEV34211.1| transcriptional regulator [Enterococcus gallinarum EG2]
          Length = 346

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 34/67 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ IR  R   G++QE+L + LG+T   V K+EKG +      L  I+ +L+  +  
Sbjct: 1  MEMGEVIRQYRKKKGLTQEELAKRLGVTAPAVNKWEKGHSHPDILLLAPIARLLDISLDT 60

Query: 73 FFDVSPT 79
           F     
Sbjct: 61 LFSFEKE 67


>gi|182684890|ref|YP_001836637.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           CGSP14]
 gi|303260328|ref|ZP_07346298.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP-BS293]
 gi|303262476|ref|ZP_07348418.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP14-BS292]
 gi|303265106|ref|ZP_07351019.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           BS397]
 gi|303266032|ref|ZP_07351927.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           BS457]
 gi|303268036|ref|ZP_07353837.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           BS458]
 gi|182630224|gb|ACB91172.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           CGSP14]
 gi|301802633|emb|CBW35399.1| putative transcriptional regulator [Streptococcus pneumoniae
           INV200]
 gi|302636376|gb|EFL66869.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP14-BS292]
 gi|302638494|gb|EFL68959.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP-BS293]
 gi|302642396|gb|EFL72742.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           BS458]
 gi|302644473|gb|EFL74725.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           BS457]
 gi|302645323|gb|EFL75557.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           BS397]
          Length = 287

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +   L  Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRNYDDL-EYIYRIE 98


>gi|217975334|ref|YP_002360085.1| XRE family transcriptional regulator [Shewanella baltica OS223]
 gi|217500469|gb|ACK48662.1| transcriptional regulator, XRE family [Shewanella baltica OS223]
          Length = 103

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 10/78 (12%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGA 56
          M      P P+      R++  R+  G+SQ++LG  LG+       ++ +YEKG +    
Sbjct: 1  MADKIINPLPI------RLKQARISKGISQKQLGIQLGMEVGSASARMNQYEKGKHTPDY 54

Query: 57 SRLQHISEVLESPISFFF 74
            L+ ++  L  P+++FF
Sbjct: 55 KTLKAMANELGVPVAYFF 72


>gi|167039360|ref|YP_001662345.1| XRE family transcriptional regulator [Thermoanaerobacter sp. X514]
 gi|300913999|ref|ZP_07131316.1| transcriptional regulator, XRE family [Thermoanaerobacter sp. X561]
 gi|307725316|ref|YP_003905067.1| helix-turn-helix domain-containing protein [Thermoanaerobacter sp.
           X513]
 gi|166853600|gb|ABY92009.1| transcriptional regulator, XRE family [Thermoanaerobacter sp. X514]
 gi|300890684|gb|EFK85829.1| transcriptional regulator, XRE family [Thermoanaerobacter sp. X561]
 gi|307582377|gb|ADN55776.1| helix-turn-helix domain protein [Thermoanaerobacter sp. X513]
          Length = 137

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/128 (21%), Positives = 56/128 (43%), Gaps = 12/128 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R+R  R   G+ Q+ + + LGIT      YE+G        L+ +S+     I +    
Sbjct: 12  QRLRQLREEKGLLQKDVAKILGITPSAYGYYEQGKREPSMEVLKKLSDFFNVSIDYLLGR 71

Query: 77  SP-----TVCSDISSEENNVMDF---ISTPDGLQLNRYFIQIDDVKVR--QKIIELVRSI 126
           +         ++  S++  +++F   +   + L+L   F Q   +  R  ++II ++++I
Sbjct: 72  TDIRSPVDEITEAVSDDPELLEFWNELKEREDLKLL--FKQTKKLSPREIKQIIRIIKAI 129

Query: 127 VSSEKKYR 134
              E K  
Sbjct: 130 EEEEDKGE 137


>gi|332652945|ref|ZP_08418690.1| DNA-binding protein [Ruminococcaceae bacterium D16]
 gi|332518091|gb|EGJ47694.1| DNA-binding protein [Ruminococcaceae bacterium D16]
          Length = 169

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 24/107 (22%), Positives = 52/107 (48%), Gaps = 11/107 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + + I+  R   G+SQ++L   L +  Q V K+E+G++   +  L  +SE LE+P+S   
Sbjct: 2   LSENIKTIRKSKGLSQQELAVKLNVVRQTVSKWEQGLSVPDSDLLIALSEALETPVSTL- 60

Query: 75  DVSPTVCSDISSEENNVMDFISTP-DGLQLNRYFIQIDDVKVRQKII 120
                +  +++  E + +  +S   + + L   F +     +R+  +
Sbjct: 61  -----LGENVAEAEADTVKVLSEKLEIINL--QFAR--RTAMRKAFL 98


>gi|282601042|ref|ZP_05980519.2| DNA-binding protein [Subdoligranulum variabile DSM 15176]
 gi|282570426|gb|EFB75961.1| DNA-binding protein [Subdoligranulum variabile DSM 15176]
          Length = 269

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/107 (25%), Positives = 51/107 (47%), Gaps = 11/107 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + + ++  R   G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S   
Sbjct: 102 LSQNLKTIRKSKGLSQQELAVKLNVVRQTISKWEQGLSVPDSEMLISISEVLETPVSIL- 160

Query: 75  DVSPTVCSDISSEENNVMDFISTP-DGLQLNRYFIQIDDVKVRQKII 120
                +  ++   E + +  IS   + + L            R+KII
Sbjct: 161 -----LGENVVLPEADTLKAISEKLEVINLQMA----QKKNTRRKII 198


>gi|315127131|ref|YP_004069134.1| transcriptional regulator [Pseudoalteromonas sp. SM9913]
 gi|315015645|gb|ADT68983.1| putative transcriptional regulator [Pseudoalteromonas sp. SM9913]
          Length = 99

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 36/62 (58%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R++  R   G++Q++LG  LG+       ++ +YEKG +      ++ I++ L+ P+++
Sbjct: 7  SRLKSARKAAGLTQQQLGMALGMEPNTASARMNQYEKGKHAPDFLTMKRIAKELDVPVAY 66

Query: 73 FF 74
          F+
Sbjct: 67 FY 68


>gi|295108696|emb|CBL22649.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 336

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/90 (20%), Positives = 30/90 (33%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+L   LG++ Q V K+E         R+  +SE+      +     
Sbjct: 6   KITEERKKNGWSQEELANQLGVSRQAVSKWESAGAVPDLQRILQMSELFGVSTDYLLKDE 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYF 107
               +    E             ++    F
Sbjct: 66  MKAENITYHESTESYAEPLKKVTMENANEF 95


>gi|260889935|ref|ZP_05901198.1| toxin-antitoxin system, antitoxin component, Xre family
          [Leptotrichia hofstadii F0254]
 gi|260860541|gb|EEX75041.1| toxin-antitoxin system, antitoxin component, Xre family
          [Leptotrichia hofstadii F0254]
          Length = 183

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 26/55 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++  R    ++Q+ L + + I    + KYE+G N+   S L  I    E  + +F
Sbjct: 15 LKKLRTEKRLTQKALADKINIPVSMISKYEQGTNKPSFSYLSKICRFFEVELDYF 69


>gi|254519524|ref|ZP_05131580.1| DNA-binding protein [Clostridium sp. 7_2_43FAA]
 gi|226913273|gb|EEH98474.1| DNA-binding protein [Clostridium sp. 7_2_43FAA]
          Length = 349

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 42/82 (51%), Gaps = 1/82 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+ RR+  G++QE++ E LG++   V K+EKG++    + L  ++ +L   ++       
Sbjct: 7  IKERRIDQGLTQEQVAEALGVSTPAVNKWEKGISYPDITILPALARLLRVDLNTLLSFKE 66

Query: 79 TVCS-DISSEENNVMDFISTPD 99
           V   +I    N +++ I +  
Sbjct: 67 DVTDIEIGHFINELVEIIRSSG 88


>gi|168494718|ref|ZP_02718861.1| transcriptional activator [Streptococcus pneumoniae CDC3059-06]
 gi|183575348|gb|EDT95876.1| transcriptional activator [Streptococcus pneumoniae CDC3059-06]
          Length = 287

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +   L  Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRNYDDL-EYIYRIE 98


>gi|229174292|ref|ZP_04301825.1| Helix-turn-helix domain protein [Bacillus cereus MM3]
 gi|228609149|gb|EEK66438.1| Helix-turn-helix domain protein [Bacillus cereus MM3]
          Length = 277

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 33/80 (41%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I 
Sbjct: 7  GKKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIG 66

Query: 64 EVLESPISFFFDVSPTVCSD 83
           V E  + +    +    ++
Sbjct: 67 NVFEVSLDYLLKETAEQSNE 86


>gi|225859710|ref|YP_002741220.1| transcriptional activator [Streptococcus pneumoniae 70585]
 gi|225721236|gb|ACO17090.1| transcriptional activator [Streptococcus pneumoniae 70585]
          Length = 287

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +   L  Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRNYDDL-EYIYRIE 98


>gi|255655662|ref|ZP_05401071.1| putative transcriptional regulator [Clostridium difficile
          QCD-23m63]
 gi|296451664|ref|ZP_06893397.1| MerR family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296878908|ref|ZP_06902908.1| MerR family transcriptional regulator [Clostridium difficile
          NAP07]
 gi|296259495|gb|EFH06357.1| MerR family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296430180|gb|EFH16027.1| MerR family transcriptional regulator [Clostridium difficile
          NAP07]
          Length = 184

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 39/80 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I+VG +IR  R    +S   L +   ++   + + E+ +       +  IS+ L+  I
Sbjct: 1  MNIDVGSKIRSLRKSKNISISTLAKNSDLSTGLISQIERNMVVPSIVAMWKISKALDINI 60

Query: 71 SFFFDVSPTVCSDISSEENN 90
           +FF+      SDI  ++NN
Sbjct: 61 GYFFEEIGREDSDIVVKKNN 80


>gi|255306656|ref|ZP_05350827.1| putative transcriptional regulator [Clostridium difficile ATCC
          43255]
          Length = 184

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 39/80 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I+VG +IR  R    +S   L +   ++   + + E+ +       +  IS+ L+  I
Sbjct: 1  MNIDVGSKIRSLRKSKNISISTLAKNSDLSTGLISQIERNMVVPSIVAMWKISKALDINI 60

Query: 71 SFFFDVSPTVCSDISSEENN 90
           +FF+      SDI  ++NN
Sbjct: 61 GYFFEEIGREDSDIVVKKNN 80


>gi|254975277|ref|ZP_05271749.1| putative transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255092667|ref|ZP_05322145.1| putative transcriptional regulator [Clostridium difficile CIP
          107932]
 gi|255100772|ref|ZP_05329749.1| putative transcriptional regulator [Clostridium difficile
          QCD-63q42]
 gi|255314404|ref|ZP_05355987.1| putative transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255517082|ref|ZP_05384758.1| putative transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255650186|ref|ZP_05397088.1| putative transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|260683309|ref|YP_003214594.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260686905|ref|YP_003218038.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|260209472|emb|CBA63001.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260212921|emb|CBE04177.1| putative transcriptional regulator [Clostridium difficile R20291]
          Length = 184

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 39/80 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I+VG +IR  R    +S   L +   ++   + + E+ +       +  IS+ L+  I
Sbjct: 1  MNIDVGSKIRSLRKSKNISISTLAKNSDLSTGLISQIERNMVVPSIVAMWKISKALDINI 60

Query: 71 SFFFDVSPTVCSDISSEENN 90
           +FF+      SDI  ++NN
Sbjct: 61 GYFFEEIGREDSDIVVKKNN 80


>gi|126699248|ref|YP_001088145.1| putative transcriptional regulator [Clostridium difficile 630]
 gi|115250685|emb|CAJ68509.1| Transcriptional regulator, RmlC-type [Clostridium difficile]
          Length = 187

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 39/80 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I+VG +IR  R    +S   L +   ++   + + E+ +       +  IS+ L+  I
Sbjct: 4  MNIDVGSKIRSLRKSKNISISTLAKNSDLSTGLISQIERNMVVPSIVAMWKISKALDINI 63

Query: 71 SFFFDVSPTVCSDISSEENN 90
           +FF+      SDI  ++NN
Sbjct: 64 GYFFEEIGREDSDIVVKKNN 83


>gi|60683798|ref|YP_209648.1| hypothetical protein pDx14.2p11 [Bacillus mycoides]
 gi|60416575|emb|CAI40627.1| hypothetical protein [Bacillus mycoides]
          Length = 240

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 37/78 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK+I+  R+I  M+QE +   L I+ Q + K+E G +    + L  +S +    I  
Sbjct: 20 MDIGKKIKHLRLINNMTQEDVASQLFISRQVISKWELGKSLPDLTNLLALSNLFNVSIDS 79

Query: 73 FFDVSPTVCSDISSEENN 90
                 + + I  + N 
Sbjct: 80 LLKEDSNLQNQIIKQSNY 97


>gi|56419029|ref|YP_146347.1| transcriptional repressor of PBSX genes [Geobacillus kaustophilus
           HTA426]
 gi|56378871|dbj|BAD74779.1| transcriptional repressor of PBSX genes [Geobacillus kaustophilus
           HTA426]
          Length = 120

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 22/117 (18%), Positives = 50/117 (42%), Gaps = 17/117 (14%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R+++ R+   ++ + + + LGIT Q   KYE G ++     +  ++E       +    
Sbjct: 4   NRLKMLRLQKKLTHQDMADFLGITRQGYSKYENGQSQPDIDTINKLAEFFNVTTDYL--- 60

Query: 77  SPTVCSDISSEENNVMDFISTPD-GL---QLNRYFIQIDDVKVRQ----KIIELVRS 125
                     E++++ + +  P+ GL   +L          + R+    KI E+++S
Sbjct: 61  LGRTDDPTPPEQDDIPEELKDPELGLFFKELAEA------PEERREQLLKIWEILKS 111


>gi|210612788|ref|ZP_03289482.1| hypothetical protein CLONEX_01684 [Clostridium nexile DSM 1787]
 gi|314950371|ref|ZP_07853647.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|317501730|ref|ZP_07959917.1| hypothetical protein HMPREF1026_01861 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|319937809|ref|ZP_08012211.1| hypothetical protein HMPREF9488_03047 [Coprobacillus sp. 29_1]
 gi|210151402|gb|EEA82410.1| hypothetical protein CLONEX_01684 [Clostridium nexile DSM 1787]
 gi|313643322|gb|EFS07902.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|316896852|gb|EFV18936.1| hypothetical protein HMPREF1026_01861 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|319807039|gb|EFW03655.1| hypothetical protein HMPREF9488_03047 [Coprobacillus sp. 29_1]
          Length = 223

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I +VL    +  
Sbjct: 10 FLGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNYPTFDTLEKIMDVLGVTPN-- 67

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
           ++       I   E  +MD I
Sbjct: 68 -ELLSGEWKYIDHTEPYIMDII 88


>gi|325688449|gb|EGD30467.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK72]
          Length = 205

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 33/70 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R + G+SQE L + LG++ Q V K+E   +     ++  +S+  E    +
Sbjct: 1  MNLSDRIQYLRKVRGISQEGLADQLGVSRQAVSKWESEQSMPDLDKIISMSDYFEVTTDY 60

Query: 73 FFDVSPTVCS 82
                 V  
Sbjct: 61 LLKGVEPVVQ 70


>gi|304395821|ref|ZP_07377703.1| transcriptional regulator, XRE family [Pantoea sp. aB]
 gi|304356190|gb|EFM20555.1| transcriptional regulator, XRE family [Pantoea sp. aB]
          Length = 232

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 36/70 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G+RIRL+R  L ++Q+ L E  G+    V  +EK   +   + LQ +++ L+   ++
Sbjct: 17 MNMGERIRLKRKELNLTQQALAEKAGVNRVTVTGWEKDDYQPNGANLQALADALKCDPTW 76

Query: 73 FFDVSPTVCS 82
                   S
Sbjct: 77 LVSGKGESIS 86


>gi|291545509|emb|CBL18617.1| Predicted transcriptional regulators [Ruminococcus sp. SR1/5]
          Length = 110

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 3/76 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
          +G RI+  R     +QE++ + +G++ Q+  + E GVN V    L  ++EVL   +    
Sbjct: 5  LGSRIKALRSAKNFTQEQVADQIGVSRQKYARIESGVNSVTLDILSKVAEVLGVTVGDIT 64

Query: 74 --FDVSPTVCSDISSE 87
             D SP V      E
Sbjct: 65 RVLDESPVVEYRAGEE 80


>gi|261886490|ref|ZP_06010529.1| hypothetical protein CfetvA_16566 [Campylobacter fetus subsp.
          venerealis str. Azul-94]
          Length = 248

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 35/66 (53%), Gaps = 1/66 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+ ++I+L R     +Q  L +  G++ Q ++ YE G N+ +  + L+ I+  L   + 
Sbjct: 1  MNLAQKIKLLRSEKDWTQYDLAQNSGVSLQSIKMYEAGKNKGITTTILKKIAHALNVNVE 60

Query: 72 FFFDVS 77
          FF D  
Sbjct: 61 FFLDSE 66


>gi|253580586|ref|ZP_04857850.1| predicted protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251847957|gb|EES75923.1| predicted protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 111

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 23/83 (27%), Positives = 42/83 (50%), Gaps = 1/83 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
          +GKRI   R+ L ++QE+L E  G +   + ++E G  +     L  +S+VL   I +F 
Sbjct: 6  IGKRIAEARINLNITQEQLEELSGFSVSTISRFETGRTQPSIENLIKLSKVLNVGIDYFL 65

Query: 74 FDVSPTVCSDISSEENNVMDFIS 96
          +D+ P   +  S    + +  +S
Sbjct: 66 YDLIPHNETIQSPTVKDAVTVLS 88


>gi|229075522|ref|ZP_04208510.1| Helix-turn-helix domain protein [Bacillus cereus Rock4-18]
 gi|228707618|gb|EEL59803.1| Helix-turn-helix domain protein [Bacillus cereus Rock4-18]
          Length = 277

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 22/79 (27%), Positives = 34/79 (43%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KKI     +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  
Sbjct: 8  KKIKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGN 67

Query: 65 VLESPISFFFDVSPTVCSD 83
          V E  + +    +    ++
Sbjct: 68 VFEVSLDYLLKETAEQSNE 86


>gi|268590865|ref|ZP_06125086.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291313648|gb|EFE54101.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 112

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 24/74 (32%), Positives = 35/74 (47%), Gaps = 1/74 (1%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M    K P P+   VG  +R RR+  G++   +G  L I+ QQV +YE+G NR+    L 
Sbjct: 1  MANESKHP-PISHVVGGYLRRRRLDKGLTGRDVGRLLNISQQQVSRYERGSNRMTLDFLM 59

Query: 61 HISEVLESPISFFF 74
             + L      F 
Sbjct: 60 TYLDTLGLRYEDFM 73


>gi|88854989|ref|ZP_01129654.1| helix-turn-helix motif protein [marine actinobacterium PHSC20C1]
 gi|88815517|gb|EAR25374.1| helix-turn-helix motif protein [marine actinobacterium PHSC20C1]
          Length = 489

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 29/66 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+RIR  R   G++ + LG  L     QV   E G   +  S LQ ++ + +  +    
Sbjct: 20 VGRRIRQLRTDRGLTLDDLGAALNRAASQVSVIENGKRELKLSELQKLARIFDVSVDDLL 79

Query: 75 DVSPTV 80
          +  P  
Sbjct: 80 NAEPPS 85


>gi|148993187|ref|ZP_01822753.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP9-BS68]
 gi|147928161|gb|EDK79179.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP9-BS68]
 gi|332072036|gb|EGI82523.1| helix-turn-helix family protein [Streptococcus pneumoniae GA17570]
          Length = 215

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +   L  Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRNYDDL-EYIYRIE 98


>gi|219667028|ref|YP_002457463.1| XRE family transcriptional regulator [Desulfitobacterium hafniense
           DCB-2]
 gi|219537288|gb|ACL19027.1| transcriptional regulator, XRE family [Desulfitobacterium hafniense
           DCB-2]
          Length = 277

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 26/107 (24%), Positives = 41/107 (38%), Gaps = 11/107 (10%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           K I   R   G +QE+L   LG+TFQ V K+E        + L  +S++L+  I      
Sbjct: 7   KNICRYRKEKGFTQEELARKLGVTFQAVSKWETSQTLPDITLLPGLSQLLDISIDKLLGF 66

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
                     EE                 Y+  I   K+  +++EL+
Sbjct: 67  VSYDKQITIYEEEYKTQ-----------EYYWGIVPSKMCLRVLELI 102


>gi|77464212|ref|YP_353716.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
          2.4.1]
 gi|126463054|ref|YP_001044168.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
          ATCC 17029]
 gi|77388630|gb|ABA79815.1| transcriptional regulator, XRE family [Rhodobacter sphaeroides
          2.4.1]
 gi|126104718|gb|ABN77396.1| transcriptional regulator, XRE family [Rhodobacter sphaeroides
          ATCC 17029]
          Length = 211

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 33/69 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+R  R  L +S   L E  G++   + + E+G+ R     ++ IS+ L  P  +  
Sbjct: 7  IGQRLRQIRKNLALSLSGLSERSGVSVGTLSQLERGLGRPSLRTIERISQALGVPPFWLL 66

Query: 75 DVSPTVCSD 83
          ++      +
Sbjct: 67 EMPDQHNPE 75


>gi|323702564|ref|ZP_08114227.1| helix-turn-helix domain protein [Desulfotomaculum nigrificans DSM
           574]
 gi|323532538|gb|EGB22414.1| helix-turn-helix domain protein [Desulfotomaculum nigrificans DSM
           574]
          Length = 380

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/128 (21%), Positives = 57/128 (44%), Gaps = 13/128 (10%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           + + +G+ I   R    +S E+L E + +T Q +  Y KG   + + +L  ++     P+
Sbjct: 3   IAVIIGRNIDNLRNSHNVSLEQLAELINVTRQTMSNYIKGKQIIDSGKLAVLARYFNKPL 62

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
            +F            +EE+N + F+   D  +    F  I   ++ +KI  ++  +  SE
Sbjct: 63  EYFL-----------AEEHNELSFMFRADNPK--ENFNDILSSRINRKISTVLEILAMSE 109

Query: 131 KKYRTIEE 138
           +K   + E
Sbjct: 110 RKLAMVPE 117


>gi|315038706|ref|YP_004032274.1| helix-turn-helix domain protein [Lactobacillus amylovorus GRL
          1112]
 gi|312276839|gb|ADQ59479.1| helix-turn-helix domain protein [Lactobacillus amylovorus GRL
          1112]
          Length = 135

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 31/56 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           RIR  R   G+SQ KL +  GI    + ++E G++  G  RL+ I++ L   +++
Sbjct: 2  NRIREIRKKQGISQSKLAQLTGIPTSTLSEFENGLHDPGEDRLRKIAQALNVSLNY 57


>gi|121535735|ref|ZP_01667538.1| transcriptional regulator, XRE family [Thermosinus
          carboxydivorans Nor1]
 gi|121305700|gb|EAX46639.1| transcriptional regulator, XRE family [Thermosinus
          carboxydivorans Nor1]
          Length = 110

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 16/82 (19%), Positives = 39/82 (47%), Gaps = 1/82 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  +IR  R + G+SQEKL + +G+    +  +E G N   +  ++ I+        +  
Sbjct: 4  IADKIRQARHLAGLSQEKLADVVGVKRVTLAAWETGRNEPNSEHIRKIALACGVTTDWLL 63

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
          +  P   + ++++   + + I+
Sbjct: 64 E-MPEDFTGMANDARAIAEKIA 84


>gi|30261830|ref|NP_844207.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47527071|ref|YP_018420.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49184664|ref|YP_027916.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|165869280|ref|ZP_02213939.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167633298|ref|ZP_02391623.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|167638844|ref|ZP_02397119.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170686265|ref|ZP_02877487.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|170707323|ref|ZP_02897778.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|177650592|ref|ZP_02933559.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190566460|ref|ZP_03019378.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|227815396|ref|YP_002815405.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229604640|ref|YP_002866215.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|254683329|ref|ZP_05147190.1| DNA-binding protein [Bacillus anthracis str. CNEVA-9066]
 gi|254723912|ref|ZP_05185698.1| DNA-binding protein [Bacillus anthracis str. A1055]
 gi|254734684|ref|ZP_05192396.1| DNA-binding protein [Bacillus anthracis str. Western North America
           USA6153]
 gi|254741092|ref|ZP_05198780.1| DNA-binding protein [Bacillus anthracis str. Kruger B]
 gi|254755336|ref|ZP_05207370.1| DNA-binding protein [Bacillus anthracis str. Vollum]
 gi|254759873|ref|ZP_05211897.1| DNA-binding protein [Bacillus anthracis str. Australia 94]
 gi|30256058|gb|AAP25693.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47502219|gb|AAT30895.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49178591|gb|AAT53967.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|164714720|gb|EDR20238.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167513308|gb|EDR88679.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|167531336|gb|EDR94014.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|170127822|gb|EDS96694.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|170669962|gb|EDT20703.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|172083736|gb|EDT68796.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190562595|gb|EDV16562.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|227006572|gb|ACP16315.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229269048|gb|ACQ50685.1| DNA-binding protein [Bacillus anthracis str. A0248]
          Length = 181

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 47/110 (42%), Gaps = 8/110 (7%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
           +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3   NIDIGKKIEQQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71  SFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDV 113
           SF  + + T    + S        +N   + +S      L    + I   
Sbjct: 63  SFLLEDTNTDDLIVRSHKRKKMIIDNLSYEMLSPDFTGNLATAIMTIPPN 112


>gi|296159506|ref|ZP_06842330.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
 gi|295890214|gb|EFG70008.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
          Length = 102

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/116 (23%), Positives = 52/116 (44%), Gaps = 25/116 (21%)

Query: 18  RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R+R  R+  G+SQE+LG   GI       ++ +YE+G +      L  I+ VL  P+S+F
Sbjct: 7   RLREARIRSGLSQERLGIEAGIDEMSASARMNQYERGKHVPDLGTLSRIAAVLNLPVSYF 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           + V                         +L + + ++ + K ++K++EL   +  +
Sbjct: 67  YSVEDNEA--------------------ELVQRYHRLPE-KAKKKVLELAGELAGA 101


>gi|325679912|ref|ZP_08159481.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324108350|gb|EGC02597.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 135

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/120 (22%), Positives = 53/120 (44%), Gaps = 7/120 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G ++   R   G SQE L + L ++ Q V K+E G +   A ++  IS        F
Sbjct: 1   MNIGDKLLFLRNRSGCSQENLADALDVSRQTVSKWELGQSLPDAEKIVAISNFFSVTTDF 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNR------YFIQIDDVKVRQKIIELVRSI 126
               +  V  + + +   V++F ++   L              I D + R ++ E+V+++
Sbjct: 61  LLRDTSPVKIEKNLD-RIVIEFANSASDLDKISKDLVDIARDGIIDEEERLRLFEMVKTV 119


>gi|257867716|ref|ZP_05647369.1| predicted protein [Enterococcus casseliflavus EC30]
 gi|257874043|ref|ZP_05653696.1| predicted protein [Enterococcus casseliflavus EC10]
 gi|257801799|gb|EEV30702.1| predicted protein [Enterococcus casseliflavus EC30]
 gi|257808207|gb|EEV37029.1| predicted protein [Enterococcus casseliflavus EC10]
          Length = 200

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + I+ RR  LGM+QE+L + L ++   +  +E G N    + L  ++++ +  +   F  
Sbjct: 5  QMIKERRKQLGMTQEELAKELNVSRSAISNWEIGRNYPDITTLIELAQMYQVSLDELFYD 64

Query: 77 SPTVCSDISSE 87
             + +  + +
Sbjct: 65 DIDLVNKFAED 75


>gi|229159135|ref|ZP_04287181.1| hypothetical protein bcere0010_53010 [Bacillus cereus ATCC 4342]
 gi|228624336|gb|EEK81117.1| hypothetical protein bcere0010_53010 [Bacillus cereus ATCC 4342]
          Length = 274

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 37/78 (47%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++GK+I+  R+I  M+QE +   L I+ Q + K+E G +    + L  +S +    I  
Sbjct: 54  MDIGKKIKHLRLINKMTQEDVASQLFISRQVISKWELGKSLPDLTNLLALSNLFNVSIDS 113

Query: 73  FFDVSPTVCSDISSEENN 90
                  + + I  + N 
Sbjct: 114 LLKEDSNLQNQIIKQSNY 131


>gi|224283083|ref|ZP_03646405.1| Hypothetical transcriptional regulator [Bifidobacterium bifidum
          NCIMB 41171]
 gi|313140233|ref|ZP_07802426.1| conserved hypothetical protein [Bifidobacterium bifidum NCIMB
          41171]
 gi|313132743|gb|EFR50360.1| conserved hypothetical protein [Bifidobacterium bifidum NCIMB
          41171]
          Length = 161

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 33/66 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ I++ R   G++Q +    L +T Q + ++EKG        ++ IS   E P+  
Sbjct: 1  MSIGQVIKVVREERGLTQSQFAHELFVTQQALSRWEKGTAEPSIDMIRLISTRFEVPMPR 60

Query: 73 FFDVSP 78
            ++  
Sbjct: 61 LMEMPD 66


>gi|319935094|ref|ZP_08009535.1| hypothetical protein HMPREF9488_00366 [Coprobacillus sp. 29_1]
 gi|319809989|gb|EFW06366.1| hypothetical protein HMPREF9488_00366 [Coprobacillus sp. 29_1]
          Length = 240

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 36/75 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK++   R   G+SQE+L   L ++ Q + K+E  ++      +  IS+  +  ++ 
Sbjct: 1  MSIGKKLLYLRQQRGLSQEELASALHVSRQTISKWESDLSLPDMKMMLSISQFYDVSVTE 60

Query: 73 FFDVSPTVCSDISSE 87
             V     S  S E
Sbjct: 61 LLGVDEKENSQESIE 75


>gi|308068246|ref|YP_003869851.1| transcriptional regulator ydcN [Paenibacillus polymyxa E681]
 gi|305857525|gb|ADM69313.1| Putative HTH-type transcriptional regulator ydcN [Paenibacillus
          polymyxa E681]
          Length = 182

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 32/74 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +   R   G+S +K+ E  G++   + + EKG +    + L  I+  L    S F 
Sbjct: 8  IGSNLAQIRKTRGLSLDKVAELTGVSKGMLAQIEKGKSNPTVTTLWKIANGLHVSFSTFL 67

Query: 75 DVSPTVCSDISSEE 88
             P   + I  E+
Sbjct: 68 KEDPPQITKIRRED 81


>gi|259909794|ref|YP_002650150.1| Putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
 gi|224965416|emb|CAX56948.1| Putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
          Length = 124

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 33/66 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R   GM+Q ++ + L ++ Q VQ +E G  R+  S L  ++ +L   +    
Sbjct: 16 LGRRITALRKDAGMTQTQVAQALNVSQQAVQAWEAGRRRIQISILPAVARLLSVSLEDLL 75

Query: 75 DVSPTV 80
            +P  
Sbjct: 76 GEAPEE 81


>gi|215429287|ref|ZP_03427206.1| putative transcriptional regulatory protein [Mycobacterium
           tuberculosis EAS054]
 gi|219556284|ref|ZP_03535360.1| putative transcriptional regulatory protein [Mycobacterium
           tuberculosis T17]
 gi|260199463|ref|ZP_05766954.1| putative transcriptional regulatory protein [Mycobacterium
           tuberculosis T46]
 gi|289441846|ref|ZP_06431590.1| transcriptional regulator [Mycobacterium tuberculosis T46]
 gi|289568383|ref|ZP_06448610.1| transcriptional regulator [Mycobacterium tuberculosis T17]
 gi|289752496|ref|ZP_06511874.1| transcriptional regulator [Mycobacterium tuberculosis EAS054]
 gi|289414765|gb|EFD12005.1| transcriptional regulator [Mycobacterium tuberculosis T46]
 gi|289542136|gb|EFD45785.1| transcriptional regulator [Mycobacterium tuberculosis T17]
 gi|289693083|gb|EFD60512.1| transcriptional regulator [Mycobacterium tuberculosis EAS054]
          Length = 474

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 31/133 (23%), Positives = 54/133 (40%), Gaps = 18/133 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   YVGSRVRQLRNERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               DI+ +++ V + +S   G  L R  + +     R+  I 
Sbjct: 65  ASQDDTRLVAELREVTLDRDLDIAIDQHEVAEMVSAHPG--LARAVVNL----HRRYRIT 118

Query: 122 LVRSIVSSEKKYR 134
             R   ++E+++ 
Sbjct: 119 TARLAAATEERFS 131


>gi|322382659|ref|ZP_08056524.1| hypothetical protein PL1_2572 [Paenibacillus larvae subsp. larvae
          B-3650]
 gi|322384064|ref|ZP_08057785.1| hypothetical protein PL1_2193 [Paenibacillus larvae subsp. larvae
          B-3650]
 gi|321151237|gb|EFX44533.1| hypothetical protein PL1_2193 [Paenibacillus larvae subsp. larvae
          B-3650]
 gi|321153374|gb|EFX45796.1| hypothetical protein PL1_2572 [Paenibacillus larvae subsp. larvae
          B-3650]
          Length = 367

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 32/79 (40%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +  N     +  R+   R   G +   L   + I+ Q + KYEK         L+ +S+ 
Sbjct: 14 EASNRFSKFIPDRLIEAREARGFTLTDLANIVEISHQAISKYEKEKATPNHDTLEKLSDA 73

Query: 66 LESPISFFFDVSPTVCSDI 84
          L  P+++F+   P     +
Sbjct: 74 LHVPVTYFYKSYPKKVDGV 92


>gi|307295149|ref|ZP_07574989.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|306496398|gb|EFM65972.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
          Length = 128

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          IR +R  LG +Q++L + +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 27 IREKRKALGWTQKELAKKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 83


>gi|326203738|ref|ZP_08193601.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
 gi|325986178|gb|EGD47011.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
          Length = 169

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 30/105 (28%), Positives = 53/105 (50%), Gaps = 11/105 (10%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + I+  R   G+SQE+L   L +  Q + K+E+G++   +  L  ISEVLE+P+S     
Sbjct: 4   ENIKAIRKSKGLSQEELAIKLNVVRQTISKWEQGLSVPDSDILISISEVLETPVSTLL-- 61

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK-VRQKII 120
                   +  E+ V D  +  + L++    +Q+   K  R+KI+
Sbjct: 62  ------GETVIESKVDDLKAISEKLEIIN--LQLAQRKTTRRKIL 98


>gi|229194032|ref|ZP_04320926.1| Transcriptional regulator, MerR [Bacillus cereus ATCC 10876]
 gi|228589432|gb|EEK47357.1| Transcriptional regulator, MerR [Bacillus cereus ATCC 10876]
          Length = 184

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 1/84 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
          DINVG +I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  DINVGHKIMAFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          +FF + + T    + + +   + F
Sbjct: 63 NFFLEDTNTEELVVRANQRKKITF 86


>gi|283479888|emb|CAY75804.1| HTH-type transcriptional regulator dicA; Repressor protein of
          division inhibition gene dicA [Erwinia pyrifoliae DSM
          12163]
          Length = 137

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 33/66 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R   GM+Q ++ + L ++ Q VQ +E G  R+  S L  ++ +L   +    
Sbjct: 29 LGRRITALRKDAGMTQTQVAQALNVSQQAVQAWEAGRRRIQISILPAVARLLSVSLEDLL 88

Query: 75 DVSPTV 80
            +P  
Sbjct: 89 GEAPEE 94


>gi|229191715|ref|ZP_04318693.1| Helix-turn-helix domain protein [Bacillus cereus ATCC 10876]
 gi|228591761|gb|EEK49602.1| Helix-turn-helix domain protein [Bacillus cereus ATCC 10876]
          Length = 277

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 33/80 (41%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I 
Sbjct: 7  GKKTKGDTHMGFGEKLFRLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIG 66

Query: 64 EVLESPISFFFDVSPTVCSD 83
           V E  + +    +    ++
Sbjct: 67 NVFEVSLDYLLKETAEQSNE 86


>gi|219855102|ref|YP_002472224.1| hypothetical protein CKR_1759 [Clostridium kluyveri NBRC 12016]
 gi|219568826|dbj|BAH06810.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 83

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/78 (34%), Positives = 41/78 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VGK IR  R+   ++QE+L E  GI    + +YE G+      +L+ IS+ LE PIS 
Sbjct: 4  MKVGKNIRNIRIQKNITQEELAEITGIEQSIISRYENGIIIPPIPKLEAISKALEVPISK 63

Query: 73 FFDVSPTVCSDISSEENN 90
            ++  T     SS  N+
Sbjct: 64 LLELEETEIKKGSSIANS 81


>gi|70733674|ref|YP_257314.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
 gi|68347973|gb|AAY95579.1| DNA-binding protein, putative [Pseudomonas fluorescens Pf-5]
          Length = 120

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 37/76 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R  R    +SQ +LG+   + +  + +YE+G +R     L+ +++ L+    +  + 
Sbjct: 10 ERLRSLRKQKNLSQTELGQLAELHYTHIGRYERGTSRPSGDTLKRLADALDVSSDYLLEG 69

Query: 77 SPTVCSDISSEENNVM 92
          +    +    E+  ++
Sbjct: 70 ASDDAAKAKFEDRELL 85


>gi|316932209|ref|YP_004107191.1| helix-turn-helix domain-containing protein [Rhodopseudomonas
          palustris DX-1]
 gi|315599923|gb|ADU42458.1| helix-turn-helix domain protein [Rhodopseudomonas palustris DX-1]
          Length = 231

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 38/75 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            + ++++  R +  ++QE L +  G+T + ++K E G +R     L+ I+  ++  + +
Sbjct: 9  AYIAEQVKFIRKMHKLTQENLADAAGLTTRTIEKIESGRHRPDEQTLRSIARAMQIDVRY 68

Query: 73 FFDVSPTVCSDISSE 87
          F   +P   +   +E
Sbjct: 69 FEKPTPEQEARQKAE 83


>gi|315032681|gb|EFT44613.1| helix-turn-helix protein [Enterococcus faecalis TX0017]
          Length = 183

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/112 (16%), Positives = 41/112 (36%), Gaps = 6/112 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3   INTIIGNNLKKIRQEKKLTLDELAGITGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           ++  +      + +  +   V    S        R F    D + R    EL
Sbjct: 63  TYLLEDDYVKENPVVKKTETVTQH-SDDHSY---RVFNYYSDNQERN--FEL 108


>gi|291539377|emb|CBL12488.1| Predicted N-acetylglucosamine kinase [Roseburia intestinalis
          XB6B4]
          Length = 393

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 29/55 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G++Q +  E LGI+ Q V K+E G +      L  ISE+L+  I 
Sbjct: 20 ENIKTYRNKRGLNQYEFAEKLGISPQAVSKWECGQSCPSIENLCVISEILDVSID 74


>gi|260425999|ref|ZP_05779978.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
 gi|260420491|gb|EEX13742.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
          Length = 436

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 24/82 (29%), Positives = 32/82 (39%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G RIR RR ILGM Q +L     I+   +   E    R+G   L  I+E+L    S
Sbjct: 4  DTLTGSRIRERRNILGMKQAELARRASISASYLNLIEHNRRRIGGKLLLDIAEILGVEPS 63

Query: 72 FFFDVSPTVCSDISSEENNVMD 93
             + +         E     D
Sbjct: 64 VLTEGAEATLIASLREAALRAD 85


>gi|268591417|ref|ZP_06125638.1| putative transcriptional regulatory protein [Providencia rettgeri
          DSM 1131]
 gi|291313069|gb|EFE53522.1| putative transcriptional regulatory protein [Providencia rettgeri
          DSM 1131]
          Length = 185

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 4/88 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I +G++IRL R    +S  +L    GI+   + K E G +      L+ I+  L  P+
Sbjct: 5  INIKIGQKIRLLRQARDLSLNELSRISGISKAALSKLESGDSNPRIDTLESIAIALRFPL 64

Query: 71 SFFF----DVSPTVCSDISSEENNVMDF 94
          S  F    +  P       SE+     F
Sbjct: 65 SDLFTRQHEAYPYFLKATPSEKEYSQQF 92


>gi|257413729|ref|ZP_05591775.1| transcriptional regulator of NagC/XylR family, sugar [Roseburia
          intestinalis L1-82]
 gi|257202528|gb|EEV00813.1| transcriptional regulator of NagC/XylR family, sugar [Roseburia
          intestinalis L1-82]
          Length = 403

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 29/55 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G++Q +  E LGI+ Q V K+E G +      L  ISE+L+  I 
Sbjct: 30 ENIKTYRNKRGLNQYEFAEKLGISPQAVSKWECGQSCPSIENLCVISEILDVSID 84


>gi|149012465|ref|ZP_01833496.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP19-BS75]
 gi|147763521|gb|EDK70457.1| transcriptional regulator PlcR, putative [Streptococcus pneumoniae
           SP19-BS75]
          Length = 287

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +   L  Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRNYDDL-EYLYKIE 98


>gi|21323451|dbj|BAB98078.1| Predicted transcriptional regulators [Corynebacterium glutamicum
           ATCC 13032]
          Length = 128

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 35/89 (39%), Gaps = 6/89 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR------VGASRLQHISEVLESPI 70
            R++  R + G SQE+L +  G++   +  YE+  N          S +  +++ L+ P 
Sbjct: 19  SRLKKLRTLRGFSQEELADLSGVSRNTISNYERNENNKGNAVDPQLSNIYRLAQALDVPP 78

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPD 99
                      + I  +E   +D     +
Sbjct: 79  IALMPAGSVPVAKICVDETAAIDVRWPSE 107


>gi|228922337|ref|ZP_04085644.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|228837392|gb|EEM82726.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
          Length = 277

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 33/79 (41%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  
Sbjct: 8  KKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGN 67

Query: 65 VLESPISFFFDVSPTVCSD 83
          V E  + +    +    ++
Sbjct: 68 VFEVSLDYLLKETAEQSNE 86


>gi|225410097|ref|ZP_03761286.1| hypothetical protein CLOSTASPAR_05318 [Clostridium asparagiforme
          DSM 15981]
 gi|225042384|gb|EEG52630.1| hypothetical protein CLOSTASPAR_05318 [Clostridium asparagiforme
          DSM 15981]
          Length = 228

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++ + +R  R+  GM+QE++   +G+T Q +  YE G  R     L  + EV  + + 
Sbjct: 1  MSINQNLRQLRLDCGMTQEQVAAKIGLTRQALSSYESGRTRPDIEMLMRLCEVYGTDLD 59


>gi|332559101|ref|ZP_08413423.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
          WS8N]
 gi|332276813|gb|EGJ22128.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
          WS8N]
          Length = 211

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 33/69 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+R  R  L +S   L E  G++   + + E+G+ R     ++ IS+ L  P  +  
Sbjct: 7  IGQRLRQIRKNLALSLSGLSERSGVSVGTLSQLERGLGRPSLRTIERISQALGVPPFWLL 66

Query: 75 DVSPTVCSD 83
          ++      +
Sbjct: 67 EMPDQHNPE 75


>gi|260427903|ref|ZP_05781882.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
 gi|260422395|gb|EEX15646.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
          Length = 131

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/117 (23%), Positives = 49/117 (41%), Gaps = 4/117 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RI   R   GM QEKL   LG+  + +Q +E  ++   A+RLQ ++ +L   + +   
Sbjct: 16  GDRIAAAREAAGMGQEKLARRLGVKLKTLQGWENDLSEPRANRLQMLAGLLNVSMGWLLT 75

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYF-IQIDDVKVR-QKIIELVRSIVSSE 130
                 S     E  +   +   + L   R    +I     R  ++ + +R ++  E
Sbjct: 76  GEGEGLSGPGDTEPALPADV--NEALLEIRALKTEIQTAGDRLGRLEKTLRRLLKDE 130


>gi|253990606|ref|YP_003041962.1| regulatory protein DicA [Photorhabdus asymbiotica subsp.
           asymbiotica ATCC 43949]
 gi|253782056|emb|CAQ85220.1| similar to dica, regulator of dicb encoded by prophage cp-933
           (putative regulatory protein) [Photorhabdus asymbiotica]
          Length = 135

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 26/131 (19%), Positives = 52/131 (39%), Gaps = 8/131 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G RI+  R    MSQ  L E  G  +  ++  YE G+  V       +S+ L    +  
Sbjct: 7   IGARIKRLRNQQKMSQAALAELCGWASQSRIGNYESGIRNVSTDDAVILSKALGVSPAEL 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
                    +  + E      +S  + + L   F ++ D +      EL++++   ++ Y
Sbjct: 67  MFGDAESSQENETSET--CQELSNREKI-LLELFNELPDSEA----DELLKTLEEKKRYY 119

Query: 134 RTIEEECMVEQ 144
             + EE   ++
Sbjct: 120 NQLLEELSQKK 130


>gi|228949497|ref|ZP_04111751.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|228810220|gb|EEM56587.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
          Length = 184

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 42/84 (50%), Gaps = 1/84 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  NINVGQKIMAFRKAAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          +FF + + T    + + +   + F
Sbjct: 63 NFFLEDTNTEELVVRANQRKKITF 86


>gi|262199526|ref|YP_003270735.1| XRE family transcriptional regulator [Haliangium ochraceum DSM
          14365]
 gi|262082873|gb|ACY18842.1| transcriptional regulator, XRE family [Haliangium ochraceum DSM
          14365]
          Length = 123

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 33/62 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+RL R  LGM Q +L    G++  + Q+ E G        L  IS+ L+  +SFF 
Sbjct: 10 LGQRLRLVREGLGMGQGELASACGVSDARYQEIEAGSYLPSIDELIAISDALDIDVSFFC 69

Query: 75 DV 76
          + 
Sbjct: 70 ED 71


>gi|126699363|ref|YP_001088260.1| putative transcriptional regulator [Clostridium difficile 630]
 gi|260683416|ref|YP_003214701.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260687012|ref|YP_003218145.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|296450990|ref|ZP_06892737.1| transcriptional regulator [Clostridium difficile NAP08]
 gi|296879044|ref|ZP_06903040.1| transcriptional regulator [Clostridium difficile NAP07]
 gi|115250800|emb|CAJ68624.1| Transcriptional regulator, HTH-type [Clostridium difficile]
 gi|260209579|emb|CBA63210.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260213028|emb|CBE04367.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|296260208|gb|EFH07056.1| transcriptional regulator [Clostridium difficile NAP08]
 gi|296429917|gb|EFH15768.1| transcriptional regulator [Clostridium difficile NAP07]
          Length = 87

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +I++ R  LG++QE+LG  +G + Q +   E G N         IS +   PI   F F
Sbjct: 3  NKIKILREKLGLTQEQLGRLVGTSRQAINAIETGKNEPSIWLAYDISRIFNEPIESVFLF 62

Query: 75 DVSP 78
          + S 
Sbjct: 63 EESE 66


>gi|150398491|ref|YP_001328958.1| XRE family transcriptional regulator [Sinorhizobium medicae WSM419]
 gi|150030006|gb|ABR62123.1| transcriptional regulator, XRE family [Sinorhizobium medicae
           WSM419]
          Length = 234

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 35/83 (42%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G  +R  R  LG++   +     I+   + K E G      + LQ +S  L  PI
Sbjct: 43  LEVAIGHEVRAFRKKLGITVADVASATDISVGMLSKIENGNTSPSLTTLQTLSRALGVPI 102

Query: 71  SFFFDVSPTVCSDISSEENNVMD 93
           + FF       S +  +    +D
Sbjct: 103 TAFFRRFEEEHSAVFVKAGEGVD 125


>gi|293380865|ref|ZP_06626901.1| bacteriophage CI repressor protein [Lactobacillus crispatus
          214-1]
 gi|290922538|gb|EFD99504.1| bacteriophage CI repressor protein [Lactobacillus crispatus
          214-1]
          Length = 118

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 1/62 (1%)

Query: 11 VDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +DI  +G+RI+  R    ++Q+ L + L ++ Q V K+EKG +     RL  +SE+ +  
Sbjct: 2  IDIQAIGQRIKSYRENAKLTQDNLAQKLNVSRQSVSKWEKGGSLPDIDRLVTMSELFDIS 61

Query: 70 IS 71
          + 
Sbjct: 62 LD 63


>gi|296141343|ref|YP_003648586.1| XRE family transcriptional regulator [Tsukamurella paurometabola
           DSM 20162]
 gi|296029477|gb|ADG80247.1| transcriptional regulator, XRE family [Tsukamurella paurometabola
           DSM 20162]
          Length = 466

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 26/93 (27%), Positives = 38/93 (40%), Gaps = 1/93 (1%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G+SQ  L E L I+   + + E  V  +    L  I++V     SFF
Sbjct: 5   FVGARLRGLRKERGLSQASLAEALEISPSYLNQIEHDVRPLSVPVLLKITDVFGVDTSFF 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL-QLNR 105
                T       E    +D  ++ + L  L R
Sbjct: 65  NSQDQTRLIAELREVTMDVDAPTSTEELSDLAR 97


>gi|227113780|ref|ZP_03827436.1| hypothetical protein PcarbP_12483 [Pectobacterium carotovorum
          subsp. brasiliensis PBR1692]
          Length = 100

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R+++ R+   M+QEKLG   GI       +V +YE G +R     +   + VL  P S+F
Sbjct: 16 RLKVARLRAKMTQEKLGVLAGIEEATARSRVSQYESGTHRPTFEMMCAFARVLNVPESYF 75

Query: 74 FDVSPTVCS 82
          + V      
Sbjct: 76 YTVDDGFAE 84


>gi|325689390|gb|EGD31395.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK115]
          Length = 205

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 33/70 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R + G+SQE L + LG++ Q V K+E   +     ++  +S+  E    +
Sbjct: 1  MNLSDRIQYLRKVRGISQEGLADQLGVSRQAVSKWESEQSMPDLDKIISMSDYFEVTTDY 60

Query: 73 FFDVSPTVCS 82
                 V  
Sbjct: 61 LLKGVEPVVQ 70


>gi|261366797|ref|ZP_05979680.1| toxin-antitoxin system, antitoxin component, Xre family
           [Subdoligranulum variabile DSM 15176]
 gi|282571333|gb|EFB76868.1| toxin-antitoxin system, antitoxin component, Xre family
           [Subdoligranulum variabile DSM 15176]
          Length = 117

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 39/91 (42%), Gaps = 5/91 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I VGKR++  R  +G SQ K+ + LG T   + +YE G +       +  ++  +  + +
Sbjct: 2   IEVGKRLKALRESIGFSQVKMAQALGSTQSSINRYENGQSSPSVELFRRYADYFDVSLDY 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
            F       +D    E       + P+  +L
Sbjct: 62  IF-----ARTDKPQGETYHFKPKAAPEREEL 87


>gi|169827339|ref|YP_001697497.1| transcriptional regulator [Lysinibacillus sphaericus C3-41]
 gi|168991827|gb|ACA39367.1| transcriptional regulator (phage-related) [Lysinibacillus
           sphaericus C3-41]
          Length = 118

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/104 (18%), Positives = 43/104 (41%), Gaps = 1/104 (0%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           NV +R++  R    ++Q  + + L I+      YE+G N +    +Q ++E  +  +++ 
Sbjct: 3   NVSQRLKELRKEAKLTQADVAKFLSISESAYGYYEQGRNEISIGSVQKLAEKYDVSVAYI 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
                        +E     F + P+     +   + D+  VR+
Sbjct: 63  L-CETDEKQPFDKDEAAFHAFANDPELQVFYKELPKSDEETVRR 105


>gi|291300667|ref|YP_003511945.1| XRE family transcriptional regulator [Stackebrandtia nassauensis
          DSM 44728]
 gi|290569887|gb|ADD42852.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis
          DSM 44728]
          Length = 513

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 29/67 (43%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M         +   +G  IR  R   G++Q +L + LG +   V + E+G   +    L 
Sbjct: 1  MSETPARTEDILRRIGTLIRDARKHRGLTQTQLADLLGTSQSAVNRIERGAQNLSVDMLN 60

Query: 61 HISEVLE 67
           +SE L+
Sbjct: 61 RVSEALD 67


>gi|24379268|ref|NP_721223.1| transcription regulator [Streptococcus mutans UA159]
 gi|24377185|gb|AAN58529.1|AE014922_4 hypothetical protein; putative transcriptional regulator
           [Streptococcus mutans UA159]
          Length = 296

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/93 (29%), Positives = 39/93 (41%), Gaps = 3/93 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
           R+R  R  LG+SQEKL E L I+ Q + K+E G        L  +S+  +  I    F  
Sbjct: 8   RLRDYRKQLGLSQEKLAEELHISRQAITKWESGAGTPDVVNLMALSDFFQVSIDQLLFGK 67

Query: 76  VSPTVCSDISSEENNVMDFISTPD-GLQLNRYF 107
            +     D   E +   D     D  +QL   +
Sbjct: 68  EANRQSKDFIYESSTEYDIDGEKDFDIQLGGAY 100


>gi|28379011|ref|NP_785903.1| prophage Lp2 protein 9 [Lactobacillus plantarum WCFS1]
 gi|28271849|emb|CAD64754.1| prophage Lp2 protein 9 [Lactobacillus plantarum WCFS1]
          Length = 120

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 15/88 (17%), Positives = 34/88 (38%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GKRI   R    ++Q  L + + ++   +  +E     V    L  +S+       +
Sbjct: 1   MTIGKRIANLRKQKSLTQPMLADAMNVSQSTIASWESDRRSVSNDDLIKLSDYFGVTTDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDG 100
               + T       +  ++ DF+   +G
Sbjct: 61  LLGKNGTPKWANEKDTKDLQDFLDANEG 88


>gi|315144810|gb|EFT88826.1| helix-turn-helix protein [Enterococcus faecalis TX2141]
          Length = 183

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3  INTIIGNNLKKIRQEKKLTLDELAGVTGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          ++  +      + +  +   V  
Sbjct: 63 TYLLEDDYVKENPVVKKTETVTQ 85


>gi|312899924|ref|ZP_07759242.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
 gi|311292920|gb|EFQ71476.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
          Length = 183

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3  INTIIGNNLKKIRQEKKLTLDELAGVTGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          ++  +      + +  +   V  
Sbjct: 63 TYLLEDDYVKENPVVKKTETVTQ 85


>gi|257421865|ref|ZP_05598855.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          X98]
 gi|257163689|gb|EEU93649.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          X98]
 gi|315155430|gb|EFT99446.1| helix-turn-helix protein [Enterococcus faecalis TX0043]
          Length = 183

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3  INTIIGNNLKKIRQEKKLTLDELAGVTGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          ++  +      + +  +   V  
Sbjct: 63 TYLLEDDYVKENPVVKKTETVTQ 85


>gi|220914053|ref|YP_002489362.1| XRE family transcriptional regulator [Arthrobacter
          chlorophenolicus A6]
 gi|219860931|gb|ACL41273.1| transcriptional regulator, XRE family [Arthrobacter
          chlorophenolicus A6]
          Length = 201

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 33/70 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG ++R  R   GM+  +L E  G++   V + E+G+     + L  ++  L+ P+  FF
Sbjct: 20 VGNKVRSMRKDRGMTLARLSEITGLSQAIVSQIERGMANPSFTTLAQLAHGLDIPVGRFF 79

Query: 75 DVSPTVCSDI 84
                 S +
Sbjct: 80 IGQDQSRSPV 89


>gi|325290667|ref|YP_004266848.1| helix-turn-helix domain protein [Syntrophobotulus glycolicus DSM
          8271]
 gi|324966068|gb|ADY56847.1| helix-turn-helix domain protein [Syntrophobotulus glycolicus DSM
          8271]
          Length = 199

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 33/75 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R    +SQE L + +G++ Q V K+E   +     ++  +SE  +    +
Sbjct: 1  MNIADRIQNLRKAKAISQEDLADKVGVSRQAVSKWESEQSVPDLDKIIIMSEYFDVTTDY 60

Query: 73 FFDVSPTVCSDISSE 87
                   ++  + 
Sbjct: 61 ILKGIEPALNNQGTH 75


>gi|312278268|gb|ADQ62925.1| Putative transcriptional regulator [Streptococcus thermophilus
          ND03]
          Length = 229

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 34/81 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R   GMSQ  + + LGI+      +E G  +     L  ++E+     ++F  
Sbjct: 4  GQRLKEIREAQGMSQASVAKHLGISRSSYFNWENGKTKPNQKNLSVLAELFGVAETYFLS 63

Query: 76 VSPTVCSDISSEENNVMDFIS 96
              V   +   E N  + + 
Sbjct: 64 EHEIVEVYLELTEENRQEALR 84


>gi|290580727|ref|YP_003485119.1| hypothetical protein SmuNN2025_1201 [Streptococcus mutans NN2025]
 gi|254997626|dbj|BAH88227.1| hypothetical protein [Streptococcus mutans NN2025]
          Length = 294

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/93 (29%), Positives = 39/93 (41%), Gaps = 3/93 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
           R+R  R  LG+SQEKL E L I+ Q + K+E G        L  +S+  +  I    F  
Sbjct: 6   RLRDYRKQLGLSQEKLAEELHISRQAITKWESGAGTPDVVNLMALSDFFQVSIDQLLFGK 65

Query: 76  VSPTVCSDISSEENNVMDFISTPD-GLQLNRYF 107
            +     D   E +   D     D  +QL   +
Sbjct: 66  EANRQSKDFIYESSTEYDIDGEKDFDIQLGGAY 98


>gi|229070587|ref|ZP_04203825.1| Transcriptional regulator, MerR [Bacillus cereus F65185]
 gi|228712492|gb|EEL64429.1| Transcriptional regulator, MerR [Bacillus cereus F65185]
          Length = 186

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 43/84 (51%), Gaps = 1/84 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
          +IN+G++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 5  NINIGQKIMAFRKDAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 64

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          +FF + + T    + +++   M F
Sbjct: 65 NFFLEDTNTEELVVRADQRKKMTF 88


>gi|160937793|ref|ZP_02085152.1| hypothetical protein CLOBOL_02685 [Clostridium bolteae ATCC
          BAA-613]
 gi|158439232|gb|EDP16985.1| hypothetical protein CLOBOL_02685 [Clostridium bolteae ATCC
          BAA-613]
          Length = 199

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 37/77 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + + I+ RR  + MSQE + + LGI+ Q V K+E G +   +  L  ++ + E  IS 
Sbjct: 1  MALSENIKARRTQIKMSQEYVADQLGISRQAVAKWEAGTSEPTSKNLSELASLFEMSISE 60

Query: 73 FFDVSPTVCSDISSEEN 89
            D         + E+ 
Sbjct: 61 LVDPQTYAEEQETQEQK 77


>gi|56695923|ref|YP_166274.1| transcriptional regulator, putative [Ruegeria pomeroyi DSS-3]
 gi|56677660|gb|AAV94326.1| transcriptional regulator, putative [Ruegeria pomeroyi DSS-3]
          Length = 432

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 43/114 (37%), Gaps = 13/114 (11%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D   G RIR RR+++G+ Q  L   + I+   +   E    R+G   L  I+  L    S
Sbjct: 4   DTLTGSRIRERRLMIGLRQADLAREVDISASYLNLIEHNRRRIGGKLLVDIAAALSVEPS 63

Query: 72  FFFDVSPTV-----------CSDISSEENNVMDFIST-PDGLQ-LNRYFIQIDD 112
              + +               S   +E + + +F    P   + L R F ++  
Sbjct: 64  MLTEGAEAALLATLREAAADASPTGAEADRIDEFAGRFPGWAELLARLFRRVGS 117


>gi|16078945|ref|NP_389766.1| Xre family transcriptional regulator [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221309780|ref|ZP_03591627.1| hypothetical protein Bsubs1_10396 [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221314102|ref|ZP_03595907.1| hypothetical protein BsubsN3_10327 [Bacillus subtilis subsp.
           subtilis str. NCIB 3610]
 gi|221319024|ref|ZP_03600318.1| hypothetical protein BsubsJ_10243 [Bacillus subtilis subsp.
           subtilis str. JH642]
 gi|221323298|ref|ZP_03604592.1| hypothetical protein BsubsS_10362 [Bacillus subtilis subsp.
           subtilis str. SMY]
 gi|81342368|sp|O34647|YOBD_BACSU RecName: Full=Uncharacterized HTH-type transcriptional regulator
           yobD
 gi|2619003|gb|AAB84427.1| transcription regulator [Bacillus subtilis]
 gi|2634278|emb|CAB13777.1| transcriptional regulator (phage-related, Xre family) [Bacillus
           subtilis subsp. subtilis str. 168]
          Length = 112

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 25/113 (22%), Positives = 50/113 (44%), Gaps = 11/113 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R+R  R    ++ E+L E +GI       YE    +    +L  ++ + +  + +   +
Sbjct: 4   QRLRQLRKAHKLTMEQLAEKIGIAKSSYGGYEAESKKPPLDKLVILARLYDVSVDYILGL 63

Query: 77  SPTVCSDISSEENNVMDFISTP----DGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +     D   E  N+ +F+  P    DG +L     +I D    +KI++LV +
Sbjct: 64  TDD--PDPKVERKNLKEFLEKPDIHWDGYKLT---PEILDPI--RKILKLVTA 109


>gi|77409837|ref|ZP_00786476.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae COH1]
 gi|77171552|gb|EAO74782.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae COH1]
          Length = 148

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 10/68 (14%), Positives = 31/68 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    ++QE+L   +G++   + ++E G  ++   + + +++     + +    
Sbjct: 2  NRLKELRKEKKLTQEELAGEIGVSKITILRWENGERQIKPDKAKELAKYFNVSVGYLLGY 61

Query: 77 SPTVCSDI 84
          +P    D 
Sbjct: 62 APNKKIDF 69


>gi|329117658|ref|ZP_08246375.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis NCFD
           2020]
 gi|326908063|gb|EGE54977.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis NCFD
           2020]
          Length = 331

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 37/92 (40%), Gaps = 5/92 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+L E L ++ Q V K+E   +    +R+  ++E+      +     
Sbjct: 6   KIIEERKRNGWSQEQLAEKLDVSRQSVSKWEGAQSVPDLNRIIQMAEIFGVSTDYLLKED 65

Query: 78  PTVCSDISSEENNVMD-----FISTPDGLQLN 104
               + ++ + N   D      +S  +   L 
Sbjct: 66  QIKSTLVADDSNKAFDGKPLRKVSMSEAQDLI 97


>gi|229047313|ref|ZP_04192912.1| Helix-turn-helix domain protein [Bacillus cereus AH676]
 gi|228724055|gb|EEL75401.1| Helix-turn-helix domain protein [Bacillus cereus AH676]
          Length = 277

 Score = 61.8 bits (149), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 33/80 (41%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I 
Sbjct: 7  GKKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIG 66

Query: 64 EVLESPISFFFDVSPTVCSD 83
           V E  + +    +    ++
Sbjct: 67 NVFEVSLDYLLKETAEQSNE 86


>gi|313889218|ref|ZP_07822872.1| DNA-binding helix-turn-helix protein [Peptoniphilus harei
          ACS-146-V-Sch2b]
 gi|312844772|gb|EFR32179.1| DNA-binding helix-turn-helix protein [Peptoniphilus harei
          ACS-146-V-Sch2b]
          Length = 179

 Score = 61.8 bits (149), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 37/90 (41%), Gaps = 5/90 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +IR  R+  G++QE+L +   +T   + + E+ +       L  I E L +    
Sbjct: 1  MNIGNKIREMRIEKGLTQEELADRSELTKGFISQIERDLTSPSVDSLLDILEALGTDPGL 60

Query: 73 FFDVSPTV-----CSDISSEENNVMDFIST 97
          FF             D    EN  + ++  
Sbjct: 61 FFKREENEKIIFNEEDFFESENEELSYVLD 90


>gi|253578754|ref|ZP_04856025.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849697|gb|EES77656.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 206

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/72 (27%), Positives = 36/72 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G+ I+  R+   M+QE+L +   I+F  ++KYE         +L  I++ L   ++ 
Sbjct: 1  MNTGEIIKYFRLARNMTQEQLAQDAEISFSTLRKYEANERNPKYEQLSKIADALGISVNL 60

Query: 73 FFDVSPTVCSDI 84
          F D      SD+
Sbjct: 61 FMDFEIQSVSDL 72


>gi|329116441|ref|ZP_08245158.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis NCFD
           2020]
 gi|326906846|gb|EGE53760.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis NCFD
           2020]
          Length = 176

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/125 (16%), Positives = 52/125 (41%), Gaps = 18/125 (14%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R   G++QE L   +G T   +  +E   + + + + + +++     + +    
Sbjct: 2   NRLKELRKEKGLTQESLAHGIGTTKLTISNWENEKHVIKSDKAKQLADYFNVSVPYLLGF 61

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV--RSIVSSEKKYR 134
                SD   E+ + ++   T DG ++ +            ++ EL+  + +   E+ Y 
Sbjct: 62  -----SDFKDEQKSALEVYKTKDGFEVVKS-----------RVAELIGEKRLKIIEENYT 105

Query: 135 TIEEE 139
           T + +
Sbjct: 106 TYKRD 110


>gi|289425420|ref|ZP_06427197.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes SK187]
 gi|289154398|gb|EFD03086.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes SK187]
          Length = 508

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/56 (35%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG+ IR  R   GM+Q +L E L  +   + + E G   +    +  I+E LESPI
Sbjct: 9  VGRLIRDARKQHGMTQNQLAEILKTSQSAIHRVESGTQNLSLEYINRIAEALESPI 64


>gi|262370712|ref|ZP_06064037.1| conserved hypothetical protein [Acinetobacter johnsonii SH046]
 gi|262314512|gb|EEY95554.1| conserved hypothetical protein [Acinetobacter johnsonii SH046]
          Length = 182

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 33/56 (58%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +V + +R  R + G+SQ++L +  G++ + V   E G + +  ++L  I++VLE  
Sbjct: 9  HVSQNVRHYRSLKGLSQQQLADLAGLSRRMVAGVESGQDNISLAKLSLIADVLEVD 64


>gi|146297633|ref|YP_001181404.1| XRE family transcriptional regulator [Caldicellulosiruptor
          saccharolyticus DSM 8903]
 gi|145411209|gb|ABP68213.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          saccharolyticus DSM 8903]
          Length = 122

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 37/71 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++++  R   G++QE++ + LG+    +  YE G+  +  + L+++S +    +S+F 
Sbjct: 10 IGQKLQEARKKAGLTQEQVADYLGVNKTLISYYENGIREISIATLRNLSNLYGYTMSYFL 69

Query: 75 DVSPTVCSDIS 85
                   IS
Sbjct: 70 SDDEINEPTIS 80


>gi|291558136|emb|CBL35253.1| Predicted transcriptional regulators [Eubacterium siraeum V10Sc8a]
          Length = 106

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 19/91 (20%), Positives = 36/91 (39%), Gaps = 2/91 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G+R++  R+  GM+QE+L E + +T   +  YE          +  I+ V      +
Sbjct: 2   VKFGERVKQLRLSAGMTQEQLAERIWVTKAAISNYELSERNPSPETIIKIAGVFGVTTDY 61

Query: 73  FFDVSPTVCS--DISSEENNVMDFISTPDGL 101
              +        DIS      + F+ +   L
Sbjct: 62  LLGLEDKRSRTLDISGLCEEDIRFLQSAAAL 92


>gi|30019868|ref|NP_831499.1| MerR family transcriptional regulator [Bacillus cereus ATCC
          14579]
 gi|229043585|ref|ZP_04191294.1| Transcriptional regulator, MerR [Bacillus cereus AH676]
 gi|229127155|ref|ZP_04256152.1| Transcriptional regulator, MerR [Bacillus cereus BDRD-Cer4]
 gi|29895413|gb|AAP08700.1| Transcriptional regulator, MerR family [Bacillus cereus ATCC
          14579]
 gi|228656271|gb|EEL12112.1| Transcriptional regulator, MerR [Bacillus cereus BDRD-Cer4]
 gi|228725807|gb|EEL77055.1| Transcriptional regulator, MerR [Bacillus cereus AH676]
          Length = 181

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|238855118|ref|ZP_04645444.1| transcriptional regulator, XRE family [Lactobacillus jensenii
          269-3]
 gi|260664951|ref|ZP_05865802.1| predicted protein [Lactobacillus jensenii SJ-7A-US]
 gi|282934260|ref|ZP_06339535.1| transcriptional repressor [Lactobacillus jensenii 208-1]
 gi|313472501|ref|ZP_07812991.1| DNA-binding protein [Lactobacillus jensenii 1153]
 gi|238832258|gb|EEQ24569.1| transcriptional regulator, XRE family [Lactobacillus jensenii
          269-3]
 gi|239529934|gb|EEQ68935.1| DNA-binding protein [Lactobacillus jensenii 1153]
 gi|260561434|gb|EEX27407.1| predicted protein [Lactobacillus jensenii SJ-7A-US]
 gi|281301669|gb|EFA93938.1| transcriptional repressor [Lactobacillus jensenii 208-1]
          Length = 138

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 34/59 (57%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +R++  R+  GMSQE+L   L ++ Q V K+E G +     +L+ +S++ +  I +
Sbjct: 3  QINERLKEMRLNAGMSQEELASKLNVSRQSVSKWETGDSLPDILKLKQLSKLYDVSIDY 61


>gi|89893759|ref|YP_517246.1| hypothetical protein DSY1013 [Desulfitobacterium hafniense Y51]
 gi|89333207|dbj|BAE82802.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 361

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 34/87 (39%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK I  +R     +QE+L + +G++   V K+E G      + L  I+  L + +   F 
Sbjct: 6   GKVITAKRKEKSWTQEQLAQAVGVSTPAVSKWETGATYPDITLLPPIARALNTTVDELFS 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
               +  +  S        +   +G  
Sbjct: 66  YQNELSDNDVSGFTQKATSLYEAEGFD 92


>gi|229162462|ref|ZP_04290423.1| Helix-turn-helix domain protein [Bacillus cereus R309803]
 gi|228620941|gb|EEK77806.1| Helix-turn-helix domain protein [Bacillus cereus R309803]
          Length = 277

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 33/80 (41%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           KK      +  G+++   R   G+SQE L E L  T Q + K+E G       +L  I 
Sbjct: 7  GKKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAISKWENGQGFPETEKLIMIG 66

Query: 64 EVLESPISFFFDVSPTVCSD 83
           V E  + +    +    ++
Sbjct: 67 NVFEVSLDYLLKETVEQSNE 86


>gi|113460568|ref|YP_718632.1| transcriptional regulator [Haemophilus somnus 129PT]
 gi|112822611|gb|ABI24700.1| transcriptional regulator [Haemophilus somnus 129PT]
          Length = 146

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 34/71 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK+++  R+   ++Q++L    G+T   ++ YE G       +LQ I++ L   IS   D
Sbjct: 4  GKKLKQIRLFRKLTQKELAIMSGLTDAAIRNYELGNRSPNIEQLQKIADALNCDISALID 63

Query: 76 VSPTVCSDISS 86
            P    +I  
Sbjct: 64 HDPNSIFEIMH 74


>gi|306826019|ref|ZP_07459355.1| XRE family transcriptional regulator [Streptococcus sp. oral
          taxon 071 str. 73H25AP]
 gi|304431735|gb|EFM34715.1| XRE family transcriptional regulator [Streptococcus sp. oral
          taxon 071 str. 73H25AP]
          Length = 166

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 37/75 (49%), Gaps = 2/75 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
          +++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    
Sbjct: 6  EKLFELRKEKGWSQEKLAEQINVSRQSISKWESGQVLPEIEKIIELSKIFQVTTDYLLLD 65

Query: 75 DVSPTVCSDISSEEN 89
          + S    +++S EE+
Sbjct: 66 ENSEKGSTEVSLEED 80


>gi|257416739|ref|ZP_05593733.1| conserved hypothetical protein [Enterococcus faecalis AR01/DG]
 gi|257158567|gb|EEU88527.1| conserved hypothetical protein [Enterococcus faecalis ARO1/DG]
          Length = 158

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3  INTIIGNNLKKIRQEKKLTLDELAGITGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          ++  +      + +  +   V  
Sbjct: 63 TYLLEDDYVKENPVVKKTETVTQ 85


>gi|257084469|ref|ZP_05578830.1| conserved hypothetical protein [Enterococcus faecalis Fly1]
 gi|256992499|gb|EEU79801.1| conserved hypothetical protein [Enterococcus faecalis Fly1]
 gi|315172481|gb|EFU16498.1| helix-turn-helix protein [Enterococcus faecalis TX1346]
          Length = 183

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3  INTIIGNNLKKIRQEKKLTLDELAGITGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          ++  +      + +  +   V  
Sbjct: 63 TYLLEDDYVKENPVVKKTETVTQ 85


>gi|257081927|ref|ZP_05576288.1| conserved hypothetical protein [Enterococcus faecalis E1Sol]
 gi|256989957|gb|EEU77259.1| conserved hypothetical protein [Enterococcus faecalis E1Sol]
          Length = 183

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3  INTIIGNNLKKIRQEKKLTLDELAGITGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          ++  +      + +  +   V  
Sbjct: 63 TYLLEDDYVKENPVVKKTETVTQ 85


>gi|256961213|ref|ZP_05565384.1| conserved hypothetical protein [Enterococcus faecalis Merz96]
 gi|293384161|ref|ZP_06630055.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          R712]
 gi|293386975|ref|ZP_06631544.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          S613]
 gi|312907888|ref|ZP_07766871.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|312978583|ref|ZP_07790321.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
 gi|256951709|gb|EEU68341.1| conserved hypothetical protein [Enterococcus faecalis Merz96]
 gi|291078641|gb|EFE16005.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          R712]
 gi|291083645|gb|EFE20608.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          S613]
 gi|310625979|gb|EFQ09262.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|311288732|gb|EFQ67288.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
          Length = 183

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3  INTIIGNNLKKIRQEKKLTLDELAGITGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          ++  +      + +  +   V  
Sbjct: 63 TYLLEDDYVKENPVVKKTETVTQ 85


>gi|255975095|ref|ZP_05425681.1| conserved hypothetical protein [Enterococcus faecalis T2]
 gi|307285607|ref|ZP_07565746.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
 gi|255967967|gb|EET98589.1| conserved hypothetical protein [Enterococcus faecalis T2]
 gi|306502831|gb|EFM72096.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
          Length = 183

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3  INTIIGNNLKKIRQEKKLTLDELAGITGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          ++  +      + +  +   V  
Sbjct: 63 TYLLEDDYVKENPVVKKTETVTQ 85


>gi|229545084|ref|ZP_04433809.1| transcriptional regulator [Enterococcus faecalis TX1322]
 gi|229309976|gb|EEN75963.1| transcriptional regulator [Enterococcus faecalis TX1322]
          Length = 183

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3  INTIIGNNLKKIRQEKKLTLDELAGITGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          ++  +      + +  +   V  
Sbjct: 63 TYLLEDDYVKENPVVKKTETVTQ 85


>gi|229549329|ref|ZP_04438054.1| transcriptional regulator [Enterococcus faecalis ATCC 29200]
 gi|255972038|ref|ZP_05422624.1| conserved hypothetical protein [Enterococcus faecalis T1]
 gi|256956771|ref|ZP_05560942.1| conserved hypothetical protein [Enterococcus faecalis DS5]
 gi|300860468|ref|ZP_07106555.1| helix-turn-helix protein [Enterococcus faecalis TUSoD Ef11]
 gi|312953579|ref|ZP_07772416.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|229305566|gb|EEN71562.1| transcriptional regulator [Enterococcus faecalis ATCC 29200]
 gi|255963056|gb|EET95532.1| conserved hypothetical protein [Enterococcus faecalis T1]
 gi|256947267|gb|EEU63899.1| conserved hypothetical protein [Enterococcus faecalis DS5]
 gi|300849507|gb|EFK77257.1| helix-turn-helix protein [Enterococcus faecalis TUSoD Ef11]
 gi|310628417|gb|EFQ11700.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|315035920|gb|EFT47852.1| helix-turn-helix protein [Enterococcus faecalis TX0027]
 gi|315148523|gb|EFT92539.1| helix-turn-helix protein [Enterococcus faecalis TX4244]
 gi|315151846|gb|EFT95862.1| helix-turn-helix protein [Enterococcus faecalis TX0031]
 gi|315159274|gb|EFU03291.1| helix-turn-helix protein [Enterococcus faecalis TX0312]
 gi|315170200|gb|EFU14217.1| helix-turn-helix protein [Enterococcus faecalis TX1342]
 gi|323481485|gb|ADX80924.1| helix-turn-helix family protein [Enterococcus faecalis 62]
 gi|327535779|gb|AEA94613.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          OG1RF]
          Length = 183

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3  INTIIGNNLKKIRQEKKLTLDELAGITGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          ++  +      + +  +   V  
Sbjct: 63 TYLLEDDYVKENPVVKKTETVTQ 85


>gi|55820932|ref|YP_139374.1| transcriptional regulator [Streptococcus thermophilus LMG 18311]
 gi|55822854|ref|YP_141295.1| transcriptional regulator [Streptococcus thermophilus CNRZ1066]
 gi|55736917|gb|AAV60559.1| transcriptional regulator [Streptococcus thermophilus LMG 18311]
 gi|55738839|gb|AAV62480.1| transcriptional regulator [Streptococcus thermophilus CNRZ1066]
          Length = 229

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 34/81 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R   GMSQ  + + LGI+      +E G  +     L  ++E+     ++F  
Sbjct: 4  GQRLKEIREAQGMSQASVAKHLGISRSSYFNWENGKTKPNQKNLSVLAELFGVAETYFLS 63

Query: 76 VSPTVCSDISSEENNVMDFIS 96
              V   +   E N  + + 
Sbjct: 64 EHEIVEVYLELNEENRQEALR 84


>gi|29376999|ref|NP_816153.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          V583]
 gi|227554043|ref|ZP_03984090.1| transcriptional regulator [Enterococcus faecalis HH22]
 gi|256616940|ref|ZP_05473786.1| conserved hypothetical protein [Enterococcus faecalis ATCC 4200]
 gi|256763188|ref|ZP_05503768.1| conserved hypothetical protein [Enterococcus faecalis T3]
 gi|256853861|ref|ZP_05559226.1| transcriptional regulator [Enterococcus faecalis T8]
 gi|256963668|ref|ZP_05567839.1| conserved hypothetical protein [Enterococcus faecalis HIP11704]
 gi|257079726|ref|ZP_05574087.1| conserved hypothetical protein [Enterococcus faecalis JH1]
 gi|257087532|ref|ZP_05581893.1| conserved hypothetical protein [Enterococcus faecalis D6]
 gi|257090691|ref|ZP_05585052.1| conserved hypothetical protein [Enterococcus faecalis CH188]
 gi|257419956|ref|ZP_05596950.1| conserved hypothetical protein [Enterococcus faecalis T11]
 gi|294779679|ref|ZP_06745069.1| DNA-binding protein [Enterococcus faecalis PC1.1]
 gi|307270739|ref|ZP_07552030.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|307271614|ref|ZP_07552885.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|307276796|ref|ZP_07557907.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|307290439|ref|ZP_07570354.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|312905231|ref|ZP_07764351.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|29344465|gb|AAO82223.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          V583]
 gi|227176791|gb|EEI57763.1| transcriptional regulator [Enterococcus faecalis HH22]
 gi|256596467|gb|EEU15643.1| conserved hypothetical protein [Enterococcus faecalis ATCC 4200]
 gi|256684439|gb|EEU24134.1| conserved hypothetical protein [Enterococcus faecalis T3]
 gi|256710804|gb|EEU25847.1| transcriptional regulator [Enterococcus faecalis T8]
 gi|256954164|gb|EEU70796.1| conserved hypothetical protein [Enterococcus faecalis HIP11704]
 gi|256987756|gb|EEU75058.1| conserved hypothetical protein [Enterococcus faecalis JH1]
 gi|256995562|gb|EEU82864.1| conserved hypothetical protein [Enterococcus faecalis D6]
 gi|256999503|gb|EEU86023.1| conserved hypothetical protein [Enterococcus faecalis CH188]
 gi|257161784|gb|EEU91744.1| conserved hypothetical protein [Enterococcus faecalis T11]
 gi|294453233|gb|EFG21645.1| DNA-binding protein [Enterococcus faecalis PC1.1]
 gi|306498632|gb|EFM68134.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|306506433|gb|EFM75592.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|306511492|gb|EFM80491.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|306513049|gb|EFM81690.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|310631468|gb|EFQ14751.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|315025312|gb|EFT37244.1| helix-turn-helix protein [Enterococcus faecalis TX2137]
 gi|315030397|gb|EFT42329.1| helix-turn-helix protein [Enterococcus faecalis TX4000]
 gi|315161820|gb|EFU05837.1| helix-turn-helix protein [Enterococcus faecalis TX0645]
 gi|315168539|gb|EFU12556.1| helix-turn-helix protein [Enterococcus faecalis TX1341]
 gi|315574702|gb|EFU86893.1| helix-turn-helix protein [Enterococcus faecalis TX0309B]
 gi|315579274|gb|EFU91465.1| helix-turn-helix protein [Enterococcus faecalis TX0630]
 gi|315580922|gb|EFU93113.1| helix-turn-helix protein [Enterococcus faecalis TX0309A]
 gi|329578095|gb|EGG59508.1| DNA-binding helix-turn-helix protein [Enterococcus faecalis
          TX1467]
          Length = 183

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  ++  R    ++ ++L    G++   + + EKG      + +  IS  L  P 
Sbjct: 3  INTIIGNNLKKIRQEKKLTLDELAGITGVSKGMLSQIEKGTTNPTINTIWKISNGLNVPY 62

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          ++  +      + +  +   V  
Sbjct: 63 TYLLEDDYVKENPVVKKTETVTQ 85


>gi|332363209|gb|EGJ40994.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK49]
          Length = 205

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 31/70 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R   G+SQE L + LG++ Q V K+E   +     ++  +S+       +
Sbjct: 1  MNLSDRIQYLRKARGISQEGLADQLGVSRQAVSKWESEQSMPDLDKIISMSDYFAVTTDY 60

Query: 73 FFDVSPTVCS 82
                 V  
Sbjct: 61 LLKGIEPVVQ 70


>gi|308187276|ref|YP_003931407.1| LexA repressor [Pantoea vagans C9-1]
 gi|308057786|gb|ADO09958.1| LexA repressor [Pantoea vagans C9-1]
          Length = 210

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 36/71 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIRLRR  L ++Q++L + + ++   + ++EK         L  ++E L    ++  
Sbjct: 6  LGDRIRLRRKSLQLTQKQLAQQVKVSHVAISQWEKEETLPRGENLLRLAEALGCTPAYLI 65

Query: 75 DVSPTVCSDIS 85
          D    V S+ S
Sbjct: 66 DGDGPVFSENS 76


>gi|317046283|ref|YP_004113931.1| hypothetical protein Pat9b_0045 [Pantoea sp. At-9b]
 gi|316947900|gb|ADU67375.1| protein of unknown function DUF955 [Pantoea sp. At-9b]
          Length = 361

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 34/56 (60%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I LRR +LG+SQ++L + + I+   + K E+G+      ++++I+  L  P+ FF 
Sbjct: 15 IELRRKMLGLSQKELAQIIAISQGTLSKIEQGLKPATDDQIENIANALNCPVEFFM 70


>gi|256852139|ref|ZP_05557526.1| helix-turn-helix domain-containing protein [Lactobacillus
          jensenii 27-2-CHN]
 gi|260661292|ref|ZP_05862205.1| predicted protein [Lactobacillus jensenii 115-3-CHN]
 gi|282932144|ref|ZP_06337598.1| transcriptional regulator [Lactobacillus jensenii 208-1]
 gi|297204982|ref|ZP_06922378.1| XRE family transcriptional regulator [Lactobacillus jensenii
          JV-V16]
 gi|256615551|gb|EEU20741.1| helix-turn-helix domain-containing protein [Lactobacillus
          jensenii 27-2-CHN]
 gi|260547747|gb|EEX23724.1| predicted protein [Lactobacillus jensenii 115-3-CHN]
 gi|281303737|gb|EFA95885.1| transcriptional regulator [Lactobacillus jensenii 208-1]
 gi|297149560|gb|EFH29857.1| XRE family transcriptional regulator [Lactobacillus jensenii
          JV-V16]
          Length = 138

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 34/59 (57%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +R++  R+  GMSQE+L   L ++ Q V K+E G +     +L+ +S++ +  I +
Sbjct: 3  QINERLKEMRLNAGMSQEELASKLNVSRQSVSKWETGDSLPDILKLKQLSQLYDVSIDY 61


>gi|167769359|ref|ZP_02441412.1| hypothetical protein ANACOL_00685 [Anaerotruncus colihominis DSM
          17241]
 gi|167668327|gb|EDS12457.1| hypothetical protein ANACOL_00685 [Anaerotruncus colihominis DSM
          17241]
          Length = 205

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 30/57 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R++  R   G+SQ  L + LG++ Q V K+E   +  G + L  I++VL     + 
Sbjct: 10 ERLKALRKECGISQRALAQRLGVSQQAVAKWEAASSTPGPNALATIADVLGVSSDYL 66


>gi|330831318|ref|YP_004394270.1| putative Zn peptidase [Aeromonas veronii B565]
 gi|328806454|gb|AEB51653.1| Putative Zn peptidase [Aeromonas veronii B565]
          Length = 375

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 22/96 (22%), Positives = 47/96 (48%), Gaps = 4/96 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R+RL R++ G + ++LGE + ++ Q + +YE  +    +     ++E L     FF  
Sbjct: 7   GERLRLARILNGFTLQELGEAVSVSRQSIHQYESDIRAPASDVTNALAEYLRVQPDFF-- 64

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL-QLNRYFIQI 110
               +  D+  E+ +     +TP G+ +  + +  I
Sbjct: 65  -ERPLSGDVKPEQCHFRKRQTTPVGVKERVQAYSTI 99


>gi|291534827|emb|CBL07939.1| Predicted N-acetylglucosamine kinase [Roseburia intestinalis
          M50/1]
          Length = 382

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 30/55 (54%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G++Q +  E LGI+ Q V K+E G++      L  ISE+L+  I 
Sbjct: 9  ENIKTYRNKRGLNQYEFAEKLGISPQAVSKWECGLSCPSVENLCVISEILDVSID 63


>gi|308235243|ref|ZP_07665980.1| transcriptional regulator [Gardnerella vaginalis ATCC 14018]
 gi|311115056|ref|YP_003986277.1| transcriptional regulator [Gardnerella vaginalis ATCC 14019]
 gi|310946550|gb|ADP39254.1| transcriptional regulator [Gardnerella vaginalis ATCC 14019]
          Length = 157

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/95 (21%), Positives = 39/95 (41%), Gaps = 5/95 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V   IR  R    ++Q++L E LG++   + +YE G + +    +  I +  +      F
Sbjct: 2   VSVNIRALRRSKKITQQELAEALGVSRNSIVRYENGTSAISTRLIDKICDKFKVS---LF 58

Query: 75  DVSPTVCSDISS--EENNVMDFISTPDGLQLNRYF 107
           D+        S   + N  ++ +     L L R +
Sbjct: 59  DIVHEKELSASDKYDLNMKIEVLKERGALLLARLY 93


>gi|259908398|ref|YP_002648754.1| transcriptional repressor DicA [Erwinia pyrifoliae Ep1/96]
 gi|224964020|emb|CAX55526.1| HTH-type transcriptional regulator DicA [Erwinia pyrifoliae Ep1/96]
 gi|283478343|emb|CAY74259.1| HTH-type transcriptional regulator dicA; Repressor protein of
           division inhibition gene dicA [Erwinia pyrifoliae DSM
           12163]
          Length = 133

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 27/134 (20%), Positives = 54/134 (40%), Gaps = 9/134 (6%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++ +G+RIR RR  +  +Q  L + L I+   V ++E+  +      L  ++++L+   +
Sbjct: 3   NLTIGERIRNRRKEMKFTQRSLAKALKISHVSVSQWERDDSEPTGKNLFALTKILQCTPT 62

Query: 72  F-FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           +  F        + +     + D        +L   FI I D +  + + EL       E
Sbjct: 63  WVLFGDQNQSPQEPTDTPLELDDKQR-----ELIGLFIAITDSEQDELLNEL---RARVE 114

Query: 131 KKYRTIEEECMVEQ 144
                +EE     Q
Sbjct: 115 NNKIRLEELLKARQ 128


>gi|254461150|ref|ZP_05074566.1| DNA-binding protein [Rhodobacterales bacterium HTCC2083]
 gi|206677739|gb|EDZ42226.1| DNA-binding protein [Rhodobacteraceae bacterium HTCC2083]
          Length = 190

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 34/71 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R   G++   L + L  +   + + E+ ++      L+ I+++L+ P+S  F
Sbjct: 12 LGADLRALRKSRGLTLSDLADALDRSLGWISQVERDLSEPSVFDLKQIAKILDVPVSILF 71

Query: 75 DVSPTVCSDIS 85
            +PT   +  
Sbjct: 72 GQAPTPAQEAG 82


>gi|154496374|ref|ZP_02035070.1| hypothetical protein BACCAP_00662 [Bacteroides capillosus ATCC
          29799]
 gi|150274457|gb|EDN01534.1| hypothetical protein BACCAP_00662 [Bacteroides capillosus ATCC
          29799]
          Length = 307

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 36/81 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R   G+SQE LGE LG++ Q + K+E         +L  +S + E  +  
Sbjct: 1  MTLGQKIQTLRHDAGLSQEGLGEKLGVSRQAISKWEADGAVPEVDKLIALSRLFEVNLHD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
             V  T   +         +
Sbjct: 61 LLQVEGTSREEPEESGEQPPE 81


>gi|327198606|ref|YP_004327350.1| phage repressor protein [Erwinia phage phiEt88]
 gi|311875300|emb|CBX44558.1| phage repressor protein [Erwinia phage phiEt88]
          Length = 236

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R+R+ R   G+SQ+ LG+ +G++   +QK E G ++        I+E L     + 
Sbjct: 7  ERLRVSRKNKGLSQKALGDLVGVSQANIQKLENGKSQ-STGYAAQIAEALGVSAIWL 62


>gi|293610665|ref|ZP_06692965.1| conserved hypothetical protein [Acinetobacter sp. SH024]
 gi|292827009|gb|EFF85374.1| conserved hypothetical protein [Acinetobacter sp. SH024]
          Length = 183

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 38/83 (45%), Gaps = 7/83 (8%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG  IR  R    +SQ+ L +  G++ + +   E G   +  ++L  I+ VL       
Sbjct: 10 HVGTNIRSLRDERDLSQQDLADLAGVSRRTIAALETGQVNISLAKLDSIAAVLGVD---- 65

Query: 74 FDVSPTVCSDISSEENNVMDFIS 96
               T+ S    +E+ V++ ++
Sbjct: 66 ---FKTIVSAPEHKEHAVVNALA 85


>gi|166030371|ref|ZP_02233200.1| hypothetical protein DORFOR_00032 [Dorea formicigenerans ATCC
          27755]
 gi|166029840|gb|EDR48597.1| hypothetical protein DORFOR_00032 [Dorea formicigenerans ATCC
          27755]
          Length = 159

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 31/68 (45%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + + +   V K +   R    ++Q++L E LG+    +  +E GVN +    L  I ++ 
Sbjct: 1  MSDNIKETVAKNLLYYRKKNKITQKELAEKLGVKHNAISSWENGVNSIDIDTLFQICKIF 60

Query: 67 ESPISFFF 74
             ++  +
Sbjct: 61 GISVNDMY 68


>gi|228933114|ref|ZP_04095975.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228826555|gb|EEM72328.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
          Length = 181

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 47/110 (42%), Gaps = 8/110 (7%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
           +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3   NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71  SFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDV 113
           SF  + + T    + S        +N   + +S      L    + I   
Sbjct: 63  SFLLEDTNTDDLIVRSHKRKKMIIDNLSYEMLSPDFTGNLATAIMTIPPN 112


>gi|168210486|ref|ZP_02636111.1| immunity repressor protein [Clostridium perfringens B str. ATCC
          3626]
 gi|170711430|gb|EDT23612.1| immunity repressor protein [Clostridium perfringens B str. ATCC
          3626]
          Length = 199

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 30/56 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKRI+  R++  M+Q++L + L  +   +QKYE     +    L  + +VL   +
Sbjct: 4  LGKRIKKYRILKNMTQQQLADKLNKSKSTIQKYESDSVNLNTDTLNILCDVLNIDL 59


>gi|163790412|ref|ZP_02184843.1| putative transcriptional regulator [Carnobacterium sp. AT7]
 gi|159874316|gb|EDP68389.1| putative transcriptional regulator [Carnobacterium sp. AT7]
          Length = 170

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 37/81 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R++  R   G SQ  + + L I+ Q + K+E G +    + L  +S   E  I  
Sbjct: 1  MELGERLKQSRTNKGFSQTNVADHLNISRQSISKWENGNSLPDLANLVKLSNYYEVSIDE 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
              +  + + I + E  + D
Sbjct: 61 LLKENKQLKNKIEANELEIED 81


>gi|75763251|ref|ZP_00743006.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|218896766|ref|YP_002445177.1| DNA-binding protein [Bacillus cereus G9842]
 gi|228900413|ref|ZP_04064641.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 4222]
 gi|228938947|ref|ZP_04101547.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228952211|ref|ZP_04114302.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|228958114|ref|ZP_04119849.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|228969645|ref|ZP_04130433.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228971829|ref|ZP_04132450.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228978437|ref|ZP_04138814.1| Transcriptional regulator, MerR [Bacillus thuringiensis Bt407]
 gi|229069382|ref|ZP_04202672.1| Transcriptional regulator, MerR [Bacillus cereus F65185]
 gi|229079014|ref|ZP_04211566.1| Transcriptional regulator, MerR [Bacillus cereus Rock4-2]
 gi|229109288|ref|ZP_04238887.1| Transcriptional regulator, MerR [Bacillus cereus Rock1-15]
 gi|229144444|ref|ZP_04272849.1| Transcriptional regulator, MerR [Bacillus cereus BDRD-ST24]
 gi|229178237|ref|ZP_04305608.1| Transcriptional regulator, MerR [Bacillus cereus 172560W]
 gi|296502428|ref|YP_003664128.1| MerR family transcriptional regulator [Bacillus thuringiensis
          BMB171]
 gi|74489263|gb|EAO52724.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|218543988|gb|ACK96382.1| DNA-binding protein [Bacillus cereus G9842]
 gi|228605367|gb|EEK62817.1| Transcriptional regulator, MerR [Bacillus cereus 172560W]
 gi|228639075|gb|EEK95500.1| Transcriptional regulator, MerR [Bacillus cereus BDRD-ST24]
 gi|228674298|gb|EEL29543.1| Transcriptional regulator, MerR [Bacillus cereus Rock1-15]
 gi|228704428|gb|EEL56862.1| Transcriptional regulator, MerR [Bacillus cereus Rock4-2]
 gi|228713869|gb|EEL65754.1| Transcriptional regulator, MerR [Bacillus cereus F65185]
 gi|228781454|gb|EEM29655.1| Transcriptional regulator, MerR [Bacillus thuringiensis Bt407]
 gi|228787919|gb|EEM35877.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228790054|gb|EEM37848.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228801631|gb|EEM48513.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|228807482|gb|EEM54010.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|228820796|gb|EEM66821.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228859211|gb|EEN03643.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 4222]
 gi|296323480|gb|ADH06408.1| MerR family transcriptional regulator [Bacillus thuringiensis
          BMB171]
 gi|326939449|gb|AEA15345.1| MerR family transcriptional regulator [Bacillus thuringiensis
          serovar chinensis CT-43]
          Length = 181

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|304438138|ref|ZP_07398081.1| transcriptional regulator [Selenomonas sp. oral taxon 149 str.
           67H29BP]
 gi|304368911|gb|EFM22593.1| transcriptional regulator [Selenomonas sp. oral taxon 149 str.
           67H29BP]
          Length = 128

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 40/92 (43%), Gaps = 2/92 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           KRIR RR  LG+SQE+L + +G  +   + K EKG N +  S++   ++ L +       
Sbjct: 6   KRIRARREELGISQEELAKRMGYKSRSSINKIEKGENDIPQSKIVAFAQALRTTPEALMG 65

Query: 76  -VSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             +       ++  +     +   +   L R 
Sbjct: 66  WETSDTSPQSNTPSDPASILLDDEEIRTLARN 97


>gi|291536948|emb|CBL10060.1| Predicted transcriptional regulators [Roseburia intestinalis
          M50/1]
          Length = 198

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 30/55 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+ +R    ++Q++  + LG + + +QKYE G   +    L+ I+  L  P
Sbjct: 17 IGKAIQKQRRAQKITQKEFAQHLGKSERTIQKYESGEILMKIDVLKQIANELNVP 71


>gi|228934904|ref|ZP_04097735.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|228824804|gb|EEM70605.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
          Length = 277

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 33/80 (41%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I 
Sbjct: 7  GKKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIG 66

Query: 64 EVLESPISFFFDVSPTVCSD 83
           V E  + +    +    ++
Sbjct: 67 NVFEVSLDYLLKETAEQSNE 86


>gi|225570544|ref|ZP_03779569.1| hypothetical protein CLOHYLEM_06646 [Clostridium hylemonae DSM
           15053]
 gi|225160741|gb|EEG73360.1| hypothetical protein CLOHYLEM_06646 [Clostridium hylemonae DSM
           15053]
          Length = 367

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 38/90 (42%), Gaps = 2/90 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+GK I   R   G++QE+L E +G++   V K+E G        L  ++ +    +  
Sbjct: 4   VNIGKNIMKYRRETGITQEQLAEHMGVSKSSVSKWETGNAYPDICLLPELATLFNISVDT 63

Query: 73  FFDVSPTVCSDISSE--ENNVMDFISTPDG 100
                P +     ++        F S P+G
Sbjct: 64  LMGYEPQLTKKRIAKLYRELAEAFPSEPEG 93


>gi|160935455|ref|ZP_02082837.1| hypothetical protein CLOBOL_00351 [Clostridium bolteae ATCC
           BAA-613]
 gi|158441813|gb|EDP19513.1| hypothetical protein CLOBOL_00351 [Clostridium bolteae ATCC
           BAA-613]
          Length = 184

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/99 (20%), Positives = 41/99 (41%), Gaps = 7/99 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++IR  R    ++ + + E  G++   + + E+G      S L+ +SE L        
Sbjct: 2   VGEKIRKLRKEKKLTLKDIAEATGLSIGYISQLERGAVEPSLSSLRKVSEFLGVSPYLLV 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           D S    + + S++  ++ F  +         F +I   
Sbjct: 62  DQSEHHPAMVKSDQRPIIKFPKS-------EIFYEIVSP 93


>gi|323492807|ref|ZP_08097949.1| DNA-binding transcriptional repressor PuuR [Vibrio brasiliensis LMG
           20546]
 gi|323312878|gb|EGA66000.1| DNA-binding transcriptional repressor PuuR [Vibrio brasiliensis LMG
           20546]
          Length = 185

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 25/95 (26%), Positives = 39/95 (41%), Gaps = 2/95 (2%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +  +GK I   R   G+SQ +L E  GIT   +   E G      S LQ I  V    +S
Sbjct: 3   NQEIGKNIVQLRKQHGLSQRELAERAGITHSAISSIENGKVSPSVSSLQKIVNVFSLSLS 62

Query: 72  FFFDVSPTVCSD--ISSEENNVMDFISTPDGLQLN 104
            FF        +  +   E+ +++  S    ++L 
Sbjct: 63  EFFTFEKPQSDEVKVVMTEDELVEMGSESVSMKLV 97


>gi|307352662|ref|YP_003893713.1| XRE family transcriptional regulator [Methanoplanus petrolearius
          DSM 11571]
 gi|307155895|gb|ADN35275.1| transcriptional regulator, XRE family [Methanoplanus petrolearius
          DSM 11571]
          Length = 83

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 4/76 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI++ R +  M+QE+L E + +T + +   E+G           I+++   P+   FFF
Sbjct: 8  NRIKVYRAMHDMTQEELAEKIRVTRKTINSIERGKYNPSIEVAFKIAKIFRVPVEKIFFF 67

Query: 75 DV--SPTVCSDISSEE 88
          +      V  D SS +
Sbjct: 68 EDETPEDVIEDPSSPD 83


>gi|289428534|ref|ZP_06430218.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes J165]
 gi|295130785|ref|YP_003581448.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes SK137]
 gi|289158228|gb|EFD06447.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes J165]
 gi|291375959|gb|ADD99813.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes SK137]
          Length = 508

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/56 (35%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG+ IR  R   GM+Q +L E L  +   + + E G   +    +  I+E LESPI
Sbjct: 9  VGRLIRDARKQHGMTQNQLAEILKTSQSAIHRVESGTQNLSLEYINRIAEALESPI 64


>gi|254465481|ref|ZP_05078892.1| DNA-binding protein [Rhodobacterales bacterium Y4I]
 gi|206686389|gb|EDZ46871.1| DNA-binding protein [Rhodobacterales bacterium Y4I]
          Length = 182

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 40/119 (33%), Gaps = 9/119 (7%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
             P+ +   +   I+  R   G S   L    GI    + + E G        L  ++  
Sbjct: 2   SAPHQM---IAAAIQRERNRAGKSLSALAAQAGIAKSTLSQLEAGNGNPSVETLWALAAA 58

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN-RYFIQIDDVKVRQKIIELV 123
           L  P+S  F+      + I + E   ++   +     L  R         VR+ I  +V
Sbjct: 59  LGVPLSLLFETEAPSTTLIRAAEGEPLESEQSDFTAVLLSRC-----PSNVRRDIYRVV 112


>gi|182434296|ref|YP_001822015.1| putative transcriptional regulator [Streptomyces griseus subsp.
           griseus NBRC 13350]
 gi|326774809|ref|ZP_08234074.1| helix-turn-helix domain protein [Streptomyces cf. griseus
           XylebKG-1]
 gi|178462812|dbj|BAG17332.1| putative transcriptional regulator [Streptomyces griseus subsp.
           griseus NBRC 13350]
 gi|326655142|gb|EGE39988.1| helix-turn-helix domain protein [Streptomyces cf. griseus
           XylebKG-1]
          Length = 199

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 21/104 (20%), Positives = 39/104 (37%), Gaps = 8/104 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G++   L    GI+   + + E G  R     +  I+   E P+    
Sbjct: 18  VGPRLRRLRKDRGVTLAALSAATGISVSTLSRLESGGRRPSLELMLPIARAHEVPLDDLV 77

Query: 75  DVSPTVCSDISSEE-----NNVMDFISTPDGLQLNRYFIQIDDV 113
             +P     + ++        ++   + P GLQ    +  I + 
Sbjct: 78  GAAPVGDPRVRAKPIVQHGRTMLPLTARPGGLQ---AYKLIQEP 118


>gi|160938164|ref|ZP_02085520.1| hypothetical protein CLOBOL_03058 [Clostridium bolteae ATCC
          BAA-613]
 gi|158438968|gb|EDP16724.1| hypothetical protein CLOBOL_03058 [Clostridium bolteae ATCC
          BAA-613]
          Length = 359

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 35/73 (47%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +DI +G RI   R    M+QE+L   LG++   V K+E G +    S L  ++  LE+ +
Sbjct: 1  MDIKLGPRIASLRRAKSMTQEQLALSLGVSPPAVSKWETGASCPDISLLCPLARALETNV 60

Query: 71 SFFFDVSPTVCSD 83
                  T+  +
Sbjct: 61 DTLLQFEETLTEE 73


>gi|295093563|emb|CBK82654.1| Predicted transcriptional regulators [Coprococcus sp. ART55/1]
          Length = 298

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/108 (18%), Positives = 46/108 (42%), Gaps = 9/108 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ I  +R    ++Q +L + LG + + V K+E+G+     S    + E+LE  ++ F 
Sbjct: 6   IGRYIAEKRKRARLTQRQLADKLGKSDKSVSKWERGICLPDVSVYMELCEILEISVNEFL 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                    +  + +  +    + +G        +     +R+ I+ L
Sbjct: 66  AGEDISEDSVREKSDETL-LQVSKEG--------KNKQKFLRRIIVAL 104


>gi|229827500|ref|ZP_04453569.1| hypothetical protein GCWU000182_02889 [Abiotrophia defectiva ATCC
          49176]
 gi|229788438|gb|EEP24552.1| hypothetical protein GCWU000182_02889 [Abiotrophia defectiva ATCC
          49176]
          Length = 217

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 31/65 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R   G +QE++ E LG++ Q +  +E   +      +  +S++ +  + +
Sbjct: 1  MEIGSKIKKSRTEAGFTQEQVAESLGVSRQTISNWENEKSYPDIISVLKMSDLFKVSLDY 60

Query: 73 FFDVS 77
               
Sbjct: 61 LLKGE 65


>gi|168487423|ref|ZP_02711931.1| transcriptional activator [Streptococcus pneumoniae CDC1087-00]
 gi|183569749|gb|EDT90277.1| transcriptional activator [Streptococcus pneumoniae CDC1087-00]
          Length = 287

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 27/96 (28%), Positives = 49/96 (51%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ RL+R  L +SQ+ L +  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRLKRKELRLSQQTLAK--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +   L  Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRNYDDL-EYLYKIE 98


>gi|160887303|ref|ZP_02068306.1| hypothetical protein BACOVA_05321 [Bacteroides ovatus ATCC 8483]
 gi|237713191|ref|ZP_04543672.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262409416|ref|ZP_06085958.1| transcriptional regulator [Bacteroides sp. 2_1_22]
 gi|294647377|ref|ZP_06724970.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides ovatus SD CC 2a]
 gi|294809001|ref|ZP_06767723.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides xylanisolvens SD CC 1b]
 gi|156107714|gb|EDO09459.1| hypothetical protein BACOVA_05321 [Bacteroides ovatus ATCC 8483]
 gi|229446849|gb|EEO52640.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262352628|gb|EEZ01726.1| transcriptional regulator [Bacteroides sp. 2_1_22]
 gi|292637336|gb|EFF55761.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides ovatus SD CC 2a]
 gi|294443726|gb|EFG12471.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides xylanisolvens SD CC 1b]
 gi|295087084|emb|CBK68607.1| Helix-turn-helix. [Bacteroides xylanisolvens XB1A]
          Length = 132

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 23/67 (34%), Positives = 37/67 (55%), Gaps = 4/67 (5%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          + N K  +   +++GK+I   R + GM+Q +LG+ LGIT Q V K E    ++   RL+ 
Sbjct: 4  IENIKSNH---LHLGKKIERVRRLRGMTQTELGQLLGITKQAVSKME-QTEKIDDERLEK 59

Query: 62 ISEVLES 68
          I+  L  
Sbjct: 60 IASALGV 66


>gi|154496484|ref|ZP_02035180.1| hypothetical protein BACCAP_00776 [Bacteroides capillosus ATCC
          29799]
 gi|150274567|gb|EDN01644.1| hypothetical protein BACCAP_00776 [Bacteroides capillosus ATCC
          29799]
          Length = 360

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 18/55 (32%), Positives = 30/55 (54%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + IR+ R   G++QE+L E +GIT   V K+E G      S +  ++E  E+ + 
Sbjct: 7  ENIRMLRKERGLTQEQLAEAMGITVGTVSKWETGSCVPDVSLMMELAEFFETSVD 61


>gi|153954624|ref|YP_001395389.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|146347482|gb|EDK34018.1| Predicted transcriptional regulator [Clostridium kluyveri DSM
          555]
          Length = 80

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 27/78 (34%), Positives = 41/78 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VGK IR  R+   ++QE+L E  GI    + +YE G+      +L+ IS+ LE PIS 
Sbjct: 1  MKVGKNIRNIRIQKNITQEELAEITGIEQSIISRYENGIIIPPIPKLEAISKALEVPISK 60

Query: 73 FFDVSPTVCSDISSEENN 90
            ++  T     SS  N+
Sbjct: 61 LLELEETEIKKGSSIANS 78


>gi|116627720|ref|YP_820339.1| XRE family transcriptional regulator [Streptococcus thermophilus
          LMD-9]
 gi|116100997|gb|ABJ66143.1| transcriptional regulator [Streptococcus thermophilus LMD-9]
          Length = 229

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 34/81 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R   GMSQ  + + LGI+      +E G  +     L  ++E+     ++F  
Sbjct: 4  GQRLKEIREAQGMSQASVAKHLGISRSSYFNWENGKTKPNQKNLSVLAELFGVAETYFLS 63

Query: 76 VSPTVCSDISSEENNVMDFIS 96
              V   +   E N  + + 
Sbjct: 64 EHEIVEVYLELNEENRQEALR 84


>gi|49477369|ref|YP_035961.1| MerR family transcriptional regulator [Bacillus thuringiensis
           serovar konkukian str. 97-27]
 gi|49328925|gb|AAT59571.1| transcriptional regulator, MerR family [Bacillus thuringiensis
           serovar konkukian str. 97-27]
          Length = 181

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 47/110 (42%), Gaps = 8/110 (7%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
           +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3   NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71  SFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDV 113
           SF  + + T    + S        +N   + +S      L    + I   
Sbjct: 63  SFLLEDTNTDDLIVRSHKRKKMIIDNLSYEMLSPDFTGNLATAIMTIPPN 112


>gi|313837698|gb|EFS75412.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes HL037PA2]
 gi|314972637|gb|EFT16734.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes HL037PA3]
 gi|328907505|gb|EGG27271.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium sp. P08]
          Length = 508

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/56 (35%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG+ IR  R   GM+Q +L E L  +   + + E G   +    +  I+E LESPI
Sbjct: 9  VGRLIRDARKQHGMTQNQLAEILKTSQSAIHRVESGTQNLSLEYINRIAEALESPI 64


>gi|237733689|ref|ZP_04564170.1| phosphoribosylformylglycinamidine cyclo-ligase [Mollicutes
           bacterium D7]
 gi|229383287|gb|EEO33378.1| phosphoribosylformylglycinamidine cyclo-ligase [Coprobacillus sp.
           D7]
          Length = 415

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 23/101 (22%), Positives = 45/101 (44%), Gaps = 2/101 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+ I L+R   G++Q++L   L ++FQ V K+E G        L  ++ +LE  +    
Sbjct: 7   VGEFITLKRKEKGLTQQQLANKLSVSFQAVSKWENGG-LPNVEILSDLAALLEITVDELL 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                    +S  +  V    S     ++ + +++  D +V
Sbjct: 66  AGVEKELEGLSYSKAGVDIAYSDAIKREM-KQYLKTSDPRV 105


>gi|167755461|ref|ZP_02427588.1| hypothetical protein CLORAM_00975 [Clostridium ramosum DSM 1402]
 gi|167704400|gb|EDS18979.1| hypothetical protein CLORAM_00975 [Clostridium ramosum DSM 1402]
          Length = 426

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 23/101 (22%), Positives = 45/101 (44%), Gaps = 2/101 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+ I L+R   G++Q++L   L ++FQ V K+E G        L  ++ +LE  +    
Sbjct: 18  VGEFITLKRKEKGLTQQQLANKLSVSFQAVSKWENGG-LPNVEILSDLAALLEITVDELL 76

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                    +S  +  V    S     ++ + +++  D +V
Sbjct: 77  AGVEKELEGLSYSKAGVDIAYSDAIKREM-KQYLKTSDPRV 116


>gi|300173314|ref|YP_003772480.1| transcriptional activator [Leuconostoc gasicomitatum LMG 18811]
 gi|299887693|emb|CBL91661.1| transcriptional activator [Leuconostoc gasicomitatum LMG 18811]
          Length = 280

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          IR  R   G+SQ++LG+ +G +   + + E G+       LQ I ++L  PI  +FD 
Sbjct: 9  IRKTRKSRGISQKELGQLIG-SQSMISRIENGLTSPTDRALQQICDILNVPIVDYFDT 65


>gi|300117591|ref|ZP_07055374.1| DNA-binding protein [Bacillus cereus SJ1]
 gi|298725026|gb|EFI65685.1| DNA-binding protein [Bacillus cereus SJ1]
          Length = 181

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 47/110 (42%), Gaps = 8/110 (7%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
           +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3   NIDIGKKIEKQRKEKGLTSKELAKRADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71  SFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDV 113
           SF  + + T    + S        +N   + +S      L    + I   
Sbjct: 63  SFLLEDTNTDDLIVRSHKRKKMIIDNLSYEMLSPDFTGNLATAIMTIPPN 112


>gi|281491183|ref|YP_003353163.1| XRE family transcriptional regulator [Lactococcus lactis subsp.
          lactis KF147]
 gi|281374924|gb|ADA64442.1| Transcriptional regulator, XRE family [Lactococcus lactis subsp.
          lactis KF147]
          Length = 201

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 1/68 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+   R   G +QE L E   IT + +Q+ E G + V    L  IS  L  P+S  F+  
Sbjct: 5  RVAELRKKRGWTQEVLAEKANITVRTIQRIENGTD-VSLDTLASISNALLVPVSELFESI 63

Query: 78 PTVCSDIS 85
               ++ 
Sbjct: 64 EEEAKEVE 71


>gi|229015370|ref|ZP_04172387.1| hypothetical protein bmyco0001_57050 [Bacillus mycoides DSM 2048]
 gi|228745926|gb|EEL95912.1| hypothetical protein bmyco0001_57050 [Bacillus mycoides DSM 2048]
          Length = 240

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 37/78 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK+I+  R+I  M+QE +   L I+ Q + K+E G +    + L  +S +    I  
Sbjct: 20 MDIGKKIKHLRLINNMTQEDVASQLFISRQVISKWELGKSLPDLTNLLALSNLFNVSIDS 79

Query: 73 FFDVSPTVCSDISSEENN 90
                 + S I  + N 
Sbjct: 80 LLKEDSNLQSQIIKQSNY 97


>gi|229104167|ref|ZP_04234839.1| Helix-turn-helix domain protein [Bacillus cereus Rock3-28]
 gi|228679184|gb|EEL33389.1| Helix-turn-helix domain protein [Bacillus cereus Rock3-28]
          Length = 272

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 33/79 (41%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  
Sbjct: 8  KKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGN 67

Query: 65 VLESPISFFFDVSPTVCSD 83
          V E  + +    +    ++
Sbjct: 68 VFEVSLDYLLKETAEQSNE 86


>gi|229146197|ref|ZP_04274572.1| Helix-turn-helix domain protein [Bacillus cereus BDRD-ST24]
 gi|228637256|gb|EEK93711.1| Helix-turn-helix domain protein [Bacillus cereus BDRD-ST24]
          Length = 277

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 33/79 (41%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  
Sbjct: 8  KKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGN 67

Query: 65 VLESPISFFFDVSPTVCSD 83
          V E  + +    +    ++
Sbjct: 68 VFEVSLDYLLKETAEQSNE 86


>gi|221195204|ref|ZP_03568260.1| transcriptional regulator, xre family [Atopobium rimae ATCC
          49626]
 gi|221185107|gb|EEE17498.1| transcriptional regulator, xre family [Atopobium rimae ATCC
          49626]
          Length = 236

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 31/58 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK ++  R   G++QE+L E +G+T + V ++E G N      L  +S+     +
Sbjct: 4  VKIGKVLQELRKEKGLTQEQLAEQMGVTRRTVSRWETGSNMPDLDILMELSDFYAVDL 61


>gi|319936625|ref|ZP_08011038.1| hypothetical protein HMPREF9488_01871 [Coprobacillus sp. 29_1]
 gi|319808182|gb|EFW04747.1| hypothetical protein HMPREF9488_01871 [Coprobacillus sp. 29_1]
          Length = 118

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 33/56 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +I+  R   G++QE+ G+ +G++ Q V + EK ++ +    L+ IS+    PI++
Sbjct: 2  SKIKELREQCGLTQEEFGDKIGMSQQTVSRIEKNIDSLDIKTLKIISQYFHVPINY 57


>gi|237735272|ref|ZP_04565753.1| transcriptional regulator [Mollicutes bacterium D7]
 gi|229381017|gb|EEO31108.1| transcriptional regulator [Coprobacillus sp. D7]
          Length = 221

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 39/83 (46%), Gaps = 2/83 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I L R   G++QE+L + L ++ Q V K+E G        +  +S +    I    
Sbjct: 2  IGDKIILYRKRKGLTQEELADLLEVSRQTVTKWESGSVLPNLDYIMGLSVIFGITIDNLV 61

Query: 75 DVSPTVCSDISSEENNV--MDFI 95
            +     +I S+ +N   +DF+
Sbjct: 62 KDNDCAKQEIESKISNYNWIDFM 84


>gi|167767648|ref|ZP_02439701.1| hypothetical protein CLOSS21_02181 [Clostridium sp. SS2/1]
 gi|319938591|ref|ZP_08012978.1| hypothetical protein HMPREF9488_03814 [Coprobacillus sp. 29_1]
 gi|167710665|gb|EDS21244.1| hypothetical protein CLOSS21_02181 [Clostridium sp. SS2/1]
 gi|291560782|emb|CBL39582.1| Predicted transcription factor, homolog of eukaryotic MBF1
          [butyrate-producing bacterium SSC/2]
 gi|319806227|gb|EFW02919.1| hypothetical protein HMPREF9488_03814 [Coprobacillus sp. 29_1]
          Length = 223

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I +VL    +  
Sbjct: 10 FLGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNYPTFDTLEKIMDVLGVTPN-- 67

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
           ++       I   E  +MD I
Sbjct: 68 -ELLSGEWKYIDHTEPYIMDII 88


>gi|167755003|ref|ZP_02427130.1| hypothetical protein CLORAM_00507 [Clostridium ramosum DSM 1402]
 gi|167705053|gb|EDS19632.1| hypothetical protein CLORAM_00507 [Clostridium ramosum DSM 1402]
          Length = 221

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 39/83 (46%), Gaps = 2/83 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I L R   G++QE+L + L ++ Q V K+E G        +  +S +    I    
Sbjct: 2  IGDKIILYRKRKGLTQEELADLLEVSRQTVTKWESGSVLPNLDYIMGLSVIFGITIDNLV 61

Query: 75 DVSPTVCSDISSEENNV--MDFI 95
            +     +I S+ +N   +DF+
Sbjct: 62 KDNDCAKQEIESKISNYNWIDFM 84


>gi|37526812|ref|NP_930156.1| hypothetical protein plu2922 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36786244|emb|CAE15296.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 212

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 38/73 (52%), Gaps = 1/73 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + +R++ RR+ +G++Q +L + +G   Q +++ EKG  +     L  ++  L+  +S+
Sbjct: 1  MTIAERVKTRRIEMGLTQTELADLIGTKQQSIEQLEKGKTK-RPRFLPELAVALQCSVSY 59

Query: 73 FFDVSPTVCSDIS 85
              +     +I 
Sbjct: 60 LLYGTEDKKEEIE 72


>gi|299136447|ref|ZP_07029630.1| transcriptional regulator, XRE family [Acidobacterium sp. MP5ACTX8]
 gi|298600962|gb|EFI57117.1| transcriptional regulator, XRE family [Acidobacterium sp. MP5ACTX8]
          Length = 137

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 31/122 (25%), Positives = 55/122 (45%), Gaps = 6/122 (4%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P P  IN+G  IR  R+  GMSQ  + +  G+    + + E G        LQ I+  L+
Sbjct: 16  PGPAPINIGMTIRDFRLQKGMSQGDIEKRTGLLRCYLSRVENGHTVPSLETLQKIAAALD 75

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
            P+S FF           S + + + F++     Q+ RY   + +   R+ ++ +VR   
Sbjct: 76  LPLSQFFAEDSVKDVPGISLKEDEIRFLT-----QVQRYSSNLGESD-RRLLLAMVRKFA 129

Query: 128 SS 129
           ++
Sbjct: 130 AT 131


>gi|218690034|ref|YP_002398246.1| putative transcriptional regulator [Escherichia coli ED1a]
 gi|218427598|emb|CAR08499.2| Putative transcriptional regulator [Escherichia coli ED1a]
          Length = 115

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 41/77 (53%), Gaps = 4/77 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R   G+SQ+KLG   G    +   ++ +YEKGV+       Q ++E L  P+++
Sbjct: 19 KRLKEARTAAGLSQKKLGIAAGIDEFVASTRINRYEKGVHEADIHTAQKLAETLNVPLAY 78

Query: 73 FFDVSPTVCSDISSEEN 89
          F+     + + + + EN
Sbjct: 79 FYVEDDELATIVMNYEN 95


>gi|170016375|ref|YP_001727294.1| transcriptional regulator [Leuconostoc citreum KM20]
 gi|169803232|gb|ACA81850.1| Predicted transcriptional regulator [Leuconostoc citreum KM20]
          Length = 245

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/85 (20%), Positives = 42/85 (49%), Gaps = 2/85 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +I+  R+  G++Q++  + L I++Q V  +E+      A  +  + E    P+ F
Sbjct: 1  MHIGIKIKQLRISQGLTQQEFADKLFISYQSVSNWERQKRHPTAEMMLTMIETFNLPLDF 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
          F  +     +  + E+  +  F++ 
Sbjct: 61 F--IMAHDKAHDNEEDLILSAFLTN 83


>gi|254975493|ref|ZP_05271965.1| putative phage repressor [Clostridium difficile QCD-66c26]
 gi|255092881|ref|ZP_05322359.1| putative phage repressor [Clostridium difficile CIP 107932]
 gi|255314622|ref|ZP_05356205.1| putative phage repressor [Clostridium difficile QCD-76w55]
 gi|255517296|ref|ZP_05384972.1| putative phage repressor [Clostridium difficile QCD-97b34]
 gi|255650403|ref|ZP_05397305.1| putative phage repressor [Clostridium difficile QCD-37x79]
 gi|260683516|ref|YP_003214801.1| putative phage repressor [Clostridium difficile CD196]
 gi|260687176|ref|YP_003218310.1| putative phage repressor [Clostridium difficile R20291]
 gi|306520382|ref|ZP_07406729.1| putative phage repressor [Clostridium difficile QCD-32g58]
 gi|260209679|emb|CBA63401.1| putative phage repressor [Clostridium difficile CD196]
 gi|260213193|emb|CBE04666.1| putative phage repressor [Clostridium difficile R20291]
          Length = 169

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 27/107 (25%), Positives = 50/107 (46%), Gaps = 11/107 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + + I+  R   G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S   
Sbjct: 2   LSENIKTIRKSKGLSQQELAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVSTL- 60

Query: 75  DVSPTVCSDISSEENNVMDFISTP-DGLQLNRYFIQIDDVKVRQKII 120
                +   I   E + +  IS   + + L           +R+K+ 
Sbjct: 61  -----LGETIVESEVDSLKVISEKLEIINLQLA----QRKNMRRKMF 98


>gi|70725257|ref|YP_252171.1| hypothetical protein SH0256 [Staphylococcus haemolyticus
          JCSC1435]
 gi|68445981|dbj|BAE03565.1| unnamed protein product [Staphylococcus haemolyticus JCSC1435]
          Length = 134

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 33/70 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +VG+RIR  R    MSQEKL E L ++   +  +E+ V+      L  ++E+    ++ 
Sbjct: 4  KSVGERIRNLRKSKKMSQEKLAEKLNVSRHSISNWERDVSSPDIHALLEMTELFGVSLNH 63

Query: 73 FFDVSPTVCS 82
                 + +
Sbjct: 64 LVKGDELIVN 73


>gi|312792894|ref|YP_004025817.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
          kristjanssonii 177R1B]
 gi|312878073|ref|ZP_07738009.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          lactoaceticus 6A]
 gi|311795152|gb|EFR11545.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          lactoaceticus 6A]
 gi|312180034|gb|ADQ40204.1| helix-turn-helix domain protein [Caldicellulosiruptor
          kristjanssonii 177R1B]
          Length = 285

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R   G++QE+L   LG+  Q +  YE G  +   + L  I++     + + 
Sbjct: 5  RLKELREEKGLTQEELALMLGLKRQSISNYENGGRQPDYNTLIKIADFFGVTVDYL 60


>gi|229140248|ref|ZP_04268805.1| Helix-turn-helix domain protein [Bacillus cereus BDRD-ST26]
 gi|228643181|gb|EEK99455.1| Helix-turn-helix domain protein [Bacillus cereus BDRD-ST26]
          Length = 277

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 33/79 (41%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  
Sbjct: 8  KKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGN 67

Query: 65 VLESPISFFFDVSPTVCSD 83
          V E  + +    +    ++
Sbjct: 68 VFEVSLDYLLKENAEQSNE 86


>gi|118580325|ref|YP_901575.1| XRE family transcriptional regulator [Pelobacter propionicus DSM
          2379]
 gi|118503035|gb|ABK99517.1| transcriptional regulator, XRE family [Pelobacter propionicus DSM
          2379]
          Length = 107

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 22/63 (34%), Positives = 34/63 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R   GM+QE+L E LGI  + + + E G +     RL  I+ V+ +P+   F
Sbjct: 8  LGLRIRELRKRAGMTQEQLAELLGIDQKHMSRIELGKSYPSLDRLLKIAVVVNAPLPNLF 67

Query: 75 DVS 77
          +  
Sbjct: 68 EFG 70


>gi|308186781|ref|YP_003930912.1| hypothetical protein Pvag_1273 [Pantoea vagans C9-1]
 gi|308057291|gb|ADO09463.1| Uncharacterized HTH-type transcriptional regulator ydcN [Pantoea
           vagans C9-1]
          Length = 185

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 24/130 (18%), Positives = 46/130 (35%), Gaps = 10/130 (7%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++   +R  R   G S     E  G++   + + E+G +    + L  I+     P SFF
Sbjct: 7   HLSGALRQLRQANGWSLTLTAERTGVSKAMLGQIERGESSPTVATLWKIATGFNVPFSFF 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
            D S      +        D +S    L          D ++R  ++  V  +  ++   
Sbjct: 67  IDGSALPSGTLPGFSQPNAD-MSVRSVLP--------YDPQLRFDLLA-VELVAGAQSHS 116

Query: 134 RTIEEECMVE 143
              E  C+ +
Sbjct: 117 SPHEAGCVEQ 126


>gi|218459628|ref|ZP_03499719.1| hypothetical protein RetlK5_09084 [Rhizobium etli Kim 5]
          Length = 180

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 27/121 (22%), Positives = 52/121 (42%), Gaps = 10/121 (8%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFFDVS 77
           ++  R   G+S+  +   LG++     +YE+  +++  +R+ H+ E+L   PI   F+ +
Sbjct: 63  LKKTRQAQGLSRADVAPMLGLSIPVYGRYERAFSKMTVTRMIHLCEILGFMPIDMIFEAA 122

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTIE 137
           P +    S E  +          L L R   ++     R  I  L R I   ++  R I 
Sbjct: 123 PHLWGRTSEEAEDC---------LTLARILRRLPTGTTRDLIRLLQRMIPDDDESDRGIS 173

Query: 138 E 138
           +
Sbjct: 174 D 174


>gi|206970891|ref|ZP_03231843.1| DNA-binding protein [Bacillus cereus AH1134]
 gi|229189930|ref|ZP_04316940.1| Transcriptional regulator, MerR [Bacillus cereus ATCC 10876]
 gi|206734527|gb|EDZ51697.1| DNA-binding protein [Bacillus cereus AH1134]
 gi|228593604|gb|EEK51413.1| Transcriptional regulator, MerR [Bacillus cereus ATCC 10876]
          Length = 181

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|153853834|ref|ZP_01995190.1| hypothetical protein DORLON_01181 [Dorea longicatena DSM 13814]
 gi|149753584|gb|EDM63515.1| hypothetical protein DORLON_01181 [Dorea longicatena DSM 13814]
          Length = 377

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 33/59 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I   R    M+QE+L E +G++ Q V K+E         +L+ ++E+ E  I+
Sbjct: 1  MTLGEKIYKLRTKRSMTQEQLAEKIGVSRQSVSKWETDSAIPDIEKLKLLAEIFEVSIT 59


>gi|71278291|ref|YP_271323.1| putative transcriptional regulator [Colwellia psychrerythraea 34H]
 gi|71144031|gb|AAZ24504.1| putative transcriptional regulator [Colwellia psychrerythraea 34H]
          Length = 180

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 23/92 (25%), Positives = 46/92 (50%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VGKR++  R + G+SQ +L + +G+T   +   E+       S L+ I E +   ++ 
Sbjct: 1   MDVGKRLKEVREMYGLSQRELAKRVGLTNSTISMIERDAVSPSISSLKKILEGVSLTVTE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           FF +     S +  +++ ++D  S    L L 
Sbjct: 61  FFTLEIPTESQVVFKKDTLVDVGSDGVELHLV 92


>gi|323694108|ref|ZP_08108287.1| transcriptional regulator [Clostridium symbiosum WAL-14673]
 gi|323501825|gb|EGB17708.1| transcriptional regulator [Clostridium symbiosum WAL-14673]
          Length = 177

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 36/68 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +++  R + G++QE+L +   ++   + + E+ +     + L  I + L + I  
Sbjct: 1  MNIGAKLKELRTLKGLTQEELADRAELSKGFISQLERDLTSPSIATLMDILQCLGTTIGE 60

Query: 73 FFDVSPTV 80
          FF+ +P  
Sbjct: 61 FFNETPEE 68


>gi|323485345|ref|ZP_08090694.1| hypothetical protein HMPREF9474_02445 [Clostridium symbiosum
          WAL-14163]
 gi|323401381|gb|EGA93730.1| hypothetical protein HMPREF9474_02445 [Clostridium symbiosum
          WAL-14163]
          Length = 177

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 36/68 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +++  R + G++QE+L +   ++   + + E+ +     + L  I + L + I  
Sbjct: 1  MNIGAKLKELRTLKGLTQEELADRAELSKGFISQLERDLTSPSIATLMDILQCLGTTIGE 60

Query: 73 FFDVSPTV 80
          FF+ +P  
Sbjct: 61 FFNETPEE 68


>gi|332970254|gb|EGK09246.1| LexA family repressor/S24 family protease [Kingella kingae ATCC
          23330]
          Length = 206

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 36/69 (52%), Gaps = 1/69 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++ RR+ LG+SQ  LG+  G+    + + E G N+  ++++  ++  L++ + +  D 
Sbjct: 5  ERVKNRRLELGLSQAALGKLAGVPQSTIGQIENGRNK-SSTKILELAHALQTTVEYLVDG 63

Query: 77 SPTVCSDIS 85
                  S
Sbjct: 64 VEPAQKQPS 72


>gi|225377108|ref|ZP_03754329.1| hypothetical protein ROSEINA2194_02753 [Roseburia inulinivorans
          DSM 16841]
 gi|225211013|gb|EEG93367.1| hypothetical protein ROSEINA2194_02753 [Roseburia inulinivorans
          DSM 16841]
          Length = 178

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G  IR  R   G++QE++ + LG+T   V K+E G        L  I+ +L   + 
Sbjct: 4  MQIGSVIRKYRKECGLTQEEMAKRLGVTTPAVNKWENGNTNPDIELLAPIARLLHISLD 62


>gi|212712673|ref|ZP_03320801.1| hypothetical protein PROVALCAL_03770 [Providencia alcalifaciens
          DSM 30120]
 gi|212684589|gb|EEB44117.1| hypothetical protein PROVALCAL_03770 [Providencia alcalifaciens
          DSM 30120]
          Length = 91

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 41/78 (52%), Gaps = 7/78 (8%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  ++++ N    N+G+ ++  R   G++  +L + + ++ QQ+ +YE GVN +   +L 
Sbjct: 1  MRESEQLSN----NIGRMLKDYRRRTGLTGSELAKRINVSQQQISRYENGVNNISFDKLI 56

Query: 61 HISEVLES---PISFFFD 75
           +   LE     I  FF+
Sbjct: 57 ILFNALEMSSRDIDVFFE 74


>gi|210612865|ref|ZP_03289498.1| hypothetical protein CLONEX_01700 [Clostridium nexile DSM 1787]
 gi|210151386|gb|EEA82394.1| hypothetical protein CLONEX_01700 [Clostridium nexile DSM 1787]
          Length = 223

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+ I+  R   GM Q++L + +GI  Q + K E+GVN      L+ I +VL    +  
Sbjct: 10 FLGENIQTIRKHRGMKQQELADKIGINMQSLSKIERGVNYPTFDTLEKIMDVLGVTPN-- 67

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
           ++       I   E  +MD I
Sbjct: 68 -ELLSGEWKYIDHTEPYIMDII 88


>gi|23465550|ref|NP_696153.1| hypothetical protein BL0981 [Bifidobacterium longum NCC2705]
 gi|239621901|ref|ZP_04664932.1| conserved hypothetical protein [Bifidobacterium longum subsp.
           infantis CCUG 52486]
 gi|23326214|gb|AAN24789.1| hypothetical protein with helix turn helix motif [Bifidobacterium
           longum NCC2705]
 gi|239515092|gb|EEQ54959.1| conserved hypothetical protein [Bifidobacterium longum subsp.
           infantis CCUG 52486]
 gi|291517097|emb|CBK70713.1| Predicted transcriptional regulators [Bifidobacterium longum subsp.
           longum F8]
          Length = 277

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 34/66 (51%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G+ I++ R   G++Q +    L +T Q + ++EKG        ++ IS   E P++ 
Sbjct: 117 MSIGQVIKVVREERGLTQSQFAHELFVTQQALSRWEKGTAEPSIDMIRLISTRFEVPMAR 176

Query: 73  FFDVSP 78
             ++  
Sbjct: 177 LMEMPD 182


>gi|319935773|ref|ZP_08010202.1| transcriptional regulator [Coprobacillus sp. 29_1]
 gi|319809208|gb|EFW05657.1| transcriptional regulator [Coprobacillus sp. 29_1]
          Length = 255

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 35/80 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I +  ++   R   G SQE L + LGI+ Q V K+E+         L  ++++    +
Sbjct: 1  MNIEIANKLLQLRKEKGYSQEALAQELGISRQAVSKWERAEASPDTDNLIELAKLYGISL 60

Query: 71 SFFFDVSPTVCSDISSEENN 90
                 PT   +  S++  
Sbjct: 61 DQLLLHEPTETEETISDKTE 80


>gi|313204771|ref|YP_004043428.1| helix-turN-helix domain protein [Paludibacter propionicigenes
          WB4]
 gi|312444087|gb|ADQ80443.1| helix-turn-helix domain protein [Paludibacter propionicigenes
          WB4]
          Length = 186

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 32/70 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R   G+SQE+L E  GI  + +Q+ E   +    + +  I +VL+       
Sbjct: 4  IGEKIKELRRKKGLSQEELAEQAGINLRTIQRIENNESEPRGNTMHLICKVLDIHAEDIL 63

Query: 75 DVSPTVCSDI 84
          D      +  
Sbjct: 64 DYGKQTDNSF 73


>gi|149188518|ref|ZP_01866811.1| DNA-binding transcriptional repressor [Vibrio shilonii AK1]
 gi|148837736|gb|EDL54680.1| DNA-binding transcriptional repressor [Vibrio shilonii AK1]
          Length = 185

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 32/75 (42%), Gaps = 1/75 (1%)

Query: 11 VDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D + +GK I   R   G+SQ +L E  GIT   +   E        S LQ I  V    
Sbjct: 1  MDNHQIGKNIAQLRKERGLSQRELAEKAGITHSAISSIENAKVSPSVSSLQKIVNVFSLS 60

Query: 70 ISFFFDVSPTVCSDI 84
          +S FF +      +I
Sbjct: 61 LSEFFTLEQQENKEI 75


>gi|91201004|emb|CAJ74061.1| similar to two component response regulator [Candidatus Kuenenia
           stuttgartiensis]
          Length = 209

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 37/76 (48%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K   + +  +VGK+++  R    ++Q++L    G++   + + E G      + L  +S 
Sbjct: 128 KNSKDKLKSDVGKKLKFLRKSKKITQKQLANRTGLSPSLLSQIENGQIAASLNTLDKLSA 187

Query: 65  VLESPISFFFDVSPTV 80
            L   +S+F + +PT 
Sbjct: 188 SLNVKLSYFLEENPTE 203


>gi|92113335|ref|YP_573263.1| XRE family transcriptional regulator [Chromohalobacter salexigens
          DSM 3043]
 gi|91796425|gb|ABE58564.1| transcriptional regulator, XRE family [Chromohalobacter
          salexigens DSM 3043]
          Length = 205

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G RI+  RM  G+S+  L   +G++   +  +E G  + +G  RL  ++E LE P+   
Sbjct: 4  LGPRIKQLRMEAGLSKAALARRVGVSDVTISYWESGTIKQIGHERLLSLAEALECPLERL 63

Query: 74 FDVSPTVCSDISSE 87
           D +     +   E
Sbjct: 64 LDNNTPTHHEFEGE 77


>gi|50842706|ref|YP_055933.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase
           [Propionibacterium acnes KPA171202]
 gi|50840308|gb|AAT82975.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase
           [Propionibacterium acnes KPA171202]
 gi|332675629|gb|AEE72445.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase
           [Propionibacterium acnes 266]
          Length = 548

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/56 (35%), Positives = 29/56 (51%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VG+ IR  R   GM+Q +L E L  +   + + E G   +    +  I+E LESPI
Sbjct: 49  VGRLIRDARKQHGMTQNQLAEILKTSQSAIHRVESGTQNLSLEYINRIAEALESPI 104


>gi|313904771|ref|ZP_07838144.1| transcriptional regulator, XRE family [Eubacterium cellulosolvens
          6]
 gi|313470374|gb|EFR65703.1| transcriptional regulator, XRE family [Eubacterium cellulosolvens
          6]
          Length = 204

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 23/79 (29%), Positives = 35/79 (44%), Gaps = 2/79 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VGK I   R   GM+Q  L E LGI+ + + K+E G +      +  + E L+  ++ 
Sbjct: 4  IKVGKFIAACRKEQGMTQANLAEKLGISDRAISKWETGKSMPDTGIMLELCEHLKINVNE 63

Query: 73 FFDVSP--TVCSDISSEEN 89
                      D  +EEN
Sbjct: 64 LLSGEKIMAELYDKRAEEN 82


>gi|291087102|ref|ZP_06345414.2| DNA-binding protein [Clostridium sp. M62/1]
 gi|291076197|gb|EFE13561.1| DNA-binding protein [Clostridium sp. M62/1]
          Length = 237

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 37/80 (46%), Gaps = 2/80 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +I+  R+   ++QE++ E LG++ Q +  +E   +      +  +SE  +  + +  
Sbjct: 24  IGSKIKAARLEKKLTQEQVAELLGVSRQTISNWENEKSYPDIISVIKMSECYDVSLDYLL 83

Query: 75  DVSPTVCS--DISSEENNVM 92
                + +  D   E  NV+
Sbjct: 84  KGEQKMKTYYDYLEESTNVV 103


>gi|210618124|ref|ZP_03291909.1| hypothetical protein CLONEX_04142 [Clostridium nexile DSM 1787]
 gi|210148986|gb|EEA79995.1| hypothetical protein CLONEX_04142 [Clostridium nexile DSM 1787]
          Length = 122

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 31/59 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +GKRI++ R+   ++QE + + +GIT Q V   E G   V  + L  I+  L   ++  
Sbjct: 8  IGKRIKIARIKKNLTQEAIADKIGITPQHVSNIETGNASVSLTTLVAIANTLTVSVNDL 66


>gi|184159752|ref|YP_001848091.1| transcriptional regulator [Acinetobacter baumannii ACICU]
 gi|183211346|gb|ACC58744.1| predicted transcriptional regulator [Acinetobacter baumannii
          ACICU]
 gi|322509665|gb|ADX05119.1| Putative HTH-type transcriptional regulator [Acinetobacter
          baumannii 1656-2]
          Length = 183

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
             + V  +VG  IR  R    +SQ+ L +  G++ + +   E G   +  ++L  I+ V
Sbjct: 2  SQSSSVLQHVGTNIRSLRDERSLSQQDLADRAGVSRRTIAALETGQVNISLAKLDAIAAV 61

Query: 66 LESP 69
          L   
Sbjct: 62 LGVD 65


>gi|162448119|ref|YP_001621251.1| membrane-anchored DNA-binding protein [Acholeplasma laidlawii
          PG-8A]
 gi|161986226|gb|ABX81875.1| membrane-anchored DNA-binding protein, putative [Acholeplasma
          laidlawii PG-8A]
          Length = 231

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 40/84 (47%), Gaps = 6/84 (7%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+   R     +QE+LGE L ++ Q + K+E         +L  +S++ ++ + +   
Sbjct: 4  GQRLAKLRKDHNYTQEELGELLDVSRQSISKWESDQAFPETQKLIELSKLYQTSVDYL-- 61

Query: 76 VSPTVCSDISSEENNVMDFISTPD 99
              + ++    ++N+ D   T +
Sbjct: 62 ----LGNENEHTQSNIGDSTHTNE 81


>gi|120435032|ref|YP_860718.1| HTH_3 family transcriptional regulator protein [Gramella forsetii
           KT0803]
 gi|117577182|emb|CAL65651.1| HTH_3 family transcriptional regulator protein [Gramella forsetii
           KT0803]
          Length = 136

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 36/142 (25%), Positives = 62/142 (43%), Gaps = 25/142 (17%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP---I 70
           ++G++I   R + GM QE L E LGI+ Q V K E+   +V   +L  I++VL      I
Sbjct: 9   HIGRKIGRIRELRGMKQETLAEELGISQQAVSKIEQSE-KVEDDKLNQIAKVLGVTKEGI 67

Query: 71  SFFFDVSP-TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-------L 122
             F D +   +  +  +  +N       P        F  I+      K++E       L
Sbjct: 68  ESFSDEAIFNIIGNTVTNHDNSSLLCFQP-------NFNPIE------KLVEVYEENKKL 114

Query: 123 VRSIVSSEKKYRTIEEECMVEQ 144
              ++ +E++  T  E+ M E+
Sbjct: 115 YERLLKAEQEKITYLEKLMKEK 136


>gi|228966529|ref|ZP_04127582.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228793251|gb|EEM40801.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          sotto str. T04001]
          Length = 277

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 33/80 (41%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           KK      +  G+++   R   G+SQE L + L  T Q V K+E G       +L  I 
Sbjct: 7  GKKTKGDTHMGFGEKLFKLRKEKGLSQEALADKLNTTRQAVSKWENGQGFPETEKLIMIG 66

Query: 64 EVLESPISFFFDVSPTVCSD 83
           V E  + +    +    ++
Sbjct: 67 NVFEVSLDYLLKETAEQSNE 86


>gi|254512974|ref|ZP_05125040.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
          KLH11]
 gi|221532973|gb|EEE35968.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
          KLH11]
          Length = 195

 Score = 61.4 bits (148), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 31/73 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  +G  ++  R     S   L E  GI+   + + E G+       L  +++ LE PI
Sbjct: 10 IDRAIGASLKELRQSRKQSARWLAEQSGISAAMISRIENGLVSPSIDTLAALADALEVPI 69

Query: 71 SFFFDVSPTVCSD 83
             F  + T  +D
Sbjct: 70 VSLFREARTEHTD 82


>gi|313499113|gb|ADR60479.1| Cro/CI family transcriptional regulator [Pseudomonas putida
          BIRD-1]
          Length = 199

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 30/70 (42%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G RIR  R   GM+  +L     +T   + + E+ ++      L +I+  L   I +F
Sbjct: 19 FLGTRIRGLRKRRGMTLAELAAHSELTAGYISQLERNLSYPSIPALFNIARSLGVTIQWF 78

Query: 74 FDVSPTVCSD 83
          F    T   +
Sbjct: 79 FASEATTAPE 88


>gi|313889792|ref|ZP_07823434.1| DNA-binding helix-turn-helix protein [Streptococcus pseudoporcinus
           SPIN 20026]
 gi|313121837|gb|EFR44934.1| DNA-binding helix-turn-helix protein [Streptococcus pseudoporcinus
           SPIN 20026]
          Length = 182

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 18/103 (17%), Positives = 47/103 (45%), Gaps = 11/103 (10%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R    ++Q++L + +G+ ++ +Q +E G   +   + Q +++     + +    
Sbjct: 2   NRLKKLREESSLTQQELAKKIGVHYRTIQNWENGTQ-IKPEKAQMLADYFSVSVGYLLGY 60

Query: 77  SPTVCSDISSEENNV-----MDFISTPDG-----LQLNRYFIQ 109
           +    +D   EEN       +D +++ D      L + R F++
Sbjct: 61  TDYKNTDEYFEENEDTFSINVDILNSIDTIGEKNLHVVRNFLK 103


>gi|312870378|ref|ZP_07730503.1| DNA-binding helix-turn-helix protein [Lactobacillus oris
          PB013-T2-3]
 gi|311094079|gb|EFQ52398.1| DNA-binding helix-turn-helix protein [Lactobacillus oris
          PB013-T2-3]
          Length = 126

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 28/55 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++   R   G+SQE+L + L ++ Q + K+E G       ++  I+ +L   + 
Sbjct: 6  QQLTKLRQAAGLSQEQLADQLHVSRQAISKWENGSALPDIEKIIQIASILHVSLD 60


>gi|300819725|ref|ZP_07099914.1| transcriptional repressor DicA [Escherichia coli MS 107-1]
 gi|300527676|gb|EFK48738.1| transcriptional repressor DicA [Escherichia coli MS 107-1]
          Length = 135

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 23/115 (20%), Positives = 49/115 (42%), Gaps = 11/115 (9%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++ +G+RIR RR  L  +Q  L + L I+   V ++E+  +      L  +S+VL+   +
Sbjct: 5   NLTIGERIRYRRKNLKHTQRSLAKALKISHVSVSQWERDDSEPTGKNLFALSKVLQCSPT 64

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-------VKVRQKI 119
           +              E+   +    +P  L+L   F  + +        ++R ++
Sbjct: 65  WILFGDEDKQPTPPVEKPVAL----SPKELELLELFNALPESEQDTQLAEMRARV 115


>gi|218283651|ref|ZP_03489613.1| hypothetical protein EUBIFOR_02207 [Eubacterium biforme DSM 3989]
 gi|218215711|gb|EEC89249.1| hypothetical protein EUBIFOR_02207 [Eubacterium biforme DSM 3989]
          Length = 145

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 34/75 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R++  R+  G+SQE+ GE +GI    V K E G N +    L  I         +  
Sbjct: 23 IGTRVKKVRLRKGISQEQFGEIIGIKKAAVSKIENGENSLSKGNLLAICRQFNVNKEWLI 82

Query: 75 DVSPTVCSDISSEEN 89
          + +  + +  S E+ 
Sbjct: 83 NGNGEMFTPKSKEDE 97


>gi|187777952|ref|ZP_02994425.1| hypothetical protein CLOSPO_01544 [Clostridium sporogenes ATCC
          15579]
 gi|187774880|gb|EDU38682.1| hypothetical protein CLOSPO_01544 [Clostridium sporogenes ATCC
          15579]
          Length = 384

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 34/71 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  I  +R   G++QE+L + +G++   V K+E G++      L  I+      +  
Sbjct: 7  LNIGNCIVHKRKEKGITQEQLADYIGVSKASVSKWESGLSYPDILLLPEIATYFNISVDE 66

Query: 73 FFDVSPTVCSD 83
              SP +  +
Sbjct: 67 LLGYSPQLTKE 77


>gi|183598410|ref|ZP_02959903.1| hypothetical protein PROSTU_01806 [Providencia stuartii ATCC
          25827]
 gi|188020589|gb|EDU58629.1| hypothetical protein PROSTU_01806 [Providencia stuartii ATCC
          25827]
          Length = 104

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 31/62 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  I   R   G+S  +L + L  + Q V + E+GV R+   +++ I+  L+  I+   
Sbjct: 11 VGSNIHKARRAKGLSGSELADLLLCSQQHVSRIERGVIRLHLEQIKQIANSLDIDINCLL 70

Query: 75 DV 76
          D 
Sbjct: 71 DG 72


>gi|146317667|ref|YP_001197379.1| transcriptional regulator [Streptococcus suis 05ZYH33]
 gi|145688473|gb|ABP88979.1| Predicted transcriptional regulator [Streptococcus suis 05ZYH33]
          Length = 111

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            + ++IR+ R    +SQ++L E L I+ Q V K+E G       +L  ++E+    + +
Sbjct: 4  KQLAQQIRVLRTAKNLSQDELAEKLYISRQAVSKWENGEATPDIDKLVQLAEIFGVSLDY 63

Query: 73 F 73
           
Sbjct: 64 L 64


>gi|167033912|ref|YP_001669143.1| XRE family transcriptional regulator [Pseudomonas putida GB-1]
 gi|166860400|gb|ABY98807.1| transcriptional regulator, XRE family [Pseudomonas putida GB-1]
          Length = 199

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 30/70 (42%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G RIR  R   GM+  +L     +T   + + E+ ++      L +I+  L   I +F
Sbjct: 19 FLGTRIRGLRKRRGMTLAELAAHSELTAGYISQLERNLSYPSIPALFNIARSLGVTIQWF 78

Query: 74 FDVSPTVCSD 83
          F    T   +
Sbjct: 79 FASEATTAPE 88


>gi|26989587|ref|NP_745012.1| Cro/CI family transcriptional regulator [Pseudomonas putida
          KT2440]
 gi|24984467|gb|AAN68476.1|AE016480_3 transcriptional regulator, Cro/CI family [Pseudomonas putida
          KT2440]
          Length = 199

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 30/70 (42%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G RIR  R   GM+  +L     +T   + + E+ ++      L +I+  L   I +F
Sbjct: 19 FLGTRIRGLRKRRGMTLAELAAHSELTAGYISQLERNLSYPSIPALFNIARSLGVTIQWF 78

Query: 74 FDVSPTVCSD 83
          F    T   +
Sbjct: 79 FASEATTAPE 88


>gi|148548035|ref|YP_001268137.1| XRE family transcriptional regulator [Pseudomonas putida F1]
 gi|148512093|gb|ABQ78953.1| transcriptional regulator, XRE family [Pseudomonas putida F1]
          Length = 199

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 30/70 (42%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G RIR  R   GM+  +L     +T   + + E+ ++      L +I+  L   I +F
Sbjct: 19 FLGTRIRGLRKRRGMTLAELAAHSELTAGYISQLERNLSYPSIPALFNIARSLGVTIQWF 78

Query: 74 FDVSPTVCSD 83
          F    T   +
Sbjct: 79 FASEATTAPE 88


>gi|311899387|dbj|BAJ31795.1| putative transcriptional regulator [Kitasatospora setae KM-6054]
          Length = 188

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 21/85 (24%), Positives = 38/85 (44%), Gaps = 5/85 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
           R+R  R    +S E L   +G+T   + K E+G++    S    I+E L   +   F  +
Sbjct: 4   RLRALRTQNRLSLEALAAQVGVTKSYLSKVERGLSEPSISTALKIAEALGVEVGRLFSEE 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDG 100
           V P + + + + E      +  P+G
Sbjct: 64  VEPELVTVVRAGERTP---LGGPEG 85


>gi|262281939|ref|ZP_06059708.1| XRE family transcriptional regulator [Streptococcus sp.
          2_1_36FAA]
 gi|262262393|gb|EEY81090.1| XRE family transcriptional regulator [Streptococcus sp.
          2_1_36FAA]
          Length = 210

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 29/65 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R   G+SQE L + LG++ Q V K+E   +     ++  +S+  E    +     
Sbjct: 6  RIQYLRKARGISQEGLADQLGVSRQAVSKWESEQSMPDLDKIISMSDYFEVTTDYLLKGI 65

Query: 78 PTVCS 82
            V  
Sbjct: 66 EPVVQ 70


>gi|228945460|ref|ZP_04107812.1| hypothetical protein bthur0007_16220 [Bacillus thuringiensis
           serovar monterrey BGSC 4AJ1]
 gi|228814213|gb|EEM60482.1| hypothetical protein bthur0007_16220 [Bacillus thuringiensis
           serovar monterrey BGSC 4AJ1]
          Length = 149

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 25/118 (21%), Positives = 52/118 (44%), Gaps = 10/118 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G++++  R   G SQE + + +G+T Q V K+E   +      L  +SE+    +  
Sbjct: 1   MSLGEQLKKLRESKGFSQEDVAKKIGVTRQAVYKWENDKSCPDIDNLILLSEMYNVTLDE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPD-------GLQLNRYFIQIDDVKVRQKIIELV 123
               +  +   I  +E N  DF    +       GL +   F  ID   +++ ++ + 
Sbjct: 61  LIKGNQNIKEKIHIDEEN-EDFEKENEFGFYIGFGLLIMSAF--IDYEGIQKMLLGIA 115


>gi|253991742|ref|YP_003043098.1| transcriptional regulator [Photorhabdus asymbiotica subsp.
          asymbiotica ATCC 43949]
 gi|211638517|emb|CAR67138.1| putative transcriptional regulator [Photorhabdus asymbiotica
          subsp. asymbiotica ATCC 43949]
 gi|253783192|emb|CAQ86357.1| putative transcriptional regulator [Photorhabdus asymbiotica]
          Length = 95

 Score = 61.4 bits (148), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 23/93 (24%), Positives = 46/93 (49%), Gaps = 4/93 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVL 66
          V+  + KR++  R+   ++QEKLG   GI       +V +YE G ++     +   S+VL
Sbjct: 2  VNFMINKRLKAARLRANITQEKLGIAAGIDEKSARARVSQYENGTHQPTFEIMCAFSKVL 61

Query: 67 ESPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
            P  +F+ V+  +   + S    ++++   P+
Sbjct: 62 NVPECYFYTVNDDLADIVLSIHQILVNYKHAPE 94


>gi|332968066|gb|EGK07153.1| XRE family transcriptional regulator [Desmospora sp. 8437]
          Length = 152

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 22/95 (23%), Positives = 39/95 (41%), Gaps = 8/95 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+R+R  R+   M QE L   +GI+   +  YE+G        L+ I++       F
Sbjct: 10  RILGQRLRTLRLEKKMRQEDLAREIGISKSAIGMYERGEREPSLILLREIADFFRVSADF 69

Query: 73  F--------FDVSPTVCSDISSEENNVMDFISTPD 99
                    F  +    SD    + N+ +F++  D
Sbjct: 70  LLGRSDRASFPSNLRRKSDPPGADGNLKNFLTRKD 104


>gi|320539393|ref|ZP_08039062.1| putative transcriptional regulator [Serratia symbiotica str.
          Tucson]
 gi|320030518|gb|EFW12528.1| putative transcriptional regulator [Serratia symbiotica str.
          Tucson]
          Length = 125

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 37/75 (49%), Gaps = 2/75 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++V  R+   R   G++Q+ L + +G+   Q+++YE G ++     ++ I++ L      
Sbjct: 12 MSVSTRLAYIRKSKGLTQQALADAIGLHVTQIKRYEAGTSQPSLEAIKKIAQTLRVTTDS 71

Query: 73 --FFDVSPTVCSDIS 85
            F +      +D++
Sbjct: 72 LIFDEGELAPDADLA 86


>gi|317122090|ref|YP_004102093.1| XRE family transcriptional regulator [Thermaerobacter marianensis
          DSM 12885]
 gi|315592070|gb|ADU51366.1| transcriptional regulator, XRE family [Thermaerobacter
          marianensis DSM 12885]
          Length = 216

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 29/74 (39%), Gaps = 1/74 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          + VGKRIR  R   G+S   L    G++   + + E     +     +  I+  L   ++
Sbjct: 1  MEVGKRIRDLRRQRGISLRDLARRSGVSKAYLSQLENDPARKPSVDVILRIATALGVSLT 60

Query: 72 FFFDVSPTVCSDIS 85
                P V  D +
Sbjct: 61 ELLGPLPAVEGDAA 74


>gi|312134838|ref|YP_004002176.1| XRE family transcriptional regulator [Caldicellulosiruptor
          owensensis OL]
 gi|311774889|gb|ADQ04376.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          owensensis OL]
          Length = 230

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 34/80 (42%), Gaps = 2/80 (2%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RIR  R   G+ Q+ + + L I+ Q +  YE G        ++  ++       +   
Sbjct: 15 GLRIRELREKQGLQQKDVAKKLNISNQALSNYELGKRMPSLEMVKKFADFFNVSTDYLMG 74

Query: 76 VSPTVCSDISSEENNVMDFI 95
          +  T   + + +++ V  F+
Sbjct: 75 L--TNSPNPNQDDDVVKKFL 92


>gi|289423964|ref|ZP_06425757.1| hypothetical phagelike protein [Peptostreptococcus anaerobius
           653-L]
 gi|289155741|gb|EFD04413.1| hypothetical phagelike protein [Peptostreptococcus anaerobius
           653-L]
          Length = 253

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 22/74 (29%), Positives = 39/74 (52%), Gaps = 3/74 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF-- 73
           KRI+ +R+ LG++QE+LG+ +G     V KYE G V  +  S ++ +S +      +   
Sbjct: 41  KRIKEKRLELGLTQEELGKMIGTQRAAVNKYESGLVENMKRSTIKQLSLIFNVDPKWLMA 100

Query: 74  FDVSPTVCSDISSE 87
           FD+      +  +E
Sbjct: 101 FDIDEINTGNNHNE 114


>gi|228907521|ref|ZP_04071378.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 200]
 gi|228852013|gb|EEM96810.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 200]
          Length = 181

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|212710973|ref|ZP_03319101.1| hypothetical protein PROVALCAL_02042 [Providencia alcalifaciens
          DSM 30120]
 gi|212686141|gb|EEB45669.1| hypothetical protein PROVALCAL_02042 [Providencia alcalifaciens
          DSM 30120]
          Length = 115

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 22/61 (36%), Positives = 32/61 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  I L R    +S ++L   L I+ QQV +YE+G+  +    L  +  VL+ PI  F 
Sbjct: 25 VGYEIYLLRKRRLLSGKELANLLNISQQQVSRYERGICNITIDMLIQVLNVLKMPIQDFL 84

Query: 75 D 75
          D
Sbjct: 85 D 85


>gi|47565513|ref|ZP_00236554.1| transcriptional regulator, putative [Bacillus cereus G9241]
 gi|47557503|gb|EAL15830.1| transcriptional regulator, putative [Bacillus cereus G9241]
          Length = 181

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|302330170|gb|ADL20364.1| Putative DNA-binding protein [Corynebacterium pseudotuberculosis
           1002]
          Length = 155

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 39/93 (41%), Gaps = 13/93 (13%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA------SRLQHISEVLESPIS 71
           R+R  R + G+SQ++L E   ++  Q+   E+  N V        S +  ++  L  P +
Sbjct: 28  RLRTLRKMRGLSQDRLAELSDVSRNQISNLERNENSVTKSADPTMSTVYRLARALHVPPA 87

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
                +  +  DI   ++N  D      G+ L 
Sbjct: 88  VLLPAATDIVQDIC--KDNAADL-----GVDLV 113


>gi|302205618|gb|ADL09960.1| Putative DNA-binding protein [Corynebacterium pseudotuberculosis
           C231]
 gi|308275853|gb|ADO25752.1| Putative DNA-binding protein [Corynebacterium pseudotuberculosis
           I19]
          Length = 158

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 39/93 (41%), Gaps = 13/93 (13%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA------SRLQHISEVLESPIS 71
           R+R  R + G+SQ++L E   ++  Q+   E+  N V        S +  ++  L  P +
Sbjct: 31  RLRTLRKMRGLSQDRLAELSDVSRNQISNLERNENSVTKSADPTMSTVYRLARALHVPPA 90

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
                +  +  DI   ++N  D      G+ L 
Sbjct: 91  VLLPAATDIVQDIC--KDNAADL-----GVDLV 116


>gi|300857891|ref|YP_003782874.1| HTH_3 family transcriptional regulator [Corynebacterium
           pseudotuberculosis FRC41]
 gi|300685345|gb|ADK28267.1| HTH_3-family transcription regulator [Corynebacterium
           pseudotuberculosis FRC41]
          Length = 145

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 39/93 (41%), Gaps = 13/93 (13%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA------SRLQHISEVLESPIS 71
           R+R  R + G+SQ++L E   ++  Q+   E+  N V        S +  ++  L  P +
Sbjct: 18  RLRTLRKMRGLSQDRLAELSDVSRNQISNLERNENSVTKSADPTMSTVYRLARALHVPPA 77

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
                +  +  DI   ++N  D      G+ L 
Sbjct: 78  VLLPAATDIVQDIC--KDNAADL-----GVDLV 103


>gi|251779099|ref|ZP_04822019.1| transcriptional regulator [Clostridium botulinum E1 str. 'BoNT E
          Beluga']
 gi|243083414|gb|EES49304.1| transcriptional regulator [Clostridium botulinum E1 str. 'BoNT E
          Beluga']
          Length = 386

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 32/58 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +IR  R+  G+S  +L   +G++ Q + +YE G++   A     + E L+ P +FF+
Sbjct: 17 AKIREARISRGLSLSELSTKIGVSSQAISQYELGISTPSALTFIKLVEELDFPSTFFY 74


>gi|169794442|ref|YP_001712235.1| putative HTH-type transcriptional regulator [Acinetobacter
          baumannii AYE]
 gi|169147369|emb|CAM85230.1| putative HTH-type transcriptional regulator [Acinetobacter
          baumannii AYE]
          Length = 210

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
             + V  +VG  IR  R    +SQ+ L +  G++ + +   E G   +  ++L  I+ V
Sbjct: 29 SQSSSVLQHVGTNIRSLRDEHSLSQQDLADRAGVSRRTIAALETGQVNISLAKLDAIAAV 88

Query: 66 LESP 69
          L   
Sbjct: 89 LGVD 92


>gi|218233568|ref|YP_002366514.1| DNA-binding protein [Bacillus cereus B4264]
 gi|218161525|gb|ACK61517.1| DNA-binding protein [Bacillus cereus B4264]
          Length = 181

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMANITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|153815596|ref|ZP_01968264.1| hypothetical protein RUMTOR_01832 [Ruminococcus torques ATCC
          27756]
 gi|317501623|ref|ZP_07959815.1| hypothetical protein HMPREF1026_01759 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|331088574|ref|ZP_08337485.1| hypothetical protein HMPREF1025_01068 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|145847027|gb|EDK23945.1| hypothetical protein RUMTOR_01832 [Ruminococcus torques ATCC
          27756]
 gi|295100105|emb|CBK89194.1| Predicted transcriptional regulator [Eubacterium cylindroides
          T2-87]
 gi|316896966|gb|EFV19045.1| hypothetical protein HMPREF1026_01759 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|330407531|gb|EGG87031.1| hypothetical protein HMPREF1025_01068 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 223

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+ I++ R   GM Q++L   +GI  Q + K E+GVN      L+ I +VL    +  
Sbjct: 10 FLGENIQIIRKHRGMKQQELANKIGINMQSLSKIERGVNYPTFDTLEKIMDVLGVTPN-- 67

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
           ++       I   E  +MD I
Sbjct: 68 -ELLSGEWKYIDHTEPYIMDVI 88


>gi|126650067|ref|ZP_01722300.1| transcriptional regulator (phage-related) protein [Bacillus sp.
           B14905]
 gi|126593239|gb|EAZ87201.1| transcriptional regulator (phage-related) protein [Bacillus sp.
           B14905]
          Length = 118

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 20/104 (19%), Positives = 44/104 (42%), Gaps = 1/104 (0%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           NV +R++  R    ++Q  + + L I+      YE+G N +    +Q ++E  +  +++ 
Sbjct: 3   NVSQRLKDLRKEAKLTQADVAKFLNISESAYGYYEQGRNEISIGSVQKLAEKYDVSVAYI 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
                     +  EE     F + P+     +   + D+  VR+
Sbjct: 63  L-CETDEKQPLDKEEAAFQAFANDPELQVFYKELPKSDEETVRR 105


>gi|52143637|ref|YP_083193.1| MerR family transcriptional regulator [Bacillus cereus E33L]
 gi|196039098|ref|ZP_03106405.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|51977106|gb|AAU18656.1| transcriptional regulator, MerR family [Bacillus cereus E33L]
 gi|196030243|gb|EDX68843.1| DNA-binding protein [Bacillus cereus NVH0597-99]
          Length = 181

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|257463340|ref|ZP_05627736.1| putative prophage repressor [Fusobacterium sp. D12]
 gi|317060917|ref|ZP_07925402.1| SOS-response transcriptional repressor [Fusobacterium sp. D12]
 gi|313686593|gb|EFS23428.1| SOS-response transcriptional repressor [Fusobacterium sp. D12]
          Length = 198

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 23/69 (33%), Positives = 35/69 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK+++L R   G+SQE+L + L +T   +  YE G   +   +L  I E L S  + FF 
Sbjct: 5  GKKLKLLRESKGLSQEELSDKLSVTKTTIGNYENGRRALTLEKLAEILEALNSSFNEFFS 64

Query: 76 VSPTVCSDI 84
          +      DI
Sbjct: 65 LKELCTEDI 73


>gi|228909441|ref|ZP_04073266.1| Helix-turn-helix domain protein [Bacillus thuringiensis IBL 200]
 gi|228850218|gb|EEM95047.1| Helix-turn-helix domain protein [Bacillus thuringiensis IBL 200]
          Length = 277

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 33/79 (41%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  
Sbjct: 8  KKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGN 67

Query: 65 VLESPISFFFDVSPTVCSD 83
          V E  + +    +    ++
Sbjct: 68 VFEVSLDYLLKETAEQSNE 86


>gi|228940714|ref|ZP_04103277.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228973633|ref|ZP_04134215.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228980191|ref|ZP_04140505.1| Helix-turn-helix domain protein [Bacillus thuringiensis Bt407]
 gi|228779549|gb|EEM27802.1| Helix-turn-helix domain protein [Bacillus thuringiensis Bt407]
 gi|228786094|gb|EEM34091.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228818958|gb|EEM65020.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          berliner ATCC 10792]
          Length = 277

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 33/79 (41%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  
Sbjct: 8  KKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGN 67

Query: 65 VLESPISFFFDVSPTVCSD 83
          V E  + +    +    ++
Sbjct: 68 VFEVSLDYLLKETAEQSNE 86


>gi|229092601|ref|ZP_04223752.1| Helix-turn-helix domain protein [Bacillus cereus Rock3-42]
 gi|228690754|gb|EEL44530.1| Helix-turn-helix domain protein [Bacillus cereus Rock3-42]
          Length = 277

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 33/79 (41%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  
Sbjct: 8  KKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGN 67

Query: 65 VLESPISFFFDVSPTVCSD 83
          V E  + +    +    ++
Sbjct: 68 VFEVSLDYLLKETAEQSNE 86


>gi|163816452|ref|ZP_02207816.1| hypothetical protein COPEUT_02641 [Coprococcus eutactus ATCC
          27759]
 gi|158448152|gb|EDP25147.1| hypothetical protein COPEUT_02641 [Coprococcus eutactus ATCC
          27759]
          Length = 268

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 30/79 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G RI   R  + MSQE+    +G++ Q V K+E         +L  I  +    +  
Sbjct: 2  VQIGSRILEYRKKMNMSQEEFANKIGVSRQAVSKWELDKAYPDLDKLVDICGMFGLSLDE 61

Query: 73 FFDVSPTVCSDISSEENNV 91
            +        +   E  V
Sbjct: 62 LVNGVEQDEEPVMEAEQRV 80


>gi|307946613|ref|ZP_07661948.1| helix-turn-helix domain-containing protein [Roseibium sp.
           TrichSKD4]
 gi|307770277|gb|EFO29503.1| helix-turn-helix domain-containing protein [Roseibium sp.
           TrichSKD4]
          Length = 130

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 50/120 (41%), Gaps = 8/120 (6%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           V +  +P   D  +G+RI   R   G+S  +L   LG+    +Q +E   +   +++L  
Sbjct: 9   VSDTTMPETTDYTLGERICRARDAAGLSTAQLARRLGVKSSTLQGWESDRSEPRSNKLVL 68

Query: 62  ISEVLESPISFFF---DVSPTVCSDISSEENNVMDFIST--PDGLQLNRYFIQIDDVKVR 116
           ++ VL    ++       SP     + ++  NV   +       L L      I+ +K+R
Sbjct: 69  LAGVLNVSPTWLLVGRGSSPMEEDVVLTDIENVRLSLDKVHKHALALTEE---IERLKLR 125


>gi|255527984|ref|ZP_05394823.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296186285|ref|ZP_06854689.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
 gi|255508314|gb|EET84715.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296049086|gb|EFG88516.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
          Length = 184

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK +   R   G+S +K+ E  G++   + + EKG++    + L  I+  L    S+F 
Sbjct: 8  IGKNLNNIRRQKGLSLDKVAELTGVSKGMLAQIEKGISNPTVTTLWKIATGLNVSFSYFM 67

Query: 75 DVS 77
          +  
Sbjct: 68 EEE 70


>gi|160933200|ref|ZP_02080589.1| hypothetical protein CLOLEP_02046 [Clostridium leptum DSM 753]
 gi|156868274|gb|EDO61646.1| hypothetical protein CLOLEP_02046 [Clostridium leptum DSM 753]
          Length = 187

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +IR  R    ++QE+L + +G+    + KYE G+     S+LQ I+  L  P+    D+ 
Sbjct: 5  QIRRVRKAAHVTQEELAKRIGVNRALISKYETGIIEPSVSQLQKIASALGVPMMELLDLE 64

Query: 78 PTVC 81
              
Sbjct: 65 EGAE 68


>gi|294085273|ref|YP_003552033.1| DNA-binding protein [Candidatus Puniceispirillum marinum IMCC1322]
 gi|292664848|gb|ADE39949.1| DNA-binding protein [Candidatus Puniceispirillum marinum IMCC1322]
          Length = 208

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 20/95 (21%), Positives = 38/95 (40%), Gaps = 9/95 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ +R  R    ++  +L    GI+   V K E G      S LQ +S  L   ++ FF
Sbjct: 24  IGREVRAHRKQQNITVAELAHLTGISIGMVSKIENGNTSPSLSTLQTLSNALGVTLTSFF 83

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
                  + I ++           +G+++ R   +
Sbjct: 84  RRFEESRTAIHTKAG---------EGVEMERAGTR 109


>gi|229098072|ref|ZP_04229020.1| Helix-turn-helix domain protein [Bacillus cereus Rock3-29]
 gi|228685263|gb|EEL39193.1| Helix-turn-helix domain protein [Bacillus cereus Rock3-29]
          Length = 277

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 22/79 (27%), Positives = 34/79 (43%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KKI     +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  
Sbjct: 8  KKIKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGN 67

Query: 65 VLESPISFFFDVSPTVCSD 83
          V E  + +    +    ++
Sbjct: 68 VFEVSLDYLLKETAKQSNE 86


>gi|551457|gb|AAB46931.1| orf1 [Methylobacterium extorquens AM1]
          Length = 139

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 29/65 (44%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P++  +G +IR+ R    +S   L    GI+   + K E G      + +  I+  L  P
Sbjct: 15 PLEKALGYQIRMLRRERDLSVGDLAAAAGISQGMISKIENGTISPSLASINAIASALNVP 74

Query: 70 ISFFF 74
          I+  F
Sbjct: 75 ITGLF 79


>gi|309776485|ref|ZP_07671468.1| helix-turn-helix domain protein [Erysipelotrichaceae bacterium
          3_1_53]
 gi|308915752|gb|EFP61509.1| helix-turn-helix domain protein [Erysipelotrichaceae bacterium
          3_1_53]
          Length = 303

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 31/80 (38%), Gaps = 2/80 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G++++  R   G+SQE+L   L ++ Q V K+E         ++  I  +    + +
Sbjct: 1  MKFGEKLQKLRKESGISQEELASRLHVSRQAVSKWENDQGYPETEKMLMIGNIFSVSMDY 60

Query: 73 FFDVSPTVCSDISSEENNVM 92
             +       +  E     
Sbjct: 61 L--LKDEGGESLPQEPGYYA 78


>gi|303234360|ref|ZP_07320999.1| helix-turn-helix protein [Finegoldia magna BVS033A4]
 gi|302494476|gb|EFL54243.1| helix-turn-helix protein [Finegoldia magna BVS033A4]
          Length = 143

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 36/71 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++++  R++  ++Q++L    G+T   ++ YE G       +LQ ISE L+  IS   +
Sbjct: 4  GEKLKKLRLMRNLTQKELAIKSGLTDAAIRNYELGNRSPSKEQLQKISEALDCDISALIN 63

Query: 76 VSPTVCSDISS 86
            P    +I  
Sbjct: 64 HEPNSIFEIMH 74


>gi|258616769|ref|ZP_05714539.1| Cro/CI family transcriptional regulator [Enterococcus faecium DO]
 gi|293560120|ref|ZP_06676624.1| helix-turn-helix domain protein [Enterococcus faecium E1162]
 gi|314938184|ref|ZP_07845489.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|314943772|ref|ZP_07850507.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|314951141|ref|ZP_07854199.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|314994621|ref|ZP_07859881.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|314995569|ref|ZP_07860663.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|291605987|gb|EFF35417.1| helix-turn-helix domain protein [Enterococcus faecium E1162]
 gi|313590157|gb|EFR69002.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313591026|gb|EFR69871.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|313596620|gb|EFR75465.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|313597496|gb|EFR76341.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|313642531|gb|EFS07111.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
          Length = 215

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 4/78 (5%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRL 59
          V  KK P  V+   G+RIRL R+  G+S E+LG  L    +   V  +E G N    +RL
Sbjct: 7  VARKKYPEAVET--GQRIRLARIEKGLSMEQLGGKLSPPASKGAVSNWENGYNLPNNTRL 64

Query: 60 QHISEVLESPISFFFDVS 77
          + +S+VL+   ++  + S
Sbjct: 65 KQLSKVLDVSTTYLLNGS 82


>gi|299822098|ref|ZP_07053984.1| DNA-binding protein [Listeria grayi DSM 20601]
 gi|299815627|gb|EFI82865.1| DNA-binding protein [Listeria grayi DSM 20601]
          Length = 133

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 20/110 (18%), Positives = 41/110 (37%), Gaps = 18/110 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G+++   R     +Q++L E + +T   + KYE G +R     L  ++E L +   F
Sbjct: 19  MEFGQKVAQLRKKKRFTQKQLAERIDVTPSTISKYEHGTHRPPVFILAKLAEELGTTTDF 78

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
             +    +    S                     F  I + ++ +  +EL
Sbjct: 79  LLEDVAGLREKNS------------------VNAFPLIGNPELEKWYLEL 110


>gi|218134936|ref|ZP_03463740.1| hypothetical protein BACPEC_02841 [Bacteroides pectinophilus ATCC
          43243]
 gi|217990321|gb|EEC56332.1| hypothetical protein BACPEC_02841 [Bacteroides pectinophilus ATCC
          43243]
          Length = 188

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 30/55 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+ +R    ++Q++  + LG + + +QKYE G   +    L+ I+  L  P
Sbjct: 7  IGKAIQKQRRAQKITQKEFAQHLGKSERTIQKYESGEILMKIDVLKQIANELNVP 61


>gi|254384564|ref|ZP_04999904.1| DNA-binding protein [Streptomyces sp. Mg1]
 gi|194343449|gb|EDX24415.1| DNA-binding protein [Streptomyces sp. Mg1]
          Length = 389

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 35/68 (51%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+   R +  M+++ +   LG+T   V +YE GV++     +  ++E+L  P++FF    
Sbjct: 30 RLTQARRLAEMTKKDVATQLGVTPAAVGQYETGVSKPRPDLIPRLAEILGVPVTFFLLGR 89

Query: 78 PTVCSDIS 85
          P    D S
Sbjct: 90 PANRLDAS 97


>gi|325264849|ref|ZP_08131577.1| putative helix-turn-helix protein [Clostridium sp. D5]
 gi|324029838|gb|EGB91125.1| putative helix-turn-helix protein [Clostridium sp. D5]
          Length = 538

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 29/61 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I   R +  +SQEK+ E   ++ Q VQK+E G +      L  I+E  +  + +  +  
Sbjct: 5  KIGKLRKLRKISQEKMAEMFSVSRQAVQKWENGTSVPDLDNLVRIAEYFDVSLDYLINGK 64

Query: 78 P 78
           
Sbjct: 65 D 65


>gi|255655872|ref|ZP_05401281.1| putative phage repressor [Clostridium difficile QCD-23m63]
          Length = 169

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 35/57 (61%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + + I+  R   G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 2  LSENIKTIRKSKGLSQQELAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|325271879|ref|ZP_08138337.1| putative phage repressor [Pseudomonas sp. TJI-51]
 gi|324102998|gb|EGC00387.1| putative phage repressor [Pseudomonas sp. TJI-51]
          Length = 276

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/88 (19%), Positives = 39/88 (44%), Gaps = 1/88 (1%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R + G++Q +L E  GI    + + E+G++R  +S L  I+++      +  +  
Sbjct: 6   RLKHARRLKGLTQTELAERAGIAQASISEIERGLSR-SSSHLVKIAQICGVDALWLAEGV 64

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNR 105
            ++ +        V + I       + R
Sbjct: 65  GSIPAPTEPGYALVGEEIQKLSAADMVR 92


>gi|319784783|ref|YP_004144259.1| cupin [Mesorhizobium ciceri biovar biserrulae WSM1271]
 gi|317170671|gb|ADV14209.1| Cupin 2 conserved barrel domain protein [Mesorhizobium ciceri
          biovar biserrulae WSM1271]
          Length = 202

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 35/79 (44%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K  +  D+ VG+R+R  R+   +S   L    G++   + + E+G++ +    +  ++  
Sbjct: 10 KPKDDADVRVGRRVRALRLERNLSLADLAAKAGVSIGALSQIERGMSSLRVKVIWPLAAA 69

Query: 66 LESPISFFFDVSPTVCSDI 84
          L+   S          +D+
Sbjct: 70 LDIEPSALIADGSDTANDL 88


>gi|229150033|ref|ZP_04278258.1| Transcriptional regulator, MerR [Bacillus cereus m1550]
 gi|228633471|gb|EEK90075.1| Transcriptional regulator, MerR [Bacillus cereus m1550]
          Length = 181

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMANITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|114567063|ref|YP_754217.1| XRE family transcriptional regulator [Syntrophomonas wolfei
          subsp. wolfei str. Goettingen]
 gi|114337998|gb|ABI68846.1| putative transcriptional regulator, XRE family [Syntrophomonas
          wolfei subsp. wolfei str. Goettingen]
          Length = 359

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 28/76 (36%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + +RI   R    MSQ  L E  G+    + +YE G        L  +S  L  P  +
Sbjct: 1  MTISERINKLRKERNMSQALLAERAGLKAPAISQYESGARSPSFESLIKLSSALGVPSDY 60

Query: 73 FFDVSPTVCSDISSEE 88
                    + SS+ 
Sbjct: 61 LLLGEEAAPYEESSDS 76


>gi|256372684|ref|YP_003110508.1| transcriptional regulator of molybdate metabolism, XRE family
          [Acidimicrobium ferrooxidans DSM 10331]
 gi|256009268|gb|ACU54835.1| transcriptional regulator of molybdate metabolism, XRE family
          [Acidimicrobium ferrooxidans DSM 10331]
          Length = 352

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 26/65 (40%)

Query: 20 RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPT 79
          R  R + G+SQ+++ + LGI+ Q V   E G           ++      +   FD S  
Sbjct: 6  RRLRRVRGLSQQQVADALGISRQAVAGIESGAFEPSLPVAMALARFFGVSVEELFDTSGA 65

Query: 80 VCSDI 84
             + 
Sbjct: 66 GREEA 70


>gi|260556875|ref|ZP_05829092.1| transcriptional regulator [Acinetobacter baumannii ATCC 19606]
 gi|260409481|gb|EEX02782.1| transcriptional regulator [Acinetobacter baumannii ATCC 19606]
          Length = 210

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
             + V  +VG  IR  R    +SQ+ L +  G++ + +   E G   +  ++L  I+ V
Sbjct: 29 SQSSSVLQHVGTNIRSLRDEHSLSQQDLADRAGVSRRTIAALETGQVNISLAKLDAIAAV 88

Query: 66 LESP 69
          L   
Sbjct: 89 LGVD 92


>gi|86137308|ref|ZP_01055885.1| transcriptional regulator, putative [Roseobacter sp. MED193]
 gi|85825643|gb|EAQ45841.1| transcriptional regulator, putative [Roseobacter sp. MED193]
          Length = 432

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 23/93 (24%), Positives = 37/93 (39%), Gaps = 5/93 (5%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G RIR RR+ILG+ Q +L    GI+   +   E    R+G   L  +++VL    S
Sbjct: 4  DTLTGSRIRERRLILGIRQAELARKAGISASYLNLIEHNRRRIGGKLLVALAQVLGVEPS 63

Query: 72 FFFDVSPTVC-----SDISSEENNVMDFISTPD 99
             + +            +     V +   T +
Sbjct: 64 MLTEGAEAALIASLREAAADAGPQVAELDRTDE 96


>gi|295101224|emb|CBK98769.1| Predicted transcription factor, homolog of eukaryotic MBF1
           [Faecalibacterium prausnitzii L2-6]
          Length = 272

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 24/97 (24%), Positives = 45/97 (46%), Gaps = 10/97 (10%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +D   GK I   R   G++Q +L E L IT + V K+E G     AS +  +  +L  
Sbjct: 2   NQIDT--GKFIAGCRKEKGLTQAQLAEKLNITDRAVSKWETGKCMPDASIMLELCNILGV 59

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            ++   ++      ++++ E  V + +     ++L R
Sbjct: 60  TVN---ELLSGERIEMNNYEEKVNENL-----IELKR 88


>gi|239502014|ref|ZP_04661324.1| hypothetical protein AbauAB_06835 [Acinetobacter baumannii AB900]
          Length = 183

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
             + V  +VG  IR  R    +SQ+ L +  G++ + +   E G   +  ++L  I+ V
Sbjct: 2  SQSSSVLQHVGTNIRSLRDERSLSQQDLADRAGVSRRTIAALETGQVNISLAKLDAIAAV 61

Query: 66 LESP 69
          L   
Sbjct: 62 LGVD 65


>gi|15963850|ref|NP_384203.1| hypothetical protein SMc02620 [Sinorhizobium meliloti 1021]
 gi|307309551|ref|ZP_07589206.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
 gi|307320383|ref|ZP_07599800.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|15073025|emb|CAC41484.1| Putative HTH-type transcriptional regulator [Sinorhizobium meliloti
           1021]
 gi|306893949|gb|EFN24718.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306900011|gb|EFN30632.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
          Length = 243

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 35/83 (42%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G  +R  R  LG++   +     I+   + K E G      + LQ +S  L  PI
Sbjct: 52  LEVAIGHEVRAFRKKLGITVADVASATDISVGMLSKIENGNTSPSLTTLQTLSRALGVPI 111

Query: 71  SFFFDVSPTVCSDISSEENNVMD 93
           + FF       S +  +    +D
Sbjct: 112 TAFFRRFEEEHSAVFVKAGEGVD 134


>gi|307704145|ref|ZP_07641070.1| transcriptional regulator [Streptococcus mitis SK597]
 gi|307622303|gb|EFO01315.1| transcriptional regulator [Streptococcus mitis SK597]
          Length = 290

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 48/91 (52%), Gaps = 4/91 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESP 69
          +D+ +  R++ +R  L +SQ++L +  GI  Q Q+ + E+G    G+  L  +S+ L+  
Sbjct: 1  MDMLLATRLKNKRKELKLSQKELAK--GICEQGQISRMEQGKYSPGSELLFQLSKRLKVS 58

Query: 70 ISFFFDVSP-TVCSDISSEENNVMDFISTPD 99
          +++FF+ +  +   +I   +     F+   +
Sbjct: 59 MNYFFEETEVSSLENIDKFKELSKKFLDERE 89


>gi|291558119|emb|CBL35236.1| Methylase involved in ubiquinone/menaquinone biosynthesis
          [Eubacterium siraeum V10Sc8a]
          Length = 373

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 34/77 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+   R    ++Q +L E +G +FQ + K+E G+     + L  ++   E  I     + 
Sbjct: 9  RLSDLRKAKHITQGELAEFVGTSFQTISKWENGITMPDITVLPVLAAFFEVSIDELLGIK 68

Query: 78 PTVCSDISSEENNVMDF 94
          P      SSEE +   F
Sbjct: 69 PLKGDVYSSEETDSEKF 85


>gi|171779398|ref|ZP_02920362.1| hypothetical protein STRINF_01243 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
 gi|171282015|gb|EDT47446.1| hypothetical protein STRINF_01243 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
          Length = 228

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 50/108 (46%), Gaps = 12/108 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ RR+ LG+ Q +L + LGI+ Q    +EKG  +   + L  + E+L+    +F ++
Sbjct: 5   EKLKNRRLELGLKQTELAKELGISKQSYFAWEKGTAKPTKANLAKLEELLQVSHGYFSEL 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                    +++N         D L+             ++K++ +V+
Sbjct: 65  EIATLYKQLTDQNQEKALTYVQDLLE------------QQRKVVTMVQ 100


>gi|296450846|ref|ZP_06892596.1| DNA-binding protein [Clostridium difficile NAP08]
 gi|296879151|ref|ZP_06903146.1| DNA-binding protein [Clostridium difficile NAP07]
 gi|296260317|gb|EFH07162.1| DNA-binding protein [Clostridium difficile NAP08]
 gi|296429694|gb|EFH15546.1| DNA-binding protein [Clostridium difficile NAP07]
          Length = 169

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 35/57 (61%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + + I+  R   G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 2  LSENIKTIRKSKGLSQQELAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|228914405|ref|ZP_04078019.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
 gi|228845250|gb|EEM90287.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
          Length = 181

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|268590867|ref|ZP_06125088.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
 gi|291313652|gb|EFE54105.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
          Length = 103

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 26/75 (34%), Positives = 39/75 (52%), Gaps = 5/75 (6%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRL 59
          M  NK     +   VG R++  R   G +  +L +  G+ + QQ+ +YEKGVNR+G   L
Sbjct: 1  MSDNK----SISKLVGFRLKQLRNESGFTAFQLTKEAGLKSEQQLYRYEKGVNRIGIDEL 56

Query: 60 QHISEVLESPISFFF 74
            +  VL + I  FF
Sbjct: 57 VAVLNVLNARIGDFF 71


>gi|196033431|ref|ZP_03100843.1| DNA-binding protein [Bacillus cereus W]
 gi|229196038|ref|ZP_04322790.1| Transcriptional regulator, MerR [Bacillus cereus m1293]
 gi|195993865|gb|EDX57821.1| DNA-binding protein [Bacillus cereus W]
 gi|228587420|gb|EEK45486.1| Transcriptional regulator, MerR [Bacillus cereus m1293]
          Length = 181

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|212633871|ref|YP_002310396.1| transcriptional regulator [Shewanella piezotolerans WP3]
 gi|212555355|gb|ACJ27809.1| Transcriptional regulator, putative [Shewanella piezotolerans
          WP3]
          Length = 108

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 10/78 (12%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGA 56
          M   +  P P+      R++  R  LG+SQ++LG  LG+       ++  YEKG +    
Sbjct: 1  MSEKQINPLPL------RLKQARTALGISQKQLGIQLGMEPGTASARMNHYEKGKHTPDY 54

Query: 57 SRLQHISEVLESPISFFF 74
          + L+ +++ L  P+++FF
Sbjct: 55 ATLKAMADELGVPVAYFF 72


>gi|163815728|ref|ZP_02207100.1| hypothetical protein COPEUT_01909 [Coprococcus eutactus ATCC 27759]
 gi|158449033|gb|EDP26028.1| hypothetical protein COPEUT_01909 [Coprococcus eutactus ATCC 27759]
          Length = 298

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 20/108 (18%), Positives = 46/108 (42%), Gaps = 9/108 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ I  +R    ++Q +L + LG + + V K+E+G+     S    + ++LE  I+ F 
Sbjct: 6   IGRYIAEKRKRARLTQRQLADKLGKSDKSVSKWERGICLPDVSVYMELCKILEISINEFL 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                    +  + +  +    + +G        +     +R+ I+ L
Sbjct: 66  AGEDISEDSVREKSDETL-LQVSKEG--------KNKQKFLRRIIVAL 104


>gi|227486494|ref|ZP_03916810.1| conserved hypothetical protein [Anaerococcus lactolyticus ATCC
          51172]
 gi|227235542|gb|EEI85557.1| conserved hypothetical protein [Anaerococcus lactolyticus ATCC
          51172]
          Length = 76

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 27/64 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI   R  LG+SQ +LG+ +GI+   + K E G           I+  L   +   FD+
Sbjct: 3  NRIEKYRKPLGLSQHRLGKKVGISRTSINKIETGKTIPSLKTANDIANALGVCMYQIFDL 62

Query: 77 SPTV 80
              
Sbjct: 63 DGEE 66


>gi|75760227|ref|ZP_00740282.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|74492280|gb|EAO55441.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
          Length = 186

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 24/84 (28%), Positives = 43/84 (51%), Gaps = 1/84 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 5  NINVGQKIMAFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 64

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          +FF + + T    + +++   M F
Sbjct: 65 NFFLEDTNTEELVVRADQRKKMTF 88


>gi|219668134|ref|YP_002458569.1| XRE family transcriptional regulator [Desulfitobacterium hafniense
           DCB-2]
 gi|219538394|gb|ACL20133.1| transcriptional regulator, XRE family [Desulfitobacterium hafniense
           DCB-2]
          Length = 361

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 34/87 (39%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK I  +R     +QE+L + +G++   V K+E G      + L  I+  L + +   F 
Sbjct: 6   GKVITAKRKEKSWTQEQLAQAVGVSTPAVSKWETGATYPDITLLPPIARALNTTVDELFS 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
               +  +  S        +   +G  
Sbjct: 66  YQNELSDNEVSGFTQKATSLYEAEGFD 92


>gi|323486025|ref|ZP_08091356.1| transcriptional regulator [Clostridium symbiosum WAL-14163]
 gi|323400592|gb|EGA92959.1| transcriptional regulator [Clostridium symbiosum WAL-14163]
          Length = 216

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 31/60 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  I+  R   G++Q +LG+ LG+  Q +  +E  V+   +  L  +S++    ++  +D
Sbjct: 5  GNIIKQLRKEAGLTQGELGKKLGVVKQTISSWENNVSEPNSETLSELSKLFGVSVAQLYD 64



 Score = 38.6 bits (89), Expect = 0.31,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 23/61 (37%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RIR       MS+++  + +G   ++   Y  G        L  I+  L     +  ++S
Sbjct: 89  RIRDLMEEQKMSEDEFAQRVGFHKEEKDAYLYGNKMPSIEDLIKIAGALNVSTDYLLNIS 148

Query: 78  P 78
            
Sbjct: 149 S 149


>gi|260439179|ref|ZP_05792995.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
 gi|292808378|gb|EFF67583.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
          Length = 140

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 35/75 (46%), Gaps = 1/75 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPIS 71
          +  G+RIR  R   G++Q +L + +G++ + V+ YE G +        Q ++E  +  I+
Sbjct: 1  MTFGERIRELRTQKGLTQPQLADSIGVSVRTVKSYELGTSLPKTRETYQKLAEFFDVNIN 60

Query: 72 FFFDVSPTVCSDISS 86
          +          D  +
Sbjct: 61 YLLAKDEQFILDAGA 75


>gi|239815284|ref|YP_002944194.1| XRE family transcriptional regulator [Variovorax paradoxus S110]
 gi|239801861|gb|ACS18928.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 135

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RI   R    + Q +L E LG+  Q +Q YE G  R+  S L  ++  L   +  
Sbjct: 24 VAMGERIAQLRKARSLPQTQLAEALGVAQQTLQAYEAGTRRIPVSALPTVARTLSVTLEE 83

Query: 73 FF 74
           F
Sbjct: 84 LF 85


>gi|229155408|ref|ZP_04283518.1| Transcriptional regulator, MerR [Bacillus cereus ATCC 4342]
 gi|228628123|gb|EEK84840.1| Transcriptional regulator, MerR [Bacillus cereus ATCC 4342]
          Length = 181

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|213019727|ref|ZP_03335532.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212994768|gb|EEB55411.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 303

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 33/56 (58%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +G+RIR  R+I   +Q+ L + +G+T +++ +YE+G   +   +L  ++  L   I
Sbjct: 169 IGQRIREWRLIRRYTQKDLADKVGLTLKEIHEYERGYTAITFDKLYEMAGALSVNI 224



 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 26/131 (19%), Positives = 58/131 (44%), Gaps = 13/131 (9%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  + +  + +   +G++I   R++   +Q +L   +G+ +++V  YE G   +    L 
Sbjct: 1   MFVSVRDISSISYKIGQKIEDCRLMQRCTQAELASKIGLAYKEVTNYENGYIPITIEVLY 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            I+ VL   +    D+ P   +    E+          + L L + +   ++ K+ + + 
Sbjct: 61  VIARVLSVNV---VDLLPKPITVREYEDE-------DEEILYLTKIY---ENQKLGKIVP 107

Query: 121 ELVRSIVSSEK 131
            L+R +  SEK
Sbjct: 108 SLIRFVHISEK 118


>gi|196044996|ref|ZP_03112229.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|225863689|ref|YP_002749067.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|229184021|ref|ZP_04311235.1| Transcriptional regulator, MerR [Bacillus cereus BGSC 6E1]
 gi|196023998|gb|EDX62672.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|225789365|gb|ACO29582.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|228599460|gb|EEK57066.1| Transcriptional regulator, MerR [Bacillus cereus BGSC 6E1]
          Length = 181

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|153941053|ref|YP_001389709.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|152936949|gb|ABS42447.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|295317797|gb|ADF98174.1| DNA-binding protein [Clostridium botulinum F str. 230613]
          Length = 181

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 38/84 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + ++IR  R    ++ + L E  G++   + + E   + +  + L+ I++ L  PI++FF
Sbjct: 5  IAEKIRNLRKEKNLTLKDLSEKTGLSISFLSQVENNSSSLAITSLKKIADALNVPITYFF 64

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
                   +  +E  V +   + 
Sbjct: 65 KSPELHKFLVKKQEREVFELEGSS 88


>gi|52842770|ref|YP_096569.1| phage repressor [Legionella pneumophila subsp. pneumophila str.
          Philadelphia 1]
 gi|52629881|gb|AAU28622.1| phage repressor [Legionella pneumophila subsp. pneumophila str.
          Philadelphia 1]
          Length = 225

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +GKRI   R   G++++ L +    I   ++  +E G    G   +  +++ LE   SF 
Sbjct: 7  IGKRIHEARKAKGLTRQALADLTDDIKPSRINNWEHGTRMPGPEEITQLAQALEVSPSFL 66

Query: 74 FDVSPTVCSDIS 85
            +S     D  
Sbjct: 67 MGLSDERDGDFG 78


>gi|134292421|ref|YP_001116157.1| XRE family transcriptional regulator [Burkholderia vietnamiensis
           G4]
 gi|134135578|gb|ABO56692.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia vietnamiensis G4]
          Length = 193

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 26/131 (19%), Positives = 50/131 (38%), Gaps = 12/131 (9%)

Query: 1   MVGNKKIPNPVDI--NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
           MV   + P  VD    +G +IR  R  L  + +      GI+   + + E+G+     + 
Sbjct: 1   MVPPTENPRSVDAPAALGSKIRALRQRLKRTLDDTATAAGISKPFLSQVERGLASPSLTS 60

Query: 59  LQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTP----------DGLQLNRYFI 108
           L  I++ L   + +F D      S    E+     F  +           +G QL    +
Sbjct: 61  LAGIAQALGVTVQYFVDTPSEERSVCRGEQLRFFGFADSANLFARLTNVTEGRQLEAILV 120

Query: 109 QIDDVKVRQKI 119
           ++   + R ++
Sbjct: 121 RMPPGQKRSEV 131


>gi|322378177|ref|ZP_08052662.1| toxin-antitoxin system, antitoxin component, Xre family
           [Streptococcus sp. M334]
 gi|321280907|gb|EFX57922.1| toxin-antitoxin system, antitoxin component, Xre family
           [Streptococcus sp. M334]
          Length = 151

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 29/57 (50%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R+  G SQE+L E +GI       +E G ++    +L+ I++     + + F
Sbjct: 92  RLKELRLQHGFSQEELAEQIGIKQNSYSDWEHGKSKPNYEKLEKIADFFGVSLDWLF 148



 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 10/57 (17%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++  R   G+ Q+++ E L +      K+E G ++    +L  ++ + +  I + 
Sbjct: 6  EKLKNLRKKRGLIQQEVAELLNVERVAYTKWENGKSKPNYEKLSMLACIFDVSIDYL 62


>gi|237735081|ref|ZP_04565562.1| predicted protein [Mollicutes bacterium D7]
 gi|229381857|gb|EEO31948.1| predicted protein [Coprobacillus sp. D7]
          Length = 367

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 36/71 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK++   R   G+SQE LG  L ++ Q V K+E  ++      +  IS+  E  I+ 
Sbjct: 1  MSIGKKLLSLRQEKGISQEALGRELNVSRQTVSKWESDLSLPDMKMMITISQFYEISITQ 60

Query: 73 FFDVSPTVCSD 83
            D+     +D
Sbjct: 61 LLDLDDETEAD 71


>gi|251795933|ref|YP_003010664.1| XRE family transcriptional regulator [Paenibacillus sp. JDR-2]
 gi|247543559|gb|ACT00578.1| transcriptional regulator, XRE family [Paenibacillus sp. JDR-2]
          Length = 231

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 36/85 (42%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           + I  G+RI+  R   GMSQE L    G+    +   E+G   V    ++ I+  L+  
Sbjct: 2  DIRIEFGQRIKELRARSGMSQEHLAYRAGLDRSYISGVERGERNVSIINIEKIASALQIG 61

Query: 70 ISFFFDVSPTVCSDISSEENNVMDF 94
          +++ F             ++ ++ F
Sbjct: 62 VAYLFSGERFSPKQAYQPKDFIVPF 86


>gi|167757519|ref|ZP_02429646.1| hypothetical protein CLORAM_03069 [Clostridium ramosum DSM 1402]
 gi|167702516|gb|EDS17095.1| hypothetical protein CLORAM_03069 [Clostridium ramosum DSM 1402]
          Length = 367

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 36/71 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK++   R   G+SQE LG  L ++ Q V K+E  ++      +  IS+  E  I+ 
Sbjct: 1  MSIGKKLLSLRQEKGISQEALGRELNVSRQTVSKWESDLSLPDMKMMITISQFYEISITQ 60

Query: 73 FFDVSPTVCSD 83
            D+     +D
Sbjct: 61 LLDLDDETEAD 71


>gi|321156793|emb|CBW38777.1| Putative helix turn helix DNA binding protein [Streptococcus
          pneumoniae]
          Length = 254

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 28/56 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +++ +R   G+SQ +L   LGI+      +E G  +   + L  +SE+L     +F
Sbjct: 33 KLKEKRESQGLSQSQLASSLGISRASYFNWESGKTKPNQNNLSKLSEILNVDPRYF 88


>gi|183217354|gb|ACC59273.1| UV resistance protein UmuD [Streptococcus pneumoniae]
          Length = 227

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 28/56 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +++ +R   G+SQ +L   LGI+      +E G  +   + L  +SE+L     +F
Sbjct: 6  KLKEKRESQGLSQSQLASSLGISRASYFNWESGKTKPNQNNLSKLSEILNVDPRYF 61


>gi|261208045|ref|ZP_05922720.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289565524|ref|ZP_06445972.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|294615155|ref|ZP_06695039.1| transcriptional regulator, xre family [Enterococcus faecium
          E1636]
 gi|314938404|ref|ZP_07845695.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|314942329|ref|ZP_07849177.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|314951463|ref|ZP_07854513.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|314993126|ref|ZP_07858512.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|314996009|ref|ZP_07861087.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|260077629|gb|EEW65345.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289162722|gb|EFD10574.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|291591975|gb|EFF23600.1| transcriptional regulator, xre family [Enterococcus faecium
          E1636]
 gi|313589763|gb|EFR68608.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313592366|gb|EFR71211.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|313596420|gb|EFR75265.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|313598946|gb|EFR77791.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|313642302|gb|EFS06882.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
          Length = 111

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 30/57 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          IR +R  LG +Q++L E +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 10 IREKRKALGWTQKELAEKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66


>gi|256839656|ref|ZP_05545165.1| transcriptional regulator [Parabacteroides sp. D13]
 gi|256738586|gb|EEU51911.1| transcriptional regulator [Parabacteroides sp. D13]
          Length = 130

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 29/129 (22%), Positives = 60/129 (46%), Gaps = 10/129 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  ++  R   G+ QE L + +G++   +  YEK  + +    L+ I++ L+ PI    +
Sbjct: 12  GANLKRWREWRGIKQEVLADKIGVSQATLSGYEK-KDELEPEVLEKITKALDIPIEAITE 70

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
           ++     +I S      D  +    +Q N+ F  ID      KI+EL   ++ +E++   
Sbjct: 71  LNEGALINIYS--GTWQDNATAAGSIQ-NQTFNPID------KIVELYERLLKAEQEKVA 121

Query: 136 IEEECMVEQ 144
           +  E + ++
Sbjct: 122 MLHEIIKDK 130


>gi|154500025|ref|ZP_02038063.1| hypothetical protein BACCAP_03683 [Bacteroides capillosus ATCC
          29799]
 gi|150271623|gb|EDM98880.1| hypothetical protein BACCAP_03683 [Bacteroides capillosus ATCC
          29799]
          Length = 171

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 32/70 (45%), Gaps = 1/70 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +   ++++  R + G+SQE+L E L ++ Q + K+E G        +  IS   +  + +
Sbjct: 1  MTFSEKLQRLRKVNGLSQEQLAEKLNVSRQAISKWEMGAI-PDMDNVIKISRFFDCSLDY 59

Query: 73 FFDVSPTVCS 82
            +      S
Sbjct: 60 LMNNEAEETS 69


>gi|126643247|ref|YP_001086231.1| hypothetical protein A1S_3239 [Acinetobacter baumannii ATCC
          17978]
 gi|332874254|ref|ZP_08442174.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
          6014059]
 gi|126389131|gb|ABO13629.1| hypothetical protein A1S_3239 [Acinetobacter baumannii ATCC
          17978]
 gi|323519685|gb|ADX94066.1| putative HTH-type transcriptional regulator [Acinetobacter
          baumannii TCDC-AB0715]
 gi|332737538|gb|EGJ68445.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
          6014059]
          Length = 183

 Score = 61.0 bits (147), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
             + V  +VG  IR  R    +SQ+ L +  G++ + +   E G   +  ++L  I+ V
Sbjct: 2  SQSSSVLQHVGTNIRSLRDERSLSQQDLADRAGVSRRTIAALETGQVNISLAKLDAIAAV 61

Query: 66 LESP 69
          L   
Sbjct: 62 LGVD 65


>gi|288572782|ref|ZP_06391139.1| transcriptional regulator, XRE family [Dethiosulfovibrio
          peptidovorans DSM 11002]
 gi|288568523|gb|EFC90080.1| transcriptional regulator, XRE family [Dethiosulfovibrio
          peptidovorans DSM 11002]
          Length = 148

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 41/80 (51%), Gaps = 2/80 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K ++  R   G +Q+++ + LGI+ +  Q YE G  ++   +L  ++++ +    +    
Sbjct: 6  KNLKKIRKRSGFTQKQVAKHLGISERAYQHYEAGDRKISPEKLLAMAKLFQVSADYLLGN 65

Query: 77 SPTVCSDISSEENNVMDFIS 96
          SP +   +  E+  ++D +S
Sbjct: 66 SPGLLKGL--EDPCLIDILS 83


>gi|75758655|ref|ZP_00738772.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|74493826|gb|EAO56925.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
          Length = 186

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 24/84 (28%), Positives = 42/84 (50%), Gaps = 1/84 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 5  NINVGQKIMAFRKDAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 64

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          +FF + + T    + + +   M F
Sbjct: 65 NFFLEDTNTEELVVRANQRKKMTF 88


>gi|75761993|ref|ZP_00741910.1| Transcriptional regulator [Bacillus thuringiensis serovar
          israelensis ATCC 35646]
 gi|74490526|gb|EAO53825.1| Transcriptional regulator [Bacillus thuringiensis serovar
          israelensis ATCC 35646]
          Length = 143

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 31/82 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G +++  R   G SQE L   + ++ Q V K+E G N      +  +S++    I  
Sbjct: 1  MFFGDKLKKEREKKGWSQEYLATKIHVSRQSVSKWETGKNYPNIGVIIDLSDLFGITIDE 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
                 +   I  +     D 
Sbjct: 61 LLRSDGELKEKIIQDSKGSTDL 82


>gi|261251841|ref|ZP_05944415.1| putrescine utilization regulator [Vibrio orientalis CIP 102891]
 gi|260938714|gb|EEX94702.1| putrescine utilization regulator [Vibrio orientalis CIP 102891]
          Length = 185

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 23/73 (31%), Positives = 31/73 (42%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  +GK I L R   G+SQ +L E  GIT   +   E G      S LQ I  V    +S
Sbjct: 3  NQEIGKNIVLLRKEHGLSQRELAERAGITHSAISSIENGKVSPSVSSLQKIVNVFSLSLS 62

Query: 72 FFFDVSPTVCSDI 84
           FF        ++
Sbjct: 63 EFFTFEQPQSEEV 75


>gi|254555453|ref|YP_003061870.1| transcription regulator [Lactobacillus plantarum JDM1]
 gi|254044380|gb|ACT61173.1| transcription regulator [Lactobacillus plantarum JDM1]
          Length = 180

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 33/77 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+RIR  R+   ++QE+LGE   ++   + + E   +         I EVL    + 
Sbjct: 1  MDIGQRIRNLRIQKQLTQEELGERTDLSKGYISQLEHNQSSPSMETFFAILEVLGCAPAD 60

Query: 73 FFDVSPTVCSDISSEEN 89
          FF         +    +
Sbjct: 61 FFAAEQPTHKVVYHPAD 77


>gi|300766976|ref|ZP_07076889.1| cro/CI family transcriptional regulator [Lactobacillus plantarum
          subsp. plantarum ATCC 14917]
 gi|308179456|ref|YP_003923584.1| cro/CI family transcriptional regulator [Lactobacillus plantarum
          subsp. plantarum ST-III]
 gi|300495514|gb|EFK30669.1| cro/CI family transcriptional regulator [Lactobacillus plantarum
          subsp. plantarum ATCC 14917]
 gi|308044947|gb|ADN97490.1| cro/CI family transcriptional regulator [Lactobacillus plantarum
          subsp. plantarum ST-III]
          Length = 180

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 33/77 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+RIR  R+   ++QE+LGE   ++   + + E   +         I EVL    + 
Sbjct: 1  MDIGQRIRNLRIQKQLTQEELGERTDLSKGYISQLEHNQSSPSMETFFAILEVLGCAPAD 60

Query: 73 FFDVSPTVCSDISSEEN 89
          FF         +    +
Sbjct: 61 FFAAEQPTHKVVYHPAD 77


>gi|125718510|ref|YP_001035643.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK36]
 gi|125498427|gb|ABN45093.1| Transcriptional regulator, XRE family, putative [Streptococcus
          sanguinis SK36]
          Length = 197

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 34/79 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VGK+I+  R    +SQ+ L E + ++ Q +  +E+G        L  +S+V E  +  
Sbjct: 1  MQVGKQIQHYRKEKNLSQDDLAEIIFVSRQSISNWERGATYPDIQNLLLLSKVFEVSLDK 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                     I  ++  +
Sbjct: 61 LVKGDLETMKQIIHDQEFM 79


>gi|28377241|ref|NP_784133.1| transcription regulator [Lactobacillus plantarum WCFS1]
 gi|28270072|emb|CAD62972.1| transcription regulator [Lactobacillus plantarum WCFS1]
          Length = 180

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 33/77 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+RIR  R+   ++QE+LGE   ++   + + E   +         I EVL    + 
Sbjct: 1  MDIGQRIRNLRIQKQLTQEELGERTDLSKGYISQLEHNQSSPSMETFFAILEVLGCAPAD 60

Query: 73 FFDVSPTVCSDISSEEN 89
          FF         +    +
Sbjct: 61 FFAAEQPTHKVVYHPAD 77


>gi|324009974|gb|EGB79193.1| helix-turn-helix protein [Escherichia coli MS 57-2]
          Length = 116

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R+  G++Q+ LG+ +G++   +QK E G      +++  I+  L     + 
Sbjct: 27 LSERLKEARLARGLTQKALGDLVGVSQAAIQKIETGKAN-QTTKIVEIANALGVRAEWL 84


>gi|322375624|ref|ZP_08050136.1| toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. C300]
 gi|321279332|gb|EFX56373.1| toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. C300]
          Length = 152

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 32/63 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R    ++Q+++ E +G+T +  QK+E G +++       +++    P+S+  + 
Sbjct: 2  NRIKELRKQKKVTQQEVAEAIGVTRRGFQKWENGESQITLKNAAQLADYFGVPLSYLLNQ 61

Query: 77 SPT 79
             
Sbjct: 62 EEE 64


>gi|229018822|ref|ZP_04175669.1| Helix-turn-helix domain protein [Bacillus cereus AH1273]
 gi|229025063|ref|ZP_04181491.1| Helix-turn-helix domain protein [Bacillus cereus AH1272]
 gi|228736269|gb|EEL86836.1| Helix-turn-helix domain protein [Bacillus cereus AH1272]
 gi|228742443|gb|EEL92596.1| Helix-turn-helix domain protein [Bacillus cereus AH1273]
          Length = 277

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 33/79 (41%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK      +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  
Sbjct: 8  KKTKGDTHMGFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGN 67

Query: 65 VLESPISFFFDVSPTVCSD 83
          V E  + +    +    ++
Sbjct: 68 VFEVSLDYLLKETAEQSNE 86


>gi|300362045|ref|ZP_07058222.1| bacteriophage transcriptional regulator [Lactobacillus gasseri
          JV-V03]
 gi|300354664|gb|EFJ70535.1| bacteriophage transcriptional regulator [Lactobacillus gasseri
          JV-V03]
          Length = 115

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 11/60 (18%), Positives = 30/60 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ +RI+  R+   ++Q++L + L +    +  +E G N      L+ ++ +    + +
Sbjct: 1  MNIAQRIKDLRLSKHLTQKELAQLLNVKPTTISGWELGRNEPSIDTLKDLAHIFNVSVDY 60


>gi|255103016|ref|ZP_05331993.1| putative regulatory protein [Clostridium difficile QCD-63q42]
          Length = 122

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 39/85 (45%), Gaps = 2/85 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+RI++ R+   ++QE L E + ++ Q V   E G + V    L  I+  L   +  
Sbjct: 6  KFIGQRIKIARIKKKLTQEVLSEKINVSPQHVSNIETGNSSVSLPTLVAIANTLGVSVDE 65

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
             +  T+ S  +  EN + + +  
Sbjct: 66 L--LCDTILSSKAVFENELEEVLRD 88


>gi|168178240|ref|ZP_02612904.1| DNA-binding protein [Clostridium botulinum NCTC 2916]
 gi|182670949|gb|EDT82923.1| DNA-binding protein [Clostridium botulinum NCTC 2916]
          Length = 381

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+GK I  +R   G++QE+L   +G++   V K+E G +      L  ++      +  
Sbjct: 4  LNIGKCIIHKRKEKGITQEQLANYIGVSKASVSKWESGSSYPDIVLLPELATYFNISVDE 63

Query: 73 FFDVSPTVCSD 83
              SP +  +
Sbjct: 64 LLGYSPQLTKE 74


>gi|116873702|ref|YP_850483.1| DNA-binding protein [Listeria welshimeri serovar 6b str. SLCC5334]
 gi|116742580|emb|CAK21704.1| DNA-binding protein [Listeria welshimeri serovar 6b str. SLCC5334]
          Length = 115

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/110 (19%), Positives = 42/110 (38%), Gaps = 18/110 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G+++   R    ++Q++L E +G T   + KYE   +R     L  ++E+L +   F
Sbjct: 1   MEFGEKLIHLRKKNRLTQKQLAEKIGTTASTISKYENDNHRPPIFILAKLAEILGTTTDF 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
             D    +    S                     F  I + ++ +  +EL
Sbjct: 61  LLDDVAGLREKNS------------------VNAFPLIGNPELEKWYLEL 92


>gi|331085854|ref|ZP_08334937.1| hypothetical protein HMPREF0987_01240 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330406777|gb|EGG86282.1| hypothetical protein HMPREF0987_01240 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 179

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/102 (20%), Positives = 42/102 (41%), Gaps = 5/102 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G ++R  RM  G++QE+L +   ++   + + E+ +     + L  + + L + +  
Sbjct: 1   MNIGNKLRELRMEKGLTQEELADRAELSKGFISQIERDLTSPSIATLVDLLQCLGTNLKD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           FF            E     DF    D   LN     I + +
Sbjct: 61  FFSDDSDEQIVFPKE-----DFFEKTDAELLNTIEWIIPNAQ 97


>gi|325662004|ref|ZP_08150623.1| hypothetical protein HMPREF0490_01361 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|325471667|gb|EGC74886.1| hypothetical protein HMPREF0490_01361 [Lachnospiraceae bacterium
           4_1_37FAA]
          Length = 186

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/102 (20%), Positives = 42/102 (41%), Gaps = 5/102 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G ++R  RM  G++QE+L +   ++   + + E+ +     + L  + + L + +  
Sbjct: 8   MNIGNKLRELRMEKGLTQEELADRAELSKGFISQIERDLTSPSIATLVDLLQCLGTNLKD 67

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           FF            E     DF    D   LN     I + +
Sbjct: 68  FFSDDSDEQIVFPKE-----DFFEKTDAELLNTIEWIIPNAQ 104


>gi|257064295|ref|YP_003143967.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
 gi|256791948|gb|ACV22618.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
          Length = 196

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 32/84 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG RIR  R    +SQE L E + ++ Q V  +E G        L  +S +    I  
Sbjct: 1  MEVGNRIREERDRANLSQEGLAEKIFVSRQTVSNWETGKTYPDVQSLLLMSNLFGVSIDS 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
                   ++      + M  ++
Sbjct: 61 LVKGDIVAMNEELDRSASRMKTLA 84


>gi|148378345|ref|YP_001252886.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|168184831|ref|ZP_02619495.1| DNA-binding protein [Clostridium botulinum Bf]
 gi|237793662|ref|YP_002861214.1| DNA-binding protein [Clostridium botulinum Ba4 str. 657]
 gi|148287829|emb|CAL81895.1| transcriptional regulator [Clostridium botulinum A str. ATCC
          3502]
 gi|182672129|gb|EDT84090.1| DNA-binding protein [Clostridium botulinum Bf]
 gi|229261583|gb|ACQ52616.1| DNA-binding protein [Clostridium botulinum Ba4 str. 657]
          Length = 181

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 38/84 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + ++IR  R    ++ + L E  G++   + + E   + +  + L+ I++ L  PI++FF
Sbjct: 5  IAEKIRNLRKEKNLTLKDLSEKTGLSISFLSQVENNSSSLAITSLKKIADALNVPITYFF 64

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
                   +  +E  V +   + 
Sbjct: 65 KSPELHKFLVKKQEREVFELEGSS 88


>gi|317057449|ref|YP_004105916.1| helix-turn-helix domain-containing protein [Ruminococcus albus 7]
 gi|315449718|gb|ADU23282.1| helix-turn-helix domain protein [Ruminococcus albus 7]
          Length = 195

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 33/67 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  IR  R+  G++Q++L E + ++ + V K+E G      S L  ++E+  + ++    
Sbjct: 7  GALIRQLRLAAGLTQKQLAEKVNVSDKAVSKWECGNGAPDVSLLTDLAEIFGTDVNTLLS 66

Query: 76 VSPTVCS 82
           S  +  
Sbjct: 67 GSKDINE 73


>gi|28898552|ref|NP_798157.1| DNA-binding transcriptional repressor PuuR [Vibrio
          parahaemolyticus RIMD 2210633]
 gi|153836272|ref|ZP_01988939.1| HTH-type transcriptional regulator PuuR [Vibrio parahaemolyticus
          AQ3810]
 gi|260365009|ref|ZP_05777580.1| HTH-type transcriptional regulator PuuR [Vibrio parahaemolyticus
          K5030]
 gi|260879596|ref|ZP_05891951.1| HTH-type transcriptional regulator PuuR [Vibrio parahaemolyticus
          AN-5034]
 gi|260894929|ref|ZP_05903425.1| HTH-type transcriptional regulator PuuR [Vibrio parahaemolyticus
          Peru-466]
 gi|260901062|ref|ZP_05909457.1| HTH-type transcriptional regulator PuuR [Vibrio parahaemolyticus
          AQ4037]
 gi|28806770|dbj|BAC60041.1| putative transcriptional regulator [Vibrio parahaemolyticus RIMD
          2210633]
 gi|149750547|gb|EDM61292.1| HTH-type transcriptional regulator PuuR [Vibrio parahaemolyticus
          AQ3810]
 gi|308085951|gb|EFO35646.1| HTH-type transcriptional regulator PuuR [Vibrio parahaemolyticus
          Peru-466]
 gi|308093441|gb|EFO43136.1| HTH-type transcriptional regulator PuuR [Vibrio parahaemolyticus
          AN-5034]
 gi|308110714|gb|EFO48254.1| HTH-type transcriptional regulator PuuR [Vibrio parahaemolyticus
          AQ4037]
 gi|308111572|gb|EFO49112.1| HTH-type transcriptional regulator PuuR [Vibrio parahaemolyticus
          K5030]
 gi|328468839|gb|EGF39799.1| DNA-binding transcriptional repressor PuuR [Vibrio
          parahaemolyticus 10329]
          Length = 185

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 1/75 (1%)

Query: 11 VDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D + +GK I   R   G+SQ +L E  GIT   +   E G      S LQ I  V    
Sbjct: 1  MDNHEIGKNIVQLRKKHGLSQRELAERAGITHSAISSIENGKVSPSVSSLQKIVNVFSLS 60

Query: 70 ISFFFDVSPTVCSDI 84
          +S FF    +   ++
Sbjct: 61 LSEFFIFEQSSNDEV 75


>gi|330862695|emb|CBX72841.1| hypothetical protein YEW_CE09110 [Yersinia enterocolitica W22703]
          Length = 178

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 31/73 (42%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I  G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++  L      
Sbjct: 31  IQFGERVKELRIATGMSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLANALNVEPWQ 90

Query: 73  FFDVSPTVCSDIS 85
           FF    +  +D  
Sbjct: 91  FFVSDSSEDNDTE 103


>gi|281427992|ref|YP_003354946.1| hypothetical protein LLKF_p0031 [Lactococcus lactis subsp. lactis
          KF147]
 gi|281376619|gb|ADA66104.1| hypothetical protein LLKF_p0031 [Lactococcus lactis subsp. lactis
          KF147]
          Length = 201

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 1/68 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+   R   G +QE L E   IT + +Q+ E G + V    L  IS  L  P+S  F+  
Sbjct: 5  RVAELRKKRGWTQEVLAEKANITVRTIQRIENGTD-VSLDTLASISNALLVPVSELFERI 63

Query: 78 PTVCSDIS 85
               ++ 
Sbjct: 64 DEEAKEVE 71


>gi|257870572|ref|ZP_05650225.1| predicted protein [Enterococcus gallinarum EG2]
 gi|257804736|gb|EEV33558.1| predicted protein [Enterococcus gallinarum EG2]
          Length = 275

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G+RI  +R  L M+Q  L + L +++Q +  +E+G       +L  ++ +L+  I 
Sbjct: 7  RQIGQRIASKRRELNMTQSNLADQLLVSYQAISNWERGNTLPDIEKLPQLATILQLSID 65


>gi|213031120|emb|CAR31457.1| hypothetical protein [Streptococcus pneumoniae]
          Length = 227

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 29/56 (51%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +++ +R   G+SQ +L   LGI+      +E G  +   + L  +SE+L   + +F
Sbjct: 6  KLKRKRESQGLSQSQLASSLGISRASYFNWESGKTKPNQNNLSKLSEILNVDLRYF 61


>gi|195978131|ref|YP_002123375.1| Phage transcriptional repressor [Streptococcus equi subsp.
           zooepidemicus MGCS10565]
 gi|195974836|gb|ACG62362.1| Phage transcriptional repressor [Streptococcus equi subsp.
           zooepidemicus MGCS10565]
          Length = 232

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 38/86 (44%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G +++  R+   +SQE+LG+ LG+    +  +EK  NR      + +  + + P  +F+ 
Sbjct: 6   GIQLKTARLSRHISQEQLGQLLGVNKMTISNWEKEKNRPNQKHFEELVSIFQLPAEYFYQ 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL 101
            +  +         N    IS  + L
Sbjct: 66  ENRLLLPYSQLSAFNKEKVISYSESL 91


>gi|85058755|ref|YP_454457.1| hypothetical protein SG0777 [Sodalis glossinidius str.
          'morsitans']
 gi|84779275|dbj|BAE74052.1| conserved hypothetical protein [Sodalis glossinidius str.
          'morsitans']
          Length = 108

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 42/80 (52%), Gaps = 5/80 (6%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHI 62
           P+ +D+   +R++  R   G+SQ++LG   G    +   ++ +YEKGV+       QH+
Sbjct: 4  RPSYLDVF-CRRLKQARQAKGLSQKQLGIAAGIDEFVASTRINRYEKGVHEANIQIAQHL 62

Query: 63 SEVLESPISFFFDVSPTVCS 82
          + VLE P+++ +     +  
Sbjct: 63 ATVLEVPLAYLYTEDDELAE 82


>gi|301053367|ref|YP_003791578.1| MerR family transcriptional regulator [Bacillus anthracis CI]
 gi|300375536|gb|ADK04440.1| transcriptional regulator, MerR family [Bacillus cereus biovar
          anthracis str. CI]
          Length = 181

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|268591081|ref|ZP_06125302.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291313888|gb|EFE54341.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 52

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/48 (35%), Positives = 30/48 (62%)

Query: 26 LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++ E+LG  +G++ QQ+ +YE GVN +    L  +SE+ + PI  F
Sbjct: 1  MKLTAEELGRYIGVSQQQISRYESGVNHINIDFLSQLSELFKVPIQVF 48


>gi|261208879|ref|ZP_05923316.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289566920|ref|ZP_06447326.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|294616443|ref|ZP_06696230.1| transcriptional regulator, xre family [Enterococcus faecium
          E1636]
 gi|260077381|gb|EEW65101.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289161287|gb|EFD09181.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|291590694|gb|EFF22416.1| transcriptional regulator, xre family [Enterococcus faecium
          E1636]
          Length = 221

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNCNLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|228475590|ref|ZP_04060308.1| putative bacteriophage CI repressor protein [Staphylococcus
          hominis SK119]
 gi|228270372|gb|EEK11807.1| putative bacteriophage CI repressor protein [Staphylococcus
          hominis SK119]
          Length = 137

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G +I+  R    MSQEKL E LG++   +  +E+ ++      +  I+++    ++
Sbjct: 5  IGHQIQKLRKSENMSQEKLAEKLGVSRHSISNWEREISNPDLKTILEITKLFNVSLN 61


>gi|227552248|ref|ZP_03982297.1| transcriptional regulator [Enterococcus faecium TX1330]
 gi|257895169|ref|ZP_05674822.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          Com12]
 gi|293377799|ref|ZP_06623987.1| DNA-binding protein [Enterococcus faecium PC4.1]
 gi|227178619|gb|EEI59591.1| transcriptional regulator [Enterococcus faecium TX1330]
 gi|257831734|gb|EEV58155.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          Com12]
 gi|292643580|gb|EFF61702.1| DNA-binding protein [Enterococcus faecium PC4.1]
          Length = 222

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNCNLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|42780924|ref|NP_978171.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|206974833|ref|ZP_03235748.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|217959313|ref|YP_002337861.1| DNA-binding protein [Bacillus cereus AH187]
 gi|222095451|ref|YP_002529511.1| DNA-binding protein [Bacillus cereus Q1]
 gi|229090798|ref|ZP_04222029.1| Transcriptional regulator, MerR [Bacillus cereus Rock3-42]
 gi|229138526|ref|ZP_04267113.1| Transcriptional regulator, MerR [Bacillus cereus BDRD-ST26]
 gi|42736845|gb|AAS40779.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|206746852|gb|EDZ58244.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|217066610|gb|ACJ80860.1| DNA-binding protein [Bacillus cereus AH187]
 gi|221239509|gb|ACM12219.1| DNA-binding protein [Bacillus cereus Q1]
 gi|228644934|gb|EEL01179.1| Transcriptional regulator, MerR [Bacillus cereus BDRD-ST26]
 gi|228692549|gb|EEL46277.1| Transcriptional regulator, MerR [Bacillus cereus Rock3-42]
 gi|324325844|gb|ADY21104.1| DNA-binding protein [Bacillus thuringiensis serovar finitimus
          YBT-020]
          Length = 181

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|255655594|ref|ZP_05401003.1| putative transcriptional regulator [Clostridium difficile
          QCD-23m63]
 gi|296878842|ref|ZP_06902842.1| probable transcriptional regulator [Clostridium difficile NAP07]
 gi|296430114|gb|EFH15961.1| probable transcriptional regulator [Clostridium difficile NAP07]
          Length = 403

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I +GK I+  R    ++QE+L + +G++   V K+E G +      L  +++     I 
Sbjct: 3  IKIGKIIQALRKERNLTQEQLAKFIGVSTPAVSKWESGNSYPDIELLPLLADFFNVSID 61


>gi|322378098|ref|ZP_08052584.1| putative transcriptional regulator PlcR [Streptococcus sp. M334]
 gi|321280935|gb|EFX57949.1| putative transcriptional regulator PlcR [Streptococcus sp. M334]
          Length = 290

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 27/95 (28%), Positives = 45/95 (47%), Gaps = 9/95 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++ +R  LG SQ++L E  GI  Q Q+ + E+G    GA  L  +SE +   + +FF  
Sbjct: 8   RLKNKRKELGWSQKELAE--GICQQTQISRMEQGKYMPGADLLYKLSEKMGLNMDYFF-- 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                 +IS E   +  F    + L  N+ +  + 
Sbjct: 64  ----SGEISKEFLGLSAFKRLSETLLENQDYASLK 94


>gi|293553401|ref|ZP_06674032.1| transcriptional regulator, xre family [Enterococcus faecium
          E1039]
 gi|291602414|gb|EFF32635.1| transcriptional regulator, xre family [Enterococcus faecium
          E1039]
          Length = 221

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNCNLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P + S   S E  + D
Sbjct: 61 -----PPIESATESIEPTLPD 76


>gi|170754718|ref|YP_001779994.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
 gi|169119930|gb|ACA43766.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
          Length = 181

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 38/84 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + ++IR  R    ++ + L E  G++   + + E   + +  + L+ I++ L  PI++FF
Sbjct: 5  IAEKIRNLRKEKNLTLKDLSEKTGLSISFLSQVENNSSSLAITSLKKIADALNVPITYFF 64

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
                   +  +E  V +   + 
Sbjct: 65 KSPELHKFLVKKQEREVFELEGSS 88


>gi|21244014|ref|NP_643596.1| hypothetical protein XAC3288 [Xanthomonas axonopodis pv. citri str.
           306]
 gi|21109631|gb|AAM38132.1| conserved hypothetical protein [Xanthomonas axonopodis pv. citri
           str. 306]
          Length = 112

 Score = 61.0 bits (147), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 23/98 (23%), Positives = 48/98 (48%), Gaps = 13/98 (13%)

Query: 16  GKRIRLRRMILGMSQEKLGECLG----IT-FQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           G R+R  RM +G +Q +L E +G    ++   +V +YE G +    +  + +++ L+ P+
Sbjct: 12  GTRLRNARMAMGWTQAELAERIGMVDSVSGATRVSRYETGQHDPDPATAEALAKALDLPV 71

Query: 71  SFFFDVSPTVCSDISSEENNVMDFIST---PDGLQLNR 105
           ++F        SD+ +E   V+  +      + L L +
Sbjct: 72  AYF-----HATSDLLAEVILVVSQLPAAKQREALNLVK 104


>gi|319646361|ref|ZP_08000591.1| YqaE protein [Bacillus sp. BT1B_CT2]
 gi|317392111|gb|EFV72908.1| YqaE protein [Bacillus sp. BT1B_CT2]
          Length = 120

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 23/92 (25%), Positives = 38/92 (41%), Gaps = 6/92 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRI   R   G+SQ +L + LG +  ++  YE+G        L  I++  E    +  
Sbjct: 2   LGKRIAALRKEKGLSQYELADRLGFSRGKLANYEQGTREPDYETLIKIADFFEVSTDYLL 61

Query: 75  DVSPTVCSDISSEE------NNVMDFISTPDG 100
                   D   E+      N+   F++  DG
Sbjct: 62  RGVDPKVQDKIFEDEAKRILNDPKTFLAARDG 93


>gi|257090579|ref|ZP_05584940.1| conserved hypothetical protein [Enterococcus faecalis CH188]
 gi|294619908|ref|ZP_06699284.1| transcriptional regulator, xre family [Enterococcus faecium
          E1679]
 gi|312905109|ref|ZP_07764230.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|256999391|gb|EEU85911.1| conserved hypothetical protein [Enterococcus faecalis CH188]
 gi|291593845|gb|EFF25343.1| transcriptional regulator, xre family [Enterococcus faecium
          E1679]
 gi|310631499|gb|EFQ14782.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|315163419|gb|EFU07436.1| helix-turn-helix protein [Enterococcus faecalis TX0645]
 gi|315579063|gb|EFU91254.1| helix-turn-helix protein [Enterococcus faecalis TX0630]
          Length = 111

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 30/57 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          IR +R  LG +Q++L E +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 10 IREKRKALGWTQKELAEKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66


>gi|169832243|ref|YP_001718225.1| helix-turn-helix domain-containing protein [Candidatus
          Desulforudis audaxviator MP104C]
 gi|169639087|gb|ACA60593.1| helix-turn-helix domain protein [Candidatus Desulforudis
          audaxviator MP104C]
          Length = 95

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 32/72 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+R  R   G +Q +L   L ++   + +YEKG+       L+ ++ VLE+ + +     
Sbjct: 5  RLRKAREARGWTQSQLAAKLNVSDATISRYEKGLRYPDIETLKRLALVLETSVDYLVGEK 64

Query: 78 PTVCSDISSEEN 89
          P    +    E 
Sbjct: 65 PDDPDEKLPPEA 76


>gi|167751085|ref|ZP_02423212.1| hypothetical protein EUBSIR_02070 [Eubacterium siraeum DSM 15702]
 gi|167656003|gb|EDS00133.1| hypothetical protein EUBSIR_02070 [Eubacterium siraeum DSM 15702]
          Length = 384

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 23/72 (31%), Positives = 35/72 (48%), Gaps = 1/72 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPISFFF 74
          GKR++  R + GMS  +L E L +  Q V  YE G  +     ++Q +S++L  PI FF 
Sbjct: 9  GKRLKTARTLKGMSISELAEALDLQRQTVSMYESGKISNPDFPKVQRMSQLLNFPIDFFL 68

Query: 75 DVSPTVCSDISS 86
               +     S
Sbjct: 69 GSDTELVKAAPS 80


>gi|218902948|ref|YP_002450782.1| DNA-binding protein [Bacillus cereus AH820]
 gi|228926864|ref|ZP_04089931.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|229121381|ref|ZP_04250611.1| Transcriptional regulator, MerR [Bacillus cereus 95/8201]
 gi|218538383|gb|ACK90781.1| DNA-binding protein [Bacillus cereus AH820]
 gi|228662070|gb|EEL17680.1| Transcriptional regulator, MerR [Bacillus cereus 95/8201]
 gi|228832805|gb|EEM78375.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
          Length = 181

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|300718505|ref|YP_003743308.1| XRE family transcriptional regulator [Erwinia billingiae Eb661]
 gi|299064341|emb|CAX61461.1| XRE family transcriptional regulator [Erwinia billingiae Eb661]
          Length = 95

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 35/69 (50%), Gaps = 4/69 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+  G SQ+ LG   G    +   ++ +YEKG++      +Q ++E LE P+++
Sbjct: 13 KRLKQARLAKGFSQKSLGIAAGIDEFVASTRINRYEKGIHEADLDTVQRLAEALEVPVAY 72

Query: 73 FFDVSPTVC 81
           F       
Sbjct: 73 LFAEDDEFA 81


>gi|168178698|ref|ZP_02613362.1| transcriptional regulator [Clostridium botulinum NCTC 2916]
 gi|182671003|gb|EDT82977.1| transcriptional regulator [Clostridium botulinum NCTC 2916]
          Length = 170

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 30/69 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++++  R    +S   L E  GI    + K E G  ++    LQ I++ ++ PI  
Sbjct: 1  MEISEKLKDLRTFKNLSTYDLAEKTGIPQSTISKLENGNRKIDTDILQKIADAMDVPIDI 60

Query: 73 FFDVSPTVC 81
          FF       
Sbjct: 61 FFQKQSPSE 69


>gi|327184359|gb|AEA32806.1| hypothetical protein LAB52_09520 [Lactobacillus amylovorus GRL
          1118]
          Length = 94

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++I   R     SQE+L E L ++ Q V K+E G ++    ++  +S + +    + 
Sbjct: 5  QKITQLRNDNNWSQEELAEKLNVSRQSVSKWESGQSKPDLDKIVVLSNIFDVSTDYL 61


>gi|314939175|ref|ZP_07846431.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|314941485|ref|ZP_07848373.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|314950591|ref|ZP_07853672.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|314992445|ref|ZP_07857868.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|314996689|ref|ZP_07861713.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313589173|gb|EFR68018.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313593020|gb|EFR71865.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|313597216|gb|EFR76061.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|313599702|gb|EFR78545.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|313641522|gb|EFS06102.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
          Length = 221

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNCKLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|299768500|ref|YP_003730526.1| hypothetical protein AOLE_01250 [Acinetobacter sp. DR1]
 gi|298698588|gb|ADI89153.1| hypothetical protein AOLE_01250 [Acinetobacter sp. DR1]
          Length = 183

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +VG  IR  R    +SQ+ L +  G++ + +   E G   +  ++L  I+ VL   
Sbjct: 10 HVGTNIRSLRDERDLSQQDLADQAGVSRRTIAALETGQVNISLAKLDAIAAVLGVD 65


>gi|296101665|ref|YP_003611811.1| putative phage represso [Enterobacter cloacae subsp. cloacae ATCC
           13047]
 gi|295056124|gb|ADF60862.1| putative phage represso [Enterobacter cloacae subsp. cloacae ATCC
           13047]
          Length = 256

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 36/83 (43%), Gaps = 1/83 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R + G++Q+ LG+ +G++   +QK E G      ++L  ++  L+    +    
Sbjct: 29  ERLKEARTLRGLTQKALGDLVGVSQAAIQKIETGKAN-QTTKLVELANALKVKPEWLSSG 87

Query: 77  SPTVCSDISSEENNVMDFISTPD 99
              +      E     D   T +
Sbjct: 88  EGAMLLTGQDEAIPPSDQWGTVE 110


>gi|293571244|ref|ZP_06682278.1| transcriptional regulator, xre family [Enterococcus faecium E980]
 gi|291608651|gb|EFF37939.1| transcriptional regulator, xre family [Enterococcus faecium E980]
          Length = 221

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNCKLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|257883805|ref|ZP_05663458.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,501]
 gi|257819643|gb|EEV46791.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,501]
          Length = 221

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNCKLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|226313439|ref|YP_002773333.1| DNA-binding protein [Brevibacillus brevis NBRC 100599]
 gi|226096387|dbj|BAH44829.1| putative DNA-binding protein [Brevibacillus brevis NBRC 100599]
          Length = 185

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 34/62 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR+ R   G + E +    G++   + + E+G+++     L  I++ LESPI  FF
Sbjct: 8  IGHKIRMIRKERGFTLEIMAGKTGLSKGLLSQVERGISQPSLDSLWKITKALESPIIHFF 67

Query: 75 DV 76
          + 
Sbjct: 68 ED 69


>gi|219668902|ref|YP_002459337.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|219539162|gb|ACL20901.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 322

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 34/81 (41%), Gaps = 1/81 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I   R   G SQE+L E + ++ Q + K+E        +R+  ++ +      +
Sbjct: 1  MILAEKILSLRKSNGWSQEELAEKMNVSRQSISKWESAAAIPDINRILELARLFGVTTDY 60

Query: 73 FF-DVSPTVCSDISSEENNVM 92
             D   T     + E  N +
Sbjct: 61 LLKDDFETAVYSGADETENYI 81


>gi|254462881|ref|ZP_05076297.1| DNA-binding protein [Rhodobacterales bacterium HTCC2083]
 gi|206679470|gb|EDZ43957.1| DNA-binding protein [Rhodobacteraceae bacterium HTCC2083]
          Length = 219

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 18/95 (18%), Positives = 41/95 (43%), Gaps = 9/95 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R    ++  +L    G++   + K E G      S LQ ++  L  P+
Sbjct: 30  LEVAIGREVRSFRKQKEITVAELASMTGLSIGMLSKIENGNTSPSLSTLQTLANALSVPL 89

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           + FF       + + ++           +G++L R
Sbjct: 90  TSFFRRFEEQRTAVHTKAG---------EGVELER 115


>gi|37519836|ref|NP_923213.1| transcriptional regulator [Gloeobacter violaceus PCC 7421]
 gi|35210827|dbj|BAC88208.1| gll0267 [Gloeobacter violaceus PCC 7421]
          Length = 366

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 50/114 (43%), Gaps = 12/114 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +G+RI+L R   G S   L + +G  ++ Q + KYE+G    G+  L  +S  LE  + +
Sbjct: 2   LGERIKLARRKAGYSLRNLADRMGGRVSAQAIGKYERGEMVPGSDNLIALSRALEVSVPY 61

Query: 73  FFDVSPTVCSDIS-SEENNVMDFISTP---DGLQLNRYFIQIDDVKVRQKIIEL 122
             D      + +    +  +          + L+    ++QI+      +I+EL
Sbjct: 62  LLDSQGIELTGVDFRAQAGITGAERARVQTEVLEWVERYLQIE------RILEL 109


>gi|23100309|ref|NP_693776.1| hypothetical protein OB2854 [Oceanobacillus iheyensis HTE831]
 gi|22778541|dbj|BAC14810.1| hypothetical conserved protein [Oceanobacillus iheyensis HTE831]
          Length = 179

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 32/60 (53%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++  G++++  R   G SQ+ L E + ++ Q V K+E G N      + ++S++ +  I 
Sbjct: 27 NMFFGEKLKKEREKRGWSQDYLAEKVYVSRQSVSKWETGKNYPSIEVIINLSDLFDITID 86


>gi|332652748|ref|ZP_08418493.1| DNA-binding protein [Ruminococcaceae bacterium D16]
 gi|332517894|gb|EGJ47497.1| DNA-binding protein [Ruminococcaceae bacterium D16]
          Length = 413

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G RI   R   G+SQE LGE +G++ Q V K+E        +    +S      ++
Sbjct: 1  MTLGTRIAALRRERGLSQEALGELVGVSRQAVSKWESDSALPDVNNCVALSRAFGITLA 59


>gi|304439266|ref|ZP_07399183.1| conserved hypothetical protein [Peptoniphilus duerdenii ATCC
           BAA-1640]
 gi|304372234|gb|EFM25823.1| conserved hypothetical protein [Peptoniphilus duerdenii ATCC
           BAA-1640]
          Length = 185

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 22/95 (23%), Positives = 41/95 (43%), Gaps = 9/95 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI+  R   G+SQE+L   +G++ Q V K+E G +     ++  +S+       +     
Sbjct: 6   RIQYLRKTNGISQEELAVKVGVSRQAVSKWESGQSLPDLEKIITMSDYFGVTTDYILKGI 65

Query: 78  PTVC--SDISSEENNVMDFISTPDGLQLNRYFIQI 110
             V      SSE  + + +I++         F+ I
Sbjct: 66  EPVADKEQKSSELKSKILYIAST-------AFVWI 93


>gi|298375353|ref|ZP_06985310.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides sp. 3_1_19]
 gi|298267853|gb|EFI09509.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides sp. 3_1_19]
          Length = 138

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 29/129 (22%), Positives = 60/129 (46%), Gaps = 10/129 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  ++  R   G+ QE L + +G++   +  YEK  + +    L+ I++ L+ PI    +
Sbjct: 20  GANLKRWREWRGIKQEVLADKIGVSQATLSGYEK-KDELEPEVLEKITKALDIPIEAITE 78

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
           ++     +I S      D  +    +Q N+ F  ID      KI+EL   ++ +E++   
Sbjct: 79  LNEGALINIYS--GTWQDNATAAGSIQ-NQTFNPID------KIVELYERLLKAEQEKVA 129

Query: 136 IEEECMVEQ 144
           +  E + ++
Sbjct: 130 MLHEIIKDK 138


>gi|170781903|ref|YP_001710235.1| putative DNA-binding protein [Clavibacter michiganensis subsp.
           sepedonicus]
 gi|169156471|emb|CAQ01619.1| putative DNA-binding protein [Clavibacter michiganensis subsp.
           sepedonicus]
          Length = 487

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 26/129 (20%), Positives = 45/129 (34%), Gaps = 3/129 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R   G++ + LGE  GI   Q+   E G      S L  I+  L+  ++   
Sbjct: 18  IGRRIRHARKGAGLTLQALGERAGILPSQLSMIENGRRETRLSTLGRIAGALDVDVTHLL 77

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL--NRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
                        E +     S    L L        +    + + ++ L R +    ++
Sbjct: 78  AADAPDARSALEIELDRAQRSSLYGSLGLPAVPASRALPQETL-EALVGLHRELARRARE 136

Query: 133 YRTIEEECM 141
                EE  
Sbjct: 137 SIATPEEAR 145


>gi|89894475|ref|YP_517962.1| hypothetical protein DSY1729 [Desulfitobacterium hafniense Y51]
 gi|89333923|dbj|BAE83518.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 322

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 15/92 (16%), Positives = 36/92 (39%), Gaps = 9/92 (9%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I   R   G SQE+L E + ++ Q + K+E        +R+  ++ +      +
Sbjct: 1  MILAEKILSLRKSNGWSQEELAEKMNVSRQSISKWESAAAIPDINRILELARLFGVTTDY 60

Query: 73 F---------FDVSPTVCSDISSEENNVMDFI 95
                    +  +    + I      + DF+
Sbjct: 61 LLKDDFETAVYSGADETENYIRVSLQEMNDFL 92


>gi|319936497|ref|ZP_08010913.1| transcriptional regulator [Coprobacillus sp. 29_1]
 gi|319808612|gb|EFW05164.1| transcriptional regulator [Coprobacillus sp. 29_1]
          Length = 241

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 30/82 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + +   R   G SQE+    LG++ Q V K+E G +     RL  I+ + E  +      
Sbjct: 5  ENLSSLRKQKGYSQEEFAYLLGVSRQSVSKWESGASIPELERLVEIANIFEVSLDELVKG 64

Query: 77 SPTVCSDISSEENNVMDFISTP 98
             V       +  +   +   
Sbjct: 65 EKAVIQGAVISDEQLHRVLRKS 86


>gi|317488862|ref|ZP_07947392.1| hypothetical protein HMPREF1023_01091 [Eggerthella sp. 1_3_56FAA]
 gi|316911936|gb|EFV33515.1| hypothetical protein HMPREF1023_01091 [Eggerthella sp. 1_3_56FAA]
          Length = 176

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG+++   R   GMSQ+++   LG+T Q V  +E         +   ++ +    +   
Sbjct: 2  VGEKLMKLRKKRGMSQQEVASALGVTRQTVSNWECDQGAPSLDKAADLARLCGVSLDDL 60


>gi|289434068|ref|YP_003463940.1| transcriptional regulator, Cro/CI family [Listeria seeligeri
          serovar 1/2b str. SLCC3954]
 gi|289170312|emb|CBH26852.1| transcriptional regulator, Cro/CI family [Listeria seeligeri
          serovar 1/2b str. SLCC3954]
 gi|313638856|gb|EFS03917.1| DNA-binding protein [Listeria seeligeri FSL S4-171]
          Length = 180

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 36/75 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|227485416|ref|ZP_03915732.1| transcriptional regulator [Anaerococcus lactolyticus ATCC 51172]
 gi|227236546|gb|EEI86561.1| transcriptional regulator [Anaerococcus lactolyticus ATCC 51172]
          Length = 143

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 36/71 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++++  R++  ++Q++L    G+T   ++ YE G       +LQ ISE L+  IS   +
Sbjct: 4  GEKLKKLRLMRNLTQKELAIKSGLTDAAIRNYELGNRSPSKEQLQKISEALDCDISALIN 63

Query: 76 VSPTVCSDISS 86
            P    +I  
Sbjct: 64 HEPNSIFEIMH 74


>gi|223983505|ref|ZP_03633690.1| hypothetical protein HOLDEFILI_00971 [Holdemania filiformis DSM
           12042]
 gi|223964500|gb|EEF68827.1| hypothetical protein HOLDEFILI_00971 [Holdemania filiformis DSM
           12042]
          Length = 270

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 23/93 (24%), Positives = 40/93 (43%), Gaps = 4/93 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N  ++++ RR  +G SQE+L   L ++ Q V K+E G       +L  +SE+L   +  
Sbjct: 1   MNFAQKLQKRRKEVGFSQEQLAFELNVSRQAVSKWESGQGYPEVEKLIQLSELLGISLDE 60

Query: 73  FF----DVSPTVCSDISSEENNVMDFISTPDGL 101
                 +        +  EE    D   +P  L
Sbjct: 61  LMKETREHPSAPIKPLDEEEQEWRDEPHSPITL 93


>gi|153000490|ref|YP_001366171.1| putative phage repressor [Shewanella baltica OS185]
 gi|151365108|gb|ABS08108.1| putative phage repressor [Shewanella baltica OS185]
          Length = 263

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 38/77 (49%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR RR  L ++Q+ + E + +T   + ++E G++      L ++S+ L     +  
Sbjct: 27  IGDRIRSRRKELKLTQKNVAETVKVTPSSITQWELGMSTPKGKNLINLSKALNCSPEWLL 86

Query: 75  DVSPTVCSDISSEENNV 91
                  + +S+ E+N 
Sbjct: 87  SGKEDNQARVSTVESNA 103


>gi|256849871|ref|ZP_05555302.1| predicted protein [Lactobacillus crispatus MV-1A-US]
 gi|256713360|gb|EEU28350.1| predicted protein [Lactobacillus crispatus MV-1A-US]
          Length = 71

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +GKR+   R    ++Q +L E +G +   + +YE G++     RL  I+  L   + +
Sbjct: 4  KLLGKRLMRARKNRQLTQVQLAERIGASTTTISRYENGLSFPSKRRLSEIAHFLGVKVDW 63

Query: 73 F 73
           
Sbjct: 64 L 64


>gi|227510766|ref|ZP_03940815.1| XRE family transcriptional regulator [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
 gi|227189768|gb|EEI69835.1| XRE family transcriptional regulator [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
          Length = 245

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 30/59 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +R RR  L ++Q++L + L +T Q + ++E  ++      L ++SE L  P+       
Sbjct: 7  LRKRRKELHLTQQQLADKLHVTRQTLSRWENNLSYPNLDTLVNLSEFLAVPLDILLKGD 65


>gi|224541132|ref|ZP_03681671.1| hypothetical protein CATMIT_00283 [Catenibacterium mitsuokai DSM
          15897]
 gi|224525941|gb|EEF95046.1| hypothetical protein CATMIT_00283 [Catenibacterium mitsuokai DSM
          15897]
          Length = 217

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 37/80 (46%), Gaps = 2/80 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R+   ++QE++ E LG++ Q +  +E   +      +  +SE  +  + +  
Sbjct: 5  IGSKIKAARIGKKLTQEQVAELLGVSRQTISNWENEKSYPDIISVIKMSECYDVSLDYLL 64

Query: 75 DVSPTVCS--DISSEENNVM 92
               + +  D   E  NV+
Sbjct: 65 KGEEKMKNYYDYLEESTNVV 84


>gi|189219415|ref|YP_001940056.1| Xre family transcriptional regulator fused to periplasmic
          substrate-binding domain [Methylacidiphilum infernorum
          V4]
 gi|189186273|gb|ACD83458.1| Xre family transcriptional regulator fused to periplasmic
          substrate-binding domain [Methylacidiphilum infernorum
          V4]
          Length = 386

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 1/72 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +RL R+  G+SQ++L   +G++ Q +   E G+     +    ++ VLE  + F F  SP
Sbjct: 15 LRLARIGKGLSQKELAAKIGVSRQTIHAMENGLYVPNTAVALRLARVLEKTVEFLFPYSP 74

Query: 79 T-VCSDISSEEN 89
            + +D+  +EN
Sbjct: 75 DFIEADVLVDEN 86


>gi|153931215|ref|YP_001382744.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|153935772|ref|YP_001386295.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|168177684|ref|ZP_02612348.1| DNA-binding protein [Clostridium botulinum NCTC 2916]
 gi|170758347|ref|YP_001785679.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
 gi|226947573|ref|YP_002802664.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
 gi|152927259|gb|ABS32759.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|152931686|gb|ABS37185.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|169405336|gb|ACA53747.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
 gi|182671289|gb|EDT83263.1| DNA-binding protein [Clostridium botulinum NCTC 2916]
 gi|226844325|gb|ACO86991.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
          Length = 181

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 38/84 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + ++IR  R    ++ + L E  G++   + + E   + +  + L+ I++ L  PI++FF
Sbjct: 5  IAEKIRNLRKEKNLTLKDLSEKTGLSISFLSQVENNSSSLAITSLKKIADALNVPITYFF 64

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
                   +  +E  V +   + 
Sbjct: 65 KSPELHKFLVKKQEREVFELEGSS 88


>gi|119491284|ref|ZP_01623338.1| Transcriptional Regulator of molybdate metabolism, XRE family
          protein [Lyngbya sp. PCC 8106]
 gi|119453448|gb|EAW34610.1| Transcriptional Regulator of molybdate metabolism, XRE family
          protein [Lyngbya sp. PCC 8106]
          Length = 377

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 33/80 (41%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +  R++  R  LG+SQ+ L + +G++ Q +   E G     A     +++ L   + 
Sbjct: 4  DNELQNRLKQIRTRLGLSQQDLAKVVGVSRQTISGVESGQYAPSARIALRLAKALGCQME 63

Query: 72 FFFDVSPTVCSDISSEENNV 91
            F +        ++    V
Sbjct: 64 DLFWLEEDCLRVEATPAQAV 83


>gi|93007412|ref|YP_579176.1| transcriptional regulator [Streptomyces phage mu1/6]
 gi|90568490|gb|ABD94169.1| transcriptional regulator [Streptomyces phage mu1/6]
          Length = 93

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 29/60 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG RIR  R+  G+SQ  L   +G+  + + + E GV+ +   +   I+  L  P    F
Sbjct: 31 VGARIRELRLAAGLSQVDLSHRIGVDHRTISRAENGVHAISIDQAYRIATALGQPSWRLF 90


>gi|268591080|ref|ZP_06125301.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291313887|gb|EFE54340.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 104

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 31/62 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  I   R   G+S  +L + L  + Q V + E+GV R+   +++ I+  L+  I+   
Sbjct: 11 VGGNIYKARRAKGLSGSELADLLLCSQQHVSRIERGVIRLHLEQIKQIANSLDIDINCLL 70

Query: 75 DV 76
          D 
Sbjct: 71 DG 72


>gi|229918124|ref|YP_002886770.1| XRE family transcriptional regulator [Exiguobacterium sp. AT1b]
 gi|229469553|gb|ACQ71325.1| transcriptional regulator, XRE family [Exiguobacterium sp. AT1b]
          Length = 179

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 32/65 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG+ I+  R+  G++QE+L E   ++   + + E+ ++      L  +  VL S    
Sbjct: 1  MEVGQNIKRLRIKKGLTQEELAERTDLSKGYISQIERDLSSPSLETLFDLLNVLGSSPKE 60

Query: 73 FFDVS 77
          FFD  
Sbjct: 61 FFDEE 65


>gi|266619362|ref|ZP_06112297.1| DNA-binding protein [Clostridium hathewayi DSM 13479]
 gi|288869117|gb|EFD01416.1| DNA-binding protein [Clostridium hathewayi DSM 13479]
          Length = 355

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 22/91 (24%), Positives = 45/91 (49%), Gaps = 4/91 (4%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF---- 74
           IR +R  LG++QEK+   LG++   V K+EKG+     S L  ++ +L++ ++       
Sbjct: 7   IREKRKELGLTQEKVAVYLGVSAPAVNKWEKGITCPDVSVLPALARLLKTDLNTLLCFKE 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           +++    +   +E    +       G++L R
Sbjct: 67  ELTEQEIAGFCTEVAEAVRADGMSAGIRLVR 97


>gi|291326325|ref|ZP_06124059.2| peptidase, S24 family [Providencia rettgeri DSM 1131]
 gi|291314825|gb|EFE55278.1| peptidase, S24 family [Providencia rettgeri DSM 1131]
          Length = 229

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RI+  R+   M+Q +L + LG+T Q VQ++E        +R+  I+E+L     + 
Sbjct: 6  ERIKQARLAKKMTQAELAQQLGVTPQSVQQWETST-EPRKNRVMKIAEILSVDAEWL 61


>gi|255306892|ref|ZP_05351063.1| putative phage repressor [Clostridium difficile ATCC 43255]
          Length = 169

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 35/57 (61%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + + I+  R   G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 2  LSENIKTIRKSKGLSQQELAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|254385485|ref|ZP_05000812.1| transcriptional regulator [Streptomyces sp. Mg1]
 gi|194344357|gb|EDX25323.1| transcriptional regulator [Streptomyces sp. Mg1]
          Length = 192

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 37/93 (39%), Gaps = 3/93 (3%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P P  + VG+ IR  R   G+S   L    G++   + + E+G+     S +  I+E L+
Sbjct: 7   PTPEAVEVGRVIRAWRKRRGISMASLAAGSGLSQPFLSQLERGLATPSLSSIYRIAEALD 66

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
                F    P     +S E +     I   + 
Sbjct: 67  VTPGTFLR-PPDRPGAVSHESDP--QVIRVSEA 96


>gi|9635515|ref|NP_059606.1| C2 [Enterobacteria phage P22]
 gi|62362268|ref|YP_224193.1| gp55 [Enterobacteria phage ES18]
 gi|168240083|ref|ZP_02665015.1| P22 repressor protein c2 [Salmonella enterica subsp. enterica
          serovar Heidelberg str. SL486]
 gi|194451869|ref|YP_002044323.1| P22 repressor protein c2 [Salmonella enterica subsp. enterica
          serovar Heidelberg str. SL476]
 gi|59800201|sp|P69202|RPC2_BPP22 RecName: Full=Repressor protein C2
 gi|15655|emb|CAA24470.1| unnamed protein product [Enterobacteria phage P22]
 gi|1143409|emb|CAA60873.1| c2 [Salmonella enterica subsp. enterica serovar Typhimurium]
 gi|8439602|gb|AAF75024.1| repressor protein [Enterobacteria phage P22]
 gi|28394307|tpg|DAA01021.1| TPA_inf: prophage repressor [Enterobacteria phage P22]
 gi|58339111|gb|AAW70526.1| gp55 [Enterobacteria phage ES18]
 gi|169658888|dbj|BAG12645.1| prophage repressor [Enterobacteria phage P22]
 gi|194410173|gb|ACF70392.1| P22 repressor protein c2 [Salmonella enterica subsp. enterica
          serovar Heidelberg str. SL476]
 gi|205340367|gb|EDZ27131.1| P22 repressor protein c2 [Salmonella enterica subsp. enterica
          serovar Heidelberg str. SL486]
          Length = 216

 Score = 60.6 bits (146), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 32/76 (42%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L + Q  LG+ +G++   + ++E+         L  +S+ L+    +   
Sbjct: 7  GERIRARRKKLKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALSKALQCSPDYLLK 66

Query: 76 VSPTVCSDISSEENNV 91
             +  +      +  
Sbjct: 67 GDLSQTNVAYHSRHEP 82


>gi|325840453|ref|ZP_08167052.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
 gi|325490320|gb|EGC92649.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
          Length = 120

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 22/115 (19%), Positives = 47/115 (40%), Gaps = 7/115 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +IR+ R   G +Q +L   + ++ Q +  +E G        L+ +S +    + +  
Sbjct: 4   IGSKIRVERNKHGWTQVELANKMNLSKQTINNWEHGRRIPDIQTLKELSNLFNVSLEYLV 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI-----DDVKVRQKIIELVR 124
             S     +  +   N ++ I    G      F  I     +D +  + ++ELV+
Sbjct: 64  GESSPAVPE--NHLVNTVNKIKDTFGDDAVVLFKDISDFDEEDFEKLKTLVELVK 116


>gi|325478374|gb|EGC81489.1| DNA-binding helix-turn-helix protein [Anaerococcus prevotii
          ACS-065-V-Col13]
          Length = 143

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 36/71 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++++  R++  ++Q++L    G+T   ++ YE G       +LQ IS+ L+  IS   +
Sbjct: 4  GEKLKKLRLMRNLTQKELAIKSGLTDAAIRNYELGNRSPSKEQLQKISKALDCDISALIN 63

Query: 76 VSPTVCSDISS 86
            P    +I  
Sbjct: 64 HEPNSIFEIMH 74


>gi|300214961|gb|ADJ79377.1| DNA-binding protein [Lactobacillus salivarius CECT 5713]
          Length = 203

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 48/114 (42%), Gaps = 15/114 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK I  RR  L  +Q  L + LGIT + V K+E G +   AS +  + ++LE  ++   
Sbjct: 6   IGKFIAKRRKDLHFTQANLAKKLGITDRAVSKWENGKSIPDASLMLDLCQLLEIKVNELL 65

Query: 75  DVSPTVCSDISS-EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                V  D     E N+++  +  +                 ++++  V+ + 
Sbjct: 66  TGEQIVMKDYKKIAEQNLIELRNQKEKAD--------------RRLLTTVKILA 105


>gi|257791197|ref|YP_003181803.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|317488068|ref|ZP_07946646.1| hypothetical protein HMPREF1023_00344 [Eggerthella sp. 1_3_56FAA]
 gi|325831244|ref|ZP_08164536.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|257475094|gb|ACV55414.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|316912819|gb|EFV34350.1| hypothetical protein HMPREF1023_00344 [Eggerthella sp. 1_3_56FAA]
 gi|325486845|gb|EGC89292.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 147

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 29/68 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  +   R    ++QE L   L +T Q V ++E G    G    + I+   + P++ 
Sbjct: 1  MAIGDVLVRIRKERNLTQEDLARKLYVTRQAVSRWENGETTPGIDMCKLIAATCDVPVAL 60

Query: 73 FFDVSPTV 80
            ++    
Sbjct: 61 LLEMPDGA 68


>gi|37528130|ref|NP_931475.1| hypothetical protein plu4299 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36787567|emb|CAE16671.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 78

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 33/77 (42%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN +    G+R+R  RM  GMSQE   +  G+    +   E+GV       +  I+  
Sbjct: 2  KKPNTIKSIFGQRVRYIRMASGMSQEAFADKCGLDRTYISGIERGVRNPTLEVINVIASG 61

Query: 66 LESPISFFFDVSPTVCS 82
          L+  +   FD      S
Sbjct: 62 LQIELKDLFDFDAEKKS 78


>gi|325959832|ref|YP_004291298.1| helix-turn-helix domain-containing protein [Methanobacterium sp.
           AL-21]
 gi|325331264|gb|ADZ10326.1| helix-turn-helix domain protein [Methanobacterium sp. AL-21]
          Length = 190

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 27/103 (26%), Positives = 44/103 (42%), Gaps = 3/103 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++IR  R    +S E+L E   ++ + V+K E        S L  I++ L+  +  F 
Sbjct: 6   VGEKIRQLRESKNISIEELAENSDLSVEMVEKLESNTVMPSLSPLLKIAKALDVRLGTFL 65

Query: 75  DVSPTVCSDI--SSEENNVMDFISTPDGL-QLNRYFIQIDDVK 114
           D +P     +  S +  NVM F      L +    F  +   K
Sbjct: 66  DDAPQSGPVVVKSGKSENVMRFSGKNTDLKESTLEFYSLASGK 108


>gi|309777338|ref|ZP_07672299.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 3_1_53]
 gi|308914879|gb|EFP60658.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 3_1_53]
          Length = 190

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 32/60 (53%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I++ R    +SQE L   L ++ Q V K+EKG+++  +  L  ++E+    I    + S
Sbjct: 3  KIKMLRTEHQLSQESLAALLDVSRQSVSKWEKGLSKPSSENLARLAEIFSVHIQDLMNDS 62


>gi|300173352|ref|YP_003772518.1| helix-turn-helix domain-containing protein [Leuconostoc
          gasicomitatum LMG 18811]
 gi|299887731|emb|CBL91699.1| helix-turn-helix domain protein [Leuconostoc gasicomitatum LMG
          18811]
          Length = 184

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 28/64 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   VG+ ++  R+   M+ + + E   ++   +   E G        L  IS  L  PI
Sbjct: 2  IGKRVGENLKKVRIEKNMTLDNVAEMTDVSKPTLHNIETGKTSPSIDNLWKISSGLGIPI 61

Query: 71 SFFF 74
          ++FF
Sbjct: 62 NYFF 65


>gi|260662801|ref|ZP_05863695.1| transcriptional regulator [Lactobacillus fermentum 28-3-CHN]
 gi|260552882|gb|EEX25881.1| transcriptional regulator [Lactobacillus fermentum 28-3-CHN]
          Length = 322

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 43/94 (45%), Gaps = 3/94 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+  E +G++ Q + K+E G +    +++  +SE+            
Sbjct: 6   KITNLRKKEGWSQEEFAERMGVSRQSISKWEGGRSTPDMNKILQMSELFGVSTDVLLKDD 65

Query: 78  PTVCSDISSEENNVMDFIST---PDGLQLNRYFI 108
            T+  ++++  ++V +       P  L+L   ++
Sbjct: 66  LTLEDEVTTAASSVQNDNGEAIYPVSLELANEYM 99


>gi|229160095|ref|ZP_04288097.1| hypothetical protein bcere0009_8930 [Bacillus cereus R309803]
 gi|228623406|gb|EEK80230.1| hypothetical protein bcere0009_8930 [Bacillus cereus R309803]
          Length = 149

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKQEREKRNWSQSDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRG 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKKLA 80


>gi|229187999|ref|ZP_04315094.1| Transcriptional regulator, Cro/CI [Bacillus cereus BGSC 6E1]
 gi|228595479|gb|EEK53204.1| Transcriptional regulator, Cro/CI [Bacillus cereus BGSC 6E1]
          Length = 116

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 53/120 (44%), Gaps = 22/120 (18%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I+  R    ++QE+LG  +G++   +  +EKG    G   L+ I++       +  
Sbjct: 2   IGEKIKELRKNSKITQEQLGNAIGVSKMAISYFEKGKKSPGRESLEKIADYFGVTTDYL- 60

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            +  +   +++ EEN V+    + +G                + I+ L+ S+   E+K  
Sbjct: 61  -LGRSEDPELNEEENKVV----SEEG----------------KNIMSLIESLSEDERKKA 99


>gi|268592289|ref|ZP_06126510.1| MrfJ protein [Providencia rettgeri DSM 1131]
 gi|291312068|gb|EFE52521.1| MrfJ protein [Providencia rettgeri DSM 1131]
          Length = 106

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 22/56 (39%), Positives = 30/56 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG RIR  R    MS ++L   LGI+ Q   ++E G  R+    L  ISE+L+  I
Sbjct: 9  VGARIRTLRKDQNMSIQQLSTLLGISQQHQSRHELGEIRIHVDTLYSISEILDLDI 64


>gi|261346291|ref|ZP_05973935.1| transcriptional regulator, Cro/CI family [Providencia rustigianii
          DSM 4541]
 gi|282565603|gb|EFB71138.1| transcriptional regulator, Cro/CI family [Providencia rustigianii
          DSM 4541]
          Length = 99

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 32/59 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G  IR  R+  G+S+++L   + ++ QQ+ +YE+G++ +    +  +   L  P   F
Sbjct: 7  IGNFIRNARVSKGLSEKELASLISVSQQQISRYERGISTLSIENILILLNALNIPFDEF 65


>gi|209551825|ref|YP_002283742.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209537581|gb|ACI57516.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
          Length = 189

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 36/92 (39%), Gaps = 2/92 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R+  G++ + L    G++   + + E+      AS L  I   L   +S FF
Sbjct: 9   IGIRIRKLRLDKGLTLDDLATASGVSRAMISRIERAEASPTASLLARICAALGLSLSAFF 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                  + ++  +         P+   L R 
Sbjct: 69  AEEGEQAAPLARRQE--QQVWRDPETGYLRRS 98


>gi|160913567|ref|ZP_02076257.1| hypothetical protein EUBDOL_00043 [Eubacterium dolichum DSM 3991]
 gi|158434028|gb|EDP12317.1| hypothetical protein EUBDOL_00043 [Eubacterium dolichum DSM 3991]
          Length = 227

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 39/80 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G  I   R   G++QE+LGE LG+T + + K+E G +    S  + + ++LE  +  
Sbjct: 5  RKIGIFIATCRKEKGLTQEQLGELLGVTNKSISKWENGKSLPDPSLYKPLCDILEINLIE 64

Query: 73 FFDVSPTVCSDISSEENNVM 92
           FD        +  + + V+
Sbjct: 65 LFDGERIAEDKVVEKADQVI 84


>gi|15671989|ref|NP_266163.1| transcription regulator [Lactococcus lactis subsp. lactis Il1403]
 gi|281490506|ref|YP_003352486.1| Cro/CI family transcriptional regulator [Lactococcus lactis
          subsp. lactis KF147]
 gi|12722843|gb|AAK04105.1|AE006240_3 transcriptional regulator [Lactococcus lactis subsp. lactis
          Il1403]
 gi|281374324|gb|ADA63857.1| Transcriptional regulator, Cro/CI family [Lactococcus lactis
          subsp. lactis KF147]
          Length = 107

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 14/78 (17%), Positives = 36/78 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + + I+  R +  +SQE+L + + I+ Q + K+E G +     ++  +SE+ +  +  
Sbjct: 1  MEISQIIKENRKMKNLSQEELAKKMHISRQSISKWETGKSLPTTDQIILLSEIFDCSLDT 60

Query: 73 FFDVSPTVCSDISSEENN 90
                 +      E ++
Sbjct: 61 LLKGDKKMEEKAKHEIDD 78


>gi|239624525|ref|ZP_04667556.1| transcriptional regulator [Clostridiales bacterium 1_7_47_FAA]
 gi|239520911|gb|EEQ60777.1| transcriptional regulator [Clostridiales bacterium 1_7_47FAA]
          Length = 177

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 36/68 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +++  R++ G++QE+L +   ++   + + E+ +     + L  I + L + I  
Sbjct: 1  MDIGNKLKELRVLKGLTQEELADRAELSKGFISQLERDLTSPSIATLMDILQCLGTTIGD 60

Query: 73 FFDVSPTV 80
          FF  +P  
Sbjct: 61 FFTETPDE 68


>gi|91223886|ref|ZP_01259150.1| putative transcriptional regulator [Vibrio alginolyticus 12G01]
 gi|269966489|ref|ZP_06180573.1| putative transcriptional regulator [Vibrio alginolyticus 40B]
 gi|91191378|gb|EAS77643.1| putative transcriptional regulator [Vibrio alginolyticus 12G01]
 gi|269828946|gb|EEZ83196.1| putative transcriptional regulator [Vibrio alginolyticus 40B]
          Length = 185

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 22/73 (30%), Positives = 30/73 (41%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  +GK I   R   G+SQ +L E  GIT   +   E G      S LQ I  V    +S
Sbjct: 3  NQEIGKNIVQLRKKHGLSQRELAERAGITHSAISSIENGKVSPSVSSLQKIVNVFSLSLS 62

Query: 72 FFFDVSPTVCSDI 84
           FF        ++
Sbjct: 63 EFFTFEQPSNDEV 75


>gi|146302601|ref|YP_001197192.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
           UW101]
 gi|146157019|gb|ABQ07873.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
           UW101]
          Length = 133

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 29/134 (21%), Positives = 53/134 (39%), Gaps = 11/134 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            N+G+ I   R + GM Q  L + +G + Q +   E     V   +L  I++ L   +  
Sbjct: 8   RNIGRNISRIRELRGMKQGALADAIGTSQQTISSIETSET-VDFDKLVEIAKALGVTVEA 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV--KVRQKIIELVRSIVSSE 130
              +       + +  NN  D  S+         F Q  +       K+IEL   +V +E
Sbjct: 67  ---IENFTEESVFNFFNNFYDNSSSQG-----NSFNQGMNATFNPLDKVIELYERLVQAE 118

Query: 131 KKYRTIEEECMVEQ 144
           K+     E+ + ++
Sbjct: 119 KEKVEYLEKLLNKE 132


>gi|78043349|ref|YP_359532.1| MerR family transcriptional regulator [Carboxydothermus
           hydrogenoformans Z-2901]
 gi|77995464|gb|ABB14363.1| transcriptional regulator, MerR family [Carboxydothermus
           hydrogenoformans Z-2901]
          Length = 274

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 35/70 (50%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I VG++++  R   G++ E++ +  G++   + + E G   V  + LQ ++   E  + +
Sbjct: 95  IAVGQKLKALREKKGLTLEEVSQGTGVSVSYLSRIESGQVNVSIATLQKLATFYEKNLLY 154

Query: 73  FFDVSPTVCS 82
           FF+   T   
Sbjct: 155 FFEGMDTKEQ 164


>gi|315302119|ref|ZP_07873074.1| DNA-binding protein [Listeria ivanovii FSL F6-596]
 gi|313629507|gb|EFR97685.1| DNA-binding protein [Listeria ivanovii FSL F6-596]
          Length = 180

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 36/75 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|297626284|ref|YP_003688047.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase (Enoylpyruvate
          transferase) [Propionibacterium freudenreichii subsp.
          shermanii CIRM-BIA1]
 gi|296922049|emb|CBL56613.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase (Enoylpyruvate
          transferase) [Propionibacterium freudenreichii subsp.
          shermanii CIRM-BIA1]
          Length = 511

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+ IR  R   GM+Q +L E L  +   + + E G   +    +  I+  LESP+
Sbjct: 10 IGRLIRDARKQRGMTQNQLAEELSTSQSAIHRIESGHQNLSLETINRIAGALESPL 65


>gi|289748952|ref|ZP_06508330.1| conserved hypothetical protein [Mycobacterium tuberculosis T92]
 gi|289689539|gb|EFD56968.1| conserved hypothetical protein [Mycobacterium tuberculosis T92]
          Length = 341

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 31/133 (23%), Positives = 54/133 (40%), Gaps = 18/133 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 47  YVGSRVRQLRNERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 106

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               DI+ +++ V + +S   G  L R  + +     R+  I 
Sbjct: 107 ASQDDTRLVAELREVTLDRDLDIAIDQHEVAEMVSAHPG--LARAVVNL----HRRYRIT 160

Query: 122 LVRSIVSSEKKYR 134
             R   ++E+++ 
Sbjct: 161 TARLAAATEERFS 173


>gi|212710521|ref|ZP_03318649.1| hypothetical protein PROVALCAL_01584 [Providencia alcalifaciens
          DSM 30120]
 gi|212686941|gb|EEB46469.1| hypothetical protein PROVALCAL_01584 [Providencia alcalifaciens
          DSM 30120]
          Length = 97

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 33/59 (55%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          + V   +G  ++ RR ++G++  +L   L I+ QQ+ +YE+GVN +    L  I   LE
Sbjct: 10 HEVSTYIGSFLKRRRKVVGLTGAELASRLSISQQQISRYERGVNAITIQNLLGILHALE 68


>gi|148266050|ref|YP_001232756.1| helix-turn-helix domain-containing protein [Geobacter
          uraniireducens Rf4]
 gi|146399550|gb|ABQ28183.1| helix-turn-helix domain protein [Geobacter uraniireducens Rf4]
          Length = 356

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 2/61 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+R+   R + GMS   + E +G  +++  + +YE G        L  +++VL+ P+ FF
Sbjct: 11 GRRLSQARRMRGMSLRAVAEAIGGKVSYNALHRYECGEMMPSDDVLIPVADVLDKPLDFF 70

Query: 74 F 74
          F
Sbjct: 71 F 71


>gi|306834504|ref|ZP_07467617.1| XRE family transcriptional regulator [Streptococcus bovis ATCC
          700338]
 gi|304423306|gb|EFM26459.1| XRE family transcriptional regulator [Streptococcus bovis ATCC
          700338]
          Length = 157

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 8/57 (14%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R    ++Q++L + + ++   V ++E G  ++   + Q +++     + + 
Sbjct: 2  NRLKELRKEKKLTQKELADKINVSKITVLRWENGERQIKPDKAQQLADFFGVSVGYL 58


>gi|317126928|ref|YP_004093210.1| hypothetical protein Bcell_0190 [Bacillus cellulosilyticus DSM
          2522]
 gi|315471876|gb|ADU28479.1| protein of unknown function DUF955 [Bacillus cellulosilyticus DSM
          2522]
          Length = 387

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 33/71 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R++  R+   ++  +L E L +T Q + KYE G +     +   + ++L  P  FF+ 
Sbjct: 7  GSRLKESRLYNKLTITELAEKLNVTKQMISKYESGKSEPSFEKSLILIDILGYPREFFYT 66

Query: 76 VSPTVCSDISS 86
              V  +  +
Sbjct: 67 TDKYVIENEGT 77


>gi|255014004|ref|ZP_05286130.1| putative transcriptional regulator [Bacteroides sp. 2_1_7]
          Length = 130

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 29/129 (22%), Positives = 60/129 (46%), Gaps = 10/129 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  ++  R   G+ QE L + +G++   +  YEK  + +    L+ I++ L+ PI    +
Sbjct: 12  GANLKRWREWRGIKQEVLADKIGVSQATLSGYEK-KDELEPEVLEKITKALDIPIEAITE 70

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
           ++     +I S      D  +    +Q N+ F  ID      KI+EL   ++ +E++   
Sbjct: 71  LNEGALINIYS--GTWQDNATAAGSIQ-NQTFNPID------KIVELYERLLKAEQEKVA 121

Query: 136 IEEECMVEQ 144
           +  E + ++
Sbjct: 122 MLHEIIKDK 130


>gi|238916357|ref|YP_002929874.1| hypothetical protein EUBELI_00410 [Eubacterium eligens ATCC
          27750]
 gi|238871717|gb|ACR71427.1| Hypothetical protein EUBELI_00410 [Eubacterium eligens ATCC
          27750]
          Length = 217

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 37/80 (46%), Gaps = 2/80 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R+   ++QE++ E LG++ Q +  +E   +      +  +SE  +  + +  
Sbjct: 5  IGCKIKAARIEKKLTQEQVAELLGVSRQTISNWENEKSYPDIISVIKMSECYDVSLDYLL 64

Query: 75 DVSPTVCS--DISSEENNVM 92
               + S  D   E  NV+
Sbjct: 65 KGEQKMKSYYDYLEESTNVV 84


>gi|325962046|ref|YP_004239952.1| transcriptional regulator [Arthrobacter phenanthrenivorans Sphe3]
 gi|323468133|gb|ADX71818.1| putative transcriptional regulator [Arthrobacter phenanthrenivorans
           Sphe3]
          Length = 504

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 32/91 (35%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G+R+R  R   G++ + L   +G    Q+   E G        LQH++  L   I  
Sbjct: 34  ISLGRRVRHLRKQAGLTLDDLSAAVGTAPSQLSLIENGKREPKLGLLQHLASALNVSIDQ 93

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
                P         E          + L L
Sbjct: 94  LLGAEPPSRRAALEIELERYQRSPLYETLNL 124


>gi|291279912|ref|YP_003496747.1| XRE family transcriptional regulator [Deferribacter desulfuricans
          SSM1]
 gi|290754614|dbj|BAI80991.1| transcriptional regulator, XRE family [Deferribacter
          desulfuricans SSM1]
          Length = 178

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/90 (25%), Positives = 39/90 (43%), Gaps = 7/90 (7%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G ++R  R  LGM+ E + +  G T   + + E G N    + L+ I   L   IS  F+
Sbjct: 4  GAKLREIRKRLGMTLEDVSQKTGFTKSFISQIENGKNSPSIASLKKICFALGITISELFE 63

Query: 76 VSPTVCSDISSEENNVMD-------FISTP 98
              V S  S ++  V+        F+++ 
Sbjct: 64 DERNVVSKFSYDDYKVLKNKNLDIYFLASK 93


>gi|260855372|ref|YP_003229263.1| putative phage repressor protein [Escherichia coli O26:H11 str.
           11368]
 gi|257754021|dbj|BAI25523.1| predicted phage repressor protein [Escherichia coli O26:H11 str.
           11368]
          Length = 135

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 22/103 (21%), Positives = 44/103 (42%), Gaps = 4/103 (3%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++ +G+RIR RR  L  +Q  L + L I+   V ++E+  +      L  +S+VL+   +
Sbjct: 5   NLTIGERIRYRRKNLKYTQRSLAKVLKISHVSVSQWERDDSEPTGKNLFALSKVLQCSPT 64

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +              EE   +    +P   +L   F  + + +
Sbjct: 65  WILFGDEDKQPSPPIEEPVAL----SPKEHELLELFNALPESE 103


>gi|229061195|ref|ZP_04198545.1| Helix-turn-helix domain protein [Bacillus cereus AH603]
 gi|228718066|gb|EEL69706.1| Helix-turn-helix domain protein [Bacillus cereus AH603]
          Length = 262

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 31/74 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +
Sbjct: 1  MEFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDY 60

Query: 73 FFDVSPTVCSDISS 86
              +    ++   
Sbjct: 61 LLKETAEQSNEKEH 74


>gi|269797446|ref|YP_003311346.1| XRE family transcriptional regulator [Veillonella parvula DSM 2008]
 gi|269094075|gb|ACZ24066.1| transcriptional regulator, XRE family [Veillonella parvula DSM
           2008]
          Length = 123

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 20/114 (17%), Positives = 50/114 (43%), Gaps = 5/114 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFF 74
           G +I+  R+   M+ E++G  +G++ Q + KYE   +  + + +++ ++++     +   
Sbjct: 6   GDKIKNLRIQNKMTLEEVGNRIGVSKQTLYKYENNIITNIPSDKIEGLAKIFNVSPALIM 65

Query: 75  DVSPTVCS-DISSEENNVMDFIST-PDGLQLNRYFIQIDDVKVRQKI--IELVR 124
               T       +E     +++ T P    L      I    + + +  IEL++
Sbjct: 66  GWDDTPKEYYKDAEAAEFTEYLRTRPGARMLFSAAKDISKEDMEKAVEYIELLK 119


>gi|218462689|ref|ZP_03502780.1| probable transcriptional regulator protein, LacI family [Rhizobium
           etli Kim 5]
          Length = 189

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 34/86 (39%), Gaps = 2/86 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R+  G++ + L    G++   + + E+      AS L  I   L   +S FF
Sbjct: 9   IGIRIRTLRLEKGLTLDDLATASGVSRAMISRIERAEASPTASLLARICAALGLSLSAFF 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
                  S ++  +         P+ 
Sbjct: 69  AEEGQQASPLARRQE--QQVWRDPET 92


>gi|332671330|ref|YP_004454338.1| XRE family transcriptional regulator [Cellulomonas fimi ATCC 484]
 gi|332340368|gb|AEE46951.1| transcriptional regulator, XRE family [Cellulomonas fimi ATCC 484]
          Length = 488

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 28/133 (21%), Positives = 50/133 (37%), Gaps = 22/133 (16%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R   GM+ E LG  +G    QV   E G        L  +++ L  P++   
Sbjct: 20  LGRRIRHLRTGRGMTLEDLGRAIGRAPSQVSMLENGHREPRVGVLAAVADALGVPVAELL 79

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY-----FIQ--IDDVKVRQKI-IELVRSI 126
              P                      ++L R      F    I +VKV + +  + + ++
Sbjct: 80  RPEPPTRRAALE--------------VELERAQRGPLFASLHIPEVKVGRSLPTDALEAL 125

Query: 127 VSSEKKYRTIEEE 139
           V  + + + +  E
Sbjct: 126 VRLQAEVQRLLTE 138


>gi|313898421|ref|ZP_07831958.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956803|gb|EFR38434.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 220

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 31/79 (39%), Gaps = 1/79 (1%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            R    M+QE+L + LG++ Q + K+EKG        L  +S +    I         +
Sbjct: 8  EYRKKNMMTQEELADRLGVSRQTITKWEKGTILPSLEYLIDLSRLFGVTIDHLVKDDDCI 67

Query: 81 CSDISS-EENNVMDFISTP 98
          C          + +F+ T 
Sbjct: 68 CESSHQVHTTALAEFLVTA 86


>gi|309797052|ref|ZP_07691451.1| peptidase S24-like domain protein [Escherichia coli MS 145-7]
 gi|308119335|gb|EFO56597.1| peptidase S24-like domain protein [Escherichia coli MS 145-7]
          Length = 251

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R+  G++Q+ LG+ +G++   +QK E G      +++  I+  L     + 
Sbjct: 27 LSERLKEARLARGLTQKALGDLVGVSQAAIQKIETGKAN-QTTKIVEIANALGVRAEWL 84


>gi|210634400|ref|ZP_03298102.1| hypothetical protein COLSTE_02024 [Collinsella stercoris DSM
          13279]
 gi|210158825|gb|EEA89796.1| hypothetical protein COLSTE_02024 [Collinsella stercoris DSM
          13279]
          Length = 206

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 32/85 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  I+  R  LG+SQ+ L   + ++ Q +  +E G        L  +S V    +  
Sbjct: 1  MELGAHIKEHRKELGLSQDDLAAKIYVSRQTISNWEVGRTYPDVQSLLLLSNVFGVTVDS 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
                   + +        + +ST
Sbjct: 61 LIKGDVETMAQVMDAAVKKYNALST 85


>gi|167041843|gb|ABZ06584.1| putative helix-turn-helix motif protein [uncultured marine
          microorganism HF4000_097M14]
          Length = 474

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ +G +I+ +R  LG+SQ  + + L I+   +   E G  ++    L  ++  L   I
Sbjct: 4  IDLQIGYKIKSKRRSLGISQADMAKKLSISPSYLNLIESGKRKISVDLLLKVANELGIEI 63

Query: 71 S 71
          S
Sbjct: 64 S 64


>gi|304397757|ref|ZP_07379634.1| transcriptional regulator, XRE family [Pantoea sp. aB]
 gi|304354929|gb|EFM19299.1| transcriptional regulator, XRE family [Pantoea sp. aB]
          Length = 185

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 25/131 (19%), Positives = 48/131 (36%), Gaps = 11/131 (8%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++   +R  R   G S     E  G++   + + E+G +    + L  I+     P SFF
Sbjct: 7   HLSGALRQLRQANGWSLTLTAERTGVSKAMLGQIERGESSPTVATLWKIATGFNVPFSFF 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
            D S       +          S P+     R  +   D  +R  ++ +   + +  + +
Sbjct: 67  IDGSALPPGTATG--------FSQPNAEMSVRSLLPY-DPHLRFDLLAV--ELAAGAQSH 115

Query: 134 RTIEEECMVEQ 144
            +  E   VEQ
Sbjct: 116 SSPHEAGCVEQ 126


>gi|282865716|ref|ZP_06274766.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
 gi|282559360|gb|EFB64912.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
          Length = 199

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 29/74 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R   G++   L E  GI+   + + E G  R     L  I+   E P+    
Sbjct: 18 VGPRLRRLRKDRGVTLAALAEATGISVSTLSRLESGGRRPSLELLLPIARAHEVPLDDLV 77

Query: 75 DVSPTVCSDISSEE 88
             P     + ++ 
Sbjct: 78 GAPPPGDPRVRAKP 91


>gi|255531717|ref|YP_003092089.1| helix-turn-helix domain-containing protein [Pedobacter heparinus
          DSM 2366]
 gi|255344701|gb|ACU04027.1| helix-turn-helix domain protein [Pedobacter heparinus DSM 2366]
          Length = 104

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 34/76 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DINV +++R  R   G +Q  +   L I+     K E G+  +   RL+ ++ +L   + 
Sbjct: 3  DINVSQKLRALRKKRGWTQSDMAAQLDISVPAYSKVECGMTELTLGRLRQLAVILGVKVC 62

Query: 72 FFFDVSPTVCSDISSE 87
          +  D    V    + E
Sbjct: 63 WLLDEDEMVLHQENEE 78


>gi|229011119|ref|ZP_04168312.1| Transcriptional regulator, MerR [Bacillus mycoides DSM 2048]
 gi|228750002|gb|EEL99834.1| Transcriptional regulator, MerR [Bacillus mycoides DSM 2048]
          Length = 181

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 47/110 (42%), Gaps = 8/110 (7%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
           +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3   NIDIGKKIEKQRKEKGLTSKELAKMAKITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71  SFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDV 113
           SF  + + T    + S        +N   + +S      L    + I   
Sbjct: 63  SFLLEENNTDDLIVRSHKRKKMIIDNLSYELLSPDFTGNLATAIMTIPPN 112


>gi|229096313|ref|ZP_04227286.1| Transcriptional regulator, MerR [Bacillus cereus Rock3-29]
 gi|229102426|ref|ZP_04233134.1| Transcriptional regulator, MerR [Bacillus cereus Rock3-28]
 gi|229115267|ref|ZP_04244677.1| Transcriptional regulator, MerR [Bacillus cereus Rock1-3]
 gi|228668407|gb|EEL23839.1| Transcriptional regulator, MerR [Bacillus cereus Rock1-3]
 gi|228681073|gb|EEL35242.1| Transcriptional regulator, MerR [Bacillus cereus Rock3-28]
 gi|228687273|gb|EEL41178.1| Transcriptional regulator, MerR [Bacillus cereus Rock3-29]
          Length = 181

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 32/62 (51%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I++GK+I  +R   G++ ++L     IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKQLANMAEITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 72 FF 73
           F
Sbjct: 63 SF 64


>gi|251772558|gb|EES53124.1| transcriptional regulator, XRE family [Leptospirillum
           ferrodiazotrophum]
          Length = 181

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 39/100 (39%), Gaps = 3/100 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             V +R+R  R    +S   L +  GI+   + + E G      + L+ +   LE PI+ 
Sbjct: 2   KQVSERLRELRKNQNLSLRTLAKKAGISASSLSQIESGQVSPSIATLEKVCAALELPITT 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPD--GLQ-LNRYFIQ 109
            FD +P     +     N     ST     ++ L R F  
Sbjct: 62  LFDETPGESDPLVMPARNRRRVYSTTSHATVEPLARGFAA 101


>gi|239814989|ref|YP_002943899.1| XRE family transcriptional regulator [Variovorax paradoxus S110]
 gi|239801566|gb|ACS18633.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 187

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++R  RM   MS   L +  G++   + + E+G+       L+ +++ L  P+S FF
Sbjct: 6  IGAQVRALRMAAEMSAGSLAKASGVSASMLSRIERGLVSPSVETLERVAQGLHVPVSRFF 65

Query: 75 DVSPTVCSDISS 86
                 +D S 
Sbjct: 66 -GDQARRTDFSH 76


>gi|268589266|ref|ZP_06123487.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291315284|gb|EFE55737.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 107

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 34/64 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+I +G  +R +R+   ++ E + + L ++ QQV +YE G+N +  S +      L   +
Sbjct: 10 VNILIGNYLRQKRIENDLTGEDISKLLHVSQQQVSRYENGINTISFSLILLFLIKLNISV 69

Query: 71 SFFF 74
            FF
Sbjct: 70 ESFF 73


>gi|212224500|ref|YP_002307736.1| Hypothetical transcription regulator [Thermococcus onnurineus
          NA1]
 gi|212009457|gb|ACJ16839.1| Hypothetical transcription regulator [Thermococcus onnurineus
          NA1]
          Length = 68

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G++QE+L + LG+T Q +   EKG           I+      I   F
Sbjct: 3  NRVRELREARGLTQEELAKALGVTRQTIIAIEKGKYDPSLKLAFKIARFFGVLIEDIF 60


>gi|160944105|ref|ZP_02091335.1| hypothetical protein FAEPRAM212_01607 [Faecalibacterium prausnitzii
           M21/2]
 gi|158444781|gb|EDP21785.1| hypothetical protein FAEPRAM212_01607 [Faecalibacterium prausnitzii
           M21/2]
          Length = 163

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 24/123 (19%), Positives = 52/123 (42%), Gaps = 3/123 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI+  R+ LG++Q++ G  +GI    V   E G +R+  S    I         +  + +
Sbjct: 6   RIKELRLALGLNQQEFGARIGIKVSAVSYLESGKSRLTESNAILICREFNVNRDWLLNGA 65

Query: 78  PTVCSDISSEENNVM--DFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
             +    S +  + +   +  TP    +   + ++   + RQ   ++++ I+ S  +   
Sbjct: 66  GEMFQPNSQDAVDALAEQYDLTPLERDMVENYCRLSKAQ-RQAFWDVMQKIIGSSAQSGG 124

Query: 136 IEE 138
            EE
Sbjct: 125 AEE 127


>gi|150388718|ref|YP_001318767.1| XRE family transcriptional regulator [Alkaliphilus
          metalliredigens QYMF]
 gi|149948580|gb|ABR47108.1| transcriptional regulator, XRE family [Alkaliphilus
          metalliredigens QYMF]
          Length = 101

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 27/58 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          RI+  R     SQ +L +   IT Q +  YE GV     + L+++++     I +  +
Sbjct: 3  RIKELRQEKDFSQIQLAKQFDITQQTISNYESGVREPSITTLKNLADFFNVSIDYLLE 60


>gi|328471556|gb|EGF42436.1| DNA-binding protein [Listeria monocytogenes 220]
          Length = 125

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 20/110 (18%), Positives = 41/110 (37%), Gaps = 18/110 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G+++   R    ++Q++L   +G T   + KYE   +R     L  ++E+L +   F
Sbjct: 1   MEFGEKLIHLRKKNRLTQKQLAAKIGTTASTISKYENDNHRPPIFILAKLAEILGTTTDF 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
             D    +    S                     F  I + ++ +  +EL
Sbjct: 61  LLDDVAGLREKNS------------------VNAFPLIGNPELEKWYLEL 92


>gi|323126522|gb|ADX23819.1| Cro/CI family transcriptional regulator [Streptococcus dysgalactiae
           subsp. equisimilis ATCC 12394]
          Length = 112

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 26/111 (23%), Positives = 52/111 (46%), Gaps = 7/111 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + +R++  R   G++QE++ + LGI+      +EKG  +    +L  I+ +      +  
Sbjct: 2   LSERLKTLRKEAGLTQEEVAKKLGISRPAYTYWEKGEKKPTPDKLTQIANLFGVSTDYLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL--QLNRYFIQ--IDDVKVRQKIIE 121
           +       D+S  E   + F +T  GL  +    F +  I+ +K R+K+ E
Sbjct: 62  NNQVDDEIDLSEVE---LLFRTTSKGLTEEEQVAFKKELIEFMKKRKKMFE 109


>gi|302390193|ref|YP_003826014.1| helix-turn-helix domain protein [Thermosediminibacter oceani DSM
          16646]
 gi|302200821|gb|ADL08391.1| helix-turn-helix domain protein [Thermosediminibacter oceani DSM
          16646]
          Length = 121

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 40/88 (45%), Gaps = 2/88 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           N+GKRIR  R+   ++QE+LGE   + +  + + E+G        L  I++ L   + +
Sbjct: 8  KNIGKRIRQIRLQRDLTQEELGERANLHYSYIGQVERGDKLPSLKTLSKIAKALNVSLDY 67

Query: 73 FFDVSPT--VCSDISSEENNVMDFISTP 98
            +   T     D  +  N ++  + T 
Sbjct: 68 VLEDPATYEAQPDTEAAINELVTMVRTR 95


>gi|326791080|ref|YP_004308901.1| hypothetical protein Clole_1987 [Clostridium lentocellum DSM
          5427]
 gi|326541844|gb|ADZ83703.1| helix-turn-helix domain protein [Clostridium lentocellum DSM
          5427]
          Length = 194

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 34/56 (60%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG+ IR  R+  G++Q++L + + I+ + V K+E+G+     S L  +S +L+  I
Sbjct: 6  VGELIRSLRIECGLTQKQLADAMNISDKTVSKWERGLGCPDISLLPELSILLKVNI 61


>gi|282599859|ref|ZP_05972144.2| MrfJ protein [Providencia rustigianii DSM 4541]
 gi|282567409|gb|EFB72944.1| MrfJ protein [Providencia rustigianii DSM 4541]
          Length = 106

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 26/91 (28%), Positives = 43/91 (47%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +   VG RIR  R    MS ++L + LGI+ Q   ++E G  R+    +  ISE+LE  I
Sbjct: 5   ISRIVGARIRTLRKDRRMSIQQLSKKLGISQQHQSRHELGDMRIHVDTIYSISEILELDI 64

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
           +       +  S+I + +    + I   + L
Sbjct: 65  NELISDFTSSNSNIITNDKRDREKILQAEIL 95


>gi|210634365|ref|ZP_03298091.1| hypothetical protein COLSTE_02013 [Collinsella stercoris DSM 13279]
 gi|210158844|gb|EEA89815.1| hypothetical protein COLSTE_02013 [Collinsella stercoris DSM 13279]
          Length = 169

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/90 (25%), Positives = 39/90 (43%), Gaps = 8/90 (8%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+   R   G SQE+L + LG++ Q + K+E    R     +  +S++      F    S
Sbjct: 47  RLLDLRRKAGYSQEQLADLLGVSRQAISKWEGAQGRPEVDNVVKLSQIYRVSTDFILTGS 106

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYF 107
            +V S        V +  S P   +L+R +
Sbjct: 107 ASVPS--------VCEAPSAPAPRELSREY 128


>gi|210610650|ref|ZP_03288550.1| hypothetical protein CLONEX_00740 [Clostridium nexile DSM 1787]
 gi|210152372|gb|EEA83378.1| hypothetical protein CLONEX_00740 [Clostridium nexile DSM 1787]
          Length = 124

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 42/81 (51%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          +    K P+P  +++GKR+R+ R+    +QE+  E LG++     K E+G + +   +L 
Sbjct: 10 ICQENKAPDPFYVDMGKRLRIVRIKANYTQEQFAEILGMSTAYYGKIERGEHGLSLKKLV 69

Query: 61 HISEVLESPISFFFDVSPTVC 81
          H+ E L   I++    + +  
Sbjct: 70 HVYEKLNIDINYLLTGAKSSS 90


>gi|325453295|gb|ADZ13598.1| phage repressor protein [Cronobacter phage ENT39118]
          Length = 232

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 27/75 (36%), Positives = 38/75 (50%), Gaps = 7/75 (9%)

Query: 5  KKIPNPVDINV--GKRIRL----RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
          KK P   D  V   +R+R     ++  LG+SQE L E LGI+   V ++  G N +   R
Sbjct: 2  KKKPLS-DEQVLDAERLRRIYNEKKKDLGLSQEVLAERLGISQSAVAQFLAGKNALNMKR 60

Query: 59 LQHISEVLESPISFF 73
              +EVL+ PI  F
Sbjct: 61 ASEFAEVLQVPIDAF 75


>gi|239946011|ref|ZP_04697948.1| putative transcriptional regulator [Streptomyces roseosporus NRRL
           15998]
 gi|239992479|ref|ZP_04713143.1| putative transcriptional regulator [Streptomyces roseosporus NRRL
           11379]
 gi|291449463|ref|ZP_06588853.1| regulatory protein [Streptomyces roseosporus NRRL 15998]
 gi|291352410|gb|EFE79314.1| regulatory protein [Streptomyces roseosporus NRRL 15998]
          Length = 199

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 21/104 (20%), Positives = 39/104 (37%), Gaps = 8/104 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G++   L    GI+   + + E G  R     +  I+   E P+    
Sbjct: 18  VGPRLRRLRKDRGVTLAALSAATGISVSTLSRLESGGRRPSLELMLPIARAHEVPLDDLV 77

Query: 75  DVSPTVCSDISSEE-----NNVMDFISTPDGLQLNRYFIQIDDV 113
             +P     + ++        ++   + P GLQ    +  I + 
Sbjct: 78  GAAPVGDPRVRAKPIVQHGRTMLPLTARPGGLQ---AYKLIQEP 118


>gi|160936523|ref|ZP_02083890.1| hypothetical protein CLOBOL_01413 [Clostridium bolteae ATCC
          BAA-613]
 gi|158440314|gb|EDP18059.1| hypothetical protein CLOBOL_01413 [Clostridium bolteae ATCC
          BAA-613]
          Length = 177

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 36/68 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R++ G++QE+L +   ++   + + E+ +     + L  I + L + I  
Sbjct: 1  MEIGSKLKELRVLKGLTQEELADRAELSKGFISQLERDLTSPSIATLMDILQCLGTTIGE 60

Query: 73 FFDVSPTV 80
          FF+ +P  
Sbjct: 61 FFNETPDE 68


>gi|157155496|ref|YP_001461935.1| putative repressor protein [Escherichia coli E24377A]
 gi|191166562|ref|ZP_03028391.1| putative repressor protein [Escherichia coli B7A]
 gi|218694199|ref|YP_002401866.1| Regulatory protein CI from bacteriophage origin [Escherichia coli
          55989]
 gi|218703832|ref|YP_002411351.1| regulatory protein CI from bacteriophage origin [Escherichia coli
          UMN026]
 gi|300819564|ref|ZP_07099758.1| peptidase S24-like domain protein [Escherichia coli MS 107-1]
 gi|300895848|ref|ZP_07114428.1| peptidase S24-like domain protein [Escherichia coli MS 198-1]
 gi|331676460|ref|ZP_08377157.1| 26 kDa repressor protein (Regulatory protein CI) [Escherichia
          coli H591]
 gi|157077526|gb|ABV17234.1| putative repressor protein [Escherichia coli E24377A]
 gi|190903367|gb|EDV63087.1| putative repressor protein [Escherichia coli B7A]
 gi|218350931|emb|CAU96632.1| Regulatory protein CI from bacteriophage origin [Escherichia coli
          55989]
 gi|218430929|emb|CAR11803.1| Regulatory protein CI from bacteriophage origin [Escherichia coli
          UMN026]
 gi|300360234|gb|EFJ76104.1| peptidase S24-like domain protein [Escherichia coli MS 198-1]
 gi|300527890|gb|EFK48952.1| peptidase S24-like domain protein [Escherichia coli MS 107-1]
 gi|320196986|gb|EFW71605.1| Regulatory protein CI from bacteriophage origin [Escherichia coli
          WV_060327]
 gi|320643661|gb|EFX12798.1| Regulatory protein CI from bacteriophage origin [Escherichia coli
          O157:H- str. 493-89]
 gi|320648981|gb|EFX17575.1| Regulatory protein CI from bacteriophage origin [Escherichia coli
          O157:H- str. H 2687]
 gi|320665037|gb|EFX32141.1| Regulatory protein CI from bacteriophage origin [Escherichia coli
          O157:H7 str. LSU-61]
 gi|323153453|gb|EFZ39708.1| helix-turn-helix family protein [Escherichia coli EPECa14]
 gi|325497847|gb|EGC95706.1| putative repressor protein [Escherichia fergusonii ECD227]
 gi|331075953|gb|EGI47250.1| 26 kDa repressor protein (Regulatory protein CI) [Escherichia
          coli H591]
          Length = 251

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R+  G++Q+ LG+ +G++   +QK E G      +++  I+  L     + 
Sbjct: 27 LSERLKEARLARGLTQKALGDLVGVSQAAIQKIETGKAN-QTTKIVEIANALGVRAEWL 84


>gi|66768392|ref|YP_243154.1| transcriptional regulator [Xanthomonas campestris pv. campestris
          str. 8004]
 gi|66573724|gb|AAY49134.1| transcriptional regulator, HTH_3 family [Xanthomonas campestris
          pv. campestris str. 8004]
          Length = 412

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/65 (35%), Positives = 34/65 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+ L R   GM + +L E +G+T + V  YE G     ++ L  +SE L  P +FFF   
Sbjct: 29 RLTLARKRRGMKKRELAEKIGLTEKSVSNYEAGSQEPESTTLSKLSEALRFPEAFFFGDD 88

Query: 78 PTVCS 82
          P V +
Sbjct: 89 PEVPT 93


>gi|271502478|ref|YP_003335504.1| XRE family transcriptional regulator [Dickeya dadantii Ech586]
 gi|270346033|gb|ACZ78798.1| transcriptional regulator, XRE family [Dickeya dadantii Ech586]
          Length = 110

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 4/69 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R++ G+SQ+ LG   G    +   ++ +YEKGV+       + ++E L  P+++
Sbjct: 13 QRLKDARLLRGLSQKGLGIAAGIDEFVASARINRYEKGVHEANIVTAKRLAEALNVPLAY 72

Query: 73 FFDVSPTVC 81
          F+     + 
Sbjct: 73 FYADDDNLA 81


>gi|228912155|ref|ZP_04075870.1| Transcriptional regulator, XRE [Bacillus thuringiensis IBL 200]
 gi|228942096|ref|ZP_04104636.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228975025|ref|ZP_04135584.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228981664|ref|ZP_04141959.1| Transcriptional regulator, XRE [Bacillus thuringiensis Bt407]
 gi|228777776|gb|EEM26048.1| Transcriptional regulator, XRE [Bacillus thuringiensis Bt407]
 gi|228784546|gb|EEM32566.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228817430|gb|EEM63515.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228847492|gb|EEM92431.1| Transcriptional regulator, XRE [Bacillus thuringiensis IBL 200]
 gi|324328858|gb|ADY24118.1| XRE family transcriptional regulator [Bacillus thuringiensis
          serovar finitimus YBT-020]
 gi|326942746|gb|AEA18642.1| transcriptional regulator [Bacillus thuringiensis serovar
          chinensis CT-43]
          Length = 109

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 32/79 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R  L M Q +L + +G+ +  +  YE          +++I+ V      +  
Sbjct: 5  IGSRIKEVRKSLKMKQNELADAVGVNYTMISLYESNKREPSRETVENIARVTNVSADYIM 64

Query: 75 DVSPTVCSDISSEENNVMD 93
           +S     D  + +    D
Sbjct: 65 GLSKHKTFDEETSKKITDD 83


>gi|268590841|ref|ZP_06125062.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291313624|gb|EFE54077.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 97

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 18/55 (32%), Positives = 32/55 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          + +G  ++ RR ++G++  +L   L I+ QQV +YE+G N +    L  I + LE
Sbjct: 14 VYIGSFLKHRRKVVGLTGSQLASRLKISQQQVSRYERGKNAITIQGLLDILQALE 68


>gi|150016491|ref|YP_001308745.1| helix-turn-helix domain-containing protein [Clostridium
           beijerinckii NCIMB 8052]
 gi|149902956|gb|ABR33789.1| helix-turn-helix domain protein [Clostridium beijerinckii NCIMB
           8052]
          Length = 123

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 22/125 (17%), Positives = 51/125 (40%), Gaps = 9/125 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G++I++ R    + Q++L E  GIT   + +YE G        +  ++ VL     +
Sbjct: 2   KTIGEKIQILREERNLKQKELAELAGITEATLSRYENGKREPKGEIISKLANVLNVSTDY 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF----IQIDDVKVRQKIIELVRSIVS 128
                    +DI +        ++   GL+L +       +I++  +   I+    ++  
Sbjct: 62  LL-----GRNDIITSSVEPTGNLAEQVGLKLIKELEKDGYKIEEKDLPNLILAAKITLAQ 116

Query: 129 SEKKY 133
           ++K  
Sbjct: 117 NKKNQ 121


>gi|260432990|ref|ZP_05786961.1| transcriptional regulator, XRE family [Silicibacter
          lacuscaerulensis ITI-1157]
 gi|260416818|gb|EEX10077.1| transcriptional regulator, XRE family [Silicibacter
          lacuscaerulensis ITI-1157]
          Length = 431

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 20/60 (33%), Positives = 28/60 (46%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G RIR RR+I G+ Q +L   +GI+   +   E    R+G   L  I+  L    S
Sbjct: 3  DTLTGSRIRERRLISGLKQAQLARQVGISASYLNLIEHNRRRIGGKLLVDIASALSVEPS 62


>gi|284040164|ref|YP_003390094.1| XRE family transcriptional regulator [Spirosoma linguale DSM 74]
 gi|283819457|gb|ADB41295.1| transcriptional regulator, XRE family [Spirosoma linguale DSM 74]
          Length = 68

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 16/50 (32%), Positives = 26/50 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +IR  R   G++Q++L E LG++   V +YE G   +    L  I+  L 
Sbjct: 11 QIRDARKAKGLTQKELAEKLGVSESTVNQYESGKQNLTIDTLVKIANALG 60


>gi|332653789|ref|ZP_08419533.1| toxin-antitoxin system, antitoxin component, Xre family
           [Ruminococcaceae bacterium D16]
 gi|332516875|gb|EGJ46480.1| toxin-antitoxin system, antitoxin component, Xre family
           [Ruminococcaceae bacterium D16]
          Length = 182

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 24/103 (23%), Positives = 49/103 (47%), Gaps = 4/103 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + + ++  R   G+SQE+L   L I  Q V K+EKG++   +  L  ++E L++ ++   
Sbjct: 2   LSENLKHFRKAKGLSQEELAIKLHIVRQTVSKWEKGLSVPDSGMLIRLAEALDTSVTAL- 60

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
            +     S+ +S E+  +  I+    L+L          + R+
Sbjct: 61  -LGEMAGSEPASGESAELKAIAAK--LELLNEQFAARCERQRK 100


>gi|294101955|ref|YP_003553813.1| transcriptional regulator, XRE family [Aminobacterium colombiense
          DSM 12261]
 gi|293616935|gb|ADE57089.1| transcriptional regulator, XRE family [Aminobacterium colombiense
          DSM 12261]
          Length = 235

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 34/59 (57%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GKR+   R+  G++Q +L E LG++F  + ++EK         L  +++VLE+ +++  
Sbjct: 4  GKRLSELRVKRGLTQLELAEKLGVSFHTILRWEKERRFPDVFHLSILADVLETSVAYLM 62


>gi|257898371|ref|ZP_05678024.1| predicted protein [Enterococcus faecium Com15]
 gi|257836283|gb|EEV61357.1| predicted protein [Enterococcus faecium Com15]
          Length = 130

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 19/79 (24%), Positives = 37/79 (46%), Gaps = 1/79 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +  G++++  R   G+   +L    G++  Q+ ++EKG  +      L+ +S  L   IS
Sbjct: 1  MEFGEKLKKLRTSRGLGVNQLALKSGVSASQISRFEKGERKDPTLETLKKLSTALGVSIS 60

Query: 72 FFFDVSPTVCSDISSEENN 90
          +F + SP   + I    N 
Sbjct: 61 YFEENSPVNVNTIPKWANE 79


>gi|197287327|ref|YP_002153199.1| transcriptional regulator [Proteus mirabilis HI4320]
 gi|227356988|ref|ZP_03841360.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
 gi|194684814|emb|CAR46896.1| putative transcriptional regulator [Proteus mirabilis HI4320]
 gi|227162866|gb|EEI47825.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
          Length = 192

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 18/91 (19%), Positives = 36/91 (39%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N + P   +  +G +++  R    +S  +L    GI+   + K E G +      L+ I+
Sbjct: 2  NPQSPKKTNEYLGNKVKQLRQSRNLSLNELSRKSGISKAALSKLESGDSNPRIDTLEAIA 61

Query: 64 EVLESPISFFFDVSPTVCSDISSEENNVMDF 94
            L  P+   F  +      +   +  V D+
Sbjct: 62 IALGFPLGDLFSFTREEYPRLERHKPIVGDY 92


>gi|306520117|ref|ZP_07406464.1| putative transcriptional regulator [Clostridium difficile
          QCD-32g58]
          Length = 405

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I +GK I+  R    ++QE+L + +G++   V K+E G +      L  +++     I 
Sbjct: 3  IKIGKVIQRLRKERNLTQEQLAKFIGVSTPAVSKWESGNSYPDIELLPLLADFFNVSID 61


>gi|126652726|ref|ZP_01724878.1| hypothetical protein BB14905_21323 [Bacillus sp. B14905]
 gi|126590415|gb|EAZ84534.1| hypothetical protein BB14905_21323 [Bacillus sp. B14905]
          Length = 134

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 20/98 (20%), Positives = 42/98 (42%), Gaps = 14/98 (14%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES--------- 68
           R++  R    ++QE+L   L  T   +  YE G +      L  +S++L+          
Sbjct: 6   RLKAARKAKKLTQEQLAGKLQTTKGTISNYENGHSTPSNEMLVLLSKILDVTTDYLLGVT 65

Query: 69  ----PISF-FFDVSPTVCSDISSEENNVMDFISTPDGL 101
               P+ +    +S    +++S+ +  V++F  T + L
Sbjct: 66  DNPTPVDYKLAGISDEDYNNLSAYQKEVINFFLTRENL 103


>gi|298207938|ref|YP_003716117.1| hypothetical protein CA2559_06790 [Croceibacter atlanticus
          HTCC2559]
 gi|83850579|gb|EAP88447.1| hypothetical protein CA2559_06790 [Croceibacter atlanticus
          HTCC2559]
          Length = 187

 Score = 60.6 bits (146), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 29/57 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++G++I+  R   G+SQE+L +   ++ + +Q+ E   N      L  I   L+  I
Sbjct: 3  HLGQKIKDARKQKGLSQEELADSAKVSLRTIQRIETNKNEPRGKTLHLICTALQLNI 59


>gi|312109712|ref|YP_003988028.1| helix-turn-helix domain protein [Geobacillus sp. Y4.1MC1]
 gi|311214813|gb|ADP73417.1| helix-turn-helix domain protein [Geobacillus sp. Y4.1MC1]
          Length = 148

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 36/85 (42%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKR++  R     SQ+K+ E +GI+  Q+ +YE G        +   ++       +  
Sbjct: 4  LGKRLKYLREKFNYSQKKVAEAIGISNVQLSRYESGDRNPDPELIAAFADFYGVTTDYI- 62

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
           +  T      + E N+ +   T +
Sbjct: 63 -LGRTDDPQGYAPETNIDNIKDTKE 86


>gi|254975202|ref|ZP_05271674.1| putative transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255092592|ref|ZP_05322070.1| putative transcriptional regulator [Clostridium difficile CIP
          107932]
 gi|255314329|ref|ZP_05355912.1| putative transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255517008|ref|ZP_05384684.1| putative transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255650110|ref|ZP_05397012.1| putative transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|260683237|ref|YP_003214522.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260686833|ref|YP_003217966.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|260209400|emb|CBA62866.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260212849|emb|CBE04052.1| putative transcriptional regulator [Clostridium difficile R20291]
          Length = 404

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I +GK I+  R    ++QE+L + +G++   V K+E G +      L  +++     I 
Sbjct: 3  IKIGKVIQRLRKERNLTQEQLAKFIGVSTPAVSKWESGNSYPDIELLPLLADFFNVSID 61


>gi|75910246|ref|YP_324542.1| molybdate metabolism transcriptional regulator [Anabaena
          variabilis ATCC 29413]
 gi|75703971|gb|ABA23647.1| transcriptional regulator of molybdate metabolism, XRE family
          [Anabaena variabilis ATCC 29413]
          Length = 376

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 29/64 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +DIN+   I+  R  LGMSQ+ L    G+T Q +   E G      +    +++ L   +
Sbjct: 3  LDINICNNIKSIRTRLGMSQQDLANIAGVTRQTISGVESGQYAPSVAITLRLAKALGCQV 62

Query: 71 SFFF 74
             F
Sbjct: 63 ENLF 66


>gi|325845348|ref|ZP_08168648.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
 gi|325488602|gb|EGC91011.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
          Length = 194

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 28/65 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I   R    +SQE+L   L ++ Q + K+E G        +  ++EV    I  
Sbjct: 4  MMLGEKIVQLRKEERLSQEQLAMKLNVSRQAISKWELGDAIPDTEHVVRLAEVFNVSIDS 63

Query: 73 FFDVS 77
               
Sbjct: 64 LLRGD 68


>gi|306821038|ref|ZP_07454657.1| transcriptional regulator [Eubacterium yurii subsp. margaretiae
           ATCC 43715]
 gi|304550979|gb|EFM38951.1| transcriptional regulator [Eubacterium yurii subsp. margaretiae
           ATCC 43715]
          Length = 164

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 24/91 (26%), Positives = 36/91 (39%), Gaps = 2/91 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+ IR  R   G SQEK     G+    V   E+G   +    L  I+  LE  +S  F
Sbjct: 6   VGQEIRKLRTSKGYSQEKFATVCGLDRTYVAAVERGKRNISIENLYKIANALEITLSELF 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           D    +   I  +       + + +  +L R
Sbjct: 66  DFGNPIQKTILLDIKGERFILESKE--ELTR 94


>gi|293374180|ref|ZP_06620511.1| DNA-binding protein [Turicibacter sanguinis PC909]
 gi|292647209|gb|EFF65188.1| DNA-binding protein [Turicibacter sanguinis PC909]
          Length = 191

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 28/65 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I   R    +SQE+L   L ++ Q + K+E G        +  ++EV    I  
Sbjct: 1  MMLGEKIVQLRKEERLSQEQLAMKLNVSRQAISKWELGDAIPDTEHVVRLAEVFNVSIDS 60

Query: 73 FFDVS 77
               
Sbjct: 61 LLRGD 65


>gi|291521732|emb|CBK80025.1| Predicted transcriptional regulators [Coprococcus catus GD/7]
          Length = 217

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 37/80 (46%), Gaps = 2/80 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R+   ++QE++ E LG++ Q +  +E   +      +  +SE  +  + +  
Sbjct: 5  IGCKIKEARIEKKLTQEQVAELLGVSRQTISNWENEKSYPDIISVIKMSECYDVSLDYLL 64

Query: 75 DVSPTVCS--DISSEENNVM 92
               + S  D   E  NV+
Sbjct: 65 KGERKMKSYYDYLEESTNVV 84


>gi|229071129|ref|ZP_04204355.1| Helix-turn-helix domain protein [Bacillus cereus F65185]
 gi|228712069|gb|EEL64018.1| Helix-turn-helix domain protein [Bacillus cereus F65185]
          Length = 277

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 19 GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 78

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 79 ETAEQSNE 86


>gi|255598541|ref|XP_002537032.1| conserved hypothetical protein [Ricinus communis]
 gi|223517747|gb|EEF25351.1| conserved hypothetical protein [Ricinus communis]
          Length = 318

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 30/117 (25%), Positives = 50/117 (42%), Gaps = 4/117 (3%)

Query: 7   IPNPVD---INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
            P+P D   + + +R+R  R  +G+SQE +   LGI+   V   E G  +V A  L  +S
Sbjct: 2   TPDPTDEQRLLLAQRLREAREYVGLSQEDVATALGISRPAVTNIEAGTRKVEAVELDKLS 61

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN-RYFIQIDDVKVRQKI 119
           ++    + FF      V              +S  D  +L  R    +D+ + R +I
Sbjct: 62  QLYGKTVQFFLTGESNVQDTRVVFLARATHGLSDRDFEELGRRAAEVLDEFRARDRI 118


>gi|150390409|ref|YP_001320458.1| XRE family transcriptional regulator [Alkaliphilus
          metalliredigens QYMF]
 gi|149950271|gb|ABR48799.1| transcriptional regulator, XRE family [Alkaliphilus
          metalliredigens QYMF]
          Length = 179

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 35/65 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++IR  R++  ++Q++L +   +T   + K E+ +     + L  I E L   ++ 
Sbjct: 1  MDIGEKIRRLRILNELTQDELAQRCDLTKGFISKIERNITSPSIATLMDILEALGIDVNK 60

Query: 73 FFDVS 77
          FF+  
Sbjct: 61 FFNED 65


>gi|172057738|ref|YP_001814198.1| XRE family transcriptional regulator [Exiguobacterium sibiricum
          255-15]
 gi|171990259|gb|ACB61181.1| transcriptional regulator, XRE family [Exiguobacterium sibiricum
          255-15]
          Length = 292

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 24/86 (27%), Positives = 40/86 (46%), Gaps = 7/86 (8%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K +P+     +G  I+  R    M+Q++L + +  +  ++ K E G N      LQ IS+
Sbjct: 3  KSLPH----MIGNEIKRIRKEKKMTQKELCDGI-CSQAEISKIENGRNSPTIDLLQQISK 57

Query: 65 VLESPISFFFDVSPTVCSDISSEENN 90
           L  P+S  F     + SD   E +N
Sbjct: 58 RLRVPLSLLF--RDQLESDAFREADN 81


>gi|319947404|ref|ZP_08021636.1| DNA-binding protein [Streptococcus australis ATCC 700641]
 gi|319746344|gb|EFV98605.1| DNA-binding protein [Streptococcus australis ATCC 700641]
          Length = 197

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 35/79 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VGK+I+  R    +SQ++L E + ++ Q +  +E+G        L  +S+V E  +  
Sbjct: 1  MQVGKQIQHYRKEKNLSQDELAEIIFVSRQSISNWERGATYPDIQNLLLLSKVFEVSLDK 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                     I  ++  +
Sbjct: 61 LVKGDLETMKQIIHDQEFM 79


>gi|294790815|ref|ZP_06755973.1| DNA-binding protein [Scardovia inopinata F0304]
 gi|294458712|gb|EFG27065.1| DNA-binding protein [Scardovia inopinata F0304]
          Length = 373

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G+ I   R   G++QE+L E LG++   V K+E G +      L  I+   +  +  
Sbjct: 4  IQIGRNISQLRREKGITQEELAEYLGVSKPAVSKWESGQSYPDILLLPIIASYFDKTVDD 63

Query: 73 FFDVSPTVCSD 83
               P + ++
Sbjct: 64 LLGYQPQMTAE 74


>gi|322418045|ref|YP_004197268.1| helix-turn-helix domain-containing protein [Geobacter sp. M18]
 gi|320124432|gb|ADW11992.1| helix-turn-helix domain protein [Geobacter sp. M18]
          Length = 106

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 38/75 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R    +SQE+L E +G+  +Q+ + E G +      L+ I++ L+  +    
Sbjct: 8  LGMRIREVRKARHLSQERLAEKVGVEPKQISRIEGGKSAPSLDTLEAIAKHLQVQMKDLL 67

Query: 75 DVSPTVCSDISSEEN 89
          D    V  + ++++ 
Sbjct: 68 DFQHLVPEETAADQA 82


>gi|253987940|ref|YP_003039296.1| transcription regulator [Photorhabdus asymbiotica subsp.
          asymbiotica ATCC 43949]
 gi|253779390|emb|CAQ82551.1| similar to transcription regulator and to restriction enzyme
          control elements [Photorhabdus asymbiotica]
          Length = 78

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 22/75 (29%), Positives = 34/75 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN +    G+R+R  RM  GMSQE   +  G+    +   E+GV       +  I+  
Sbjct: 2  KKPNNIKSLFGQRVRYIRMASGMSQEAFADRCGLDRTYISGIERGVRNPTLEVINVIASG 61

Query: 66 LESPISFFFDVSPTV 80
          L+  +   FD S + 
Sbjct: 62 LQIELKDLFDFSSSQ 76


>gi|254477298|ref|ZP_05090684.1| transcriptional regulator, XRE family [Ruegeria sp. R11]
 gi|214031541|gb|EEB72376.1| transcriptional regulator, XRE family [Ruegeria sp. R11]
          Length = 437

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 33/81 (40%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G RIR RR++LG+ Q +L   + I+   +   E    R+G   L  ++ VL    S
Sbjct: 4  DTLTGSRIRERRLMLGLRQAELARQVDISASYLNLIEHNRRRIGGKLLVDLARVLAVEPS 63

Query: 72 FFFDVSPTVCSDISSEENNVM 92
             + +         E    +
Sbjct: 64 MLTEGAEVALLSTLREAAAAL 84


>gi|145298596|ref|YP_001141437.1| phage repressor [Aeromonas salmonicida subsp. salmonicida A449]
 gi|142851368|gb|ABO89689.1| phage repressor [Aeromonas salmonicida subsp. salmonicida A449]
          Length = 227

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 34/79 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +  RI  RR  L +S+  L + +G++   V K+E G+N+     L  ++  L   + +
Sbjct: 1  MTISDRIFSRRTALNLSKTALAKAIGVSDVSVGKWESGLNQPKGRYLNDLAAALGVTVDW 60

Query: 73 FFDVSPTVCSDISSEENNV 91
              S           +NV
Sbjct: 61 LLAGSGDGPEQPIPGYHNV 79


>gi|118445204|ref|YP_891173.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|196047678|ref|ZP_03114883.1| transcriptional regulator [Bacillus cereus 03BB108]
 gi|118419765|gb|ABK88183.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|196021503|gb|EDX60205.1| transcriptional regulator [Bacillus cereus 03BB108]
          Length = 116

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 42/89 (47%), Gaps = 6/89 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    M+QE+LG+ +G++   +  +EKG    G   L+ I++       +  
Sbjct: 2  IGEKIKELRKNSKMTQEQLGDAIGVSKMAISYFEKGKKSPGRESLEKIADYFGVTTDYLL 61

Query: 75 ------DVSPTVCSDISSEENNVMDFIST 97
                +++      +S E  N++  I +
Sbjct: 62 GRSEDPELNEEEDKTVSEEGKNILAIIES 90


>gi|2444013|gb|AAB71491.1| ORF6 [Bacillus pumilus]
          Length = 211

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 32/58 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++G  I  +R  L +SQE + E LG++ Q + K+E   +      L  ++E+ +S I
Sbjct: 2  MSLGSNISNKRKSLKLSQEYVAEQLGVSRQAISKWETNQSEPSMDNLIRLAELFDSDI 59


>gi|312866496|ref|ZP_07726714.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
 gi|311098190|gb|EFQ56416.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
          Length = 230

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 38/81 (46%), Gaps = 3/81 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--- 73
          ++++ RR  LG+SQ  +   LGI+      +E G  +        +S++L+   S+F   
Sbjct: 5  EKLKNRRKELGLSQADVARQLGISRPSYFNWENGKTKPNQKNWTKLSKILQVNPSYFLSE 64

Query: 74 FDVSPTVCSDISSEENNVMDF 94
          +++  T      S +   +DF
Sbjct: 65 YEIVETYVQLNKSNKKKTVDF 85


>gi|196037154|ref|ZP_03104469.1| transcriptional regulator [Bacillus cereus W]
 gi|195990258|gb|EDX54311.1| transcriptional regulator [Bacillus cereus W]
          Length = 116

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 25/120 (20%), Positives = 53/120 (44%), Gaps = 22/120 (18%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I+  R    ++QE+LG  +G++   +  +EKG    G   L+ I++       +  
Sbjct: 2   IGEKIKELRKNNKITQEQLGNAIGVSKMAISYFEKGKKSPGRESLEKIADYFNVTTDYL- 60

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            +  +   ++S EEN ++    T +G                + I+ L+ S+   E+K  
Sbjct: 61  -LGRSEDPELSEEENKIV----TEEG----------------KNIMALIESLPEEERKKA 99


>gi|163939634|ref|YP_001644518.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
           KBAB4]
 gi|229132657|ref|ZP_04261504.1| Transcriptional regulator, MerR [Bacillus cereus BDRD-ST196]
 gi|229166679|ref|ZP_04294429.1| Transcriptional regulator, MerR [Bacillus cereus AH621]
 gi|163861831|gb|ABY42890.1| transcriptional regulator, XRE family [Bacillus weihenstephanensis
           KBAB4]
 gi|228616676|gb|EEK73751.1| Transcriptional regulator, MerR [Bacillus cereus AH621]
 gi|228650784|gb|EEL06772.1| Transcriptional regulator, MerR [Bacillus cereus BDRD-ST196]
          Length = 181

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 47/110 (42%), Gaps = 8/110 (7%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
           +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3   NIDIGKKIEKQRKEKGLTSKELAKMAEITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71  SFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDV 113
           SF  + + T    + S        +N   + +S      L    + I   
Sbjct: 63  SFLLEENNTDDLIVRSHKRKKMIIDNLSYELLSPDFTGNLATAIMTIPPN 112


>gi|262046886|ref|ZP_06019846.1| predicted protein [Lactobacillus crispatus MV-3A-US]
 gi|260572868|gb|EEX29428.1| predicted protein [Lactobacillus crispatus MV-3A-US]
          Length = 74

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 28/58 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GKR+   R    ++Q +L E +G +   + +YE G++     RL  I+  L   + + 
Sbjct: 10 GKRLMRARKNRQLTQVQLAERIGASTTTISRYENGLSFPSKRRLSEIAHFLGVKVDWL 67


>gi|229164709|ref|ZP_04292573.1| Helix-turn-helix/TPR domain protein [Bacillus cereus R309803]
 gi|228618789|gb|EEK75751.1| Helix-turn-helix/TPR domain protein [Bacillus cereus R309803]
          Length = 421

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 8/91 (8%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R    ++QEKL + + IT   + + EKG+ +     L+ +S  L   +  FF
Sbjct: 2  LGQRIKELRKQKKLTQEKLADGI-ITRSYLSQIEKGLIQPSYEVLEALSNKLNCSVEDFF 60

Query: 75 DV-------SPTVCSDISSEENNVMDFISTP 98
          DV          +  DI + EN+    +   
Sbjct: 61 DVVENKELTLSQIKKDIKAAENHTTANLWDK 91


>gi|222033322|emb|CAP76062.1| hypothetical protein LF82_280 [Escherichia coli LF82]
          Length = 381

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R+   R   G++  +L   L I+ Q +  +EKG+    A  L  I++VL  P  FF
Sbjct: 18 RRLEEAREAKGLTMAELARVLNISRQAISSFEKGLKSPSADTLSAIAKVLGFPERFF 74


>gi|218134985|ref|ZP_03463789.1| hypothetical protein BACPEC_02890 [Bacteroides pectinophilus ATCC
          43243]
 gi|217990370|gb|EEC56381.1| hypothetical protein BACPEC_02890 [Bacteroides pectinophilus ATCC
          43243]
          Length = 368

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 27/65 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I   R   G SQE+L E LG++ Q V KYE   +     ++  +SE+      +     
Sbjct: 6  KIINLRKKNGWSQEELAERLGVSRQSVSKYEGAQSVPDLDKILKLSEIFGVTTDYLIKDD 65

Query: 78 PTVCS 82
               
Sbjct: 66 IEEEQ 70


>gi|50122325|ref|YP_051492.1| putative phage regulatory protein [Pectobacterium atrosepticum
          SCRI1043]
 gi|49612851|emb|CAG76301.1| putative phage regulatory protein [Pectobacterium atrosepticum
          SCRI1043]
          Length = 136

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 31/56 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKRI   R   GM+Q ++ + L ++ Q VQ +E G  R+  S L  ++ VL   +
Sbjct: 29 LGKRITALRKEAGMTQTQVAQALNVSQQAVQAWEAGRRRIQISILPAVARVLSVSL 84


>gi|210620995|ref|ZP_03292380.1| hypothetical protein CLOHIR_00323 [Clostridium hiranonis DSM
          13275]
 gi|210154979|gb|EEA85985.1| hypothetical protein CLOHIR_00323 [Clostridium hiranonis DSM
          13275]
          Length = 362

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 21/76 (27%), Positives = 44/76 (57%), Gaps = 4/76 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ + I+ +R  L ++QE+L   LG++   V K+E G +    + L +++++L++ I+ 
Sbjct: 1  MNINQIIKEKRKALSLTQEQLANQLGVSTPAVSKWESGASYPDITILPNLAKILKTDINT 60

Query: 73 FFDVSPTVCSDISSEE 88
                +  SD+S EE
Sbjct: 61 LL----SFQSDLSDEE 72


>gi|126699176|ref|YP_001088073.1| putative transcriptional regulator [Clostridium difficile 630]
 gi|115250613|emb|CAJ68437.1| Transcriptional regulator, HTH-type [Clostridium difficile]
          Length = 404

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I +GK I+  R    ++QE+L + +G++   V K+E G +      L  +++     I 
Sbjct: 3  IKIGKVIQRLRKERNLTQEQLAKFIGVSTPAVSKWESGNSYPDIELLPLLADFFNVSID 61


>gi|90417956|ref|ZP_01225868.1| conserved hypothetical protein with helix turn helix motif
          [Aurantimonas manganoxydans SI85-9A1]
 gi|90337628|gb|EAS51279.1| conserved hypothetical protein with helix turn helix motif
          [Aurantimonas manganoxydans SI85-9A1]
          Length = 193

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 37/77 (48%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          ++ N V  +VG+++R  R +  +S ++L   +G +   + K E G      + L+ + + 
Sbjct: 3  QMRNSVPQDVGRKLRHMRNLHNLSLKQLAATVGCSESMLSKVETGRVNPTLTMLRKLVDA 62

Query: 66 LESPISFFFDVSPTVCS 82
          L   I+F F+      +
Sbjct: 63 LGINIAFLFEPQDEDAA 79


>gi|75762322|ref|ZP_00742202.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|218897473|ref|YP_002445884.1| DNA-binding protein [Bacillus cereus G9842]
 gi|228904512|ref|ZP_04068598.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 4222]
 gi|74490185|gb|EAO53521.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|218544400|gb|ACK96794.1| DNA-binding protein [Bacillus cereus G9842]
 gi|228855117|gb|EEM99690.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 4222]
          Length = 184

 Score = 60.6 bits (146), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 6/77 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  NINVGQKIMAFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 72 FFFDVSPTVCSDISSEE 88
           FF        D S+EE
Sbjct: 63 NFF------LEDTSTEE 73


>gi|322385351|ref|ZP_08058996.1| transcriptional regulator [Streptococcus cristatus ATCC 51100]
 gi|321270610|gb|EFX53525.1| transcriptional regulator [Streptococcus cristatus ATCC 51100]
          Length = 227

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 28/56 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +++ +R   G+SQ +L   LGI+      +E G  +   + L  +S++L     +F
Sbjct: 6  KLKEKRESQGLSQSQLASSLGISRASYFNWESGKTKPNQNNLTKLSQILNVDPRYF 61


>gi|293570008|ref|ZP_06681088.1| transcriptional regulator, putative [Enterococcus faecium E1071]
 gi|291587380|gb|EFF19264.1| transcriptional regulator, putative [Enterococcus faecium E1071]
          Length = 154

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 29/61 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R    ++QE+L   L ++ Q +  +E+G ++     L  ++   +  +S+  D 
Sbjct: 3  NRLRNLRKKNNLTQEELSLQLKVSRQTISNWERGFSQPDLENLHLLASFFKVTVSYLIDG 62

Query: 77 S 77
           
Sbjct: 63 D 63


>gi|225869607|ref|YP_002745554.1| phage repressor protein [Streptococcus equi subsp. equi 4047]
 gi|225699011|emb|CAW92101.1| phage repressor protein [Streptococcus equi subsp. equi 4047]
          Length = 248

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 42/68 (61%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPIS 71
          +++G +++ RR+ + +S E+L + LG++   + +YEKG   +V    L+ IS++L +  +
Sbjct: 1  MDIGAKLKQRRLEVNVSVEELAKKLGVSKTTIYRYEKGEILKVPTEVLEKISKILNTNPA 60

Query: 72 FFFDVSPT 79
          +F   S T
Sbjct: 61 YFMGWSDT 68


>gi|332522412|ref|ZP_08398664.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
          Jelinkova 176]
 gi|332313676|gb|EGJ26661.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
          Jelinkova 176]
          Length = 232

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R++  RM    SQ +L   L I      K+E G +      L  ++ +L+ P ++F
Sbjct: 4  GSRLKELRMEKQYSQSELANLLKINRASYNKWESGKSVPNQKNLSALARILDVPTTYF 61


>gi|257439204|ref|ZP_05614959.1| toxin-antitoxin system, antitoxin component, Xre family
           [Faecalibacterium prausnitzii A2-165]
 gi|257198337|gb|EEU96621.1| toxin-antitoxin system, antitoxin component, Xre family
           [Faecalibacterium prausnitzii A2-165]
          Length = 95

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 35/87 (40%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI   R    +SQEKL E LG++   +   E+G +      L  I+E     + +  
Sbjct: 8   IGNRIFTLRTNAKLSQEKLAEKLGVSHHHLGDLERGSSNGSVKILIDIAEYFHVSMDYLL 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL 101
                  +   +E    +D +    GL
Sbjct: 68  LGRDPSRNQFQNELQAAIDHLEKIKGL 94


>gi|229084781|ref|ZP_04217041.1| Transcriptional regulator, MerR [Bacillus cereus Rock3-44]
 gi|228698528|gb|EEL51253.1| Transcriptional regulator, MerR [Bacillus cereus Rock3-44]
          Length = 181

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 42/93 (45%), Gaps = 1/93 (1%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +I++GK+I  +R   G+S ++L     IT   + + E+G        L+ +++ L+ P +
Sbjct: 3   NIDIGKKIEKQRKAKGLSSKELANMAEITPSMLSQIERGSANPSIQTLKVLAKALDVP-T 61

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           F F +  T   D+    N     I      +L 
Sbjct: 62  FSFLLEETNTDDLIVRSNKRKKMIIDNLSYELL 94


>gi|257792570|ref|YP_003183176.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|325832727|ref|ZP_08165490.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|257476467|gb|ACV56787.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|325485866|gb|EGC88327.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 176

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG+++   R   GMSQ+++   LG+T Q V  +E         +   ++ +    +   
Sbjct: 2  VGEKLMKLRKKRGMSQQEVASALGVTRQTVSNWECDQGAPSLDKAADLARLYGVSLDDL 60


>gi|224538182|ref|ZP_03678721.1| hypothetical protein BACCELL_03073 [Bacteroides cellulosilyticus
          DSM 14838]
 gi|224520204|gb|EEF89309.1| hypothetical protein BACCELL_03073 [Bacteroides cellulosilyticus
          DSM 14838]
          Length = 70

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 2/70 (2%)

Query: 7  IPNPVDI--NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          + N  D+  N+GK I  RR  LG++QE L     +    +   E G   +  S L  I+ 
Sbjct: 1  MVNETDVLNNIGKIIIQRRKELGITQEDLAYSANVDRTYIGYIENGKQNISISILCKIAN 60

Query: 65 VLESPISFFF 74
          VL   +  FF
Sbjct: 61 VLNLNMKDFF 70


>gi|254284054|ref|ZP_04959022.1| transcriptional regulator, XRE family [gamma proteobacterium
          NOR51-B]
 gi|219680257|gb|EED36606.1| transcriptional regulator, XRE family [gamma proteobacterium
          NOR51-B]
          Length = 219

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 31/63 (49%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D ++G  IR  R   GM+  +L +   ++   + + E+G++      L  IS  L   IS
Sbjct: 35 DRSLGLDIRDLRKARGMTLSELSKISELSQGYLSQVERGISVPSIKALHSISRALGVTIS 94

Query: 72 FFF 74
          +FF
Sbjct: 95 WFF 97


>gi|169823920|ref|YP_001691531.1| putative transcriptional regulator [Finegoldia magna ATCC 29328]
 gi|302379963|ref|ZP_07268442.1| toxin-antitoxin system, antitoxin component, Xre family
          [Finegoldia magna ACS-171-V-Col3]
 gi|303234408|ref|ZP_07321047.1| toxin-antitoxin system, antitoxin component, Xre family
          [Finegoldia magna BVS033A4]
 gi|167830725|dbj|BAG07641.1| putative transcriptional regulator [Finegoldia magna ATCC 29328]
 gi|302312189|gb|EFK94191.1| toxin-antitoxin system, antitoxin component, Xre family
          [Finegoldia magna ACS-171-V-Col3]
 gi|302494524|gb|EFL54291.1| toxin-antitoxin system, antitoxin component, Xre family
          [Finegoldia magna BVS033A4]
          Length = 134

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 33/74 (44%), Gaps = 1/74 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ-HISEVLESPIS 71
          ++ G +++  R   G++Q +L + LG+T + +  YE    R     +   I+E     I+
Sbjct: 1  MSFGSKLKQLREDRGLTQTELADKLGVTLKTISNYETKGTRPRTQDMYKKIAEFFNVDIN 60

Query: 72 FFFDVSPTVCSDIS 85
          F   V      D +
Sbjct: 61 FLLTVEDNFVLDSA 74


>gi|293418613|ref|ZP_06661048.1| regulatory protein CI bacteriophage origin [Escherichia coli
          B088]
 gi|291325141|gb|EFE64556.1| regulatory protein CI bacteriophage origin [Escherichia coli
          B088]
          Length = 251

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R+  G++Q+ LG+ +G++   +QK E G      +++  I+  L     + 
Sbjct: 27 LSERLKEARLARGLTQKALGDLVGVSQAAIQKIETGKAN-QTTKIVEIANALGVRAEWL 84


>gi|289640577|ref|ZP_06472749.1| transcriptional regulator, XRE family [Frankia symbiont of
          Datisca glomerata]
 gi|289509466|gb|EFD30393.1| transcriptional regulator, XRE family [Frankia symbiont of
          Datisca glomerata]
          Length = 202

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR RR  LG+SQ  L +  G+  +Q+++YE G  +   S    I++ L   ++
Sbjct: 5  IRQRRAELGISQVDLAKAAGVDKRQIRRYEAGEQQPVLSVAVAIAKALGISVA 57


>gi|229059476|ref|ZP_04196859.1| Transcriptional regulator, MerR [Bacillus cereus AH603]
 gi|228719842|gb|EEL71434.1| Transcriptional regulator, MerR [Bacillus cereus AH603]
          Length = 181

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 47/110 (42%), Gaps = 8/110 (7%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
           +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3   NIDIGKKIEKQRKEKGLTSKELAKMAEITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71  SFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDV 113
           SF  + + T    + S        +N   + +S      L    + I   
Sbjct: 63  SFLLEENNTDDLIVRSHKRKKMIIDNLSYELLSPDFTGNLATAIMTIPPN 112


>gi|282599559|ref|ZP_05970999.2| transcriptional regulator, Cro/CI family [Providencia rustigianii
          DSM 4541]
 gi|282568492|gb|EFB74027.1| transcriptional regulator, Cro/CI family [Providencia rustigianii
          DSM 4541]
          Length = 233

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 32/63 (50%), Gaps = 1/63 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++ KR+   R+  GMSQ  L E +G++ Q +QK E G       R+  I++ +    
Sbjct: 4  ITMSIAKRLLDARIKAGMSQADLAEKVGVSQQSIQKIEAGQTN-SPRRISDIAKAVNVSA 62

Query: 71 SFF 73
           + 
Sbjct: 63 QWL 65


>gi|16802848|ref|NP_464333.1| hypothetical protein lmo0806 [Listeria monocytogenes EGD-e]
 gi|224499672|ref|ZP_03668021.1| hypothetical protein LmonF1_08239 [Listeria monocytogenes Finland
          1988]
 gi|224501890|ref|ZP_03670197.1| hypothetical protein LmonFR_05157 [Listeria monocytogenes FSL
          R2-561]
 gi|254830206|ref|ZP_05234861.1| hypothetical protein Lmon1_02557 [Listeria monocytogenes 10403S]
 gi|254899023|ref|ZP_05258947.1| hypothetical protein LmonJ_04380 [Listeria monocytogenes J0161]
 gi|254911489|ref|ZP_05261501.1| DNA-binding protein [Listeria monocytogenes J2818]
 gi|254935815|ref|ZP_05267512.1| DNA-binding protein [Listeria monocytogenes F6900]
 gi|255026637|ref|ZP_05298623.1| hypothetical protein LmonocytFSL_10420 [Listeria monocytogenes
          FSL J2-003]
 gi|284801136|ref|YP_003413001.1| hypothetical protein LM5578_0885 [Listeria monocytogenes 08-5578]
 gi|284994278|ref|YP_003416046.1| hypothetical protein LM5923_0840 [Listeria monocytogenes 08-5923]
 gi|16410195|emb|CAC98884.1| lmo0806 [Listeria monocytogenes EGD-e]
 gi|258608402|gb|EEW21010.1| DNA-binding protein [Listeria monocytogenes F6900]
 gi|284056698|gb|ADB67639.1| hypothetical protein LM5578_0885 [Listeria monocytogenes 08-5578]
 gi|284059745|gb|ADB70684.1| hypothetical protein LM5923_0840 [Listeria monocytogenes 08-5923]
 gi|293589432|gb|EFF97766.1| DNA-binding protein [Listeria monocytogenes J2818]
          Length = 180

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 36/75 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|332638410|ref|ZP_08417273.1| helix-turn-helix domain-containing protein [Weissella cibaria KACC
           11862]
          Length = 182

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 20/108 (18%), Positives = 40/108 (37%), Gaps = 4/108 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+   R    ++ +++    G++   +   E+         L  IS  L  PI++FF
Sbjct: 6   VGTRLLTLRQQRQLTLQEVSTLTGVSTASLNNIERHTTSPSIDTLWKISSGLAVPINYFF 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
              P       +   +  +  S   G+ +   F  I       ++ +L
Sbjct: 66  ATDPVDFE--LARPADFHNIASEDAGVVVQSVFNSIASNNF--EVFDL 109


>gi|302388655|ref|YP_003824476.1| helix-turn-helix domain protein [Thermosediminibacter oceani DSM
           16646]
 gi|302199283|gb|ADL06853.1| helix-turn-helix domain protein [Thermosediminibacter oceani DSM
           16646]
          Length = 257

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 18/94 (19%), Positives = 36/94 (38%), Gaps = 4/94 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +VG +I+  R   G++Q +L +  G++   + + E G        L+ I+  L     +F
Sbjct: 139 HVGYKIKKIRQERGLTQVELAKKAGVSTGLIGQIESGRVEPSLKTLEKIAHALSLSPCYF 198

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
                 + S +      +   +  P      R F
Sbjct: 199 VTDDDEIASLLRPMNPELKRLLVDPK----VRSF 228



 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 29/54 (53%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            ++G++I L R   G+S  +L E  GI+   + + EKG      S L+ ++E L
Sbjct: 73  RSIGEKIALLRQEKGISLSELAEKAGISATYLCQIEKGNALPSLSTLKALAEAL 126



 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/88 (19%), Positives = 35/88 (39%), Gaps = 1/88 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK IR  R    MS ++L     ++   + + E+G+ +     ++ ++  L    +  F 
Sbjct: 4   GKLIRNIRRKRNMSLQELARRADLSVSYLSEIERGIKQPSLETIEKMANALNISKNALFG 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQL 103
             PT   + S      +  +    G+ L
Sbjct: 64  AEPTENRN-SRSIGEKIALLRQEKGISL 90


>gi|257892810|ref|ZP_05672463.1| predicted protein [Enterococcus faecium 1,231,408]
 gi|257829189|gb|EEV55796.1| predicted protein [Enterococcus faecium 1,231,408]
          Length = 163

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 40/94 (42%), Gaps = 9/94 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           K+++  R   G +QE+L + L IT Q V  +E G +      +  ++++    +S F   
Sbjct: 21  KKLKQLRKEHGHTQEELAKKLAITRQTVSNWENGRSFPDHENVYCLAKLYGQTLSIFLPD 80

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
            P                  + + +QL R+FI +
Sbjct: 81  LPEAPMKAEE---------ISSERIQLIRFFICL 105


>gi|257886598|ref|ZP_05666251.1| predicted protein [Enterococcus faecium 1,141,733]
 gi|257822652|gb|EEV49584.1| predicted protein [Enterococcus faecium 1,141,733]
          Length = 149

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 40/94 (42%), Gaps = 9/94 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           K+++  R   G +QE+L + L IT Q V  +E G +      +  ++++    +S F   
Sbjct: 7   KKLKQLRKEHGHTQEELAKKLAITRQTVSNWENGRSFPDHENVYCLAKLYGQTLSIFLPD 66

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
            P                  + + +QL R+FI +
Sbjct: 67  LPEAPMKAEE---------ISSERIQLIRFFICL 91


>gi|238921784|ref|YP_002935298.1| hypothetical protein EUBELI_20017 [Eubacterium eligens ATCC 27750]
 gi|238873456|gb|ACR73164.1| Hypothetical protein EUBELI_20017 [Eubacterium eligens ATCC 27750]
          Length = 177

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/94 (18%), Positives = 39/94 (41%), Gaps = 1/94 (1%)

Query: 9   NPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           N +D   +G  ++  R    ++QE+L E + ++ + V ++E G N    S L  +++  +
Sbjct: 5   NSMDQKKIGSFLKELRKEKDITQEQLAEKIKVSGRTVSRWETGSNMPDISLLAQLADFYD 64

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
             I    D      +     +  V+      + +
Sbjct: 65  VSIPEIIDGERKSENMNEEVKETVLKLSDYTETI 98


>gi|228918176|ref|ZP_04081680.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
 gi|228841456|gb|EEM86595.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
          Length = 184

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 42/84 (50%), Gaps = 1/84 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  NINVGQKIMAFRKNAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          +FF + + T    + + +   + F
Sbjct: 63 NFFLEDTNTEELVVRANQRKKITF 86


>gi|77464338|ref|YP_353842.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
           2.4.1]
 gi|126463181|ref|YP_001044295.1| helix-turn-helix domain-containing protein [Rhodobacter sphaeroides
           ATCC 17029]
 gi|221640224|ref|YP_002526486.1| Helix-turn-helix domain-containing protein [Rhodobacter sphaeroides
           KD131]
 gi|332559230|ref|ZP_08413552.1| Helix-turn-helix domain protein [Rhodobacter sphaeroides WS8N]
 gi|77388756|gb|ABA79941.1| transcriptional regulator, XRE family [Rhodobacter sphaeroides
           2.4.1]
 gi|126104845|gb|ABN77523.1| helix-turn-helix domain protein [Rhodobacter sphaeroides ATCC
           17029]
 gi|221161005|gb|ACM01985.1| Helix-turn-helix domain protein [Rhodobacter sphaeroides KD131]
 gi|332276942|gb|EGJ22257.1| Helix-turn-helix domain protein [Rhodobacter sphaeroides WS8N]
          Length = 132

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 24/124 (19%), Positives = 52/124 (41%), Gaps = 11/124 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R   G++QE++   LG+  + +Q +E  +    A+RLQ ++ +L   + +   
Sbjct: 17  GDRLAGAREAAGLTQEEMARRLGVRLKTLQSWEDDLAEPRANRLQMMAGMLNVSLRWLLT 76

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                    S         I T +G +      +     +R +++ L + +   EK+ R 
Sbjct: 77  GEGEGAEGPSEPA------ILTSEGREALAELAR-----MRTQMLALAQEMGQLEKRMRA 125

Query: 136 IEEE 139
           +  +
Sbjct: 126 LLRK 129


>gi|208742303|ref|YP_002267755.1| transcriptional regulator [Bacillus cereus]
          Length = 66

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R+ L MSQ  L   +G+  + +   E G           I++VL++PI   F
Sbjct: 6  RMKEYRVKLNMSQGDLANKVGVRRETIGNLENGKYNPSLKLAYDIAKVLKAPIEVLF 62


>gi|170754766|ref|YP_001780468.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
 gi|169119978|gb|ACA43814.1| HTH domain protein [Clostridium botulinum B1 str. Okra]
          Length = 381

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 34/71 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+GK I  +R   G++QE+L   +G++   V K+E G++      L  ++      +  
Sbjct: 4  LNIGKCIIHKRKEKGITQEQLANYIGVSKASVSKWESGLSYPDILLLPELATYFNISVDE 63

Query: 73 FFDVSPTVCSD 83
              SP +  +
Sbjct: 64 LLGYSPQLTKE 74


>gi|89897113|ref|YP_520600.1| hypothetical protein DSY4367 [Desulfitobacterium hafniense Y51]
 gi|89336561|dbj|BAE86156.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 75

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 29/55 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          K I   R   G++QE+L   LG+TFQ V K+E        + L  +S++L+  I 
Sbjct: 3  KNICRYRKEKGLTQEELARKLGVTFQAVSKWETAQTLPDITLLPGLSQLLDISID 57


>gi|297587137|ref|ZP_06945782.1| XRE family transcriptional regulator [Finegoldia magna ATCC
          53516]
 gi|297575118|gb|EFH93837.1| XRE family transcriptional regulator [Finegoldia magna ATCC
          53516]
          Length = 134

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 33/74 (44%), Gaps = 1/74 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ-HISEVLESPIS 71
          ++ G +++  R   G++Q +L + LG+T + +  YE    R     +   I+E     I+
Sbjct: 1  MSFGAKLKQLREDRGLTQTELADKLGVTLKTISNYETKGTRPRTQDMYKKIAEFFNVDIN 60

Query: 72 FFFDVSPTVCSDIS 85
          F   V      D +
Sbjct: 61 FLLTVEDNFVLDSA 74


>gi|210630657|ref|ZP_03296539.1| hypothetical protein COLSTE_00424 [Collinsella stercoris DSM 13279]
 gi|210160390|gb|EEA91361.1| hypothetical protein COLSTE_00424 [Collinsella stercoris DSM 13279]
          Length = 152

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 1/90 (1%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D+  G RIR  R   G+ Q +L E  G+T   V+ YE G+       L+ I+  LE   +
Sbjct: 11  DMADGSRIRELRTRRGLLQRELAEMAGVTESAVRNYELGLRTPRPQHLKAIARALEVDPA 70

Query: 72  FFFDVSPTVCSDISSEENNVMD-FISTPDG 100
              D       D       + + F +TP+ 
Sbjct: 71  SLVDYGVDTARDALEVLFRLEEGFGATPEA 100


>gi|332971256|gb|EGK10219.1| transcriptional regulator with an addtional conserved domain
          protein [Desmospora sp. 8437]
          Length = 386

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 31/67 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R  R   G++ ++L E +G++ Q + KYE G         Q +   L  PI FF+  
Sbjct: 13 ERLREGREARGLTIQELSERVGVSHQSISKYENGKAVPSGMVFQKLLFTLNLPIHFFYKP 72

Query: 77 SPTVCSD 83
                D
Sbjct: 73 IHRGIED 79


>gi|329725199|gb|EGG61688.1| DNA-binding helix-turn-helix protein [Staphylococcus aureus
          subsp. aureus 21172]
          Length = 179

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 36/81 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R I  ++QE+L E   ++   + + E            +I EVL +  S 
Sbjct: 1  MNIGNKIKNLRRIKNLTQEELAERTDLSKGYISQIESEHASPSMETFLNIIEVLGTTPSE 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF+ S         EE  + D
Sbjct: 61 FFEDSENEKVLYKKEEQVIYD 81


>gi|323494352|ref|ZP_08099464.1| transcriptional regulator, XRE family protein [Vibrio brasiliensis
           LMG 20546]
 gi|323311515|gb|EGA64667.1| transcriptional regulator, XRE family protein [Vibrio brasiliensis
           LMG 20546]
          Length = 180

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 23/108 (21%), Positives = 46/108 (42%), Gaps = 12/108 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VGK+++  R + G+SQ +L +  G+T   + + E+ +       L+ I + +   +  
Sbjct: 1   MDVGKQLKTIRTMRGLSQRELAKRSGVTNSMISQIEQNLVNPSVGSLKKILDAIPISMGE 60

Query: 73  FFDVSPTVCSDISSEENNVMDF----------ISTPDGLQLN--RYFI 108
           FF +      DI    + + D            +  +G QL   R F 
Sbjct: 61  FFTIEIEAKDDIFFTVDQMADLGDGKIKMLLVGAKREGRQLAILREFY 108


>gi|307273982|ref|ZP_07555192.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|306509290|gb|EFM78350.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
          Length = 111

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 3/84 (3%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR +R  LG +Q++L + +  T Q V ++E  V       L  +S  L +P+S F D   
Sbjct: 10  IREKRKALGWTQKELAKKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD--- 66

Query: 79  TVCSDISSEENNVMDFISTPDGLQ 102
            V  D   E   +   +ST D ++
Sbjct: 67  NVVVDYEEEFLALYRSLSTEDAIR 90


>gi|229189224|ref|ZP_04316248.1| hypothetical protein bcere0002_9080 [Bacillus cereus ATCC 10876]
 gi|228594268|gb|EEK52063.1| hypothetical protein bcere0002_9080 [Bacillus cereus ATCC 10876]
          Length = 149

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E L ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKLHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRG 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|160894107|ref|ZP_02074885.1| hypothetical protein CLOL250_01661 [Clostridium sp. L2-50]
 gi|156864140|gb|EDO57571.1| hypothetical protein CLOL250_01661 [Clostridium sp. L2-50]
          Length = 313

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 35/75 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++  R    ++QE+L E  G++ + V ++E G+N    S L  ++E  +  +    
Sbjct: 6  IGAFLKQCRKEKNLTQEQLAEKFGVSARTVSRWETGINMPDLSILVQLAEYYDVEMRELL 65

Query: 75 DVSPTVCSDISSEEN 89
          D   +   +   +E 
Sbjct: 66 DGERSQTMNKEMKET 80


>gi|148807463|gb|ABR13534.1| phage-related DNA-binding protein [Pseudomonas aeruginosa]
          Length = 400

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +R++  R   G++QE L E +G +   + K+E G +   A     I E      S+  +
Sbjct: 11 ERLKQLRSASGLTQEGLAELIGCSAGNISKWETGSSYPTAPSFHKICEFFGVSESWLLE 69


>gi|327490617|gb|EGF22398.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1058]
 gi|328945826|gb|EGG39977.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1087]
          Length = 205

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 30/70 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R   G+SQE L +  G++ Q V K+E   +     ++  +S+       +
Sbjct: 1  MNLSDRIQYLRKARGISQEGLADQFGVSRQAVSKWESEQSMPDLDKIISMSDYFAVTTDY 60

Query: 73 FFDVSPTVCS 82
                 V  
Sbjct: 61 LLKGIEPVVQ 70


>gi|291458792|ref|ZP_06598182.1| toxin-antitoxin system, antitoxin component, Xre family
          [Oribacterium sp. oral taxon 078 str. F0262]
 gi|291418709|gb|EFE92428.1| toxin-antitoxin system, antitoxin component, Xre family
          [Oribacterium sp. oral taxon 078 str. F0262]
          Length = 163

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RIR  RM  G++Q++LG  LG   +    ++ +YE G  +     ++ I+EVL+ 
Sbjct: 11 MTIGERIRRVRMQRGLTQKELGIALGFPERSADVRIAQYESGTRKPKDDLIRQIAEVLQV 70

Query: 69 PI 70
            
Sbjct: 71 NP 72


>gi|228953898|ref|ZP_04115937.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|228805866|gb|EEM52446.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
          Length = 277

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 19 GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 78

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 79 ETAEQSNE 86


>gi|261346677|ref|ZP_05974321.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282565383|gb|EFB70918.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 87

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 34/57 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G  +R  R+  G+S ++L   + ++ QQ+ +YE G+N++   +L  I+  L+  I+
Sbjct: 13 LGNHLRKARVSKGLSGQELAGIIQLSQQQISRYELGINKLSLDKLIEIAIFLDIDIN 69


>gi|193067699|ref|ZP_03048666.1| putative repressor protein [Escherichia coli E110019]
 gi|192959111|gb|EDV89547.1| putative repressor protein [Escherichia coli E110019]
          Length = 251

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R+  G++Q+ LG+ +G++   +QK E G      +++  I+  L     + 
Sbjct: 27 LSERLKEARLARGLTQKALGDLVGVSQAAIQKIETGKAN-QTTKIVEIANALGVRAEWL 84


>gi|188584668|ref|YP_001916213.1| transcriptional regulator, XRE family [Natranaerobius thermophilus
           JW/NM-WN-LF]
 gi|179349355|gb|ACB83625.1| transcriptional regulator, XRE family [Natranaerobius thermophilus
           JW/NM-WN-LF]
          Length = 435

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 43/96 (44%), Gaps = 6/96 (6%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G++I+  R    M+QE+L          + + EKG+ +     L  I++ L  P+S+F
Sbjct: 7   NIGQKIKRARYEKDMTQEELAGK-DFNRSFLSQIEKGLVKPSDRVLSIIADRLNLPLSYF 65

Query: 74  FDVSPTVCSD-----ISSEENNVMDFISTPDGLQLN 104
           ++       D       ++  N++      + L+L 
Sbjct: 66  YEPEDPDKDDEQAINALNKARNLIQSNKMDEALELI 101


>gi|126699511|ref|YP_001088408.1| putative phage repressor [Clostridium difficile 630]
 gi|255101028|ref|ZP_05330005.1| putative phage repressor [Clostridium difficile QCD-63q42]
 gi|115250948|emb|CAJ68776.1| Transcriptional regulator, Phage-type [Clostridium difficile]
          Length = 169

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 35/57 (61%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + + I+  R   G+SQ++L   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 2  LSENIKTIRKSKGLSQQELAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|315281473|ref|ZP_07870091.1| DNA-binding protein [Listeria marthii FSL S4-120]
 gi|313614873|gb|EFR88399.1| DNA-binding protein [Listeria marthii FSL S4-120]
          Length = 180

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 36/75 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|307277179|ref|ZP_07558283.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|306506109|gb|EFM75275.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|323481377|gb|ADX80816.1| helix-turn-helix family protein [Enterococcus faecalis 62]
          Length = 111

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          IR +R  LG +Q++L + +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 10 IREKRKALGWTQKELAKKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66


>gi|291526522|emb|CBK92109.1| Predicted transcriptional regulators [Eubacterium rectale DSM
          17629]
          Length = 190

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G  ++  R   G++QE+  E L ++ + V ++E GVN    S L  I+E     I
Sbjct: 6  IGSFLKELRKEKGITQEEFAENLNVSGRTVSRWETGVNMPDISLLVDIAEFFNVSI 61


>gi|291167009|gb|EFE29055.1| transcriptional regulator, Cro/CI family [Filifactor alocis ATCC
          35896]
          Length = 181

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 32/73 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++I   R   GMSQE+L   L ++ Q + ++E G  +   S +  +S+V      +  + 
Sbjct: 5  EKILALRKQYGMSQEELAGKLNVSRQAISRWEMGTAQPDVSNILQLSKVFCVTTDYLLND 64

Query: 77 SPTVCSDISSEEN 89
                  S +E 
Sbjct: 65 ECEQEIHRSEKET 77


>gi|260893514|ref|YP_003239611.1| transcriptional regulator, XRE family [Ammonifex degensii KC4]
 gi|260865655|gb|ACX52761.1| transcriptional regulator, XRE family [Ammonifex degensii KC4]
          Length = 256

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 15/83 (18%), Positives = 36/83 (43%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  R   G++Q +L    G+T   + + E+G  +     L+ I++ +     +F 
Sbjct: 139 LGARLRALREEYGLTQAQLAAMAGVTAGLIGQIEQGKVQPSLKTLEKIAQAMGVSPCYFL 198

Query: 75  DVSPTVCSDISSEENNVMDFIST 97
                    +S    ++ + ++ 
Sbjct: 199 IEPDASEQVLSMLNPDLRELLAD 221



 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/62 (35%), Positives = 34/62 (54%), Gaps = 1/62 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PIS 71
           INVG+RIRL R   G S ++L    GI+   + + E+G      S L+ ++E L   P++
Sbjct: 72  INVGERIRLLRTEKGWSLQELACRAGISASYLSEIERGTVYPSLSTLKRLAEELGVAPVT 131

Query: 72  FF 73
           F 
Sbjct: 132 FL 133



 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 24/54 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          G+RIR  R   GMS   L     I+   + + E+G  R     ++ +++ L   
Sbjct: 5  GERIRALREEKGMSLHDLARKAQISLSYLSEIERGTKRPSLRTIEKLAQALNVS 58


>gi|302878682|ref|YP_003847246.1| helix-turn-helix domain-containing protein [Gallionella
          capsiferriformans ES-2]
 gi|302581471|gb|ADL55482.1| helix-turn-helix domain protein [Gallionella capsiferriformans
          ES-2]
          Length = 124

 Score = 60.2 bits (145), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 35/71 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I  RR  L  +Q +L E +G+  + V ++E+G N     RL+ ++E L+ P+    
Sbjct: 16 LGANIAERRKKLNWTQAELAERIGVDTETVSRFERGSNLPSLHRLEKLAEALKIPLYKLV 75

Query: 75 DVSPTVCSDIS 85
            S     D S
Sbjct: 76 AASSPRHDDQS 86


>gi|317062103|ref|ZP_07926588.1| transcriptional regulator [Fusobacterium ulcerans ATCC 49185]
 gi|313687779|gb|EFS24614.1| transcriptional regulator [Fusobacterium ulcerans ATCC 49185]
          Length = 184

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 31/68 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R   G+S  +L   + ++   + + E+G        L+ I+  L+  +S+  
Sbjct: 5  IGERIKKSRNERGLSLRELASKVDLSASFLSQIEQGKASPSIENLKKIATSLDVKVSYLI 64

Query: 75 DVSPTVCS 82
          +      +
Sbjct: 65 EDEEETRN 72


>gi|268610635|ref|ZP_06144362.1| XRE family transcriptional regulator [Ruminococcus flavefaciens
          FD-1]
          Length = 223

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 32/55 (58%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+ I+  R  LGM+Q++L E + ++ + V K+E+G      S L  +++V  + I
Sbjct: 29 GQLIKRLRTELGMTQKQLAERINVSDKAVSKWERGNGCPDVSLLSALADVFGTDI 83


>gi|297191369|ref|ZP_06908767.1| UDP-N-acetylglucosamine transferase [Streptomyces
          pristinaespiralis ATCC 25486]
 gi|197720621|gb|EDY64529.1| UDP-N-acetylglucosamine transferase [Streptomyces
          pristinaespiralis ATCC 25486]
          Length = 509

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 31/64 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L
Sbjct: 1  MSDDYLVRIGKLIRDARQHRGWTQTQLAEALGTSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|168215895|ref|ZP_02641520.1| transcriptional regulator, Cro/CI family [Clostridium perfringens
           NCTC 8239]
 gi|182382138|gb|EDT79617.1| transcriptional regulator, Cro/CI family [Clostridium perfringens
           NCTC 8239]
          Length = 170

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 42/92 (45%), Gaps = 3/92 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G +I+  R   G++Q++  + +  + + +QKYE          L+ I+  L+   S 
Sbjct: 2   LNIGDKIKAIRKERGLTQKEFAKKINKSERMIQKYENSEVEPRIEVLREIATALDISFSE 61

Query: 73  FF---DVSPTVCSDISSEENNVMDFISTPDGL 101
                + S  +   I   +N  +DFI   + L
Sbjct: 62  LINPKNSSINISESIDKFKNEYIDFIIDFEQL 93


>gi|92114209|ref|YP_574137.1| XRE family transcriptional regulator [Chromohalobacter salexigens
          DSM 3043]
 gi|91797299|gb|ABE59438.1| transcriptional regulator, XRE family with cupin sensor protein
          [Chromohalobacter salexigens DSM 3043]
          Length = 195

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 31/69 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R++  R +  +SQ +L +  G+T   +   E+       S L+ I + +   IS FF
Sbjct: 6  VGARLKQLRKLRDLSQRELAKRAGVTNSTISLIEQNNVSPSVSSLKKILDAMPVSISEFF 65

Query: 75 DVSPTVCSD 83
              T   +
Sbjct: 66 AGEETSPQE 74


>gi|266625424|ref|ZP_06118359.1| transcriptional regulator [Clostridium hathewayi DSM 13479]
 gi|288862669|gb|EFC94967.1| transcriptional regulator [Clostridium hathewayi DSM 13479]
          Length = 232

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 47/101 (46%), Gaps = 10/101 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ +++ R   G++QE+L E L ++ + V ++E G+N    S L  ++E  +  +    
Sbjct: 6   IGEFLKVLRKEKGLTQEQLAESLLVSGRTVSRWETGMNMPDLSVLIQMAEFYDVEVKEIL 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
           D      S+I  +E          + L     + +++  KV
Sbjct: 66  DG--ERKSEIMDKE--------LKETLSKVADYNKLEKEKV 96


>gi|257892777|ref|ZP_05672430.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,408]
 gi|257829156|gb|EEV55763.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,408]
          Length = 221

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 39/81 (48%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  + + L  PI F
Sbjct: 1  MNIGEKIRTYRRNRNLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHQTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++     S E  + D
Sbjct: 61 -----PSIEPTAESIEPTLPD 76


>gi|242237765|ref|YP_002985946.1| XRE family transcriptional regulator [Dickeya dadantii Ech703]
 gi|242129822|gb|ACS84124.1| transcriptional regulator, XRE family [Dickeya dadantii Ech703]
          Length = 144

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 20/65 (30%), Positives = 32/65 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI   R   G++Q +L + L ++ Q VQ +E G  R+  S L  ++  L   +    
Sbjct: 29 LGKRITALRKDAGLTQVQLAQALNVSQQAVQSWESGRRRIQISALPAVARQLSVSLDALL 88

Query: 75 DVSPT 79
            S T
Sbjct: 89 GDSHT 93


>gi|163814737|ref|ZP_02206126.1| hypothetical protein COPEUT_00888 [Coprococcus eutactus ATCC
          27759]
 gi|158450372|gb|EDP27367.1| hypothetical protein COPEUT_00888 [Coprococcus eutactus ATCC
          27759]
          Length = 108

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 37/78 (47%), Gaps = 3/78 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RI+  R  + ++QE+LG  +    + + + E G +     RL  +S  L+    +
Sbjct: 10 MIIGQRIKYARKSMNLTQEELGRLMCTDGKYISRLESGKSLPSLKRLVQLSRALKCTCDY 69

Query: 73 F---FDVSPTVCSDISSE 87
          F    DV  T   D+  E
Sbjct: 70 FLWDMDVPETGSEDVDIE 87


>gi|298290472|ref|YP_003692411.1| XRE family transcriptional regulator [Starkeya novella DSM 506]
 gi|296926983|gb|ADH87792.1| transcriptional regulator, XRE family [Starkeya novella DSM 506]
          Length = 229

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 29/60 (48%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+++R  R  L ++   L    GI+   + K E G+     + LQ IS  L  PIS  F
Sbjct: 46  LGQQVRAVRRELELTVSDLASAAGISVGMLSKIENGLISPSLATLQAISSALNVPISTLF 105


>gi|302524530|ref|ZP_07276872.1| predicted protein [Streptomyces sp. AA4]
 gi|302433425|gb|EFL05241.1| predicted protein [Streptomyces sp. AA4]
          Length = 178

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR  R + G++  +L +  G++   + + E+GV       ++ I+EVL+ P+   F   
Sbjct: 5  RIREFRTLRGLTVRQLADQAGVSTGLISQVERGVTDPSLETMRRIAEVLDIPLFSLFQEP 64

Query: 78 PTV 80
             
Sbjct: 65 DEE 67


>gi|229829934|ref|ZP_04456003.1| hypothetical protein GCWU000342_02040 [Shuttleworthia satelles DSM
           14600]
 gi|229791232|gb|EEP27346.1| hypothetical protein GCWU000342_02040 [Shuttleworthia satelles DSM
           14600]
          Length = 211

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 20/111 (18%), Positives = 47/111 (42%), Gaps = 19/111 (17%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G +IR  R+   ++QE+  E LGI+ Q +  +E   +      +  +S++    + +
Sbjct: 1   MDIGSKIRKSRVDAKLTQEQAAEALGISRQTISNWENEKSYPDIVSVLKMSDLYRVSLDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
                 ++ S         MD++               + VK R+++  L+
Sbjct: 61  LLKGESSMSS--------YMDYLDE-----------STNQVKSRRRLSALI 92


>gi|229526959|ref|ZP_04416356.1| transcriptional regulator Cro/CI family [Vibrio cholerae
          12129(1)]
 gi|229335571|gb|EEO01051.1| transcriptional regulator Cro/CI family [Vibrio cholerae
          12129(1)]
          Length = 70

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 33/67 (49%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +P  +  G+++R  R   G+SQE L +  GI    +   E+G   +  +++  ISE L
Sbjct: 1  MKDPRLVAFGEKVRQTRKEKGLSQEALADLAGIDRSYMGHIERGDQNITLTKIYQISEAL 60

Query: 67 ESPISFF 73
             +S  
Sbjct: 61 RVSVSDL 67


>gi|315659344|ref|ZP_07912208.1| conserved hypothetical protein [Staphylococcus lugdunensis
          M23590]
 gi|315495769|gb|EFU84100.1| conserved hypothetical protein [Staphylococcus lugdunensis
          M23590]
          Length = 112

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 38/87 (43%), Gaps = 5/87 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++I+  R   G++Q++L   L  T Q V K+E+G     A  + +++++ +         
Sbjct: 5  EQIKKYRKEQGLTQDQLAAELHTTRQTVSKWEQGSIEPNAQMIVNLAQMFDITTDELLTG 64

Query: 77 SP-----TVCSDISSEENNVMDFISTP 98
                    ++  +E  N  DF+S  
Sbjct: 65 ENMSNFTKELNETGTEHLNFWDFLSQK 91


>gi|302672228|ref|YP_003832188.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
 gi|302396701|gb|ADL35606.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
          Length = 277

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 33/75 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK I   R   G++Q ++ E L IT + + K+E G N   +S +  +  +L   ++    
Sbjct: 7  GKFIAGLRKEKGLTQAQIAEMLNITDRAISKWETGKNMPDSSIMLELCGILGITVNELLS 66

Query: 76 VSPTVCSDISSEENN 90
                 D  ++ N 
Sbjct: 67 GERIEMKDFENKANE 81


>gi|237739116|ref|ZP_04569597.1| transcriptional regulator [Fusobacterium sp. 2_1_31]
 gi|229423716|gb|EEO38763.1| transcriptional regulator [Fusobacterium sp. 2_1_31]
          Length = 187

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 39/85 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NVG  I+  R    +  +++    GI+   + + EKG      + ++ I++VLE P+  
Sbjct: 7  VNVGMTIKNIRKSKKLLLKEVASKCGISSSMLSQIEKGNANPSLNTIKSIAQVLEVPLFK 66

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
          FF  S     +    + N    IST
Sbjct: 67 FFIDSDKEKYEFHLLKKNERKIIST 91


>gi|229012804|ref|ZP_04169973.1| Helix-turn-helix domain protein [Bacillus mycoides DSM 2048]
 gi|228748485|gb|EEL98341.1| Helix-turn-helix domain protein [Bacillus mycoides DSM 2048]
          Length = 262

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 31/71 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +
Sbjct: 1  MEFGEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDY 60

Query: 73 FFDVSPTVCSD 83
              +    ++
Sbjct: 61 LLKETAEQSNE 71


>gi|225868534|ref|YP_002744482.1| phage repressor-like protein [Streptococcus equi subsp.
           zooepidemicus]
 gi|225701810|emb|CAW99238.1| putative phage repressor-like protein [Streptococcus equi subsp.
           zooepidemicus]
          Length = 232

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 39/86 (45%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G +++  R+   +SQE+LGE LG+    +  +EK  N+      + + ++ + P  +F+ 
Sbjct: 6   GIQLKTARLSRHISQEQLGELLGVNKMTISNWEKEKNKPNQKHFEELIKIFQLPAEYFYQ 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL 101
            +  +         N    IS  + L
Sbjct: 66  ENRLLLPYSQLSAFNKEKVISYSESL 91


>gi|206975303|ref|ZP_03236217.1| helix-turn-helix/TPR domain protein [Bacillus cereus H3081.97]
 gi|206746724|gb|EDZ58117.1| helix-turn-helix/TPR domain protein [Bacillus cereus H3081.97]
          Length = 421

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 8/91 (8%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R    ++QEKL + + IT   + + EKG+ +     L+ +S  L   +  FF
Sbjct: 2  LGQRIKELRKQKKLTQEKLADGI-ITRSYLSQIEKGLIQPSYEVLEALSNKLNCSVEDFF 60

Query: 75 DV-------SPTVCSDISSEENNVMDFISTP 98
          DV          +  DI + EN+    +   
Sbjct: 61 DVVENKELTLSQIKKDIKAAENHTTANLWDK 91


>gi|44004506|ref|NP_982174.1| helix-turn-helix/TPR domain-containing protein [Bacillus cereus
          ATCC 10987]
 gi|190015190|ref|YP_001966786.1| putative transcriptional regulator [Bacillus cereus]
 gi|190015455|ref|YP_001967110.1| putative transcriptional regulator [Bacillus cereus]
 gi|218848240|ref|YP_002455177.1| helix-turn-helix/TPR domain protein [Bacillus cereus AH820]
 gi|229113469|ref|ZP_04242919.1| Helix-turn-helix/TPR domain protein [Bacillus cereus Rock1-15]
 gi|296506587|ref|YP_003667821.1| helix-turn-helix/TPR domain-containing protein [Bacillus
          thuringiensis BMB171]
 gi|42741572|gb|AAS45017.1| helix-turn-helix/TPR domain protein [Bacillus cereus ATCC 10987]
 gi|116584866|gb|ABK00981.1| putative transcriptional regulator [Bacillus cereus]
 gi|116585136|gb|ABK01245.1| putative transcriptional regulator [Bacillus cereus]
 gi|218540291|gb|ACK92687.1| helix-turn-helix/TPR domain protein [Bacillus cereus AH820]
 gi|228669987|gb|EEL25380.1| Helix-turn-helix/TPR domain protein [Bacillus cereus Rock1-15]
 gi|296327174|gb|ADH10101.1| helix-turn-helix/TPR domain-containing protein [Bacillus
          thuringiensis BMB171]
          Length = 421

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 8/91 (8%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R    ++QEKL + + IT   + + EKG+ +     L+ +S  L   +  FF
Sbjct: 2  LGQRIKELRKQKKLTQEKLADGI-ITRSYLSQIEKGLIQPSYEVLEALSNKLNCSVEDFF 60

Query: 75 DV-------SPTVCSDISSEENNVMDFISTP 98
          DV          +  DI + EN+    +   
Sbjct: 61 DVVENKELTLSQIKKDIKAAENHTTANLWDK 91


>gi|20808515|ref|NP_623686.1| transcriptional regulator [Thermoanaerobacter tengcongensis MB4]
 gi|20517137|gb|AAM25290.1| predicted Transcriptional regulator [Thermoanaerobacter
          tengcongensis MB4]
          Length = 144

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 30/64 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R+  GM+QE+ G+  G+T   +  YE           + I+E     + +  
Sbjct: 4  LGERIKQLRLEHGMTQEEFGKLFGVTKYSISLYESNKTSPSDEIKKKIAEYFNVSMDWLM 63

Query: 75 DVSP 78
           ++ 
Sbjct: 64 GLTD 67


>gi|119387639|ref|YP_918673.1| XRE family transcriptional regulator [Paracoccus denitrificans
          PD1222]
 gi|119378214|gb|ABL72977.1| transcriptional regulator, XRE family [Paracoccus denitrificans
          PD1222]
          Length = 184

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 32/70 (45%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG+ IR  R   GM+  +L   +G +   + + E+G        L  IS+ L   ISFF
Sbjct: 4  HVGEDIRSLRKSRGMTLLELAGDVGRSVGWLSQVERGQTTPSVHDLGQISDRLGVNISFF 63

Query: 74 FDVSPTVCSD 83
          F  S     +
Sbjct: 64 FRSSSRAPEE 73


>gi|319948673|ref|ZP_08022795.1| Xre family DNA-binding protein [Dietzia cinnamea P4]
 gi|319437655|gb|EFV92653.1| Xre family DNA-binding protein [Dietzia cinnamea P4]
          Length = 479

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 23/101 (22%), Positives = 40/101 (39%), Gaps = 3/101 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R   G++Q    + LG++   + + EK    V +  L  ISEV     +FF  
Sbjct: 2   GARLRRLREENGLTQAAFAQSLGLSSSYLNQLEKDTRPVTSRVLVKISEVYGVDSTFFAS 61

Query: 76  VSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDV 113
            S T      +E   +  +   +   + + L R    +   
Sbjct: 62  DSDTRLIAAVTEALTDTQLSTEVPADEVVDLVRAHPALARA 102


>gi|313900820|ref|ZP_07834310.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312954240|gb|EFR35918.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 162

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 30/59 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G +I   R   GM+Q++L + +G++ Q V K+E  ++      L  +S+     +  F
Sbjct: 4  LGTKISELRKARGMTQDELADKMGVSPQAVSKWENDLSMPDLPVLIELSDFFHISLDDF 62


>gi|310829202|ref|YP_003961559.1| XRE family transcriptional regulator [Eubacterium limosum KIST612]
 gi|308740936|gb|ADO38596.1| XRE family transcriptional regulator [Eubacterium limosum KIST612]
          Length = 123

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/115 (16%), Positives = 49/115 (42%), Gaps = 8/115 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G R++  R+   ++QEK      +    + KYEK  N      L  I++  +  + +   
Sbjct: 7   GSRLKALRLSKNLTQEKFANIFYLNKSSISKYEKDKNLPENQLLIKIADFFDVSVDYLLC 66

Query: 75  -----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                 + P+    +S EE  +  ++ + +  +    +    D  +++++++ +R
Sbjct: 67  RTSQQKLLPSNPKPMSGEE-FLSSYVFSEEETEAFAAYFSFPDD-LKKEVLDYIR 119


>gi|331672656|ref|ZP_08373445.1| transcriptional activator-regulatory protein [Escherichia coli
          TA280]
 gi|331070299|gb|EGI41665.1| transcriptional activator-regulatory protein [Escherichia coli
          TA280]
          Length = 251

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R+  G++Q+ LG+ +G++   +QK E G      +++  I+  L     + 
Sbjct: 27 LSERLKEARLARGLTQKALGDLVGVSQAAIQKIETGKAN-QTTKIVEIANALGVRAEWL 84


>gi|257467814|ref|ZP_05631910.1| MerR family transcriptional regulator [Fusobacterium ulcerans
          ATCC 49185]
          Length = 183

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 31/68 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R   G+S  +L   + ++   + + E+G        L+ I+  L+  +S+  
Sbjct: 4  IGERIKKSRNERGLSLRELASKVDLSASFLSQIEQGKASPSIENLKKIATSLDVKVSYLI 63

Query: 75 DVSPTVCS 82
          +      +
Sbjct: 64 EDEEETRN 71


>gi|83313343|ref|YP_423607.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82948184|dbj|BAE53048.1| Predicted transcriptional regulator [Magnetospirillum magneticum
           AMB-1]
          Length = 476

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 25/138 (18%), Positives = 56/138 (40%), Gaps = 7/138 (5%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  NKK      + +G ++R  R    +SQ  L   L ++   + + E     +    L 
Sbjct: 1   MAMNKK------LFLGYKLRRLREGKKLSQAALAVLLEVSPSYLNQIENNQRPLTVPVLL 54

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            I++VL+  ++   +   +       E  N   F S   GL   R        ++ ++++
Sbjct: 55  RIAKVLDVDLATLVEDEESRLVADLREALNDPVFGSGSIGLSELRNAAS-ASPELAKRVL 113

Query: 121 ELVRSIVSSEKKYRTIEE 138
            L ++    +++ +++ E
Sbjct: 114 TLYQTFRQLDERMQSLTE 131


>gi|16799870|ref|NP_470138.1| hypothetical protein lin0796 [Listeria innocua Clip11262]
 gi|16413247|emb|CAC96028.1| lin0796 [Listeria innocua Clip11262]
 gi|313619917|gb|EFR91474.1| DNA-binding protein [Listeria innocua FSL S4-378]
          Length = 180

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 37/75 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MDIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|325262674|ref|ZP_08129410.1| DNA-binding protein [Clostridium sp. D5]
 gi|324031768|gb|EGB93047.1| DNA-binding protein [Clostridium sp. D5]
          Length = 545

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 20/56 (35%), Positives = 33/56 (58%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+ I  RR  +G++Q++L E LG+T + V K+E G      S L+ ++ VLE  + 
Sbjct: 6  GQFIARRRKAIGLTQKELAEKLGVTNKAVSKWETGGGMPDVSVLETLAGVLEVSVD 61


>gi|260428966|ref|ZP_05782943.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
 gi|260419589|gb|EEX12842.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
          Length = 205

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 32/72 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +G R+R  R   G+S ++L     ++   + + E+ ++      L  ++   + P+S
Sbjct: 22 DSTLGLRLRALRKSHGLSLKELSARASLSVGSLSQIERDLSSPSVRTLNKLATSFDVPLS 81

Query: 72 FFFDVSPTVCSD 83
          +FF        D
Sbjct: 82 YFFADPAADEVD 93


>gi|254853777|ref|ZP_05243125.1| DNA-binding protein [Listeria monocytogenes FSL R2-503]
 gi|300765112|ref|ZP_07075099.1| hypothetical protein LMHG_11829 [Listeria monocytogenes FSL
          N1-017]
 gi|258607157|gb|EEW19765.1| DNA-binding protein [Listeria monocytogenes FSL R2-503]
 gi|300514237|gb|EFK41297.1| hypothetical protein LMHG_11829 [Listeria monocytogenes FSL
          N1-017]
          Length = 180

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 36/75 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|160898595|ref|YP_001564177.1| XRE family transcriptional regulator [Delftia acidovorans SPH-1]
 gi|160364179|gb|ABX35792.1| transcriptional regulator, XRE family [Delftia acidovorans SPH-1]
          Length = 102

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 22/117 (18%), Positives = 54/117 (46%), Gaps = 24/117 (20%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           D   G R++  R+   +SQ+ LG   G    +   ++ +YE G ++     ++ ++EVL+
Sbjct: 5   DEQWGARLKQARLAADLSQKMLGIEAGIDPFVASARINRYELGKHKPDLLTVRKLAEVLK 64

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            P++FF+  +    +++                  L R    +   +VR+++ ++++
Sbjct: 65  VPMAFFYSDTDDEVAEL------------------LLR--YGVSGEEVRKRVRDVLK 101


>gi|254460982|ref|ZP_05074398.1| transcriptional regulator, XRE family with cupin sensor domain
          [Rhodobacterales bacterium HTCC2083]
 gi|206677571|gb|EDZ42058.1| transcriptional regulator, XRE family with cupin sensor domain
          [Rhodobacteraceae bacterium HTCC2083]
          Length = 205

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 37/89 (41%), Gaps = 3/89 (3%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           K  P+     +G  IR  R   G++   L + L  +   + + E G  R+  + LQ I 
Sbjct: 2  TKNDPSSTAKRLGAEIREVRKARGLTLNDLSDQLSCSTAYLSRIELGSARISGALLQEIG 61

Query: 64 EVLESPISFFFDVSPTVCSDISSEENNVM 92
          + L     +F   +P    +   E ++++
Sbjct: 62 KALHVDPEWF---APVQSGEGPLERHHIV 87


>gi|197284836|ref|YP_002150708.1| phage repressor [Proteus mirabilis HI4320]
 gi|194682323|emb|CAR42114.1| putative phage repressor [Proteus mirabilis HI4320]
          Length = 215

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 36/72 (50%), Gaps = 2/72 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  RI+ RR+ L ++QE L + L ++   + K+E  V       LQ +++VLE    +
Sbjct: 1  MHI--RIKERRLQLSLTQEALAKMLSVSRVSITKWETRVTEPDGENLQALAKVLEVSPEW 58

Query: 73 FFDVSPTVCSDI 84
                +  +D 
Sbjct: 59 LLYGGNSSEADA 70


>gi|190570720|ref|YP_001975078.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|190356992|emb|CAQ54381.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
          Length = 279

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 25/121 (20%), Positives = 51/121 (42%), Gaps = 23/121 (19%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R+I   +Q+ L + +G+T +++ +YE+G   +   +L  ++  L   I    
Sbjct: 169 IGQRIREWRLIRRYTQKDLADKVGLTLKEIHEYERGYTAITFDKLYEMAGALSVNIKVLL 228

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
                                 T +  + NR    ID+ + ++    LV+S+    K  +
Sbjct: 229 PE--------------------TRESKEENRLLSLIDEYREQES---LVKSLSEDMKSGK 265

Query: 135 T 135
            
Sbjct: 266 E 266



 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/131 (19%), Positives = 58/131 (44%), Gaps = 13/131 (9%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  + +  + +   +G++I   R++   +Q +L   +G+ +++V  YE G   +    L 
Sbjct: 1   MFVSVRDISSISYKIGQKIEDCRLMQRCTQAELASKIGLAYKEVTNYENGYIPITIEVLY 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            I+ VL   +    D+ P   +    E+          + L L + +   ++ K+ + + 
Sbjct: 61  VIARVLSVNV---VDLLPKPITVREYEDE-------DEEILYLTKIY---ENQKLGKIVP 107

Query: 121 ELVRSIVSSEK 131
            L+R +  SEK
Sbjct: 108 SLIRFVHISEK 118


>gi|120404243|ref|YP_954072.1| XRE family transcriptional regulator [Mycobacterium vanbaalenii
          PYR-1]
 gi|119957061|gb|ABM14066.1| transcriptional regulator, XRE family [Mycobacterium vanbaalenii
          PYR-1]
          Length = 104

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 32/77 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            VG  IR  R+  G++QE L    G+T   +   E G   +   RL  I++ L  P S 
Sbjct: 21 RTVGDNIRRLRISCGLTQEALALQSGVTRNVLLAVEHGRRGLLYERLFDIADALGVPASR 80

Query: 73 FFDVSPTVCSDISSEEN 89
            D        + + ++
Sbjct: 81 LLDSHNESGEGLRTADS 97


>gi|118462695|ref|YP_881469.1| prophage regulatory ptotein [Mycobacterium avium 104]
 gi|118163982|gb|ABK64879.1| putative prophage regulatory ptotein [Mycobacterium avium 104]
          Length = 194

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 25/57 (43%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          D  VG  IR  R   G+ Q  LGE LG+  Q + K E G   V  +    I+  L  
Sbjct: 4  DQEVGANIRRFRQARGLPQAALGEPLGLNQQAIAKIENGTRAVKLAEAAVIARTLGV 60


>gi|326804313|ref|YP_004322131.1| DNA-binding helix-turn-helix protein [Aerococcus urinae
           ACS-120-V-Col10a]
 gi|326651167|gb|AEA01350.1| DNA-binding helix-turn-helix protein [Aerococcus urinae
           ACS-120-V-Col10a]
          Length = 328

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 14/92 (15%), Positives = 34/92 (36%), Gaps = 1/92 (1%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+L + L ++ Q + K+E+        ++  ++ +      +     
Sbjct: 6   KILHLRKQAGWSQEELAQQLNVSRQSISKWERAEAIPDLEKILDLARIFGVTTDYLIKDE 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
                  + +E  +   +     ++    FI 
Sbjct: 66  LDQVDYSAGDEGPLEAGLP-KLSIEEANAFIA 96


>gi|325695606|gb|EGD37506.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK150]
          Length = 113

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 37/76 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+R+++ R  + ++Q ++ E L I+ Q    +E+GV +     L  I+++L   + +
Sbjct: 1  MKFGERLKILRKQVKLTQSQIAEKLDISQQAYASWERGVKKPTQENLIKIAQILNVTVDY 60

Query: 73 FFDVSPTVCSDISSEE 88
              S     +  + E
Sbjct: 61 LVGNSEEQSDEFDNIE 76


>gi|296134047|ref|YP_003641294.1| transcriptional regulator, XRE family [Thermincola sp. JR]
 gi|296032625|gb|ADG83393.1| transcriptional regulator, XRE family [Thermincola potens JR]
          Length = 255

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/63 (30%), Positives = 31/63 (49%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G RIR  R   G+S    G   G++F  + + E+G        L+ I+  L  P+S 
Sbjct: 70  LNIGDRIRALREEKGLSLVDFGNLTGLSFTYLSELERGTTVPAVGTLKKIAACLGVPVSL 129

Query: 73  FFD 75
           F +
Sbjct: 130 FIE 132



 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/101 (16%), Positives = 43/101 (42%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + ++++  R + G++Q++L    GI+   V + E G        ++ IS+VL   + +  
Sbjct: 140 IAEKLQYARKMKGLTQKELAVRAGISPGLVGQIEMGKVNASLKTIEKISQVLGVSVCYLI 199

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                V + I      + + +       L     ++++ K+
Sbjct: 200 LDREEVEAMIGGLSPELRNLLMDKKVQLLLGSICRMEEDKL 240


>gi|94994722|ref|YP_602820.1| Cro/CI family transcriptional regulator [Streptococcus phage
           10750.3]
 gi|94548230|gb|ABF38276.1| Transcriptional regulator, Cro/CI family [Streptococcus phage
           10750.3]
          Length = 271

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 25/131 (19%), Positives = 57/131 (43%), Gaps = 12/131 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G RIR  R    M+Q +L E LG+ T+  V K+EK  N      L+ ++E+      +
Sbjct: 23  QLGDRIRKLREGRNMTQTELSEILGMKTYTTVSKWEKNENFPKGKDLKKLAEIFNVTSDY 82

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
              ++ +    I+ +           +  ++   + Q++  + ++K++      +  + K
Sbjct: 83  LLGLTDSKLGKITIQ----------NEQPEIVSIYNQLEQPR-QEKVLNFANEQLEEQNK 131

Query: 133 YRTIEEECMVE 143
             +I ++   E
Sbjct: 132 TVSIFDKKSEE 142


>gi|9633025|ref|NP_050133.1| hypothetical protein phiadhp25 [Lactobacillus phage phiadh]
 gi|5730282|emb|CAB52503.1| hypothetical protein [Lactobacillus phage phiadh]
          Length = 112

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 32/81 (39%), Gaps = 2/81 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R+   +SQ +LG  +  + Q +  YE G         Q +++     + +    
Sbjct: 2  NRIKNLRIANNISQAELGNKVNASNQAISAYESGFRNPKPETWQALADFFNVSVPYL--Q 59

Query: 77 SPTVCSDISSEENNVMDFIST 97
                D+S E  ++ D I  
Sbjct: 60 GKIFKEDLSPELQDMFDDIQD 80


>gi|119854987|ref|YP_935592.1| XRE family transcriptional regulator [Mycobacterium sp. KMS]
 gi|145226009|ref|YP_001136663.1| XRE family transcriptional regulator [Mycobacterium gilvum
          PYR-GCK]
 gi|119697705|gb|ABL94777.1| transcriptional regulator, XRE family [Mycobacterium sp. KMS]
 gi|145218472|gb|ABP47875.1| transcriptional regulator, XRE family [Mycobacterium gilvum
          PYR-GCK]
          Length = 92

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG RIR  R+  G+SQE L    G+   Q+ + E G   V   R+  I+E L   ++
Sbjct: 23 VGSRIRALRLERGLSQESLALESGVARNQLIQMEHGRRGVLIERVYDIAEALGVSVN 79


>gi|325687047|gb|EGD29070.1| DNA-binding protein [Streptococcus sanguinis SK72]
          Length = 197

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 33/80 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VGK+I+  R    +SQ+ L E + ++ Q +  +E+G        L  +S+V E  +  
Sbjct: 1  MQVGKQIQHYRKEKNLSQDDLAEIIFVSRQSISNWERGATYPDVQNLLLLSKVFEVSLDK 60

Query: 73 FFDVSPTVCSDISSEENNVM 92
                     I   +  + 
Sbjct: 61 LVKGDLETMKQIIHNQEFMH 80


>gi|310658350|ref|YP_003936071.1| Xre family transcriptional regulator [Clostridium sticklandii DSM
          519]
 gi|308825128|emb|CBH21166.1| Transcriptional regulator, XRE family [Clostridium sticklandii]
          Length = 328

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 30/65 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I L R   G SQE+L E L ++ Q + K+E   +  G  ++  +SE+      +    S
Sbjct: 6  KIILLRKKSGWSQEELAEKLNVSRQSISKWEGAQSVPGMDKILQLSEIFGVSTDYLLKDS 65

Query: 78 PTVCS 82
            +  
Sbjct: 66 IELEE 70


>gi|260203616|ref|ZP_05771107.1| putative transcriptional regulatory protein [Mycobacterium
           tuberculosis K85]
 gi|289573051|ref|ZP_06453278.1| transcriptional regulator [Mycobacterium tuberculosis K85]
 gi|289537482|gb|EFD42060.1| transcriptional regulator [Mycobacterium tuberculosis K85]
          Length = 474

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 30/133 (22%), Positives = 54/133 (40%), Gaps = 18/133 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   YVGSRVRQLRNERGFSQAALAQMLEISPSYLDQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T  +            DI+ + + V + +S   G  L R  + +     R+  I 
Sbjct: 65  ASQDDTRLAAELREVTLDRDLDIAIDPHEVAEMVSAHPG--LARAVVNL----HRRYRIT 118

Query: 122 LVRSIVSSEKKYR 134
             +   ++E+++ 
Sbjct: 119 TAQLAAATEERFS 131


>gi|213158984|ref|YP_002320982.1| transcriptional regulator, XRE family [Acinetobacter baumannii
          AB0057]
 gi|215482031|ref|YP_002324213.1| Helix-turn-helix family protein [Acinetobacter baumannii
          AB307-0294]
 gi|301345648|ref|ZP_07226389.1| putative HTH-type transcriptional regulator [Acinetobacter
          baumannii AB056]
 gi|301512343|ref|ZP_07237580.1| putative HTH-type transcriptional regulator [Acinetobacter
          baumannii AB058]
 gi|301596168|ref|ZP_07241176.1| putative HTH-type transcriptional regulator [Acinetobacter
          baumannii AB059]
 gi|332851919|ref|ZP_08433805.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
          6013150]
 gi|332868837|ref|ZP_08438430.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
          6013113]
 gi|213058144|gb|ACJ43046.1| transcriptional regulator, XRE family [Acinetobacter baumannii
          AB0057]
 gi|213988455|gb|ACJ58754.1| Helix-turn-helix family protein [Acinetobacter baumannii
          AB307-0294]
 gi|332729612|gb|EGJ60949.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
          6013150]
 gi|332733090|gb|EGJ64289.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
          6013113]
          Length = 183

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
             + V  +VG  IR  R    +SQ+ L +  G++ + +   E G   +  ++L  I+ V
Sbjct: 2  SQSSSVLQHVGTNIRSLRDEHSLSQQDLADRAGVSRRTIAALETGQVNISLAKLDAIAAV 61

Query: 66 LESP 69
          L   
Sbjct: 62 LGVD 65


>gi|262273101|ref|ZP_06050918.1| hypothetical transcriptional regulator [Grimontia hollisae CIP
           101886]
 gi|262222857|gb|EEY74165.1| hypothetical transcriptional regulator [Grimontia hollisae CIP
           101886]
          Length = 121

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 24/118 (20%), Positives = 45/118 (38%), Gaps = 10/118 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V  +V +RIR  R    ++Q ++ + L +  Q     E G      S L  I++V   P+
Sbjct: 4   VKAHVAQRIREAREYRDITQVEMAQHLDVARQTYLDIESGKTEPKVSSLATIADVTGRPL 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           ++F                + + F    D   L   F Q+ D   R+ +++    +  
Sbjct: 64  NWFL---------FGESTRSDIAFTHRDDLNTLLALFSQLPDSA-RKLVMDQALLLAQ 111


>gi|153971519|ref|YP_001393059.1| DNA-binding protein RDGA [Vibrio vulnificus]
 gi|153971715|ref|YP_001393216.1| DNA-binding protein RDGA [Vibrio vulnificus]
 gi|152955041|emb|CAL25393.1| DNA-binding protein RDGA [Vibrio vulnificus]
 gi|152955200|emb|CAL25550.1| DNA-binding protein RDGA [Vibrio vulnificus]
          Length = 208

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 45/84 (53%), Gaps = 1/84 (1%)

Query: 13 INVGKRIRLRRMI-LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G RI+  R   L +S+++LG  LG++   V ++E GVN     RL  +S VL++   
Sbjct: 1  MSLGGRIKKLREESLHISKKELGAILGVSQSAVNQWENGVNYPSQKRLIELSRVLKTTYE 60

Query: 72 FFFDVSPTVCSDISSEENNVMDFI 95
          +  + + +  +D S  E    + +
Sbjct: 61 WLVNGTTSSHNDGSEYEIPFYEHV 84


>gi|313624590|gb|EFR94572.1| DNA-binding protein [Listeria innocua FSL J1-023]
          Length = 180

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 37/75 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MDIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|258516796|ref|YP_003193018.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257780501|gb|ACV64395.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
          Length = 133

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 20/87 (22%), Positives = 44/87 (50%), Gaps = 4/87 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G RIR +R++   +Q++L E + ++ Q +  +E+G    +    +  +++ L    +
Sbjct: 1  MNIGNRIRTQRILKDFTQKQLAELVNVSPQVISNWERGYTPVIPHDDVVRLADALGISPA 60

Query: 72 FFF---DVSPTVCSDISSEENNVMDFI 95
          +     D+S T    I S  N+  D +
Sbjct: 61 YLLCETDISETPEQQIESAINDDADLL 87


>gi|217965105|ref|YP_002350783.1| DNA-binding protein [Listeria monocytogenes HCC23]
 gi|290893768|ref|ZP_06556748.1| DNA-binding protein [Listeria monocytogenes FSL J2-071]
 gi|217334375|gb|ACK40169.1| DNA-binding protein [Listeria monocytogenes HCC23]
 gi|290556717|gb|EFD90251.1| DNA-binding protein [Listeria monocytogenes FSL J2-071]
 gi|307570335|emb|CAR83514.1| transcriptional regulator, Cro/CI family [Listeria monocytogenes
          L99]
 gi|313609965|gb|EFR85345.1| DNA-binding protein [Listeria monocytogenes FSL F2-208]
          Length = 180

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 37/75 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MDIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|218779193|ref|YP_002430511.1| XRE family transcriptional regulator [Desulfatibacillum
          alkenivorans AK-01]
 gi|218760577|gb|ACL03043.1| transcriptional regulator, XRE family [Desulfatibacillum
          alkenivorans AK-01]
          Length = 115

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 34/71 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI   R+   ++Q +L E +G++ + + + E+GV       L  ++E L S +  FF
Sbjct: 8  IGKRIAELRIENNLTQAQLAEAMGLSVESISRMERGVTLPSVKTLAKVAESLGSSLKQFF 67

Query: 75 DVSPTVCSDIS 85
          D          
Sbjct: 68 DFDEDEGQGDG 78


>gi|110677441|ref|YP_680448.1| DNA-binding protein [Roseobacter denitrificans OCh 114]
 gi|109453557|gb|ABG29762.1| DNA-binding protein [Roseobacter denitrificans OCh 114]
          Length = 190

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 34/71 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R   G++   L E LG +   + + E+  +    S L+ I++VLE  IS  F
Sbjct: 12 LGADLRALRKARGLTLADLAERLGRSVGWLSQVERDKSDPSISDLRAIAKVLEVSISMLF 71

Query: 75 DVSPTVCSDIS 85
            +P   ++  
Sbjct: 72 RHAPATATEAG 82


>gi|148266398|ref|YP_001233104.1| helix-turn-helix domain-containing protein [Geobacter
          uraniireducens Rf4]
 gi|146399898|gb|ABQ28531.1| helix-turn-helix domain protein [Geobacter uraniireducens Rf4]
          Length = 355

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R  R + GM QE LGE  G+T Q +  +E+G  +    ++  + ++L  PI 
Sbjct: 3  LRELRELAGMKQEALGELAGVTRQTIAAWERGERQPSMQQVVKLCQILHVPID 55


>gi|229017114|ref|ZP_04174030.1| Transcriptional regulator, MerR [Bacillus cereus AH1273]
 gi|229023292|ref|ZP_04179801.1| Transcriptional regulator, MerR [Bacillus cereus AH1272]
 gi|228737997|gb|EEL88484.1| Transcriptional regulator, MerR [Bacillus cereus AH1272]
 gi|228744173|gb|EEL94259.1| Transcriptional regulator, MerR [Bacillus cereus AH1273]
          Length = 181

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 47/110 (42%), Gaps = 8/110 (7%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
           +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3   NIDIGKKIEKQRKEKGLTSKELAKMAEITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71  SFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDV 113
           SF  + + T    + S        +N   + +S      L    + I   
Sbjct: 63  SFLLEETNTDDLIVRSHKRKKMIIDNLSYELLSPDFTGNLATAIMTIPPN 112


>gi|187929409|ref|YP_001899896.1| putative phage repressor [Ralstonia pickettii 12J]
 gi|187726299|gb|ACD27464.1| putative phage repressor [Ralstonia pickettii 12J]
          Length = 302

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 22/89 (24%), Positives = 40/89 (44%), Gaps = 7/89 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R+  RR  L MSQE L +   ++   + + E+G NR G+  +  +++ L  P+ +  D 
Sbjct: 61  NRVLARRTQLEMSQEALAKKARLSQSTIAQIERGRNR-GSKYVVALADALLVPVRWLADG 119

Query: 77  SPTVCSDISSEENNVMD-FISTPDGLQLN 104
                 D+    + V   F+S  +   L 
Sbjct: 120 -----GDMPPRPSEVEGLFVSQTEAEDLV 143


>gi|21914458|gb|AAM81423.1|AF527608_45 C2 protein [Salmonella phage P22-pbi]
          Length = 216

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 32/76 (42%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L + Q  LG+ +G++   + ++E+         L  +S+ L+    +   
Sbjct: 7  GERIRARRKKLKIRQAALGKMVGVSNVAISQWERSETEPNGEDLLALSKALQCSPDYLLK 66

Query: 76 VSPTVCSDISSEENNV 91
             +  +      +  
Sbjct: 67 GDLSQTNVAYHSRHEP 82


>gi|46907036|ref|YP_013425.1| DNA-binding protein [Listeria monocytogenes serotype 4b str.
          F2365]
 gi|226223423|ref|YP_002757530.1| transcription regulator [Listeria monocytogenes Clip81459]
 gi|254823927|ref|ZP_05228928.1| DNA-binding protein [Listeria monocytogenes FSL J1-194]
 gi|254931186|ref|ZP_05264545.1| DNA-binding protein [Listeria monocytogenes HPB2262]
 gi|254993305|ref|ZP_05275495.1| transcription regulator [Listeria monocytogenes FSL J2-064]
 gi|255521055|ref|ZP_05388292.1| transcription regulator [Listeria monocytogenes FSL J1-175]
 gi|46880302|gb|AAT03602.1| DNA-binding protein [Listeria monocytogenes serotype 4b str.
          F2365]
 gi|225875885|emb|CAS04589.1| Putative transcription regulator [Listeria monocytogenes serotype
          4b str. CLIP 80459]
 gi|293582734|gb|EFF94766.1| DNA-binding protein [Listeria monocytogenes HPB2262]
 gi|293593153|gb|EFG00914.1| DNA-binding protein [Listeria monocytogenes FSL J1-194]
 gi|328467356|gb|EGF38436.1| transcription regulator [Listeria monocytogenes 1816]
 gi|332311210|gb|EGJ24305.1| DNA-binding protein [Listeria monocytogenes str. Scott A]
          Length = 180

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 36/75 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|255974995|ref|ZP_05425581.1| cro/CI family transcriptional regulator [Enterococcus faecalis T2]
 gi|256963766|ref|ZP_05567937.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecalis HIP11704]
 gi|257421770|ref|ZP_05598760.1| cro/CI family transcriptional regulator [Enterococcus faecalis X98]
 gi|307271713|ref|ZP_07552984.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|307285503|ref|ZP_07565642.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
 gi|255967867|gb|EET98489.1| cro/CI family transcriptional regulator [Enterococcus faecalis T2]
 gi|256954262|gb|EEU70894.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecalis HIP11704]
 gi|257163594|gb|EEU93554.1| cro/CI family transcriptional regulator [Enterococcus faecalis X98]
 gi|306502727|gb|EFM71992.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
 gi|306511591|gb|EFM80590.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|315155529|gb|EFT99545.1| helix-turn-helix protein [Enterococcus faecalis TX0043]
          Length = 180

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 42/91 (46%), Gaps = 1/91 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+++R  R+   ++QE+LGE   ++   + + E+ ++         I EVL      
Sbjct: 1   MEIGEKLRNLRIQKNLTQEELGERTDLSKGYISQLERDLSSPSMETFFSILEVLGVTPEQ 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           FF   P     + +EE + + +     G +L
Sbjct: 61  FFSQQPLEQKIVYNEEESTL-YYDEEHGYEL 90


>gi|241889565|ref|ZP_04776863.1| Cro/CI family transcriptional regulator [Gemella haemolysans ATCC
           10379]
 gi|241863187|gb|EER67571.1| Cro/CI family transcriptional regulator [Gemella haemolysans ATCC
           10379]
          Length = 181

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 1/90 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R++  R+   ++QE+LGE   ++   + + E+ +         +I +VL      FF
Sbjct: 4   IGERLKRLRIQKNLTQEELGERTDLSKGYISQVERDLASPSMETFFNILQVLGCAPKDFF 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           D   T      S E+    +  T +G +L 
Sbjct: 64  DKESTSQKVYYSLEDQ-TSYEETDEGYKLT 92


>gi|168182462|ref|ZP_02617126.1| putative DNA-binding protein [Clostridium botulinum Bf]
 gi|237794872|ref|YP_002862424.1| putative DNA-binding protein [Clostridium botulinum Ba4 str. 657]
 gi|182674430|gb|EDT86391.1| putative DNA-binding protein [Clostridium botulinum Bf]
 gi|229260963|gb|ACQ51996.1| putative DNA-binding protein [Clostridium botulinum Ba4 str. 657]
          Length = 370

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 30/71 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK I   R    ++QE+L   +G++   V K+E G +    + L  I+      I  
Sbjct: 4  LLIGKVIYRLRKEKAITQEQLANFIGVSTAAVSKWESGTSYPDITLLSVIATFFNVTIDT 63

Query: 73 FFDVSPTVCSD 83
            +    +  +
Sbjct: 64 LLNFKIELSDE 74


>gi|160878258|ref|YP_001557226.1| XRE family transcriptional regulator [Clostridium phytofermentans
          ISDg]
 gi|160426924|gb|ABX40487.1| transcriptional regulator, XRE family [Clostridium
          phytofermentans ISDg]
          Length = 163

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 34/57 (59%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GK I  RR + G++Q++L + LG+T + + K+E G      + L  ++E+L   ++
Sbjct: 6  IGKFIADRRKVRGLTQQQLADDLGLTNKAISKWETGQGMPDITTLPILAEMLGITVN 62


>gi|42518326|ref|NP_964256.1| hypothetical protein LJ0240 [Lactobacillus johnsonii NCC 533]
 gi|41582610|gb|AAS08222.1| hypothetical protein LJ_0240 [Lactobacillus johnsonii NCC 533]
          Length = 341

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 38/86 (44%), Gaps = 4/86 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           + + +G++I   R    +SQE L E + ++ Q V K+E   +     ++  +SE+     
Sbjct: 15  IHMRLGQKITELRKKNNLSQEGLAEKMNVSRQAVSKWESDQSIPDIEKIVSLSELFGVTT 74

Query: 71  SFFFDVSPTV----CSDISSEENNVM 92
            +             +DI +E+ + +
Sbjct: 75  DYLLKSGAPSFEIKTADIPAEDKSPI 100


>gi|146297213|ref|YP_001180984.1| XRE family transcriptional regulator [Caldicellulosiruptor
          saccharolyticus DSM 8903]
 gi|145410789|gb|ABP67793.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          saccharolyticus DSM 8903]
          Length = 145

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +   +G +IR+ R   G+ Q +L + L I+   + +YE G  R     L  I++  + 
Sbjct: 5  HEILKYLGLQIRVLREWAGLKQTELAKKLHISQTTLARYENGELRPPIETLLRIADFFDV 64

Query: 69 PIS 71
           I 
Sbjct: 65 SID 67


>gi|320326809|gb|EFW82846.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           glycinea str. race 4]
 gi|330882609|gb|EGH16758.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           glycinea str. race 4]
          Length = 123

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 26/112 (23%), Positives = 52/112 (46%), Gaps = 11/112 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG +I++ R +  +SQ +L   +G     + +YE+G++     +L  +S  L+   +   
Sbjct: 18  VGAKIKVLRKMADLSQAELAALIGCDAPIIGRYERGIHMPSIEQLIKLSTALKVSPA--- 74

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           ++ P    +I          IS    L L    ++ID   + +KII+  +S+
Sbjct: 75  ELLPNQDDEIRQ------QLISLRSQLSLIG--MKIDSPVILEKIIDHAKSL 118


>gi|315122908|ref|YP_004063397.1| hypothetical protein CKC_05820 [Candidatus Liberibacter
           solanacearum CLso-ZC1]
 gi|313496310|gb|ADR52909.1| hypothetical protein CKC_05820 [Candidatus Liberibacter
           solanacearum CLso-ZC1]
          Length = 210

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 37/78 (47%), Gaps = 2/78 (2%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K++ NP+   +G+RI+  R   GM+ ++ GE +G+    V  YE+G++         I  
Sbjct: 88  KRLINPI--EIGERIKKFRKEEGMTLKEFGEWVGLPVSTVSTYERGISAPEIKTALKIKR 145

Query: 65  VLESPISFFFDVSPTVCS 82
            L  P+ + +     +  
Sbjct: 146 ALGKPLDWIYFGDEEIVP 163


>gi|256617057|ref|ZP_05473903.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
          ATCC 4200]
 gi|256596584|gb|EEU15760.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
          ATCC 4200]
          Length = 111

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          IR +R  LG +Q++L + +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 10 IREKRKALGWTQKELAKKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66


>gi|260588634|ref|ZP_05854547.1| DNA-binding protein [Blautia hansenii DSM 20583]
 gi|260541109|gb|EEX21678.1| DNA-binding protein [Blautia hansenii DSM 20583]
          Length = 354

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 45/99 (45%), Gaps = 3/99 (3%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR RR+   ++QE++   LG+T   V K+EKG +    + L  ++ +LE+ ++       
Sbjct: 7   IRQRRIERNLTQEQVANYLGVTAPAVNKWEKGTSYPDITTLPALARILETDLNTLLSFKE 66

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
            +     +   N +  +   +G        +I   K+R+
Sbjct: 67  ELTEQEIAIFLNTLSELLEKEGFLKV---YEIAMEKIRE 102


>gi|254510463|ref|ZP_05122530.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
           KLH11]
 gi|221534174|gb|EEE37162.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
           KLH11]
          Length = 431

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 25/92 (27%), Positives = 38/92 (41%), Gaps = 1/92 (1%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D   G RIR RR I G+ Q +L   +GI+   +   E    R+G   L  I+  L    S
Sbjct: 3   DTLTGSRIRERRQIAGLRQAELARRVGISASYLNLIEHNRRRIGGKVLVDIAAALSVEPS 62

Query: 72  FFFDV-SPTVCSDISSEENNVMDFISTPDGLQ 102
                   T+ S +     + +   +  DGL+
Sbjct: 63  LLTQGVEETLISALREAAADAVGQQAEVDGLE 94


>gi|221642312|ref|YP_002533399.1| transcriptional regulator, Cro/CI family [Bacillus cereus Q1]
 gi|221243247|gb|ACM15956.1| transcriptional regulator, Cro/CI family [Bacillus cereus Q1]
          Length = 66

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R+ L MSQ  L   +G+  + +   E G           I++VL++PI   F
Sbjct: 6  RMKEYRVKLNMSQGDLANKVGVRRETIGNLENGKYNPSLKLAYDIAKVLKAPIEVLF 62


>gi|163746698|ref|ZP_02154055.1| transcriptional regulator, putative [Oceanibulbus indolifex
          HEL-45]
 gi|161379812|gb|EDQ04224.1| transcriptional regulator, putative [Oceanibulbus indolifex
          HEL-45]
          Length = 430

 Score = 60.2 bits (145), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 31/75 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RIR RR++ G+ Q +L +  GI+   +   E    R+G   L +I++ L        +
Sbjct: 7  GSRIRERRVMAGLKQAELAQQSGISASYLNLIEHNRRRIGGKLLLNIAQALGVEPQALTE 66

Query: 76 VSPTVCSDISSEENN 90
           +         E   
Sbjct: 67 GAEAALIAALREAAE 81


>gi|229590656|ref|YP_002872775.1| putative DNA-binding protein [Pseudomonas fluorescens SBW25]
 gi|229362522|emb|CAY49429.1| putative DNA-binding protein [Pseudomonas fluorescens SBW25]
          Length = 193

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 36/85 (42%), Gaps = 1/85 (1%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K  P+ +D+ +   I+  R+  G+S  +L +  G+    + + E G+       L  ++ 
Sbjct: 10 KNNPSRIDL-LALSIKRERLAAGLSLTELAKRAGVAKSTLSQLESGIGNPSIETLWSLAM 68

Query: 65 VLESPISFFFDVSPTVCSDISSEEN 89
           +   ++ FF+        I + E 
Sbjct: 69 AMGLQVTRFFEQPQQPLRVIRANEG 93


>gi|116496181|ref|YP_807915.1| XRE family transcriptional regulator [Lactobacillus casei ATCC
          334]
 gi|239630630|ref|ZP_04673661.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|301067783|ref|YP_003789806.1| XRE family transcriptional regulator [Lactobacillus casei str.
          Zhang]
 gi|116106331|gb|ABJ71473.1| Transcriptional regulator, xre family [Lactobacillus casei ATCC
          334]
 gi|239526913|gb|EEQ65914.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|300440190|gb|ADK19956.1| Transcriptional regulator, xre family [Lactobacillus casei str.
          Zhang]
          Length = 185

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 34/72 (47%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+++G R++  R   GM+Q +L + L ++ + V  +E G N+     +  ++   +  + 
Sbjct: 3  DLSLGSRLKQLRKARGMTQSQLADDLFVSRKTVSSWETGRNQPDLQTICRLASYYQLTVD 62

Query: 72 FFFDVSPTVCSD 83
                   C+D
Sbjct: 63 DLLHQQSVPCAD 74


>gi|25026941|ref|NP_736995.1| putative transcription regulator [Corynebacterium efficiens YS-314]
 gi|259508572|ref|ZP_05751472.1| DNA-binding protein [Corynebacterium efficiens YS-314]
 gi|23492221|dbj|BAC17195.1| putative transcription regulator [Corynebacterium efficiens YS-314]
 gi|259163839|gb|EEW48393.1| DNA-binding protein [Corynebacterium efficiens YS-314]
          Length = 474

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 28/130 (21%), Positives = 51/130 (39%), Gaps = 14/130 (10%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R    +SQ  L   LG++   V + E  V  +    L  I+E      +FF
Sbjct: 5   YVGSRLRQLRRERDLSQASLAATLGLSASYVNQIEHDVRPLTVPVLLRITEAFGVDATFF 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII---ELVRSIVSSE 130
                    D S     V D +   +          I+  ++ + +    +L R++V   
Sbjct: 65  ------SRDDDSRLLAEVQDVMLDREI-----NPSSIELQELSEMVYNHPQLARAMVEMH 113

Query: 131 KKYRTIEEEC 140
           ++YR + ++ 
Sbjct: 114 RRYRNVRDKL 123


>gi|331267170|ref|YP_004326800.1| XRE family transcriptional regulator [Streptococcus oralis Uo5]
 gi|326683842|emb|CBZ01460.1| XRE family transcriptional regulator [Streptococcus oralis Uo5]
          Length = 165

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 36/75 (48%), Gaps = 2/75 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
          +++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    
Sbjct: 5  EKLFELRKEKGWSQEKLAEQINVSRQSISKWESGQVLPEIEKIIELSKIFQVTTDYLLLD 64

Query: 75 DVSPTVCSDISSEEN 89
          + S    +++  EE+
Sbjct: 65 ENSEKTSTEVILEED 79


>gi|295399294|ref|ZP_06809276.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
 gi|294978760|gb|EFG54356.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
          Length = 113

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 34/70 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+R++L R   G+SQ+++ E +GI    +  YE G  R     L  ++++ E  + +
Sbjct: 1  MDLGERLKLCREKKGLSQKEVAEKIGIKNNTLSNYESGERRPDYETLCKLADLYEVSLDY 60

Query: 73 FFDVSPTVCS 82
                    
Sbjct: 61 LIKGQEHKEE 70


>gi|192361034|ref|YP_001984168.1| adenine-specific DNA methyltransferase [Cellvibrio japonicus
          Ueda107]
 gi|190687199|gb|ACE84877.1| adenine-specific DNA methyltransferase [Cellvibrio japonicus
          Ueda107]
          Length = 72

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 31/67 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             GKR++  R    M+QE+L E +GIT + +   E+G+       L+ ++  L  P+  
Sbjct: 5  KQFGKRVQQLRFARKMTQEQLAERVGITIESISNIERGIYGPSFDTLEKLAIALRVPVQS 64

Query: 73 FFDVSPT 79
           F     
Sbjct: 65 LFAFDEP 71


>gi|187477387|ref|YP_785411.1| transcriptional regulator [Bordetella avium 197N]
 gi|115421973|emb|CAJ48494.1| putative transcriptional regulator [Bordetella avium 197N]
          Length = 177

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 33/80 (41%), Gaps = 3/80 (3%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +  PV  +V   +R  R   G+SQ  L    G++ + +   E G   +  ++L  I+  L
Sbjct: 1  MSEPVLEHVSANVRRLRAERGLSQTALAARAGLSRRMIVGLESGEANISLAKLGLIATAL 60

Query: 67 ESPISFFFDVSPTVCSDISS 86
          +     F ++  +      +
Sbjct: 61 DVN---FIELVSSPGQTPGA 77


>gi|225378306|ref|ZP_03755527.1| hypothetical protein ROSEINA2194_03967 [Roseburia inulinivorans DSM
           16841]
 gi|83596349|gb|ABC25509.1| transcriptional regulator [Roseburia inulinivorans DSM 16841]
 gi|225209873|gb|EEG92227.1| hypothetical protein ROSEINA2194_03967 [Roseburia inulinivorans DSM
           16841]
          Length = 113

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/115 (21%), Positives = 47/115 (40%), Gaps = 15/115 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+ RR     +QE L   +GI+   +   E+G  +V    L  I+  L++      
Sbjct: 8   IGTRIKERRAKKKWTQEMLASAVGISNPHMSNIERGRTKVSLGTLTDIANALDT------ 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
                +  D       V D   + +  + N   I+I        + ++V+++V S
Sbjct: 62  -TLDELICDNLVRGKVVFDEEISQELKECNEEDIRI--------VYDMVKALVKS 107


>gi|21231057|ref|NP_636974.1| hypothetical protein XCC1604 [Xanthomonas campestris pv.
          campestris str. ATCC 33913]
 gi|66768938|ref|YP_243700.1| hypothetical protein XC_2631 [Xanthomonas campestris pv.
          campestris str. 8004]
 gi|21112686|gb|AAM40898.1| conserved hypothetical protein [Xanthomonas campestris pv.
          campestris str. ATCC 33913]
 gi|66574270|gb|AAY49680.1| conserved hypothetical protein [Xanthomonas campestris pv.
          campestris str. 8004]
          Length = 113

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 36/63 (57%), Gaps = 5/63 (7%)

Query: 16 GKRIRLRRMILGMSQEKLGECLG----IT-FQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G R+R  RM +G +Q +L E +G    ++   +V +YE G +    +  + +++ L+ P+
Sbjct: 12 GTRLRHARMAMGWTQAELAERIGMVDSVSGATRVSRYETGQHDPDPATAEALAKALKLPV 71

Query: 71 SFF 73
          ++F
Sbjct: 72 AYF 74


>gi|16804372|ref|NP_465857.1| hypothetical protein lmo2334 [Listeria monocytogenes EGD-e]
 gi|217963568|ref|YP_002349246.1| DNA-binding protein [Listeria monocytogenes HCC23]
 gi|226224879|ref|YP_002758986.1| transcriptional regulator [Listeria monocytogenes Clip81459]
 gi|254831241|ref|ZP_05235896.1| DNA-binding protein [Listeria monocytogenes 10403S]
 gi|254901140|ref|ZP_05261064.1| DNA-binding protein [Listeria monocytogenes J0161]
 gi|254992018|ref|ZP_05274208.1| DNA-binding protein [Listeria monocytogenes FSL J2-064]
 gi|255022554|ref|ZP_05294540.1| DNA-binding protein [Listeria monocytogenes FSL J1-208]
 gi|255025516|ref|ZP_05297502.1| DNA-binding protein [Listeria monocytogenes FSL J2-003]
 gi|255519749|ref|ZP_05386986.1| DNA-binding protein [Listeria monocytogenes FSL J1-175]
 gi|284802775|ref|YP_003414640.1| hypothetical protein LM5578_2532 [Listeria monocytogenes 08-5578]
 gi|284995917|ref|YP_003417685.1| hypothetical protein LM5923_2482 [Listeria monocytogenes 08-5923]
 gi|16411822|emb|CAD00412.1| lmo2334 [Listeria monocytogenes EGD-e]
 gi|217332838|gb|ACK38632.1| DNA-binding protein [Listeria monocytogenes HCC23]
 gi|225877341|emb|CAS06055.1| Putative transcriptional regulator [Listeria monocytogenes serotype
           4b str. CLIP 80459]
 gi|284058337|gb|ADB69278.1| hypothetical protein LM5578_2532 [Listeria monocytogenes 08-5578]
 gi|284061384|gb|ADB72323.1| hypothetical protein LM5923_2482 [Listeria monocytogenes 08-5923]
 gi|307571856|emb|CAR85035.1| HTH-type transcriptional regulator, putative [Listeria
           monocytogenes L99]
 gi|328465370|gb|EGF36617.1| DNA-binding protein [Listeria monocytogenes 1816]
          Length = 115

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/110 (18%), Positives = 41/110 (37%), Gaps = 18/110 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G+++   R    ++Q++L   +G T   + KYE   +R     L  ++E+L +   F
Sbjct: 1   MEFGEKLIHLRKKNRLTQKQLAAKIGTTASTISKYENDNHRPPIFILAKLAEILGTTTDF 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
             D    +    S                     F  I + ++ +  +EL
Sbjct: 61  LLDDVAGLREKNS------------------VNAFPLIGNPELEKWYLEL 92


>gi|304398841|ref|ZP_07380711.1| transcriptional regulator, XRE family [Pantoea sp. aB]
 gi|304353545|gb|EFM17922.1| transcriptional regulator, XRE family [Pantoea sp. aB]
          Length = 210

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 36/71 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIRLRR  L ++Q++L + + ++   + ++EK         L  ++E L    +F  
Sbjct: 6  LGDRIRLRRKSLQLTQKQLAQQVKVSHVAISQWEKEETLPRGENLLRLAEALGCAPAFLI 65

Query: 75 DVSPTVCSDIS 85
          D    V S+ +
Sbjct: 66 DGDGPVFSESA 76


>gi|283769265|ref|ZP_06342169.1| peptidase S24-like domain protein [Bulleidia extructa W1219]
 gi|283104241|gb|EFC05620.1| peptidase S24-like domain protein [Bulleidia extructa W1219]
          Length = 275

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 41/83 (49%), Gaps = 2/83 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          VG+RIR RR+ L +S E LG  +G     + +YEKG +  +    +  ++  L +   + 
Sbjct: 5  VGERIRKRRIELKLSPEDLGNKIGKDRATIYRYEKGEIENLPVGIIAPLATALHTTPQYL 64

Query: 74 FD-VSPTVCSDISSEENNVMDFI 95
                   ++  ++ +N+ DF+
Sbjct: 65 MGWEEDPNLTERDNDLDNISDFL 87


>gi|194397827|ref|YP_002037955.1| putative transcriptional activator [Streptococcus pneumoniae G54]
 gi|194357494|gb|ACF55942.1| putative transcriptional activator [Streptococcus pneumoniae G54]
          Length = 287

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/96 (26%), Positives = 46/96 (47%), Gaps = 4/96 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           ++ R +R    +SQ+ L E  GI  Q Q+ K E+G     A  L  +S+ LE P+ +FF+
Sbjct: 6   EKFRXKRKEXXLSQQTLAE--GICEQSQISKIERGHFIPSADLLFKLSQRLEVPLDYFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               + S++S+ +      +   +      Y  +I+
Sbjct: 64  EQIEIKSNLSNFKQLSARLLDDRN-YDNLEYIYRIE 98


>gi|332653833|ref|ZP_08419577.1| DNA-binding protein [Ruminococcaceae bacterium D16]
 gi|332516919|gb|EGJ46524.1| DNA-binding protein [Ruminococcaceae bacterium D16]
          Length = 252

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G++I   R   G+SQE L   L ++ Q V K+E G +     ++  ++++    + 
Sbjct: 39 LGEKICTLRTGKGLSQEDLAAKLEVSRQSVSKWETGQSVPDLEKIIKLADLFGVNVD 95


>gi|317127194|ref|YP_004093476.1| helix-turn-helix domain protein [Bacillus cellulosilyticus DSM
          2522]
 gi|315472142|gb|ADU28745.1| helix-turn-helix domain protein [Bacillus cellulosilyticus DSM
          2522]
          Length = 207

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 40/83 (48%), Gaps = 6/83 (7%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-- 70
          +++G  I  +R  L +SQE + + LG++ Q V K+E  +++     L  ++ + E  I  
Sbjct: 1  MSLGSNINNKRKSLNLSQEYVADQLGVSRQAVSKWENNLSKPSTQNLIKMATLFECDIKE 60

Query: 71 ----SFFFDVSPTVCSDISSEEN 89
                F +    + +   S+++
Sbjct: 61 LVSSDKFMEKQKNLENQTESKKD 83


>gi|161504999|ref|YP_001572111.1| hypothetical protein SARI_03129 [Salmonella enterica subsp.
          arizonae serovar 62:z4,z23:-- str. RSK2980]
 gi|160866346|gb|ABX22969.1| hypothetical protein SARI_03129 [Salmonella enterica subsp.
          arizonae serovar 62:z4,z23:--]
          Length = 86

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 4/72 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+   ++QEKLG   GI     + ++  YE G ++     +   + VL  P  +
Sbjct: 4  KRLKEARLRAKLTQEKLGVLAGIEEATAYSRLSHYENGTHKPTFELVCEFARVLNVPECY 63

Query: 73 FFDVSPTVCSDI 84
          F+ V      ++
Sbjct: 64 FYTVDDGFADEV 75


>gi|157734756|dbj|BAF80762.1| prophage repressor [Enterobacteria phage P22]
          Length = 216

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 32/76 (42%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L + Q  LG+ +G++   + ++E+         L  +S+ L+    +   
Sbjct: 7  GERIRARRKKLKIRQAALGKMVGVSNVAISQWERSETEPNGESLLALSKALQCSPDYLLK 66

Query: 76 VSPTVCSDISSEENNV 91
             +  +      +  
Sbjct: 67 GDLSQTNVAYHSRHEP 82


>gi|116872182|ref|YP_848963.1| transcription regulator, putative [Listeria welshimeri serovar 6b
          str. SLCC5334]
 gi|116741060|emb|CAK20180.1| transcription regulator, putative [Listeria welshimeri serovar 6b
          str. SLCC5334]
          Length = 180

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 36/75 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|254488256|ref|ZP_05101461.1| transcriptional regulator, XRE family [Roseobacter sp. GAI101]
 gi|214045125|gb|EEB85763.1| transcriptional regulator, XRE family [Roseobacter sp. GAI101]
          Length = 431

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 35/85 (41%), Gaps = 1/85 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RIR RR++ G  Q  L + +GI+   +   E    R+G   L +I+  L    +   +
Sbjct: 8   GSRIRERRVMAGQKQADLAKEIGISASYLNLIEHNRRRIGGKLLLNIANALGVEPTALTE 67

Query: 76  VSPTVCSDISSEENNVMDFISTPDG 100
            +         E  +    +S P+ 
Sbjct: 68  GAEAALIASLREAADDAG-LSGPEA 91


>gi|251797962|ref|YP_003012693.1| XRE family transcriptional regulator [Paenibacillus sp. JDR-2]
 gi|247545588|gb|ACT02607.1| transcriptional regulator, XRE family [Paenibacillus sp. JDR-2]
          Length = 187

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 31/70 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRIRL R     +Q+++    G T   + K E G      + L  I+  L   +S 
Sbjct: 1  MELGKRIRLIRKEQKRTQDEVSAACGFTKSMLSKIENGSTMPAVATLMKIASALGVKVSD 60

Query: 73 FFDVSPTVCS 82
            + SP   +
Sbjct: 61 LLEPSPKSGT 70


>gi|146322242|ref|YP_001174729.1| hypothetical protein pGdh442_p22 [Lactococcus lactis]
 gi|145968733|gb|ABQ00011.1| hypothetical protein [Lactococcus lactis]
          Length = 201

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 1/68 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+   R   G +QE L E   IT + +Q+ E G + V    L  IS  L  P+S  F+  
Sbjct: 5  RVAELRKKRGWTQEVLAEKANITVRTIQRIENGTD-VSLDTLASISNALLVPVSELFERI 63

Query: 78 PTVCSDIS 85
               ++ 
Sbjct: 64 DEEAKEVE 71


>gi|311278398|ref|YP_003940629.1| helix-turn-helix domain-containing protein [Enterobacter cloacae
          SCF1]
 gi|308747593|gb|ADO47345.1| helix-turn-helix domain protein [Enterobacter cloacae SCF1]
          Length = 83

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/82 (26%), Positives = 37/82 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K    +   +G+RIR  R+ +G+SQE   +  GI    +   E+GV       +  IS+ 
Sbjct: 2  KNTGSIKKILGERIRTLRLDMGLSQEAFADKCGIDRTYMSGIERGVRNPTLIVICAISDG 61

Query: 66 LESPISFFFDVSPTVCSDISSE 87
          LE  +S  F  +    +D  + 
Sbjct: 62 LEMDLSHLFMFADGAHADNEAP 83


>gi|257866591|ref|ZP_05646244.1| predicted protein [Enterococcus casseliflavus EC30]
 gi|257872893|ref|ZP_05652546.1| predicted protein [Enterococcus casseliflavus EC10]
 gi|257800549|gb|EEV29577.1| predicted protein [Enterococcus casseliflavus EC30]
 gi|257807057|gb|EEV35879.1| predicted protein [Enterococcus casseliflavus EC10]
          Length = 304

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G++I  +R    ++Q  L + L +++Q V  +E+G +     +L  ++ +L+  I 
Sbjct: 7  RKIGQQIAAKRKEKNLTQSNLADQLLVSYQAVSNWERGNSLPDIEKLPQLAAILDLSID 65


>gi|257865722|ref|ZP_05645375.1| transcriptional regulator [Enterococcus casseliflavus EC30]
 gi|257872057|ref|ZP_05651710.1| transcriptional regulator [Enterococcus casseliflavus EC10]
 gi|257799656|gb|EEV28708.1| transcriptional regulator [Enterococcus casseliflavus EC30]
 gi|257806221|gb|EEV35043.1| transcriptional regulator [Enterococcus casseliflavus EC10]
          Length = 396

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/103 (18%), Positives = 43/103 (41%), Gaps = 4/103 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ +G+ I  RR   G++Q++L   + ++   V K+E G +    + L  ++   +  +
Sbjct: 1   MDLPIGEEIARRRKQRGITQQELAVFMNVSKASVSKWETGQSYPDITSLPLLAAYFDCSV 60

Query: 71  SFFF----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
                    +SP     I     +     +  + L L + F +
Sbjct: 61  DELLILDSQLSPKEIQRIYQLLKDAFQTKTPSEVLALAQSFTK 103


>gi|253579239|ref|ZP_04856509.1| transcriptional regulator [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849337|gb|EES77297.1| transcriptional regulator [Ruminococcus sp. 5_1_39BFAA]
          Length = 313

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 35/75 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++  R    ++QE+L E  G++ + V ++E G+N    S L  ++E  +  +    
Sbjct: 6  IGAFLKQCRKEKNLTQEQLAEKFGVSARTVSRWETGINMPDLSILVQLAEYYDVEMRELL 65

Query: 75 DVSPTVCSDISSEEN 89
          D   +   +   +E 
Sbjct: 66 DGERSQTMNKEMKET 80


>gi|254518274|ref|ZP_05130330.1| transcriptional regulator [Clostridium sp. 7_2_43FAA]
 gi|226912023|gb|EEH97224.1| transcriptional regulator [Clostridium sp. 7_2_43FAA]
          Length = 110

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 38/85 (44%), Gaps = 6/85 (7%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD- 75
          ++++  R   G+SQE L E +G++ Q V K+E   +     +L  +S V    I      
Sbjct: 8  EKLQGLRKEKGLSQEGLAELVGVSRQSVAKWESKKSYPEVDKLVQLSNVFGVSIDKLLKN 67

Query: 76 -----VSPTVCSDISSEENNVMDFI 95
                +  +   I+  +  ++DF+
Sbjct: 68 IEEECCNKEIKKSINGIDEKIIDFL 92


>gi|255283010|ref|ZP_05347565.1| transcriptional regulator, Cro/CI family [Bryantella
          formatexigens DSM 14469]
 gi|255266549|gb|EET59754.1| transcriptional regulator, Cro/CI family [Bryantella
          formatexigens DSM 14469]
          Length = 185

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 33/66 (50%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + V+  +GKRIR  R   G++Q++L +   +T   + + E+G        L  + E L +
Sbjct: 4  DYVNAQIGKRIRDLRNRKGLTQQELADRAELTKGFISQLERGQVSPSVVTLLDLIECLGT 63

Query: 69 PISFFF 74
            S FF
Sbjct: 64 TASDFF 69


>gi|212710117|ref|ZP_03318245.1| hypothetical protein PROVALCAL_01170 [Providencia alcalifaciens
          DSM 30120]
 gi|212687324|gb|EEB46852.1| hypothetical protein PROVALCAL_01170 [Providencia alcalifaciens
          DSM 30120]
          Length = 214

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 1/62 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESP 69
          ++  +G+R++  R   G+SQ +L +  G +   ++  YE G  ++ A     ISE L   
Sbjct: 4  INEIIGERLKSIRESRGLSQAQLAKLCGYSAASRIGNYELGERKISADDALVISEALGVS 63

Query: 70 IS 71
           +
Sbjct: 64 PA 65


>gi|148269420|ref|YP_001243880.1| cupin 2 domain-containing protein [Thermotoga petrophila RKU-1]
 gi|147734964|gb|ABQ46304.1| Cupin 2, conserved barrel domain protein [Thermotoga petrophila
          RKU-1]
          Length = 188

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 34/80 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+++R  R+  G++QE+L E   ++   + + E          L+ I E L + +  
Sbjct: 13 VRIGEKLRKLRLSKGLTQEELAERTDLSRSFISQLESDKTSPSIDTLERILEALGTDLKH 72

Query: 73 FFDVSPTVCSDISSEENNVM 92
          FF            EE   +
Sbjct: 73 FFSDVEEERVVFKKEERVPV 92


>gi|312792346|ref|YP_004025269.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
          kristjanssonii 177R1B]
 gi|312179486|gb|ADQ39656.1| helix-turn-helix domain protein [Caldicellulosiruptor
          kristjanssonii 177R1B]
          Length = 274

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    +S+  L E LG++ Q +  YE G        L  I+E  +  + + 
Sbjct: 7  RLKELREEKNISRSDLAEILGVSTQTIANYENGHREPNFDTLLKIAEYFDVTVDYL 62


>gi|307151755|ref|YP_003887139.1| XRE family transcriptional regulator [Cyanothece sp. PCC 7822]
 gi|306981983|gb|ADN13864.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 7822]
          Length = 78

 Score = 60.2 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/76 (26%), Positives = 33/76 (43%), Gaps = 2/76 (2%)

Query: 6  KIPNPVDI--NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          K P+  DI    G R+R  R   G+SQE L +   +    +   E+G   +    ++ I+
Sbjct: 2  KTPDDNDIRKQFGNRLRYLRQTRGLSQEALADLCNLDRSYIGGVERGERNISLLNIKKIA 61

Query: 64 EVLESPISFFFDVSPT 79
          + L      FFD   +
Sbjct: 62 DALGISPKEFFDEQDS 77


>gi|332298497|ref|YP_004440419.1| helix-turn-helix domain protein [Treponema brennaborense DSM 12168]
 gi|332181600|gb|AEE17288.1| helix-turn-helix domain protein [Treponema brennaborense DSM 12168]
          Length = 115

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/105 (16%), Positives = 39/105 (37%), Gaps = 2/105 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI+  R    +SQE+L + +G++   +   E G  ++       I++ L+       
Sbjct: 13  IGRRIKKYRWESNISQEELADAVGVSTTHMSHIETGGTKLSLGVFVKIADALQISADLLL 72

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +          SE + +           L        +   R+++
Sbjct: 73  NGDRATSK--LSEIDELFSASDERQSRILLEITRAAKNALDRERV 115


>gi|239945081|ref|ZP_04697018.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Streptomyces roseosporus NRRL 15998]
 gi|239991543|ref|ZP_04712207.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Streptomyces roseosporus NRRL 11379]
 gi|291448543|ref|ZP_06587933.1| UDP-N-acetylglucosamine transferase [Streptomyces roseosporus
          NRRL 15998]
 gi|291351490|gb|EFE78394.1| UDP-N-acetylglucosamine transferase [Streptomyces roseosporus
          NRRL 15998]
          Length = 509

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 31/64 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L
Sbjct: 1  MSDDYLVRIGKLIRDARQHRGWTQTQLAEALGTSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|291523310|emb|CBK81603.1| Predicted transcriptional regulators [Coprococcus catus GD/7]
          Length = 336

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/90 (20%), Positives = 31/90 (34%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+L   LG++ Q V K+E         R+  +SE+      +     
Sbjct: 6   KITEERKKNGWSQEELANQLGVSRQAVSKWESAGAVPDLQRILQMSELFCVSTDYLLKDE 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYF 107
               +    E +           ++    F
Sbjct: 66  MKAENITYHESSESYAEPLKKVTMENANEF 95


>gi|291166792|gb|EFE28838.1| transcriptional regulator, Cro/CI family [Filifactor alocis ATCC
          35896]
          Length = 172

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 36/67 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++I+  R++  ++QE+L     +T   + K E+ +     S L  I EVL + +  
Sbjct: 1  MDIGEKIKRLRILNQLTQEELALRCDLTKGFISKVERNLTSPSISTLMDILEVLGTDLKS 60

Query: 73 FFDVSPT 79
          FFD +  
Sbjct: 61 FFDDAID 67


>gi|168206199|ref|ZP_02632204.1| transcriptional regulator, MerR family [Clostridium perfringens E
          str. JGS1987]
 gi|170662344|gb|EDT15027.1| transcriptional regulator, MerR family [Clostridium perfringens E
          str. JGS1987]
          Length = 263

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NVG RI+  R    +SQ++L    G++   +  YE    +     L+ I++ L+  I  
Sbjct: 1  MNVGDRIKYFRKAENLSQDELASKSGLSRNAISNYELNKRQPNIVVLKKIADALKVDIDD 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|91790971|ref|YP_551922.1| XRE family transcriptional regulator [Polaromonas sp. JS666]
 gi|91700851|gb|ABE47024.1| transcriptional regulator, XRE family [Polaromonas sp. JS666]
          Length = 107

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/81 (27%), Positives = 40/81 (49%), Gaps = 1/81 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
          +G++IR  R   G++ E L    G++   + + E +   R  A +LQ I++VL   +SFF
Sbjct: 5  LGEKIRSYRTKKGLTLEALAHQAGLSKSYLWELENRESQRPSAEKLQGIADVLGVDVSFF 64

Query: 74 FDVSPTVCSDISSEENNVMDF 94
           D S     +   ++    +F
Sbjct: 65 VDDSVDNPQEAHRDKQFFRNF 85


>gi|255526730|ref|ZP_05393632.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296187021|ref|ZP_06855421.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
 gi|255509565|gb|EET85903.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296048459|gb|EFG87893.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
          Length = 235

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 32/61 (52%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I +GKRIR  R    M+ ++L + +  +   V KYEKG   +    L ++++VL   +
Sbjct: 4  ISIEIGKRIRSFRKAKKMTIQELADQIYKSKATVSKYEKGEIVIDIVTLYNVAKVLRIHV 63

Query: 71 S 71
           
Sbjct: 64 D 64


>gi|188585017|ref|YP_001916562.1| transcriptional regulator, XRE family [Natranaerobius
          thermophilus JW/NM-WN-LF]
 gi|179349704|gb|ACB83974.1| transcriptional regulator, XRE family [Natranaerobius
          thermophilus JW/NM-WN-LF]
          Length = 120

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 1/81 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
          +G RIR  R  L +S++KLG  +G+T   + + E+G      + L  IS+VL+  I  F 
Sbjct: 10 IGDRIREERERLDLSRKKLGRLIGVTEHHIGQLERGERNTSLTTLAKISQVLKVSIDSFV 69

Query: 74 FDVSPTVCSDISSEENNVMDF 94
          FD       + S       + 
Sbjct: 70 FDTGEPNNDEKSERSTERAEL 90


>gi|217971957|ref|YP_002356708.1| putative phage repressor [Shewanella baltica OS223]
 gi|217497092|gb|ACK45285.1| putative phage repressor [Shewanella baltica OS223]
          Length = 233

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 36/77 (46%), Gaps = 1/77 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+R + RR I+ ++Q +L + +G++   + ++E G        L  +++ L+    +
Sbjct: 2  KTLGERSKERRKIINLTQLQLSKKVGVSSVTISQWESGDTSPKGENLYKLAQALQCSPDW 61

Query: 73 F-FDVSPTVCSDISSEE 88
            F  S       S+ E
Sbjct: 62 LMFGDSKNTKKPESNAE 78


>gi|90579989|ref|ZP_01235797.1| putative transcriptional regulator [Vibrio angustum S14]
 gi|90438874|gb|EAS64057.1| putative transcriptional regulator [Vibrio angustum S14]
          Length = 82

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 33/61 (54%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R   G +Q++LG  LG+       ++ +YE+G +      +Q I +VL  P ++F
Sbjct: 8  RLKAARKAAGYTQQQLGIALGMDPNTASARMNQYERGKHTPDYQTMQRIGKVLGVPTAYF 67

Query: 74 F 74
          +
Sbjct: 68 Y 68


>gi|126175811|ref|YP_001051960.1| putative phage repressor [Shewanella baltica OS155]
 gi|125999016|gb|ABN63091.1| putative phage repressor [Shewanella baltica OS155]
          Length = 233

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 36/77 (46%), Gaps = 1/77 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+R + RR I+ ++Q +L + +G++   + ++E G        L  +++ L+    +
Sbjct: 2  KTLGERSKERRKIINLTQLQLSKKVGVSSVTISQWESGDTSPKGENLYKLAQALQCSPDW 61

Query: 73 F-FDVSPTVCSDISSEE 88
            F  S       S+ E
Sbjct: 62 LMFGDSKNTKKPESNAE 78


>gi|332976136|gb|EGK13004.1| XRE family transcriptional regulator [Desmospora sp. 8437]
          Length = 237

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 29/56 (51%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+   ++QE+LG+ + +T   +  YE G        LQ I+EV +  I F 
Sbjct: 6  RLKKLRLEHKLTQEQLGKKINVTKVSISGYENGTRTPDIETLQKIAEVFDVTIDFL 61



 Score = 38.6 bits (89), Expect = 0.27,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 34/87 (39%), Gaps = 5/87 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-----S 71
           K ++  R+   ++ ++L     +  +++   E G      + +  +SE L++P       
Sbjct: 79  KNLKRLRIKQNLTLKELATKAKMDHERLADLESGKIDPDLNDIIDLSEALDAPEHVVSKG 138

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTP 98
             F++SP        E     D IS  
Sbjct: 139 TVFEISPEKLEQNRKELQAKFDLISHK 165


>gi|291560817|emb|CBL39617.1| Predicted transcriptional regulators [butyrate-producing bacterium
           SSC/2]
          Length = 110

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 41/94 (43%), Gaps = 8/94 (8%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           NVGKR++  R   G +QE++ + L +T   +   E    ++    L + +++L   I + 
Sbjct: 8   NVGKRMKTLRKQAGYTQEQIADALDVTVAFISNIENDRVKMNLRVLSYYAKLLNVSIDYL 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
                       S+EN   D +   + L+L   F
Sbjct: 68  L--------RPESDENGEKDDVLNKEILRLLEKF 93


>gi|163734287|ref|ZP_02141727.1| DNA-binding protein [Roseobacter litoralis Och 149]
 gi|161392295|gb|EDQ16624.1| DNA-binding protein [Roseobacter litoralis Och 149]
          Length = 190

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 34/71 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R   G++   L E LG +   + + E+  +    S L+ I++VLE  IS  F
Sbjct: 12 LGADLRALRKARGLTLADLAERLGRSVGWLSQVERDKSDPSISDLRAIAKVLEVSISMLF 71

Query: 75 DVSPTVCSDIS 85
            +P   ++  
Sbjct: 72 RHAPATATEAG 82


>gi|145218938|ref|YP_001129647.1| XRE family transcriptional regulator [Prosthecochloris vibrioformis
           DSM 265]
 gi|145205102|gb|ABP36145.1| transcriptional regulator, XRE family [Chlorobium phaeovibrioides
           DSM 265]
          Length = 210

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 29/128 (22%), Positives = 55/128 (42%), Gaps = 7/128 (5%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G RI+  R   G+SQE+L   + +    V K E G   +    L+  +E L +PIS  
Sbjct: 5   QIGLRIKELRSQNGLSQEELARRVELPRTAVTKIESGSQELRFRELEKFAEALGTPISAL 64

Query: 74  FDVSPTVCSDISSEENNVMD--FISTPDGLQLNRYFIQIDDVKVRQKII-ELVRSIVSSE 130
            +      + +    +  MD  F+ T +  +      +  + ++R  ++  L R+  + E
Sbjct: 65  VEKPHESPASVMCMSSTFMDNSFMMTSESSEE----YKASNTRLRTMLLFILQRTAGNPE 120

Query: 131 KKYRTIEE 138
              R I +
Sbjct: 121 MDDRRIAD 128


>gi|319940112|ref|ZP_08014466.1| hypothetical protein HMPREF9459_01456 [Streptococcus anginosus
          1_2_62CV]
 gi|319810826|gb|EFW07153.1| hypothetical protein HMPREF9459_01456 [Streptococcus anginosus
          1_2_62CV]
          Length = 169

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + KRI   R   G SQ++L E + ++ Q + K+E         ++  +S++ +    +
Sbjct: 1  MQINKRIFELRKERGWSQDQLAEKVNVSRQSISKWESAQALPEIEKVIELSKIFQVTTDY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|313672769|ref|YP_004050880.1| helix-turn-helix domain protein [Calditerrivibrio nitroreducens
          DSM 19672]
 gi|312939525|gb|ADR18717.1| helix-turn-helix domain protein [Calditerrivibrio nitroreducens
          DSM 19672]
          Length = 200

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 33/66 (50%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +IN+G+RI+  R +  ++ + +    G +   + + E  V     + L  I++VL   + 
Sbjct: 5  NINIGERIKRLRHMRNLTLQDVANFTGFSKALISQIENNVVTPPITTLAKIAKVLNVKMV 64

Query: 72 FFFDVS 77
          +FF+  
Sbjct: 65 YFFEDD 70


>gi|69245861|ref|ZP_00603678.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|256853748|ref|ZP_05559113.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
          T8]
 gi|257879178|ref|ZP_05658831.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|257882003|ref|ZP_05661656.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,502]
 gi|257890008|ref|ZP_05669661.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,410]
 gi|258615576|ref|ZP_05713346.1| XRE family transcriptional regulator [Enterococcus faecium DO]
 gi|260560175|ref|ZP_05832352.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          C68]
 gi|294620832|ref|ZP_06700036.1| transcriptional regulator, xre family [Enterococcus faecium
          U0317]
 gi|314947724|ref|ZP_07851131.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|68195563|gb|EAN10005.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|256710691|gb|EEU25734.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
          T8]
 gi|257813406|gb|EEV42164.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|257817661|gb|EEV44989.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,502]
 gi|257826368|gb|EEV52994.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,410]
 gi|260073742|gb|EEW62067.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          C68]
 gi|291599617|gb|EFF30630.1| transcriptional regulator, xre family [Enterococcus faecium
          U0317]
 gi|313645704|gb|EFS10284.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|315030235|gb|EFT42167.1| helix-turn-helix protein [Enterococcus faecalis TX4000]
 gi|315144772|gb|EFT88788.1| helix-turn-helix protein [Enterococcus faecalis TX2141]
 gi|315158697|gb|EFU02714.1| helix-turn-helix protein [Enterococcus faecalis TX0312]
          Length = 111

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          IR +R  LG +Q++L + +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 10 IREKRKALGWTQKELAKKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66


>gi|325926434|ref|ZP_08187757.1| putative transcription factor, MBF1 like protein [Xanthomonas
          perforans 91-118]
 gi|325543177|gb|EGD14617.1| putative transcription factor, MBF1 like protein [Xanthomonas
          perforans 91-118]
          Length = 134

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 36/63 (57%), Gaps = 5/63 (7%)

Query: 16 GKRIRLRRMILGMSQEKLGECLG----IT-FQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G R+R  RM +G +Q +L E +G    ++   +V +YE G +    +  + +++ L+ P+
Sbjct: 32 GTRLRHARMAMGWTQAELAERIGMVDNVSGATRVSRYETGQHDPDPATAEALAKALKLPV 91

Query: 71 SFF 73
          ++F
Sbjct: 92 AYF 94


>gi|225375055|ref|ZP_03752276.1| hypothetical protein ROSEINA2194_00678 [Roseburia inulinivorans
          DSM 16841]
 gi|225213127|gb|EEG95481.1| hypothetical protein ROSEINA2194_00678 [Roseburia inulinivorans
          DSM 16841]
          Length = 305

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 38/73 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK IR +R+  GM+Q++L E + +T + V ++E G      S L+ ++E L   ++   
Sbjct: 6  IGKYIRKKRIEKGMTQQQLAEKIQVTEKAVSRWETGRGVPDISLLEPLAEELHVSVTELL 65

Query: 75 DVSPTVCSDISSE 87
          +    V  +   +
Sbjct: 66 NGEERVQEEAVHD 78


>gi|212709332|ref|ZP_03317460.1| hypothetical protein PROVALCAL_00367 [Providencia alcalifaciens
          DSM 30120]
 gi|212688244|gb|EEB47772.1| hypothetical protein PROVALCAL_00367 [Providencia alcalifaciens
          DSM 30120]
          Length = 99

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 34/63 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G  IR  R+  G+S+++L   + ++ QQV +YE+GV+ +    +  +   L  P 
Sbjct: 3  LNKKIGNFIRNARVSKGLSEKELASLISVSQQQVSRYERGVSTLSIQNILILLNALNIPF 62

Query: 71 SFF 73
            F
Sbjct: 63 DEF 65


>gi|217961397|ref|YP_002339965.1| prophage LambdaBa02, repressor protein [Bacillus cereus AH187]
 gi|229140643|ref|ZP_04269194.1| Prophage LambdaBa02, repressor protein [Bacillus cereus BDRD-ST26]
 gi|217063695|gb|ACJ77945.1| prophage LambdaBa02, repressor protein [Bacillus cereus AH187]
 gi|228642816|gb|EEK99096.1| Prophage LambdaBa02, repressor protein [Bacillus cereus BDRD-ST26]
          Length = 122

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/126 (17%), Positives = 51/126 (40%), Gaps = 15/126 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLG--------ITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +G+RI+L R   G++Q+ L   +         +T   +  YE G +      L  IS+VL
Sbjct: 4   LGQRIKLSRKKRGLTQDALALKIKEKMDTETKVTKTTISNYETGYSSPSNETLVIISDVL 63

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +  + +    S     +         +F    + + +     +    + +  +++++++ 
Sbjct: 64  DVSVDYLLGRSDDPELNAVQFTELRKEF---NELIDMLEKMPK----EKQDMLLDMMKAA 116

Query: 127 VSSEKK 132
           V   KK
Sbjct: 117 VGHNKK 122


>gi|160880106|ref|YP_001559074.1| XRE family transcriptional regulator [Clostridium phytofermentans
          ISDg]
 gi|160428772|gb|ABX42335.1| transcriptional regulator, XRE family [Clostridium
          phytofermentans ISDg]
          Length = 268

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 32/59 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I + R    +SQ  L E LG++ Q + K+E G +     +L  +SE+ +  + 
Sbjct: 1  MKLGEKIVMFRTEHHLSQGDLAEKLGVSRQSISKWETGGSVPDLDKLIALSELFDVSLD 59


>gi|332523855|ref|ZP_08400107.1| putative HTH-type transcriptional regulator PrtR [Streptococcus
          porcinus str. Jelinkova 176]
 gi|332315119|gb|EGJ28104.1| putative HTH-type transcriptional regulator PrtR [Streptococcus
          porcinus str. Jelinkova 176]
          Length = 230

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GK+++  R    MSQE L + +G++   +  +E+G N      L  +  +      +F
Sbjct: 4  GKQLKAIRQKEKMSQENLSDQIGVSKMTISNWEQGKNNPNQKHLAQLVAIFRVSEDYF 61


>gi|308071047|ref|YP_003872652.1| transcriptional regulator [Paenibacillus polymyxa E681]
 gi|305860326|gb|ADM72114.1| Predicted transcriptional regulator [Paenibacillus polymyxa E681]
          Length = 129

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 33/66 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G +IR  R +  ++QE+L E    T   + K E+G   V    L+ I+E L + +  
Sbjct: 5  KLIGTKIRQFRKLRDITQEQLAEASDSTGSYIGKLERGEVNVQIKTLEKIAEALNTNVFA 64

Query: 73 FFDVSP 78
          FF+ + 
Sbjct: 65 FFNFNS 70


>gi|317047999|ref|YP_004115647.1| XRE family transcriptional regulator [Pantoea sp. At-9b]
 gi|316949616|gb|ADU69091.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
          Length = 181

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/132 (16%), Positives = 47/132 (35%), Gaps = 13/132 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++   ++  R   G S     E  G++   + + E+G +    + L  I+     P SFF
Sbjct: 7   HLSLALKQLRQANGWSLTLAAERTGVSKAMLGQIERGESSPTVATLWKIATGFNVPFSFF 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR-SIVSSEKK 132
              S       ++         +      L  Y     D ++R    +L+  ++    + 
Sbjct: 67  IQGSELPPGAAATFSQTNAQMQAKS----LLPY-----DAQLR---FDLLEVTLAPGAQS 114

Query: 133 YRTIEEECMVEQ 144
             +  E  ++EQ
Sbjct: 115 DSSPHEHGVIEQ 126


>gi|222053702|ref|YP_002536064.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221562991|gb|ACM18963.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 106

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 38/74 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R +  M+QEKL E +G+  + V   E G +      ++ I++ L+  +   F
Sbjct: 8  LGARIKELRKLRKMTQEKLAEQIGVDPKYVSFIEVGRSSPSLEAMEKIAQALDVEMKDMF 67

Query: 75 DVSPTVCSDISSEE 88
          D S     ++S E+
Sbjct: 68 DFSHHEAREVSIEQ 81


>gi|88812246|ref|ZP_01127497.1| probable transcriptional regulator [Nitrococcus mobilis Nb-231]
 gi|88790497|gb|EAR21613.1| probable transcriptional regulator [Nitrococcus mobilis Nb-231]
          Length = 179

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/99 (24%), Positives = 38/99 (38%), Gaps = 1/99 (1%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DV 76
           R++L R  LG + E L +  G+T   + K E+G+N    +    ++E L   +   F D 
Sbjct: 4   RLKLLRKKLGFTLEALAQQTGLTKSYLSKVERGLNTPSIAVALKVAEALNVQVEELFSDG 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                       N      S  DGL       +I   +V
Sbjct: 64  DEASDGYSLVRANERGSLASGDDGLAYASLANRIGSRRV 102


>gi|218898722|ref|YP_002447133.1| helix-turn-helix domain protein [Bacillus cereus G9842]
 gi|218540740|gb|ACK93134.1| helix-turn-helix domain protein [Bacillus cereus G9842]
          Length = 262

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ETAEQSNE 71


>gi|146342719|ref|YP_001207767.1| transcriptional regulator [Bradyrhizobium sp. ORS278]
 gi|146195525|emb|CAL79550.1| putative transcriptional regulator with a putative HTH DNA-binding
           domain [Bradyrhizobium sp. ORS278]
          Length = 225

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 33/73 (45%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +  K+    ++  +G  +R  R  L ++  +LG   GI+   + K E G      + L  
Sbjct: 29  MAPKEATPTLETEIGAEVRRLRKDLDLTVAELGAAAGISAGMMSKIENGSISPSLATLSA 88

Query: 62  ISEVLESPISFFF 74
           +++ L  PI+  F
Sbjct: 89  LAKALNVPIARLF 101


>gi|304321631|ref|YP_003855274.1| XRE family transcriptional regulator [Parvularcula bermudensis
          HTCC2503]
 gi|303300533|gb|ADM10132.1| transcriptional regulator, XRE family protein [Parvularcula
          bermudensis HTCC2503]
          Length = 226

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 41/89 (46%), Gaps = 4/89 (4%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+D  +G+RI+  R    ++QE LG  LG++   V  +E  +++     L  +++ LE  
Sbjct: 15 PIDT-IGQRIKAARKRCRLNQENLGRELGVSQPTVANWEADIHQPRPFMLGKLADRLEVT 73

Query: 70 ISFFFDVSPTVCSDISSEENNVMDFISTP 98
          + +           +   ++ +  ++  P
Sbjct: 74 VGWLAGGDEGGSVSV---DHPMASYLRRP 99


>gi|295113444|emb|CBL32081.1| Predicted transcription factor, homolog of eukaryotic MBF1
          [Enterococcus sp. 7L76]
          Length = 115

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          IR +R  LG +Q++L + +  T Q V ++E  V       L  +S  L +P+S F D
Sbjct: 10 IREKRKALGWTQKELAKKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLD 66


>gi|242239429|ref|YP_002987610.1| XRE family transcriptional regulator [Dickeya dadantii Ech703]
 gi|242131486|gb|ACS85788.1| transcriptional regulator, XRE family [Dickeya dadantii Ech703]
          Length = 131

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/65 (30%), Positives = 32/65 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI   R   G++Q +L + L ++ Q VQ +E G  R+  S L  ++  L   +    
Sbjct: 16 LGKRITALRKDAGLTQVQLAQALNVSQQAVQSWESGRRRIQISALPAVARQLSVSLDALL 75

Query: 75 DVSPT 79
            S T
Sbjct: 76 GDSHT 80


>gi|212709444|ref|ZP_03317572.1| hypothetical protein PROVALCAL_00484 [Providencia alcalifaciens
          DSM 30120]
 gi|212687959|gb|EEB47487.1| hypothetical protein PROVALCAL_00484 [Providencia alcalifaciens
          DSM 30120]
          Length = 112

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/54 (33%), Positives = 29/54 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          G  IR  R   G+S  +L + + I+ QQ+ +YE G+ +     L +IS  L+ P
Sbjct: 23 GLIIREIRKENGISAHELAKKINISQQQMSRYELGITKFSLDMLFNISVALDIP 76


>gi|191639701|ref|YP_001988867.1| Transcriptional regulator, xre family [Lactobacillus casei BL23]
 gi|190714003|emb|CAQ68009.1| Transcriptional regulator, xre family [Lactobacillus casei BL23]
 gi|327383814|gb|AEA55290.1| Transcriptional regulator [Lactobacillus casei LC2W]
          Length = 185

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 34/72 (47%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+++G R++  R   GM+Q +L + L ++ + V  +E G N+     +  ++   +  + 
Sbjct: 3  DLSLGSRLKQLRKARGMTQSQLADDLFVSRKTVSSWETGRNQPDLQTICRLASYYQLTVD 62

Query: 72 FFFDVSPTVCSD 83
                   C+D
Sbjct: 63 DLIHQQSVPCAD 74


>gi|167754509|ref|ZP_02426636.1| hypothetical protein CLORAM_00010 [Clostridium ramosum DSM 1402]
 gi|237733852|ref|ZP_04564333.1| conserved hypothetical protein [Mollicutes bacterium D7]
 gi|167705341|gb|EDS19920.1| hypothetical protein CLORAM_00010 [Clostridium ramosum DSM 1402]
 gi|229383190|gb|EEO33281.1| conserved hypothetical protein [Coprobacillus sp. D7]
          Length = 242

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 26/51 (50%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            R   G+SQE+L   LG++ Q V K+E G +     R+  I+++    + 
Sbjct: 9  KYRKQKGLSQEELAFRLGVSRQSVSKWESGQSTPELERIIEIADLFGISLD 59


>gi|291539786|emb|CBL12897.1| Predicted transcriptional regulators [Roseburia intestinalis
          XB6B4]
          Length = 223

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/56 (35%), Positives = 30/56 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK I+  RM LG +QE+L   LG+T Q +  +E       + +L  IS+ L   I
Sbjct: 6  IGKNIKELRMKLGYTQEQLANELGVTRQTLSNWECEKTIPDSMQLNEISKRLNISI 61


>gi|229101738|ref|ZP_04232455.1| hypothetical protein bcere0019_9050 [Bacillus cereus Rock3-28]
 gi|228681686|gb|EEL35846.1| hypothetical protein bcere0019_9050 [Bacillus cereus Rock3-28]
          Length = 149

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E L ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKLHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|223985127|ref|ZP_03635223.1| hypothetical protein HOLDEFILI_02529 [Holdemania filiformis DSM
          12042]
 gi|223962949|gb|EEF67365.1| hypothetical protein HOLDEFILI_02529 [Holdemania filiformis DSM
          12042]
          Length = 260

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G+++   R   G+SQE L + LG T Q V K+E         ++  +S++      +
Sbjct: 1  MNFGEKLFKLRKEKGLSQEALADQLGTTRQAVSKWENNQGYPETEKILQLSQLFGVSTDY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|170760881|ref|YP_001786959.1| putative DNA-binding protein [Clostridium botulinum A3 str. Loch
          Maree]
 gi|169407870|gb|ACA56281.1| putative DNA-binding protein [Clostridium botulinum A3 str. Loch
          Maree]
          Length = 370

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 30/71 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ I   R    ++QE+L   +G++   V K+E G +    + L  I+      I  
Sbjct: 4  LLIGEVIYRLRKEKAITQEQLANFVGVSTAAVSKWESGTSYPDITLLPAIATFFNVTIDT 63

Query: 73 FFDVSPTVCSD 83
            +    +  +
Sbjct: 64 LLNFKIELSDE 74


>gi|168206998|ref|ZP_02633003.1| LexA repressor [Clostridium perfringens E str. JGS1987]
 gi|170661596|gb|EDT14279.1| LexA repressor [Clostridium perfringens E str. JGS1987]
          Length = 340

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/126 (16%), Positives = 53/126 (42%), Gaps = 15/126 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
             ++  R    ++Q+ L + L ++   +  YEKG        L +++  +   I   F  
Sbjct: 8   NNLKKYRKDNKLTQDDLAKRLNVSRSAISYYEKGTVEPSIFFLINLANEMNCSIDNLFGF 67

Query: 75  --DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRSIVSSEK 131
             +V+  +  +++ E+   ++     + L+       IDD K     ++ L +++   ++
Sbjct: 68  NREVTIDLPQNLTKEDLKPLEKEFKKENLE-------IDDPKY---YLDKLKKTLTKVQR 117

Query: 132 KYRTIE 137
            Y  +E
Sbjct: 118 SYIELE 123


>gi|149201279|ref|ZP_01878254.1| transcriptional regulator, XRE family with cupin sensor domain
          [Roseovarius sp. TM1035]
 gi|149145612|gb|EDM33638.1| transcriptional regulator, XRE family with cupin sensor domain
          [Roseovarius sp. TM1035]
          Length = 209

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/84 (21%), Positives = 32/84 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RIR RR ++ M+ + L    G++   + + E+         L  I+  L+  I  F 
Sbjct: 14 LGRRIRKRRQLMSMTLQDLSNGCGVSVSYLSQIERDNAVPTLGTLAEIAAALDVSIDHFI 73

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
                 S   +E         T 
Sbjct: 74 ATPRQADSVTRAETRPQFSISGTS 97


>gi|78187740|ref|YP_375783.1| XRE family transcriptional regulator [Chlorobium luteolum DSM
          273]
 gi|78167642|gb|ABB24740.1| transcriptional regulator, XRE family [Chlorobium luteolum DSM
          273]
          Length = 390

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/94 (25%), Positives = 42/94 (44%), Gaps = 9/94 (9%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           + +   +G R+R  RM LG SQEKL EC G+    +   E+G   +  +  + I+  L 
Sbjct: 6  SDSITRLLGLRVRRWRMALGYSQEKLAECAGLHRTYIGTVERGEQNITVANAEKIANALH 65

Query: 68 SPISF---------FFDVSPTVCSDISSEENNVM 92
            +S          F+++ P   S ++ E   + 
Sbjct: 66 VTLSDILGTQQLREFYELFPGSFSIMNPEGKVIA 99


>gi|83951709|ref|ZP_00960441.1| hypothetical protein ISM_14140 [Roseovarius nubinhibens ISM]
 gi|83836715|gb|EAP76012.1| hypothetical protein ISM_14140 [Roseovarius nubinhibens ISM]
          Length = 219

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/101 (17%), Positives = 39/101 (38%), Gaps = 8/101 (7%)

Query: 4   NKKIPNPV--------DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG 55
            K+ P+ +        ++ +G+ +R  R    M+   L E  G++   + K E G     
Sbjct: 13  PKQDPHKITPNKERVLEVAIGREVRSLRQSQRMTVTDLSEATGLSPGMLSKIENGGTSAS 72

Query: 56  ASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFIS 96
            + L  ++  L  PI+ FF         +  +    ++ + 
Sbjct: 73  LTTLVTLARALSVPITDFFKTYEVERGAVHVKAGEGVETVR 113


>gi|326405605|gb|ADZ62676.1| transcriptional regulator, Cro/CI family [Lactococcus lactis
          subsp. lactis CV56]
          Length = 107

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/78 (17%), Positives = 36/78 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + + I+  R +  +SQE+L + + I+ Q + K+E G +     ++  +SE+ +  +  
Sbjct: 1  MEISQIIKENRKMKNLSQEELAKKMHISRQSISKWETGKSLPTTGQIILLSEIFDCSLDT 60

Query: 73 FFDVSPTVCSDISSEENN 90
                 +      E ++
Sbjct: 61 LLKGDKKMEEKAKHEIDD 78


>gi|307947017|ref|ZP_07662352.1| transcriptional regulator [Roseibium sp. TrichSKD4]
 gi|307770681|gb|EFO29907.1| transcriptional regulator [Roseibium sp. TrichSKD4]
          Length = 207

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/105 (17%), Positives = 42/105 (40%), Gaps = 8/105 (7%)

Query: 1   MVGNKKIPNPV--------DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN 52
           M    + P+ V        ++ +G+++R  R   G++  +L +   ++   + K E G  
Sbjct: 1   MTEFFQDPHSVREEREKVLEVAIGRKVRSFRKQRGITVAELSKLTDLSVGMLSKIENGNT 60

Query: 53  RVGASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFIST 97
               + LQ++S  L  P++  F         I ++    ++    
Sbjct: 61  SPSLTTLQNLSRALSVPLTALFKGYEERREAIHTKAGKGVEIERD 105


>gi|291458779|ref|ZP_06598169.1| toxin-antitoxin system, antitoxin component, Xre family
          [Oribacterium sp. oral taxon 078 str. F0262]
 gi|291418696|gb|EFE92415.1| toxin-antitoxin system, antitoxin component, Xre family
          [Oribacterium sp. oral taxon 078 str. F0262]
          Length = 183

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 31/58 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +G+ IR  R   G++ ++LG+ +G++   ++ YE G        L+ +++ L   +
Sbjct: 1  MTIGENIRRIRKERGLTLKQLGDEVGVSEAYIRAYETGRRNPKLKSLEALAKALHVNV 58


>gi|255263387|ref|ZP_05342729.1| transcriptional regulator, XRE family [Thalassiobium sp. R2A62]
 gi|255105722|gb|EET48396.1| transcriptional regulator, XRE family [Thalassiobium sp. R2A62]
          Length = 139

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 35/73 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+   R   G+SQE L + LGI    ++ +E  +N   A++LQ +S +L   + +  +
Sbjct: 26 GDRVAAAREQAGLSQEALAKQLGIKNGTLRNWEHDLNEPRANKLQMLSGILGVSLMWLLN 85

Query: 76 VSPTVCSDISSEE 88
                S    E+
Sbjct: 86 GEGDGISAPDQED 98


>gi|71906945|ref|YP_284532.1| helix-hairpin-helix DNA-binding motif-containing protein
          [Dechloromonas aromatica RCB]
 gi|71846566|gb|AAZ46062.1| Helix-turn-helix motif protein [Dechloromonas aromatica RCB]
          Length = 273

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 31/78 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R  L +SQ +L E +G + QQ+Q+ E G           +   L+ P+   F  
Sbjct: 3  NRVQQFRKALKLSQRQLAEAVGTSQQQIQRIESGQIAAKLEMAAKLCAALQKPMEVVFPG 62

Query: 77 SPTVCSDISSEENNVMDF 94
          +         E N    F
Sbjct: 63 ATKALKSAEREMNASHTF 80


>gi|326402562|ref|YP_004282643.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
 gi|325049423|dbj|BAJ79761.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
          Length = 94

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 34/80 (42%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +    G  +R  R+  G+SQE + E +G+    V   E+G   V    L H+++ L+  
Sbjct: 2  DIRRIFGANLRHYRLAAGLSQEAVAERMGVDRAHVSSMERGSQNVTLITLWHLADALKIQ 61

Query: 70 ISFFFDVSPTVCSDISSEEN 89
           +   D +P    + S    
Sbjct: 62 PADLLDTTPKPPVETSRPAR 81


>gi|307286631|ref|ZP_07566721.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|306502260|gb|EFM71542.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|315152692|gb|EFT96708.1| helix-turn-helix protein [Enterococcus faecalis TX0031]
          Length = 111

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          IR +R  LG +Q++L E +  T Q V ++E  V       L  +S  L +P+S F +
Sbjct: 10 IREKRKALGWTQKELAEKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLE 66


>gi|271499443|ref|YP_003332468.1| XRE family transcriptional regulator [Dickeya dadantii Ech586]
 gi|307129761|ref|YP_003881777.1| hypothetical protein Dda3937_03632 [Dickeya dadantii 3937]
 gi|270342998|gb|ACZ75763.1| transcriptional regulator, XRE family [Dickeya dadantii Ech586]
 gi|306527290|gb|ADM97220.1| hypothetical protein Dda3937_03632 [Dickeya dadantii 3937]
          Length = 88

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+   ++QEKLG   GI       ++ +YE G++R     +   ++VL  P  +F
Sbjct: 5  RLKTARLQANLTQEKLGVLAGIEEATARSRISQYESGIHRPTFEMMCAFAKVLNVPECYF 64

Query: 74 FDVSPTVCS 82
          + V      
Sbjct: 65 YTVDDDFAE 73


>gi|228907976|ref|ZP_04071826.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 200]
 gi|228851642|gb|EEM96446.1| Transcriptional regulator, MerR [Bacillus thuringiensis IBL 200]
          Length = 184

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 42/84 (50%), Gaps = 1/84 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  NINVGQKIMAFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          +FF + + T    + + +   + F
Sbjct: 63 NFFLEDTNTEELVVRANQRKKITF 86


>gi|228921209|ref|ZP_04084538.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|228838424|gb|EEM83736.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
          Length = 184

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 42/84 (50%), Gaps = 1/84 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
          +INVG++I   R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  NINVGQKIMAFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 62

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          +FF + + T    + + +   + F
Sbjct: 63 NFFLEDTNTEELVVRANQRKKITF 86


>gi|46908504|ref|YP_014893.1| DNA-binding protein [Listeria monocytogenes serotype 4b str. F2365]
 gi|47092432|ref|ZP_00230222.1| DNA-binding protein [Listeria monocytogenes str. 4b H7858]
 gi|47096032|ref|ZP_00233634.1| DNA-binding protein [Listeria monocytogenes str. 1/2a F6854]
 gi|224499013|ref|ZP_03667362.1| DNA-binding protein [Listeria monocytogenes Finland 1988]
 gi|224503536|ref|ZP_03671843.1| DNA-binding protein [Listeria monocytogenes FSL R2-561]
 gi|258611370|ref|ZP_05231528.2| DNA-binding protein [Listeria monocytogenes FSL N3-165]
 gi|258612011|ref|ZP_05243634.2| DNA-binding protein [Listeria monocytogenes FSL R2-503]
 gi|258612332|ref|ZP_05270022.2| DNA-binding protein [Listeria monocytogenes F6900]
 gi|290893622|ref|ZP_06556604.1| DNA-binding protein [Listeria monocytogenes FSL J2-071]
 gi|293596277|ref|ZP_05230092.2| DNA-binding protein [Listeria monocytogenes FSL J1-194]
 gi|293596748|ref|ZP_05264022.2| DNA-binding protein [Listeria monocytogenes J2818]
 gi|293597029|ref|ZP_05266697.2| DNA-binding protein [Listeria monocytogenes HPB2262]
 gi|300763918|ref|ZP_07073914.1| hypothetical protein LMHG_12171 [Listeria monocytogenes FSL N1-017]
 gi|46881776|gb|AAT05070.1| DNA-binding protein [Listeria monocytogenes serotype 4b str. F2365]
 gi|47015629|gb|EAL06560.1| DNA-binding protein [Listeria monocytogenes str. 1/2a F6854]
 gi|47019209|gb|EAL09952.1| DNA-binding protein [Listeria monocytogenes str. 4b H7858]
 gi|258599219|gb|EEW12544.1| DNA-binding protein [Listeria monocytogenes FSL N3-165]
 gi|258607678|gb|EEW20286.1| DNA-binding protein [Listeria monocytogenes FSL R2-503]
 gi|258610937|gb|EEW23545.1| DNA-binding protein [Listeria monocytogenes F6900]
 gi|290556824|gb|EFD90356.1| DNA-binding protein [Listeria monocytogenes FSL J2-071]
 gi|293584899|gb|EFF96931.1| DNA-binding protein [Listeria monocytogenes HPB2262]
 gi|293592028|gb|EFG00363.1| DNA-binding protein [Listeria monocytogenes J2818]
 gi|293594334|gb|EFG02095.1| DNA-binding protein [Listeria monocytogenes FSL J1-194]
 gi|300515259|gb|EFK42310.1| hypothetical protein LMHG_12171 [Listeria monocytogenes FSL N1-017]
 gi|332312759|gb|EGJ25854.1| DNA-binding protein [Listeria monocytogenes str. Scott A]
          Length = 118

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/107 (18%), Positives = 40/107 (37%), Gaps = 18/107 (16%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+++   R    ++Q++L   +G T   + KYE   +R     L  ++E+L +   F  D
Sbjct: 7   GEKLIHLRKKNRLTQKQLAAKIGTTASTISKYENDNHRPPIFILAKLAEILGTTTDFLLD 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
               +    S                     F  I + ++ +  +EL
Sbjct: 67  DVAGLREKNS------------------VNAFPLIGNPELEKWYLEL 95


>gi|331082015|ref|ZP_08331143.1| hypothetical protein HMPREF0992_00067 [Lachnospiraceae bacterium
           6_1_63FAA]
 gi|330405610|gb|EGG85140.1| hypothetical protein HMPREF0992_00067 [Lachnospiraceae bacterium
           6_1_63FAA]
          Length = 354

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 45/99 (45%), Gaps = 3/99 (3%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR RR+   ++QE++   LG+T   V K+EKG +    + L  ++ +LE+ ++       
Sbjct: 7   IRQRRIERNLTQEQVANYLGVTAPAVNKWEKGTSYPDITTLPALARILETDLNTLLSFKE 66

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
            +     +   N +  +   +G        +I   K+R+
Sbjct: 67  ELTEQEIAIFLNTLSELLEKEGFLKV---YEIAMEKIRE 102


>gi|325104601|ref|YP_004274255.1| protein of unknown function DUF955 [Pedobacter saltans DSM 12145]
 gi|324973449|gb|ADY52433.1| protein of unknown function DUF955 [Pedobacter saltans DSM 12145]
          Length = 354

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 36/71 (50%), Gaps = 2/71 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R +  R++ G S + L + LG  ++ Q + +YEKG     A ++  +S+ L     +FF
Sbjct: 9  ERFKSARLMNGFSLQDLADALGGTLSRQALHRYEKGEVIPDAEKINMLSKALNISPDYFF 68

Query: 75 DVSPTVCSDIS 85
            +    SDI 
Sbjct: 69 RTTKVEFSDIE 79


>gi|120435259|ref|YP_860945.1| HTH_3 family transcriptional regulator protein [Gramella forsetii
          KT0803]
 gi|117577409|emb|CAL65878.1| HTH_3 family transcriptional regulator protein [Gramella forsetii
          KT0803]
          Length = 95

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/88 (22%), Positives = 43/88 (48%), Gaps = 5/88 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  +++ R   GM+Q++L +   I+   + + E   +      +  I + LE P+S+
Sbjct: 1  MEIGSAVKILRKSRGMTQKELADLCDISVNALSQIEINSSFPQKQTIHKICKALEYPVSY 60

Query: 73 --FFDVSPTVCSDISSEENNVMDFISTP 98
            FF +S     DI  E+  V + +++ 
Sbjct: 61 LLFFSISEE---DIPKEKKVVFNSLNSA 85


>gi|16801490|ref|NP_471758.1| hypothetical protein lin2428 [Listeria innocua Clip11262]
 gi|289435611|ref|YP_003465483.1| DNA-binding protein [Listeria seeligeri serovar 1/2b str. SLCC3954]
 gi|16414950|emb|CAC97655.1| lin2428 [Listeria innocua Clip11262]
 gi|289171855|emb|CBH28401.1| DNA-binding protein [Listeria seeligeri serovar 1/2b str. SLCC3954]
 gi|313617561|gb|EFR89887.1| DNA-binding protein [Listeria innocua FSL S4-378]
 gi|313622678|gb|EFR93041.1| DNA-binding protein [Listeria innocua FSL J1-023]
 gi|313632189|gb|EFR99260.1| DNA-binding protein [Listeria seeligeri FSL N1-067]
 gi|313636591|gb|EFS02297.1| DNA-binding protein [Listeria seeligeri FSL S4-171]
          Length = 115

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/110 (18%), Positives = 41/110 (37%), Gaps = 18/110 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G+++   R    ++Q++L   +G T   + KYE   +R     L  ++E+L +   F
Sbjct: 1   MEFGEKLIHLRKKNRLTQKQLAAKIGTTASTISKYENDNHRPPIFILAKLAEILGTTTDF 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
             D    +    S                     F  I + ++ +  +EL
Sbjct: 61  LLDDVAGLREKNS------------------VNAFPLIGNPELEKWYLEL 92


>gi|326800444|ref|YP_004318263.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
 gi|326551208|gb|ADZ79593.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
          Length = 112

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 29/117 (24%), Positives = 50/117 (42%), Gaps = 15/117 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE---SP 69
            ++GK+IRL R   G SQE + + L I+     K E G+  +  SRLQ I+++ +     
Sbjct: 2   KSLGKKIRLLRHQNGWSQEDVAKRLDISIPAFSKIETGITDINLSRLQQIAKLFDMTVVQ 61

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +  F D       +   E  N        + ++L            ++K+IEL   +
Sbjct: 62  LLNFNDADEQKKYNSDLEAANKKLQERNNEVIEL------------QKKVIELYEEL 106


>gi|291548990|emb|CBL25252.1| Predicted transcriptional regulators [Ruminococcus torques L2-14]
          Length = 112

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 31/58 (53%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            ++G+ ++  R    M+QE + E +G++ Q V K+E G +    S L  ++++    +
Sbjct: 47  KSLGEALKAHRTQCKMTQEFVAETIGVSRQAVSKWENGTSDPSTSNLFALAKLYGVSV 104


>gi|257053436|ref|YP_003131269.1| transcriptional regulator, XRE family [Halorhabdus utahensis DSM
          12940]
 gi|256692199|gb|ACV12536.1| transcriptional regulator, XRE family [Halorhabdus utahensis DSM
          12940]
          Length = 72

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 28/64 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+ RR    ++Q +L E +G+T Q +   EKG           I+   ++ +   FD+  
Sbjct: 7  IKERREDANLTQAELAEAVGVTRQTILYVEKGEYNPSLELAWRIAREFDTHVEEVFDLPE 66

Query: 79 TVCS 82
          T   
Sbjct: 67 TTHE 70


>gi|227537296|ref|ZP_03967345.1| helix-turn-helix domain protein [Sphingobacterium spiritivorum
          ATCC 33300]
 gi|227242799|gb|EEI92814.1| helix-turn-helix domain protein [Sphingobacterium spiritivorum
          ATCC 33300]
          Length = 354

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 37/71 (52%), Gaps = 2/71 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R +  R++ G S + L + LG  ++ Q + +YEKG     A ++  +S+ L+    +FF
Sbjct: 9  ERFKSARLMNGFSLQDLADALGNKLSRQALHRYEKGEVIPDAEKINMLSKALKVSSDYFF 68

Query: 75 DVSPTVCSDIS 85
            +    SD+ 
Sbjct: 69 RTTKVELSDVE 79


>gi|226324115|ref|ZP_03799633.1| hypothetical protein COPCOM_01893 [Coprococcus comes ATCC 27758]
 gi|225207664|gb|EEG90018.1| hypothetical protein COPCOM_01893 [Coprococcus comes ATCC 27758]
          Length = 233

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 29/60 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VD  VG+ IR  RM   M+ ++L   L  +   V KYEKG   +  S    +S++ +   
Sbjct: 3  VDEKVGRNIRKYRMAYNMTLKELAVRLHKSVSTVSKYEKGDISLDISTFLELSKIFKVSP 62


>gi|168181353|ref|ZP_02616017.1| MATE efflux family protein [Clostridium botulinum Bf]
 gi|182675343|gb|EDT87304.1| MATE efflux family protein [Clostridium botulinum Bf]
          Length = 147

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 34/71 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R   G S  ++ E  G++   + + E   +   A  LQ I+  L   +S 
Sbjct: 1  MKLGEKIRSIRKKKGYSILQIKELTGLSKSTISELENDKSSPTAETLQKIATALNVHVSD 60

Query: 73 FFDVSPTVCSD 83
          FF+ S    S+
Sbjct: 61 FFNDSKETLSE 71


>gi|160935724|ref|ZP_02083099.1| hypothetical protein CLOBOL_00614 [Clostridium bolteae ATCC
          BAA-613]
 gi|158441468|gb|EDP19178.1| hypothetical protein CLOBOL_00614 [Clostridium bolteae ATCC
          BAA-613]
          Length = 194

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG  I   R   GM+Q+ L   + I+ + + K+E+G      S L+ +S++L   I
Sbjct: 6  VGNLIYTLRTEKGMTQKALANAMNISDRTISKWERGAGCPDVSLLRELSDILGVNI 61


>gi|148379505|ref|YP_001254046.1| putative DNA-binding protein [Clostridium botulinum A str. ATCC
          3502]
 gi|153932694|ref|YP_001383881.1| putative DNA-binding protein [Clostridium botulinum A str. ATCC
          19397]
 gi|153935321|ref|YP_001387431.1| putative DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|148288989|emb|CAL83077.1| putative transcriptional regulator [Clostridium botulinum A str.
          ATCC 3502]
 gi|152928738|gb|ABS34238.1| putative DNA-binding protein [Clostridium botulinum A str. ATCC
          19397]
 gi|152931235|gb|ABS36734.1| putative DNA-binding protein [Clostridium botulinum A str. Hall]
          Length = 370

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 30/71 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ I   R    ++QE+L   +G++   V K+E G +    + L  I+      I  
Sbjct: 4  LLIGEVIYRLRKEKAITQEQLANFVGVSTAAVSKWESGTSYPDITLLPAIATFFNVTIDT 63

Query: 73 FFDVSPTVCSD 83
            +    +  +
Sbjct: 64 LLNFKIELSDE 74


>gi|83590661|ref|YP_430670.1| XRE family transcriptional regulator [Moorella thermoacetica ATCC
           39073]
 gi|83573575|gb|ABC20127.1| transcriptional regulator, XRE family [Moorella thermoacetica ATCC
           39073]
          Length = 252

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 32/89 (35%), Gaps = 4/89 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GKRIR  R   G S + L +  G++   + + E+G  R     L  ++  L  P     +
Sbjct: 5   GKRIRELREERGYSLQDLAQRAGVSVSYLSEIERGAKRPSLKTLDKVARALNLPR----E 60

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLN 104
                  +        +  +    G  LN
Sbjct: 61  QLIETGGEGGLAPGERIRLLRERAGKNLN 89



 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/102 (16%), Positives = 42/102 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++R  R   G++Q +L    G++   + + E+G  +     L+ +  VL+    +F 
Sbjct: 138 LGHKLRQAREERGLTQAELARAAGVSAGLIGQIEQGKVQPSLKTLERVGAVLDISPCYFI 197

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
                V   ++     +   +  P    + R     ++ ++R
Sbjct: 198 ADDAGVDEVLNQMSPELRQLLIEPQVQSVLRLICNCNESELR 239



 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 28/56 (50%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           G+RIRL R   G +   L E  GI+   + + E+G        L+ I+  LE P+S
Sbjct: 74  GERIRLLRERAGKNLNTLAEAAGISVSYLSEIERGNVYPAIDTLKKITAALEVPLS 129


>gi|325264449|ref|ZP_08131179.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
 gi|324030111|gb|EGB91396.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
          Length = 100

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 37/85 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G  ++  R++  ++Q KL + LG+T   +  YE G+       L  IS++ +    +
Sbjct: 2  VYFGNTLKTLRLLNNLTQAKLAQRLGVTKSVISAYETGLRMPSYDILISISQIFKVTTDY 61

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
             +      D+S    + +  ++ 
Sbjct: 62 LLGLEKKQDLDLSGLTADEIQALTD 86


>gi|229815035|ref|ZP_04445372.1| hypothetical protein COLINT_02077 [Collinsella intestinalis DSM
           13280]
 gi|229809265|gb|EEP45030.1| hypothetical protein COLINT_02077 [Collinsella intestinalis DSM
           13280]
          Length = 155

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 39/90 (43%), Gaps = 8/90 (8%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+   R   G SQE+L + LG++ Q + K+E    R     +  ++++      F    S
Sbjct: 33  RLLDLRRKAGYSQEQLADLLGVSRQAISKWEGAQGRPEVDNVVKLAQIYRVSTDFILTGS 92

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYF 107
            +V S        V +  S P   +L+R +
Sbjct: 93  ASVPS--------VCETPSAPAPRELSREY 114


>gi|197119614|ref|YP_002140041.1| helix-turn-helix DNA-binding protein, XRE family [Geobacter
          bemidjiensis Bem]
 gi|197088974|gb|ACH40245.1| helix-turn-helix DNA-binding protein, XRE family [Geobacter
          bemidjiensis Bem]
          Length = 110

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 34/69 (49%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P  +   +G  +R  R + G SQE+LGE   ++++ V + E+G        L  I+  
Sbjct: 2  KNPVAIRQLLGDNVRTLRKVRGWSQEELGEHADLSYKFVGEIERGTGNPSLDSLVGIANA 61

Query: 66 LESPISFFF 74
          L  PI+  F
Sbjct: 62 LTVPIAELF 70


>gi|49479808|ref|YP_035283.1| DNA-binding protein transcriptional regulator [Bacillus
          thuringiensis serovar konkukian str. 97-27]
 gi|49331364|gb|AAT62010.1| possible transcriptional regulator; possible DNA-binding protein
          [Bacillus thuringiensis serovar konkukian str. 97-27]
          Length = 149

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQSDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLSS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|163941236|ref|YP_001646120.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|163863433|gb|ABY44492.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
          Length = 262

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ETAEQSNE 71


>gi|331091208|ref|ZP_08340049.1| hypothetical protein HMPREF9477_00692 [Lachnospiraceae bacterium
           2_1_46FAA]
 gi|330404655|gb|EGG84194.1| hypothetical protein HMPREF9477_00692 [Lachnospiraceae bacterium
           2_1_46FAA]
          Length = 219

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/100 (21%), Positives = 46/100 (46%), Gaps = 4/100 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ I+  R   GMSQE+L   L +  Q V K+E+ ++   A  L  ++ +LE  +S   
Sbjct: 2   IGENIKKYRRRKGMSQEELAVKLHVVRQTVSKWEQALSVPDAEVLMRMASLLEVSVSTLL 61

Query: 75  --DVSPTVCSDISSEENNVMDFIST--PDGLQLNRYFIQI 110
             ++       ++ +   + + ++    + +   R   +I
Sbjct: 62  GSEIEDENSEHLTEKLAQLNEQLAEIQREQIVQKRAGEKI 101


>gi|312952949|ref|ZP_07771805.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|310629090|gb|EFQ12373.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
          Length = 109

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 30/59 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I+ +R  LG +Q++L E +  T Q V ++E  V       L  +S  L +P+S F D  
Sbjct: 10 IKEKRKALGWTQKELAEKIFSTQQAVARWENSVTEPNLDSLTALSRALGTPVSHFLDEE 68


>gi|300857657|ref|YP_003782640.1| HTH_3 family transcriptional regulator [Corynebacterium
          pseudotuberculosis FRC41]
 gi|300685111|gb|ADK28033.1| HTH_3-family transcription regulator [Corynebacterium
          pseudotuberculosis FRC41]
 gi|302205396|gb|ADL09738.1| Putative transcription regulator [Corynebacterium
          pseudotuberculosis C231]
 gi|302329950|gb|ADL20144.1| Putative transcription regulator [Corynebacterium
          pseudotuberculosis 1002]
 gi|308275634|gb|ADO25533.1| Putative transcription regulator [Corynebacterium
          pseudotuberculosis I19]
          Length = 475

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/86 (26%), Positives = 33/86 (38%), Gaps = 6/86 (6%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+R  R   G+SQ  L   L ++   V + E  V  +    L  I+EV     +FF
Sbjct: 5  YVGSRLRQLRKERGLSQANLAGTLELSASYVNQIEHDVRPLTLPVLHRITEVFGVDATFF 64

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
                   D S     V D +   +
Sbjct: 65 ------SKDDASRLLAEVHDVMLDKE 84


>gi|326791877|ref|YP_004309698.1| hypothetical protein Clole_2801 [Clostridium lentocellum DSM 5427]
 gi|326542641|gb|ADZ84500.1| helix-turn-helix domain protein [Clostridium lentocellum DSM 5427]
          Length = 159

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/111 (20%), Positives = 46/111 (41%), Gaps = 14/111 (12%)

Query: 18  RIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+ RR  LG+SQ++L   L   +   + K E G N +  S+++  +E L +  S+    
Sbjct: 6   RIKERREALGLSQDELALKLNYKSRSTIAKIESGANDIPQSKIKAFAEALNTTTSYLMGW 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD---VKVRQKIIELVR 124
                   +  E             +L   + +++D    +  +++ EL  
Sbjct: 66  DSEEEQLPTITEKEK----------ELLTNYNKLNDLGKDEAVKRVSELTE 106


>gi|52424167|ref|YP_087304.1| HipB protein [Mannheimia succiniciproducens MBEL55E]
 gi|52306219|gb|AAU36719.1| HipB protein [Mannheimia succiniciproducens MBEL55E]
          Length = 159

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/115 (21%), Positives = 53/115 (46%), Gaps = 6/115 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-FFDV 76
           R++  R  LG++Q ++ +  G++ +   KYE+GV   G+  L  ++ +    + +     
Sbjct: 10  RLKNERNRLGLTQAEIAKKCGVSREMWGKYERGVALAGSEVLFSLAAI-GVDMDYILLGT 68

Query: 77  SPTVCSDISSEE--NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
              V  +I++E   +      S   GL L + F+Q  D   R  I+ + +++   
Sbjct: 69  RKEVFEEITTEALKDMPKADFSDKTGL-LVQLFMQ-CDDNGRAAILSVAQTMAGM 121


>gi|325845864|ref|ZP_08169062.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
           ACS-025-V-Sch4]
 gi|325481770|gb|EGC84802.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
           ACS-025-V-Sch4]
          Length = 236

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 26/118 (22%), Positives = 51/118 (43%), Gaps = 13/118 (11%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +  VGK I+  R +  ++ E+L + +  +   + KYE G  ++    L  I++ L+  + 
Sbjct: 6   NKEVGKLIKAYRKLRKLTLEELAKKIYKSKSTLSKYENGQIQIDIDNLYLIADALDIRVD 65

Query: 72  -FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV----RQKIIELVR 124
              ++    + SD   E  NV  F        L  ++  + D +V    R K+  L +
Sbjct: 66  KLLYNDDQILISD---ESKNVPKFFKN-----LTEFYSYMYDGRVNKVIRSKLNILSK 115


>gi|295106127|emb|CBL03670.1| looped-hinge helix DNA binding domain, AbrB family [Gordonibacter
          pamelaeae 7-10-1-b]
          Length = 140

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 31/64 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+ RR  +G++QE+L   L +  Q V K+E G +    +    ++E L+  +    
Sbjct: 2  IGSNIQSRRRAIGLTQEQLAAALAVARQTVAKWEAGDSVPDLANAGALAEALDVSLDALV 61

Query: 75 DVSP 78
             P
Sbjct: 62 GYDP 65


>gi|169335627|ref|ZP_02862820.1| hypothetical protein ANASTE_02047 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169258365|gb|EDS72331.1| hypothetical protein ANASTE_02047 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 229

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 28/60 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I   R     SQE L E LG++ Q V K+E         ++  +SE+   P  +
Sbjct: 1  MTIGNKIMTLRRENNFSQEILAEKLGVSRQAVSKWEAEQCLPDIDKIVKLSELFSVPTDY 60


>gi|167038623|ref|YP_001666201.1| XRE family transcriptional regulator [Thermoanaerobacter
           pseudethanolicus ATCC 33223]
 gi|320117014|ref|YP_004187173.1| helix-turn-helix domain-containing protein [Thermoanaerobacter
           brockii subsp. finnii Ako-1]
 gi|166857457|gb|ABY95865.1| transcriptional regulator, XRE family [Thermoanaerobacter
           pseudethanolicus ATCC 33223]
 gi|319930105|gb|ADV80790.1| helix-turn-helix domain protein [Thermoanaerobacter brockii subsp.
           finnii Ako-1]
          Length = 129

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/125 (18%), Positives = 50/125 (40%), Gaps = 8/125 (6%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R    ++Q +L   L ++   +  YE G        L+ I++     I +    +
Sbjct: 5   RLKTLRNEKNLTQRELARLLNLSPSTIAMYETGQRFPDPETLKKIADFFNVSIDYLLGRT 64

Query: 78  P-----TVCSDISSEENNVMDFIST-PDGLQLNRYFIQID--DVKVRQKIIELVRSIVSS 129
                    ++  S++  + +F +T  +   L   F Q      K  ++II ++++I   
Sbjct: 65  DIRSPVDEITEAVSDDPELFEFWNTLKEREDLKLLFKQTKKLSPKDIKQIIRIIKAIEDE 124

Query: 130 EKKYR 134
           E K  
Sbjct: 125 EDKGE 129


>gi|116688944|ref|YP_834567.1| XRE family transcriptional regulator [Burkholderia cenocepacia
           HI2424]
 gi|116647033|gb|ABK07674.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
           HI2424]
          Length = 132

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/95 (23%), Positives = 42/95 (44%), Gaps = 1/95 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  I  +R   G++Q KL E + +  + V ++E+G       RLQ +S+ L   +    
Sbjct: 21  VGTAIAEQRRARGLTQAKLAEMIDLEQEAVSRWERGTRVPTLHRLQQLSDALNCSVDQLL 80

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
                   D  +   + +D + + +  +L   F+Q
Sbjct: 81  QRGSKRPDDQLAMIADALDGLDSDE-RELVVNFVQ 114


>gi|307544496|ref|YP_003896975.1| XRE family transcriptional regulator [Halomonas elongata DSM
          2581]
 gi|307216520|emb|CBV41790.1| transcriptional regulator, XRE family [Halomonas elongata DSM
          2581]
          Length = 195

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 39/85 (45%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +P+  +VG R+R  R + G+SQ +L +  G+T   +   E+G      S L+ I + +  
Sbjct: 11 DPMADDVGARLRALRNLRGISQRELAKRCGVTHSSLSLIEQGKVSPSVSSLKKILDAIPM 70

Query: 69 PISFFFDVSPTVCSDISSEENNVMD 93
           +  FF +       +    + + D
Sbjct: 71 SVGDFFTMDLESRDQVFYSADELAD 95


>gi|307133108|ref|YP_003885124.1| transcriptional regulator [Dickeya dadantii 3937]
 gi|306530637|gb|ADN00568.1| Transcriptional regulator [Dickeya dadantii 3937]
          Length = 112

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 4/69 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R++ G+SQ+ LG   G    +   ++ +YEKGV+       + ++E L  P+++
Sbjct: 20 QRLKDARLLRGLSQKGLGIAAGIDEFVASARINRYEKGVHEANIVTAKRLAEALNVPLAY 79

Query: 73 FFDVSPTVC 81
          F+     + 
Sbjct: 80 FYADDDNLA 88


>gi|291546039|emb|CBL19147.1| Predicted transcriptional regulators [Ruminococcus sp. SR1/5]
          Length = 318

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 35/75 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++  R    ++QE+L E  G++ + V ++E G+N    S L  ++E  +  +    
Sbjct: 6  IGAFLKQCRKEKNLTQEQLAEKFGVSARTVSRWETGINMPDLSVLVQLAEYYDVEMRELL 65

Query: 75 DVSPTVCSDISSEEN 89
          D   +   +   +E 
Sbjct: 66 DGERSQTMNKDMKET 80


>gi|260185332|ref|ZP_05762806.1| putative transcriptional regulatory protein [Mycobacterium
           tuberculosis CPHL_A]
 gi|289446007|ref|ZP_06435751.1| transcriptional regulator [Mycobacterium tuberculosis CPHL_A]
 gi|289418965|gb|EFD16166.1| transcriptional regulator [Mycobacterium tuberculosis CPHL_A]
          Length = 474

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 30/133 (22%), Positives = 53/133 (39%), Gaps = 18/133 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   YVGSRVRQLRNERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               DI+ + + V + +S   G  L R  + +     R+  I 
Sbjct: 65  ASQDDTRLVAELREVTLDRDLDIAIDPHEVAEMVSAHPG--LARAVVNL----HRRYRIT 118

Query: 122 LVRSIVSSEKKYR 134
             +   ++E+++ 
Sbjct: 119 TAQLAAATEERFS 131


>gi|210613654|ref|ZP_03289813.1| hypothetical protein CLONEX_02020 [Clostridium nexile DSM 1787]
 gi|210151084|gb|EEA82092.1| hypothetical protein CLONEX_02020 [Clostridium nexile DSM 1787]
          Length = 118

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/85 (27%), Positives = 39/85 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++IR  R    MSQ +L E +G+T   +   E   + +   +L  I+EVL+   +   
Sbjct: 15 VGRKIRHYREKKKMSQLELAEAIGVTQNTIYLIETAQSEMKLEKLFRIAEVLDVTPNKLL 74

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
                 S+   E  ++M  +S  D
Sbjct: 75 PGEAKTASNKFFEFEHMMKQLSEAD 99


>gi|167751035|ref|ZP_02423162.1| hypothetical protein EUBSIR_02020 [Eubacterium siraeum DSM 15702]
 gi|167655953|gb|EDS00083.1| hypothetical protein EUBSIR_02020 [Eubacterium siraeum DSM 15702]
          Length = 226

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 41/86 (47%), Gaps = 2/86 (2%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + ++ ++G +I+  R+   ++QE++ E LG++ Q +  +E   +      +  +S+  E 
Sbjct: 6  HGMEHDIGSKIKAARLEKKLTQEQVAEILGVSRQTISNWENEKSYPDIISVIKMSDCYEV 65

Query: 69 PISFFFDVSPTVCS--DISSEENNVM 92
           + +       + +  D   E  NV+
Sbjct: 66 SLDYLLKGEQKMKTYYDYLEESTNVV 91


>gi|73663000|ref|YP_301781.1| transcriptional regulator [Staphylococcus saprophyticus subsp.
          saprophyticus ATCC 15305]
 gi|72495515|dbj|BAE18836.1| putative transcriptional regulator [Staphylococcus saprophyticus
          subsp. saprophyticus ATCC 15305]
          Length = 179

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 31/68 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+I+  R I  ++QE+L E   ++   + + E            +I EVL +  S 
Sbjct: 1  MEIGKKIKNLRNIKKLTQEELAERTDLSKGYISQIESQYASPSMETFLNILEVLGTSPSD 60

Query: 73 FFDVSPTV 80
          FF    + 
Sbjct: 61 FFKEPKSE 68


>gi|330467102|ref|YP_004404845.1| XRE family transcriptional regulator [Verrucosispora maris
           AB-18-032]
 gi|328810073|gb|AEB44245.1| XRE family transcriptional regulator [Verrucosispora maris
           AB-18-032]
          Length = 476

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/109 (17%), Positives = 44/109 (40%), Gaps = 8/109 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            ++R  R   G++Q +L   L I+   + + E     + A  L  +++VL      F D 
Sbjct: 11  AKLRRLRREHGLTQAELARRLDISTSYLNQIENSQRTLTAPILLRLAKVLGVDPEHFADT 70

Query: 77  SPT-VCSDISSEENNVMDFISTP--DGLQLNRYFIQIDDVKVRQKIIEL 122
               + +D+ +   +    +S    + ++L R +         + ++ L
Sbjct: 71  DAERLGADVRTALADEASGVSVDPVEVVELVRDYPTAA-----RALVAL 114


>gi|327466846|gb|EGF12364.1| XRE family transcriptional regulator [Streptococcus sanguinis
           SK330]
          Length = 194

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 34/87 (39%), Gaps = 4/87 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R   GMSQ+ L   L  + Q +  +E G       +L   ++  +  + +    
Sbjct: 83  ERLKKLRKAAGMSQKNLALKLNTSQQNINYWENGQRNPKREKLIETADFFDVSVDYLLGN 142

Query: 77  SPTVCSDISSEE----NNVMDFISTPD 99
           +      + + +      V DF  T +
Sbjct: 143 TDEKKPVLETAQILFRKTVDDFNLTKE 169


>gi|324116784|gb|EGC10698.1| peptidase S24 [Escherichia coli E1167]
          Length = 229

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R+  G++Q+ LG+ +G++   +QK E G      +++  I+  L     + 
Sbjct: 5  LSERLKEARLARGLTQKALGDLVGVSQAAIQKIETGKAN-QTTKIVEIANALGVRAEWL 62


>gi|322805162|emb|CBZ02726.1| transcriptional regulator [Clostridium botulinum H04402 065]
          Length = 373

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+GK I  +R   G++QE+L   +G++   V K+E G +      L  ++      +  
Sbjct: 4  LNIGKCIIHKRKEKGITQEQLANYIGVSKASVSKWESGSSYPDILFLPELATYFNISVDE 63

Query: 73 FFDVSPTVCSD 83
              SP +  +
Sbjct: 64 LLGYSPQLTKE 74


>gi|310641032|ref|YP_003945790.1| DNA-binding protein [Paenibacillus polymyxa SC2]
 gi|309245982|gb|ADO55549.1| DNA-binding protein [Paenibacillus polymyxa SC2]
          Length = 182

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 30/70 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +   R   G+S +K+ E  G++   + + EKG +    + L  I+  L    S F 
Sbjct: 8  IGSNLAQIRKTRGLSLDKVAELTGVSKGMLAQIEKGRSNPTVTTLWKIANGLHVSFSTFL 67

Query: 75 DVSPTVCSDI 84
             P   + I
Sbjct: 68 KEDPPQITKI 77


>gi|303242323|ref|ZP_07328809.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
 gi|302590162|gb|EFL59924.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
          Length = 182

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 34/59 (57%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++  RI+  R++ G+S+++  + LG++F   QKYE G + +  S L  I++     ++
Sbjct: 6  RDIAARIKGLRLLSGISEKEAAQKLGLSFADFQKYENGEDDIPISILYEIADFYCVDLT 64


>gi|300855914|ref|YP_003780898.1| putative transcriptional regulator [Clostridium ljungdahlii DSM
           13528]
 gi|300436029|gb|ADK15796.1| putative transcriptional regulator [Clostridium ljungdahlii DSM
           13528]
          Length = 119

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/104 (24%), Positives = 47/104 (45%), Gaps = 10/104 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +G ++R  R   G+S ++L   +   I+   +   E G +      L+ I+  LE+P+S+
Sbjct: 4   IGTKLRKIRKATGLSLKQLSTKINGKISISFLSDIENGRSNPSFENLKLIAAALETPVSY 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF--IQIDDVK 114
           F + S       + ++    DFI     + L + F    I+D K
Sbjct: 64  FIEDSKDSIFSSTIDD---ADFIH---IINLLQDFKDWNIEDKK 101


>gi|284008333|emb|CBA74709.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 230

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RI+  R+   M+Q +L E L +T Q VQ++E        +RL  I++VL+  +++ 
Sbjct: 6  ERIKQARLAKKMTQAELAEKLSVTPQSVQQWETST-EPKKNRLMKIADVLDINVNWL 61


>gi|256850687|ref|ZP_05556112.1| rad protein [Lactobacillus crispatus MV-1A-US]
 gi|256712555|gb|EEU27551.1| rad protein [Lactobacillus crispatus MV-1A-US]
          Length = 112

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 35/76 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ +RI+  R+    +Q+ L E + +    V  +E G N      L+ ++  L+    +
Sbjct: 1  MNLAERIKNARINKHYTQKDLAELINVKSTTVSGWELGRNEPSIDTLKKLATKLDVSFDY 60

Query: 73 FFDVSPTVCSDISSEE 88
             VS    S+IS  +
Sbjct: 61 LAGVSSHSDSNISDTD 76


>gi|225377083|ref|ZP_03754304.1| hypothetical protein ROSEINA2194_02728 [Roseburia inulinivorans DSM
           16841]
 gi|225210988|gb|EEG93342.1| hypothetical protein ROSEINA2194_02728 [Roseburia inulinivorans DSM
           16841]
          Length = 240

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 1/69 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPIS 71
           +++GKR++  R+  G++Q++L +   +T   + + E+  N      L  I + L  +P  
Sbjct: 62  MDIGKRMKELRIQYGLTQQELADRSELTKGFISQLERNQNTPSIGTLLDIIQCLGTTPAE 121

Query: 72  FFFDVSPTV 80
           FF D  P  
Sbjct: 122 FFTDEEPEQ 130


>gi|215409982|ref|ZP_03418790.1| putative transcriptional regulatory protein [Mycobacterium
           tuberculosis 94_M4241A]
 gi|215444567|ref|ZP_03431319.1| putative transcriptional regulatory protein [Mycobacterium
           tuberculosis T85]
 gi|289756539|ref|ZP_06515917.1| transcriptional regulatory protein [Mycobacterium tuberculosis T85]
 gi|294995970|ref|ZP_06801661.1| putative transcriptional regulatory protein [Mycobacterium
           tuberculosis 210]
 gi|298523942|ref|ZP_07011351.1| transcriptional regulatory protein [Mycobacterium tuberculosis
           94_M4241A]
 gi|289712103|gb|EFD76115.1| transcriptional regulatory protein [Mycobacterium tuberculosis T85]
 gi|298493736|gb|EFI29030.1| transcriptional regulatory protein [Mycobacterium tuberculosis
           94_M4241A]
 gi|326902291|gb|EGE49224.1| transcriptional regulator [Mycobacterium tuberculosis W-148]
          Length = 474

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 30/133 (22%), Positives = 53/133 (39%), Gaps = 18/133 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   YVGSRVRQLRNERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               DI+ + + V + +S   G  L R  + +     R+  I 
Sbjct: 65  ASQDDTRLVAELREVTLDRDLDIAIDPHEVAEMVSAHPG--LARAVVNL----HRRYRIT 118

Query: 122 LVRSIVSSEKKYR 134
             +   ++E+++ 
Sbjct: 119 TAQLAAATEERFS 131


>gi|170723125|ref|YP_001750813.1| putative phage repressor [Pseudomonas putida W619]
 gi|169761128|gb|ACA74444.1| putative phage repressor [Pseudomonas putida W619]
          Length = 259

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 1/79 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + +RIR  R+  G++Q  L E +GI    + + E G  +   S L  I+       ++
Sbjct: 1  MKLSERIRAARLHAGLTQRDLAEKIGIAQTAISQLESGKTQRS-SYLMAIASTCGVSSAW 59

Query: 73 FFDVSPTVCSDISSEENNV 91
            +   T+  D +S E  +
Sbjct: 60 LAEGWGTMLRDAASVEAFL 78


>gi|163734643|ref|ZP_02142082.1| DNA-binding protein [Roseobacter litoralis Och 149]
 gi|161392136|gb|EDQ16466.1| DNA-binding protein [Roseobacter litoralis Och 149]
          Length = 218

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/90 (18%), Positives = 38/90 (42%), Gaps = 2/90 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R   G++  +L    GI+   + K E G      + LQ ++  L  P+
Sbjct: 30  LEVAIGREVRGYRKQQGITVAELSALTGISIGMLSKIENGNTSPSLTTLQTLANALSVPL 89

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           + FF         + +     ++     +G
Sbjct: 90  TSFFRRFEESRLAVHTRAGEGVEI--DREG 117


>gi|325569676|ref|ZP_08145723.1| DNA-binding protein [Enterococcus casseliflavus ATCC 12755]
 gi|325157232|gb|EGC69397.1| DNA-binding protein [Enterococcus casseliflavus ATCC 12755]
          Length = 396

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/103 (18%), Positives = 42/103 (40%), Gaps = 4/103 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ +G+ I  RR   G++Q++L   + ++   V K+E G      + L  ++   +  +
Sbjct: 1   MDLPIGEEIARRRKHRGVTQQELAAFMNVSKASVSKWETGQTYPDITSLPLLAAYFDCSV 60

Query: 71  SFFF----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
                    +SP     I     +     +  + L L + F +
Sbjct: 61  DELLILDSQLSPKEIQRIYQLLKDAFQTKTPTEVLALAQSFTK 103


>gi|293550683|ref|ZP_06673350.1| transcriptional regulator [Enterococcus faecium E1039]
 gi|291603210|gb|EFF33395.1| transcriptional regulator [Enterococcus faecium E1039]
          Length = 145

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 35/79 (44%), Gaps = 1/79 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DV 76
          +++  R   G++ E L E L ++ Q +  +E G        L+ +S+    P+S+ F + 
Sbjct: 4  KLKRLRKEHGITHENLAEKLHVSRQTISNWENGNTLPDIENLKLLSQFYHIPLSYLFAEK 63

Query: 77 SPTVCSDISSEENNVMDFI 95
               S + S   ++   +
Sbjct: 64 EEEAFSPLESSNKDLKKLL 82


>gi|212695792|ref|ZP_03303920.1| hypothetical protein ANHYDRO_00325 [Anaerococcus hydrogenalis DSM
           7454]
 gi|212677225|gb|EEB36832.1| hypothetical protein ANHYDRO_00325 [Anaerococcus hydrogenalis DSM
           7454]
          Length = 236

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 26/118 (22%), Positives = 51/118 (43%), Gaps = 13/118 (11%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +  VGK I+  R +  ++ E+L + +  +   + KYE G  ++    L  I++ L+  + 
Sbjct: 6   NKEVGKLIKAYRKLRKLTLEELAKKIYKSKSTLSKYENGQIQIDIDNLYLIADALDIRVD 65

Query: 72  -FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV----RQKIIELVR 124
              ++    + SD   E  NV  F        L  ++  + D +V    R K+  L +
Sbjct: 66  KLLYNDDQILISD---ESKNVPKFFKN-----LTEFYSYMYDGRVNKVIRSKLNILSK 115


>gi|238026932|ref|YP_002911163.1| DNA-binding protein [Burkholderia glumae BGR1]
 gi|237876126|gb|ACR28459.1| DNA-binding protein [Burkholderia glumae BGR1]
          Length = 189

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/103 (19%), Positives = 42/103 (40%), Gaps = 2/103 (1%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++L R  LG+S + L E  G+T   + K E+G++    +    +++ L   +   F   
Sbjct: 5   RLKLLRKQLGLSLQDLAERAGLTKSYLSKVERGLSTPSVAVAMQLAQALHVEVGQLFSAD 64

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
               +      +  +     PD  Q    +  I     R++++
Sbjct: 65  GDEQAITVVRADERLRMSRAPDDAQ--SGYEVIAAEAGRKRLL 105


>gi|221195133|ref|ZP_03568189.1| helix-turn-helix domain protein [Atopobium rimae ATCC 49626]
 gi|221185036|gb|EEE17427.1| helix-turn-helix domain protein [Atopobium rimae ATCC 49626]
          Length = 244

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 31/67 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI   R+    +QE+L   L ++ Q V K+E  +N    S L  +++ L   I    
Sbjct: 8  LGRRIARLRLAKAATQERLARELSVSPQAVSKWENDINYPDISLLPQLAQFLGVSIDELL 67

Query: 75 DVSPTVC 81
            + T  
Sbjct: 68 RGASTQE 74


>gi|182624896|ref|ZP_02952675.1| SOS-response transcriptional repressor [Clostridium perfringens D
           str. JGS1721]
 gi|177909902|gb|EDT72312.1| SOS-response transcriptional repressor [Clostridium perfringens D
           str. JGS1721]
          Length = 342

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/149 (16%), Positives = 58/149 (38%), Gaps = 24/149 (16%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
             ++  R    ++Q+ L + L ++   +  YE G        L +++  +   I   F  
Sbjct: 8   NNLKNYRKENKLTQDDLAKRLNVSRSAISYYENGTVEPSIYFLINLANEMNCSIDNLFGF 67

Query: 75  --DVSPTVCSDISSEENNVMDFISTPDGLQL-----------------NRYFIQIDDVKV 115
             DVS  +  +++ E+   ++     +  ++                  R +I+++  K 
Sbjct: 68  NRDVSIELPKNLTKEDLKPIEKELKKEDFEIDDPKYYLEKLKKTLLKVQRSYIELEMSKK 127

Query: 116 R--QKIIELVRSIVSSEKKYRTIEEECMV 142
           R  +   ELVR+  + E+++  +  E   
Sbjct: 128 RTDRMYDELVRTF-NREERFEEMLNELTE 155


>gi|160894211|ref|ZP_02074989.1| hypothetical protein CLOL250_01765 [Clostridium sp. L2-50]
 gi|156864244|gb|EDO57675.1| hypothetical protein CLOL250_01765 [Clostridium sp. L2-50]
          Length = 203

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 38/79 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+I+  R  + +SQEKL + + ++ Q +  +E   +    + L  +SE+ +  +  
Sbjct: 9  MELGKQIKKHRQEVQLSQEKLADRVYVSRQTISNWENDKSYPDVNSLVLLSEIFQISLDN 68

Query: 73 FFDVSPTVCSDISSEENNV 91
                 V  D+  +E  V
Sbjct: 69 LIKGDIEVMKDVIQKEEIV 87


>gi|15675391|ref|NP_269565.1| putative repressor [Streptococcus phage 370.2]
 gi|19746441|ref|NP_607577.1| repressor [Streptococcus pyogenes MGAS8232]
 gi|21910679|ref|NP_664947.1| putative cI-like repressor - phage associated [Streptococcus
           pyogenes MGAS315]
 gi|28876313|ref|NP_795491.1| putative cI-like repressor [Streptococcus pyogenes phage 315.3]
 gi|28895631|ref|NP_801981.1| repressor (phage associated) [Streptococcus pyogenes SSI-1]
 gi|13622576|gb|AAK34286.1| putative repressor - phage associated [Streptococcus phage 370.2]
 gi|19748643|gb|AAL98076.1| putative repressor [Streptococcus pyogenes MGAS8232]
 gi|21904881|gb|AAM79750.1| putative cI-like repressor - phage-associated [Streptococcus
           pyogenes phage 315.3]
 gi|28810880|dbj|BAC63814.1| putative repressor (phage associated) [Streptococcus pyogenes
           SSI-1]
          Length = 251

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/131 (19%), Positives = 57/131 (43%), Gaps = 12/131 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G RIR  R    M+Q +L E LG+ T+  V K+EK  N      L+ ++E+      +
Sbjct: 3   QLGDRIRKLREGRNMTQTELSEILGMKTYTTVSKWEKNENFPKGKDLKKLAEIFNVTSDY 62

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
              ++ +    I+ +           +  ++   + Q++  + ++K++      +  + K
Sbjct: 63  LLGLTDSKLGKITIQ----------NEQPEIVSIYNQLEQPR-QEKVLNFANEQLEEQNK 111

Query: 133 YRTIEEECMVE 143
             +I ++   E
Sbjct: 112 TVSIFDKKSEE 122


>gi|150018645|ref|YP_001310899.1| XRE family transcriptional regulator [Clostridium beijerinckii
          NCIMB 8052]
 gi|149905110|gb|ABR35943.1| transcriptional regulator, XRE family [Clostridium beijerinckii
          NCIMB 8052]
          Length = 371

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 35/71 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G+ I  +R   G++QE+L + +G++   V K+E G++      L  ++      +  
Sbjct: 4  LNIGECIAYKRKEKGVTQEQLADYIGVSKASVSKWESGLSYPDILLLPELATYFNISVDE 63

Query: 73 FFDVSPTVCSD 83
              SP +  +
Sbjct: 64 LLGYSPQLKKE 74


>gi|229117089|ref|ZP_04246469.1| Helix-turn-helix domain protein [Bacillus cereus Rock1-3]
 gi|228666378|gb|EEL21840.1| Helix-turn-helix domain protein [Bacillus cereus Rock1-3]
          Length = 262

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ETAEQSNE 71


>gi|222098975|ref|YP_002533543.1| Cupin 2, conserved barrel domain protein [Thermotoga neapolitana
          DSM 4359]
 gi|221571365|gb|ACM22177.1| Cupin 2, conserved barrel domain protein [Thermotoga neapolitana
          DSM 4359]
          Length = 188

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 34/80 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R+  G++QE+L E   ++   + + E          L+ I E L + +  
Sbjct: 13 VRIGEKLKKLRLSRGLTQEELAERTDLSRSFISQLESDKTSPSIDTLERILEALGTDLKH 72

Query: 73 FFDVSPTVCSDISSEENNVM 92
          FF            EE   +
Sbjct: 73 FFSDFEEERVVFKKEERVPV 92


>gi|168204997|ref|ZP_02631002.1| DNA-binding protein [Clostridium perfringens E str. JGS1987]
 gi|170663385|gb|EDT16068.1| DNA-binding protein [Clostridium perfringens E str. JGS1987]
          Length = 180

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 35/84 (41%), Gaps = 7/84 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G R++  R    ++Q+ L E  GI+   +   E          ++ ++  L+  +  
Sbjct: 1  MFIGYRLQKLRKKRKLTQKALAEMTGISRSYLSDIEHNRYNPSFDTIEALATALKLDLKS 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
          FFD       D   EE+  +  +S
Sbjct: 61 FFD-------DTLLEEDYYLKPLS 77


>gi|158320616|ref|YP_001513123.1| XRE family transcriptional regulator [Alkaliphilus oremlandii
          OhILAs]
 gi|158140815|gb|ABW19127.1| transcriptional regulator, XRE family [Alkaliphilus oremlandii
          OhILAs]
          Length = 179

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 35/65 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++IR  R++  ++Q++L +   +T   + K E+ +     + L  + E L + +  
Sbjct: 1  MDIGEKIRRLRLLNELTQDELAQRCDLTKGFISKIERNITSPSIATLMDLLEALGTDVKK 60

Query: 73 FFDVS 77
          FF+  
Sbjct: 61 FFNED 65


>gi|296504134|ref|YP_003665834.1| transcriptional repressor [Bacillus thuringiensis BMB171]
 gi|296325186|gb|ADH08114.1| transcriptional repressor [Bacillus thuringiensis BMB171]
          Length = 262

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ETAEQSNE 71


>gi|295102948|emb|CBL00492.1| Predicted transcriptional regulators [Faecalibacterium prausnitzii
           SL3/3]
          Length = 112

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 31/58 (53%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            ++G+ ++  R    M+QE + E +G++ Q V K+E G +    S L  ++++    +
Sbjct: 47  KSLGEALKAHRTQCKMTQEFVAETIGVSRQAVSKWENGTSDPSTSNLFALAKLYGVSV 104


>gi|215402217|ref|ZP_03414398.1| putative transcriptional regulatory protein [Mycobacterium
           tuberculosis 02_1987]
 gi|289744162|ref|ZP_06503540.1| transcriptional regulator [Mycobacterium tuberculosis 02_1987]
 gi|289684690|gb|EFD52178.1| transcriptional regulator [Mycobacterium tuberculosis 02_1987]
          Length = 474

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 30/133 (22%), Positives = 53/133 (39%), Gaps = 18/133 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   YVGSRVRQLRNERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               DI+ + + V + +S   G  L R  + +     R+  I 
Sbjct: 65  ASQDDTRLVAELREVTLDRDLDIAIDPHEVAEMVSAHPG--LARAVVNL----HRRYRIT 118

Query: 122 LVRSIVSSEKKYR 134
             +   ++E+++ 
Sbjct: 119 TAQLAAATEERFS 131


>gi|325923357|ref|ZP_08185028.1| Helix-turn-helix protein [Xanthomonas gardneri ATCC 19865]
 gi|325546177|gb|EGD17360.1| Helix-turn-helix protein [Xanthomonas gardneri ATCC 19865]
          Length = 94

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 36/70 (51%), Gaps = 4/70 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R+R  R + G+SQ  LG   G    +   +V +YE GV++     +Q ++  L+ P+++
Sbjct: 12 RRLREARQVYGLSQRNLGIKAGLDDFVASTRVNRYETGVHQPDLQTIQRLANALDVPVAY 71

Query: 73 FFDVSPTVCS 82
          F+     +  
Sbjct: 72 FYAEEDDLAQ 81


>gi|310659741|ref|YP_003937462.1| BcrR protein [Clostridium sticklandii DSM 519]
 gi|308826519|emb|CBH22557.1| BcrR [Clostridium sticklandii]
          Length = 203

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 36/82 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R     +QE+L E L I+   V K+E G        L++IS + +  I  
Sbjct: 1  MELGEKLQQLRKQNNWTQEQLAEQLYISRTAVSKWESGKGYPSIDSLKNISALFKISIDD 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
                 V    +  + NV + 
Sbjct: 61 LLSGDELVQLATNENKENVENI 82


>gi|254465972|ref|ZP_05079383.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
          Y4I]
 gi|206686880|gb|EDZ47362.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
          Y4I]
          Length = 432

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/78 (29%), Positives = 32/78 (41%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G RIR RR+ILG+ Q +L    GI+   +   E    R+G   L  I+ VL    S
Sbjct: 4  DTLTGSRIRERRLILGLRQAELARKAGISASYLNLIEHNRRRIGGKLLVGIAGVLGVEPS 63

Query: 72 FFFDVSPTVCSDISSEEN 89
             + +         E  
Sbjct: 64 MLSEGAEAALISTLREAA 81


>gi|206976191|ref|ZP_03237100.1| helix-turn-helix domain protein [Bacillus cereus H3081.97]
 gi|206745645|gb|EDZ57043.1| helix-turn-helix domain protein [Bacillus cereus H3081.97]
          Length = 262

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ENAEQSNE 71


>gi|206968685|ref|ZP_03229640.1| transcriptional regulator, XRE family [Bacillus cereus AH1134]
 gi|206735726|gb|EDZ52884.1| transcriptional regulator, XRE family [Bacillus cereus AH1134]
          Length = 262

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFRLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ETAEQSNE 71


>gi|226324192|ref|ZP_03799710.1| hypothetical protein COPCOM_01971 [Coprococcus comes ATCC 27758]
 gi|225207741|gb|EEG90095.1| hypothetical protein COPCOM_01971 [Coprococcus comes ATCC 27758]
          Length = 169

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/108 (23%), Positives = 48/108 (44%), Gaps = 8/108 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + I+  R   G+SQE+L   L +  Q V K+E G++   +S L  ++  L + +S     
Sbjct: 4   ENIKRIRKSKGLSQEELAIKLNVVRQTVSKWENGLSVPDSSMLIILANELNTTVS----- 58

Query: 77  SPTVCSDISSEENNVMDFISTP-DGLQLNRYFIQIDDVK-VRQKIIEL 122
              +   ++    + +  +S   + + L      I  VK +R  +I L
Sbjct: 59  -ELLGEPVAEPTTDDLKILSEKLEVINLQLAKRSITKVKTIRWILISL 105


>gi|170758715|ref|YP_001786212.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
 gi|169405704|gb|ACA54115.1| HTH domain protein [Clostridium botulinum A3 str. Loch Maree]
          Length = 381

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 34/71 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+GK I  +R   G++QE+L   +G++   V K+E G++      L  ++      +  
Sbjct: 4  LNIGKCIIHKRKEKGITQEQLANYIGVSKASVSKWESGLSYPDILFLPELATYFNISVDE 63

Query: 73 FFDVSPTVCSD 83
              SP +  +
Sbjct: 64 LLGYSPQLTKE 74


>gi|119487541|ref|ZP_01621151.1| subunit S of type I restriction-modification system [Lyngbya sp.
          PCC 8106]
 gi|119455710|gb|EAW36846.1| subunit S of type I restriction-modification system [Lyngbya sp.
          PCC 8106]
          Length = 72

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 28/70 (40%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +     +G  IR  R   G+SQEKL E   +    +   E+G   V    +  I+  L
Sbjct: 1  MKHEPRKKLGSNIRQLRRSQGLSQEKLAEKADLHRTYIGAIERGERNVSLDNIVAIAHAL 60

Query: 67 ESPISFFFDV 76
            P S   + 
Sbjct: 61 GVPASKLLEG 70


>gi|229157204|ref|ZP_04285284.1| Helix-turn-helix domain protein [Bacillus cereus ATCC 4342]
 gi|228626268|gb|EEK83015.1| Helix-turn-helix domain protein [Bacillus cereus ATCC 4342]
          Length = 262

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ENAEQSNE 71


>gi|217961038|ref|YP_002339606.1| helix-turn-helix domain protein [Bacillus cereus AH187]
 gi|222097090|ref|YP_002531147.1| helix-turn-helix domain protein [Bacillus cereus Q1]
 gi|217067952|gb|ACJ82202.1| helix-turn-helix domain protein [Bacillus cereus AH187]
 gi|221241148|gb|ACM13858.1| helix-turn-helix domain protein [Bacillus cereus Q1]
          Length = 262

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ENAEQSNE 71


>gi|153940476|ref|YP_001390199.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|152936372|gb|ABS41870.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
          Length = 373

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 34/71 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+GK I  +R   G++QE+L   +G++   V K+E G++      L  ++      +  
Sbjct: 4  LNIGKCIIHKRKEKGITQEQLANYIGVSKASVSKWESGLSYPDILFLPELATYFNISVDE 63

Query: 73 FFDVSPTVCSD 83
              SP +  +
Sbjct: 64 LLGYSPQLTKE 74


>gi|284008783|emb|CBA75519.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 369

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/97 (22%), Positives = 40/97 (41%), Gaps = 8/97 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R++  R+ LG+SQE   E  G+       YEK      A  L   ++ L   +++  
Sbjct: 257 VGDRLKSERLRLGLSQEIFAERCGVKKLTQYNYEKSERHPDAGYLIA-AKALGVDLNY-- 313

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                V +    +E + +D +   +  ++   F  I 
Sbjct: 314 -----VMTGERHDEASALDVVRDEEEAEVLTAFRHIP 345


>gi|86748264|ref|YP_484760.1| transcriptional regulator [Rhodopseudomonas palustris HaA2]
 gi|86571292|gb|ABD05849.1| transcriptional regulator [Rhodopseudomonas palustris HaA2]
          Length = 232

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/96 (23%), Positives = 37/96 (38%), Gaps = 9/96 (9%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            ++  +G +IR  R    +S   L     I+   + K E G      S LQ I+  L  P
Sbjct: 46  SLERALGAKIRAIRRERDLSVSDLSSASNISAGMMSKIENGQISPSLSTLQSIAGALNVP 105

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           +S  F          +SE+     F+    G+ + R
Sbjct: 106 LSLLF---------AASEQRRDCSFVRAKQGVAIER 132


>gi|238927790|ref|ZP_04659550.1| hypothetical protein HMPREF0908_1690 [Selenomonas flueggei ATCC
          43531]
 gi|238884337|gb|EEQ47975.1| hypothetical protein HMPREF0908_1690 [Selenomonas flueggei ATCC
          43531]
          Length = 106

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV--NRVGASRLQHISEVLESPI 70
            +G +I   R + G+ Q  L E +GI+   + + E+G     +  S L  I+E L   +
Sbjct: 10 KQIGAKIAYYRTLRGLHQVVLAEKIGISSSVLSRIERGKYNKNISISMLLDIAEGLGVDV 69

Query: 71 SFF 73
          S F
Sbjct: 70 SMF 72


>gi|257438062|ref|ZP_05613817.1| putative helix-turn-helix protein [Faecalibacterium prausnitzii
          A2-165]
 gi|257199393|gb|EEU97677.1| putative helix-turn-helix protein [Faecalibacterium prausnitzii
          A2-165]
          Length = 208

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R   G++QE+L E L ++   + K+E G        L+ IS      I 
Sbjct: 8  EKLQELRKSRGLTQEELAEALFVSRTAISKWESGRGYPSIDSLKEISRYFSVSID 62


>gi|255262941|ref|ZP_05342283.1| DNA-binding protein [Thalassiobium sp. R2A62]
 gi|255105276|gb|EET47950.1| DNA-binding protein [Thalassiobium sp. R2A62]
          Length = 209

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/89 (17%), Positives = 37/89 (41%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +++ +G+ ++  R    M+  +L    G++   + K E G      + LQ +++ L  
Sbjct: 19  NVLEVAIGREVKGFRRRQNMTVAELSAMTGLSIGMLSKIENGNTSPSLTTLQTLADALTV 78

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFIST 97
           PI+ FF         + +     ++    
Sbjct: 79  PITSFFSGFEEKRMAVHTPAGEGVEMERD 107


>gi|229825438|ref|ZP_04451507.1| hypothetical protein GCWU000182_00797 [Abiotrophia defectiva ATCC
           49176]
 gi|229790001|gb|EEP26115.1| hypothetical protein GCWU000182_00797 [Abiotrophia defectiva ATCC
           49176]
          Length = 116

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/97 (17%), Positives = 36/97 (37%), Gaps = 6/97 (6%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R   G++Q +L   LG+    +  YE   N     +L  +S+  +    +   +S
Sbjct: 6   RLKQLRQKKGLTQGELANILGLKPTAISNYESNRNEPSFDKLIALSKEFDVTCDYLLGIS 65

Query: 78  PTVCSDISSE-ENNVMDFI-----STPDGLQLNRYFI 108
            +         +  ++DF        P+     R + 
Sbjct: 66  DSALPIGGEILDKEIVDFFLVYQQLMPESAASVRDYA 102


>gi|227328284|ref|ZP_03832308.1| hypothetical protein PcarcW_13540 [Pectobacterium carotovorum
          subsp. carotovorum WPP14]
          Length = 88

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+   ++QEKLG   GI       ++ +YE G++R     +   ++VL  P  +F
Sbjct: 5  RLKTARLQANLTQEKLGVLAGIEEATARSRISQYESGIHRPTFEMMCAFAKVLNVPECYF 64

Query: 74 FDVSPTVCS 82
          + V      
Sbjct: 65 YTVDDDFAE 73


>gi|183599591|ref|ZP_02961084.1| hypothetical protein PROSTU_03072 [Providencia stuartii ATCC
          25827]
 gi|188021839|gb|EDU59879.1| hypothetical protein PROSTU_03072 [Providencia stuartii ATCC
          25827]
          Length = 207

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 33/64 (51%), Gaps = 1/64 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  RIR RR  L ++Q +L E  GI+ Q ++  E G  +     +  I++ L+S   +
Sbjct: 1  MSLASRIRQRRQELNLTQTELAEKAGISQQSIESIENGRTK-KPRNIIEIAKALQSHPEW 59

Query: 73 FFDV 76
            + 
Sbjct: 60 LLNG 63


>gi|168750476|ref|ZP_02775498.1| putative repressor protein [Escherichia coli O157:H7 str. EC4113]
 gi|168757678|ref|ZP_02782685.1| putative repressor protein [Escherichia coli O157:H7 str. EC4401]
 gi|168783674|ref|ZP_02808681.1| putative repressor protein [Escherichia coli O157:H7 str. EC4076]
 gi|168802673|ref|ZP_02827680.1| putative repressor protein [Escherichia coli O157:H7 str. EC508]
 gi|195937964|ref|ZP_03083346.1| phage-related repressor protein [Escherichia coli O157:H7 str.
          EC4024]
 gi|208819582|ref|ZP_03259902.1| putative repressor protein [Escherichia coli O157:H7 str. EC4042]
 gi|188015290|gb|EDU53412.1| putative repressor protein [Escherichia coli O157:H7 str. EC4113]
 gi|188999040|gb|EDU68026.1| putative repressor protein [Escherichia coli O157:H7 str. EC4076]
 gi|189355373|gb|EDU73792.1| putative repressor protein [Escherichia coli O157:H7 str. EC4401]
 gi|189375389|gb|EDU93805.1| putative repressor protein [Escherichia coli O157:H7 str. EC508]
 gi|208739705|gb|EDZ87387.1| putative repressor protein [Escherichia coli O157:H7 str. EC4042]
          Length = 229

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R+  G++Q+ LG+ +G++   +QK E G      +++  I+  L     + 
Sbjct: 5  LSERLKEARLARGLTQKALGDLVGVSQAAIQKIETGKAN-QTTKIVEIANALGVRAEWL 62


>gi|39996520|ref|NP_952471.1| Cro/CI family transcriptional regulator [Geobacter sulfurreducens
          PCA]
 gi|39983401|gb|AAR34794.1| transcriptional regulator, Cro/CI family [Geobacter
          sulfurreducens PCA]
 gi|307634843|gb|ADI84259.2| helix-turn-helix DNA-binding protein, putative [Geobacter
          sulfurreducens KN400]
          Length = 142

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 2/71 (2%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECL--GITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          N+G  ++  R   G++Q+ L   +  G+ +  + K E+G        L  ISE L  P+ 
Sbjct: 4  NIGHALKRLRSERGLTQKDLAALVSGGLDYTYIGKIERGEQLPSLKILIGISEALGVPVG 63

Query: 72 FFFDVSPTVCS 82
           FF       +
Sbjct: 64 IFFGGESAAEA 74


>gi|325289460|ref|YP_004265641.1| helix-turn-helix domain protein [Syntrophobotulus glycolicus DSM
          8271]
 gi|324964861|gb|ADY55640.1| helix-turn-helix domain protein [Syntrophobotulus glycolicus DSM
          8271]
          Length = 343

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/81 (27%), Positives = 37/81 (45%), Gaps = 4/81 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG  IR  R    ++QE++ + LG+T   V K+E G +    S L  I+ +L   I  
Sbjct: 1  MRVGNVIRKYRKDKNLTQEEMAKRLGVTAPAVNKWENGYSLPDISLLSPIARLLNISIDT 60

Query: 73 FF----DVSPTVCSDISSEEN 89
                ++S    + +  E N
Sbjct: 61 LLSHEKELSDAEANRLVEEAN 81


>gi|312109734|ref|YP_003988050.1| hypothetical protein GY4MC1_0611 [Geobacillus sp. Y4.1MC1]
 gi|311214835|gb|ADP73439.1| protein of unknown function DUF955 [Geobacillus sp. Y4.1MC1]
          Length = 388

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 35/64 (54%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R+  GM+  +L + +G+T Q V ++E+G        +  ++ VL+ P  FF+  
Sbjct: 13 RRLKAARVFRGMTITELADKIGVTRQAVSQFEQGKTPPSLESIFKLTNVLQFPRDFFYAE 72

Query: 77 SPTV 80
            +V
Sbjct: 73 DKSV 76


>gi|227536492|ref|ZP_03966541.1| hypothetical protein HMPREF0765_0736 [Sphingobacterium spiritivorum
           ATCC 33300]
 gi|227243569|gb|EEI93584.1| hypothetical protein HMPREF0765_0736 [Sphingobacterium spiritivorum
           ATCC 33300]
          Length = 123

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/64 (32%), Positives = 33/64 (51%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+R  R    ++ EKL E  GI ++Q+   E G    G S L  I++ L+  +SF  
Sbjct: 58  LGQRVRDLRSERKLTMEKLAELSGIDYRQLSYIELGQTDPGLSTLHAIAKGLDITLSFLM 117

Query: 75  DVSP 78
           D   
Sbjct: 118 DSES 121


>gi|220927517|ref|YP_002504426.1| XRE family transcriptional regulator [Clostridium cellulolyticum
          H10]
 gi|219997845|gb|ACL74446.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
          H10]
          Length = 112

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 39/77 (50%), Gaps = 1/77 (1%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +  K  P  + + +GK+IR  R+  G++QE L E  G+    + + E+G        L  
Sbjct: 1  MSQKDKPTFL-VLLGKKIRQSRLHKGLTQEDLSEITGLHPSYIGQIERGEKSPSVETLID 59

Query: 62 ISEVLESPISFFFDVSP 78
          IS+ L++ IS+  +V  
Sbjct: 60 ISKSLDTSISYILNVPD 76


>gi|319938593|ref|ZP_08012980.1| transcriptional regulator [Coprobacillus sp. 29_1]
 gi|319806229|gb|EFW02921.1| transcriptional regulator [Coprobacillus sp. 29_1]
          Length = 114

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 29/65 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R   G+SQE+L + +G++ Q V K+E   +     ++  +S+       +     
Sbjct: 6  RIQYLRKSKGISQEELADKVGVSRQAVSKWESEQSTPDLEKIIIMSDFFGVTTDYILKGI 65

Query: 78 PTVCS 82
            V  
Sbjct: 66 EPVAD 70


>gi|325678257|ref|ZP_08157885.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324110020|gb|EGC04208.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 254

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 27/53 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR  R   G+SQE L   + +T Q V ++EKG        L+ +S + +  I+
Sbjct: 7  IRELRTKAGLSQEDLANKVYVTRQAVSRWEKGETVPSTDTLKLLSALFDVSIN 59


>gi|242240827|ref|YP_002989008.1| XRE family transcriptional regulator [Dickeya dadantii Ech703]
 gi|242132884|gb|ACS87186.1| transcriptional regulator, XRE family [Dickeya dadantii Ech703]
          Length = 86

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+   ++QEKLG   GI       ++ +YE G++R     +   ++VL  P  +F
Sbjct: 5  RLKTARLRANLTQEKLGVLAGIEEATARSRISQYESGIHRPTFEMICAFAKVLNVPECYF 64

Query: 74 FDVSPTVCS 82
          + V      
Sbjct: 65 YTVDDDFAE 73


>gi|237736495|ref|ZP_04566976.1| transcriptional regulator [Fusobacterium mortiferum ATCC 9817]
 gi|229421537|gb|EEO36584.1| transcriptional regulator [Fusobacterium mortiferum ATCC 9817]
          Length = 187

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 40/69 (57%), Gaps = 1/69 (1%)

Query: 7  IPNPV-DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          + N + D+ +GK+I+  R+   ++ ++L E +G+T   + + E+ +     + L+ IS+ 
Sbjct: 1  MKNDILDLGLGKKIQNYRLNKKLTIKELSEKIGMTSSMLSQIERDLVNPSIATLRAISKA 60

Query: 66 LESPISFFF 74
          L+ P+  FF
Sbjct: 61 LDVPLFMFF 69


>gi|229065719|ref|ZP_04200943.1| Transcriptional regulator, MerR [Bacillus cereus AH603]
 gi|228715537|gb|EEL67338.1| Transcriptional regulator, MerR [Bacillus cereus AH603]
          Length = 186

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 43/84 (51%), Gaps = 1/84 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
          +INVG++I + R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 5  NINVGQKIMVFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISVALNIPLF 64

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          +FF + + T    + + +   + F
Sbjct: 65 NFFLEDTNTEELVVRANQRKKITF 88


>gi|218663328|ref|ZP_03519258.1| probable transcriptional regulator protein, LacI family
          [Rhizobium etli IE4771]
          Length = 190

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 34/85 (40%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R+  G++ + L    G++   + + E+      AS L  I   L   +S FF
Sbjct: 9  IGIRIRTLRLEKGLTLDDLATASGVSRAMISRIERAEASPTASLLARICAALGLSLSAFF 68

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
                 S ++  +         P+
Sbjct: 69 AEEGQQASPLARRQE--QQVWRDPE 91


>gi|254390574|ref|ZP_05005789.1| UDP-N-acetylglucosamine transferase [Streptomyces clavuligerus
          ATCC 27064]
 gi|294815656|ref|ZP_06774299.1| UDP-N-acetylglucosamine transferase [Streptomyces clavuligerus
          ATCC 27064]
 gi|326444005|ref|ZP_08218739.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          clavuligerus ATCC 27064]
 gi|197704276|gb|EDY50088.1| UDP-N-acetylglucosamine transferase [Streptomyces clavuligerus
          ATCC 27064]
 gi|294328255|gb|EFG09898.1| UDP-N-acetylglucosamine transferase [Streptomyces clavuligerus
          ATCC 27064]
          Length = 509

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 31/64 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L
Sbjct: 1  MADDYLVRIGKLIRDARQHRGWTQTQLAEALGTSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|29377137|ref|NP_816291.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
           V583]
 gi|227519665|ref|ZP_03949714.1| transcriptional regulator [Enterococcus faecalis TX0104]
 gi|227554145|ref|ZP_03984192.1| transcriptional regulator [Enterococcus faecalis HH22]
 gi|229549226|ref|ZP_04437951.1| transcriptional regulator [Enterococcus faecalis ATCC 29200]
 gi|255971941|ref|ZP_05422527.1| cro/CI family transcriptional regulator [Enterococcus faecalis T1]
 gi|256616839|ref|ZP_05473685.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
           ATCC 4200]
 gi|256763285|ref|ZP_05503865.1| hypothetical protein EFCG_01220 [Enterococcus faecalis T3]
 gi|256853958|ref|ZP_05559323.1| transcriptional regulator [Enterococcus faecalis T8]
 gi|256957887|ref|ZP_05562058.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
           DS5]
 gi|256961092|ref|ZP_05565263.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecalis Merz96]
 gi|257079824|ref|ZP_05574185.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecalis JH1]
 gi|257081830|ref|ZP_05576191.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           E1Sol]
 gi|257084372|ref|ZP_05578733.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           Fly1]
 gi|257087629|ref|ZP_05581990.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecalis D6]
 gi|257090791|ref|ZP_05585152.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           CH188]
 gi|257416836|ref|ZP_05593830.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
           AR01/DG]
 gi|257420051|ref|ZP_05597045.1| cro/CI family transcriptional regulator [Enterococcus faecalis T11]
 gi|293384038|ref|ZP_06629932.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
           R712]
 gi|293386851|ref|ZP_06631421.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
           S613]
 gi|294779476|ref|ZP_06744872.1| DNA-binding protein [Enterococcus faecalis PC1.1]
 gi|300861098|ref|ZP_07107185.1| helix-turn-helix protein [Enterococcus faecalis TUSoD Ef11]
 gi|307270635|ref|ZP_07551926.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|307276897|ref|ZP_07558007.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|307290339|ref|ZP_07570254.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|312900023|ref|ZP_07759340.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
 gi|312902423|ref|ZP_07761629.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|312908012|ref|ZP_07766995.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|312953680|ref|ZP_07772517.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|312978460|ref|ZP_07790198.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
 gi|29344603|gb|AAO82361.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
           V583]
 gi|227072889|gb|EEI10852.1| transcriptional regulator [Enterococcus faecalis TX0104]
 gi|227176771|gb|EEI57743.1| transcriptional regulator [Enterococcus faecalis HH22]
 gi|229305463|gb|EEN71459.1| transcriptional regulator [Enterococcus faecalis ATCC 29200]
 gi|255962959|gb|EET95435.1| cro/CI family transcriptional regulator [Enterococcus faecalis T1]
 gi|256596366|gb|EEU15542.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
           ATCC 4200]
 gi|256684536|gb|EEU24231.1| hypothetical protein EFCG_01220 [Enterococcus faecalis T3]
 gi|256710901|gb|EEU25944.1| transcriptional regulator [Enterococcus faecalis T8]
 gi|256948383|gb|EEU65015.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
           DS5]
 gi|256951588|gb|EEU68220.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecalis Merz96]
 gi|256987854|gb|EEU75156.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecalis JH1]
 gi|256989860|gb|EEU77162.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           E1Sol]
 gi|256992402|gb|EEU79704.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           Fly1]
 gi|256995659|gb|EEU82961.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecalis D6]
 gi|256999603|gb|EEU86123.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           CH188]
 gi|257158664|gb|EEU88624.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
           ARO1/DG]
 gi|257161879|gb|EEU91839.1| cro/CI family transcriptional regulator [Enterococcus faecalis T11]
 gi|291078518|gb|EFE15882.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
           R712]
 gi|291083685|gb|EFE20648.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
           S613]
 gi|294453433|gb|EFG21839.1| DNA-binding protein [Enterococcus faecalis PC1.1]
 gi|295113617|emb|CBL32254.1| Predicted transcriptional regulators [Enterococcus sp. 7L76]
 gi|300850137|gb|EFK77887.1| helix-turn-helix protein [Enterococcus faecalis TUSoD Ef11]
 gi|306498532|gb|EFM68034.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|306506320|gb|EFM75480.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|306512945|gb|EFM81586.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|310626103|gb|EFQ09386.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|310628518|gb|EFQ11801.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|310634093|gb|EFQ17376.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|311288609|gb|EFQ67165.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
 gi|311292780|gb|EFQ71336.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
 gi|315025573|gb|EFT37505.1| helix-turn-helix protein [Enterococcus faecalis TX2137]
 gi|315030296|gb|EFT42228.1| helix-turn-helix protein [Enterococcus faecalis TX4000]
 gi|315032780|gb|EFT44712.1| helix-turn-helix protein [Enterococcus faecalis TX0017]
 gi|315035163|gb|EFT47095.1| helix-turn-helix protein [Enterococcus faecalis TX0027]
 gi|315143822|gb|EFT87838.1| helix-turn-helix protein [Enterococcus faecalis TX2141]
 gi|315148623|gb|EFT92639.1| helix-turn-helix protein [Enterococcus faecalis TX4244]
 gi|315149967|gb|EFT93983.1| helix-turn-helix protein [Enterococcus faecalis TX0012]
 gi|315151947|gb|EFT95963.1| helix-turn-helix protein [Enterococcus faecalis TX0031]
 gi|315159172|gb|EFU03189.1| helix-turn-helix protein [Enterococcus faecalis TX0312]
 gi|315162150|gb|EFU06167.1| helix-turn-helix protein [Enterococcus faecalis TX0645]
 gi|315168640|gb|EFU12657.1| helix-turn-helix protein [Enterococcus faecalis TX1341]
 gi|315170416|gb|EFU14433.1| helix-turn-helix protein [Enterococcus faecalis TX1342]
 gi|315173738|gb|EFU17755.1| helix-turn-helix protein [Enterococcus faecalis TX1346]
 gi|315576252|gb|EFU88443.1| helix-turn-helix protein [Enterococcus faecalis TX0309B]
 gi|315579167|gb|EFU91358.1| helix-turn-helix protein [Enterococcus faecalis TX0630]
 gi|315582897|gb|EFU95088.1| helix-turn-helix protein [Enterococcus faecalis TX0309A]
 gi|323481583|gb|ADX81022.1| helix-turn-helix/ cupin_2 family protein [Enterococcus faecalis 62]
 gi|327535878|gb|AEA94712.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           OG1RF]
          Length = 180

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 42/91 (46%), Gaps = 1/91 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+++R  R+   ++QE+LGE   ++   + + E+ ++         I EVL      
Sbjct: 1   MEIGEKLRNLRIQKNLTQEELGERTDLSKGYISQLERDLSSPSMETFFSILEVLGVTPEQ 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           FF   P     + +EE + + +     G +L
Sbjct: 61  FFSQQPLEQKIVYNEEESTL-YYDEEHGYEL 90


>gi|30263988|ref|NP_846365.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           Ames]
 gi|49186829|ref|YP_030081.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           Sterne]
 gi|50196954|ref|YP_052642.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           'Ames Ancestor']
 gi|65321313|ref|ZP_00394272.1| COG1396: Predicted transcriptional regulators [Bacillus anthracis
           str. A2012]
 gi|165872120|ref|ZP_02216759.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0488]
 gi|167633504|ref|ZP_02391828.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0442]
 gi|167640973|ref|ZP_02399230.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0193]
 gi|170688808|ref|ZP_02880012.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0465]
 gi|170705742|ref|ZP_02896205.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0389]
 gi|177654324|ref|ZP_02936253.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0174]
 gi|190566003|ref|ZP_03018922.1| prophage LambdaBa02, repressor protein [Bacillus anthracis
           Tsiankovskii-I]
 gi|227816690|ref|YP_002816699.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str. CDC
           684]
 gi|229604569|ref|YP_002868219.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0248]
 gi|254683682|ref|ZP_05147542.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           CNEVA-9066]
 gi|254721519|ref|ZP_05183308.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A1055]
 gi|254736027|ref|ZP_05193733.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           Western North America USA6153]
 gi|254743918|ref|ZP_05201601.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           Kruger B]
 gi|254754303|ref|ZP_05206338.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           Vollum]
 gi|254758006|ref|ZP_05210033.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           Australia 94]
 gi|30258632|gb|AAP27851.1| prophage LambdaBa02, repressor protein [Bacillus phage lambda Ba03]
 gi|49180756|gb|AAT56132.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           Sterne]
 gi|50083016|gb|AAT70150.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           'Ames Ancestor']
 gi|164712067|gb|EDR17605.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0488]
 gi|167511023|gb|EDR86412.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0193]
 gi|167530910|gb|EDR93597.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0442]
 gi|170129282|gb|EDS98146.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0389]
 gi|170667324|gb|EDT18083.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0465]
 gi|172080814|gb|EDT65895.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0174]
 gi|190562922|gb|EDV16888.1| prophage LambdaBa02, repressor protein [Bacillus anthracis
           Tsiankovskii-I]
 gi|227006247|gb|ACP15990.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str. CDC
           684]
 gi|229268977|gb|ACQ50614.1| prophage LambdaBa02, repressor protein [Bacillus anthracis str.
           A0248]
          Length = 122

 Score = 59.8 bits (144), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/126 (17%), Positives = 50/126 (39%), Gaps = 15/126 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLG--------ITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +G+RI+L R   G++Q+ L   +         +T   +  YE G +      L  IS+VL
Sbjct: 4   LGQRIKLSRKKRGLTQDALALKIKEKMDTETKVTKTTISNYETGYSSPSNETLVIISDVL 63

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
              + +    S     +         +F    + + +     +    + +  +++++++ 
Sbjct: 64  NVSVDYLLGRSDDPELNAVQFTELRKEF---NELIDMLEKMPK----EKQDMLLDMMKAA 116

Query: 127 VSSEKK 132
           V   KK
Sbjct: 117 VGHNKK 122


>gi|83594673|ref|YP_428425.1| XRE family transcriptional regulator [Rhodospirillum rubrum ATCC
          11170]
 gi|83577587|gb|ABC24138.1| transcriptional regulator, XRE family [Rhodospirillum rubrum ATCC
          11170]
          Length = 125

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 34/70 (48%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G++IR  R   G++Q +L   LG + + +  +E+G        L  +++VL   +  F
Sbjct: 6  QIGRKIRTLRERRGLTQSQLASLLGKSGETISNFERGKVVTSIQTLDQMAKVLNVRLMDF 65

Query: 74 FDVSPTVCSD 83
          FD      +D
Sbjct: 66 FDGVAVGAAD 75


>gi|220932927|ref|YP_002509835.1| putative prophage repressor [Halothermothrix orenii H 168]
 gi|219994237|gb|ACL70840.1| putative prophage repressor [Halothermothrix orenii H 168]
          Length = 200

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 29/63 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++R  R    ++  +LG  L ++F  +  YE+G       +L  I++       +  D
Sbjct: 5  GQKLRKLRKEKNLTLRELGNKLNLSFSLLAMYERGERTPSLDKLLLIADFFNVSTDYLLD 64

Query: 76 VSP 78
           SP
Sbjct: 65 HSP 67


>gi|329940155|ref|ZP_08289437.1| UDP-N-acetylglucosamine transferase [Streptomyces
          griseoaurantiacus M045]
 gi|329300981|gb|EGG44877.1| UDP-N-acetylglucosamine transferase [Streptomyces
          griseoaurantiacus M045]
          Length = 509

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 31/64 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L
Sbjct: 1  MSDDYLVRIGKLIRDARQHRGWTQSQLAEALGTSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|328887759|emb|CAJ69818.2| Transcriptional regulator, Phage-type [Clostridium difficile]
          Length = 382

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 1/63 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPISFFF 74
          G+R++  R+  GM+  +L E +    Q V  YE   ++   + +   I+ VL  P+ FF 
Sbjct: 7  GERLKKARIYRGMTVAELAERIDCQRQTVSMYENNKSKPNDNNVVKRIARVLGFPVKFFL 66

Query: 75 DVS 77
          +  
Sbjct: 67 ETG 69


>gi|295697327|ref|YP_003590565.1| transcriptional regulator, XRE family [Bacillus tusciae DSM 2912]
 gi|295412929|gb|ADG07421.1| transcriptional regulator, XRE family [Bacillus tusciae DSM 2912]
          Length = 181

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 35/80 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          ++R  R   G + ++L E   ++   + + E+G      +    I + LE P+ +FF+  
Sbjct: 7  KLRRVRQEKGWTIQELAEKCEVSPGLISQVERGRVVPTLTTFWRICQALEVPMHYFFEEQ 66

Query: 78 PTVCSDISSEENNVMDFIST 97
                +  ++  ++ F  +
Sbjct: 67 KDESMVVRRDQRKIIHFPGS 86


>gi|295100881|emb|CBK98426.1| Predicted transcriptional regulators [Faecalibacterium prausnitzii
           L2-6]
          Length = 168

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/121 (20%), Positives = 51/121 (42%), Gaps = 16/121 (13%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +PN   I +GK+I+  R  + M+QE+L     ++ + +   E G        L  I  VL
Sbjct: 51  MPNADAIALGKQIKAVRKAMKMTQEQLALKSNVSVKYIANIENGKQNPSFDILSSILHVL 110

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             P+S    +   +  ++S  E          +  +L   +      ++R+ +++  RS+
Sbjct: 111 --PLS----LDSVINPNLSEAE---------RECRELESIYFACP-PEMRKTLLDATRSL 154

Query: 127 V 127
            
Sbjct: 155 A 155


>gi|225856824|ref|YP_002738335.1| transcriptional regulator [Streptococcus pneumoniae P1031]
 gi|225726261|gb|ACO22113.1| transcriptional regulator [Streptococcus pneumoniae P1031]
          Length = 227

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 3/65 (4%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF---F 74
          +++ +R   G+SQ +L   LGI+      +E G  +   + L  +SE+      +F   F
Sbjct: 6  KLKEKRESQGLSQSQLASSLGISRASYFNWESGKTKPNQNNLSKLSEIFNVDPRYFESEF 65

Query: 75 DVSPT 79
          ++  T
Sbjct: 66 EIVET 70


>gi|222152205|ref|YP_002561380.1| DNA-binding protein [Streptococcus uberis 0140J]
 gi|222113016|emb|CAR40321.1| putative DNA-binding protein [Streptococcus uberis 0140J]
          Length = 135

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/83 (18%), Positives = 35/83 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ R    +SQE L E L I+ Q + K+E G        L  ++E+ +  +      
Sbjct: 6  SQLKILRQAKNLSQEALAEQLFISRQAISKWENGDATPDLENLVKLAEIFKVSLDELVLG 65

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
               +    E++  +  ++  +
Sbjct: 66 KKIDSNQDDEEDDENLHLLTNRE 88


>gi|183600843|ref|ZP_02962336.1| hypothetical protein PROSTU_04445 [Providencia stuartii ATCC
          25827]
 gi|188019628|gb|EDU57668.1| hypothetical protein PROSTU_04445 [Providencia stuartii ATCC
          25827]
          Length = 234

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R++  R   G++Q +L + +G++   +QK E G       RL  IS+ L     + 
Sbjct: 7  QRLKQARKNAGITQNELAKLVGVSQAAIQKIETGKAATST-RLIEISKALNVDPEWL 62


>gi|167461704|ref|ZP_02326793.1| Transcriptional regulator, XRE family protein [Paenibacillus
          larvae subsp. larvae BRL-230010]
 gi|322384015|ref|ZP_08057743.1| hypothetical protein PL1_2071 [Paenibacillus larvae subsp. larvae
          B-3650]
 gi|321151382|gb|EFX44571.1| hypothetical protein PL1_2071 [Paenibacillus larvae subsp. larvae
          B-3650]
          Length = 152

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 32/70 (45%), Gaps = 1/70 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++GK I+  R    +SQE+L + +  +   + K E+G+       L  +++ L   + +
Sbjct: 8  IHIGKIIKQLRQKYKLSQEELAKGI-CSQAHISKIERGIQFPSGVMLYLLAQKLRISVDY 66

Query: 73 FFDVSPTVCS 82
           F+       
Sbjct: 67 LFNPENAAED 76


>gi|30019187|ref|NP_830818.1| transcriptional repressor [Bacillus cereus ATCC 14579]
 gi|229108598|ref|ZP_04238210.1| hypothetical protein bcere0018_8800 [Bacillus cereus Rock1-15]
 gi|229126443|ref|ZP_04255458.1| hypothetical protein bcere0015_9000 [Bacillus cereus BDRD-Cer4]
 gi|229143741|ref|ZP_04272162.1| hypothetical protein bcere0012_9070 [Bacillus cereus BDRD-ST24]
 gi|29894730|gb|AAP08019.1| Transcriptional repressor [Bacillus cereus ATCC 14579]
 gi|228639694|gb|EEK96103.1| hypothetical protein bcere0012_9070 [Bacillus cereus BDRD-ST24]
 gi|228657023|gb|EEL12846.1| hypothetical protein bcere0015_9000 [Bacillus cereus BDRD-Cer4]
 gi|228674853|gb|EEL30085.1| hypothetical protein bcere0018_8800 [Bacillus cereus Rock1-15]
          Length = 149

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E L ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKLHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   I  +   + 
Sbjct: 65 DEELTQKIIEDSKQLA 80


>gi|304409163|ref|ZP_07390784.1| putative phage repressor [Shewanella baltica OS183]
 gi|307303166|ref|ZP_07582921.1| putative phage repressor [Shewanella baltica BA175]
 gi|304352984|gb|EFM17381.1| putative phage repressor [Shewanella baltica OS183]
 gi|306913526|gb|EFN43948.1| putative phage repressor [Shewanella baltica BA175]
          Length = 233

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+R + RR  + ++Q +L + +G++   + ++E G        L  +++ L+    +
Sbjct: 2  KTLGERSKERRKTINLTQLQLSKKVGVSSVTISQWESGDTSPKGENLYKLAQALQCSPDW 61

Query: 73 F-FDVSPTVCSDISSEE 88
            F  S       S+ E
Sbjct: 62 LMFGDSKNTKKPESNAE 78


>gi|320006892|gb|ADW01742.1| helix-turn-helix domain protein [Streptomyces flavogriseus ATCC
           33331]
          Length = 202

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/93 (25%), Positives = 33/93 (35%), Gaps = 5/93 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G++   L E  GI+   + + E G  R     L  I+   E P+    
Sbjct: 21  VGPRLRRLRKDRGVTLAALSEATGISVSTLSRLESGGRRPSLELLLPIARAHEVPLDDLV 80

Query: 75  DVSPTV-----CSDISSEENNVMDFISTPDGLQ 102
              P          I       +   S P GLQ
Sbjct: 81  GAPPVSDPRVRAKPIVHGSRTSLPLTSRPGGLQ 113


>gi|253754652|ref|YP_003027792.1| DNA-binding protein [Streptococcus suis BM407]
 gi|251817116|emb|CAZ54837.1| putative DNA-binding protein [Streptococcus suis BM407]
          Length = 119

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 31/61 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            + ++IR+ R    +SQ++L E L I+ Q V ++E G       +L  ++E+    + +
Sbjct: 2  KQLAQQIRVLRTAKNLSQDELAEKLYISRQAVSEWENGEATPDIDKLVQLAEIFGVSLDY 61

Query: 73 F 73
           
Sbjct: 62 L 62


>gi|228984922|ref|ZP_04145092.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
 gi|228774872|gb|EEM23268.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
          Length = 181

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK++  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKLEKQRKEKGLTSKELAKMADITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|218896089|ref|YP_002444500.1| hypothetical protein BCG9842_B4236 [Bacillus cereus G9842]
 gi|228964096|ref|ZP_04125221.1| hypothetical protein bthur0004_9510 [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|218544124|gb|ACK96518.1| hypothetical protein BCG9842_B4236 [Bacillus cereus G9842]
 gi|228795583|gb|EEM43065.1| hypothetical protein bthur0004_9510 [Bacillus thuringiensis
          serovar sotto str. T04001]
          Length = 149

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 31/76 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++ +  I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFDITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKKLA 80


>gi|160876601|ref|YP_001555917.1| putative phage repressor [Shewanella baltica OS195]
 gi|160862123|gb|ABX50657.1| putative phage repressor [Shewanella baltica OS195]
 gi|315268797|gb|ADT95650.1| putative phage repressor [Shewanella baltica OS678]
          Length = 229

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 31/71 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+ RR  LG +Q  + + +G+T   V  +E G        L  +++ L     +    
Sbjct: 4  ERIKQRRKELGFTQPAIAKKIGLTKATVSLWESGSTSPKGENLHALAKALSCSPEYLLFG 63

Query: 77 SPTVCSDISSE 87
          +     + ++E
Sbjct: 64 NKETKPESNAE 74


>gi|153001880|ref|YP_001367561.1| putative phage repressor [Shewanella baltica OS185]
 gi|151366498|gb|ABS09498.1| putative phage repressor [Shewanella baltica OS185]
          Length = 229

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 31/71 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+ RR  LG +Q  + + +G+T   V  +E G        L  +++ L     +    
Sbjct: 4  ERIKQRRKELGFTQPAIAKKIGLTKATVSLWESGSTSPKGENLHALAKALSCSPEYLLFG 63

Query: 77 SPTVCSDISSE 87
          +     + ++E
Sbjct: 64 NKETKPESNAE 74


>gi|160875134|ref|YP_001554450.1| putative phage repressor [Shewanella baltica OS195]
 gi|160860656|gb|ABX49190.1| putative phage repressor [Shewanella baltica OS195]
 gi|315267325|gb|ADT94178.1| putative phage repressor [Shewanella baltica OS678]
          Length = 233

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+R + RR  + ++Q +L + +G++   + ++E G        L  +++ L+    +
Sbjct: 2  KTLGERSKERRKTINLTQLQLSKKVGVSSVTISQWESGDTSPKGENLYKLAQALQCSPDW 61

Query: 73 F-FDVSPTVCSDISSEE 88
            F  S       S+ E
Sbjct: 62 LMFGDSKNTKKPESNAE 78


>gi|58699195|ref|ZP_00374007.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
 gi|58534291|gb|EAL58478.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila ananassae]
          Length = 147

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 29/117 (24%), Positives = 52/117 (44%), Gaps = 13/117 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I   R++ G +Q +L   +G+T+Q+V  YE G   +    L  I+ VL        
Sbjct: 29  IGQKIEDSRLMRGHTQVELASEIGLTYQEVNSYENGYIPIPIEVLYVIARVLSVNAIDLL 88

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
                V  D   +E          + L L + +   ++ K+ + +  LVR +  SEK
Sbjct: 89  PEPVIVREDSYEDE----------EILYLTKIY---ENQKLGKIVPSLVRFVHISEK 132


>gi|330819769|ref|YP_004348631.1| XRE family transcriptional regulator [Burkholderia gladioli BSR3]
 gi|327371764|gb|AEA63119.1| XRE family transcriptional regulator [Burkholderia gladioli BSR3]
          Length = 189

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 29/63 (46%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +D  +G RIR  R   G S   L E  G++   + K E+G +   A+ L  ++     
Sbjct: 6  DDIDHRIGARIRAERESRGWSLTNLAENSGVSRAMIHKIERGESSPTATSLAKLAGAFNL 65

Query: 69 PIS 71
           +S
Sbjct: 66 SMS 68


>gi|314933295|ref|ZP_07840660.1| transcriptional regulator, Cro/CI family [Staphylococcus caprae
          C87]
 gi|313653445|gb|EFS17202.1| transcriptional regulator, Cro/CI family [Staphylococcus caprae
          C87]
          Length = 179

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 33/67 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G ++R  R I  ++QE+L E   ++   + + E            +I EVL +  S 
Sbjct: 1  MNIGYKLRNLRRIKNLTQEELAERTDLSKGYISQIESQHASPSMETFLNILEVLGTSASD 60

Query: 73 FFDVSPT 79
          FF  SP+
Sbjct: 61 FFQESPS 67


>gi|228938260|ref|ZP_04100874.1| hypothetical protein bthur0008_9280 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|228971138|ref|ZP_04131770.1| hypothetical protein bthur0003_9200 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228977747|ref|ZP_04138132.1| hypothetical protein bthur0002_9560 [Bacillus thuringiensis
          Bt407]
 gi|228781955|gb|EEM30148.1| hypothetical protein bthur0002_9560 [Bacillus thuringiensis
          Bt407]
 gi|228788564|gb|EEM36511.1| hypothetical protein bthur0003_9200 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228821396|gb|EEM67407.1| hypothetical protein bthur0008_9280 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|326938767|gb|AEA14663.1| transcriptional repressor [Bacillus thuringiensis serovar
          chinensis CT-43]
          Length = 149

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E L ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKLHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DKELTQKVIEDSKQLA 80


>gi|196044284|ref|ZP_03111520.1| transcriptional repressor [Bacillus cereus 03BB108]
 gi|225862972|ref|YP_002748350.1| transcriptional regulator, XRE family [Bacillus cereus 03BB102]
 gi|229183334|ref|ZP_04310562.1| hypothetical protein bcere0004_9090 [Bacillus cereus BGSC 6E1]
 gi|196024923|gb|EDX63594.1| transcriptional repressor [Bacillus cereus 03BB108]
 gi|225790632|gb|ACO30849.1| transcriptional regulator, XRE family [Bacillus cereus 03BB102]
 gi|228600118|gb|EEK57710.1| hypothetical protein bcere0004_9090 [Bacillus cereus BGSC 6E1]
          Length = 149

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQSDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|95929663|ref|ZP_01312405.1| transcriptional regulator, XRE family [Desulfuromonas acetoxidans
          DSM 684]
 gi|95134360|gb|EAT16017.1| transcriptional regulator, XRE family [Desulfuromonas acetoxidans
          DSM 684]
          Length = 176

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 29/70 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R   G++ + +    G +   + + E        + L  +SE  +  I +FF
Sbjct: 5  IGTKIRELRKNRGITLQYVANQTGFSAALISQIENNNITPPIATLARLSEFFDVKIGYFF 64

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 65 EDEALARYEV 74


>gi|15607606|ref|NP_214979.1| transcriptional regulatory protein [Mycobacterium tuberculosis
           H37Rv]
 gi|15839854|ref|NP_334891.1| DNA-binding protein, putative [Mycobacterium tuberculosis CDC1551]
 gi|148660231|ref|YP_001281754.1| putative transcriptional regulatory protein [Mycobacterium
           tuberculosis H37Ra]
 gi|148821663|ref|YP_001286417.1| transcriptional regulator [Mycobacterium tuberculosis F11]
 gi|167970715|ref|ZP_02552992.1| hypothetical transcriptional regulatory protein [Mycobacterium
           tuberculosis H37Ra]
 gi|253797392|ref|YP_003030393.1| transcriptional regulator [Mycobacterium tuberculosis KZN 1435]
 gi|254230812|ref|ZP_04924139.1| hypothetical protein TBCG_00456 [Mycobacterium tuberculosis C]
 gi|254363429|ref|ZP_04979475.1| hypothetical transcriptional regulatory protein [Mycobacterium
           tuberculosis str. Haarlem]
 gi|254549412|ref|ZP_05139859.1| transcriptional regulator [Mycobacterium tuberculosis '98-R604
           INH-RIF-EM']
 gi|289552715|ref|ZP_06441925.1| transcriptional regulator [Mycobacterium tuberculosis KZN 605]
 gi|297632949|ref|ZP_06950729.1| transcriptional regulator [Mycobacterium tuberculosis KZN 4207]
 gi|297729924|ref|ZP_06959042.1| transcriptional regulator [Mycobacterium tuberculosis KZN R506]
 gi|306774562|ref|ZP_07412899.1| transcriptional regulator [Mycobacterium tuberculosis SUMu001]
 gi|306779310|ref|ZP_07417647.1| transcriptional regulator [Mycobacterium tuberculosis SUMu002]
 gi|306783100|ref|ZP_07421422.1| transcriptional regulator [Mycobacterium tuberculosis SUMu003]
 gi|306787468|ref|ZP_07425790.1| transcriptional regulator [Mycobacterium tuberculosis SUMu004]
 gi|306792019|ref|ZP_07430321.1| transcriptional regulator [Mycobacterium tuberculosis SUMu005]
 gi|306796205|ref|ZP_07434507.1| transcriptional regulator [Mycobacterium tuberculosis SUMu006]
 gi|306802063|ref|ZP_07438731.1| transcriptional regulator [Mycobacterium tuberculosis SUMu008]
 gi|306806274|ref|ZP_07442942.1| transcriptional regulator [Mycobacterium tuberculosis SUMu007]
 gi|306966470|ref|ZP_07479131.1| transcriptional regulator [Mycobacterium tuberculosis SUMu009]
 gi|306970666|ref|ZP_07483327.1| transcriptional regulator [Mycobacterium tuberculosis SUMu010]
 gi|307078390|ref|ZP_07487560.1| transcriptional regulator [Mycobacterium tuberculosis SUMu011]
 gi|307082949|ref|ZP_07492062.1| transcriptional regulator [Mycobacterium tuberculosis SUMu012]
 gi|313657253|ref|ZP_07814133.1| transcriptional regulator [Mycobacterium tuberculosis KZN V2475]
 gi|81669529|sp|O53750|Y465_MYCTU RecName: Full=Uncharacterized HTH-type transcriptional regulator
           Rv0465c/MT0481
 gi|2909541|emb|CAA17420.1| PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN [Mycobacterium
           tuberculosis H37Rv]
 gi|13879988|gb|AAK44705.1| DNA-binding protein, putative [Mycobacterium tuberculosis CDC1551]
 gi|124599871|gb|EAY58881.1| hypothetical protein TBCG_00456 [Mycobacterium tuberculosis C]
 gi|134148943|gb|EBA40988.1| hypothetical transcriptional regulatory protein [Mycobacterium
           tuberculosis str. Haarlem]
 gi|148504383|gb|ABQ72192.1| putative transcriptional regulatory protein [Mycobacterium
           tuberculosis H37Ra]
 gi|148720190|gb|ABR04815.1| hypothetical transcriptional regulatory protein [Mycobacterium
           tuberculosis F11]
 gi|253318895|gb|ACT23498.1| transcriptional regulator [Mycobacterium tuberculosis KZN 1435]
 gi|289437347|gb|EFD19840.1| transcriptional regulator [Mycobacterium tuberculosis KZN 605]
 gi|308216911|gb|EFO76310.1| transcriptional regulator [Mycobacterium tuberculosis SUMu001]
 gi|308327755|gb|EFP16606.1| transcriptional regulator [Mycobacterium tuberculosis SUMu002]
 gi|308332117|gb|EFP20968.1| transcriptional regulator [Mycobacterium tuberculosis SUMu003]
 gi|308335845|gb|EFP24696.1| transcriptional regulator [Mycobacterium tuberculosis SUMu004]
 gi|308339508|gb|EFP28359.1| transcriptional regulator [Mycobacterium tuberculosis SUMu005]
 gi|308343374|gb|EFP32225.1| transcriptional regulator [Mycobacterium tuberculosis SUMu006]
 gi|308347283|gb|EFP36134.1| transcriptional regulator [Mycobacterium tuberculosis SUMu007]
 gi|308351213|gb|EFP40064.1| transcriptional regulator [Mycobacterium tuberculosis SUMu008]
 gi|308355866|gb|EFP44717.1| transcriptional regulator [Mycobacterium tuberculosis SUMu009]
 gi|308359787|gb|EFP48638.1| transcriptional regulator [Mycobacterium tuberculosis SUMu010]
 gi|308363727|gb|EFP52578.1| transcriptional regulator [Mycobacterium tuberculosis SUMu011]
 gi|308367383|gb|EFP56234.1| transcriptional regulator [Mycobacterium tuberculosis SUMu012]
 gi|323721139|gb|EGB30201.1| transcriptional regulator [Mycobacterium tuberculosis CDC1551A]
 gi|328457178|gb|AEB02601.1| transcriptional regulator [Mycobacterium tuberculosis KZN 4207]
          Length = 474

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 29/119 (24%), Positives = 48/119 (40%), Gaps = 18/119 (15%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   YVGSRVRQLRNERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQ-----LNRYFIQIDDVKV 115
                T               DI+ + + V + +S   GL      L+R + +I   ++
Sbjct: 65  ASQDDTRLVAELREVTLDRDLDIAIDPHEVAEMVSAHPGLACAVVNLHRRY-RITTAQL 122


>gi|331650592|ref|ZP_08351661.1| putative transcriptional regulator [Escherichia coli M605]
 gi|323948704|gb|EGB44608.1| helix-turn-helix protein [Escherichia coli H252]
 gi|331040563|gb|EGI12724.1| putative transcriptional regulator [Escherichia coli M605]
          Length = 121

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 32/120 (26%), Positives = 55/120 (45%), Gaps = 16/120 (13%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI-----TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           KR++  RM  G+SQEKL + LG+     T  +   YE G        ++ I+E+L+ P +
Sbjct: 4   KRLKEARMEAGLSQEKLSQLLGVAEGINTRSRFSSYEVGRTEPPFKLVKKIAELLDYPEN 63

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL--VRSIVSS 129
           +F+                V+DF       +LN  +    +V+ R+   +L  V+ IV+ 
Sbjct: 64  YFYTEDDDFA-------KAVLDFHRKRTSPELNPNYDS--EVEARRMASKLDNVKKIVAQ 114


>gi|326791705|ref|YP_004309526.1| hypothetical protein Clole_2627 [Clostridium lentocellum DSM
          5427]
 gi|326542469|gb|ADZ84328.1| helix-turn-helix domain protein [Clostridium lentocellum DSM
          5427]
          Length = 176

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 38/79 (48%), Gaps = 3/79 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R  L ++Q++L + LGI    ++KYEKG        ++ ++  L+      +
Sbjct: 2  LGNNIKTARKKLKLTQKELAQQLGIAEITIRKYEKGEREPNLETIEKLAVTLKVTP---Y 58

Query: 75 DVSPTVCSDISSEENNVMD 93
          ++   + + ++     + +
Sbjct: 59 ELLGNLNNSVALNHAPMAE 77


>gi|228951504|ref|ZP_04113610.1| hypothetical protein bthur0006_9230 [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
 gi|228808211|gb|EEM54724.1| hypothetical protein bthur0006_9230 [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
          Length = 149

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 31/76 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N +    + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKIHVSRQSVSKWETGKNYLSIEIIIHLSDLFGITIDELLRG 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|238852875|ref|ZP_04643280.1| transcriptional regulator, xre family [Lactobacillus gasseri 202-4]
 gi|238834569|gb|EEQ26801.1| transcriptional regulator, xre family [Lactobacillus gasseri 202-4]
          Length = 335

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/113 (19%), Positives = 46/113 (40%), Gaps = 4/113 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++I   R    +SQE L E + ++ Q V K+E   +     ++ ++SE+      +
Sbjct: 1   MRLGQKIADLRKKNNLSQEGLAEKMNVSRQAVSKWESEQSIPDIEKIVNLSELFGVTTDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI--DDVKVRQKIIELV 123
                       + + N+        D  +L R ++     + K R   I L+
Sbjct: 61  LLKSGEPSFEFKNEDINDKDKLPVLSD--ELVRKYLTASRKNAKFRALAIALI 111


>gi|284038170|ref|YP_003388100.1| XRE family transcriptional regulator [Spirosoma linguale DSM 74]
 gi|283817463|gb|ADB39301.1| transcriptional regulator, XRE family [Spirosoma linguale DSM 74]
          Length = 67

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            VG+RI+  R   G++Q + G+ LG++   V  YE G   +    L+ ++  L      
Sbjct: 6  KQVGQRIKEARNQKGITQREFGKMLGVSHTTVNGYETGKQNLTLDTLEKVAAALGMAPKS 65

Query: 73 F 73
          F
Sbjct: 66 F 66


>gi|229815067|ref|ZP_04445404.1| hypothetical protein COLINT_02109 [Collinsella intestinalis DSM
          13280]
 gi|229809297|gb|EEP45062.1| hypothetical protein COLINT_02109 [Collinsella intestinalis DSM
          13280]
          Length = 206

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 36/77 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  +I+ RR  +G+SQE+L E L ++ Q +  +E+         L  +S + ++ I  
Sbjct: 1  MDISNQIKTRREAMGLSQEQLAEKLYVSRQTISNWERDKTYPDVQSLLMLSVLFDTSIDT 60

Query: 73 FFDVSPTVCSDISSEEN 89
                TV  +    + 
Sbjct: 61 LVKGDVTVMEEAVERDR 77


>gi|325662288|ref|ZP_08150903.1| hypothetical protein HMPREF0490_01641 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|331086094|ref|ZP_08335177.1| hypothetical protein HMPREF0987_01480 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|325471540|gb|EGC74761.1| hypothetical protein HMPREF0490_01641 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|330407017|gb|EGG86522.1| hypothetical protein HMPREF0987_01480 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 192

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/88 (21%), Positives = 41/88 (46%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R     + + L E  G++   + ++E+G+  +    L+ I++VLE  +S FF
Sbjct: 7   IGFRIKELRTEKKYTLKYLSEQTGLSIGFLSQFERGLTSIAIDSLEKIAQVLEVELSSFF 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQ 102
           D+S    +            +   + ++
Sbjct: 67  DLSSPQETKYVVRSYEKETTLVNSEIIE 94


>gi|254828889|ref|ZP_05233576.1| DNA-binding protein [Listeria monocytogenes FSL N3-165]
 gi|255028672|ref|ZP_05300623.1| transcription regulator, putative [Listeria monocytogenes LO28]
 gi|258601302|gb|EEW14627.1| DNA-binding protein [Listeria monocytogenes FSL N3-165]
          Length = 157

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 36/75 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|167580903|ref|ZP_02373777.1| transcriptional regulator, XRE family protein [Burkholderia
           thailandensis TXDOH]
          Length = 132

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/112 (20%), Positives = 46/112 (41%), Gaps = 9/112 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  I  +R   G++Q KL E + +  + + ++E+G       RLQ +S+ L+  +    
Sbjct: 21  VGTAIAEQRRARGLTQAKLAEMIDLEQEAISRWERGTRMPTLHRLQQLSDALDCSVDQLL 80

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI--------DDVKVRQK 118
                   D  +   + +D +   +  +L   F+Q            K R++
Sbjct: 81  QRGSKRPDDQLAMIADALDGLDGDE-RELVVNFVQQFADMLKARRSPKHRRR 131


>gi|94990056|ref|YP_598156.1| Cro/CI family transcriptional regulator [Streptococcus phage
          10270.1]
 gi|94990314|ref|YP_598414.1| Cro/CI family transcriptional regulator [Streptococcus phage
          10270.2]
 gi|94994236|ref|YP_602334.1| Cro/CI family transcriptional regulator [Streptococcus phage
          10750.2]
 gi|94543564|gb|ABF33612.1| Transcriptional regulator, Cro/CI family [Streptococcus phage
          10270.1]
 gi|94543822|gb|ABF33870.1| Transcriptional regulator, Cro/CI family [Streptococcus phage
          10270.2]
 gi|94547744|gb|ABF37790.1| Transcriptional regulator, Cro/CI family [Streptococcus phage
          10750.2]
          Length = 104

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 35/67 (52%), Gaps = 1/67 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R   G++Q+ L E + + ++ +Q++E   +++   + Q +++  +  +++    
Sbjct: 2  NRIKELRKEKGLTQQDLAEEIYVHYRTIQRWEN-KHKIALDQAQLLADYFDVSVAYLLGY 60

Query: 77 SPTVCSD 83
          S T   +
Sbjct: 61 SDTTKDN 67


>gi|81428935|ref|YP_395935.1| XRE family DNA-binding protein [Lactobacillus sakei subsp. sakei
          23K]
 gi|78610577|emb|CAI55628.1| Putative DNA-binding protein, XRE family [Lactobacillus sakei
          subsp. sakei 23K]
          Length = 287

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 34/71 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R++  R+  G SQ  L + L ++ Q + K+E   +    + L  ++++    ++ 
Sbjct: 1  MLIGQRLKQFRLGAGYSQRTLADKLNVSRQVISKWETDKSVPDLNLLVGLAQLYNVSLTE 60

Query: 73 FFDVSPTVCSD 83
            DV     S 
Sbjct: 61 LLDVETVTKSG 71


>gi|328958487|ref|YP_004375873.1| conserved hypothetical protein; possible transcriptional regulator
           [Carnobacterium sp. 17-4]
 gi|328674811|gb|AEB30857.1| conserved hypothetical protein; possible transcriptional regulator
           [Carnobacterium sp. 17-4]
          Length = 183

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/114 (21%), Positives = 43/114 (37%), Gaps = 10/114 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+          + +G+R++  R+  G SQ  + E L I+ Q + K+E G        L 
Sbjct: 1   MIEENNQEGERHMALGERLKESRVSKGFSQGDVAEHLQISRQSISKWETGNGYPDLDNLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEE----------NNVMDFISTPDGLQLN 104
            +S   E  I      +  + + I   E          + +  F+   +GL L 
Sbjct: 61  KLSVYYEVSIDDLLKENQKLKNKIHENEIKIEENHQKLDFIRGFVEKDEGLLLL 114


>gi|270291965|ref|ZP_06198180.1| conserved hypothetical protein [Streptococcus sp. M143]
 gi|270279493|gb|EFA25335.1| conserved hypothetical protein [Streptococcus sp. M143]
          Length = 165

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 35/75 (46%), Gaps = 2/75 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
          +++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    
Sbjct: 5  EKLFELRKEKGWSQEKLAEQINVSRQSISKWESGQVLPEIEKIIELSKIFQVTTDYLLLD 64

Query: 75 DVSPTVCSDISSEEN 89
          + S    + +  EE+
Sbjct: 65 ENSEKASTAVILEED 79


>gi|25027261|ref|NP_737315.1| hypothetical protein CE0705 [Corynebacterium efficiens YS-314]
 gi|23492542|dbj|BAC17515.1| hypothetical protein [Corynebacterium efficiens YS-314]
          Length = 169

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 35/85 (41%), Gaps = 6/85 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR------VGASRLQHISEVLES 68
           +G R+R  R I G SQE+L E + ++   +   E+  N          S +  +S  L+ 
Sbjct: 54  LGARVREIRKIRGYSQEELAEIVNMSRNAISNLERNENNNGKPGDPRLSTVYKLSWALDV 113

Query: 69  PISFFFDVSPTVCSDISSEENNVMD 93
           P +            I  +E+  +D
Sbjct: 114 PPAALLPAVGEKPQGICVDESLPVD 138


>gi|172058533|ref|YP_001814993.1| XRE family transcriptional regulator [Exiguobacterium sibiricum
          255-15]
 gi|171991054|gb|ACB61976.1| transcriptional regulator, XRE family [Exiguobacterium sibiricum
          255-15]
          Length = 181

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 32/65 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G +I+  R+  G++QE+LGE   ++   + + E+ ++      L  + EVL      
Sbjct: 2  RTIGNKIKNLRLQKGLTQEELGERTDLSKGYISQIEREISSPSIETLFSLLEVLGISAKD 61

Query: 73 FFDVS 77
          FFD  
Sbjct: 62 FFDED 66


>gi|326941347|gb|AEA17243.1| transcriptional repressor [Bacillus thuringiensis serovar
          chinensis CT-43]
          Length = 262

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ETAEQSNE 71


>gi|299821483|ref|ZP_07053371.1| DNA-binding protein [Listeria grayi DSM 20601]
 gi|299817148|gb|EFI84384.1| DNA-binding protein [Listeria grayi DSM 20601]
          Length = 180

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/75 (29%), Positives = 36/75 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+I+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKKIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIVTLFDILEVLGSSPKA 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHTQKVIYGE 75


>gi|229114588|ref|ZP_04244002.1| hypothetical protein bcere0017_8850 [Bacillus cereus Rock1-3]
 gi|228668653|gb|EEL24081.1| hypothetical protein bcere0017_8850 [Bacillus cereus Rock1-3]
          Length = 149

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E L ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKLHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|224542166|ref|ZP_03682705.1| hypothetical protein CATMIT_01341 [Catenibacterium mitsuokai DSM
           15897]
 gi|224524934|gb|EEF94039.1| hypothetical protein CATMIT_01341 [Catenibacterium mitsuokai DSM
           15897]
          Length = 121

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 28/104 (26%), Positives = 53/104 (50%), Gaps = 12/104 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + K +++ R   G++QE + E L +  Q + K+EKG++   A  L  ++E+L+  +S   
Sbjct: 2   LSKNLKIFRKRKGLTQENVAEALNVVRQTISKWEKGISVPDADMLIKLAEILDVSVS--- 58

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
                + SD++ E+N   D I+    ++L R   Q+     R K
Sbjct: 59  ---KLIGSDVADEKNE--DMIA----VELARVVEQLASRNRRSK 93


>gi|118587212|ref|ZP_01544640.1| transcriptional regulator, helix-turn-helix XRE-family
          [Oenococcus oeni ATCC BAA-1163]
 gi|118432354|gb|EAV39092.1| transcriptional regulator, helix-turn-helix XRE-family
          [Oenococcus oeni ATCC BAA-1163]
          Length = 199

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 34/73 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  +R  LGM+Q+++ E L ++ Q +  +EKG N      L  +S++ +  +        
Sbjct: 14 ISSKRRELGMTQDQVAELLHVSRQALSNWEKGKNYPDLDTLVELSKIYDLSLDVLIKGDK 73

Query: 79 TVCSDISSEENNV 91
           V   +  +  ++
Sbjct: 74 EVMKKVQEDSQDL 86


>gi|83859577|ref|ZP_00953097.1| predicted transcription regulator, containing DNA-binding
          HTHdomain [Oceanicaulis alexandrii HTCC2633]
 gi|83851936|gb|EAP89790.1| predicted transcription regulator, containing DNA-binding
          HTHdomain [Oceanicaulis alexandrii HTCC2633]
          Length = 75

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 9/80 (11%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M  + +I N        RIR  R   G M+Q +L   +G+T Q V   E+G         
Sbjct: 1  MAKSTQIKN--------RIRELRFHAGEMTQAELARRIGVTRQTVLAIEQGKYSPSLEVA 52

Query: 60 QHISEVLESPISFFFDVSPT 79
            I+EV ++P++  F+ +P 
Sbjct: 53 FQIAEVFKTPLTDVFEYAPD 72


>gi|294498728|ref|YP_003562428.1| transcriptional regulator [Bacillus megaterium QM B1551]
 gi|294348665|gb|ADE68994.1| transcriptional regulator [Bacillus megaterium QM B1551]
          Length = 282

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 1/65 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R + G++Q++L   +  T  Q+ K E G     +  L  IS+ L   +++FFD   
Sbjct: 1  MRDLRKMAGLTQQELSRDI-CTQAQISKIENGEEYPSSITLYKISKRLGVDVNYFFDSVE 59

Query: 79 TVCSD 83
          +   D
Sbjct: 60 SPRLD 64


>gi|229197740|ref|ZP_04324459.1| Helix-turn-helix domain protein [Bacillus cereus m1293]
 gi|228585685|gb|EEK43784.1| Helix-turn-helix domain protein [Bacillus cereus m1293]
          Length = 262

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ETAEQSNE 71


>gi|268592470|ref|ZP_06126691.1| putative transcriptional regulator [Providencia rettgeri DSM
          1131]
 gi|291311872|gb|EFE52325.1| putative transcriptional regulator [Providencia rettgeri DSM
          1131]
          Length = 354

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+R++  R   G+S ++L    G++   ++KYE   +   +  L  +S  L     +FF
Sbjct: 3  GERLKRARSAAGLSMKELSLRAGVSANMIKKYEHDESMPSSGVLIKMSRALGVRNEYFF 61


>gi|149187669|ref|ZP_01865966.1| probable transcriptional regulator [Vibrio shilonii AK1]
 gi|148838549|gb|EDL55489.1| probable transcriptional regulator [Vibrio shilonii AK1]
          Length = 180

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/102 (21%), Positives = 43/102 (42%), Gaps = 10/102 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VGK+++  R + GMSQ +L +  G+T   + + E+ +       L+ I + +   +  
Sbjct: 1   MDVGKQLKTIRTMRGMSQRELAKRSGVTNSMISQIEQNLVNPSVGSLKKILDAIPISMGE 60

Query: 73  FFDVSPTVCSDISSEENNVMDF----------ISTPDGLQLN 104
           FF +      DI      + D            +  +G QL 
Sbjct: 61  FFTLDVEPKDDIFFSAEQMADLGDGQIKMLLVGAKREGRQLA 102


>gi|331648293|ref|ZP_08349382.1| transciptional regulator [Escherichia coli M605]
 gi|331042842|gb|EGI14983.1| transciptional regulator [Escherichia coli M605]
          Length = 230

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 32/77 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR  R  + ++Q+ L + +G+T   + ++E G        L +++E L     +     
Sbjct: 5  RIREARRNVHLTQDALAKRIGLTKATISQWESGNTTPNGKNLINLAEALNVSPEWLLSGK 64

Query: 78 PTVCSDISSEENNVMDF 94
           +   +I S       F
Sbjct: 65 TSDTKEIHSNAQVEGGF 81


>gi|260853764|ref|YP_003227655.1| putative phage repressor protein CI [Escherichia coli O26:H11
          str. 11368]
 gi|293403667|ref|ZP_06647758.1| conserved hypothetical protein [Escherichia coli FVEC1412]
 gi|298379279|ref|ZP_06989160.1| conserved hypothetical protein [Escherichia coli FVEC1302]
 gi|300903179|ref|ZP_07121111.1| peptidase S24-like domain protein [Escherichia coli MS 84-1]
 gi|300929088|ref|ZP_07144582.1| peptidase S24-like domain protein [Escherichia coli MS 187-1]
 gi|301019699|ref|ZP_07183852.1| peptidase S24-like domain protein [Escherichia coli MS 196-1]
 gi|301301704|ref|ZP_07207839.1| peptidase S24-like domain protein [Escherichia coli MS 124-1]
 gi|257752413|dbj|BAI23915.1| putative phage repressor protein CI [Escherichia coli O26:H11
          str. 11368]
 gi|291429520|gb|EFF02540.1| conserved hypothetical protein [Escherichia coli FVEC1412]
 gi|298280392|gb|EFI21896.1| conserved hypothetical protein [Escherichia coli FVEC1302]
 gi|299882087|gb|EFI90298.1| peptidase S24-like domain protein [Escherichia coli MS 196-1]
 gi|300404794|gb|EFJ88332.1| peptidase S24-like domain protein [Escherichia coli MS 84-1]
 gi|300462961|gb|EFK26454.1| peptidase S24-like domain protein [Escherichia coli MS 187-1]
 gi|300843201|gb|EFK70961.1| peptidase S24-like domain protein [Escherichia coli MS 124-1]
 gi|315252878|gb|EFU32846.1| peptidase S24-like domain protein [Escherichia coli MS 85-1]
 gi|323965045|gb|EGB60506.1| peptidase S24 [Escherichia coli M863]
          Length = 229

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R+  G++Q+ LG+ +G++   +QK E G      +++  I+  L     + 
Sbjct: 5  LSERLKEARLARGLTQKALGDLVGVSQAAIQKIETGKAN-QTTKIVEIANALGVRAEWL 62


>gi|67078283|ref|YP_245903.1| transcriptional regulator [Bacillus cereus E33L]
 gi|66970589|gb|AAY60565.1| transcriptional regulator [Bacillus cereus E33L]
          Length = 66

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 28/57 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R+ L MSQE L   +G+  + +   E G           I++VL++PI   F
Sbjct: 6  RMKEYRVRLNMSQEDLANKVGVRRETIGNLENGKYNPSFKLTYDIAKVLKAPIEVLF 62


>gi|315304464|ref|ZP_07874746.1| DNA-binding protein [Listeria ivanovii FSL F6-596]
 gi|313627167|gb|EFR96018.1| DNA-binding protein [Listeria ivanovii FSL F6-596]
          Length = 118

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/107 (18%), Positives = 40/107 (37%), Gaps = 18/107 (16%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+++   R    ++Q++L   +G T   + KYE   +R     L  ++E+L +   F  D
Sbjct: 7   GEKLIHLRKKNRLTQKQLAAKIGTTASTISKYENDNHRPPIFILAKLAEILGTTTDFLLD 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
               +    S                     F  I + ++ +  +EL
Sbjct: 67  DVAGLREKNS------------------VNAFPLIGNPELEKWYLEL 95


>gi|261344510|ref|ZP_05972154.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282567420|gb|EFB72955.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 79

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 7/64 (10%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+   VG RI   R I G S   +   +GI+ QQ  +YE+G+NR+   RL          
Sbjct: 6  PISKLVGDRILYYRKIQGASLLDVSIVIGISEQQQSRYERGINRISLDRLAQY------- 58

Query: 70 ISFF 73
          +S+F
Sbjct: 59 VSYF 62


>gi|300770604|ref|ZP_07080483.1| DNA-binding protein [Sphingobacterium spiritivorum ATCC 33861]
 gi|300763080|gb|EFK59897.1| DNA-binding protein [Sphingobacterium spiritivorum ATCC 33861]
          Length = 96

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 39/77 (50%), Gaps = 3/77 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ IR++R  L +SQE +   L ++     K E+G  +V   ++  I+ +    +  
Sbjct: 1  MEIGEYIRIKRENLKVSQEAVAFKLDMSQAAYSKIERGETKVKVDQVYKIAHLFGISV-- 58

Query: 73 FFDVSPTVCSDISSEEN 89
           +++ P   +   ++EN
Sbjct: 59 -YELLPPSLASDVTKEN 74


>gi|239909020|ref|YP_002955762.1| two-component hybrid sensor and regulator [Desulfovibrio magneticus
           RS-1]
 gi|239798887|dbj|BAH77876.1| two-component hybrid sensor and regulator [Desulfovibrio magneticus
           RS-1]
          Length = 1199

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 1/88 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R+R  R + G++Q +L E  G++ +   K E+G      + +   S  L    +  F 
Sbjct: 11  GRRLRHVRRLCGLTQARLAERSGVSLEHCNKIERGAAAPSLAVIHAFSRALGVEPATLF- 69

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQL 103
           +     +D + E       +    GL L
Sbjct: 70  LPERDAADEAGEAGIDWAAVHGRQGLFL 97


>gi|145294487|ref|YP_001137308.1| hypothetical protein cgR_0442 [Corynebacterium glutamicum R]
 gi|140844407|dbj|BAF53406.1| hypothetical protein [Corynebacterium glutamicum R]
          Length = 474

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 31/135 (22%), Positives = 51/135 (37%), Gaps = 24/135 (17%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R    +SQ  L   LG++   V + E  V  +    L  I+E      +FF
Sbjct: 5   YVGSRLRQLRRERDLSQASLAATLGLSASYVNQIEHDVRPLTVPVLLRITEAFGVDATFF 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV-RQKIIE-------LVRS 125
                    D S     V D +   +          I+   V  Q++ E       L R+
Sbjct: 65  ------SRDDDSRLLAEVQDVMLDRE----------INPANVELQELSEMVYNHPQLARA 108

Query: 126 IVSSEKKYRTIEEEC 140
           +V   ++YR + ++ 
Sbjct: 109 MVEMHQRYRNVRDKL 123


>gi|118472418|ref|YP_885545.1| DNA-binding protein [Mycobacterium smegmatis str. MC2 155]
 gi|118173705|gb|ABK74601.1| DNA-binding protein [Mycobacterium smegmatis str. MC2 155]
          Length = 201

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 22/97 (22%), Positives = 41/97 (42%), Gaps = 7/97 (7%)

Query: 4  NKKIPNP----VDI---NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA 56
           K  PN     VD    ++G RIR+ R    ++ E+L E  G++   + + E+G      
Sbjct: 2  GKAKPNDNKALVDAMLGDLGSRIRMLRKERQLTTERLAETAGVSAGLISQIERGNGNPSF 61

Query: 57 SRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMD 93
          + L  ++  L+ PI    +   +    +   E   +D
Sbjct: 62 ATLVQLAHGLQMPIGQLLEAPESKSVVVRKNERRRLD 98


>gi|254555732|ref|YP_003062149.1| transcriptional regulator, xre family [Lactobacillus plantarum
          JDM1]
 gi|254044659|gb|ACT61452.1| transcriptional regulator, xre family [Lactobacillus plantarum
          JDM1]
          Length = 221

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 33/59 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+ ++L+R  LG++Q+ L + L +T Q V ++E G        L  +S+ L+  + 
Sbjct: 1  MELGQALKLQREALGLTQQVLADQLHVTRQTVSRWENGSTYPNLDTLVELSDRLQISLD 59


>gi|168210976|ref|ZP_02636601.1| LexA repressor [Clostridium perfringens B str. ATCC 3626]
 gi|170710994|gb|EDT23176.1| LexA repressor [Clostridium perfringens B str. ATCC 3626]
          Length = 354

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/126 (16%), Positives = 53/126 (42%), Gaps = 15/126 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
             ++  R    ++Q+ L + L ++   +  YEKG        L +++  +   I   F  
Sbjct: 8   NNLKKYRKDNKLTQDDLAKRLNVSRSAISYYEKGTVEPSIFFLINLANEMNCSIDNLFGF 67

Query: 75  --DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRSIVSSEK 131
             +V+  +  +++ E+   ++     + L+       IDD K     ++ L +++   ++
Sbjct: 68  NREVTIDLPQNLTKEDLKPLEKEFKKENLE-------IDDPKY---YLDKLKKTLTKVQR 117

Query: 132 KYRTIE 137
            Y  +E
Sbjct: 118 SYIELE 123


>gi|83593946|ref|YP_427698.1| transcriptional regulator [Rhodospirillum rubrum ATCC 11170]
 gi|83576860|gb|ABC23411.1| Transcriptional Regulator, XRE family with Cupin sensor domain
           [Rhodospirillum rubrum ATCC 11170]
          Length = 248

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 30/59 (50%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG+ +R  R   G+S ++L +  G++   + + E G +    + L  I+  L+ P S F
Sbjct: 68  VGENLRRLRTGRGLSLDRLAKLSGVSRAMLGQIELGRSAPTITVLWKIARALDVPFSAF 126


>gi|331085520|ref|ZP_08334605.1| hypothetical protein HMPREF0987_00908 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|330407758|gb|EGG87256.1| hypothetical protein HMPREF0987_00908 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 134

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 2/84 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I   R   GM+Q +L E +G+T + V K+E+ ++    S +  ++E+L   +    
Sbjct: 6  LGVMIASIRKERGMTQLELAEKMGVTDKAVSKWERDLSCPDVSSIPQLAEILGVSVDELM 65

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
           V        +S ++N+   I T 
Sbjct: 66 QVKDITKE--TSSQDNIKGIIDTA 87


>gi|319647196|ref|ZP_08001418.1| immunity repressor protein [Bacillus sp. BT1B_CT2]
 gi|317390543|gb|EFV71348.1| immunity repressor protein [Bacillus sp. BT1B_CT2]
          Length = 147

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 34/75 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++VG+R++  R   G +Q +L E   ++   V   E+         L  I++ L  P+S 
Sbjct: 1  MSVGQRLKYWRKQKGYTQAQLAEKANMSRSYVADVERDRYNPSVETLSSIAKALNIPVSN 60

Query: 73 FFDVSPTVCSDISSE 87
            + +  + S+   E
Sbjct: 61 LLEDNQRLVSESPEE 75


>gi|312864338|ref|ZP_07724571.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
 gi|311100059|gb|EFQ58270.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
          Length = 291

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/78 (29%), Positives = 37/78 (47%), Gaps = 3/78 (3%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R  LG SQEKL E L ++ Q + K+E G      S LQ I+++ +  +    D+  
Sbjct: 7  LRHYRKELGFSQEKLAEKLHVSRQAITKWETGGGLPDISNLQAIAQLFQISLD---DLLA 63

Query: 79 TVCSDISSEENNVMDFIS 96
             S I  ++     + S
Sbjct: 64 ESASPIEPKDFLYQSYTS 81


>gi|310778021|ref|YP_003966354.1| transcriptional regulator, MerR family [Ilyobacter polytropus DSM
          2926]
 gi|309747344|gb|ADO82006.1| transcriptional regulator, MerR family [Ilyobacter polytropus DSM
          2926]
          Length = 182

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+RI+  R   G+S   L   + ++   + + E+G        L+ I+  L+  +S+
Sbjct: 1  MSLGERIKKNRNEKGLSLRDLAGRVDLSASFLSQIEQGKASPSIENLKKIANCLDVRVSY 60

Query: 73 FFDVSPTVCS 82
            +      +
Sbjct: 61 LIEDDEVKKN 70


>gi|294617175|ref|ZP_06696830.1| transcriptional regulator, xre family, putative [Enterococcus
          faecium E1679]
 gi|291596575|gb|EFF27813.1| transcriptional regulator, xre family, putative [Enterococcus
          faecium E1679]
          Length = 221

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  +   L  PI F
Sbjct: 1  MNIGEKIRTYRRNCKLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHHTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|293567401|ref|ZP_06678750.1| transcriptional regulator, xre family, putative [Enterococcus
          faecium E1071]
 gi|291589918|gb|EFF21717.1| transcriptional regulator, xre family, putative [Enterococcus
          faecium E1071]
          Length = 221

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R    ++Q++LGE +G++ + +  +E          L  +   L  PI F
Sbjct: 1  MNIGEKIRTYRRNCKLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHHTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|229095638|ref|ZP_04226619.1| hypothetical protein bcere0020_8910 [Bacillus cereus Rock3-29]
 gi|228687770|gb|EEL41667.1| hypothetical protein bcere0020_8910 [Bacillus cereus Rock3-29]
          Length = 149

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E L ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKLHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|227532834|ref|ZP_03962883.1| XRE family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
 gi|227189538|gb|EEI69605.1| XRE family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
          Length = 185

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 31/62 (50%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+++G R++  R   GM+Q +L + L ++ + V  +E G N+     +  ++   +  + 
Sbjct: 3  DLSLGSRLKQLRKARGMTQSQLADDLFVSRKTVSSWETGRNQPDLQTICRLASYYQLTVD 62

Query: 72 FF 73
            
Sbjct: 63 DL 64


>gi|126700545|ref|YP_001089442.1| putative phage DNA-binding protein [Clostridium difficile 630]
          Length = 387

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 1/63 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPISFFF 74
          G+R++  R+  GM+  +L E +    Q V  YE   ++   + +   I+ VL  P+ FF 
Sbjct: 12 GERLKKARIYRGMTVAELAERIDCQRQTVSMYENNKSKPNDNNVVKRIARVLGFPVKFFL 71

Query: 75 DVS 77
          +  
Sbjct: 72 ETG 74


>gi|42782702|ref|NP_979949.1| helix-turn-helix domain-containing protein [Bacillus cereus ATCC
          10987]
 gi|42738628|gb|AAS42557.1| helix-turn-helix domain protein [Bacillus cereus ATCC 10987]
          Length = 262

 Score = 59.4 bits (143), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ETAEQSNE 71


>gi|251778650|ref|ZP_04821570.1| HTH-type transcriptional regulator [Clostridium botulinum E1 str.
          'BoNT E Beluga']
 gi|243082965|gb|EES48855.1| HTH-type transcriptional regulator [Clostridium botulinum E1 str.
          'BoNT E Beluga']
          Length = 96

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 30/68 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R   G++Q++L E + ++   V  YE        S L  IS+     + +  
Sbjct: 2  LGDRIKSLRKEQGITQDQLAEYINVSRSSVNGYENDGVEPSLSVLVKISDRFNVSLDYLL 61

Query: 75 DVSPTVCS 82
          + +    +
Sbjct: 62 ERTEEKHN 69


>gi|229544959|ref|ZP_04433684.1| transcriptional regulator [Enterococcus faecalis TX1322]
 gi|307287527|ref|ZP_07567570.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|229309851|gb|EEN75838.1| transcriptional regulator [Enterococcus faecalis TX1322]
 gi|306501265|gb|EFM70568.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|315164925|gb|EFU08942.1| helix-turn-helix protein [Enterococcus faecalis TX1302]
          Length = 180

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 42/91 (46%), Gaps = 1/91 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+++R  R+   ++QE+LGE   ++   + + E+ ++         I EVL      
Sbjct: 1   MEIGEKLRNLRIQKNLTQEELGERTDLSKGYISQLERDLSSPSMETFFSILEVLGVTPEQ 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           FF   P     + +EE + + +     G +L
Sbjct: 61  FFSQQPLEQKIVYNEEESTL-YYDEEHGYEL 90


>gi|212634305|ref|YP_002310830.1| helix-turn-helix domain-containing protein [Shewanella
          piezotolerans WP3]
 gi|212555789|gb|ACJ28243.1| Helix-turn-helix motif protein [Shewanella piezotolerans WP3]
          Length = 328

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 30/69 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I   R   G SQE L E + ++ Q V K+E   +    +R+  ++E+ E    F     
Sbjct: 6  KIIRLRKQCGWSQEDLAEKMNVSRQSVSKWESANSIPDLNRIITLAEIFEVSTDFLLKDE 65

Query: 78 PTVCSDISS 86
            V   + S
Sbjct: 66 TEVSETLES 74


>gi|118477277|ref|YP_894428.1| hypothetical protein BALH_1588 [Bacillus thuringiensis str. Al
           Hakam]
 gi|196045052|ref|ZP_03112285.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|228933140|ref|ZP_04095997.1| hypothetical protein bthur0009_16070 [Bacillus thuringiensis
           serovar andalousiensis BGSC 4AW1]
 gi|229184045|ref|ZP_04311258.1| hypothetical protein bcere0004_16130 [Bacillus cereus BGSC 6E1]
 gi|118416502|gb|ABK84921.1| conserved hypothetical protein [Bacillus thuringiensis str. Al
           Hakam]
 gi|196024054|gb|EDX62728.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|228599428|gb|EEK57035.1| hypothetical protein bcere0004_16130 [Bacillus cereus BGSC 6E1]
 gi|228826497|gb|EEM72273.1| hypothetical protein bthur0009_16070 [Bacillus thuringiensis
           serovar andalousiensis BGSC 4AW1]
          Length = 149

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/118 (20%), Positives = 51/118 (43%), Gaps = 10/118 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G++++  R   G SQE + + +G+T Q V K+E   +      L  +SE+    +  
Sbjct: 1   MSLGEQLKKLRESKGFSQEDVAKKIGVTRQAVYKWENDKSCPDIDNLILLSEMYNVTLDE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPD-------GLQLNRYFIQIDDVKVRQKIIELV 123
               +  +   I   E +  DF    +       GL +   F  ID   +++ ++ + 
Sbjct: 61  LIKGNQNIKEKIHINEED-EDFEKENEFGFYIGFGLLIMSAF--IDYEGIQKMLLGIA 115


>gi|91794616|ref|YP_564267.1| transciptional regulator [Shewanella denitrificans OS217]
 gi|91716618|gb|ABE56544.1| transciptional regulator [Shewanella denitrificans OS217]
          Length = 229

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 34/71 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+ RR  LG++Q  + + +G+T   +  +E G        L  +++ L     F    
Sbjct: 4  ERIKQRRKELGLTQPSIAKTIGLTKATISLWESGSTSPKGENLHALAKALRCAPEFLLFG 63

Query: 77 SPTVCSDISSE 87
          + ++  + ++E
Sbjct: 64 NDSIKPEPNAE 74


>gi|329577403|gb|EGG58858.1| DNA-binding helix-turn-helix protein [Enterococcus faecalis TX1467]
          Length = 180

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 41/91 (45%), Gaps = 1/91 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+++R  R+   ++QE+LGE   ++   + + E+ ++         I EVL      
Sbjct: 1   MEIGEKLRNLRIQKNLTQEELGERTDLSKGYISQLERDLSSPSMETFFSILEVLGVTPEQ 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           FF   P       +EE + + +     G +L
Sbjct: 61  FFSQQPLEQKIAYNEEESTL-YYDEEHGYEL 90


>gi|328475511|gb|EGF46270.1| transcription regulator [Listeria monocytogenes 220]
          Length = 180

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/67 (31%), Positives = 34/67 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPT 79
          FFD    
Sbjct: 61 FFDEEEH 67


>gi|295097139|emb|CBK86229.1| Predicted transcriptional regulator [Enterobacter cloacae subsp.
          cloacae NCTC 9394]
          Length = 230

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R   G++Q+ LG+ +G++   +QK E G      ++L  I+  L     +     
Sbjct: 8  RLKEARAARGLTQKALGDLVGVSQAAIQKIETGKAS-QTTKLVEIANALGVMPDWLSSGE 66

Query: 78 PTVCSD 83
            + +D
Sbjct: 67 GAMLND 72


>gi|291547752|emb|CBL20860.1| Predicted transcriptional regulators [Ruminococcus sp. SR1/5]
          Length = 160

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 36/77 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+I++ R    +SQE+L   + ++ Q +  +E   +    + L  +SE+ +  +  
Sbjct: 1  MELGKQIKMHRQEAHLSQEELANRVYVSRQTISNWENDKSYPDVNSLVLLSEIFQISLDN 60

Query: 73 FFDVSPTVCSDISSEEN 89
                 V  D+  +E 
Sbjct: 61 LIKGDIEVMKDVIQKEE 77


>gi|237746118|ref|ZP_04576598.1| predicted protein [Oxalobacter formigenes HOxBLS]
 gi|229377469|gb|EEO27560.1| predicted protein [Oxalobacter formigenes HOxBLS]
          Length = 130

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 37/84 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KRI   R  L +SQ +L   +G+T Q VQK+EK       + L+ +++ L    ++  
Sbjct: 4  IAKRIEDCRHGLNISQSELARKIGVTPQAVQKWEKAKTVPRGATLRKLADALGVSPAYIQ 63

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
                  D  + E    ++I   
Sbjct: 64 FGISDPVPDYPAVEQEKAEYIVNK 87


>gi|54027227|ref|YP_121469.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
 gi|54018735|dbj|BAD60105.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
          Length = 468

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/124 (22%), Positives = 45/124 (36%), Gaps = 15/124 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G+SQ  L + L I+   + + E  V  +    L  ISEV     +FF
Sbjct: 5   YVGARLRQLRTERGLSQVALAQQLEISASYLNQIEHDVRPLTVPVLLKISEVFGVDATFF 64

Query: 74  FDVSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
                T       E   +  +     T +  ++                  L R++V+  
Sbjct: 65  SSQDDTRLIAELQEVVMDQELGIEADTQEIAEMVSAHPS------------LARAMVAMH 112

Query: 131 KKYR 134
            +YR
Sbjct: 113 NRYR 116


>gi|150390375|ref|YP_001320424.1| helix-turn-helix domain-containing protein [Alkaliphilus
          metalliredigens QYMF]
 gi|149950237|gb|ABR48765.1| helix-turn-helix domain protein [Alkaliphilus metalliredigens
          QYMF]
          Length = 120

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/67 (32%), Positives = 30/67 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR  R  LGM+QE+LG  +  T   V KYE G        L  +S++ +  I +    S
Sbjct: 2  RIRELRQELGMTQEELGRKINQTKSNVSKYETGTLEPNIQTLNLLSDIFDVSIDYLVGKS 61

Query: 78 PTVCSDI 84
               D 
Sbjct: 62 NIKKQDA 68


>gi|268589793|ref|ZP_06124014.1| putative transcriptional regulator [Providencia rettgeri DSM
          1131]
 gi|291314781|gb|EFE55234.1| putative transcriptional regulator [Providencia rettgeri DSM
          1131]
          Length = 107

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 40/71 (56%), Gaps = 3/71 (4%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N V    G+ ++ +R+++G+S E L + + ++ QQ+ +YE+G+  +  + L     VL  
Sbjct: 13 NWVSTVTGQFLKEQRLMMGLSGEALAKKMQLSQQQISRYERGMTHINLTTLLRYFSVLNM 72

Query: 69 P---ISFFFDV 76
              I +FF++
Sbjct: 73 DVREIQYFFEL 83


>gi|218902221|ref|YP_002450055.1| hypothetical protein BCAH820_1103 [Bacillus cereus AH820]
 gi|218539083|gb|ACK91481.1| hypothetical protein BCAH820_1103 [Bacillus cereus AH820]
          Length = 149

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQSDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|15643421|ref|NP_228465.1| hypothetical protein TM0656 [Thermotoga maritima MSB8]
 gi|4981179|gb|AAD35740.1|AE001739_3 conserved hypothetical protein [Thermotoga maritima MSB8]
          Length = 176

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 34/80 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+++R  R+  G++QE+L E   ++   + + E          L+ I E L + +  
Sbjct: 1  MRIGEKLRKLRLSRGLTQEELAERTDLSRSFISQLESDKTSPSIDTLERILEALGTDLKH 60

Query: 73 FFDVSPTVCSDISSEENNVM 92
          FF            EE   +
Sbjct: 61 FFSDVEEERIVFKKEERVPV 80


>gi|320321358|gb|EFW77485.1| pbsX-like transcriptional regulator [Pseudomonas syringae pv.
           glycinea str. B076]
          Length = 130

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/111 (19%), Positives = 49/111 (44%), Gaps = 11/111 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R    ++QE L E +      + +YE+G       ++  +++VL    +   
Sbjct: 28  IGTRIKALRKHRSLTQEALAEAMACETATIGRYERGEFSPSVEQIAKMADVLGVSPA--- 84

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           ++ P+       E  ++ + + T   + L      ID+ +  + I++L  S
Sbjct: 85  EIIPSSYEISRQELVDLREKLFT---VAL-----CIDNPEKLRVILDLAES 127


>gi|146299044|ref|YP_001193635.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
           UW101]
 gi|146153462|gb|ABQ04316.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
           UW101]
          Length = 127

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 31/142 (21%), Positives = 55/142 (38%), Gaps = 34/142 (23%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G++I   R +  M QE L + LG++ Q V   E     +   +L+ +++VL   +   
Sbjct: 9   HIGRKISRIRELKDMKQEALAQALGMSQQSVSTMENSET-IDEEKLKEVAKVLGMTV--- 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV-----------RQKIIEL 122
                    + S E               +  YF  I D  V             K+IEL
Sbjct: 65  -----EAIKNFSEEA--------------VINYFNNIYDQGVFNTGNYCNFNPLDKVIEL 105

Query: 123 VRSIVSSEKKYRTIEEECMVEQ 144
              +V +EK+     E+ + E+
Sbjct: 106 YERLVQAEKEKNEYLEKLLKEK 127


>gi|228932646|ref|ZP_04095521.1| hypothetical protein bthur0009_11230 [Bacillus thuringiensis
           serovar andalousiensis BGSC 4AW1]
 gi|228827018|gb|EEM72777.1| hypothetical protein bthur0009_11230 [Bacillus thuringiensis
           serovar andalousiensis BGSC 4AW1]
          Length = 156

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/112 (15%), Positives = 53/112 (47%), Gaps = 9/112 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +I+  R+  G +Q+ L E LG++ Q +  +E+         L  +++V    I +   +
Sbjct: 7   NKIKELRIAKGWTQKSLAEKLGVSSQVISNWERAYTSPNQEDLIKLAKVFNVTIDYI--L 64

Query: 77  SPTVCSDISSEENNVMDFIST-------PDGLQLNRYFIQIDDVKVRQKIIE 121
           S     +++ +   + +++S+        + ++  +   + +D+ + ++I++
Sbjct: 65  SSDKIINLNYDIEKITEYVSSSMLKQDEKELIEKVKKHTKTNDITLFEQILD 116


>gi|217975318|ref|YP_002360069.1| XRE family transcriptional regulator [Shewanella baltica OS223]
 gi|217500453|gb|ACK48646.1| transcriptional regulator, XRE family [Shewanella baltica OS223]
          Length = 104

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 4/64 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQK----YEKGVNRVGASRLQHISEVLESPI 70
          V KR++  R   G++Q  LG  +GI           YE G +    + LQ I++ L  P+
Sbjct: 7  VPKRLKEARTKAGITQADLGAKIGIHQNSASSRMNHYELGRHTPDINTLQRIADELGVPL 66

Query: 71 SFFF 74
          ++FF
Sbjct: 67 NYFF 70


>gi|25011198|ref|NP_735593.1| hypothetical protein gbs1147 [Streptococcus agalactiae NEM316]
 gi|23095622|emb|CAD46806.1| unknown [Streptococcus agalactiae NEM316]
          Length = 65

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 29/59 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           R++  R   G+SQ+ L + +G+  + +  +E G +R+     + +S+  +  I    +
Sbjct: 7  NRVKELRKQAGLSQQALADQIGVMRKTISHWELGNHRISTDNAKKLSQFFQVSIDDLLE 65


>gi|331091456|ref|ZP_08340294.1| hypothetical protein HMPREF9477_00937 [Lachnospiraceae bacterium
           2_1_46FAA]
 gi|330404012|gb|EGG83562.1| hypothetical protein HMPREF9477_00937 [Lachnospiraceae bacterium
           2_1_46FAA]
          Length = 117

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 45/94 (47%), Gaps = 2/94 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD- 75
           R++ RR  L MS + L + +GI+   +Q+YE G +  +   +L+ I++ L+   ++    
Sbjct: 16  RMKNRREELDMSYQTLSDKVGISKSTLQRYETGYIKNMPVDKLEDIADALQVSPAYLMGW 75

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
            + +  ++ ++   +      T + L   + F  
Sbjct: 76  ETNSTTNEPTTIAAHFDGTEYTEEQLDRIKAFAA 109


>gi|228904657|ref|ZP_04068720.1| Transcriptional regulator, XRE [Bacillus thuringiensis IBL 4222]
 gi|228854977|gb|EEM99572.1| Transcriptional regulator, XRE [Bacillus thuringiensis IBL 4222]
          Length = 105

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 32/78 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RI+  R  L M Q +L + +G+ +  +  YE          +++I+ V      +   
Sbjct: 2  GSRIKEVRKSLKMKQNELADAVGVNYTMISLYESNKREPSRETVENIARVTNVSADYIMG 61

Query: 76 VSPTVCSDISSEENNVMD 93
          +S     D  + +  + D
Sbjct: 62 LSKHKTFDKETSKKIIDD 79


>gi|323341429|ref|ZP_08081671.1| XRE family transcriptional regulator [Lactobacillus ruminis ATCC
          25644]
 gi|323091136|gb|EFZ33766.1| XRE family transcriptional regulator [Lactobacillus ruminis ATCC
          25644]
          Length = 113

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 1/60 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPI 70
          +I++G +IR  R + GM+QE+L E   ++   + K E+     V   +L  I   L+  +
Sbjct: 4  NIHLGSKIRKYRHLAGMTQEELAEYSNLSVNYISKIEREKKQNVSIEKLVDICNALDISV 63


>gi|196249528|ref|ZP_03148225.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
 gi|196210822|gb|EDY05584.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
          Length = 71

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 30/66 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR  R   G+ Q+ + +  GI+ QQ+  YE G       +   I+ VL+  +   +   
Sbjct: 6  RIREIRENKGLKQKFVAQKTGISQQQLSDYETGKAYPRIDKAYKIAAVLDCKVDDLYIKK 65

Query: 78 PTVCSD 83
           T  ++
Sbjct: 66 ETTPNE 71


>gi|183597719|ref|ZP_02959212.1| hypothetical protein PROSTU_01017 [Providencia stuartii ATCC
          25827]
 gi|188022996|gb|EDU61036.1| hypothetical protein PROSTU_01017 [Providencia stuartii ATCC
          25827]
          Length = 93

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 35/65 (53%), Gaps = 3/65 (4%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL---ESPI 70
          N+G+ ++  R   G++  +L + + ++ QQ+ +YE G+N +   +L  +   L    + +
Sbjct: 12 NIGRMLKSYRRRTGLTGSELAKKINVSQQQISRYENGINNITFDKLIILFNALEMDGADV 71

Query: 71 SFFFD 75
            FF+
Sbjct: 72 EMFFE 76


>gi|167758401|ref|ZP_02430528.1| hypothetical protein CLOSCI_00741 [Clostridium scindens ATCC
          35704]
 gi|167664298|gb|EDS08428.1| hypothetical protein CLOSCI_00741 [Clostridium scindens ATCC
          35704]
          Length = 179

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 33/68 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G ++R  R+   ++QE+L +   ++   + + E+ +     + L  I + L + I+ 
Sbjct: 1  MEIGPKLRELRIAKNLTQEELADRAELSKGFISQLERDLTSPSIATLVDILQCLGTTINE 60

Query: 73 FFDVSPTV 80
          FF   P  
Sbjct: 61 FFSEDPEE 68


>gi|118588013|ref|ZP_01545423.1| transcriptional regulator, XRE family with cupin sensor domain
          [Stappia aggregata IAM 12614]
 gi|118439635|gb|EAV46266.1| transcriptional regulator, XRE family with cupin sensor domain
          [Stappia aggregata IAM 12614]
          Length = 224

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 38/89 (42%), Gaps = 2/89 (2%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +  + VD  VG  IR RR  LG++ ++LG+   ++   + + E+         L  I+  
Sbjct: 7  RAASDVDTKVGALIRARRRQLGLTLQQLGDASNLSVGYLSQVERDHATPTLGSLAGIARA 66

Query: 66 LESPISFFFDVSPTVCSDISSEENNVMDF 94
          L   + +F  V+     D  +      +F
Sbjct: 67 LGVGLDYF--VAQPRAQDALTRAATRPNF 93


>gi|268593582|ref|ZP_06127803.1| transcriptional activator, Rgg/GadR/MutR family [Providencia
          rettgeri DSM 1131]
 gi|291310812|gb|EFE51265.1| transcriptional activator, Rgg/GadR/MutR family [Providencia
          rettgeri DSM 1131]
          Length = 123

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I   R    M+  +L + L ++ QQ+ +YE+GV  +    L  I + L   ++ FF
Sbjct: 17 IGLEIYRLRKECAMTGVQLAKILQVSQQQISRYERGVCHITVDALVLILDALHISMAEFF 76


>gi|261253382|ref|ZP_05945955.1| probable transcriptional regulator [Vibrio orientalis CIP 102891]
 gi|260936773|gb|EEX92762.1| probable transcriptional regulator [Vibrio orientalis CIP 102891]
          Length = 180

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/108 (21%), Positives = 46/108 (42%), Gaps = 12/108 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VGK+++  R + G+SQ +L +  G+T   + + E+ +       L+ I + +   +  
Sbjct: 1   MDVGKQLKTIRTMRGLSQRELAKRSGVTNSMISQIEQNLVNPSVGSLKKILDAIPISMGE 60

Query: 73  FFDVSPTVCSDISSEENNVMDF----------ISTPDGLQLN--RYFI 108
           FF +      DI    + + D            +  +G QL   R F 
Sbjct: 61  FFTLEVEAKDDIFFTVDQMADLGDGKIKMLLVGAKREGRQLAILREFY 108


>gi|229165969|ref|ZP_04293734.1| hypothetical protein bcere0007_9450 [Bacillus cereus AH621]
 gi|228617522|gb|EEK74582.1| hypothetical protein bcere0007_9450 [Bacillus cereus AH621]
          Length = 149

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|227545281|ref|ZP_03975330.1| possible transcriptional regulator [Lactobacillus reuteri
          CF48-3A]
 gi|300908647|ref|ZP_07126110.1| XRE family transcriptional regulator [Lactobacillus reuteri
          SD2112]
 gi|227184750|gb|EEI64821.1| possible transcriptional regulator [Lactobacillus reuteri
          CF48-3A]
 gi|300894054|gb|EFK87412.1| XRE family transcriptional regulator [Lactobacillus reuteri
          SD2112]
          Length = 161

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          K+++  R   G+SQE + + + +T Q V ++E G +         ++   +  + + 
Sbjct: 21 KQLKKLRTDKGLSQEDIAQKIHVTRQAVSRWEAGSSVPDLETAVQLAAFFDVSLDWL 77


>gi|197284378|ref|YP_002150250.1| phage reprossor [Proteus mirabilis HI4320]
 gi|194681865|emb|CAR41178.1| phage reprossor [Proteus mirabilis HI4320]
          Length = 233

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 33/57 (57%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RI+  R+   M+Q +L E +G++ Q VQ++E        +R+  I+E+LE   ++ 
Sbjct: 6  ERIKQARLAKNMTQAELAELVGVSPQSVQQWETST-EPRKNRVIKIAEILEVDTNWL 61


>gi|167749015|ref|ZP_02421142.1| hypothetical protein ANACAC_03796 [Anaerostipes caccae DSM 14662]
 gi|317472587|ref|ZP_07931905.1| hypothetical protein HMPREF1011_02255 [Anaerostipes sp.
          3_2_56FAA]
 gi|167651637|gb|EDR95766.1| hypothetical protein ANACAC_03796 [Anaerostipes caccae DSM 14662]
 gi|316899921|gb|EFV21917.1| hypothetical protein HMPREF1011_02255 [Anaerostipes sp.
          3_2_56FAA]
          Length = 114

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G++I+  R    M+QE L E + ++   +   E    +V    L  IS  L   + + 
Sbjct: 8  LGRKIKEVRRKQNMTQEYLAEKVDLSVSHISNIETAKTKVSLPTLVEISNALGVSVDYL 66


>gi|126699831|ref|YP_001088728.1| putative regulatory protein [Clostridium difficile 630]
 gi|254975814|ref|ZP_05272286.1| putative regulatory protein [Clostridium difficile QCD-66c26]
 gi|255093200|ref|ZP_05322678.1| putative regulatory protein [Clostridium difficile CIP 107932]
 gi|255101354|ref|ZP_05330331.1| putative regulatory protein [Clostridium difficile QCD-63q42]
 gi|255307230|ref|ZP_05351401.1| putative regulatory protein [Clostridium difficile ATCC 43255]
 gi|255314943|ref|ZP_05356526.1| putative regulatory protein [Clostridium difficile QCD-76w55]
 gi|255517617|ref|ZP_05385293.1| putative regulatory protein [Clostridium difficile QCD-97b34]
 gi|255650728|ref|ZP_05397630.1| putative regulatory protein [Clostridium difficile QCD-37x79]
 gi|255656203|ref|ZP_05401612.1| putative regulatory protein [Clostridium difficile QCD-23m63]
 gi|260683814|ref|YP_003215099.1| putative regulatory protein [Clostridium difficile CD196]
 gi|260687474|ref|YP_003218608.1| putative regulatory protein [Clostridium difficile R20291]
 gi|296450363|ref|ZP_06892120.1| probable regulatory protein [Clostridium difficile NAP08]
 gi|296878775|ref|ZP_06902776.1| probable regulatory protein [Clostridium difficile NAP07]
 gi|306520643|ref|ZP_07406990.1| putative regulatory protein [Clostridium difficile QCD-32g58]
 gi|115251268|emb|CAJ69099.1| Transcriptional regulator, HTH-type [Clostridium difficile]
 gi|260209977|emb|CBA63985.1| putative regulatory protein [Clostridium difficile CD196]
 gi|260213491|emb|CBE05194.1| putative regulatory protein [Clostridium difficile R20291]
 gi|296260773|gb|EFH07611.1| probable regulatory protein [Clostridium difficile NAP08]
 gi|296430203|gb|EFH16049.1| probable regulatory protein [Clostridium difficile NAP07]
          Length = 112

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/103 (19%), Positives = 44/103 (42%), Gaps = 3/103 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +   +G RI++ R  LG SQE L E  G+    + + E+       + +  I+  L+ P+
Sbjct: 4   IGKIIGDRIKVYRTKLGYSQEFLAEKAGLHPTYIGQIERAETNTSINIIMKIATALDIPL 63

Query: 71  SFFFD---VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
              F     +  V + +  E   +++ ++  + + +      I
Sbjct: 64  ELLFANIITTEGVDNSVPLECYEMINKLTEKEQIAMLELIKCI 106


>gi|239983013|ref|ZP_04705537.1| UDP-N-acetylglucosamine transferase [Streptomyces albus J1074]
 gi|291454845|ref|ZP_06594235.1| UDP-N-acetylglucosamine transferase [Streptomyces albus J1074]
 gi|291357794|gb|EFE84696.1| UDP-N-acetylglucosamine transferase [Streptomyces albus J1074]
          Length = 509

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 31/64 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L
Sbjct: 1  MADDYLVRIGKLIRDARQHRGWTQAQLAEALGTSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|237744347|ref|ZP_04574828.1| predicted protein [Fusobacterium sp. 7_1]
 gi|229431576|gb|EEO41788.1| predicted protein [Fusobacterium sp. 7_1]
          Length = 189

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/82 (26%), Positives = 44/82 (53%), Gaps = 5/82 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I+  R    ++Q+++ + LG++   +QKYE G        ++ I E     ++ 
Sbjct: 1  MKISEKIKELRKNNNLTQKEMAKKLGVSLSSLQKYEYGDFYPSIEVIRKIVEFFNITLND 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
          F DV     SDIS+EE  V+++
Sbjct: 61 FLDV-----SDISNEEKEVINW 77


>gi|229131934|ref|ZP_04260799.1| hypothetical protein bcere0014_8770 [Bacillus cereus BDRD-ST196]
 gi|228651525|gb|EEL07495.1| hypothetical protein bcere0014_8770 [Bacillus cereus BDRD-ST196]
          Length = 149

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|198283913|ref|YP_002220234.1| XRE family transcriptional regulator [Acidithiobacillus
          ferrooxidans ATCC 53993]
 gi|218666348|ref|YP_002426547.1| DNA-binding protein, putative [Acidithiobacillus ferrooxidans
          ATCC 23270]
 gi|198248434|gb|ACH84027.1| transcriptional regulator, XRE family [Acidithiobacillus
          ferrooxidans ATCC 53993]
 gi|218518561|gb|ACK79147.1| DNA-binding protein, putative [Acidithiobacillus ferrooxidans
          ATCC 23270]
          Length = 181

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 28/68 (41%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           V K+IR  R   G S   L     I+   + + E G N    + L+ I   L+ PI+  
Sbjct: 3  QVCKKIRQLREDRGWSVRGLAARAEISPSALSQIEAGQNSPSIATLEKICAALQIPIAAI 62

Query: 74 FDVSPTVC 81
          FD   T  
Sbjct: 63 FDDGETAG 70


>gi|200387340|ref|ZP_03213952.1| helix-turn-helix domain protein [Salmonella enterica subsp.
           enterica serovar Virchow str. SL491]
 gi|199604438|gb|EDZ02983.1| helix-turn-helix domain protein [Salmonella enterica subsp.
           enterica serovar Virchow str. SL491]
          Length = 265

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 43/90 (47%), Gaps = 4/90 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
             I+  R  L ++Q +L   +G + QQ+Q+ E G      S  Q I   L+ P++  F  
Sbjct: 4   NNIKQLRTQLSITQRELAFMVGTSQQQIQRIETGKVAAKLSLAQAICNALDKPLNVVFPE 63

Query: 77  SPTVCSDISSEE---NNVMDFISTPDGLQL 103
           S  + +D   +    +  ++ I+T  G+++
Sbjct: 64  SDRLINDFRKKRRKTDEDLEAIATS-GIEM 92


>gi|313634226|gb|EFS00863.1| DNA-binding protein [Listeria seeligeri FSL N1-067]
          Length = 104

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 36/75 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|293414681|ref|ZP_06657330.1| transcriptional repressor DicA [Escherichia coli B185]
 gi|291434739|gb|EFF07712.1| transcriptional repressor DicA [Escherichia coli B185]
          Length = 135

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/107 (17%), Positives = 45/107 (42%), Gaps = 2/107 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+  RR  L +SQ  LG+ + +    + ++E+   +    RL  +S+ L+   ++   
Sbjct: 7   GARLLHRRKKLKLSQAALGKLVKVAHVTISQWERDETQPAGKRLFALSQALQCSPTWLLF 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                        N   +   T +  +L + F  + + + + ++ E+
Sbjct: 67  GDEDKQPGEPIPANQPTNL--TEEQKELLQLFDALPESEQKAQLSEM 111


>gi|110678190|ref|YP_681197.1| transcription regulator, putative [Roseobacter denitrificans OCh
          114]
 gi|109454306|gb|ABG30511.1| transcription regulator, putative [Roseobacter denitrificans OCh
          114]
          Length = 192

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 35/85 (41%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D +VG R++  R   GMSQ +L E  G+   Q+   E   +    + L+ I   L   +S
Sbjct: 3  DFDVGARLKAIRQQNGMSQRQLAEASGVPHGQISMIETNKSSPSVASLRKILGGLSLGMS 62

Query: 72 FFFDVSPTVCSDISSEENNVMDFIS 96
           FF+             + + D  S
Sbjct: 63 EFFEPDVVEDDKPFYTPSELRDLTS 87


>gi|257465738|ref|ZP_05630109.1| Repressor of flagellae, putative [Actinobacillus minor 202]
 gi|257451398|gb|EEV25441.1| Repressor of flagellae, putative [Actinobacillus minor 202]
          Length = 110

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%), Gaps = 1/58 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPI 70
          ++G  I+  R   G+SQ++L +  G++  Q+ + E G  N    + +  I+  L   I
Sbjct: 3  HLGDNIKRIRKTAGISQQELADMSGVSKAQISRLENGEQNNPQINTIVSIASNLGVSI 60


>gi|229056760|ref|ZP_04196162.1| hypothetical protein bcere0026_8790 [Bacillus cereus AH603]
 gi|228720554|gb|EEL72118.1| hypothetical protein bcere0026_8790 [Bacillus cereus AH603]
          Length = 149

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|169544294|ref|YP_001693069.1| XRE family transcriptional regulator [Yersinia enterocolitica]
 gi|168218478|emb|CAP20221.1| transcriptional regulator, XRE family [Yersinia enterocolitica]
          Length = 83

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 4/71 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+  GM+QE+LG   GI       +V  YE G ++     +   ++VL+ P  +F
Sbjct: 5  RLKSARLRAGMTQERLGVLAGIDESTARSRVSHYETGTHKPTYDTMCLFAKVLDVPECYF 64

Query: 74 FDVSPTVCSDI 84
          + +       +
Sbjct: 65 YILDDGFAESV 75


>gi|46906984|ref|YP_013373.1| DNA-binding protein [Listeria monocytogenes serotype 4b str.
          F2365]
 gi|46880250|gb|AAT03550.1| DNA-binding protein [Listeria monocytogenes serotype 4b str.
          F2365]
          Length = 169

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 34/55 (61%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 4  ENIKAIRKSKGLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|75908414|ref|YP_322710.1| XRE family transcriptional regulator [Anabaena variabilis ATCC
          29413]
 gi|75702139|gb|ABA21815.1| transcriptional regulator, XRE family [Anabaena variabilis ATCC
          29413]
          Length = 83

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 30/75 (40%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++   GK IR RR  L  SQE+L E  G+    +   E G        ++ +++ L   I
Sbjct: 8  IEYRFGKAIRRRRRELDYSQEELAEKAGLHRNYISSIETGTRNPSLKNIEKLAKALNISI 67

Query: 71 SFFFDVSPTVCSDIS 85
          S  F        D  
Sbjct: 68 SDLFTNYGIEAEDTE 82


>gi|313122873|ref|YP_004033132.1| peptidase s24-like protein [Lactobacillus delbrueckii subsp.
          bulgaricus ND02]
 gi|312279436|gb|ADQ60155.1| Peptidase S24-like protein [Lactobacillus delbrueckii subsp.
          bulgaricus ND02]
          Length = 206

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 35/60 (58%), Gaps = 1/60 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G +I+ +R   G++Q++L   LG+     V  +E+G++   A R+  I++ L+  +S
Sbjct: 1  MKIGTKIKQQRKKKGLTQKELASILGLGGVTTVASWEQGLSNPPAKRIPAIADALDISVS 60


>gi|307307842|ref|ZP_07587570.1| putative phage repressor [Shewanella baltica BA175]
 gi|306910061|gb|EFN40499.1| putative phage repressor [Shewanella baltica BA175]
          Length = 217

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 37/82 (45%), Gaps = 1/82 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  RI+ +R ILG+ Q+ + + + +T Q +  +E+ V       L  ++ VL+    +  
Sbjct: 7  LSNRIKTKRKILGLKQKDVAKLMDVTSQAISSWEREVTNPSGELLLKLANVLKVNEGWLL 66

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
              T  +D   +    + F+ 
Sbjct: 67 -YGDTFKNDKIKDCGEKVTFLR 87


>gi|300811613|ref|ZP_07092093.1| putative repressor LexA [Lactobacillus delbrueckii subsp.
          bulgaricus PB2003/044-T3-4]
 gi|300497408|gb|EFK32450.1| putative repressor LexA [Lactobacillus delbrueckii subsp.
          bulgaricus PB2003/044-T3-4]
 gi|325685247|gb|EGD27365.1| SOS regulatory protein LexA [Lactobacillus delbrueckii subsp.
          lactis DSM 20072]
          Length = 206

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 35/60 (58%), Gaps = 1/60 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G +I+ +R   G++Q++L   LG+     V  +E+G++   A R+  I++ L+  +S
Sbjct: 1  MKIGTKIKQQRKKKGLTQKELASILGLGGVTTVASWEQGLSNPPAKRIPAIADALDISVS 60


>gi|257876195|ref|ZP_05655848.1| predicted protein [Enterococcus casseliflavus EC20]
 gi|257810361|gb|EEV39181.1| predicted protein [Enterococcus casseliflavus EC20]
          Length = 284

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G++I  +R    ++Q  L + L +++Q V  +E+G +     +L  ++ +L+  I 
Sbjct: 7  RKIGQQIAAKRKEKNLTQSNLADQLLVSYQAVSNWERGNSLPDIEKLPQLAAILDLSID 65


>gi|257875354|ref|ZP_05655007.1| transcriptional regulator [Enterococcus casseliflavus EC20]
 gi|257809520|gb|EEV38340.1| transcriptional regulator [Enterococcus casseliflavus EC20]
          Length = 396

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/106 (16%), Positives = 43/106 (40%), Gaps = 10/106 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ +G+ I  RR   G++Q++L   + ++   V K+E G +    + L  ++   +  +
Sbjct: 1   MDLPIGEEIARRRKQRGITQQELAVFMNVSKASVSKWETGQSYPDITSLPLLAAYFDCSV 60

Query: 71  SFFFDVSPTVCSDISSEENNVMDFIST-------PDGLQLNRYFIQ 109
               ++        + E   +   +          + L L + F +
Sbjct: 61  D---ELLILDSQLSAKEIQRIYQLLKDAFQTKTPSEVLALAQSFTK 103


>gi|255524989|ref|ZP_05391936.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|255511361|gb|EET87654.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
          Length = 228

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 29/54 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I   R +  +S   L + LG++ Q + +YE G  R+   R++ IS++ + P  +
Sbjct: 4  ISYIRELFNLSMTDLAKQLGVSKQVISQYEGGKTRISDKRVKQISDMFKIPEKY 57


>gi|223984183|ref|ZP_03634332.1| hypothetical protein HOLDEFILI_01625 [Holdemania filiformis DSM
           12042]
 gi|223963841|gb|EEF68204.1| hypothetical protein HOLDEFILI_01625 [Holdemania filiformis DSM
           12042]
          Length = 321

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/98 (19%), Positives = 40/98 (40%), Gaps = 14/98 (14%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G++I   R    M+Q+   + +G+T Q +  +E+       + L+ I ++    ++ 
Sbjct: 2   KTLGEKIAGLRQEKNMTQQAFADVMGVTRQAISNWERNKTEPDVAALKKIGQIFGVDMN- 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
                  + +DI  E   +       D   L R F+ I
Sbjct: 61  ------DLLTDIHLERQAI-------DTRPLTRLFLAI 85


>gi|210617044|ref|ZP_03291379.1| hypothetical protein CLONEX_03601 [Clostridium nexile DSM 1787]
 gi|210149567|gb|EEA80576.1| hypothetical protein CLONEX_03601 [Clostridium nexile DSM 1787]
          Length = 333

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 38/79 (48%), Gaps = 2/79 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I   R   G SQE+L E + ++ Q V K+E   +    S++  +S+V      +
Sbjct: 1  MILAEKIMELRKKNGWSQEELAEKIHVSRQSVSKWESSASIPDLSKILLLSQVFGVSTDY 60

Query: 73 FF--DVSPTVCSDISSEEN 89
              D+  T  ++I  EE 
Sbjct: 61 LLRDDIEETQKAEIFVEET 79


>gi|160873045|ref|YP_001557051.1| putative phage repressor [Shewanella baltica OS195]
 gi|160858567|gb|ABX51791.1| putative phage repressor [Shewanella baltica OS195]
          Length = 214

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 37/82 (45%), Gaps = 1/82 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  RI+ +R ILG+ Q+ + + + +T Q +  +E+ V       L  ++ VL+    +  
Sbjct: 4  LSNRIKTKRKILGLKQKDVAKLMDVTSQAISSWEREVTNPSGELLLKLANVLKVNEGWLL 63

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
              T  +D   +    + F+ 
Sbjct: 64 -YGDTFKNDKIKDCGEKVTFLR 84


>gi|31791644|ref|NP_854137.1| transcriptional regulatory protein [Mycobacterium bovis AF2122/97]
 gi|31617230|emb|CAD93337.1| PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN [Mycobacterium bovis
           AF2122/97]
          Length = 474

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 30/133 (22%), Positives = 53/133 (39%), Gaps = 18/133 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   YVGSRVRQLRNERGFSQAALAQMLEISPSYLDQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               DI+ + + V + +S   G  L R  + +     R+  I 
Sbjct: 65  ASQDDTRLVAELREVTLDRDLDIAIDPHEVAEMVSAHPG--LARAVVNL----HRRYRIT 118

Query: 122 LVRSIVSSEKKYR 134
             +   ++E+++ 
Sbjct: 119 TAQLAAATEERFS 131


>gi|47567915|ref|ZP_00238622.1| transcriptional regulator, Cro/CI family, putative [Bacillus
          cereus G9241]
 gi|47555393|gb|EAL13737.1| transcriptional regulator, Cro/CI family, putative [Bacillus
          cereus G9241]
          Length = 262

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ETAEKSNE 71


>gi|328949375|ref|YP_004366712.1| hypothetical protein Tresu_2553 [Treponema succinifaciens DSM
          2489]
 gi|328449699|gb|AEB15415.1| helix-turn-helix domain protein [Treponema succinifaciens DSM
          2489]
          Length = 93

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 28/69 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++IR  R I G+SQ +L   LG+T Q V  +E          L  I+   E    +   +
Sbjct: 4  EQIRELRNIRGISQIQLANKLGVTKQSVSNWENDNILPSIEMLVKIANFFEVSTDYLLGL 63

Query: 77 SPTVCSDIS 85
                D+ 
Sbjct: 64 DKKRTLDVE 72


>gi|229827236|ref|ZP_04453305.1| hypothetical protein GCWU000182_02622 [Abiotrophia defectiva ATCC
           49176]
 gi|229788854|gb|EEP24968.1| hypothetical protein GCWU000182_02622 [Abiotrophia defectiva ATCC
           49176]
          Length = 371

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/100 (21%), Positives = 41/100 (41%), Gaps = 9/100 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
           + + I+  R  + ++QE L E  G+T   V K+E G        +  +++     +    
Sbjct: 5   LSENIKKYRKEMNLTQEGLAEAFGVTVGAVSKWESGSTVPDIMTMMELADFFNISMDILL 64

Query: 74  -FDVSPTVCSDIS------SEENNVMDFISTPDGLQLNRY 106
            +++S     DIS      +E     + +S  +   L RY
Sbjct: 65  GYNISSKTIEDISGRIIRLAENQKYTEAVSEAEK-ALVRY 103


>gi|229120644|ref|ZP_04249888.1| hypothetical protein bcere0016_9540 [Bacillus cereus 95/8201]
 gi|301052670|ref|YP_003790881.1| putative transcriptional regulator [Bacillus anthracis CI]
 gi|228662817|gb|EEL18413.1| hypothetical protein bcere0016_9540 [Bacillus cereus 95/8201]
 gi|300374839|gb|ADK03743.1| possible transcriptional regulator; possible DNA-binding protein
          [Bacillus cereus biovar anthracis str. CI]
          Length = 149

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQSDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|215425689|ref|ZP_03423608.1| transcriptional regulatory protein [Mycobacterium tuberculosis T92]
          Length = 299

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 31/133 (23%), Positives = 54/133 (40%), Gaps = 18/133 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   YVGSRVRQLRNERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               DI+ +++ V + +S   G  L R  + +     R+  I 
Sbjct: 65  ASQDDTRLVAELREVTLDRDLDIAIDQHEVAEMVSAHPG--LARAVVNL----HRRYRIT 118

Query: 122 LVRSIVSSEKKYR 134
             R   ++E+++ 
Sbjct: 119 TARLAAATEERFS 131


>gi|254428930|ref|ZP_05042637.1| Helix-turn-helix domain protein [Alcanivorax sp. DG881]
 gi|196195099|gb|EDX90058.1| Helix-turn-helix domain protein [Alcanivorax sp. DG881]
          Length = 119

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/108 (25%), Positives = 53/108 (49%), Gaps = 5/108 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R+ LG++QE+LG+ L +T   +  +E G +  G   L  +  VL   +      
Sbjct: 15  ERLKAARLALGLTQEQLGDELHVTKSTISAWENGRDSPGFRLLPKLKAVLGVSLDHLICG 74

Query: 77  SPTVCSDISSEENNVMDFISTPDG-LQLNRYFIQIDDVKVRQKIIELV 123
            P    + +SE N+  D     D   QL + + ++  VK RQ ++ ++
Sbjct: 75  DPV---EGASELNSKYDAQVRNDAEAQLLKGYRRL-SVKRRQGLLAMI 118


>gi|197286070|ref|YP_002151942.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227356586|ref|ZP_03840973.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|194683557|emb|CAR44421.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227163342|gb|EEI48269.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 102

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 35/62 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           N+G  IR  R+   ++  +LGE L ++ QQ+ +YE G+  +    L  I ++L++  S 
Sbjct: 16 KNIGNFIRESRIRKSLTGAQLGELLDVSQQQISRYENGITSINIETLDMILKLLDADWSE 75

Query: 73 FF 74
          F+
Sbjct: 76 FY 77


>gi|182676986|ref|YP_001831133.1| XRE family transcriptional regulator [Beijerinckia indica subsp.
          indica ATCC 9039]
 gi|182636616|gb|ACB97389.1| transcriptional regulator, XRE family [Beijerinckia indica subsp.
          indica ATCC 9039]
          Length = 151

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 3/66 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK+I+  R+  G+SQ+ L    G++ Q +   E G        L+ IS+ LE P   F+
Sbjct: 22 IGKKIKDMRVAKGLSQKALSGKSGVSHQYILLIEIGTQNATIGILKRISDALEVP---FY 78

Query: 75 DVSPTV 80
           + P  
Sbjct: 79 SILPDE 84


>gi|90962809|ref|YP_536724.1| transcriptional regulator [Lactobacillus salivarius UCC118]
 gi|90822003|gb|ABE00641.1| Transcriptional regulator [Lactobacillus salivarius UCC118]
 gi|300215422|gb|ADJ79835.1| Transcriptional regulator [Lactobacillus salivarius CECT 5713]
          Length = 376

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 36/69 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++  R+  G++++ L +  GI+ Q +  YE G    G+  L  I +VL+ P ++F   
Sbjct: 8  EKLKEARISRGLTKKALADRTGISRQMISNYELGKTNPGSKNLLSIIKVLDFPFTYFTAE 67

Query: 77 SPTVCSDIS 85
          S T     +
Sbjct: 68 SKTFYEGTT 76


>gi|84687910|ref|ZP_01015777.1| DNA-binding protein, putative [Maritimibacter alkaliphilus
           HTCC2654]
 gi|84664104|gb|EAQ10601.1| DNA-binding protein, putative [Rhodobacterales bacterium HTCC2654]
          Length = 129

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/124 (22%), Positives = 49/124 (39%), Gaps = 11/124 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R   G++Q++L + LGI  + +  +E  V+   A+RLQ +S +L   + +   
Sbjct: 14  GDRLAGAREAAGLTQKELAKKLGIKTKTLASWENDVSEPRANRLQMVSGLLSVSLGWLLT 73

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                     +E     D  +    L+L      I D   R         +   EK  R 
Sbjct: 74  GEGEGVDPPGTETEMSRD--ARALLLELREVQADITDATKR---------MARLEKGLRK 122

Query: 136 IEEE 139
           + E+
Sbjct: 123 LMED 126


>gi|99081351|ref|YP_613505.1| XRE family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99037631|gb|ABF64243.1| transcriptional regulator, XRE family [Ruegeria sp. TM1040]
          Length = 443

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 31/71 (43%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P D   G RIR RRM+LG+ Q  L    GI+   +   E    R+G   L  +++VL   
Sbjct: 2  PGDSLTGSRIRERRMMLGLRQADLARDAGISASYLNLIEHNRRRIGGKLLVTLAQVLGVE 61

Query: 70 ISFFFDVSPTV 80
           S   +     
Sbjct: 62 PSLLTEGVEAT 72


>gi|289623964|ref|ZP_06456918.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aesculi str. NCPPB3681]
 gi|289651241|ref|ZP_06482584.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aesculi str. 2250]
 gi|298487604|ref|ZP_07005645.1| Transcriptional regulator, Cro/CI family [Pseudomonas savastanoi
           pv. savastanoi NCPPB 3335]
 gi|298157696|gb|EFH98775.1| Transcriptional regulator, Cro/CI family [Pseudomonas savastanoi
           pv. savastanoi NCPPB 3335]
 gi|330867797|gb|EGH02506.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aesculi str. 0893_23]
 gi|330953968|gb|EGH54228.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae Cit 7]
          Length = 189

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 31/133 (23%), Positives = 52/133 (39%), Gaps = 31/133 (23%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            N + P PV  +V + +R  R    +SQ  L E  G++ + +   E G   V  + L  +
Sbjct: 4   ENSQRP-PVLQHVSQNVRRLRNSADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRV 62

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK-----VRQ 117
           +E LE   S                     D I  P+    NR + +I+++      V  
Sbjct: 63  AEALEVAFS---------------------DLIQAPE----NRDYSRINELAWAGTIVGS 97

Query: 118 KIIELVRSIVSSE 130
           K + L R++   E
Sbjct: 98  KAVLLARAVARRE 110


>gi|268611718|ref|ZP_06145445.1| hypothetical protein RflaF_19698 [Ruminococcus flavefaciens FD-1]
          Length = 123

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +  RR  LG++QE L + + ++ Q V K+EK         L  I++ L + I   F
Sbjct: 9  SNLAKRRKELGLTQEMLAQKINVSSQAVSKWEKSS-YPDPELLPDIAKALNTSIDSLF 65


>gi|256848082|ref|ZP_05553526.1| predicted protein [Lactobacillus coleohominis 101-4-CHN]
 gi|256715142|gb|EEU30119.1| predicted protein [Lactobacillus coleohominis 101-4-CHN]
          Length = 273

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 30/77 (38%), Gaps = 8/77 (10%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  NKK  N        RI   R   G++ +++ + + +    + +YE G          
Sbjct: 1  MNTNKKPRN--------RIAELRKEKGLTLQQVADAVSVGNNTISRYETGKREPKLETWM 52

Query: 61 HISEVLESPISFFFDVS 77
           ++ V + P+S+     
Sbjct: 53 KLANVFDVPVSYIMGTD 69



 Score = 40.2 bits (93), Expect = 0.11,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 25/53 (47%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           IR  R++   S   L E  GI+ ++++  E+            I+EVL  P+S
Sbjct: 74  IRETRILHNTSLGSLAEMTGISEKRLKSIEQFETVPTVQEWFLIAEVLCVPVS 126


>gi|229042877|ref|ZP_04190612.1| hypothetical protein bcere0027_9360 [Bacillus cereus AH676]
 gi|228726479|gb|EEL77701.1| hypothetical protein bcere0027_9360 [Bacillus cereus AH676]
          Length = 149

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E L ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKLHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   I  +   + 
Sbjct: 65 DEELTQKIIEDSKRLA 80


>gi|290894443|ref|ZP_06557403.1| DNA-binding protein [Listeria monocytogenes FSL J2-071]
 gi|290556004|gb|EFD89558.1| DNA-binding protein [Listeria monocytogenes FSL J2-071]
          Length = 169

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 34/55 (61%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 4  ENIKAIRKSKGLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|226223363|ref|YP_002757470.1| transcription regulator [Listeria monocytogenes Clip81459]
 gi|254823987|ref|ZP_05228988.1| DNA-binding protein [Listeria monocytogenes FSL J1-194]
 gi|225875825|emb|CAS04528.1| Putative transcription regulator [Listeria monocytogenes serotype
          4b str. CLIP 80459]
 gi|293593215|gb|EFG00976.1| DNA-binding protein [Listeria monocytogenes FSL J1-194]
          Length = 169

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 34/55 (61%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 4  ENIKAIRKSKGLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|225420264|ref|ZP_03762567.1| hypothetical protein CLOSTASPAR_06607 [Clostridium asparagiforme
          DSM 15981]
 gi|225041081|gb|EEG51327.1| hypothetical protein CLOSTASPAR_06607 [Clostridium asparagiforme
          DSM 15981]
          Length = 177

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 35/68 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R++ G++QE+L +   ++   + + E+ +     + L  I + L + I  
Sbjct: 1  MQIGAKLKELRILKGLTQEELADRTELSKGFISQLERDLTSPSIATLMDILQCLGTSIGE 60

Query: 73 FFDVSPTV 80
          FF+ +   
Sbjct: 61 FFNETQEE 68


>gi|239814040|ref|YP_002942950.1| XRE family transcriptional regulator [Variovorax paradoxus S110]
 gi|239800617|gb|ACS17684.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 195

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 35/78 (44%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P  ++  + +R+R  R   G+S E L    G++   +   E+G +   A  L+ ++  L 
Sbjct: 5  PPSLNDRIAQRVRDLRADRGLSLEALAAHCGVSRSMISLIERGESSPTAVLLEKLATGLG 64

Query: 68 SPISFFFDVSPTVCSDIS 85
           P++  F+        +S
Sbjct: 65 VPLASLFEAPVPASGPVS 82


>gi|212709591|ref|ZP_03317719.1| hypothetical protein PROVALCAL_00636 [Providencia alcalifaciens
          DSM 30120]
 gi|212687767|gb|EEB47295.1| hypothetical protein PROVALCAL_00636 [Providencia alcalifaciens
          DSM 30120]
          Length = 214

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 1/62 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESP 69
          ++  +G+R++  R   G+SQ +L +  G +   ++  YE G  ++ A     ISE L   
Sbjct: 4  INEIIGERLKSIRESRGLSQAQLAKLCGYSAASRIGNYELGERKISADDALVISEALGVS 63

Query: 70 IS 71
           +
Sbjct: 64 PA 65


>gi|212711743|ref|ZP_03319871.1| hypothetical protein PROVALCAL_02818 [Providencia alcalifaciens
          DSM 30120]
 gi|212685845|gb|EEB45373.1| hypothetical protein PROVALCAL_02818 [Providencia alcalifaciens
          DSM 30120]
          Length = 106

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 32/61 (52%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            N +   VG  +R  R    M+ ++L + +GI+ QQ+ +YE G+  +   +L H   VL
Sbjct: 2  KSNIISGQVGAFLRKSRKEKNMTGKQLAKLIGISQQQISRYEMGITSITLEQLDHFLIVL 61

Query: 67 E 67
          +
Sbjct: 62 D 62


>gi|332157761|ref|YP_004423040.1| Predicted transcription regulator, containing DNA-binding HTH
          domain protein [Pyrococcus sp. NA2]
 gi|331033224|gb|AEC51036.1| Predicted transcription regulator, containing DNA-binding HTH
          domain protein [Pyrococcus sp. NA2]
          Length = 66

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R + G++QE+L + LG+T Q +   EKG           I++     I   F
Sbjct: 3  NRLRELREMYGLTQEELAKKLGVTRQTIIAIEKGKYDPSLRLAFKIAKFFGVKIEDIF 60


>gi|262164056|ref|ZP_06031795.1| protein of unknown function DUF955 [Vibrio mimicus VM223]
 gi|262027584|gb|EEY46250.1| protein of unknown function DUF955 [Vibrio mimicus VM223]
          Length = 375

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/59 (33%), Positives = 38/59 (64%), Gaps = 2/59 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ-HISEVLESPISFF 73
          G+R+RL R++ G + ++LG+ + +T Q + +YE  + RV A  ++  ++E L+   SFF
Sbjct: 7  GERLRLARLLKGYTLQELGDAVSVTRQSIHQYESDI-RVPADDIKNALAESLQVETSFF 64


>gi|121636380|ref|YP_976603.1| putative transcriptional regulatory protein [Mycobacterium bovis
           BCG str. Pasteur 1173P2]
 gi|224988852|ref|YP_002643539.1| putative transcriptional regulatory protein [Mycobacterium bovis
           BCG str. Tokyo 172]
 gi|121492027|emb|CAL70490.1| Probable transcriptional regulatory protein [Mycobacterium bovis
           BCG str. Pasteur 1173P2]
 gi|224771965|dbj|BAH24771.1| putative transcriptional regulatory protein [Mycobacterium bovis
           BCG str. Tokyo 172]
          Length = 474

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 30/133 (22%), Positives = 53/133 (39%), Gaps = 18/133 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   YVGSRVRQLRNERGFSQAALAQMLEISPSYLDQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               DI+ + + V + +S   G  L R  + +     R+  I 
Sbjct: 65  ASQDDTRLVAELREVTLDRDLDIAIDPHEVAEMVSAHPG--LARAVVNL----HRRYRIT 118

Query: 122 LVRSIVSSEKKYR 134
             +   ++E+++ 
Sbjct: 119 TAQLAAATEERFS 131


>gi|62389267|ref|YP_224669.1| MerR family transcriptional regulator [Corynebacterium glutamicum
           ATCC 13032]
 gi|21323134|dbj|BAB97762.1| Predicted transcriptional regulators [Corynebacterium glutamicum
           ATCC 13032]
 gi|41324601|emb|CAF19083.1| transcriptional regulator, MerR family [Corynebacterium glutamicum
           ATCC 13032]
          Length = 474

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 31/134 (23%), Positives = 51/134 (38%), Gaps = 24/134 (17%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R    +SQ  L   LG++   V + E  V  +    L  I+E      +FF
Sbjct: 5   YVGSRLRQLRRERDLSQASLAATLGLSASYVNQIEHDVRPLTVPVLLRITEAFGVDATFF 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV-RQKIIE-------LVRS 125
                    D S     V D +   +          I+   V  Q++ E       L R+
Sbjct: 65  ------SRDDDSRLLAEVQDVMLDRE----------INPANVELQELSEMVYNHPQLARA 108

Query: 126 IVSSEKKYRTIEEE 139
           +V   ++YR + ++
Sbjct: 109 MVEMHQRYRNVRDK 122


>gi|146276465|ref|YP_001166624.1| helix-turn-helix domain-containing protein [Rhodobacter sphaeroides
           ATCC 17025]
 gi|145554706|gb|ABP69319.1| transcriptional regulator, XRE family [Rhodobacter sphaeroides ATCC
           17025]
          Length = 132

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/125 (19%), Positives = 52/125 (41%), Gaps = 13/125 (10%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R   G++QE++   LG+  + +Q +E  +    A+RLQ ++ +L   + +   
Sbjct: 17  GDRLAGAREAAGLTQEEMARRLGVRLKTLQSWEDDLAEPRANRLQMMAGMLNVSLRWLLT 76

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL-QLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
                   +      V+      + L +L R         +R + + L + +   EK+ R
Sbjct: 77  GE---GDGVEGPSEPVVLPAEGREALAELAR---------MRTQTLALAQEMGQLEKRMR 124

Query: 135 TIEEE 139
            +  +
Sbjct: 125 ALLRK 129


>gi|327191555|gb|EGE58568.1| putative transcriptional regulator protein, LacI family [Rhizobium
           etli CNPAF512]
          Length = 189

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 37/92 (40%), Gaps = 2/92 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R+  G++ + L    G++   + + E+      AS L  I   L   +S FF
Sbjct: 9   IGIRIRKLRLEKGLTLDDLSTASGVSRAMISRIERAEASPTASLLARICAALGLSLSAFF 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                  S ++  ++        P+   L R 
Sbjct: 69  AEERQQASPLARRQD--QQVWRDPETGYLRRS 98


>gi|324992649|gb|EGC24570.1| Cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK405]
 gi|324995822|gb|EGC27733.1| Cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK678]
 gi|327460052|gb|EGF06391.1| Cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK1]
 gi|327488642|gb|EGF20442.1| Cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK1058]
          Length = 167

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    +
Sbjct: 6  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKVVELSKIFQVTTDYLLLEE 65

Query: 76 VSPTVCSDISSEEN 89
                  + SE+ 
Sbjct: 66 GDKPEIKPVLSEDE 79


>gi|302872413|ref|YP_003841049.1| helix-turn-helix domain protein [Caldicellulosiruptor obsidiansis
          OB47]
 gi|302575272|gb|ADL43063.1| helix-turn-helix domain protein [Caldicellulosiruptor obsidiansis
          OB47]
          Length = 285

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 24/56 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    +S+  L E LG++ Q +  YE G        L  I++     + + 
Sbjct: 7  RLKELREEKNISRSDLAEILGVSTQTIANYENGHREPNFDTLLKIADYFNVTVDYL 62


>gi|294678407|ref|YP_003579022.1| XRE family transcriptional regulator [Rhodobacter capsulatus SB
          1003]
 gi|294477227|gb|ADE86615.1| transcriptional regulator, XRE family [Rhodobacter capsulatus SB
          1003]
          Length = 184

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 32/70 (45%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG  IR  R   G++ ++L   +G +   + + E+G        L  ++E L   +SFF
Sbjct: 4  HVGDDIRALRKTRGLTLKRLAADVGRSLGWLSQIERGQTTPSVRDLGLLAERLGVTLSFF 63

Query: 74 FDVSPTVCSD 83
          F  S     +
Sbjct: 64 FRSSGRAPQE 73


>gi|255018407|ref|ZP_05290533.1| hypothetical protein LmonF_13171 [Listeria monocytogenes FSL
          F2-515]
          Length = 163

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 34/55 (61%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 4  ENIKAIRKSKGLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|226325593|ref|ZP_03801111.1| hypothetical protein COPCOM_03406 [Coprococcus comes ATCC 27758]
 gi|225205717|gb|EEG88071.1| hypothetical protein COPCOM_03406 [Coprococcus comes ATCC 27758]
          Length = 336

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/90 (20%), Positives = 30/90 (33%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+L   LG++ Q V K+E         R+  +SE+      +     
Sbjct: 6   KITEERKKNGWSQEELANQLGVSRQAVSKWESAGAVPDLQRILQMSELFCVSTDYLLKDE 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYF 107
               +    E             ++    F
Sbjct: 66  MKAENITYQESTERYAEPLKKVTMENANEF 95


>gi|196037631|ref|ZP_03104942.1| transcriptional repressor [Bacillus cereus NVH0597-99]
 gi|228913713|ref|ZP_04077339.1| hypothetical protein bthur0012_9510 [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
 gi|228944755|ref|ZP_04107119.1| hypothetical protein bthur0007_9230 [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
 gi|229090075|ref|ZP_04221326.1| hypothetical protein bcere0021_9100 [Bacillus cereus Rock3-42]
 gi|196031873|gb|EDX70469.1| transcriptional repressor [Bacillus cereus NVH0597-99]
 gi|228693305|gb|EEL47015.1| hypothetical protein bcere0021_9100 [Bacillus cereus Rock3-42]
 gi|228814927|gb|EEM61184.1| hypothetical protein bthur0007_9230 [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
 gi|228845905|gb|EEM90930.1| hypothetical protein bthur0012_9510 [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
          Length = 149

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQSDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|56421725|ref|YP_149043.1| transcriptional regulator [Geobacillus kaustophilus HTA426]
 gi|56381567|dbj|BAD77475.1| transcriptional regulator [Geobacillus kaustophilus HTA426]
          Length = 135

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/134 (17%), Positives = 56/134 (41%), Gaps = 8/134 (5%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G+ ++  R     +QE+L E L ++  Q+ K+E G        L+ + ++ +    F 
Sbjct: 3   NLGETLKQLRKQRRWTQEELAEQLNVSRSQISKWENGSLLPDVQSLEKLCQLFDVSADFL 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
                T   ++  E  ++       + + L      + + ++ + +  L + +   ++K+
Sbjct: 63  L-GGETRQRELLREVTDIYGTADVHETV-LAALDYLLHNQEMSEAVYALAK-LPDKKRKH 119

Query: 134 R-----TIEEECMV 142
                 TI +EC  
Sbjct: 120 VETMIMTIVKECSE 133


>gi|225571231|ref|ZP_03780229.1| hypothetical protein CLOHYLEM_07320 [Clostridium hylemonae DSM
          15053]
 gi|225160062|gb|EEG72681.1| hypothetical protein CLOHYLEM_07320 [Clostridium hylemonae DSM
          15053]
          Length = 233

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 37/70 (52%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D NVGK I+  R+   ++ E+L + +  +   + KYEKG+  +  + L+ I++V +   
Sbjct: 3  IDENVGKNIKKYRLAYKLTLEELAKKIHKSKSTMSKYEKGLISLDVATLEEIADVFQISP 62

Query: 71 SFFFDVSPTV 80
          ++   V    
Sbjct: 63 AYLLAVQDEE 72


>gi|310658782|ref|YP_003936503.1| Xre family transcriptional regulator [Clostridium sticklandii DSM
          519]
 gi|308825560|emb|CBH21598.1| Transcriptional regulator, XRE family [Clostridium sticklandii]
          Length = 179

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 36/76 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R++  ++QE+L     +T   + K E+ +     + L  I E L + +  
Sbjct: 1  MVIGEKIKRLRILNNLTQEELALRCDLTKGFISKLERDLTSPSIATLVDILEALGTDLKD 60

Query: 73 FFDVSPTVCSDISSEE 88
          FF+ S         E+
Sbjct: 61 FFNESSNNKIVFGKED 76


>gi|302866468|ref|YP_003835105.1| Cupin 2 conserved barrel domain-containing protein [Micromonospora
           aurantiaca ATCC 27029]
 gi|315502877|ref|YP_004081764.1| cupin 2 conserved barrel domain protein [Micromonospora sp. L5]
 gi|302569327|gb|ADL45529.1| Cupin 2 conserved barrel domain protein [Micromonospora aurantiaca
           ATCC 27029]
 gi|315409496|gb|ADU07613.1| Cupin 2 conserved barrel domain protein [Micromonospora sp. L5]
          Length = 214

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 35/73 (47%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG RIR  R   G++   L    G++   + + E+G++ +G + L  +++ L+  ++ FF
Sbjct: 28  VGGRIRRYRKERGLTLRGLASRSGLSIGFLSQVERGISSIGLTALGSVAKALDRSVADFF 87

Query: 75  DVSPTVCSDISSE 87
           D          S 
Sbjct: 88  DAGTAAPDSTVSS 100


>gi|257455466|ref|ZP_05620700.1| helix-turn-helix domain protein [Enhydrobacter aerosaccus SK60]
 gi|257447129|gb|EEV22138.1| helix-turn-helix domain protein [Enhydrobacter aerosaccus SK60]
          Length = 87

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 33/70 (47%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +P  +  GKRIR  R   G+SQEKL     I    + K E+G   +  +++  ISE L+ 
Sbjct: 13 HPQIVAFGKRIRTIRKQKGISQEKLALLAQIDRSYMGKIERGEFNLTLTKIYQISEALQV 72

Query: 69 PISFFFDVSP 78
           +   F    
Sbjct: 73 SVVTLFQEDE 82


>gi|238894195|ref|YP_002918929.1| putative repressor protein of prophage [Klebsiella pneumoniae
          NTUH-K2044]
 gi|238546511|dbj|BAH62862.1| putative repressor protein of prophage [Klebsiella pneumoniae
          subsp. pneumoniae NTUH-K2044]
          Length = 241

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 32/69 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR RR  L ++Q  LG+ +G+    V  +E G    G S LQ +S  L+    +  D  
Sbjct: 29 RIRARRKELKLTQAVLGKLVGVNRVTVTGWESGDYAPGGSNLQALSAALKCSPKWLIDGI 88

Query: 78 PTVCSDISS 86
              ++  S
Sbjct: 89 GEPDNEEPS 97


>gi|260588959|ref|ZP_05854872.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
          hansenii DSM 20583]
 gi|331083318|ref|ZP_08332431.1| hypothetical protein HMPREF0992_01355 [Lachnospiraceae bacterium
          6_1_63FAA]
 gi|260540738|gb|EEX21307.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
          hansenii DSM 20583]
 gi|330404399|gb|EGG83944.1| hypothetical protein HMPREF0992_01355 [Lachnospiraceae bacterium
          6_1_63FAA]
          Length = 77

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 2/65 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE--KGVNRVGASRLQHISEVLESPI 70
            +G  I   R + G++Q +L E +G++   +   E  +    +    L  I+E LE P+
Sbjct: 10 RELGLTISYYRKLKGLTQTQLAESVGLSRTHISNIEAPRVKTSISLDSLFDIAEALEVPV 69

Query: 71 SFFFD 75
             FD
Sbjct: 70 RDLFD 74


>gi|170023456|ref|YP_001719961.1| XRE family transcriptional regulator [Yersinia pseudotuberculosis
          YPIII]
 gi|169749990|gb|ACA67508.1| transcriptional regulator, XRE family [Yersinia
          pseudotuberculosis YPIII]
          Length = 209

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 34/78 (43%), Gaps = 1/78 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RI+  R  L +SQ +L +  G ++  ++  YE    +V       +++ L       
Sbjct: 4  IGQRIKRFREELSISQAELAQRCGWLSQSRIGNYETDSRKVSVEDAVVLAKALNVNPGEL 63

Query: 74 FDVSPTVCSDISSEENNV 91
             +P   S  S+ E  +
Sbjct: 64 ILGTPDNASFTSAGERYL 81


>gi|163741328|ref|ZP_02148720.1| transcriptional regulator, putative [Phaeobacter gallaeciensis
          2.10]
 gi|161385681|gb|EDQ10058.1| transcriptional regulator, putative [Phaeobacter gallaeciensis
          2.10]
          Length = 445

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 31/78 (39%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G RIR RR++LG+ Q  L   + I+   +   E    R+G   L  ++ VL    S
Sbjct: 12 DTLTGSRIRERRLMLGLRQADLARQVKISASYLNLIEHNRRRIGGKLLVDLARVLAVEPS 71

Query: 72 FFFDVSPTVCSDISSEEN 89
             + +         E  
Sbjct: 72 MLTEGAEVALLSTLREAA 89


>gi|163814918|ref|ZP_02206306.1| hypothetical protein COPEUT_01069 [Coprococcus eutactus ATCC
          27759]
 gi|158449857|gb|EDP26852.1| hypothetical protein COPEUT_01069 [Coprococcus eutactus ATCC
          27759]
          Length = 159

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+R+   R    +SQE+L E L ++ Q + K+E        +RL  +S+  +  + +
Sbjct: 14 MTFGERLYELRNKNNLSQEELAEVLDVSRQSISKWENDKAYPEMTRLLFMSDYFDVSLDY 73

Query: 73 FFDVSPTVCSD 83
                   ++
Sbjct: 74 LMRGIKKENNE 84


>gi|291536345|emb|CBL09457.1| Uncharacterized conserved protein, contains double-stranded
          beta-helix domain [Roseburia intestinalis M50/1]
          Length = 179

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 1/69 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPIS 71
          +++GKR++  R+  G++Q++L +   +T   + + E+  N      L  I + L  +P  
Sbjct: 1  MDIGKRMKELRIQYGLTQQELADRSELTKGFISQLERNQNSPSIGTLLDIIQCLGTTPAE 60

Query: 72 FFFDVSPTV 80
          FF D  P  
Sbjct: 61 FFTDEEPEQ 69


>gi|258510225|ref|YP_003183659.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
 gi|257476951|gb|ACV57270.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
          Length = 106

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 26/55 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+R+R  R +  M+Q  L   LG++   +   E+G  +  A  +  I+  L   +
Sbjct: 5  GRRLRAFRKLKHMTQADLARALGVSLATIGGIERGTRQPTAHLVSAIASALSVDV 59


>gi|229177518|ref|ZP_04304897.1| hypothetical protein bcere0005_8860 [Bacillus cereus 172560W]
 gi|228605965|gb|EEK63407.1| hypothetical protein bcere0005_8860 [Bacillus cereus 172560W]
          Length = 60

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 27/56 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++  R+ L MSQE L + +G+  + +   E G           I++VL+ PI   F
Sbjct: 1  MKEYRVKLNMSQEDLAKEVGVRRETIGNLENGKYNPSFKLTYDIAKVLKVPIEVLF 56


>gi|225573231|ref|ZP_03781986.1| hypothetical protein RUMHYD_01422 [Blautia hydrogenotrophica DSM
          10507]
 gi|225039363|gb|EEG49609.1| hypothetical protein RUMHYD_01422 [Blautia hydrogenotrophica DSM
          10507]
          Length = 217

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/85 (24%), Positives = 39/85 (45%), Gaps = 3/85 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I++ R    M Q++L + +GI  Q + K E+GVN      L+ I  VL    +   
Sbjct: 6  LGENIQIIRKHRKMKQQELADAIGINLQSLSKIERGVNYPTFETLEKIINVLGVTPN--- 62

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
          ++        S  E  +M+ +   +
Sbjct: 63 ELLTGEWEQTSHVEQFIMEVVKREE 87


>gi|116628909|ref|YP_814081.1| XRE family transcriptional regulator [Lactobacillus gasseri ATCC
           33323]
 gi|311111276|ref|ZP_07712673.1| putative transcriptional regulator [Lactobacillus gasseri MV-22]
 gi|116094491|gb|ABJ59643.1| Transcriptional regulator, xre family [Lactobacillus gasseri ATCC
           33323]
 gi|311066430|gb|EFQ46770.1| putative transcriptional regulator [Lactobacillus gasseri MV-22]
          Length = 334

 Score = 59.4 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/120 (18%), Positives = 50/120 (41%), Gaps = 18/120 (15%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++I   R    +SQE L E + ++ Q V K+E   +     ++ ++SE+      +
Sbjct: 1   MRLGQKIADLRKKNNLSQEGLAEKMNVSRQAVSKWESEQSIPDIEKIVNLSELFGVTTDY 60

Query: 73  F-------FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI--DDVKVRQKIIELV 123
                   F++     +D      + +  +S     +L + ++       K+R   I L+
Sbjct: 61  LLKSGEPSFELKNEDIND-----KDKLPVLSD----ELVKKYLAASQKSSKLRALAIALI 111


>gi|296110814|ref|YP_003621195.1| DNA-binding protein [Leuconostoc kimchii IMSNU 11154]
 gi|295832345|gb|ADG40226.1| DNA-binding protein [Leuconostoc kimchii IMSNU 11154]
          Length = 246

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 36/73 (49%), Gaps = 2/73 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R    ++Q++    + I++Q V  +E   +   A  +  I +  + P+++
Sbjct: 1  MTIGDQIKQLRTAHNLTQQEFATKIYISYQSVSNWENHRSYPSAEIMLLIIDTFDLPLNY 60

Query: 73 FF--DVSPTVCSD 83
          F   D+ PT   +
Sbjct: 61 FMDKDIDPTTSQE 73


>gi|229068689|ref|ZP_04201987.1| hypothetical protein bcere0025_9000 [Bacillus cereus F65185]
 gi|228714436|gb|EEL66313.1| hypothetical protein bcere0025_9000 [Bacillus cereus F65185]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E L ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKLHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|258510478|ref|YP_003183912.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
 gi|257477204|gb|ACV57523.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
          Length = 163

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 2/86 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+R+   R   G+SQ  L E L +T  Q+  YE+G        L+ +++  +  I F
Sbjct: 3  MTFGERLAQLRRSKGLSQYALAEQLKMTRGQIANYEQGTREPDIETLKKLADFFDVSIDF 62

Query: 73 FFDVSPTVC--SDISSEENNVMDFIS 96
               P V   + +++E    ++ +S
Sbjct: 63 LVLGKPNVSDFNGLTNEVKRTLEALS 88


>gi|255306587|ref|ZP_05350758.1| putative transcriptional regulator [Clostridium difficile ATCC
          43255]
          Length = 404

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I +GK I+  R    ++QE+L + +G++   V K+E G +      L  +++     I 
Sbjct: 3  IKIGKVIQCLRKERNLTQEQLAKFIGVSTPAVSKWESGNSYPDIELLPLLADFFNVSID 61


>gi|225026164|ref|ZP_03715356.1| hypothetical protein EUBHAL_00405 [Eubacterium hallii DSM 3353]
 gi|224956415|gb|EEG37624.1| hypothetical protein EUBHAL_00405 [Eubacterium hallii DSM 3353]
          Length = 375

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 36/84 (42%), Gaps = 4/84 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLESPI 70
           +G +I+  R + G++Q++LG   G +      ++ +YEK         L+ I E L   +
Sbjct: 20  IGGKIKKIRELRGLTQKQLGIMCGFSASSADVRIAQYEKNKKIPREKTLKDICEALNIDV 79

Query: 71  SFFFDVSPTVCSDISSEENNVMDF 94
              FD        +     ++ DF
Sbjct: 80  YCLFDADMLPYQRMFHALFDIEDF 103


>gi|170288077|ref|YP_001738315.1| XRE family transcriptional regulator [Thermotoga sp. RQ2]
 gi|281411883|ref|YP_003345962.1| XRE family transcriptional regulator [Thermotoga naphthophila
          RKU-10]
 gi|170175580|gb|ACB08632.1| transcriptional regulator, XRE family [Thermotoga sp. RQ2]
 gi|281372986|gb|ADA66548.1| transcriptional regulator, XRE family [Thermotoga naphthophila
          RKU-10]
          Length = 176

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 34/80 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+++R  R+  G++QE+L E   ++   + + E          L+ I E L + +  
Sbjct: 1  MRIGEKLRKLRLSKGLTQEELAERTDLSRSFISQLESDKTSPSIDTLERILEALGTDLKH 60

Query: 73 FFDVSPTVCSDISSEENNVM 92
          FF            EE   +
Sbjct: 61 FFSDVEEERVVFKKEERVPV 80


>gi|116250024|ref|YP_765862.1| transcriptional regulator [Rhizobium leguminosarum bv. viciae 3841]
 gi|115254672|emb|CAK05746.1| putative transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
          Length = 192

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/95 (21%), Positives = 35/95 (36%), Gaps = 3/95 (3%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K+   ++  +G RIR  R    ++ + L    G++   + + E+      AS L  I   
Sbjct: 4   KMEPELEQAIGIRIRTLRQEKALTLDDLAAASGVSRAMISRIERAEASPTASLLARICAA 63

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           L   +S FF            +E  V      P+ 
Sbjct: 64  LGLSLSAFFAEEGQASPLARRQEQQV---WRDPET 95


>gi|90414720|ref|ZP_01222690.1| putative transcriptional regulator [Photobacterium profundum 3TCK]
 gi|90324165|gb|EAS40743.1| putative transcriptional regulator [Photobacterium profundum 3TCK]
          Length = 102

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/92 (29%), Positives = 49/92 (53%), Gaps = 9/92 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R   G+SQ++LG  LG+       ++  YEKG +    + L+ I++ L  P+S+F
Sbjct: 10  RLKESRKTAGISQKELGIRLGMDPSSASGRMNHYEKGRHMPDIATLRRIADELGVPLSYF 69

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           F       SD S++   +++ +S  D  +L R
Sbjct: 70  F-----CDSDNSAKLVRLIEKLSEEDKKELIR 96


>gi|329770320|ref|ZP_08261704.1| hypothetical protein HMPREF0433_01468 [Gemella sanguinis M325]
 gi|328836744|gb|EGF86398.1| hypothetical protein HMPREF0433_01468 [Gemella sanguinis M325]
          Length = 181

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 1/90 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R++  R+   ++QE+LGE   ++   + + E+ +         +I +VL      FF
Sbjct: 4   IGERLKRLRIQKNLTQEELGERTDLSKGYISQVERDLASPSMETFFNILQVLGCAPKDFF 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           D   +      S E+    +  T DG +L 
Sbjct: 64  DKESSSQKVYYSLEDQ-TSYEETDDGYELT 92


>gi|325289095|ref|YP_004265276.1| helix-turn-helix domain protein [Syntrophobotulus glycolicus DSM
          8271]
 gi|324964496|gb|ADY55275.1| helix-turn-helix domain protein [Syntrophobotulus glycolicus DSM
          8271]
          Length = 272

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + I   R + G +QE+L + L  + Q + K+E G +    S L  ++  L + I+   
Sbjct: 6  QNISKYRKMRGFTQEELAQKLNRSSQAISKWETGQSSPDISLLPDLAFALGTDINSLM 63


>gi|291530129|emb|CBK95714.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
 gi|291556915|emb|CBL34032.1| Predicted transcriptional regulators [Eubacterium siraeum
          V10Sc8a]
          Length = 219

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 37/80 (46%), Gaps = 2/80 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R+   ++QE++ E LG++ Q +  +E   +      +  +S+  E  + +  
Sbjct: 5  IGSKIKAARLEKKLTQEQVAEILGVSRQTISNWENEKSYPDIISVIKMSDCYEVSLDYLL 64

Query: 75 DVSPTVCS--DISSEENNVM 92
               + +  D   E  NV+
Sbjct: 65 KGEQKMKTYYDYLEESTNVV 84


>gi|254502669|ref|ZP_05114820.1| bacteriophage CI repressor protein, putative [Labrenzia alexandrii
           DFL-11]
 gi|222438740|gb|EEE45419.1| bacteriophage CI repressor protein, putative [Labrenzia alexandrii
           DFL-11]
          Length = 147

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/82 (25%), Positives = 41/82 (50%), Gaps = 2/82 (2%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D  +G+RI   R I G+S  +L   LGI    +Q +E   +   +++L  ++ +L    +
Sbjct: 38  DYTLGERICKARDIAGLSTAQLARRLGIKTSTLQSWESDRSEPRSNKLILLAGILNVSPT 97

Query: 72  FFF--DVSPTVCSDISSEENNV 91
           +      SP V  D S++ +++
Sbjct: 98  WLLVGRGSPPVAEDTSADLDSM 119


>gi|183600445|ref|ZP_02961938.1| hypothetical protein PROSTU_04021 [Providencia stuartii ATCC
          25827]
 gi|188019929|gb|EDU57969.1| hypothetical protein PROSTU_04021 [Providencia stuartii ATCC
          25827]
          Length = 91

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 34/65 (52%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K    V   +G  +R  RM  G+S  +L   + ++ QQ+ +YE+GVN++   +L  I   
Sbjct: 4  KKREDVYALLGHHLRQARMKRGLSGHELANIINLSQQQISRYERGVNKLSLDKLIEIIVF 63

Query: 66 LESPI 70
          L+  +
Sbjct: 64 LDIDV 68


>gi|254197120|ref|ZP_04903543.1| irep [Burkholderia pseudomallei S13]
 gi|169653862|gb|EDS86555.1| irep [Burkholderia pseudomallei S13]
          Length = 106

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/117 (19%), Positives = 49/117 (41%), Gaps = 25/117 (21%)

Query: 18  RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R   G+SQEKLG   G+       ++ +YE+G +    + +  I++ L+ PISFF
Sbjct: 7   RLKQARKAAGLSQEKLGVLAGVDEMSASARMNQYERGKHEPDFAMVNRIAQALQLPISFF 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           +  +                         L   F +++  + +  ++E   ++   +
Sbjct: 67  YSETDAEAK--------------------LIAAFHRLEPSQ-KTMLLEQALAMAGID 102


>gi|164687559|ref|ZP_02211587.1| hypothetical protein CLOBAR_01200 [Clostridium bartlettii DSM
          16795]
 gi|164603333|gb|EDQ96798.1| hypothetical protein CLOBAR_01200 [Clostridium bartlettii DSM
          16795]
          Length = 139

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 31/55 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + ++  R   G+SQE+L   L +  Q + K+EKG++   A  L  I+++ E  +S
Sbjct: 4  ENLKQLRKSKGLSQEELAIRLNVVRQTISKWEKGLSVPDADMLIKIADIFEVSVS 58


>gi|125623537|ref|YP_001032020.1| hypothetical protein llmg_0681 [Lactococcus lactis subsp.
          cremoris MG1363]
 gi|124492345|emb|CAL97283.1| putative membrane protein [Lactococcus lactis subsp. cremoris
          MG1363]
 gi|300070296|gb|ADJ59696.1| hypothetical protein LLNZ_03535 [Lactococcus lactis subsp.
          cremoris NZ9000]
          Length = 161

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 1/68 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+   R   G +QE L E   IT + +Q+ E G + V    L  IS  L  P+S  F+  
Sbjct: 5  RVAELRKKRGWTQEVLAEKANITVRTIQRIENGTD-VSLDTLASISNALLVPVSELFESI 63

Query: 78 PTVCSDIS 85
               ++ 
Sbjct: 64 EEEAKEVE 71


>gi|152996492|ref|YP_001341327.1| putative prophage repressor [Marinomonas sp. MWYL1]
 gi|150837416|gb|ABR71392.1| putative prophage repressor [Marinomonas sp. MWYL1]
          Length = 216

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/88 (18%), Positives = 43/88 (48%), Gaps = 1/88 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + +R++ +R  L ++Q +L + +GI+ Q +QK E G  +    +L ++++ L+    +
Sbjct: 1   MTIAERVKQKRTDLRLTQAELAKRVGISQQSLQKIEDGRTQ-NPRKLLNLAKALDCDAEW 59

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDG 100
               +     + +S   N     ++ + 
Sbjct: 60  LLLGTACEVRESASSYTNNNSASTSLET 87


>gi|223932874|ref|ZP_03624870.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
 gi|223898455|gb|EEF64820.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
          Length = 168

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 31/57 (54%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R    +SQ++L + LGI  + + ++E G + + + + Q +++  E  + + 
Sbjct: 2  NRLKELRQEKKLSQKELADYLGINEKTISRWENGESTIKSDKAQALADYFEVEVGYL 58


>gi|332365448|gb|EGJ43209.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK355]
          Length = 168

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 32/74 (43%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    D
Sbjct: 6  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLED 65

Query: 76 VSPTVCSDISSEEN 89
                  I SE+ 
Sbjct: 66 GDKPEIKSILSEDE 79


>gi|325262256|ref|ZP_08128994.1| putative helix-turn-helix protein [Clostridium sp. D5]
 gi|324033710|gb|EGB94987.1| putative helix-turn-helix protein [Clostridium sp. D5]
          Length = 197

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 33/56 (58%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VGK I   R   GM+Q+ L + + I+ + + K+E+GV     S L+ +S++LE  +
Sbjct: 6  VGKLILTLRQEKGMTQKALADAMNISDRTISKWERGVGCPDVSLLRGLSDILEVDV 61


>gi|228906769|ref|ZP_04070639.1| hypothetical protein bthur0013_9460 [Bacillus thuringiensis IBL
          200]
 gi|228852885|gb|EEM97669.1| hypothetical protein bthur0013_9460 [Bacillus thuringiensis IBL
          200]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 31/76 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++ +  I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFDITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKKLA 80


>gi|229010434|ref|ZP_04167638.1| hypothetical protein bmyco0001_8940 [Bacillus mycoides DSM 2048]
 gi|228750854|gb|EEM00676.1| hypothetical protein bmyco0001_8940 [Bacillus mycoides DSM 2048]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|160935696|ref|ZP_02083071.1| hypothetical protein CLOBOL_00586 [Clostridium bolteae ATCC
          BAA-613]
 gi|158441440|gb|EDP19150.1| hypothetical protein CLOBOL_00586 [Clostridium bolteae ATCC
          BAA-613]
          Length = 112

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 35/62 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++  R+ +G +Q+++ + LG+T      YE G  +   ++L+ ++ +L +  SF  + 
Sbjct: 5  EQLKKARVSMGYTQQQVADALGLTASTYCGYETGKRQPDVAKLKQLARILNTTGSFLLET 64

Query: 77 SP 78
           P
Sbjct: 65 EP 66


>gi|163938942|ref|YP_001643826.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|163861139|gb|ABY42198.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|313901693|ref|ZP_07835124.1| transcriptional regulator, XRE family [Thermaerobacter
          subterraneus DSM 13965]
 gi|313468044|gb|EFR63527.1| transcriptional regulator, XRE family [Thermaerobacter
          subterraneus DSM 13965]
          Length = 216

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 32/77 (41%), Gaps = 3/77 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          + VGKRIR  R   G+S   L    G++   + + E     +     +  I+  LE  ++
Sbjct: 1  MEVGKRIRDLRRQRGISLRDLARRSGVSKAYLSQLENDPARKPSVDVVLRIAAALEVDLA 60

Query: 72 FFFDVSPTVCSDISSEE 88
              V P    D + E+
Sbjct: 61 EL--VGPATVGDGAGEQ 75


>gi|295090228|emb|CBK76335.1| Helix-turn-helix. [Clostridium cf. saccharolyticum K10]
          Length = 136

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 40/76 (52%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESPIS 71
          +  G++++  R  LG++Q++L E +G+T + +  YE   +R  G  R + ++E L   ++
Sbjct: 1  MTFGEKVKAERTKLGLNQDELAEKIGVTRRVICSYENDKSRPRGTERYKKLAEALNVNVN 60

Query: 72 FFFDVSPTVCSDISSE 87
          +         +D+  +
Sbjct: 61 YLLSEDDAFIADVEDK 76


>gi|226324586|ref|ZP_03800104.1| hypothetical protein COPCOM_02370 [Coprococcus comes ATCC 27758]
 gi|225207034|gb|EEG89388.1| hypothetical protein COPCOM_02370 [Coprococcus comes ATCC 27758]
          Length = 179

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 36/76 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G+++R  R+   ++QE+L +   ++   + + E+ +     + L  I + L + ++ 
Sbjct: 1  MNIGQKVRELRIAKNLTQEELADRSELSKGFISQLERDLTSPSIATLVDILQCLGTNLNE 60

Query: 73 FFDVSPTVCSDISSEE 88
          FF            E+
Sbjct: 61 FFSDDEEEQVVFGDED 76


>gi|217965166|ref|YP_002350844.1| DNA-binding protein [Listeria monocytogenes HCC23]
 gi|217334436|gb|ACK40230.1| DNA-binding protein [Listeria monocytogenes HCC23]
 gi|307570274|emb|CAR83453.1| DNA-binding protein [Listeria monocytogenes L99]
          Length = 169

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 34/55 (61%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 4  ENIKAIRKSKGLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|206968183|ref|ZP_03229139.1| hypothetical protein BCAH1134_1096 [Bacillus cereus AH1134]
 gi|229177566|ref|ZP_04304944.1| hypothetical protein bcere0005_9330 [Bacillus cereus 172560W]
 gi|206737103|gb|EDZ54250.1| hypothetical protein BCAH1134_1096 [Bacillus cereus AH1134]
 gi|228605928|gb|EEK63371.1| hypothetical protein bcere0005_9330 [Bacillus cereus 172560W]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E L ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKLHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|38232985|ref|NP_938752.1| putative regulatory protein [Corynebacterium diphtheriae NCTC
          13129]
 gi|38199243|emb|CAE48874.1| Putative regulatory protein [Corynebacterium diphtheriae]
          Length = 474

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 33/86 (38%), Gaps = 6/86 (6%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+R  R    ++Q  L E LGI+   + + E  V  +    L+ I+       +FF
Sbjct: 5  YVGSRLRQLRKERDLTQAALAELLGISASYINQIEHDVRPLTPQVLRKITASFGVDATFF 64

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
                   D S     + D +   +
Sbjct: 65 ------SRDDSSRLIAELHDVMFDKE 84


>gi|16802775|ref|NP_464260.1| hypothetical protein lmo0733 [Listeria monocytogenes EGD-e]
 gi|47095298|ref|ZP_00232909.1| DNA-binding protein [Listeria monocytogenes str. 1/2a F6854]
 gi|224499603|ref|ZP_03667952.1| hypothetical protein LmonF1_07864 [Listeria monocytogenes Finland
          1988]
 gi|224501962|ref|ZP_03670269.1| hypothetical protein LmonFR_05517 [Listeria monocytogenes FSL
          R2-561]
 gi|254828817|ref|ZP_05233504.1| DNA-binding protein [Listeria monocytogenes FSL N3-165]
 gi|254830277|ref|ZP_05234932.1| hypothetical protein Lmon1_02912 [Listeria monocytogenes 10403S]
 gi|254900031|ref|ZP_05259955.1| hypothetical protein LmonJ_09460 [Listeria monocytogenes J0161]
 gi|254911416|ref|ZP_05261428.1| conserved hypothetical protein [Listeria monocytogenes J2818]
 gi|254935743|ref|ZP_05267440.1| DNA-binding protein [Listeria monocytogenes F6900]
 gi|255028966|ref|ZP_05300917.1| hypothetical protein LmonL_06926 [Listeria monocytogenes LO28]
 gi|284801064|ref|YP_003412929.1| hypothetical protein LM5578_0813 [Listeria monocytogenes 08-5578]
 gi|284994206|ref|YP_003415974.1| hypothetical protein LM5923_0768 [Listeria monocytogenes 08-5923]
 gi|16410122|emb|CAC98811.1| lmo0733 [Listeria monocytogenes EGD-e]
 gi|47016369|gb|EAL07291.1| DNA-binding protein [Listeria monocytogenes str. 1/2a F6854]
 gi|258601229|gb|EEW14554.1| DNA-binding protein [Listeria monocytogenes FSL N3-165]
 gi|258608327|gb|EEW20935.1| DNA-binding protein [Listeria monocytogenes F6900]
 gi|284056626|gb|ADB67567.1| hypothetical protein LM5578_0813 [Listeria monocytogenes 08-5578]
 gi|284059673|gb|ADB70612.1| hypothetical protein LM5923_0768 [Listeria monocytogenes 08-5923]
 gi|293589357|gb|EFF97691.1| conserved hypothetical protein [Listeria monocytogenes J2818]
          Length = 169

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 34/55 (61%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 4  ENIKAIRKSKGLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|301299974|ref|ZP_07206200.1| helix-turn-helix protein [Lactobacillus salivarius
          ACS-116-V-Col5a]
 gi|300852429|gb|EFK80087.1| helix-turn-helix protein [Lactobacillus salivarius
          ACS-116-V-Col5a]
          Length = 119

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 36/69 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++  R+  G++++ L +  GI+ Q +  YE G    G+  L  I +VL+ P ++F   
Sbjct: 8  EKLKEARISRGLTKKALADRTGISRQMISNYELGKTNPGSKNLLSIIKVLDFPFTYFTAE 67

Query: 77 SPTVCSDIS 85
          S T     +
Sbjct: 68 SKTFYEGTT 76


>gi|254993818|ref|ZP_05276008.1| DNA-binding protein [Listeria monocytogenes FSL J2-064]
          Length = 169

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 34/55 (61%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 4  ENIKAIRKSKGLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|206562126|ref|YP_002232889.1| putative repressor protein [Burkholderia cenocepacia J2315]
 gi|198038166|emb|CAR54117.1| putative repressor protein [Burkholderia cenocepacia J2315]
          Length = 111

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/83 (26%), Positives = 38/83 (45%), Gaps = 4/83 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR+R  R+  G+SQE+LG   GI       +V +YE G +         ++ VL  P SF
Sbjct: 13 KRLREARLRSGLSQEQLGIEAGIDEFSASARVNQYETGKHAPKLQTAHRLARVLHVPTSF 72

Query: 73 FFDVSPTVCSDISSEENNVMDFI 95
           ++ +  +   + +      D +
Sbjct: 73 LYEGNDLLARLLVAAAPLPQDSL 95


>gi|146299913|ref|YP_001194504.1| XRE family plasmid maintenance system antidote protein
          [Flavobacterium johnsoniae UW101]
 gi|146154331|gb|ABQ05185.1| plasmid maintenance system antidote protein, XRE family
          [Flavobacterium johnsoniae UW101]
          Length = 136

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++G+ I   R + GM QE L   +G+T Q V   E G   +   +L  I+EVL   
Sbjct: 8  KHIGRNISRIRELRGMKQEALAFAIGVTQQTVSNIE-GSETIEDDKLDAIAEVLGVS 63


>gi|47091696|ref|ZP_00229492.1| DNA-binding protein [Listeria monocytogenes str. 4b H7858]
 gi|254853835|ref|ZP_05243183.1| DNA-binding protein [Listeria monocytogenes FSL R2-503]
 gi|254933600|ref|ZP_05266959.1| DNA-binding protein [Listeria monocytogenes HPB2262]
 gi|255521409|ref|ZP_05388646.1| hypothetical protein LmonocFSL_09325 [Listeria monocytogenes FSL
          J1-175]
 gi|300765051|ref|ZP_07075038.1| hypothetical protein LMHG_11766 [Listeria monocytogenes FSL
          N1-017]
 gi|47020015|gb|EAL10752.1| DNA-binding protein [Listeria monocytogenes str. 4b H7858]
 gi|258607218|gb|EEW19826.1| DNA-binding protein [Listeria monocytogenes FSL R2-503]
 gi|293585163|gb|EFF97195.1| DNA-binding protein [Listeria monocytogenes HPB2262]
 gi|300514176|gb|EFK41236.1| hypothetical protein LMHG_11766 [Listeria monocytogenes FSL
          N1-017]
 gi|328467297|gb|EGF38377.1| hypothetical protein LM1816_00625 [Listeria monocytogenes 1816]
 gi|328475606|gb|EGF46359.1| hypothetical protein LM220_07617 [Listeria monocytogenes 220]
 gi|332311156|gb|EGJ24251.1| DNA-binding protein [Listeria monocytogenes str. Scott A]
          Length = 169

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 34/55 (61%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+P+S
Sbjct: 4  ENIKAIRKSKGLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETPVS 58


>gi|327473016|gb|EGF18443.1| XRE family transcriptional regulator [Streptococcus sanguinis
           SK408]
          Length = 158

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 31/67 (46%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R   G++Q+++ E  GI     Q++E G  + G   L+  ++     I +    
Sbjct: 42  ERLKELRKEAGLTQKQIAEKFGIKQPNYQQWESGKRKPGEETLKKFADFFNVSIDYLLGK 101

Query: 77  SPTVCSD 83
           +    SD
Sbjct: 102 TDNKKSD 108


>gi|255527936|ref|ZP_05394778.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|255508363|gb|EET84761.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
          Length = 183

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 36/85 (42%), Gaps = 3/85 (3%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          NP+   + + ++  R+   +S  +L E  G++   + + EKG +    + +  I++ L  
Sbjct: 4  NPI---IAENLKRLRLERNLSLGQLAELSGVSKVMLSQIEKGDSNPTINTVWKIAKGLNV 60

Query: 69 PISFFFDVSPTVCSDISSEENNVMD 93
          P +   D      S +   E    +
Sbjct: 61 PYTVLIDKHEDETSVVKKSEAEYQN 85


>gi|331268175|ref|YP_004385884.1| putative prophage repressor [Clostridium botulinum BKT015925]
 gi|329127725|gb|AEB77665.1| putative prophage repressor [Clostridium botulinum BKT015925]
          Length = 108

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/108 (18%), Positives = 47/108 (43%), Gaps = 7/108 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +RI+  R + G++Q    + LG++   +   EKGV  +    +  I  +     ++  + 
Sbjct: 3   ERIKELRKLKGLNQSTFAKSLGLSQNHISSIEKGVRGLTTRTINDICRIYNVSPNWLING 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           +  +  D +          +  +  +    F+Q+ D + +Q II+L +
Sbjct: 63  TGDIFIDTTE------QLYTNNEVKEFIEMFLQL-DKETQQLIIQLTK 103


>gi|322805848|emb|CBZ03413.1| DNA-binding protein; possible transcriptional regulator
          [Clostridium botulinum H04402 065]
          Length = 370

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ I   R    ++QE+L   +G++   V K+E G +    + L  I+ +    I  
Sbjct: 4  LLIGEVIYRLRKEKAITQEQLANFVGVSTAAVSKWESGASYPDITLLPVIATLFNVTIDT 63

Query: 73 FFDVSPTVCSD 83
            +    + ++
Sbjct: 64 LLNFKIELSNE 74


>gi|239928289|ref|ZP_04685242.1| UDP-N-acetylglucosamine transferase [Streptomyces ghanaensis ATCC
          14672]
 gi|291436618|ref|ZP_06576008.1| UDP-N-acetylglucosamine transferase [Streptomyces ghanaensis ATCC
          14672]
 gi|291339513|gb|EFE66469.1| UDP-N-acetylglucosamine transferase [Streptomyces ghanaensis ATCC
          14672]
          Length = 509

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +G+ IR  R   G +Q +L E LG +   V + E+G   +    +  I E L
Sbjct: 1  MADDYLVRIGRLIRDARQHRGWTQAQLAEALGTSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|229029542|ref|ZP_04185622.1| hypothetical protein bcere0028_16320 [Bacillus cereus AH1271]
 gi|228731741|gb|EEL82643.1| hypothetical protein bcere0028_16320 [Bacillus cereus AH1271]
          Length = 95

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 30/56 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +++G++++  R   G SQE + + +G+T Q V K+E   +      L  +SE+   
Sbjct: 19 MSLGQQLKRLRESKGFSQEDVAKKIGVTRQAVYKWEHDKSCPDIDNLILLSEMYNV 74


>gi|225863714|ref|YP_002749092.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|225789773|gb|ACO29990.1| DNA-binding protein [Bacillus cereus 03BB102]
          Length = 77

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 30/56 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +++G++++  R   G SQE + + +G+T Q V K+E   +      L  +SE+   
Sbjct: 1  MSLGQQLKRLRESKGFSQEDVAKKIGVTRQAVYKWEHDKSCPDIDNLILLSEMYNV 56


>gi|239828436|ref|YP_002951060.1| XRE family transcriptional regulator [Geobacillus sp. WCH70]
 gi|239808729|gb|ACS25794.1| transcriptional regulator, XRE family [Geobacillus sp. WCH70]
          Length = 137

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 32/61 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++++  R     +QE+L + L I+  Q+ K+E G        LQ +S + +  + F
Sbjct: 3  MNLGEKLKYLRKQHNWTQEQLAQHLNISRSQISKWENGDLLPDVQSLQKLSNLYKVSVDF 62

Query: 73 F 73
           
Sbjct: 63 L 63


>gi|238797081|ref|ZP_04640584.1| hypothetical protein ymoll0001_2450 [Yersinia mollaretii ATCC
          43969]
 gi|238719126|gb|EEQ10939.1| hypothetical protein ymoll0001_2450 [Yersinia mollaretii ATCC
          43969]
          Length = 109

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 41/75 (54%), Gaps = 5/75 (6%)

Query: 12 DINV-GKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + ++  +R++  R++ G+SQ+ LG   G    +   ++ +YEKGV+       +H++E L
Sbjct: 7  NRHIFSQRLKDARLLRGLSQKGLGIAAGIDEFVASARINRYEKGVHEANLVTAKHLAEAL 66

Query: 67 ESPISFFFDVSPTVC 81
            P+++F+     + 
Sbjct: 67 NIPLAYFYADDDNLA 81


>gi|162449406|ref|YP_001611773.1| putative regulator of molybdate uptake [Sorangium cellulosum 'So ce
           56']
 gi|161159988|emb|CAN91293.1| putative regulator of molybdate uptake [Sorangium cellulosum 'So ce
           56']
          Length = 371

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 25/135 (18%), Positives = 50/135 (37%), Gaps = 17/135 (12%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R+R RR   G+SQ  L E   +T Q V   E G           ++  L+  +   F  
Sbjct: 10  NRVRERREARGLSQVALAERARLTRQSVGAIEAGRATPAVDVALRLASALDCSVEVLF-G 68

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNR--YFIQIDDVKVR-------------QKIIE 121
            P+  +D+++E +              +R   +  ++   VR             + ++E
Sbjct: 69  EPSAVADLATETDAPAALGRAAVARIADRWVSYP-LEQDAVRVAADGIVTGERRGRAVVE 127

Query: 122 LVRSIVSSEKKYRTI 136
            +R++   E+    +
Sbjct: 128 PLRALAEVEENVVVM 142


>gi|326390754|ref|ZP_08212307.1| helix-turn-helix domain protein [Thermoanaerobacter ethanolicus JW
           200]
 gi|325993148|gb|EGD51587.1| helix-turn-helix domain protein [Thermoanaerobacter ethanolicus JW
           200]
          Length = 130

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/117 (18%), Positives = 48/117 (41%), Gaps = 8/117 (6%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R    ++Q  L + LGI+   +  YE          L+ I++     I +    +
Sbjct: 6   RLKELRKEKNLTQGDLAKILGISRSTIAGYETERKEPDYETLKKIADFFNVSIDYLLGRT 65

Query: 78  P-----TVCSDISSEENNVMDFIST-PDGLQLNRYFIQID--DVKVRQKIIELVRSI 126
                    ++  S++  + +F +T  +   L   F Q      K  ++II ++++I
Sbjct: 66  DIRSPVDEITEAVSDDPELFEFWNTLKEREDLKLLFKQTKKLSPKDIKQIIRIIKAI 122


>gi|294631998|ref|ZP_06710558.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. e14]
 gi|292835331|gb|EFF93680.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. e14]
          Length = 509

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 31/64 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L
Sbjct: 1  MADDYLVRIGKLIRDARQHRGWTQAQLAEALGTSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|196041265|ref|ZP_03108560.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|196027973|gb|EDX66585.1| DNA-binding protein [Bacillus cereus NVH0597-99]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/118 (20%), Positives = 51/118 (43%), Gaps = 10/118 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G++++  R   G SQE + + +G+T Q V K+E   +      L  +SE+    +  
Sbjct: 1   MSLGEQLKKLRESKGFSQEDVAKKIGVTRQAVYKWENDKSYPDIDNLILLSEMYNVTLDE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPD-------GLQLNRYFIQIDDVKVRQKIIELV 123
               +  +   I   E +  DF    +       GL +   F  ID   +++ ++ + 
Sbjct: 61  LIKGNQNIKEKIHINEED-EDFEKENEFGFYIGFGLLIMSAF--IDYEGIQKMLLGIA 115


>gi|325567313|ref|ZP_08143980.1| DNA-binding protein [Enterococcus casseliflavus ATCC 12755]
 gi|325158746|gb|EGC70892.1| DNA-binding protein [Enterococcus casseliflavus ATCC 12755]
          Length = 284

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G++I  +R    ++Q  L + L +++Q V  +E+G +     +L  ++ +L   I 
Sbjct: 7  RKIGQQIATKRKEKNLTQSNLADQLLVSYQAVSNWERGNSLPDIEKLPQLAAILGLSID 65


>gi|289705735|ref|ZP_06502119.1| helix-turn-helix domain-containing protein [Micrococcus luteus
           SK58]
 gi|289557575|gb|EFD50882.1| helix-turn-helix domain-containing protein [Micrococcus luteus
           SK58]
          Length = 476

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 25/130 (19%), Positives = 53/130 (40%), Gaps = 12/130 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+R+R  R   G++ ++L E  G++   +   E        S +Q I+EVL  P+  
Sbjct: 4   VALGRRVRHLRKQAGLTLDQLAERTGVSGSHLSLVENARREPRLSLVQRIAEVLGVPVE- 62

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR---QKIIELVRSIVSS 129
             D+         +E    ++  +  +      ++  +    +R   +   E++  I   
Sbjct: 63  --DLLTGRAPTRRAELEIEVERFARSE------HYASLGLPPLRIGPRTPTEVLEVIAGL 114

Query: 130 EKKYRTIEEE 139
           E + R   EE
Sbjct: 115 EAELRRRLEE 124


>gi|239916764|ref|YP_002956322.1| predicted transcriptional regulator [Micrococcus luteus NCTC 2665]
 gi|281414779|ref|ZP_06246521.1| predicted transcriptional regulator [Micrococcus luteus NCTC 2665]
 gi|239837971|gb|ACS29768.1| predicted transcriptional regulator [Micrococcus luteus NCTC 2665]
          Length = 488

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 25/130 (19%), Positives = 53/130 (40%), Gaps = 12/130 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+R+R  R   G++ ++L E  G++   +   E        S +Q I+EVL  P+  
Sbjct: 16  VALGRRVRHLRKQAGLTLDQLAERTGVSGSHLSLVENARREPRLSLVQRIAEVLGVPVE- 74

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR---QKIIELVRSIVSS 129
             D+         +E    ++  +  +      ++  +    +R   +   E++  I   
Sbjct: 75  --DLLTGRAPTRRAELEIEVERFARSE------HYASLGLPPLRIGPRTPTEVLEVIAGL 126

Query: 130 EKKYRTIEEE 139
           E + R   EE
Sbjct: 127 EAELRRRLEE 136


>gi|152977534|ref|YP_001377051.1| helix-turn-helix domain-containing protein [Bacillus cereus
          subsp. cytotoxis NVH 391-98]
 gi|114152691|gb|ABI52595.1| PlcR [Bacillus cytotoxicus]
 gi|119380976|gb|ABL73864.1| PlcR [Bacillus cytotoxicus]
 gi|152026286|gb|ABS24056.1| helix-turn-helix domain protein [Bacillus cytotoxicus NVH 391-98]
          Length = 288

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 34/62 (54%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI+ F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPITHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|313902610|ref|ZP_07836010.1| transcriptional regulator of molybdate metabolism, XRE family
           [Thermaerobacter subterraneus DSM 13965]
 gi|313467176|gb|EFR62690.1| transcriptional regulator of molybdate metabolism, XRE family
           [Thermaerobacter subterraneus DSM 13965]
          Length = 456

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 26/68 (38%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V  R+R  R  LG+SQ +L    G++ Q +   E G      +    ++  L   +   F
Sbjct: 55  VASRLREARRRLGLSQRELAVRAGVSRQAIGAIEAGRMTPSLAVAMRLARALGCRVEDLF 114

Query: 75  DVSPTVCS 82
            +      
Sbjct: 115 RLDEPAPE 122


>gi|229171786|ref|ZP_04299358.1| hypothetical protein bcere0006_9040 [Bacillus cereus MM3]
 gi|228611683|gb|EEK68933.1| hypothetical protein bcere0006_9040 [Bacillus cereus MM3]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|228475837|ref|ZP_04060551.1| DNA-binding protein [Staphylococcus hominis SK119]
 gi|314937266|ref|ZP_07844610.1| DNA-binding protein [Staphylococcus hominis subsp. hominis C80]
 gi|228270113|gb|EEK11573.1| DNA-binding protein [Staphylococcus hominis SK119]
 gi|313654620|gb|EFS18368.1| DNA-binding protein [Staphylococcus hominis subsp. hominis C80]
          Length = 118

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/109 (19%), Positives = 39/109 (35%), Gaps = 16/109 (14%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+  R +   SQ++L + L ++ Q V K+E G N      L  +S++    +        
Sbjct: 7   IKKYRKLNNWSQDELADILNVSRQSVSKWESGKNYPSLDILVVMSDLFGVTLDQLVKGDI 66

Query: 79  TVCSDISSEE----------NNVMDFIST------PDGLQLNRYFIQID 111
            +   I + +            +  F++       P G  L   F  I 
Sbjct: 67  ELKKQILNGDYHDGAYKRRPTTMAGFLADYWWTIFPVGGFLVWAFYAIS 115


>gi|226304066|ref|YP_002764024.1| Xre family DNA-binding protein [Rhodococcus erythropolis PR4]
 gi|226183181|dbj|BAH31285.1| putative Xre family DNA-binding protein [Rhodococcus erythropolis
          PR4]
          Length = 214

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 34/81 (41%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          +   K+   PV   +G R++  R    ++ + L E  G+T   + K E+       + L 
Sbjct: 4  VAKAKEAVEPVGPRIGARLKAARQSKRLTLDDLAEACGVTKGYLSKLERDHVNASVATLI 63

Query: 61 HISEVLESPISFFFDVSPTVC 81
           +  VLE P+   F+ +    
Sbjct: 64 KVCAVLEIPVGSLFENASAGE 84


>gi|92112332|ref|YP_572260.1| XRE family transcriptional regulator [Chromohalobacter salexigens
          DSM 3043]
 gi|91795422|gb|ABE57561.1| transcriptional regulator, XRE family with cupin sensor protein
          [Chromohalobacter salexigens DSM 3043]
          Length = 190

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 36/80 (45%), Gaps = 3/80 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++V   +R  R    +SQ+ L E  G++ + +   EKG   V  S L  ++E L      
Sbjct: 16 VHVAANVRRLRQGASLSQQALAERAGVSRRMLVNIEKGDVNVSLSTLDRLAEALGV---L 72

Query: 73 FFDVSPTVCSDISSEENNVM 92
          F+ +     S+ S+  + V 
Sbjct: 73 FYALVQPPGSEDSARIDEVA 92


>gi|291560620|emb|CBL39420.1| Predicted transcriptional regulators [butyrate-producing bacterium
           SSC/2]
          Length = 130

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 31/130 (23%), Positives = 49/130 (37%), Gaps = 21/130 (16%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF---- 73
           R+   R  L ++QE  G+ LG+T   + + EKG   +    +  I         +F    
Sbjct: 4   RLHHLRKTLKLNQEDFGKRLGVTGASISRLEKGERNITEQMILSICREFNVSEDWFRYEK 63

Query: 74  ---F----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII----EL 122
              F    D    + S +  E N   D I     L +   F  + D K ++ I     +L
Sbjct: 64  GEMFLSVEDEVSEMVSHLLDESNPFYDMI-----LDIMHTFNNL-DDKGQEIICNFTADL 117

Query: 123 VRSIVSSEKK 132
            + I   EKK
Sbjct: 118 AKRIAEKEKK 127


>gi|302554854|ref|ZP_07307196.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          viridochromogenes DSM 40736]
 gi|302472472|gb|EFL35565.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          viridochromogenes DSM 40736]
          Length = 509

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +G+ IR  R   G +Q +L E LG +   V + E+G   +    +  I E L
Sbjct: 1  MADDYLVRIGRLIRDARQHRGWTQSQLAEALGTSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|257785053|ref|YP_003180270.1| transcriptional regulator, XRE family [Atopobium parvulum DSM
          20469]
 gi|257473560|gb|ACV51679.1| transcriptional regulator, XRE family [Atopobium parvulum DSM
          20469]
          Length = 364

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/91 (20%), Positives = 39/91 (42%), Gaps = 6/91 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I   R   G SQE+L   L ++ Q V K+E   +     ++  +SE+      +
Sbjct: 1  MLLSEKIMSLRKRNGWSQEELARQLNVSRQSVSKWESMASMPDIQKIMTMSELFGVSTDY 60

Query: 73 F----FDVSPTVCSDISSEENNVMDFISTPD 99
                +  P   + + S E +     +TP+
Sbjct: 61 LLKDEMEDLPATAASLDSAETSSES--ATPE 89


>gi|315283384|ref|ZP_07871592.1| DNA-binding protein [Listeria marthii FSL S4-120]
 gi|313612974|gb|EFR86908.1| DNA-binding protein [Listeria marthii FSL S4-120]
          Length = 118

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/107 (18%), Positives = 40/107 (37%), Gaps = 18/107 (16%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+++   R    ++Q++L   +G T   + KYE   +R     L  ++E+L +   F  D
Sbjct: 7   GEKLIHLRKKNRLTQKQLAVKIGTTASTISKYENDNHRPPIFILAKLAEILGTTTDFLLD 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
               +    S                     F  I + ++ +  +EL
Sbjct: 67  DVAGLREKNS------------------VNAFPLIGNPELEKWYLEL 95


>gi|153581899|emb|CAM34257.1| phage repressor protein [Streptococcus pyogenes]
 gi|262113712|emb|CAR95379.1| hypothetical protein [Streptococcus phage phi-m46.1]
          Length = 229

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 30/58 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R++ +R+    +Q ++   LGI      K+E G +      L  ++ +L+ P+++F
Sbjct: 4  GIRLKEKRIERKFNQSEIAYKLGINRASYNKWESGKSVPNQKNLTALATILDVPVTYF 61


>gi|149914665|ref|ZP_01903195.1| hypothetical protein RAZWK3B_13769 [Roseobacter sp. AzwK-3b]
 gi|149811458|gb|EDM71293.1| hypothetical protein RAZWK3B_13769 [Roseobacter sp. AzwK-3b]
          Length = 210

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 28/57 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+ +R  R   GM+   L E  G++   + K E GV     + LQ +S  L  P++
Sbjct: 25 IGREVREVRHARGMTVADLAEATGLSVGMLSKIENGVTSPSLTTLQALSSALSVPVT 81


>gi|332204509|gb|EGJ18574.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA47901]
          Length = 290

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 45/89 (50%), Gaps = 4/89 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +  R++ +R  L +SQ++L E  GI  Q Q+ + E+G    G+  L  +S+ L+  + 
Sbjct: 3  MLLATRLKNKRKELKLSQKELAE--GICEQGQISRMEQGKYSPGSELLFQLSKRLKVSMD 60

Query: 72 FFFDVSP-TVCSDISSEENNVMDFISTPD 99
          +FF+ +  +   +I   +     F+   +
Sbjct: 61 YFFEDTEVSSLENIDKFKELSKKFLDERE 89


>gi|327490803|gb|EGF22584.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1058]
          Length = 120

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 31/67 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R   G++Q+++ E  GI     Q++E G  + G   L+  ++     I +    
Sbjct: 4  ERLKELRKEAGLTQKQIAEKFGIKQPNYQQWESGKRKPGEETLKKFADFFNVSIDYLLGK 63

Query: 77 SPTVCSD 83
          +    SD
Sbjct: 64 TDNKKSD 70


>gi|257065284|ref|YP_003144956.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
 gi|256792937|gb|ACV23607.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
          Length = 200

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 33/77 (42%), Gaps = 2/77 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G++++  R    ++QE+L E L ++   V K+E G        L+ +S      I  
Sbjct: 1  MEFGEKLQELRKARSLTQEQLAEALYVSRTAVSKWESGRGYPSIDSLKEVSRFFSVTIDE 60

Query: 73 FFDVSPTVCSDISSEEN 89
             +SP     ++  E 
Sbjct: 61 L--ISPDEVVSVAQAER 75


>gi|228919863|ref|ZP_04083219.1| hypothetical protein bthur0011_8830 [Bacillus thuringiensis
          serovar huazhongensis BGSC 4BD1]
 gi|228839764|gb|EEM85049.1| hypothetical protein bthur0011_8830 [Bacillus thuringiensis
          serovar huazhongensis BGSC 4BD1]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E L ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKLHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|229160788|ref|ZP_04288779.1| Transcriptional regulator, MerR [Bacillus cereus R309803]
 gi|228622636|gb|EEK79471.1| Transcriptional regulator, MerR [Bacillus cereus R309803]
          Length = 181

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 46/110 (41%), Gaps = 8/110 (7%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
           +I++GK+I  +R   G++ ++L     IT   + + E+G        L+ +++ L+ P  
Sbjct: 3   NIDIGKKIEKQRKEKGLTSKELARMAEITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71  SFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDV 113
           SF  + + T    + S        +N   + +S      L    + I   
Sbjct: 63  SFLLEETNTDDLIVRSHKRKKMIIDNLSYEMLSPDFTGNLATAIMTIPPN 112


>gi|222530394|ref|YP_002574276.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
          DSM 6725]
 gi|222457241|gb|ACM61503.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          bescii DSM 6725]
          Length = 105

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 33/87 (37%), Gaps = 2/87 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGKRI+  R   G+S  KL +  G+    +   E G        +  I   L+  +  FF
Sbjct: 4  VGKRIKELREKCGLSMSKLAKIAGVGQSTLSYIENGERNPTIDVIIKICNALDITLVEFF 63

Query: 75 --DVSPTVCSDISSEENNVMDFISTPD 99
            +  P + S    E       +S  +
Sbjct: 64 GGEEKPHMESPKLQELLVYAKKLSEKE 90


>gi|167904497|ref|ZP_02491702.1| helix-turn-helix domain protein [Burkholderia pseudomallei NCTC
           13177]
          Length = 111

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/104 (25%), Positives = 51/104 (49%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+ I  +R+   ++QE + E LGI  + V + E+GV      RL  ++++ E   +   
Sbjct: 2   VGRAIAKQRIACDLTQEAVAERLGIGLEAVSRMERGVVIPTVVRLFELADIFECDAADLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
             + +  SD +S  N ++  +ST D   L   F ++     R++
Sbjct: 62  TEASSRSSDQASHLNRLLSRLSTADRTLLLEVFERLSTRLSRRQ 105


>gi|153941295|ref|YP_001390879.1| putative DNA-binding protein [Clostridium botulinum F str.
          Langeland]
 gi|152937191|gb|ABS42689.1| putative DNA-binding protein [Clostridium botulinum F str.
          Langeland]
 gi|295318944|gb|ADF99321.1| putative DNA-binding protein [Clostridium botulinum F str.
          230613]
          Length = 370

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 30/71 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ I   R    ++QE+L   +G++   V K+E G +    + L  I+      I  
Sbjct: 4  LLIGEVIYRLRKEKAITQEQLANFVGVSTAAVSKWESGASYPDITLLPVIAAFFNVTIDT 63

Query: 73 FFDVSPTVCSD 83
            +    +  +
Sbjct: 64 LLNFKIELSDE 74


>gi|70726855|ref|YP_253769.1| hypothetical protein SH1854 [Staphylococcus haemolyticus
          JCSC1435]
 gi|68447579|dbj|BAE05163.1| unnamed protein product [Staphylococcus haemolyticus JCSC1435]
          Length = 179

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 32/81 (39%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G ++R  R    ++QE+L E   ++   + + E            +I EVL +  S 
Sbjct: 1  MQIGNKLRNLRRQKNLTQEELAERTDLSKGYISQIESQHASPSMETFLNILEVLGTSPSD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF          +  E  + D
Sbjct: 61 FFKEKSKEKVLYTKNERTIYD 81


>gi|75764621|ref|ZP_00744064.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228899709|ref|ZP_04063958.1| hypothetical protein bthur0014_9250 [Bacillus thuringiensis IBL
          4222]
 gi|74487893|gb|EAO51666.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228859941|gb|EEN04352.1| hypothetical protein bthur0014_9250 [Bacillus thuringiensis IBL
          4222]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 31/76 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++ +  I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFDITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKKLA 80


>gi|325697266|gb|EGD39152.1| Cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK160]
          Length = 167

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 33/74 (44%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    +
Sbjct: 6  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLEE 65

Query: 76 VSPTVCSDISSEEN 89
                + + SE+ 
Sbjct: 66 SDKPEINPVLSEDE 79


>gi|238798765|ref|ZP_04642236.1| Predicted transcriptional regulator [Yersinia mollaretii ATCC
           43969]
 gi|238717397|gb|EEQ09242.1| Predicted transcriptional regulator [Yersinia mollaretii ATCC
           43969]
          Length = 279

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 44/93 (47%), Gaps = 2/93 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + V   I+  R+ L ++Q +L   +G + QQ+Q+ E G         Q I  VL+ P++ 
Sbjct: 15  VMVQNNIKQLRIQLSITQRELAAAVGTSQQQIQRIETGKVAARLEVAQAICSVLKKPLNV 74

Query: 73  FFDVSPTVCSDISSEENNVMDFIS--TPDGLQL 103
            F     +   +S + ++  D +     +G+++
Sbjct: 75  VFPNGDHMLRRLSDKRSSCDDDLGEMAKNGIEM 107


>gi|218290643|ref|ZP_03494734.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
 gi|218239308|gb|EED06506.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
          Length = 106

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 26/55 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+R+R  R +  M+Q  L   LG++   +   E+G  +  A  +  I+  L   +
Sbjct: 5  GRRLRAFRKLKHMTQADLARALGVSLATIGGIERGTRQPTAHLVSAIASALSVDV 59


>gi|90962618|ref|YP_536534.1| Cro/CI family transcriptional regulator [Lactobacillus salivarius
          UCC118]
 gi|90821812|gb|ABE00451.1| Transcriptional regulator, Cro/CI family [Lactobacillus
          salivarius UCC118]
 gi|300215223|gb|ADJ79639.1| Transcriptional regulator, Cro/CI family [Lactobacillus
          salivarius CECT 5713]
          Length = 267

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           RI+  R+    +Q+++ E L IT Q +  YE+G+        Q ++     P+S+ 
Sbjct: 2  NRIKELRVEKHKTQKEIAEFLNITEQALSYYERGLREPKLKTWQALANFFNVPVSYL 58


>gi|322375072|ref|ZP_08049586.1| putative helix-turn-helix protein [Streptococcus sp. C300]
 gi|321280572|gb|EFX57611.1| putative helix-turn-helix protein [Streptococcus sp. C300]
          Length = 165

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    + 
Sbjct: 5  EKLFELRKEKGWSQEKLAEQINVSRQSISKWESGQVLPEIEKIIELSKIFQVTTDYL 61


>gi|301066025|ref|YP_003788048.1| double-stranded beta-helix-like protein [Lactobacillus casei str.
           Zhang]
 gi|300438432|gb|ADK18198.1| Double-stranded beta-helix related protein [Lactobacillus casei
           str. Zhang]
          Length = 179

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 39/91 (42%), Gaps = 2/91 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G RIR  R+   ++QE+LGE   +T   + + E   +         I  VL    + 
Sbjct: 1   MEIGSRIRDLRIRKNLTQEELGERTDLTKGYISQVEHDQSSPSLETFFDILSVLGQSPAD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           FF   P     +   E++ + ++    G +L
Sbjct: 61  FFREEP--KDSLVYHEDDQVTYLDEEKGYRL 89


>gi|169334840|ref|ZP_02862033.1| hypothetical protein ANASTE_01246 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169257578|gb|EDS71544.1| hypothetical protein ANASTE_01246 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 132

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 35/61 (57%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  +G+ I   R    M+Q++L + L IT + V K+E+G++    S +  ++++L+   
Sbjct: 1  MDNEMGRLISSLRKEKNMTQQELADKLNITDKAVSKWERGLSYPDISLIPKLADILDIDP 60

Query: 71 S 71
          +
Sbjct: 61 N 61


>gi|167767683|ref|ZP_02439736.1| hypothetical protein CLOSS21_02218 [Clostridium sp. SS2/1]
 gi|167710700|gb|EDS21279.1| hypothetical protein CLOSS21_02218 [Clostridium sp. SS2/1]
          Length = 120

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 41/94 (43%), Gaps = 8/94 (8%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           NVGKR++  R   G +QE++ + L +T   +   E    ++    L + +++L   I + 
Sbjct: 18  NVGKRMKTLRKQAGYTQEQIADALDVTVAFISNIENDRVKMNLRVLSYYAKLLNVSIDYL 77

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
                       S+EN   D +   + L+L   F
Sbjct: 78  L--------RPESDENGEKDDVLNKEILRLLEKF 103


>gi|294509118|ref|YP_003566046.1| helix-turn-helix domain protein [Bacillus megaterium QM B1551]
 gi|294352042|gb|ADE72366.1| helix-turn-helix domain protein [Bacillus megaterium QM B1551]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 35/72 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++I   R  + ++Q++L E L +T Q + K+E  +    + +L  ++EVL     +   
Sbjct: 4  GEKIAKARREMNLTQDQLAEMLEVTRQTISKWESNLAYPESVKLGKLAEVLNVTCDYLLR 63

Query: 76 VSPTVCSDISSE 87
           +    +  S E
Sbjct: 64 ENQATSTSTSIE 75


>gi|229162632|ref|ZP_04290592.1| Prophage LambdaBa04, DNA-binding protein [Bacillus cereus R309803]
 gi|228620895|gb|EEK77761.1| Prophage LambdaBa04, DNA-binding protein [Bacillus cereus R309803]
          Length = 117

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 33/86 (38%), Gaps = 2/86 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R   G++QE+LG  L ++  Q+  YE  +       L  IS     P+   F  
Sbjct: 9   QNLKELRKSRGLTQEQLGSELNLSRNQINNYENKLFEPSMETLLQISSFFNVPLDTLFSG 68

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ 102
                  +   E  + +   T   L+
Sbjct: 69  YDQTKDTVL--EQALYEVQLTYGALE 92


>gi|227514760|ref|ZP_03944809.1| bacteriophage transcriptional regulator [Lactobacillus fermentum
          ATCC 14931]
 gi|227086869|gb|EEI22181.1| bacteriophage transcriptional regulator [Lactobacillus fermentum
          ATCC 14931]
          Length = 115

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 30/63 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G RI+  R    +SQ  LG+ +G++   V  +E       ++ +  ++E+ E    +
Sbjct: 12 VMIGARIKHLRKGRNLSQAMLGKYIGVSQTTVTAWETNRTEPSSTYVTKLAELFEVSTDY 71

Query: 73 FFD 75
            D
Sbjct: 72 LLD 74


>gi|255025462|ref|ZP_05297448.1| transcriptional repressor, putative [Listeria monocytogenes FSL
          J2-003]
          Length = 68

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 30/65 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K IR  R    M+Q+++ + L ++     +YE G     AS L  I++  +  I +  D 
Sbjct: 4  KNIRSIREDNDMTQQQMADLLNVSQNTYSQYETGKIEWTASTLIKIADYFDVSIDYLLDR 63

Query: 77 SPTVC 81
          + T  
Sbjct: 64 TKTTE 68


>gi|306828752|ref|ZP_07461944.1| XRE family transcriptional regulator [Streptococcus mitis ATCC
          6249]
 gi|304428930|gb|EFM32018.1| XRE family transcriptional regulator [Streptococcus mitis ATCC
          6249]
          Length = 165

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 31/69 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    
Sbjct: 5  EKLFELRKEKGWSQEKLAEQINVSRQSISKWESGQVLPEIEKIIELSKIFQVTTDYLLLD 64

Query: 77 SPTVCSDIS 85
            +  S  +
Sbjct: 65 ENSEKSSTA 73


>gi|296127941|ref|YP_003635191.1| transcriptional regulator, XRE family [Cellulomonas flavigena DSM
           20109]
 gi|296019756|gb|ADG72992.1| transcriptional regulator, XRE family [Cellulomonas flavigena DSM
           20109]
          Length = 488

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/138 (20%), Positives = 50/138 (36%), Gaps = 23/138 (16%)

Query: 11  VDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           VD  V G+R+R  R   GM+ + LG  +G    QV   E G      S L  ++E L   
Sbjct: 14  VDTLVLGRRVRHLRTARGMTLDDLGRAIGRAPSQVSMLENGHREPKLSLLAQVAEALGVE 73

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY-----FIQIDDVKV---RQKIIE 121
           +       P                      ++L R      F  +   +V   R    +
Sbjct: 74  LGDLLSTEPPTRRAALE--------------VELERAQRGPLFASLGVPQVKVGRSLPSD 119

Query: 122 LVRSIVSSEKKYRTIEEE 139
            + ++V+ +++ + +  E
Sbjct: 120 ALEALVALQEQVQRLLTE 137


>gi|218233356|ref|YP_002365796.1| hypothetical protein BCB4264_A1063 [Bacillus cereus B4264]
 gi|218161313|gb|ACK61305.1| hypothetical protein BCB4264_A1063 [Bacillus cereus B4264]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E L ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKLHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|119963185|ref|YP_949637.1| helix-turn-helix domain-containing protein [Arthrobacter
          aurescens TC1]
 gi|119950044|gb|ABM08955.1| putative Helix-turn-helix domain protein [Arthrobacter aurescens
          TC1]
          Length = 206

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 25/54 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G R+R  R   G + ++L E  G++ + +   E+G        L  IS+ L  
Sbjct: 18 IGARVRQERQNRGWTLDQLAEAAGVSRRMIINMEQGAANPSVGTLLRISDALGV 71


>gi|326795087|ref|YP_004312907.1| phage repressor like transcriptional regulator, XRE family
          [Marinomonas mediterranea MMB-1]
 gi|326545851|gb|ADZ91071.1| phage repressor like transcriptional regulator, XRE family
          [Marinomonas mediterranea MMB-1]
          Length = 216

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 38/75 (50%), Gaps = 2/75 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ +R++ +R+ LG++Q +L   +GI+ Q +QK E         +L  +++ LE    +
Sbjct: 1  MNIAERVKTQRIHLGLTQTELANKVGISQQSLQKIEDARTS-NPRKLLALAKALECTPEW 59

Query: 73 F-FDVSPTVCSDISS 86
            F +      +  S
Sbjct: 60 LQFGIEGVSSGEAES 74


>gi|325979177|ref|YP_004288893.1| DNA-binding protein [Streptococcus gallolyticus subsp.
          gallolyticus ATCC BAA-2069]
 gi|325179105|emb|CBZ49149.1| DNA-binding protein [Streptococcus gallolyticus subsp.
          gallolyticus ATCC BAA-2069]
          Length = 69

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I + K I+  R++  MSQ  L + +G++ Q + K+E G N      L  ++++ E  + 
Sbjct: 6  IQLSKNIKKYRLMKKMSQSDLSKRIGVSHQAISKWETGENYPDFMSLISLAQLFEVSLD 64


>gi|251789524|ref|YP_003004245.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247538145|gb|ACT06766.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 128

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/59 (33%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G RI   R  L ++Q++L E LGI  Q +  YE G  +V AS L  ++ +L   + 
Sbjct: 21 KELGARIAQARKELQLTQQQLAEQLGIAQQTMAHYEGGRLKVSASLLPQLATILNLSLD 79


>gi|227115336|ref|ZP_03828992.1| hypothetical protein PcarbP_20365 [Pectobacterium carotovorum
          subsp. brasiliensis PBR1692]
          Length = 88

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+   ++QEKLG   GI       ++ +YE G++R     +   ++VL  P  +F
Sbjct: 5  RLKTARLRANLTQEKLGVLAGIEEATARSRISQYESGIHRPTFEMMCAFAKVLNVPECYF 64

Query: 74 FDVSPTVCS 82
          + V      
Sbjct: 65 YTVDDDFAE 73


>gi|212710689|ref|ZP_03318817.1| hypothetical protein PROVALCAL_01756 [Providencia alcalifaciens
          DSM 30120]
 gi|212686770|gb|EEB46298.1| hypothetical protein PROVALCAL_01756 [Providencia alcalifaciens
          DSM 30120]
          Length = 84

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G +I+  R   G +  +  + +G  + QQ+ +YE+G+N++    L    ++L   I  F
Sbjct: 16 IGNKIKGLRRDAGYTAVEFAQLIGCKSAQQLYRYERGINKIDIDTLVSALKILRVDIKEF 75

Query: 74 FD 75
          F+
Sbjct: 76 FN 77


>gi|312136891|ref|YP_004004228.1| transcriptional regulator, xre family [Methanothermus fervidus DSM
           2088]
 gi|311224610|gb|ADP77466.1| transcriptional regulator, XRE family [Methanothermus fervidus DSM
           2088]
          Length = 307

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 32/57 (56%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           G+++R  R  LG+S + L + + ++ + + KYE+G+ R+       + + L   I+F
Sbjct: 128 GRKLRRVREKLGLSLKDLADHINVSRESIYKYERGLGRMSLDVALALEKYLGCKITF 184


>gi|227113779|ref|ZP_03827435.1| hypothetical protein PcarbP_12478 [Pectobacterium carotovorum
          subsp. brasiliensis PBR1692]
          Length = 87

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+   ++QEKLG   GI       +V +YE G++R     +   ++VL  P S+F
Sbjct: 5  RLKSARLNAHLTQEKLGILAGIEEETARSRVSQYENGIHRPTFEMMCAFAKVLNVPESYF 64

Query: 74 FDVSPTVCS 82
          + V      
Sbjct: 65 YTVDDKFAE 73


>gi|197284840|ref|YP_002150712.1| phage protein [Proteus mirabilis HI4320]
 gi|194682327|emb|CAR42123.1| phage protein [Proteus mirabilis HI4320]
          Length = 85

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 37/71 (52%), Gaps = 4/71 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R+R  R +  ++Q +LG   G+       ++ +YE G+++     +  ++++L  P  +F
Sbjct: 5  RLRYARKMAKLTQTRLGTLAGMDVASARSRISQYESGLHKPSFEVVCKLAKILNLPECYF 64

Query: 74 FDVSPTVCSDI 84
          + V+  +  DI
Sbjct: 65 YTVNDCLAEDI 75


>gi|187777811|ref|ZP_02994284.1| hypothetical protein CLOSPO_01403 [Clostridium sporogenes ATCC
          15579]
 gi|187774739|gb|EDU38541.1| hypothetical protein CLOSPO_01403 [Clostridium sporogenes ATCC
          15579]
          Length = 349

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 38/81 (46%), Gaps = 1/81 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+ +R   G++QE++   LG++   V K+EKG      + L  ++ +L   ++       
Sbjct: 7  IKEKRSSQGLTQEQVANYLGVSTPAVNKWEKGSCYPDITILPALARLLRVDLNTLLSFKE 66

Query: 79 T-VCSDISSEENNVMDFISTP 98
               +I   EN ++  IST 
Sbjct: 67 DLSEQEIGKFENELVQIISTK 87


>gi|126700772|ref|YP_001089669.1| putative phage repressor [Clostridium difficile 630]
 gi|115252209|emb|CAJ70048.1| Transcriptional regulator, Phage-type [Clostridium difficile]
          Length = 163

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/91 (19%), Positives = 41/91 (45%), Gaps = 6/91 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I+  R  + MS+++L   +G +   + KYE+         ++ I+  L   I+   
Sbjct: 6   IGEKIKQYRKSINMSRDELANKIGCSVHAIAKYEQNQRMPSLDMIRKIATALSIAIN--- 62

Query: 75  DVSPTVCSDISSEENNVMDF-ISTPDGLQLN 104
                  +D+ +  NN ++  +   + L L 
Sbjct: 63  -KLIVEENDLDTLTNNNINLKVFDKE-LDLV 91


>gi|301793711|emb|CBW36098.1| Transcriptional regulator [Streptococcus pneumoniae INV104]
          Length = 290

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 45/89 (50%), Gaps = 4/89 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +  R++ +R  L +SQ++L E  GI  Q Q+ + E+G    G+  L  +S+ L+  + 
Sbjct: 3  MLLATRLKNKRKELKLSQKELAE--GICEQGQISRMEQGKYSPGSELLFQLSKRLKVSMD 60

Query: 72 FFFDVSP-TVCSDISSEENNVMDFISTPD 99
          +FF+ +  +   +I   +     F+   +
Sbjct: 61 YFFEDTEVSSLENIDKFKELSKKFLDERE 89


>gi|295110993|emb|CBL27743.1| Predicted transcriptional regulator with C-terminal CBS domains
          [Synergistetes bacterium SGP1]
          Length = 140

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 39/82 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+ RR  LGM+QE+L   LG+T   + + E  V  + +  L  I+  L   +    
Sbjct: 4  IGANIKARRRALGMNQEELARKLGVTQANISRIESSVKGLSSDMLLPIASALSCDVRELL 63

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
           +     +++S+   +   F++
Sbjct: 64 GLKCDDRTELSALGEDARTFVT 85


>gi|262402586|ref|ZP_06079147.1| putative transcriptional regulator [Vibrio sp. RC586]
 gi|262351368|gb|EEZ00501.1| putative transcriptional regulator [Vibrio sp. RC586]
          Length = 102

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/96 (23%), Positives = 47/96 (48%), Gaps = 9/96 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R   G++Q+ LG  +G+       ++  YEKG +      L+ ++E L  P+++F
Sbjct: 10  RLKEARKKAGITQKDLGIRIGMEPSSASGRMNHYEKGRHVPDLGTLERMAEELNVPLNYF 69

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           F       +++S+E   V+D +S  +   L     +
Sbjct: 70  F-----CRNELSAELACVIDKMSDEEKAALLDSLSR 100


>gi|260663657|ref|ZP_05864546.1| transcriptional regulator [Lactobacillus fermentum 28-3-CHN]
 gi|260551883|gb|EEX24998.1| transcriptional regulator [Lactobacillus fermentum 28-3-CHN]
          Length = 115

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 30/63 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G RI+  R    +SQ  LG+ +G++   V  +E       ++ +  ++E+ E    +
Sbjct: 12 VMIGARIKHLRKGRNLSQAMLGKYIGVSQTTVTAWETNRTEPSSTYVTKLAELFEVSTDY 71

Query: 73 FFD 75
            D
Sbjct: 72 LLD 74


>gi|225570465|ref|ZP_03779490.1| hypothetical protein CLOHYLEM_06566 [Clostridium hylemonae DSM
          15053]
 gi|225160662|gb|EEG73281.1| hypothetical protein CLOHYLEM_06566 [Clostridium hylemonae DSM
          15053]
          Length = 194

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 36/68 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK+++  R+   ++QE+L +   ++   + + E+ +     + L  + +VL + I+ 
Sbjct: 16 MDIGKKLKELRIAKDLTQEELADRAELSKGFISQLERDLTSPSIATLVDLLQVLGTTINE 75

Query: 73 FFDVSPTV 80
          FF   P  
Sbjct: 76 FFSEDPEE 83


>gi|183980814|ref|YP_001849105.1| transcriptional regulatory protein [Mycobacterium marinum M]
 gi|183174140|gb|ACC39250.1| transcriptional regulatory protein [Mycobacterium marinum M]
          Length = 474

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/127 (21%), Positives = 47/127 (37%), Gaps = 6/127 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   FVGSRVRQLRNERGFSQAALAQLLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCSDISSEENNVMDF---ISTPDGLQLNRYFIQIDDVKV---RQKIIELVRSIV 127
                T       E     D    +   +  ++      +    V   R+  I   +   
Sbjct: 65  SSQDDTRLVAELREVTMDRDLDISVDPTEVAEMVSAHPSLARAMVNLHRRYRITTAQLAA 124

Query: 128 SSEKKYR 134
           ++E++Y 
Sbjct: 125 ATEERYS 131


>gi|118619629|ref|YP_907961.1| transcriptional regulatory protein [Mycobacterium ulcerans Agy99]
 gi|118571739|gb|ABL06490.1| transcriptional regulatory protein [Mycobacterium ulcerans Agy99]
          Length = 474

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/127 (21%), Positives = 47/127 (37%), Gaps = 6/127 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   FVGSRVRQLRNERGFSQAALAQLLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCSDISSEENNVMDF---ISTPDGLQLNRYFIQIDDVKV---RQKIIELVRSIV 127
                T       E     D    +   +  ++      +    V   R+  I   +   
Sbjct: 65  SSQDDTRLVAELREVTMDRDLDISVDPTEVAEMVSAHPSLARAMVNLHRRYRITTAQLAA 124

Query: 128 SSEKKYR 134
           ++E++Y 
Sbjct: 125 ATEERYS 131


>gi|326801902|ref|YP_004319721.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
 gi|326552666|gb|ADZ81051.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
          Length = 114

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 38/83 (45%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I+  R   G+SQ  +   L I  +  Q  E G+ R+   RL+ I+ +++  +S  F+ S
Sbjct: 9   QIKSHRKAKGLSQGDMANKLNIVLKTYQNIESGITRLDIERLKQIASLIDLNLSTVFNQS 68

Query: 78  PTVCSDISSEENNVMDFISTPDG 100
           P   +  + E+      +   + 
Sbjct: 69  PETMAGRNIEKELYHKLLMEKET 91


>gi|317495181|ref|ZP_07953551.1| hypothetical protein HMPREF0432_00153 [Gemella moribillum M424]
 gi|316914603|gb|EFV36079.1| hypothetical protein HMPREF0432_00153 [Gemella moribillum M424]
          Length = 181

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 40/90 (44%), Gaps = 1/90 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R++  R+   ++QE+LGE   ++   + + E+ +         +I EVL      FF
Sbjct: 4   IGERLKRLRIQKNLTQEELGERTDLSKGYISQVERDLASPSMETFFNILEVLGCAPKDFF 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           D   T      S E+    +  T +G  L 
Sbjct: 64  DKESTSQKVYYSLEDQ-TSYEETDEGYILT 92


>gi|300312341|ref|YP_003776433.1| XRE family transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
 gi|300075126|gb|ADJ64525.1| XRE family transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 115

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/121 (22%), Positives = 51/121 (42%), Gaps = 12/121 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R+  G+SQ +LG+ L  +   +   E G    G   L  +       +++  
Sbjct: 6   IGGRIKEVRLANGLSQRELGQRLDTSTGHISWLEAGKAMPGGELLLQLHREFSVDLNWL- 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
                    ++ EE       +  +  QL  ++ ++ D++ R+ +  L  S V  EKK  
Sbjct: 65  ---------LTGEEGEPGVMETDEEVRQLVDHYCRV-DLQGREILRSLA-SYVGREKKPS 113

Query: 135 T 135
           T
Sbjct: 114 T 114


>gi|312141162|ref|YP_004008498.1| transcriptional regulator [Rhodococcus equi 103S]
 gi|325674016|ref|ZP_08153706.1| DNA-binding protein [Rhodococcus equi ATCC 33707]
 gi|311890501|emb|CBH49819.1| putative transcriptional regulator [Rhodococcus equi 103S]
 gi|325555281|gb|EGD24953.1| DNA-binding protein [Rhodococcus equi ATCC 33707]
          Length = 469

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 25/101 (24%), Positives = 41/101 (40%), Gaps = 12/101 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G+SQ  L + L I+   + + E  V  +    L  ISEV     +FF
Sbjct: 5   FVGARLRQLRTERGLSQAALAKTLDISASYLNQIEHDVRPLTVPVLLRISEVFGVDTTFF 64

Query: 74  F------------DVSPTVCSDISSEENNVMDFISTPDGLQ 102
                        +V+      I ++   + + +S+  GL 
Sbjct: 65  SSQDDTRLIAELREVALDKDMGIDADAQEIAEMVSSHPGLA 105


>gi|290474343|ref|YP_003467222.1| putative DNA-binding protein [Xenorhabdus bovienii SS-2004]
 gi|289173655|emb|CBJ80435.1| putative DNA-binding protein [Xenorhabdus bovienii SS-2004]
          Length = 121

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 42/76 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R  R   G+SQ +LG+   + +  + ++E+G +R G+  L+ +++VL+    +  + 
Sbjct: 11 QRLRELRRQKGLSQSELGKLAELHYTHIGRFERGTSRPGSDTLKRLADVLDVTSDYLLEG 70

Query: 77 SPTVCSDISSEENNVM 92
          + T  +    E+  ++
Sbjct: 71 AETDAAKARFEDRELL 86


>gi|284800921|ref|YP_003412786.1| transcriptional regulator [Listeria monocytogenes 08-5578]
 gi|284056483|gb|ADB67424.1| transcriptional regulator [Listeria monocytogenes 08-5578]
          Length = 108

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 33/73 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK ++  R+  GM+Q  LG  L I+   + KYE G        L+ I+++      F   
Sbjct: 3  GKILKTLRINRGMTQADLGSKLNISKVSISKYENGNQFPDTDTLKRIADIFNVSTDFLLG 62

Query: 76 VSPTVCSDISSEE 88
              +  +++ ++
Sbjct: 63 REEAIPQNLAFDD 75


>gi|257468521|ref|ZP_05632615.1| LexA repressor [Fusobacterium ulcerans ATCC 49185]
 gi|317062781|ref|ZP_07927266.1| LexA repressor [Fusobacterium ulcerans ATCC 49185]
 gi|313688457|gb|EFS25292.1| LexA repressor [Fusobacterium ulcerans ATCC 49185]
          Length = 212

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 36/63 (57%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+RI+ +R  L +SQE+L E +G  +   + K E+G+  +  S++   +  L++  S
Sbjct: 1  MTIGERIKKKREELKLSQEQLAEIMGYKSKTSIHKAEQGITDLPQSKIIEFARALKTTPS 60

Query: 72 FFF 74
          +  
Sbjct: 61 YLM 63


>gi|239627852|ref|ZP_04670883.1| predicted protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239517998|gb|EEQ57864.1| predicted protein [Clostridiales bacterium 1_7_47FAA]
          Length = 146

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/94 (21%), Positives = 46/94 (48%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  VG RI+ RR  L ++Q+ +    GI+   + + E+G     +  L  +S++L++ I
Sbjct: 4   IDKMVGIRIKTRRKELNLTQKDVYAATGISNGNLSEIERGNVLPSSKALVSLSKLLQTSI 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            +      ++  + S + +N+   +   +  +L 
Sbjct: 64  DWILTGEASIIDNSSPKTSNIEYSLKLNESEELI 97


>gi|160945560|ref|ZP_02092786.1| hypothetical protein FAEPRAM212_03089 [Faecalibacterium prausnitzii
           M21/2]
 gi|158443291|gb|EDP20296.1| hypothetical protein FAEPRAM212_03089 [Faecalibacterium prausnitzii
           M21/2]
          Length = 120

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/121 (22%), Positives = 54/121 (44%), Gaps = 16/121 (13%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +PN   I +GK+I+  R  +GM+Q++L     ++ + +   E G        L  I  VL
Sbjct: 3   MPNADAIALGKQIKAVRKAMGMTQDQLALKSHVSVKYIANIENGKQNPSFDILSAILHVL 62

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             P+S    +   +  ++S  E+   ++    D + L          ++R+ ++E  RS+
Sbjct: 63  --PLS----LDSIINPNLSELESECREW----DAIYLA------CPPEMRKTLLEATRSL 106

Query: 127 V 127
            
Sbjct: 107 A 107


>gi|251811388|ref|ZP_04825861.1| transcriptional regulator [Staphylococcus epidermidis
          BCM-HMP0060]
 gi|251805137|gb|EES57794.1| transcriptional regulator [Staphylococcus epidermidis
          BCM-HMP0060]
 gi|319399894|gb|EFV88140.1| helix-turn-helix family protein [Staphylococcus epidermidis
          FRI909]
 gi|320142644|gb|EFW34450.1| helix-turn-helix protein [Staphylococcus aureus subsp. aureus
          MRSA177]
          Length = 108

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 37/86 (43%), Gaps = 2/86 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K+I+  R     +QE+L E L  + Q + K+E+G++      L  +S++      +  
Sbjct: 2  ISKQIKDLRKQHNYTQEELAEKLNTSRQTISKWEQGISEPDLIMLMQLSQLFSVSTDYLI 61

Query: 75 DVSPTVCSDISSE--ENNVMDFISTP 98
            S  +    +    E N   F+S  
Sbjct: 62 TGSDNIIKKDNKSYYEMNFWAFMSEK 87


>gi|228952237|ref|ZP_04114326.1| hypothetical protein bthur0006_16440 [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
 gi|228807365|gb|EEM53895.1| hypothetical protein bthur0006_16440 [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
          Length = 146

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 36/78 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++++  R   G SQE + + +G+T Q + K+E   +      L  +SE+    +  
Sbjct: 1  MNLGEQLKKLRESKGFSQEDVAKKIGVTRQAIYKWENDKSYPDIDNLILLSEMYNVTLDE 60

Query: 73 FFDVSPTVCSDISSEENN 90
              +      I S+  +
Sbjct: 61 LIKGNQDFKKKIHSDAED 78


>gi|225027560|ref|ZP_03716752.1| hypothetical protein EUBHAL_01817 [Eubacterium hallii DSM 3353]
 gi|224955076|gb|EEG36285.1| hypothetical protein EUBHAL_01817 [Eubacterium hallii DSM 3353]
          Length = 180

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 33/66 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VG+ I   R  L ++Q++L E LG+T + V K+E G +      ++ + + L   I  
Sbjct: 18 IKVGRFIAQNRKDLNLTQKELAEKLGVTDRAVSKWENGRSIPDVGIIESLCKELNISIGE 77

Query: 73 FFDVSP 78
          FF    
Sbjct: 78 FFAGEK 83


>gi|210623799|ref|ZP_03294059.1| hypothetical protein CLOHIR_02010 [Clostridium hiranonis DSM
          13275]
 gi|210153381|gb|EEA84387.1| hypothetical protein CLOHIR_02010 [Clostridium hiranonis DSM
          13275]
          Length = 359

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/65 (30%), Positives = 31/65 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I   R   G SQE+L E L I+ Q V K+E G +     +L  ISE+ E    +
Sbjct: 1  MTLSEKIMNLRKKNGWSQEELAERLDISRQSVSKWESGESVPTLEKLIRISEIFEVSTDY 60

Query: 73 FFDVS 77
               
Sbjct: 61 LLKDD 65


>gi|169333724|ref|ZP_02860917.1| hypothetical protein ANASTE_00108 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169259573|gb|EDS73539.1| hypothetical protein ANASTE_00108 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 197

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 28/69 (40%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++R  R   GM+Q  L   L +    + KYE          LQ IS +    I +  +
Sbjct: 3  GEKLRSLRKEHGMTQVDLANALDLDKSSIAKYESAGIIPSVDTLQKISALFNVSIDYLLN 62

Query: 76 VSPTVCSDI 84
                +++
Sbjct: 63 APFGDINNV 71


>gi|154503786|ref|ZP_02040846.1| hypothetical protein RUMGNA_01610 [Ruminococcus gnavus ATCC
          29149]
 gi|153795886|gb|EDN78306.1| hypothetical protein RUMGNA_01610 [Ruminococcus gnavus ATCC
          29149]
          Length = 262

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +IR RR  L +S+ +L   + +T   +  YE GV+      L  +   L+   ++
Sbjct: 1  MKIGNQIRHRRTELNLSRGELANKIQVTPSAIANYENGVSYPKPDILVALMNALDVDANY 60

Query: 73 FF 74
           +
Sbjct: 61 LY 62


>gi|312197651|ref|YP_004017712.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
 gi|311228987|gb|ADP81842.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
          Length = 175

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/86 (24%), Positives = 32/86 (37%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R    +S   L    G+    + + E GV       L  ++  LE P++   
Sbjct: 9   VGARLRATRQARDLSVGALAARAGVGKGSLSEIENGVRNPTLGTLYALAGALEVPLATLL 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
              P V          ++D    PDG
Sbjct: 69  ADRPGVEVASPGIGARLLDATRHPDG 94


>gi|260437982|ref|ZP_05791798.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
 gi|292809608|gb|EFF68813.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
          Length = 129

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 41/86 (47%), Gaps = 2/86 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S + L E  GI+   + +YE   ++++  + L+ I  VL    S
Sbjct: 1  MIIGQKIKELRIKKGISVDALAEATGISRATLYRYENASIHKIPVACLESICRVLGVKTS 60

Query: 72 FFFDV-SPTVCSDISSEENNVMDFIS 96
             +        ++    NN  + +S
Sbjct: 61 DLMEDTDSNQLEELPQAFNNPQEALS 86


>gi|210617016|ref|ZP_03291351.1| hypothetical protein CLONEX_03573 [Clostridium nexile DSM 1787]
 gi|210149539|gb|EEA80548.1| hypothetical protein CLONEX_03573 [Clostridium nexile DSM 1787]
          Length = 163

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/109 (18%), Positives = 44/109 (40%), Gaps = 10/109 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I +G  I+  R   G+SQ+++ + L I +     YE       A  ++ +S++LE     
Sbjct: 7   IQIGSTIKELRKAKGISQKEMSKLLDIPYSTYSNYENNNREPSADVIKKVSDILEISTDS 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP----------DGLQLNRYFIQID 111
             + + T       E +  ++                 ++L +YF +++
Sbjct: 67  LIETAKTKSKTFIDEIDMYVEKFQKDIAERGYNREMGDIELLKYFRKLN 115


>gi|254386053|ref|ZP_05001368.1| UDP-N-acetylglucosamine transferase [Streptomyces sp. Mg1]
 gi|194344913|gb|EDX25879.1| UDP-N-acetylglucosamine transferase [Streptomyces sp. Mg1]
          Length = 509

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +GK IR  R   G +Q +L + LG +   V + E+G   +    +  I E L
Sbjct: 1  MADDYLVRIGKLIRDARQHRGWTQSQLADALGTSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|125622890|ref|YP_001031373.1| putative HTH-type transcriptional regulator [Lactococcus lactis
          subsp. cremoris MG1363]
 gi|124491698|emb|CAL96617.1| Putative HTH-type transcriptional regulator [Lactococcus lactis
          subsp. cremoris MG1363]
 gi|300069628|gb|ADJ59028.1| putative HTH-type transcriptional regulator [Lactococcus lactis
          subsp. cremoris NZ9000]
          Length = 107

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 37/78 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + + I+  R +  +SQE+L + L I+ Q + K+E G +     +L  +SE+ +  +  
Sbjct: 1  MEISEIIKENRKLKNLSQEELAKELHISRQSISKWETGKSLPTTDQLILLSEIFDCSLDT 60

Query: 73 FFDVSPTVCSDISSEENN 90
                 +   +  E ++
Sbjct: 61 LLKGDKKMEEKVKHEIDD 78


>gi|325912400|ref|ZP_08174795.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          143-D]
 gi|325475742|gb|EGC78913.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          143-D]
          Length = 109

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 35/71 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK+++  R++  ++Q++L    G+T   ++ YE G       +LQ ISE  +  IS   +
Sbjct: 4  GKKLKKLRLMRNLTQKELAIKSGLTDAAIRNYELGNRSPSKEQLQKISETFDCDISALIN 63

Query: 76 VSPTVCSDISS 86
            P    +I  
Sbjct: 64 HEPNSIFEIMH 74


>gi|313114406|ref|ZP_07799934.1| putative repressor LexA [Faecalibacterium cf. prausnitzii
          KLE1255]
 gi|310623277|gb|EFQ06704.1| putative repressor LexA [Faecalibacterium cf. prausnitzii
          KLE1255]
          Length = 205

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 37/61 (60%), Gaps = 1/61 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          R+ LRR  LG+SQE+L + +G  +   + K EKG+N +  S+++ ++  LE+  ++   +
Sbjct: 7  RLHLRRKELGLSQEELAQRMGYRSKSSITKLEKGINDLPQSKVEELAAALETTPAYLLGL 66

Query: 77 S 77
           
Sbjct: 67 D 67


>gi|255024118|ref|ZP_05296104.1| transcription regulator, putative [Listeria monocytogenes FSL
          J1-208]
          Length = 110

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 36/75 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPTVCSDISSE 87
          FFD        I  E
Sbjct: 61 FFDEEEHNQKVIYGE 75


>gi|226313174|ref|YP_002773068.1| DNA-binding protein [Brevibacillus brevis NBRC 100599]
 gi|226096122|dbj|BAH44564.1| putative DNA-binding protein [Brevibacillus brevis NBRC 100599]
          Length = 120

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 13/80 (16%), Positives = 35/80 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+RIR  R     +QE+    + ++ Q+V  +E+         +  I+++  +   +  
Sbjct: 7  VGQRIRKLRKANNWTQEQFANRVNVSPQKVSNWERDYTSPSVEDIARIAQICNTESDYIL 66

Query: 75 DVSPTVCSDISSEENNVMDF 94
              +  +  +  + ++ +F
Sbjct: 67 TGRTSPLTSSAKSDKHLSEF 86


>gi|145595873|ref|YP_001160170.1| helix-turn-helix domain-containing protein [Salinispora tropica
           CNB-440]
 gi|145305210|gb|ABP55792.1| helix-turn-helix domain protein [Salinispora tropica CNB-440]
          Length = 407

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/113 (19%), Positives = 44/113 (38%), Gaps = 8/113 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPISFF 73
           +G+R+   R    MSQ+   + LG +   V K E+GV R+   S +  I++ L   +   
Sbjct: 6   IGRRVAYWRGRRKMSQQVFADRLGKSKSWVDKVERGVRRLDKFSVIYEIADTLRVDVQLL 65

Query: 74  FDVSPTVCSDISS--EENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKI 119
               P   SD  +  ++  V +  +  +       +            +R+ +
Sbjct: 66  LGKDPERRSDALNCIDQTEVQEIRAALERYDAMSAYFDAAPYPPPLPDMRKAV 118


>gi|78043621|ref|YP_360682.1| DNA-binding protein [Carboxydothermus hydrogenoformans Z-2901]
 gi|77995736|gb|ABB14635.1| DNA-binding protein [Carboxydothermus hydrogenoformans Z-2901]
          Length = 127

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/92 (25%), Positives = 43/92 (46%), Gaps = 2/92 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R  L +S+E+  E LG++   V + E+G  ++    L +I++ L   + +  
Sbjct: 8   IGQRIREEREKLELSREEFAEILGLSDYYVGQLERGERQMSLPVLVNIAQCLHVSLDYLI 67

Query: 75  DVSPTVCSDISSEENNVMDFIS--TPDGLQLN 104
             S         E  +  +F+    P+ L L 
Sbjct: 68  FGSTPFEPSGVQENISFYNFLQNLDPELLSLL 99


>gi|91976769|ref|YP_569428.1| transcriptional regulator [Rhodopseudomonas palustris BisB5]
 gi|91683225|gb|ABE39527.1| transcriptional regulator [Rhodopseudomonas palustris BisB5]
          Length = 106

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/106 (18%), Positives = 41/106 (38%), Gaps = 1/106 (0%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPIS 71
           +  G+RI+  R   G++ ++L +  G +   + + E K   R  A +L  I+  L   + 
Sbjct: 1   MKFGQRIKDLRTKKGLTLDQLAQETGSSKSYIWELENKNPPRPSAEKLSAIAGALGVTVD 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           + F       ++               +  +  R   +I D K R+
Sbjct: 61  YLFGADTQTLNEAEDTAFFRQYSGLPEETRRQIREMARILDTKTRK 106


>gi|302340085|ref|YP_003805291.1| protein of unknown function DUF955 [Spirochaeta smaragdinae DSM
          11293]
 gi|301637270|gb|ADK82697.1| protein of unknown function DUF955 [Spirochaeta smaragdinae DSM
          11293]
          Length = 394

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 34/73 (46%), Gaps = 5/73 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+++R +R++ G S +KL + L      IT   + KYE       A  L  +++V +  
Sbjct: 2  IGEKLRQKRIMSGWSLQKLADKLEQQGTRITRAALSKYELEKATPNALTLYALAQVFDVK 61

Query: 70 ISFFFDVSPTVCS 82
            +FF       +
Sbjct: 62 TDYFFSNPSATVT 74


>gi|295110461|emb|CBL24414.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 315

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 34/75 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++  R    ++QE+L E  G++ + V ++E G N    S L  ++E  +  +    
Sbjct: 6  IGAFLKQCRKEKNLTQEQLAEKFGVSARTVSRWETGTNLPDLSILVELAEYYDVEMRELL 65

Query: 75 DVSPTVCSDISSEEN 89
          D   +   +   +E 
Sbjct: 66 DGERSQTMNKEMKET 80


>gi|290581291|ref|YP_003485683.1| putative transcriptional regulator [Streptococcus mutans NN2025]
 gi|254998190|dbj|BAH88791.1| putative transcriptional regulator [Streptococcus mutans NN2025]
          Length = 228

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 30/57 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  LG+SQ +  + LGI+      +E G  +     L  ++ +L+   ++F
Sbjct: 5  QKLKERRKKLGLSQAQTADKLGISRPSYFNWEIGKTKPNQKNLDKLAHLLKVDSAYF 61


>gi|229815891|ref|ZP_04446215.1| hypothetical protein COLINT_02947 [Collinsella intestinalis DSM
           13280]
 gi|229808586|gb|EEP44364.1| hypothetical protein COLINT_02947 [Collinsella intestinalis DSM
           13280]
          Length = 201

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/88 (21%), Positives = 38/88 (43%), Gaps = 1/88 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FF 73
           VG RIR+ R   G++Q +L     +T Q V  +E+G        LQ +++ L + +    
Sbjct: 7   VGSRIRILREAAGLTQSELAATAYVTRQSVGNWERGNTLPDVQSLQLVAKALNTKVDGLL 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            D  P +  + +     +   ++    +
Sbjct: 67  GDGLPDMLEETAEARRQLTHCLAALGAI 94


>gi|50196919|ref|YP_052614.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|165871721|ref|ZP_02216366.1| hypothetical protein BAC_1057 [Bacillus anthracis str. A0488]
 gi|167638961|ref|ZP_02397235.1| hypothetical protein BAQ_1085 [Bacillus anthracis str. A0193]
 gi|170707968|ref|ZP_02898417.1| hypothetical protein BAK_1115 [Bacillus anthracis str. A0389]
 gi|177653556|ref|ZP_02935730.1| hypothetical protein BAO_1046 [Bacillus anthracis str. A0174]
 gi|190566543|ref|ZP_03019460.1| hypothetical protein BATI_1082 [Bacillus anthracis
          Tsiankovskii-I]
 gi|229601932|ref|YP_002865577.1| hypothetical protein BAA_1117 [Bacillus anthracis str. A0248]
 gi|254734209|ref|ZP_05191922.1| hypothetical protein BantWNA_03453 [Bacillus anthracis str.
          Western North America USA6153]
 gi|254753484|ref|ZP_05205520.1| hypothetical protein BantV_13483 [Bacillus anthracis str. Vollum]
 gi|254758581|ref|ZP_05210608.1| hypothetical protein BantA9_09739 [Bacillus anthracis str.
          Australia 94]
 gi|50082981|gb|AAT70122.1| hypothetical protein GBAA_1022 [Bacillus anthracis str. 'Ames
          Ancestor']
 gi|164712622|gb|EDR18154.1| hypothetical protein BAC_1057 [Bacillus anthracis str. A0488]
 gi|167513091|gb|EDR88463.1| hypothetical protein BAQ_1085 [Bacillus anthracis str. A0193]
 gi|170127128|gb|EDS96006.1| hypothetical protein BAK_1115 [Bacillus anthracis str. A0389]
 gi|172081360|gb|EDT66434.1| hypothetical protein BAO_1046 [Bacillus anthracis str. A0174]
 gi|190562095|gb|EDV16063.1| hypothetical protein BATI_1082 [Bacillus anthracis
          Tsiankovskii-I]
 gi|229266340|gb|ACQ47977.1| hypothetical protein BAA_1117 [Bacillus anthracis str. A0248]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQSDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|1196926|gb|AAA88585.1| unknown protein [Streptococcus mutans]
          Length = 228

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 30/57 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  LG+SQ +  + LGI+      +E G  +     L  ++ +L+   ++F
Sbjct: 5  QKLKERRKKLGLSQAQTADKLGISRPSYFNWEIGKTKPNQKNLDKLAHLLKVDSAYF 61


>gi|24380369|ref|NP_722324.1| putative transcriptional regulator [Streptococcus mutans UA159]
 gi|24378389|gb|AAN59630.1|AE015025_2 putative transcriptional regulator [Streptococcus mutans UA159]
          Length = 228

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 30/57 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++ RR  LG+SQ +  + LGI+      +E G  +     L  ++ +L+   ++F
Sbjct: 5  QKLKERRKKLGLSQAQTADKLGISRPSYFNWEIGKTKPNQKNLDKLAHLLKVDSAYF 61


>gi|116494509|ref|YP_806243.1| double-stranded beta-helix-like protein [Lactobacillus casei ATCC
           334]
 gi|191637947|ref|YP_001987113.1| hypothetical protein LCABL_11700 [Lactobacillus casei BL23]
 gi|227535519|ref|ZP_03965568.1| transcriptional regulator [Lactobacillus paracasei subsp. paracasei
           ATCC 25302]
 gi|239631268|ref|ZP_04674299.1| transcription regulator [Lactobacillus paracasei subsp. paracasei
           8700:2]
 gi|116104659|gb|ABJ69801.1| Double-stranded beta-helix related protein [Lactobacillus casei
           ATCC 334]
 gi|190712249|emb|CAQ66255.1| Double-stranded beta-helix related protein [Lactobacillus casei
           BL23]
 gi|227186841|gb|EEI66908.1| transcriptional regulator [Lactobacillus paracasei subsp. paracasei
           ATCC 25302]
 gi|239525733|gb|EEQ64734.1| transcription regulator [Lactobacillus paracasei subsp. paracasei
           8700:2]
 gi|327382018|gb|AEA53494.1| Electron transfer flavoprotein FAD-binding domain protein
           [Lactobacillus casei LC2W]
 gi|327385175|gb|AEA56649.1| Electron transfer flavoprotein FAD-binding domain protein
           [Lactobacillus casei BD-II]
          Length = 179

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 39/91 (42%), Gaps = 2/91 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G RIR  R+   ++QE+LGE   +T   + + E   +         I  VL    + 
Sbjct: 1   MEIGSRIRDLRIRKNLTQEELGERTDLTKGYISQVEHDQSSPSLETFFDILSVLGESPAD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           FF   P     +   E++ + ++    G +L
Sbjct: 61  FFREEP--KDSLVYHEDDQVTYLDEEKGYRL 89


>gi|260843874|ref|YP_003221652.1| putative phage repressor protein CI [Escherichia coli O103:H2 str.
           12009]
 gi|257759021|dbj|BAI30518.1| putative phage repressor protein CI [Escherichia coli O103:H2 str.
           12009]
 gi|323186644|gb|EFZ71972.1| HTH-type transcriptional regulator dicA [Escherichia coli RN587/1]
          Length = 135

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/112 (20%), Positives = 52/112 (46%), Gaps = 7/112 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF--F 73
           G R+  RR  L +SQ  LG+ + +    + ++E+   +    RL  +S+ L+   ++  F
Sbjct: 7   GARLLHRRKKLKLSQAALGKLVKVAHVTISQWERDETQPAGKRLFALSQALQCSPTWLLF 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
            D        I + +  ++    T D  +L + F  + D + ++ ++  +R+
Sbjct: 67  GDEDKQPGEPIPNNQPAIL----TEDQKELLQLFDALPDSE-QKALLSEMRA 113


>gi|302537531|ref|ZP_07289873.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. C]
 gi|302446426|gb|EFL18242.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. C]
          Length = 509

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +GK IR  R   G +Q +L + LG +   V + E+G   +    +  I E L
Sbjct: 1  MADDYLVRIGKLIRDARQHRGWTQSQLADALGTSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|257413803|ref|ZP_04744284.2| transcriptional regulator, Cro/CI family [Roseburia intestinalis
          L1-82]
 gi|257202203|gb|EEV00488.1| transcriptional regulator, Cro/CI family [Roseburia intestinalis
          L1-82]
 gi|291538784|emb|CBL11895.1| Uncharacterized conserved protein, contains double-stranded
          beta-helix domain [Roseburia intestinalis XB6B4]
          Length = 183

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 1/69 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPIS 71
          +++GKR++  R+  G++Q++L +   +T   + + E+  N      L  I + L  +P  
Sbjct: 5  MDIGKRMKELRIQYGLTQQELADRSELTKGFISQLERNQNSPSIGTLLDIIQCLGTTPAE 64

Query: 72 FFFDVSPTV 80
          FF D  P  
Sbjct: 65 FFTDEEPEQ 73


>gi|295105300|emb|CBL02844.1| Predicted transcriptional regulators [Faecalibacterium prausnitzii
           SL3/3]
          Length = 118

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/121 (22%), Positives = 54/121 (44%), Gaps = 16/121 (13%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +PN   I +GK+I+  R  +GM+Q++L     ++ + +   E G        L  I  VL
Sbjct: 1   MPNADAIALGKQIKAVRKAMGMTQDQLALKSHVSVKYIANIENGKQNPSFDILSAILHVL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             P+S    +   +  ++S  E+   ++    D + L          ++R+ ++E  RS+
Sbjct: 61  --PLS----LDSIINPNLSELESECREW----DAIYLA------CPPEMRKTLLEATRSL 104

Query: 127 V 127
            
Sbjct: 105 A 105


>gi|302541927|ref|ZP_07294269.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Streptomyces hygroscopicus ATCC 53653]
 gi|302459545|gb|EFL22638.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Streptomyces himastatinicus ATCC 53653]
          Length = 509

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 9  IGKLIRDARQHRGWTQSQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|13476145|ref|NP_107715.1| transcriptional regulator [Mesorhizobium loti MAFF303099]
 gi|14026905|dbj|BAB53501.1| transcriptional regulator [Mesorhizobium loti MAFF303099]
          Length = 227

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/80 (18%), Positives = 37/80 (46%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           +K  +  D+ VG+R+R  R+   +S  +L    G++   + + E+G++ +    +  ++ 
Sbjct: 34  EKPKDDADVRVGRRVRALRLERRLSLAELAAKAGVSIGALSQIERGMSSLRVKVIWPLAA 93

Query: 65  VLESPISFFFDVSPTVCSDI 84
            L+   S          +D+
Sbjct: 94  ALDIEPSALIADGNDAVNDL 113


>gi|30260593|ref|NP_842970.1| prophage LambdaBa04, DNA-binding protein [Bacillus anthracis str.
          Ames]
 gi|47777813|ref|YP_022528.1| prophage lambdaba04, DNA-binding protein [Bacillus anthracis str.
          'Ames Ancestor']
 gi|49183444|ref|YP_026696.1| prophage LambdaBa04, DNA-binding protein [Bacillus anthracis str.
          Sterne]
 gi|65317858|ref|ZP_00390817.1| COG1396: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|254686819|ref|ZP_05150677.1| prophage LambdaBa04, DNA-binding protein [Bacillus anthracis str.
          CNEVA-9066]
 gi|254724894|ref|ZP_05186677.1| prophage LambdaBa04, DNA-binding protein [Bacillus anthracis str.
          A1055]
 gi|254738955|ref|ZP_05196657.1| prophage LambdaBa04, DNA-binding protein [Bacillus anthracis str.
          Western North America USA6153]
 gi|254756199|ref|ZP_05208228.1| prophage LambdaBa04, DNA-binding protein [Bacillus anthracis str.
          Vollum]
 gi|254762018|ref|ZP_05213867.1| prophage LambdaBa04, DNA-binding protein [Bacillus anthracis str.
          Australia 94]
 gi|30253961|gb|AAP24456.1| prophage LambdaBa04, DNA-binding protein [Bacillus anthracis str.
          Ames]
 gi|47551518|gb|AAT35262.1| prophage LambdaBa04, DNA-binding protein [Bacillus anthracis str.
          'Ames Ancestor']
 gi|49177371|gb|AAT52747.1| prophage LambdaBa04, DNA-binding protein [Bacillus anthracis str.
          Sterne]
          Length = 114

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 12/75 (16%), Positives = 30/75 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + G+ ++  R   G++QE+L   L ++  Q++ +E    +     L  I+      +  
Sbjct: 2  RHFGQILKKLRKSRGLTQEQLSHKLNLSRSQIKNWETDRYQPDIDTLVIIASFFNVSVDA 61

Query: 73 FFDVSPTVCSDISSE 87
              +     +  +E
Sbjct: 62 LIGFTNEFDEEPLTE 76


>gi|312113826|ref|YP_004011422.1| helix-turn-helix domain protein [Rhodomicrobium vannielii ATCC
          17100]
 gi|311218955|gb|ADP70323.1| helix-turn-helix domain protein [Rhodomicrobium vannielii ATCC
          17100]
          Length = 199

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 30/55 (54%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           RIR  R+  G+S  +L + +GI+   + + E G   +  S+++ ++  L  P++
Sbjct: 20 NRIRQLRLERGLSLTELAKKIGISESHLSRVEAGARGLHLSKMEALAGALGVPVT 74


>gi|302672043|ref|YP_003832003.1| AbrB family transcriptional regulator [Butyrivibrio
          proteoclasticus B316]
 gi|302396516|gb|ADL35421.1| transcriptional regulator AbrB family [Butyrivibrio
          proteoclasticus B316]
          Length = 139

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 31/72 (43%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
          R +L M+QE + E LG+T Q V K+E G +     + + ++++    +    +  P    
Sbjct: 10 RKVLRMTQEDVAEKLGVTRQSVAKWESGESIPDLDKCKQLADIFGVSLDDLANYEPEENM 69

Query: 83 DISSEENNVMDF 94
            +        F
Sbjct: 70 GFAVPPKGKHLF 81


>gi|257877826|ref|ZP_05657479.1| predicted protein [Enterococcus casseliflavus EC20]
 gi|257811992|gb|EEV40812.1| predicted protein [Enterococcus casseliflavus EC20]
          Length = 209

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 29/70 (41%), Gaps = 8/70 (11%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--- 71
          +GK I+  R    M+Q+ L + L +T Q V K+E+  +      L  +S      +    
Sbjct: 4  LGKNIKELRQSKKMTQKSLAKMLNVTPQAVSKWERNESNPDIQTLISLSNYFNVSVDEML 63

Query: 72 -----FFFDV 76
                FF+ 
Sbjct: 64 GRKRPTFFET 73


>gi|228956235|ref|ZP_04118111.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|228803444|gb|EEM50187.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
          Length = 105

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 31/78 (39%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RI+  R  L M Q +L + +G+ +  +  YE          +++I+ V      +   
Sbjct: 2  GSRIKEVRKSLKMKQNELADAVGVNYTMISLYESNKREPSRETVENIARVTNVSADYIMG 61

Query: 76 VSPTVCSDISSEENNVMD 93
          +S     D  + +    D
Sbjct: 62 LSKHKTFDEETSKKITDD 79


>gi|228926172|ref|ZP_04089247.1| hypothetical protein bthur0010_8920 [Bacillus thuringiensis
          serovar pondicheriensis BGSC 4BA1]
 gi|228932427|ref|ZP_04095308.1| hypothetical protein bthur0009_9050 [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
 gi|254725583|ref|ZP_05187365.1| hypothetical protein BantA1_24526 [Bacillus anthracis str. A1055]
 gi|228827117|gb|EEM72870.1| hypothetical protein bthur0009_9050 [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
 gi|228833425|gb|EEM78987.1| hypothetical protein bthur0010_8920 [Bacillus thuringiensis
          serovar pondicheriensis BGSC 4BA1]
          Length = 149

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQSDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|283796930|ref|ZP_06346083.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium sp. M62/1]
 gi|291075340|gb|EFE12704.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium sp. M62/1]
          Length = 111

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 30/121 (24%), Positives = 55/121 (45%), Gaps = 17/121 (14%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  +GKR++  R  LG+SQE+L E  G+T   +   E+G++     +L  +   LE   
Sbjct: 2   IDKRIGKRVKQCRERLGISQEELAEKTGLTANYISTVERGMSFPRCEKLIILLNGLEVSA 61

Query: 71  SFFF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
              F DV     S  SSE +  +  +S                 + +++I+++V  ++  
Sbjct: 62  DAIFCDVLEHSTSYKSSELSEKLASLS----------------PQAQKRILQMVELMIQQ 105

Query: 130 E 130
           E
Sbjct: 106 E 106


>gi|126736840|ref|ZP_01752575.1| hypothetical protein RSK20926_10434 [Roseobacter sp. SK209-2-6]
 gi|126721425|gb|EBA18128.1| hypothetical protein RSK20926_10434 [Roseobacter sp. SK209-2-6]
          Length = 165

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 7/85 (8%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF----- 73
          IR  R+  G SQE+L E  GI+ + +Q+ E+G N      L+ I+ VLE   S       
Sbjct: 6  IRKLRLEKGYSQEQLAEMAGISTRTLQRIERGAN-ASPETLKCIASVLEIDFSELRKEPD 64

Query: 74 -FDVSPTVCSDISSEENNVMDFIST 97
              +P    ++ ++E   ++++  
Sbjct: 65 MTSDTPASLPELETQEREALEYVRD 89


>gi|312887017|ref|ZP_07746621.1| transcriptional regulator, XRE family [Mucilaginibacter paludis DSM
           18603]
 gi|311300329|gb|EFQ77394.1| transcriptional regulator, XRE family [Mucilaginibacter paludis DSM
           18603]
          Length = 137

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 31/131 (23%), Positives = 58/131 (44%), Gaps = 20/131 (15%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G +IR  R I G+SQ+     L IT Q V K E+    V    L  I+E+L   +  
Sbjct: 11  IHIGPKIRRLRQIKGISQKAFASELQITQQAVSKIEQSEI-VNEETLGKIAEILGVSMEA 69

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL----QLNRYFIQIDDVKVRQKIIELVRSIVS 128
             +           ++ +  +FI+T + +     +  ++  I+      KI EL   ++ 
Sbjct: 70  IVNFD---------DDASFNNFINTNEVINQRCDVTNHYQSIE------KITELYERLLK 114

Query: 129 SEKKYRTIEEE 139
           SE +   + ++
Sbjct: 115 SEIEKNQLLKD 125


>gi|303241220|ref|ZP_07327727.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
 gi|302591231|gb|EFL60972.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
          Length = 71

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 31/56 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG  IR  R+   M+Q++L + L I+ + + K+E+G      S +  +S++L   +
Sbjct: 6  VGNIIRKTRLEQKMTQKQLADKLDISDKAISKWERGSGNPDISLILKLSDILGIDV 61


>gi|160946034|ref|ZP_02093260.1| hypothetical protein FAEPRAM212_03567 [Faecalibacterium prausnitzii
           M21/2]
 gi|158443765|gb|EDP20770.1| hypothetical protein FAEPRAM212_03567 [Faecalibacterium prausnitzii
           M21/2]
          Length = 95

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 35/87 (40%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI   R    +SQEKL E LG++ + +   E+G +      L  I+E     + +  
Sbjct: 8   IGNRIFTLRTNAKLSQEKLAEKLGVSHRHLGDLERGSSNGSVKILIDIAEYFHVSMDYLL 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL 101
                      +E    +D +    GL
Sbjct: 68  LGRDPSRDQFQNELQAAIDHLEKIKGL 94


>gi|251789530|ref|YP_003004251.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247538151|gb|ACT06772.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 128

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/59 (35%), Positives = 32/59 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G RI L R  L ++Q++L E LGI  Q +  YE G  +V AS L  ++ +L   + 
Sbjct: 21 KELGARIALARKELQLTQQQLAEQLGIAQQTMAHYEGGRLKVSASLLPQLATILNLSLD 79


>gi|226329569|ref|ZP_03805087.1| hypothetical protein PROPEN_03478 [Proteus penneri ATCC 35198]
 gi|225202755|gb|EEG85109.1| hypothetical protein PROPEN_03478 [Proteus penneri ATCC 35198]
          Length = 161

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/91 (19%), Positives = 36/91 (39%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N + P   +  +G +++  R    +S  +L    GI+   + K E G +      L+ I+
Sbjct: 2  NSQPPKKTNEYLGNKVKQLRQSRNLSLNELSRKSGISKAALSKLESGDSNPRIDTLEAIA 61

Query: 64 EVLESPISFFFDVSPTVCSDISSEENNVMDF 94
            L  P+   F  +      +   +  V D+
Sbjct: 62 IALGFPLGDLFSFTREEYPRLERHKPIVGDY 92


>gi|126737596|ref|ZP_01753326.1| transcriptional regulator, XRE family with cupin sensor domain
           [Roseobacter sp. SK209-2-6]
 gi|126720989|gb|EBA17693.1| transcriptional regulator, XRE family with cupin sensor domain
           [Roseobacter sp. SK209-2-6]
          Length = 199

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/96 (18%), Positives = 43/96 (44%), Gaps = 9/96 (9%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P+D  +G  ++  R++ G++  +L     ++   + K E+G      S L+ +++    P
Sbjct: 13  PLDHLIGAAVKAHRVLAGLTLAELSAKAKVSPAMISKIERGQVSASLSSLEALAQATGVP 72

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           +  FF           + E   + F++  +G+ + R
Sbjct: 73  LINFF---------AGTVERTDVSFVAAGEGMTVQR 99


>gi|327441616|dbj|BAK17981.1| predicted transcriptional regulator [Solibacillus silvestris
          StLB046]
          Length = 260

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 27/65 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+++   R     SQE L E L  + Q + K+E G       ++  I  + E  I +
Sbjct: 1  MEFGEKLFKLRKEKEYSQEALAEKLNTSRQAISKWENGQGFPETEKILMIGNIFEVSIDY 60

Query: 73 FFDVS 77
              S
Sbjct: 61 LLKDS 65


>gi|297158608|gb|ADI08320.1| transcriptional regulator [Streptomyces bingchenggensis BCW-1]
          Length = 206

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 46/99 (46%), Gaps = 4/99 (4%)

Query: 2   VGNKKIPNPV----DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
             +K +P P     + +VG+R+   R +  MS   L E   ++   + + E+G +    S
Sbjct: 9   TESKSVPEPPAERPESDVGRRVHAFRRLRRMSLRALAERSDVSGSFLSQLERGRSSASIS 68

Query: 58  RLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFIS 96
            L  I+  L   ++  FD S    + + +++  V+D++ 
Sbjct: 69  TLARIASALGITMAELFDTSAIGPTPLRAQDRPVLDWVG 107


>gi|229548807|ref|ZP_04437532.1| Cro/CI family transcriptional regulator [Enterococcus faecalis ATCC
           29200]
 gi|229306036|gb|EEN72032.1| Cro/CI family transcriptional regulator [Enterococcus faecalis ATCC
           29200]
          Length = 101

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 28/70 (40%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I + R +  M+Q+ L   +G++ Q + + E+            I+ V    I   F    
Sbjct: 32  IHVYRAMARMTQQDLANRIGVSRQTIIQLERNKYNPSLLLAHDIANVFGVTIDDVFTFKE 91

Query: 79  TVCSDISSEE 88
           T+  D+  E 
Sbjct: 92  TLNDDVEQEA 101


>gi|221635639|ref|YP_002523515.1| transcriptional Regulator of molybdate metabolism, XRE family
           [Thermomicrobium roseum DSM 5159]
 gi|221157546|gb|ACM06664.1| transcriptional Regulator of molybdate metabolism, XRE family
           [Thermomicrobium roseum DSM 5159]
          Length = 506

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 28/67 (41%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+R RR   G+SQ++L E  GI+ Q +   E G      +    ++  L   +   F  +
Sbjct: 144 RVRERRRSCGLSQQQLAERAGISRQTLVAIEAGRLTPSVAVALRLARALGCAVEELFSFA 203

Query: 78  PTVCSDI 84
                + 
Sbjct: 204 EPPLLEA 210


>gi|170756399|ref|YP_001781169.1| putative DNA-binding protein [Clostridium botulinum B1 str. Okra]
 gi|169121611|gb|ACA45447.1| putative DNA-binding protein [Clostridium botulinum B1 str. Okra]
          Length = 370

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 30/71 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ I   R    ++QE+L   +G++   V K+E G +    + L  I+      I  
Sbjct: 4  LLIGEVIYRLRKEKAITQEQLANFVGVSTAAVSKWESGASYPDITLLPVIAAFFNVTIDT 63

Query: 73 FFDVSPTVCSD 83
            +    +  +
Sbjct: 64 LLNFKIELSDE 74


>gi|167628192|ref|YP_001678691.1| helix-turn-helix domain protein [Heliobacterium modesticaldum Ice1]
 gi|167590932|gb|ABZ82680.1| helix-turn-helix domain protein [Heliobacterium modesticaldum Ice1]
          Length = 193

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/94 (18%), Positives = 33/94 (35%), Gaps = 6/94 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R+R  R    +SQ +LG  LG++   +  YEK         L  +++       F   +
Sbjct: 7   ERLRGLRKGRKLSQNELGAALGLSRGSISYYEKQSRTAPIDVLYVVADYFNVSADFLLGL 66

Query: 77  SPTVCSDIS------SEENNVMDFISTPDGLQLN 104
                 DI+         +     ++  +   L 
Sbjct: 67  KEEPDPDIAQLKPGPHRSSLYPPPLAAKEAAALV 100


>gi|149275965|ref|ZP_01882110.1| transcriptional regulator [Pedobacter sp. BAL39]
 gi|149233393|gb|EDM38767.1| transcriptional regulator [Pedobacter sp. BAL39]
          Length = 101

 Score = 59.1 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/68 (35%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ IR  R I  M Q  L   +GIT Q V   E+    +G+ RLQ I+  L+  IS 
Sbjct: 6  VHLGENIRAIRRIKNMKQATLARQIGITQQAVSSMER-TPHIGSRRLQKIARALDVTISS 64

Query: 73 FFDVSPTV 80
           ++   TV
Sbjct: 65 IWEFKETV 72


>gi|294624392|ref|ZP_06703085.1| XRE family transcriptional regulator [Xanthomonas fuscans subsp.
          aurantifolii str. ICPB 11122]
 gi|292601307|gb|EFF45351.1| XRE family transcriptional regulator [Xanthomonas fuscans subsp.
          aurantifolii str. ICPB 11122]
          Length = 105

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 1/83 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NVG+ IRL R   G+SQ  +      +   +   E        S +  I+E L  P+  
Sbjct: 1  MNVGQAIRLCRTQRGVSQSAIASRANCSVSYLSMLENNKRDPTLSTVTQIAEALRVPVGL 60

Query: 73 FFDVSPTVCSDISSEENNVMDFI 95
           F V     +++ + + NV D +
Sbjct: 61 LF-VLAADQNELGAIDENVADQL 82


>gi|153012131|ref|YP_001373341.1| cupin 2 domain-containing protein [Ochrobactrum anthropi ATCC
           49188]
 gi|151564019|gb|ABS17512.1| Cupin 2 conserved barrel domain protein [Ochrobactrum anthropi ATCC
           49188]
          Length = 202

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 36/142 (25%), Positives = 57/142 (40%), Gaps = 11/142 (7%)

Query: 2   VGNKKIPNPVDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +     P P D  ++G RIRLRR  LG++   L E  G++   + + E+G+       L 
Sbjct: 9   ISPTSEPAPNDAGDIGARIRLRRQTLGLTLGYLSEVSGLSTGALSQIERGLVSPTVRTLY 68

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK-- 118
            I+EVL    +   D  P   +  +     V+     P+ L        I   K R    
Sbjct: 69  TIAEVLSMSPAQLID--PQGFAAAARANPYVLRAGEQPEVLN---AGGVI---KHRASPE 120

Query: 119 IIELVRSIVSSEKKYRTIEEEC 140
           +IE ++S         +  EEC
Sbjct: 121 LIETMKSFAVRIIPGGSSGEEC 142


>gi|315612296|ref|ZP_07887210.1| Cro/CI family transcriptional regulator [Streptococcus sanguinis
          ATCC 49296]
 gi|315315689|gb|EFU63727.1| Cro/CI family transcriptional regulator [Streptococcus sanguinis
          ATCC 49296]
          Length = 167

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 31/69 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    
Sbjct: 5  EKLFELRKEKGWSQEKLAEQINVSRQSISKWESGQVLPEIEKIIELSKIFQVTTDYLLLD 64

Query: 77 SPTVCSDIS 85
            +  S  +
Sbjct: 65 ENSEKSSTA 73


>gi|293364378|ref|ZP_06611104.1| conserved hypothetical protein [Streptococcus oralis ATCC 35037]
 gi|307702656|ref|ZP_07639608.1| helix-turn-helix family protein [Streptococcus oralis ATCC 35037]
 gi|291317224|gb|EFE57651.1| conserved hypothetical protein [Streptococcus oralis ATCC 35037]
 gi|307623772|gb|EFO02757.1| helix-turn-helix family protein [Streptococcus oralis ATCC 35037]
          Length = 165

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 30/69 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    
Sbjct: 5  EKLFELRKEKGWSQEKLAEQINVSRQSISKWESGQVLPEIEKIIELSKIFQVTTDYLLLD 64

Query: 77 SPTVCSDIS 85
            +    I 
Sbjct: 65 ENSEKGSIE 73


>gi|332982996|ref|YP_004464437.1| helix-turn-helix domain-containing protein [Mahella australiensis
           50-1 BON]
 gi|332700674|gb|AEE97615.1| helix-turn-helix domain protein [Mahella australiensis 50-1 BON]
          Length = 222

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/128 (21%), Positives = 55/128 (42%), Gaps = 12/128 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG+R++  R    ++   L +  GI+   +   E G +     RL  ++EVL + +S+
Sbjct: 1   MSVGERLKQLRQQRKLTLRDLSQKAGISISFLSDIENGRSNPSLKRLSELAEVLGTTVSY 60

Query: 73  FF-DVSPTVCSD--ISSEENNVMDFIS---------TPDGLQLNRYFIQIDDVKVRQKII 120
              +  P + SD   + E  N +  +          T + L L+  +    +   RQ  I
Sbjct: 61  LLGEDEPNIVSDNNTAMEIANRLKELRKQRKWSVAETAEKLGLSEQYYHDLEEGNRQPDI 120

Query: 121 ELVRSIVS 128
           +L + +  
Sbjct: 121 KLTKKLAD 128



 Score = 45.2 bits (106), Expect = 0.003,   Method: Composition-based stats.
 Identities = 9/61 (14%), Positives = 24/61 (39%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +  R++  R     S  +  E LG++ Q     E+G  +      + ++++      +
Sbjct: 77  MEIANRLKELRKQRKWSVAETAEKLGLSEQYYHDLEEGNRQPDIKLTKKLADIFNVSADY 136

Query: 73  F 73
            
Sbjct: 137 L 137


>gi|312114539|ref|YP_004012135.1| helix-turn-helix domain protein [Rhodomicrobium vannielii ATCC
          17100]
 gi|311219668|gb|ADP71036.1| helix-turn-helix domain protein [Rhodomicrobium vannielii ATCC
          17100]
          Length = 206

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 30/55 (54%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           RIR  R+  G+S  +L + +GI+   + + E G   +  S+++ ++  L  P++
Sbjct: 27 NRIRQLRLERGLSLTELAKKIGISESHLSRVEAGARGLHLSKMEALAGALGVPVT 81


>gi|238924521|ref|YP_002938037.1| hypothetical protein EUBREC_2163 [Eubacterium rectale ATCC 33656]
 gi|238876196|gb|ACR75903.1| Hypothetical protein EUBREC_2163 [Eubacterium rectale ATCC 33656]
 gi|291525206|emb|CBK90793.1| Predicted transcriptional regulators [Eubacterium rectale DSM
          17629]
 gi|291529334|emb|CBK94920.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
          Length = 179

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 1/69 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPIS 71
          +++G R++  R+  G++Q++L +   +T   + + E+  N      L  I + L  +P  
Sbjct: 1  MDIGHRMKELRIQYGLTQQELADRAELTKGFISQLERNQNSPSVGTLLDIIQCLGMTPAE 60

Query: 72 FFFDVSPTV 80
          FF D  P  
Sbjct: 61 FFTDSEPEQ 69


>gi|212696735|ref|ZP_03304863.1| hypothetical protein ANHYDRO_01277 [Anaerococcus hydrogenalis DSM
          7454]
 gi|212676272|gb|EEB35879.1| hypothetical protein ANHYDRO_01277 [Anaerococcus hydrogenalis DSM
          7454]
          Length = 51

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/48 (29%), Positives = 27/48 (56%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          M+Q +L + LG+    V  +E+  N      +  ++E+ + P+S+FFD
Sbjct: 1  MTQAQLAKKLGVAPTTVSSWERNDNNPLMDNITLMAEIFDVPVSYFFD 48


>gi|212640211|ref|YP_002316731.1| putative xre family transcriptional regulator [Anoxybacillus
          flavithermus WK1]
 gi|212561691|gb|ACJ34746.1| Predicted transcriptional regulator, xre family [Anoxybacillus
          flavithermus WK1]
          Length = 121

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 31/74 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ IR+ R    MSQ++L   + +    +QKYE G        +  +   L+ P S   
Sbjct: 4  IGENIRMHREQRNMSQQELAMKVRVGVATIQKYESGEQVPDTPTILKLCTALDVPASELL 63

Query: 75 DVSPTVCSDISSEE 88
          + +    S     E
Sbjct: 64 ERADVSNSSSLDPE 77


>gi|282852578|ref|ZP_06261920.1| DNA-binding protein [Lactobacillus gasseri 224-1]
 gi|282556320|gb|EFB61940.1| DNA-binding protein [Lactobacillus gasseri 224-1]
          Length = 334

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/120 (17%), Positives = 50/120 (41%), Gaps = 18/120 (15%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++I   R    +SQE L E + ++ Q V K+E   +     ++ ++S++      +
Sbjct: 1   MRLGQKIADLRKKNNLSQEGLAEKMNVSRQAVSKWESEQSIPDIEKIVNLSKLFGVTTDY 60

Query: 73  F-------FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI--DDVKVRQKIIELV 123
                   F++     +D      + +  +S     +L + ++       K+R   I L+
Sbjct: 61  LLKSGEPSFELKNEDIND-----KDKLPVLSD----ELVKKYLAASQKSSKLRALAIALI 111


>gi|260854614|ref|YP_003228505.1| putative phage repressor protein CI [Escherichia coli O26:H11 str.
           11368]
 gi|257753263|dbj|BAI24765.1| putative phage repressor protein CI [Escherichia coli O26:H11 str.
           11368]
          Length = 215

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 45/88 (51%), Gaps = 1/88 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
           +G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+  
Sbjct: 5   LGIRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYLL 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
           + VS    S + S     + ++S  + +
Sbjct: 65  YGVSSPELSFVQSTSGTKIPYLSWGEAI 92


>gi|229553142|ref|ZP_04441867.1| xre family transcriptional regulator [Lactobacillus rhamnosus
           LMS2-1]
 gi|229313438|gb|EEN79411.1| xre family transcriptional regulator [Lactobacillus rhamnosus
           LMS2-1]
 gi|259650346|dbj|BAI42508.1| transcriptional regulator [Lactobacillus rhamnosus GG]
          Length = 104

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/111 (21%), Positives = 50/111 (45%), Gaps = 18/111 (16%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISF 72
           N+GK +  +R  + ++ EKL E  G++   + + E+G VN +   +L  I+  L+  +  
Sbjct: 5   NIGKLVHQQRRSMNLTIEKLAERSGVSVSLISRMERGDVNNISVKKLTDIARALDMQVGD 64

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           FF                    +S  + L L +Y  ++ + + R  + E++
Sbjct: 65  FFIAPE----------------MSDINTLALVKYLTRLPENE-RAHVSEVL 98


>gi|193071379|ref|ZP_03052295.1| putative repressor protein [Escherichia coli E110019]
 gi|192955295|gb|EDV85782.1| putative repressor protein [Escherichia coli E110019]
          Length = 219

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 45/88 (51%), Gaps = 1/88 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
           +G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+  
Sbjct: 9   LGIRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYLL 68

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
           + VS    S + S     + ++S  + +
Sbjct: 69  YGVSSPELSFVQSTSGTKIPYLSWGEAI 96


>gi|154503168|ref|ZP_02040228.1| hypothetical protein RUMGNA_00992 [Ruminococcus gnavus ATCC
          29149]
 gi|153796162|gb|EDN78582.1| hypothetical protein RUMGNA_00992 [Ruminococcus gnavus ATCC
          29149]
          Length = 154

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 41/85 (48%), Gaps = 1/85 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++VGK+I+  R  L +SQE+L   + +T Q +  +E G N    + L  +S++  + +  
Sbjct: 1  MDVGKQIKKFRQDLKLSQEELASKIFVTRQTISNWENGKNYPDVNSLVMLSQLFNTSLDI 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
                 +  +   E+++V  F   
Sbjct: 61 LVKGD-VIEMEKQVEQDDVRRFKRD 84


>gi|15894837|ref|NP_348186.1| transcriptional regulator [Clostridium acetobutylicum ATCC 824]
 gi|15024511|gb|AAK79526.1|AE007666_1 Predicted transcriptional regulator [Clostridium acetobutylicum
           ATCC 824]
 gi|325508975|gb|ADZ20611.1| transcriptional regulator [Clostridium acetobutylicum EA 2018]
          Length = 118

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/98 (20%), Positives = 42/98 (42%), Gaps = 10/98 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++++  R    + Q  + + +G TFQ++  +E G  RV    L  + E+      +  
Sbjct: 6   IGRKLKAARENANLKQSDVAKIIGSTFQKISSFETGRTRVDLETLIRLCEIYNVDADYI- 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
                    +S+++ N  +    P+   L   F Q+ D
Sbjct: 65  ---------LSTDKKNSNNLTLKPEESNLIVKFRQLPD 93


>gi|116669150|ref|YP_830083.1| transcriptional regulator [Arthrobacter sp. FB24]
 gi|116609259|gb|ABK01983.1| transcriptional regulator [Arthrobacter sp. FB24]
          Length = 495

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/130 (18%), Positives = 44/130 (33%), Gaps = 12/130 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G+R+R  R    M+ + L   +G    Q+   E G        LQ ++  L   I  
Sbjct: 25  ISLGRRVRHLRKAAAMTLDDLSAAVGTAPSQLSLIENGKREPKLGLLQQLAAALNVSIDQ 84

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR---QKIIELVRSIVSS 129
                P         E          + L L          K+R   +  ++++ S+V  
Sbjct: 85  LLGAEPPNRRAALEIELERYQRSPLYESLNL---------PKIRISSRLPMDVLESMVGL 135

Query: 130 EKKYRTIEEE 139
           + +      E
Sbjct: 136 QHELERRLNE 145


>gi|253578955|ref|ZP_04856226.1| predicted protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849898|gb|EES77857.1| predicted protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 184

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 33/80 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R    + Q +LG+ + ++ Q +   E+G  +     +   ++    P  +
Sbjct: 1  MTIGKRIKELRTEADLLQSELGKAVAVSSQVISNIERGYTKPSTELVNRCAKYFGVPADY 60

Query: 73 FFDVSPTVCSDISSEENNVM 92
              +    S    +E   +
Sbjct: 61 LLGRTTEKYSTTEQKEAPAL 80


>gi|187776409|ref|ZP_02802465.2| putative repressor protein [Escherichia coli O157:H7 str. EC4196]
 gi|188025234|ref|ZP_02776939.2| putative repressor protein [Escherichia coli O157:H7 str. EC4113]
 gi|189010761|ref|ZP_02809209.2| putative repressor protein [Escherichia coli O157:H7 str. EC4076]
 gi|189402468|ref|ZP_02782667.2| putative repressor protein [Escherichia coli O157:H7 str. EC4401]
 gi|189403410|ref|ZP_02795288.2| putative repressor protein [Escherichia coli O157:H7 str. EC4486]
 gi|189404368|ref|ZP_02788860.2| putative repressor protein [Escherichia coli O157:H7 str. EC4501]
 gi|189406229|ref|ZP_02827125.2| putative repressor protein [Escherichia coli O157:H7 str. EC508]
 gi|208810492|ref|ZP_03252368.1| putative repressor protein [Escherichia coli O157:H7 str. EC4206]
 gi|208816709|ref|ZP_03257829.1| putative repressor protein [Escherichia coli O157:H7 str. EC4045]
 gi|208819596|ref|ZP_03259916.1| putative repressor protein [Escherichia coli O157:H7 str. EC4042]
 gi|209400359|ref|YP_002271137.1| putative repressor protein [Escherichia coli O157:H7 str. EC4115]
 gi|217329536|ref|ZP_03445615.1| putative repressor protein [Escherichia coli O157:H7 str. TW14588]
 gi|187767281|gb|EDU31125.1| putative repressor protein [Escherichia coli O157:H7 str. EC4196]
 gi|188014100|gb|EDU52222.1| putative repressor protein [Escherichia coli O157:H7 str. EC4113]
 gi|188998604|gb|EDU67590.1| putative repressor protein [Escherichia coli O157:H7 str. EC4076]
 gi|189355391|gb|EDU73810.1| putative repressor protein [Escherichia coli O157:H7 str. EC4401]
 gi|189360762|gb|EDU79181.1| putative repressor protein [Escherichia coli O157:H7 str. EC4486]
 gi|189366046|gb|EDU84462.1| putative repressor protein [Escherichia coli O157:H7 str. EC4501]
 gi|189375816|gb|EDU94232.1| putative repressor protein [Escherichia coli O157:H7 str. EC508]
 gi|208725008|gb|EDZ74715.1| putative repressor protein [Escherichia coli O157:H7 str. EC4206]
 gi|208731052|gb|EDZ79741.1| putative repressor protein [Escherichia coli O157:H7 str. EC4045]
 gi|208739719|gb|EDZ87401.1| putative repressor protein [Escherichia coli O157:H7 str. EC4042]
 gi|209161759|gb|ACI39192.1| putative repressor protein [Escherichia coli O157:H7 str. EC4115]
 gi|217317304|gb|EEC25733.1| putative repressor protein [Escherichia coli O157:H7 str. TW14588]
          Length = 219

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 45/88 (51%), Gaps = 1/88 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
           +G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+  
Sbjct: 9   LGFRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYLL 68

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
           + VS    S + S     + ++S  + +
Sbjct: 69  YGVSSPELSFVQSTSGTKIPYLSWGEAI 96


>gi|195939798|ref|ZP_03085180.1| putative repressor protein [Escherichia coli O157:H7 str. EC4024]
 gi|261226405|ref|ZP_05940686.1| putative repressor protein [Escherichia coli O157:H7 str. FRIK2000]
 gi|261257983|ref|ZP_05950516.1| putative repressor protein [Escherichia coli O157:H7 str. FRIK966]
          Length = 214

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 45/88 (51%), Gaps = 1/88 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
           +G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+  
Sbjct: 4   LGFRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYLL 63

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
           + VS    S + S     + ++S  + +
Sbjct: 64  YGVSSPELSFVQSTSGTKIPYLSWGEAI 91


>gi|15802455|ref|NP_288481.1| putative repressor protein of prophage CP-933U [Escherichia coli
           O157:H7 EDL933]
 gi|12516142|gb|AAG57035.1|AE005422_10 putative repressor protein of prophage CP-933U [Escherichia coli
           O157:H7 str. EDL933]
          Length = 196

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 45/88 (51%), Gaps = 1/88 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
           +G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+  
Sbjct: 5   LGFRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYLL 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
           + VS    S + S     + ++S  + +
Sbjct: 65  YGVSSPELSFVQSTSGTKIPYLSWGEAI 92


>gi|15832020|ref|NP_310793.1| repressor protein [Escherichia coli O157:H7 str. Sakai]
 gi|254793674|ref|YP_003078511.1| putative repressor protein of prophage CP-933U [Escherichia coli
           O157:H7 str. TW14359]
 gi|13362234|dbj|BAB36189.1| putative repressor protein [Escherichia coli O157:H7 str. Sakai]
 gi|254593074|gb|ACT72435.1| putative repressor protein of prophage CP-933U [Escherichia coli
           O157:H7 str. TW14359]
          Length = 215

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 45/88 (51%), Gaps = 1/88 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
           +G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+  
Sbjct: 5   LGFRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYLL 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
           + VS    S + S     + ++S  + +
Sbjct: 65  YGVSSPELSFVQSTSGTKIPYLSWGEAI 92


>gi|331089117|ref|ZP_08338021.1| hypothetical protein HMPREF1025_01604 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|330406017|gb|EGG85541.1| hypothetical protein HMPREF1025_01604 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 135

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 29/59 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RI+ RR  L +SQ  + E   IT   + K E G           +S+VLE  +++ 
Sbjct: 8  IGERIKTRRKELKLSQTDIYERCDITSGALSKIENGKTTPSVIAFYKLSQVLECDMNWL 66


>gi|259506603|ref|ZP_05749505.1| transcriptional regulator [Corynebacterium efficiens YS-314]
 gi|259165801|gb|EEW50355.1| transcriptional regulator [Corynebacterium efficiens YS-314]
          Length = 138

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 35/85 (41%), Gaps = 6/85 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR------VGASRLQHISEVLES 68
           +G R+R  R I G SQE+L E + ++   +   E+  N          S +  +S  L+ 
Sbjct: 23  LGARVREIRKIRGYSQEELAEIVNMSRNAISNLERNENNNGKPGDPRLSTVYKLSWALDV 82

Query: 69  PISFFFDVSPTVCSDISSEENNVMD 93
           P +            I  +E+  +D
Sbjct: 83  PPAALLPAVGEKPQGICVDESLPVD 107


>gi|199598601|ref|ZP_03212017.1| Transcriptional regulator, xre family protein [Lactobacillus
           rhamnosus HN001]
 gi|258509055|ref|YP_003171806.1| XRE family transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|258540246|ref|YP_003174745.1| transcriptional regulator xre family [Lactobacillus rhamnosus Lc
           705]
 gi|199590524|gb|EDY98614.1| Transcriptional regulator, xre family protein [Lactobacillus
           rhamnosus HN001]
 gi|257148982|emb|CAR87955.1| Transcriptional regulator, xre family [Lactobacillus rhamnosus GG]
 gi|257151922|emb|CAR90894.1| Transcriptional regulator, xre family [Lactobacillus rhamnosus Lc
           705]
 gi|328478983|gb|EGF48479.1| transcriptional regulator xre family protein [Lactobacillus
           rhamnosus MTCC 5462]
          Length = 103

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/111 (21%), Positives = 50/111 (45%), Gaps = 18/111 (16%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISF 72
           N+GK +  +R  + ++ EKL E  G++   + + E+G VN +   +L  I+  L+  +  
Sbjct: 4   NIGKLVHQQRRSMNLTIEKLAERSGVSVSLISRMERGDVNNISVKKLTDIARALDMQVGD 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           FF                    +S  + L L +Y  ++ + + R  + E++
Sbjct: 64  FFIAPE----------------MSDINTLALVKYLTRLPENE-RAHVSEVL 97


>gi|307129576|ref|YP_003881592.1| hypothetical protein Dda3937_01730 [Dickeya dadantii 3937]
 gi|306527105|gb|ADM97035.1| hypothetical protein Dda3937_01730 [Dickeya dadantii 3937]
          Length = 116

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 4/72 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR+RL R+ +G++Q +LG   GI       +V +YEK  +      +   + VL+ P 
Sbjct: 23 IGKRLRLARVNVGLTQAELGRQAGIDEESAGARVSQYEKETHAPDFKLVCRFAAVLDVPE 82

Query: 71 SFFFDVSPTVCS 82
          ++F+ V   + +
Sbjct: 83 AYFYAVDDDLAT 94


>gi|290956608|ref|YP_003487790.1| UDP-N-acetylglucosamine transferase [Streptomyces scabiei 87.22]
 gi|260646134|emb|CBG69227.1| putative UDP-N-acetylglucosamine transferase [Streptomyces
          scabiei 87.22]
          Length = 509

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 9  IGKLIRDARQHRGWTQSQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|313677598|ref|YP_004055594.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
 gi|312944296|gb|ADR23486.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
          Length = 256

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/93 (16%), Positives = 35/93 (37%), Gaps = 3/93 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +   I+  R   G +Q+ L + LG+   Q+  YE+G        L  +S++    +    
Sbjct: 4   INNNIKYLRKEKGWTQQDLADELGVKRPQIGSYEEGRADPRIQTLLKLSDLFNVSVDDLL 63

Query: 75  DVSPTVCSDISSEENNVMDFIST---PDGLQLN 104
               +    ++ +   V+         + ++L 
Sbjct: 64  GKDLSSPMVVTKKPTKVLAITVDSQERENIELV 96


>gi|307325149|ref|ZP_07604353.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
 gi|306889295|gb|EFN20277.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
          Length = 509

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK IR  R   G +Q +L E LG +   V + E+G   +    +  I E L+S I
Sbjct: 9  IGKLIRDARQHRGWTQSQLAEALGTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|296113347|ref|YP_003627285.1| aminotransferase class I and II [Moraxella catarrhalis RH4]
 gi|295921041|gb|ADG61392.1| aminotransferase class I and II [Moraxella catarrhalis RH4]
          Length = 546

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 5/67 (7%)

Query: 16 GKRIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G R++LRR  LG+S E L   +      ++   +  +E G N +  S+L  ++  L    
Sbjct: 28 GLRLKLRRKALGLSAEALASKMSELGVPVSRGAIANWECGKNGIVMSKLPILAAALGVSE 87

Query: 71 SFFFDVS 77
          S+     
Sbjct: 88 SYLISGD 94


>gi|296110966|ref|YP_003621347.1| putative transcriptional regulator [Leuconostoc kimchii IMSNU
          11154]
 gi|295832497|gb|ADG40378.1| putative transcriptional regulator [Leuconostoc kimchii IMSNU
          11154]
          Length = 134

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 43/89 (48%), Gaps = 1/89 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +DI   ++++  R  LGMSQE + + L I+ Q + ++E G      + L  ++++ +  +
Sbjct: 2  MDILFPQQLKKYRTKLGMSQEDIADKLFISRQAISRWESGDATPDLTNLIKLTDIFDCSL 61

Query: 71 SFFFDVSPTVCSDISSEEN-NVMDFISTP 98
                 P   +D + ++  +  +F   P
Sbjct: 62 DSLVLGVPQQQTDTNGQDKIDNSEFTFDP 90


>gi|295694886|ref|YP_003588124.1| transcriptional regulator, XRE family [Bacillus tusciae DSM 2912]
 gi|295410488|gb|ADG04980.1| transcriptional regulator, XRE family [Bacillus tusciae DSM 2912]
          Length = 195

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 40/108 (37%), Gaps = 4/108 (3%)

Query: 10  PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PVD    +G+ +R  R   G + +K+    G++   + + E+G +      L  I+  L 
Sbjct: 4   PVDFSRRIGQILRSLRRDRGWTLDKMAAVTGVSKPMLGQIERGESNPTVVTLWKIATGLG 63

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
            P S F          I  +       +   DG  + R  +   D + 
Sbjct: 64  VPFSTFLRDPDDPRVAIVPQSRQPG--VKDDDGGYVVRSLVTAADPQP 109


>gi|291543337|emb|CBL16446.1| Predicted transcription factor, homolog of eukaryotic MBF1
           [Ruminococcus sp. 18P13]
          Length = 110

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/103 (20%), Positives = 45/103 (43%), Gaps = 2/103 (1%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +   +G+RIR  R   G+SQEKL E  G     + + E+G        ++ I+  ++  
Sbjct: 3   DIAKIIGQRIRNYRTQKGLSQEKLAELAGCHPTYIGQLERGEKNATLESVEKIASAMDIS 62

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
           +S  FD      S+  +      D +++ +  +  + +  + +
Sbjct: 63  LSELFDKLGKSGSN--NIAAKCYDLVASKNEAEQKQLYKMLQE 103


>gi|289550028|ref|YP_003470932.1| hypothetical protein SLGD_00657 [Staphylococcus lugdunensis
          HKU09-01]
 gi|289179560|gb|ADC86805.1| hypothetical protein SLGD_00657 [Staphylococcus lugdunensis
          HKU09-01]
          Length = 112

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 37/87 (42%), Gaps = 5/87 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++I+  R   G++Q++L   L  T Q V K+E+G     A  + +++++           
Sbjct: 5  EQIKKYRKEQGLTQDQLAAELHTTRQTVSKWEQGSIEPNAQMIVNLAQMFNITTDELLTG 64

Query: 77 SP-----TVCSDISSEENNVMDFISTP 98
                    ++  ++  N  DF+S  
Sbjct: 65 ENMSNFTKELNETGTDHLNFWDFLSQK 91


>gi|238923198|ref|YP_002936713.1| hypothetical protein EUBREC_0793 [Eubacterium rectale ATCC 33656]
 gi|238925050|ref|YP_002938566.1| hypothetical protein EUBREC_2702 [Eubacterium rectale ATCC 33656]
 gi|238874872|gb|ACR74579.1| Hypothetical protein EUBREC_0793 [Eubacterium rectale ATCC 33656]
 gi|238876725|gb|ACR76432.1| Hypothetical protein EUBREC_2702 [Eubacterium rectale ATCC 33656]
 gi|291530658|emb|CBK96243.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
          Length = 123

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 32/58 (55%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            ++G+ +++ R    M+QE + E +G++ Q V K+E G +    S L  ++++    +
Sbjct: 58  KSLGEALKVHRTQCKMTQEFVAETIGVSRQAVSKWENGTSDPSTSNLFALAKLYGISV 115


>gi|158423127|ref|YP_001524419.1| transcriptional regulator [Azorhizobium caulinodans ORS 571]
 gi|158330016|dbj|BAF87501.1| transcriptional regulator [Azorhizobium caulinodans ORS 571]
          Length = 249

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 27/65 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++R  R  L ++   L    GI+   + K E G      S LQ ++  L  PI+  F
Sbjct: 66  LGIQVRSIRRQLDLTVSDLANAAGISVGMLSKIENGQISPSLSTLQSVARALNVPITALF 125

Query: 75  DVSPT 79
                
Sbjct: 126 STFEE 130


>gi|118578963|ref|YP_900213.1| XRE family transcriptional regulator [Pelobacter propionicus DSM
          2379]
 gi|118501673|gb|ABK98155.1| transcriptional regulator, XRE family [Pelobacter propionicus DSM
          2379]
          Length = 187

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 12/70 (17%), Positives = 30/70 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R    ++ + + + +G +   + + E        + L  I++  +  I +
Sbjct: 4  LNIGAKIKKLRQEKKLTLQAVAKEIGFSPALISQIENNNVSPPIATLSKIAKFFDVKIGY 63

Query: 73 FFDVSPTVCS 82
          FF      C 
Sbjct: 64 FFIEDDDECG 73


>gi|332798117|ref|YP_004459616.1| helix-turn-helix domain-containing protein [Tepidanaerobacter sp.
           Re1]
 gi|332695852|gb|AEE90309.1| helix-turn-helix domain protein [Tepidanaerobacter sp. Re1]
          Length = 253

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/94 (21%), Positives = 37/94 (39%), Gaps = 3/94 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG +I+  R    ++Q +L E  G++   + + E G        L+ I+  L     FF
Sbjct: 136 FVGYKIKKIRCERKITQAELAEKAGVSTGLIGQIESGKVEPSIKTLEKIAAALSLSPCFF 195

Query: 74  FDVSPTVCSDISSEENNVMDFISTPD---GLQLN 104
                 + S +      V + ++ P     L+L 
Sbjct: 196 VSEDEELSSILKPMNPKVRELLNDPKVRSALELL 229



 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 27/54 (50%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +G +I L R    +S  +L E +GI+   + + E G      S L+ I++ L+ 
Sbjct: 72  IGAKIALIRQEKNLSLSELAEKVGISPSYLCQIESGRAMPALSTLKSIAKALDV 125



 Score = 44.0 bits (103), Expect = 0.007,   Method: Composition-based stats.
 Identities = 9/51 (17%), Positives = 21/51 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          IR  R    M+ + L +  G++   + + E G  +     +  +++ L   
Sbjct: 7  IRSLRQKRNMTLQDLAQQAGLSVSYLSEIELGKKQPSLETIDKLAQALNIS 57


>gi|269928755|ref|YP_003321076.1| hypothetical protein Sthe_2842 [Sphaerobacter thermophilus DSM
          20745]
 gi|269788112|gb|ACZ40254.1| protein of unknown function DUF955 [Sphaerobacter thermophilus
          DSM 20745]
          Length = 372

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 34/68 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+ L R   G+S   L E +G++ + +  YE+G +  G   L  I++ L  PI+FFF   
Sbjct: 14 RLTLARKRRGLSISALAERVGLSRRSIFNYERGRSVPGDHTLATIAQTLGFPITFFFGND 73

Query: 78 PTVCSDIS 85
              S  +
Sbjct: 74 IEELSPDA 81


>gi|297203046|ref|ZP_06920443.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sviceus ATCC 29083]
 gi|197712042|gb|EDY56076.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sviceus ATCC 29083]
          Length = 509

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +G+ IR  R   G +Q +L E LG +   V + E+G   +    +  I E L
Sbjct: 1  MADDYLVRIGRLIRDARQHRGWTQSQLAEALGTSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|78044139|ref|YP_360516.1| prophage LambdaCh01, PBSX family transcriptional regulator
          [Carboxydothermus hydrogenoformans Z-2901]
 gi|77996254|gb|ABB15153.1| prophage LambdaCh01, transcriptional regulator, PBSX family
          [Carboxydothermus hydrogenoformans Z-2901]
          Length = 76

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +++  R   G++Q ++ + LGI+     + E G  R+       I+ +L+   +  F
Sbjct: 2  NKLKQLRKANGLTQMEMAKKLGISESYYCQIENGTRRMSLKTALDIAAILKVTPNDLF 59


>gi|56807705|ref|ZP_00365580.1| COG1396: Predicted transcriptional regulators [Streptococcus
           pyogenes M49 591]
          Length = 150

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 35/67 (52%), Gaps = 1/67 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RI+  R   G++Q+ L E + + ++ +Q++E   +++   + Q +++  +  +++    
Sbjct: 48  NRIKELRKEKGLTQQDLAEEIYVHYRTIQRWEN-EHKIALDQAQLLADHFDVSVAYLLGY 106

Query: 77  SPTVCSD 83
           S T   +
Sbjct: 107 SDTTKDN 113


>gi|125974946|ref|YP_001038856.1| XRE family transcriptional regulator [Clostridium thermocellum
          ATCC 27405]
 gi|125715171|gb|ABN53663.1| transcriptional regulator, XRE family [Clostridium thermocellum
          ATCC 27405]
          Length = 79

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 35/67 (52%), Gaps = 1/67 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+ +R  L ++Q++L + +G+    + K E G+ R   +  + I+++L    + FFD   
Sbjct: 14 IKEKRAALNLTQKQLADLVGVDRTTISKIENGI-RPSVNSAKKIAQILGLDWTIFFDSDE 72

Query: 79 TVCSDIS 85
             ++ +
Sbjct: 73 EHQTETA 79


>gi|322377135|ref|ZP_08051627.1| putative transcriptional regulator PlcR [Streptococcus sp. M334]
 gi|321281848|gb|EFX58856.1| putative transcriptional regulator PlcR [Streptococcus sp. M334]
          Length = 286

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 45/89 (50%), Gaps = 4/89 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +  R++ +R  L +SQ++L E  GI  Q Q+ + E+G    G+  L  +S+ L+  + 
Sbjct: 3  MLLATRLKNKRKELKLSQKELAE--GICEQGQISRMEQGKYSPGSELLFQLSKRLKVSMD 60

Query: 72 FFFDVSP-TVCSDISSEENNVMDFISTPD 99
          +FF+ +  +   +I   +     F+   +
Sbjct: 61 YFFEDTEVSSLENIDKFKELSKKFLDERE 89


>gi|317490559|ref|ZP_07949035.1| hypothetical protein HMPREF1023_02735 [Eggerthella sp. 1_3_56FAA]
 gi|316910339|gb|EFV31972.1| hypothetical protein HMPREF1023_02735 [Eggerthella sp. 1_3_56FAA]
          Length = 205

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 30/66 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G++++  R   G++QE+L   L ++   V K+E G        LQ ++ + +  +  
Sbjct: 1  MDFGEKLKALRTERGLTQEQLAARLYVSRTAVSKWETGGGSPNLDSLQAVARLFDVSVDD 60

Query: 73 FFDVSP 78
                
Sbjct: 61 LLSTDD 66


>gi|229028813|ref|ZP_04184915.1| hypothetical protein bcere0028_9180 [Bacillus cereus AH1271]
 gi|228732500|gb|EEL83380.1| hypothetical protein bcere0028_9180 [Bacillus cereus AH1271]
          Length = 149

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|226361968|ref|YP_002779746.1| Xre family DNA-binding protein [Rhodococcus opacus B4]
 gi|226240453|dbj|BAH50801.1| putative Xre family DNA-binding protein [Rhodococcus opacus B4]
          Length = 221

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 31/75 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + +++R  R   G+S   +   +GI+   + K E        S L  ++  L+ P++  F
Sbjct: 37  IARQVRALRKASGLSVGDMAAKVGISKAMLSKIENSQTSCSLSTLARLAAGLDVPVTSLF 96

Query: 75  DVSPTVCSDISSEEN 89
             + T    +  E  
Sbjct: 97  RGADTARDAVYVEAG 111


>gi|170760210|ref|YP_001786158.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
 gi|169407199|gb|ACA55610.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
          Length = 201

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 33/77 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ K+I+  R+   +SQE L E + +T Q +  +E G N    + L  +S +    +  
Sbjct: 1  MDISKQIKKYRLDSKLSQEDLAEKVFVTRQTISNWENGKNYPDINSLVLLSTLFGVSLDI 60

Query: 73 FFDVSPTVCSDISSEEN 89
                    +    E+
Sbjct: 61 LVKGDLEEMKEEIKTED 77


>gi|182419849|ref|ZP_02951089.1| putative phage repressor [Clostridium butyricum 5521]
 gi|237666894|ref|ZP_04526879.1| helix-turn-helix domain protein [Clostridium butyricum E4 str.
          BoNT E BL5262]
 gi|182376397|gb|EDT73979.1| putative phage repressor [Clostridium butyricum 5521]
 gi|237658093|gb|EEP55648.1| helix-turn-helix domain protein [Clostridium butyricum E4 str.
          BoNT E BL5262]
          Length = 156

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 28/61 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G RIR  R    ++Q +L + + ++   ++ YE     V    L+ IS  L   IS 
Sbjct: 1  MTIGARIRTSRKKANLTQAELAKLIDVSPSSIRMYETNKRNVSLEILKKISTALNISISD 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|159044420|ref|YP_001533214.1| putative HTH-type transcriptional regulator [Dinoroseobacter shibae
           DFL 12]
 gi|157912180|gb|ABV93613.1| putative HTH-type transcriptional regulator [Dinoroseobacter shibae
           DFL 12]
          Length = 215

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/94 (18%), Positives = 39/94 (41%), Gaps = 2/94 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ +R  R   G +  +L    G++   + K E G      + LQ ++  L  P++ FF
Sbjct: 26  IGRALRAFRREQGTTVVELSAATGLSTGMLSKIENGQTSPSLTTLQALANALSVPLTAFF 85

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                  + + +      +  +  +G + N ++ 
Sbjct: 86  RGFEQSRAAVHTRAGEGAE--AEREGTRANHHYT 117


>gi|81429329|ref|YP_396330.1| XRE family DNA-binding protein [Lactobacillus sakei subsp. sakei
          23K]
 gi|78610972|emb|CAI56024.1| Putative DNA-binding protein, XRE family [Lactobacillus sakei
          subsp. sakei 23K]
          Length = 106

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 36/80 (45%), Gaps = 3/80 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            G+R++  R    ++Q +L + LG++   V  YE+G++      L  I  +L++   + 
Sbjct: 5  FFGERLKAVRKAKRLTQLELSQRLGVSKGTVSAYEQGLSYPSLETLVSICSILDTSADYL 64

Query: 74 F---DVSPTVCSDISSEENN 90
              D  P     ++ E+  
Sbjct: 65 LNISDDLPFKMGGLTDEQTE 84


>gi|328956524|ref|YP_004373910.1| putative DNA-binding protein, XRE family [Carnobacterium sp.
          17-4]
 gi|328672848|gb|AEB28894.1| putative DNA-binding protein, XRE family [Carnobacterium sp.
          17-4]
          Length = 96

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G RI+  R +  M+ ++L E + ++   +   E    ++    L HI +VL   IS 
Sbjct: 1  MEIGNRIQELRKLNNMTAKELSERINVSPPFISAIENNSTKLSLKTLAHICDVLGVTISE 60

Query: 73 FFDVSPTVCSD 83
          FF+   +    
Sbjct: 61 FFNSEISPVEQ 71


>gi|307276073|ref|ZP_07557206.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|306507403|gb|EFM76540.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|315575131|gb|EFU87322.1| helix-turn-helix protein [Enterococcus faecalis TX0309B]
 gi|315582558|gb|EFU94749.1| helix-turn-helix protein [Enterococcus faecalis TX0309A]
          Length = 73

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 30/66 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++ +R  LG +QE   + +GI       YE+G         + ++++L+ P + FFD   
Sbjct: 8  LKKKRESLGYTQESFAKEIGIAKTTYSSYEQGYRNPTVQTAKKMAKILQVPWTIFFDEEV 67

Query: 79 TVCSDI 84
              D 
Sbjct: 68 LETYDF 73


>gi|259415826|ref|ZP_05739746.1| transcriptional regulator, XRE family [Silicibacter sp.
          TrichCH4B]
 gi|259347265|gb|EEW59042.1| transcriptional regulator, XRE family [Silicibacter sp.
          TrichCH4B]
          Length = 443

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 30/69 (43%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G RIR RR++LG+ Q  L    GI+   +   E    R+G   L  +++VL    S
Sbjct: 4  DSLTGSRIRERRLMLGLRQADLARDAGISASYLNLIEHNRRRIGGKLLVTLAQVLNVEPS 63

Query: 72 FFFDVSPTV 80
             +     
Sbjct: 64 LLTEGVEAT 72


>gi|255021528|ref|ZP_05293572.1| Transcriptional regulator, MerR family [Acidithiobacillus caldus
           ATCC 51756]
 gi|254969056|gb|EET26574.1| Transcriptional regulator, MerR family [Acidithiobacillus caldus
           ATCC 51756]
          Length = 181

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 37/98 (37%), Gaps = 3/98 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G++++  R    +S   LGE  G++   + + E G      + L+ I   L   I+  
Sbjct: 3   QLGRQLQKLREERQLSLRSLGELAGVSASAISQMEAGKVSPSIATLEKICNALGVHIASL 62

Query: 74  FDVSPTVCSDI---SSEENNVMDFISTPDGLQLNRYFI 108
           FD        I   ++E   V    S      L R F 
Sbjct: 63  FDEPQGDQGPILLRTNERRRVYSADSHASIEPLARNFA 100


>gi|212711747|ref|ZP_03319875.1| hypothetical protein PROVALCAL_02822 [Providencia alcalifaciens DSM
           30120]
 gi|212685849|gb|EEB45377.1| hypothetical protein PROVALCAL_02822 [Providencia alcalifaciens DSM
           30120]
          Length = 107

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/96 (19%), Positives = 35/96 (36%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           +K+       +   I   R    +S  +LG  +G++ QQ+ +YE G+  +  S L  +  
Sbjct: 7   EKMTESFSQAIADEIASLRRKRLLSGSQLGSLIGVSQQQISRYENGICEITLSTLCLLLH 66

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
            L   +  FF            E     + +    G
Sbjct: 67  YLGVSLESFFFFVSERIEANEPELYGEFNLLFEQHG 102


>gi|126730936|ref|ZP_01746745.1| DNA-binding protein, putative [Sagittula stellata E-37]
 gi|126708652|gb|EBA07709.1| DNA-binding protein, putative [Sagittula stellata E-37]
          Length = 130

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 39/92 (42%), Gaps = 3/92 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+   R   GMSQE L + LGI    ++++E  ++   A++L  ++ +L   + +  
Sbjct: 14  LGDRLAAAREAQGMSQETLAKNLGIKLTTLERWEDDLSEPRANKLSMVAGILNVSMVWLI 73

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                   +   +     DF    + L   R 
Sbjct: 74  TGEGEGVGNPEEDTTMGADF---TEILAEMRA 102


>gi|125719034|ref|YP_001036167.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK36]
 gi|125498951|gb|ABN45617.1| Transcriptional regulator, XRE family, putative [Streptococcus
          sanguinis SK36]
          Length = 168

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 34/77 (44%), Gaps = 3/77 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
           ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    
Sbjct: 5  NKLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKVVELSKIFQVTTDYLLLE 64

Query: 75 -DVSPTVCSDISSEENN 90
              P +   +S +E N
Sbjct: 65 DSDKPEIKPVLSEDEKN 81


>gi|29376650|ref|NP_815804.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          V583]
 gi|29344114|gb|AAO81874.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          V583]
          Length = 70

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 30/66 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++ +R  LG +QE   + +GI       YE+G         + ++++L+ P + FFD   
Sbjct: 5  LKKKRESLGYTQESFAKEIGIAKTTYSSYEQGYRNPTVQTAKKMAKILQVPWTIFFDEEV 64

Query: 79 TVCSDI 84
              D 
Sbjct: 65 LETYDF 70


>gi|148253455|ref|YP_001238040.1| transcriptional regulator [Bradyrhizobium sp. BTAi1]
 gi|146405628|gb|ABQ34134.1| transcriptional regulator [Bradyrhizobium sp. BTAi1]
          Length = 225

 Score = 58.7 bits (141), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 28/60 (46%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  +R  R  L ++  +LG   GI+   + K E G      + L  +++ L  PI+  F
Sbjct: 42  IGAEVRRLRKDLDLTVSELGAAAGISAGMLSKIENGSISPSLATLSALAKALNVPIARLF 101


>gi|331647039|ref|ZP_08348133.1| transcriptional regulator of post-exponential-phase responses
          (PbsX(xre)family) [Escherichia coli M605]
 gi|331043822|gb|EGI15958.1| transcriptional regulator of post-exponential-phase responses
          (PbsX(xre)family) [Escherichia coli M605]
          Length = 108

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 2/82 (2%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISF 72
          ++G  IR  R    +SQ++L +  G++  Q+ + E G  +      +  I+  L + I  
Sbjct: 3  HIGDNIRRMREAAKLSQQELADKSGVSKAQISRLENGTQKNPQIQTVIAIATELGTTIEE 62

Query: 73 F-FDVSPTVCSDISSEENNVMD 93
            F   PT  + +S    N+ D
Sbjct: 63 LIFGEEPTATTYLSQALQNLPD 84


>gi|296875997|ref|ZP_06900055.1| XRE family transcriptional regulator [Streptococcus parasanguinis
           ATCC 15912]
 gi|296432988|gb|EFH18777.1| XRE family transcriptional regulator [Streptococcus parasanguinis
           ATCC 15912]
          Length = 175

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/123 (16%), Positives = 53/123 (43%), Gaps = 12/123 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R    +SQ+++ + + I+ + + ++E G +++   + Q +++     + +    
Sbjct: 2   NRLKELRKEKKLSQKEIAKEMSISEKTLSRWENGESQIKPEKAQQLADCFGVSVGYLLGY 61

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
           S    S  +S +    D    P      R +  + D        +L++ +   E++Y T 
Sbjct: 62  SEYRDSQEASYQLYQKDP-DDPYNHVKARVYSILGD--------DLMKVL---EEQYITG 109

Query: 137 EEE 139
            +E
Sbjct: 110 HDE 112


>gi|256752787|ref|ZP_05493631.1| transcriptional regulator, XRE family [Thermoanaerobacter
           ethanolicus CCSD1]
 gi|256748321|gb|EEU61381.1| transcriptional regulator, XRE family [Thermoanaerobacter
           ethanolicus CCSD1]
          Length = 427

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 24/111 (21%), Positives = 54/111 (48%), Gaps = 10/111 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++I++G +I+  R+   +SQ +L     +    + K E G       +L +I+E L+ P+
Sbjct: 1   MNISIGTKIKSLRLQKKLSQSELCGNF-MNRVVLSKIENGKALPSLEQLIYIAEKLKVPV 59

Query: 71  SFFF-DVSPTVCSDISSEENNVMDFISTPD----GLQLNR----YFIQIDD 112
            +FF D+  T C + +   ++++  +   +     ++L       F +I+D
Sbjct: 60  GYFFSDLKDTSCINNAENFSSIIKELFYSENYYDIVKLVEDNYNEFCKIED 110


>gi|149915490|ref|ZP_01904017.1| DNA-binding protein, putative [Roseobacter sp. AzwK-3b]
 gi|149810779|gb|EDM70620.1| DNA-binding protein, putative [Roseobacter sp. AzwK-3b]
          Length = 215

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 38/86 (44%), Gaps = 4/86 (4%)

Query: 2   VGNKKIPNPVDI----NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
             ++   +  DI     +G  +R  R   G++   L + LG +   + + E+ ++    S
Sbjct: 20  TESRHRMHQTDISRAQTLGADLRALRKARGLTLADLADSLGRSVGWLSQVERDLSEPSIS 79

Query: 58  RLQHISEVLESPISFFFDVSPTVCSD 83
            L+ I+E L  P+S  F  +  +  +
Sbjct: 80  DLRQIAEQLGVPMSLLFGHASALADE 105


>gi|260906368|ref|ZP_05914690.1| hypothetical protein BlinB_13653 [Brevibacterium linens BL2]
          Length = 180

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 30/86 (34%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  IR  R   GM+   L    G++   + + E+G        L  I++  + P+  FF 
Sbjct: 2   GALIRSLRESAGMTLTDLSRMAGVSQGLLSQIERGRGNPAYLTLLKIAKAFDVPVGRFFG 61

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL 101
                  +     +       T  GL
Sbjct: 62  SGGEPADNRVVRADKRRQLQVTDRGL 87


>gi|251779491|ref|ZP_04822411.1| helix-turn-helix domain protein [Clostridium botulinum E1 str.
          'BoNT E Beluga']
 gi|243083806|gb|EES49696.1| helix-turn-helix domain protein [Clostridium botulinum E1 str.
          'BoNT E Beluga']
          Length = 164

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 37/84 (44%), Gaps = 3/84 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+GK I+  R + G++Q++ G  +  +   ++KYE G   +  S    I+      I  
Sbjct: 9  INIGKNIKHYRKLEGLTQKEFGAKIHKSEISIRKYESGKGNIPMSTFFDIARSFNINI-- 66

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
            D+       I   E ++ + + 
Sbjct: 67 -VDLLRNEEGRILGIEKDIYEDLR 89


>gi|229084128|ref|ZP_04216417.1| hypothetical protein bcere0022_7740 [Bacillus cereus Rock3-44]
 gi|228699164|gb|EEL51860.1| hypothetical protein bcere0022_7740 [Bacillus cereus Rock3-44]
          Length = 149

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELKQKVIQDSKQLA 80


>gi|85704021|ref|ZP_01035124.1| DNA-binding protein, putative [Roseovarius sp. 217]
 gi|85671341|gb|EAQ26199.1| DNA-binding protein, putative [Roseovarius sp. 217]
          Length = 190

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 34/71 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G  +R  R   G++   L E LG +   + + E+ ++    S L+ ++EVL  P+S 
Sbjct: 10 RSLGADLRALRKARGLTLAALAEMLGRSVGWLSQVERDLSEPSISDLRQVAEVLGVPMSL 69

Query: 73 FFDVSPTVCSD 83
           F  +     +
Sbjct: 70 LFGHASAPAEE 80


>gi|238912424|ref|ZP_04656261.1| XRE family transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Tennessee str. CDC07-0191]
          Length = 90

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+   ++QEKLG   GI       +V +YE GV+R     +   + VL+ P  +F
Sbjct: 9  RLKTARLHAHLTQEKLGVLAGIEEETARSRVSQYESGVHRPTFEMMCAFARVLDVPECYF 68

Query: 74 F 74
          +
Sbjct: 69 Y 69


>gi|229160813|ref|ZP_04288804.1| hypothetical protein bcere0009_16030 [Bacillus cereus R309803]
 gi|228622661|gb|EEK79496.1| hypothetical protein bcere0009_16030 [Bacillus cereus R309803]
          Length = 145

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/102 (22%), Positives = 44/102 (43%), Gaps = 9/102 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G++++  R   G SQE + + +GIT Q V K+E   +      L  +SE+    +  
Sbjct: 1   MSLGQQLKRLRESQGFSQEDVAKKVGITRQAVYKWENDKSCPDIENLILLSEMYNVTLDE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPD-------GLQLNRYF 107
               +  +   I  +E+   DF    +       GL +   F
Sbjct: 61  LIKGNQNLKEKIHIDEDT--DFEKENEFGFYIGFGLLIVSAF 100


>gi|169830890|ref|YP_001716872.1| putative prophage repressor [Candidatus Desulforudis audaxviator
          MP104C]
 gi|169637734|gb|ACA59240.1| putative prophage repressor [Candidatus Desulforudis audaxviator
          MP104C]
          Length = 245

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 28/65 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G RI   R   GMSQ+KL E   +    + K E G        L  I E +   ++ 
Sbjct: 1  MDIGPRIARFRERAGMSQKKLAELAALDRSHISKIESGDTSPSLEALMRICESMGVTLAE 60

Query: 73 FFDVS 77
          FF   
Sbjct: 61 FFGSD 65


>gi|153938231|ref|YP_001390160.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|152934127|gb|ABS39625.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|295318252|gb|ADF98629.1| DNA-binding protein [Clostridium botulinum F str. 230613]
          Length = 201

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 33/77 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ K+I+  R+   +SQE L E + +T Q +  +E G N    + L  +S +    +  
Sbjct: 1  MDISKQIKKYRLDSKLSQEDLAEKVFVTRQTISNWENGKNYPDINSLVLLSTLFGVSLDI 60

Query: 73 FFDVSPTVCSDISSEEN 89
                    +    E+
Sbjct: 61 LVKGDLEEMKEEIKTED 77


>gi|239636398|ref|ZP_04677400.1| transcriptional regulator, Cro/CI family [Staphylococcus warneri
          L37603]
 gi|239597753|gb|EEQ80248.1| transcriptional regulator, Cro/CI family [Staphylococcus warneri
          L37603]
          Length = 179

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 34/81 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R I  ++QE+L E   ++   + + E            +I EVL +  S 
Sbjct: 1  MEIGYKLKNLRKIKNLTQEELAERTDLSKGYISQIESQNASPSMETFLNILEVLGTSASD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  +         EE  + D
Sbjct: 61 FFKETEQQKVIYKKEEQVIYD 81


>gi|229146819|ref|ZP_04275184.1| hypothetical protein bcere0012_39590 [Bacillus cereus BDRD-ST24]
 gi|296504729|ref|YP_003666429.1| transcriptional activator PlcR [Bacillus thuringiensis BMB171]
 gi|228636647|gb|EEK93112.1| hypothetical protein bcere0012_39590 [Bacillus cereus BDRD-ST24]
 gi|296325781|gb|ADH08709.1| transcriptional activator plcR [Bacillus thuringiensis BMB171]
          Length = 289

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 1/60 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK IR  R I G+SQ +LG+ +G     + + E G+       L  I+  LE P+ +  +
Sbjct: 7  GKAIRRIRKIRGLSQSELGDGIG-GQSFISRIEHGLVLPSIDTLLIIANRLEVPLEYLLE 65


>gi|227520115|ref|ZP_03950164.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
           TX0104]
 gi|227554980|ref|ZP_03985027.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
           HH22]
 gi|229546714|ref|ZP_04435439.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
           TX1322]
 gi|255971323|ref|ZP_05421909.1| predicted protein [Enterococcus faecalis T1]
 gi|255973942|ref|ZP_05424528.1| predicted protein [Enterococcus faecalis T2]
 gi|256617741|ref|ZP_05474587.1| predicted protein [Enterococcus faecalis ATCC 4200]
 gi|256761627|ref|ZP_05502207.1| predicted protein [Enterococcus faecalis T3]
 gi|256957270|ref|ZP_05561441.1| predicted protein [Enterococcus faecalis DS5]
 gi|256959996|ref|ZP_05564167.1| predicted protein [Enterococcus faecalis Merz96]
 gi|256964308|ref|ZP_05568479.1| predicted protein [Enterococcus faecalis HIP11704]
 gi|257077756|ref|ZP_05572117.1| predicted protein [Enterococcus faecalis JH1]
 gi|257081116|ref|ZP_05575477.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           E1Sol]
 gi|257083785|ref|ZP_05578146.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           Fly1]
 gi|257086210|ref|ZP_05580571.1| predicted protein [Enterococcus faecalis D6]
 gi|257089282|ref|ZP_05583643.1| predicted protein [Enterococcus faecalis CH188]
 gi|257415435|ref|ZP_05592429.1| predicted protein [Enterococcus faecalis AR01/DG]
 gi|257418466|ref|ZP_05595460.1| cro/CI family transcriptional regulator [Enterococcus faecalis T11]
 gi|293383748|ref|ZP_06629655.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
           R712]
 gi|293388776|ref|ZP_06633269.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
           S613]
 gi|307267947|ref|ZP_07549335.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|307271869|ref|ZP_07553137.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|307277295|ref|ZP_07558398.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|307278434|ref|ZP_07559509.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
 gi|307286678|ref|ZP_07566764.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|307292450|ref|ZP_07572305.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|312901588|ref|ZP_07760861.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
 gi|312904430|ref|ZP_07763589.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|312907036|ref|ZP_07766032.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|312952861|ref|ZP_07771723.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|312978706|ref|ZP_07790433.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
 gi|227072459|gb|EEI10422.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
           TX0104]
 gi|227175889|gb|EEI56861.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
           HH22]
 gi|229308174|gb|EEN74161.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
           TX1322]
 gi|255962341|gb|EET94817.1| predicted protein [Enterococcus faecalis T1]
 gi|255966814|gb|EET97436.1| predicted protein [Enterococcus faecalis T2]
 gi|256597268|gb|EEU16444.1| predicted protein [Enterococcus faecalis ATCC 4200]
 gi|256682878|gb|EEU22573.1| predicted protein [Enterococcus faecalis T3]
 gi|256947766|gb|EEU64398.1| predicted protein [Enterococcus faecalis DS5]
 gi|256950492|gb|EEU67124.1| predicted protein [Enterococcus faecalis Merz96]
 gi|256954804|gb|EEU71436.1| predicted protein [Enterococcus faecalis HIP11704]
 gi|256985786|gb|EEU73088.1| predicted protein [Enterococcus faecalis JH1]
 gi|256989146|gb|EEU76448.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           E1Sol]
 gi|256991815|gb|EEU79117.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           Fly1]
 gi|256994240|gb|EEU81542.1| predicted protein [Enterococcus faecalis D6]
 gi|256998094|gb|EEU84614.1| predicted protein [Enterococcus faecalis CH188]
 gi|257157263|gb|EEU87223.1| predicted protein [Enterococcus faecalis ARO1/DG]
 gi|257160294|gb|EEU90254.1| cro/CI family transcriptional regulator [Enterococcus faecalis T11]
 gi|291078824|gb|EFE16188.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
           R712]
 gi|291081933|gb|EFE18896.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
           S613]
 gi|306496495|gb|EFM66057.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|306502156|gb|EFM71440.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|306504940|gb|EFM74135.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
 gi|306506029|gb|EFM75196.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|306511375|gb|EFM80377.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|306515588|gb|EFM84115.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|310627021|gb|EFQ10304.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|310629377|gb|EFQ12660.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|310632128|gb|EFQ15411.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|311288413|gb|EFQ66969.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
 gi|311291383|gb|EFQ69939.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
 gi|315027056|gb|EFT38988.1| helix-turn-helix protein [Enterococcus faecalis TX2137]
 gi|315029041|gb|EFT40973.1| helix-turn-helix protein [Enterococcus faecalis TX4000]
 gi|315032500|gb|EFT44432.1| helix-turn-helix protein [Enterococcus faecalis TX0017]
 gi|315034266|gb|EFT46198.1| helix-turn-helix protein [Enterococcus faecalis TX0027]
 gi|315145162|gb|EFT89178.1| helix-turn-helix protein [Enterococcus faecalis TX2141]
 gi|315148028|gb|EFT92044.1| helix-turn-helix protein [Enterococcus faecalis TX4244]
 gi|315149631|gb|EFT93647.1| helix-turn-helix protein [Enterococcus faecalis TX0012]
 gi|315152943|gb|EFT96959.1| helix-turn-helix protein [Enterococcus faecalis TX0031]
 gi|315155174|gb|EFT99190.1| helix-turn-helix protein [Enterococcus faecalis TX0043]
 gi|315157502|gb|EFU01519.1| helix-turn-helix protein [Enterococcus faecalis TX0312]
 gi|315163070|gb|EFU07087.1| helix-turn-helix protein [Enterococcus faecalis TX0645]
 gi|315165270|gb|EFU09287.1| helix-turn-helix protein [Enterococcus faecalis TX1302]
 gi|315167995|gb|EFU12012.1| helix-turn-helix protein [Enterococcus faecalis TX1341]
 gi|315171773|gb|EFU15790.1| helix-turn-helix protein [Enterococcus faecalis TX1342]
 gi|315174886|gb|EFU18903.1| helix-turn-helix protein [Enterococcus faecalis TX1346]
 gi|315574217|gb|EFU86408.1| helix-turn-helix protein [Enterococcus faecalis TX0309B]
 gi|315577347|gb|EFU89538.1| helix-turn-helix protein [Enterococcus faecalis TX0630]
 gi|315581640|gb|EFU93831.1| helix-turn-helix protein [Enterococcus faecalis TX0309A]
 gi|327534452|gb|AEA93286.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           OG1RF]
 gi|329577861|gb|EGG59282.1| DNA-binding helix-turn-helix protein [Enterococcus faecalis TX1467]
          Length = 101

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 28/70 (40%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I + R +  M+Q+ L   +G++ Q + + E+            I+ V    I   F    
Sbjct: 32  IHVYRAMARMTQQDLANRVGVSRQTIIQLERNKYNPSLLLAHDIANVFGVTIDDVFTFKE 91

Query: 79  TVCSDISSEE 88
           T+  D+  E 
Sbjct: 92  TLNDDVEQEA 101


>gi|310825925|ref|YP_003958282.1| DNA binding protein [Eubacterium limosum KIST612]
 gi|308737659|gb|ADO35319.1| DNA binding protein [Eubacterium limosum KIST612]
          Length = 113

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 12/69 (17%), Positives = 31/69 (44%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RI+  R   G++Q +L + +G++ + +   EKG           I+ +  + I   + +
Sbjct: 43  NRIKELRKEKGLTQLQLADAVGVSTRTIISLEKGQYNPSIMLAYKIARLFGTTIEALYCL 102

Query: 77  SPTVCSDIS 85
              + +++ 
Sbjct: 103 EENLKNEME 111


>gi|291520457|emb|CBK75678.1| Helix-turn-helix [Butyrivibrio fibrisolvens 16/4]
          Length = 111

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 1/63 (1%)

Query: 10 PVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           VD   +G RI+L R    ++QEKL E L I+   V K E+G+       L  I+++++ 
Sbjct: 2  SVDYKLIGSRIKLYRKSKKLTQEKLAELLAISVGYVSKMERGIEHPNLEMLSSIAQIVDC 61

Query: 69 PIS 71
           I+
Sbjct: 62 DIA 64


>gi|237717599|ref|ZP_04548080.1| helix-turn-helix domain-containing protein [Bacteroides sp.
          2_2_4]
 gi|229453103|gb|EEO58894.1| helix-turn-helix domain-containing protein [Bacteroides sp.
          2_2_4]
          Length = 358

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/60 (35%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          KR++  R++ G S + L E +G  I+ Q V KYE G     +S L  I+  L     +FF
Sbjct: 9  KRLKSARIMAGWSMDMLCEKIGNLISKQSVSKYENGKMMPDSSVLIAIANALNLDPDYFF 68


>gi|170729039|ref|YP_001763065.1| XRE family transcriptional regulator [Shewanella woodyi ATCC
          51908]
 gi|169814386|gb|ACA88970.1| transcriptional regulator, XRE family [Shewanella woodyi ATCC
          51908]
          Length = 327

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 33/70 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I   R  LG SQE+L E + I+ Q V K+E   +    +++  ++++ E    F
Sbjct: 1  MILAEKIIRLRKQLGWSQEELAEKMAISRQSVSKWESANSIPDLNKIIKLADIFEVSTDF 60

Query: 73 FFDVSPTVCS 82
                   S
Sbjct: 61 LLKDEYEANS 70


>gi|332527737|ref|ZP_08403778.1| XRE family transcriptional regulator [Rubrivivax benzoatilyticus
          JA2]
 gi|332112135|gb|EGJ12111.1| XRE family transcriptional regulator [Rubrivivax benzoatilyticus
          JA2]
          Length = 189

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 28/56 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
            VG+ +R  R   G+SQ  L E  G++ + +   E+G   +  SRL  ++E L  
Sbjct: 16 AFVGQNLRAARQNAGLSQAALAEASGLSRRMIVALEQGDTNISLSRLDRLAEALGV 71


>gi|291531329|emb|CBK96914.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
          Length = 168

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 31/68 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ ++  R   G++QE+L E   ++ + V ++E G N      L  +++  E  I    
Sbjct: 6  IGEFLKYLRKNKGLTQEQLAEHFCVSSRTVSRWENGNNMPDIDILIELADFYEVDIRELI 65

Query: 75 DVSPTVCS 82
          D      +
Sbjct: 66 DGERKSEN 73


>gi|260427234|ref|ZP_05781213.1| DNA-binding protein [Citreicella sp. SE45]
 gi|260421726|gb|EEX14977.1| DNA-binding protein [Citreicella sp. SE45]
          Length = 212

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 32/72 (44%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ +G+++R  R    M+  +L +  G++   + K E GV     + LQ ++  L  P+
Sbjct: 24 LEVAIGRQVRELRKRQRMTGSELAQQTGLSVGMLSKIENGVISPSLNTLQALANALRVPL 83

Query: 71 SFFFDVSPTVCS 82
             F        
Sbjct: 84 VQLFSGFEEPRG 95


>gi|255526451|ref|ZP_05393362.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296184825|ref|ZP_06853236.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
 gi|255509833|gb|EET86162.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296050607|gb|EFG90030.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
          Length = 240

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 30/64 (46%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N +   +GK+IR  R    ++ ++L + +  +   V KYEKG   V    L  I+  L
Sbjct: 1  MINELTCEIGKKIRNCRKSKNITMQQLADIIHKSKASVSKYEKGDIVVDIVTLYDIAAAL 60

Query: 67 ESPI 70
             I
Sbjct: 61 NIHI 64


>gi|241763075|ref|ZP_04761136.1| transcriptional regulator, XRE family [Acidovorax delafieldii 2AN]
 gi|241367858|gb|EER62090.1| transcriptional regulator, XRE family [Acidovorax delafieldii 2AN]
          Length = 121

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 25/118 (21%), Positives = 52/118 (44%), Gaps = 12/118 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+RI  +R   G++Q +L E LG++ Q VQ YE G  R+  + L  ++  L   +  
Sbjct: 12  VTLGERIAAQRQACGITQVQLAEVLGVSQQTVQAYEVGRRRIQVAALPTVARTLSLSLEE 71

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK-IIELVRSIVSS 129
            F              + + + +     L            K RQ+ +I+++ ++++ 
Sbjct: 72  LFGEDTQARRSKRGPASKLENQLERISTL-----------PKPRQRMVIDVIEAMLAQ 118


>gi|226948868|ref|YP_002803959.1| putative DNA-binding protein [Clostridium botulinum A2 str.
          Kyoto]
 gi|226843124|gb|ACO85790.1| putative DNA-binding protein [Clostridium botulinum A2 str.
          Kyoto]
          Length = 370

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 29/69 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I   R   G++QE+L   +G++   V K+E   +    + L  I+      I    
Sbjct: 6  IGEVIYRLRKEKGITQEQLANFIGVSTAAVSKWESETSYPDITLLPVIAIFFNVTIDTLL 65

Query: 75 DVSPTVCSD 83
          +    +  +
Sbjct: 66 NFKIELSDE 74


>gi|170754897|ref|YP_001780428.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
 gi|169120109|gb|ACA43945.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
          Length = 201

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 33/77 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ K+I+  R+   +SQE L E + +T Q +  +E G N    + L  +S +    +  
Sbjct: 1  MDISKQIKKYRLDSKLSQEDLAEKVFVTRQTISNWENGKNYPDINSLVLLSTLFGVSLDI 60

Query: 73 FFDVSPTVCSDISSEEN 89
                    +    E+
Sbjct: 61 LVKGDLEEMKEEIKTED 77


>gi|310640682|ref|YP_003945440.1| transcriptional regulator, xre family [Paenibacillus polymyxa SC2]
 gi|309245632|gb|ADO55199.1| Transcriptional regulator, XRE family [Paenibacillus polymyxa SC2]
          Length = 122

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 28/113 (24%), Positives = 49/113 (43%), Gaps = 4/113 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RI   R   G+ QE+L + LGIT   +  YEK   +     L  ++++ E  I +   
Sbjct: 4   GTRIAELREHKGLKQEELAQSLGITRAALSHYEKNRRKPDFETLTKLADIFEVTIDYLVG 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID----DVKVRQKIIELVR 124
            +    + + S+    +D +   D   L R+ + ID      +  ++ I  VR
Sbjct: 64  RTSHPTAILDSDVREFVDQLELSDENILQRFNLTIDGRTLSEEEAKRFIAFVR 116


>gi|239814885|ref|YP_002943795.1| XRE family transcriptional regulator [Variovorax paradoxus S110]
 gi|239801462|gb|ACS18529.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 182

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 29/59 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G +I+  RM  G+S  +L    G++   + + E+G+       L  I+  L  P+S FF
Sbjct: 2  GLQIKALRMAAGISGNELAHRCGVSGSLLSRVERGLVSPSVETLNRIAVGLNVPLSRFF 60


>gi|168180189|ref|ZP_02614853.1| putative DNA-binding protein [Clostridium botulinum NCTC 2916]
 gi|182668963|gb|EDT80939.1| putative DNA-binding protein [Clostridium botulinum NCTC 2916]
          Length = 370

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 29/69 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I   R   G++QE+L   +G++   V K+E   +    + L  I+      I    
Sbjct: 6  IGEVIYRLRKEKGITQEQLANFIGVSTAAVSKWESETSYPDITLLPVIAIFFNVTIDTLL 65

Query: 75 DVSPTVCSD 83
          +    +  +
Sbjct: 66 NFKIELSDE 74


>gi|53715744|ref|YP_101736.1| transcriptional regulator [Bacteroides fragilis YCH46]
 gi|60683678|ref|YP_213822.1| putative transcriptional regulator [Bacteroides fragilis NCTC
          9343]
 gi|253566443|ref|ZP_04843896.1| transcriptional regulator [Bacteroides sp. 3_2_5]
 gi|255011438|ref|ZP_05283564.1| putative transcriptional regulator [Bacteroides fragilis 3_1_12]
 gi|265767314|ref|ZP_06094980.1| transcriptional regulator [Bacteroides sp. 2_1_16]
 gi|313149255|ref|ZP_07811448.1| transcriptional regulator [Bacteroides fragilis 3_1_12]
 gi|52218609|dbj|BAD51202.1| transcriptional regulator [Bacteroides fragilis YCH46]
 gi|60495112|emb|CAH09931.1| putative transcriptional regulator [Bacteroides fragilis NCTC
          9343]
 gi|251944615|gb|EES85090.1| transcriptional regulator [Bacteroides sp. 3_2_5]
 gi|263252619|gb|EEZ24131.1| transcriptional regulator [Bacteroides sp. 2_1_16]
 gi|301165190|emb|CBW24760.1| putative transcriptional regulator [Bacteroides fragilis 638R]
 gi|313138022|gb|EFR55382.1| transcriptional regulator [Bacteroides fragilis 3_1_12]
          Length = 191

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 35/71 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R   G+S E+L E  G+  +Q+++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKSLRENKGISIEELAERSGLAIEQIERIENNIDLPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCSDIS 85
          D        +S
Sbjct: 67 DDQDETGPVVS 77


>gi|320449325|ref|YP_004201421.1| methyltransferase [Thermus scotoductus SA-01]
 gi|320149494|gb|ADW20872.1| methyltransferase [Thermus scotoductus SA-01]
          Length = 570

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 27/78 (34%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N +   VG+ +R  R   G++   L    GI    +   E G      + L  ++  L
Sbjct: 1  MKNELSYEVGQNLRRLRQARGLTLSGLAAKAGIAKSLLHALEAGRANPTLATLWALARAL 60

Query: 67 ESPISFFFDVSPTVCSDI 84
          E P        P     +
Sbjct: 61 EVPFGELVQARPVGDEGV 78


>gi|310828218|ref|YP_003960575.1| hypothetical protein ELI_2631 [Eubacterium limosum KIST612]
 gi|308739952|gb|ADO37612.1| hypothetical protein ELI_2631 [Eubacterium limosum KIST612]
          Length = 197

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/83 (18%), Positives = 36/83 (43%), Gaps = 4/83 (4%)

Query: 20  RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPT 79
           R  R    +SQ  L E LG++   V ++E   N    + ++ ++++      +   V  +
Sbjct: 5   RQLRKERNLSQANLAERLGVSQTAVSQWETDKNYPDINTIKQLADIYSVTTDYLLGVDSS 64

Query: 80  VCSDISSEENNVMDFISTPDGLQ 102
                  ++N ++ +   P G++
Sbjct: 65  RLK----KDNEIVVYTRVPAGVE 83


>gi|282851951|ref|ZP_06261311.1| DNA-binding protein [Lactobacillus gasseri 224-1]
 gi|282556960|gb|EFB62562.1| DNA-binding protein [Lactobacillus gasseri 224-1]
          Length = 153

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           RI+  R   G+SQ  +   +GIT Q V  YE+G         Q ++++ E  + + 
Sbjct: 2  NRIKQLREEKGVSQSDVANAVGITRQAVSLYEQGKRAPKLEIWQKLADLFEVSVPYL 58


>gi|218289581|ref|ZP_03493801.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
 gi|258511692|ref|YP_003185126.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
 gi|218240231|gb|EED07414.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
 gi|257478418|gb|ACV58737.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
          Length = 145

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 25/55 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G R+R  R   G SQ++L    G++   +   E+   R      + +++ L  P+
Sbjct: 6  GARVRAIRQSRGWSQQELAMRAGVSTPHISSIERDKRRPSLDYAKRLADALGVPL 60


>gi|167747135|ref|ZP_02419262.1| hypothetical protein ANACAC_01848 [Anaerostipes caccae DSM 14662]
 gi|167654095|gb|EDR98224.1| hypothetical protein ANACAC_01848 [Anaerostipes caccae DSM 14662]
          Length = 239

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 27/55 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          K +   R   G SQE+LG  L ++ Q V K+E G      ++L  +S + +  I 
Sbjct: 5  KNLNRFRKEKGWSQEELGNRLNVSRQTVSKWELGTTTPEMNKLMELSRIFQVSID 59


>gi|325845858|ref|ZP_08169056.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
 gi|325481764|gb|EGC84796.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
          Length = 185

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 31/60 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I+  R+   +S +KL E + ++   + + E G      + L+ IS+ L+ P+   F
Sbjct: 4  LGKNIKNFRISQNLSLKKLAEKVDVSPSMLSQIESGKANPSLNTLKLISQHLKVPMFTLF 63


>gi|239626609|ref|ZP_04669640.1| transcriptional regulator [Clostridiales bacterium 1_7_47_FAA]
 gi|239516755|gb|EEQ56621.1| transcriptional regulator [Clostridiales bacterium 1_7_47FAA]
          Length = 86

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/79 (27%), Positives = 33/79 (41%), Gaps = 2/79 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI+  R   G++QE+LG+ +G + Q +   E             IS+V    I   F F
Sbjct: 3  NRIKELREERGLTQEQLGQMVGTSRQAINAIETEKFEPSIWLAYDISQVFNCSIEEVFLF 62

Query: 75 DVSPTVCSDISSEENNVMD 93
          + S       SS  +N  D
Sbjct: 63 EDSTRKTRADSSRRDNNGD 81


>gi|146297100|ref|YP_001180871.1| XRE family transcriptional regulator [Caldicellulosiruptor
          saccharolyticus DSM 8903]
 gi|145410676|gb|ABP67680.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          saccharolyticus DSM 8903]
          Length = 211

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 24/56 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    +S+  L E LG++ Q +  YE G        L  I++     + + 
Sbjct: 7  RLKELREEKNISRSDLAEILGVSTQTIANYENGHREPNFDTLLKIADYFGVTVDYL 62


>gi|163846261|ref|YP_001634305.1| helix-turn-helix domain-containing protein [Chloroflexus
          aurantiacus J-10-fl]
 gi|222524016|ref|YP_002568486.1| helix-turn-helix domain-containing protein [Chloroflexus sp.
          Y-400-fl]
 gi|163667550|gb|ABY33916.1| helix-turn-helix domain protein [Chloroflexus aurantiacus
          J-10-fl]
 gi|222447895|gb|ACM52161.1| helix-turn-helix domain protein [Chloroflexus sp. Y-400-fl]
          Length = 422

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 2/65 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +R+R  R+  GM+   L +     +T Q + KYE G  +   + LQ +++ L    + 
Sbjct: 2  ISQRLRQLRLARGMTLSDLAQATNHIVTRQAISKYEHGHAQPSPTVLQRLAQALGVRPTD 61

Query: 73 FFDVS 77
            D +
Sbjct: 62 LLDGA 66


>gi|296133185|ref|YP_003640432.1| transcriptional regulator, XRE family [Thermincola sp. JR]
 gi|296031763|gb|ADG82531.1| transcriptional regulator, XRE family [Thermincola potens JR]
          Length = 184

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 26/56 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
            +  RIR  R I G+S E L +  GI+ +  Q+YE G   +  S L  ++     
Sbjct: 6  KQIAARIRELREISGISLETLAQEFGISKETYQEYESGEVDIPVSFLYEVANKFNV 61


>gi|239835028|ref|ZP_04683356.1| Protein schB [Ochrobactrum intermedium LMG 3301]
 gi|239823091|gb|EEQ94660.1| Protein schB [Ochrobactrum intermedium LMG 3301]
          Length = 205

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 25/101 (24%), Positives = 43/101 (42%), Gaps = 3/101 (2%)

Query: 2   VGNKKIPNPVDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +     P P D  ++G RIR RR  LG++   L E  G++   + + E+G+       L 
Sbjct: 12  IAPISEPTPNDAGDIGARIRTRRQALGLTLGYLSEVSGLSTGALSQIERGLVSPTVRTLY 71

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
            I++VL    +   D  P   +  +     V+     P+ L
Sbjct: 72  TIADVLSMSPAQLID--PQGFAAAARANPYVLRASEQPEVL 110


>gi|228945433|ref|ZP_04107787.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|228814236|gb|EEM60503.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
          Length = 181

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-I 70
          +I++GK+I  +R   G++ ++L +   IT   + + E+G        L+ +++ L+ P  
Sbjct: 3  NIDIGKKIEKQRKEKGLTSKELAKMAYITPSMLSQIERGSANPSIQTLKVLAKALDVPTF 62

Query: 71 SFFFDVSPT 79
          SF  + + T
Sbjct: 63 SFLLEDTNT 71


>gi|153011851|ref|YP_001373064.1| helix-turn-helix domain-containing protein [Ochrobactrum anthropi
           ATCC 49188]
 gi|151563739|gb|ABS17235.1| helix-turn-helix domain protein [Ochrobactrum anthropi ATCC 49188]
          Length = 181

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 24/123 (19%), Positives = 52/123 (42%), Gaps = 11/123 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-P 69
           +D  + K +R  R   G+ Q      +G++     +YE+  +++  +R+ HI EVL   P
Sbjct: 60  IDQRLAKYLRDARDSAGLKQADFAPLMGLSTPVYGRYERAFSKLHVTRMVHICEVLNIMP 119

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           I   ++ +P +      E           D ++L +    +     R  ++ LV+ +   
Sbjct: 120 IEMLYEAAPHLWGKSEEEA---------KDRVELAKLVADLPHSTTRD-LLSLVKKMADL 169

Query: 130 EKK 132
           + +
Sbjct: 170 QSQ 172


>gi|325831430|ref|ZP_08164684.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|325486684|gb|EGC89132.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 205

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 30/66 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G++++  R   G++QE+L   L ++   V K+E G        LQ ++ + +  +  
Sbjct: 1  MDFGEKLKALRTERGLTQEQLAARLYVSRTAVSKWETGGGSPNLDSLQAVARLFDVSVDD 60

Query: 73 FFDVSP 78
                
Sbjct: 61 LLSADD 66


>gi|283769042|ref|ZP_06341948.1| DNA-binding protein [Bulleidia extructa W1219]
 gi|283104399|gb|EFC05776.1| DNA-binding protein [Bulleidia extructa W1219]
          Length = 136

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/93 (18%), Positives = 40/93 (43%), Gaps = 11/93 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++  R+  G++Q+++GE L ++ Q V  YE G  R     +    +  + P+++F   
Sbjct: 13  RQMKQVRIENGLTQKEMGEILNVSAQSVSAYENGTVRPDIEVIFRYMDYFQIPMAYFLKE 72

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
             +   D  +              ++L   F +
Sbjct: 73  LNSELKDKPTALE-----------MELISAFRK 94


>gi|85709529|ref|ZP_01040594.1| hypothetical protein NAP1_11628 [Erythrobacter sp. NAP1]
 gi|85688239|gb|EAQ28243.1| hypothetical protein NAP1_11628 [Erythrobacter sp. NAP1]
          Length = 238

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 34/74 (45%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKR+   R   G++  ++ + LG++   V  +EK   R    R+  I++VL        
Sbjct: 143 LGKRLNTLRRERGLTLAQVADALGVSKPTVWAWEKDKARPLPERIGAIADVLGVTSEDLM 202

Query: 75  DVSPTVCSDISSEE 88
           +V+    +    EE
Sbjct: 203 EVAGRTPAGALIEE 216


>gi|282853817|ref|ZP_06263154.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes J139]
 gi|282583270|gb|EFB88650.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Propionibacterium acnes J139]
          Length = 508

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/56 (35%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG+ IR  R   GM+Q +L E L  +   + + E G   +    +  I+E LESPI
Sbjct: 9  VGRLIRDARKQHGMTQNQLAEILKTSQSAIHRVESGTQNLSLEYINRITEALESPI 64


>gi|269797322|ref|YP_003311222.1| XRE family transcriptional regulator [Veillonella parvula DSM
          2008]
 gi|269093951|gb|ACZ23942.1| transcriptional regulator, XRE family [Veillonella parvula DSM
          2008]
          Length = 290

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 28/55 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++R  R   G+SQ KL E L ++ Q + K+E G      S L+ +S V    + 
Sbjct: 5  EKLREYRKQSGLSQGKLAETLNVSRQAITKWESGNGMPDISNLKALSGVFNVSVD 59


>gi|210634331|ref|ZP_03298067.1| hypothetical protein COLSTE_01989 [Collinsella stercoris DSM
          13279]
 gi|210158858|gb|EEA89829.1| hypothetical protein COLSTE_01989 [Collinsella stercoris DSM
          13279]
          Length = 206

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 36/77 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  +I+ RR  +G+SQE+L E L ++ Q +  +E+         L  +S + ++ I  
Sbjct: 1  MDISNQIKTRREAMGISQEQLAEKLYVSRQTISNWERNKTYPDVQSLLMLSILFDTSIDT 60

Query: 73 FFDVSPTVCSDISSEEN 89
                T+  +    + 
Sbjct: 61 LVKGDVTIMEEAVERDR 77


>gi|168184026|ref|ZP_02618690.1| transcriptional regulator, Cro/CI family [Clostridium botulinum
          Bf]
 gi|237794098|ref|YP_002861650.1| Cro/CI family transcriptional regulator [Clostridium botulinum
          Ba4 str. 657]
 gi|182672867|gb|EDT84828.1| transcriptional regulator, Cro/CI family [Clostridium botulinum
          Bf]
 gi|229260454|gb|ACQ51487.1| transcriptional regulator, Cro/CI family [Clostridium botulinum
          Ba4 str. 657]
          Length = 201

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 33/77 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ K+I+  R+   +SQE L E + +T Q +  +E G N    + L  +S +    +  
Sbjct: 1  MDISKQIKKYRLDSKLSQEDLAEKVFVTRQTISNWENGKNYPDINSLVLLSTLFGVSLDI 60

Query: 73 FFDVSPTVCSDISSEEN 89
                    +    E+
Sbjct: 61 LVKGDLEEMKEEIKTED 77


>gi|31747743|gb|AAO38363.1| Lfe164p1 [Leptospirillum ferrooxidans]
          Length = 85

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 31/62 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G+R+   R   G+S  +LG  +G+T   ++KYE       ++ L  +S  L     +
Sbjct: 5  IMIGQRLYRARKAAGLSLRELGSRIGLTHAAIKKYEDEQVTPTSATLLKLSRALNVRTEY 64

Query: 73 FF 74
          FF
Sbjct: 65 FF 66


>gi|332360161|gb|EGJ37975.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1056]
          Length = 169

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 33/74 (44%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    +
Sbjct: 7  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLEE 66

Query: 76 VSPTVCSDISSEEN 89
                + + SE+ 
Sbjct: 67 SDKPEINPVLSEDE 80


>gi|327467942|gb|EGF13432.1| Cro/CI family transcriptional regulator [Streptococcus sanguinis
           SK330]
          Length = 167

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/112 (19%), Positives = 44/112 (39%), Gaps = 15/112 (13%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
           ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    D
Sbjct: 6   KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKVVELSKIFQVTTDYLLLED 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                   + SE+             + NRY+ ++      Q I   V ++ 
Sbjct: 66  SDKPEIKPVLSED-------------EKNRYYKEVKSYGFWQVIYIFVSALA 104


>gi|326803119|ref|YP_004320937.1| DNA-binding helix-turn-helix protein [Aerococcus urinae
          ACS-120-V-Col10a]
 gi|326650926|gb|AEA01109.1| DNA-binding helix-turn-helix protein [Aerococcus urinae
          ACS-120-V-Col10a]
          Length = 115

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R+   R    MSQ +L E + ++   V ++E G   +   +L  ++      I + 
Sbjct: 5  GIRLAQLRNEKKMSQRELAEKMDVSQSYVGQWESGKRVIPTEKLLDLANFFNVSIDYL 62


>gi|317121314|ref|YP_004101317.1| XRE family transcriptional regulator [Thermaerobacter marianensis
           DSM 12885]
 gi|315591294|gb|ADU50590.1| transcriptional regulator of molybdate metabolism, XRE family
           [Thermaerobacter marianensis DSM 12885]
          Length = 464

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 31/83 (37%), Gaps = 3/83 (3%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF---D 75
           +R  R+ LG+SQ++L    G+T Q V   E G           ++  L   +   F   D
Sbjct: 32  LRAARLRLGLSQQELAARAGVTRQAVSAIEGGQAAPSLGVALRLARALGCRVEDLFWLDD 91

Query: 76  VSPTVCSDISSEENNVMDFISTP 98
             P V  ++        +    P
Sbjct: 92  PEPEVEVELVGTGAEDPEPQGAP 114


>gi|111019821|ref|YP_702793.1| transcriptional regulator [Rhodococcus jostii RHA1]
 gi|110819351|gb|ABG94635.1| possible transcriptional regulator [Rhodococcus jostii RHA1]
          Length = 221

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 31/75 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + +++R  R   G+S   +   +GI+   + K E        S L  ++  L+ P++  F
Sbjct: 37  IARQVRSLRKASGLSVGDMAAKVGISKAMLSKIENSQTSCSLSTLARLAAGLDVPVTSLF 96

Query: 75  DVSPTVCSDISSEEN 89
             + T    +  E  
Sbjct: 97  RGADTARDAVYVEAG 111


>gi|222053821|ref|YP_002536183.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221563110|gb|ACM19082.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 106

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 37/74 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R +  ++QEKL E +G+  + V   E G +      L++IS+ L+  I   F
Sbjct: 8  LGARIKELRKLRKVTQEKLAEKIGVDPKYVSFIEVGRSSPSLEALENISQALDVEIKDLF 67

Query: 75 DVSPTVCSDISSEE 88
          + S       S ++
Sbjct: 68 EFSHHEARPASIDQ 81


>gi|71910858|ref|YP_282408.1| transcriptional regulator [Streptococcus pyogenes MGAS5005]
 gi|71853640|gb|AAZ51663.1| transcriptional regulator [Streptococcus pyogenes MGAS5005]
          Length = 66

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFFF 74
          I+  R    MSQE+L    G++   +   E   +  V  S LQ ++  L+ PI +FF
Sbjct: 6  IQRLREEKKMSQEELANKSGVSRTTISLIETDKSTTVKLSTLQKLAVALDVPIGYFF 62


>gi|326772583|ref|ZP_08231867.1| DNA-binding protein [Actinomyces viscosus C505]
 gi|326637215|gb|EGE38117.1| DNA-binding protein [Actinomyces viscosus C505]
          Length = 103

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 6/67 (8%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG------ASRLQHIS 63
          P+   +G R++  R+  G+SQE L    GI+    QK+EKG +R G         L  ++
Sbjct: 28 PIARQLGLRLQRARIAKGLSQEALAHAAGISSYTYQKFEKGESRPGTPMNPRLRTLIALA 87

Query: 64 EVLESPI 70
            L+  +
Sbjct: 88 TALDMQV 94


>gi|322804615|emb|CBZ02167.1| transcriptional regulator, MerR family [Clostridium botulinum
          H04402 065]
          Length = 181

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 37/84 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + ++IR  R    ++ + L E  G++   + + E   + +  + L+ I + L  PI++FF
Sbjct: 5  IAEKIRNLRKEKNLTLKDLSEKTGLSISFLSQVENNSSSLAITSLKKIGDALNVPITYFF 64

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
                   +  +E  V +   + 
Sbjct: 65 KSPELHKFLVKKQEREVFELEGSS 88


>gi|295100273|emb|CBK97818.1| Predicted transcriptional regulator with C-terminal CBS domains
           [Faecalibacterium prausnitzii L2-6]
          Length = 184

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 27/105 (25%), Positives = 53/105 (50%), Gaps = 3/105 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           + +G+R+++RR  LGMSQE+L   +G  +   + K E G   +  S+++ I++ LE+  S
Sbjct: 1   MTIGQRVKIRREELGMSQEELATKVGYKSKSSINKIELGFRVLTQSKIKVIADALETTPS 60

Query: 72  FFF--DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           +    D         S   ++VM  ++  D   L    I + +++
Sbjct: 61  YIMGWDEESHQNEWSSKFRDSVMQILNNADPADLKAAGISVQEIE 105


>gi|148988514|ref|ZP_01819961.1| serine hydroxymethyltransferase [Streptococcus pneumoniae SP6-BS73]
 gi|147926195|gb|EDK77269.1| serine hydroxymethyltransferase [Streptococcus pneumoniae SP6-BS73]
          Length = 96

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 27/95 (28%), Positives = 43/95 (45%), Gaps = 9/95 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++ RR  L MSQ +L E  GI  Q Q+ + E G    GA  L  +S+ L+  + +FF+ 
Sbjct: 8   RLKNRRKELKMSQRELTE--GICKQGQISRLENGEFTPGADFLYALSKKLKVSVDYFFN- 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                  I  E + + +F         NR +  + 
Sbjct: 65  -----EQIVEEIDELSEFKKLAQTFITNRNYESLK 94


>gi|126459405|ref|YP_001055683.1| XRE family transcriptional regulator [Pyrobaculum calidifontis
          JCM 11548]
 gi|126249126|gb|ABO08217.1| transcriptional regulator, XRE family [Pyrobaculum calidifontis
          JCM 11548]
          Length = 528

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 26/56 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +VG+RI   R   G+S  +L E  G++   + + E G      + L  I+  LE 
Sbjct: 7  RSVGERIAALRRERGLSLSELAERAGVSKSTLYEIEMGRVAPSVTTLWKIANALEV 62


>gi|329116763|ref|ZP_08245480.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
 gi|326907168|gb|EGE54082.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
          Length = 225

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 35/72 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++ +R  LG  Q++L E +G++ Q   K+EKG+++     +  + + L     +  +  
Sbjct: 6  KLKQKREELGFEQQELAERIGVSKQAYFKWEKGLSKPTKVNIAKLEKALNVTEGYLSEDE 65

Query: 78 PTVCSDISSEEN 89
           +      +E N
Sbjct: 66 ISSLYKQLTEPN 77


>gi|313205461|ref|YP_004044118.1| helix-turN-helix domain protein [Paludibacter propionicigenes WB4]
 gi|312444777|gb|ADQ81133.1| helix-turn-helix domain protein [Paludibacter propionicigenes WB4]
          Length = 266

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 42/94 (44%), Gaps = 4/94 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+RI   R   G+SQE+L + +G +   + + E G   +G   +Q ++ VL   +  
Sbjct: 8   KQIGQRITELRKTKGLSQEELAKSIGFSRPSLAQVELGNRNIGILEMQKLATVLGFSLDD 67

Query: 73  FFDVSPTVCSDISSE---ENNVMDFISTPDGLQL 103
               +     ++  E      + + IS P  LQL
Sbjct: 68  IMSENFNSKHELKHETAMPKEISERISVP-TLQL 100


>gi|284032671|ref|YP_003382602.1| XRE family transcriptional regulator [Kribbella flavida DSM 17836]
 gi|283811964|gb|ADB33803.1| transcriptional regulator, XRE family [Kribbella flavida DSM 17836]
          Length = 191

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 25/104 (24%), Positives = 38/104 (36%), Gaps = 8/104 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G +  +L E  GI+   + + E G  R     L  ++   +  +    
Sbjct: 11  VGPRLRRLRQERGTTLTQLAESTGISVSTLSRLEAGQRRPTLELLLPLARAHQVQLDELV 70

Query: 75  DVSPTVCSDISSEE-----NNVMDFISTPDGLQLNRYFIQIDDV 113
           D   T    I S+        ++     P GLQ    F QI   
Sbjct: 71  DAPSTGDPRIHSKPIKRFGAVLIPLSRRPGGLQ---AFKQIAPP 111


>gi|163787647|ref|ZP_02182094.1| hypothetical protein FBALC1_03872 [Flavobacteriales bacterium
          ALC-1]
 gi|159877535|gb|EDP71592.1| hypothetical protein FBALC1_03872 [Flavobacteriales bacterium
          ALC-1]
          Length = 363

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 5/70 (7%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +D   GK +   R   G++Q ++ E   +T + +Q+ E G  +  +S ++ ISE L  
Sbjct: 2  NKLD--FGKELIKIRKARGLTQAEVAEKCNVTTRTIQRIESGAVKPRSSTIKIISEFLGV 59

Query: 69 PISFFFDVSP 78
              FF+ S 
Sbjct: 60 N---FFETSD 66


>gi|307330591|ref|ZP_07609731.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
 gi|306883747|gb|EFN14793.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
          Length = 402

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 30/66 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           +P   D ++G RIR  R I   S  +LG    ++  Q+ + E G     AS L  ++  
Sbjct: 4  NMPETSDQHIGARIRELRAIRDFSLAELGRRAHVSTSQLSRVENGEQPASASVLSAVARA 63

Query: 66 LESPIS 71
          L   IS
Sbjct: 64 LAVDIS 69


>gi|226948085|ref|YP_002803176.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
 gi|226843648|gb|ACO86314.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
          Length = 201

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 33/77 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ K+I+  R+   +SQE L E + +T Q +  +E G N    + L  +S +    +  
Sbjct: 1  MDISKQIKKYRLDSKLSQEDLAEKVFVTRQTISNWENGKNYPDINSLVLLSTLFGVSLDI 60

Query: 73 FFDVSPTVCSDISSEEN 89
                    +    E+
Sbjct: 61 LVKGDLEEMKEEIKTED 77


>gi|221213964|ref|ZP_03586937.1| HTH-type transcriptional regulator PrtR (Pyocin repressor
          protein) [Burkholderia multivorans CGD1]
 gi|221166141|gb|EED98614.1| HTH-type transcriptional regulator PrtR (Pyocin repressor
          protein) [Burkholderia multivorans CGD1]
          Length = 257

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 29/59 (49%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G R++  R+   +SQE L   +G++   + + E G N+ G+  L  ++  L     + 
Sbjct: 21 LGSRVKAARLDAKLSQEALARQVGVSQGLIGQIESGKNQ-GSKHLAALARALGVSADWL 78


>gi|187776986|ref|ZP_02993459.1| hypothetical protein CLOSPO_00531 [Clostridium sporogenes ATCC
          15579]
 gi|187773914|gb|EDU37716.1| hypothetical protein CLOSPO_00531 [Clostridium sporogenes ATCC
          15579]
          Length = 434

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ + L     IT  Q+   E G +      L++++E L + I +F 
Sbjct: 6  LGEKIKRRRKELNMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLAETLNTSIEYFM 64

Query: 75 DVSPTVCSDISSEENNVMD 93
          +   T    I     N+ +
Sbjct: 65 ESEDTQAEKICKYYENIAE 83


>gi|169346977|ref|ZP_02865925.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
 gi|169297036|gb|EDS79160.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
          Length = 180

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 28/64 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G R++  R    ++Q+ L E  GI+   +   E          ++ ++  L+  +  
Sbjct: 1  MFIGYRLQKLRKKRKLTQKALAEMTGISRSYLSDIEHNRYNPSFDTIEALATALKLDLKS 60

Query: 73 FFDV 76
          FFD 
Sbjct: 61 FFDD 64


>gi|56962989|ref|YP_174716.1| transcriptional regulator [Bacillus clausii KSM-K16]
 gi|56909228|dbj|BAD63755.1| transcriptional regulator [Bacillus clausii KSM-K16]
          Length = 135

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 30/71 (42%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G +++  R   G SQE+L + L ++ Q V K+E          +  +SE+ +    +   
Sbjct: 5  GSKLKQLREEQGFSQEQLAKELNVSRQAVWKWETDKGLPDIQNIVRLSELFDVSTDYLLK 64

Query: 76 VSPTVCSDISS 86
           S  +     S
Sbjct: 65 ESELIAEPTPS 75


>gi|317473654|ref|ZP_07932943.1| hypothetical protein HMPREF1011_03294 [Anaerostipes sp.
          3_2_56FAA]
 gi|316898944|gb|EFV20969.1| hypothetical protein HMPREF1011_03294 [Anaerostipes sp.
          3_2_56FAA]
          Length = 239

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 27/55 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +   R   G SQE+LG  L ++ Q V K+E G      ++L  +S + +  I 
Sbjct: 5  ENLNRLRKEKGWSQEELGNRLNVSRQTVSKWELGSTTPELNKLMELSRIFQVSID 59


>gi|315221870|ref|ZP_07863782.1| helix-turn-helix protein [Streptococcus anginosus F0211]
 gi|315189103|gb|EFU22806.1| helix-turn-helix protein [Streptococcus anginosus F0211]
          Length = 207

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/111 (20%), Positives = 47/111 (42%), Gaps = 9/111 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RI+  R    ++QE+L   +G+T + +  +EKG  ++   + Q +++     + +    
Sbjct: 5   NRIKELRQKEKLTQEELANKIGVTKRTIIAWEKGERQIKQDKAQQLADYFGVSVRYLLGY 64

Query: 77  SPTVCSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQKIIELVR 124
                S +  +    M   +   G   L L R        +V+ K+IE +R
Sbjct: 65  EDDYLSSMIKKYEESMKNPADFGGYGLLALTRG------TEVQDKVIEALR 109


>gi|326789972|ref|YP_004307793.1| hypothetical protein Clole_0862 [Clostridium lentocellum DSM 5427]
 gi|326540736|gb|ADZ82595.1| helix-turn-helix domain protein [Clostridium lentocellum DSM 5427]
          Length = 151

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/91 (17%), Positives = 39/91 (42%), Gaps = 5/91 (5%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF---- 74
           ++ +R  + +SQ  LG  +G++   +Q+ E G        L+ I++ L   ++  F    
Sbjct: 6   LKTKRKEMKLSQSALGSLVGVSGAYIQQLEAGTKNPSIETLKKIADALNIRVNELFVDTL 65

Query: 75  -DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            ++           ++ ++D I   D ++  
Sbjct: 66  ENILRKEIDKPQKCDDELIDMIRNSDEIENV 96


>gi|282916348|ref|ZP_06324110.1| DNA-binding protein [Staphylococcus aureus subsp. aureus D139]
 gi|282319788|gb|EFB50136.1| DNA-binding protein [Staphylococcus aureus subsp. aureus D139]
          Length = 179

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 35/81 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R I  ++QE+L E   ++   + + E            +I EVL +  S 
Sbjct: 1  MNIGNKIKNLRRIKNLTQEELAERTDLSKGYISQIESEHASPSMETFLNIIEVLGTTPSE 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  S         EE  + D
Sbjct: 61 FFKDSENEKVLYKKEEQVIYD 81


>gi|168184062|ref|ZP_02618726.1| phosphoserine phosphatase [Clostridium botulinum Bf]
 gi|237794132|ref|YP_002861684.1| HTH domain-containing protein [Clostridium botulinum Ba4 str.
          657]
 gi|182672824|gb|EDT84785.1| phosphoserine phosphatase [Clostridium botulinum Bf]
 gi|229261321|gb|ACQ52354.1| HTH domain protein [Clostridium botulinum Ba4 str. 657]
          Length = 381

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 34/71 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+GK I  +R   G++QE+L   +G++   V K+E G++      L  ++      +  
Sbjct: 4  LNIGKCIIHKRKEKGITQEQLANYIGVSKASVSKWESGLSYPDILFLPELATYFNISMDE 63

Query: 73 FFDVSPTVCSD 83
              SP +  +
Sbjct: 64 LLGYSPQLTKE 74


>gi|163789807|ref|ZP_02184244.1| possible transcriptional regulator [Carnobacterium sp. AT7]
 gi|159875029|gb|EDP69096.1| possible transcriptional regulator [Carnobacterium sp. AT7]
          Length = 104

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 30/61 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++ RR  L M+QE++ E + ++ Q +  +E G N    + L  ISE+    +       
Sbjct: 6  RLKQRRNTLKMTQEEVAEKIHVSRQTISNWENGRNLPDINSLILISEIYAISLDKLMKGD 65

Query: 78 P 78
          P
Sbjct: 66 P 66


>gi|320528557|ref|ZP_08029714.1| helix-turn-helix protein [Solobacterium moorei F0204]
 gi|320131143|gb|EFW23716.1| helix-turn-helix protein [Solobacterium moorei F0204]
          Length = 145

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 34/71 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK+++  R+   ++Q++L    G+T   ++ YE G       +L+ I++ L   IS   D
Sbjct: 4  GKKLKQIRLFRKLTQKELAIMSGLTDAAIRNYELGNRSPNKEQLRKIADALNCDISTLID 63

Query: 76 VSPTVCSDISS 86
            P    +I  
Sbjct: 64 HEPNSIFEIMH 74


>gi|315640505|ref|ZP_07895613.1| XRE family transcriptional regulator [Enterococcus italicus DSM
          15952]
 gi|315483709|gb|EFU74197.1| XRE family transcriptional regulator [Enterococcus italicus DSM
          15952]
          Length = 139

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G++I+L R    M+Q  + E L ++ Q V  +E+G        +  +S++ +  + 
Sbjct: 1  MDIGEKIQLLRKEKQMTQNMVAEVLHVSTQAVSNWERGKGYPDIQNILQLSDLFDVSLD 59


>gi|313905283|ref|ZP_07838650.1| transcriptional regulator, XRE family [Eubacterium cellulosolvens
          6]
 gi|313469894|gb|EFR65229.1| transcriptional regulator, XRE family [Eubacterium cellulosolvens
          6]
          Length = 184

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/86 (24%), Positives = 41/86 (47%), Gaps = 2/86 (2%)

Query: 10 PVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+D+N  +G+RI+  R   G++Q++L +   +T   + + E+G+       L H+ E+L 
Sbjct: 3  PIDLNKDIGRRIKDLRQRNGLTQQELADRAELTKGFISQLERGLGSPSVETLMHMIEILG 62

Query: 68 SPISFFFDVSPTVCSDISSEENNVMD 93
          S  + FF            + +   D
Sbjct: 63 SNPADFFKDEGEQVVFTEEDYSEKTD 88


>gi|310815924|ref|YP_003963888.1| transcriptional regulator, XRE family [Ketogulonicigenium vulgare
           Y25]
 gi|308754659|gb|ADO42588.1| transcriptional regulator, XRE family [Ketogulonicigenium vulgare
           Y25]
          Length = 183

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/101 (22%), Positives = 40/101 (39%), Gaps = 12/101 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  RM  G+SQ  L + +G+    +   E G        L+ I + L   ++ FF
Sbjct: 6   IGGRLRALRMARGLSQRVLAKRVGVPNSTISLIESGRANPSVGSLKRILDGLPIGMAEFF 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNR---YFIQIDD 112
              P     +         F +  +  ++ R    F Q+ D
Sbjct: 66  AFDPEAQRQV---------FFAAEELREIGRGKISFRQVGD 97


>gi|262282955|ref|ZP_06060722.1| phage transcriptional regulator [Streptococcus sp. 2_1_36FAA]
 gi|262261207|gb|EEY79906.1| phage transcriptional regulator [Streptococcus sp. 2_1_36FAA]
          Length = 121

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          +NVG+RI+ RR  L MS + L E +G++   + +YEKG + +VG   L+ I++ L    +
Sbjct: 1  MNVGERIKQRRKELKMSADALSERVGVSRSTIFRYEKGDIEKVGPEVLKKIADTLNISPA 60


>gi|256847858|ref|ZP_05553303.1| conserved hypothetical protein [Lactobacillus coleohominis
          101-4-CHN]
 gi|256715547|gb|EEU30523.1| conserved hypothetical protein [Lactobacillus coleohominis
          101-4-CHN]
          Length = 189

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 31/69 (44%), Gaps = 1/69 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  +I+  R+  G+SQE+L E   ++ + +Q+ E G +      L  ++  L   +   F
Sbjct: 23 VNTQIKELRVAKGLSQEQLAEAAKVSVRTIQRLEAGQDG-SIETLNLVAGALGVSVRDLF 81

Query: 75 DVSPTVCSD 83
          +      + 
Sbjct: 82 EDPQAQANQ 90


>gi|227539099|ref|ZP_03969148.1| hypothetical protein HMPREF0765_3343 [Sphingobacterium
          spiritivorum ATCC 33300]
 gi|227241049|gb|EEI91064.1| hypothetical protein HMPREF0765_3343 [Sphingobacterium
          spiritivorum ATCC 33300]
          Length = 96

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 38/77 (49%), Gaps = 3/77 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ IR++R  L +SQE +   L ++     K E+G  +V   ++  I+ +    +  
Sbjct: 1  MEIGEYIRIKRENLKVSQEAVAFKLDMSQAAYSKIERGETKVKVDQVYKIAHLFGISV-- 58

Query: 73 FFDVSPTVCSDISSEEN 89
           +++ P   +   + EN
Sbjct: 59 -YELLPPSLASDVTREN 74


>gi|146319399|ref|YP_001199111.1| transcriptional regulator [Streptococcus suis 05ZYH33]
 gi|146321603|ref|YP_001201314.1| transcriptional regulator [Streptococcus suis 98HAH33]
 gi|253752422|ref|YP_003025563.1| DNA-binding protein [Streptococcus suis SC84]
 gi|253754248|ref|YP_003027389.1| DNA-binding protein [Streptococcus suis P1/7]
 gi|253756182|ref|YP_003029322.1| DNA-binding protein [Streptococcus suis BM407]
 gi|145690205|gb|ABP90711.1| Predicted transcriptional regulator [Streptococcus suis 05ZYH33]
 gi|145692409|gb|ABP92914.1| Predicted transcriptional regulator [Streptococcus suis 98HAH33]
 gi|251816711|emb|CAZ52353.1| putative DNA-binding protein [Streptococcus suis SC84]
 gi|251818646|emb|CAZ56481.1| putative DNA-binding protein [Streptococcus suis BM407]
 gi|251820494|emb|CAR47248.1| putative DNA-binding protein [Streptococcus suis P1/7]
 gi|292559027|gb|ADE32028.1| Predicted transcriptional regulator [Streptococcus suis GZ1]
 gi|319758828|gb|ADV70770.1| transcriptional regulator [Streptococcus suis JS14]
          Length = 62

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 30/58 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R++LG+SQ  L + +G++ Q +   E            ++++ L++ ++  F
Sbjct: 2  NRVKDYRLLLGISQLDLAKAIGVSRQTINMIENNKYNPSLDLCINLAKALQTDLNSLF 59


>gi|126652117|ref|ZP_01724299.1| DNA-binding protein [Bacillus sp. B14905]
 gi|126591025|gb|EAZ85136.1| DNA-binding protein [Bacillus sp. B14905]
          Length = 181

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 33/63 (52%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I++GK++   R +  ++  +L    GIT   + + E+G+       L+ +++ L+ P  
Sbjct: 3  NIDIGKKVEKYRKMKDLTNRELAALAGITPSMLSQIERGLANPSIQTLKVLAKTLDVPTF 62

Query: 72 FFF 74
           FF
Sbjct: 63 TFF 65


>gi|150018568|ref|YP_001310822.1| XRE family transcriptional regulator [Clostridium beijerinckii
           NCIMB 8052]
 gi|149905033|gb|ABR35866.1| transcriptional regulator, XRE family [Clostridium beijerinckii
           NCIMB 8052]
          Length = 359

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/88 (20%), Positives = 38/88 (43%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G+ I   R    ++QE+L   +GI+   V K+E G +    S L  ++  L + I  
Sbjct: 4   LNIGETILKLRKERKLTQEELALMIGISAGAVSKWENGNSMPDISILAPLARALNTSIDT 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDG 100
                  +  +  +   + +  +   +G
Sbjct: 64  LLSFHKELSEEEVNNIKSKLTKLFLNEG 91


>gi|320528015|ref|ZP_08029181.1| helix-turn-helix protein [Solobacterium moorei F0204]
 gi|320131641|gb|EFW24205.1| helix-turn-helix protein [Solobacterium moorei F0204]
          Length = 229

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 28/63 (44%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D    K ++  R    +SQ +L + LG+ +  +  YE G        L+ I++     +
Sbjct: 1  MDRKFSKSLKSLREEHHLSQRQLADALGVAYSTIGMYESGQREPNYETLEIIADFFNVDM 60

Query: 71 SFF 73
          ++ 
Sbjct: 61 NYL 63


>gi|317055585|ref|YP_004104052.1| helix-turn-helix domain-containing protein [Ruminococcus albus 7]
 gi|315447854|gb|ADU21418.1| helix-turn-helix domain protein [Ruminococcus albus 7]
          Length = 313

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 28/56 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G  IR  R    ++QE+L E LGIT + V ++E        S+L  ++   + 
Sbjct: 2  MTIGSTIRQLRQEQDITQEQLAEALGITSRAVSQWECDRTTPDISQLPALANFFDV 57


>gi|293401719|ref|ZP_06645861.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291304977|gb|EFE46224.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 139

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 28/112 (25%), Positives = 58/112 (51%), Gaps = 11/112 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R+  GMSQ+ L + L +T Q + K+E+G++   A  L  +SE+ E  +S    +
Sbjct: 4   ENLKTLRIEKGMSQQFLADQLHVTRQTISKWERGLSVPDADMLIALSEMFEVSVSTL--L 61

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR-QKIIELVRSIV 127
           + +V  + +SE   + + +   + L L     Q+     R +K+ +++R I 
Sbjct: 62  NRSVNEEDTSESTLLAEKL---EQLNL-----QLAQRNQRSRKVWKVIRFIA 105


>gi|167620618|ref|ZP_02389249.1| helix-turn-helix domain protein [Burkholderia thailandensis Bt4]
          Length = 114

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 26/106 (24%), Positives = 53/106 (50%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG+ I  +R+I G++Q+K+ E LGI  + V + E+GV      RL  ++++ +   + 
Sbjct: 3   VVVGRAIAKQRVISGLTQDKVAERLGIGLEAVSRMERGVVIPTVVRLFELADIFQCDAAD 62

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
               + +  SD +S    ++  +S  D   L   F ++     R++
Sbjct: 63  LLTEASSRSSDQASHLTRLLSRLSAADRTLLLEVFERLSTRLTRRQ 108


>gi|146300361|ref|YP_001194952.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
          UW101]
 gi|146154779|gb|ABQ05633.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
          UW101]
          Length = 129

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++G++I   R +  M QE L + LG + Q +   E     +   +L+ I++ L   +
Sbjct: 9  HIGRKISRIRELRDMKQEALAQALGTSQQTISALENSE-EIDDEKLKQIAKALGVSV 64


>gi|283783001|ref|YP_003373755.1| DNA-binding protein [Gardnerella vaginalis 409-05]
 gi|298253582|ref|ZP_06977372.1| transcriptional regulator [Gardnerella vaginalis 5-1]
 gi|283441430|gb|ADB13896.1| DNA-binding protein [Gardnerella vaginalis 409-05]
 gi|297532349|gb|EFH71237.1| transcriptional regulator [Gardnerella vaginalis 5-1]
          Length = 328

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 38/110 (34%), Gaps = 17/110 (15%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+L + LG++ Q V K+E   +     R+  +S +            
Sbjct: 6   KILELRKQNGWSQEELADKLGVSRQAVSKWEGAQSIPDMERIIALSRLFGVSTDLLVKDE 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
             V     +   N                    ++  VR ++IEL  +  
Sbjct: 66  IDVMGKNVNAGENACQ-----------------EEAGVRMRVIELEEASA 98


>gi|229150060|ref|ZP_04278283.1| hypothetical protein bcere0011_16160 [Bacillus cereus m1550]
 gi|228633359|gb|EEK89965.1| hypothetical protein bcere0011_16160 [Bacillus cereus m1550]
          Length = 149

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++++  R   G SQE + + +G+T Q V K+E   +      L  +SE+    +  
Sbjct: 1  MNLGEQLKKLRESKGFSQEDVAKKIGVTRQAVYKWENDKSYPDIDNLILLSEMYNVTLDE 60

Query: 73 FFDVSPTVCSDISSEENN 90
              +      I S+  +
Sbjct: 61 LIKGNQDFKKKIHSDAED 78


>gi|160943854|ref|ZP_02091085.1| hypothetical protein FAEPRAM212_01353 [Faecalibacterium
          prausnitzii M21/2]
 gi|158445028|gb|EDP22031.1| hypothetical protein FAEPRAM212_01353 [Faecalibacterium
          prausnitzii M21/2]
 gi|295103055|emb|CBL00599.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Faecalibacterium prausnitzii SL3/3]
          Length = 206

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 36/55 (65%), Gaps = 1/55 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          R+RLRR  LG+SQE+L   +G  +   + K EKG+N +  S+++ +++ LE+  +
Sbjct: 7  RVRLRREQLGLSQEELARRMGYRSRSSITKLEKGINDLPQSKVEELAQALETTPA 61


>gi|331701987|ref|YP_004398946.1| helix-turn-helix domain-containing protein [Lactobacillus
          buchneri NRRL B-30929]
 gi|329129330|gb|AEB73883.1| helix-turn-helix domain protein [Lactobacillus buchneri NRRL
          B-30929]
          Length = 196

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G +IR  R + G SQE+L   + ++ Q +  +E G        +  +S +    + 
Sbjct: 1  MDIGNKIRDYREVRGFSQEELASKIYVSRQTISNWETGKQYPDIQNVLLLSVLFGVSVD 59


>gi|328958145|ref|YP_004375531.1| transcriptional regulator for post-exponential-phase response
          [Carnobacterium sp. 17-4]
 gi|328674469|gb|AEB30515.1| transcriptional regulator for post-exponential-phase response
          [Carnobacterium sp. 17-4]
          Length = 180

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G RI+  R+   ++QE+L E   ++   + + E+ ++         I EVL      
Sbjct: 1  MEIGNRIKNLRIQKNLTQEELAERTNLSKGYISQVERDLSVPSMEVFFDILEVLGCSPKD 60

Query: 73 FFD 75
          FFD
Sbjct: 61 FFD 63


>gi|283833076|ref|ZP_06352817.1| toxin-antitoxin system, antitoxin component, Xre family
          [Citrobacter youngae ATCC 29220]
 gi|291070694|gb|EFE08803.1| toxin-antitoxin system, antitoxin component, Xre family
          [Citrobacter youngae ATCC 29220]
          Length = 191

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 31/65 (47%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + ++  +G RIRL R   G S   L E  G++   + K E+G +   A+ L  +S   
Sbjct: 4  IEDSINQRIGARIRLERESRGWSLTDLAERAGVSRAMIHKIERGESSPTATLLGRLSGAF 63

Query: 67 ESPIS 71
             +S
Sbjct: 64 GISMS 68


>gi|268609129|ref|ZP_06142856.1| hypothetical protein RflaF_06476 [Ruminococcus flavefaciens FD-1]
          Length = 163

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 26/115 (22%), Positives = 53/115 (46%), Gaps = 10/115 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GK ++  R   G +QE LGE +G+T + V ++E G        L  +S++ +  I+ 
Sbjct: 4   VMIGKFLKELRKEKGYTQETLGEKIGVTNKTVSRWETGTYIPPVECLVMLSDIYDVSIN- 62

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                      +S  E N     +  + L+L+      ++ K R+K + +V ++ 
Sbjct: 63  ----EIVAGQRLSQSEFNDKAEENLSEALRLSE-----NEYKQREKKLTIVMAVS 108


>gi|54022912|ref|YP_117154.1| hypothetical protein nfa9450 [Nocardia farcinica IFM 10152]
 gi|54014420|dbj|BAD55790.1| hypothetical protein [Nocardia farcinica IFM 10152]
          Length = 394

 Score = 58.7 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/66 (34%), Positives = 31/66 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI   R   G++Q +L   +GI    + K E G  RV A  L  I+E L   I +F 
Sbjct: 32 LGDRIAQARSRHGLTQAQLAAAIGIDRSALAKIEGGTRRVSALELAGIAEELGERIEWFV 91

Query: 75 DVSPTV 80
            SP  
Sbjct: 92 LPSPPA 97


>gi|327393838|dbj|BAK11260.1| putative HTH-type transcriptional regulator YdcN [Pantoea ananatis
           AJ13355]
          Length = 181

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 24/131 (18%), Positives = 49/131 (37%), Gaps = 11/131 (8%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G  ++  R   G S     E  G++   + + E+G +    + L  I+     P SFF
Sbjct: 7   YLGDGLKQLRQANGWSLSLTAEKTGVSKAMLGQIERGESSPTVATLWKIATGFNVPFSFF 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
                    +++           TP    L  Y     D ++R  ++ +   + +  +  
Sbjct: 67  VHSGAHSAGEVTGYRQQNAQMAVTP----LLPY-----DARLRFDLLAV--ELAAGAQSD 115

Query: 134 RTIEEECMVEQ 144
            T  E+ ++EQ
Sbjct: 116 STAHEKGVIEQ 126


>gi|302387526|ref|YP_003823348.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
 gi|302198154|gb|ADL05725.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
          Length = 195

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 37/81 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  IR  R+   M+Q++L + + ++ + V K+E+G+     S +  +S +LE  I    
Sbjct: 6  VGSIIRALRLEHSMTQKQLADKMNLSDKTVSKWERGMGLPDISLIPELSRILEIDIMHLL 65

Query: 75 DVSPTVCSDISSEENNVMDFI 95
              T  +       N   F+
Sbjct: 66 SGDMTPNNFTGGNMKNTKYFV 86


>gi|227874017|ref|ZP_03992229.1| DNA-binding protein [Oribacterium sinus F0268]
 gi|227840133|gb|EEJ50551.1| DNA-binding protein [Oribacterium sinus F0268]
          Length = 203

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I +GK I   R   GM+Q +L E LGI+ + V K+E G +   +  +  +   L+  ++
Sbjct: 4  IKIGKFIASCRKEEGMTQAELAEKLGISDRAVSKWETGKSMPDSGIMLELCGFLKINVN 62


>gi|325686748|gb|EGD28774.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK72]
          Length = 168

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 34/76 (44%), Gaps = 3/76 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--- 74
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +     
Sbjct: 6  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLED 65

Query: 75 DVSPTVCSDISSEENN 90
             P +   +S +E N
Sbjct: 66 SDKPEIKPVLSEDEKN 81


>gi|324324351|gb|ADY19611.1| XRE family transcriptional regulator [Bacillus thuringiensis
          serovar finitimus YBT-020]
          Length = 120

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 36/80 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI+  RM +G +Q++  + + I+   V   E G        +  IS +      +  
Sbjct: 5  IGKRIKEIRMSIGYTQQQFADSVDISKPMVSYIESGKKTPSRETVSKISNLANVSTDYIM 64

Query: 75 DVSPTVCSDISSEENNVMDF 94
           +S    ++ SS  + +++ 
Sbjct: 65 GLSDNKTNEKSSASDVMLEL 84


>gi|271500016|ref|YP_003333041.1| XRE family transcriptional regulator [Dickeya dadantii Ech586]
 gi|270343571|gb|ACZ76336.1| transcriptional regulator, XRE family [Dickeya dadantii Ech586]
          Length = 92

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 34/70 (48%), Gaps = 4/70 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGIT----FQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R+R  R    +SQE+L    GI+    + ++  YE G ++     +   +++L+ P  +
Sbjct: 4  QRLRAARERAKISQEELAIAAGISEETGYSRMSHYENGRHKPKFELICTFAKILDVPEGY 63

Query: 73 FFDVSPTVCS 82
          F+ +  +   
Sbjct: 64 FYTLDDSFAE 73


>gi|163736142|ref|ZP_02143561.1| transcriptional regulator, putative [Phaeobacter gallaeciensis
          BS107]
 gi|161390012|gb|EDQ14362.1| transcriptional regulator, putative [Phaeobacter gallaeciensis
          BS107]
          Length = 437

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 31/78 (39%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G RIR RR++LG+ Q  L   + I+   +   E    R+G   L  ++ +L    S
Sbjct: 4  DTLTGSRIRERRLMLGLRQADLARQVKISASYLNLIEHNRRRIGGKLLVDLARMLAVEPS 63

Query: 72 FFFDVSPTVCSDISSEEN 89
             + +         E  
Sbjct: 64 MLTEGAEVALLSTLREAA 81


>gi|330719168|ref|ZP_08313768.1| XRE family transcriptional regulator [Leuconostoc fallax KCTC
          3537]
          Length = 134

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 28/54 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          K +   R   G+SQE+L   L +T Q + K+E G       ++Q I+E   +P+
Sbjct: 7  KNLLSLRKEAGISQEELASKLFVTRQTISKWELGEVTPDLGKIQLIAEYFNTPV 60


>gi|282849276|ref|ZP_06258661.1| DNA-binding protein [Veillonella parvula ATCC 17745]
 gi|282580980|gb|EFB86378.1| DNA-binding protein [Veillonella parvula ATCC 17745]
          Length = 290

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 28/55 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++R  R   G+SQ KL E L ++ Q + K+E G      S L+ +S V    + 
Sbjct: 5  EKLREYRTQSGLSQGKLAETLNVSRQAITKWESGNGMPDISNLKALSGVFNVSVD 59


>gi|253688262|ref|YP_003017452.1| putative phage repressor [Pectobacterium carotovorum subsp.
          carotovorum PC1]
 gi|251754840|gb|ACT12916.1| putative phage repressor [Pectobacterium carotovorum subsp.
          carotovorum PC1]
          Length = 244

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 35/72 (48%), Gaps = 1/72 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R+  G+SQ+ LG+ +G++   +QK E G      +++  +S  L     +  + 
Sbjct: 7  ERLKTARIAQGLSQKALGDLIGVSQAAIQKIEVGKAS-QTTKIVELSNALHVRPEWLANG 65

Query: 77 SPTVCSDISSEE 88
             + SD  +  
Sbjct: 66 EDPMRSDGVTRP 77


>gi|255971922|ref|ZP_05422508.1| predicted protein [Enterococcus faecalis T1]
 gi|256616820|ref|ZP_05473666.1| predicted protein [Enterococcus faecalis ATCC 4200]
 gi|256763304|ref|ZP_05503884.1| predicted protein [Enterococcus faecalis T3]
 gi|256957906|ref|ZP_05562077.1| predicted protein [Enterococcus faecalis DS5]
 gi|257079843|ref|ZP_05574204.1| predicted protein [Enterococcus faecalis JH1]
 gi|257087648|ref|ZP_05582009.1| predicted protein [Enterococcus faecalis D6]
 gi|294779495|ref|ZP_06744891.1| DNA-binding protein [Enterococcus faecalis PC1.1]
 gi|300860620|ref|ZP_07106707.1| helix-turn-helix protein [Enterococcus faecalis TUSoD Ef11]
 gi|255962940|gb|EET95416.1| predicted protein [Enterococcus faecalis T1]
 gi|256596347|gb|EEU15523.1| predicted protein [Enterococcus faecalis ATCC 4200]
 gi|256684555|gb|EEU24250.1| predicted protein [Enterococcus faecalis T3]
 gi|256948402|gb|EEU65034.1| predicted protein [Enterococcus faecalis DS5]
 gi|256987873|gb|EEU75175.1| predicted protein [Enterococcus faecalis JH1]
 gi|256995678|gb|EEU82980.1| predicted protein [Enterococcus faecalis D6]
 gi|294453452|gb|EFG21858.1| DNA-binding protein [Enterococcus faecalis PC1.1]
 gi|300849659|gb|EFK77409.1| helix-turn-helix protein [Enterococcus faecalis TUSoD Ef11]
 gi|323481602|gb|ADX81041.1| helix-turn-helix family protein [Enterococcus faecalis 62]
          Length = 239

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 36/78 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  +++RR  LG++Q ++ E L +T Q +  +E   +      L  +S + E  +  
Sbjct: 1  MNIGNSLKMRRNELGLTQSEVAEKLYVTRQTISNWENNKSYPNIDCLIELSNLYEMTLDR 60

Query: 73 FFDVSPTVCSDISSEENN 90
                T+   +S +   
Sbjct: 61 LLKEDNTMVEKLSKDIRE 78


>gi|108801860|ref|YP_642057.1| XRE family transcriptional regulator [Mycobacterium sp. MCS]
 gi|119871013|ref|YP_940965.1| XRE family transcriptional regulator [Mycobacterium sp. KMS]
 gi|126437828|ref|YP_001073519.1| XRE family transcriptional regulator [Mycobacterium sp. JLS]
 gi|108772279|gb|ABG11001.1| transcriptional regulator, XRE family [Mycobacterium sp. MCS]
 gi|119697102|gb|ABL94175.1| transcriptional regulator, XRE family [Mycobacterium sp. KMS]
 gi|126237628|gb|ABO01029.1| transcriptional regulator, XRE family [Mycobacterium sp. JLS]
          Length = 219

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/100 (18%), Positives = 38/100 (38%), Gaps = 7/100 (7%)

Query: 10  PVD-----INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           PVD       +G+ +R  R   G++  ++ E +GI+   + K E        S L  +++
Sbjct: 26  PVDDTEFEAAIGRNVRQLRQQHGLTVAEMAERVGISKAMMSKIENAQTSCSLSTLALLAK 85

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFIS--TPDGLQ 102
             + P++  F  +         +       +   T +G  
Sbjct: 86  GFDVPVTTLFRGADVERPAAFVKAGTGARIVRNGTKEGHD 125


>gi|89074996|ref|ZP_01161441.1| transcriptional regulator, putative [Photobacterium sp. SKA34]
 gi|90581632|ref|ZP_01237423.1| transcriptional regulator, putative [Vibrio angustum S14]
 gi|89049235|gb|EAR54799.1| transcriptional regulator, putative [Photobacterium sp. SKA34]
 gi|90437215|gb|EAS62415.1| transcriptional regulator, putative [Vibrio angustum S14]
          Length = 106

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 35/61 (57%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    +SQ++LG  +GI       ++ +YEKG +    S L+ I++ L  P+++F
Sbjct: 10 RLKEIRKRAKISQKELGVRVGIDESSASARMNQYEKGKHTPDISTLKKIADELGVPLNYF 69

Query: 74 F 74
          F
Sbjct: 70 F 70


>gi|317120977|ref|YP_004100980.1| XRE family transcriptional regulator [Thermaerobacter marianensis
           DSM 12885]
 gi|315590957|gb|ADU50253.1| transcriptional regulator, XRE family [Thermaerobacter marianensis
           DSM 12885]
          Length = 244

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/124 (18%), Positives = 49/124 (39%), Gaps = 21/124 (16%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PV   VG RIR  R   G+S ++L     I+   +   E+GV     +    ++++L 
Sbjct: 3   PDPV--AVGNRIRAARQAAGLSVKELARRAHISPSHLSDIERGVKHPSLAVAATLAQILG 60

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTP------DGLQLNRYFIQIDDVKVRQKIIE 121
             + +          D   +  ++   +  P       G+ L            R+++++
Sbjct: 61  RSLDW-----VVAGRDPLPDPVDLRTLLRDPARPLWYQGVPLTEA--------AREQLVD 107

Query: 122 LVRS 125
           L+ +
Sbjct: 108 LLDA 111


>gi|294794988|ref|ZP_06760123.1| toxin-antitoxin system, antitoxin component, Xre family
          [Veillonella sp. 3_1_44]
 gi|294454350|gb|EFG22724.1| toxin-antitoxin system, antitoxin component, Xre family
          [Veillonella sp. 3_1_44]
          Length = 142

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 1/66 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          RIR RR+ LG+SQE L   +G  +   + K E G   +  ++++  +EVL +  ++  D 
Sbjct: 26 RIRERRIQLGLSQEDLAIKMGYKSRSTINKIESGAVDIARNKIEKFAEVLNTTPAYLMDW 85

Query: 77 SPTVCS 82
          + T   
Sbjct: 86 NDTPKE 91


>gi|251789113|ref|YP_003003834.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|271500015|ref|YP_003333040.1| XRE family transcriptional regulator [Dickeya dadantii Ech586]
 gi|247537734|gb|ACT06355.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
 gi|270343570|gb|ACZ76335.1| transcriptional regulator, XRE family [Dickeya dadantii Ech586]
          Length = 85

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 4/74 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+   ++QEKLG   G+     + ++  YE G ++     +   + VL+ P  +
Sbjct: 4  KRLKEARLHAKLTQEKLGVLAGLEEATAYSRLSHYENGTHKPTFELVCEFARVLDVPECY 63

Query: 73 FFDVSPTVCSDISS 86
          F+ V      D+  
Sbjct: 64 FYIVDDQFAQDVLE 77


>gi|209543154|ref|YP_002275383.1| XRE family transcriptional regulator [Gluconacetobacter
          diazotrophicus PAl 5]
 gi|209530831|gb|ACI50768.1| transcriptional regulator, XRE family [Gluconacetobacter
          diazotrophicus PAl 5]
          Length = 83

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 31/74 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +R  R   G+SQE L E +G+    +   E G   V    L H S+ L    +   D
Sbjct: 8  GANVRRLRRAAGLSQEALAERMGVDRAYISWIETGRQNVTLLSLWHASQALGVRPAALLD 67

Query: 76 VSPTVCSDISSEEN 89
           S  V ++ +  + 
Sbjct: 68 ESHAVATEAAPADG 81


>gi|57641274|ref|YP_183752.1| transcription regulator [Thermococcus kodakarensis KOD1]
 gi|57159598|dbj|BAD85528.1| predicted transcription regulator, containing DNA-binding HTH
          domain [Thermococcus kodakarensis KOD1]
          Length = 65

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G++QE+L + LG+T Q +   EKG           I+      I   F
Sbjct: 3  NRLRELREERGLTQEELAKALGVTRQTIIAIEKGKYDPSLKLAFKIARFFGLNIEDIF 60


>gi|260161306|emb|CAZ39274.1| hypothetical protein [Streptococcus suis]
 gi|260161745|emb|CAZ39290.1| hypothetical protein [Streptococcus suis]
          Length = 136

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 39/76 (51%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESPIS 71
          +  G++++  R  LGMSQ++L   +G+T + +  YE   +R  G  R + ++E L   ++
Sbjct: 1  MTFGEKVKAERTKLGMSQDELAAKIGVTRRIIGSYENDKSRPRGMERYKKLAESLNVNVN 60

Query: 72 FFFDVSPTVCSDISSE 87
          +         +D+  +
Sbjct: 61 YLLSEDDAFIADVEDK 76


>gi|237748329|ref|ZP_04578809.1| predicted protein [Oxalobacter formigenes OXCC13]
 gi|229379691|gb|EEO29782.1| predicted protein [Oxalobacter formigenes OXCC13]
          Length = 131

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 1/84 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
          + KRI   R  L  SQ +L   +G+T Q VQK+EK         L+ ++ VL    ++  
Sbjct: 4  IAKRIENCRRHLNFSQSELARKVGVTPQAVQKWEKAKTVPRGYTLEKLAGVLGVSPAYIQ 63

Query: 74 FDVSPTVCSDISSEENNVMDFIST 97
          F ++        S E+   +++ T
Sbjct: 64 FGITDASSGGHFSVEDEKTEYLVT 87


>gi|239625412|ref|ZP_04668443.1| dna-binding protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239519642|gb|EEQ59508.1| dna-binding protein [Clostridiales bacterium 1_7_47FAA]
          Length = 67

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 26/56 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR RR   G+SQE+L    G++ Q V   E        +   H+++ L + +   F
Sbjct: 5  IRERRKERGISQEELAGKCGVSRQTVNAIENNKYDPTLALAFHLAQELGTTVDGLF 60


>gi|212696965|ref|ZP_03305093.1| hypothetical protein ANHYDRO_01528 [Anaerococcus hydrogenalis DSM
          7454]
 gi|212676053|gb|EEB35660.1| hypothetical protein ANHYDRO_01528 [Anaerococcus hydrogenalis DSM
          7454]
          Length = 212

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 36/70 (51%), Gaps = 1/70 (1%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K+  + +D  +GK I+  R+   +S +KL E + ++   + + E G      + L+ IS+
Sbjct: 22 KEKGDQMDK-LGKNIKNSRISQNLSLKKLAEKVDVSPSMLSQIESGKANPSLNTLKLISQ 80

Query: 65 VLESPISFFF 74
           L+ P+   F
Sbjct: 81 HLKVPMFTLF 90


>gi|15801491|ref|NP_287508.1| transcriptional repressor DicA [Escherichia coli O157:H7 EDL933]
 gi|15831019|ref|NP_309792.1| transcriptional repressor DicA [Escherichia coli O157:H7 str.
           Sakai]
 gi|208814889|ref|ZP_03256068.1| HTH-type transcriptional regulator DicA [Escherichia coli O157:H7
           str. EC4045]
 gi|218694455|ref|YP_002402122.1| transcriptional repressor DicA [Escherichia coli 55989]
 gi|218704543|ref|YP_002412062.1| transcriptional repressor DicA [Escherichia coli UMN026]
 gi|254792733|ref|YP_003077570.1| transcriptional repressor DicA [Escherichia coli O157:H7 str.
           TW14359]
 gi|260854926|ref|YP_003228817.1| putative phage repressor protein [Escherichia coli O26:H11 str.
           11368]
 gi|260868007|ref|YP_003234409.1| putative phage repressor protein [Escherichia coli O111:H- str.
           11128]
 gi|261226536|ref|ZP_05940817.1| DicA-like protein, regulator of DicB [Escherichia coli O157:H7 str.
           FRIK2000]
 gi|261254853|ref|ZP_05947386.1| putative phage repressor protein [Escherichia coli O157:H7 str.
           FRIK966]
 gi|291282288|ref|YP_003499106.1| DicA-like protein [Escherichia coli O55:H7 str. CB9615]
 gi|293404421|ref|ZP_06648415.1| transcriptional repressor DicA [Escherichia coli FVEC1412]
 gi|298380199|ref|ZP_06989804.1| transcriptional repressor DicA [Escherichia coli FVEC1302]
 gi|300896137|ref|ZP_07114689.1| transcriptional repressor DicA [Escherichia coli MS 198-1]
 gi|301017544|ref|ZP_07182222.1| transcriptional repressor DicA [Escherichia coli MS 69-1]
 gi|12514990|gb|AAG56120.1|AE005343_10 similar to DicA, regulator of DicB encoded by prophage CP-933O
           [Escherichia coli O157:H7 str. EDL933]
 gi|13361230|dbj|BAB35188.1| putative regulatory protein [Escherichia coli O157:H7 str. Sakai]
 gi|208731537|gb|EDZ80225.1| HTH-type transcriptional regulator DicA [Escherichia coli O157:H7
           str. EC4045]
 gi|218351187|emb|CAU96891.1| repressor protein of division inhibition from bacteriophage origin
           [Escherichia coli 55989]
 gi|218431640|emb|CAR12520.1| repressor protein of division inhibition from bacteriophage origin
           [Escherichia coli UMN026]
 gi|254592133|gb|ACT71494.1| DicA-like protein, regulator of DicB [Escherichia coli O157:H7 str.
           TW14359]
 gi|257753575|dbj|BAI25077.1| putative phage repressor protein [Escherichia coli O26:H11 str.
           11368]
 gi|257764363|dbj|BAI35858.1| putative phage repressor protein [Escherichia coli O111:H- str.
           11128]
 gi|290762161|gb|ADD56122.1| DicA-like protein [Escherichia coli O55:H7 str. CB9615]
 gi|291429007|gb|EFF02032.1| transcriptional repressor DicA [Escherichia coli FVEC1412]
 gi|298279897|gb|EFI21405.1| transcriptional repressor DicA [Escherichia coli FVEC1302]
 gi|300359966|gb|EFJ75836.1| transcriptional repressor DicA [Escherichia coli MS 198-1]
 gi|300400161|gb|EFJ83699.1| transcriptional repressor DicA [Escherichia coli MS 69-1]
 gi|320637417|gb|EFX07224.1| transcriptional repressor DicA [Escherichia coli O157:H7 str.
           G5101]
 gi|320642724|gb|EFX11945.1| transcriptional repressor DicA [Escherichia coli O157:H- str.
           493-89]
 gi|320648078|gb|EFX16758.1| transcriptional repressor DicA [Escherichia coli O157:H- str. H
           2687]
 gi|320653638|gb|EFX21722.1| transcriptional repressor DicA [Escherichia coli O55:H7 str.
           3256-97 TW 07815]
 gi|320659531|gb|EFX27100.1| transcriptional repressor DicA [Escherichia coli O55:H7 str. USDA
           5905]
 gi|320664667|gb|EFX31818.1| transcriptional repressor DicA [Escherichia coli O157:H7 str.
           LSU-61]
 gi|323153261|gb|EFZ39521.1| HTH-type transcriptional regulator dicA [Escherichia coli EPECa14]
 gi|323178022|gb|EFZ63604.1| HTH-type transcriptional regulator dicA [Escherichia coli 1180]
 gi|326344486|gb|EGD68237.1| transcriptional repressor DicA [Escherichia coli O157:H7 str. 1044]
 gi|326346335|gb|EGD70072.1| transcriptional repressor DicA [Escherichia coli O157:H7 str. 1125]
          Length = 135

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/110 (18%), Positives = 49/110 (44%), Gaps = 3/110 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+  RR  L +SQ  LG+ + +    + ++E+   +    RL  +S+ L+   ++   
Sbjct: 7   GARLLYRRKKLKLSQAALGKLVKVAHVTISQWERDETQPAGKRLFALSQALQCSPTWLLF 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
                       +N  ++   T D  +L + F  + + + ++ ++  +R+
Sbjct: 67  GDEDKQPGEPIPDNQPVNL--TEDQKELLQLFDALPESE-QKALLSEMRA 113


>gi|125973269|ref|YP_001037179.1| XRE family transcriptional regulator [Clostridium thermocellum
          ATCC 27405]
 gi|256003748|ref|ZP_05428736.1| transcriptional regulator, XRE family [Clostridium thermocellum
          DSM 2360]
 gi|281417471|ref|ZP_06248491.1| transcriptional regulator, XRE family [Clostridium thermocellum
          JW20]
 gi|125713494|gb|ABN51986.1| transcriptional regulator, XRE family with cupin sensor
          [Clostridium thermocellum ATCC 27405]
 gi|255992309|gb|EEU02403.1| transcriptional regulator, XRE family [Clostridium thermocellum
          DSM 2360]
 gi|281408873|gb|EFB39131.1| transcriptional regulator, XRE family [Clostridium thermocellum
          JW20]
 gi|316940499|gb|ADU74533.1| Cupin 2 conserved barrel domain protein [Clostridium thermocellum
          DSM 1313]
          Length = 179

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 31/67 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +IR  R+   M+QE+L +   ++   + + E  +     + L  I + L + +  
Sbjct: 1  MQIGAKIRQLRIANQMTQEELADRAELSKGFISQIENDLTSPSINTLVDILQCLGTDLKT 60

Query: 73 FFDVSPT 79
          FF  S  
Sbjct: 61 FFSDSED 67


>gi|308067920|ref|YP_003869525.1| transcriptional regulator [Paenibacillus polymyxa E681]
 gi|305857199|gb|ADM68987.1| Transcriptional regulator [Paenibacillus polymyxa E681]
          Length = 122

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 27/113 (23%), Positives = 48/113 (42%), Gaps = 4/113 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RI   R   G+ QE+L + LGIT   +  YEK   +     L  ++++    I +   
Sbjct: 4   GSRIAELREHKGLKQEELAQSLGITRAALSHYEKNRRKPDFEILTKLADIFGVTIDYLVG 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID----DVKVRQKIIELVR 124
            +    + + S+    +D +   D   L R+ + ID      +  ++ I  VR
Sbjct: 64  RTSHPAAILDSDVREFVDQLELSDEDILRRFNLTIDGRTLSEEEAKRFIAFVR 116


>gi|300856317|ref|YP_003781301.1| putative DNA-binding protein [Clostridium ljungdahlii DSM 13528]
 gi|300436432|gb|ADK16199.1| predicted DNA binding protein [Clostridium ljungdahlii DSM 13528]
          Length = 401

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 32/63 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R   G + + L E +G++ Q + ++E G +      L  I + L+ P  +F++
Sbjct: 19 GERLKSARKYRGKTIKDLAEDIGVSKQAISQFENGKSTPLFETLIKIVDKLKFPREYFYE 78

Query: 76 VSP 78
             
Sbjct: 79 KDK 81


>gi|297160908|gb|ADI10620.1| putative DNA-binding protein [Streptomyces bingchenggensis BCW-1]
          Length = 387

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 35/80 (43%), Gaps = 1/80 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLES 68
          P + ++G R+R  R   G+SQ  L    G++   ++K E+G  +         ++  L  
Sbjct: 2  PEETHIGARLRKIRKRRGLSQRDLAVASGVSLSLIRKLEQGTLDDTRMETAHQLAVGLRV 61

Query: 69 PISFFFDVSPTVCSDISSEE 88
          P S   +      +D ++ +
Sbjct: 62 PTSSLLERDDEESADDTAGQ 81


>gi|325677709|ref|ZP_08157361.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324110677|gb|EGC04841.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 369

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 30/71 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  I+  R    ++QE+L + LGIT + V ++E        S+L  ++   +     
Sbjct: 1  MTIGATIKQLRQEQDITQEQLADALGITSRAVSQWETDRTAPDISQLPALANFFDVTTDH 60

Query: 73 FFDVSPTVCSD 83
             V      +
Sbjct: 61 LLGVDIARKEE 71


>gi|257085321|ref|ZP_05579682.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          Fly1]
 gi|293382363|ref|ZP_06628302.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis R712]
 gi|293389375|ref|ZP_06633833.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis S613]
 gi|312907395|ref|ZP_07766386.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis DAPTO 512]
 gi|312910013|ref|ZP_07768860.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis DAPTO 516]
 gi|256993351|gb|EEU80653.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          Fly1]
 gi|291080308|gb|EFE17672.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis R712]
 gi|291081262|gb|EFE18225.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis S613]
 gi|310626423|gb|EFQ09706.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis DAPTO 512]
 gi|311289286|gb|EFQ67842.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis DAPTO 516]
 gi|315575524|gb|EFU87715.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX0309B]
 gi|315577563|gb|EFU89754.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX0630]
 gi|315580035|gb|EFU92226.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX0309A]
          Length = 102

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 14/82 (17%), Positives = 40/82 (48%), Gaps = 1/82 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N G++++  R   G+   +L    G+    + + EKG+ +      ++ +++ L   +S
Sbjct: 1  MNFGEKLKYLRESKGLGVNQLALKSGVNASNISRLEKGIRKDPTFDTVKKLAKALGVSVS 60

Query: 72 FFFDVSPTVCSDISSEENNVMD 93
          +F D    + +  +  +++V +
Sbjct: 61 YFDDEEKEINTVAAHIDDDVTE 82


>gi|237786506|ref|YP_002907211.1| HTH_3 family transcriptional regulator [Corynebacterium
           kroppenstedtii DSM 44385]
 gi|237759418|gb|ACR18668.1| transcriptional regulator, HTH_3 family [Corynebacterium
           kroppenstedtii DSM 44385]
          Length = 498

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 25/141 (17%), Positives = 53/141 (37%), Gaps = 18/141 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG R++  R    +SQ  L   LG++   V + E     + +S L+ I+ V     +F
Sbjct: 14  VFVGTRLKQLRKERELSQATLAHALGLSASYVNQIENDSRPLTSSVLRKITHVFGIDEAF 73

Query: 73  FFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR---- 124
           F             D++ +       I   +   L          ++ + ++++ R    
Sbjct: 74  FSREDDSRLVAEVHDVTLDREVCPTSIDVQEVADLVH-----THPELARALVDIHRRYRN 128

Query: 125 -----SIVSSEKKYRTIEEEC 140
                S+V+ E+    +E+  
Sbjct: 129 VSDKLSLVTEERNRSDVEDSS 149


>gi|213966012|ref|ZP_03394201.1| DNA-binding protein [Corynebacterium amycolatum SK46]
 gi|213951307|gb|EEB62700.1| DNA-binding protein [Corynebacterium amycolatum SK46]
          Length = 478

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/86 (24%), Positives = 33/86 (38%), Gaps = 6/86 (6%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+R  R    +SQ  L + LG++   V + E  V  +    L  I++      +FF
Sbjct: 9  YVGSRLRQLRRERDLSQAALAQALGLSASYVNQIEHDVRPLTVPVLLRITDTFGVDATFF 68

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
                   D S     V D +   +
Sbjct: 69 ------SRDDDSRLLAEVQDVVMDKE 88


>gi|116334693|ref|YP_796220.1| XRE family transcriptional regulator [Lactobacillus brevis ATCC
          367]
 gi|116100040|gb|ABJ65189.1| Transcriptional regulator, xre family [Lactobacillus brevis ATCC
          367]
          Length = 120

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 29/70 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          ++   R   G+SQE+L   + +T Q V K+E+G        L  ++ VL   +       
Sbjct: 8  QLSQLRRQAGLSQEQLASQVFVTRQSVSKWEQGETTPDLDTLISLATVLGVSLDELVSGR 67

Query: 78 PTVCSDISSE 87
           T      +E
Sbjct: 68 STATHQTETE 77


>gi|83717916|ref|YP_440408.1| DNA-binding protein [Burkholderia thailandensis E264]
 gi|83651741|gb|ABC35805.1| DNA-binding protein [Burkholderia thailandensis E264]
          Length = 236

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 24/131 (18%), Positives = 51/131 (38%), Gaps = 12/131 (9%)

Query: 1   MVGNKKIPNPVDINV--GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
           MV + +   P +  V  G +IR  R  L  + ++     GI+   + + E+G+     + 
Sbjct: 44  MVPSTENTRPANAGVALGSKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSITS 103

Query: 59  LQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFI 108
           L  I+  L   + +F +      S    ++     F  +          P+G QL    +
Sbjct: 104 LAGIAHALGVTVQYFVETPSEERSVCRGDQLRFFSFADSANLFARLTNVPEGRQLEAILV 163

Query: 109 QIDDVKVRQKI 119
           ++   + R ++
Sbjct: 164 RMPPGQKRSEV 174


>gi|89893492|ref|YP_516979.1| hypothetical protein DSY0746 [Desulfitobacterium hafniense Y51]
 gi|89332940|dbj|BAE82535.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 134

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 37/83 (44%), Gaps = 6/83 (7%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
          +++R+ R   G+SQE+L E + ++ Q V K+E         +L  +S+     +      
Sbjct: 8  EKLRVLRKEKGLSQEQLAEMVNVSRQAVSKWESEQAYPELDKLILLSDFFNISLDDLIKD 67

Query: 75 ----DVSPTVCSDISSEENNVMD 93
              DV+    +  S E++   D
Sbjct: 68 KNPEDVAKNNDNSDSKEDDEETD 90


>gi|325663237|ref|ZP_08151687.1| hypothetical protein HMPREF0490_02428 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|325470691|gb|EGC73921.1| hypothetical protein HMPREF0490_02428 [Lachnospiraceae bacterium
          4_1_37FAA]
          Length = 120

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+RI++ R+  G++QE + + + IT   +   E G  +V    L  I+  L   + 
Sbjct: 8  IGQRIKIARIKKGVTQETVADLIDITPAHMSNVETGKTKVSLPTLIAIANALSVSVD 64


>gi|269792208|ref|YP_003317112.1| transcriptional regulator, XRE family [Thermanaerovibrio
          acidaminovorans DSM 6589]
 gi|269099843|gb|ACZ18830.1| transcriptional regulator, XRE family [Thermanaerovibrio
          acidaminovorans DSM 6589]
          Length = 117

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 37/76 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G R+++ R   G++Q+ L + + ++   +Q  E    R     L+ ++E L+  ++ 
Sbjct: 1  MSLGMRVKVLRRAKGLTQQGLADTVNVSRVYIQSIESNRRRPSMDLLERLAEALDVTVAD 60

Query: 73 FFDVSPTVCSDISSEE 88
              SP     +  EE
Sbjct: 61 LVKDSPGDGKRMQLEE 76


>gi|229074788|ref|ZP_04207803.1| hypothetical protein bcere0024_15950 [Bacillus cereus Rock4-18]
 gi|229096338|ref|ZP_04227311.1| hypothetical protein bcere0020_15870 [Bacillus cereus Rock3-29]
 gi|229115293|ref|ZP_04244702.1| hypothetical protein bcere0017_15890 [Bacillus cereus Rock1-3]
 gi|228668125|gb|EEL23558.1| hypothetical protein bcere0017_15890 [Bacillus cereus Rock1-3]
 gi|228687298|gb|EEL41203.1| hypothetical protein bcere0020_15870 [Bacillus cereus Rock3-29]
 gi|228708300|gb|EEL60458.1| hypothetical protein bcere0024_15950 [Bacillus cereus Rock4-18]
          Length = 149

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 48/110 (43%), Gaps = 8/110 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G++++  R     SQE + + +G+T Q V K+E   +      L  +SE+    +  
Sbjct: 1   MSIGEQLKKLRESKEFSQEDVAKKIGVTRQAVYKWENDKSYPDIDNLILLSEMYNVTLDE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPD-------GLQLNRYFIQIDDVKV 115
               + +    I  +E    DF    +       GL +   FI+ + ++V
Sbjct: 61  LIKGNQSFKEKIHIDEEE-ADFEKENEFGFYIGCGLLIMSAFIEYEKIQV 109


>gi|312887654|ref|ZP_07747246.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
 gi|311299869|gb|EFQ76946.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
          Length = 124

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 40/85 (47%), Gaps = 2/85 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
          KR ++ R    ++Q ++ + LG+T   VQK+E G   +    +Q + + L   + +FF  
Sbjct: 11 KRFKIFRKYKDLTQIQIADVLGVTQPAVQKWESGATDLSIEIIQKLRDKLNMSLEWFFTG 70

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            +    +  SS   ++   ++  +
Sbjct: 71 KGTKEFVAAKSSIMKDMATILTDSE 95


>gi|301310632|ref|ZP_07216571.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides sp. 20_3]
 gi|300832206|gb|EFK62837.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides sp. 20_3]
          Length = 138

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 28/129 (21%), Positives = 59/129 (45%), Gaps = 10/129 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  ++  R   G+ QE L + +G++   +  YEK  + +    L+ I++ L+ P     +
Sbjct: 20  GANLKRWREWRGIKQEVLADKIGVSQATLSGYEK-KDELEPEVLEKITKALDIPTEAITE 78

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
           ++     +I S      D  +    +Q N+ F  ID      KI+EL   ++ +E++   
Sbjct: 79  LNEGALINIYS--GTWQDNATAAGSIQ-NQTFNPID------KIVELYERLLKAEQEKVA 129

Query: 136 IEEECMVEQ 144
           +  E + ++
Sbjct: 130 MLHEIIKDK 138


>gi|256024105|ref|ZP_05437970.1| Repressor protein C2 [Escherichia sp. 4_1_40B]
          Length = 208

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 33/58 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          VG+RI+  R + G SQ++LG+  G++   V  +EK +N  G   L  +++   + I +
Sbjct: 4  VGQRIKALRRVTGTSQKELGKFCGVSDVAVGYWEKDINTPGGEALSKLAKFFNTSIDY 61


>gi|206971646|ref|ZP_03232596.1| transcriptional regulator Xre [Bacillus cereus AH1134]
 gi|206733631|gb|EDZ50803.1| transcriptional regulator Xre [Bacillus cereus AH1134]
          Length = 117

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 57/120 (47%), Gaps = 7/120 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++L     G++Q++L + +G++   V  Y +G    G   LQ I+  L     +   +
Sbjct: 5   QRLKLLIEKRGITQQQLADAIGVSHVSVYNYVEGKKSPGTRTLQKIANHLNVTTDYLLGL 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
           S +   D+++++    D   T +  ++ +    + + + R+K +E +   VS EK    I
Sbjct: 65  SDS--PDLTADQ----DLQLTKEAQEILQIINDLPEEQ-RKKALEQLEMFVSYEKAKGNI 117


>gi|134300624|ref|YP_001114120.1| XRE family transcriptional regulator [Desulfotomaculum reducens
           MI-1]
 gi|134053324|gb|ABO51295.1| transcriptional regulator, XRE family [Desulfotomaculum reducens
           MI-1]
          Length = 139

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 38/86 (44%), Gaps = 4/86 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+R  R    +++E +   LG+T + V  YE G   +   +L  +++  +  + +  
Sbjct: 27  IGERLRQLRKEKNINREDVANLLGVTVRSVTNYESGQRNLDPDQLIALADYYDVSMDYLT 86

Query: 75  DVS----PTVCSDISSEENNVMDFIS 96
             S    P   + I  E   V + + 
Sbjct: 87  GRSDNPKPPQTTTIDDEWPEVANVLR 112


>gi|324989664|gb|EGC21608.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK353]
          Length = 168

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 32/74 (43%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    D
Sbjct: 6  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLED 65

Query: 76 VSPTVCSDISSEEN 89
                  + SE+ 
Sbjct: 66 SDKPEIKPVLSEDE 79


>gi|313898355|ref|ZP_07831892.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956737|gb|EFR38368.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 268

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 34/77 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G +I   R  L  +Q +L E LG++ + + K+E+GV     S L  +   L   +S 
Sbjct: 4  KEIGMQISAARKKLKYTQRELAEKLGVSDKTISKWERGVGYPDISLLLPLCRELGIEVSQ 63

Query: 73 FFDVSPTVCSDISSEEN 89
                T      +E+N
Sbjct: 64 LLGDEETDTQKQGNEKN 80


>gi|257416855|ref|ZP_05593849.1| predicted protein [Enterococcus faecalis AR01/DG]
 gi|257158683|gb|EEU88643.1| predicted protein [Enterococcus faecalis ARO1/DG]
          Length = 239

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 36/78 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  +++RR  LG++Q ++ E L +T Q +  +E   +      L  +S + E  +  
Sbjct: 1  MNIGNSLKMRRNELGLTQSEVAEKLYVTRQTISNWENNKSYPNIDCLIELSNLYEMTLDR 60

Query: 73 FFDVSPTVCSDISSEENN 90
                T+   +S +   
Sbjct: 61 LLKEDNTMVEKLSKDIRE 78


>gi|255526983|ref|ZP_05393876.1| transcriptional regulator, XRE family [Clostridium carboxidivorans
           P7]
 gi|296185146|ref|ZP_06853556.1| cupin domain protein [Clostridium carboxidivorans P7]
 gi|255509342|gb|EET85689.1| transcriptional regulator, XRE family [Clostridium carboxidivorans
           P7]
 gi|296049980|gb|EFG89404.1| cupin domain protein [Clostridium carboxidivorans P7]
          Length = 181

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/95 (18%), Positives = 43/95 (45%), Gaps = 1/95 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + ++IR  R    ++ + L    G++   + + E   + +  + L+ IS+ L   I++FF
Sbjct: 5   IAQKIRDLRKEKNLTLKDLSNETGLSISFLSQVENNSSSLAITSLKKISDALGVNINYFF 64

Query: 75  DVSPTVCSDISSEENNVMDFI-STPDGLQLNRYFI 108
           ++       + SE+        S  + ++L+  F 
Sbjct: 65  EIPEVNNFLVKSEDEKPFKIEGSNSEFIRLSGEFP 99


>gi|253578635|ref|ZP_04855906.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849578|gb|EES77537.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 220

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
             +G RI+ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 37  KLIGSRIKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 96

Query: 72  FFFDVSPTVCSDISSEEN 89
           +    +    +DI+ +  
Sbjct: 97  WLKGETDEYETDITDKRE 114


>gi|229087336|ref|ZP_04219477.1| hypothetical protein bcere0022_39060 [Bacillus cereus Rock3-44]
 gi|228695973|gb|EEL48817.1| hypothetical protein bcere0022_39060 [Bacillus cereus Rock3-44]
          Length = 185

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 37/74 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D N+G +I+  R+   M+ +++ E   ++   + + E+  + +    L+ +SE L    
Sbjct: 1  MDENIGNKIKALRLEKRMTLKQVSEKTNLSISFISQVERSKSSITLESLKKLSEALHVSP 60

Query: 71 SFFFDVSPTVCSDI 84
          S+FF       ++I
Sbjct: 61 SYFFAAEQKSNTNI 74


>gi|229179916|ref|ZP_04307262.1| Helix-turn-helix domain protein [Bacillus cereus 172560W]
 gi|228603597|gb|EEK61072.1| Helix-turn-helix domain protein [Bacillus cereus 172560W]
          Length = 277

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 19 GEKLFKLRKEKGLSQEALAEKLNTTRQGVSKWENGQGFPETGKLIMIGNVFEVSLDYLLK 78

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 79 ETAEQSNE 86


>gi|154504923|ref|ZP_02041661.1| hypothetical protein RUMGNA_02433 [Ruminococcus gnavus ATCC
          29149]
 gi|153794806|gb|EDN77226.1| hypothetical protein RUMGNA_02433 [Ruminococcus gnavus ATCC
          29149]
          Length = 120

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+RI++ R+  G++QE + + + IT   +   E G  +V    L  I+  L   + 
Sbjct: 8  IGQRIKIARIKKGVTQETVADLIDITPAHMSNVETGKTKVSLPTLIAIANALSVSVD 64


>gi|56696467|ref|YP_166824.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
 gi|56678204|gb|AAV94870.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
          Length = 217

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/117 (17%), Positives = 45/117 (38%), Gaps = 17/117 (14%)

Query: 1   MVGNKKIPNPV--------DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN 52
           M    + P+ V        ++ +G+ +R  R   G++  +L +   ++   + K E G  
Sbjct: 9   MTQLLQDPHSVREEREKVLEVAIGREVRAFRKQQGITVAELSKLTDLSIGMLSKIENGNT 68

Query: 53  RVGASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
               + LQ ++  L  P++ FF         I ++            GL++ R   +
Sbjct: 69  SPSLTTLQTLANALSVPLTAFFKGYEEKREAIHTKAG---------QGLEIERAGTR 116


>gi|332361288|gb|EGJ39092.1| phage transcriptional repressor [Streptococcus sanguinis SK1056]
          Length = 230

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R++  RM    SQ +L   L I      K+E G +      L  ++ +L+ P ++F
Sbjct: 4  GSRLKECRMEKHYSQSELANLLKINRASYNKWETGKSVPNQKNLSALARILDVPTTYF 61


>gi|307315901|ref|ZP_07595401.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
 gi|306898447|gb|EFN29134.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
          Length = 161

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 28/128 (21%), Positives = 54/128 (42%), Gaps = 12/128 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLE-S 68
           +D  +   ++  R   G+S+  L   LG++     +YE+G   R+   RL H+ E++   
Sbjct: 36  MDEKISAWLKKTREAKGISRADLAHLLGLSVSVYGRYERGSEARLSIPRLIHLCEIMGFM 95

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           P+   FD +P +      E  +          L L +   ++    +R  +I L+R +  
Sbjct: 96  PLDVIFDAAPHLWGKTLEEAEDR---------LTLMKLIEELPQDTMRD-LIRLLRRMTP 145

Query: 129 SEKKYRTI 136
            E    T+
Sbjct: 146 GEPAADTV 153


>gi|288959791|ref|YP_003450131.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288912099|dbj|BAI73587.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 118

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 41/98 (41%), Gaps = 4/98 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + +   +GKR+R  R    +SQE +   +  + + V   E+G        L  +S  L
Sbjct: 1   MSDDLKRRIGKRLRALRESRALSQEDVAAAIDRSVETVSNIERGRVLAALETLDRLSRRL 60

Query: 67  ESPISFFFDVSPTVCSDISSEEN----NVMDFISTPDG 100
           + P+  FFD    V S   +  +     V+  +S  + 
Sbjct: 61  DVPLVDFFDDGEAVVSPARAATDMRLREVLRGLSDREA 98


>gi|238924797|ref|YP_002938313.1| hypothetical protein EUBREC_2448 [Eubacterium rectale ATCC 33656]
 gi|238876472|gb|ACR76179.1| Hypothetical protein EUBREC_2448 [Eubacterium rectale ATCC 33656]
 gi|291526055|emb|CBK91642.1| Predicted transcriptional regulators [Eubacterium rectale DSM
          17629]
          Length = 108

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 25/58 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G RI++RR  L + Q +L E L I+   +   E G  +        I ++L     + 
Sbjct: 2  GNRIKIRRKELRIKQAELAEKLNISNNHMSSIENGRQKPSLDIFIRICDLLNVTPDYL 59


>gi|209518698|ref|ZP_03267515.1| transcriptional regulator, XRE family [Burkholderia sp. H160]
 gi|209500897|gb|EEA00936.1| transcriptional regulator, XRE family [Burkholderia sp. H160]
          Length = 200

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 30/74 (40%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M       +P++  +G  IR  R   G++  ++ E  GI+   + K E      G   L 
Sbjct: 1  MQTADDSKSPLERYLGATIRELRQSHGLTIAQVAEQAGISRGMLSKIENAQTSAGLDVLH 60

Query: 61 HISEVLESPISFFF 74
           I+  L   +S  F
Sbjct: 61 RIAMALGVSMSALF 74


>gi|219666089|ref|YP_002456524.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|219536349|gb|ACL18088.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 68

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++R+ R   G++Q++LGE +G++ Q +   E G           ++++ +  I   F
Sbjct: 3  NKVRILREEWGLTQKELGEKVGVSRQAINAIETGKFNPSLWLAYDLAKLFKVSIEELF 60


>gi|327393407|dbj|BAK10829.1| putative transcriptional regulator from phage origin [Pantoea
           ananatis AJ13355]
          Length = 230

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 42/94 (44%), Gaps = 4/94 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
           +N+G +IR  R   GM  E+L E +G+    + + E G  +      +  I++ L+  +S
Sbjct: 1   MNIGNKIRSLRKARGMKIEELAEAVGVDGANISRLETGKQKSFTEQSINKIAKALKVDVS 60

Query: 72  FFF---DVSPTVCSDISSEENNVMDFISTPDGLQ 102
             F      PTV +D  + +    + +   + L 
Sbjct: 61  ELFATGTAEPTVYNDSRNVQEQEPNAMYRVEVLD 94


>gi|291556308|emb|CBL33425.1| Predicted transcriptional regulators [Eubacterium siraeum
          V10Sc8a]
          Length = 301

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 34/86 (39%), Gaps = 2/86 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  I+  R    M+QE L E + ++ Q V K+E         +L  +S+     +  
Sbjct: 1  MSLGTNIQFYRKQKNMTQEDLAEFMNVSRQTVSKWESDTAFPETDKLITLSDYFGCTLDE 60

Query: 73 FFDVSPTV--CSDISSEENNVMDFIS 96
              S       D +  +  +  F S
Sbjct: 61 LIKGSAEENFTEDAAGYDKEMNSFTS 86


>gi|315231266|ref|YP_004071702.1| HTH-type transcriptional regulator protein [Thermococcus
          barophilus MP]
 gi|315184294|gb|ADT84479.1| HTH-type transcriptional regulator protein [Thermococcus
          barophilus MP]
          Length = 65

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G++QE+L + LG+T Q +   EKG           I+      I   F
Sbjct: 3  NRLRELREARGLTQEELAKILGVTRQTIIAIEKGKYDPSLRLAFKIARFFGVKIEDIF 60


>gi|167749809|ref|ZP_02421936.1| hypothetical protein EUBSIR_00777 [Eubacterium siraeum DSM 15702]
 gi|167657292|gb|EDS01422.1| hypothetical protein EUBSIR_00777 [Eubacterium siraeum DSM 15702]
          Length = 301

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 34/86 (39%), Gaps = 2/86 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  I+  R    M+QE L E + ++ Q V K+E         +L  +S+     +  
Sbjct: 1  MSLGTNIQFYRKQKNMTQEDLAEFMNVSRQTVSKWESDTAFPETDKLITLSDYFGCTLDE 60

Query: 73 FFDVSPTV--CSDISSEENNVMDFIS 96
              S       D +  +  +  F S
Sbjct: 61 LIKGSAEENFTEDAAGYDKEMNSFTS 86


>gi|82777173|ref|YP_403522.1| repressor protein CI [Shigella dysenteriae Sd197]
 gi|309788320|ref|ZP_07682924.1| repressor protein CI [Shigella dysenteriae 1617]
 gi|81241321|gb|ABB62031.1| repressor protein CI [Shigella dysenteriae Sd197]
 gi|308923702|gb|EFP69205.1| repressor protein CI [Shigella dysenteriae 1617]
          Length = 237

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 42/84 (50%), Gaps = 7/84 (8%)

Query: 17 KRIR----LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++     ++  LG+SQE L   LG+T   V +   G+N + AS    ++++L   +  
Sbjct: 17 KRLKSIFNAKKKELGLSQESLAYELGVTQSAVSQLMAGINAINASHAAQLAKILNVKVGD 76

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
          F   SP++   I+     + + ++
Sbjct: 77 F---SPSLAKSIAEMALAIEEPLT 97


>gi|322412342|gb|EFY03250.1| Phage transcriptional repressor [Streptococcus dysgalactiae
          subsp. dysgalactiae ATCC 27957]
          Length = 230

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R++  RM    SQ +L   L I      K+E G +      L  ++ +L+ P ++F
Sbjct: 4  GSRLKECRMEKHYSQSELANLLKINRASYNKWETGKSVPNQKNLSALARILDVPTTYF 61


>gi|313113313|ref|ZP_07798912.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii KLE1255]
 gi|310624366|gb|EFQ07722.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii KLE1255]
          Length = 120

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 24/121 (19%), Positives = 51/121 (42%), Gaps = 16/121 (13%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +PN   I +GK+I+  R  + M+Q++L     ++ + +   E G        L  I  VL
Sbjct: 3   MPNADAIALGKQIKAVRKAMKMTQDQLALKSNVSVKYIANIENGKQNPSFDILSAILHVL 62

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             P+S    +   +  ++S  E    +     + + L          ++R+ +++  RS+
Sbjct: 63  --PLS----LDSVINPNLSEAERECREL----ESIYLA------CPPEMRKTLLDATRSL 106

Query: 127 V 127
            
Sbjct: 107 A 107


>gi|307704502|ref|ZP_07641410.1| helix-turn-helix family protein [Streptococcus mitis SK597]
 gi|307621915|gb|EFO00944.1| helix-turn-helix family protein [Streptococcus mitis SK597]
          Length = 116

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 49/114 (42%), Gaps = 8/114 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--F 74
            R++  R   G++Q  L + L     Q  KYE G   +     Q +SE     I +   +
Sbjct: 3   NRLKKLRKEKGLTQADLAKVLNTNQSQYGKYENGKTNLSLENAQILSEYFGVSIPYLLGY 62

Query: 75  DVSPTVCSDISS---EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           + + TV    ++   E    + FIS     +L + +  I+  K  + ++E +RS
Sbjct: 63  EENSTVNKPNATILIELVKELSFISEKKS-KLLQEY--IELDKKERDVLEQIRS 113


>gi|268591074|ref|ZP_06125295.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291313881|gb|EFE54334.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 106

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 32/68 (47%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           N ++  +G+ +R  R    ++ E+L + L I+ QQ+ +YE G  ++    +  I  +  
Sbjct: 5  SNEINKEIGQYLRGIRKERNLTGEELAKRLNISQQQISRYETGKTKLTFEMMDTILLIFN 64

Query: 68 SPISFFFD 75
                F+
Sbjct: 65 KSWRDLFN 72


>gi|261409127|ref|YP_003245368.1| XRE family transcriptional regulator [Paenibacillus sp. Y412MC10]
 gi|329923481|ref|ZP_08278961.1| DNA-binding helix-turn-helix protein [Paenibacillus sp. HGF5]
 gi|261285590|gb|ACX67561.1| transcriptional regulator, XRE family [Paenibacillus sp. Y412MC10]
 gi|328941241|gb|EGG37537.1| DNA-binding helix-turn-helix protein [Paenibacillus sp. HGF5]
          Length = 122

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 39/88 (44%), Gaps = 6/88 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+RI   R   G +QE+L   +GIT   +  YEK   +     L  ++++ +  I +   
Sbjct: 4   GERIAELREQRGWTQEELATSVGITRAALSHYEKNRRKPDFETLTRLADLFDVSIDYLIG 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQL 103
            +    S +  E  + +D      GL+L
Sbjct: 64  RTTLEKSVLDPEVRSFVD------GLEL 85


>gi|192291025|ref|YP_001991630.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
           TIE-1]
 gi|192284774|gb|ACF01155.1| transcriptional regulator, XRE family [Rhodopseudomonas palustris
           TIE-1]
          Length = 474

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/125 (18%), Positives = 45/125 (36%), Gaps = 14/125 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             VG R+R  R   GM+Q+ L   +G++   + + E     +    L  ++  L   +  
Sbjct: 4   AYVGARLRRLREQRGMTQQALATAVGVSPSYLNQIENNQRPLTVPVLLKLNATLGIDVQL 63

Query: 73  FFDVSPTVCSDISSE---ENNVMDFISTPDGLQLN-------RYFIQIDDVKVRQKIIEL 122
           F +           E   +  V + ++  D  +L        R  + I     R+  + L
Sbjct: 64  FSEDDEARLIADLKEVLSDPMVGESLTANDVRELVTSMPAAGRALVAI----YRRYHLAL 119

Query: 123 VRSIV 127
            +S  
Sbjct: 120 EQSAA 124


>gi|312138107|ref|YP_004005443.1| transcriptional regulator [Rhodococcus equi 103S]
 gi|311887446|emb|CBH46758.1| putative transcriptional regulator [Rhodococcus equi 103S]
          Length = 182

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 39/91 (42%), Gaps = 11/91 (12%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G++ E L E  G+T   + K E+G+N    +    I+  L++ +S  F  +P
Sbjct: 5  LRSHRRRAGLTLEALAEDTGLTKSYLSKVERGINTPSIAVALKIARALDADVSQLFSDTP 64

Query: 79 -----------TVCSDISSEENNVMDFISTP 98
                           + +++ V D I+T 
Sbjct: 65 DNSVMAIERHAERAQVDADDDSAVYDAIATR 95


>gi|262404912|ref|ZP_06081465.1| putative transcriptional regulator [Vibrio sp. RC586]
 gi|262348878|gb|EEY98018.1| putative transcriptional regulator [Vibrio sp. RC586]
          Length = 107

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQ----KYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    +SQ+ LG  +G+          +YEKG +      L+ I++ L+ P+S+F
Sbjct: 10 RLKEARKKAKLSQKALGVRIGMDESSASPRMNQYEKGKHTPDVRTLKLIADELDVPLSYF 69

Query: 74 FDVSPTVCS 82
          F       +
Sbjct: 70 FSEDEITAN 78


>gi|258654157|ref|YP_003203313.1| XRE family transcriptional regulator [Nakamurella multipartita
          DSM 44233]
 gi|258557382|gb|ACV80324.1| transcriptional regulator, XRE family [Nakamurella multipartita
          DSM 44233]
          Length = 187

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 27/59 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+R+R  R   G+S   L +  GI    + + E G      S L  ++  L  P+S+ 
Sbjct: 10 IGERLRAARTEQGLSVGGLAQAAGIGKGSLSEIENGTRNPTLSTLYGLANALGRPLSWL 68


>gi|170761242|ref|YP_001785744.1| TPR repeat-containing DNA binding protein [Clostridium botulinum
          A3 str. Loch Maree]
 gi|169408231|gb|ACA56642.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum A3 str. Loch Maree]
          Length = 434

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ + L     IT  Q+   E G +      L++++E L + I +F 
Sbjct: 6  LGEKIKRRRKELNMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLAETLNTSIEYFM 64

Query: 75 DVSPTVCSDISSEENNVMD 93
          +   T    I     N+ +
Sbjct: 65 ESEDTQAEKICKYYENIAE 83


>gi|153939757|ref|YP_001389775.1| TPR repeat-containing DNA binding protein [Clostridium botulinum
          F str. Langeland]
 gi|170755693|ref|YP_001780059.1| TPR repeat-containing DNA binding protein [Clostridium botulinum
          B1 str. Okra]
 gi|152935653|gb|ABS41151.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum F str. Langeland]
 gi|169120905|gb|ACA44741.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum B1 str. Okra]
 gi|295317864|gb|ADF98241.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum F str. 230613]
          Length = 434

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ + L     IT  Q+   E G +      L++++E L + I +F 
Sbjct: 6  LGEKIKRRRKELNMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLAETLNTSIEYFM 64

Query: 75 DVSPTVCSDISSEENNVMD 93
          +   T    I     N+ +
Sbjct: 65 ESEDTQAEKICKYYENIAE 83


>gi|111222124|ref|YP_712918.1| putative transcriptional regulator [Frankia alni ACN14a]
 gi|111149656|emb|CAJ61349.1| Putative transcriptional regulator [Frankia alni ACN14a]
          Length = 453

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 26/116 (22%), Positives = 45/116 (38%), Gaps = 15/116 (12%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            D  +G+ IRL R+    SQ +LG  LG +   + + E G + +    L+ I+ VL  P 
Sbjct: 7   HDPTIGETIRLARLAAHQSQRQLGATLGYSASAISRLETGKSSLDLDTLRSIANVLHIPP 66

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK------VRQKII 120
                        ++    N  D    P  L++    +   D K       R++ +
Sbjct: 67  ---------EQLGLAPAHRNPSDTPVAPATLEIPAATLTATDTKDGDDRVHRRRFL 113


>gi|322372600|ref|ZP_08047136.1| putative transcriptional regulator [Streptococcus sp. C150]
 gi|321277642|gb|EFX54711.1| putative transcriptional regulator [Streptococcus sp. C150]
          Length = 159

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 27/57 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + +G+ I+  R    ++Q +L   LGI+   + +YE G + +    L  I + L   
Sbjct: 1  MMIGENIKAVRKYKQLTQPELANLLGISRNSLSRYENGTSAISTELLDRICQTLNVS 57


>gi|315649281|ref|ZP_07902370.1| transcriptional regulator, XRE family protein [Paenibacillus vortex
           V453]
 gi|315275269|gb|EFU38638.1| transcriptional regulator, XRE family protein [Paenibacillus vortex
           V453]
          Length = 122

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 49/114 (42%), Gaps = 6/114 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RI   R   G +QE+L   +GIT   +  YEK   +     L  ++++ +  I +   
Sbjct: 4   GVRISELREQRGWTQEELATSVGITRAALSHYEKNRRKPDFETLTRLADLFDVSIDYLIG 63

Query: 76  VSPTVCSDISSEENNVMDF--ISTPDGLQ---LNRYFIQIDDVKVRQKIIELVR 124
            +    + +  E  + +D   +S  D L+   L     ++ + + R+  I  VR
Sbjct: 64  RTAQEKAVLDPEVRSFVDGLELSDQDLLERFNLTVDGRKLTEEEARR-FIAFVR 116


>gi|255280904|ref|ZP_05345459.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
 gi|255268352|gb|EET61557.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
          Length = 169

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 28/107 (26%), Positives = 50/107 (46%), Gaps = 11/107 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + + I+  R   G+SQ++L   L +  Q V K+E+G++   +  L  +SEVLE+P+S   
Sbjct: 2   LSENIKAIRKSKGLSQQELAVRLNVVRQTVSKWEQGLSVPDSDVLISLSEVLETPVSTL- 60

Query: 75  DVSPTVCSDISSEENNVMDFISTP-DGLQLNRYFIQIDDVKVRQKII 120
                +   +   E + +  IS   + + L            R+KII
Sbjct: 61  -----LGETVMETEADTLKAISEKLEVINLQLA----QRKSTRRKII 98


>gi|99082554|ref|YP_614708.1| XRE family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99038834|gb|ABF65446.1| transcriptional regulator, XRE family with cupin sensor [Ruegeria
          sp. TM1040]
          Length = 204

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 31/81 (38%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          NVG  IR RR  L ++ + L +  G++   + + E+         L  IS  L+  + +F
Sbjct: 11 NVGPAIRKRRKQLKLTLQALSDRSGVSVGYLSQVERDNATPSLGTLAQISAALDVGLDYF 70

Query: 74 FDVSPTVCSDISSEENNVMDF 94
             S        S    +   
Sbjct: 71 ISASKPSDGLTRSGSRPLFAL 91


>gi|323142578|ref|ZP_08077394.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
 gi|322413011|gb|EFY03914.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
          Length = 101

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 28/59 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GKRI+  R   G++QE+L E LG+    + + E G   +       +    E+ + + F
Sbjct: 39 GKRIKALRKEHGLTQEQLAEQLGVAANTIARIETGNRGISIDLAIELVVRFETTLDYIF 97


>gi|289661679|ref|ZP_06483260.1| hypothetical protein XcampvN_00915 [Xanthomonas campestris pv.
          vasculorum NCPPB702]
          Length = 116

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 3/64 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR--VGASRLQHISEVLESPISFFF 74
           RIR  R+ +GMSQ +L + L +    V  +E+  NR       L  +S VL    ++ F
Sbjct: 10 ARIRAARIGVGMSQTELAQKLDVNRATVGHWER-KNRFAPSIDHLYAMSSVLRVSPNWLF 68

Query: 75 DVSP 78
              
Sbjct: 69 HGED 72


>gi|300024182|ref|YP_003756793.1| XRE family transcriptional regulator [Hyphomicrobium
          denitrificans ATCC 51888]
 gi|299526003|gb|ADJ24472.1| transcriptional regulator, XRE family [Hyphomicrobium
          denitrificans ATCC 51888]
          Length = 213

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 33/67 (49%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          ++ +   + I VG+ +R  R   G+S E+L    G++   + + E G +    + L  I+
Sbjct: 15 SESVATKLSIIVGENLRHLRRKSGLSLEQLAAKSGVSRAMLGQIETGKSAPTINLLGRIA 74

Query: 64 EVLESPI 70
          E L+  +
Sbjct: 75 EALQVSV 81


>gi|23098799|ref|NP_692265.1| hypothetical protein OB1344 [Oceanobacillus iheyensis HTE831]
 gi|22777026|dbj|BAC13300.1| hypothetical conserved protein [Oceanobacillus iheyensis HTE831]
          Length = 189

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 36/72 (50%), Gaps = 1/72 (1%)

Query: 10 PVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          P+D+  +G +I+  R+    +Q+++ +  GI+   + K E G      + L  IS+ L+ 
Sbjct: 3  PIDLQSIGDKIKQVRLRNKKTQQQIADECGISKSLLSKIENGQTASAIATLSKISDALKV 62

Query: 69 PISFFFDVSPTV 80
          P+++  D     
Sbjct: 63 PLAWLLDDKEEQ 74


>gi|322834913|ref|YP_004214940.1| helix-turn-helix domain protein [Rahnella sp. Y9602]
 gi|321170114|gb|ADW75813.1| helix-turn-helix domain protein [Rahnella sp. Y9602]
          Length = 95

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/57 (36%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G RI   R   G++Q KL E LGI  Q +  YE    ++ AS L  +S +L+  I 
Sbjct: 23 LGVRIAEARKSKGLTQRKLAEMLGIAQQTLAHYEVARLKLSASFLPELSRILDCTID 79


>gi|307131684|ref|YP_003883700.1| putative transcriptional regulator [Dickeya dadantii 3937]
 gi|306529213|gb|ADM99143.1| Putative transcriptional regulator [Dickeya dadantii 3937]
          Length = 92

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 35/72 (48%), Gaps = 4/72 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGIT----FQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V +R+R  R    +SQE+L    GI+    + ++  YE G ++     +   +++L+ P 
Sbjct: 2  VPQRLRAARERAKISQEELAIAAGISEETGYSRMSHYENGRHKPKFELICTFAKILDVPE 61

Query: 71 SFFFDVSPTVCS 82
           +F+ +  +   
Sbjct: 62 GYFYTLDDSFAE 73


>gi|326792010|ref|YP_004309831.1| cupin [Clostridium lentocellum DSM 5427]
 gi|326542774|gb|ADZ84633.1| Cupin 2 conserved barrel domain protein [Clostridium lentocellum
          DSM 5427]
          Length = 179

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 37/76 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +I   R   G++QE+L +   ++   + + E+G+     + L  I E L + +  
Sbjct: 1  MDIGAKINQLRKKNGLTQEELADRCELSKGFISQVERGLTSPSIATLIDILECLGTNLKD 60

Query: 73 FFDVSPTVCSDISSEE 88
          FF+ S       + E+
Sbjct: 61 FFNESSQEKIVFTKED 76


>gi|257464093|ref|ZP_05628477.1| MerR family transcriptional regulator [Fusobacterium sp. D12]
 gi|317061612|ref|ZP_07926097.1| transcriptional regulator [Fusobacterium sp. D12]
 gi|313687288|gb|EFS24123.1| transcriptional regulator [Fusobacterium sp. D12]
          Length = 184

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 34/68 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+GK I+  R+  G+  +++     I+   + + EKG      + ++ I++ LE P+  
Sbjct: 5  INIGKTIKNIRISKGLLLKEVASKCDISSSMLSQIEKGNANPSLNTIKAIAQALEVPLFK 64

Query: 73 FFDVSPTV 80
          FF  S   
Sbjct: 65 FFINSEET 72


>gi|229080834|ref|ZP_04213352.1| Helix-turn-helix domain protein [Bacillus cereus Rock4-2]
 gi|228702568|gb|EEL55036.1| Helix-turn-helix domain protein [Bacillus cereus Rock4-2]
          Length = 262

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKKKGLSQEALAEKLSTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ETAEQSNE 71


>gi|229084370|ref|ZP_04216650.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          Rock3-44]
 gi|228698910|gb|EEL51615.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          Rock3-44]
          Length = 107

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL++P+   
Sbjct: 2  IGERIKRLRLQRGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIANVLQTPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
              P   S + SE
Sbjct: 62 LHDEPAAESQLDSE 75


>gi|168212390|ref|ZP_02638015.1| DNA-binding protein [Clostridium perfringens CPE str. F4969]
 gi|170716178|gb|EDT28360.1| DNA-binding protein [Clostridium perfringens CPE str. F4969]
          Length = 180

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 35/84 (41%), Gaps = 7/84 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G R++  R    ++Q+ L E  GI+   +   E          ++ ++  L+  +  
Sbjct: 1  MFIGYRLQKLRKKRKLTQKALAEMTGISRSYLSDIEHNRYNPSFDTIEALATSLKLDLKS 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
          FFD       D   EE+  +  +S
Sbjct: 61 FFD-------DTLLEEDYYLKPLS 77


>gi|148378407|ref|YP_001252948.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum A str. ATCC 3502]
 gi|153932397|ref|YP_001382785.1| TPR repeat-containing DNA binding protein [Clostridium botulinum
          A str. ATCC 19397]
 gi|153936558|ref|YP_001386336.1| TPR repeat-containing DNA binding protein [Clostridium botulinum
          A str. Hall]
 gi|148287891|emb|CAL81957.1| putative transcriptional regulator [Clostridium botulinum A str.
          ATCC 3502]
 gi|152928441|gb|ABS33941.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum A str. ATCC 19397]
 gi|152932472|gb|ABS37971.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum A str. Hall]
          Length = 434

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ + L     IT  Q+   E G +      L++++E L + I +F 
Sbjct: 6  LGEKIKRRRKELNMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLAETLNTSIEYFM 64

Query: 75 DVSPTVCSDISSEENNVMD 93
          +   T    I     N+ +
Sbjct: 65 ESEDTQAEKICKYYENIAE 83


>gi|49483261|ref|YP_040485.1| DNA-binding protein [Staphylococcus aureus subsp. aureus MRSA252]
 gi|257425150|ref|ZP_05601576.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus 55/2053]
 gi|257427813|ref|ZP_05604211.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus 65-1322]
 gi|257430448|ref|ZP_05606830.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus 68-397]
 gi|257433150|ref|ZP_05609508.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          E1410]
 gi|257436049|ref|ZP_05612096.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          M876]
 gi|282903647|ref|ZP_06311535.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus C160]
 gi|282905416|ref|ZP_06313271.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          Btn1260]
 gi|282908388|ref|ZP_06316219.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          WW2703/97]
 gi|282910675|ref|ZP_06318478.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          WBG10049]
 gi|282913873|ref|ZP_06321660.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus M899]
 gi|282918797|ref|ZP_06326532.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C427]
 gi|282923919|ref|ZP_06331595.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C101]
 gi|283770160|ref|ZP_06343052.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          H19]
 gi|283957842|ref|ZP_06375293.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus A017934/97]
 gi|293500910|ref|ZP_06666761.1| DNA-binding protein [Staphylococcus aureus subsp. aureus 58-424]
 gi|293509866|ref|ZP_06668575.1| DNA-binding protein [Staphylococcus aureus subsp. aureus M809]
 gi|293526452|ref|ZP_06671137.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus M1015]
 gi|295427586|ref|ZP_06820218.1| DNA-binding protein [Staphylococcus aureus subsp. aureus EMRSA16]
 gi|297591460|ref|ZP_06950098.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus MN8]
 gi|49241390|emb|CAG40074.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          MRSA252]
 gi|257272126|gb|EEV04258.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus 55/2053]
 gi|257274654|gb|EEV06141.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus 65-1322]
 gi|257278576|gb|EEV09195.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus 68-397]
 gi|257281243|gb|EEV11380.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          E1410]
 gi|257284331|gb|EEV14451.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          M876]
 gi|282313891|gb|EFB44283.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C101]
 gi|282316607|gb|EFB46981.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C427]
 gi|282321941|gb|EFB52265.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus M899]
 gi|282325280|gb|EFB55589.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          WBG10049]
 gi|282328053|gb|EFB58335.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          WW2703/97]
 gi|282330708|gb|EFB60222.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          Btn1260]
 gi|282595265|gb|EFC00229.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus C160]
 gi|283460307|gb|EFC07397.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          H19]
 gi|283470309|emb|CAQ49520.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus ST398]
 gi|283789991|gb|EFC28808.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus A017934/97]
 gi|290920524|gb|EFD97587.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus M1015]
 gi|291095915|gb|EFE26176.1| DNA-binding protein [Staphylococcus aureus subsp. aureus 58-424]
 gi|291467316|gb|EFF09833.1| DNA-binding protein [Staphylococcus aureus subsp. aureus M809]
 gi|295127944|gb|EFG57578.1| DNA-binding protein [Staphylococcus aureus subsp. aureus EMRSA16]
 gi|297576346|gb|EFH95062.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus MN8]
 gi|312438525|gb|ADQ77596.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus TCH60]
 gi|315193766|gb|EFU24161.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          CGS00]
          Length = 179

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 35/81 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R I  ++QE+L E   ++   + + E            +I EVL +  S 
Sbjct: 1  MNIGNKIKNLRRIKNLTQEELAERTDLSKGYISQIESEHASPSMETFLNIIEVLGTTPSE 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  S         EE  + D
Sbjct: 61 FFKDSENEKVLYKKEEQVIYD 81


>gi|197286830|ref|YP_002152702.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227354987|ref|ZP_03839398.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|194684317|emb|CAR45916.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|227164774|gb|EEI49621.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 106

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 30/61 (49%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            N +  +VG  +R  R    M+ ++L   + ++ QQ+ +YE G   +   +L +   +L
Sbjct: 2  KSNMISGHVGIFLRKARKEKNMTGKQLARLMNVSQQQISRYEIGATAITVDQLANFLLIL 61

Query: 67 E 67
          +
Sbjct: 62 D 62


>gi|187939670|gb|ACD38813.1| predicted transcriptional regulator protein [Pseudomonas
           aeruginosa]
 gi|187939749|gb|ACD38890.1| hypothetical protein PACL_0632 [Pseudomonas aeruginosa]
          Length = 271

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/116 (15%), Positives = 44/116 (37%), Gaps = 10/116 (8%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           ++L R    ++Q +L E +G++   + + EKG N      L  I+ V      +  + + 
Sbjct: 1   MKLARKHADLTQRQLAEAVGVSQPVISQLEKGENLQSV-HLLKIANVCGVDPEWLAEGTG 59

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNR------YFIQIDDVKVRQKIIELVRSIVS 128
                 + E +   ++ +      + R         ++   + R++I+    S   
Sbjct: 60  RPPGFSAREPS--AEYQAASSTADIVRSMLASKAAQKL-SAEARERILNAAESDAG 112


>gi|160937325|ref|ZP_02084687.1| hypothetical protein CLOBOL_02215 [Clostridium bolteae ATCC
          BAA-613]
 gi|158439889|gb|EDP17638.1| hypothetical protein CLOBOL_02215 [Clostridium bolteae ATCC
          BAA-613]
          Length = 88

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 30/57 (52%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          D + G  I+  R + GM Q++L + +GI  Q + K E+GV       L+ I  VLE 
Sbjct: 3  DKHFGPNIQTFRKLKGMKQQELADAIGINLQSLSKIERGVYYPTFETLEKIMVVLEV 59


>gi|332992547|gb|AEF02602.1| XRE family transcriptional regulator [Alteromonas sp. SN2]
          Length = 87

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 42/77 (54%), Gaps = 4/77 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R   G+SQ++LG   G+       ++ +YEKGV+      ++ ++EVL+ P +F
Sbjct: 10 KRLKQARKDRGLSQKQLGILSGMDEFSASARMNQYEKGVHSPDFKTVKALAEVLKVPTAF 69

Query: 73 FFDVSPTVCSDISSEEN 89
           +     +   I+S +N
Sbjct: 70 LYCEEDDLAEQIASFKN 86


>gi|323701996|ref|ZP_08113665.1| transcriptional regulator, XRE family [Desulfotomaculum nigrificans
           DSM 574]
 gi|323533082|gb|EGB22952.1| transcriptional regulator, XRE family [Desulfotomaculum nigrificans
           DSM 574]
          Length = 180

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 44/94 (46%), Gaps = 1/94 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + ++IR  R    ++ ++L E  G++   + + E+G + +  + L+ I++ L  PI+ FF
Sbjct: 4   ICEKIRSLRNQQNLTLKELSEKTGLSVSFLSQVERGTSSLAITSLKKIADALNVPITSFF 63

Query: 75  DVSPTVCSDISSEENNVMDFI-STPDGLQLNRYF 107
                    +  EE        ST + ++L   F
Sbjct: 64  TSYQNQNFLVKKEEQKAFRIEGSTAEYIRLGGEF 97


>gi|322804684|emb|CBZ02236.1| xre family DNA-binding domain and TPR-repeat-containing protein
          [Clostridium botulinum H04402 065]
          Length = 434

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ + L     IT  Q+   E G +      L++++E L + I +F 
Sbjct: 6  LGEKIKRRRKELNMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLAETLNTSIEYFM 64

Query: 75 DVSPTVCSDISSEENNVMD 93
          +   T    I     N+ +
Sbjct: 65 ESEDTQAEKICKYYENIAE 83


>gi|320528113|ref|ZP_08029278.1| helix-turn-helix protein [Solobacterium moorei F0204]
 gi|320131461|gb|EFW24026.1| helix-turn-helix protein [Solobacterium moorei F0204]
          Length = 176

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 30/56 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK ++  R   G++QE+L E +G+T + V ++E G N      L  +S+     +
Sbjct: 6  IGKLLQTLRKEKGITQEQLAEQVGVTRRTVSRWETGSNMPDLDVLIELSDFYAVDL 61


>gi|317472207|ref|ZP_07931536.1| hypothetical protein HMPREF1011_01886 [Anaerostipes sp.
          3_2_56FAA]
 gi|331088310|ref|ZP_08337229.1| hypothetical protein HMPREF1025_00812 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|316900296|gb|EFV22281.1| hypothetical protein HMPREF1011_01886 [Anaerostipes sp.
          3_2_56FAA]
 gi|330408554|gb|EGG88020.1| hypothetical protein HMPREF1025_00812 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 120

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+RI++ R+  G++QE + + + IT   +   E G  +V    L  I+  L   + 
Sbjct: 8  IGQRIKIARIKKGVTQETVADLIDITPAHMSNVETGKTKVSLPTLIAIANALSVSVD 64


>gi|298694333|gb|ADI97555.1| probable transcriptional regulator [Staphylococcus aureus subsp.
          aureus ED133]
          Length = 179

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 35/81 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R I  ++QE+L E   ++   + + E            +I EVL +  S 
Sbjct: 1  MNIGNKIKNLRRIKNLTQEELAERTDLSKGYISQIESEHASPSMETFLNIIEVLGTTPSE 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  S         EE  + D
Sbjct: 61 FFKDSENEKVLYKKEEQVIYD 81


>gi|297158106|gb|ADI07818.1| transcriptional regulator, XRE family protein [Streptomyces
           bingchenggensis BCW-1]
          Length = 193

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/106 (19%), Positives = 33/106 (31%), Gaps = 4/106 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +   IR  R   G+S  +L +  GI    + + E G        L  IS  L+ P S   
Sbjct: 19  IAASIRKERGRAGLSLSELAKRAGIAKSTLSQLESGAGNPSVETLWAISVTLDVPFSRLV 78

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           D      + +   E   +    +     L            R+ I 
Sbjct: 79  DPPRPPVTVLRHGEGIAVPSERSNYVATLLAS----SPPNARRDIY 120


>gi|291542946|emb|CBL16056.1| Predicted transcriptional regulators [Ruminococcus bromii L2-63]
          Length = 130

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 24/131 (18%), Positives = 53/131 (40%), Gaps = 18/131 (13%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
            K+  + +D +VG R+R  R+  G++Q+++ + L I      KYE GV+      L  I 
Sbjct: 2   PKRKCSNIDASVGLRMRYYRIQCGLTQQQVADALKINRTTYTKYETGVSEPSHELLGKIV 61

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           ++     +   D        ++ + +  ++ ++  +                 + II   
Sbjct: 62  KMFGIDYNAILDNRDYFERRVA-DGDMTLNVLTLSE-----------------RAIIARY 103

Query: 124 RSIVSSEKKYR 134
           RS+   ++K  
Sbjct: 104 RSMSKEDQKKI 114


>gi|70730070|ref|YP_259809.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
 gi|68344369|gb|AAY91975.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
          Length = 208

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 28/61 (45%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G RIR  R   G++  +L +   +T   + + E+ +       L +I+  L   I +F
Sbjct: 28 FLGTRIRGLRKRRGLTLSELAQQSELTAGYISQLERNLAYPSIPALFNIARSLGVTIQWF 87

Query: 74 F 74
          F
Sbjct: 88 F 88


>gi|15924088|ref|NP_371622.1| Cro/CI family transcriptional regulator protein [Staphylococcus
          aureus subsp. aureus Mu50]
 gi|15926683|ref|NP_374216.1| hypothetical protein SA0949 [Staphylococcus aureus subsp. aureus
          N315]
 gi|21282710|ref|NP_645798.1| hypothetical protein MW0981 [Staphylococcus aureus subsp. aureus
          MW2]
 gi|49485936|ref|YP_043157.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          MSSA476]
 gi|57651707|ref|YP_185971.1| Cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus COL]
 gi|87161040|ref|YP_493696.1| hypothetical protein SAUSA300_0998 [Staphylococcus aureus subsp.
          aureus USA300_FPR3757]
 gi|88194797|ref|YP_499594.1| hypothetical protein SAOUHSC_01045 [Staphylococcus aureus subsp.
          aureus NCTC 8325]
 gi|148267591|ref|YP_001246534.1| XRE family transcriptional regulator [Staphylococcus aureus
          subsp. aureus JH9]
 gi|150393646|ref|YP_001316321.1| hypothetical protein SaurJH1_1180 [Staphylococcus aureus subsp.
          aureus JH1]
 gi|151221176|ref|YP_001331998.1| hypothetical protein NWMN_0964 [Staphylococcus aureus subsp.
          aureus str. Newman]
 gi|156979421|ref|YP_001441680.1| hypothetical protein SAHV_1090 [Staphylococcus aureus subsp.
          aureus Mu3]
 gi|161509281|ref|YP_001574940.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          USA300_TCH1516]
 gi|221140502|ref|ZP_03564995.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          str. JKD6009]
 gi|253316351|ref|ZP_04839564.1| hypothetical protein SauraC_09456 [Staphylococcus aureus subsp.
          aureus str. CF-Marseille]
 gi|253731709|ref|ZP_04865874.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          USA300_TCH959]
 gi|253733667|ref|ZP_04867832.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          TCH130]
 gi|255005885|ref|ZP_05144486.2| hypothetical protein SauraM_05430 [Staphylococcus aureus subsp.
          aureus Mu50-omega]
 gi|257795171|ref|ZP_05644150.1| transcriptional regulator [Staphylococcus aureus A9781]
 gi|258407120|ref|ZP_05680269.1| transcriptional regulator [Staphylococcus aureus A9763]
 gi|258421788|ref|ZP_05684709.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          A9719]
 gi|258423598|ref|ZP_05686488.1| conserved hypothetical protein [Staphylococcus aureus A9635]
 gi|258436152|ref|ZP_05689135.1| conserved hypothetical protein [Staphylococcus aureus A9299]
 gi|258443359|ref|ZP_05691702.1| transcriptional regulator [Staphylococcus aureus A8115]
 gi|258444969|ref|ZP_05693286.1| transcriptional regulator [Staphylococcus aureus A6300]
 gi|258449856|ref|ZP_05697954.1| transcriptional regulator [Staphylococcus aureus A6224]
 gi|258451955|ref|ZP_05699971.1| conserved hypothetical protein [Staphylococcus aureus A5948]
 gi|258454955|ref|ZP_05702918.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          A5937]
 gi|262048684|ref|ZP_06021566.1| hypothetical protein SAD30_1514 [Staphylococcus aureus D30]
 gi|262052206|ref|ZP_06024412.1| hypothetical protein SA930_0897 [Staphylococcus aureus 930918-3]
 gi|269202709|ref|YP_003281978.1| Cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus ED98]
 gi|282894125|ref|ZP_06302356.1| DNA-binding protein [Staphylococcus aureus A8117]
 gi|282925282|ref|ZP_06332939.1| DNA-binding protein [Staphylococcus aureus A9765]
 gi|282928620|ref|ZP_06336217.1| DNA-binding protein [Staphylococcus aureus A10102]
 gi|284024023|ref|ZP_06378421.1| Cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus 132]
 gi|294848087|ref|ZP_06788834.1| DNA-binding protein [Staphylococcus aureus A9754]
 gi|295405902|ref|ZP_06815711.1| DNA-binding protein [Staphylococcus aureus A8819]
 gi|296276499|ref|ZP_06859006.1| Cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus MR1]
 gi|297208264|ref|ZP_06924694.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus ATCC 51811]
 gi|297246372|ref|ZP_06930216.1| DNA-binding protein [Staphylococcus aureus A8796]
 gi|300912341|ref|ZP_07129784.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus TCH70]
 gi|304381344|ref|ZP_07363997.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus ATCC BAA-39]
 gi|13700899|dbj|BAB42195.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus N315]
 gi|14246868|dbj|BAB57260.1| similar to transcriptional regulator Cro/CI family
          [Staphylococcus aureus subsp. aureus Mu50]
 gi|21204148|dbj|BAB94846.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus MW2]
 gi|49244379|emb|CAG42807.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          MSSA476]
 gi|57285893|gb|AAW37987.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus COL]
 gi|87127014|gb|ABD21528.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus USA300_FPR3757]
 gi|87202355|gb|ABD30165.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus NCTC 8325]
 gi|147740660|gb|ABQ48958.1| transcriptional regulator, XRE family [Staphylococcus aureus
          subsp. aureus JH9]
 gi|149946098|gb|ABR52034.1| helix-turn-helix domain protein [Staphylococcus aureus subsp.
          aureus JH1]
 gi|150373976|dbj|BAF67236.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus str. Newman]
 gi|156721556|dbj|BAF77973.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus Mu3]
 gi|160368090|gb|ABX29061.1| possible transcriptional regulator [Staphylococcus aureus subsp.
          aureus USA300_TCH1516]
 gi|253724523|gb|EES93252.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          USA300_TCH959]
 gi|253728367|gb|EES97096.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          TCH130]
 gi|257789143|gb|EEV27483.1| transcriptional regulator [Staphylococcus aureus A9781]
 gi|257841275|gb|EEV65720.1| transcriptional regulator [Staphylococcus aureus A9763]
 gi|257842121|gb|EEV66549.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          A9719]
 gi|257846299|gb|EEV70323.1| conserved hypothetical protein [Staphylococcus aureus A9635]
 gi|257848841|gb|EEV72826.1| conserved hypothetical protein [Staphylococcus aureus A9299]
 gi|257851449|gb|EEV75388.1| transcriptional regulator [Staphylococcus aureus A8115]
 gi|257856091|gb|EEV79009.1| transcriptional regulator [Staphylococcus aureus A6300]
 gi|257856776|gb|EEV79679.1| transcriptional regulator [Staphylococcus aureus A6224]
 gi|257860170|gb|EEV83002.1| conserved hypothetical protein [Staphylococcus aureus A5948]
 gi|257862835|gb|EEV85600.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          A5937]
 gi|259159877|gb|EEW44915.1| hypothetical protein SA930_0897 [Staphylococcus aureus 930918-3]
 gi|259163140|gb|EEW47700.1| hypothetical protein SAD30_1514 [Staphylococcus aureus D30]
 gi|262074999|gb|ACY10972.1| Cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus ED98]
 gi|269940593|emb|CBI48972.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          TW20]
 gi|282589659|gb|EFB94745.1| DNA-binding protein [Staphylococcus aureus A10102]
 gi|282592558|gb|EFB97568.1| DNA-binding protein [Staphylococcus aureus A9765]
 gi|282763611|gb|EFC03740.1| DNA-binding protein [Staphylococcus aureus A8117]
 gi|285816779|gb|ADC37266.1| putative DNA-binding protein [Staphylococcus aureus 04-02981]
 gi|294824887|gb|EFG41309.1| DNA-binding protein [Staphylococcus aureus A9754]
 gi|294969337|gb|EFG45357.1| DNA-binding protein [Staphylococcus aureus A8819]
 gi|296887003|gb|EFH25906.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus ATCC 51811]
 gi|297176738|gb|EFH35998.1| DNA-binding protein [Staphylococcus aureus A8796]
 gi|300886587|gb|EFK81789.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus TCH70]
 gi|302332708|gb|ADL22901.1| transcriptional regulator Cro/CI family [Staphylococcus aureus
          subsp. aureus JKD6159]
 gi|302750922|gb|ADL65099.1| transcriptional regulator Cro/CI family [Staphylococcus aureus
          subsp. aureus str. JKD6008]
 gi|304340327|gb|EFM06268.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus ATCC BAA-39]
 gi|312829492|emb|CBX34334.1| helix-turn-helix family protein [Staphylococcus aureus subsp.
          aureus ECT-R 2]
 gi|315130316|gb|EFT86303.1| possible transcriptional regulator [Staphylococcus aureus subsp.
          aureus CGS03]
 gi|315196128|gb|EFU26485.1| possible transcriptional regulator [Staphylococcus aureus subsp.
          aureus CGS01]
 gi|320141086|gb|EFW32933.1| helix-turn-helix protein [Staphylococcus aureus subsp. aureus
          MRSA131]
 gi|320143143|gb|EFW34933.1| helix-turn-helix protein [Staphylococcus aureus subsp. aureus
          MRSA177]
 gi|323440647|gb|EGA98357.1| transcriptional regulator [Staphylococcus aureus O11]
 gi|323441674|gb|EGA99320.1| transcriptional regulator [Staphylococcus aureus O46]
 gi|329313766|gb|AEB88179.1| Transcriptional regulator, XRE family [Staphylococcus aureus
          subsp. aureus T0131]
 gi|329730799|gb|EGG67178.1| DNA-binding helix-turn-helix protein [Staphylococcus aureus
          subsp. aureus 21189]
          Length = 179

 Score = 58.3 bits (140), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 35/81 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R I  ++QE+L E   ++   + + E            +I EVL +  S 
Sbjct: 1  MNIGNKIKNLRRIKNLTQEELAERTDLSKGYISQIESEHASPSMETFLNIIEVLGTTPSE 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  S         EE  + D
Sbjct: 61 FFKDSENEKVLYKKEEQVIYD 81


>gi|332800291|ref|YP_004461790.1| helix-turn-helix domain-containing protein [Tepidanaerobacter sp.
           Re1]
 gi|332698026|gb|AEE92483.1| helix-turn-helix domain protein [Tepidanaerobacter sp. Re1]
          Length = 103

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/110 (19%), Positives = 46/110 (41%), Gaps = 16/110 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRIR  R  LG+S  +L    G++   + + E G  +     L+ I   L   +  FF
Sbjct: 8   IGKRIRQLRESLGLSNRQLAIKAGLSQPVMNRIENGNRKADIETLEKICYALGITLIDFF 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            +                    +P+ L+L +   ++   ++ + + ++++
Sbjct: 68  SIDEEEM---------------SPEYLELLKNAKKLSTEQL-KILNDIIK 101


>gi|322389322|ref|ZP_08062881.1| hypothetical protein HMPREF8577_0351 [Streptococcus parasanguinis
          ATCC 903]
 gi|321143986|gb|EFX39405.1| hypothetical protein HMPREF8577_0351 [Streptococcus parasanguinis
          ATCC 903]
          Length = 291

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 28/55 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R  +GMSQE L E +G++ Q V K+E G        +  IS +    I 
Sbjct: 5  EKLKSIRKQVGMSQELLAEKIGVSRQAVTKWETGAGIPDIENIISISNLFNISID 59


>gi|302334962|ref|YP_003800169.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
 gi|301318802|gb|ADK67289.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
          Length = 198

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 33/77 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R+R  R   G++Q++L E L ++ Q +  +E G +      +    ++ +     
Sbjct: 1  MEIGQRMRALRQGAGLTQDELAERLYVSRQTISNWETGKSYPDVESVSLACDLFDVSADA 60

Query: 73 FFDVSPTVCSDISSEEN 89
                       SEE+
Sbjct: 61 LLKGDIMEMGKRVSEED 77


>gi|238912425|ref|ZP_04656262.1| hypothetical protein SentesTe_15010 [Salmonella enterica subsp.
          enterica serovar Tennessee str. CDC07-0191]
          Length = 97

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 32/72 (44%), Gaps = 4/72 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R++  R+    +QEKLG   GI       ++ +YE G++R     +   + VL  P  +
Sbjct: 15 ARLKSARLRANFTQEKLGVLAGIEEATARSRISQYESGIHRPTFEMMCAFARVLNVPECY 74

Query: 73 FFDVSPTVCSDI 84
          F+ V       +
Sbjct: 75 FYTVDDDFAEAV 86


>gi|218547977|ref|YP_002381768.1| Cro/CI family transcriptional regulator [Escherichia fergusonii
          ATCC 35469]
 gi|218355518|emb|CAQ88129.1| putative transcriptional regulator, Cro/CI family from phage
          origin [Escherichia fergusonii ATCC 35469]
          Length = 228

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R+++ R I GMSQ +L E +G++ Q V K E G   +   +++ I++VL     + 
Sbjct: 6  ERLKIGREIAGMSQAQLAEKIGLSQQSVAKIENGET-LQPRKIKEIAKVLGVSQKWL 61


>gi|168177751|ref|ZP_02612415.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum NCTC 2916]
 gi|168181271|ref|ZP_02615935.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum Bf]
 gi|226947637|ref|YP_002802728.1| tetratricopeptide repeat/DNA binding domain-containing protein
          [Clostridium botulinum A2 str. Kyoto]
 gi|237793726|ref|YP_002861278.1| tetratricopeptide repeat/DNA binding domain-containing protein
          [Clostridium botulinum Ba4 str. 657]
 gi|182671545|gb|EDT83519.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum NCTC 2916]
 gi|182675370|gb|EDT87331.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum Bf]
 gi|226840984|gb|ACO83650.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum A2 str. Kyoto]
 gi|229261791|gb|ACQ52824.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
          botulinum Ba4 str. 657]
          Length = 434

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ + L     IT  Q+   E G +      L++++E L + I +F 
Sbjct: 6  LGEKIKRRRKELNMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLAETLNTSIEYFM 64

Query: 75 DVSPTVCSDISSEENNVMD 93
          +   T    I     N+ +
Sbjct: 65 ESEDTQAEKICKYYENIAE 83


>gi|149277242|ref|ZP_01883384.1| possible transcriptional regulator [Pedobacter sp. BAL39]
 gi|149232119|gb|EDM37496.1| possible transcriptional regulator [Pedobacter sp. BAL39]
          Length = 86

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 30/69 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V   I+  R I  ++QE L   L I+     K E G +++   R+  I+++L   +    
Sbjct: 12 VAGNIKKIRKIKSLTQEFLAAKLDISQNAYSKIELGHSKLTVERMYQIADILNVDVIQLL 71

Query: 75 DVSPTVCSD 83
             P   SD
Sbjct: 72 SPIPNNFSD 80


>gi|71908183|ref|YP_285770.1| helix-hairpin-helix DNA-binding motif-containing protein
          [Dechloromonas aromatica RCB]
 gi|71847804|gb|AAZ47300.1| Helix-turn-helix motif protein [Dechloromonas aromatica RCB]
          Length = 120

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/96 (22%), Positives = 39/96 (40%), Gaps = 3/96 (3%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   KK    +  ++G  +  RR  LG +QE + E +G+  + V + E+G +      L 
Sbjct: 2  MAVKKKDSAGLAKHLGGNLCERRKQLGWTQEIVAERVGVDVETVSRIERGAHLPSLPTLD 61

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENNVMDFIS 96
           ++  L        D+        +SE      +IS
Sbjct: 62 RLAVALRCSAG---DLLSKEGPAEASEAATFSAWIS 94


>gi|222530442|ref|YP_002574324.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
           DSM 6725]
 gi|222457289|gb|ACM61551.1| transcriptional regulator, XRE family [Caldicellulosiruptor bescii
           DSM 6725]
          Length = 143

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 24/98 (24%), Positives = 53/98 (54%), Gaps = 3/98 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+GK+I   R   G+++ KL E  G++   + + E+G+ +   + L++I + L   ++ 
Sbjct: 1   MNIGKKIAELREKYGLTRYKLSELSGVSQSALSEIERGIKQPTITTLENICKALNITLAD 60

Query: 73  FF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           FF +  P +  ++ S  N V+    +P  ++L   F++
Sbjct: 61  FFAEKEPEIPPEVKSLINTVVRL--SPTQIRLLDSFLK 96


>gi|210632695|ref|ZP_03297520.1| hypothetical protein COLSTE_01423 [Collinsella stercoris DSM
          13279]
 gi|210159405|gb|EEA90376.1| hypothetical protein COLSTE_01423 [Collinsella stercoris DSM
          13279]
          Length = 320

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 25/57 (43%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            R    M+QE+L   LG+T Q V K+E G +     RL  + E+ E  +       
Sbjct: 17 YLRDARNMTQEQLAMLLGVTRQAVSKWESGASTPDMDRLVRLCEIFEVDLDDLIRGD 73


>gi|170016279|ref|YP_001723001.1| transcriptional regulator [Leuconostoc citreum KM20]
 gi|169804961|gb|ACA83577.1| Predicted transcriptional regulator [Leuconostoc citreum KM20]
          Length = 199

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 37/79 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I++ R    ++QE+LG+ L +T Q +  +E G +  G + +  IS      +  
Sbjct: 1  MLIGVKIKMIREAFDLTQEQLGKELHLTRQTISSWENGKSYPGITDILSISNKYNVSLDE 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                 +     + ++++
Sbjct: 61 LMKEDIELIGHFEAIDHSL 79


>gi|169335433|ref|ZP_02862626.1| hypothetical protein ANASTE_01846 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169258171|gb|EDS72137.1| hypothetical protein ANASTE_01846 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 275

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 39/75 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I   R    ++Q++L + L IT + + K+E+G++    S L  +S++L+   +   
Sbjct: 6  IGTFICSLRKEKNLTQKELADKLNITNKAISKWERGISCPDISLLIPLSDILDVTTNEIL 65

Query: 75 DVSPTVCSDISSEEN 89
          +      SDI+ + +
Sbjct: 66 NGEREEISDINEDID 80


>gi|169334705|ref|ZP_02861898.1| hypothetical protein ANASTE_01108 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169257443|gb|EDS71409.1| hypothetical protein ANASTE_01108 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 125

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 34/70 (48%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+GK+I+  R     SQ  L E +  + Q + K E+G+++     L  I+  L+  +   
Sbjct: 8  NLGKQIKKYRKQKKYSQSDLAEKIDKSVQHISKIERGISKASLQTLVDITNALDISMDEL 67

Query: 74 FDVSPTVCSD 83
           ++S    SD
Sbjct: 68 LNMSVKKSSD 77


>gi|160944796|ref|ZP_02092023.1| hypothetical protein FAEPRAM212_02312 [Faecalibacterium
          prausnitzii M21/2]
 gi|158443980|gb|EDP20984.1| hypothetical protein FAEPRAM212_02312 [Faecalibacterium
          prausnitzii M21/2]
          Length = 120

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GKRIR  R+  GM+QE+L   +G+    +   E G +      L  I   L+    
Sbjct: 7  IGKRIRTCRLAKGMTQEQLANEVGVVVTHISHIETGNSVPSLKTLIDIINALDCSAD 63


>gi|145634268|ref|ZP_01789979.1| probable transcription regulator [Haemophilus influenzae PittAA]
 gi|145268712|gb|EDK08705.1| probable transcription regulator [Haemophilus influenzae PittAA]
          Length = 237

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 39/93 (41%), Gaps = 5/93 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R    +S+  + E LG++   +Q +E       AS +  ++E LE   ++  
Sbjct: 11  IGNRIRELREFKKVSRNAMAEKLGLSLSALQNWETNQTEPVASMIITLAEELEVSPNYLL 70

Query: 75  DVS-----PTVCSDISSEENNVMDFISTPDGLQ 102
                       + I+  E+     ++  +G +
Sbjct: 71  TGETNATLDENSNRITLRESENSRSVADDEGFE 103


>gi|332298033|ref|YP_004439955.1| helix-turn-helix domain protein [Treponema brennaborense DSM 12168]
 gi|332181136|gb|AEE16824.1| helix-turn-helix domain protein [Treponema brennaborense DSM 12168]
          Length = 331

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 35/85 (41%), Gaps = 1/85 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-D 75
           ++I + R   G SQE+L + + ++ Q V K+E G       ++  +S +          D
Sbjct: 5   EKIEILRKRNGWSQEELADKVAVSRQSVSKWESGGAVPELDKILLLSTLFGVSTDTLLKD 64

Query: 76  VSPTVCSDISSEENNVMDFISTPDG 100
                    SS    V+  +S P+ 
Sbjct: 65  DLSVSAEPASSAGEKVLRRVSLPEA 89


>gi|313889436|ref|ZP_07823084.1| peptidase S24-like protein [Streptococcus pseudoporcinus SPIN
          20026]
 gi|313122268|gb|EFR45359.1| peptidase S24-like protein [Streptococcus pseudoporcinus SPIN
          20026]
          Length = 230

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 30/61 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G++++  R    MSQE+LG  +G+    +  +E+G N      L  + ++ +    +
Sbjct: 1  MFAGEQLKAIRQKEKMSQEELGHQIGVNKMTISNWEQGKNSPNQKHLAKLVDIFQVSEDY 60

Query: 73 F 73
          F
Sbjct: 61 F 61


>gi|307131685|ref|YP_003883701.1| putative transcriptional regulator [Dickeya dadantii 3937]
 gi|306529214|gb|ADM99144.1| Putative transcriptional regulator [Dickeya dadantii 3937]
          Length = 85

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 4/74 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+   ++QEKLG   G+     + ++  YE G ++     +   + VL+ P  +
Sbjct: 4  KRLKEARLHAKLTQEKLGVLAGLEEATAYSRLSHYENGTHKPTFELVCEFARVLDVPECY 63

Query: 73 FFDVSPTVCSDISS 86
          F+ V      D+  
Sbjct: 64 FYIVDDQFAQDVLE 77


>gi|161018434|emb|CAK01992.1| transcriptional regulator (fragment) [Bartonella tribocorum CIP
          105476]
          Length = 39

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/32 (59%), Positives = 28/32 (87%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQ 42
          +D+ VGK+IRL+R +LGMSQ+ LG+ LG++FQ
Sbjct: 8  IDLFVGKKIRLKRKMLGMSQKTLGDALGVSFQ 39


>gi|332686955|ref|YP_004456729.1| SOS-response repressor and protease LexA [Melissococcus plutonius
          ATCC 35311]
 gi|332370964|dbj|BAK21920.1| SOS-response repressor and protease LexA [Melissococcus plutonius
          ATCC 35311]
          Length = 236

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 39/63 (61%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          + +G+RI+ RR  L +S + + E LG++   + +YEKG + ++  + L++I+ +L +  +
Sbjct: 1  MTIGERIKARRKELKLSADIVAEKLGVSRSTIFRYEKGDIEKLPTNILENIAIILHTSPA 60

Query: 72 FFF 74
          +  
Sbjct: 61 YLM 63


>gi|331090843|ref|ZP_08339689.1| hypothetical protein HMPREF9477_00332 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330399702|gb|EGG79364.1| hypothetical protein HMPREF9477_00332 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 179

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/76 (17%), Positives = 35/76 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R+   ++QE+L +   ++   + + E+ +     S L  I + L + +  
Sbjct: 1  MQIGQKLKGLRIAKNLTQEELADRAELSKGFISQLERDLTSPSISTLVDILQCLGTSLKD 60

Query: 73 FFDVSPTVCSDISSEE 88
          FF           +E+
Sbjct: 61 FFQEESDEQIVFGNED 76


>gi|319937786|ref|ZP_08012189.1| transcriptional regulator [Coprobacillus sp. 29_1]
 gi|319807221|gb|EFW03835.1| transcriptional regulator [Coprobacillus sp. 29_1]
          Length = 124

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 33/67 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K++   R I GMSQE+L   + +T Q V K+E       + +L  +SE+ E    +    
Sbjct: 5  KQLIHLRNIRGMSQEELAALMDVTRQSVSKWETNQTYPDSEKLIRLSEIFEVSTDYLLKG 64

Query: 77 SPTVCSD 83
          + T  +D
Sbjct: 65 TETEITD 71


>gi|313899841|ref|ZP_07833344.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312955456|gb|EFR37121.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 259

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 23/54 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +   R   GMSQE+L     ++ Q + K+E G        L+ +S  L   I 
Sbjct: 6  NLYRIRKEKGMSQEELAALCDVSRQAISKWENGTANPDMENLKTLSRSLRVSID 59


>gi|257877436|ref|ZP_05657089.1| cro/CI family transcriptional regulator [Enterococcus casseliflavus
           EC20]
 gi|257811602|gb|EEV40422.1| cro/CI family transcriptional regulator [Enterococcus casseliflavus
           EC20]
          Length = 201

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 39/82 (47%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+++R  R+   ++QE+LGE   +T   + + E+ ++         I EVL    
Sbjct: 20  MNMEIGEKLRNLRVQKNLTQEELGERTDLTKGYISQLERDLSSPSMETFFTILEVLGVTP 79

Query: 71  SFFFDVSPTVCSDISSEENNVM 92
             FF         +  EE++ +
Sbjct: 80  EEFFREENAQHQVVYREEDSTL 101


>gi|168186759|ref|ZP_02621394.1| xre family DNA-binding domain and TPR-repeat-containing protein
           [Clostridium botulinum C str. Eklund]
 gi|169295309|gb|EDS77442.1| xre family DNA-binding domain and TPR-repeat-containing protein
           [Clostridium botulinum C str. Eklund]
          Length = 432

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 41/93 (44%), Gaps = 1/93 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I+ RR  LGM+ + L     IT  Q+   E G +      L++++E L   I +  
Sbjct: 6   LGEKIKRRRKELGMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLAESLNISIEYLM 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
           +   T    I +   N+ +     + L L   +
Sbjct: 65  ESEETQAEKICAYYENICESHILNNQLSLAEQY 97


>gi|85859538|ref|YP_461740.1| Cro/CI family transcriptional regulator [Syntrophus aciditrophicus
           SB]
 gi|85722629|gb|ABC77572.1| transcriptional regulator, Cro/CI family [Syntrophus aciditrophicus
           SB]
          Length = 128

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 1/55 (1%)

Query: 20  RLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R+ R   G +QEKLGE LG I  Q +   E G   + ++  + ++++   P+  F
Sbjct: 67  RIYREAKGWTQEKLGELLGDIPRQHISNMEHGKRPISSNTARKLAKLFNVPMDRF 121


>gi|327472198|gb|EGF17635.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK408]
          Length = 168

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 32/74 (43%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    D
Sbjct: 6  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLED 65

Query: 76 VSPTVCSDISSEEN 89
                  + SE+ 
Sbjct: 66 SDKPEIKPVLSEDE 79


>gi|291544390|emb|CBL17499.1| Predicted transcriptional regulators [Ruminococcus sp. 18P13]
          Length = 470

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 29/55 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++   R+  G+SQE+L + +G     + + EKG   +    +  I+E L+  +S
Sbjct: 15 QKLTQARLEKGLSQEQLAKRIGTQRSNICRIEKGTQNLSLDLMIKIAEALDKDVS 69


>gi|169334175|ref|ZP_02861368.1| hypothetical protein ANASTE_00571 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169258892|gb|EDS72858.1| hypothetical protein ANASTE_00571 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 219

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 31/67 (46%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK    +++   +++ L R   G++QE+L   L ++   V K+E G        L+ IS 
Sbjct: 12 KKSHLEIEVEFNEKLVLIRKEKGLTQEELASLLFVSRTAVSKWESGRGYPSIDSLKEISR 71

Query: 65 VLESPIS 71
          V    I 
Sbjct: 72 VFGVTID 78


>gi|182417693|ref|ZP_02949012.1| DNA-binding protein [Clostridium butyricum 5521]
 gi|237667491|ref|ZP_04527475.1| helix-turn-helix domain protein [Clostridium butyricum E4 str.
          BoNT E BL5262]
 gi|182378417|gb|EDT75948.1| DNA-binding protein [Clostridium butyricum 5521]
 gi|237655839|gb|EEP53395.1| helix-turn-helix domain protein [Clostridium butyricum E4 str.
          BoNT E BL5262]
          Length = 183

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +++  R    +S + + E  G++   + + E+G +    S L  IS  L    S F 
Sbjct: 8  IGNKLKNIRNSRNLSLDDVAELTGVSKAMLGQIERGKSNPTVSTLWKISTGLRVSFSSFI 67

Query: 75 DVSPTVCSDISSEE 88
          D S      I+ +E
Sbjct: 68 DESKEELKVINIDE 81


>gi|163815521|ref|ZP_02206894.1| hypothetical protein COPEUT_01686 [Coprococcus eutactus ATCC
          27759]
 gi|158449158|gb|EDP26153.1| hypothetical protein COPEUT_01686 [Coprococcus eutactus ATCC
          27759]
          Length = 112

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 1/70 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-FF 74
          GKRI+  R  L ++QE+L E  GI+   V + E G   +    L  I+  L +   +  F
Sbjct: 7  GKRIKKIRKSLKLTQEQLAEKAGISAHFVYEIEHGQKTMSLYTLTDIALALGTSTDYILF 66

Query: 75 DVSPTVCSDI 84
            +P + S  
Sbjct: 67 GRTPDISSGA 76


>gi|75761861|ref|ZP_00741789.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|74490644|gb|EAO53932.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
          Length = 114

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 29/79 (36%), Gaps = 2/79 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G RI+  R    +SQ++L + L +    +  YE             I+  L   I +
Sbjct: 2  VTLGDRIKFIRTKKNISQQELADILNVNRSAISLYETNRKSPSRENTYKIATALGVSIDY 61

Query: 73 F--FDVSPTVCSDISSEEN 89
                 P+  +D    E 
Sbjct: 62 LLGLQTDPSFQTDNIHSET 80


>gi|307591326|ref|YP_003900125.1| XRE family transcriptional regulator [Cyanothece sp. PCC 7822]
 gi|306986180|gb|ADN18059.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 7822]
          Length = 86

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   K I + + I  G+ I+ RR  L ++QE L    G+    +   E G   +    ++
Sbjct: 1  MSEQKPIVSSIQIKFGRAIQQRRKELNLTQENLAHRTGLDRTYIANIETGKINISLRNIE 60

Query: 61 HISEVLESPISFFF 74
           +++ L   +S  F
Sbjct: 61 KLAKGLSISLSDLF 74


>gi|242399365|ref|YP_002994789.1| Predicted transcription regulator, containing DNA-binding HTH
          domain [Thermococcus sibiricus MM 739]
 gi|242265758|gb|ACS90440.1| Predicted transcription regulator, containing DNA-binding HTH
          domain [Thermococcus sibiricus MM 739]
          Length = 65

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R + G++QE L + LG+T Q +   EKG           I++  +  I   F
Sbjct: 3  NRLRELRELKGLTQEDLAKTLGVTRQTIIAIEKGKYDPSLRLAFKIAKFFKVKIEDIF 60


>gi|37650510|emb|CAE47444.1| PlcR protein [Bacillus thuringiensis serovar tohokuensis]
          Length = 285

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R + G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGNEIKKIRTMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|37518410|emb|CAE46775.1| hypothetical protein [Yersinia enterocolitica]
          Length = 122

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 26/108 (24%), Positives = 53/108 (49%), Gaps = 10/108 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V KR+R  R   G+SQEKL + + I    +  ++  YE G      S +  I+ +L+ P 
Sbjct: 4   VPKRLREAREAAGISQEKLSQLIDIDGKNSRSRLSSYEVGRTEPPFSLVVKIARLLDYPE 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            +F+ V   +  ++     N ++    P+  +  +Y+   ++ K+R++
Sbjct: 64  YYFYTVDDDMAKNMLEVHRNRVN----PE--ENLQYYTLEENKKLRKQ 105


>gi|301300079|ref|ZP_07206297.1| helix-turn-helix protein [Lactobacillus salivarius
          ACS-116-V-Col5a]
 gi|300852311|gb|EFK79977.1| helix-turn-helix protein [Lactobacillus salivarius
          ACS-116-V-Col5a]
          Length = 242

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 23/85 (27%), Positives = 46/85 (54%), Gaps = 1/85 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISF 72
          N+G RI+ RR  L +S + + E LG++   V +YEKG + +V  + L+ ++EVL++  ++
Sbjct: 3  NIGYRIKQRRKELKLSADVVAEKLGVSRSTVFRYEKGDIEKVPTTILEKLAEVLKTTPAY 62

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
                   S  +   +   D +++
Sbjct: 63 LIGWESENNSAYTKMLHESFDSLNS 87


>gi|296876651|ref|ZP_06900699.1| conserved hypothetical protein [Streptococcus parasanguinis ATCC
          15912]
 gi|296432153|gb|EFH17952.1| conserved hypothetical protein [Streptococcus parasanguinis ATCC
          15912]
          Length = 295

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 28/55 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R  +GMSQE L E +G++ Q V K+E G        +  IS +    I 
Sbjct: 5  EKLKSIRKQVGMSQELLAEKIGVSRQAVTKWETGAGIPDIENMISISNLFNISID 59


>gi|260890727|ref|ZP_05901990.1| toxin-antitoxin system, antitoxin component, Xre family
          [Leptotrichia hofstadii F0254]
 gi|260859605|gb|EEX74105.1| toxin-antitoxin system, antitoxin component, Xre family
          [Leptotrichia hofstadii F0254]
          Length = 203

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 28/59 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          ++  R    ++Q  L E  GI+   + KYE+G+N      L+ +++  +  I  F +  
Sbjct: 14 LKELRKKKNLTQRGLAEKTGISLAMITKYEQGLNTPSIENLRVLADFFKVSIRNFLEED 72


>gi|260430250|ref|ZP_05784224.1| DNA-binding protein [Citreicella sp. SE45]
 gi|260418722|gb|EEX11978.1| DNA-binding protein [Citreicella sp. SE45]
          Length = 213

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 29/72 (40%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ +G+++R  R    M+   L    G++   + K E GV     + +  ++  L  P+
Sbjct: 25 LEVAIGRQVRELRKRQRMTGGDLAGKTGLSVGMLSKIENGVISPSLNTMSALANALGVPL 84

Query: 71 SFFFDVSPTVCS 82
             F        
Sbjct: 85 VQLFSGFEEPRG 96


>gi|260495101|ref|ZP_05815230.1| transcriptional regulator [Fusobacterium sp. 3_1_33]
 gi|260197544|gb|EEW95062.1| transcriptional regulator [Fusobacterium sp. 3_1_33]
          Length = 184

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/85 (17%), Positives = 39/85 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK++R  R   GMS  +L   + ++   + + E+G        L+ I+  L+  +++
Sbjct: 1  MTIGKKLRKSRNDKGMSLRELATKVELSASFLSQIEQGKASPSIENLKKIAHTLDVRVAY 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
            +       +I   + + + +I +
Sbjct: 61 LLEDEDDDIRNIEYIKKDSIKYIES 85


>gi|237743275|ref|ZP_04573756.1| transcriptional regulator [Fusobacterium sp. 7_1]
 gi|256028631|ref|ZP_05442465.1| MerR family transcriptional regulator [Fusobacterium sp. D11]
 gi|289766549|ref|ZP_06525927.1| transcriptional regulator [Fusobacterium sp. D11]
 gi|229433054|gb|EEO43266.1| transcriptional regulator [Fusobacterium sp. 7_1]
 gi|289718104|gb|EFD82116.1| transcriptional regulator [Fusobacterium sp. D11]
          Length = 184

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/85 (17%), Positives = 39/85 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK++R  R   GMS  +L   + ++   + + E+G        L+ I+  L+  +++
Sbjct: 1  MTIGKKLRKSRNDKGMSLRELATKVELSASFLSQIEQGKASPSIENLKKIAHTLDVRVAY 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
            +       +I   + + + +I +
Sbjct: 61 LLEDEDDDIRNIEYIKKDSIKYIES 85


>gi|196048279|ref|ZP_03115456.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|196021016|gb|EDX59746.1| DNA-binding protein [Bacillus cereus 03BB108]
          Length = 184

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/84 (26%), Positives = 43/84 (51%), Gaps = 1/84 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
          +IN+G++I + R   G++ ++L E   IT   + + EKG+       L+ IS  L  P+ 
Sbjct: 3  NINIGEKIMVFRKGAGLTSKRLAELSDITPSMLSQIEKGITNPSLQTLKLISLALNIPLF 62

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          +FF + + T    + + +   + F
Sbjct: 63 NFFLEDTNTEELVVRANQRKKITF 86


>gi|110804331|ref|YP_687851.1| putative prophage repressor CI [Shigella flexneri 5 str. 8401]
 gi|291281104|ref|YP_003497922.1| SOS-response transcriptional repressor [Escherichia coli O55:H7
          str. CB9615]
 gi|300898212|ref|ZP_07116568.1| peptidase S24-like domain protein [Escherichia coli MS 198-1]
 gi|110613879|gb|ABF02546.1| putative prophage repressor CI [Shigella flexneri 5 str. 8401]
 gi|284920569|emb|CBG33631.1| putative prophage repressor [Escherichia coli 042]
 gi|290760977|gb|ADD54938.1| SOS-response transcriptional repressor [Escherichia coli O55:H7
          str. CB9615]
 gi|300358089|gb|EFJ73959.1| peptidase S24-like domain protein [Escherichia coli MS 198-1]
 gi|320654501|gb|EFX22535.1| SOS-response transcriptional repressor [Escherichia coli O55:H7
          str. 3256-97 TW 07815]
 gi|320659998|gb|EFX27537.1| SOS-response transcriptional repressor [Escherichia coli O55:H7
          str. USDA 5905]
 gi|324019900|gb|EGB89119.1| peptidase S24-like domain protein [Escherichia coli MS 117-3]
          Length = 210

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 35/68 (51%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  R++ +R+ LG++Q +L + +G T Q +++ E G  +     L  ++  L   + +
Sbjct: 1  MSISSRVKSKRIQLGLNQAELAQKVGTTQQSIEQLENGKTK-RPRFLPELASALGVSVDW 59

Query: 73 FFDVSPTV 80
            + +   
Sbjct: 60 LLNGTSDS 67


>gi|420538|pir||S32822 repressor protein cI - phage 434
 gi|455364|gb|AAA72530.1| cI repressor [unidentified cloning vector]
 gi|224174|prf||1011238A cI gene
          Length = 210

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 35/68 (51%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  R++ +R+ LG++Q +L + +G T Q +++ E G  +     L  ++  L   + +
Sbjct: 1  MSISSRVKSKRIQLGLNQAELAQKVGTTQQSIEQLENGKTK-RPRFLPELASALGVSVDW 59

Query: 73 FFDVSPTV 80
            + +   
Sbjct: 60 LLNGTSDS 67


>gi|323483984|ref|ZP_08089357.1| hypothetical protein HMPREF9474_01106 [Clostridium symbiosum
           WAL-14163]
 gi|323402700|gb|EGA95025.1| hypothetical protein HMPREF9474_01106 [Clostridium symbiosum
           WAL-14163]
          Length = 183

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 24/115 (20%), Positives = 46/115 (40%), Gaps = 17/115 (14%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P+++ V K IR  R    +S ++L    G++   + + E+G      S L  IS  ++ 
Sbjct: 2   DPMNLIVAKNIRRLREENKLSMDELSRLSGVSKSMLAQIERGDGNPTISTLWKISNGMKV 61

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQL------NRYFIQIDDVKVRQ 117
           P    FD        ++    N+   + T +   L       R +    D + R+
Sbjct: 62  P----FDA-------LTVRPENLYQIVKTSEIQPLLEDNGKVRNYPVFPDDENRR 105


>gi|257879453|ref|ZP_05659106.1| predicted protein [Enterococcus faecium 1,230,933]
 gi|257813681|gb|EEV42439.1| predicted protein [Enterococcus faecium 1,230,933]
 gi|295100939|emb|CBK98484.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii L2-6]
          Length = 101

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 28/59 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GKRI+  R   G++QE+L E LG+    + + E G   +       +    E+ + + F
Sbjct: 39 GKRIKALRKEHGLTQEQLAEQLGVAANTIARIETGNRGISIDLAIELVVRFETTLDYIF 97


>gi|302875482|ref|YP_003844115.1| helix-turn-helix domain-containing protein [Clostridium
           cellulovorans 743B]
 gi|307689097|ref|ZP_07631543.1| helix-turn-helix domain-containing protein [Clostridium
           cellulovorans 743B]
 gi|302578339|gb|ADL52351.1| helix-turn-helix domain protein [Clostridium cellulovorans 743B]
          Length = 132

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 38/96 (39%), Gaps = 4/96 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G++I+  R + G+S   L     I+   +   E G        +  I+E L   ++ 
Sbjct: 1   MNIGEKIKQYRNLAGLSIRVLAAKADISKSTLGDIENGKTNTSVKTITSIAEALNVDVNI 60

Query: 73  FFDVSPTVCSDISSEE----NNVMDFISTPDGLQLN 104
             +   T  ++    +       MD I    GL LN
Sbjct: 61  LMNAEATDDNETPLPKILDVKTAMDLILAQPGLMLN 96


>gi|213161102|ref|ZP_03346812.1| hypothetical protein Salmoneentericaenterica_14098 [Salmonella
           enterica subsp. enterica serovar Typhi str. E00-7866]
 gi|213428345|ref|ZP_03361095.1| hypothetical protein SentesTyphi_24034 [Salmonella enterica subsp.
           enterica serovar Typhi str. E02-1180]
          Length = 265

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 43/90 (47%), Gaps = 4/90 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
             I+  R  L ++Q +L   +G + QQ+Q+ E G      S  Q I   L+ P++  F  
Sbjct: 4   NNIKQLRTQLSITQHELAFMVGTSQQQIQRIETGKVAAKLSLAQAICNALDKPLNVVFPE 63

Query: 77  SPTVCSDISSEE---NNVMDFISTPDGLQL 103
           S  + +D   +    +  ++ I+T  G+++
Sbjct: 64  SDRLINDFRKKRRKTDEDLEVIATS-GIEM 92


>gi|199597306|ref|ZP_03210737.1| Double-stranded beta-helix related protein [Lactobacillus
          rhamnosus HN001]
 gi|229551815|ref|ZP_04440540.1| transcriptional regulator [Lactobacillus rhamnosus LMS2-1]
 gi|258507963|ref|YP_003170714.1| spermidine/putrescine transport operon transcriptional regulator
          [Lactobacillus rhamnosus GG]
 gi|258539216|ref|YP_003173715.1| spermidine/putrescine transport operon transcriptional regulator
          [Lactobacillus rhamnosus Lc 705]
 gi|199591822|gb|EDY99897.1| Double-stranded beta-helix related protein [Lactobacillus
          rhamnosus HN001]
 gi|229314759|gb|EEN80732.1| transcriptional regulator [Lactobacillus rhamnosus LMS2-1]
 gi|257147890|emb|CAR86863.1| Spermidine/putrescine transport operon transcriptional regulator
          [Lactobacillus rhamnosus GG]
 gi|257150892|emb|CAR89864.1| Spermidine/putrescine transport operon transcriptional regulator
          [Lactobacillus rhamnosus Lc 705]
 gi|259649290|dbj|BAI41452.1| transcriptional regulator [Lactobacillus rhamnosus GG]
          Length = 179

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 30/66 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +IR  R+   ++QE+LGE   ++   + + E   +         I  VL    + 
Sbjct: 1  MDIGSKIRDLRIRKNLTQEELGERTDLSKGYISQVEHDQSSPSLETFFDILSVLGESPAD 60

Query: 73 FFDVSP 78
          FF   P
Sbjct: 61 FFREEP 66


>gi|154151191|ref|YP_001404809.1| XRE family transcriptional regulator [Candidatus Methanoregula
          boonei 6A8]
 gi|153999743|gb|ABS56166.1| transcriptional regulator, XRE family [Methanoregula boonei 6A8]
          Length = 69

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 2/61 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +I++ R +  ++QE L   +G+T Q +   EKG           IS   +  I   FF+
Sbjct: 3  NKIKVYRAMHDLTQEDLAGAIGVTRQTILAIEKGKYVPSLDLAFRISRYFKVNIEEIFFY 62

Query: 75 D 75
          D
Sbjct: 63 D 63


>gi|34496668|ref|NP_900883.1| hypothetical protein CV_1213 [Chromobacterium violaceum ATCC 12472]
 gi|34102523|gb|AAQ58888.1| conserved hypothetical protein [Chromobacterium violaceum ATCC
           12472]
          Length = 115

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/119 (18%), Positives = 51/119 (42%), Gaps = 16/119 (13%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +G+ +   R  LGM+QE L E LG+  + + + E+G  +    RL  ++EVL   +
Sbjct: 9   LNQRIGQAVARHRKALGMNQEDLAEKLGVGLEAISRLERGRIKPTLVRLLELAEVLGCSV 68

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           +   D+      +   +   +   ++            ++     RQ ++++V  +   
Sbjct: 69  N---DLLSETSVNPGDQARYLEQLLA------------RLKQAD-RQLVVDMVEQLSDR 111


>gi|253580755|ref|ZP_04858019.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251848126|gb|EES76092.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 220

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 36/76 (47%), Gaps = 1/76 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
             +G RI+ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 37  KLIGSRIKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 96

Query: 72  FFFDVSPTVCSDISSE 87
           +    +    +DI+ +
Sbjct: 97  WLKGETDEYETDITDK 112


>gi|228902129|ref|ZP_04066293.1| Helix-turn-helix domain protein [Bacillus thuringiensis IBL 4222]
 gi|228857555|gb|EEN02051.1| Helix-turn-helix domain protein [Bacillus thuringiensis IBL 4222]
          Length = 262

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I +V E  + +
Sbjct: 1  MEFGEKLFKLRKEKGLSQEVLAEKLKTTRQAVSKWENGQGFPETEKLIMIGKVFEVSLDY 60

Query: 73 FFDVSPTVCSD 83
              +    ++
Sbjct: 61 LLKETAEQSNE 71


>gi|228952477|ref|ZP_04114558.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|228807214|gb|EEM53752.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
          Length = 114

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 26/61 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RI+  R    +SQ++L E L +    +  YE             I+ VL   I +
Sbjct: 2  VTLGERIKSIRTKKNISQKELAEALNVNRSAISLYETNRKSPSRENTYKIATVLGVSIDY 61

Query: 73 F 73
           
Sbjct: 62 L 62


>gi|229016335|ref|ZP_04173281.1| hypothetical protein bcere0030_9120 [Bacillus cereus AH1273]
 gi|229022576|ref|ZP_04179104.1| hypothetical protein bcere0029_9260 [Bacillus cereus AH1272]
 gi|228738725|gb|EEL89193.1| hypothetical protein bcere0029_9260 [Bacillus cereus AH1272]
 gi|228744982|gb|EEL95038.1| hypothetical protein bcere0030_9120 [Bacillus cereus AH1273]
          Length = 149

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 31/76 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQNDLAEKIYVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   + ++   + 
Sbjct: 65 DEELTQKVIADSKQLA 80


>gi|331678336|ref|ZP_08379011.1| repressor protein C2 [Escherichia coli H591]
 gi|331074796|gb|EGI46116.1| repressor protein C2 [Escherichia coli H591]
          Length = 210

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 35/68 (51%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  R++ +R+ LG++Q +L + +G T Q +++ E G  +     L  ++  L   + +
Sbjct: 1  MSISSRVKSKRIQLGLNQAELAQRVGTTQQSIEQLENGKTK-RPRFLPELASALGVSVDW 59

Query: 73 FFDVSPTV 80
            + +   
Sbjct: 60 LLNGTSDS 67


>gi|224541245|ref|ZP_03681784.1| hypothetical protein CATMIT_00405 [Catenibacterium mitsuokai DSM
          15897]
 gi|224525890|gb|EEF94995.1| hypothetical protein CATMIT_00405 [Catenibacterium mitsuokai DSM
          15897]
          Length = 281

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/85 (20%), Positives = 38/85 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ I+  R    +SQ +LG+ +G++ Q V K+E        + ++ ++++    I  
Sbjct: 1  MTLGQTIKYYRTKFNLSQSELGDQIGVSRQAVTKWETDTGMPDINNIKSLAKLFHISIDT 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
                 V S   S+    +D +  
Sbjct: 61 LLSSDHHVQSLHESKIEYDIDMLKD 85


>gi|219855544|ref|YP_002472666.1| hypothetical protein CKR_2201 [Clostridium kluyveri NBRC 12016]
 gi|219569268|dbj|BAH07252.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 375

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  +R   G++QE+L + +G++   V K+E G++      L  ++      +      SP
Sbjct: 13 IIQKRKEKGITQEQLADYIGVSKASVSKWESGLSYPDILLLPELATYFNVSVDELLGYSP 72


>gi|187933000|ref|YP_001885196.1| DNA-binding protein [Clostridium botulinum B str. Eklund 17B]
 gi|187721153|gb|ACD22374.1| DNA-binding protein [Clostridium botulinum B str. Eklund 17B]
          Length = 179

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 39/81 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR+ RM   ++QE+L     ++   + + E  +     + L  I E+L + ++ 
Sbjct: 1  MQIGEKIRVLRMEKQLTQEELANRCELSKGFISQLENDLTSPSIATLMDILEILGTNLNE 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  +       S+++    D
Sbjct: 61 FFSETKEEQVIFSNDDMFKTD 81


>gi|153955107|ref|YP_001395872.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|146347965|gb|EDK34501.1| Transcriptional regulator [Clostridium kluyveri DSM 555]
          Length = 372

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  +R   G++QE+L + +G++   V K+E G++      L  ++      +      SP
Sbjct: 10 IIQKRKEKGITQEQLADYIGVSKASVSKWESGLSYPDILLLPELATYFNVSVDELLGYSP 69


>gi|186471163|ref|YP_001862481.1| XRE family transcriptional regulator [Burkholderia phymatum
          STM815]
 gi|184197472|gb|ACC75435.1| transcriptional regulator, XRE family [Burkholderia phymatum
          STM815]
          Length = 189

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 20/61 (32%), Positives = 28/61 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VD  +G RIR  R   G S   L E  G++   V K E+G +   AS L  ++      +
Sbjct: 8  VDQRIGARIRAEREGRGWSLTSLAEKSGVSRAMVHKVERGESSPTASLLAKLAGAFGMSM 67

Query: 71 S 71
          S
Sbjct: 68 S 68


>gi|28379037|ref|NP_785929.1| prophage Lp3 protein 2 [Lactobacillus plantarum WCFS1]
 gi|28271875|emb|CAD64780.1| prophage Lp3 protein 2 [Lactobacillus plantarum WCFS1]
          Length = 188

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 31/56 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +I+  R  +G+SQ +L E L +T Q +  YEKG      + L+++  +   PIS+
Sbjct: 2  NKIKELRQYMGLSQAELAEKLNVTRQSISLYEKGQRVPRINVLKNMEAIFGVPISY 57


>gi|296506515|ref|YP_003667749.1| transcriptional regulator [Bacillus thuringiensis BMB171]
 gi|296327102|gb|ADH10029.1| transcriptional regulator [Bacillus thuringiensis BMB171]
          Length = 66

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 28/57 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R+ L MSQE L   +G+  + +   E G           I++VL++PI   F
Sbjct: 6  RMKEYRVKLSMSQEDLANEVGVRRETIGNLENGKYNPSFKLTYDIAKVLKAPIEVLF 62


>gi|302864813|ref|YP_003833450.1| helix-turn-helix domain-containing protein [Micromonospora
           aurantiaca ATCC 27029]
 gi|315501098|ref|YP_004079985.1| helix-turn-helix domain protein [Micromonospora sp. L5]
 gi|302567672|gb|ADL43874.1| helix-turn-helix domain protein [Micromonospora aurantiaca ATCC
           27029]
 gi|315407717|gb|ADU05834.1| helix-turn-helix domain protein [Micromonospora sp. L5]
          Length = 187

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 42/107 (39%), Gaps = 6/107 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             VG+RIR  R   G+S  +L    G+    +   E GV       L  I+  L  P++ 
Sbjct: 13  REVGRRIRSLRTERGISLSELARLAGVGKATLSGLENGVRNPRLETLYAITAQLGVPLTA 72

Query: 73  FF---DVSPTVCSDISSEENNVMDFISTPDG-LQLNRYFIQIDDVKV 115
                D +PT+          +++  S  +   +L R ++     ++
Sbjct: 73  VLATPDQAPTLRGAAVG--GTLLEVFSDREATYELYRMWVTPGPAQL 117


>gi|229002961|ref|ZP_04160828.1| transcriptional regulator [Bacillus mycoides Rock3-17]
 gi|228758312|gb|EEM07492.1| transcriptional regulator [Bacillus mycoides Rock3-17]
          Length = 119

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 36/80 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI+  RM LG +Q++  + + I+   V   E G        +  IS +      +  
Sbjct: 5  IGKRIKEIRMSLGYTQQQFADNVDISKPMVSYIESGKKTPSRETVSKISNLANVSTDYIM 64

Query: 75 DVSPTVCSDISSEENNVMDF 94
           +S    ++ SS  + +++ 
Sbjct: 65 GLSDNKNNEESSASDVMLEL 84


>gi|229102450|ref|ZP_04233157.1| hypothetical protein bcere0019_16110 [Bacillus cereus Rock3-28]
 gi|228680935|gb|EEL35105.1| hypothetical protein bcere0019_16110 [Bacillus cereus Rock3-28]
          Length = 149

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 48/110 (43%), Gaps = 8/110 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G++++  R     SQE + + +G+T Q V K+E   +      L  +SE+    +  
Sbjct: 1   MSIGEQLKKLRESKEFSQEDVAKKIGVTRQAVYKWENDKSYPDIDNLILLSEMYNVTLDE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPD-------GLQLNRYFIQIDDVKV 115
               + +    I  +E    DF    +       GL +   FI+ + ++V
Sbjct: 61  LIKGNQSFKEKIHIDEEE-ADFEKENEFGFYIGFGLLIMSAFIEYEKIQV 109


>gi|227873617|ref|ZP_03991855.1| transcriptional regulator [Oribacterium sinus F0268]
 gi|227840535|gb|EEJ50927.1| transcriptional regulator [Oribacterium sinus F0268]
          Length = 158

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 27/55 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ IR  R   G++Q +  E +G++   + +YE G + +    +  I +  +  
Sbjct: 2  IGENIRKLRHTQGLTQPEFAERIGVSRNSLSRYENGSSPISTDIIDRICQAFQVS 56


>gi|225572080|ref|ZP_03780944.1| hypothetical protein RUMHYD_00374 [Blautia hydrogenotrophica DSM
          10507]
 gi|225040414|gb|EEG50660.1| hypothetical protein RUMHYD_00374 [Blautia hydrogenotrophica DSM
          10507]
          Length = 192

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 38/85 (44%), Gaps = 1/85 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+IR  R     SQE L E + ++ Q +  +E G +    + L  +SE  E  +  
Sbjct: 1  MELGKQIRRYRNERSFSQETLAEKVYVSRQTISNWENGKSYPDVNSLVLLSEAFEVSLDK 60

Query: 73 FFDVS-PTVCSDISSEENNVMDFIS 96
                  +   I+ E+  + + +S
Sbjct: 61 LIKGDVENMKEQINREDQQIFNCLS 85


>gi|85707435|ref|ZP_01038515.1| probable transcriptional regulator [Roseovarius sp. 217]
 gi|85668023|gb|EAQ22904.1| probable transcriptional regulator [Roseovarius sp. 217]
          Length = 373

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 20/103 (19%), Positives = 42/103 (40%), Gaps = 6/103 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECL--GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           G+R+RL R   G+S + L E +   ++ Q + KYE       +S L  + + L   + F 
Sbjct: 17  GQRLRLARKRAGLSMQALAERVTPSVSAQAISKYEADKMMPSSSVLVGLGKALGVSLDFL 76

Query: 74  FDVSPTVCSDISSEENNVMD----FISTPDGLQLNRYFIQIDD 112
                     +   +N+        ++    ++    ++ I+D
Sbjct: 77  LGGQVEALESVEWRKNSTASAQDRAMAESIVIEKLEDYLAIED 119


>gi|330974040|gb|EGH74106.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           aceris str. M302273PT]
          Length = 114

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 23/106 (21%), Positives = 37/106 (34%), Gaps = 8/106 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +I+  R    MSQ  L E +G     V +YE+G    G  +L  I+ V         
Sbjct: 8   IGAKIKTLRKSTTMSQADLAELIGCDAPLVSRYERGTTLPGIEQLIRIATVFNVAPGELL 67

Query: 75  DVSPTVC--------SDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
                           DI+     V       + L+L   +  ++D
Sbjct: 68  PGGQDQLRTRLISLRQDITERIAEVDSPEHLEEILELINKYSCLND 113


>gi|325970042|ref|YP_004246233.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
 gi|324025280|gb|ADY12039.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
          Length = 353

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 30/58 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R++  R+  G S + L   +GI+   ++KYE G +   ++ L  ++  L     +FF
Sbjct: 4  ERLKRARVSSGFSMQNLATKVGISANMIKKYEHGESMPSSATLIRLAASLGLKSEYFF 61


>gi|260583710|ref|ZP_05851458.1| transcriptional regulator [Granulicatella elegans ATCC 700633]
 gi|260158336|gb|EEW93404.1| transcriptional regulator [Granulicatella elegans ATCC 700633]
          Length = 285

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 25/130 (19%), Positives = 56/130 (43%), Gaps = 23/130 (17%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R++ RR+ L ++Q++L E +     Q+ + E       A  L+ +S  L   + +FF
Sbjct: 2   LGERLKHRRLELNLTQKELSEGI-CKQSQISRIENQNYDPSALILKKLSVRLNVSMDYFF 60

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR---SIVSSEK 131
           +                       +   + + F +I D  + Q+    +    S+  ++K
Sbjct: 61  NTKLE-------------------ETDSVLKSFKKIADDALSQRDFSKLEYCLSLELNKK 101

Query: 132 KYRTIEEECM 141
           +  T+EE+ +
Sbjct: 102 QKITLEEDLI 111


>gi|225569728|ref|ZP_03778753.1| hypothetical protein CLOHYLEM_05822 [Clostridium hylemonae DSM
          15053]
 gi|225161198|gb|EEG73817.1| hypothetical protein CLOHYLEM_05822 [Clostridium hylemonae DSM
          15053]
          Length = 114

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/88 (21%), Positives = 44/88 (50%), Gaps = 7/88 (7%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ K ++  R    +SQ++L + L  T Q + KYE G++      L+++++  ++ I +
Sbjct: 1  MNIVKNLKKLRTERNLSQQQLADMLHTTQQNIYKYENGISEPNLETLKNMADHFQTSIDY 60

Query: 73 FFD-------VSPTVCSDISSEENNVMD 93
                    + P    D++S+E  ++ 
Sbjct: 61 LVGYTSIRHKIEPVSEYDLNSDEQTLIQ 88


>gi|254440509|ref|ZP_05054003.1| ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent,
           putative [Octadecabacter antarcticus 307]
 gi|198255955|gb|EDY80269.1| ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent,
           putative [Octadecabacter antarcticus 307]
          Length = 822

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/90 (20%), Positives = 40/90 (44%), Gaps = 2/90 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R++ +R  + ++Q++L +   I+   + + EK  +   +  ++ ++  L     +   
Sbjct: 571 GDRLKKKRSEMSLTQKELADAANISQPFLSRIEKKSSEASSDNVRALATALGVTAGWLQY 630

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            S T     + E+ N  D I   +   LNR
Sbjct: 631 GSDTEVRSETVEDENAGDVIYMTE--PLNR 658


>gi|170736644|ref|YP_001777904.1| XRE family transcriptional regulator [Burkholderia cenocepacia
          MC0-3]
 gi|169818832|gb|ACA93414.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
          MC0-3]
          Length = 111

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 4/83 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR+R  R+  G+SQE+LG   GI       +V +YE G +         +++VL  P SF
Sbjct: 13 KRLREARLRSGLSQEQLGIEAGIDEFSASARVNQYETGKHAPKLQTAHRLAQVLHVPTSF 72

Query: 73 FFDVSPTVCSDISSEENNVMDFI 95
           ++ +  +   + +      D +
Sbjct: 73 LYESNDLLARLLVAAAPLPQDSL 95


>gi|332363707|gb|EGJ41487.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK49]
          Length = 168

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 32/74 (43%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    D
Sbjct: 6  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLED 65

Query: 76 VSPTVCSDISSEEN 89
                  + SE+ 
Sbjct: 66 SDKAELKPVLSEDE 79


>gi|325687772|gb|EGD29793.1| phage transcriptional repressor [Streptococcus sanguinis SK72]
 gi|327461118|gb|EGF07451.1| phage transcriptional repressor [Streptococcus sanguinis SK1057]
          Length = 242

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/91 (18%), Positives = 40/91 (43%), Gaps = 7/91 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
           GKR++ +R+  GM+Q ++ + + I       +E G  +     L  ++ +L    ++F  
Sbjct: 17  GKRLKQKRIEKGMTQAEIADIIRINRSSYNSWESGRAKPNQKNLSALASILGVSDTYFES 76

Query: 74  -FDVSPTVCS----DISSEENNVMDFISTPD 99
            +D+          +    +N V D + + +
Sbjct: 77  EYDIMNHYLQLNPMNQQKADNYVEDLLQSQE 107


>gi|300117865|ref|ZP_07055632.1| putative transcriptional regulator PlcR [Bacillus cereus SJ1]
 gi|298724729|gb|EFI65404.1| putative transcriptional regulator PlcR [Bacillus cereus SJ1]
          Length = 285

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R + G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGNEIKKIRTMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|229829704|ref|ZP_04455773.1| hypothetical protein GCWU000342_01801 [Shuttleworthia satelles
          DSM 14600]
 gi|229791693|gb|EEP27807.1| hypothetical protein GCWU000342_01801 [Shuttleworthia satelles
          DSM 14600]
          Length = 141

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 27/65 (41%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            R    +SQE+L E +G++ Q + KYE G +     + + +++     I          
Sbjct: 9  ELRKYHDLSQEELAEKIGVSRQTLSKYETGESLPDIEKGKLLADAFGVSIDDLISYDKNK 68

Query: 81 CSDIS 85
            ++ 
Sbjct: 69 EDNLG 73


>gi|220908478|ref|YP_002483789.1| XRE family transcriptional regulator [Cyanothece sp. PCC 7425]
 gi|219865089|gb|ACL45428.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 7425]
          Length = 158

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 36/73 (49%), Gaps = 2/73 (2%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQ 60
                PNP D  + + IR  R+ LG+SQ+++ +  GI  Q + K E+G   R+     +
Sbjct: 4  SEQANAPNP-DETLAQYIRRIRLSLGLSQKEVADKAGIHLQSLGKIERGHTTRLNQKPKR 62

Query: 61 HISEVLESPISFF 73
           ++  L  PI + 
Sbjct: 63 GLAYALGLPIEYL 75


>gi|118444657|ref|YP_877308.1| DNA-binding protein [Clostridium novyi NT]
 gi|118135113|gb|ABK62157.1| DNA-binding protein, putative [Clostridium novyi NT]
          Length = 185

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 40/92 (43%), Gaps = 6/92 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G++++  R+  G++Q  L     ++   + + E+ +     + L  I E L + +  
Sbjct: 7   MNIGEKLKQLRIEKGLTQMDLASRCELSKGFISQLERDLTSPSIATLVDILECLGTNLKD 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           FF+         S E+      I   +  +LN
Sbjct: 67  FFNNDEEEKIVFSKED------IFEAEDTELN 92


>gi|115379556|ref|ZP_01466646.1| transcriptional regulator, XRE family [Stigmatella aurantiaca
           DW4/3-1]
 gi|310821728|ref|YP_003954086.1| XRE family transcriptional regulator [Stigmatella aurantiaca
           DW4/3-1]
 gi|115363441|gb|EAU62586.1| transcriptional regulator, XRE family [Stigmatella aurantiaca
           DW4/3-1]
 gi|309394800|gb|ADO72259.1| Transcriptional regulator, XRE family [Stigmatella aurantiaca
           DW4/3-1]
          Length = 284

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 28/119 (23%), Positives = 53/119 (44%), Gaps = 6/119 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VGK +R  R+  G+S E+L +  G++   + + E G +    + L  I+  L+ P S   
Sbjct: 104 VGKNLRRLRIQRGLSLERLSKASGVSRAMLGQIELGQSAPTINVLWKIARALDLPFSALI 163

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI-VSSEKK 132
             S    + +          +++ DG   +R     D+ + R +  EL  S+   SE++
Sbjct: 164 SNSGGAGTRLMRAPQ--AKRLTSHDGRFTSRALFPFDEPR-RVEFYEL--SLKAHSEER 217


>gi|110680995|ref|YP_684002.1| DNA-binding protein [Roseobacter denitrificans OCh 114]
 gi|109457111|gb|ABG33316.1| DNA-binding protein [Roseobacter denitrificans OCh 114]
          Length = 229

 Score = 58.3 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/90 (18%), Positives = 38/90 (42%), Gaps = 2/90 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R   G++  +L    GI+   + K E G      + LQ ++  L  P+
Sbjct: 41  LEVAIGREVRGHRKQHGITVAELSALTGISIGMLSKIENGNTSPSLTTLQTLAHALSVPL 100

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           + FF         + +     ++     +G
Sbjct: 101 TSFFRRFEESRVAVHTRAGEGVEI--DREG 128


>gi|228998574|ref|ZP_04158161.1| hypothetical protein bmyco0003_31350 [Bacillus mycoides Rock3-17]
 gi|228761042|gb|EEM10001.1| hypothetical protein bmyco0003_31350 [Bacillus mycoides Rock3-17]
          Length = 143

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/89 (14%), Positives = 33/89 (37%), Gaps = 6/89 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R +  ++Q+ L + +  T   +  YE G +      L+ ++ +L     +    
Sbjct: 3   ERLKEARKMRKLTQQGLADKVNATKGTISNYENGHSTPSNEMLKDLANILGVTTDYLLGR 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNR 105
              +       E      ++  D   + R
Sbjct: 63  DDELGPSNQLPE------LTKKDTRDIAR 85


>gi|224541161|ref|ZP_03681700.1| hypothetical protein CATMIT_00314 [Catenibacterium mitsuokai DSM
           15897]
 gi|224525912|gb|EEF95017.1| hypothetical protein CATMIT_00314 [Catenibacterium mitsuokai DSM
           15897]
          Length = 319

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 26/110 (23%), Positives = 43/110 (39%), Gaps = 9/110 (8%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+L   LG++ Q V K+E   +     R+  +SE+      +     
Sbjct: 6   KIIEERKKNGWSQEELASKLGVSRQAVSKWESSGSIPDLQRILQMSELFGVTTDYLLKDE 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR-QKIIELVRSI 126
                     E   +  +S  +    NRY     D+K R  +I+    S+
Sbjct: 66  IEEERQNEYVETKTIK-VSMEEA---NRYL----DMKSRGSRIVANATSL 107


>gi|118472940|ref|YP_888581.1| regulatory protein [Mycobacterium smegmatis str. MC2 155]
 gi|118174227|gb|ABK75123.1| regulatory protein [Mycobacterium smegmatis str. MC2 155]
          Length = 192

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/111 (17%), Positives = 39/111 (35%), Gaps = 3/111 (2%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + VD  V +R+R  R   G++ E +     I    + + E G  R+    L  ++  L  
Sbjct: 8   HDVDALVRQRLRELRTERGLTLEDVASRAQIDVSTLSRLESGKRRLALDHLPRLATALSV 67

Query: 69  PISFFF---DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
                    +         ++  +N+  +  T  G     +  +I   + R
Sbjct: 68  TTDDLLRAPEAEDPRVRGTATTRDNITYWPLTRHGPANGLHAYKIRISEQR 118


>gi|300825209|ref|ZP_07105298.1| helix-turn-helix protein [Escherichia coli MS 119-7]
 gi|300522328|gb|EFK43397.1| helix-turn-helix protein [Escherichia coli MS 119-7]
 gi|323968639|gb|EGB64044.1| helix-turn-helix protein [Escherichia coli M863]
          Length = 216

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 20/88 (22%), Positives = 46/88 (52%), Gaps = 1/88 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
           +G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+  
Sbjct: 6   LGIRLKRLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYLL 65

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
           + VS T  + + +     + ++S  + +
Sbjct: 66  YGVSSTEPTLVQNNSGTQIPYLSWGEAI 93


>gi|295104278|emb|CBL01822.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii SL3/3]
          Length = 120

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GKRIR  R+  GM+QE+L   +G+    +   E G +      L  I   L+    
Sbjct: 7  IGKRIRACRLAKGMTQEQLANEVGVVVTHISHIETGNSVPSLKTLIDIINALDCSAD 63


>gi|238059861|ref|ZP_04604570.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
          39149]
 gi|237881672|gb|EEP70500.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
          39149]
          Length = 74

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 32/82 (39%), Gaps = 9/82 (10%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          MV   K+ N         IR  R   G M+Q +L + +G+T Q +   E+G         
Sbjct: 1  MVKPTKVTNS--------IRALRFANGEMTQAELADRVGVTRQTIIAIEQGRYSPSLEVA 52

Query: 60 QHISEVLESPISFFFDVSPTVC 81
            I+ V   P+   F+   +  
Sbjct: 53 FQIARVFNVPLDDVFEYPSSEE 74


>gi|257064537|ref|YP_003144209.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
 gi|256792190|gb|ACV22860.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
          Length = 149

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 27/62 (43%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            R   G++Q++L   L +T Q V ++E G        ++ ++  L  P+    ++    
Sbjct: 9  QLRSDRGLTQQELANKLYVTRQAVSRWETGETTPNVDMIKLLAVTLGVPVGVLLEMPEHF 68

Query: 81 CS 82
          C 
Sbjct: 69 CQ 70


>gi|188587862|ref|YP_001920327.1| DNA-binding protein [Clostridium botulinum E3 str. Alaska E43]
 gi|188498143|gb|ACD51279.1| DNA-binding protein [Clostridium botulinum E3 str. Alaska E43]
          Length = 179

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 39/81 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR+ RM   ++QE+L     ++   + + E  +     + L  I E+L + ++ 
Sbjct: 1  MQIGEKIRVLRMEKQLTQEELANRCELSKGFISQLENDLTSPSIATLMDILEILGTNLNE 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  +       S+++    D
Sbjct: 61 FFSETKEEQVIFSNDDMFKTD 81


>gi|330960406|gb|EGH60666.1| DNA-binding protein [Pseudomonas syringae pv. maculicola str.
           ES4326]
          Length = 189

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 20/100 (20%), Positives = 37/100 (37%), Gaps = 1/100 (1%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           PV  +V + +R  R    +SQ  L +  G++ + +   E G   V  + L  ++E L+  
Sbjct: 10  PVLQHVSQNVRRLRNAADLSQTALADKSGVSRRMLVAIEAGEKNVSLATLDRVAEALDVA 69

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
            S     +P         E       +    + L R   +
Sbjct: 70  FSDLIQ-APDSRDHSRINELAWEGTCAGSKAVLLARAIAR 108


>gi|325479315|gb|EGC82411.1| DNA-binding helix-turn-helix protein [Anaerococcus prevotii
          ACS-065-V-Col13]
          Length = 177

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 29/55 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G +Q+ L   +G++   + + E G+++     L+ I++VL   ++
Sbjct: 4  ENIKRLRKEKGFTQKDLAVKVGVSITFISQIENGISKPSDENLKKIADVLGVTVN 58


>gi|256545793|ref|ZP_05473149.1| Xre family toxin-antitoxin system, antitoxin component
           [Anaerococcus vaginalis ATCC 51170]
 gi|256398489|gb|EEU12110.1| Xre family toxin-antitoxin system, antitoxin component
           [Anaerococcus vaginalis ATCC 51170]
          Length = 144

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 28/65 (43%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +++ +  RIR  R    +SQ KL + +G+  + +  YE             I +VL+  
Sbjct: 77  DMEVEIENRIREFRKEKNLSQHKLAKLVGLKRRSIMAYENNTISPSLETAYKICKVLDKD 136

Query: 70  ISFFF 74
           I   F
Sbjct: 137 IKEVF 141


>gi|269124939|ref|YP_003298309.1| XRE family transcriptional regulator [Thermomonospora curvata DSM
          43183]
 gi|268309897|gb|ACY96271.1| transcriptional regulator, XRE family [Thermomonospora curvata
          DSM 43183]
          Length = 188

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 31/92 (33%), Gaps = 1/92 (1%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   +    P+   +   IR  R   G+S  +L +  GI    + + E G        L 
Sbjct: 1  MAEGRPTA-PLLAQIAASIRRERERAGLSLSELAKRAGIAKSTLSQLESGSGNPSVETLW 59

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENNVM 92
           ++  L  P S   D        I + E   +
Sbjct: 60 ALAVALGVPFSRLVDPPRPRVRVIRAGEGPAV 91


>gi|225405507|ref|ZP_03760696.1| hypothetical protein CLOSTASPAR_04727 [Clostridium asparagiforme
           DSM 15981]
 gi|225042960|gb|EEG53206.1| hypothetical protein CLOSTASPAR_04727 [Clostridium asparagiforme
           DSM 15981]
          Length = 398

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/104 (21%), Positives = 40/104 (38%), Gaps = 8/104 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G  I   R   G++QE+L   +G++   V K+E G +      L  I+      I  
Sbjct: 1   MNIGATIVNLRREKGVTQEQLARAVGVSKPAVSKWETGQSCPDIQLLAPIARYFGVTIDA 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ--------LNRYFI 108
               + T+  + +      +  I   +G Q        L R + 
Sbjct: 61  LLSFTRTLSREEADRLAKEVPGIFEQEGFQAGMERCASLVREYP 104


>gi|118480383|ref|YP_897534.1| transcription activator PlcR [Bacillus thuringiensis str. Al
          Hakam]
 gi|196045523|ref|ZP_03112754.1| putative transcriptional regulator PlcR [Bacillus cereus 03BB108]
 gi|225867332|ref|YP_002752710.1| putative transcriptional regulator PlcR [Bacillus cereus 03BB102]
 gi|229187576|ref|ZP_04314716.1| hypothetical protein bcere0004_51090 [Bacillus cereus BGSC 6E1]
 gi|118419608|gb|ABK88027.1| transcription activator PlcR [Bacillus thuringiensis str. Al
          Hakam]
 gi|196023730|gb|EDX62406.1| putative transcriptional regulator PlcR [Bacillus cereus 03BB108]
 gi|225786453|gb|ACO26670.1| putative transcriptional regulator PlcR [Bacillus cereus 03BB102]
 gi|228595943|gb|EEK53623.1| hypothetical protein bcere0004_51090 [Bacillus cereus BGSC 6E1]
          Length = 285

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R + G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGNEIKKIRTMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|330683978|gb|EGG95740.1| DNA-binding helix-turn-helix protein [Staphylococcus epidermidis
          VCU121]
          Length = 179

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 34/81 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R I  ++QE+L E   ++   + + E            +I EVL +  S 
Sbjct: 1  MEIGYKLKNLRKIKNLTQEELAERTDLSKGYISQIESQNASPSMETFLNILEVLGTSASD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  +         EE  + D
Sbjct: 61 FFKETEQQKVIYKKEEQIIYD 81


>gi|315658589|ref|ZP_07911460.1| cro/CI family transcriptional regulator [Staphylococcus
          lugdunensis M23590]
 gi|315496378|gb|EFU84702.1| cro/CI family transcriptional regulator [Staphylococcus
          lugdunensis M23590]
          Length = 179

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 37/81 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +++  RM+  ++QE+L E   +T   + + E            +I EVL +  S 
Sbjct: 1  MDIGMKLKNLRMLKNLTQEELAERTDLTKGYISQIESQHASPSMETFLNILEVLGTRPSD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF          ++E+  + D
Sbjct: 61 FFQEKTKEKVLYTAEDQTIYD 81


>gi|332655107|ref|ZP_08420848.1| DNA-binding protein [Ruminococcaceae bacterium D16]
 gi|332515967|gb|EGJ45576.1| DNA-binding protein [Ruminococcaceae bacterium D16]
          Length = 316

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 34/68 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  I   R   G++Q++L + L ++ Q V K+E+G+N    + L+ +S+ L   +S    
Sbjct: 15 GALIGQARREKGLTQKELAQALHVSPQAVSKWERGLNFPDLALLEALSDQLGLTVSELLS 74

Query: 76 VSPTVCSD 83
           +P     
Sbjct: 75 GTPGEPPQ 82


>gi|304413958|ref|ZP_07395375.1| putative prophage repressor CI [Candidatus Regiella insecticola
          LSR1]
 gi|304283678|gb|EFL92073.1| putative prophage repressor CI [Candidatus Regiella insecticola
          LSR1]
          Length = 215

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/67 (19%), Positives = 32/67 (47%), Gaps = 1/67 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  R+R RR  LG++Q+ L + +  + Q +++ E G  +     L  ++  L   + +
Sbjct: 1  MSIADRVRSRRTELGLTQKDLAKRVDTSQQAIEQLENGKTK-RPRYLPELANALNCQLYW 59

Query: 73 FFDVSPT 79
            +    
Sbjct: 60 LLNGGEH 66


>gi|296284192|ref|ZP_06862190.1| hypothetical protein CbatJ_11236 [Citromicrobium bathyomarinum
           JL354]
          Length = 230

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/119 (15%), Positives = 52/119 (43%), Gaps = 17/119 (14%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            + ++++L R +  ++QE L +  G++ + ++K E G +R     L+ I+  ++  ++ F
Sbjct: 10  YIAEQVKLIRKMFSLTQENLADAAGLSSRTIEKIESGRHRPEIQTLRSIARAVQFDVNVF 69

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ--IDDVKVRQKIIELVRSIVSSE 130
              SP       S               ++ R F +  +  +   + + + + ++ + +
Sbjct: 70  AKPSPEEEERQKS---------------EMLRAFRKTVVAPINPVRTVNDFLHALEARD 113


>gi|289551090|ref|YP_003471994.1| hypothetical protein SLGD_01777 [Staphylococcus lugdunensis
          HKU09-01]
 gi|289180622|gb|ADC87867.1| hypothetical protein SLGD_01777 [Staphylococcus lugdunensis
          HKU09-01]
          Length = 179

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 37/81 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +++  RM+  ++QE+L E   +T   + + E            +I EVL +  S 
Sbjct: 1  MDIGMKLKNLRMLKNLTQEELAERTDLTKGYISQIESQHASPSMETFLNILEVLGTRPSD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF          ++E+  + D
Sbjct: 61 FFQEKTKEKVLYTAEDQTIYD 81


>gi|271961986|ref|YP_003336182.1| XRE family transcriptional regulator [Streptosporangium roseum
          DSM 43021]
 gi|270505161|gb|ACZ83439.1| putative transcriptional regulator, XRE family [Streptosporangium
          roseum DSM 43021]
          Length = 189

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 4/75 (5%)

Query: 1  MVGNKKIPNPV-DI---NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA 56
          M    + P P  DI   +VG+RIR  R   G+S  +L    G+    +   E G      
Sbjct: 7  MDSGTQSPRPARDIGTPDVGQRIRRLREERGISLSELARRAGVGKATLSGLENGTRNPTL 66

Query: 57 SRLQHISEVLESPIS 71
            L  ++  L  P++
Sbjct: 67 ETLWAVTAQLGVPLA 81


>gi|111020517|ref|YP_703489.1| transcriptional regulator [Rhodococcus jostii RHA1]
 gi|110820047|gb|ABG95331.1| possible transcriptional regulator [Rhodococcus jostii RHA1]
          Length = 206

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 35/93 (37%), Gaps = 7/93 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R++  R    ++ + L    GIT   + K E+       + L  I   L  P+   F
Sbjct: 18  IGPRLKAARQAQRLTLDDLAASCGITKGYLSKIERDHASASVATLVRICAALNIPVGSLF 77

Query: 75  DVSPTVC-------SDISSEENNVMDFISTPDG 100
           + S             IS     + +F+ TP G
Sbjct: 78  ESSAAGEVVRADNYPPISFGGERMAEFLLTPFG 110


>gi|328944742|gb|EGG38903.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1087]
          Length = 168

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 32/74 (43%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    D
Sbjct: 6  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKVVELSKIFQVTTDYLLLED 65

Query: 76 VSPTVCSDISSEEN 89
                  + SE+ 
Sbjct: 66 SDKPKIKPVLSEDE 79


>gi|268610412|ref|ZP_06144139.1| transcriptional regulator, XRE family protein [Ruminococcus
          flavefaciens FD-1]
          Length = 252

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I   R   GMSQE+L E + +T Q V ++E G  +     L+ +S++ +  I+
Sbjct: 7  ILELRNKKGMSQEQLAEKVFVTRQAVSRWETGETQPNTETLKLLSQLFDVSIN 59


>gi|239760526|gb|ACS15169.1| hypothetical protein [Campylobacter fetus subsp. venerealis NCTC
           10354]
 gi|299469437|emb|CBH51838.1| hypothetical protein [Campylobacter fetus subsp. fetus]
          Length = 229

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 39/89 (43%), Gaps = 3/89 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
           G ++R  R   G++Q + G+ +GI+  +V  YE  +  +       I+E     I +F  
Sbjct: 7   GDKLRKLRNAYGLTQSEFGDKIGISRVRVNSYENNITPLPMQVKYKIAEATGINIEYFDN 66

Query: 74  -FDVSPTVCSDISSEENNVMDFISTPDGL 101
             D++  +     S EN  +   +  + +
Sbjct: 67  DIDLATAISKYGISSENGKLQIKTNKETI 95


>gi|254390836|ref|ZP_05006047.1| regulatory protein [Streptomyces clavuligerus ATCC 27064]
 gi|326444447|ref|ZP_08219181.1| putative XRE family transcriptional regulator [Streptomyces
          clavuligerus ATCC 27064]
 gi|197704534|gb|EDY50346.1| regulatory protein [Streptomyces clavuligerus ATCC 27064]
          Length = 199

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 35/91 (38%), Gaps = 1/91 (1%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +  I   +D  VG R+R  R   G+S   + E  GI+   + + E G  R     L 
Sbjct: 1  MKQSPAISQVLD-EVGPRLRWLRTQRGVSLTAIAEATGISKSTLSRLESGQRRPSLELLL 59

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENNV 91
           I++  + P+             I +   +V
Sbjct: 60 PIAQAHQVPLDELVGAPEVGDPRIRTSPRSV 90


>gi|52143615|ref|YP_083215.1| transcriptional regulator [Bacillus cereus E33L]
 gi|51977084|gb|AAU18634.1| conserved hypothetical protein; possible transcriptional
          regulator [Bacillus cereus E33L]
          Length = 146

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 32/59 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G++++  R   G+SQE + + +G+T Q V K+E   +      L  +SE+    + 
Sbjct: 1  MSLGEQLKKLRESKGISQEDVAKKIGVTRQAVYKWENDKSCPDIDNLILLSEMYNVTLD 59


>gi|331086629|ref|ZP_08335706.1| hypothetical protein HMPREF0987_02009 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|330409795|gb|EGG89230.1| hypothetical protein HMPREF0987_02009 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 193

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 34/71 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  IR  R+  G++Q++L E L ++ + + K+E        S ++ +++ L   ++  F 
Sbjct: 6  GNTIRTLRIKHGITQKELAEKLNVSDKTISKWETEKGLPDISIVEELAKALHVSLTELFT 65

Query: 76 VSPTVCSDISS 86
                 ++S 
Sbjct: 66 GDLKTNENVSG 76


>gi|196036534|ref|ZP_03103929.1| putative transcriptional regulator PlcR [Bacillus cereus W]
 gi|228949071|ref|ZP_04111343.1| hypothetical protein bthur0007_51920 [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
 gi|195990867|gb|EDX54840.1| putative transcriptional regulator PlcR [Bacillus cereus W]
 gi|228810644|gb|EEM56993.1| hypothetical protein bthur0007_51920 [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
          Length = 285

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R + G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGNEIKKIRTMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|241207203|ref|YP_002978299.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240861093|gb|ACS58760.1| transcriptional regulator, XRE family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 188

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 31/86 (36%), Gaps = 3/86 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R    ++ + L    G++   + + E+      AS L  I   L   +S FF
Sbjct: 9   IGIRIRTLRQEKALTLDDLAAASGVSRAMISRIERAEASPTASLLARICAALGLSLSAFF 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
                       +E  V      P+ 
Sbjct: 69  AEDGQASPLARRQEQQV---WRDPET 91


>gi|134300420|ref|YP_001113916.1| XRE family transcriptional regulator [Desulfotomaculum reducens
          MI-1]
 gi|134053120|gb|ABO51091.1| transcriptional regulator, XRE family [Desulfotomaculum reducens
          MI-1]
          Length = 71

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 2/63 (3%)

Query: 19 IRLRR--MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          IR  R   +  ++Q  L + +GI   Q+ + E+GV +   +    IS+VL+ P+   F +
Sbjct: 5  IREARTNRLFKITQNDLAKAVGIHPSQMSQIERGVYKPSLTLALKISKVLKVPLDDLFKL 64

Query: 77 SPT 79
           P 
Sbjct: 65 EPE 67


>gi|134298619|ref|YP_001112115.1| XRE family transcriptional regulator [Desulfotomaculum reducens
          MI-1]
 gi|134051319|gb|ABO49290.1| transcriptional regulator, XRE family [Desulfotomaculum reducens
          MI-1]
          Length = 69

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 29/67 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R  L ++QE+L + LG++ Q V   E G           I+++    I   FD 
Sbjct: 3  NRLRELRNELNITQEQLADKLGVSRQTVISIENGKYNPSLILAYKIAKIFAISIEEAFDF 62

Query: 77 SPTVCSD 83
          S     +
Sbjct: 63 SEVGMDE 69


>gi|223933601|ref|ZP_03625581.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
 gi|302024367|ref|ZP_07249578.1| DNA-binding protein [Streptococcus suis 05HAS68]
 gi|330833364|ref|YP_004402189.1| XRE family transcriptional regulator [Streptococcus suis ST3]
 gi|223897727|gb|EEF64108.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
 gi|329307587|gb|AEB82003.1| transcriptional regulator, XRE family [Streptococcus suis ST3]
          Length = 62

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 30/58 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R++LG+SQ  L + +G++ Q V   E            ++++ L++ ++  F
Sbjct: 2  NRVKDYRLLLGISQLDLAKAIGVSRQTVNMIENNKYNPSLDLCINLAKALQTDLNSLF 59


>gi|332655055|ref|ZP_08420796.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
 gi|332515915|gb|EGJ45524.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
          Length = 101

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 28/59 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GKRI+  R   G++QE+L E LG+    + + E G   +       +    E+ + + F
Sbjct: 39 GKRIKALRKEHGLTQEQLAEQLGVAANTIARIETGNRGISIDLAIELVVRFETTLDYIF 97


>gi|227513202|ref|ZP_03943251.1| transcriptional regulator [Lactobacillus buchneri ATCC 11577]
 gi|227083583|gb|EEI18895.1| transcriptional regulator [Lactobacillus buchneri ATCC 11577]
          Length = 132

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 12/76 (15%), Positives = 30/76 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + ++ G R++  R    ++QE+LG+ + ++   +  YEK +       L  ++       
Sbjct: 2  IHLDFGTRLKQLRTEHKLTQEELGKKINVSKASISLYEKNLREPSKDSLVTLANFFNVST 61

Query: 71 SFFFDVSPTVCSDISS 86
           +    +        S
Sbjct: 62 DYLLGNTIDRNGHTPS 77


>gi|260589804|ref|ZP_05855717.1| putative helix-turn-helix protein [Blautia hansenii DSM 20583]
 gi|260539845|gb|EEX20414.1| putative helix-turn-helix protein [Blautia hansenii DSM 20583]
          Length = 336

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 33/85 (38%), Gaps = 1/85 (1%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+L E +G++ Q + K+E   +    +R+  +SEV      +     
Sbjct: 6   KIVNLRKRAGWSQEELAEKMGVSRQSISKWEGAQSVPDMNRILKLSEVFCVSTDYLLRDD 65

Query: 78  PTVCSDISSEENNVMDFISTP-DGL 101
                 I +          +  + L
Sbjct: 66  IEEVPCIVNPLEEAEPLEDSKGETL 90


>gi|221194780|ref|ZP_03567837.1| helix-turn-helix domain protein [Atopobium rimae ATCC 49626]
 gi|221185684|gb|EEE18074.1| helix-turn-helix domain protein [Atopobium rimae ATCC 49626]
          Length = 364

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 37/89 (41%), Gaps = 2/89 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I   R   G SQE+L   L ++ Q V K+E         ++  +SE+      +
Sbjct: 1  MLLSEKIMSLRKRNGWSQEELARQLNVSRQSVSKWESMAAMPDIQKIMAMSELFGVSTDY 60

Query: 73 FF--DVSPTVCSDISSEENNVMDFISTPD 99
              ++     +  S +   +    +TP+
Sbjct: 61 LLKDEMEDLPATATSLDSAELSSESATPE 89


>gi|126737472|ref|ZP_01753207.1| DNA-binding protein, putative [Roseobacter sp. SK209-2-6]
 gi|126722057|gb|EBA18760.1| DNA-binding protein, putative [Roseobacter sp. SK209-2-6]
          Length = 193

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 33/87 (37%), Gaps = 4/87 (4%)

Query: 1  MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M   KK    P+   +G R+R  R    ++ ++L    G++   + + E+         L
Sbjct: 1  MDDQKKRETQPI---IGARMRELRKAKHLTLKQLAAETGLSIGYLSQLERQDADPSIRAL 57

Query: 60 QHISEVLESPISFFFDVSPTVCSDISS 86
            I + L   I++FF          + 
Sbjct: 58 NVIGKALGVGINWFFPGPEDQEGPEAG 84


>gi|91780942|ref|YP_556149.1| anaerobic benzoate catabolism transcriptional regulator
           [Burkholderia xenovorans LB400]
 gi|91693602|gb|ABE36799.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia xenovorans LB400]
          Length = 323

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 24/99 (24%), Positives = 44/99 (44%), Gaps = 4/99 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
             +PV   + +RIR  R   GM++++L    G++   + + E G   V  S LQ +S  L
Sbjct: 19  ASDPVLSELARRIRTLRAQRGMTRKQLALQSGVSIPHLARIESGEGNVSVSLLQKLSVAL 78

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
             PI        +  +D++     ++ F+      +L R
Sbjct: 79  NLPIQDLLADGSSQNADLT----MLIQFLKQQTPAELAR 113


>gi|330808460|ref|YP_004352922.1| XRE family transcriptional regulator [Pseudomonas brassicacearum
          subsp. brassicacearum NFM421]
 gi|327376568|gb|AEA67918.1| Putative transcription factor, Xre family [Pseudomonas
          brassicacearum subsp. brassicacearum NFM421]
          Length = 104

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 31/71 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R + G++Q +LGE  G   + + ++E G        L  ++ VL+  +  FF
Sbjct: 6  LGPAIRRYRKVAGLTQAELGEKTGFDPKTISRFETGTYTPSVEALFLLANVLDVQLKAFF 65

Query: 75 DVSPTVCSDIS 85
                    +
Sbjct: 66 ADMGDEDEQRA 76


>gi|323693691|ref|ZP_08107890.1| hypothetical protein HMPREF9475_02753 [Clostridium symbiosum
           WAL-14673]
 gi|323502305|gb|EGB18168.1| hypothetical protein HMPREF9475_02753 [Clostridium symbiosum
           WAL-14673]
          Length = 112

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 32/58 (55%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            ++G+ +++ R    M+QE + E +G++ Q V K+E G +    S L  ++++    +
Sbjct: 47  KSLGEALKVHRTQCKMTQEFVAETIGVSRQAVSKWENGTSDPSTSNLFALAKLYGISV 104


>gi|282882924|ref|ZP_06291529.1| DNA-binding protein [Peptoniphilus lacrimalis 315-B]
 gi|300814135|ref|ZP_07094418.1| helix-turn-helix protein [Peptoniphilus sp. oral taxon 836 str.
          F0141]
 gi|281297335|gb|EFA89826.1| DNA-binding protein [Peptoniphilus lacrimalis 315-B]
 gi|300511792|gb|EFK39009.1| helix-turn-helix protein [Peptoniphilus sp. oral taxon 836 str.
          F0141]
          Length = 179

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 37/82 (45%), Gaps = 2/82 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R+  G++QE+L     +T   + + E+ +       L  I E L +  S 
Sbjct: 1  MEIGNKIKELRVASGLTQEELATRSELTKGFISQIERDLTSPSVDSLLDILEALGTSPSE 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
          FF  S      I   E++  ++
Sbjct: 61 FF--SKDKNERIIFSEDDYFEY 80


>gi|167771744|ref|ZP_02443797.1| hypothetical protein ANACOL_03116 [Anaerotruncus colihominis DSM
           17241]
 gi|167666384|gb|EDS10514.1| hypothetical protein ANACOL_03116 [Anaerotruncus colihominis DSM
           17241]
          Length = 132

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 28/113 (24%), Positives = 43/113 (38%), Gaps = 4/113 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I   R    ++Q +L E L IT Q V K+E G      S LQ + + L   ++  F
Sbjct: 6   IGAFIAQCRKEKSLTQIQLAELLDITNQAVSKWENGRGMPDVSLLQPLCDALGISLNELF 65

Query: 75  DVSPTVCSD-ISSEENNVMDFISTPDGLQL--NRYFIQI-DDVKVRQKIIELV 123
                   +     E N+           L   +Y   I  +V +   +IEL 
Sbjct: 66  SGEHISAEEYKGKAEENISKLYKEKQIANLKPIKYLFSICSNVTLLVAVIELA 118


>gi|186473005|ref|YP_001860347.1| XRE family transcriptional regulator [Burkholderia phymatum
          STM815]
 gi|184195337|gb|ACC73301.1| transcriptional regulator, XRE family [Burkholderia phymatum
          STM815]
          Length = 199

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/94 (19%), Positives = 40/94 (42%), Gaps = 3/94 (3%)

Query: 9  NPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +DI+  + +R+R  R   G+S E L E  G++   +   E+  +   A+ L  ++  L
Sbjct: 2  DFMDIHSLIARRVRELRDGHGLSLEALAERSGVSRSNISLIERARSSPTAAVLDKLATAL 61

Query: 67 ESPISFFFDVS-PTVCSDISSEENNVMDFISTPD 99
             ++  F+   P+  +             + P+
Sbjct: 62 GVTLASLFEAPAPSAQTPSPLSRAATQAVWTDPE 95


>gi|329915926|ref|ZP_08276315.1| Transcriptional regulator [Oxalobacteraceae bacterium IMCC9480]
 gi|327544831|gb|EGF30214.1| Transcriptional regulator [Oxalobacteraceae bacterium IMCC9480]
          Length = 355

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+   R   G+S  ++G  +G+T   V+KYE       ++ L  ++  L     +FF
Sbjct: 2  IGRRLSRARKAAGLSLREVGAQIGLTHASVKKYEDEQATPTSATLIKLARALNVRTEYFF 61


>gi|312961080|ref|ZP_07775585.1| helix-turn-helix domain protein [Pseudomonas fluorescens WH6]
 gi|311284738|gb|EFQ63314.1| helix-turn-helix domain protein [Pseudomonas fluorescens WH6]
          Length = 113

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/121 (17%), Positives = 47/121 (38%), Gaps = 16/121 (13%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P    +G+ I   R    ++QE++ E LGI  + + + E+GV  +   +L  ++++ + 
Sbjct: 5   HPTQAQIGRMIAKHRTERNLTQEEVAERLGIGSEAISRLERGVVELSVVKLMQLADIFDC 64

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            +      S    +D       ++  +   D     R F           I+  V  + +
Sbjct: 65  RMDELLTESSNRPNDQGQMIAGLLSGLKESD-----RAF-----------ILATVEQLAA 108

Query: 129 S 129
            
Sbjct: 109 H 109


>gi|295106679|emb|CBL04222.1| transcriptional regulator, XRE family [Gordonibacter pamelaeae
          7-10-1-b]
          Length = 76

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 2/71 (2%)

Query: 9  NPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +  DI   +G RI+  R   G+SQE+    +G++     + E G   V A  L+ I++ L
Sbjct: 2  HDYDIRSKIGLRIKELRAERGVSQEEFANLIGMSRSYFGEVETGKRNVAAVNLEKIAKGL 61

Query: 67 ESPISFFFDVS 77
             ++ FFD  
Sbjct: 62 GVSLAEFFDSE 72


>gi|283479895|emb|CAY75811.1| putative HTH-type transcriptional regulatory protein Memar_2347
          [Erwinia pyrifoliae DSM 12163]
 gi|283479904|emb|CAY75820.1| putative HTH-type transcriptional regulatory protein Memar_2347
          [Erwinia pyrifoliae DSM 12163]
          Length = 142

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G RI   R    ++Q +L E LGI  Q +  YE G  +V A+ L  ++++L   + 
Sbjct: 34 KQLGARIAQSRKEQQLTQTQLAEQLGIAQQTMAHYEGGKLKVSAALLPQLAQILNLSLD 92


>gi|222147111|ref|YP_002548068.1| transcriptional regulatory protein [Agrobacterium vitis S4]
 gi|221734101|gb|ACM35064.1| transcriptional regulatory protein [Agrobacterium vitis S4]
          Length = 194

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/102 (16%), Positives = 40/102 (39%), Gaps = 3/102 (2%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           +  P+ + + +  R++  R   G++ ++L +  G++   + + E+      A+ L  +  
Sbjct: 2   ENTPDTLTLAIAARLKAIRTARGLTLDQLADLSGVSRAMISRIERAEASPTATLLARLCS 61

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
            L   +S FF         +   +  V      P+   L R 
Sbjct: 62  ALGQSLSIFFAEPNHGSPLMRHADQPV---WQDPETGYLRRA 100


>gi|84499416|ref|ZP_00997704.1| transcriptional regulator, putative [Oceanicola batsensis
          HTCC2597]
 gi|84392560|gb|EAQ04771.1| transcriptional regulator, putative [Oceanicola batsensis
          HTCC2597]
          Length = 442

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 30/75 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR RR ++ M Q  L   +GI+   +   E    R+G   L  I+ VL        
Sbjct: 7  IGSRIRERRTMVAMRQADLARKVGISASYLNLIEHNRRRIGGKLLLDIAAVLGVEPVHLS 66

Query: 75 DVSPTVCSDISSEEN 89
          + +         E +
Sbjct: 67 EGAEAALVATLREAS 81


>gi|149203543|ref|ZP_01880513.1| DNA-binding protein, putative [Roseovarius sp. TM1035]
 gi|149143376|gb|EDM31415.1| DNA-binding protein, putative [Roseovarius sp. TM1035]
          Length = 190

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 34/71 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G  +R  R   G++   L E LG +   + + E+ ++    S L+ ++EVL  P+S 
Sbjct: 10 RSLGADLRALRKARGLTLAALAEMLGRSVGWLSQVERDLSEPSISDLRQVAEVLGVPMSL 69

Query: 73 FFDVSPTVCSD 83
           F  +     +
Sbjct: 70 LFGHASAPAEE 80


>gi|147677406|ref|YP_001211621.1| transcriptional regulator [Pelotomaculum thermopropionicum SI]
 gi|146273503|dbj|BAF59252.1| hypothetical transcriptional regulator [Pelotomaculum
           thermopropionicum SI]
          Length = 255

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 38/84 (45%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++R  R   G++Q +L    G+T   + + E+G  +     L+ I+EV+     +F 
Sbjct: 139 LGCKLRALREEYGLTQAQLASMAGVTAGLIGQIEQGKVQPSLKTLEKIAEVMGVTPCYFI 198

Query: 75  DVSPTVCSDISSEENNVMDFISTP 98
             S  V   +S     V D +  P
Sbjct: 199 MESGAVDQMLSVMNPEVRDLLMHP 222



 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 29/57 (50%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +G +IR+ R    MS ++L +  GI+   + + E+G      + L+ I+  L  P +
Sbjct: 74  LGDKIRMLRAEKNMSLQELAQASGISLSYLSEIERGTVYPALTTLKRIAAGLSVPPA 130



 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 22/53 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G++IR  R   G + + L     ++   + + E+G  R     +  ++  L  
Sbjct: 5  GEQIRALREERGYTLQDLARRTNLSLSYLSEIERGSKRPSLKTIDKLAAALNV 57


>gi|24112291|ref|NP_706801.1| transcriptional repressor DicA [Shigella flexneri 2a str. 301]
 gi|24051146|gb|AAN42508.1| similar to DicA, regulator of DicB encoded by prophage [Shigella
           flexneri 2a str. 301]
 gi|281600240|gb|ADA73224.1| putative regulator [Shigella flexneri 2002017]
 gi|313650353|gb|EFS14762.1| HTH-type transcriptional regulator dicA [Shigella flexneri 2a str.
           2457T]
 gi|320175554|gb|EFW50649.1| transcriptional repressor DicA [Shigella dysenteriae CDC 74-1112]
 gi|320187224|gb|EFW61923.1| transcriptional repressor DicA [Shigella flexneri CDC 796-83]
 gi|323175040|gb|EFZ60654.1| HTH-type transcriptional regulator dicA [Escherichia coli LT-68]
          Length = 135

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/110 (19%), Positives = 48/110 (43%), Gaps = 3/110 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+  RR  L +SQ  LG+ + +    + ++E+   +    RL  +S+ L+   ++   
Sbjct: 7   GARLLHRRKKLKLSQAALGKLVKVAHVTISQWERDETQPAGKRLFALSQALQCSPTWLLF 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
                       +N     I T D  +L + F  + + + ++ ++  +R+
Sbjct: 67  GDEDKQPGEPIPDNQPA--ILTEDQKELLQLFDALPESE-QKALLSEMRA 113


>gi|84515360|ref|ZP_01002722.1| transcriptional regulator, XRE family [Loktanella vestfoldensis
           SKA53]
 gi|84510643|gb|EAQ07098.1| transcriptional regulator, XRE family [Loktanella vestfoldensis
           SKA53]
          Length = 130

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 24/126 (19%), Positives = 52/126 (41%), Gaps = 17/126 (13%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R   G+SQ+ L + LG+ F  +  +E       A+RLQ ++ +L   + +   
Sbjct: 17  GDRLAGAREAAGLSQKDLAKSLGVKFATLVSWENDTGEPRANRLQMLAGMLGVSLGWLM- 75

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS---IVSSEKK 132
              T   D  +  ++  +  +    L            ++R+   ++V++   +   EK+
Sbjct: 76  ---TGLGDGLAAPDDATEIPANVAVLM----------QEMRRLRAQMVQTLDKMGQVEKQ 122

Query: 133 YRTIEE 138
            +T   
Sbjct: 123 LQTALR 128


>gi|324997834|ref|ZP_08118946.1| XRE family transcriptional regulator [Pseudonocardia sp. P1]
          Length = 187

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 32/86 (37%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+R+R  R   G+S   L    GI    + + E G      S L  ++  L  P+S   
Sbjct: 10  VGERLRSARTAHGLSVGALAARAGIGKGSLSELENGSRNPTLSTLYALANTLGLPVSHLL 69

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
             +             +++  +  +G
Sbjct: 70  AETVGAEVGAPGIGTRLLETRTDDEG 95


>gi|310830110|ref|YP_003962467.1| toxin-antitoxin system [Eubacterium limosum KIST612]
 gi|308741844|gb|ADO39504.1| toxin-antitoxin system [Eubacterium limosum KIST612]
          Length = 110

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 7/89 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ IR  R+   ++Q +L E + IT   +   E+G +      L  ISE LE P+S   
Sbjct: 6   IGRHIREARLDKKLTQYQLAERVHITPNYLSMLERGTHLPKLETLITISEALEVPVSALL 65

Query: 75  DVSPTVCSDISSEENNVMDFISTP-DGLQ 102
              P           + + F+ST  +GL 
Sbjct: 66  TDFPVESF------TSRIHFLSTAMEGLD 88


>gi|228907545|ref|ZP_04071402.1| hypothetical protein bthur0013_17120 [Bacillus thuringiensis IBL
          200]
 gi|228852037|gb|EEM96834.1| hypothetical protein bthur0013_17120 [Bacillus thuringiensis IBL
          200]
          Length = 146

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G++++  R   G SQE + + +G+T Q V K+E   +      L  +SE+    + 
Sbjct: 1  MSIGEQLKKLRESKGFSQEDVAKKIGVTRQAVYKWENDKSYPDIDNLILLSEMYNVTLD 59


>gi|148258862|ref|YP_001243447.1| putative transcriptional regulator [Bradyrhizobium sp. BTAi1]
 gi|146411035|gb|ABQ39541.1| putative transcriptional regulator [Bradyrhizobium sp. BTAi1]
          Length = 112

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 34/70 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + +R++  R + G+SQ  + + LG+    + + E G  RV A  L  ++E  +  +++
Sbjct: 1  MQIAERLKEARKLAGLSQSHVAKMLGLHRPSISEMEAGNRRVSADELARLAETYDVSVAW 60

Query: 73 FFDVSPTVCS 82
              +P    
Sbjct: 61 LLGEAPETLD 70


>gi|86138085|ref|ZP_01056660.1| DNA-binding protein, putative [Roseobacter sp. MED193]
 gi|85825112|gb|EAQ45312.1| DNA-binding protein, putative [Roseobacter sp. MED193]
          Length = 221

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 32/72 (44%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+++R  R    ++   L E  G++   + K E GV     + LQ +++ L  P+
Sbjct: 33  LEVAIGRQVRELRKRQRLTGANLAELTGLSVGMLSKIENGVISPSLNTLQVLADALRVPL 92

Query: 71  SFFFDVSPTVCS 82
              F        
Sbjct: 93  MQLFSGFEEARG 104


>gi|325695326|gb|EGD37226.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK150]
 gi|332365308|gb|EGJ43071.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1059]
          Length = 168

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 33/74 (44%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    D
Sbjct: 6  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKVVELSKIFQVTTDYLLLED 65

Query: 76 VSPTVCSDISSEEN 89
           +      + SE+ 
Sbjct: 66 SNKPEIKPVLSEDE 79


>gi|325689190|gb|EGD31197.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK115]
          Length = 168

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 32/74 (43%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    D
Sbjct: 6  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLED 65

Query: 76 VSPTVCSDISSEEN 89
                  + SE+ 
Sbjct: 66 SDKPEIKPVLSEDE 79


>gi|331650420|ref|ZP_08351492.1| Helix-turn-helix-containing protein [Escherichia coli M605]
 gi|331040814|gb|EGI12972.1| Helix-turn-helix-containing protein [Escherichia coli M605]
          Length = 265

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 42/90 (46%), Gaps = 4/90 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
             I+  R  L ++Q +L   +G + QQ+Q+ E G         Q I   L+ P++  F  
Sbjct: 4   NNIKQLRTQLSITQRELAFMVGTSQQQIQRIETGKVAAKLGLAQAICNALDKPLNVVFPE 63

Query: 77  SPTVCSDISSEE---NNVMDFISTPDGLQL 103
           S  + +D   +    +  ++ I+T  G+++
Sbjct: 64  SDRLINDFRKKRRKTDEDLEAIATS-GIEM 92


>gi|262283651|ref|ZP_06061416.1| XRE family transcriptional regulator [Streptococcus sp.
          2_1_36FAA]
 gi|262260708|gb|EEY79409.1| XRE family transcriptional regulator [Streptococcus sp.
          2_1_36FAA]
          Length = 167

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 32/74 (43%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    D
Sbjct: 6  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLED 65

Query: 76 VSPTVCSDISSEEN 89
                  + SE+ 
Sbjct: 66 SDKPEIKPVLSEDE 79


>gi|300024625|ref|YP_003757236.1| XRE family transcriptional regulator [Hyphomicrobium
          denitrificans ATCC 51888]
 gi|299526446|gb|ADJ24915.1| transcriptional regulator, XRE family [Hyphomicrobium
          denitrificans ATCC 51888]
          Length = 217

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 30/66 (45%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + ++  +G ++R  R   G++  +L     I+   + K E G      S LQ ++  L  
Sbjct: 30 HTLEQAIGHQVRHHRKQAGLTVAELAVAAQISPGMLSKIENGQISPSLSTLQMLAAALNV 89

Query: 69 PISFFF 74
          P++  F
Sbjct: 90 PLTVLF 95


>gi|227485105|ref|ZP_03915421.1| possible transcriptional regulator [Anaerococcus lactolyticus
          ATCC 51172]
 gi|227236938|gb|EEI86953.1| possible transcriptional regulator [Anaerococcus lactolyticus
          ATCC 51172]
          Length = 67

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 28/64 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+ +  RIR  R  +G+SQ  L + +G+  + +  YE             I +V +  I
Sbjct: 1  MDVLIENRIREFRKEMGLSQNALAKMVGLKRRSIMAYESNTISPTLETAYKICKVFDKDI 60

Query: 71 SFFF 74
             F
Sbjct: 61 KEVF 64


>gi|297190678|ref|ZP_06908076.1| transcriptional regulator [Streptomyces pristinaespiralis ATCC
          25486]
 gi|197719901|gb|EDY63809.1| transcriptional regulator [Streptomyces pristinaespiralis ATCC
          25486]
          Length = 202

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 25/59 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG R+R  R   G++   L    G++   + + E G  R     L  ++ + + P+   
Sbjct: 13 VGPRLRALRRDRGITLADLAATTGVSESTLSRLESGQRRPSLELLLPLARIYDVPLDDL 71


>gi|187778278|ref|ZP_02994751.1| hypothetical protein CLOSPO_01870 [Clostridium sporogenes ATCC
           15579]
 gi|187771903|gb|EDU35705.1| hypothetical protein CLOSPO_01870 [Clostridium sporogenes ATCC
           15579]
          Length = 180

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 32/75 (42%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I +G +I+  R    ++QE+LG+ +G+T   V  YE    +     L  I++       F
Sbjct: 34  ILLGDKIKKLRKSKNITQEELGKNIGVTTSMVGMYETNARKPSYEVLIKIADFFCVSTDF 93

Query: 73  FFDVSPTVCSDISSE 87
             +    +   + S 
Sbjct: 94  LLNTEEKLDMALDSA 108


>gi|118617359|ref|YP_905691.1| transcriptional regulator [Mycobacterium ulcerans Agy99]
 gi|118569469|gb|ABL04220.1| transcriptional regulator [Mycobacterium ulcerans Agy99]
          Length = 180

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 12/72 (16%), Positives = 30/72 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G++ E+L +  G+T   + K E+G +    +    ++  L+  +   F    
Sbjct: 5  LRAVRRQRGLTLEQLAQRAGLTKSYLSKIERGQSTPSIAVALKVARALDVDVGRLFSDES 64

Query: 79 TVCSDISSEENN 90
             +  +   ++
Sbjct: 65 AHETITADRAHD 76


>gi|298250743|ref|ZP_06974547.1| transcriptional regulator, XRE family [Ktedonobacter racemifer
          DSM 44963]
 gi|297548747|gb|EFH82614.1| transcriptional regulator, XRE family [Ktedonobacter racemifer
          DSM 44963]
          Length = 850

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G R+R  R+ L +SQE L E L I+ + ++++E+G     AS    +S         
Sbjct: 1  MHFGNRLRQERLRLHLSQEALAEALAISARSIRRWEQGQALPQASVRLQLSRFFGLRSEA 60

Query: 73 FFDVSPTVCSD 83
           F+   T    
Sbjct: 61 LFEDEETQTPH 71


>gi|257141046|ref|ZP_05589308.1| DNA-binding protein [Burkholderia thailandensis E264]
          Length = 193

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 24/131 (18%), Positives = 51/131 (38%), Gaps = 12/131 (9%)

Query: 1   MVGNKKIPNPVDINV--GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
           MV + +   P +  V  G +IR  R  L  + ++     GI+   + + E+G+     + 
Sbjct: 1   MVPSTENTRPANAGVALGSKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSITS 60

Query: 59  LQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFI 108
           L  I+  L   + +F +      S    ++     F  +          P+G QL    +
Sbjct: 61  LAGIAHALGVTVQYFVETPSEERSVCRGDQLRFFSFADSANLFARLTNVPEGRQLEAILV 120

Query: 109 QIDDVKVRQKI 119
           ++   + R ++
Sbjct: 121 RMPPGQKRSEV 131


>gi|327463455|gb|EGF09774.1| Cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK1057]
          Length = 167

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    +
Sbjct: 6  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLEE 65

Query: 76 VSPTVCSDISSEEN 89
                  + SE+ 
Sbjct: 66 SDKPEIKPVLSEDE 79


>gi|237736543|ref|ZP_04567024.1| transcriptional regulator [Fusobacterium mortiferum ATCC 9817]
 gi|229420405|gb|EEO35452.1| transcriptional regulator [Fusobacterium mortiferum ATCC 9817]
          Length = 183

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 31/68 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R   G+S  +L   + ++   + + E+G        L+ I+  L+  +S+  
Sbjct: 4  IGERIKKSRNDRGLSLRELATKVELSASFLSQIEQGKASPSIENLKKIATSLDVKVSYLI 63

Query: 75 DVSPTVCS 82
          +      +
Sbjct: 64 EDEEEKQN 71


>gi|223982789|ref|ZP_03633015.1| hypothetical protein HOLDEFILI_00289 [Holdemania filiformis DSM
          12042]
 gi|223965236|gb|EEF69522.1| hypothetical protein HOLDEFILI_00289 [Holdemania filiformis DSM
          12042]
          Length = 87

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 35/59 (59%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+RIR+ R    ++QE+L E +G++ Q +   E    ++G  +++ I++ L+  + 
Sbjct: 7  VLLGRRIRILRKYRKLTQEQLAEVVGLSIQHLSNAENARTKLGFPKIKSIADTLDVSLD 65


>gi|114769447|ref|ZP_01447073.1| DNA-binding protein, putative [alpha proteobacterium HTCC2255]
 gi|114550364|gb|EAU53245.1| DNA-binding protein, putative [alpha proteobacterium HTCC2255]
          Length = 206

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/95 (18%), Positives = 38/95 (40%), Gaps = 9/95 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ ++  R    M+   L    G++   + K E G      + LQ +++ L  PI+  F
Sbjct: 22  IGREVKSHRRQRSMTVADLAASTGLSIGMLSKIENGNTSASLNTLQTLADALMIPITSLF 81

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
                       E +   +   + +G++L R   +
Sbjct: 82  RGY---------ESSRTAEHTKSGEGVELERAGTR 107


>gi|323350704|ref|ZP_08086365.1| XRE family transcriptional regulator [Streptococcus sanguinis
          VMC66]
 gi|322123124|gb|EFX94815.1| XRE family transcriptional regulator [Streptococcus sanguinis
          VMC66]
          Length = 169

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 33/74 (44%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    D
Sbjct: 7  KLFELRKEKGWSQEKLAEQINVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLED 66

Query: 76 VSPTVCSDISSEEN 89
           +      + SE+ 
Sbjct: 67 SNKPEIKPVLSEDE 80


>gi|311071151|ref|YP_003976074.1| phage element (ICEBs1)transcriptional regulator (Xre family)
           protein [Bacillus atrophaeus 1942]
 gi|310871668|gb|ADP35143.1| phage element (ICEBs1)transcriptional regulator (Xre family)
           protein [Bacillus atrophaeus 1942]
          Length = 127

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/92 (18%), Positives = 40/92 (43%), Gaps = 3/92 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G +++  R   G++Q++L E L ++   + ++EK      +  L  I+   +  I F
Sbjct: 1   MSFGHKLKTLRKQRGLTQKELAEKLFLSQSSITRFEKDEILPTSETLSKIANYFDVSIDF 60

Query: 73  FFDVSPTVC---SDISSEENNVMDFISTPDGL 101
             D         S++    N  ++ +   + L
Sbjct: 61  LLDRPQPPQKKNSNLEKAFNEAIEELKDEETL 92


>gi|264680621|ref|YP_003280531.1| hypothetical protein CtCNB1_4489 [Comamonas testosteroni CNB-2]
 gi|262211137|gb|ACY35235.1| hypothetical protein CtCNB1_4489 [Comamonas testosteroni CNB-2]
          Length = 104

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 40/81 (49%), Gaps = 1/81 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISF 72
          ++G+RIR RR  LG+SQ +L +   +T   + + E G  R +    L  ++  L++    
Sbjct: 3  HLGERIRARRQALGLSQGRLAQMADVTASAISQIESGAIRTLKNDTLARLAIALQTTALE 62

Query: 73 FFDVSPTVCSDISSEENNVMD 93
                +  + + S+E  ++D
Sbjct: 63 LMAGLHSETASLPSDEQRLLD 83


>gi|212710082|ref|ZP_03318210.1| hypothetical protein PROVALCAL_01135 [Providencia alcalifaciens
          DSM 30120]
 gi|212687289|gb|EEB46817.1| hypothetical protein PROVALCAL_01135 [Providencia alcalifaciens
          DSM 30120]
          Length = 111

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 36/70 (51%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K+    +   +GK ++  R+  G+S E + + LGI+ QQ+ +YE+G N +    L     
Sbjct: 3  KEKLYYISQLIGKCMQEYRIEKGVSGECVAKKLGISQQQLSRYERGENALTVDVLFKYLL 62

Query: 65 VLESPISFFF 74
          ++E     F+
Sbjct: 63 IIEVNFPDFY 72


>gi|170699135|ref|ZP_02890189.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           IOP40-10]
 gi|170135930|gb|EDT04204.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           IOP40-10]
          Length = 108

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 25/110 (22%), Positives = 49/110 (44%), Gaps = 12/110 (10%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGA 56
           M G+  IP+       +R++  R+  G++QE+LG   GI       +V +YEKG +    
Sbjct: 1   MPGDTTIPS----VFSQRLKQARLRSGLTQEQLGIQAGIDEFSASARVNQYEKGKHTPTV 56

Query: 57  SRLQHISEVLESPISFFFDVSPTVCSDISS----EENNVMDFISTPDGLQ 102
              Q ++  L  P SF ++    + S ++      +      +++ + L 
Sbjct: 57  QTSQRLARALLVPTSFLYEEDDLLASLLAIAGRLSKEKKRALVASAEALA 106


>gi|326388769|ref|ZP_08210357.1| transcriptional regulator [Novosphingobium nitrogenifigens DSM
           19370]
 gi|326206743|gb|EGD57572.1| transcriptional regulator [Novosphingobium nitrogenifigens DSM
           19370]
          Length = 243

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 30/72 (41%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P  ++  +G R+R  R    +S   L    G++   + K E G      + +  ++  L 
Sbjct: 49  PRALEKALGARVRQLRRQQDLSVADLAGAAGLSTGMLSKIENGQISASLTSIHSLALALN 108

Query: 68  SPISFFFDVSPT 79
            PIS  F ++  
Sbjct: 109 VPISSLFALAEE 120


>gi|317494934|ref|ZP_07953343.1| hypothetical protein HMPREF0864_04113 [Enterobacteriaceae bacterium
           9_2_54FAA]
 gi|316917076|gb|EFV38426.1| hypothetical protein HMPREF0864_04113 [Enterobacteriaceae bacterium
           9_2_54FAA]
          Length = 120

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 25/106 (23%), Positives = 52/106 (49%), Gaps = 10/106 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           KR+R  R   G+SQEKL + + I    +  ++  YE G      S +  I+ +L+ P  +
Sbjct: 4   KRLREAREAAGISQEKLSQLIDIDGKNSRSRLSSYEVGRTEPPFSLVVKIARLLDYPEYY 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           F+ V   +  ++     N ++    P+  +  +Y+   ++ K+R++
Sbjct: 64  FYTVDDDMAKNMLEVHRNRVN----PE--ENLQYYTLEENKKLRKQ 103


>gi|310829543|ref|YP_003961900.1| Methylase involved in ubiquinone/menaquinone biosynthesis
          [Eubacterium limosum KIST612]
 gi|308741277|gb|ADO38937.1| Methylase involved in ubiquinone/menaquinone biosynthesis
          [Eubacterium limosum KIST612]
          Length = 380

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 24/54 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          RI   R   G+SQ+ L   +G+T Q V K+E G        L  ++   E  + 
Sbjct: 7  RIGTLRKQKGISQKMLAGAIGVTPQSVSKWETGAALPDIGLLPALATFFEVSVD 60


>gi|303241951|ref|ZP_07328444.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
           CD2]
 gi|302590506|gb|EFL60261.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
           CD2]
          Length = 103

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 25/95 (26%), Positives = 41/95 (43%), Gaps = 4/95 (4%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N +D  +GKRI+  R   G+S  KL    GI+   + + E  +    A  L  I + L  
Sbjct: 2   NNID--LGKRIKELRKQSGLSTTKLSNLTGISSGYISELENNLKSPSAEILLKIIDALNI 59

Query: 69  PI-SFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            + SFF++      S    E       +S+ + L+
Sbjct: 60  TVASFFYEFPSEPLSSDLKELVTAAKDLSS-ENLE 93


>gi|301056818|ref|YP_003795029.1| transcriptional activator [Bacillus anthracis CI]
 gi|300378987|gb|ADK07891.1| transcriptional activator [Bacillus cereus biovar anthracis str.
          CI]
          Length = 289

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R + G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGNEIKKIRTMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|295705479|ref|YP_003598554.1| DNA-binding protein [Bacillus megaterium DSM 319]
 gi|294803138|gb|ADF40204.1| DNA-binding protein [Bacillus megaterium DSM 319]
          Length = 181

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 33/62 (53%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I++GK++   R   G+S  +L +   IT   + + E+G+     S L+ +++ L+ P  
Sbjct: 3  NIDIGKKVEKFRKEKGLSSRELAKLADITPSMLSQIERGLANPSISTLKLLAKSLDVPTF 62

Query: 72 FF 73
           F
Sbjct: 63 SF 64


>gi|291543870|emb|CBL16979.1| Predicted transcriptional regulators [Ruminococcus sp. 18P13]
          Length = 194

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 20/54 (37%), Positives = 29/54 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          G  IR  R+  GM+Q  L E LG++ + V K+E+G      S L  +S+ LE  
Sbjct: 7  GSLIRRLRLEQGMTQLALAERLGVSDKAVSKWERGCGAPDLSILPLLSQALEVD 60


>gi|283851802|ref|ZP_06369079.1| transcriptional regulator, XRE family [Desulfovibrio sp. FW1012B]
 gi|283572718|gb|EFC20701.1| transcriptional regulator, XRE family [Desulfovibrio sp. FW1012B]
          Length = 186

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 28/67 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R+R  R + G S E L E  G++  QV +YE G   +  S L  +++     ++ 
Sbjct: 9  REIAMRLRGIREVTGFSAEALAEATGVSPAQVLQYETGETEIPVSYLYEVAKACGVDLTA 68

Query: 73 FFDVSPT 79
                 
Sbjct: 69 LLTGDEA 75


>gi|227519556|ref|ZP_03949605.1| phage-like protein [Enterococcus faecalis TX0104]
 gi|257090840|ref|ZP_05585201.1| conserved hypothetical protein [Enterococcus faecalis CH188]
 gi|312902475|ref|ZP_07761681.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|227073005|gb|EEI10968.1| phage-like protein [Enterococcus faecalis TX0104]
 gi|256999652|gb|EEU86172.1| conserved hypothetical protein [Enterococcus faecalis CH188]
 gi|310634145|gb|EFQ17428.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|315579716|gb|EFU91907.1| helix-turn-helix protein [Enterococcus faecalis TX0630]
          Length = 184

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/112 (19%), Positives = 43/112 (38%), Gaps = 16/112 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R++ +R+   M+Q  +    GI+ +     E G N     +L  I++ L   + +  
Sbjct: 9   VGTRMKQKRLEKKMTQVDVATKSGISSKYYGSIENGKNSPSIEKLSAIAKALGCSLHYL- 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                  +D   +  N +      +  +L   F +I   K     + LV  +
Sbjct: 68  ------LNDRMEDTENRVAV----ETKRLQEIFNKIPRDK-----LSLVEGL 104


>gi|225378376|ref|ZP_03755597.1| hypothetical protein ROSEINA2194_04037 [Roseburia inulinivorans DSM
           16841]
 gi|225209813|gb|EEG92167.1| hypothetical protein ROSEINA2194_04037 [Roseburia inulinivorans DSM
           16841]
          Length = 118

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 20/98 (20%), Positives = 41/98 (41%), Gaps = 2/98 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G RI++RR  L + Q +L E L I+   +   E G  +        I   L     +
Sbjct: 6   KEMGTRIKVRRKELKIKQAELAEALEISNNHMSSTENGRQKPSLDTFIGICRCLNVTPDY 65

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
              +      +I  + ++ +   +  D ++L + FI++
Sbjct: 66  LL-LGTMHAYNIPQDISDKLRLCNQSD-IELAKDFIEL 101


>gi|153812180|ref|ZP_01964848.1| hypothetical protein RUMOBE_02577 [Ruminococcus obeum ATCC 29174]
 gi|149831835|gb|EDM86921.1| hypothetical protein RUMOBE_02577 [Ruminococcus obeum ATCC 29174]
          Length = 208

 Score = 57.9 bits (139), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 1/61 (1%)

Query: 11 VD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VD + +G  ++  R   G+ QE+L E L ++ + V ++E G N    S L  I++  +  
Sbjct: 8  VDQVKIGNFLKKLRKEKGIIQEQLAEILNVSGRTVSRWETGNNMPDISILVDIADYYDIS 67

Query: 70 I 70
          I
Sbjct: 68 I 68


>gi|312831462|emb|CBY17644.1| putative transcription factor [Sinorhizobium meliloti]
          Length = 198

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 28/123 (22%), Positives = 54/123 (43%), Gaps = 12/123 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLE-S 68
           +D  +   ++  R   G+S+  L   LG++     +YE+G   R+   RL H+ E++   
Sbjct: 73  MDEKISAWLKQTREAKGISRADLAHLLGLSVSVYGRYERGSEARLSIPRLIHLCEIMGFM 132

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           P+   FD++P +      E  +          L L +   Q+    +R  +I L+R +  
Sbjct: 133 PLDVIFDIAPHLWGKTLQEAEDR---------LTLTKLVEQLPQDTMRD-LIRLLRRMTP 182

Query: 129 SEK 131
            E+
Sbjct: 183 GEQ 185


>gi|269126718|ref|YP_003300088.1| XRE family transcriptional regulator [Thermomonospora curvata DSM
          43183]
 gi|268311676|gb|ACY98050.1| transcriptional regulator, XRE family [Thermomonospora curvata
          DSM 43183]
          Length = 478

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 1/65 (1%)

Query: 7  IPNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          + + VD +  G+R+R  R   GM+   LG  +G    Q+   E G      S L+ ++  
Sbjct: 1  MSSDVDLVTFGQRLRHLRRARGMTLADLGAKVGRAPSQLSLLENGRREPKLSLLKSLAAA 60

Query: 66 LESPI 70
          LE P+
Sbjct: 61 LEVPV 65


>gi|261366132|ref|ZP_05979015.1| toxin-antitoxin system, antitoxin component, Xre family
           [Subdoligranulum variabile DSM 15176]
 gi|282572066|gb|EFB77601.1| toxin-antitoxin system, antitoxin component, Xre family
           [Subdoligranulum variabile DSM 15176]
          Length = 116

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 29/58 (50%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
             +G+ +R  R    M+QE + E LG++ Q V K+E G +    + L  ++ +   P 
Sbjct: 51  RTLGEVLRQHRTDCRMTQEFVAESLGVSRQAVSKWESGKSDPSTTNLMALARLYGLPP 108


>gi|254474485|ref|ZP_05087871.1| transcriptional regulator, XRE family with cupin sensor [Ruegeria
          sp. R11]
 gi|214028728|gb|EEB69563.1| transcriptional regulator, XRE family with cupin sensor [Ruegeria
          sp. R11]
          Length = 204

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 34/94 (36%), Gaps = 3/94 (3%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   K I  P    VG  IR RR  L M+ + L +  G++   + + E+         L 
Sbjct: 1  MPQEKTIQEP---KVGPTIRKRRKQLNMTLQALCDASGVSVGYLSQVERDNATPSLGTLA 57

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENNVMDF 94
           I+  LE  + +F   S        +    +   
Sbjct: 58 QIAAALEVGLDYFISASKPSDGLTRAGSRPLFAL 91


>gi|315650501|ref|ZP_07903570.1| XRE family transcriptional regulator [Eubacterium saburreum DSM
          3986]
 gi|315487239|gb|EFU77552.1| XRE family transcriptional regulator [Eubacterium saburreum DSM
          3986]
          Length = 79

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 27/61 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I   R  LG+SQ +LG+ +G++   + + E G           I+  L   +   FD+  
Sbjct: 5  IERYRKPLGLSQHRLGKKVGVSRIAINRIETGKVTPSLRLANDIANALGVCLYDIFDLDD 64

Query: 79 T 79
          T
Sbjct: 65 T 65


>gi|255531894|ref|YP_003092266.1| helix-turn-helix domain-containing protein [Pedobacter heparinus
          DSM 2366]
 gi|255344878|gb|ACU04204.1| helix-turn-helix domain protein [Pedobacter heparinus DSM 2366]
          Length = 107

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 33/76 (43%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DIN+ +++R  R   G +Q  +   L I+     K E     +   RL+ ++ +L+  + 
Sbjct: 6  DINISQKLRALRKNRGWTQSDMAAQLDISVPAYSKIECAQTELTLGRLKLLATILKVKVC 65

Query: 72 FFFDVSPTVCSDISSE 87
          +  D    +    + E
Sbjct: 66 WLLDEEEAMLHQENEE 81


>gi|226322751|ref|ZP_03798269.1| hypothetical protein COPCOM_00523 [Coprococcus comes ATCC 27758]
 gi|225208912|gb|EEG91266.1| hypothetical protein COPCOM_00523 [Coprococcus comes ATCC 27758]
          Length = 313

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 34/75 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++  R    ++QE+L E   ++ + V ++E G+N    S L  ++E  +  I    
Sbjct: 6  IGAFLKQCRKEKNLTQEQLAEKFEVSARTVSRWETGINMPDLSILVQLAEYYDVEIRELL 65

Query: 75 DVSPTVCSDISSEEN 89
          D   +   +   +E 
Sbjct: 66 DGERSQTMNKEMKET 80


>gi|172034932|ref|YP_001801433.1| hypothetical protein cce_0015 [Cyanothece sp. ATCC 51142]
 gi|171696386|gb|ACB49367.1| unknown [Cyanothece sp. ATCC 51142]
          Length = 361

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/115 (16%), Positives = 47/115 (40%), Gaps = 8/115 (6%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M     + + +    G++++  R+I  +SQE+L E + +    +   E+G        ++
Sbjct: 1   MPSKLSMKDEILRQFGQKLQKWRLIQNLSQEQLAEIINVDRTYISLLERGKRNPSLICIK 60

Query: 61  HISEVLESPISFFF------DVSPTVCSDISSEENNVMDFISTPDGLQLNR--YF 107
            ++E L   ++         +     C   + +  N+ D ++ P  + + R   F
Sbjct: 61  SLAEALNINLNELILIPEWQENLQNFCHKYNIDMENLADVLNDPKVIPMIRGKAF 115


>gi|139437169|ref|ZP_01771329.1| Hypothetical protein COLAER_00308 [Collinsella aerofaciens ATCC
           25986]
 gi|133776816|gb|EBA40636.1| Hypothetical protein COLAER_00308 [Collinsella aerofaciens ATCC
           25986]
          Length = 208

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/106 (16%), Positives = 43/106 (40%), Gaps = 7/106 (6%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R+  G++Q +L + LGIT + V  +E G ++    +++ ++ + ++ ++      
Sbjct: 8   RLKRIRLDSGLTQAELADKLGITNRAVGAWESGRSKPRLDKMKELAVLFDTTVADLMGED 67

Query: 78  PTVCSDISSEE-------NNVMDFISTPDGLQLNRYFIQIDDVKVR 116
               +   +          ++ DF    +          I D   R
Sbjct: 68  AAEAAISGTSRMVPLLGFAHMGDFEDEGNLADEVEVPASIADAHPR 113


>gi|229514886|ref|ZP_04404346.1| hypothetical protein VCB_002537 [Vibrio cholerae TMA 21]
 gi|229521557|ref|ZP_04410976.1| hypothetical protein VIF_002094 [Vibrio cholerae TM 11079-80]
 gi|229525929|ref|ZP_04415334.1| hypothetical protein VCA_003576 [Vibrio cholerae bv. albensis
          VL426]
 gi|297579049|ref|ZP_06940977.1| fumarate reductase flavoprotein subunit [Vibrio cholerae RC385]
 gi|229339510|gb|EEO04527.1| hypothetical protein VCA_003576 [Vibrio cholerae bv. albensis
          VL426]
 gi|229341655|gb|EEO06658.1| hypothetical protein VIF_002094 [Vibrio cholerae TM 11079-80]
 gi|229347591|gb|EEO12550.1| hypothetical protein VCB_002537 [Vibrio cholerae TMA 21]
 gi|297536643|gb|EFH75476.1| fumarate reductase flavoprotein subunit [Vibrio cholerae RC385]
          Length = 151

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 39/77 (50%), Gaps = 6/77 (7%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G+ Q ++ E +G+T Q   K+E G N   AS ++ ++E+L+         + 
Sbjct: 9  LKEMREKAGLKQSEVAEYVGVTPQTYMKWENGKNEPKASNIKKLAEILKVS------ETE 62

Query: 79 TVCSDISSEENNVMDFI 95
              +   +E+N ++F+
Sbjct: 63 LCRGERFHKEDNPIEFM 79


>gi|332522147|ref|ZP_08398399.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
           Jelinkova 176]
 gi|332313411|gb|EGJ26396.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
           Jelinkova 176]
          Length = 138

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 15/86 (17%), Positives = 38/86 (44%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++  R+    SQ+ L + L I+ Q + K+E G +      L  ++E+ +  +      
Sbjct: 6   EQLKNYRLKKNYSQDALADRLFISRQAISKWENGDSTPDLENLVKLAEIFDVTLDQLVRG 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ 102
                S  +  ++   D ++  +G +
Sbjct: 66  KELASSHNNENDSEEDDNLNLLEGRE 91


>gi|315167306|gb|EFU11323.1| peptidase S24-like domain protein [Enterococcus faecalis TX1341]
          Length = 273

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 39/57 (68%), Gaps = 1/57 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLES 68
          +NVG+R++LRR  L +S +K+   LG++   + +YEKG + ++   RL  I+++L++
Sbjct: 32 MNVGERMKLRRKELNISADKIANELGVSRSTIFRYEKGDIEKLPTERLITIAKILKT 88


>gi|296269837|ref|YP_003652469.1| XRE family transcriptional regulator [Thermobispora bispora DSM
           43833]
 gi|296092624|gb|ADG88576.1| transcriptional regulator, XRE family [Thermobispora bispora DSM
           43833]
          Length = 490

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 24/142 (16%), Positives = 52/142 (36%), Gaps = 4/142 (2%)

Query: 3   GNKKIPNPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
               + + +D+   G+R++  R   G++   L E +G    Q+   E G      S L+ 
Sbjct: 8   EQLSLTHELDLLAFGQRLKHLRKQRGLTLADLAERVGRAPSQLSLLENGKREPKLSLLKS 67

Query: 62  ISEVLESPISFFF--DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           ++  L  P+                 + E    D +    GL   +   ++ + +V + I
Sbjct: 68  LATALNVPVEELLRRQAPNRRAQLEIALEEAQRDPLYMRLGLSKLKVSARVPN-EVLEHI 126

Query: 120 IELVRSIVSSEKKYRTIEEECM 141
           + L   + + + +     EE  
Sbjct: 127 LALYGELKARQARGTATPEEAR 148


>gi|291543170|emb|CBL16280.1| Predicted transcriptional regulators [Ruminococcus bromii L2-63]
          Length = 164

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 33/78 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GK I   R   G++QEKLGE +G+T + +  +E G        LQ +++     I+ 
Sbjct: 4  IKIGKFIATLRRQSGLTQEKLGEKIGVTNKTISPWENGNYMPDIEMLQLLAKEFNVSINE 63

Query: 73 FFDVSPTVCSDISSEENN 90
                    +     + 
Sbjct: 64 LLAGQKMSDEEFRKNADE 81


>gi|257062849|ref|YP_003142521.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
 gi|256790502|gb|ACV21172.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
          Length = 459

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 32/76 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  V +R+   R   G+SQE+L   LG++ Q V K+E+  +      L  ++++    +
Sbjct: 1  MNYEVAERLAELRRAKGLSQEELAHELGLSRQAVSKWERAESSPDTDNLIALAKLYGMTL 60

Query: 71 SFFFDVSPTVCSDISS 86
                         S
Sbjct: 61 DELVHGPAEAVGHADS 76


>gi|291287342|ref|YP_003504158.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
 gi|290884502|gb|ADD68202.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
          Length = 178

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 39/90 (43%), Gaps = 7/90 (7%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G ++R  R  L M+ E + +  G T   + + E G N    + L+ I   L + IS  F+
Sbjct: 4  GIKLREIRKKLSMTLEDISQKTGFTKSFISQIENGKNSPSIASLKKICYALGTTISELFE 63

Query: 76 VSPTVCSDISSEENNV-------MDFISTP 98
              + +  SS +  V       M F+++ 
Sbjct: 64 DERNIVNIFSSPDFKVFKNKSISMSFLASK 93


>gi|149020301|ref|ZP_01835193.1| prophage Sa05, DNA-binding protein [Streptococcus pneumoniae
           SP23-BS72]
 gi|147930603|gb|EDK81585.1| prophage Sa05, DNA-binding protein [Streptococcus pneumoniae
           SP23-BS72]
          Length = 198

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/113 (15%), Positives = 45/113 (39%), Gaps = 17/113 (15%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS----- 71
            R++  R    +SQ+++ E LG + +  Q+ E G +++   + Q +++     ++     
Sbjct: 2   NRLKELRQEKKLSQKEIAETLGFSLRSFQRMENGESQIKPEKAQLLADYFGVSVANLLGY 61

Query: 72  --FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
              F +    +     S+E     F          R + ++     R+ ++ L
Sbjct: 62  ENNFIESVKNLSQKDGSDEVFFKAF----------RAYYELKTADGRENLLTL 104


>gi|330976223|gb|EGH76285.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aptata str. DSM 50252]
          Length = 193

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 39/107 (36%), Gaps = 2/107 (1%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            N + P PV  +V + +R  R    +SQ  L E  G++ + +   E G   V  + L  +
Sbjct: 8   ENSQRP-PVLQHVSQNVRRLRNSADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRV 66

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           +E LE   S              +E         +   + L R   +
Sbjct: 67  AEALEVAFSDLIQAPENHDYSRINELAWAGTIAGSK-AVLLARAVAR 112


>gi|323142572|ref|ZP_08077388.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
 gi|322413005|gb|EFY03908.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
          Length = 125

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 11 VD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D + +G+RIR  R+  G SQ  LG  +G +   +   E G  +V  + L  ++ VLE  
Sbjct: 10 IDYVKIGQRIRAARLEKGYSQADLGALVGCSNNHMSHVEVGQTKVSLAMLLKLAFVLEKN 69

Query: 70 ISFFFDVSPTVCSD 83
            +F   +P    D
Sbjct: 70 FDYFLLDTPYAKCD 83


>gi|319744460|gb|EFV96817.1| phage transcriptional repressor [Streptococcus agalactiae ATCC
          13813]
          Length = 230

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 26/58 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G  ++  RM    SQ +L   L I      K+E G +      L  ++ +L+ P ++F
Sbjct: 4  GSNLKELRMEKQYSQSELANLLKINRASYNKWESGKSVPNQKNLSALARILDVPTTYF 61


>gi|295700971|ref|YP_003608864.1| XRE family transcriptional regulator [Burkholderia sp. CCGE1002]
 gi|295440184|gb|ADG19353.1| transcriptional regulator, XRE family [Burkholderia sp. CCGE1002]
          Length = 190

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 23/121 (19%), Positives = 45/121 (37%), Gaps = 7/121 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G +IR  R  L  + ++     GI+   + + E+G      S L  I++ L   + +F +
Sbjct: 15  GSKIRALRKRLQRTLDETATAAGISKPFLSQVERGHATPSISSLAGIAQALGVTMQYFVE 74

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRSIVSSEKKYR 134
                 S   ++E     F  +         F ++ +  V +++   LVR          
Sbjct: 75  TPTEAKSVRRADERQYFSFADS------ANQFARLTNAAVGRQLDAILVRMPAGQPPSEV 128

Query: 135 T 135
           T
Sbjct: 129 T 129


>gi|256422517|ref|YP_003123170.1| XRE family transcriptional regulator [Chitinophaga pinensis DSM
          2588]
 gi|256037425|gb|ACU60969.1| transcriptional regulator, XRE family [Chitinophaga pinensis DSM
          2588]
          Length = 97

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 26/90 (28%), Positives = 46/90 (51%), Gaps = 5/90 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+GK I+  R    ++Q++L E +GIT   +   E GV     + L+ I+  L S ++F
Sbjct: 1  MNIGKAIQTLRTKKNITQKELAEKIGITQTGLSYIETGVKHPSENSLEKIANALGSSVAF 60

Query: 73 F----FDVSPTVCSDISSEENNVM-DFIST 97
                D+   V  D  +E + +  DF++T
Sbjct: 61 IKLASLDLDKDVPQDKRAEFDELFPDFVAT 90


>gi|226310713|ref|YP_002770607.1| DNA-binding protein [Brevibacillus brevis NBRC 100599]
 gi|226093661|dbj|BAH42103.1| putative DNA-binding protein [Brevibacillus brevis NBRC 100599]
          Length = 203

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 29/59 (49%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + +R+R  R   G++QE+L E +  T   +  YE   +      L+ +++VL+    + 
Sbjct: 57  LSQRLRTARKTKGLTQEELAEHVCTTKGTISNYENNHSTPPNDMLRQLADVLDVTTDWL 115


>gi|226325758|ref|ZP_03801276.1| hypothetical protein COPCOM_03571 [Coprococcus comes ATCC 27758]
 gi|225205882|gb|EEG88236.1| hypothetical protein COPCOM_03571 [Coprococcus comes ATCC 27758]
          Length = 319

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/101 (17%), Positives = 43/101 (42%), Gaps = 10/101 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ +++ R   G++QE+L E L ++ + + ++E G N    S L  ++E     +    
Sbjct: 6   IGEFLKVLRKERGLTQEQLAEILLVSGRTISRWETGTNMPDLSILIKMAEFYNVEVKEIL 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
           D            E+   +     + L     + +++  +V
Sbjct: 66  DGE-------RKSESMDKEL---KETLSKVADYNKLEKERV 96


>gi|20808446|ref|NP_623617.1| transcriptional regulator [Thermoanaerobacter tengcongensis MB4]
 gi|20517063|gb|AAM25221.1| predicted Transcriptional regulator [Thermoanaerobacter
          tengcongensis MB4]
          Length = 127

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 38/79 (48%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   V   +G+R+   R   G ++E+    LGI+ +Q+ +YEKG  ++    L+ ++ + 
Sbjct: 1  MKEEVYREIGRRLWELRRQRGFTREQAARYLGISQKQLARYEKGREKISTDVLERLAGLY 60

Query: 67 ESPISFFFDVSPTVCSDIS 85
               +  D + +    I+
Sbjct: 61 GCDYKYLLDDNESSSEQIA 79


>gi|332655408|ref|ZP_08421147.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
 gi|332515703|gb|EGJ45314.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
          Length = 166

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 29/58 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+RI+  R   G++QE+L + +G++   V+ YE G+    +  +  +    +    + 
Sbjct: 2  GQRIQELRKDAGLTQEQLAQRIGVSMAAVRNYENGLREPNSKAMAALERFFKVSGEYL 59


>gi|253681413|ref|ZP_04862210.1| DNA-binding protein [Clostridium botulinum D str. 1873]
 gi|253561125|gb|EES90577.1| DNA-binding protein [Clostridium botulinum D str. 1873]
          Length = 179

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 39/87 (44%), Gaps = 5/87 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R+  G++Q  L     ++   + + E+ +     + L  I E L + +  
Sbjct: 1  MKIGEKLKQLRIEKGLTQMDLASRCELSKGFISQLERDLTSPSIATLVDILECLGTNLKD 60

Query: 73 FFDVSPTV-----CSDISSEENNVMDF 94
          FF+            DI   E+N +++
Sbjct: 61 FFNNDEEEKIVFSKEDIFESEDNELNY 87


>gi|229513255|ref|ZP_04402720.1| hypothetical protein VCB_000900 [Vibrio cholerae TMA 21]
 gi|229513261|ref|ZP_04402726.1| hypothetical protein VCB_000906 [Vibrio cholerae TMA 21]
 gi|229349665|gb|EEO14620.1| hypothetical protein VCB_000900 [Vibrio cholerae TMA 21]
 gi|229349671|gb|EEO14626.1| hypothetical protein VCB_000906 [Vibrio cholerae TMA 21]
          Length = 171

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 39/59 (66%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          + +++++G+ ++ RR+ LG+ QE + E +G+T Q + K+EK      AS++  +S++L 
Sbjct: 2  DYLNMSIGETLKNRRIELGIKQETIAEEMGVTVQTIYKWEKDTTEPKASQVSKLSKILR 60


>gi|326692328|ref|ZP_08229333.1| hypothetical protein LargK3_00985 [Leuconostoc argentinum KCTC
          3773]
          Length = 241

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 32/61 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+L R   G++Q  L + L I++Q V  +E+  ++  A  L  I E    P  F
Sbjct: 1  MTIGHQIKLLRQSKGLTQRDLADTLYISYQAVSNWERHQSQPTADMLLAILEKYHLPHDF 60

Query: 73 F 73
          F
Sbjct: 61 F 61


>gi|295101270|emb|CBK98815.1| Helix-turn-helix [Faecalibacterium prausnitzii L2-6]
          Length = 109

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 28/119 (23%), Positives = 50/119 (42%), Gaps = 21/119 (17%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            ++I +G  I++ R   G +Q+ L E LG+T   +   E+G + +    LQ +  +L   
Sbjct: 6   DINIEIGGNIQVAREQAGYTQDTLSEMLGMTPNHLSAIERGASGISLEALQRLCRLLGV- 64

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVRSI 126
                           +EE          + L L R   +I D   + RQ++ EL+ +I
Sbjct: 65  --------SADRIIFGTEEPE-------AEALALAR---RISDIKPEYRQQVQELLSAI 105


>gi|120401814|ref|YP_951643.1| hypothetical protein Mvan_0799 [Mycobacterium vanbaalenii PYR-1]
 gi|119954632|gb|ABM11637.1| protein of unknown function DUF955 [Mycobacterium vanbaalenii
           PYR-1]
          Length = 475

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 26/105 (24%), Positives = 38/105 (36%), Gaps = 14/105 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG RIR  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   FVGARIRQLRSERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRY 106
                T               D+  +   V D + +     L R 
Sbjct: 65  ASQDDTRLIAELREVLMDRDLDVDVDPAEVADMVGSH--PALARA 107


>gi|111019118|ref|YP_702090.1| DNA binding protein [Rhodococcus jostii RHA1]
 gi|110818648|gb|ABG93932.1| possible DNA binding protein [Rhodococcus jostii RHA1]
          Length = 470

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 24/101 (23%), Positives = 41/101 (40%), Gaps = 12/101 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G+SQ  L + L I+   + + E  V  +    L  ISEV     +FF
Sbjct: 5   FVGTRLRQLRTERGLSQAALAKTLEISASYLNQIEHDVRPLTVPVLLRISEVFGVDTTFF 64

Query: 74  F------------DVSPTVCSDISSEENNVMDFISTPDGLQ 102
                        +V+      I ++   + + +++  GL 
Sbjct: 65  SSQDDTRLIAEMREVALDQEMGIDADAQEIAEMVASHPGLA 105


>gi|41410057|ref|NP_962893.1| hypothetical protein MAP3959c [Mycobacterium avium subsp.
           paratuberculosis K-10]
 gi|41398890|gb|AAS06509.1| hypothetical protein MAP_3959c [Mycobacterium avium subsp.
           paratuberculosis K-10]
          Length = 506

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 30/131 (22%), Positives = 50/131 (38%), Gaps = 18/131 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 37  FVGSRVRQLRHERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 96

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               DI  +   V + +S   G  L R  + +     R+  I 
Sbjct: 97  SSQDDTRLVAELREVTMDRDLDIDVDPTEVAEMVSAHPG--LARAVVNL----HRRYRIT 150

Query: 122 LVRSIVSSEKK 132
             +   ++E++
Sbjct: 151 TAQLAAATEER 161


>gi|288924207|ref|ZP_06418242.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
 gi|288344443|gb|EFC78937.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
          Length = 208

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 25/57 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          V + IRL R   G+S  +L    G+  Q + K E+         L  I+  L  P++
Sbjct: 16 VARNIRLLRQQRGLSLAELARQAGLAKQTLSKLEQSSGNPTVDTLFSIASALGVPVT 72


>gi|237741587|ref|ZP_04572068.1| transcriptional regulator [Fusobacterium sp. 4_1_13]
 gi|237744995|ref|ZP_04575476.1| transcriptional regulator [Fusobacterium sp. 7_1]
 gi|256026806|ref|ZP_05440640.1| MerR family transcriptional regulator [Fusobacterium sp. D11]
 gi|260494772|ref|ZP_05814902.1| transcriptional regulator [Fusobacterium sp. 3_1_33]
 gi|289764802|ref|ZP_06524180.1| transcriptional regulator [Fusobacterium sp. D11]
 gi|294785805|ref|ZP_06751093.1| DNA-binding protein [Fusobacterium sp. 3_1_27]
 gi|229429235|gb|EEO39447.1| transcriptional regulator [Fusobacterium sp. 4_1_13]
 gi|229432224|gb|EEO42436.1| transcriptional regulator [Fusobacterium sp. 7_1]
 gi|260197934|gb|EEW95451.1| transcriptional regulator [Fusobacterium sp. 3_1_33]
 gi|289716357|gb|EFD80369.1| transcriptional regulator [Fusobacterium sp. D11]
 gi|294487519|gb|EFG34881.1| DNA-binding protein [Fusobacterium sp. 3_1_27]
          Length = 185

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 38/85 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          INVG  I+  R    +  + +    GI+   + + EKG      + ++ I++VLE P+  
Sbjct: 5  INVGITIKNIRKAKKLLLKDVALKCGISSSMLSQIEKGNANPSLNTIKSIAQVLEVPLFK 64

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
          FF  S     +    + +    IST
Sbjct: 65 FFIDSEKENYEFHLLKKDDRKIIST 89


>gi|168213632|ref|ZP_02639257.1| putative DNA-binding protein [Clostridium perfringens CPE str.
          F4969]
 gi|170714789|gb|EDT26971.1| putative DNA-binding protein [Clostridium perfringens CPE str.
          F4969]
          Length = 290

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G  I+  R  +G++Q++LGE +  +   ++KYE G   +  S L  + ++    + 
Sbjct: 6  LGNNIKKYRNQIGLTQKELGEKILKSEISIRKYESGKINIPPSTLFELCKIFNVTLG 62


>gi|167957582|ref|ZP_02544656.1| UDP-N-acetylglucosamine transferase [candidate division TM7
          single-cell isolate TM7c]
          Length = 508

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G  I+  R++ G +Q +L E L  +   + + EKG   +    +  I EVL  PI
Sbjct: 10 IGNLIQENRIMRGWTQAQLAEALDTSQSAINRIEKGGQNISLEMIARIGEVLARPI 65


>gi|70729282|ref|YP_259019.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
 gi|68343581|gb|AAY91187.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
          Length = 104

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 31/71 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R + G++Q +LGE  G   + + ++E G        L  ++EVL   +  FF
Sbjct: 6  LGAAIKRYRKVAGLTQAELGEKTGFDPKTISRFETGTYTPSVEALFLLAEVLGVKLKAFF 65

Query: 75 DVSPTVCSDIS 85
                    +
Sbjct: 66 ADLGDEEEQRA 76


>gi|66046479|ref|YP_236320.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. syringae B728a]
 gi|63257186|gb|AAY38282.1| Helix-turn-helix motif [Pseudomonas syringae pv. syringae B728a]
          Length = 189

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 29/134 (21%), Positives = 52/134 (38%), Gaps = 33/134 (24%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            N + P PV  +V + +R  R    +SQ  L E  G++ + +   E G   V  + L  +
Sbjct: 4   ENSQRP-PVLQHVSQNVRRLRNSADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRV 62

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD------VKVR 116
           +E LE   S                     D I  P+    NR + +I++      +   
Sbjct: 63  AEALEVAFS---------------------DLIQAPE----NRDYSRINELAWAGTIAGS 97

Query: 117 QKIIELVRSIVSSE 130
           + ++ L R++   E
Sbjct: 98  KAVL-LARAVARRE 110


>gi|257879449|ref|ZP_05659102.1| predicted protein [Enterococcus faecium 1,230,933]
 gi|257813677|gb|EEV42435.1| predicted protein [Enterococcus faecium 1,230,933]
          Length = 133

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 11 VD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D + +G+RIR  R+  G SQ  LG  +G +   +   E G  +V  + L  ++ VLE  
Sbjct: 18 IDYVKIGQRIRAARLEKGYSQADLGALVGCSNNHMSHVEVGQTKVSLAMLLKLAFVLEKN 77

Query: 70 ISFFFDVSPTVCSD 83
            +F   +P    D
Sbjct: 78 FDYFLLDTPYAKCD 91


>gi|255029672|ref|ZP_05301623.1| DNA-binding protein [Listeria monocytogenes LO28]
          Length = 68

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R    ++Q++L   +G T   + KYE   +R     L  ++E+L +   F  D
Sbjct: 7  GEKLIHLRKKNRLTQKQLAAKIGTTASTISKYENDNHRPPIFILAKLAEILGTTTDFLLD 66

Query: 76 V 76
           
Sbjct: 67 D 67


>gi|308233625|ref|ZP_07664362.1| DNA-binding protein [Atopobium vaginae DSM 15829]
 gi|328944523|ref|ZP_08241984.1| helix-turn-helix domain protein [Atopobium vaginae DSM 15829]
 gi|327490924|gb|EGF22702.1| helix-turn-helix domain protein [Atopobium vaginae DSM 15829]
          Length = 328

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 21/110 (19%), Positives = 39/110 (35%), Gaps = 17/110 (15%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+L + LG++ Q V K+E   +     R+  +S +            
Sbjct: 6   KILELRKQNGWSQEELADKLGVSRQSVSKWEGAQSIPDMERIIALSRLFGVSTDLLVKDE 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
             V  +    + N                    ++  VR ++I+L  +  
Sbjct: 66  IDVMGNNVDADENACQ-----------------EEAGVRMRVIKLEEATA 98


>gi|226361258|ref|YP_002779036.1| Xre family DNA-binding protein [Rhodococcus opacus B4]
 gi|226239743|dbj|BAH50091.1| putative Xre family DNA-binding protein [Rhodococcus opacus B4]
          Length = 470

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 24/101 (23%), Positives = 41/101 (40%), Gaps = 12/101 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G+SQ  L + L I+   + + E  V  +    L  ISEV     +FF
Sbjct: 5   FVGTRLRQLRTERGLSQAALAKTLEISASYLNQIEHDVRPLTVPVLLRISEVFGVDTTFF 64

Query: 74  F------------DVSPTVCSDISSEENNVMDFISTPDGLQ 102
                        +V+      I ++   + + +++  GL 
Sbjct: 65  SSQDDTRLIAEMREVALDQEMGIDADAQEIAEMVASHPGLA 105


>gi|291326763|ref|ZP_06125781.2| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291313014|gb|EFE53467.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 87

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 37/71 (52%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          MV +      +   +G  +R  R+  G+S  +LG  + ++ QQV +YE G+N++   +L 
Sbjct: 1  MVMHIAKKKNIYALLGNHLRKARVSKGLSGNELGSIIHLSQQQVSRYELGINKLSLDKLI 60

Query: 61 HISEVLESPIS 71
           I   L+  I+
Sbjct: 61 EIVIFLDIDIN 71


>gi|113867425|ref|YP_725914.1| anaerobic benzoate catabolism transcriptional regulator [Ralstonia
           eutropha H16]
 gi|113526201|emb|CAJ92546.1| shikimate kinase containing a XRE-type HTH DNA-binding domain
           [Ralstonia eutropha H16]
          Length = 313

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/97 (19%), Positives = 42/97 (43%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P    +G+RIR  R   GMS++ L    G++ + +   E G        L+ ++  L+ 
Sbjct: 32  DPYLTLLGERIRSLRASRGMSRKDLARGAGVSERYLANLETGTGNASVLLLRQVARALDV 91

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P+         +  + ++E   ++ +++      L R
Sbjct: 92  PLPVVLAEVDGLNGEQATEFAQMVQWLAQLPAGDLAR 128


>gi|84501262|ref|ZP_00999467.1| transcriptional regulator, XRE family with cupin sensor domain
           [Oceanicola batsensis HTCC2597]
 gi|84390553|gb|EAQ03041.1| transcriptional regulator, XRE family with cupin sensor domain
           [Oceanicola batsensis HTCC2597]
          Length = 213

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 31/80 (38%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R   G++ + + +  G+    + K E+G+      R   ++  L   ++  F
Sbjct: 23  LGQRIRQLREARGLTLQTIADRSGLAISTISKIERGLMAPTYDRFSGLARGLGVDVTHLF 82

Query: 75  DVSPTVCSDISSEENNVMDF 94
                     +       +F
Sbjct: 83  SPGGRRFEAGTVALARAGEF 102


>gi|326204709|ref|ZP_08194564.1| Cupin 2 conserved barrel domain protein [Clostridium
          papyrosolvens DSM 2782]
 gi|325985080|gb|EGD45921.1| Cupin 2 conserved barrel domain protein [Clostridium
          papyrosolvens DSM 2782]
          Length = 179

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 35/65 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++I+  R+  G++QE+L     ++   + + E+ +     + L  I E L + I  
Sbjct: 1  MNIGEKIKQLRVKNGLTQEELAGRCELSKGFISQLERDLTSPSIATLIDILESLGTNIKD 60

Query: 73 FFDVS 77
          FF+ S
Sbjct: 61 FFNES 65


>gi|317494137|ref|ZP_07952553.1| hypothetical protein HMPREF0864_03322 [Enterobacteriaceae
          bacterium 9_2_54FAA]
 gi|316917910|gb|EFV39253.1| hypothetical protein HMPREF0864_03322 [Enterobacteriaceae
          bacterium 9_2_54FAA]
          Length = 265

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 35/81 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            I+  R  L ++Q +L   +G + QQ+Q+ E G         Q I   L+ P++  F  
Sbjct: 4  NNIKQLRTQLSITQRELAYMVGTSQQQIQRIETGKVAAKLGLAQTICNALDKPLNIVFPE 63

Query: 77 SPTVCSDISSEENNVMDFIST 97
          S  + +D   +     + + T
Sbjct: 64 SDQLINDFHKKRRKTDEDLET 84


>gi|255019083|ref|ZP_05291209.1| transcription regulator, putative [Listeria monocytogenes FSL
          F2-515]
          Length = 81

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 21/67 (31%), Positives = 34/67 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R+   ++QE+LGE   +T   + + E+ ++      L  I EVL S    
Sbjct: 1  MEIGKRIKNLRLSKNLTQEELGERTDLTKGYISQLERDLSSPSIETLFAILEVLGSTPKD 60

Query: 73 FFDVSPT 79
          FFD    
Sbjct: 61 FFDEEEH 67


>gi|229814963|ref|ZP_04445301.1| hypothetical protein COLINT_02006 [Collinsella intestinalis DSM
          13280]
 gi|229809450|gb|EEP45214.1| hypothetical protein COLINT_02006 [Collinsella intestinalis DSM
          13280]
          Length = 217

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 40/79 (50%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR++R  LGMSQ+ L +   ++ Q +  +E G        + +++EV    +    
Sbjct: 6  IGTGIRIQRERLGMSQQDLAQACMVSRQTISNWETGKTLPDIQSMAYLAEVFGVTVDDLV 65

Query: 75 D-VSPTVCSDISSEENNVM 92
          + V+P +   +S ++  ++
Sbjct: 66 NQVAPELGKRVSVDKRELL 84


>gi|169336953|ref|ZP_02620338.2| DNA-binding protein [Clostridium botulinum C str. Eklund]
 gi|169296221|gb|EDS78354.1| DNA-binding protein [Clostridium botulinum C str. Eklund]
          Length = 185

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 40/92 (43%), Gaps = 6/92 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G++++  R+  G++Q  L     ++   + + E+ +     + L  I E L + +  
Sbjct: 7   MNIGEKLKQLRIEKGLTQMDLASRCELSKGFISQVERDLTSPSIATLVDILECLGTNLKD 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           FF+         S E+      I   +  +LN
Sbjct: 67  FFNNDEEEKIVFSKED------IFESEDTELN 92


>gi|169334227|ref|ZP_02861420.1| hypothetical protein ANASTE_00625 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169258944|gb|EDS72910.1| hypothetical protein ANASTE_00625 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 194

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 41/87 (47%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I +G  I+  R+   M+Q+++G+ L ++ + + K+E G      S L  +SEVL++ I 
Sbjct: 3  NIKIGNLIKTLRIKKDMTQKEIGDMLNVSDKTISKWETGNGLPDISILSSLSEVLDTQID 62

Query: 72 FFFDVSPTVCSDISSEENNVMDFISTP 98
          +      +   +      N   ++   
Sbjct: 63 YLLTGEISTNDNKGGNMKNTKFYVCDK 89


>gi|297153462|gb|ADI03174.1| putative transcriptional regulator, XRE family protein
          [Streptomyces bingchenggensis BCW-1]
          Length = 204

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 24/59 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG R+R  R   G++   L    G++   + + E G  R     L  ++ +   P+   
Sbjct: 16 VGPRLRALRRDRGITLADLAATTGVSESTLSRLESGQRRPSLELLLPLARIYGVPLDDL 74


>gi|240948598|ref|ZP_04752971.1| XRE family transcriptional regulator [Actinobacillus minor NM305]
 gi|240297106|gb|EER47677.1| XRE family transcriptional regulator [Actinobacillus minor NM305]
          Length = 114

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 42/96 (43%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ I   R  +G++Q +L E LGI+   V + E+G +     RL  +SE+    ++   
Sbjct: 12  IGRAISKYRQAVGLTQAQLAEILGISNDAVSRMERGKSVPSVLRLLELSEIFGCEVADLL 71

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
             S     D + +   +   +   +  +L     +I
Sbjct: 72  TESSNRSIDQARKLELLFHHLEDGERSELVALIERI 107


>gi|110800489|ref|YP_695467.1| DNA-binding protein [Clostridium perfringens ATCC 13124]
 gi|110675136|gb|ABG84123.1| DNA-binding protein [Clostridium perfringens ATCC 13124]
          Length = 180

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 28/64 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G R++  R    ++Q+ L E  GI+   +   E          ++ ++  L+  +  
Sbjct: 1  MFIGYRLQKLRKKRKLTQKALAEMTGISRSYLSDIEHNRYNPSFDTIEALATSLKLDLKS 60

Query: 73 FFDV 76
          FFD 
Sbjct: 61 FFDD 64


>gi|291531495|emb|CBK97080.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
          Length = 301

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 33/86 (38%), Gaps = 2/86 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  I+  R    M+QE L E + ++ Q V K+E         +L  +S+     +  
Sbjct: 1  MSLGTNIQFYRKQKNMTQEDLAEFMNVSRQTVSKWESDTAFPETDKLITLSDYFGCTLDE 60

Query: 73 FFDVSPTV--CSDISSEENNVMDFIS 96
              S       D +  +  +  F  
Sbjct: 61 LIKGSAEENFTEDAAGYDKEMNSFTR 86


>gi|119716897|ref|YP_923862.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Nocardioides sp.
           JS614]
 gi|119537558|gb|ABL82175.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Nocardioides sp.
           JS614]
          Length = 508

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 25/125 (20%), Positives = 53/125 (42%), Gaps = 16/125 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  IR  R   G++Q +L + LG +   + + EKG   +    L  I   L+S I    
Sbjct: 9   IGNLIRDARKHRGLTQHQLADLLGTSQSAINRIEKGHQNLSLEMLARIGAALDSEIVALG 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPD-GLQL------------NRYFIQIDDVKVRQKIIE 121
                +  +  +  +  +D  ++ + G+ L             R   +I++V    +++E
Sbjct: 69  AGPTHLRVNGPTTLSGEIDVKTSKNAGVALLCATLLNRGRTTLRKVARIEEVN---RLLE 125

Query: 122 LVRSI 126
           ++ S+
Sbjct: 126 VLTSM 130


>gi|50954237|ref|YP_061525.1| transcriptional regulator [Leifsonia xyli subsp. xyli str. CTCB07]
 gi|50950719|gb|AAT88420.1| transcriptional regulator [Leifsonia xyli subsp. xyli str. CTCB07]
          Length = 484

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 31/92 (33%), Gaps = 14/92 (15%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R   G++ ++LG    +   Q+   + G      + L  I+  L  P+S   
Sbjct: 15  LGHRIRHFRTQRGLTLDELGGAASVAASQLSLIDNGKREPRVTLLAGIAAALGVPVSDLL 74

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
              P                      ++L R 
Sbjct: 75  SAEPPDERAALE--------------IELARA 92


>gi|49082682|gb|AAT50741.1| PA4987 [synthetic construct]
          Length = 200

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 29/73 (39%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G RIR  R   G++  +L     +T   + + E+ +       L +I+  L   I +F
Sbjct: 19 FLGTRIRGLRKRRGLTLAELAAQSELTAGYISQLERNLAYPSIPALFNIARSLGVTIQWF 78

Query: 74 FDVSPTVCSDISS 86
          F     V    + 
Sbjct: 79 FASEAAVDPADAG 91


>gi|307701883|ref|ZP_07638892.1| transcriptional regulator [Streptococcus mitis NCTC 12261]
 gi|307616698|gb|EFN95886.1| transcriptional regulator [Streptococcus mitis NCTC 12261]
 gi|332362037|gb|EGJ39839.1| transcriptional regulator [Streptococcus sanguinis SK49]
          Length = 227

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 28/56 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +++ +R   G+SQ +L   LGI+      +E G  +   + L  +S++L     +F
Sbjct: 6  KLKEKRESQGLSQSQLASSLGISRVSYFNWESGKTKPNQNNLSKLSQILTVDPCYF 61


>gi|298290822|ref|YP_003692761.1| XRE family transcriptional regulator [Starkeya novella DSM 506]
 gi|296927333|gb|ADH88142.1| transcriptional regulator, XRE family [Starkeya novella DSM 506]
          Length = 471

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/129 (14%), Positives = 48/129 (37%), Gaps = 6/129 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R++  R    +SQ  L   LGI+   +   E    R+    L  ++           
Sbjct: 8   IGSRVQRLRRAKRVSQADLAVALGISASYLNLIEHNRRRITVPLLMKLAGYFGIEPGELV 67

Query: 75  DVSPT----VCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           +   +       ++ S++    + ++  D   L      +    VR  + +  +++  + 
Sbjct: 68  ENDESRLVGDLMELFSDDVFAENALTNQDIRDLAASNPSVGRAVVR--LYDQYKTLRETS 125

Query: 131 KKYRTIEEE 139
           ++   +E+E
Sbjct: 126 RRQGVVEDE 134


>gi|293400046|ref|ZP_06644192.1| toxin-antitoxin system, antitoxin component, Xre family
           [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291306446|gb|EFE47689.1| toxin-antitoxin system, antitoxin component, Xre family
           [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 134

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 53/109 (48%), Gaps = 7/109 (6%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV- 76
           +I+  R   G++Q++LGE +G +   +++YE G+       L  I+  L   +  F  + 
Sbjct: 12  KIKSYRKSNGLTQKQLGEMIGSSEGMIRQYELGLRNPKMETLTKIANALNINLFDFVPLA 71

Query: 77  ---SPTVCSDISSEENNVMDFIST---PDGLQLNRYFIQIDDVKVRQKI 119
              S    +   S+E  +++ I      D +Q+ ++F ++++   ++ +
Sbjct: 72  EWESKLNGNGALSKEVALIEEIQAQYGSDTVQMVQFFNELNENGKQKAL 120


>gi|288962615|ref|YP_003452909.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288914881|dbj|BAI76365.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 118

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 41/98 (41%), Gaps = 4/98 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + +   +GKR+R  R    +SQE +   +  + + V   E+G        L  +S  L
Sbjct: 1   MSDDLKRRIGKRLRALRESRALSQEDVAAAIDRSVETVSNIERGRVLAALETLDRLSRRL 60

Query: 67  ESPISFFFDVSPTVCSDISSEEN----NVMDFISTPDG 100
           + P+  FFD    V S   +  +     V+  +S  + 
Sbjct: 61  DVPLVDFFDDGEAVVSPARAATDMRLREVLRGLSDREA 98


>gi|262283609|ref|ZP_06061374.1| cro/CI family transcriptional regulator [Streptococcus sp.
          2_1_36FAA]
 gi|262260666|gb|EEY79367.1| cro/CI family transcriptional regulator [Streptococcus sp.
          2_1_36FAA]
          Length = 67

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 11/64 (17%), Positives = 23/64 (35%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R   G++Q  L + L     +  KYE G   +     + +++     I +    
Sbjct: 3  NRLKKLRKEKGLTQADLAKVLNTNQSRYGKYENGKTNLSIENAKKVAKYFGVTIDYLLGS 62

Query: 77 SPTV 80
              
Sbjct: 63 ESDQ 66


>gi|296128010|ref|YP_003635260.1| transcriptional regulator, XRE family [Cellulomonas flavigena DSM
          20109]
 gi|296019825|gb|ADG73061.1| transcriptional regulator, XRE family [Cellulomonas flavigena DSM
          20109]
          Length = 91

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 29/64 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  RI + R   G+S+ +L + LG+ +Q V   E+G           I+   + P+   F
Sbjct: 18 VHNRISVLRAERGVSRRQLADALGVHYQTVGYLERGEYSPSLHLALRIAAFFDVPVEVLF 77

Query: 75 DVSP 78
           + P
Sbjct: 78 SLDP 81


>gi|261345017|ref|ZP_05972661.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282566698|gb|EFB72233.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 97

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          V   +G  ++ RR   G++  +L   L I+ QQ+ +YE+GVN +    L  I   LE
Sbjct: 12 VSTYIGTFLKRRRKGAGLTGAELASRLSISQQQISRYERGVNAITIQSLLGILHALE 68


>gi|147668752|ref|YP_001213570.1| XRE family transcriptional regulator [Dehalococcoides sp. BAV1]
 gi|147668945|ref|YP_001213763.1| XRE family transcriptional regulator [Dehalococcoides sp. BAV1]
 gi|289432070|ref|YP_003461943.1| XRE family transcriptional regulator [Dehalococcoides sp. GT]
 gi|146269700|gb|ABQ16692.1| transcriptional regulator, XRE family [Dehalococcoides sp. BAV1]
 gi|146269893|gb|ABQ16885.1| transcriptional regulator, XRE family [Dehalococcoides sp. BAV1]
 gi|288945790|gb|ADC73487.1| transcriptional regulator, XRE family [Dehalococcoides sp. GT]
          Length = 71

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 32/64 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++   G+RIR+ R    +SQE+L    G+    +   E+G        ++ I++ LE PI
Sbjct: 6  IEQRFGERIRVLRKKAEISQEELAFRAGVHRTYLGGIERGERNPSLKNIEAIAKALEVPI 65

Query: 71 SFFF 74
          S  F
Sbjct: 66 SDLF 69


>gi|296168067|ref|ZP_06850133.1| DNA-binding protein [Mycobacterium parascrofulaceum ATCC BAA-614]
 gi|295896874|gb|EFG76502.1| DNA-binding protein [Mycobacterium parascrofulaceum ATCC BAA-614]
          Length = 471

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 28/131 (21%), Positives = 49/131 (37%), Gaps = 18/131 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   FVGSRVRQLRNERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               DI  +   V + + +     L R  + +     R+  I 
Sbjct: 65  ASQDDTRLVAELREVTMDRDLDIDVDPGEVAELVGSH--PALARAVVNL----HRRYRIT 118

Query: 122 LVRSIVSSEKK 132
             +   ++E++
Sbjct: 119 TAQLAAATEER 129


>gi|256396415|ref|YP_003117979.1| hypothetical protein Caci_7309 [Catenulispora acidiphila DSM 44928]
 gi|256362641|gb|ACU76138.1| protein of unknown function DUF955 [Catenulispora acidiphila DSM
           44928]
          Length = 283

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 25/110 (22%), Positives = 42/110 (38%), Gaps = 3/110 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           + VG+RIR  R   G SQ +L   L    T   +  +E G   VG   L  ++ VL   I
Sbjct: 6   VEVGQRIRAARTRRGWSQAELAARLAGQPTPTAISYWESGRRSVGLDDLIELARVLGLGI 65

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           S      P     + +    V + +      +    F +  + + R  ++
Sbjct: 66  SELL-PDPREQRPVGALLRAVAEQVDAQQLAEQLEAFAKDAEQRPRPSLL 114


>gi|240147526|ref|ZP_04746127.1| toxin-antitoxin system, antitoxin component, Xre family [Roseburia
           intestinalis L1-82]
 gi|257200275|gb|EEU98559.1| toxin-antitoxin system, antitoxin component, Xre family [Roseburia
           intestinalis L1-82]
          Length = 238

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 36/76 (47%), Gaps = 1/76 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
             +G RI+ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 37  KLIGSRIKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 96

Query: 72  FFFDVSPTVCSDISSE 87
           +    +    +DI+ +
Sbjct: 97  WLKGETDEYETDITDK 112


>gi|212638482|ref|YP_002315002.1| SOS-response transcriptional repressor LexA (HTH, RecA-mediated
          autopeptidase) [Anoxybacillus flavithermus WK1]
 gi|212559962|gb|ACJ33017.1| SOS-response transcriptional repressor LexA (HTH, RecA-mediated
          autopeptidase) [Anoxybacillus flavithermus WK1]
          Length = 195

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 30/64 (46%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
          M+Q  L + L +    V  +E+  NR    ++  +SE+ + PIS+FF+   T+       
Sbjct: 1  MTQADLAKKLNVAPTAVSAWERNENRPLMDKIAIMSEMFDVPISYFFEDFKTIQEVREEP 60

Query: 88 ENNV 91
             +
Sbjct: 61 AQYI 64


>gi|161508263|ref|YP_001569094.1| DNA-binding protein [Staphylococcus aureus subsp. aureus
          USA300_TCH959]
 gi|253734835|ref|ZP_04869000.1| DNA-binding protein [Staphylococcus aureus subsp. aureus TCH130]
 gi|282912706|ref|ZP_06320501.1| DNA-binding protein [Staphylococcus aureus subsp. aureus
          WBG10049]
 gi|160369778|gb|ABX30747.1| DNA-binding protein [Staphylococcus aureus subsp. aureus
          USA300_TCH959]
 gi|253727208|gb|EES95937.1| DNA-binding protein [Staphylococcus aureus subsp. aureus TCH130]
 gi|270269068|gb|ACZ66060.1| hypothetical protein SAP035B_020 [Staphylococcus aureus]
 gi|270269096|gb|ACZ66088.1| hypothetical protein SAP036A_016 [Staphylococcus aureus]
 gi|270269128|gb|ACZ66120.1| hypothetical protein SAP042A_015 [Staphylococcus aureus]
 gi|270300247|gb|ACZ69053.1| hypothetical protein SAP058A_010 [Staphylococcus aureus]
 gi|270300466|gb|ACZ69272.1| hypothetical protein SAP071A_016 [Staphylococcus aureus]
 gi|282323431|gb|EFB53748.1| DNA-binding protein [Staphylococcus aureus subsp. aureus
          WBG10049]
 gi|312439078|gb|ADQ78148.1| DNA-binding protein [Staphylococcus aureus subsp. aureus TCH60]
 gi|320143353|gb|EFW35135.1| helix-turn-helix protein [Staphylococcus aureus subsp. aureus
          MRSA177]
          Length = 113

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 26/59 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I+ +R + G SQE+L   L ++ Q V K+E   N      L  +S++    I       
Sbjct: 7  IKEQRELKGWSQEELANILKVSRQSVSKWESAKNYPSLDILIAMSDLFGITIDHLIKGD 65


>gi|133919924|emb|CAM12484.1| hypothetical protein [uncultured bacterium]
          Length = 136

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 39/76 (51%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESPIS 71
          +  G++++  R  LG++Q++L E +G+T + +  YE   +R  G  R + ++  L   ++
Sbjct: 1  MTFGEKVKAERTKLGLNQDELAEKIGVTRRVICSYENDKSRPRGTERYKKLAGALNVNVN 60

Query: 72 FFFDVSPTVCSDISSE 87
          +         +D+  +
Sbjct: 61 YLLSEDDAFIADVEDK 76


>gi|157372360|ref|YP_001480349.1| XRE family transcriptional regulator [Serratia proteamaculans
          568]
 gi|157324124|gb|ABV43221.1| transcriptional regulator, XRE family [Serratia proteamaculans
          568]
          Length = 84

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 37/83 (44%), Gaps = 4/83 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V +R++  R   G++QEKLG   GI       ++ +YE G      + +  ++ VL+ P 
Sbjct: 2  VPQRLKSARQRAGLTQEKLGVLAGIDEATARSRISQYESGTYTPTFTTMCALARVLDVPE 61

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
           +F+ +       +       ++
Sbjct: 62 CYFYILDDAFSEKVLRLHQESLE 84


>gi|206970068|ref|ZP_03231021.1| putative transcriptional regulator PlcR [Bacillus cereus AH1134]
 gi|228955599|ref|ZP_04117599.1| hypothetical protein bthur0006_49510 [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
 gi|229112764|ref|ZP_04242296.1| hypothetical protein bcere0018_50020 [Bacillus cereus Rock1-15]
 gi|229181599|ref|ZP_04308924.1| hypothetical protein bcere0005_49380 [Bacillus cereus 172560W]
 gi|37650514|emb|CAE47446.1| PlcR protein [Bacillus thuringiensis serovar konkukian]
 gi|37650602|emb|CAE46798.1| PlcR protein [Bacillus thuringiensis]
 gi|37650606|emb|CAE46800.1| PlcR protein [Bacillus thuringiensis]
 gi|37650610|emb|CAE46802.1| PlcR protein [Bacillus thuringiensis]
 gi|37654142|emb|CAE46904.2| transcriptional regulator [Bacillus thuringiensis]
 gi|37904132|gb|AAO43573.1| transcriptional activator plcR [Bacillus thuringiensis serovar
          canadensis]
 gi|55419785|gb|AAV51963.1| PlcR [Bacillus thuringiensis serovar kurstaki]
 gi|206734645|gb|EDZ51814.1| putative transcriptional regulator PlcR [Bacillus cereus AH1134]
 gi|228601795|gb|EEK59291.1| hypothetical protein bcere0005_49380 [Bacillus cereus 172560W]
 gi|228670598|gb|EEL25910.1| hypothetical protein bcere0018_50020 [Bacillus cereus Rock1-15]
 gi|228804075|gb|EEM50694.1| hypothetical protein bthur0006_49510 [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
          Length = 285

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|327461171|gb|EGF07504.1| hypothetical protein HMPREF9394_1037 [Streptococcus sanguinis
          SK1057]
          Length = 523

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 35/75 (46%), Gaps = 4/75 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++ +R+ +G++Q+ + + L I+ Q +  +E G   +    L   +++LE      F
Sbjct: 2  IGNFLKQKRLAMGLTQDFVAKQLNISRQAISNWENGSRDINIRDLIAYAKILEIS----F 57

Query: 75 DVSPTVCSDISSEEN 89
          +      + I    N
Sbjct: 58 EDLEVHVNRIDGNSN 72


>gi|310826605|ref|YP_003958962.1| toxin-antitoxin system [Eubacterium limosum KIST612]
 gi|308738339|gb|ADO35999.1| toxin-antitoxin system [Eubacterium limosum KIST612]
          Length = 118

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 30/61 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+R+R  R  + +SQ K+ E LG+    + +YE+G +      L   ++  +  + +
Sbjct: 2  KELGERLRRLRESVKLSQVKMAELLGVKQSSINRYEQGQSAPSLETLVRYADYFDVSLDY 61

Query: 73 F 73
           
Sbjct: 62 L 62


>gi|302384944|ref|YP_003820766.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
 gi|302195572|gb|ADL03143.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
          Length = 87

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           R++  R  LG++QE+LG+ +G + Q +   E   N         I++V + PI   F F
Sbjct: 3  NRMKELREKLGITQEQLGQLVGASRQAIHALETEKNEPSIWLAYDIAQVFKEPIEHVFLF 62

Query: 75 DVSP 78
          + S 
Sbjct: 63 EDSE 66


>gi|294673230|ref|YP_003573846.1| DNA-binding protein [Prevotella ruminicola 23]
 gi|294472225|gb|ADE81614.1| DNA-binding protein [Prevotella ruminicola 23]
          Length = 193

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/79 (24%), Positives = 34/79 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R    +S + + E  G+T +Q++  E  VN      L  I+  L   +  F 
Sbjct: 7  VGAKIKGLRETKNLSIDVIAERSGLTVEQIESIENDVNLPSLGPLIKIARALGVRLGTFM 66

Query: 75 DVSPTVCSDISSEENNVMD 93
          D +  +   +   E+   D
Sbjct: 67 DDNDALGPIVCRAEDREKD 85


>gi|149203629|ref|ZP_01880598.1| transcriptional regulator, XRE family protein [Roseovarius sp.
          TM1035]
 gi|149142746|gb|EDM30788.1| transcriptional regulator, XRE family protein [Roseovarius sp.
          TM1035]
          Length = 436

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G RIR RR++ GM Q  L +  GI+   +   E    R+G   L  ++E L+   S
Sbjct: 7  IGTRIRERRVLNGMRQSDLAQRAGISPSYLNLIEHNHRRIGGKTLLKLAEALKVEPS 63


>gi|320547716|ref|ZP_08042001.1| XRE family transcriptional regulator [Streptococcus equinus ATCC
          9812]
 gi|320447791|gb|EFW88549.1| XRE family transcriptional regulator [Streptococcus equinus ATCC
          9812]
          Length = 114

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 28/54 (51%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++  R+   +SQ+ L E L I+ Q + KYE G +      L  I+++L   + 
Sbjct: 10 QLKKLRVERKLSQDALAEQLFISRQSISKYETGESTPDLENLIKIADILGVSLD 63


>gi|291544366|emb|CBL17475.1| Predicted transcriptional regulators [Ruminococcus sp. 18P13]
          Length = 322

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/110 (15%), Positives = 40/110 (36%), Gaps = 7/110 (6%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           ++   R   G SQE+L + + ++ Q V K+E   +     ++  +S +      +     
Sbjct: 6   KLIQLRKKSGWSQEELAQQMHVSRQSVSKWEGAQSVPDLEKMVQLSRLFHVTTDYLLKDE 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ-KIIELVRSI 126
                    E+    + +     L+    F+   + K R  ++I     +
Sbjct: 66  EGEPEPAPGED--PGEPLR-RVSLEEASAFL---EAKQRSARLIAFATML 109


>gi|237748892|ref|ZP_04579372.1| transcriptional regulator [Oxalobacter formigenes OXCC13]
 gi|229380254|gb|EEO30345.1| transcriptional regulator [Oxalobacter formigenes OXCC13]
          Length = 110

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 26/112 (23%), Positives = 55/112 (49%), Gaps = 25/112 (22%)

Query: 17  KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +R++  R+  G+SQ++LG   G    +   ++ +YEKGV++   +    ++ VL  P+++
Sbjct: 14  RRLKDARIKAGLSQKRLGIEAGIDEFVASTRINRYEKGVHQADEATAILLAHVLGVPLAY 73

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           F+       ++  S    ++ F       QLNR          R ++++LV+
Sbjct: 74  FY-------AEDDSLAEMILGFC------QLNRA--------DRNEVLDLVQ 104


>gi|90419571|ref|ZP_01227481.1| putative transcriptional regulator [Aurantimonas manganoxydans
           SI85-9A1]
 gi|90336508|gb|EAS50249.1| putative transcriptional regulator [Aurantimonas manganoxydans
           SI85-9A1]
          Length = 167

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 23/115 (20%), Positives = 51/115 (44%), Gaps = 17/115 (14%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RI+  R  LG++  +L   LG+  + ++ +E+  +   A+RL  +S +L    ++   
Sbjct: 62  GGRIQRGRESLGITTAELAARLGVKPETMRGWERDRSEPRANRLITLSGILGVSPAWLLG 121

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
               V   +  +EN +                 ++D+++ R+ +++  R I   E
Sbjct: 122 GYGEVPDTVDLDENGMA---------------ARLDNLRARRDVLD--REIARLE 159


>gi|152965329|ref|YP_001361113.1| EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)
          [Kineococcus radiotolerans SRS30216]
 gi|151359846|gb|ABS02849.1| EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)
          [Kineococcus radiotolerans SRS30216]
          Length = 516

 Score = 57.9 bits (139), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 27/57 (47%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +G  IR  R   G++Q +L E LG +   V + E+G   V    LQ +   L+  I
Sbjct: 17 QIGALIRDARKHRGLTQVQLAERLGTSQSAVHRMEQGQQNVSIDMLQRVGHALQDDI 73


>gi|308751810|gb|ADO45293.1| transcriptional regulator, XRE family [Hydrogenobacter thermophilus
           TK-6]
          Length = 311

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 41/90 (45%), Gaps = 4/90 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R+R  R  LG+SQE+ GE +G + + +Q +E G  ++  + L+ I+          ++ 
Sbjct: 90  NRLRYLRKTLGLSQEEFGERIGKSLRTIQYWEAGTVQIPDTALKLIASTFGVS----YEW 145

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             T   ++   E   ++ I   +  +L   
Sbjct: 146 LKTGQGEMWGREKLSLEEIIEREQRKLLES 175


>gi|302388982|ref|YP_003824803.1| helix-turn-helix domain protein [Thermosediminibacter oceani DSM
          16646]
 gi|302199610|gb|ADL07180.1| helix-turn-helix domain protein [Thermosediminibacter oceani DSM
          16646]
          Length = 135

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 33/61 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G+R++  R   G+S+E+L   L +++  + KYE  V +     L+ I++  +  + +
Sbjct: 1  MDFGERLQELRKEKGISREELARALQVSYSAIAKYETNVRKPDQETLKKIADYFDVTVDY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|294102131|ref|YP_003553989.1| transcriptional regulator, XRE family [Aminobacterium colombiense
          DSM 12261]
 gi|293617111|gb|ADE57265.1| transcriptional regulator, XRE family [Aminobacterium colombiense
          DSM 12261]
          Length = 226

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 27/59 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+ IR  R   G +Q++L + +G+    +  +EK         +  +S  LE  I++  
Sbjct: 4  GEEIRRLRKAKGWTQQQLADNVGVAKTTIVDWEKDRYFPTGENVHKLSRSLEVSIAYLM 62


>gi|302382023|ref|YP_003817846.1| XRE family transcriptional regulator [Brevundimonas subvibrioides
          ATCC 15264]
 gi|302192651|gb|ADL00223.1| transcriptional regulator, XRE family [Brevundimonas
          subvibrioides ATCC 15264]
          Length = 65

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 26/57 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +R  R   G +QE+LG+ LG++ Q V   E   +         I+ V   P+   FD
Sbjct: 5  LRDLRTSRGWTQEQLGQALGVSRQAVNALETEKHDPSLDLAYRIAAVFGQPVEAIFD 61


>gi|210622425|ref|ZP_03293157.1| hypothetical protein CLOHIR_01105 [Clostridium hiranonis DSM
          13275]
 gi|210154241|gb|EEA85247.1| hypothetical protein CLOHIR_01105 [Clostridium hiranonis DSM
          13275]
          Length = 66

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +I+  R  L M+Q+ L E +G+T Q +   EKG      +    I +VL   +   F
Sbjct: 6  KIKSARAALDMTQKDLAEKVGVTRQTISAIEKGDYNPTINLCIQICKVLGKTLDELF 62


>gi|160895055|ref|ZP_02075829.1| hypothetical protein CLOL250_02605 [Clostridium sp. L2-50]
 gi|156863486|gb|EDO56917.1| hypothetical protein CLOL250_02605 [Clostridium sp. L2-50]
          Length = 209

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 36/76 (47%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G RI+ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 8  KLIGSRIKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSE 87
          +    +    +DI+ +
Sbjct: 68 WLKGETDEYETDITDK 83


>gi|73541020|ref|YP_295540.1| anaerobic benzoate catabolism transcriptional regulator [Ralstonia
           eutropha JMP134]
 gi|72118433|gb|AAZ60696.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Ralstonia eutropha JMP134]
          Length = 309

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 23/154 (14%), Positives = 55/154 (35%), Gaps = 18/154 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P    +G+RIR  R   GMS++ L     ++ + +   E G        L+ ++  L+ 
Sbjct: 23  DPYLTQLGERIRSLRAARGMSRKDLARGADVSERYLANLETGTGNASVLLLRQVARALDV 82

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR---------YFIQIDDVKVRQKI 119
           P+         +     +E   ++ +++      L R            +  D + R+  
Sbjct: 83  PLPVVLAEVDGLNGQQVTEFAQLVQWLAQLPTGDLARVRDACRHALAPAESRDARHRRIA 142

Query: 120 I---------ELVRSIVSSEKKYRTIEEECMVEQ 144
           +          L R++ ++E          + ++
Sbjct: 143 LIGLRGAGKSTLGRALAAAEDMPFVELNNVIEQE 176


>gi|15600180|ref|NP_253674.1| transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|107104087|ref|ZP_01368005.1| hypothetical protein PaerPA_01005160 [Pseudomonas aeruginosa
          PACS2]
 gi|116053135|ref|YP_793456.1| putative transcriptional regulator [Pseudomonas aeruginosa
          UCBPP-PA14]
 gi|218894084|ref|YP_002442953.1| putative transcriptional regulator [Pseudomonas aeruginosa
          LESB58]
 gi|254238300|ref|ZP_04931623.1| hypothetical protein PACG_04432 [Pseudomonas aeruginosa C3719]
 gi|254244126|ref|ZP_04937448.1| hypothetical protein PA2G_04965 [Pseudomonas aeruginosa 2192]
 gi|296391830|ref|ZP_06881305.1| putative transcriptional regulator [Pseudomonas aeruginosa PAb1]
 gi|313110019|ref|ZP_07795924.1| putative transcriptional regulator [Pseudomonas aeruginosa 39016]
 gi|9951271|gb|AAG08372.1|AE004911_7 probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|115588356|gb|ABJ14371.1| putative transcriptional regulator [Pseudomonas aeruginosa
          UCBPP-PA14]
 gi|126170231|gb|EAZ55742.1| hypothetical protein PACG_04432 [Pseudomonas aeruginosa C3719]
 gi|126197504|gb|EAZ61567.1| hypothetical protein PA2G_04965 [Pseudomonas aeruginosa 2192]
 gi|218774312|emb|CAW30129.1| probable transcriptional regulator [Pseudomonas aeruginosa
          LESB58]
 gi|310882426|gb|EFQ41020.1| putative transcriptional regulator [Pseudomonas aeruginosa 39016]
          Length = 199

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 29/73 (39%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G RIR  R   G++  +L     +T   + + E+ +       L +I+  L   I +F
Sbjct: 19 FLGTRIRGLRKRRGLTLAELAAQSELTAGYISQLERNLAYPSIPALFNIARSLGVTIQWF 78

Query: 74 FDVSPTVCSDISS 86
          F     V    + 
Sbjct: 79 FASEAAVDPADAG 91


>gi|322833805|ref|YP_004213832.1| helix-turn-helix domain protein [Rahnella sp. Y9602]
 gi|321169006|gb|ADW74705.1| helix-turn-helix domain protein [Rahnella sp. Y9602]
          Length = 87

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 4/71 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    ++QEKLG   GI       +V +YE G        + H + VL  P  +F
Sbjct: 5  RLKSARTKARLTQEKLGVLAGIDESTARSRVSQYENGTYSPNFDTMCHFARVLNVPECYF 64

Query: 74 FDVSPTVCSDI 84
          + +      ++
Sbjct: 65 YIIDDAFAEEV 75


>gi|182626312|ref|ZP_02954068.1| DNA-binding protein [Clostridium perfringens D str. JGS1721]
 gi|177908410|gb|EDT70952.1| DNA-binding protein [Clostridium perfringens D str. JGS1721]
          Length = 180

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 28/64 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G R++  R    ++Q+ L E  GI+   +   E          ++ ++  L+  +  
Sbjct: 1  MFIGYRLQKLRKKRKLTQKALAEMTGISRSYLSDIEHNRYNPSFDTIEALANSLKLDLKS 60

Query: 73 FFDV 76
          FFD 
Sbjct: 61 FFDD 64


>gi|169343361|ref|ZP_02864365.1| tRNA modification GTPase TrmE [Clostridium perfringens C str.
          JGS1495]
 gi|169298447|gb|EDS80533.1| tRNA modification GTPase TrmE [Clostridium perfringens C str.
          JGS1495]
          Length = 64

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 33/63 (52%), Gaps = 2/63 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPI-SFFFD 75
          +I+LRR+  G++Q++L   +GI+   + K+E G    +    +  ++  L++ +   FF 
Sbjct: 2  KIKLRRISKGLTQKELANKVGISHVTLSKFENGSYENITLRTMLKLAAALDTTVHELFFS 61

Query: 76 VSP 78
             
Sbjct: 62 DEE 64


>gi|121603936|ref|YP_981265.1| XRE family transcriptional regulator [Polaromonas naphthalenivorans
           CJ2]
 gi|120592905|gb|ABM36344.1| transcriptional regulator, XRE family [Polaromonas
           naphthalenivorans CJ2]
          Length = 223

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/88 (18%), Positives = 41/88 (46%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ +G+++R RR  LG+  +++    G++   + + E+G+  +    L  +S  L+ P+
Sbjct: 34  IDLWLGEQVRHRRKALGLPLQQVARGCGVSVSLLSQIERGLRSISLRTLAALSNELQLPL 93

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTP 98
                 +     + + E + V   +   
Sbjct: 94  ETLIRNTQHDQGEGAPERSVVRAGMHQR 121


>gi|332798059|ref|YP_004459558.1| Cupin 2 barrel domain-containing protein [Tepidanaerobacter sp.
          Re1]
 gi|332695794|gb|AEE90251.1| Cupin 2 conserved barrel domain protein [Tepidanaerobacter sp.
          Re1]
          Length = 190

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 37/62 (59%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G +IR  R   G++ ++LG+   ++   + + E+G + V  + L+ I+  LE+ +++
Sbjct: 7  KDIGNKIRELRNNKGLTLKELGKKTDLSISFLSQVERGTSAVSITALEKIAHALETELAY 66

Query: 73 FF 74
          FF
Sbjct: 67 FF 68


>gi|325298681|ref|YP_004258598.1| helix-turn-helix domain-containing protein [Bacteroides
          salanitronis DSM 18170]
 gi|324318234|gb|ADY36125.1| helix-turn-helix domain protein [Bacteroides salanitronis DSM
          18170]
          Length = 191

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 35/82 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    +S ++L E  G+T  Q+++ E  ++    + L  I+  L   +  F 
Sbjct: 7  IGEKIKDLRTAKEISIDELAERTGLTAGQIERIENNIDIPSLAPLLKIARALGVRLGTFL 66

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
          D        +        D IS
Sbjct: 67 DDQSEEDGPVVCRRGEADDTIS 88


>gi|317496310|ref|ZP_07954668.1| hypothetical protein HMPREF0432_01272 [Gemella moribillum M424]
 gi|316913568|gb|EFV35056.1| hypothetical protein HMPREF0432_01272 [Gemella moribillum M424]
          Length = 64

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 27/62 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  +I   R   GM+Q++L   LG++ Q V   E             +S++   P+  
Sbjct: 1  MSIPNKISFYRKKNGMTQDELASMLGVSRQFVSSIEGAKKIPSIKLAFQLSDIFGVPVDN 60

Query: 73 FF 74
           F
Sbjct: 61 LF 62


>gi|261493122|ref|ZP_05989658.1| hypothetical protein COK_1536 [Mannheimia haemolytica serotype A2
          str. BOVINE]
 gi|261496455|ref|ZP_05992838.1| hypothetical protein COI_2176 [Mannheimia haemolytica serotype A2
          str. OVINE]
 gi|261307888|gb|EEY09208.1| hypothetical protein COI_2176 [Mannheimia haemolytica serotype A2
          str. OVINE]
 gi|261311210|gb|EEY12377.1| hypothetical protein COK_1536 [Mannheimia haemolytica serotype A2
          str. BOVINE]
          Length = 64

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 32/63 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +IR  R  +G+SQ++L   +G+T   +  YE+G+     + ++ ++E L    +  + V
Sbjct: 2  NKIRQFRRAIGLSQQELASVIGVTTGAIGFYERGLREPNLATIKKLAEALNCKPADLYPV 61

Query: 77 SPT 79
             
Sbjct: 62 LEG 64


>gi|206973277|ref|ZP_03234199.1| conserved domain protein [Bacillus cereus AH1134]
 gi|206732161|gb|EDZ49361.1| conserved domain protein [Bacillus cereus AH1134]
          Length = 66

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 29/57 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R+ L MSQE L + +G+  + +   E G           I++VL++P+   F
Sbjct: 6  RMKEYRVKLNMSQEDLAKEVGVRRETIGNLENGKYNPSFKLTYDIAKVLKAPLEVLF 62


>gi|28211763|ref|NP_782707.1| transcriptional regulator [Clostridium tetani E88]
 gi|28204205|gb|AAO36644.1| transcriptional regulator [Clostridium tetani E88]
          Length = 136

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 41/92 (44%), Gaps = 3/92 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ +GK+I+  R    ++QE+L   +G++   V  YE    +     L  I++  +  +
Sbjct: 2   IDL-LGKKIKSLRKDNKITQEELAIKIGVSTSMVGMYETDARKPSYEVLIKIADYFKVSL 60

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            +   +  T        + N + F +  + +Q
Sbjct: 61  DYL--LRETEYKTYIGTKENCIKFKTVEEAMQ 90


>gi|28210273|ref|NP_781217.1| transcriptional regulator [Clostridium tetani E88]
 gi|28202709|gb|AAO35154.1| transcriptional regulator [Clostridium tetani E88]
          Length = 436

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 40/94 (42%), Gaps = 1/94 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I+ RR  L M+ + L     IT  Q+   E G +      L+++SE L+  I +  
Sbjct: 8   LGEKIKRRRKELNMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLSEALDVSIEYLM 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
           +   T    +     N+ +     + L L   + 
Sbjct: 67  ETEETQAEKVCYYFENIAEAHILNNDLSLGEEYT 100


>gi|37650524|emb|CAE47451.1| PlcR protein [Bacillus thuringiensis]
          Length = 300

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVLRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|134293636|ref|YP_001117372.1| XRE family transcriptional regulator [Burkholderia vietnamiensis
           G4]
 gi|134136793|gb|ABO57907.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia vietnamiensis G4]
          Length = 191

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 23/126 (18%), Positives = 48/126 (38%), Gaps = 7/126 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V +++G +IR  R  L ++ ++     GI+   + + E+G      + L  I++ L   +
Sbjct: 11  VAVSLGNKIRALRQRLKLTLDETAGIAGISKPFLSQVERGRATPSITSLVRIAQALGVTM 70

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRSIVSS 129
            +F D      S   +       F ++         F ++ +    +K+   LVR     
Sbjct: 71  QYFIDTPTEARSVCRAHALQYFQFTNS------ANLFAKLTNPVDGRKLDAILVRMPAGQ 124

Query: 130 EKKYRT 135
                T
Sbjct: 125 SPSEIT 130


>gi|253690481|ref|YP_003019671.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
          subsp. carotovorum PC1]
 gi|251757059|gb|ACT15135.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
          subsp. carotovorum PC1]
          Length = 105

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 4/69 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R++ G+SQ+ LG   G    +   ++ +YEKGV+         ++E L+ P+++
Sbjct: 13 QRLKDARLLRGLSQKGLGIAAGIDEFVASARINRYEKGVHEANLVTASRLAEALDVPLAY 72

Query: 73 FFDVSPTVC 81
          F+     + 
Sbjct: 73 FYAADDNLA 81


>gi|157363615|ref|YP_001470382.1| cupin 2 domain-containing protein [Thermotoga lettingae TMO]
 gi|157314219|gb|ABV33318.1| Cupin 2 conserved barrel domain protein [Thermotoga lettingae TMO]
          Length = 177

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 25/130 (19%), Positives = 55/130 (42%), Gaps = 10/130 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G +I+  R+  G++QE+L     ++   + + E     +    L+ I   L + +  
Sbjct: 1   MNIGGKIKRLRLSRGLTQEELAMRTDLSRSFISQLESNKTSLAVDTLEKILRALGTDLKA 60

Query: 73  FFDVSPTVCSDISSEEN-NVMDFISTPDGLQLNRYFIQIDDVKVRQ---KIIELVRSIVS 128
           FF            E+   V D    P+G+     ++ + DV+ ++    ++ L     +
Sbjct: 61  FFSEEEEAKIVFKKEDRIPVYD---EPEGIT---SYLLMSDVETKKVDPTLVTLAPGAQT 114

Query: 129 SEKKYRTIEE 138
            E+ Y   +E
Sbjct: 115 EEEGYHEGDE 124


>gi|332687060|ref|YP_004456834.1| MerR family transcriptional regulator [Melissococcus plutonius
          ATCC 35311]
 gi|332371069|dbj|BAK22025.1| transcriptional regulator, MerR family, near polyamine
          transporter [Melissococcus plutonius ATCC 35311]
          Length = 180

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 36/80 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G R+R  R+   ++QE+LGE   +T   + + E+ ++         I EVL      
Sbjct: 1  MEIGDRLRNLRIQRDLTQEELGERTDLTKGYISQLERNLSSPSMETFFTILEVLGVSPEE 60

Query: 73 FFDVSPTVCSDISSEENNVM 92
          FF+        +  +++N  
Sbjct: 61 FFNEQTMEQKIVYQDKDNTH 80


>gi|331092206|ref|ZP_08341036.1| hypothetical protein HMPREF9477_01679 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330401978|gb|EGG81552.1| hypothetical protein HMPREF9477_01679 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 347

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + +G+ IR  R    M+QE++ E LG+T   V K+E G +    S L  I+ +L   
Sbjct: 1  MKIGEVIRKYRKEKQMTQEEMAEYLGVTTPAVNKWENGNSMPDISLLAPIARLLGIS 57


>gi|324115562|gb|EGC09501.1| helix-turn-helix protein [Escherichia coli E1167]
          Length = 228

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 32/57 (56%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R+++ R   GMSQ +L E +G++ Q V K E G   +   +++ I++VL     + 
Sbjct: 6  ERLKIGREKAGMSQAQLAEKIGLSQQSVAKIENGET-LQPRKIKEIAKVLGVSQKWL 61


>gi|254499432|ref|ZP_05112093.1| transcriptional regulator [Legionella drancourtii LLAP12]
 gi|254351331|gb|EET10205.1| transcriptional regulator [Legionella drancourtii LLAP12]
          Length = 83

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 24/76 (31%), Positives = 41/76 (53%), Gaps = 4/76 (5%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVL 66
          +D  V KR++  R+ +G+SQ+KLG   G+       ++  YE G +    S L+ I+EVL
Sbjct: 1  MDSPVPKRLKEARLAMGISQKKLGIAAGMDEFSASARMNHYEIGRHTPDYSTLKRIAEVL 60

Query: 67 ESPISFFFDVSPTVCS 82
            P +FF+     + +
Sbjct: 61 SVPTAFFYAEEDELAN 76


>gi|229020571|ref|ZP_04177313.1| hypothetical protein bcere0030_50500 [Bacillus cereus AH1273]
 gi|229026789|ref|ZP_04183121.1| hypothetical protein bcere0029_50560 [Bacillus cereus AH1272]
 gi|228734512|gb|EEL85174.1| hypothetical protein bcere0029_50560 [Bacillus cereus AH1272]
 gi|228740735|gb|EEL90991.1| hypothetical protein bcere0030_50500 [Bacillus cereus AH1273]
          Length = 285

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|257791416|ref|YP_003182022.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|257475313|gb|ACV55633.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
          Length = 205

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 30/66 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G++++  R   G++QE+L   L ++   V K+E G        LQ ++ + +  +  
Sbjct: 1  MDFGEKLKALRTERGLTQEQLAAKLYVSRTAVSKWETGGGSPNLDSLQVVARLFDVSVDD 60

Query: 73 FFDVSP 78
                
Sbjct: 61 LLSTDD 66


>gi|172058590|ref|YP_001815050.1| helix-turn-helix domain-containing protein [Exiguobacterium
          sibiricum 255-15]
 gi|171991111|gb|ACB62033.1| helix-turn-helix domain protein [Exiguobacterium sibiricum
          255-15]
          Length = 294

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 36/81 (44%), Gaps = 1/81 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G  +R  R    ++Q+ L   +  +  ++ K E G +      L  +S  L+ PI+ F
Sbjct: 8  QIGLALRRLRKKHNLTQKDLANGI-CSQAEISKIESGTHSPTVDLLYALSRRLQVPINTF 66

Query: 74 FDVSPTVCSDISSEENNVMDF 94
           D +    S    +EN ++ F
Sbjct: 67 LDHTNYRESLKILDENLLVRF 87


>gi|163791661|ref|ZP_02186057.1| DNA-binding protein [Carnobacterium sp. AT7]
 gi|159873083|gb|EDP67191.1| DNA-binding protein [Carnobacterium sp. AT7]
          Length = 170

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 24/102 (23%), Positives = 42/102 (41%), Gaps = 10/102 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+R++  R+  G SQ  + + L I+ Q + K+E G +      L  +S   E  I  
Sbjct: 1   MALGERLKASRVNKGYSQGDVADYLHISRQSISKWENGNSYPDLDNLVKLSTYYEVSIDE 60

Query: 73  FFDVSPTVCSDISSEENNV------MDFIS----TPDGLQLN 104
               +  +   I   E  +      +DFI       +GL L 
Sbjct: 61  LLKENQELKRKIEENEVKIEENVQKLDFIRGNTDKDEGLILL 102


>gi|115359612|ref|YP_776750.1| XRE family transcriptional regulator [Burkholderia ambifaria AMMD]
 gi|170701460|ref|ZP_02892415.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           IOP40-10]
 gi|171320762|ref|ZP_02909771.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           MEX-5]
 gi|172064423|ref|YP_001812074.1| XRE family transcriptional regulator [Burkholderia ambifaria
           MC40-6]
 gi|115284900|gb|ABI90416.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia ambifaria AMMD]
 gi|170133622|gb|EDT01995.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           IOP40-10]
 gi|171093979|gb|EDT39090.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           MEX-5]
 gi|171996940|gb|ACB67858.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           MC40-6]
          Length = 192

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 24/130 (18%), Positives = 48/130 (36%), Gaps = 11/130 (8%)

Query: 1   MVGNKKIPNPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           MV   +     D   +G +IR  R  L  + +      GI+   + + E+G+     + L
Sbjct: 1   MVSPTENSRSADAAALGSKIRALRQRLKRTLDDTATAAGISKPFLSQVERGLASPSLTSL 60

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFIQ 109
             I++ L   + +F D      S    E+     F  +           +G QL    ++
Sbjct: 61  AGIAQALGVTVQYFVDTPSEERSVCRGEQLRFFGFADSANLFARLTNVSEGRQLEAILVR 120

Query: 110 IDDVKVRQKI 119
           +   + R ++
Sbjct: 121 LPPGQKRSEV 130


>gi|325568823|ref|ZP_08145116.1| cro/CI family transcriptional regulator [Enterococcus
          casseliflavus ATCC 12755]
 gi|325157861|gb|EGC70017.1| cro/CI family transcriptional regulator [Enterococcus
          casseliflavus ATCC 12755]
          Length = 182

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 39/82 (47%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ +G+++R  R+   ++QE+LGE   +T   + + E+ ++         I EVL    
Sbjct: 1  MNMEIGEKLRNLRVQKNLTQEELGERTDLTKGYISQLERDLSSPSMETFFTILEVLGVTP 60

Query: 71 SFFFDVSPTVCSDISSEENNVM 92
            FF         +  EE++ +
Sbjct: 61 EEFFREENAQHQVVYREEDSTL 82


>gi|296876650|ref|ZP_06900698.1| XRE family transcriptional regulator [Streptococcus parasanguinis
          ATCC 15912]
 gi|312867662|ref|ZP_07727868.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
 gi|322389318|ref|ZP_08062877.1| XRE family transcriptional regulator [Streptococcus parasanguinis
          ATCC 903]
 gi|296432152|gb|EFH17951.1| XRE family transcriptional regulator [Streptococcus parasanguinis
          ATCC 15912]
 gi|311096725|gb|EFQ54963.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
 gi|321143982|gb|EFX39401.1| XRE family transcriptional regulator [Streptococcus parasanguinis
          ATCC 903]
          Length = 66

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R+ LG+SQ  L + +G++ Q +   E G          ++++ L + ++  F
Sbjct: 2  NRVKEYRVNLGLSQLALAKSIGVSRQTINMIENGKYNPSLDLCINLAKELGTDLNSLF 59


>gi|253576542|ref|ZP_04853871.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
          D14]
 gi|251844179|gb|EES72198.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
          D14]
          Length = 72

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 28/56 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KRIR  R+   ++Q++L E L I+     +YE G   V +S L  ++      I +
Sbjct: 3  KRIRDLRVDRDLTQQQLAEHLNISQATYSRYENGNLDVPSSVLIKLANFYNVSIDY 58


>gi|271969128|ref|YP_003343324.1| XRE family transcriptional regulator [Streptosporangium roseum
          DSM 43021]
 gi|270512303|gb|ACZ90581.1| putative transcriptional regulator, XRE family [Streptosporangium
          roseum DSM 43021]
          Length = 199

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 30/77 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            VG R++  R   G+S   L E  GI+   + + E G  R     L  I++  + P+  
Sbjct: 12 AQVGSRLKRIRTQRGISLSALAEATGISKSTLSRLETGQRRPSLELLLPIAQAHQVPLDE 71

Query: 73 FFDVSPTVCSDISSEEN 89
                     I S+ +
Sbjct: 72 LVGAPEVGDPRIRSKPS 88


>gi|227328285|ref|ZP_03832309.1| hypothetical protein PcarcW_13545 [Pectobacterium carotovorum
          subsp. carotovorum WPP14]
          Length = 86

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+   ++QEKLG   GI       +V +YE G++R     +   ++VL  P  +F
Sbjct: 5  RLKAARLRANLTQEKLGVLAGIEEETARSRVSQYEGGIHRPTFEMMCAFAKVLNVPECYF 64

Query: 74 FDVSPTVCS 82
          + V+     
Sbjct: 65 YTVNDDFAG 73


>gi|84386363|ref|ZP_00989391.1| transcriptional regulator, putative [Vibrio splendidus 12B01]
 gi|84378787|gb|EAP95642.1| transcriptional regulator, putative [Vibrio splendidus 12B01]
          Length = 101

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 37/69 (53%), Gaps = 4/69 (5%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEV 65
           +D  +  R++  R    +SQ++LG  +GI       ++ +YEKG +    S L+ + + 
Sbjct: 2  SIDNPIPMRLKEVRKKAKISQKELGVRIGIDESSASARMNQYEKGKHTPDISTLKKMGDE 61

Query: 66 LESPISFFF 74
          L  P+++FF
Sbjct: 62 LGVPLNYFF 70


>gi|328886799|emb|CCA60038.1| Transcriptional regulator, MerR family [Streptomyces venezuelae
          ATCC 10712]
          Length = 189

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 22/83 (26%), Positives = 35/83 (42%), Gaps = 1/83 (1%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P P  I VG+ IR  R   G+S   L    G++   + + E+G+     S +  I+E L+
Sbjct: 6  PTPEAIEVGRVIRSCRKQRGVSMAVLAARSGLSQPFLSQLERGLATPSLSSIYRIAEALD 65

Query: 68 SPISFFFDVSPTVCSDISSEENN 90
               F    P     +S E + 
Sbjct: 66 VTPGTFLR-PPGRPGAVSHESDP 87


>gi|327490807|gb|EGF22588.1| hypothetical transcriptional regulator [Streptococcus sanguinis
          SK1058]
          Length = 231

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 32/63 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++ RR+ LG+ Q  + E L ++ Q    +EKG  +     L+ +  +L+ P  +F ++ 
Sbjct: 10 KLKNRRLKLGLRQVDIIEKLNVSKQAYSAWEKGKIKPSQDNLKKLETILKVPEGYFTELE 69

Query: 78 PTV 80
             
Sbjct: 70 IAT 72


>gi|300115054|ref|YP_003761629.1| XRE family transcriptional regulator [Nitrosococcus watsonii
          C-113]
 gi|299540991|gb|ADJ29308.1| transcriptional regulator, XRE family [Nitrosococcus watsonii
          C-113]
          Length = 84

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 33/71 (46%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   K     +D++VG+ +R+ R +  MSQ +L +  GI    +   E     +G  R +
Sbjct: 1  MKNYKIAKRQIDVSVGESVRIIRELQEMSQNELAKLAGIPQSTISAIENDRVNLGVERAK 60

Query: 61 HISEVLESPIS 71
           ++  L+   +
Sbjct: 61 QLALALKCHPA 71


>gi|290889566|ref|ZP_06552656.1| hypothetical protein AWRIB429_0046 [Oenococcus oeni AWRIB429]
 gi|290480764|gb|EFD89398.1| hypothetical protein AWRIB429_0046 [Oenococcus oeni AWRIB429]
          Length = 198

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 34/73 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  +R  LGM+Q+++ E L ++ Q +  +EKG N      L  +S++ +  +        
Sbjct: 13 ISSKRRELGMTQDQVAELLYVSRQALSNWEKGKNYPDLDTLVELSKIYDLSLDVLIKGDK 72

Query: 79 TVCSDISSEENNV 91
           V   +  +  ++
Sbjct: 73 KVMKKVQEDSQDL 85


>gi|238916590|ref|YP_002930107.1| hypothetical protein EUBELI_00647 [Eubacterium eligens ATCC 27750]
 gi|238871950|gb|ACR71660.1| Hypothetical protein EUBELI_00647 [Eubacterium eligens ATCC 27750]
          Length = 294

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 28/114 (24%), Positives = 55/114 (48%), Gaps = 15/114 (13%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ I+  R+  G +Q +LG+ LG+T + + ++EKG +    S ++ +S VL+  I     
Sbjct: 7   GELIKSARIKKGYTQVELGDLLGVTNKAISRWEKGDSFPDISVIEELSRVLDIRI----- 61

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-VKVRQKIIELVRSIVS 128
               V  D++  ++            ++ R  +++ D VK R+ I   V  I +
Sbjct: 62  -QDIVIGDVTEPDSETA-------VTEVVRA-VKLQDKVKKRKFISSGVSCIAA 106


>gi|225019958|ref|ZP_03709150.1| hypothetical protein CLOSTMETH_03917 [Clostridium methylpentosum
           DSM 5476]
 gi|224947322|gb|EEG28531.1| hypothetical protein CLOSTMETH_03917 [Clostridium methylpentosum
           DSM 5476]
          Length = 126

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 22/128 (17%), Positives = 53/128 (41%), Gaps = 18/128 (14%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           K+++  R   G+ Q++L + + ++   +  YE G N    + L  ++   +  + +  D 
Sbjct: 5   KKLKDLRTYHGLKQKELAKAINVSSSTISGYENGKN-PDYNTLVKLANYFKVSVDYLLDN 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
           SP   S          +F  +       R +  +       K+IE+++ + +S+++    
Sbjct: 64  SPVKLSYDELNS----EFQLSK------RKYSSL-------KLIEMIKELDTSDQEAIIY 106

Query: 137 EEECMVEQ 144
             E   E+
Sbjct: 107 ILESFSEK 114


>gi|116490172|ref|YP_809716.1| XRE family transcriptional regulator [Oenococcus oeni PSU-1]
 gi|116090897|gb|ABJ56051.1| Transcriptional regulator, xre family [Oenococcus oeni PSU-1]
          Length = 192

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 34/73 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  +R  LGM+Q+++ E L ++ Q +  +EKG N      L  +S++ +  +        
Sbjct: 7  ISSKRRELGMTQDQVAELLYVSRQALSNWEKGKNYPDLDTLVELSKIYDLSLDVLIKGDK 66

Query: 79 TVCSDISSEENNV 91
           V   +  +  ++
Sbjct: 67 KVMKKVQEDSQDL 79


>gi|108758699|ref|YP_628542.1| putative transcriptional regulator [Myxococcus xanthus DK 1622]
 gi|108462579|gb|ABF87764.1| putative transcriptional regulator [Myxococcus xanthus DK 1622]
          Length = 272

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 26/102 (25%), Positives = 44/102 (43%), Gaps = 9/102 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
           +++G  +RL R   G+S   L   +G++   + + E GV+      RL  I+  L  P S
Sbjct: 1   MHLGATLRLLRTDAGLSLRDLARRIGVSSAYLSRVENGVDAPPTPERLSAIARELRVPSS 60

Query: 72  FFFDVSPTVCSDISSEENNVMD----FISTPD----GLQLNR 105
              DV+  +   +++    V      F+        GLQL R
Sbjct: 61  LLMDVANRMSPSVAAYLEEVPGAGALFLDIAQRRLSGLQLAR 102


>gi|71907867|ref|YP_285454.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Dechloromonas aromatica RCB]
 gi|71847488|gb|AAZ46984.1| Helix-turn-helix motif protein [Dechloromonas aromatica RCB]
          Length = 119

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 41/107 (38%), Gaps = 5/107 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   KK    +   +G  +  RR  LG +QE + E +G+  + + + E+G +      L 
Sbjct: 1   MAVKKKDSARLAKRLGGNLSERRKQLGWTQEMVAERVGVDAETISRIERGAHLPSLPTLD 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
            ++  L        D+      + +SE      +IS        R F
Sbjct: 61  RLAVALRCSAG---DLLSNEGPEEASEAATFGAWISELGTDD--RAF 102


>gi|332160142|ref|YP_004296719.1| putative transcriptional regulator [Yersinia enterocolitica
          subsp. palearctica 105.5R(r)]
 gi|318607291|emb|CBY28789.1| hypothetical protein Y11_37411 [Yersinia enterocolitica subsp.
          palearctica Y11]
 gi|325664372|gb|ADZ41016.1| Predicted transcriptional regulator [Yersinia enterocolitica
          subsp. palearctica 105.5R(r)]
 gi|330859693|emb|CBX70029.1| hypothetical protein YEW_IC35700 [Yersinia enterocolitica W22703]
          Length = 262

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 38/77 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I+  R  L ++Q +L + +G + QQ+Q+ E G         Q IS VL+ P++  F  
Sbjct: 3  NKIKELRTQLSITQRELADMVGTSQQQIQRIETGKVAAKLGLAQAISAVLKKPLNAVFPD 62

Query: 77 SPTVCSDISSEENNVMD 93
          S  +   + ++ +   D
Sbjct: 63 SDNLLKKLRNQSSRSDD 79


>gi|308048864|ref|YP_003912430.1| XRE family transcriptional regulator [Ferrimonas balearica DSM
          9799]
 gi|307631054|gb|ADN75356.1| transcriptional regulator, XRE family with cupin sensor
          [Ferrimonas balearica DSM 9799]
          Length = 180

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 40/86 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G R+R  R   G+SQ +L +  G+T   + + EK       + L+ I + L   ++ 
Sbjct: 1  MDIGNRLRQLRTQAGLSQRELAKRTGVTNGFISQVEKNSVSPSVASLKKILDGLPISLTN 60

Query: 73 FFDVSPTVCSDISSEENNVMDFISTP 98
          FFD      + +    + + +  S P
Sbjct: 61 FFDSEERQPAQVVFRADEMPNIGSGP 86


>gi|222530393|ref|YP_002574275.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
          DSM 6725]
 gi|222457240|gb|ACM61502.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          bescii DSM 6725]
          Length = 77

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK++R  R   G+SQ++L +  G+    +   E+         ++ ++  L   I  F 
Sbjct: 2  VGKKLRKLRTQKGLSQQQLAKIAGVPQSTIWYIERENRNPTIKTMKRLATALGVSIEEFL 61

Query: 75 DVS 77
          D  
Sbjct: 62 DSE 64


>gi|91782830|ref|YP_558036.1| transcriptional regulator [Burkholderia xenovorans LB400]
 gi|91686784|gb|ABE29984.1| Transcriptional Regulator, XRE(MerR) family with Cupin sensor
           domain [Burkholderia xenovorans LB400]
          Length = 191

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 27/136 (19%), Positives = 52/136 (38%), Gaps = 7/136 (5%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV        V + +G +IR  R  L  + +++ +  GI+   + + E+G      + L 
Sbjct: 1   MVLPLNNKAHVAVAIGSKIRALRQRLKRTLDEVAKTAGISKPFLSQVERGHATPSITSLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI- 119
            I+  L   + +F D      S +   +     F  +         F ++ ++ V  K+ 
Sbjct: 61  GIARALGVTVQYFVDTPTEDKSVLRGSDLKYFGFDGS------ANLFGRLTNLSVGSKLE 114

Query: 120 IELVRSIVSSEKKYRT 135
           + LVR  V       T
Sbjct: 115 VILVRMPVGQNPSEVT 130


>gi|322375254|ref|ZP_08049767.1| zinc-binding transcriptional regulator, Cro/CI family
          [Streptococcus sp. C300]
 gi|321279517|gb|EFX56557.1| zinc-binding transcriptional regulator, Cro/CI family
          [Streptococcus sp. C300]
          Length = 377

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 32/57 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++   R+  G+++++L E  GI+ Q +  YE G    GAS+L  I   L+ P ++F
Sbjct: 9  SKLTKARIARGLTKKELAERTGISRQMISNYELGKTHPGASKLMTIVAELDFPYAYF 65


>gi|317055556|ref|YP_004104023.1| helix-turn-helix domain-containing protein [Ruminococcus albus 7]
 gi|315447825|gb|ADU21389.1| helix-turn-helix domain protein [Ruminococcus albus 7]
          Length = 297

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 36/82 (43%), Gaps = 7/82 (8%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K +  RR  LG++Q+ L + L ++ Q V K+E       +  L  +++ L + I   F  
Sbjct: 9  KNLVKRRKELGLTQDMLAQKLNVSAQAVSKWENSS-YPDSELLPMLAKALGTSIDSLF-- 65

Query: 77 SPTVCSDISSEENNVMDFISTP 98
               S  S  E +++  I   
Sbjct: 66 ----GSKNSDPETDILQLIHDR 83


>gi|302385132|ref|YP_003820954.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
 gi|302195760|gb|ADL03331.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
          Length = 174

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 31/72 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R  LG+SQE+ G+ L +T   + K E G+N      ++ I         +    
Sbjct: 3  NRIKEVRKKLGLSQEEFGKRLRVTKTSISKIEAGINNPSDQTIKLICSEFSVNEEWLRTG 62

Query: 77 SPTVCSDISSEE 88
          +    +   SE+
Sbjct: 63 AGGQDNMFLSED 74


>gi|294013107|ref|YP_003546567.1| Xre-family transcriptional regulator [Sphingobium japonicum UT26S]
 gi|292676437|dbj|BAI97955.1| Xre-family transcriptional regulator [Sphingobium japonicum UT26S]
          Length = 471

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 25/130 (19%), Positives = 59/130 (45%), Gaps = 12/130 (9%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  ++K      + +G ++R+ R  LG++Q ++ E LG++   +   E+    + A  L 
Sbjct: 1   MADDRK------LYLGPKLRVLRRELGLNQTRMAEELGVSPSYLNHLERNQRPLTAQMLL 54

Query: 61  HISEVLESPISFFF----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
            ++ V +  I  F     + + +  S+I S+       I+  + L++   +  + +   R
Sbjct: 55  RLANVYDIDIRDFVASTQEGAASALSEILSDALVRDIGIARDEVLEVAENYPGVSEAIGR 114

Query: 117 --QKIIELVR 124
             + + +L R
Sbjct: 115 FYRALSDLRR 124


>gi|290131506|gb|ADD23348.1| PlcR [Bacillus sp. RS1045]
          Length = 285

 Score = 57.5 bits (138), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|313898251|ref|ZP_07831789.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312957015|gb|EFR38645.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 357

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 25/153 (16%), Positives = 54/153 (35%), Gaps = 26/153 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++GK I   R   G +QE L   L ++   V K+E G +    S L  ++ + +  I  
Sbjct: 1   MDIGKNIVRLRNEKGYTQEMLASLLHVSSAAVSKWEHGSSCPDISTLPILARIFDISIDE 60

Query: 73  F--FDVSPTVCSDISSEENNVMDFIST--PDGLQ--------------LNRYFIQID--- 111
              F+ + +        E  +  F S   P+ +               L   F ++    
Sbjct: 61  LLNFEKNLSEEQVNRLCEEMLGQFQSAPFPEAMAYVKKVLRQYPNSESLKLSFARLSMQV 120

Query: 112 -----DVKVRQKIIELVRSIVSSEKKYRTIEEE 139
                +     + + L + +     +   +E++
Sbjct: 121 LLLLQEEGQANEFLALAKQLAQEVSQSADLEKK 153


>gi|296272112|ref|YP_003654743.1| XRE family transcriptional regulator [Arcobacter nitrofigilis DSM
          7299]
 gi|296096287|gb|ADG92237.1| transcriptional regulator, XRE family [Arcobacter nitrofigilis
          DSM 7299]
          Length = 197

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 42/80 (52%), Gaps = 2/80 (2%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          NVGK+I+  R    M+ ++L +  GI++  +   E G  +     L+ +++VL   I+  
Sbjct: 6  NVGKKIKFLRKEKKMNAKELAKDAGISYGMLSLLESGSTQGSVETLRKVAKVLGVTIAHL 65

Query: 74 FDVSPTVCSDISSEENNVMD 93
          F  + +  SD+++   N+ +
Sbjct: 66 F--TNSEDSDLATSPKNLDN 83


>gi|293378126|ref|ZP_06624295.1| DNA-binding protein [Enterococcus faecium PC4.1]
 gi|292642990|gb|EFF61131.1| DNA-binding protein [Enterococcus faecium PC4.1]
          Length = 180

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/91 (20%), Positives = 43/91 (47%), Gaps = 1/91 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+++R  R+   ++QE+LGE   ++   + + E+ ++         I EVL      
Sbjct: 1   MEIGEKLRNLRIQKNLTQEELGERTDLSKGYISQLERDLSSPSMETFFSILEVLGVTPEE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           FF         + S+E++ + +    +G +L
Sbjct: 61  FFHQEAANLQVVYSKEDHTV-YFDEENGYEL 90


>gi|291542798|emb|CBL15908.1| Helix-turn-helix [Ruminococcus bromii L2-63]
          Length = 117

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 30/54 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +GKRI++ R+   ++QEKL E +G++   +   E G  RV  + +  I+  L  
Sbjct: 8  IGKRIKIARIKADLTQEKLSEMVGVSPTHMSNVETGTTRVSLTTIVGIANALGI 61


>gi|223043812|ref|ZP_03613854.1| DNA-binding protein [Staphylococcus capitis SK14]
 gi|222442716|gb|EEE48819.1| DNA-binding protein [Staphylococcus capitis SK14]
          Length = 179

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 31/68 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G ++R  R I   +QE+L E   ++   + + E            +I EVL +  S 
Sbjct: 1  MDIGYKLRNLRRIKNFTQEELAERTDLSKGYISQIESQHASPSIETFLNILEVLGTSASD 60

Query: 73 FFDVSPTV 80
          FF   P+ 
Sbjct: 61 FFQERPSE 68


>gi|90592588|ref|YP_529848.1| putative transcriptional regulator [Lactobacillus phage KC5a]
 gi|89891917|gb|ABD78790.1| putative transcriptional regulator [Lactobacillus phage KC5a]
          Length = 117

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 15/85 (17%), Positives = 35/85 (41%), Gaps = 4/85 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    ++  +LGE +G+    + +YE           Q +++    P+ +   +
Sbjct: 3  NRLKELRHEKNLTLRELGEKVGMRNSTLSQYETNKREPKLDTWQKLADFFNVPVDYLLGI 62

Query: 77 SPT----VCSDISSEENNVMDFIST 97
          S         D+++EE    + I+ 
Sbjct: 63 SKDRSTLTIDDLNAEEQEAYERITD 87


>gi|302879146|ref|YP_003847710.1| helix-turn-helix domain-containing protein [Gallionella
          capsiferriformans ES-2]
 gi|302581935|gb|ADL55946.1| helix-turn-helix domain protein [Gallionella capsiferriformans
          ES-2]
          Length = 117

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 33/69 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            I  RR  L  +Q +L E +G+  + V ++E+G N     RL+ ++E L+ P+      
Sbjct: 11 ANIAERRKKLNWTQAELAERIGVDTETVSRFERGSNLPSLHRLEKLAEALKIPLYKLVAA 70

Query: 77 SPTVCSDIS 85
          S     D S
Sbjct: 71 SSPRHDDQS 79


>gi|209901309|ref|YP_002290948.1| putative phage DNA-binding protein [Clostridium phage phiCD27]
 gi|199612190|gb|ACH91363.1| putative phage DNA-binding protein [Clostridium phage phiCD27]
          Length = 387

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 32/67 (47%), Gaps = 1/67 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPISFFF 74
          G+R++  R+  GM+  +L E +    Q V  YE   ++   + +   I++ L  P+ FF 
Sbjct: 12 GERLKKARIYRGMTVAELAERIDCQRQTVSMYENNKSKPNDNNVVKRIAKELGFPVKFFL 71

Query: 75 DVSPTVC 81
          +    + 
Sbjct: 72 ETGNNIA 78


>gi|149916489|ref|ZP_01905006.1| transcriptional regulator, XRE family protein [Roseobacter sp.
          AzwK-3b]
 gi|149809591|gb|EDM69447.1| transcriptional regulator, XRE family protein [Roseobacter sp.
          AzwK-3b]
          Length = 435

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 34/75 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR RR++ G+ Q +L + +GI+   +   E    R+    L  ++EVLE   S   
Sbjct: 7  IGTRIRERRVMNGIRQSELAKMVGISPSYLNLIEHNRRRIAGKTLIKLAEVLEVEPSALS 66

Query: 75 DVSPTVCSDISSEEN 89
          + +         E  
Sbjct: 67 EGAEVTLIAALREAA 81


>gi|49478976|ref|YP_039343.1| transcription activator [Bacillus thuringiensis serovar konkukian
          str. 97-27]
 gi|52140212|ref|YP_086619.1| transcriptional activator [Bacillus cereus E33L]
 gi|49330532|gb|AAT61178.1| transcription activator [Bacillus thuringiensis serovar konkukian
          str. 97-27]
 gi|51973681|gb|AAU15231.1| transcriptional activator [Bacillus cereus E33L]
          Length = 285

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|83589109|ref|YP_429118.1| XRE family transcriptional regulator [Moorella thermoacetica ATCC
          39073]
 gi|83572023|gb|ABC18575.1| transcriptional regulator, XRE family [Moorella thermoacetica
          ATCC 39073]
          Length = 81

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 27/69 (39%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R+  G++Q +L   +G+T       EKG           I+  L  P+   F    
Sbjct: 5  LRRVRLQAGLTQSELARLVGLTRASYTNIEKGHKNPSVGTALRIARALNRPVEELFADES 64

Query: 79 TVCSDISSE 87
              D+ SE
Sbjct: 65 PAVQDVKSE 73


>gi|42784526|ref|NP_981773.1| transcriptional regulator PlcR, putative [Bacillus cereus ATCC
          10987]
 gi|42740458|gb|AAS44381.1| transcriptional regulator PlcR, putative [Bacillus cereus ATCC
          10987]
          Length = 285

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|327468544|gb|EGF14023.1| hypothetical protein HMPREF9386_1402 [Streptococcus sanguinis
          SK330]
          Length = 88

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 31/70 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RI+  R   G+SQE L + LG++ Q V K+E   +     ++  +S+       +
Sbjct: 1  MNLSDRIQYLRKARGISQEGLADQLGVSRQAVSKWESEQSMPDLDKIISMSDYFAVTTDY 60

Query: 73 FFDVSPTVCS 82
                 V  
Sbjct: 61 LLKGIEPVVQ 70


>gi|308179920|ref|YP_003924048.1| XRE family DNA-binding protein [Lactobacillus plantarum subsp.
          plantarum ST-III]
 gi|308045411|gb|ADN97954.1| XRE family DNA-binding protein [Lactobacillus plantarum subsp.
          plantarum ST-III]
          Length = 102

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 28/65 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            G +++  R    ++Q +L + L I+   +  YE+G        L  I  VL++   + 
Sbjct: 3  YFGDKLKSLRKAKKLTQVELAQQLDISKWAITSYEQGKTYPSIEVLIKICSVLDTSSDYL 62

Query: 74 FDVSP 78
            +S 
Sbjct: 63 LGISD 67


>gi|293433433|ref|ZP_06661861.1| transcriptional regulator [Escherichia coli B088]
 gi|291324252|gb|EFE63674.1| transcriptional regulator [Escherichia coli B088]
          Length = 228

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 32/57 (56%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R+++ R   GMSQ +L E +G++ Q V K E G   +   +++ I++VL     + 
Sbjct: 6  ERLKIGREKAGMSQAQLAEKIGLSQQSVAKIENGET-LQPRKIKEIAKVLGVSQKWL 61


>gi|217077472|ref|YP_002335190.1| transcriptional regulator, XRE family [Thermosipho africanus
           TCF52B]
 gi|217037327|gb|ACJ75849.1| transcriptional regulator, XRE family [Thermosipho africanus
           TCF52B]
          Length = 177

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 49/123 (39%), Gaps = 7/123 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GK+I+  R+  G +QE+L +   ++   + + E          L+ I  VL S +  
Sbjct: 1   MKLGKKIKTLRIARGYTQEELADRCDLSRSFISQLENDQVSPSIDTLERILRVLGSDLKT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI---QIDDVKVRQKIIELVRSIVSS 129
           FF         +      V  ++         + +I    I+D  +  K+IEL     + 
Sbjct: 61  FFSTDKRQEKIVFKASERVPMYLDEYG----IKGYILMDNIEDKSIDPKLIELAPGAETE 116

Query: 130 EKK 132
           E+ 
Sbjct: 117 EED 119


>gi|168204476|ref|ZP_02630481.1| transcriptional regulator [Clostridium perfringens E str.
          JGS1987]
 gi|170663962|gb|EDT16645.1| transcriptional regulator [Clostridium perfringens E str.
          JGS1987]
          Length = 184

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 33/70 (47%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +++ +G R++  R    +S  ++ E  G++   + + E+G +    S L  I+  L+  
Sbjct: 3  DLNLIIGNRLKTIRNNRNLSLSEVSEITGVSKAMLGQIERGQSNPTVSTLWKIANGLKVS 62

Query: 70 ISFFFDVSPT 79
           S F D +  
Sbjct: 63 FSMFIDENKE 72


>gi|42519631|ref|NP_965561.1| hypothetical protein LJ1755 [Lactobacillus johnsonii NCC 533]
 gi|38731479|gb|AAR27403.1| hypothetical protein Ljo_1755 [Lactobacillus johnsonii NCC 533]
 gi|41583920|gb|AAS09527.1| hypothetical protein LJ_1755 [Lactobacillus johnsonii NCC 533]
          Length = 266

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 6/62 (9%)

Query: 18 RIRLRRMILGMSQEKLG------ECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          R++  R  +G +QE+L       + L I+   + KYE GVN      L+ +SE LE    
Sbjct: 5  RLKYIRKKMGFTQEELANYLQEVKHLKISRGTIAKYESGVNFPSKKTLKALSEALEVSED 64

Query: 72 FF 73
          F 
Sbjct: 65 FL 66


>gi|258647029|ref|ZP_05734498.1| DNA-binding protein [Dialister invisus DSM 15470]
 gi|260404470|gb|EEW98017.1| DNA-binding protein [Dialister invisus DSM 15470]
          Length = 249

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 31/68 (45%), Gaps = 2/68 (2%)

Query: 5  KKIPNPVDI--NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           K+   +D+   +GKRIR  R    MS  +L + +  +   + KYE G   +  + L  I
Sbjct: 9  NKMEQKMDLPQILGKRIRYYRKQKHMSLRQLADIICKSVSTLSKYESGQIVLDITTLYDI 68

Query: 63 SEVLESPI 70
          +     P+
Sbjct: 69 AHAFHLPV 76


>gi|242240628|ref|YP_002988809.1| XRE family transcriptional regulator [Dickeya dadantii Ech703]
 gi|242132685|gb|ACS86987.1| transcriptional regulator, XRE family [Dickeya dadantii Ech703]
          Length = 88

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 33/72 (45%), Gaps = 4/72 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+   ++QEKLG   GI     + ++  YE G ++         + VL  P  +
Sbjct: 4  KRLKAARLRANLTQEKLGVLAGIEEATAYSRLSHYENGTHKPTFELACEFARVLNVPECY 63

Query: 73 FFDVSPTVCSDI 84
          F+ V      D+
Sbjct: 64 FYIVDDEFAEDV 75


>gi|225570293|ref|ZP_03779318.1| hypothetical protein CLOHYLEM_06389 [Clostridium hylemonae DSM
           15053]
 gi|225160825|gb|EEG73444.1| hypothetical protein CLOHYLEM_06389 [Clostridium hylemonae DSM
           15053]
          Length = 262

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 34/85 (40%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++  R    ++QE+L E L ++   + K+E G        L+ IS+     +      
Sbjct: 66  EKLQKLRKSKNLTQEQLAEILSVSRTAISKWESGRGYPSIDSLKEISKFFTISLDDLLSS 125

Query: 77  SPTVCSDISSEENNVMDFISTPDGL 101
              + +     +  +  FI    GL
Sbjct: 126 EEILNAAQEDTDRKIHHFIDLTFGL 150


>gi|205374993|ref|ZP_03227784.1| XRE family transcriptional regulator [Bacillus coahuilensis m4-4]
          Length = 292

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 27/106 (25%), Positives = 50/106 (47%), Gaps = 9/106 (8%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G+ IR  R  LG+ Q+ L + +  T  Q+ K E G++   ++ L  IS+ L   ++  
Sbjct: 8   QIGQVIRELREALGLHQQDLCKGI-CTQSQLSKIENGISLPQSTTLYMISKRLGIDVNTL 66

Query: 74  FDVSPTVCSDISSE-ENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           F+ + T   D   E E  +  ++   D       +  I +V +R+K
Sbjct: 67  FEYTTTSRMDYVLEVEALIRGYVRKKD-------YKSIREVVLREK 105


>gi|194467418|ref|ZP_03073405.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
 gi|194454454|gb|EDX43351.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
          Length = 185

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++ G++I  RR  LG++Q+ +   L IT Q + K+E   +      L  +SE+    + 
Sbjct: 1  MSFGEQILSRRKELGLTQQNVANELHITRQTLSKWENNKSYPDLKLLLALSEIYHVSVD 59


>gi|56421430|ref|YP_148748.1| hypothetical protein GK2895 [Geobacillus kaustophilus HTA426]
 gi|56381272|dbj|BAD77180.1| hypothetical conserved protein [Geobacillus kaustophilus HTA426]
          Length = 180

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 34/59 (57%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          ++IR  R    ++ ++L E  G++   + + E+G   +  + L+ I++ LE PI+ FF+
Sbjct: 6  RKIRDIRKQRDLTLKELSEKTGLSVSFLSQVERGTTSLAITSLKKIADALEVPITDFFE 64


>gi|325846936|ref|ZP_08169793.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
 gi|325481178|gb|EGC84222.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
          Length = 241

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 35/74 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ +  +R    M+Q+ + E L ++ Q V K+E+G +    S L  ++++L+  +    +
Sbjct: 10 GEFVCKKRKEKNMTQKDIAEKLYVSVQAVSKWERGKSLPDISLLMPLAKILDVKLVNLLE 69

Query: 76 VSPTVCSDISSEEN 89
                 D    EN
Sbjct: 70 SKEEKAEDSQKIEN 83


>gi|315033825|gb|EFT45757.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX0017]
          Length = 65

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 28/57 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          ++++R  LG +QE   + +GI       YE+G         + ++++L    + FF+
Sbjct: 8  LKIKREELGYTQESFAKKVGIAKTTYSSYEQGHRNPTVQTAKKMAKILNVSWTLFFE 64


>gi|312134484|ref|YP_004001822.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
           owensensis OL]
 gi|311774535|gb|ADQ04022.1| helix-turn-helix domain protein [Caldicellulosiruptor owensensis
           OL]
          Length = 143

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 43/88 (48%), Gaps = 2/88 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G +IR+ R    +SQ++L + L I+ Q +  YEKG    G + L  +SE L+  I F   
Sbjct: 18  GLKIRILREEKRISQKELAKRLEISPQALANYEKGKRMPGINILVRLSEELDVSIDFLLG 77

Query: 76  VSP--TVCSDISSEENNVMDFISTPDGL 101
           ++      S +  E   +++ I   + +
Sbjct: 78  LTDIRKPKSRMVKEHLEMLENIQEKEEI 105


>gi|331002826|ref|ZP_08326340.1| hypothetical protein HMPREF0491_01202 [Lachnospiraceae oral taxon
          107 str. F0167]
 gi|330413315|gb|EGG92683.1| hypothetical protein HMPREF0491_01202 [Lachnospiraceae oral taxon
          107 str. F0167]
          Length = 104

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 21/59 (35%), Positives = 30/59 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          IR  R   GM+Q +LGE +G+  Q + KYE+  + V    LQ IS V E  +    +  
Sbjct: 4  IRKLRQSKGMTQRELGEVIGVKQQTICKYERANSNVSWDILQKISAVFEVSLDELIEED 62


>gi|300172749|ref|YP_003771914.1| HTH-type transcriptional regulator [Leuconostoc gasicomitatum LMG
          18811]
 gi|299887127|emb|CBL91095.1| HTH-type transcriptional regulator [Leuconostoc gasicomitatum LMG
          18811]
          Length = 140

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 33/59 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I++ R    +SQE++ + L ++ Q V  +E+G      S +  +SE+ +  + 
Sbjct: 1  MLIGEKIKIIREDRKISQEQMAKSLNVSGQAVSNWERGKGHPDISNIIRLSEIYDISLD 59


>gi|228986720|ref|ZP_04146850.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
 gi|228773051|gb|EEM21487.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
          Length = 262

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKGKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ETAEKSNE 71


>gi|229082960|ref|ZP_04215381.1| hypothetical protein bcere0023_55490 [Bacillus cereus Rock4-2]
 gi|228700360|gb|EEL52925.1| hypothetical protein bcere0023_55490 [Bacillus cereus Rock4-2]
          Length = 144

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 37/82 (45%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++ +G +++  R     SQE +   +G+T Q V K+E   +      L  +S++ E  I 
Sbjct: 3  NMKLGSQLKKFRESKSFSQEDVARKVGVTRQAVYKWESNKSYPDIDNLILLSDLYEVTID 62

Query: 72 FFFDVSPTVCSDISSEENNVMD 93
               S     D+  ++N+  +
Sbjct: 63 ELIKGSGDAREDLDKKDNDECE 84


>gi|210610467|ref|ZP_03288424.1| hypothetical protein CLONEX_00614 [Clostridium nexile DSM 1787]
 gi|210152460|gb|EEA83466.1| hypothetical protein CLONEX_00614 [Clostridium nexile DSM 1787]
          Length = 110

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 41/92 (44%), Gaps = 1/92 (1%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           I + +   +G RI+ +R+  G++   L   L IT  QV + E+G   +   +L  I ++L
Sbjct: 12  ITDDIRKQIGWRIQEKRIEKGITAVDLSTYLNITANQVSRIERGCAGIDIYKLIVICKIL 71

Query: 67  ESPISF-FFDVSPTVCSDISSEENNVMDFIST 97
                +  F         IS E+   ++ + +
Sbjct: 72  GVSADYILFGEMKEENITISKEQFEAINGLIS 103


>gi|154501121|ref|ZP_02039159.1| hypothetical protein BACCAP_04810 [Bacteroides capillosus ATCC
          29799]
 gi|150269867|gb|EDM97399.1| hypothetical protein BACCAP_04810 [Bacteroides capillosus ATCC
          29799]
          Length = 89

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 24/58 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G RIR  R   G++QE+L E + ++   + K E G            +   +  + + 
Sbjct: 9  GSRIRSLRKKRGLTQEQLAEKMNVSTPYIAKIETGKQTGPVELAVEFAAFFDVSLDYL 66


>gi|114767315|ref|ZP_01446138.1| DNA-binding protein, putative [Pelagibaca bermudensis HTCC2601]
 gi|114540568|gb|EAU43642.1| DNA-binding protein, putative [Roseovarius sp. HTCC2601]
          Length = 212

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 32/72 (44%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ +G+++R  R    M+  +L +  G++   + K E GV     + LQ ++  L  P+
Sbjct: 24 LEVAIGRQVRDLRKRQRMTGSELAQQTGLSVGMLSKIENGVISPSLNTLQALANALRVPL 83

Query: 71 SFFFDVSPTVCS 82
             F        
Sbjct: 84 VQLFSGFEEPRG 95


>gi|83589146|ref|YP_429155.1| XRE family transcriptional regulator [Moorella thermoacetica ATCC
           39073]
 gi|83572060|gb|ABC18612.1| transcriptional regulator, XRE family [Moorella thermoacetica ATCC
           39073]
          Length = 128

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 28/119 (23%), Positives = 56/119 (47%), Gaps = 11/119 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++GKRI+  R  +G++QE+L E + I+   +  YE G        L   ++ L +   F
Sbjct: 1   MSIGKRIKELREKIGLTQEELAERVQISRSALANYESGYREPKGEILVRFAKALNTSTDF 60

Query: 73  FF--DVSPTVCSDIS-----SEENNVMDFIS--TPDGLQLN-RYFIQIDDVKVRQKIIE 121
               +V     +D +      E   +   +S  TP+G +   R    I++++ R++ +E
Sbjct: 61  LLGNEVKVDKTNDKTKKYELDEATLLFARLSNLTPEGREKVLRELEWIEELE-RKRFLE 118


>gi|82750708|ref|YP_416449.1| transcriptional regulator [Staphylococcus aureus RF122]
 gi|82656239|emb|CAI80652.1| probable transcriptional regulator [Staphylococcus aureus RF122]
          Length = 179

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 35/81 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R I  ++QE+L +   ++   + + E            +I EVL +  S 
Sbjct: 1  MNIGNKIKNLRRIKNLTQEELAKRTDLSKGYISQIESEHASPSMETFLNIIEVLGTTPSE 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  S         EE  + D
Sbjct: 61 FFKDSENENVLYKKEEQVIYD 81


>gi|256811069|ref|YP_003128438.1| XRE family transcriptional regulator [Methanocaldococcus fervens
          AG86]
 gi|256794269|gb|ACV24938.1| transcriptional regulator, XRE family [Methanocaldococcus fervens
          AG86]
          Length = 64

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 27/62 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R   G++QE+L + LG+T Q +   EKG           I +     +   F++
Sbjct: 3  NRLRELRKEHGITQEELAKALGVTRQTIIAIEKGKYDPSLKLALKIVKFFGVKVEDVFEL 62

Query: 77 SP 78
            
Sbjct: 63 EE 64


>gi|239981788|ref|ZP_04704312.1| helix-turn-helix domain-containing protein [Streptomyces albus
          J1074]
 gi|291453649|ref|ZP_06593039.1| helix-turn-helix domain-containing protein [Streptomyces albus
          J1074]
 gi|291356598|gb|EFE83500.1| helix-turn-helix domain-containing protein [Streptomyces albus
          J1074]
          Length = 88

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 35/71 (49%), Gaps = 4/71 (5%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+PV  +   RI + R+   +++ +L + LG+ +Q +   E+G           I+   E
Sbjct: 16 PDPV--H--NRIAMLRVERQVTRRQLADALGVHYQTIGYLERGEYSPSLHLALRIAAYFE 71

Query: 68 SPISFFFDVSP 78
           P+ F F ++P
Sbjct: 72 VPVEFIFSLTP 82


>gi|257054282|ref|YP_003132114.1| putative transcriptional regulator [Saccharomonospora viridis DSM
           43017]
 gi|256584154|gb|ACU95287.1| predicted transcriptional regulator [Saccharomonospora viridis DSM
           43017]
          Length = 201

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 23/113 (20%), Positives = 39/113 (34%), Gaps = 8/113 (7%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
            N V   VG R+R  R   G++  +L    G++   + + E G  R     L  ++ V  
Sbjct: 5   TNDVLAAVGPRLRALRRHRGITLAELATATGVSESTLSRLESGQRRATLELLLPLARVYN 64

Query: 68  SPISFFFDVSPTVCS--DISSEENNVMDFI---STPDGLQLNRYFIQIDDVKV 115
            P+        T      ++      M F+     P G    + F  I   + 
Sbjct: 65  VPLDDLVGAPRTGDPRVHLTPIHRFGMTFVPLSRRPGG---VQAFKMIIPARP 114


>gi|196041042|ref|ZP_03108339.1| putative transcriptional regulator PlcR [Bacillus cereus
          NVH0597-99]
 gi|196028210|gb|EDX66820.1| putative transcriptional regulator PlcR [Bacillus cereus
          NVH0597-99]
          Length = 285

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|19919304|gb|AAM08234.1| putative phage repressor [Legionella pneumophila]
 gi|307608914|emb|CBW98314.1| putative phage repressor [Legionella pneumophila 130b]
          Length = 227

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/93 (18%), Positives = 42/93 (45%), Gaps = 1/93 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +   +GKRI   R   G++ + LGE   G+   ++  +E+GV   G   ++ +++ L+  
Sbjct: 6   IKKEIGKRILEARKAKGLTLKALGELAGGLKQTRLTNWEQGVRTPGPEEIKLLAQALDVS 65

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            ++   +S T     +   + ++  +      +
Sbjct: 66  PAYLMCLSDTQLHREAKNPSQLIPLLDYRQACE 98


>gi|59714374|ref|YP_207148.1| DNA-binding protein RDGA [Vibrio fischeri ES114]
 gi|59482651|gb|AAW88260.1| DNA-binding protein RDGA [Vibrio fischeri ES114]
          Length = 203

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 14/70 (20%), Positives = 30/70 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R++ +R  L  SQ KL + + +T   + ++E+         L  ++EVL   + +
Sbjct: 2  KEISIRLKEKRKALRYSQRKLADLVNVTTSAISQWEREETTPKGEHLVRLAEVLNCTVQW 61

Query: 73 FFDVSPTVCS 82
                 +C 
Sbjct: 62 LVGTEDDICE 71


>gi|331268528|ref|YP_004395020.1| DNA-binding protein [Clostridium botulinum BKT015925]
 gi|329125078|gb|AEB75023.1| DNA-binding protein, putative [Clostridium botulinum BKT015925]
          Length = 185

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/92 (18%), Positives = 39/92 (42%), Gaps = 6/92 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++++  R+  G++Q  L     ++   + + E+ +     + L  I E L + +  
Sbjct: 7   MKIGEKLKQLRIEKGLTQMDLASRCELSKGFISQLERDLTSPSIATLVDILECLGTNLKD 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           FF+         S E+      I   +  +LN
Sbjct: 67  FFNDEEEEKIVFSKED------IFESEDSELN 92


>gi|319791791|ref|YP_004153431.1| XRE family transcriptional regulator [Variovorax paradoxus EPS]
 gi|315594254|gb|ADU35320.1| helix-turn-helix domain protein [Variovorax paradoxus EPS]
          Length = 206

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 39/87 (44%), Gaps = 2/87 (2%)

Query: 1  MVGNKKIP--NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
          M  +   P    ++  + +R+R  R    +S + L    G++   +   E+G +   A  
Sbjct: 7  MTESTPAPATTSLNDRIAQRVRDLRASRSLSLDALATHCGVSRSMISLIERGESSPTAVL 66

Query: 59 LQHISEVLESPISFFFDVSPTVCSDIS 85
          L+ ++  L  P++  FD +  V S +S
Sbjct: 67 LEKLATGLGVPLASLFDDAEPVASPVS 93


>gi|297531429|ref|YP_003672704.1| XRE family transcriptional regulator [Geobacillus sp. C56-T3]
 gi|297254681|gb|ADI28127.1| transcriptional regulator, XRE family [Geobacillus sp. C56-T3]
          Length = 135

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 23/135 (17%), Positives = 55/135 (40%), Gaps = 8/135 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            N+G+ ++  R     +QE+L E L ++  Q+ K+E G        L+ + ++      F
Sbjct: 2   ANLGETLKQLRKQRRWTQEQLAEQLNVSRSQISKWENGSLLPDVQSLEKLCQLFNISADF 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
                 T   ++  E  ++       + + L      + + ++ + +  L + +   ++K
Sbjct: 62  LL-GGETRQRELLREVTDMYGTADVHETV-LAALDYLLHNQEMSEAVYALAK-LPDKKRK 118

Query: 133 YR-----TIEEECMV 142
           +      TI +EC  
Sbjct: 119 HVETMIMTIVKECSE 133


>gi|255972572|ref|ZP_05423158.1| predicted protein [Enterococcus faecalis T1]
 gi|256762720|ref|ZP_05503300.1| conserved hypothetical protein [Enterococcus faecalis T3]
 gi|257422398|ref|ZP_05599388.1| predicted protein [Enterococcus faecalis X98]
 gi|255963590|gb|EET96066.1| predicted protein [Enterococcus faecalis T1]
 gi|256683971|gb|EEU23666.1| conserved hypothetical protein [Enterococcus faecalis T3]
 gi|257164222|gb|EEU94182.1| predicted protein [Enterococcus faecalis X98]
          Length = 253

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 39/57 (68%), Gaps = 1/57 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLES 68
          +NVG+R++LRR  L +S +K+   LG++   + +YEKG + ++   RL  I+++L++
Sbjct: 12 MNVGERMKLRRKELNISADKIANELGVSRSTIFRYEKGDIEKLPTERLITIAKILKT 68


>gi|69245031|ref|ZP_00603189.1| Helix-turn-helix motif:Cupin region [Enterococcus faecium DO]
 gi|257879271|ref|ZP_05658924.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium 1,230,933]
 gi|257881911|ref|ZP_05661564.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium 1,231,502]
 gi|257883903|ref|ZP_05663556.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium 1,231,501]
 gi|257890099|ref|ZP_05669752.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium 1,231,410]
 gi|257892889|ref|ZP_05672542.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium 1,231,408]
 gi|258615672|ref|ZP_05713442.1| Cro/CI family transcriptional regulator [Enterococcus faecium DO]
 gi|260558717|ref|ZP_05830906.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecium C68]
 gi|261208793|ref|ZP_05923230.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecium TC 6]
 gi|289566416|ref|ZP_06446843.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecium D344SRF]
 gi|293553978|ref|ZP_06674581.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           E1039]
 gi|293563215|ref|ZP_06677668.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           E1162]
 gi|293567490|ref|ZP_06678836.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           E1071]
 gi|293573068|ref|ZP_06684008.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           E980]
 gi|294614455|ref|ZP_06694371.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           E1636]
 gi|294617942|ref|ZP_06697547.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           E1679]
 gi|294622380|ref|ZP_06701409.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           U0317]
 gi|314937335|ref|ZP_07844675.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|314940969|ref|ZP_07847872.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|314949058|ref|ZP_07852420.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|314953462|ref|ZP_07856378.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|314994151|ref|ZP_07859458.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|314995961|ref|ZP_07861041.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|68196032|gb|EAN10464.1| Helix-turn-helix motif:Cupin region [Enterococcus faecium DO]
 gi|257813499|gb|EEV42257.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium 1,230,933]
 gi|257817569|gb|EEV44897.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium 1,231,502]
 gi|257819741|gb|EEV46889.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium 1,231,501]
 gi|257826459|gb|EEV53085.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium 1,231,410]
 gi|257829268|gb|EEV55875.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium 1,231,408]
 gi|260075176|gb|EEW63489.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecium C68]
 gi|260077295|gb|EEW65015.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecium TC 6]
 gi|289161791|gb|EFD09664.1| helix-turn-helix domain-containing protein:Cupin region
           [Enterococcus faecium D344SRF]
 gi|291589799|gb|EFF21601.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           E1071]
 gi|291592763|gb|EFF24356.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           E1636]
 gi|291595751|gb|EFF27039.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           E1679]
 gi|291598140|gb|EFF29243.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           U0317]
 gi|291601861|gb|EFF32110.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           E1039]
 gi|291604810|gb|EFF34291.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           E1162]
 gi|291606861|gb|EFF36243.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
           E980]
 gi|313589837|gb|EFR68682.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313591418|gb|EFR70263.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|313594495|gb|EFR73340.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|313600201|gb|EFR79044.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|313643286|gb|EFS07866.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|313644535|gb|EFS09115.1| helix-turn-helix protein [Enterococcus faecium TX0082]
          Length = 180

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/91 (20%), Positives = 43/91 (47%), Gaps = 1/91 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+++R  R+   ++QE+LGE   ++   + + E+ ++         I EVL      
Sbjct: 1   MEIGEKLRNLRIQKNLTQEELGERTDLSKGYISQLERDLSSPSMETFFSILEVLGVTPEE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           FF         + S+E++ + +    +G +L
Sbjct: 61  FFHQEAANLQVVYSKEDHTV-YFDEENGYEL 90


>gi|323489112|ref|ZP_08094346.1| ans operon repressor protein [Planococcus donghaensis MPA1U2]
 gi|323397235|gb|EGA90047.1| ans operon repressor protein [Planococcus donghaensis MPA1U2]
          Length = 123

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 30/61 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++IR  R    +S + L   LGI    V  YE G  +V  S LQ +++  +  + +  
Sbjct: 4  IGQKIRELREDHQLSVDDLASQLGIAKSVVWGYESGKKQVSVSHLQLLADYFKVTVDYIL 63

Query: 75 D 75
          +
Sbjct: 64 E 64


>gi|319946827|ref|ZP_08021061.1| hypothetical protein HMPREF9421_1242 [Streptococcus australis
          ATCC 700641]
 gi|319746875|gb|EFV99134.1| hypothetical protein HMPREF9421_1242 [Streptococcus australis
          ATCC 700641]
          Length = 295

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 27/55 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + ++  R  +GMSQE L E +G++ Q V K+E G        +  IS +    I 
Sbjct: 5  ENLKSIRKQVGMSQELLAEKIGVSRQAVTKWETGAGIPDIENMISISNLFNISID 59


>gi|251789114|ref|YP_003003835.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247537735|gb|ACT06356.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 92

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 35/72 (48%), Gaps = 4/72 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGIT----FQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V +R+R  R    +SQE+L    GI+    + ++  YE G ++     +   +++L+ P 
Sbjct: 2  VPQRLRAARERAKISQEELAIAAGISEDTGYSRMSHYENGRHKPKFELICTFAKILDVPE 61

Query: 71 SFFFDVSPTVCS 82
           +F+ +  +   
Sbjct: 62 GYFYMLDDSFAE 73


>gi|223985950|ref|ZP_03635985.1| hypothetical protein HOLDEFILI_03291 [Holdemania filiformis DSM
          12042]
 gi|223962074|gb|EEF66551.1| hypothetical protein HOLDEFILI_03291 [Holdemania filiformis DSM
          12042]
          Length = 94

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I + R    M+Q++L + +G++ Q + + E+         + +I++V    I   FD 
Sbjct: 32 SKIHVYRATKRMTQQELADLVGVSRQTIMQLERNRYNPSMLLVYNIAKVFGVTIEDLFDF 91

Query: 77 SP 78
            
Sbjct: 92 EE 93


>gi|126726075|ref|ZP_01741917.1| DNA-binding protein, putative [Rhodobacterales bacterium
          HTCC2150]
 gi|126705279|gb|EBA04370.1| DNA-binding protein, putative [Rhodobacterales bacterium
          HTCC2150]
          Length = 191

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 31/71 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R   G +   L   LG +   + + E+ ++      L+ ++  L  P+S FF
Sbjct: 12 LGADLRALRKARGWTLSDLAGELGRSVGWLSQIERDLSEPSIGDLREMAAELNVPVSLFF 71

Query: 75 DVSPTVCSDIS 85
            + T  ++  
Sbjct: 72 GQAETPAAETG 82


>gi|332830202|gb|EGK02830.1| hypothetical protein HMPREF9455_01080 [Dysgonomonas gadei ATCC
          BAA-286]
          Length = 80

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 36/69 (52%), Gaps = 1/69 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          IPNP+   +   ++  R++ G++QE+L E + +  + + + E G           IS VL
Sbjct: 11 IPNPMPEFISH-LKEYRILAGLTQEELAEKVNVRRETIIRLEAGKYNPSLKLGIDISRVL 69

Query: 67 ESPISFFFD 75
          ++PI   F+
Sbjct: 70 KAPIEDIFE 78


>gi|315925909|ref|ZP_07922114.1| DNA-binding protein [Pseudoramibacter alactolyticus ATCC 23263]
 gi|315620730|gb|EFV00706.1| DNA-binding protein [Pseudoramibacter alactolyticus ATCC 23263]
          Length = 188

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 28/106 (26%), Positives = 51/106 (48%), Gaps = 10/106 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I + + I+  R   G+SQ++L   L +  Q V K+E+G++   +  L  ISEVLE+P+S 
Sbjct: 19  IMLSENIKTIRKSKGLSQDELAVKLNVVRQTVSKWERGLSVPDSEMLISISEVLETPVST 78

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
               S          E+   +  +  + L++    +Q+   K R +
Sbjct: 79  LLGESIN--------ESEASELKAISEKLEVIN--LQLAQRKERSR 114


>gi|124010375|ref|ZP_01695021.1| transcriptional regulator [Microscilla marina ATCC 23134]
 gi|123983542|gb|EAY24007.1| transcriptional regulator [Microscilla marina ATCC 23134]
          Length = 121

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 24/114 (21%), Positives = 52/114 (45%), Gaps = 11/114 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G +IR  R    +SQ+++   L +   Q  K EKG      + L+ I + L   ++ 
Sbjct: 1   MDIGDKIRKVREAKKLSQKEVALTLNMDQSQYSKIEKGKTDPTTATLEKICKALNVEVAE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
            F  S  +  D+ S + ++++ +   + L          D   R+ I +++ S+
Sbjct: 61  LF-TSDKIFKDVESLDKSLVEKVQLLEQL----------DEGERKSIFQIIDSL 103


>gi|9634643|ref|NP_038317.1| ORF16 [Streptococcus phage 7201]
 gi|7248473|gb|AAF43509.1|AF145054_17 ORF16 [Streptococcus phage 7201]
          Length = 183

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 33/60 (55%), Gaps = 3/60 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPISFFFD 75
           RI+  R    ++Q +L + +G+T + +  +EK G +   A +LQ +++  E  IS+  D
Sbjct: 2  NRIKQLRKSRKLTQAELADLIGVTKRTIIHWEKYGFS--SADKLQELADCFEVSISYLLD 59


>gi|147668729|ref|YP_001213547.1| phage repressor like transcriptional regulator [Dehalococcoides
          sp. BAV1]
 gi|146269677|gb|ABQ16669.1| phage repressor like transcriptional regulator, XRE family
          [Dehalococcoides sp. BAV1]
          Length = 207

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 34/79 (43%), Gaps = 2/79 (2%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESP 69
          +DI +G +++  R+  GM+Q KL +  G+T   +   E +         L  I+  L   
Sbjct: 1  MDIQIGLKVKQLRIARGMTQAKLADASGLTRGYISMLELRKSTMPSYEALSKIARALGVD 60

Query: 70 ISFFFDVSPTVCSDISSEE 88
          I  F    P +    S EE
Sbjct: 61 IKEF-KTDPEIVRLESPEE 78


>gi|327473020|gb|EGF18447.1| hypothetical transcriptional regulator [Streptococcus sanguinis
          SK408]
          Length = 227

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 32/63 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++ RR+ LG+ Q  + E L ++ Q    +EKG  +     L+ +  +L+ P  +F ++ 
Sbjct: 6  KLKNRRLKLGLRQVDIIEKLNVSKQAYSAWEKGKIKPSQDNLKKLETILKVPEGYFTELE 65

Query: 78 PTV 80
             
Sbjct: 66 IAT 68


>gi|312200628|ref|YP_004020689.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
 gi|311231964|gb|ADP84819.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
          Length = 202

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 30/53 (56%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++ RR  LG+SQ++L E +G+  +Q+++YE    +   S    ++E L    +
Sbjct: 5  MKRRRAELGLSQQQLAERVGVDRRQIRRYEADEQQPLLSVGLALAEALGVSAA 57


>gi|317054120|ref|YP_004118145.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
 gi|316952115|gb|ADU71589.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
          Length = 199

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 34/69 (49%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D NVG R+R  R   GM  E++ E +G++   + + E+ V +   + L  + EV+    +
Sbjct: 18 DFNVGIRLRAVRKARGMRIEEVAEKVGVSKSFISRLERNVTQASIATLLKVCEVVGITPA 77

Query: 72 FFFDVSPTV 80
            FD   T 
Sbjct: 78 KLFDPPSTS 86


>gi|229158911|ref|ZP_04286968.1| hypothetical protein bcere0010_50830 [Bacillus cereus ATCC 4342]
 gi|228624522|gb|EEK81292.1| hypothetical protein bcere0010_50830 [Bacillus cereus ATCC 4342]
          Length = 287

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|261344492|ref|ZP_05972136.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282567400|gb|EFB72935.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 92

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/88 (20%), Positives = 38/88 (43%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +   +G +I+  R    +  +++ + +GI   Q  +YEKG +R+   +L+  ++    
Sbjct: 5  HTISEIIGHKIKFIRERKKLPLQEVADAVGIDEMQQIRYEKGQSRIPIDKLKQYADYFGI 64

Query: 69 PISFFFDVSPTVCSDISSEENNVMDFIS 96
           +  FF  +      I         FIS
Sbjct: 65 NMVTFFIFTEVEKKKIREHVKKTEKFIS 92


>gi|15922405|ref|NP_378074.1| transcriptional regulator [Sulfolobus tokodaii str. 7]
 gi|15623194|dbj|BAB67183.1| 515aa long hypothetical transcriptional regulator [Sulfolobus
          tokodaii str. 7]
          Length = 515

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 24/54 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +GKRI   R   G+S  +L +  GI+   + + E G      S L  I+  L  
Sbjct: 5  IGKRITEIREKKGISVTQLAKMAGISKSTLWEIENGKISPNISTLWSIANALGV 58


>gi|332637654|ref|ZP_08416517.1| hypothetical protein WcibK1_03097 [Weissella cibaria KACC 11862]
          Length = 70

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 28/56 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R + G++Q++L   +G+T Q +   EKG           I+  L++ ++  F
Sbjct: 5  VRKYRTLKGLTQKELANAIGVTRQTIALIEKGTYNPTMKLAIAIATQLDTDLNSLF 60


>gi|325261431|ref|ZP_08128169.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
 gi|324032885|gb|EGB94162.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
          Length = 95

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 14/84 (16%), Positives = 33/84 (39%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ GK+I+  R     +Q++L    G+    +  YE G        L  +S +      +
Sbjct: 2  VDFGKKIKQLRKEYNFTQKQLASLAGVAVSAISAYEAGNRYPSYDVLISLSRIFHVSTDY 61

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
             +      D+S  + + ++ + 
Sbjct: 62 LLGLEKMEVVDVSGLDEHEVEVVR 85


>gi|291551015|emb|CBL27277.1| Helix-turn-helix [Ruminococcus torques L2-14]
          Length = 209

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G RI+ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 8  KLIGSRIKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ +  
Sbjct: 68 WLKGETDEYETDITDKRE 85


>gi|257886679|ref|ZP_05666332.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium 1,141,733]
 gi|257895254|ref|ZP_05674907.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium Com12]
 gi|257897876|ref|ZP_05677529.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium Com15]
 gi|257822733|gb|EEV49665.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium 1,141,733]
 gi|257831819|gb|EEV58240.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium Com12]
 gi|257835788|gb|EEV60862.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
           faecium Com15]
          Length = 180

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/91 (20%), Positives = 43/91 (47%), Gaps = 1/91 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+++R  R+   ++QE+LGE   ++   + + E+ ++         I EVL      
Sbjct: 1   MEIGEKLRNLRIQKNLTQEELGERTDLSKGYISQLERDLSSPSMETFFSILEVLGVTPEE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           FF         + S+E++ + +    +G +L
Sbjct: 61  FFHQEAANLQVVYSKEDHTV-YFDEENGYEL 90


>gi|238025512|ref|YP_002909744.1| DNA-binding protein [Burkholderia glumae BGR1]
 gi|237880177|gb|ACR32509.1| DNA-binding protein [Burkholderia glumae BGR1]
          Length = 193

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 25/127 (19%), Positives = 51/127 (40%), Gaps = 9/127 (7%)

Query: 1   MVGNKKIPNPVDINV--GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
           MV + +   P +  V  G +IR  R  L  + ++     GI+   + + E+G+     + 
Sbjct: 1   MVASTENTQPRNAAVELGSKIRALRQRLKRTLDETASAAGISKPFLSQVERGLASPSITS 60

Query: 59  LQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           L  I++ L   + +F +      S    E+     F  +         F ++ +V   ++
Sbjct: 61  LAGIAQALGVNVQYFVETPSEERSVCRGEQLRFFSFADS------ANLFARLTNVSAGRQ 114

Query: 119 IIE-LVR 124
           +   LVR
Sbjct: 115 LEAILVR 121


>gi|254507617|ref|ZP_05119750.1| transcriptional regulator, XRE family [Vibrio parahaemolyticus
          16]
 gi|219549504|gb|EED26496.1| transcriptional regulator, XRE family [Vibrio parahaemolyticus
          16]
          Length = 103

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 47/92 (51%), Gaps = 9/92 (9%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLE 67
          D  +  R++  R    ++Q++LG  +G+       ++  YEKG +      L+ I+E L+
Sbjct: 4  DNPIPARLKAARKKAKITQKELGVKIGMEESSASGRMNHYEKGRHVPDIGTLRRIAEELD 63

Query: 68 SPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
           P+++FF       +++S+E    +D +S  +
Sbjct: 64 VPLNYFF-----CDNELSAELACTIDRMSDEE 90


>gi|139438005|ref|ZP_01771558.1| Hypothetical protein COLAER_00545 [Collinsella aerofaciens ATCC
          25986]
 gi|133776202|gb|EBA40022.1| Hypothetical protein COLAER_00545 [Collinsella aerofaciens ATCC
          25986]
          Length = 238

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+   R   G SQE L   LG++ Q V K+E+  +      L  ++++    +    + 
Sbjct: 7  QRLADLRRSKGFSQEGLARKLGLSRQAVSKWERAESSPDTENLISLAKLYGVSLDELLNP 66

Query: 77 SPTVCSDISSEENN 90
          S  +  DI  E  +
Sbjct: 67 SDEIEDDIEFENED 80


>gi|118472815|ref|YP_890484.1| transcriptional regulator [Mycobacterium smegmatis str. MC2 155]
 gi|118174102|gb|ABK74998.1| transcriptional regulator [Mycobacterium smegmatis str. MC2 155]
          Length = 216

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 15/90 (16%), Positives = 36/90 (40%), Gaps = 2/90 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ +R  R   G++  ++   +GI+   + K E        S L  +++ L+ P++  F
Sbjct: 33  IGRNVRQLRQQHGLTVAEMAARVGISKAMMSKIENAQTSCSLSTLALLAKGLDVPVTSLF 92

Query: 75  DVSPTVCSDISSEENNVMDFIS--TPDGLQ 102
             +         +     + +   T  G +
Sbjct: 93  RGADVERPAAFVKAGTGPEIVRNGTKQGHE 122


>gi|331268935|ref|YP_004395427.1| tetratricopeptide repeat/DNA binding domain-containing protein
           [Clostridium botulinum BKT015925]
 gi|329125485|gb|AEB75430.1| tetratricopeptide repeat/DNA binding domain protein [Clostridium
           botulinum BKT015925]
          Length = 432

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 41/94 (43%), Gaps = 1/94 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I+ RR  LGM+ + L     IT  Q+   E G +      L++++  L   I +  
Sbjct: 6   LGEKIKRRRKELGMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLANSLNISIEYLM 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
           +   T    I +   N+ +     + L L   +I
Sbjct: 65  ESEETQAEKICTYYENISESHIFNNQLNLAEQYI 98


>gi|220928331|ref|YP_002505240.1| XRE family transcriptional regulator [Clostridium cellulolyticum
           H10]
 gi|219998659|gb|ACL75260.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
           H10]
          Length = 179

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/91 (20%), Positives = 42/91 (46%), Gaps = 6/91 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++I+  R+  G++QE+L     ++   + + E+ +     + L  I E L + I  
Sbjct: 1   MKIGEKIKQLRVKNGLTQEELAGRCELSKGFISQLERDLTSPSIATLMDILESLGTNIKD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           FF+ S      ++ +     D + T +   L
Sbjct: 61  FFNES------VNEKVVFKKDDVFTKEDRDL 85


>gi|254420808|ref|ZP_05034532.1| hypothetical protein BBAL3_3118 [Brevundimonas sp. BAL3]
 gi|196186985|gb|EDX81961.1| hypothetical protein BBAL3_3118 [Brevundimonas sp. BAL3]
          Length = 65

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 29/59 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           R++L R+  G +QE+LG+ LG++ Q V   E   +         I+   + P+   F+
Sbjct: 3  NRLKLLRVERGWTQEQLGQALGVSRQAVIALETERHDPSLDLAYRIAAAFDRPVEEIFE 61


>gi|167757416|ref|ZP_02429543.1| hypothetical protein CLORAM_02966 [Clostridium ramosum DSM 1402]
 gi|167703591|gb|EDS18170.1| hypothetical protein CLORAM_02966 [Clostridium ramosum DSM 1402]
          Length = 129

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/123 (15%), Positives = 53/123 (43%), Gaps = 7/123 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
           + +G+RI+  R+    + +++ + LG + Q + KYE   V  + + +++ ++ +     +
Sbjct: 1   MTIGERIKNLRLKNNYTLDEIADKLGTSRQTIFKYENNIVTNIPSDKIEKLALIFNVSPA 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           +      +   D    E NV    + P+ L+L   + +I        + +  + +   + 
Sbjct: 61  YIMGWENSQLGDY---EENVEYLKNQPELLEL---YKEILKNDQLAILFDKAKKLEPKDL 114

Query: 132 KYR 134
           +  
Sbjct: 115 EQI 117


>gi|149919009|ref|ZP_01907494.1| DNA-binding protein [Plesiocystis pacifica SIR-1]
 gi|149820162|gb|EDM79581.1| DNA-binding protein [Plesiocystis pacifica SIR-1]
          Length = 125

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 31/118 (26%), Positives = 51/118 (43%), Gaps = 8/118 (6%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K+  +P     G+ IR  R   G++QE L E  G++   V+  E G        L+ +  
Sbjct: 4   KQRSDPEARRFGRHIRALRSERGLTQELLAERSGLSADSVRSLENGKFSPSRGTLRKLCT 63

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
            L+  +S FF +  T        E+ ++D + T    +L R    I    VR+ I +L
Sbjct: 64  GLDLQMSTFFLLYETGGRRG---EHELLDLLRTRSPAEL-RALTAI----VRELIAQL 113


>gi|116510851|ref|YP_808067.1| XRE family transcriptional regulator [Lactococcus lactis subsp.
          cremoris SK11]
 gi|116106505|gb|ABJ71645.1| Transcriptional regulator, xre family [Lactococcus lactis subsp.
          cremoris SK11]
          Length = 107

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 37/78 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + + I+  R +  +SQE+L + L I+ Q + K+E G +     +L  +SE+ +  +  
Sbjct: 1  MEISEIIKENRKLKNLSQEELAKELHISRQSILKWETGKSLPTTDQLILLSEIFDCSLDT 60

Query: 73 FFDVSPTVCSDISSEENN 90
                 +   +  E ++
Sbjct: 61 LLKGDKKMEEKVKHEIDD 78


>gi|148652624|ref|YP_001279717.1| bifunctional HTH-domain containing protein/aminotransferase
          [Psychrobacter sp. PRwf-1]
 gi|148571708|gb|ABQ93767.1| aminotransferase [Psychrobacter sp. PRwf-1]
          Length = 543

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 34/77 (44%), Gaps = 5/77 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECL-----GITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G R+   R   G++ E+L   +      ++   +  +E+G+N + +S+L  ++ +L    
Sbjct: 11 GARLSKLRKAKGLTAEQLATAMTASGSKVSRGAISNWERGINGIVSSKLPALAHILGCSE 70

Query: 71 SFFFDVSPTVCSDISSE 87
           +     P   ++  + 
Sbjct: 71 GYLLRGEPADNAEPDNS 87


>gi|25012010|ref|NP_736405.1| hypothetical protein gbs1972 [Streptococcus agalactiae NEM316]
 gi|76787285|ref|YP_330541.1| transcriptional regulator [Streptococcus agalactiae A909]
 gi|24413553|emb|CAD47631.1| Unknown [Streptococcus agalactiae NEM316]
 gi|76562342|gb|ABA44926.1| transcriptional regulator, putative [Streptococcus agalactiae
          A909]
          Length = 164

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 27/66 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KR+R  R +  ++Q ++   LG+       YE+  +    S L+ I+ +    I +  D 
Sbjct: 5  KRLRELRQLNNITQIEMANKLGLNRVTYTNYEREKSEPSISTLKEIATIFNVSIDYLIDF 64

Query: 77 SPTVCS 82
                
Sbjct: 65 EDDTKG 70


>gi|312109406|ref|YP_003987722.1| helix-turn-helix domain protein [Geobacillus sp. Y4.1MC1]
 gi|311214507|gb|ADP73111.1| helix-turn-helix domain protein [Geobacillus sp. Y4.1MC1]
          Length = 139

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 29/132 (21%), Positives = 53/132 (40%), Gaps = 4/132 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G++++  R     +QE+L + L I+  Q+ K+E G        L+ +S + E  I F
Sbjct: 5   RKLGEKLKYLRKQHNWTQEQLAQHLNISRSQISKWENGELLPDVQSLEKLSNLYEVSIDF 64

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDG-LQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
                 T   ++  E N +       +  L +  YF Q  +  + + I  L +      K
Sbjct: 65  LI-GKHTTKKELLREMNLLYQTDRIDEKMLDIIDYFKQ--NPDMEEMIYSLAQLPAKKRK 121

Query: 132 KYRTIEEECMVE 143
              TI    + E
Sbjct: 122 HLETIIITLIQE 133


>gi|225419983|ref|ZP_03762286.1| hypothetical protein CLOSTASPAR_06324 [Clostridium asparagiforme
          DSM 15981]
 gi|225041375|gb|EEG51621.1| hypothetical protein CLOSTASPAR_06324 [Clostridium asparagiforme
          DSM 15981]
          Length = 151

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 1/60 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I +G RI+  R    MSQ++L +  G  +   + K E G+N V  S+++ I+E L   + 
Sbjct: 14 IEIGNRIKQLRTEKDMSQDELAKRSGYGSRSTINKIELGINDVPQSKIKAIAEALGVSVG 73


>gi|210610577|ref|ZP_03288503.1| hypothetical protein CLONEX_00693 [Clostridium nexile DSM 1787]
 gi|210152436|gb|EEA83442.1| hypothetical protein CLONEX_00693 [Clostridium nexile DSM 1787]
          Length = 147

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 26/57 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          I +G RIR  R   G SQE L E  G++   + + E G   +    LQ I + L   
Sbjct: 25 IMLGNRIREYRKERGFSQEILAEKSGVSTNTISRIEGGQMAMSVGILQRIVKALGVD 81


>gi|324327531|gb|ADY22791.1| helix-turn-helix domain-containing protein [Bacillus
          thuringiensis serovar finitimus YBT-020]
          Length = 262

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+++   R   G+SQE L E L  T Q V K+E G       +L  I  V E  + +   
Sbjct: 4  GEKLFKLRKGKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLLK 63

Query: 76 VSPTVCSD 83
           +    ++
Sbjct: 64 ETAEKSNE 71


>gi|323463235|gb|ADX75388.1| transcriptional regulator, putative [Staphylococcus
          pseudintermedius ED99]
          Length = 190

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 26/59 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++VG +IR+ R    +SQ  L E + ++ Q +  +E          L  +S +    + 
Sbjct: 1  MDVGNQIRIYRKERQLSQMALAEKIDVSTQTISNWENERTYPDLYHLIVLSSLFNVSLD 59


>gi|322834164|ref|YP_004214191.1| helix-turn-helix domain protein [Rahnella sp. Y9602]
 gi|321169365|gb|ADW75064.1| helix-turn-helix domain protein [Rahnella sp. Y9602]
          Length = 184

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 29/62 (46%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  +  R++  R   G+S E+L    G++   + K E+  +   AS L  ++  L   
Sbjct: 2  SIDQLIATRLQALRKSQGLSLEQLASSSGVSKAMISKIERQDSSPSASLLGRLAASLGVS 61

Query: 70 IS 71
          ++
Sbjct: 62 LA 63


>gi|262283189|ref|ZP_06060956.1| conserved hypothetical protein [Streptococcus sp. 2_1_36FAA]
 gi|262261441|gb|EEY80140.1| conserved hypothetical protein [Streptococcus sp. 2_1_36FAA]
          Length = 135

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 35/79 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+++  R + GM+QE + E L ++ Q +  +E          +  +S++ E  +  
Sbjct: 1  MEIGKKLKEARQLSGMTQESVAEELNVSRQTISNWETEKFYPDILYVLQLSDLYEVSLDE 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                ++   +    + V
Sbjct: 61 LLKGDESMIQHLEESTDTV 79


>gi|238027937|ref|YP_002912168.1| hypothetical protein bglu_1g23820 [Burkholderia glumae BGR1]
 gi|237877131|gb|ACR29464.1| Hypothetical protein bglu_1g23820 [Burkholderia glumae BGR1]
          Length = 125

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+R+   R   G +Q  L + LG+  + V + E G   +   RL    +VL+ PI
Sbjct: 17 IGQRLAAVRRARGWTQAVLADKLGLEKESVSRLESGKVAISIERLVMFCDVLDVPI 72


>gi|251800099|ref|YP_003014830.1| XRE family transcriptional regulator [Paenibacillus sp. JDR-2]
 gi|247547725|gb|ACT04744.1| transcriptional regulator, XRE family [Paenibacillus sp. JDR-2]
          Length = 150

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G++++  R   G  Q++L E L ++ Q V K+E   N      +  IS++    I 
Sbjct: 4  GEKLKAMRQSKGWPQDELAEKLFVSRQSVSKWENNQNYPSIEIIIKISDLFGVTID 59


>gi|328464227|gb|EGF35672.1| transcriptional regulator xre family protein [Lactobacillus
           rhamnosus MTCC 5462]
          Length = 236

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 24/114 (21%), Positives = 47/114 (41%), Gaps = 11/114 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++INVG  I   R   G++QE L + +G++   V K+E G +    + L  ++   +  I
Sbjct: 1   MEINVGAVISAFRKQKGVTQEALADFVGVSKASVSKWETGQSYPDITLLPILAAYFDVSI 60

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                    +  D   + + +    ++     L + F      +V   I  L+R
Sbjct: 61  ------DQLMAYDAQLQPSEIRRIYTS-----LKQAFETQPPARVLTSIRNLIR 103


>gi|323140942|ref|ZP_08075855.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
 gi|322414680|gb|EFY05486.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
          Length = 78

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 2/69 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG--VNRVGASRLQHISEVLESPISF 72
          +  +I   R +  M+QEKL + +GIT Q + + E G     V  S L  I+E L   +S 
Sbjct: 9  ICAKIVFYRKLKSMTQEKLADEVGITPQYLSRIENGGYTKCVSLSTLMKIAEKLGITMSE 68

Query: 73 FFDVSPTVC 81
            +      
Sbjct: 69 LMEGVEDTS 77


>gi|296450733|ref|ZP_06892486.1| XRE family transcriptional regulator [Clostridium difficile NAP08]
 gi|296260577|gb|EFH07419.1| XRE family transcriptional regulator [Clostridium difficile NAP08]
          Length = 130

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 49/113 (43%), Gaps = 17/113 (15%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFF 73
           VG+RI++ R   G++QE L   + ++   V   E+G+          I+  LE    S  
Sbjct: 32  VGQRIKMAREAKGLTQEDLAAMVELSPTHVSVIERGLKAAKLDTFVAIANALEVSADSLL 91

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
            DV     + +++E + ++  +   +                ++KII+ VR++
Sbjct: 92  IDVVAHSVTGVTNELSEMIGKLPKEE----------------QKKIIKAVRAL 128


>gi|291541388|emb|CBL14498.1| Predicted transcriptional regulators [Ruminococcus bromii L2-63]
          Length = 280

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           R+   R  + +SQE+L   +G++ Q V K+E+         L  ++++    + 
Sbjct: 7  NRLLQYRKKMNLSQEELAAKIGVSRQAVSKWERAEASPDTDNLILLADIYGVSLD 61


>gi|289706453|ref|ZP_06502809.1| helix-turn-helix domain-containing protein [Micrococcus luteus
          SK58]
 gi|289556824|gb|EFD50159.1| helix-turn-helix domain-containing protein [Micrococcus luteus
          SK58]
          Length = 91

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 4/74 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGIT----FQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR+R  R   G+SQEKL E + +       ++  YE G      + +  I+ VL  P  +
Sbjct: 4  KRLRDARKNAGISQEKLAELVDVEGINIRSRISSYEVGRVEPSFNLMVKIAAVLNYPECY 63

Query: 73 FFDVSPTVCSDISS 86
          F+ +   +   I  
Sbjct: 64 FYTIDDALAQTILE 77


>gi|284989132|ref|YP_003407686.1| XRE family transcriptional regulator [Geodermatophilus obscurus
          DSM 43160]
 gi|284062377|gb|ADB73315.1| transcriptional regulator, XRE family [Geodermatophilus obscurus
          DSM 43160]
          Length = 90

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 31/78 (39%), Gaps = 1/78 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI L R   G+++ +L + LG+ +Q V   E+G           I+E    P+   F  
Sbjct: 12 NRIALLRAEQGVTRRELADALGVHYQTVGYLERGEYNPSLHLALRIAEFFGLPVEVVFST 71

Query: 77 SP-TVCSDISSEENNVMD 93
           P    SD  + E     
Sbjct: 72 RPFPRISDAGTPEPPAAA 89


>gi|284008336|emb|CBA74713.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 131

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/110 (18%), Positives = 44/110 (40%), Gaps = 2/110 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +NVG RIR  R   GM+  +L   +      + + E+       + L  I+  L   ++ 
Sbjct: 1   MNVGTRIRELRKKKGMTILQLATAINSDVGNISRLERNKQGYSENTLLKIASALGVQVAD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
            F  S    +   + +    +  S    ++L   +  + + + ++ I E+
Sbjct: 61  LFLDSSETNNASRNNKQKYSNLKSDQ--IELLELYDSLPEEEAKRFIKEM 108


>gi|254496262|ref|ZP_05109155.1| irep [Legionella drancourtii LLAP12]
 gi|254354519|gb|EET13161.1| irep [Legionella drancourtii LLAP12]
          Length = 89

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 36/70 (51%), Gaps = 4/70 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+  G+SQ++LG   G+       ++ +YE G +    S L+ I+ +L  P ++
Sbjct: 8  KRLKEARIAAGLSQKQLGISAGVDEFSASPRINQYETGKHAPDFSTLKRIALILAVPTAY 67

Query: 73 FFDVSPTVCS 82
          F+     +  
Sbjct: 68 FYAEEDELAQ 77


>gi|226328474|ref|ZP_03803992.1| hypothetical protein PROPEN_02368 [Proteus penneri ATCC 35198]
 gi|225203207|gb|EEG85561.1| hypothetical protein PROPEN_02368 [Proteus penneri ATCC 35198]
          Length = 102

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 30/56 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG+RI+ +R  L ++  ++G  LGI+ Q   + E G  ++   +L  IS +L    
Sbjct: 8  VGQRIKQKRKQLKLTGIEMGRRLGISQQHYSRLENGHIKITVDQLITISYILGISP 63


>gi|218906529|ref|YP_002454363.1| putative transcriptional regulator PlcR [Bacillus cereus AH820]
 gi|228917959|ref|ZP_04081495.1| hypothetical protein bthur0012_51600 [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
 gi|228930359|ref|ZP_04093363.1| hypothetical protein bthur0010_50380 [Bacillus thuringiensis
          serovar pondicheriensis BGSC 4BA1]
 gi|228936635|ref|ZP_04099429.1| hypothetical protein bthur0009_50700 [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
 gi|229094464|ref|ZP_04225534.1| hypothetical protein bcere0021_51680 [Bacillus cereus Rock3-42]
 gi|229124854|ref|ZP_04254032.1| hypothetical protein bcere0016_51340 [Bacillus cereus 95/8201]
 gi|218535283|gb|ACK87681.1| putative transcriptional regulator PlcR [Bacillus cereus AH820]
 gi|228658645|gb|EEL14307.1| hypothetical protein bcere0016_51340 [Bacillus cereus 95/8201]
 gi|228688928|gb|EEL42757.1| hypothetical protein bcere0021_51680 [Bacillus cereus Rock3-42]
 gi|228823070|gb|EEM68908.1| hypothetical protein bthur0009_50700 [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
 gi|228829345|gb|EEM74978.1| hypothetical protein bthur0010_50380 [Bacillus thuringiensis
          serovar pondicheriensis BGSC 4BA1]
 gi|228841756|gb|EEM86867.1| hypothetical protein bthur0012_51600 [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
          Length = 285

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|331646783|ref|ZP_08347886.1| putative helix-turn-helix-containing protein [Escherichia coli
          M605]
 gi|331045535|gb|EGI17662.1| putative helix-turn-helix-containing protein [Escherichia coli
          M605]
          Length = 86

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/50 (34%), Positives = 28/50 (56%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +RL R  L + Q  + + +G+T Q   K+E G N   AS ++ +SE+L  
Sbjct: 6  LRLNREKLKLKQSDIADYVGVTTQTYMKWENGKNEPKASHIKKLSEILNV 55


>gi|312141280|ref|YP_004008616.1| transcriptional regulator [Rhodococcus equi 103S]
 gi|325673887|ref|ZP_08153577.1| XRE family transcriptional regulator [Rhodococcus equi ATCC 33707]
 gi|311890619|emb|CBH49937.1| putative transcriptional regulator [Rhodococcus equi 103S]
 gi|325555152|gb|EGD24824.1| XRE family transcriptional regulator [Rhodococcus equi ATCC 33707]
          Length = 215

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 36/86 (41%), Gaps = 2/86 (2%)

Query: 7   IPNPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
            P  VD+   +  ++R  R+  G+S   +   +GI+   + K E        S L  ++ 
Sbjct: 21  TPTGVDLERVIATQVRKLRLASGLSVGDMAAKVGISKAMLSKIENAQTSCSLSTLARLAA 80

Query: 65  VLESPISFFFDVSPTVCSDISSEENN 90
            L+ P++  F  + +    +  E  +
Sbjct: 81  GLDVPVTSLFRGADSTRDAVFVEAGS 106


>gi|257791280|ref|YP_003181886.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|257475177|gb|ACV55497.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
          Length = 139

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 27/71 (38%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RIR  R   GM+Q +L E  G T   ++ YE G   +  S L  I+  L         
Sbjct: 4  GSRIRALRESRGMTQRQLAERAGCTDAAIRNYEAGRRALKGSALDAIAGALGVAPEALMP 63

Query: 76 VSPTVCSDISS 86
          V      D   
Sbjct: 64 VQAESVRDALE 74


>gi|237734947|ref|ZP_04565428.1| predicted protein [Mollicutes bacterium D7]
 gi|229381723|gb|EEO31814.1| predicted protein [Coprobacillus sp. D7]
          Length = 264

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 27/109 (24%), Positives = 52/109 (47%), Gaps = 14/109 (12%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +  +G RI   R  LG +Q++LG  + ++ + V K+E+G+     S L  +SE L+  I 
Sbjct: 3   NKEIGIRILSARKNLGYTQKQLGNLINVSDKAVSKWERGIGCPDISLLLPLSEALKMSID 62

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
              ++      D  SE+  V + I           + +I  ++ +++II
Sbjct: 63  ---ELIGGTVVDK-SEKKTVQNLI----------NYTKIKAIENKERII 97


>gi|167755197|ref|ZP_02427324.1| hypothetical protein CLORAM_00702 [Clostridium ramosum DSM 1402]
 gi|167705247|gb|EDS19826.1| hypothetical protein CLORAM_00702 [Clostridium ramosum DSM 1402]
          Length = 264

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 27/109 (24%), Positives = 52/109 (47%), Gaps = 14/109 (12%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +  +G RI   R  LG +Q++LG  + ++ + V K+E+G+     S L  +SE L+  I 
Sbjct: 3   NKEIGIRILSARKNLGYTQKQLGNLINVSDKAVSKWERGIGCPDISLLLPLSEALKMSID 62

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
              ++      D  SE+  V + I           + +I  ++ +++II
Sbjct: 63  ---ELIGGTVVDK-SEKKTVQNLI----------NYTKIKAIENKERII 97


>gi|154503571|ref|ZP_02040631.1| hypothetical protein RUMGNA_01395 [Ruminococcus gnavus ATCC 29149]
 gi|260589920|ref|ZP_05855833.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
           hansenii DSM 20583]
 gi|153795671|gb|EDN78091.1| hypothetical protein RUMGNA_01395 [Ruminococcus gnavus ATCC 29149]
 gi|260539727|gb|EEX20296.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
           hansenii DSM 20583]
          Length = 128

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 45/99 (45%), Gaps = 2/99 (2%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPISFF-FDV 76
           IR +R  LG+SQ +L E LG + Q + + EK G+  +  + L  ++++   PI    ++ 
Sbjct: 12  IRKKRKELGISQSELSEKLGTSQQTISRIEKAGIENIPCNLLIKLADIFHVPIDILIYEE 71

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
              + S    E   +   +   +   L     ++ + +V
Sbjct: 72  QNNLFSSQGEELWEIYKQLDEANKTTLLTLGRRLSEAQV 110


>gi|187479415|ref|YP_787440.1| transcriptional regulator [Bordetella avium 197N]
 gi|115424002|emb|CAJ50555.1| putative transcriptional regulator [Bordetella avium 197N]
          Length = 111

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/107 (18%), Positives = 42/107 (39%), Gaps = 12/107 (11%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFFFDV 76
           R+R  R   G +Q++L E  G+T   +  YE G   +  AS +  ++EVL     +    
Sbjct: 7   RLRTARNTRGWTQKELAELSGLTPSAIGNYESGQRAQASASAMLKLAEVLGVSPGWLAQG 66

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
                   +      + +            ++Q+   + R+++  L+
Sbjct: 67  DSPAPPPPAPWPFPSVPYSR----------YLQLK-PQQRRQLEALI 102


>gi|58040192|ref|YP_192156.1| hypothetical protein GOX1761 [Gluconobacter oxydans 621H]
 gi|58002606|gb|AAW61500.1| Hypothetical protein GOX1761 [Gluconobacter oxydans 621H]
          Length = 203

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 33/56 (58%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + +G+RIRL R + G+SQ++L + +GI+   V  +E G +      L  +++VL  
Sbjct: 81  LELGRRIRLLREMAGLSQQQLADKVGISRSAVAFWETGRSGHVGKHLGSLAQVLGV 136


>gi|15614377|ref|NP_242680.1| hypothetical protein BH1814 [Bacillus halodurans C-125]
 gi|10174432|dbj|BAB05533.1| BH1814 [Bacillus halodurans C-125]
          Length = 297

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R  LG+SQ  L E +  T   +   EK           +I++ L +P  +F 
Sbjct: 6  VGHKIKTLRQSLGLSQRDLAEGI-CTQALISHIEKNKTTPTVDVFFNIAKKLGAPADYFL 64

Query: 75 DV 76
          + 
Sbjct: 65 ET 66


>gi|47569775|ref|ZP_00240447.1| transcription regulator PlcR, probable, putative [Bacillus cereus
          G9241]
 gi|34452031|gb|AAQ72482.1| transcriptional regulator PlcR [Bacillus cereus]
 gi|37650522|emb|CAE47450.1| PlcR protein [Bacillus thuringiensis serovar roskildiensis]
 gi|47553571|gb|EAL11950.1| transcription regulator PlcR, probable, putative [Bacillus cereus
          G9241]
          Length = 287

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|329116131|ref|ZP_08244848.1| peptidase S24-like protein [Streptococcus parauberis NCFD 2020]
 gi|326906536|gb|EGE53450.1| peptidase S24-like protein [Streptococcus parauberis NCFD 2020]
          Length = 230

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 29/58 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GK+++  R    MSQE+LG+ LG+    +  +EK  N      L  +  + E+   +F
Sbjct: 4  GKQLKKIRQQHKMSQEQLGQELGVNKMTISNWEKDKNSPNQKHLNALVSIFETDQDYF 61


>gi|157829815|pdb|1ADR|A Chain A, Determination Of The Nuclear Magnetic Resonance
          Structure Of The Dna-Binding Domain Of The P22 C2
          Repressor (1-76) In Solution And Comparison With The
          Dna-Binding Domain Of The 434 Repressor
          Length = 76

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 29/62 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L + Q  LG+ +G++   + ++E+         L  +S+ L+    +   
Sbjct: 7  GERIRARRKKLKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALSKALQCSPDYLLK 66

Query: 76 VS 77
            
Sbjct: 67 GD 68


>gi|146300090|ref|YP_001194681.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
           UW101]
 gi|146154508|gb|ABQ05362.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
           UW101]
          Length = 135

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 29/145 (20%), Positives = 55/145 (37%), Gaps = 32/145 (22%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP---- 69
           ++G++I   R +  M QE L + LG   Q +   E     +   +L  I++ L       
Sbjct: 9   HIGRKISRIRELRDMKQEALAQALGTNQQAISILENSET-IDEDKLIAIAKALGVTAEAI 67

Query: 70  --------ISFF--FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
                   I++F  F+ S    +  ++   N +D        +L   F   ++ K     
Sbjct: 68  KNFSEEGVINYFNTFNDSDNNFNSYNTCTFNPLD--------KLVESF---EENKK---- 112

Query: 120 IELVRSIVSSEKKYRTIEEECMVEQ 144
             L   ++ SEK      E+ + E+
Sbjct: 113 --LYERLLQSEKDKIEYLEKLLKEK 135


>gi|91787335|ref|YP_548287.1| XRE family transcriptional regulator [Polaromonas sp. JS666]
 gi|91696560|gb|ABE43389.1| transcriptional regulator, XRE family [Polaromonas sp. JS666]
          Length = 227

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 42/81 (51%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ +G+++R RR  LG+  +++    GI+   + + E+G+  +    L  +S  L+ P+
Sbjct: 38  IDLWLGEQVRHRRKALGLPLQQVALGCGISVSLLSQIERGLRSISLRTLAALSNELQLPL 97

Query: 71  SFFFDVSPTVCSDISSEENNV 91
                 +    ++ +SE + V
Sbjct: 98  ETLIRNTQHDQNEGASERSVV 118


>gi|51247424|pdb|1SQ8|A Chain A, A Variant 434 Repressor Dna Binding Domain Devoid Of
          Hydroxyl Groups, Nmr, 20 Structures
          Length = 64

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 36/65 (55%), Gaps = 1/65 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RIR RR+ LG++Q +L + +G+  Q +++ E G  +     L  ++  L   + +
Sbjct: 1  MLMGERIRARRIQLGLNQAELAQKVGVDQQAIEQLENGKAK-RPRFLPELARALGVAVDW 59

Query: 73 FFDVS 77
            + +
Sbjct: 60 LLNGA 64


>gi|89073167|ref|ZP_01159706.1| transcriptional regulator, putative [Photobacterium sp. SKA34]
 gi|89051120|gb|EAR56577.1| transcriptional regulator, putative [Photobacterium sp. SKA34]
          Length = 106

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 35/61 (57%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    +SQ++LG  +GI       ++ +YEKG +    S L+ +++ L  P+++F
Sbjct: 10 RLKEIRKKTKISQKELGIRIGIDESSASARMNQYEKGKHTPDISTLKKMADELGVPLNYF 69

Query: 74 F 74
          F
Sbjct: 70 F 70


>gi|294500115|ref|YP_003563815.1| DNA-binding protein [Bacillus megaterium QM B1551]
 gi|294350052|gb|ADE70381.1| DNA-binding protein [Bacillus megaterium QM B1551]
          Length = 181

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 33/62 (53%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I++GK++   R   G+S  +L +   IT   + + E+G+     S L+ +++ L+ P  
Sbjct: 3  NIDIGKKVEKFRKAKGLSSRELAKLAEITPSMLSQIERGLANPSISTLKILAKCLDVPTF 62

Query: 72 FF 73
           F
Sbjct: 63 SF 64


>gi|228904583|ref|ZP_04068659.1| hypothetical protein bthur0014_57190 [Bacillus thuringiensis IBL
          4222]
 gi|228855064|gb|EEM99647.1| hypothetical protein bthur0014_57190 [Bacillus thuringiensis IBL
          4222]
          Length = 394

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 32/62 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++L R    MS   L E L I+ Q + KYEK ++  G   +  +  VL  P  F+F+
Sbjct: 8  GERLKLARRFNAMSLLDLAEKLSISKQMISKYEKNISPPGGEIMLQLEGVLGFPRKFYFE 67

Query: 76 VS 77
            
Sbjct: 68 DD 69


>gi|256830616|ref|YP_003159344.1| helix-turn-helix domain-containing protein [Desulfomicrobium
          baculatum DSM 4028]
 gi|256579792|gb|ACU90928.1| helix-turn-helix domain protein [Desulfomicrobium baculatum DSM
          4028]
          Length = 355

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 31/71 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R++  R    +S   L E +G++   + K+EK      +  L  + +VL     +FF
Sbjct: 2  IGERLQRARKAADLSLRNLAEQVGVSHTWINKFEKDQAMPDSKTLLKLGKVLGVRSEYFF 61

Query: 75 DVSPTVCSDIS 85
                 S + 
Sbjct: 62 RPEQVTLSQVE 72


>gi|255316576|ref|ZP_05358159.1| putative regulatory protein [Clostridium difficile QCD-76w55]
          Length = 120

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/91 (24%), Positives = 34/91 (37%), Gaps = 1/91 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRI++ R+  G++QE +   + IT   +   E G  +V    L  I+  L   I    
Sbjct: 8   LGKRIKIARIKKGITQESIANEIDITPSHLSNVETGKTKVSLPTLIDIANALSINIDSLL 67

Query: 75  -DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            D           E   V D     +   L 
Sbjct: 68  CDNILNSKVVFEGEAKEVFDDCDEYEIRMLV 98


>gi|154499890|ref|ZP_02037928.1| hypothetical protein BACCAP_03547 [Bacteroides capillosus ATCC
           29799]
 gi|150271488|gb|EDM98745.1| hypothetical protein BACCAP_03547 [Bacteroides capillosus ATCC
           29799]
          Length = 451

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 34/85 (40%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K++P+   I  G  I   R   GM+Q++L   LGI+ + V K+E+G +    +    +  
Sbjct: 30  KEVPHMDSIRTGSFIASLRREKGMTQKELASLLGISDKAVSKWERGESYPEITLFPALGA 89

Query: 65  VLESPISFFFDVSPTVCSDISSEEN 89
            L               +   + E 
Sbjct: 90  TLGVTADELMAGERQPHTPTEAPEP 114


>gi|42520147|ref|NP_966062.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|42409884|gb|AAS13996.1| transcriptional regulator, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
          Length = 215

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 13/117 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I   R++ G +Q  L   +G+T+Q+V  YE G   +    L  I+ VL        
Sbjct: 16  IGQKIENCRLMRGHTQIGLAGQVGLTYQEVNSYENGYTPIPIGVLYVIARVLSVNAVDLL 75

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
               TV      +E          + L L + +   ++ K+ + +  LVR +  SEK
Sbjct: 76  PKLITVREYKDEDE----------EILYLTKIY---ENQKLGKIVPSLVRFVHISEK 119



 Score = 42.9 bits (100), Expect = 0.014,   Method: Composition-based stats.
 Identities = 12/38 (31%), Positives = 23/38 (60%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQ 45
            + +   +G+RIR  R+I   +QE L   +G+T +++Q
Sbjct: 163 TDSIYYRIGQRIREWRLIKRYTQEDLANKVGLTLKEIQ 200


>gi|49188185|ref|YP_031438.1| transcriptional regulator, PlcR [Bacillus anthracis str. Sterne]
 gi|65317329|ref|ZP_00390288.1| COG1396: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|227818114|ref|YP_002818123.1| putative transcriptional regulator PlcR [Bacillus anthracis str.
          CDC 684]
 gi|254687207|ref|ZP_05151065.1| putative transcriptional regulator PlcR [Bacillus anthracis str.
          CNEVA-9066]
 gi|254724706|ref|ZP_05186489.1| putative transcriptional regulator PlcR [Bacillus anthracis str.
          A1055]
 gi|254735504|ref|ZP_05193212.1| putative transcriptional regulator PlcR [Bacillus anthracis str.
          Western North America USA6153]
 gi|254742264|ref|ZP_05199951.1| putative transcriptional regulator PlcR [Bacillus anthracis str.
          Kruger B]
 gi|254755821|ref|ZP_05207853.1| putative transcriptional regulator PlcR [Bacillus anthracis str.
          Vollum]
 gi|254762161|ref|ZP_05214007.1| putative transcriptional regulator PlcR [Bacillus anthracis str.
          Australia 94]
 gi|5305716|gb|AAD41786.1|AF132086_1 PlcR [Bacillus anthracis]
 gi|37652843|emb|CAE51351.1| PlcR protein [Bacillus anthracis]
 gi|49182112|gb|AAT57488.1| transcriptional regulator, PlcR [Bacillus anthracis str. Sterne]
 gi|227003000|gb|ACP12743.1| putative transcriptional regulator PlcR [Bacillus anthracis str.
          CDC 684]
          Length = 213

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|296110469|ref|YP_003620850.1| transcription regulator [Leuconostoc kimchii IMSNU 11154]
 gi|295832000|gb|ADG39881.1| transcription regulator [Leuconostoc kimchii IMSNU 11154]
          Length = 103

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/90 (21%), Positives = 43/90 (47%), Gaps = 4/90 (4%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            G++++  R    ++Q +L + L ++   +  YE+G++      L  I E+L +   + 
Sbjct: 5  FFGEKLKAVRKSKNLTQLELSKRLEVSKGTISAYEQGLSYPSLETLVKICEILNTSSDYL 64

Query: 74 FDVSPTV----CSDISSEENNVMDFISTPD 99
            +S  +        S + N+V+ FI+T +
Sbjct: 65 LSLSDNLTFKMGGLTSEQMNSVLQFIATIE 94


>gi|291449844|ref|ZP_06589234.1| regulatory protein [Streptomyces albus J1074]
 gi|291352793|gb|EFE79695.1| regulatory protein [Streptomyces albus J1074]
          Length = 202

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 25/110 (22%), Positives = 35/110 (31%), Gaps = 8/110 (7%)

Query: 1   MVGNKKIPNPVDIN---VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           M      P   D     VG R+R  R   G +   L    GI+   + + E G  R    
Sbjct: 1   MPEPTPPPADTDTVLAGVGPRLRALRKERGATLAGLSAATGISVSTLSRLESGNRRPSLE 60

Query: 58  RLQHISEVLESPISFFFDVSPTVCSDISSEE-----NNVMDFISTPDGLQ 102
            L  I+   + P+       P     +  E        V+     P GLQ
Sbjct: 61  LLLPIAAAHDVPLDRLVGAPPAGDPRVRLEPIEQGNRTVIPLSRRPGGLQ 110


>gi|219854874|ref|YP_002471996.1| hypothetical protein CKR_1531 [Clostridium kluyveri NBRC 12016]
 gi|219568598|dbj|BAH06582.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 257

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/117 (18%), Positives = 44/117 (37%), Gaps = 19/117 (16%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF---- 73
           R+R  R    ++Q  +   L +T   + KYE G  +     L+ +S+     I +     
Sbjct: 56  RLRELREENNLTQGAIASILNLTKANISKYELGRLQPNIETLKLLSDHFNVSIDYLIGVT 115

Query: 74  ---------------FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                          F ++    S   +E  +  ++   P+ L  N +F +I+D  +
Sbjct: 116 NIKKVESNYLSRIPIFQITKNHPSLFIAENISGYEYFDKPEELSKNYFFFKIEDNSM 172


>gi|196231108|ref|ZP_03129968.1| transcriptional regulator, XRE family [Chthoniobacter flavus
           Ellin428]
 gi|196224938|gb|EDY19448.1| transcriptional regulator, XRE family [Chthoniobacter flavus
           Ellin428]
          Length = 224

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 21/95 (22%), Positives = 44/95 (46%), Gaps = 4/95 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  I+ +R  LGMSQE+L +  G+    V   E+G+  V    ++ ++  L   +   F+
Sbjct: 11  GTTIKSKRSELGMSQEELADRAGLHRTYVSDVERGMRNVSLISIEKLAHALGLSVWRLFE 70

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLN-RYFIQ 109
                 +  + ++  ++     P+ ++L  R F +
Sbjct: 71  ---QASNGTAPDQLEILLVEDEPNDIELTQRAFKR 102


>gi|126735190|ref|ZP_01750936.1| DNA-binding protein, putative [Roseobacter sp. CCS2]
 gi|126715745|gb|EBA12610.1| DNA-binding protein, putative [Roseobacter sp. CCS2]
          Length = 128

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 3/90 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R   G+ Q+ L E LG+    +Q +E+ +    A+RLQ +S ++   +S+   
Sbjct: 16  GDRLAGAREAAGLDQKGLAEKLGVKPAVIQAWEEDLKEPRANRLQMVSGIVGVSMSWLLT 75

Query: 76  VS---PTVCSDISSEENNVMDFISTPDGLQ 102
                P    D     N+++D ++    L+
Sbjct: 76  GEGDGPEAPDDDGPMSNDLVDLLAEMRALR 105


>gi|157369784|ref|YP_001477773.1| XRE family transcriptional regulator [Serratia proteamaculans
          568]
 gi|157321548|gb|ABV40645.1| transcriptional regulator, XRE family [Serratia proteamaculans
          568]
          Length = 103

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+  G+SQEKLG   GI       ++ +YEKG +         +++VL  P S+
Sbjct: 4  KRLKEARLKAGLSQEKLGILAGIDEASASARMNQYEKGKHTPDFEMACSLAKVLGIPESY 63

Query: 73 FF 74
          F+
Sbjct: 64 FY 65


>gi|58039039|ref|YP_191003.1| aldehyde dehydrogenase-like protein [Gluconobacter oxydans 621H]
 gi|58001453|gb|AAW60347.1| Aldehyde dehydrogenase-like protein [Gluconobacter oxydans 621H]
          Length = 180

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 36/82 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G R+R  R    +SQ +L +  G+T   +   E G        L+ I + +   +  
Sbjct: 1  MDLGARLRFVRTARNLSQRELAKRTGVTNSTISLIESGDMNPSVGTLKRILDGIPVTLGE 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
          FF ++P     I    + +M F
Sbjct: 61 FFSIAPEGGEKIFYRADELMTF 82


>gi|3915849|sp|P16117|RPC1_BP434 RecName: Full=Repressor protein CI
 gi|14987|emb|CAA68301.1| unnamed protein product [Phage 434]
          Length = 95

 Score = 57.5 bits (138), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 35/68 (51%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  R++ +R+ LG++Q +L + +G T Q +++ E G  +     L  ++  L   + +
Sbjct: 1  MSISSRVKSKRIQLGLNQAELAQKVGTTQQSIEQLENGKTK-RPRFLPELASALGVSVDW 59

Query: 73 FFDVSPTV 80
            + +   
Sbjct: 60 LLNGTSDS 67


>gi|325526296|gb|EGD03907.1| XRE family transcriptional regulator [Burkholderia sp. TJI49]
          Length = 132

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 20/95 (21%), Positives = 41/95 (43%), Gaps = 1/95 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  I  +R   G++Q KL E + +  + + ++E+G       RLQ +S+ L+  +    
Sbjct: 21  VGTAIAEQRRARGLTQAKLAEMIDLEQEAISRWERGTRMPTLHRLQQLSDALDCSVDQLL 80

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
                   D  +   + +  +   +  +L   F+Q
Sbjct: 81  QRGSKRPDDQLAMIADALSGLDGDE-RELVVNFVQ 114


>gi|317484142|ref|ZP_07943072.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
           3_1_6]
 gi|316924646|gb|EFV45802.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
           3_1_6]
          Length = 108

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 20/95 (21%), Positives = 38/95 (40%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K  N VD+  G R+R       +SQ    + +G++  ++  Y    +    + L  I+  
Sbjct: 5   KPENVVDVLFGNRLRQLLDERNISQAHFADRIGVSRSRMNNYVAQRSEPDYATLIRIANT 64

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           L++ I F    S       ++  +   DFI +   
Sbjct: 65  LDTTIDFLLGKSEHQGLPQTACLSGFPDFIPSRGA 99


>gi|257063361|ref|YP_003143033.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
 gi|256791014|gb|ACV21684.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
          Length = 256

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 34/89 (38%), Gaps = 1/89 (1%)

Query: 10 PVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          PVD    GK I+  R    ++Q ++   +G+T + V K+E+G     A     + + L  
Sbjct: 2  PVDRAGFGKTIQALRKHASVTQGEVASRVGVTDKAVSKWERGEALPAAESFAALGKALNV 61

Query: 69 PISFFFDVSPTVCSDISSEENNVMDFIST 97
          P    F+          +        + +
Sbjct: 62 PALVLFEAMEPESEQGQAARALPQAALLS 90


>gi|226324082|ref|ZP_03799600.1| hypothetical protein COPCOM_01860 [Coprococcus comes ATCC 27758]
 gi|225207631|gb|EEG89985.1| hypothetical protein COPCOM_01860 [Coprococcus comes ATCC 27758]
          Length = 209

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G RI+ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 8  KLIGSRIKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ +  
Sbjct: 68 WLKGETDEYETDITDKRE 85


>gi|206976223|ref|ZP_03237132.1| transcriptional regulator, MerR family [Bacillus cereus H3081.97]
 gi|206745677|gb|EDZ57075.1| transcriptional regulator, MerR family [Bacillus cereus H3081.97]
          Length = 119

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 39/94 (41%), Gaps = 3/94 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             VG+ IRL R   G++QE+L E + +    +   E+G   +    LQ I++ LE     
Sbjct: 6   KLVGENIRLLRKKRGLTQEELAERINLQQAYIGGVERGERNISMLTLQKIADGLEVSPDL 65

Query: 73  FFDVSPTVCSDISSEENN---VMDFISTPDGLQL 103
             ++      D    E +   +   +   +  +L
Sbjct: 66  VLNIGNINLIDNPQREESLSIITSLLHQKNTDEL 99


>gi|329894642|ref|ZP_08270447.1| Transcriptional regulator [gamma proteobacterium IMCC3088]
 gi|328922898|gb|EGG30227.1| Transcriptional regulator [gamma proteobacterium IMCC3088]
          Length = 68

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            IR +R  LG++Q+ L   +G++ Q +   E G      S    +S V + P+   F
Sbjct: 3  NNIREKRQELGLTQQDLARLVGVSRQTINAIETGKFDPSLSLAFKLSGVFKEPVEALF 60


>gi|325522655|gb|EGD01175.1| XRE family transcriptional regulator [Burkholderia sp. TJI49]
          Length = 193

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 25/131 (19%), Positives = 50/131 (38%), Gaps = 12/131 (9%)

Query: 1   MVGNKKIPNPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
           MV   + P   D    +G +IR  R  L  + ++     GI+   + + E+G+     + 
Sbjct: 1   MVPPTENPRSADAAAALGSKIRALRQRLKRTLDETATVAGISKPFLSQVERGLASPSLTS 60

Query: 59  LQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTP----------DGLQLNRYFI 108
           L  I++ L   + +F D      S    E+     F  +           +G QL    +
Sbjct: 61  LAGIAQALGVTVQYFVDTPSEERSVCRGEQLRFFGFADSANLFARLTNVTEGRQLEAILV 120

Query: 109 QIDDVKVRQKI 119
           ++   + R ++
Sbjct: 121 RMPPGQKRSEV 131


>gi|319938757|ref|ZP_08013121.1| transcriptional regulator [Streptococcus anginosus 1_2_62CV]
 gi|319811807|gb|EFW08073.1| transcriptional regulator [Streptococcus anginosus 1_2_62CV]
          Length = 135

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 12/79 (15%), Positives = 35/79 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R + G++QE + E L ++ Q +  +E          +  +S++ +  +  
Sbjct: 1  MEIGRKLKEARQMSGLTQENVAEKLNVSRQTISNWETEKFYPDILYVLQLSDLYQVSLDE 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                 +   + +  N V
Sbjct: 61 LLKGDERMIQHLENSTNVV 79


>gi|300856826|ref|YP_003781810.1| putative transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
 gi|300436941|gb|ADK16708.1| predicted transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
          Length = 314

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 11/85 (12%), Positives = 33/85 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R +  ++Q+KL + +G++   +   E          L  ++++ +  + +  
Sbjct: 2  LGDKIKDLRKLKKITQQKLAKSIGLSQSSIGMIESNKQGASNETLVKLAKLFDVTVDYLL 61

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
                      +E      I+  +
Sbjct: 62 GTDEIENIGYIIKEEREYQGITQKE 86



 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G  I+  R   G++Q++L + +GI   ++ KYE     +     + I+   +     F
Sbjct: 68  NIGYIIKEEREYQGITQKELSDAVGINENELAKYENNEAPISQFLAKKIANFFDMSFPAF 127


>gi|302557707|ref|ZP_07310049.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          griseoflavus Tu4000]
 gi|302475325|gb|EFL38418.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          griseoflavus Tu4000]
          Length = 509

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 30/64 (46%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +GK IR  R   G +Q +L E L  +   V + E+G   +    +  I E L
Sbjct: 1  MSDDYLVRIGKLIRDARQHRGWTQTQLAEALNTSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|254819794|ref|ZP_05224795.1| DNA-binding protein [Mycobacterium intracellulare ATCC 13950]
          Length = 471

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 30/133 (22%), Positives = 51/133 (38%), Gaps = 18/133 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   FVGSRVRQLRNERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               DI  +   V + +S   G  L R  + +     R+  I 
Sbjct: 65  SSQDDTRLVAELREVTLDRDLDIDVDPTEVAEMVSAHPG--LARAVVNL----HRRYRIT 118

Query: 122 LVRSIVSSEKKYR 134
             +   ++E+++ 
Sbjct: 119 TAQLAAATEERFS 131


>gi|223986619|ref|ZP_03636613.1| hypothetical protein HOLDEFILI_03935 [Holdemania filiformis DSM
          12042]
 gi|223961414|gb|EEF65932.1| hypothetical protein HOLDEFILI_03935 [Holdemania filiformis DSM
          12042]
          Length = 400

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          GKRI   R    ++Q++L + L +T + + ++E+G      + L  +++ L  
Sbjct: 7  GKRIAQLRKARNLTQQQLADQLNVTNRAISRWERGEGYPEITLLPKLADSLGV 59


>gi|210624086|ref|ZP_03294186.1| hypothetical protein CLOHIR_02142 [Clostridium hiranonis DSM 13275]
 gi|210153219|gb|EEA84225.1| hypothetical protein CLOHIR_02142 [Clostridium hiranonis DSM 13275]
          Length = 158

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 34/66 (51%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           +K    +  ++G+ ++  R    M+QE + E +G++ Q V K+E GV+    S L  +++
Sbjct: 85  RKEKTIIRKSLGEVLKSHREKNHMTQEFVAEAIGVSRQAVSKWENGVSDPSTSNLIALAK 144

Query: 65  VLESPI 70
           +     
Sbjct: 145 LFNMSP 150


>gi|189465237|ref|ZP_03014022.1| hypothetical protein BACINT_01582 [Bacteroides intestinalis DSM
          17393]
 gi|189437511|gb|EDV06496.1| hypothetical protein BACINT_01582 [Bacteroides intestinalis DSM
          17393]
          Length = 191

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 2/82 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    +S E+L E  G+  +Q+++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKSLRESQSISIEQLAERSGLAVEQIERIENNIDLPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCSDI--SSEENNVMDF 94
          D        I   +E  + + F
Sbjct: 67 DDQDETGPAICRKTESKDTISF 88


>gi|149201921|ref|ZP_01878895.1| possible transcriptional regulator, XRE family protein
          [Roseovarius sp. TM1035]
 gi|149144969|gb|EDM32998.1| possible transcriptional regulator, XRE family protein
          [Roseovarius sp. TM1035]
          Length = 129

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 35/72 (48%), Gaps = 2/72 (2%)

Query: 4  NKKIPNP--VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          + ++ N    D   G+R+R  R   G+ Q++L E  G+    +  +EKG  +     L++
Sbjct: 10 DTEMSNDETTDNLFGRRLRAARTERGLEQQQLAEKAGLPPSSISHFEKGARKPSFDNLRN 69

Query: 62 ISEVLESPISFF 73
          +++ L+    + 
Sbjct: 70 LAKSLDVTTDYL 81


>gi|254254750|ref|ZP_04948067.1| DNA-binding protein [Burkholderia dolosa AUO158]
 gi|124899395|gb|EAY71238.1| DNA-binding protein [Burkholderia dolosa AUO158]
          Length = 201

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 25/131 (19%), Positives = 50/131 (38%), Gaps = 12/131 (9%)

Query: 1   MVGNKKIPNPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
           MV + +   P D    +G +IR  R  L  + ++     GI+   + + E+G+     + 
Sbjct: 9   MVPSTENSRPADAAAALGGKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSLTS 68

Query: 59  LQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFI 108
           L  I+  L   + +F D      S    E+     F  +           +G QL    +
Sbjct: 69  LAGIAHALGVTVQYFVDTPSEERSVCRGEQLRFFGFADSANLFARLTNVSEGRQLEAILV 128

Query: 109 QIDDVKVRQKI 119
           ++   + R ++
Sbjct: 129 RMPPGQKRSEV 139


>gi|118468644|ref|YP_885309.1| DNA-binding protein [Mycobacterium smegmatis str. MC2 155]
 gi|118169931|gb|ABK70827.1| DNA-binding protein [Mycobacterium smegmatis str. MC2 155]
          Length = 478

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 26/128 (20%), Positives = 47/128 (36%), Gaps = 7/128 (5%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   FVGSRVRQLRSERGFSQAALAQMLDISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCSDISSEENNVMDFIST----PDGLQLNRYFIQIDDVKV---RQKIIELVRSI 126
                T       E     D  ++     +   +     ++    V   R+  +   +  
Sbjct: 65  SPQDDTRLVAELREVTLDRDLGASDVDLTEVADMVASHPKLARAMVNLHRRYRLATTQLA 124

Query: 127 VSSEKKYR 134
            ++E +Y 
Sbjct: 125 AATEDRYS 132


>gi|148548133|ref|YP_001268235.1| XRE family transcriptional regulator [Pseudomonas putida F1]
 gi|148512191|gb|ABQ79051.1| transcriptional regulator, XRE family [Pseudomonas putida F1]
          Length = 114

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 46/94 (48%), Gaps = 2/94 (2%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+P   ++G+++   R+   ++Q ++GE L I+ + V + E+G   +  S+L  ++++
Sbjct: 4  KEPSPH--HIGRQLAKYRLARHLTQTQVGEHLQISGEAVSRLERGFVELSVSKLLQLADL 61

Query: 66 LESPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
             P             D+  + N+++  +   D
Sbjct: 62 YGCPADELLLAISPRPQDLGVQINSIIKELDEAD 95


>gi|330974510|gb|EGH74576.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aceris str. M302273PT]
          Length = 189

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 29/134 (21%), Positives = 52/134 (38%), Gaps = 33/134 (24%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            N + P PV  +V + +R  R    +SQ  L E  G++ + +   E G   V  + L  +
Sbjct: 4   ENSQRP-PVLQHVSQNVRRLRNCADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRV 62

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD------VKVR 116
           +E LE   S                     D I  P+    NR + +I++      +   
Sbjct: 63  AEALEVAFS---------------------DLIQAPE----NRDYSRINELAWAGTIAGS 97

Query: 117 QKIIELVRSIVSSE 130
           + ++ L R++   E
Sbjct: 98  KAVL-LARAVARRE 110


>gi|262043413|ref|ZP_06016538.1| HTH-type transcriptional regulator RdgA [Klebsiella pneumoniae
          subsp. rhinoscleromatis ATCC 13884]
 gi|259039239|gb|EEW40385.1| HTH-type transcriptional regulator RdgA [Klebsiella pneumoniae
          subsp. rhinoscleromatis ATCC 13884]
          Length = 70

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 3/68 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR-LQHISEVLESPIS 71
          + +  R++ RR  L M+Q  L E  G++ Q + + E GV  +   R L  IS  L+   +
Sbjct: 1  MTLATRVKERRKELNMTQVALAELTGVSQQAINRIESGV--ISRPRYLLEISAALQCDPN 58

Query: 72 FFFDVSPT 79
          +     PT
Sbjct: 59 WLLHGQPT 66


>gi|212704791|ref|ZP_03312919.1| hypothetical protein DESPIG_02855 [Desulfovibrio piger ATCC
          29098]
 gi|212671753|gb|EEB32236.1| hypothetical protein DESPIG_02855 [Desulfovibrio piger ATCC
          29098]
          Length = 193

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 22/76 (28%), Positives = 33/76 (43%), Gaps = 3/76 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RIR  R    MSQE     LGI+   +  YE+G N   A  +  I    +  +S+  
Sbjct: 4  LGERIRHVRG--RMSQEAFAGLLGISKGALGGYERGENCPNADVVLTICNKCQINVSWLM 61

Query: 75 DV-SPTVCSDISSEEN 89
                   D + EE+
Sbjct: 62 SGVGSMHAPDGTGEED 77


>gi|191636942|ref|YP_001986108.1| Helix-turn-helix motif [Lactobacillus casei BL23]
 gi|190711244|emb|CAQ65250.1| Helix-turn-helix motif [Lactobacillus casei BL23]
 gi|327380969|gb|AEA52445.1| hypothetical protein LC2W_0109 [Lactobacillus casei LC2W]
 gi|327384145|gb|AEA55619.1| hypothetical protein LCBD_0119 [Lactobacillus casei BD-II]
          Length = 373

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++INVG  I   R   G++Q+ L + +G++   V K+E G +    + L  ++   +  I
Sbjct: 1  MEINVGAVISAHRKQKGITQQALADFVGVSKASVSKWETGQSYPDITLLPILAAYFDVSI 60

Query: 71 S 71
           
Sbjct: 61 D 61


>gi|83589152|ref|YP_429161.1| XRE family transcriptional regulator [Moorella thermoacetica ATCC
           39073]
 gi|83572066|gb|ABC18618.1| transcriptional regulator, XRE family [Moorella thermoacetica ATCC
           39073]
          Length = 101

 Score = 57.5 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 21/114 (18%), Positives = 44/114 (38%), Gaps = 16/114 (14%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G R++  R    ++Q +L +  G++   + + E G        L  I   +   ++ 
Sbjct: 1   MTLGNRLKELREKHHLTQYRLAKLSGVSQSHISEIESGDKEPTTGTLMKICSAMGLTLAE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           FF        +  S   ++   +   + L              RQK+IE ++SI
Sbjct: 61  FF------TEETPSLPPDLRQILKEAESLT----------PGQRQKLIEFLKSI 98


>gi|325288089|ref|YP_004263879.1| helix-turn-helix domain-containing protein [Cellulophaga lytica
          DSM 7489]
 gi|324323543|gb|ADY31008.1| helix-turn-helix domain protein [Cellulophaga lytica DSM 7489]
          Length = 257

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 34/73 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +   IR  R + G++Q+ L   LGIT  +V  YE+G +      L  +S+  + PI  
Sbjct: 2  IFIATNIRHLRSLKGVTQQSLAIDLGITRARVSSYEEGRSAPTIETLIQLSDYFKLPIDV 61

Query: 73 FFDVSPTVCSDIS 85
                +  +D S
Sbjct: 62 LVRNDLSKATDAS 74


>gi|251778801|ref|ZP_04821721.1| DNA-binding protein [Clostridium botulinum E1 str. 'BoNT E
          Beluga']
 gi|243083116|gb|EES49006.1| DNA-binding protein [Clostridium botulinum E1 str. 'BoNT E
          Beluga']
          Length = 179

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 34/68 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR+ RM   ++QE+L     ++   + + E  +     + L  I E+L + ++ 
Sbjct: 1  MQIGEKIRVLRMEKQLTQEELANRCELSKGFISQLENDLTSPSIATLMDILEILGTNLNE 60

Query: 73 FFDVSPTV 80
          FF  +   
Sbjct: 61 FFSETKEE 68


>gi|302873538|ref|YP_003842171.1| transcriptional regulator, XRE family [Clostridium cellulovorans
           743B]
 gi|307688282|ref|ZP_07630728.1| transcriptional regulator, XRE family protein [Clostridium
           cellulovorans 743B]
 gi|302576395|gb|ADL50407.1| transcriptional regulator, XRE family [Clostridium cellulovorans
           743B]
          Length = 296

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 23/106 (21%), Positives = 45/106 (42%), Gaps = 2/106 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RI+  R   G +Q++L   LGI    V  YE+G       +L  ++++ E  + +    
Sbjct: 7   NRIKDLRKNNGYTQKELSSLLGIGQTTVANYEQGTRIPDTEKLNKMADLFEVTLDYLLGR 66

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           +  +       ++  +D  S  +      Y ++ D  K R+ I+ L
Sbjct: 67  NEKISPSNKEVKSKTIDLKSANETY--LEYLLKGDSKKARKFILSL 110


>gi|229099941|ref|ZP_04230863.1| hypothetical protein bcere0020_51580 [Bacillus cereus Rock3-29]
 gi|228683486|gb|EEL37442.1| hypothetical protein bcere0020_51580 [Bacillus cereus Rock3-29]
          Length = 60

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 27/56 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++  R+ L MSQE L   +G+  + +   E G           I++VLE+PI   F
Sbjct: 1  MKEYRVKLNMSQEDLANKVGVRRETIGNLENGKYNPSFKLTYDIAKVLEAPIETLF 56


>gi|166367802|ref|YP_001660075.1| hypothetical protein MAE_50610 [Microcystis aeruginosa NIES-843]
 gi|166090175|dbj|BAG04883.1| hypothetical protein MAE_50610 [Microcystis aeruginosa NIES-843]
          Length = 73

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 2/61 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN--RVGASRLQHISEVLESPI 70
          + +G+R++  R   G++Q KL E LG+T Q V  +E G    R+  S+   + + L   +
Sbjct: 1  MELGQRMQKLRENAGLTQRKLAERLGVTVQTVSNWETGHREPRMNPSQTLKLCQSLNCSL 60

Query: 71 S 71
          +
Sbjct: 61 A 61


>gi|118465480|ref|YP_883812.1| DNA-binding protein [Mycobacterium avium 104]
 gi|254777121|ref|ZP_05218637.1| DNA-binding protein [Mycobacterium avium subsp. avium ATCC 25291]
 gi|118166767|gb|ABK67664.1| DNA-binding protein [Mycobacterium avium 104]
          Length = 474

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 30/131 (22%), Positives = 50/131 (38%), Gaps = 18/131 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   FVGSRVRQLRHERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               DI  +   V + +S   G  L R  + +     R+  I 
Sbjct: 65  SSQDDTRLVAELREVTMDRDLDIDVDPTEVAEMVSAHPG--LARAVVNL----HRRYRIT 118

Query: 122 LVRSIVSSEKK 132
             +   ++E++
Sbjct: 119 TAQLAAATEER 129


>gi|307129578|ref|YP_003881594.1| hypothetical protein Dda3937_01732 [Dickeya dadantii 3937]
 gi|306527107|gb|ADM97037.1| hypothetical protein Dda3937_01732 [Dickeya dadantii 3937]
          Length = 100

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 37/71 (52%), Gaps = 4/71 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR++L R+  G++Q +LG   G+       ++ +YE+ VN      +   + VL+ P 
Sbjct: 2  IGKRLKLARVNAGLTQLELGCRAGLDEETASSRISQYEREVNEPDFGLVCQFAAVLDVPE 61

Query: 71 SFFFDVSPTVC 81
          ++F+     + 
Sbjct: 62 AYFYARDEELA 72


>gi|295401476|ref|ZP_06811446.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
 gi|294976526|gb|EFG52134.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
          Length = 179

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 34/62 (54%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K+IR  R    ++ ++L E  G++   + + E+G   +  + L+ I++ LE PI+ FF+ 
Sbjct: 6  KKIRDLRKQRDLTLKELSEKTGLSISFLSQVERGSTSLAITSLKKIADALEVPITDFFEN 65

Query: 77 SP 78
            
Sbjct: 66 EE 67


>gi|291302787|ref|YP_003514065.1| XRE family transcriptional regulator [Stackebrandtia nassauensis
          DSM 44728]
 gi|290572007|gb|ADD44972.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis
          DSM 44728]
          Length = 503

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 28/67 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++GKRIR  R   GM+ +  GE +G    Q+   E G      S L+ ++  L      
Sbjct: 33 ISLGKRIRHLRKQRGMTLDAFGEAIGTAPSQLSMIENGKREPKLSMLRALARELGVSSDE 92

Query: 73 FFDVSPT 79
               P 
Sbjct: 93 LLRTEPP 99


>gi|229550962|ref|ZP_04439687.1| XRE family transcriptional regulator [Lactobacillus rhamnosus
           LMS2-1]
 gi|258538327|ref|YP_003172826.1| transcriptional regulator xre family [Lactobacillus rhamnosus Lc
           705]
 gi|229315677|gb|EEN81650.1| XRE family transcriptional regulator [Lactobacillus rhamnosus
           LMS2-1]
 gi|257150003|emb|CAR88975.1| Transcriptional regulator, xre family [Lactobacillus rhamnosus Lc
           705]
          Length = 373

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/114 (21%), Positives = 47/114 (41%), Gaps = 11/114 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++INVG  I   R   G++QE L + +G++   V K+E G +    + L  ++   +  I
Sbjct: 1   MEINVGAVISAFRKQKGVTQEALADFVGVSKASVSKWETGQSYPDITLLPILAAYFDVSI 60

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                    +  D   + + +    ++     L + F      +V   I  L+R
Sbjct: 61  ------DQLMAYDAQLQPSEIRRIYTS-----LKQAFETQPPARVLTSIRNLIR 103


>gi|227535271|ref|ZP_03965320.1| hypothetical protein HMPREF0530_2557 [Lactobacillus paracasei
           subsp. paracasei ATCC 25302]
 gi|227187155|gb|EEI67222.1| hypothetical protein HMPREF0530_2557 [Lactobacillus paracasei
           subsp. paracasei ATCC 25302]
          Length = 192

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 33/89 (37%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  N      V+  +G  I+  R    ++Q+ L   +G   Q + K E+GV  +    + 
Sbjct: 25  MRANMNKEKIVESKIGLHIKQLRKAQRITQKDLAAEIGTIEQTISKIERGVFTLSVETIM 84

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEEN 89
                L    +     +P   + I  + +
Sbjct: 85  QFCNALNVTPNELRIDNPRCKNGILIDSS 113


>gi|168765271|ref|ZP_02790278.1| repressor protein CI [Escherichia coli O157:H7 str. EC4501]
 gi|168798579|ref|ZP_02823586.1| repressor protein CI [Escherichia coli O157:H7 str. EC508]
 gi|217327029|ref|ZP_03443112.1| repressor protein CI [Escherichia coli O157:H7 str. TW14588]
 gi|189364926|gb|EDU83342.1| repressor protein CI [Escherichia coli O157:H7 str. EC4501]
 gi|189378869|gb|EDU97285.1| repressor protein CI [Escherichia coli O157:H7 str. EC508]
 gi|217319396|gb|EEC27821.1| repressor protein CI [Escherichia coli O157:H7 str. TW14588]
 gi|315274298|gb|ADU03706.1| repressor protein CI [Enterobacteria phage VT2phi_272]
 gi|326340128|gb|EGD63932.1| repressor protein CI [Escherichia coli O157:H7 str. 1125]
          Length = 237

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 42/84 (50%), Gaps = 7/84 (8%)

Query: 17 KRIR----LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++     ++  LG+SQE L   LG+T   V +   G+N + AS    ++++L   +  
Sbjct: 17 KRLKSIFNAKKKELGLSQESLAYELGVTQSAVNQLMAGINAINASHAAQLAKILNVKVGD 76

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
          F   SP++   I+     + + ++
Sbjct: 77 F---SPSLAKSIAEMALAIEEPLT 97


>gi|15669353|ref|NP_248158.1| hypothetical protein MJ_1164 [Methanocaldococcus jannaschii DSM
           2661]
 gi|24418741|sp|Q58564|Y1164_METJA RecName: Full=Putative HTH-type transcriptional regulatory protein
           MJ1164
 gi|1591790|gb|AAB99166.1| conserved hypothetical protein [Methanocaldococcus jannaschii DSM
           2661]
          Length = 318

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 23/90 (25%), Positives = 39/90 (43%), Gaps = 9/90 (10%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP----IS 71
           GK ++  R  +G+S  KL E  G++ + + KYE  +          I E L+ P    I 
Sbjct: 128 GKVLKEVREAMGISVGKLAEVAGVSRKAIYKYETQMANPSVDVALKIEEFLDVPLVKGID 187

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGL 101
            F    P    D+ ++  N+ DF    + +
Sbjct: 188 LF---EPVDDEDVENKLENLEDF--KKEAI 212


>gi|163941533|ref|YP_001646417.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
           KBAB4]
 gi|163863730|gb|ABY44789.1| transcriptional regulator, XRE family [Bacillus weihenstephanensis
           KBAB4]
          Length = 123

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 18/101 (17%), Positives = 39/101 (38%), Gaps = 6/101 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ +R  R    ++ + LG+ L +    +  YE G  +     L   ++  E    +  
Sbjct: 2   IGENLRKLRKTNNLTMKDLGKKLNLAESTISGYENGNRKPDYDTLNKFADFFEVSTDYL- 60

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                  +  +S++N   + ++ P    L  +F  I D   
Sbjct: 61  --LGRDVAKNTSKDNEAYNPLADP---DLGLWFKDIKDASP 96


>gi|326381819|ref|ZP_08203512.1| transcriptional regulator, XRE family protein [Gordonia
           neofelifaecis NRRL B-59395]
 gi|326199245|gb|EGD56426.1| transcriptional regulator, XRE family protein [Gordonia
           neofelifaecis NRRL B-59395]
          Length = 125

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 19/96 (19%), Positives = 36/96 (37%), Gaps = 8/96 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-------VGASRLQHISEVLES 68
           G R+   R   G+SQE+L E  G+    V   E+  +           S +  ++  LE 
Sbjct: 19  GHRLVTVRKARGLSQEELAERCGLHRNAVSNLERATSNSASGIADPLLSTVYRLARALEV 78

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           P ++    + +    + + E      +S  +   L 
Sbjct: 79  PPTYLMPGADSRIG-LRAAEQETNQALSEVEAELLA 113


>gi|315223214|ref|ZP_07865075.1| helix-turn-helix protein [Streptococcus anginosus F0211]
 gi|315187646|gb|EFU21400.1| helix-turn-helix protein [Streptococcus anginosus F0211]
          Length = 135

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 13/79 (16%), Positives = 34/79 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+++  R + G++QE + E L ++ Q +  +E          +  +S++ +  +  
Sbjct: 1  MEIGKKLKEARQMSGLTQENVAEKLNVSRQTISNWETEKFYPDILYVLQLSDLYQVSLDE 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                 +   +    N V
Sbjct: 61 LLKGYERMIQHLEDSTNVV 79


>gi|242278893|ref|YP_002991022.1| XRE family transcriptional regulator [Desulfovibrio salexigens
          DSM 2638]
 gi|242121787|gb|ACS79483.1| transcriptional regulator, XRE family [Desulfovibrio salexigens
          DSM 2638]
          Length = 107

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 36/79 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   VG +IR  R   G++Q +LG    +  + + + E+G +++    L  I+  L+ P+
Sbjct: 4  ISKLVGNKIRSIRKKRGLTQAQLGNESDLNDKYISEIERGSSKLTVDALNKIANGLKVPV 63

Query: 71 SFFFDVSPTVCSDISSEEN 89
              D      +    E++
Sbjct: 64 KDILDFDTAQPTREELEKD 82


>gi|210621225|ref|ZP_03292531.1| hypothetical protein CLOHIR_00474 [Clostridium hiranonis DSM 13275]
 gi|210154836|gb|EEA85842.1| hypothetical protein CLOHIR_00474 [Clostridium hiranonis DSM 13275]
          Length = 118

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 43/100 (43%), Gaps = 6/100 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--- 73
           +++   R   G+SQE+LG  LG++ Q + K+E G +     +L  +S+     +      
Sbjct: 5   EKLIELRKAKGLSQEELGNELGVSRQTISKWELGQSYPDFQKLVLLSDFFNISLDKLIKD 64

Query: 74  FDVSPTVCSDISSE--ENNVMDFISTPDGLQ-LNRYFIQI 110
            D+     ++ S E       DF +    L  L  +F  I
Sbjct: 65  IDLDDVRENNQSDEKVSKMYEDFQTAKTALNYLLNFFAFI 104


>gi|167757513|ref|ZP_02429640.1| hypothetical protein CLORAM_03063 [Clostridium ramosum DSM 1402]
 gi|237735075|ref|ZP_04565556.1| predicted protein [Mollicutes bacterium D7]
 gi|167702510|gb|EDS17089.1| hypothetical protein CLORAM_03063 [Clostridium ramosum DSM 1402]
 gi|229381851|gb|EEO31942.1| predicted protein [Coprobacillus sp. D7]
          Length = 153

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 9/81 (11%), Positives = 38/81 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+++   R   G SQ+++ + L ++ Q +  +E         +   ++++    +    
Sbjct: 2  LGEKLMRLRKKQGYSQQEVADKLSVSRQTISNWECDQALPAVDKAMELAQLYNISLDDLM 61

Query: 75 DVSPTVCSDISSEENNVMDFI 95
          +    + S+  +++ +++ ++
Sbjct: 62 ENEIEIVSNNKTKDLHLLQYL 82


>gi|315651375|ref|ZP_07904400.1| HicB family toxin-antitoxin system [Eubacterium saburreum DSM
          3986]
 gi|315486334|gb|EFU76691.1| HicB family toxin-antitoxin system [Eubacterium saburreum DSM
          3986]
          Length = 91

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 29/66 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I   R  LG+SQ +LG+ +G++   + K E G           ISE L   I   FD+
Sbjct: 3  NKIEKYRKPLGLSQHRLGKKVGVSRVSINKIETGKVIPSLKLDHDISEALGVCIYKIFDL 62

Query: 77 SPTVCS 82
               S
Sbjct: 63 DGKETS 68


>gi|290509145|ref|ZP_06548516.1| conserved hypothetical DNA-binding protein [Klebsiella sp. 1_1_55]
 gi|289778539|gb|EFD86536.1| conserved hypothetical DNA-binding protein [Klebsiella sp. 1_1_55]
          Length = 200

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 19/102 (18%), Positives = 39/102 (38%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M     I N V+  V +RI+  R    +S ++L    G++   + + E        + L 
Sbjct: 8   MTDANAIVNTVNEAVSQRIKQYRKQKKISLDELSRRAGVSKGALVEIEGCRANPSIALLC 67

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            ++  +   ++ F DVS      + +E+     +     G  
Sbjct: 68  RLATAMGVSVADFVDVSSKPTVHLIAEDEIPELWEGEKGGRA 109


>gi|288935075|ref|YP_003439134.1| XRE family transcriptional regulator [Klebsiella variicola At-22]
 gi|288889784|gb|ADC58102.1| transcriptional regulator, XRE family [Klebsiella variicola At-22]
          Length = 200

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 19/102 (18%), Positives = 39/102 (38%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M     I N V+  V +RI+  R    +S ++L    G++   + + E        + L 
Sbjct: 8   MTDANAIVNTVNEAVSQRIKQYRKQKKISLDELSRRAGVSKGALVEIEGCRANPSIALLC 67

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            ++  +   ++ F DVS      + +E+     +     G  
Sbjct: 68  RLATAMGVSVADFVDVSSKPTVHLIAEDEIPELWEGEKGGRA 109


>gi|251788781|ref|YP_003003502.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247537402|gb|ACT06023.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 76

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 33/69 (47%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K  + V   +G+R+++ R+  G+SQE   E  G+    +   E+GV       L  ++  
Sbjct: 2  KTSDSVKTLLGQRVKMLRLQAGLSQEAFAEKCGLDRTYISGIERGVRNPTLEVLYILATG 61

Query: 66 LESPISFFF 74
          L + ++  F
Sbjct: 62 LHTDLTTLF 70


>gi|229078339|ref|ZP_04210903.1| hypothetical protein bcere0023_10100 [Bacillus cereus Rock4-2]
 gi|228705014|gb|EEL57436.1| hypothetical protein bcere0023_10100 [Bacillus cereus Rock4-2]
          Length = 149

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R     SQ  L E L ++ Q V K+E G N      + H+S++    I        
Sbjct: 7  LKEEREKRNWSQNDLAEKLHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRGDE 66

Query: 79 TVCSDISSEENNVM 92
           +   +  +   + 
Sbjct: 67 ELTQKVIEDSKQLA 80


>gi|225571153|ref|ZP_03780151.1| hypothetical protein CLOHYLEM_07241 [Clostridium hylemonae DSM
           15053]
 gi|225159984|gb|EEG72603.1| hypothetical protein CLOHYLEM_07241 [Clostridium hylemonae DSM
           15053]
          Length = 134

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 15/89 (16%), Positives = 41/89 (46%), Gaps = 4/89 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--- 71
           +G R++  R+  G++QE+L E   ++   + + E G       +L  +++++   +    
Sbjct: 28  IGFRVKQARLNAGLTQEELAEKANMSSSFISRLENGKILPSIKKLLMLADIMNVGLEDLL 87

Query: 72  -FFFDVSPTVCSDISSEENNVMDFISTPD 99
             FF  +      ++ +    +D ++ P+
Sbjct: 88  RDFFRHTGEPSDALTEQIFYQVDMMTVPE 116


>gi|210621162|ref|ZP_03292504.1| hypothetical protein CLOHIR_00447 [Clostridium hiranonis DSM
          13275]
 gi|210154899|gb|EEA85905.1| hypothetical protein CLOHIR_00447 [Clostridium hiranonis DSM
          13275]
          Length = 199

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 29/55 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R    ++QE+L E L ++   + K+E G      S L+ ISEV +  I 
Sbjct: 5  EKLQYFRKKSNLTQEELAEKLFVSRTAISKWESGRGMPSISSLKAISEVFDVSID 59


>gi|254976736|ref|ZP_05273208.1| putative phage repressor [Clostridium difficile QCD-66c26]
 gi|255094120|ref|ZP_05323598.1| putative phage repressor [Clostridium difficile CIP 107932]
 gi|255315871|ref|ZP_05357454.1| putative phage repressor [Clostridium difficile QCD-76w55]
 gi|255518532|ref|ZP_05386208.1| putative phage repressor [Clostridium difficile QCD-97b34]
 gi|255651651|ref|ZP_05398553.1| putative phage repressor [Clostridium difficile QCD-37x79]
 gi|260684688|ref|YP_003215973.1| putative phage repressor [Clostridium difficile CD196]
 gi|260688346|ref|YP_003219480.1| putative phage repressor [Clostridium difficile R20291]
 gi|306521453|ref|ZP_07407800.1| putative phage repressor [Clostridium difficile QCD-32g58]
 gi|260210851|emb|CBA65951.1| putative phage repressor [Clostridium difficile CD196]
 gi|260214363|emb|CBE06745.1| putative phage repressor [Clostridium difficile R20291]
          Length = 163

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 19/95 (20%), Positives = 42/95 (44%), Gaps = 6/95 (6%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +G++I+  R  + MS+ +L   +G +   + KYE+         ++ IS  L   I
Sbjct: 2   INNTIGEKIKQYRKSINMSRNELANKIGCSVHAIAKYEQNQRIPSLDMIRKISTALSIAI 61

Query: 71  SFFFDVSPTVCSDISSEENNVMDF-ISTPDGLQLN 104
           +          +D+ +  NN ++  +   + L L 
Sbjct: 62  N----KLIVEENDLDTLTNNNINLKVFDKE-LDLV 91


>gi|313884124|ref|ZP_07817890.1| DNA-binding helix-turn-helix protein [Eremococcus coleocola
          ACS-139-V-Col8]
 gi|312620571|gb|EFR31994.1| DNA-binding helix-turn-helix protein [Eremococcus coleocola
          ACS-139-V-Col8]
          Length = 138

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 22/86 (25%), Positives = 41/86 (47%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D ++G+ I  RR  LGM+Q  L   +G+T + V K+E+ ++    S + +++E L+  + 
Sbjct: 3  DDSLGRLIANRRKELGMTQLDLARRMGVTDKAVSKWERDLSFPDLSSIPNLAETLDYSLV 62

Query: 72 FFFDVSPTVCSDISSEENNVMDFIST 97
              V           E  ++  I T
Sbjct: 63 DLMQVKEKTGKPQKVAEKPIITLILT 88


>gi|308271699|emb|CBX28307.1| hypothetical protein N47_G36310 [uncultured Desulfobacterium sp.]
          Length = 373

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 23/105 (21%), Positives = 46/105 (43%), Gaps = 14/105 (13%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFFFDV 76
           R+++ R   G+SQ +L   +GI  Q V   E G      S    ++++L   +   F+  
Sbjct: 12  RLKVIRQSAGISQIQLASLVGIKRQAVYDIECGKYVPNTSVALQMAKILGCKVEDLFYHN 71

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
            P    +IS  + ++     +P+         +I  VK+R +++ 
Sbjct: 72  LPERTDNISLADKSI-----SPN--------NRISVVKIRDRLVA 103


>gi|295691909|ref|YP_003600519.1| transcriptional regulator [Lactobacillus crispatus ST1]
 gi|295030015|emb|CBL49494.1| Transcriptional regulator [Lactobacillus crispatus ST1]
          Length = 272

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 27/110 (24%), Positives = 46/110 (41%), Gaps = 12/110 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+ ++  R  L ++Q ++ +   I+     K EKG NR+    L  I ++     + 
Sbjct: 1   MTIGEALKKLRQSLELTQAQMIQGSKISITHYSKMEKGQNRIFVDDLMLILQLHGVSPAD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ--IDDVKVRQKII 120
           FF        D           IS+    +LNR F +  I   K  QK+I
Sbjct: 61  FFKEYFPTKEDT----------ISSKISQELNRSFYKNDIKKAKELQKLI 100


>gi|148556374|ref|YP_001263956.1| hypothetical protein Swit_3472 [Sphingomonas wittichii RW1]
 gi|148501564|gb|ABQ69818.1| protein of unknown function DUF955 [Sphingomonas wittichii RW1]
          Length = 355

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 15/83 (18%), Positives = 33/83 (39%), Gaps = 1/83 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+ L R    M+   L   +G++   + + E G N   +  +  ++  L+ P +FFF  
Sbjct: 5  QRLILGRKRRKMTARSLAGAIGVSPITISRLENGANEPESDTVDALAAALDFPRAFFF-A 63

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
                   +     +  +S  +
Sbjct: 64 EDVDELPAGAASFRSLSSMSAKE 86


>gi|161525013|ref|YP_001580025.1| putative phage repressor [Burkholderia multivorans ATCC 17616]
 gi|160342442|gb|ABX15528.1| putative phage repressor [Burkholderia multivorans ATCC 17616]
          Length = 270

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 16/88 (18%), Positives = 37/88 (42%), Gaps = 5/88 (5%)

Query: 9   NPVDIN---VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           +  + +   + +R+R  R    +SQ +L    G++   +   E G N+ G+  L  I+  
Sbjct: 19  HHYNRHMRSLAQRLRDTREEKSLSQAQLATRAGVSQTTIANVESGRNQ-GSKHLLSIARA 77

Query: 66  LESPISFFF-DVSPTVCSDISSEENNVM 92
           L    ++   +  P   S  ++ +  + 
Sbjct: 78  LGVNPAWLESESGPKDASAAAAPQPGIY 105


>gi|332360443|gb|EGJ38254.1| cro/CI family zinc-binding transcriptional regulator
          [Streptococcus sanguinis SK355]
          Length = 377

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 32/57 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++   R+  G+++++L E  GI+ Q +  YE G    GAS+L  I   L+ P ++F
Sbjct: 9  SKLTKARIARGLTKKELAERTGISRQMISNYELGKTHPGASKLMTIVAELDFPYTYF 65


>gi|315453658|ref|YP_004073928.1| hypothetical protein HFELIS_12540 [Helicobacter felis ATCC 49179]
 gi|315132710|emb|CBY83338.1| putative uncharacterized protein [Helicobacter felis ATCC 49179]
          Length = 206

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPISFF 73
          ++++  R    ++QE+L    G++ Q +++YE    + +    L+ ++  L + + FF
Sbjct: 4  EKLKQLRNANNLTQEELALKCGVSLQSIKRYESEQKSNITLDTLEKLANALNTDLHFF 61


>gi|331685806|ref|ZP_08386387.1| transcriptional regulator, Cro/CI family [Escherichia coli H299]
 gi|324014328|gb|EGB83547.1| helix-turn-helix protein [Escherichia coli MS 60-1]
 gi|331077003|gb|EGI48220.1| transcriptional regulator, Cro/CI family [Escherichia coli H299]
          Length = 228

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R++  R   GMSQ +L E +G++ Q V K E G  +    +++ I++VL     + 
Sbjct: 6  ERLKSEREKAGMSQAQLAEKIGLSQQSVAKIENGETQ-QPRKIKEIAKVLGVSQKWL 61


>gi|302390463|ref|YP_003826284.1| Cupin 2 conserved barrel domain protein [Thermosediminibacter
           oceani DSM 16646]
 gi|302201091|gb|ADL08661.1| Cupin 2 conserved barrel domain protein [Thermosediminibacter
           oceani DSM 16646]
          Length = 181

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 20/96 (20%), Positives = 43/96 (44%), Gaps = 1/96 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + ++I   R   G++ ++L E  G++   + + E G + +  + L+ I++ L  PI+ FF
Sbjct: 5   IAEKISKLRKQKGLTLKELSEMTGLSVSFLSQVENGYSSLAITSLKKIADALNVPITEFF 64

Query: 75  DVSPTVCSDISSEENNVMDFIS-TPDGLQLNRYFIQ 109
                    I   E  V      + + + L+  F +
Sbjct: 65  SSYHNHSYHIKLSEQKVFKIEGNSAEYVLLSGEFPK 100


>gi|296166113|ref|ZP_06848558.1| regulatory protein [Mycobacterium parascrofulaceum ATCC BAA-614]
 gi|295898522|gb|EFG78083.1| regulatory protein [Mycobacterium parascrofulaceum ATCC BAA-614]
          Length = 191

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 30/64 (46%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K    +D+ V +R+R  RM  GM+ +++G   GI    + + E G  R+    L  ++  
Sbjct: 4  KTAPDIDLQVRRRLRELRMQRGMTLQEVGAIAGIDISTLSRLESGKRRLALDHLPRLARA 63

Query: 66 LESP 69
          L   
Sbjct: 64 LSVS 67


>gi|291537327|emb|CBL10439.1| Helix-turn-helix [Roseburia intestinalis M50/1]
          Length = 138

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 38/74 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI+ RR  L ++Q ++ E  GI+   +   E+G     A+ L  +SE+L+  I +  
Sbjct: 8  IGKRIKKRRKELHLTQTEIKEKTGISSGNMSDIERGNRLPAATTLAQLSEILDCSIDWIL 67

Query: 75 DVSPTVCSDISSEE 88
               V  ++ S +
Sbjct: 68 TGKSPVSENLISPD 81


>gi|229819917|ref|YP_002881443.1| XRE family transcriptional regulator [Beutenbergia cavernae DSM
          12333]
 gi|229565830|gb|ACQ79681.1| transcriptional regulator, XRE family [Beutenbergia cavernae DSM
          12333]
          Length = 195

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 28/65 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R   G++  +L E  GI+   + + E G  +     L  ++ V   P+    
Sbjct: 14 VGPRLRALRHERGLTLSELAERTGISTSTLSRLESGGRKPTLELLLPLARVHGVPLDDLV 73

Query: 75 DVSPT 79
             PT
Sbjct: 74 GAPPT 78


>gi|212696814|ref|ZP_03304942.1| hypothetical protein ANHYDRO_01377 [Anaerococcus hydrogenalis DSM
          7454]
 gi|212676104|gb|EEB35711.1| hypothetical protein ANHYDRO_01377 [Anaerococcus hydrogenalis DSM
          7454]
          Length = 217

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 35/58 (60%), Gaps = 1/58 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFF 74
          RI+ +R  LG + E++G+ +G+T   +Q+YE G +  + + +++ ++  L +  ++  
Sbjct: 6  RIKYKRNQLGKTLEEVGQKVGVTKATIQRYENGNIQNIPSDKIELLAAALNTTPAYLM 63


>gi|254463197|ref|ZP_05076613.1| helix-turn-helix domain protein [Rhodobacterales bacterium
          HTCC2083]
 gi|206679786|gb|EDZ44273.1| helix-turn-helix domain protein [Rhodobacteraceae bacterium
          HTCC2083]
          Length = 454

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 29/69 (42%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G RIR RR+I GM Q  L     I+   +   E    R+G   L  I+ VL+   S
Sbjct: 4  DTLTGSRIRERRLIQGMKQADLARRTEISASYLNLIEHNRRRIGGKLLLSIAAVLDVEAS 63

Query: 72 FFFDVSPTV 80
             + +   
Sbjct: 64 ALSEGAEAA 72


>gi|167767917|ref|ZP_02439970.1| hypothetical protein CLOSS21_02459 [Clostridium sp. SS2/1]
 gi|167710246|gb|EDS20825.1| hypothetical protein CLOSS21_02459 [Clostridium sp. SS2/1]
          Length = 146

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 33/63 (52%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          + VG+RI+L R   GMSQ      + ++ Q + KYE   +  + + +++ ++++     +
Sbjct: 4  MTVGERIQLLRKKTGMSQIDFATKINVSKQTLYKYENNLITNIPSDKIEAVADLCHVSPA 63

Query: 72 FFF 74
          +  
Sbjct: 64 YLM 66


>gi|167630842|ref|YP_001681341.1| transcriptional regulator, putative [Heliobacterium modesticaldum
           Ice1]
 gi|167593582|gb|ABZ85330.1| transcriptional regulator, putative [Heliobacterium modesticaldum
           Ice1]
          Length = 272

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/138 (17%), Positives = 64/138 (46%), Gaps = 10/138 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +  R+R  R  LG++Q ++ E  G++   + + E+G  +     ++ ++E +     +F 
Sbjct: 134 IATRLRSIREQLGLTQAEVAERAGVSPGLIGQIEQGKVQPSLRTIERVAEAVGVTPCYFL 193

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR--QKIIELV--------R 124
              P++ + +    ++++  +  P   Q  R    +++ ++R    ++ L+        R
Sbjct: 194 VPQPSLENLLPVLGDDLIRLLGEPPIQQTLRMIYDLNEAELRFLFGVVRLIKQTGLVGSR 253

Query: 125 SIVSSEKKYRTIEEECMV 142
            +++ E    +IEEE + 
Sbjct: 254 RMLNEEACLSSIEEEGIE 271



 Score = 48.3 bits (114), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 29/56 (51%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +G+++RL R   G++ ++L    GI+ + ++  E    R     L+ +++ L   I
Sbjct: 69  LGQKLRLLREERGLALQELARLAGISIETLRAIEAEEVRPSVDTLRTLADHLNVSI 124



 Score = 38.3 bits (88), Expect = 0.38,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 22/49 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          IR  R   G+S +++    G++   + + E+G  +     +  IS  L 
Sbjct: 6  IRRVREEKGLSLQEVSRLSGVSVSYLSEIERGTKQPAPRIIDKISTALG 54


>gi|153955561|ref|YP_001396326.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219855954|ref|YP_002473076.1| hypothetical protein CKR_2611 [Clostridium kluyveri NBRC 12016]
 gi|146348419|gb|EDK34955.1| Predicted transcriptional regulator [Clostridium kluyveri DSM
          555]
 gi|219569678|dbj|BAH07662.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 130

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 32/68 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +++ R+  G+SQ++L   LG+T Q +  YE+       S ++ I ++L       F 
Sbjct: 3  GLNLKIERIKKGLSQKQLASMLGVTNQTISDYERCKISPSLSNMEKICKILNINPRKLFF 62

Query: 76 VSPTVCSD 83
           +     D
Sbjct: 63 NNDEKEGD 70


>gi|89897035|ref|YP_520522.1| hypothetical protein DSY4289 [Desulfitobacterium hafniense Y51]
 gi|219667095|ref|YP_002457530.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|89336483|dbj|BAE86078.1| hypothetical protein [Desulfitobacterium hafniense Y51]
 gi|219537355|gb|ACL19094.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 181

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 31/68 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VG+ IR  R    ++  +L + L ++   +   E+ +     + L+ I++ L  P+  
Sbjct: 2  IEVGEFIRAIRKRRNLTTTQLADQLDLSNGYISLIERNIVSPSLATLKRIAQALSVPLES 61

Query: 73 FFDVSPTV 80
          FF    T 
Sbjct: 62 FFLDPDTE 69


>gi|313673033|ref|YP_004051144.1| helix-turn-helix domain protein [Calditerrivibrio nitroreducens
          DSM 19672]
 gi|312939789|gb|ADR18981.1| helix-turn-helix domain protein [Calditerrivibrio nitroreducens
          DSM 19672]
          Length = 187

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 23/86 (26%), Positives = 35/86 (40%), Gaps = 4/86 (4%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + K+IR  R   G++ E+L + +G T   V   E        S L+ I       I+ F
Sbjct: 8  YISKKIRNLRKSQGITLEQLAKAIGKTKSYVSMLENEKAIPSLSTLKEIVSFFNMTIADF 67

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
          F+      SD + E   V  F S  +
Sbjct: 68 FE-ESEQKSDFNKE---VFSFSSDAE 89


>gi|260843067|ref|YP_003220845.1| putative transcriptional regulator [Escherichia coli O103:H2 str.
          12009]
 gi|260866991|ref|YP_003233393.1| putative transcriptional regulator [Escherichia coli O111:H- str.
          11128]
 gi|257758214|dbj|BAI29711.1| putative transcriptional regulator [Escherichia coli O103:H2 str.
          12009]
 gi|257763347|dbj|BAI34842.1| putative transcriptional regulator [Escherichia coli O111:H- str.
          11128]
 gi|323967329|gb|EGB62751.1| helix-turn-helix protein [Escherichia coli M863]
          Length = 94

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R   G++QEKLG   G+       ++ +YEKG +      + ++++VL  P+SF 
Sbjct: 5  RLKEARRRAGLTQEKLGILAGLDEASASTRINQYEKGKHSPNFETVSNLAKVLNVPVSFL 64

Query: 74 FDVSPTVCS 82
          +     +  
Sbjct: 65 YTPEDDLAQ 73


>gi|15674195|ref|NP_268370.1| transcription regulator [Lactococcus lactis subsp. lactis Il1403]
 gi|12725279|gb|AAK06311.1|AE006450_4 transcription regulator [Lactococcus lactis subsp. lactis Il1403]
          Length = 102

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 33/94 (35%), Gaps = 5/94 (5%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
             G ++R  RM   ++Q  L   LGI    V  YEK         L  + +  +    + 
Sbjct: 5   YFGDKLRALRMEKKLTQNDLAARLGIVGASVSSYEKNKQYPSVEVLIQLCQTFDVSADYL 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
             +S     + S+     +  +     L+L   F
Sbjct: 65  LGLSDDKNFNTSTLTEEQLQIV-----LRLINEF 93


>gi|75762759|ref|ZP_00742588.1| Transcriptional regulator [Bacillus thuringiensis serovar
          israelensis ATCC 35646]
 gi|74489747|gb|EAO53134.1| Transcriptional regulator [Bacillus thuringiensis serovar
          israelensis ATCC 35646]
          Length = 136

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+++   R   G+SQE L E L  T Q V K+E G       +L  I +V E  + +
Sbjct: 1  MEFGEKLFKLRKEKGLSQEVLAEKLKTTRQAVSKWENGQGFPETEKLIMIGKVFEVSLDY 60

Query: 73 FFDVSPTVCSD 83
              +    ++
Sbjct: 61 LLKETAEQSNE 71


>gi|296114146|ref|ZP_06832801.1| hypothetical protein GXY_00139 [Gluconacetobacter hansenii ATCC
           23769]
 gi|295979222|gb|EFG85945.1| hypothetical protein GXY_00139 [Gluconacetobacter hansenii ATCC
           23769]
          Length = 188

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 20/87 (22%), Positives = 43/87 (49%), Gaps = 2/87 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+RI+L R   G+SQ+   E LG++   V  +E G +   +  +  I+E+       
Sbjct: 82  REIGQRIQLLRKAAGLSQKAFAEMLGMSRAAVCFWETGRSSHISEHVPRIAEIFGISEEV 141

Query: 73  FFDV--SPTVCSDISSEENNVMDFIST 97
           F +   + T+  +++ +E N++    +
Sbjct: 142 FLNGQNNETIPIELTKDEENIIKLYRS 168


>gi|269797236|ref|YP_003311136.1| XRE family transcriptional regulator [Veillonella parvula DSM
          2008]
 gi|269093865|gb|ACZ23856.1| transcriptional regulator, XRE family [Veillonella parvula DSM
          2008]
          Length = 64

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+L R +LG+SQ +L   +G+T   +   E G           I+ VL   I+  F
Sbjct: 3  NKIKLYRTMLGLSQHELAGKVGVTRATINSIENGKTIPSLKLANDIAVVLGRSINDVF 60


>gi|163815391|ref|ZP_02206766.1| hypothetical protein COPEUT_01556 [Coprococcus eutactus ATCC 27759]
 gi|158449365|gb|EDP26360.1| hypothetical protein COPEUT_01556 [Coprococcus eutactus ATCC 27759]
          Length = 172

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 23/117 (19%), Positives = 47/117 (40%), Gaps = 14/117 (11%)

Query: 5   KKIPNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           K+    +D + +G  +R  R   GM+QE++    G++ + V ++E G      + L  ++
Sbjct: 8   KEKTEMIDQVKIGNFLRKLRKEKGMTQEEIATKFGVSSRSVSRWENGNTMPDLAILVELA 67

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           +  +  I    D      S+   +E        T + L     +    D + RQ + 
Sbjct: 68  DYYDVDIREIIDG--ERKSENMEKE--------TKETLLKIADYA---DKQKRQAVF 111


>gi|154499014|ref|ZP_02037392.1| hypothetical protein BACCAP_03006 [Bacteroides capillosus ATCC
           29799]
 gi|261366721|ref|ZP_05979604.1| transcriptional regulator, AraC family [Subdoligranulum variabile
           DSM 15176]
 gi|332655640|ref|ZP_08421260.1| DNA-binding protein [Ruminococcaceae bacterium D16]
 gi|150271854|gb|EDM99080.1| hypothetical protein BACCAP_03006 [Bacteroides capillosus ATCC
           29799]
 gi|282571548|gb|EFB77083.1| transcriptional regulator, AraC family [Subdoligranulum variabile
           DSM 15176]
 gi|332515537|gb|EGJ45171.1| DNA-binding protein [Ruminococcaceae bacterium D16]
          Length = 109

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 27/119 (22%), Positives = 50/119 (42%), Gaps = 21/119 (17%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            ++I +G  I++ R   G +Q+ L E LG+T   +   E+G + +    LQ +  +L   
Sbjct: 6   DINIEIGGNIQVAREQAGYTQDTLSEMLGMTPNHLSAIERGASGISLEALQRLCRLLGV- 64

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVRSI 126
                           ++E          + L L R   +I D   + RQ++ EL+ +I
Sbjct: 65  --------SADRIIFGTDEPE-------AEALALAR---RISDIKPEYRQQVQELLSAI 105


>gi|257867362|ref|ZP_05647015.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
          casseliflavus EC30]
 gi|257873693|ref|ZP_05653346.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
          casseliflavus EC10]
 gi|257801418|gb|EEV30348.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
          casseliflavus EC30]
 gi|257807857|gb|EEV36679.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
          casseliflavus EC10]
          Length = 180

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 37/80 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+++R  R+   ++QE+LGE   +T   + + E+ ++         I EVL      
Sbjct: 1  MEIGEKLRNLRVQKNLTQEELGERTDLTKGYISQLERDLSSPSMETFFTILEVLGVTPEE 60

Query: 73 FFDVSPTVCSDISSEENNVM 92
          FF         +  EE++ +
Sbjct: 61 FFREENAQHQVVYREEDSTL 80


>gi|225388243|ref|ZP_03757967.1| hypothetical protein CLOSTASPAR_01978 [Clostridium asparagiforme
           DSM 15981]
 gi|225045711|gb|EEG55957.1| hypothetical protein CLOSTASPAR_01978 [Clostridium asparagiforme
           DSM 15981]
          Length = 116

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 48/107 (44%), Gaps = 4/107 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +GKRI++ R+   ++QE L E   ++   +   E G +++    +  ++  L   +  
Sbjct: 6   RAIGKRIKIARIKADLTQEALAEKASLSTTHMSNIETGNSKLSLPTIVSLANALSVSVDE 65

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ--LNRYFIQIDDVKVRQ 117
           F   S     DI S+E  + D +S  D  +  +   F++     +R+
Sbjct: 66  FLCDSVIHSKDIFSQE--IQDLVSDCDEYEIRMIADFVRAAKETIRK 110


>gi|254173699|ref|ZP_04880371.1| hypothetical protein TAM4_2078 [Thermococcus sp. AM4]
 gi|214032391|gb|EEB73221.1| hypothetical protein TAM4_2078 [Thermococcus sp. AM4]
          Length = 65

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G++QE+L + LG+T Q +   EKG           I+    + I   F
Sbjct: 3  NRLRELREARGLTQEELAKALGVTRQTIIAIEKGKYDPSLRLAFKIARFFGAKIEDIF 60


>gi|186972781|pdb|2R1J|L Chain L, Crystal Structure Of The P22 C2 Repressor Protein In
          Complex With The Synthetic Operator 9t
 gi|186972782|pdb|2R1J|R Chain R, Crystal Structure Of The P22 C2 Repressor Protein In
          Complex With The Synthetic Operator 9t
          Length = 68

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 29/62 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L + Q  LG+ +G++   + ++E+         L  +S+ L+    +   
Sbjct: 7  GERIRARRKKLKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALSKALQCSPDYLLK 66

Query: 76 VS 77
            
Sbjct: 67 GD 68


>gi|183982165|ref|YP_001850456.1| transcriptional regulator [Mycobacterium marinum M]
 gi|183175491|gb|ACC40601.1| transcriptional regulator [Mycobacterium marinum M]
          Length = 180

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 12/64 (18%), Positives = 27/64 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G++ E+L +  G+T   + K E+G +    +    ++  L+  +   F    
Sbjct: 5  LRAVRRQRGLTLEQLAQRAGLTKSYLSKIERGQSTPSIAVALKVARALDVDVGRLFSDES 64

Query: 79 TVCS 82
             +
Sbjct: 65 AHET 68


>gi|114763961|ref|ZP_01443202.1| DNA-binding protein, putative [Pelagibaca bermudensis HTCC2601]
 gi|114543553|gb|EAU46567.1| DNA-binding protein, putative [Roseovarius sp. HTCC2601]
          Length = 131

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/91 (26%), Positives = 35/91 (38%), Gaps = 2/91 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RI   R   GM QEKL   LG+  + +  +E  +    A++LQ ++ +L   I +   
Sbjct: 16  GDRIAAAREAAGMGQEKLARRLGVKLKTLHGWENDLAEPRANKLQMLAGLLNVSIVWLLT 75

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                 S    EE          D L   R 
Sbjct: 76  GEGEGIS--GPEETEAALPADVNDALLEIRA 104


>gi|28870630|ref|NP_793249.1| DNA-binding protein [Pseudomonas syringae pv. tomato str. DC3000]
 gi|213971343|ref|ZP_03399458.1| DNA-binding protein [Pseudomonas syringae pv. tomato T1]
 gi|301381233|ref|ZP_07229651.1| DNA-binding protein [Pseudomonas syringae pv. tomato Max13]
 gi|302061820|ref|ZP_07253361.1| DNA-binding protein [Pseudomonas syringae pv. tomato K40]
 gi|302131845|ref|ZP_07257835.1| DNA-binding protein [Pseudomonas syringae pv. tomato NCPPB 1108]
 gi|28853878|gb|AAO56944.1| DNA-binding protein [Pseudomonas syringae pv. tomato str. DC3000]
 gi|213923881|gb|EEB57461.1| DNA-binding protein [Pseudomonas syringae pv. tomato T1]
 gi|331019463|gb|EGH99519.1| DNA-binding protein [Pseudomonas syringae pv. lachrymans str.
           M302278PT]
          Length = 189

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 21/100 (21%), Positives = 35/100 (35%), Gaps = 1/100 (1%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           PV  +V   +R  R    +SQ  L E  G++ + +   E G   V  + L  ++E LE  
Sbjct: 10  PVLQHVSHNVRRLRNAADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRVAEALEVA 69

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
            S              +E         +   + L R   +
Sbjct: 70  FSDLIQAPENRDHSRINELAWAGTIPGSK-AVLLARAIAR 108


>gi|89892828|ref|YP_516315.1| hypothetical protein DSY0082 [Desulfitobacterium hafniense Y51]
 gi|89332276|dbj|BAE81871.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 68

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++R+ R   G++Q++LGE +G++ Q +   E G           ++++ +  I   F
Sbjct: 3  NKVRILREEWGLTQKELGEKVGVSRQAINAIETGKFDPSLWLAYDLAKLFKVSIEELF 60


>gi|148265766|ref|YP_001232472.1| putative prophage repressor [Geobacter uraniireducens Rf4]
 gi|146399266|gb|ABQ27899.1| putative prophage repressor [Geobacter uraniireducens Rf4]
          Length = 216

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 37/87 (42%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI++G RI+  R    M+Q++  + LGI    +   E+G      + L  +  + +    
Sbjct: 9  DISIGLRIKELRQAKDMTQKEFADSLGIVQGFLSGIERGKKSPSDTLLIALCHLYKINKE 68

Query: 72 FFFDVSPTVCSDISSEENNVMDFISTP 98
          + +     +       +  + +F++T 
Sbjct: 69 WLYTGRGDMFGKTQLPDKLIEEFVTTR 95


>gi|223933217|ref|ZP_03625208.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
 gi|330832261|ref|YP_004401086.1| XRE family transcriptional regulator [Streptococcus suis ST3]
 gi|223898147|gb|EEF64517.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
 gi|329306484|gb|AEB80900.1| transcriptional regulator, XRE family [Streptococcus suis ST3]
          Length = 126

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 4/72 (5%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQ 60
          + + KI  P    VG+RIR  R + G  Q  +   LG   Q  + K+E GVN     +L 
Sbjct: 1  MADAKIKYP---EVGQRIRELREMRGFEQLDIANQLGYKSQSTISKWESGVNLPTGKKLI 57

Query: 61 HISEVLESPISF 72
           ++E+L++   +
Sbjct: 58 LLAEMLDTSTDY 69


>gi|145219415|ref|YP_001130124.1| XRE family transcriptional regulator [Prosthecochloris
          vibrioformis DSM 265]
 gi|145205579|gb|ABP36622.1| transcriptional regulator, XRE family [Chlorobium phaeovibrioides
          DSM 265]
          Length = 379

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 22/84 (26%), Positives = 38/84 (45%), Gaps = 9/84 (10%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           + +   +G R+R  RM LG SQEKL EC G+    +   E+G   +  +  + I+  L 
Sbjct: 6  SDSITRLLGLRVRRWRMALGYSQEKLAECAGLHRTYIGTVERGEQNITVANAEKIANALH 65

Query: 68 SPISF---------FFDVSPTVCS 82
            ++          F+++ P   S
Sbjct: 66 ITLADILGTQQLKEFYELFPGSFS 89


>gi|330876735|gb|EGH10884.1| DNA-binding protein [Pseudomonas syringae pv. morsprunorum str.
           M302280PT]
          Length = 189

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 21/100 (21%), Positives = 35/100 (35%), Gaps = 1/100 (1%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           PV  +V   +R  R    +SQ  L E  G++ + +   E G   V  + L  ++E LE  
Sbjct: 10  PVLQHVSHNVRRLRNAADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRVAEALEVA 69

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
            S              +E         +   + L R   +
Sbjct: 70  FSDLIQAPENRDHSRINELAWAGTIPGSK-AVLLARAIAR 108


>gi|321314262|ref|YP_004206549.1| hypothetical protein BSn5_14570 [Bacillus subtilis BSn5]
 gi|320020536|gb|ADV95522.1| hypothetical protein BSn5_14570 [Bacillus subtilis BSn5]
          Length = 129

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/116 (20%), Positives = 42/116 (36%), Gaps = 6/116 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R    M+Q+++ + LGI       YE+G        L  I+   E  + +     
Sbjct: 6   RLKKLRDGKKMNQQEVADNLGIARTTYASYEQGKREPDHETLVKIANFFEVTVDYLLGHQ 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVRSIVSSEK 131
           P     +  EE         P    L   F    D   + R++ I+ +  +   EK
Sbjct: 66  PNSKP-VVHEEKAPYKVTDDP---DLQIAFKDASDFSEEARRQAIDFINYLKEKEK 117


>gi|315149857|gb|EFT93873.1| helix-turn-helix protein [Enterococcus faecalis TX0012]
          Length = 273

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 43/69 (62%), Gaps = 7/69 (10%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRL 59
          ++G  K+       VG+R++LRR  L +S +K+ + LG++   + +YEKG + ++   RL
Sbjct: 26 IIGGDKMK------VGERMKLRRKELNISADKIADELGVSRSTIFRYEKGDIEKLPTERL 79

Query: 60 QHISEVLES 68
            I+++L++
Sbjct: 80 ITIAKILKT 88


>gi|307293728|ref|ZP_07573572.1| transcriptional regulator, XRE family [Sphingobium chlorophenolicum
           L-1]
 gi|306879879|gb|EFN11096.1| transcriptional regulator, XRE family [Sphingobium chlorophenolicum
           L-1]
          Length = 467

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 23/130 (17%), Positives = 58/130 (44%), Gaps = 12/130 (9%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  ++K      + +G ++R+ R  LG++Q ++ E LG++   +   E+    + A  L 
Sbjct: 1   MADDRK------LYLGPKLRVLRRELGLNQTRMAEELGVSPSYLNHLERNQRPLTAQMLL 54

Query: 61  HISEVLESPISFFF----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
            ++ V +  I  F     + + +   +I S+       ++  + L++   +  + +   R
Sbjct: 55  RLANVYDIDIRDFVASTQEGAASALGEILSDALVRDIGVARDEVLEVAENYPGVSEAIGR 114

Query: 117 --QKIIELVR 124
             + + +L R
Sbjct: 115 FYRALSDLRR 124


>gi|306825566|ref|ZP_07458905.1| XRE family transcriptional regulator [Streptococcus sp. oral
          taxon 071 str. 73H25AP]
 gi|304431927|gb|EFM34904.1| XRE family transcriptional regulator [Streptococcus sp. oral
          taxon 071 str. 73H25AP]
          Length = 69

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 12/63 (19%), Positives = 26/63 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RIR  R    +SQ+ L + +G+    +  +E G +++     + ++E     I +    
Sbjct: 7  NRIRELRKQSRLSQQALADQIGVFRNTISNWETGYSQISLENAKKVAEYFGVTIDYLLGS 66

Query: 77 SPT 79
             
Sbjct: 67 ESD 69


>gi|288818209|ref|YP_003432557.1| putative prophage repressor [Hydrogenobacter thermophilus TK-6]
 gi|288787609|dbj|BAI69356.1| putative prophage repressor [Hydrogenobacter thermophilus TK-6]
          Length = 235

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 41/90 (45%), Gaps = 4/90 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R+R  R  LG+SQE+ GE +G + + +Q +E G  ++  + L+ I+          ++ 
Sbjct: 14  NRLRYLRKTLGLSQEEFGERIGKSLRTIQYWEAGTVQIPDTALKLIASTFGVS----YEW 69

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             T   ++   E   ++ I   +  +L   
Sbjct: 70  LKTGQGEMWGREKLSLEEIIEREQRKLLES 99


>gi|123443686|ref|YP_001007657.1| putative DNA-binding protein [Yersinia enterocolitica subsp.
          enterocolitica 8081]
 gi|122090647|emb|CAL13518.1| putative DNA-binding protein [Yersinia enterocolitica subsp.
          enterocolitica 8081]
          Length = 118

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 4/74 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R    +SQEKLG   GI       +V +YEKG +      ++  + +L  P  +
Sbjct: 4  ERLKSARKTAKLSQEKLGVLAGIDEATARSRVSQYEKGFHTPSFDLIKKFAVILNVPECY 63

Query: 73 FFDVSPTVCSDISS 86
          F+ V       +  
Sbjct: 64 FYIVDDVFAEAVLE 77


>gi|126433238|ref|YP_001068929.1| hypothetical protein Mjls_0627 [Mycobacterium sp. JLS]
 gi|126233038|gb|ABN96438.1| protein of unknown function DUF955 [Mycobacterium sp. JLS]
          Length = 475

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 25/126 (19%), Positives = 45/126 (35%), Gaps = 6/126 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   FVGSRVRQLRNERGYSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCSDISSEENNVMDF---ISTPDGLQLNRYFIQIDDVKV---RQKIIELVRSIV 127
                T       E     +    +   +   +      +    V   R+  +   +   
Sbjct: 65  ASQDDTRLVAELREVTMDRELGVEVDVSEIADMVAAHPTLARAMVNLHRRYRLTTTQLAA 124

Query: 128 SSEKKY 133
           ++E +Y
Sbjct: 125 ATEDRY 130


>gi|291526787|emb|CBK92373.1| Helix-turn-helix [Eubacterium rectale M104/1]
          Length = 115

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 30/110 (27%), Positives = 49/110 (44%), Gaps = 4/110 (3%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           + +K      D   G RI  RR ++G+SQ++L   +GI  Q +   E G +      L +
Sbjct: 1   MSSKAQTREKDYERGLRIADRRKVMGLSQDELAHRVGIGRQALSAIENGGD-FKTQTLDN 59

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
           ++ VL   + F         S++ SE    MD +S  D LQ+ +    I 
Sbjct: 60  LAIVLGVSVDFIMYGKNEENSELLSEA---MDVLSDMDELQVRQCLAMIK 106


>gi|291286694|ref|YP_003503510.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
 gi|290883854|gb|ADD67554.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
          Length = 105

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 21/63 (33%), Positives = 33/63 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RIR  R     SQE L E   I+ + + + E+G + V A+ L  I+  L  PI+ 
Sbjct: 6  VKLGRRIREVRRSKNFSQETLAEKANISSKYLGEVERGESNVSAALLNDIASALNIPIAE 65

Query: 73 FFD 75
            D
Sbjct: 66 LMD 68


>gi|148266629|ref|YP_001245572.1| XRE family transcriptional regulator [Staphylococcus aureus
          subsp. aureus JH9]
 gi|150392669|ref|YP_001315344.1| hypothetical protein SaurJH1_0195 [Staphylococcus aureus subsp.
          aureus JH1]
 gi|257793983|ref|ZP_05642962.1| transcriptional regulator [Staphylococcus aureus A9781]
 gi|258408610|ref|ZP_05680895.1| transcriptional regulator [Staphylococcus aureus A9763]
 gi|258421201|ref|ZP_05684128.1| transcriptional regulator [Staphylococcus aureus A9719]
 gi|258438949|ref|ZP_05690040.1| transcriptional regulator [Staphylococcus aureus A9299]
 gi|258444184|ref|ZP_05692518.1| transcriptional regulator [Staphylococcus aureus A8115]
 gi|258447065|ref|ZP_05695215.1| transcriptional regulator [Staphylococcus aureus A6300]
 gi|258448523|ref|ZP_05696636.1| transcriptional regulator [Staphylococcus aureus A6224]
 gi|258455756|ref|ZP_05703711.1| transcriptional regulator [Staphylococcus aureus A5937]
 gi|282893361|ref|ZP_06301594.1| transcriptional regulator [Staphylococcus aureus A8117]
 gi|282926312|ref|ZP_06333944.1| transcriptional regulator [Staphylococcus aureus A10102]
 gi|295405474|ref|ZP_06815284.1| transcriptional regulator [Staphylococcus aureus A8819]
 gi|296274946|ref|ZP_06857453.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus MR1]
 gi|297209290|ref|ZP_06925689.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          ATCC 51811]
 gi|297244811|ref|ZP_06928691.1| transcriptional regulator [Staphylococcus aureus A8796]
 gi|300911288|ref|ZP_07128737.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          TCH70]
 gi|147739698|gb|ABQ47996.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          JH9]
 gi|149945121|gb|ABR51057.1| helix-turn-helix domain protein [Staphylococcus aureus subsp.
          aureus JH1]
 gi|257787955|gb|EEV26295.1| transcriptional regulator [Staphylococcus aureus A9781]
 gi|257840619|gb|EEV65078.1| transcriptional regulator [Staphylococcus aureus A9763]
 gi|257842625|gb|EEV67047.1| transcriptional regulator [Staphylococcus aureus A9719]
 gi|257847825|gb|EEV71821.1| transcriptional regulator [Staphylococcus aureus A9299]
 gi|257850443|gb|EEV74391.1| transcriptional regulator [Staphylococcus aureus A8115]
 gi|257854078|gb|EEV77031.1| transcriptional regulator [Staphylococcus aureus A6300]
 gi|257858154|gb|EEV81042.1| transcriptional regulator [Staphylococcus aureus A6224]
 gi|257861968|gb|EEV84741.1| transcriptional regulator [Staphylococcus aureus A5937]
 gi|282591641|gb|EFB96712.1| transcriptional regulator [Staphylococcus aureus A10102]
 gi|282764047|gb|EFC04174.1| transcriptional regulator [Staphylococcus aureus A8117]
 gi|294969549|gb|EFG45568.1| transcriptional regulator [Staphylococcus aureus A8819]
 gi|296886223|gb|EFH25157.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          ATCC 51811]
 gi|297178328|gb|EFH37575.1| transcriptional regulator [Staphylococcus aureus A8796]
 gi|300887467|gb|EFK82663.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          TCH70]
          Length = 65

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +++ R+ L M+Q++L   +G+T Q +   EKGV+    S  ++I  VL   +   F  
Sbjct: 3  NNLKIARVSLSMTQKELANKVGVTRQTISLIEKGVHNPSLSLCKNICSVLNKNLDEIFGE 62

Query: 77 SP 78
           P
Sbjct: 63 KP 64


>gi|33151354|ref|NP_872707.1| transcription regulator [Haemophilus ducreyi 35000HP]
 gi|33147574|gb|AAP95096.1| probable transcription regulator [Haemophilus ducreyi 35000HP]
          Length = 233

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 29/68 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R   G S+ +L + LG++   +Q +E       AS +  I+E L    S+  
Sbjct: 11 IGNRIRDEREKAGRSRNELADTLGLSLSTLQLWETNEREPQASMIITIAEELGVSPSYLL 70

Query: 75 DVSPTVCS 82
                  
Sbjct: 71 TGETEEGE 78


>gi|328883064|emb|CCA56303.1| hypothetical protein SVEN_3017 [Streptomyces venezuelae ATCC 10712]
          Length = 126

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 31/56 (55%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           G RIR  R   G+SQ++L + + +  + VQ+YE+G      + L  I++ L   ++
Sbjct: 67  GHRIRELRTAAGLSQDQLADRIHMERRSVQRYERGERDPRFTDLVLIADALGVTVA 122


>gi|317055082|ref|YP_004103549.1| helix-turn-helix domain-containing protein [Ruminococcus albus 7]
 gi|315447351|gb|ADU20915.1| helix-turn-helix domain protein [Ruminococcus albus 7]
          Length = 165

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 21/108 (19%), Positives = 44/108 (40%), Gaps = 13/108 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G  ++  R   G+SQEKL E  G++ + V ++E G      S +  +++     I  
Sbjct: 4   VKIGAFLKQLRNEKGLSQEKLAEVFGVSSRSVSRWENGRTMPDISIIIELADYYGIDIR- 62

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
                  + +     E+   D     + L +   +    D + +Q I+
Sbjct: 63  ------ELLNGERKSEDMNKDV---KETLTMVADY---TDKQKKQAIL 98


>gi|283785296|ref|YP_003365161.1| DNA-binding protein [Citrobacter rodentium ICC168]
 gi|282948750|emb|CBG88345.1| putative DNA-binding protein [Citrobacter rodentium ICC168]
          Length = 191

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 32/65 (49%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + ++  +G RIR+ R   G S  +L E  G++   + K E+G +   A+ L  +S   
Sbjct: 4  IEDSINQRIGVRIRIERESRGWSLTELAEKAGVSRAMIHKIERGESSPTATLLGRLSGAF 63

Query: 67 ESPIS 71
             +S
Sbjct: 64 GISMS 68


>gi|189350245|ref|YP_001945873.1| putative bacteriophage repressor protein CI [Burkholderia
          multivorans ATCC 17616]
 gi|189334267|dbj|BAG43337.1| putative bacteriophage repressor protein CI [Burkholderia
          multivorans ATCC 17616]
          Length = 246

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 33/77 (42%), Gaps = 2/77 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-D 75
          +R+R  R    +SQ +L    G++   +   E G N+ G+  L  I+  L    ++   +
Sbjct: 6  QRLRDTREEKSLSQAQLATRAGVSQTTIANVESGRNQ-GSKHLLSIARALGVNPAWLESE 64

Query: 76 VSPTVCSDISSEENNVM 92
            P   S  ++ +  + 
Sbjct: 65 SGPKDASAAAAPQPGIY 81


>gi|188588059|ref|YP_001921522.1| DNA-binding protein [Clostridium botulinum E3 str. Alaska E43]
 gi|188498340|gb|ACD51476.1| DNA-binding protein [Clostridium botulinum E3 str. Alaska E43]
          Length = 114

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 30/62 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R+   +SQ KL E   I+ Q V  YEKG+  + +S ++ +S        +   +
Sbjct: 7  NRLKELRIEKDLSQAKLAELFNISQQAVSHYEKGIRDIDSSLIKTLSNFFSVSSDYLLGI 66

Query: 77 SP 78
          S 
Sbjct: 67 SD 68


>gi|240171997|ref|ZP_04750656.1| transcriptional regulator [Mycobacterium kansasii ATCC 12478]
          Length = 174

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 44/110 (40%), Gaps = 20/110 (18%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +R  R   G++ E+L E  G+T   + K E+G +    +    +S  L+  +   F    
Sbjct: 5   LRAVRRHRGLTLEQLAEQTGLTKSYLSKIERGHSTPSIAVALKVSRALDVDVGRLF---- 60

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
              SD +++E   +D  S   G             +VR +   L  +++ 
Sbjct: 61  ---SDETAQEKITVDRASDRAG-------------QVRGRYRALASTLLG 94


>gi|296139176|ref|YP_003646419.1| XRE family transcriptional regulator [Tsukamurella paurometabola
          DSM 20162]
 gi|296027310|gb|ADG78080.1| transcriptional regulator, XRE family [Tsukamurella paurometabola
          DSM 20162]
          Length = 171

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 34/86 (39%), Gaps = 3/86 (3%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+P   +VG R+R  R   G+S  +L    G+    + + E G        L  +   L
Sbjct: 1  MPSP---DVGGRLRELRSERGLSLSELARRAGVGKGSLSEIEAGGRNPTVETLYSLCGPL 57

Query: 67 ESPISFFFDVSPTVCSDISSEENNVM 92
          + P++     SP   S        V+
Sbjct: 58 DVPLTALLGESPGTDSTAHGGMRTVL 83


>gi|239828402|ref|YP_002951026.1| XRE family transcriptional regulator [Geobacillus sp. WCH70]
 gi|239808695|gb|ACS25760.1| transcriptional regulator, XRE family [Geobacillus sp. WCH70]
          Length = 97

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 29/55 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +  +I+ RR  L MSQ++L + +G+    + + E G+       L  IS+ L +P
Sbjct: 26 IAAQIKTRRKQLNMSQQELADRIGVPKSTIGRIEAGLTSPRVETLFKISQALNTP 80


>gi|88803144|ref|ZP_01118670.1| helix-turn-helix family protein [Polaribacter irgensii 23-P]
 gi|88780710|gb|EAR11889.1| helix-turn-helix family protein [Polaribacter irgensii 23-P]
          Length = 74

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 34/68 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R IL ++QE+L   +G++ Q +   EK            +S + + P++ FF++
Sbjct: 3  NRLKIERAILDLTQEELANKIGVSRQTISSIEKNRYVPSTVLSLRLSNLFKKPVNDFFEL 62

Query: 77 SPTVCSDI 84
               ++ 
Sbjct: 63 DENEKANT 70


>gi|86137418|ref|ZP_01055995.1| DNA-binding protein, putative [Roseobacter sp. MED193]
 gi|85825753|gb|EAQ45951.1| DNA-binding protein, putative [Roseobacter sp. MED193]
          Length = 133

 Score = 57.1 bits (137), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 28/121 (23%), Positives = 50/121 (41%), Gaps = 11/121 (9%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R    M+Q +L   LG+    +  +E+ ++   A++L  +S +L   +S+   
Sbjct: 17  GDRVAAAREAADMTQAQLARRLGVKKTTLMGWEQDLSEPRANKLSMVSGLLNVSMSWLLT 76

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                 S+ S  + +V DF      LQ  R         +R ++          EKK RT
Sbjct: 77  GEGEGMSEPSEMDLDVGDF---AGVLQELRA--------LRNEMRSNAERAARLEKKLRT 125

Query: 136 I 136
           +
Sbjct: 126 L 126


>gi|183598237|ref|ZP_02959730.1| hypothetical protein PROSTU_01621 [Providencia stuartii ATCC
          25827]
 gi|188020406|gb|EDU58446.1| hypothetical protein PROSTU_01621 [Providencia stuartii ATCC
          25827]
          Length = 108

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 32/63 (50%), Gaps = 2/63 (3%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +   VG  ++  R   G+S  ++   L I+ QQ+ +YE+G+N +    L +   +L   
Sbjct: 16 SITKIVGASMKRARREKGLSGYEIAVKLNISQQQISRYERGINHISVDTLFNF--ILALD 73

Query: 70 ISF 72
          IS+
Sbjct: 74 ISY 76


>gi|154498814|ref|ZP_02037192.1| hypothetical protein BACCAP_02805 [Bacteroides capillosus ATCC
           29799]
 gi|150272204|gb|EDM99408.1| hypothetical protein BACCAP_02805 [Bacteroides capillosus ATCC
           29799]
          Length = 198

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 23/98 (23%), Positives = 40/98 (40%), Gaps = 16/98 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           + +G++IR  R   GM+Q++L G+   IT   + K E          L++++  L  P  
Sbjct: 1   MTLGQKIREARQSKGMTQKELVGDY--ITRNMLSKIENDSAIPSVRTLEYLAGALGFPTG 58

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           +F   +P                 + PDGL   R   +
Sbjct: 59  YFLSGAPVSDG-------------TAPDGLDEARAAYR 83


>gi|331017574|gb|EGH97630.1| putative phage repressor [Pseudomonas syringae pv. lachrymans
          str. M302278PT]
          Length = 228

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ IR  R   G+SQ+ L    G  +  ++  YEKG  +     ++ I++ L   
Sbjct: 4  LGQHIRKLRKEKGLSQQALAHACGWESQSRIGNYEKGTRQPSLQDIRKIADTLGVS 59


>gi|291485885|dbj|BAI86960.1| putative transcriptional regulator [Bacillus subtilis subsp.
          natto BEST195]
          Length = 67

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 1/66 (1%)

Query: 11 VDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D+  +G  IR +R   G+SQ    E +G T   V + E G        L+ IS+ L   
Sbjct: 2  IDLSELGHMIRKKRKESGLSQTVFAEKIGCTGSYVSRLENGKVSPTLKSLEQISQTLNIK 61

Query: 70 ISFFFD 75
             FFD
Sbjct: 62 AKLFFD 67


>gi|284055653|pdb|3JXB|C Chain C, Crystal Structure Of The P22 C2 Repressor Protein In
          Complex With Synthetic Operator 9c
 gi|284055654|pdb|3JXB|D Chain D, Crystal Structure Of The P22 C2 Repressor Protein In
          Complex With Synthetic Operator 9c
 gi|284055657|pdb|3JXC|L Chain L, Crystal Structure Of The P22 C2 Repressor Protein In
          Complex With Synthetic Operator 9t In The Presence Of
          Tl+
 gi|284055658|pdb|3JXC|R Chain R, Crystal Structure Of The P22 C2 Repressor Protein In
          Complex With Synthetic Operator 9t In The Presence Of
          Tl+
 gi|284055661|pdb|3JXD|L Chain L, Crystal Structure Of The P22 C2 Repressor Protein In
          Complex With Synthetic Operator 9c In The Presence Of
          Rb+
 gi|284055662|pdb|3JXD|R Chain R, Crystal Structure Of The P22 C2 Repressor Protein In
          Complex With Synthetic Operator 9c In The Presence Of
          Rb+
          Length = 67

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 29/62 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR RR  L + Q  LG+ +G++   + ++E+         L  +S+ L+    +   
Sbjct: 6  GERIRARRKKLKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALSKALQCSPDYLLK 65

Query: 76 VS 77
            
Sbjct: 66 GD 67


>gi|302522509|ref|ZP_07274851.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. SPB78]
 gi|318058819|ref|ZP_07977542.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. SA3_actG]
 gi|318075294|ref|ZP_07982626.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. SA3_actF]
 gi|333023793|ref|ZP_08451857.1| putative UDP-N-acetylglucosamine transferase [Streptomyces sp.
          Tu6071]
 gi|302431404|gb|EFL03220.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. SPB78]
 gi|332743645|gb|EGJ74086.1| putative UDP-N-acetylglucosamine transferase [Streptomyces sp.
          Tu6071]
          Length = 509

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G SQ +L E L  +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWSQAQLAEALATSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|288572784|ref|ZP_06391141.1| transcriptional regulator, XRE family [Dethiosulfovibrio
           peptidovorans DSM 11002]
 gi|288568525|gb|EFC90082.1| transcriptional regulator, XRE family [Dethiosulfovibrio
           peptidovorans DSM 11002]
          Length = 211

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 19/98 (19%), Positives = 36/98 (36%), Gaps = 2/98 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  ++  R   G +Q+ L   +G+T   +  +EK         L  +++ L    +F   
Sbjct: 4   GNDLKRLRKEKGWTQQDLASRVGVTKTTILDWEKDRYSPVGQNLISLAKALNVSAAFIMG 63

Query: 76  V--SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               P+           V+ ++    GL L+     ID
Sbjct: 64  ETNDPSPQGTGKKAPEGVLRYLRDQTGLSLDEAAALID 101


>gi|114327636|ref|YP_744793.1| HTH DNA-binding protein [Granulibacter bethesdensis CGDNIH1]
 gi|114315810|gb|ABI61870.1| HTH DNA-binding protein [Granulibacter bethesdensis CGDNIH1]
          Length = 286

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 26/135 (19%), Positives = 56/135 (41%), Gaps = 26/135 (19%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES------ 68
           +G+R+R  R+  G+  E++   LG++   + +YEKG   +    +Q ++E+L+       
Sbjct: 8   IGQRLRAYRLESGLRAEEIAARLGVSRAALYRYEKGEV-IKLDTVQRLAELLQVSPLSLL 66

Query: 69  ---------PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ---IDDVKVR 116
                    P+ +F         + +++   V D +     L     F+    I     R
Sbjct: 67  GVSIEYQSRPVGYF--ERARQIEENAAQLQFVGDALCHLTMLDETEAFLAESIISRHAGR 124

Query: 117 QK-----IIELVRSI 126
            K     + +LV+++
Sbjct: 125 SKADRLYVEQLVKTL 139


>gi|21322195|gb|AAM47490.1| putative transcriptional regulator [Serratia sp. 2-68]
          Length = 88

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 33/72 (45%), Gaps = 4/72 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R   G++QE+LG   GI       ++  YE G  R     +   ++VL  P  +
Sbjct: 4  KRLKSARTRAGLTQEQLGVLAGIDESTARGRISSYETGAYRPVFETMCLFAKVLNVPECY 63

Query: 73 FFDVSPTVCSDI 84
          F+ V      ++
Sbjct: 64 FYIVDDQFAEEV 75


>gi|19263421|ref|NP_597807.1| DNA binding protein [Streptococcus phage Sfi21]
          Length = 170

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 14/86 (16%), Positives = 38/86 (44%), Gaps = 1/86 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R+ L R    +++ +L E +G++   V K+E G +++     + +++     + +   +
Sbjct: 2   NRLYLLRESRKITRVELAEKIGVSKLTVLKWEHGTSKISRREAKKLADFFGVSVGYLLGL 61

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ 102
             T    I+     + ++ +   GL 
Sbjct: 62  DTTENDSITDLIAKINEW-AISHGLD 86


>gi|320008066|gb|ADW02916.1| helix-turn-helix domain protein [Streptomyces flavogriseus ATCC
           33331]
          Length = 190

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 41/114 (35%), Gaps = 15/114 (13%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G ++  +   I VG +IR RR   GMS  +L    G+    + + E G        L  +
Sbjct: 5   GERRPASSTAIAVGAQIRRRREQRGMSSAELARRAGLGKATLSQLEAGRGNPTIETLDAL 64

Query: 63  SEVLESPISFFF----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
           +  L  P++       D  P +       +  V        G +L R   +I  
Sbjct: 65  AIALRIPLTDLLARDTDPGPVLVPGTDLADGEV--------GRELLR---RISS 107


>gi|254519819|ref|ZP_05131875.1| DNA-binding protein [Clostridium sp. 7_2_43FAA]
 gi|226913568|gb|EEH98769.1| DNA-binding protein [Clostridium sp. 7_2_43FAA]
          Length = 179

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 33/68 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R+   ++QE+L     ++   + + E  +     + L  I E+L + ++ 
Sbjct: 1  MEIGEKIRRLRIEKQLTQEELANRCELSKGFISQVENDLTSPSIATLIDILEILGTNLTE 60

Query: 73 FFDVSPTV 80
          FF  +   
Sbjct: 61 FFSEASEE 68


>gi|282601274|ref|ZP_05981265.2| putative transcriptional regulator [Subdoligranulum variabile DSM
          15176]
 gi|282569583|gb|EFB75118.1| putative transcriptional regulator [Subdoligranulum variabile DSM
          15176]
          Length = 195

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 22/65 (33%), Positives = 37/65 (56%), Gaps = 3/65 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI---TFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + VG++IRL R    ++Q +LG+ LG+      +V +YE G        L+ I++VL+ P
Sbjct: 3  MKVGQKIRLVRRHRHLTQRELGDRLGLGEGGANRVAQYEMGYRVPKDELLRKIADVLDVP 62

Query: 70 ISFFF 74
          +  FF
Sbjct: 63 VENFF 67


>gi|268591033|ref|ZP_06125254.1| putative HTH-type transcriptional regulatory protein [Providencia
          rettgeri DSM 1131]
 gi|291313839|gb|EFE54292.1| putative HTH-type transcriptional regulatory protein [Providencia
          rettgeri DSM 1131]
          Length = 90

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 35/61 (57%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+I +G  I+  R   G+S  +L + L ++ QQV +YE+G  ++   +L  ++  L+  +
Sbjct: 7  VNIKLGYLIKKLRKKKGISGAELAKKLNVSQQQVSRYERGATKLSFEKLIELTIYLDLDL 66

Query: 71 S 71
          S
Sbjct: 67 S 67


>gi|254500680|ref|ZP_05112831.1| Helix-turn-helix domain protein [Labrenzia alexandrii DFL-11]
 gi|222436751|gb|EEE43430.1| Helix-turn-helix domain protein [Labrenzia alexandrii DFL-11]
          Length = 183

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 16/89 (17%), Positives = 36/89 (40%), Gaps = 2/89 (2%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D ++ +R+   R   G+S ++L E  GI+   + + E+G     A+ L  ++      ++
Sbjct: 3   DQDLAQRLIGLRKTKGLSLDELAEKSGISRATLSRIERGDTSPTAAALGRLATAFGVSVA 62

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDG 100
             F +     +  +    N       P+ 
Sbjct: 63  DLFGLG--AAAHDAKLAQNEQAVWRDPET 89


>gi|108797614|ref|YP_637811.1| XRE family transcriptional regulator [Mycobacterium sp. MCS]
 gi|119866701|ref|YP_936653.1| hypothetical protein Mkms_0647 [Mycobacterium sp. KMS]
 gi|108768033|gb|ABG06755.1| transcriptional regulator, XRE family [Mycobacterium sp. MCS]
 gi|119692790|gb|ABL89863.1| protein of unknown function DUF955 [Mycobacterium sp. KMS]
          Length = 475

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 25/126 (19%), Positives = 45/126 (35%), Gaps = 6/126 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   FVGSRVRQLRNERGYSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCSDISSEENNVMDF---ISTPDGLQLNRYFIQIDDVKV---RQKIIELVRSIV 127
                T       E     +    +   +   +      +    V   R+  +   +   
Sbjct: 65  ASQDDTRLVAELREVAMDRELGVEVDVSEIADMVAAHPTLARAMVNLHRRYRLTTTQLAA 124

Query: 128 SSEKKY 133
           ++E +Y
Sbjct: 125 ATEDRY 130


>gi|329888188|ref|ZP_08266786.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
 gi|328846744|gb|EGF96306.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
          Length = 65

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 29/59 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           R++L R+    +QE+LG+ LG++ Q V   E   +         I+ + E P+   F+
Sbjct: 3  NRLKLLRVERNWTQEQLGQALGVSRQAVNALETEKHDPSLDLAYRIAALFERPVEDIFE 61


>gi|312130932|ref|YP_003998272.1| helix-turN-helix domain protein [Leadbetterella byssophila DSM
           17132]
 gi|311907478|gb|ADQ17919.1| helix-turn-helix domain protein [Leadbetterella byssophila DSM
           17132]
          Length = 120

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 37/91 (40%), Gaps = 5/91 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G +IR+ R + G+SQE + + L I+      YE    ++    ++ I+ VL         
Sbjct: 3   GAKIRMIREMRGLSQENVADELDISQSTYSLYESDKIKITGEMIEKIASVLNVSPLDIMS 62

Query: 76  VSPTVCS-----DISSEENNVMDFISTPDGL 101
             P + +            N+  + STP  L
Sbjct: 63  HQPVIINFQSNKGTQQAIGNIETYTSTPKEL 93


>gi|16764259|ref|NP_459874.1| transcriptional regulator [Salmonella enterica subsp. enterica
          serovar Typhimurium str. LT2]
 gi|169257171|ref|YP_001700549.1| putative transcriptional regulator (repressor) [Salmonella phage
          Fels-1]
 gi|16419406|gb|AAL19833.1| predicted Fels-1 prophage transcriptional regulator [Salmonella
          enterica subsp. enterica serovar Typhimurium str. LT2]
          Length = 231

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 30/65 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG++IR  R    M+  +L          + + E+G+    A  +Q I+E L+ P+S 
Sbjct: 3  VKVGQKIRELRKARKMTITQLAALTDWDVGNISRLERGMQGYSAQSIQKIAEALQVPVSE 62

Query: 73 FFDVS 77
           F   
Sbjct: 63 LFSTE 67


>gi|85707180|ref|ZP_01038267.1| transcriptional regulator, putative [Roseovarius sp. 217]
 gi|85668339|gb|EAQ23213.1| transcriptional regulator, putative [Roseovarius sp. 217]
          Length = 436

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 24/91 (26%), Positives = 38/91 (41%), Gaps = 4/91 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR RR++ G+ Q  L +  GI+   +   E    R+G   L  ++E L+   S   
Sbjct: 7   IGTRIRERRVLNGIRQSDLAQQAGISPSYLNLIEHNHRRIGGKTLLKLAEALKVEPSQLT 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
             +         E     D     DG +L+R
Sbjct: 67  QGAEVTLISGLREAAGKPD----TDGPELDR 93


>gi|332976082|gb|EGK12950.1| helix-turn-helix domain protein [Desmospora sp. 8437]
          Length = 359

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 23/123 (18%), Positives = 50/123 (40%), Gaps = 26/123 (21%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           ++R  R  L ++QE LG  +G++ Q +  +EKG +    ++L  ++  L  P+       
Sbjct: 9   QLRPLREQLTVTQEDLGRSVGVSRQTIAAWEKGESTPTVAQLFSLARTLGVPV------- 61

Query: 78  PTVCSDISSEENNVMDFIST-PDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
             +      E++  + F +  P+ L            ++R        ++      Y T+
Sbjct: 62  -EILLGRKKEQDFKLLFRADQPETLT----------PEMR-------EALAKKAANYATV 103

Query: 137 EEE 139
           E+ 
Sbjct: 104 EQL 106


>gi|330821781|ref|YP_004350643.1| transcriptional regulator, XRE family [Burkholderia gladioli
          BSR3]
 gi|327373776|gb|AEA65131.1| transcriptional regulator, XRE family [Burkholderia gladioli
          BSR3]
          Length = 186

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 34/90 (37%), Gaps = 1/90 (1%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N  D  + +R+R  R   G S E L E  G++   +   E+G +   A  L  ++  L  
Sbjct: 2  NVHDR-IAERLRALRDARGWSLETLAEHSGVSRSNISLIERGQSSPTAVVLDKLATALAV 60

Query: 69 PISFFFDVSPTVCSDISSEENNVMDFISTP 98
          P+S  F  S    +             + P
Sbjct: 61 PLSSLFGESGESEAPSPIARAADQPLWTDP 90


>gi|227519526|ref|ZP_03949575.1| possible transcriptional repressor [Enterococcus faecalis TX0104]
 gi|257090868|ref|ZP_05585229.1| predicted protein [Enterococcus faecalis CH188]
 gi|312902504|ref|ZP_07761710.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|227072975|gb|EEI10938.1| possible transcriptional repressor [Enterococcus faecalis TX0104]
 gi|256999680|gb|EEU86200.1| predicted protein [Enterococcus faecalis CH188]
 gi|310634174|gb|EFQ17457.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|315579687|gb|EFU91878.1| helix-turn-helix protein [Enterococcus faecalis TX0630]
          Length = 162

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 34/68 (50%), Gaps = 1/68 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFF 74
          G+RI+  R+   ++QE+L    G+    + KYEKG V  +  S ++ +S+      S+  
Sbjct: 17 GERIKRLRLEKNLTQEELASKFGLKRAAINKYEKGNVENMKRSVIEDMSKFFGVSPSYLM 76

Query: 75 DVSPTVCS 82
           +  +  S
Sbjct: 77 ALDDSTSS 84


>gi|218282117|ref|ZP_03488416.1| hypothetical protein EUBIFOR_00991 [Eubacterium biforme DSM 3989]
 gi|218216910|gb|EEC90448.1| hypothetical protein EUBIFOR_00991 [Eubacterium biforme DSM 3989]
          Length = 334

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 27/65 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I   R   G +QE L + LG++ Q V K+E         ++  ++++ E    +     
Sbjct: 21 KIIEERKKNGWTQEDLAQKLGVSRQSVSKWESAGAIPDLKKIIQLADLFEVSTDYLLKDE 80

Query: 78 PTVCS 82
              +
Sbjct: 81 IEKEN 85


>gi|146308997|ref|YP_001189462.1| putative phage repressor [Pseudomonas mendocina ymp]
 gi|145577198|gb|ABP86730.1| putative phage repressor [Pseudomonas mendocina ymp]
          Length = 240

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+R++  R   GMSQ+ L E  G  +  ++  YE  +     S L  I+  L   ++
Sbjct: 4  LGQRLKRLRKAKGMSQQALAEECGWASQSRIGNYEADLRAPSLSDLLLIAPALGVSLA 61


>gi|228961614|ref|ZP_04123223.1| hypothetical protein bthur0005_50560 [Bacillus thuringiensis
          serovar pakistani str. T13001]
 gi|229051021|ref|ZP_04194569.1| hypothetical protein bcere0027_49740 [Bacillus cereus AH676]
 gi|37650614|emb|CAE46898.1| transcriptional regulator [Bacillus thuringiensis]
 gi|37650622|emb|CAE46902.1| transcriptional regulator [Bacillus thuringiensis]
 gi|228722330|gb|EEL73727.1| hypothetical protein bcere0027_49740 [Bacillus cereus AH676]
 gi|228798096|gb|EEM45100.1| hypothetical protein bthur0005_50560 [Bacillus thuringiensis
          serovar pakistani str. T13001]
          Length = 285

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSDNI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|310830222|ref|YP_003965322.1| probable transcriptional regulator [Ketogulonicigenium vulgare
          Y25]
 gi|308753128|gb|ADO44271.1| probable transcriptional regulator [Ketogulonicigenium vulgare
          Y25]
          Length = 197

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 33/68 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  +R RR+ LG++Q  + +  G+T   + + E+G+     S L  IS+VL      F 
Sbjct: 8  VGDALRARRIALGITQRVVADQAGLTTGFISQVERGLTAPSLSSLHAISKVLGLSPLQFI 67

Query: 75 DVSPTVCS 82
          D  P    
Sbjct: 68 DTPPAPQQ 75


>gi|237800519|ref|ZP_04588980.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           oryzae str. 1_6]
 gi|331023379|gb|EGI03436.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           oryzae str. 1_6]
          Length = 115

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 25/107 (23%), Positives = 43/107 (40%), Gaps = 8/107 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG +I+  R    +SQ  L E +G     + +YE+G+N  G  +L  I+ V         
Sbjct: 2   VGAKIKALRKSSTLSQADLAEKIGCDAPLIGRYERGINLPGIEQLIRIATVFNVAPGELL 61

Query: 75  DVSPTVC--------SDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
                V          ++S + N V    S  + ++L   FI  ++ 
Sbjct: 62  PGGQDVLRTRLISLRQELSEKINQVDSPESLEEIIRLTDKFIAYNNP 108


>gi|157325448|ref|YP_001468872.1| gp32 [Listeria phage A006]
 gi|255016762|ref|ZP_05288888.1| hypothetical protein LmonF_00901 [Listeria monocytogenes FSL
          F2-515]
 gi|300765039|ref|ZP_07075027.1| hypothetical protein LMHG_11512 [Listeria monocytogenes FSL
          N1-017]
 gi|66733453|gb|AAY53267.1| gp32 [Listeria phage A006]
 gi|300514339|gb|EFK41398.1| hypothetical protein LMHG_11512 [Listeria monocytogenes FSL
          N1-017]
          Length = 83

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 3/70 (4%)

Query: 19 IRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          IR +R  LG SQ+ +   LG        KYE G  ++ A  L  ++++L+  IS FF  +
Sbjct: 10 IREKRESLGFSQKDMAIKLGFKNASTYLKYETGEYKIKAEMLPLLAKILKCNISNFFTKN 69

Query: 76 VSPTVCSDIS 85
          V+ T   D +
Sbjct: 70 VAKTETGDFA 79


>gi|16800830|ref|NP_471098.1| hypothetical protein lin1762 [Listeria innocua Clip11262]
 gi|16414249|emb|CAC96993.1| lin1762 [Listeria innocua Clip11262]
          Length = 146

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 28/135 (20%), Positives = 55/135 (40%), Gaps = 21/135 (15%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
           +  RI+  R    ++QE+L + +  T   +  YE   +   A  +  +++ LE+   +  
Sbjct: 2   ISNRIKSARKYRKLTQEELAKKINSTKSTISNYENSYSSPSAEVISMLADALETSTDYLL 61

Query: 74  ------------FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID-DVKVRQKI- 119
                       +D++    +DI  E   ++  + + DGL     F     D + R+ + 
Sbjct: 62  EKTDEIEIKQKYYDLTKKDENDIEKELEKILSNLDSSDGL----AFSGEPLDDETRELLS 117

Query: 120 IELVRSI--VSSEKK 132
           I L RS+     E K
Sbjct: 118 ISLERSLRFARQESK 132


>gi|134300926|ref|YP_001114422.1| XRE family transcriptional regulator [Desulfotomaculum reducens
           MI-1]
 gi|134053626|gb|ABO51597.1| transcriptional regulator, XRE family [Desulfotomaculum reducens
           MI-1]
          Length = 152

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 22/111 (19%), Positives = 46/111 (41%), Gaps = 6/111 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           KR++  R   G++Q+ L + L I    +  YE    +     L+ +++     + +   +
Sbjct: 6   KRMKELREGKGLTQQALADALNIGKSAIALYETEKRQPDPDTLKKLAQFFNCSVDYLLGL 65

Query: 77  SPT------VCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           S        V S + +   +VM F+   +  +L +    I+      K+IE
Sbjct: 66  SNECQGTIFVHSALPALPVDVMSFVLDKNNHKLIKVIQSINAQGYSNKVIE 116


>gi|332976057|gb|EGK12927.1| DNA-binding protein [Desmospora sp. 8437]
          Length = 184

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 21/118 (17%), Positives = 52/118 (44%), Gaps = 6/118 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + I+  R+  G + + L E  G++   + + E+G + +  + L+ I++ L  PI+ FF+ 
Sbjct: 11  QEIKRLRLEQGYTLKVLSERTGLSVSFLSQVERGSSSLAITSLKKIADALGVPITRFFEA 70

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
                  + +EE        +         + +++     + +  L+ ++   EK+ R
Sbjct: 71  EFNHNYLLKAEEQKPFRLEGSS------AVYTRLNGEFGGRSLEPLLVTLAPKEKQAR 122


>gi|322377260|ref|ZP_08051752.1| prophage Sa05, DNA-binding protein [Streptococcus sp. M334]
 gi|321281973|gb|EFX58981.1| prophage Sa05, DNA-binding protein [Streptococcus sp. M334]
          Length = 194

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 9/57 (15%), Positives = 30/57 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R    +SQ+++ + + I+ + + ++E G +++   + Q +++     I + 
Sbjct: 2  NRLKELRKEKKLSQKEIAKEMSISEKTLSRWENGESQIKPEKAQMLADFFGVHIGYL 58


>gi|169828330|ref|YP_001698488.1| transcriptional regulator [Lysinibacillus sphaericus C3-41]
 gi|168992818|gb|ACA40358.1| transcriptional regulator [Lysinibacillus sphaericus C3-41]
          Length = 148

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G  IR+ R    +SQE+L E + ++ Q + K+E G       + + + ++ +  I 
Sbjct: 5  IGMNIRVLRKRHKLSQEQLAEKVNVSRQTIAKWENGEAIPDIYKFKMLGDIFQVTID 61


>gi|59712644|ref|YP_205420.1| Cro/Cl family transcriptional regulator [Vibrio fischeri ES114]
 gi|59480745|gb|AAW86532.1| transcriptional repressor, Cro/CI family [Vibrio fischeri ES114]
          Length = 215

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 14/85 (16%), Positives = 33/85 (38%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R    ++Q  + +  G++   V  +E+  N+     L  ++  L+  +++   
Sbjct: 5   GSRLFHLRKARKLTQSSIAKASGVSRSSVTLWEQDTNKPKGESLMALASFLKCDVNWLLT 64

Query: 76  VSPTVCSDISSEENNVMDFISTPDG 100
              +       +E  V+     P G
Sbjct: 65  GQGSPEPAKQEQETTVVSVALKPQG 89


>gi|295835925|ref|ZP_06822858.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. SPB74]
 gi|197698390|gb|EDY45323.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          sp. SPB74]
          Length = 509

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G SQ +L E L  +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWSQAQLAEALATSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|182418649|ref|ZP_02949926.1| DNA-binding protein [Clostridium butyricum 5521]
 gi|237668530|ref|ZP_04528514.1| DNA-binding protein [Clostridium butyricum E4 str. BoNT E BL5262]
 gi|182377511|gb|EDT75065.1| DNA-binding protein [Clostridium butyricum 5521]
 gi|237656878|gb|EEP54434.1| DNA-binding protein [Clostridium butyricum E4 str. BoNT E BL5262]
          Length = 179

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 33/68 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR+ RM   ++QE+L     ++   + + E  +     + L  I E+L + +  
Sbjct: 1  MQIGEKIRILRMEKQLTQEELANRCELSKGFISQVENDLTSPSIATLIDILEILGTNLPD 60

Query: 73 FFDVSPTV 80
          FF  +   
Sbjct: 61 FFSDTKEE 68


>gi|169349918|ref|ZP_02866856.1| hypothetical protein CLOSPI_00658 [Clostridium spiroforme DSM
          1552]
 gi|169293486|gb|EDS75619.1| hypothetical protein CLOSPI_00658 [Clostridium spiroforme DSM
          1552]
          Length = 194

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 31/77 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +I+  R    +SQE+L   + ++ Q +  +E   +      L  +S +    +  
Sbjct: 1  MDIGSQIKKFREQQNISQEELALKIFVSRQTISNWETNKSCPDVKSLITLSNIFNVSLDD 60

Query: 73 FFDVSPTVCSDISSEEN 89
          F         +I  +  
Sbjct: 61 FIRGDIKEMREIIEKST 77


>gi|206974889|ref|ZP_03235804.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|222095479|ref|YP_002529539.1| hypothetical protein BCQ_1819 [Bacillus cereus Q1]
 gi|206746908|gb|EDZ58300.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|221239537|gb|ACM12247.1| conserved hypothetical protein [Bacillus cereus Q1]
          Length = 146

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G++++  R   G SQE + + +G+T Q V K+E   +      L  +SE+    + 
Sbjct: 1  MSLGEQLKKLRESKGFSQEDVAKKIGVTRQAVYKWENDKSCPDIDNLILLSEMYNVTLD 59


>gi|153955543|ref|YP_001396308.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219855938|ref|YP_002473060.1| hypothetical protein CKR_2595 [Clostridium kluyveri NBRC 12016]
 gi|146348401|gb|EDK34937.1| Predicted transcriptional regulator [Clostridium kluyveri DSM
          555]
 gi|219569662|dbj|BAH07646.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 109

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 37/71 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GKRIR  R+ L ++QEKL E + ++   V + E+G   V    L  I++ L   + +
Sbjct: 4  IALGKRIREERLKLRLTQEKLAEDVDVSSSYVGQIERGEKSVTLDTLIRITKRLGVTVDY 63

Query: 73 FFDVSPTVCSD 83
              S  + +D
Sbjct: 64 LLKDSVNMEND 74


>gi|159039135|ref|YP_001538388.1| XRE family transcriptional regulator [Salinispora arenicola
           CNS-205]
 gi|157917970|gb|ABV99397.1| transcriptional regulator, XRE family [Salinispora arenicola
           CNS-205]
          Length = 407

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 21/97 (21%), Positives = 40/97 (41%), Gaps = 3/97 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPISFF 73
           +G+R+   R    MSQ+   + LG +   V K E+GV R+   S +  I++ L   +   
Sbjct: 6   IGRRVAYWRGRRKMSQQVFADRLGKSKSWVDKVERGVRRLDKFSVIYEIADTLRVDVQLL 65

Query: 74  FDVSPTVCSDISS--EENNVMDFISTPDGLQLNRYFI 108
               P   SD  +  + + V +  +  +       + 
Sbjct: 66  LGKDPERRSDALNCIDPSEVQEIRAALERYDAMSAYF 102


>gi|227552156|ref|ZP_03982205.1| transcriptional regulator [Enterococcus faecium TX1330]
 gi|227178738|gb|EEI59710.1| transcriptional regulator [Enterococcus faecium TX1330]
          Length = 213

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 19/91 (20%), Positives = 43/91 (47%), Gaps = 1/91 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+++R  R+   ++QE+LGE   ++   + + E+ ++         I EVL      
Sbjct: 34  MEIGEKLRNLRIQKNLTQEELGERTDLSKGYISQLERDLSSPSMETFFSILEVLGVTPEE 93

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
           FF         + S+E++ + +    +G +L
Sbjct: 94  FFHQEAANLQVVYSKEDHTV-YFDEENGYEL 123


>gi|32479253|gb|AAP83795.1| transcriptional regulator PlcR [Bacillus cereus]
          Length = 285

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSDNI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|312126603|ref|YP_003991477.1| XRE family transcriptional regulator [Caldicellulosiruptor
          hydrothermalis 108]
 gi|311776622|gb|ADQ06108.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          hydrothermalis 108]
          Length = 119

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 3/80 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
           RIR  R+  G+SQE+LG+ L ++ + +  YE G        L  +++     I +    
Sbjct: 3  NRIRELRLERGLSQEELGKVLNVSGRTIGHYENGSREPTPEALNKLADFFGVTIDYLLCR 62

Query: 75 -DVSPTVCSDISSEENNVMD 93
           DV  T   D   +     D
Sbjct: 63 TDVRSTEKQDTKDKLQTPAD 82


>gi|302186628|ref|ZP_07263301.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. syringae 642]
          Length = 189

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 22/107 (20%), Positives = 39/107 (36%), Gaps = 2/107 (1%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            N + P PV  +V + +R  R    +SQ  L E  G++ + +   E G   V  + L  +
Sbjct: 4   ENSQRP-PVLQHVSQNVRRLRNSADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRV 62

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           +E L+   S              +E         +   + L R   +
Sbjct: 63  AEALQVAFSDLIQAPENRDYSRINELAWAGTIAGSK-AVLLARAVAR 108


>gi|293365764|ref|ZP_06612471.1| xre family transcriptional regulator [Streptococcus oralis ATCC
          35037]
 gi|291315767|gb|EFE56213.1| xre family transcriptional regulator [Streptococcus oralis ATCC
          35037]
          Length = 71

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 12/64 (18%), Positives = 27/64 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RIR  R    +SQ+ L + +G+    +  +E G +++     ++++E     I +    
Sbjct: 7  NRIRELRKKARLSQQALADQIGVFRNTISNWETGYSQISLENAKNVAEYFGVTIDYLLGS 66

Query: 77 SPTV 80
              
Sbjct: 67 ESDQ 70


>gi|303229090|ref|ZP_07315894.1| helix-turn-helix protein [Veillonella atypica ACS-134-V-Col7a]
 gi|302516243|gb|EFL58181.1| helix-turn-helix protein [Veillonella atypica ACS-134-V-Col7a]
          Length = 216

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 34/76 (44%), Gaps = 1/76 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           IR  R +  +SQ+++ + LG  +F  +QK+E G+      +L  ++++L   I      
Sbjct: 6  NIRYFRKLRNLSQDEIAKRLGYKSFTTIQKWETGMAEPPVGKLYELADILHVSIMDLLKD 65

Query: 77 SPTVCSDISSEENNVM 92
          +      ++   N   
Sbjct: 66 NLDAEEALTVSTNFYH 81


>gi|260462394|ref|ZP_05810602.1| transcriptional regulator, XRE family [Mesorhizobium opportunistum
           WSM2075]
 gi|259031888|gb|EEW33156.1| transcriptional regulator, XRE family [Mesorhizobium opportunistum
           WSM2075]
          Length = 205

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 20/94 (21%), Positives = 37/94 (39%), Gaps = 3/94 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R++L R   G++ + L      +   + K E G        L  + EVL + I + F
Sbjct: 24  LGTRLKLSRQTRGLTLKALATSANCSESLLSKVENGKVSPSLPMLHRLVEVLGTNIGWMF 83

Query: 75  DVSPTVCS---DISSEENNVMDFISTPDGLQLNR 105
           + S           +     +D +   +G+ L R
Sbjct: 84  EESDGEEGIVFRAGARPLIALDPLRRGEGISLER 117


>gi|228988577|ref|ZP_04148664.1| hypothetical protein bthur0001_52320 [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
 gi|228771194|gb|EEM19673.1| hypothetical protein bthur0001_52320 [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
          Length = 285

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|229176026|ref|ZP_04303521.1| hypothetical protein bcere0006_50950 [Bacillus cereus MM3]
 gi|228607458|gb|EEK64785.1| hypothetical protein bcere0006_50950 [Bacillus cereus MM3]
          Length = 285

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSDNI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|229196060|ref|ZP_04322812.1| hypothetical protein bcere0001_16220 [Bacillus cereus m1293]
 gi|228587442|gb|EEK45508.1| hypothetical protein bcere0001_16220 [Bacillus cereus m1293]
          Length = 153

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G++++  R   G SQE + + +G+T Q V K+E   +      L  +SE+    + 
Sbjct: 8  MSLGEQLKKLRESKGFSQEDVAKKIGVTRQAVYKWENDKSCPDIDNLILLSEMYNVTLD 66


>gi|255280221|ref|ZP_05344776.1| putative helix-turn-helix protein [Bryantella formatexigens DSM
          14469]
 gi|255269312|gb|EET62517.1| putative helix-turn-helix protein [Bryantella formatexigens DSM
          14469]
          Length = 330

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 6/76 (7%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I   R   G SQE+L + L ++ Q V K+E G +     +L  +S++    + +
Sbjct: 1  MILAEKIMDLRKKNGWSQEELAQQLRVSRQSVSKWEGGQSVPDLDKLLALSQIFGVTLDY 60

Query: 73 FFDVSPTVCSDISSEE 88
                 V  +ISSEE
Sbjct: 61 L------VKDEISSEE 70


>gi|152988924|ref|YP_001351041.1| putative transcriptional regulator [Pseudomonas aeruginosa PA7]
 gi|150964082|gb|ABR86107.1| probable transcriptional regulator [Pseudomonas aeruginosa PA7]
          Length = 199

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 28/73 (38%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G RIR  R   G++   L     +T   + + E+ +       L +I+  L   I +F
Sbjct: 19 FLGTRIRGLRKRRGLTLAALAAQSELTAGYISQLERNLAYPSIPALFNIARSLGVTIQWF 78

Query: 74 FDVSPTVCSDISS 86
          F     V    + 
Sbjct: 79 FASEAAVDPADAG 91


>gi|319945875|ref|ZP_08020125.1| cro/CI family transcriptional regulator [Streptococcus australis
          ATCC 700641]
 gi|319747940|gb|EFW00184.1| cro/CI family transcriptional regulator [Streptococcus australis
          ATCC 700641]
          Length = 116

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 31/71 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +   +R++  R    ++Q  + E LGI+      +E+G  +     L  I++VL   I +
Sbjct: 1  MEFSERLKNLRKQAHLTQVDVAEKLGISQPAYASWERGAKKPTQDNLVKIAQVLNVSIDY 60

Query: 73 FFDVSPTVCSD 83
            D S     +
Sbjct: 61 LVDNSDEHLKE 71


>gi|317501814|ref|ZP_07960000.1| hypothetical protein HMPREF1026_01944 [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|331088665|ref|ZP_08337575.1| hypothetical protein HMPREF1025_01158 [Lachnospiraceae bacterium
           3_1_46FAA]
 gi|316896847|gb|EFV18932.1| hypothetical protein HMPREF1026_01944 [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|330407188|gb|EGG86691.1| hypothetical protein HMPREF1025_01158 [Lachnospiraceae bacterium
           3_1_46FAA]
          Length = 429

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/85 (20%), Positives = 37/85 (43%), Gaps = 5/85 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G+ I  +R   GM+Q+++ E LG+T + V K+E          L  + + L   +     
Sbjct: 48  GEFIARKRKERGMTQKEMAELLGVTNKAVSKWETSQGMPDIGILPELGKALGVTVDEILM 107

Query: 75  ----DVSPTVCSDISSEENNVMDFI 95
               +      + +S E+  +++ +
Sbjct: 108 GEQIEQEKRAETAVSDEDKKLLEIV 132


>gi|302380564|ref|ZP_07269029.1| helix-turn-helix protein [Finegoldia magna ACS-171-V-Col3]
 gi|303234052|ref|ZP_07320701.1| helix-turn-helix protein [Finegoldia magna BVS033A4]
 gi|302311507|gb|EFK93523.1| helix-turn-helix protein [Finegoldia magna ACS-171-V-Col3]
 gi|302494977|gb|EFL54734.1| helix-turn-helix protein [Finegoldia magna BVS033A4]
          Length = 179

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 41/86 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +IR  R+ LG++QE+L E   +T   + + E+ +       L ++   L + ++ 
Sbjct: 1  MEIGDKIRSLRLKLGLTQEELAERSDLTKGFISQLERDLTSPSVDSLNYVLNALGTDMAT 60

Query: 73 FFDVSPTVCSDISSEENNVMDFISTP 98
          FF    +V    + E+    + +S  
Sbjct: 61 FFADDLSVKEIFTKEDYQSSEDVSMK 86


>gi|296159361|ref|ZP_06842186.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
 gi|295890345|gb|EFG70138.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
          Length = 191

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 27/136 (19%), Positives = 52/136 (38%), Gaps = 7/136 (5%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV        V +++G +IR  R  L  + +++ +  GI+   + + E+G      + L 
Sbjct: 1   MVLPLNNKAHVAVSIGSKIRALRQRLKRTLDEVAKTAGISKPFLSQVERGHATPSITSLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI- 119
            I+  L   + +F D      S     +     F  +         F ++ ++ V  K+ 
Sbjct: 61  GIARALGVTVQYFVDTPTEDKSVRRGSDLKYFGFDGS------ANLFGRLTNLSVGSKLE 114

Query: 120 IELVRSIVSSEKKYRT 135
           + LVR  V       T
Sbjct: 115 VILVRMPVGQNPSEVT 130


>gi|261345424|ref|ZP_05973068.1| peptidase, S24 family [Providencia rustigianii DSM 4541]
 gi|282566470|gb|EFB72005.1| peptidase, S24 family [Providencia rustigianii DSM 4541]
          Length = 230

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 14/75 (18%), Positives = 37/75 (49%), Gaps = 1/75 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ +R++ +R++L ++Q +L E +G T Q +++ E G  +     L  +++ L   + +
Sbjct: 1  MSISERVKNKRILLNLTQAELAETVGTTQQSIEQLESGKTK-RPRFLPELAKALSCSVDW 59

Query: 73 FFDVSPTVCSDISSE 87
                     +  E
Sbjct: 60 LVTGRENNNDSLPPE 74


>gi|169824259|ref|YP_001691870.1| Cro/CI family transcriptional regulator [Finegoldia magna ATCC
          29328]
 gi|167831064|dbj|BAG07980.1| putative transcriptional regulator Cro/CI family [Finegoldia
          magna ATCC 29328]
          Length = 179

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 41/86 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +IR  R+ LG++QE+L E   +T   + + E+ +       L ++   L + ++ 
Sbjct: 1  MEIGDKIRSLRLKLGLTQEELAERSDLTKGFISQLERDLTSPSVDSLNYVLNALGTDMAT 60

Query: 73 FFDVSPTVCSDISSEENNVMDFISTP 98
          FF    +V    + E+    + +S  
Sbjct: 61 FFADDLSVKEIFTKEDYQSSEDVSMK 86


>gi|89890100|ref|ZP_01201611.1| conserved hypothetical protein [Flavobacteria bacterium BBFL7]
 gi|89518373|gb|EAS21029.1| conserved hypothetical protein [Flavobacteria bacterium BBFL7]
          Length = 193

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 29/70 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R+  GMSQE+L     ++ + +Q+ E   N      LQ I E  +  I    
Sbjct: 7  VGTKIKEIRLKKGMSQEELATQSQVSLRTIQRIENNENEPRGKTLQLICETCDINIEELL 66

Query: 75 DVSPTVCSDI 84
          D         
Sbjct: 67 DYGKHEDHQF 76


>gi|27658148|gb|AAO21102.1|U49456_5 unknown [Carnobacterium maltaromaticum]
          Length = 301

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 21/100 (21%), Positives = 42/100 (42%), Gaps = 6/100 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ I+ +R+  G++Q +L E +  T   +   E G +    S L  ++E L    S  +
Sbjct: 5   IGEEIKSKRLKRGLTQSQLAENI-CTQATISNLENGASVPTISILLKLAERLNIEFSNIY 63

Query: 75  DVSPTVCSDISSEENNVMDFIST---PDGLQLNRYFIQID 111
           D +    +  +     V +  S     + L+L     +I 
Sbjct: 64  DYTLDNENKNNPIFKEVRELCSKVKHKEALELLE--TRIK 101


>gi|332687092|ref|YP_004456866.1| Cro/CI family transcriptional regulator [Melissococcus plutonius
          ATCC 35311]
 gi|332371101|dbj|BAK22057.1| transcriptional regulator, Cro/CI family [Melissococcus plutonius
          ATCC 35311]
          Length = 89

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 32/72 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I + R +  M+Q++L   +G++ Q + + E+            I++V    I   F    
Sbjct: 13 IHVYRAMKRMTQQELANRVGVSRQTIIQLERNKYNPSLLLAHDIADVFGVTIEDIFTFKK 72

Query: 79 TVCSDISSEENN 90
             ++ S+E+ N
Sbjct: 73 LTDNENSTEQMN 84


>gi|255974976|ref|ZP_05425562.1| predicted protein [Enterococcus faecalis T2]
 gi|255967848|gb|EET98470.1| predicted protein [Enterococcus faecalis T2]
          Length = 239

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 36/78 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  +++RR  LG++Q ++ E L +T Q +  +E   +      L  +S + E  +  
Sbjct: 1  MNIGNSLKMRRNELGLTQSEVAEKLYVTRQTISNWENNKSYPNIDCLIELSILYEMTLDR 60

Query: 73 FFDVSPTVCSDISSEENN 90
                T+   +S +   
Sbjct: 61 LLKEDNTMVEKLSKDIRE 78


>gi|240169850|ref|ZP_04748509.1| transcriptional regulatory protein [Mycobacterium kansasii ATCC
           12478]
          Length = 474

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 26/127 (20%), Positives = 47/127 (37%), Gaps = 6/127 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   FVGSRVRQLRSERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCSDISSEENNVMDF---ISTPDGLQLNRYFIQIDDVKV---RQKIIELVRSIV 127
                T       E     D    +   +  ++      +    V   R+  I   +   
Sbjct: 65  ASQDDTRLVAELREVTLDRDLDIDVDPTEVAEMVGAHPALARAMVNLHRRYRITTAQLAA 124

Query: 128 SSEKKYR 134
           ++E+++ 
Sbjct: 125 ATEERFS 131


>gi|228924097|ref|ZP_04087373.1| hypothetical protein bthur0011_50700 [Bacillus thuringiensis
          serovar huazhongensis BGSC 4BD1]
 gi|228835587|gb|EEM80952.1| hypothetical protein bthur0011_50700 [Bacillus thuringiensis
          serovar huazhongensis BGSC 4BD1]
          Length = 285

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSDNI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|153949547|ref|YP_001402678.1| DNA binding protein [Yersinia pseudotuberculosis IP 31758]
 gi|152961042|gb|ABS48503.1| DNA binding protein [Yersinia pseudotuberculosis IP 31758]
          Length = 118

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 27/111 (24%), Positives = 54/111 (48%), Gaps = 7/111 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +R++  R    +SQEKLG   GI       +V +YEKG +      ++  + +L  P  +
Sbjct: 4   ERLKSARKTAKLSQEKLGVMAGIDEATARSRVSQYEKGFHTPSFELVKKFAMILNVPECY 63

Query: 73  FFDVSPTVCSDISSE-ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           F+ V     + +      + + F+  PD  +L +   ++ D ++++ I+EL
Sbjct: 64  FYIVDDVFAAAVLQMYHTHQVPFLQHPDYEKLKQA-EKLVD-QLQKLIVEL 112


>gi|42525598|ref|NP_970696.1| DNA-binding protein [Treponema denticola ATCC 35405]
 gi|41815609|gb|AAS10577.1| DNA-binding protein [Treponema denticola ATCC 35405]
          Length = 191

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 33/63 (52%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +DI++G +IR  R +  +S +++ + LG+++  +   E     V  + LQ I+   +  +
Sbjct: 1  MDISIGSKIRALRKVRSISLQQMAKDLGMSYSYLSGLENDKYSVSITNLQKIASYFKVNL 60

Query: 71 SFF 73
            F
Sbjct: 61 VSF 63


>gi|78222121|ref|YP_383868.1| XRE family transcriptional regulator [Geobacter metallireducens
           GS-15]
 gi|78193376|gb|ABB31143.1| transcriptional regulator, XRE family [Geobacter metallireducens
           GS-15]
          Length = 181

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 20/119 (16%), Positives = 44/119 (36%), Gaps = 6/119 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+R++  RMI  ++QE+L     +T   + + E        + L+ I +V    +  
Sbjct: 1   MKIGERLKRLRMINSLTQEELANRADLTKGYISQLENDATSPSIATLKDILDVFGVSMQE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           FF            +             ++L      +   + R+    LV ++   E+
Sbjct: 61  FFSDPIGEDVVYGKDARVQPSADDAAVTVELL-----VPGAQNREMDPALV-TLAPGEE 113


>gi|134287468|ref|YP_001109635.1| putative phage repressor [Burkholderia vietnamiensis G4]
 gi|134131890|gb|ABO60584.1| putative phage repressor [Burkholderia vietnamiensis G4]
          Length = 235

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 22/87 (25%), Positives = 41/87 (47%), Gaps = 3/87 (3%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +  P D +VG R+  RR  LG+SQ++L   +G+T   +   EKG +    S +  +++ L
Sbjct: 1  MAAPAD-SVGARVSARRTELGISQKELARRVGLTQPTISALEKGKSNTSGS-IASLAKAL 58

Query: 67 ESPISFFFDVSPTVCSDISSEENNVMD 93
             +  + +         + E   V+D
Sbjct: 59 GV-VPLWLETGLGDKEPGAREYRRVLD 84


>gi|291540994|emb|CBL14105.1| Helix-turn-helix [Roseburia intestinalis XB6B4]
          Length = 115

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 29/101 (28%), Positives = 45/101 (44%), Gaps = 4/101 (3%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           + +K      D   G RI  RR  +G+SQ++L   +GI  Q +   E G +      L +
Sbjct: 1   MSSKAQTREKDYERGLRIADRRKAMGLSQDELAHRVGIGRQALSAIENGGD-FKTRTLDN 59

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
           ++ VL   + F         S++ SE    MD +S  D LQ
Sbjct: 60  LAIVLGVSVDFIMYGKNEENSELLSEA---MDVLSDMDELQ 97


>gi|288870406|ref|ZP_06113975.2| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium hathewayi DSM 13479]
 gi|288867355|gb|EFC99653.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium hathewayi DSM 13479]
          Length = 100

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 21/100 (21%), Positives = 46/100 (46%), Gaps = 9/100 (9%)

Query: 24  MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF---DVSPTV 80
           MI+G++QE+L E +G  ++  Q  E+G   +    +  I+  L   + +     +   T 
Sbjct: 1   MIMGLTQEELAEKIGRAYKYCQDIERGTCGMSIDTMLSIAACLNISLDYLIYGNNEDSTE 60

Query: 81  CSDISSEENNVMDFIST------PDGLQLNRYFIQIDDVK 114
            +D+ +E+  V++ +           L L + F++  D +
Sbjct: 61  FADLDTEQQAVIEILGNCSHKKKRYALDLLKLFMKACDER 100


>gi|149179178|ref|ZP_01857746.1| transcriptional regulator, XRE family protein [Planctomyces maris
           DSM 8797]
 gi|148841996|gb|EDL56391.1| transcriptional regulator, XRE family protein [Planctomyces maris
           DSM 8797]
          Length = 160

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 27/57 (47%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            VGK+I   R    MSQE L E  G+    + + E G +    + L+ I+  L+  I
Sbjct: 97  FVGKKIHRYRKAAKMSQEVLSEKTGLPQSHISRLESGKHSPSNATLKKIAAALDIEI 153


>gi|55419793|gb|AAV51967.1| PlcR [Bacillus thuringiensis]
          Length = 287

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSDNV-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|261419589|ref|YP_003253271.1| XRE family transcriptional regulator [Geobacillus sp. Y412MC61]
 gi|297530435|ref|YP_003671710.1| XRE family transcriptional regulator [Geobacillus sp. C56-T3]
 gi|319766405|ref|YP_004131906.1| helix-turn-helix domain protein [Geobacillus sp. Y412MC52]
 gi|261376046|gb|ACX78789.1| transcriptional regulator, XRE family [Geobacillus sp. Y412MC61]
 gi|297253687|gb|ADI27133.1| transcriptional regulator, XRE family [Geobacillus sp. C56-T3]
 gi|317111271|gb|ADU93763.1| helix-turn-helix domain protein [Geobacillus sp. Y412MC52]
          Length = 97

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 29/55 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +  +I+ RR  L MSQ++L + +G+    + + E G+       L  IS+ L +P
Sbjct: 26 IAAQIKTRRKQLNMSQQELADRIGVPKSTIGRIEAGLTSPRVETLFKISQALNTP 80


>gi|212711611|ref|ZP_03319739.1| hypothetical protein PROVALCAL_02686 [Providencia alcalifaciens
          DSM 30120]
 gi|212685713|gb|EEB45241.1| hypothetical protein PROVALCAL_02686 [Providencia alcalifaciens
          DSM 30120]
          Length = 90

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 32/65 (49%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+   +G +I+  R    +S +++   +GI   Q   YEKG +R+   +L+  +   E  
Sbjct: 6  PISEIIGHKIKFLRERKILSLQEVANAIGIDEIQQAHYEKGQSRIPIDKLKQYANYFEIN 65

Query: 70 ISFFF 74
          +  FF
Sbjct: 66 MVTFF 70


>gi|167769076|ref|ZP_02441129.1| hypothetical protein ANACOL_00399 [Anaerotruncus colihominis DSM
           17241]
 gi|167668716|gb|EDS12846.1| hypothetical protein ANACOL_00399 [Anaerotruncus colihominis DSM
           17241]
          Length = 184

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/93 (18%), Positives = 40/93 (43%), Gaps = 2/93 (2%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D+++G  ++  R    +S  +L E  G+T   + + E+ +     + L+ I+  LE P+ 
Sbjct: 3   DLDIGSVLQASRGEKKISLRQLAERTGLTASMLSQIERNLVNPSINTLKVIAAALEIPMY 62

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            FF       + +   +  +   +  P+   + 
Sbjct: 63  KFFMGGGADKNLVVRRDARIT--LGRPEAEDIV 93


>gi|146305877|ref|YP_001186342.1| cupin 2 domain-containing protein [Pseudomonas mendocina ymp]
 gi|145574078|gb|ABP83610.1| Cupin 2, conserved barrel domain protein [Pseudomonas mendocina
          ymp]
          Length = 188

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 33/69 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+R  R   G +  ++    G+T   + + E+ +  V  S L  I++ L+ P++  F
Sbjct: 6  IGERLRRYRRAAGKTLNQVAAEAGLTASFLSQAERNLTGVSLSSLASIAKALDVPLNVLF 65

Query: 75 DVSPTVCSD 83
          D       D
Sbjct: 66 DQPAQPQPD 74


>gi|219849656|ref|YP_002464089.1| helix-turn-helix domain-containing protein [Chloroflexus
          aggregans DSM 9485]
 gi|219543915|gb|ACL25653.1| helix-turn-helix domain protein [Chloroflexus aggregans DSM 9485]
          Length = 393

 Score = 57.1 bits (137), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 32/70 (45%), Gaps = 2/70 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +R+R  R+  GM+ + L +     +T Q + KYE G  +     LQ +++ L    + 
Sbjct: 2  INQRLRQLRLARGMTLDDLAQATNRIVTRQAISKYEHGQAQPSPIVLQRLAQALGVRPTD 61

Query: 73 FFDVSPTVCS 82
            D + T   
Sbjct: 62 LLDSTNTQIE 71


>gi|319782361|ref|YP_004141837.1| cupin [Mesorhizobium ciceri biovar biserrulae WSM1271]
 gi|317168249|gb|ADV11787.1| Cupin 2 conserved barrel domain protein [Mesorhizobium ciceri
           biovar biserrulae WSM1271]
          Length = 230

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 37/86 (43%), Gaps = 2/86 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R    ++  +LG+ +G T   + + E+G++    S L  I+  L   ++  F
Sbjct: 25  LGDRIKAYRTTRRLTLRQLGDMIGTTASFLSQLERGLSGANTSTLMLIANALGISLADLF 84

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
           D        + +        + T +G
Sbjct: 85  DECEVSPHAVLTRSERPA--LPTSEG 108


>gi|295134500|ref|YP_003585176.1| lambda repressor-like DNA-binding protein [Zunongwangia profunda
           SM-A87]
 gi|294982515|gb|ADF52980.1| lambda repressor-like DNA-binding protein [Zunongwangia profunda
           SM-A87]
          Length = 134

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 31/131 (23%), Positives = 58/131 (44%), Gaps = 4/131 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G++I   R + GM QE L E LGI+ Q V + E+  N +   +L  +++ L       
Sbjct: 8   HIGRKISRIRELRGMKQETLAEELGISQQSVSQMEQNEN-LEDEKLDKVAKALGVSKEAI 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
            + S     +I     +V +  +   G   N     I+      KI EL + ++ +EK+ 
Sbjct: 67  KNFSEEAILNIIGNTYHVDNSSAVNYGCTFNPIDKIIEQS---DKIEELYKKLLEAEKEK 123

Query: 134 RTIEEECMVEQ 144
               E  + ++
Sbjct: 124 VAYLERLLDKK 134


>gi|223985502|ref|ZP_03635559.1| hypothetical protein HOLDEFILI_02865 [Holdemania filiformis DSM
           12042]
 gi|223962519|gb|EEF66974.1| hypothetical protein HOLDEFILI_02865 [Holdemania filiformis DSM
           12042]
          Length = 254

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 20/106 (18%), Positives = 47/106 (44%), Gaps = 14/106 (13%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  +  +R    M+Q+ L + L I+ + V K+E+G+N    + L  +++ L+  ++   +
Sbjct: 10  GAFVADQRRQKQMTQKDLAQKLMISDKAVSKWERGLNMPDITLLVPLAQALDVSVAELLE 69

Query: 76  VSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
                 S+  S    +  V   I+  +           +D ++R++
Sbjct: 70  CRRISQSEPMSAHQVDKLVKKAITMSE-----------EDPQMRKR 104


>gi|49658870|emb|CAF28496.1| putative DNA binding protein [Yersinia pseudotuberculosis]
          Length = 118

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 4/72 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R    +SQEKLG   GI       +V +YEKG +      ++  + +L  P  +
Sbjct: 4  ERLKSARKTAKLSQEKLGVMAGIDEATARSRVSQYEKGFHTPSFELVKKFAMILNVPECY 63

Query: 73 FFDVSPTVCSDI 84
          F+ V     + +
Sbjct: 64 FYIVDDVFAAAV 75


>gi|319950565|ref|ZP_08024474.1| transcriptional regulator, XRE family protein [Dietzia cinnamea
          P4]
 gi|319435759|gb|EFV90970.1| transcriptional regulator, XRE family protein [Dietzia cinnamea
          P4]
          Length = 195

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 28/71 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R    M+  +L +  GI+   + + E G  R     L  ++      +    
Sbjct: 12 VGPRLRSLRRHRDMTLAELADKTGISPSTLSRLESGQRRPTLELLLPLARAHGVTLDHLV 71

Query: 75 DVSPTVCSDIS 85
          D  PT    I+
Sbjct: 72 DAPPTGDPRIA 82


>gi|307130525|ref|YP_003882541.1| MunI regulatory protein [Dickeya dadantii 3937]
 gi|306528054|gb|ADM97984.1| MunI regulatory protein [Dickeya dadantii 3937]
          Length = 102

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 34/75 (45%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M+ + K    +    G+R++  R+  G+SQE   +  G+    +   E+GV       + 
Sbjct: 27  MLISMKNTKDISARFGQRVKTLRLQAGLSQEAFADKCGLDRTYISGIERGVRNPTLEVIG 86

Query: 61  HISEVLESPISFFFD 75
            I++ LE  +   FD
Sbjct: 87  VIADRLEIQLQSLFD 101


>gi|291617399|ref|YP_003520141.1| YdcN [Pantoea ananatis LMG 20103]
 gi|291152429|gb|ADD77013.1| YdcN [Pantoea ananatis LMG 20103]
          Length = 181

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 24/131 (18%), Positives = 49/131 (37%), Gaps = 11/131 (8%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G  ++  R   G S     E  G++   + + E+G +    + L  I+     P SFF
Sbjct: 7   YLGDGLKQLRQANGWSLSLTAEKTGVSKAMLGQIERGESSPTVATLWKIATGFNVPFSFF 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
                    +++           TP    L  Y     D ++R  ++ +   + +  +  
Sbjct: 67  VHSGVHPAGEVTCYRQQNAQMAVTP----LLPY-----DARLRFDLLAV--ELAAGAQSD 115

Query: 134 RTIEEECMVEQ 144
            T  E+ ++EQ
Sbjct: 116 STAHEKGVIEQ 126


>gi|237739911|ref|ZP_04570392.1| transcriptional regulator [Fusobacterium sp. 2_1_31]
 gi|229423519|gb|EEO38566.1| transcriptional regulator [Fusobacterium sp. 2_1_31]
          Length = 184

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 12/73 (16%), Positives = 33/73 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R   GMS  +L   + ++   + + E+G        L+ I+  L+  +++
Sbjct: 1  MTIGEKLKKSRNDKGMSLRELATKVDLSASFLSQIEQGKASPSIENLKKIAHTLDVRVAY 60

Query: 73 FFDVSPTVCSDIS 85
            +       +I 
Sbjct: 61 LIEDEEDDIRNIE 73


>gi|163943038|ref|YP_001647922.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|83316500|gb|ABC02426.1| PlcR [Bacillus weihenstephanensis]
 gi|163865235|gb|ABY46294.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
          Length = 287

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSDNV-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|242373319|ref|ZP_04818893.1| transcriptional regulator [Staphylococcus epidermidis M23864:W1]
 gi|242349029|gb|EES40631.1| transcriptional regulator [Staphylococcus epidermidis M23864:W1]
          Length = 179

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 30/65 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G ++R  R I  ++QE+L E   ++   + + E             I EVL +  S 
Sbjct: 1  MDIGSKLRNLRRIKNLTQEELAERTDLSKGYISQIESQHASPSMETFLSILEVLGTSASD 60

Query: 73 FFDVS 77
          FF  S
Sbjct: 61 FFKES 65


>gi|228994068|ref|ZP_04153969.1| hypothetical protein bpmyx0001_47910 [Bacillus pseudomycoides DSM
          12442]
 gi|228765716|gb|EEM14369.1| hypothetical protein bpmyx0001_47910 [Bacillus pseudomycoides DSM
          12442]
          Length = 296

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  RM+ G++Q++L E +     +V + E G        LQ I+  L  PI  F+
Sbjct: 6  LGAEIKKIRMLRGLTQKQLSENI-CHQSEVSRIESGTVYPSMDILQGIAAKLRVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|229101946|ref|ZP_04232660.1| Helix-turn-helix repressor protein [Bacillus cereus Rock3-28]
 gi|228681529|gb|EEL35692.1| Helix-turn-helix repressor protein [Bacillus cereus Rock3-28]
          Length = 69

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 26/54 (48%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I + F
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIEYVF 60


>gi|270208615|ref|YP_003329386.1| hypothetical protein pSmeSM11ap088 [Sinorhizobium meliloti]
 gi|76880889|gb|ABA56059.1| hypothetical protein [Sinorhizobium meliloti]
          Length = 165

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 27/122 (22%), Positives = 51/122 (41%), Gaps = 12/122 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLE-S 68
           VD  +   ++  R   G+S+  L   LG++     +YE+G   R+   RL H+ E++   
Sbjct: 40  VDEKISAWLKKTREAKGISRADLAHLLGLSVSVYGRYERGSEARLSIPRLIHLCEIMGFM 99

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           P+   FD +P +      E  + +  +   + L             +R  +I L+R +  
Sbjct: 100 PLDVIFDTAPHLWGKTLEEAEDRLTLMKLVEEL---------PQDTMRD-LIRLLRRMTP 149

Query: 129 SE 130
            E
Sbjct: 150 GE 151


>gi|83316484|gb|ABC02417.1| PlcR [Bacillus weihenstephanensis]
          Length = 287

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSDNV-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|37650512|emb|CAE47445.1| PlcR protein [Bacillus thuringiensis serovar silo]
          Length = 285

 Score = 57.1 bits (137), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|227505625|ref|ZP_03935674.1| MerR family transcriptional regulator [Corynebacterium striatum
          ATCC 6940]
 gi|227197778|gb|EEI77826.1| MerR family transcriptional regulator [Corynebacterium striatum
          ATCC 6940]
          Length = 468

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 23/86 (26%), Positives = 33/86 (38%), Gaps = 6/86 (6%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+R  R    +SQ  L   LG++   V + E  V  +    L  I+EV     +FF
Sbjct: 5  YVGSRLRQLRRERDLSQASLAATLGLSASYVNQIEHDVRPLTVPVLLRITEVFGVDATFF 64

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
                   D S     + D I   +
Sbjct: 65 ------SRDDDSRLLAEIQDVIQDKE 84


>gi|283796605|ref|ZP_06345758.1| transcriptional regulator, Cro/CI family [Clostridium sp. M62/1]
 gi|291076025|gb|EFE13389.1| transcriptional regulator, Cro/CI family [Clostridium sp. M62/1]
          Length = 177

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 34/62 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +++  R++ G++QE+L +   ++   + + E+ +     + L  I + L + I  
Sbjct: 1  MSIGAKLKELRVLKGLTQEELADRAELSKGFISQVERDLTSPSIATLMDILQCLGTTIGE 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|224537568|ref|ZP_03678107.1| hypothetical protein BACCELL_02447 [Bacteroides cellulosilyticus
          DSM 14838]
 gi|224520810|gb|EEF89915.1| hypothetical protein BACCELL_02447 [Bacteroides cellulosilyticus
          DSM 14838]
          Length = 191

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 33/70 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    +S E+L E  G+  +Q+++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKSLRESQSISIEQLAERSGLAVEQIERIENNIDLPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCSDI 84
          D        I
Sbjct: 67 DDQDETGPAI 76


>gi|83590463|ref|YP_430472.1| XRE family transcriptional regulator [Moorella thermoacetica ATCC
           39073]
 gi|83573377|gb|ABC19929.1| transcriptional regulator, XRE family [Moorella thermoacetica ATCC
           39073]
          Length = 300

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 15/85 (17%), Positives = 38/85 (44%), Gaps = 1/85 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
           +G +++  R  +G++Q++L + +GI+   + + E    +   S L  ++E L     +F 
Sbjct: 140 LGAKLKRLREKIGLTQKELAQQVGISHSLIGQIETDRIQPSLSTLSSLAEALGVSTCYFL 199

Query: 74  FDVSPTVCSDISSEENNVMDFISTP 98
            +            E ++ + +  P
Sbjct: 200 MEDDEEDLYLDYRLEADIREALRRP 224



 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 36/66 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R   G+  E+L + L I    + + E+G  R+  + L+ ++ +L   +S+
Sbjct: 1  MTIGEKLKKLREDRGIPLEELADRLDIAPACMVEVEQGTRRLSLATLKEVAAILGVDVSY 60

Query: 73 FFDVSP 78
          F + + 
Sbjct: 61 FQEEND 66



 Score = 47.9 bits (113), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N  D +VG R+R  R   G++  +L    G++   + + E+  +      L+ ++ VLE 
Sbjct: 67  NKNDNSVGARLRRLREQKGITLSELSRRSGVSLAHISEIERSRSTASLKTLEKLAAVLEV 126

Query: 69  PIS 71
             S
Sbjct: 127 STS 129


>gi|15640206|ref|NP_229833.1| transcriptional regulator, putative [Vibrio cholerae O1 biovar El
          Tor str. N16961]
 gi|229509387|ref|ZP_04398870.1| hypothetical protein VCE_000787 [Vibrio cholerae B33]
 gi|229516334|ref|ZP_04405782.1| hypothetical protein VCC_000348 [Vibrio cholerae RC9]
 gi|229605680|ref|YP_002876384.1| hypothetical protein VCD_000628 [Vibrio cholerae MJ-1236]
 gi|229606525|ref|YP_002877173.1| hypothetical protein VCD_001434 [Vibrio cholerae MJ-1236]
 gi|254851305|ref|ZP_05240655.1| transcriptional regulator [Vibrio cholerae MO10]
 gi|9654580|gb|AAF93352.1| transcriptional regulator, putative [Vibrio cholerae O1 biovar El
          Tor str. N16961]
 gi|229346760|gb|EEO11730.1| hypothetical protein VCC_000348 [Vibrio cholerae RC9]
 gi|229353702|gb|EEO18639.1| hypothetical protein VCE_000787 [Vibrio cholerae B33]
 gi|229369180|gb|ACQ59603.1| hypothetical protein VCD_001434 [Vibrio cholerae MJ-1236]
 gi|229372166|gb|ACQ62588.1| hypothetical protein VCD_000628 [Vibrio cholerae MJ-1236]
 gi|254847010|gb|EET25424.1| transcriptional regulator [Vibrio cholerae MO10]
          Length = 102

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    +SQ+ LG  +G+       ++ +YEKG +      L+ I++ L  P+++F
Sbjct: 10 RLKEARKKAKLSQKALGVRIGMDESSASPRMNQYEKGKHTPDVQTLKLIADELGVPLNYF 69

Query: 74 FDVSPTVCS 82
          F        
Sbjct: 70 FCEDDESAE 78


>gi|323693566|ref|ZP_08107769.1| DNA-binding protein [Clostridium symbiosum WAL-14673]
 gi|323502374|gb|EGB18233.1| DNA-binding protein [Clostridium symbiosum WAL-14673]
          Length = 250

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 29/55 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++   R   G SQE+LG  +G+T Q V K+E G      ++L  +S + E  + 
Sbjct: 5  EQLMELRKQRGWSQEQLGAKIGVTRQTVSKWETGDTTPELAKLIELSSLFEISVD 59


>gi|323485059|ref|ZP_08090412.1| DNA-binding protein [Clostridium symbiosum WAL-14163]
 gi|323401615|gb|EGA93960.1| DNA-binding protein [Clostridium symbiosum WAL-14163]
          Length = 250

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 29/55 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++   R   G SQE+LG  +G+T Q V K+E G      ++L  +S + E  + 
Sbjct: 5  EQLMELRKQRGWSQEQLGAKIGVTRQTVSKWETGDTTPELAKLIELSSLFEISVD 59


>gi|221195296|ref|ZP_03568352.1| transcriptional regulator [Atopobium rimae ATCC 49626]
 gi|221185199|gb|EEE17590.1| transcriptional regulator [Atopobium rimae ATCC 49626]
          Length = 142

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 29/69 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + +   R     SQE+L + +G++ Q + KYE G +     + +H++ V    I      
Sbjct: 5  ENLVELRKYHDFSQEELADMIGVSRQTLSKYETGESLPDIEKCKHLANVFGVTIDDLISY 64

Query: 77 SPTVCSDIS 85
                ++ 
Sbjct: 65 DKKNEDNLG 73


>gi|145595679|ref|YP_001159976.1| helix-turn-helix domain-containing protein [Salinispora tropica
          CNB-440]
 gi|145305016|gb|ABP55598.1| helix-turn-helix domain protein [Salinispora tropica CNB-440]
          Length = 83

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 30/64 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  RI + R   G+S+ +L + LG+ +Q +   E+G  R        I+   E P+   F
Sbjct: 5  VHNRIAVLRAERGISRRQLADALGVHYQTIGYLERGEFRPSLHLALRIAAYFEVPVEVVF 64

Query: 75 DVSP 78
           + P
Sbjct: 65 SIEP 68


>gi|319936780|ref|ZP_08011192.1| XRE family Transcriptional regulator [Coprobacillus sp. 29_1]
 gi|319808048|gb|EFW04620.1| XRE family Transcriptional regulator [Coprobacillus sp. 29_1]
          Length = 191

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 32/62 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  I   R    ++Q++L   +GI+ + + K+E+G+     S L+ +SE+ +  I    
Sbjct: 6  VGDLIYRLRKEKQLTQKELANQIGISDKTISKWERGLGCPDVSLLKDLSEIFQINIEKIL 65

Query: 75 DV 76
          D 
Sbjct: 66 DG 67


>gi|307267664|ref|ZP_07549123.1| transcriptional regulator, XRE family [Thermoanaerobacter wiegelii
           Rt8.B1]
 gi|306917316|gb|EFN47631.1| transcriptional regulator, XRE family [Thermoanaerobacter wiegelii
           Rt8.B1]
          Length = 427

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 20/96 (20%), Positives = 45/96 (46%), Gaps = 7/96 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +I+  R+   +SQ +L     ++   + + E G       +L +++E LE P+S+FF
Sbjct: 5   IGDKIKALRLQKNLSQSELCGNF-MSRVVLSRIESGKALPSLEQLAYLAEKLEVPVSYFF 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
             S      +  + ++++        L L + + +I
Sbjct: 64  SDSTGEKYILFEKNSSLLK------DLFLAKDYYEI 93


>gi|289651209|ref|ZP_06482552.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           aesculi str. 2250]
          Length = 117

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 25/99 (25%), Positives = 41/99 (41%), Gaps = 4/99 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG +I+  R + GMSQ  L E +G     V  YE+G++  G  +L  IS   +      
Sbjct: 7   YVGAKIKALRKLSGMSQAALAEKIGCDAPLVGCYERGIHLPGVEQLIKISMAFDVAPGEL 66

Query: 74  F----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                DV  T    +     +    + +P+ L+    F+
Sbjct: 67  LPGGQDVLRTRLISLRQAIADKAIEVDSPESLEEILAFM 105


>gi|260589839|ref|ZP_05855752.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
          hansenii DSM 20583]
 gi|325662733|ref|ZP_08151327.1| hypothetical protein HMPREF0490_02067 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|260539646|gb|EEX20215.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
          hansenii DSM 20583]
 gi|325470970|gb|EGC74198.1| hypothetical protein HMPREF0490_02067 [Lachnospiraceae bacterium
          4_1_37FAA]
          Length = 143

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 31/58 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + VG++IR  R+  G +Q++L    G++   ++ YE G     + +L+ I+  L+   
Sbjct: 1  MTVGEKIRKFRIDQGYTQKELAIMSGLSESAIRNYELGNRFPSSEQLEKIANSLKISP 58


>gi|238923032|ref|YP_002936545.1| hypothetical protein EUBREC_0622 [Eubacterium rectale ATCC 33656]
 gi|238874704|gb|ACR74411.1| Hypothetical protein EUBREC_0622 [Eubacterium rectale ATCC 33656]
          Length = 147

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 31/58 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + VG++IR  R+  G +Q++L    G++   ++ YE G     + +L+ I+  L+   
Sbjct: 1  MTVGEKIRKFRIDQGYTQKELAIMSGLSESAIRNYELGNRFPSSEQLEKIANSLKISP 58


>gi|257063020|ref|YP_003142692.1| predicted transcriptional regulator [Slackia heliotrinireducens DSM
           20476]
 gi|256790673|gb|ACV21343.1| predicted transcriptional regulator [Slackia heliotrinireducens DSM
           20476]
          Length = 215

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 31/61 (50%), Gaps = 3/61 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE---KGVNRVGASRLQHISEVLESPISFFF 74
            ++  R + G++QE+L +  GI+ + +Q+YE   K VN+        I+ VL    S   
Sbjct: 151 NLKRLRKLSGLTQEQLAQLSGISVRTIQQYEQRRKDVNKASLETAVAIATVLHCSPSDLL 210

Query: 75  D 75
           +
Sbjct: 211 E 211


>gi|160879161|ref|YP_001558129.1| XRE family transcriptional regulator [Clostridium phytofermentans
           ISDg]
 gi|160427827|gb|ABX41390.1| transcriptional regulator, XRE family [Clostridium phytofermentans
           ISDg]
          Length = 370

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 31/153 (20%), Positives = 57/153 (37%), Gaps = 30/153 (19%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G++Q++L + LG+TFQ V K+E        + L  I++  +  +     + 
Sbjct: 8   KIAQLRKRKGVNQQELADFLGVTFQSVSKWETKTTLPDITLLPLIADYFQVSVDELLGLK 67

Query: 78  P--------------TVCSDISSEENNVMDFISTPDGLQ-LNRYFIQIDDV--------- 113
           P                  D +    N   F    D L  L R    I +          
Sbjct: 68  PIKDLQYMPRNTDNRENWKDRADVIENDRQFFWNEDYLNYLIREVWAIKEPIDIIEFCCC 127

Query: 114 --KVRQKIIELVRSIVSSEKKYRTIEEECMVEQ 144
              + ++I+ L+     +   Y  ++ EC+VE+
Sbjct: 128 DGDLGKRILPLL----PAGSTYTGVDSECLVEK 156


>gi|86742835|ref|YP_483235.1| XRE family transcriptional regulator [Frankia sp. CcI3]
 gi|86569697|gb|ABD13506.1| transcriptional regulator, XRE family [Frankia sp. CcI3]
          Length = 403

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 1/69 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
            +G R+   R+   M+Q +L E  G++   V K E+G  + +  S L  ++  L+ P +
Sbjct: 5  RALGDRVAQVRVRRSMTQTELAERAGVSTDLVTKLEQGQRDGIRISTLHSLARALDVPTA 64

Query: 72 FFFDVSPTV 80
           FF+V    
Sbjct: 65 TFFEVEQEE 73


>gi|206975897|ref|ZP_03236808.1| putative transcriptional regulator PlcR [Bacillus cereus
          H3081.97]
 gi|217962840|ref|YP_002341418.1| putative transcriptional regulator PlcR [Bacillus cereus AH187]
 gi|222098822|ref|YP_002532880.1| transcription activator [Bacillus cereus Q1]
 gi|229142093|ref|ZP_04270618.1| hypothetical protein bcere0013_51790 [Bacillus cereus BDRD-ST26]
 gi|37650600|emb|CAE46797.1| PlcR protein [Bacillus thuringiensis]
 gi|73697823|gb|AAZ81519.1| PlcR [Bacillus cereus]
 gi|206745991|gb|EDZ57387.1| putative transcriptional regulator PlcR [Bacillus cereus
          H3081.97]
 gi|217066150|gb|ACJ80400.1| putative transcriptional regulator PlcR [Bacillus cereus AH187]
 gi|221242881|gb|ACM15591.1| transcription activator [Bacillus cereus Q1]
 gi|226694165|gb|ACO72984.1| PlcR [Bacillus sp. 1N21]
 gi|228641382|gb|EEK97688.1| hypothetical protein bcere0013_51790 [Bacillus cereus BDRD-ST26]
 gi|324329300|gb|ADY24560.1| transcription activator [Bacillus thuringiensis serovar finitimus
          YBT-020]
          Length = 285

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|322436743|ref|YP_004218955.1| helix-turn-helix domain protein [Acidobacterium sp. MP5ACTX9]
 gi|321164470|gb|ADW70175.1| helix-turn-helix domain protein [Acidobacterium sp. MP5ACTX9]
          Length = 73

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 20/63 (31%), Positives = 28/63 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK IR  R   G SQE+L E  G+    V   E+G   VG   +  +++ L       F+
Sbjct: 11 GKSIRTLREERGYSQEELAERAGLHRNYVGGIERGERNVGLENIVKLAKALSVKSRDLFE 70

Query: 76 VSP 78
            P
Sbjct: 71 SLP 73


>gi|313906668|ref|ZP_07839986.1| plasmid maintenance system antidote protein, XRE family
           [Eubacterium cellulosolvens 6]
 gi|313468490|gb|EFR63874.1| plasmid maintenance system antidote protein, XRE family
           [Eubacterium cellulosolvens 6]
          Length = 107

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 39/97 (40%), Gaps = 6/97 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG RI+  R   G +QE+L   L +     +  YE     V A  L  +S +      + 
Sbjct: 4   VGGRIKKLRTDAGYTQEELAIELHLEGKSAISNYENNSRGVSAEMLTQLSRLFHVSADYI 63

Query: 74  FDV-SPTVCSDISSEENNVMDFI----STPDGLQLNR 105
            +  SP     I +E   +++ +    +    L+L R
Sbjct: 64  LNGDSPDNLDHIVNEAIEILNNLKTDKAKKSALELLR 100


>gi|295401783|ref|ZP_06811748.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
 gi|312112235|ref|YP_003990551.1| helix-turn-helix domain protein [Geobacillus sp. Y4.1MC1]
 gi|294976150|gb|EFG51763.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
 gi|311217336|gb|ADP75940.1| helix-turn-helix domain protein [Geobacillus sp. Y4.1MC1]
          Length = 97

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 29/55 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +  +I+ RR  L M+Q++L + +G+    + + E G+       L  IS+ L +P
Sbjct: 26 IAAQIKTRRKQLNMTQQELADRIGVPKSTIGRIEAGLTSPRVETLFKISQALNTP 80


>gi|229199476|ref|ZP_04326137.1| hypothetical protein bcere0001_49740 [Bacillus cereus m1293]
 gi|228583881|gb|EEK42038.1| hypothetical protein bcere0001_49740 [Bacillus cereus m1293]
          Length = 285

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|167032895|ref|YP_001668126.1| XRE family transcriptional regulator [Pseudomonas putida GB-1]
 gi|166859383|gb|ABY97790.1| transcriptional regulator, XRE family [Pseudomonas putida GB-1]
          Length = 104

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 27/71 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R + G++Q +L E  G   + + ++E          L   ++VL      FF
Sbjct: 6  LGFALRRYRKLAGLTQAQLAERTGFDPKTISRFETSTYTPSIDALMEFAQVLGVKPKDFF 65

Query: 75 DVSPTVCSDIS 85
                    +
Sbjct: 66 AEPDDEEEQRA 76


>gi|331086470|ref|ZP_08335549.1| hypothetical protein HMPREF0987_01852 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|330410528|gb|EGG89956.1| hypothetical protein HMPREF0987_01852 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 143

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 31/58 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + VG++IR  R+  G +Q++L    G++   ++ YE G     + +L+ I+  L+   
Sbjct: 1  MTVGEKIRKFRIDQGYTQKELAIMSGLSESAIRNYELGNRFPSSEQLEKIANSLKISP 58


>gi|294101545|ref|YP_003553403.1| transcriptional regulator, XRE family [Aminobacterium colombiense
          DSM 12261]
 gi|293616525|gb|ADE56679.1| transcriptional regulator, XRE family [Aminobacterium colombiense
          DSM 12261]
          Length = 123

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 32/77 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G RI+  R    ++Q+ L +   ++   +Q  E          L  +++ L+  I+ 
Sbjct: 1  MSLGIRIKTLRKAARLTQQALADKTDVSRIYIQALESNRRLPSMKLLSKLAQALDVEITD 60

Query: 73 FFDVSPTVCSDISSEEN 89
              +P+  S     E 
Sbjct: 61 LVKGTPSDESGRIHLEE 77


>gi|259047950|ref|ZP_05738351.1| conserved hypothetical protein [Granulicatella adiacens ATCC
          49175]
 gi|259035370|gb|EEW36625.1| conserved hypothetical protein [Granulicatella adiacens ATCC
          49175]
          Length = 166

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 28/67 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++I   R   G SQE L E + ++ Q + K+E G       ++  +S + +    +    
Sbjct: 6  EKIYNLRKEKGWSQETLAEQIKVSRQSISKWESGQAVPEIEKIIELSTIFQVTTDYLLLD 65

Query: 77 SPTVCSD 83
            T  S 
Sbjct: 66 ENTTKSQ 72


>gi|229193603|ref|ZP_04320547.1| hypothetical protein bcere0002_52470 [Bacillus cereus ATCC 10876]
 gi|228589908|gb|EEK47783.1| hypothetical protein bcere0002_52470 [Bacillus cereus ATCC 10876]
          Length = 285

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVLRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|225405526|ref|ZP_03760715.1| hypothetical protein CLOSTASPAR_04746 [Clostridium asparagiforme
          DSM 15981]
 gi|225042938|gb|EEG53184.1| hypothetical protein CLOSTASPAR_04746 [Clostridium asparagiforme
          DSM 15981]
          Length = 257

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 34/73 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +++   R   G+SQE+LG  +G+T Q V K+E G       +L  +S+  +  I      
Sbjct: 11 EQLIKLRKQKGLSQEQLGAAVGVTRQTVSKWELGDTTPELGKLVQLSDYFQLSIDELVGH 70

Query: 77 SPTVCSDISSEEN 89
          +     D + E N
Sbjct: 71 AAENDGDRTVELN 83


>gi|225570227|ref|ZP_03779252.1| hypothetical protein CLOHYLEM_06323 [Clostridium hylemonae DSM
          15053]
 gi|225161022|gb|EEG73641.1| hypothetical protein CLOHYLEM_06323 [Clostridium hylemonae DSM
          15053]
          Length = 195

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 31/77 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G RI+  R    +SQE+L   + ++ Q V  +E   +      L  +S V    +  
Sbjct: 1  MDIGLRIKKLREQQKISQEELALKIFVSRQTVSNWETNKSCPDVKSLIILSNVFNVSLDS 60

Query: 73 FFDVSPTVCSDISSEEN 89
          F         +I  +  
Sbjct: 61 FIKEDIKEMREIVEKAA 77


>gi|154501020|ref|ZP_02039058.1| hypothetical protein BACCAP_04707 [Bacteroides capillosus ATCC
           29799]
 gi|150270044|gb|EDM97563.1| hypothetical protein BACCAP_04707 [Bacteroides capillosus ATCC
           29799]
          Length = 114

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 27/119 (22%), Positives = 46/119 (38%), Gaps = 19/119 (15%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            N+G RI   R + G+SQ  L E   ++   +   E+G+  +    L  I+E L+ P   
Sbjct: 7   RNIGVRIHNLRKLRGLSQAALAERAELSTPYISHIERGMKLLSLPALLRIAEALDIPPGT 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
             +  P    +   E   ++D  S  +                RQ I +LV  + + E 
Sbjct: 67  LLN-DPNTPGNSHLEFAFLLDACSPVE----------------RQVIYDLV--LAAKES 106


>gi|30023380|ref|NP_835011.1| transcriptional activator plcR [Bacillus cereus ATCC 14579]
 gi|229130599|ref|ZP_04259555.1| hypothetical protein bcere0015_50320 [Bacillus cereus BDRD-Cer4]
 gi|296505774|ref|YP_003667474.1| transcriptional activator PlcR [Bacillus thuringiensis BMB171]
 gi|5305719|gb|AAD41788.1|AF132087_1 PlcR [Bacillus cereus ATCC 14579]
 gi|6759484|emb|CAB69810.1| positive transcriptional regulator PlcR [Bacillus cereus ATCC
          14579]
 gi|29898941|gb|AAP12212.1| Transcriptional activator plcR [Bacillus cereus ATCC 14579]
 gi|55419779|gb|AAV51960.1| PlcR [Bacillus weihenstephanensis]
 gi|228652938|gb|EEL08820.1| hypothetical protein bcere0015_50320 [Bacillus cereus BDRD-Cer4]
 gi|296326826|gb|ADH09754.1| transcriptional activator plcR [Bacillus thuringiensis BMB171]
          Length = 285

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSDNI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|328885628|emb|CCA58867.1| Transcriptional regulator, XRE family [Streptomyces venezuelae ATCC
           10712]
          Length = 476

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 24/128 (18%), Positives = 47/128 (36%), Gaps = 18/128 (14%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            ++R  R   GM+Q +L   LG++   + + E     + A  L  I+EV      FF + 
Sbjct: 13  AKLRRLRRERGMNQVELARALGLSTSYLNQIEHSQRPLTAPVLLRIAEVFGVDPEFFSEA 72

Query: 77  SPTVCS---DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL----------V 123
                +     +  +      I+  +   + R     D  +V + ++ L          V
Sbjct: 73  EEERLATDLRAALGDEACGAPIAQDEIADVAR-----DHPEVARALVTLHQRYRDASERV 127

Query: 124 RSIVSSEK 131
            ++ S E 
Sbjct: 128 AALASPED 135


>gi|229591296|ref|YP_002873415.1| putative transcriptional regulator [Pseudomonas fluorescens SBW25]
 gi|229363162|emb|CAY50204.1| putative transcriptional regulator [Pseudomonas fluorescens SBW25]
          Length = 191

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 22/117 (18%), Positives = 42/117 (35%), Gaps = 10/117 (8%)

Query: 5   KKIPN--PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           K+ P+   V  +V + +R  R    +SQ  L E  G++ + +   E G   V  S L  +
Sbjct: 7   KENPHRASVLQHVSQNVRRLRHAADLSQTALSEKSGVSRRMLVAIEAGEKNVSLSTLDRV 66

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +E L    S              +E     +   +   + L +          R+++
Sbjct: 67  AEALNVAFSDLIQAPDAPDHSRINELAWAGEIPGSK-AVLLAKA-------NARREV 115


>gi|238855117|ref|ZP_04645443.1| transcriptional regulator [Lactobacillus jensenii 269-3]
 gi|260664949|ref|ZP_05865800.1| predicted protein [Lactobacillus jensenii SJ-7A-US]
 gi|282934259|ref|ZP_06339534.1| transcriptional regulator [Lactobacillus jensenii 208-1]
 gi|313472503|ref|ZP_07812993.1| DNA-binding protein [Lactobacillus jensenii 1153]
 gi|238832257|gb|EEQ24568.1| transcriptional regulator [Lactobacillus jensenii 269-3]
 gi|239529936|gb|EEQ68937.1| DNA-binding protein [Lactobacillus jensenii 1153]
 gi|260561432|gb|EEX27405.1| predicted protein [Lactobacillus jensenii SJ-7A-US]
 gi|281301668|gb|EFA93937.1| transcriptional regulator [Lactobacillus jensenii 208-1]
          Length = 136

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 39/94 (41%), Gaps = 12/94 (12%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R    +SQE +   L I+ Q + K+E G       +L  +S++    + +    
Sbjct: 6   ERLKTLRESSNLSQEDVANKLKISRQSISKWELGDAVPDIGKLMELSKIYNVSLDYL--- 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
              V  D S +  N      T + L+  R   QI
Sbjct: 63  ---VGRDSSEKVKN------TKEALRKKRNASQI 87


>gi|259909801|ref|YP_002650157.1| putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
 gi|259909810|ref|YP_002650166.1| putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
 gi|224965423|emb|CAX56955.1| putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
 gi|224965432|emb|CAX56964.1| putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
          Length = 130

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G RI   R    ++Q +L E LGI  Q +  YE G  +V A+ L  ++++L   + 
Sbjct: 22 KQLGARIAQSRKEQQLTQTQLAEQLGIAQQTMAHYEGGKLKVSAALLPQLAQILNLSLD 80


>gi|182435303|ref|YP_001823022.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Streptomyces griseus subsp. griseus NBRC 13350]
 gi|326775942|ref|ZP_08235207.1| transcriptional regulator, XRE family [Streptomyces cf. griseus
          XylebKG-1]
 gi|178463819|dbj|BAG18339.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Streptomyces griseus subsp. griseus NBRC 13350]
 gi|326656275|gb|EGE41121.1| transcriptional regulator, XRE family [Streptomyces cf. griseus
          XylebKG-1]
          Length = 509

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 30/64 (46%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +GK IR  R   G +Q +L E L  +   V + E+G   +    +  I E L
Sbjct: 1  MSDDYLVRIGKLIRDARQHRGWTQTQLAEALATSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|163790911|ref|ZP_02185335.1| DNA-binding protein [Carnobacterium sp. AT7]
 gi|159873864|gb|EDP67944.1| DNA-binding protein [Carnobacterium sp. AT7]
          Length = 180

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 34/77 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R+   ++QE+L E   ++   + + E+ ++         I EVL      
Sbjct: 1  MEIGNQIKNLRIQKNLTQEELAERTNLSKGYISQVERDLSVPSMEVFFDILEVLGCSPKD 60

Query: 73 FFDVSPTVCSDISSEEN 89
          FFD        + +++ 
Sbjct: 61 FFDEKQEEQRVVYTKDE 77


>gi|229541873|ref|ZP_04430933.1| transcriptional regulator, XRE family [Bacillus coagulans 36D1]
 gi|229326293|gb|EEN91968.1| transcriptional regulator, XRE family [Bacillus coagulans 36D1]
          Length = 180

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 41/75 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I + K+IR  R+  G++ ++L E   +T   + + E+G + +  + L+ I++ L   IS+
Sbjct: 2  IEIHKKIRELRLQKGLTLKQLSEKTNLTIGFLSQVERGTSSLAITSLKKIADSLGVEISY 61

Query: 73 FFDVSPTVCSDISSE 87
          FF+ + T    +  E
Sbjct: 62 FFNPTITAHYAVKKE 76


>gi|72161782|ref|YP_289439.1| helix-hairpin-helix DNA-binding motif-containing protein
          [Thermobifida fusca YX]
 gi|71915514|gb|AAZ55416.1| helix-turn-helix motif [Thermobifida fusca YX]
          Length = 481

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 31/64 (48%), Gaps = 1/64 (1%)

Query: 8  PNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          P+ +D +  G+R+R  R    M+  +LGE +G    Q+   E G      S L  +++ L
Sbjct: 5  PSDLDLVTFGQRLRHLRRARNMTLAELGERVGRAPSQLSLLENGKREPKLSLLTALAKAL 64

Query: 67 ESPI 70
          +  +
Sbjct: 65 DVSV 68


>gi|69246897|ref|ZP_00604172.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|257879186|ref|ZP_05658839.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|257881995|ref|ZP_05661648.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,502]
 gi|257890016|ref|ZP_05669669.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,410]
 gi|258615585|ref|ZP_05713355.1| transcriptional regulator, xre family protein [Enterococcus
          faecium DO]
 gi|260560167|ref|ZP_05832344.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          C68]
 gi|293559524|ref|ZP_06676061.1| transcriptional regulator, xre family, putative [Enterococcus
          faecium E1162]
 gi|294621805|ref|ZP_06700963.1| transcriptional regulator, xre family, putative [Enterococcus
          faecium U0317]
 gi|314947447|ref|ZP_07850866.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|68195026|gb|EAN09490.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|257813414|gb|EEV42172.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|257817653|gb|EEV44981.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,502]
 gi|257826376|gb|EEV53002.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,410]
 gi|260073734|gb|EEW62059.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          C68]
 gi|291598588|gb|EFF29647.1| transcriptional regulator, xre family, putative [Enterococcus
          faecium U0317]
 gi|291606586|gb|EFF35983.1| transcriptional regulator, xre family, putative [Enterococcus
          faecium E1162]
 gi|313646105|gb|EFS10685.1| helix-turn-helix protein [Enterococcus faecium TX0082]
          Length = 221

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 5/81 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G++IR  R    ++Q++LGE +G++ + +  +E          L  +   L  PI F
Sbjct: 1  MNTGEKIRTYRRNCKLTQKELGEKIGVSDKTISSWENSRTMPDLEMLSLLHHTLGLPIDF 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
               P++ S   S E  + D
Sbjct: 61 -----PSIESATESIEPTLPD 76


>gi|307244113|ref|ZP_07526231.1| cupin domain protein [Peptostreptococcus stomatis DSM 17678]
 gi|306492484|gb|EFM64519.1| cupin domain protein [Peptostreptococcus stomatis DSM 17678]
          Length = 179

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 15/81 (18%), Positives = 39/81 (48%), Gaps = 2/81 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+++R  R    ++QE+L     ++   + + E  +     + L  I E+L + +  
Sbjct: 1  MEIGEKLRRLRTEKQLTQEELANRCELSKGFISQLENDLTSPSIATLIDILEILGTNLRD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  +  V   ++  E+++ +
Sbjct: 61 FF--ADEVNEKVTFAEDDMFE 79


>gi|295107703|emb|CBL05246.1| Helix-turn-helix. [Gordonibacter pamelaeae 7-10-1-b]
          Length = 143

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 40/96 (41%), Gaps = 12/96 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++I   R   G + E+  E LGI+   ++KYE G        +  I+  L    S 
Sbjct: 1   MKIGEKIHRIRKERGYTAEQFAEMLGISTVSLRKYEYGERTPKEPMITEIARRLGVNPS- 59

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                 ++ SD  ++ N+ +  +      +L   F 
Sbjct: 60  ------SLKSDWGNDANDAIHML-----FELEEAFC 84


>gi|268686373|ref|ZP_06153235.1| transcriptional regulator [Neisseria gonorrhoeae SK-93-1035]
 gi|268626657|gb|EEZ59057.1| transcriptional regulator [Neisseria gonorrhoeae SK-93-1035]
          Length = 138

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 27/122 (22%), Positives = 54/122 (44%), Gaps = 9/122 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GKR++  R+ LG++Q +  E  G + +   K+E+G NR  + +L   S++    I +   
Sbjct: 20  GKRLKEERIKLGLNQAEAAEKCGFSREMWGKWERGENRPSSEKLFSFSKI-GIDIDYVMH 78

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                 + + SE         + +  +L   F Q+     R+++ +     +  EKK +T
Sbjct: 79  GRRGETAAMPSES-------LSAEEKELLALFRQLGSGS-RKELADYAAFKLVVEKKAQT 130

Query: 136 IE 137
             
Sbjct: 131 AL 132


>gi|227115337|ref|ZP_03828993.1| hypothetical protein PcarbP_20370 [Pectobacterium carotovorum
          subsp. brasiliensis PBR1692]
          Length = 86

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 4/70 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R++  R+   ++QEKLG   GI       +V +YE G++R     +   ++VL  P  +
Sbjct: 4  ARLKTARLRAHLTQEKLGVLAGIEEETARSRVSQYEGGIHRPTFEMMCAFAKVLNVPECY 63

Query: 73 FFDVSPTVCS 82
          F+ V+     
Sbjct: 64 FYTVNDDFAE 73


>gi|37527342|ref|NP_930686.1| hypothetical protein plu3469 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36786776|emb|CAE15842.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 399

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 30/57 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R+   R   G+S+  LG  +  +   + K+E G +   A  L  +S++L  P+S+F
Sbjct: 11 ERLTQIREARGLSKINLGRLVDRSPSTITKWENGNHSPDAEVLHSLSQILNCPVSWF 67


>gi|294783001|ref|ZP_06748325.1| transcriptional regulator, MerR family [Fusobacterium sp.
          1_1_41FAA]
 gi|294479879|gb|EFG27656.1| transcriptional regulator, MerR family [Fusobacterium sp.
          1_1_41FAA]
          Length = 184

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 12/73 (16%), Positives = 33/73 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R   GMS  +L   + ++   + + E+G        L+ I+  L+  +++
Sbjct: 1  MTIGEKLKKSRNDKGMSLRELATKVDLSASFLSQIEQGKASPSIENLKKIAHTLDVRVAY 60

Query: 73 FFDVSPTVCSDIS 85
            +       +I 
Sbjct: 61 LIEDEEDDIRNIE 73


>gi|291523917|emb|CBK89504.1| Predicted transcriptional regulators [Eubacterium rectale DSM
          17629]
 gi|291528619|emb|CBK94205.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
          Length = 213

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 38/80 (47%), Gaps = 2/80 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R+   M+QE++ E LG++ Q +  +E   +      +  +S+  E+ + +  
Sbjct: 5  IGSKIKAARLKKKMTQEQVAELLGVSRQTISNWENEKSYPDIISVIKMSDYYEASLDYLL 64

Query: 75 DVSPTVCS--DISSEENNVM 92
               + +  D   E  NV+
Sbjct: 65 KGEQKMNTYYDYLEESTNVV 84


>gi|268609658|ref|ZP_06143385.1| HTH domain protein [Ruminococcus flavefaciens FD-1]
          Length = 298

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 22/104 (21%), Positives = 41/104 (39%), Gaps = 16/104 (15%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           K +  RR  LG++QE+L   L ++ Q V K+E          L  I+  L   +   F +
Sbjct: 9   KNLVKRRKELGLTQEQLAVRLNVSPQAVSKWENSS-YPDGELLPRIARELNISLDALFGI 67

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
                  I + E ++   +S           ++I   + R ++ 
Sbjct: 68  K------IENNERDIEKLVSDE---------MRITPPEKRAELF 96


>gi|257792297|ref|YP_003182903.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|317490218|ref|ZP_07948706.1| hypothetical protein HMPREF1023_02406 [Eggerthella sp. 1_3_56FAA]
 gi|257476194|gb|ACV56514.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|316910712|gb|EFV32333.1| hypothetical protein HMPREF1023_02406 [Eggerthella sp. 1_3_56FAA]
          Length = 71

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 27/63 (42%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG RIR  R    +SQ+KL   + +    + K E G        ++ IS+ L   +  F
Sbjct: 8  FVGNRIRELRKSQKLSQQKLALMVNVERSYLAKIEGGKRNPSLECIEKISKGLGLSLEEF 67

Query: 74 FDV 76
          F  
Sbjct: 68 FKG 70


>gi|167758839|ref|ZP_02430966.1| hypothetical protein CLOSCI_01182 [Clostridium scindens ATCC
          35704]
 gi|167663579|gb|EDS07709.1| hypothetical protein CLOSCI_01182 [Clostridium scindens ATCC
          35704]
          Length = 350

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 33/59 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + + + IR RR  + ++QE++   LG++   V K+E G +    + L  ++ +L + ++
Sbjct: 1  MKINEMIRTRRKEMNLTQEQVASRLGVSAPAVHKWETGNSYPDITLLPALARLLGTDLN 59


>gi|319426396|gb|ADV54470.1| helix-turn-helix domain protein [Shewanella putrefaciens 200]
 gi|319426403|gb|ADV54477.1| helix-turn-helix domain protein [Shewanella putrefaciens 200]
          Length = 182

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 38/58 (65%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +++++G  ++ RR+ L + QE + E LG+T Q V K+E+ +    AS++  +S++L+ 
Sbjct: 4  LNMSIGSVLKDRRIALNIKQEDIAEQLGLTVQTVSKWERDLTEPKASQVTQLSKILKI 61


>gi|114569052|ref|YP_755732.1| XRE family transcriptional regulator [Maricaulis maris MCS10]
 gi|114339514|gb|ABI64794.1| transcriptional regulator, XRE family [Maricaulis maris MCS10]
          Length = 68

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 24/61 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++R  R   G SQ+ L + L ++ Q V   E G           ++ +   PI   FD 
Sbjct: 3  NQLRELRGEKGWSQQALADHLDVSRQTVNALETGKYDPSLPLAFKLARLFGEPIESIFDD 62

Query: 77 S 77
           
Sbjct: 63 E 63


>gi|300785112|ref|YP_003765403.1| XRE family transcriptional regulator [Amycolatopsis mediterranei
          U32]
 gi|299794626|gb|ADJ45001.1| XRE family transcriptional regulator [Amycolatopsis mediterranei
          U32]
          Length = 192

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 25/59 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG R+R  R   GM+   +    G++   + + E G  R G   L  ++   + P+   
Sbjct: 12 VGPRLRALRRHRGMTLADVAAATGVSESTLSRLESGQRRAGLELLLPLARAYDVPLDDL 70


>gi|257125192|ref|YP_003163306.1| XRE family transcriptional regulator [Leptotrichia buccalis
          C-1013-b]
 gi|257049131|gb|ACV38315.1| transcriptional regulator, XRE family [Leptotrichia buccalis
          C-1013-b]
          Length = 255

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 42/80 (52%), Gaps = 3/80 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++++  R+   M+Q +L E LGI+   +QKYE G  ++    +  + ++ +     
Sbjct: 1  MKINEKLKDLRLKNNMTQRELAEKLGISIPTLQKYEYGTLKIKNEVILSLCDIFDISPDD 60

Query: 73 FFDVSPTVCSDISSEENNVM 92
          FF+      +DI  E +N++
Sbjct: 61 FFN---EKRNDIFKETDNLL 77


>gi|311741010|ref|ZP_07714835.1| DNA-binding protein [Corynebacterium pseudogenitalium ATCC 33035]
 gi|311303812|gb|EFQ79890.1| DNA-binding protein [Corynebacterium pseudogenitalium ATCC 33035]
          Length = 492

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 23/86 (26%), Positives = 33/86 (38%), Gaps = 6/86 (6%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R    +SQ  L   LG++   V + E  V  +    L  I+EV     +FF
Sbjct: 28  YVGSRLRQLRRERDLSQASLAATLGLSASYVNQIEHDVRPLTVPVLLRITEVFGVDATFF 87

Query: 74  FDVSPTVCSDISSEENNVMDFISTPD 99
                    D S     + D I   +
Sbjct: 88  ------SRDDDSRLLAEIQDVIQDKE 107


>gi|260880930|ref|ZP_05403166.2| toxin-antitoxin system, antitoxin component, Xre family
          [Mitsuokella multacida DSM 20544]
 gi|260849947|gb|EEX69954.1| toxin-antitoxin system, antitoxin component, Xre family
          [Mitsuokella multacida DSM 20544]
          Length = 164

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 31/61 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D+    R++  R   GM ++++ E LGIT Q    YE G      S L  +S++ + P+
Sbjct: 8  MDMVFANRLKEVRERSGMKRKEVAEKLGITMQAYTCYEYGRREPRLSNLIKLSKIFDIPV 67

Query: 71 S 71
           
Sbjct: 68 D 68


>gi|212635362|ref|YP_002311887.1| Repressor of flagellae [Shewanella piezotolerans WP3]
 gi|212556846|gb|ACJ29300.1| Repressor of flagellae, putative [Shewanella piezotolerans WP3]
          Length = 116

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 1/60 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPIS 71
          + +G+ I+L+R  LGM++ +L +  G++  Q+ + E+G  N      L  IS  L + I 
Sbjct: 1  MTIGENIKLKRKSLGMTRSELIDRSGVSTAQLSRMERGEQNNPNLETLVAISTALNTSID 60


>gi|206975059|ref|ZP_03235973.1| HTH-type transcriptional regulator xre (Putative PbsX repressor)
           [Bacillus cereus H3081.97]
 gi|217959610|ref|YP_002338162.1| putative DNA-binding protein [Bacillus cereus AH187]
 gi|229138835|ref|ZP_04267416.1| transcriptional regulator [Bacillus cereus BDRD-ST26]
 gi|206746480|gb|EDZ57873.1| HTH-type transcriptional regulator xre (Putative PbsX repressor)
           [Bacillus cereus H3081.97]
 gi|217065315|gb|ACJ79565.1| putative DNA-binding protein [Bacillus cereus AH187]
 gi|228644751|gb|EEL01002.1| transcriptional regulator [Bacillus cereus BDRD-ST26]
          Length = 117

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 27/118 (22%), Positives = 53/118 (44%), Gaps = 7/118 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++      G+SQ++L + +G++   V  Y +G  + G   LQ I++ L+    +   V
Sbjct: 5   ERLKSLIDKKGISQQQLADAIGVSHVSVYNYVEGKKKPGIRTLQKIAKHLKVTTDYLLGV 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
           S       S       D   T +  ++ +    + + K R+K +E +   V+ EK  R
Sbjct: 65  SD------SPHLTADQDLQLTKEAQEILQIINDLPE-KQRKKALEQLEMFVNYEKTKR 115


>gi|126179762|ref|YP_001047727.1| XRE family transcriptional regulator [Methanoculleus marisnigri
          JR1]
 gi|125862556|gb|ABN57745.1| transcriptional regulator, XRE family [Methanoculleus marisnigri
          JR1]
          Length = 69

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI++ R +  ++QE L   LG+T Q +   EKG           I+      I   F
Sbjct: 3  NRIKVYRAMHDLTQEGLANELGVTRQTILAIEKGKYDPSLELAFKIAGFFGVTIEDIF 60


>gi|55419781|gb|AAV51961.1| PlcR [Bacillus cereus]
          Length = 285

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|288960685|ref|YP_003451025.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288912993|dbj|BAI74481.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 220

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 27/60 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R  L ++   L    GI+   + K E G      + LQ ++  L  PI+  F
Sbjct: 37 LGVQIRSLRRHLDLTVADLAAAAGISTGMLSKIENGQISPSLASLQALAGALNVPITALF 96


>gi|251779375|ref|ZP_04822295.1| HTH-type transcriptional regulator [Clostridium botulinum E1 str.
          'BoNT E Beluga']
 gi|243083690|gb|EES49580.1| HTH-type transcriptional regulator [Clostridium botulinum E1 str.
          'BoNT E Beluga']
          Length = 115

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 32/81 (39%), Gaps = 3/81 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+   R   G++Q  L   LG +  Q+  YE+G        L  I++       +   +
Sbjct: 9  ERLVTLRKEKGLTQYDLATQLGFSRGQIGNYEQGSREPDQETLLKIAKFFNVSSDYLLGI 68

Query: 77 SPTVCSDISSEENNVMDFIST 97
          S        +++N V   + +
Sbjct: 69 SDKRNY---TDDNEVTIALHS 86


>gi|228911190|ref|ZP_04074995.1| hypothetical protein bthur0013_53290 [Bacillus thuringiensis IBL
          200]
 gi|228848366|gb|EEM93215.1| hypothetical protein bthur0013_53290 [Bacillus thuringiensis IBL
          200]
          Length = 285

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVLRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|225018471|ref|ZP_03707663.1| hypothetical protein CLOSTMETH_02418 [Clostridium methylpentosum
          DSM 5476]
 gi|224948780|gb|EEG29989.1| hypothetical protein CLOSTMETH_02418 [Clostridium methylpentosum
          DSM 5476]
          Length = 79

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 2/65 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI+  R  LG++Q++LGE +G++ Q V   E             I++V E  I   F F
Sbjct: 6  NRIKEFREKLGLTQKRLGELIGVSRQAVNAIETEKFEPSIWIAYDIAKVFECAIEDVFLF 65

Query: 75 DVSPT 79
          + SP 
Sbjct: 66 EDSPH 70


>gi|222151919|ref|YP_002561079.1| hypothetical protein MCCL_1676 [Macrococcus caseolyticus JCSC5402]
 gi|222121048|dbj|BAH18383.1| conserved hypothetical protein [Macrococcus caseolyticus JCSC5402]
          Length = 283

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 25/101 (24%), Positives = 45/101 (44%), Gaps = 8/101 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GKRI+ RR  L M+Q +L + +  T  Q+ K EK      AS L  I+E LE  +  
Sbjct: 1   MKIGKRIKNRRQQLNMTQGELSDGI-CTQSQISKIEKDEIIPLASLLVKIAEKLEVSLDD 59

Query: 73  F-FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
             ++       +    +   +D++         R + +I +
Sbjct: 60  LVYENRIKRIENEFLIDKERIDYLLK------IREYGKIQN 94


>gi|168214024|ref|ZP_02639649.1| HTH-type transcriptional regulator HipB [Clostridium perfringens
          CPE str. F4969]
 gi|170714468|gb|EDT26650.1| HTH-type transcriptional regulator HipB [Clostridium perfringens
          CPE str. F4969]
          Length = 64

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 33/63 (52%), Gaps = 2/63 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPI-SFFFD 75
          +I+L+R+  G++Q++L   +GI+   + K+E G    +    +  ++  L++ +   FF 
Sbjct: 2  KIKLKRISKGLTQKELANKVGISHVTLSKFENGSYENITLRTMLKLAAALDTTVHELFFS 61

Query: 76 VSP 78
             
Sbjct: 62 DEE 64


>gi|218233887|ref|YP_002370127.1| putative transcriptional regulator PlcR [Bacillus cereus B4264]
 gi|229153513|ref|ZP_04281691.1| hypothetical protein bcere0011_50430 [Bacillus cereus m1550]
 gi|37650516|emb|CAE47447.1| PlcR protein [Bacillus thuringiensis]
 gi|37650608|emb|CAE46801.1| PlcR protein [Bacillus thuringiensis]
 gi|218161844|gb|ACK61836.1| putative transcriptional regulator PlcR [Bacillus cereus B4264]
 gi|228630117|gb|EEK86768.1| hypothetical protein bcere0011_50430 [Bacillus cereus m1550]
          Length = 285

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVLRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|229072817|ref|ZP_04206016.1| hypothetical protein bcere0025_49770 [Bacillus cereus F65185]
 gi|229082564|ref|ZP_04215027.1| hypothetical protein bcere0023_51810 [Bacillus cereus Rock4-2]
 gi|37650620|emb|CAE46901.1| transcriptional regulator [Bacillus thuringiensis]
 gi|228700996|gb|EEL53519.1| hypothetical protein bcere0023_51810 [Bacillus cereus Rock4-2]
 gi|228710308|gb|EEL62283.1| hypothetical protein bcere0025_49770 [Bacillus cereus F65185]
          Length = 285

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVLRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|255324218|ref|ZP_05365340.1| DNA-binding protein [Corynebacterium tuberculostearicum SK141]
 gi|255298734|gb|EET78029.1| DNA-binding protein [Corynebacterium tuberculostearicum SK141]
          Length = 492

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 23/86 (26%), Positives = 33/86 (38%), Gaps = 6/86 (6%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R    +SQ  L   LG++   V + E  V  +    L  I+EV     +FF
Sbjct: 28  YVGSRLRQLRRERDLSQASLAATLGLSASYVNQIEHDVRPLTVPVLLRITEVFGVDATFF 87

Query: 74  FDVSPTVCSDISSEENNVMDFISTPD 99
                    D S     + D I   +
Sbjct: 88  ------SRDDDSRLLAEIQDVIQDKE 107


>gi|251782374|ref|YP_002996676.1| phage transcriptional repressor [Streptococcus dysgalactiae
          subsp. equisimilis GGS_124]
 gi|242391003|dbj|BAH81462.1| phage transcriptional repressor [Streptococcus dysgalactiae
          subsp. equisimilis GGS_124]
 gi|323127256|gb|ADX24553.1| Phage transcriptional repressor [Streptococcus dysgalactiae
          subsp. equisimilis ATCC 12394]
          Length = 230

 Score = 56.7 bits (136), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G +++  R+   +SQE+LG+ L +    +  +EKG N       + +  +      +F
Sbjct: 4  GDQLKTARLAKQLSQEELGQLLNVNKMTISNWEKGKNTPNQKHFEQLLSLFGVTADYF 61


>gi|331085146|ref|ZP_08334232.1| hypothetical protein HMPREF0987_00535 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|330407929|gb|EGG87419.1| hypothetical protein HMPREF0987_00535 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 106

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 31/74 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+++R  R+   ++QE +   + I    +   E    +V  S L  I   L++ + +  
Sbjct: 9  IGEKLRTIRLSKNLTQEYIANAVDINTSHISNIENNRVKVSLSTLVQICNALDTTVDYVL 68

Query: 75 DVSPTVCSDISSEE 88
              T  S    +E
Sbjct: 69 SEEYTDSSSAIEQE 82


>gi|311900507|dbj|BAJ32915.1| putative transcriptional regulator [Kitasatospora setae KM-6054]
          Length = 192

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 33/72 (45%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P  +D  V KRIR  R+  G S E+L     ++   + + E G  R+   +L  ++  L+
Sbjct: 5  PGDLDGLVRKRIRALRVAQGWSLEELAARANLSQSSLSRIENGQRRLALDQLVTLANALD 64

Query: 68 SPISFFFDVSPT 79
          + +    + +  
Sbjct: 65 TTLDQLVETAAE 76


>gi|325674671|ref|ZP_08154358.1| DNA-binding protein [Rhodococcus equi ATCC 33707]
 gi|325554257|gb|EGD23932.1| DNA-binding protein [Rhodococcus equi ATCC 33707]
          Length = 85

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 31/72 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R   G++Q +L +  GI+   + + E G   V   +L  I +VL+       
Sbjct: 14 IGNEIRAARARRGITQNELADQSGISHTTIVRLESGKRTVDVVQLFAICKVLDVDPGVLL 73

Query: 75 DVSPTVCSDISS 86
          D + +      S
Sbjct: 74 DAAQSAQGAEES 85


>gi|258651242|ref|YP_003200398.1| XRE family transcriptional regulator [Nakamurella multipartita DSM
           44233]
 gi|258554467|gb|ACV77409.1| transcriptional regulator, XRE family [Nakamurella multipartita DSM
           44233]
          Length = 504

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/141 (17%), Positives = 56/141 (39%), Gaps = 5/141 (3%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            N   P+P+   +G+R+R  R   G++   + E  GI+   +  +E G      S L  +
Sbjct: 26  QNAGAPDPL--TIGRRLRHLRKAAGLTLSDVAEAAGISPSALSLFENGKREAKLSLLTTL 83

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQL--NRYFIQIDDVKVRQKII 120
           + VL + +     V+P         E       S    L++   +   ++    + + ++
Sbjct: 84  AGVLGTDLGELLAVAPPSRRAALEIELERAQRSSGFKSLEIAAVKPGPRLQTEAL-ESLV 142

Query: 121 ELVRSIVSSEKKYRTIEEECM 141
            L R++   + + +   E+  
Sbjct: 143 GLHRALARIQAERQATPEQAR 163


>gi|288573116|ref|ZP_06391473.1| transcriptional regulator, XRE family [Dethiosulfovibrio
          peptidovorans DSM 11002]
 gi|288568857|gb|EFC90414.1| transcriptional regulator, XRE family [Dethiosulfovibrio
          peptidovorans DSM 11002]
          Length = 234

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 28/80 (35%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+R  R   G++Q +L    G+    V + E     +     + ++ VL   + +   
Sbjct: 4  GERLRRVRKDQGLTQTELARLSGVKQNTVSQVENDRIGLSIETWESLASVLGCSVGYLVS 63

Query: 76 VSPTVCSDISSEENNVMDFI 95
                S         + F 
Sbjct: 64 GEGDRKSSGHRGSAGKLSFF 83


>gi|227357001|ref|ZP_03841373.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
 gi|227162879|gb|EEI47838.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
          Length = 85

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/60 (33%), Positives = 31/60 (51%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  VGKRI+ RR  L +S  K+   LG+T Q   K E G  ++    L  I+ +L+   
Sbjct: 3  INTVVGKRIQNRRKELNISSSKIALQLGMTEQYYLKLENGYTKITVDELICIAIILKVSP 62


>gi|166032705|ref|ZP_02235534.1| hypothetical protein DORFOR_02420 [Dorea formicigenerans ATCC
           27755]
 gi|166027062|gb|EDR45819.1| hypothetical protein DORFOR_02420 [Dorea formicigenerans ATCC
           27755]
          Length = 257

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 38/92 (41%), Gaps = 2/92 (2%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DVS 77
           I   R   GMSQ++L + + +T Q V ++E G        L+ +S+  +  I+    +  
Sbjct: 9   ILKLRTERGMSQDELADKIMVTRQAVSRWENGATVPNTDTLKLLSKEFDVSINTLLGEPR 68

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
             +C       ++        DG  LN  + +
Sbjct: 69  KLICQCCGMPIDDDSILGRDKDG-TLNEEYCK 99


>gi|149275690|ref|ZP_01881835.1| hypothetical protein PBAL39_20505 [Pedobacter sp. BAL39]
 gi|149233118|gb|EDM38492.1| hypothetical protein PBAL39_20505 [Pedobacter sp. BAL39]
          Length = 71

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/54 (33%), Positives = 30/54 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +RIR+ R   GMSQ  L + LG++   + K E G   +  S L  ++++LE  +
Sbjct: 8  QRIRILRKKSGMSQLALAKKLGMSQNALSKIELGEIELSLSHLYQLADLLEIDL 61


>gi|308067835|ref|YP_003869440.1| transcriptional regulator [Paenibacillus polymyxa E681]
 gi|305857114|gb|ADM68902.1| Putative HTH-type transcriptional regulator [Paenibacillus polymyxa
           E681]
          Length = 115

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 41/107 (38%), Gaps = 9/107 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
           VG RIR  R   G+SQE L E  G     +   E+    +    L+ I++ L   +    
Sbjct: 8   VGTRIRDIRKSKGLSQEALAEKAGFNSSYIGFIERAERNISLKNLEKIAKALNVGVYQLL 67

Query: 74  -FDVSPTVCSDISSEENNVMDFISTPDGLQ-------LNRYFIQIDD 112
            +       ++  S    ++  + T +          L   F++ID+
Sbjct: 68  TYVKDNDELTEEHSSIKTILTLLRTRESKDTELALKILTDIFMRIDE 114


>gi|229088202|ref|ZP_04220142.1| hypothetical protein bcere0022_46150 [Bacillus cereus Rock3-44]
 gi|228695098|gb|EEL48134.1| hypothetical protein bcere0022_46150 [Bacillus cereus Rock3-44]
          Length = 181

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 12/70 (17%), Positives = 31/70 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R    ++ +++ +   ++   + + E+  + +    L+ ISE L    S+FF
Sbjct: 5  IGVKIKRLRKERKLTLKQIADQTNLSISFLSQVERSKSSITLESLKKISEALGVNPSYFF 64

Query: 75 DVSPTVCSDI 84
                 +  
Sbjct: 65 SEPEKQTTPT 74


>gi|150021356|ref|YP_001306710.1| XRE family transcriptional regulator [Thermosipho melanesiensis
          BI429]
 gi|149793877|gb|ABR31325.1| transcriptional regulator, XRE family [Thermosipho melanesiensis
          BI429]
          Length = 72

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/70 (20%), Positives = 30/70 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R    ++Q++L + +G+T + +  YE G  +        +++ L   +   F+   
Sbjct: 3  LRELREKKMLTQQQLAKLIGVTQRTISAYEIGQAKPSLDVAIRLAKALGVSVEDVFEAWV 62

Query: 79 TVCSDISSEE 88
             S  S  E
Sbjct: 63 EGKSSQSPSE 72


>gi|116696126|ref|YP_841702.1| XRE family transcriptional regulator [Ralstonia eutropha H16]
 gi|113530625|emb|CAJ96972.1| transcriptional regulator, XRE-family [Ralstonia eutropha H16]
          Length = 204

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 37/87 (42%), Gaps = 4/87 (4%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          ++P+ ++ +VG  IR  R+   ++  ++ E  G++   + K E G    G   L  I+  
Sbjct: 12 QVPH-IEESVGMVIRELRLRERLTIAQVAEQAGLSRGMLSKIETGSTMAGMDTLARIARA 70

Query: 66 LESPISFFF---DVSPTVCSDISSEEN 89
          L  P++  F   D +      +     
Sbjct: 71 LGVPMAVLFSKYDGASAAAQHVRHGAG 97


>gi|83648919|ref|YP_437354.1| transcriptional regulator [Hahella chejuensis KCTC 2396]
 gi|83636962|gb|ABC32929.1| predicted transcriptional regulator [Hahella chejuensis KCTC 2396]
          Length = 106

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 5/89 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
           +G +I+  R   G++ E+L E  G     + + E KGV R  A +L  I++ L+    F 
Sbjct: 5   LGAKIKELRKKKGLTLEQLAEKTGSGKSYIWEIENKGVKRPSAEKLTLIAKALDVTTEFL 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            D S    ++   +E     F     GL 
Sbjct: 65  VDNSQAEITEDQEKEV----FFRKLGGLD 89


>gi|327398256|ref|YP_004339125.1| Cupin 2 barrel domain-containing protein [Hippea maritima DSM
          10411]
 gi|327180885|gb|AEA33066.1| Cupin 2 conserved barrel domain protein [Hippea maritima DSM
          10411]
          Length = 180

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 34/77 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ ++I+  R   G++ + L E +G T   + + E G      S LQ I++ L+  +  
Sbjct: 1  MNMAEKIKSYRKKQGLTLKALAEKVGCTDAYISQIETGKAVPSISVLQKIAQSLDVQVRD 60

Query: 73 FFDVSPTVCSDISSEEN 89
                +      ++E 
Sbjct: 61 LLSDEQSNDKIFLTKEE 77


>gi|297585472|ref|YP_003701252.1| XRE family transcriptional regulator [Bacillus selenitireducens
          MLS10]
 gi|297143929|gb|ADI00687.1| transcriptional regulator, XRE family [Bacillus selenitireducens
          MLS10]
          Length = 182

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 34/58 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++IR+ R   G++ ++L E  G++   + + E+G +    S L+ I++ L  PI+ FF
Sbjct: 8  RQIRVSRTNAGLTLKELSEKTGLSVSFISQVERGTSSPAISSLKKIADGLNVPITSFF 65


>gi|284098554|ref|ZP_06385940.1| molybdenum-binding protein [Candidatus Poribacteria sp. WGA-A3]
 gi|283830492|gb|EFC34683.1| molybdenum-binding protein [Candidatus Poribacteria sp. WGA-A3]
          Length = 399

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 40/96 (41%), Gaps = 4/96 (4%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
            P P    V  R+R  R+  G+SQ ++ E  GIT Q +   EK     G     H+++ 
Sbjct: 2  STPKPQQRVV-NRLREMRIAAGLSQGEVAESAGITRQALYAMEKDQYLPGTEVALHLADA 60

Query: 66 LESPISFFF---DVSPTVCSDISSEENNVMDFISTP 98
          L + +   F   +    + +++ +    V++     
Sbjct: 61 LGTSVEDLFSLNEGRDVLEAELPAGHPGVLNSTRVK 96


>gi|260587029|ref|ZP_05852942.1| transcriptional regulator [Blautia hansenii DSM 20583]
 gi|331086463|ref|ZP_08335542.1| hypothetical protein HMPREF0987_01845 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|260542519|gb|EEX23088.1| transcriptional regulator [Blautia hansenii DSM 20583]
 gi|330410521|gb|EGG89949.1| hypothetical protein HMPREF0987_01845 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 143

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 31/58 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + VG++IR  R+  G +Q++L    G++   ++ YE G     + +L+ I+  L+   
Sbjct: 1  MTVGEKIRKFRIDQGYTQKELAIMSGLSESAIRNYELGNRFPSSEQLEKIANSLKISP 58


>gi|240103181|ref|YP_002959490.1| HTH-type transcriptional regulator, putative [Thermococcus
          gammatolerans EJ3]
 gi|239910735|gb|ACS33626.1| HTH-type transcriptional regulator, putative [Thermococcus
          gammatolerans EJ3]
          Length = 65

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G++QE+L + LG+T Q +   EKG           I+      I   F
Sbjct: 3  NRLRELREAKGLTQEELAKALGVTRQTIIAIEKGKYDPSLRLAFKIARFFGLKIEDVF 60


>gi|241661721|ref|YP_002980081.1| XRE family transcriptional regulator [Ralstonia pickettii 12D]
 gi|240863748|gb|ACS61409.1| transcriptional regulator, XRE family [Ralstonia pickettii 12D]
          Length = 194

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 37/78 (47%), Gaps = 2/78 (2%)

Query: 11 VDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +DI+  + +R+R  R   G+S + L E   ++   +   E+G +   A+ L  +S  L  
Sbjct: 1  MDIHQRIAQRLRELRDAQGLSLDALAERSQVSRSAISLIERGQSSPTAAVLDRLSSALGV 60

Query: 69 PISFFFDVSPTVCSDISS 86
           ++  F+ S    ++ S 
Sbjct: 61 TLASLFEDSAAPAAEPSP 78


>gi|312891075|ref|ZP_07750598.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
 gi|311296383|gb|EFQ73529.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
          Length = 116

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/81 (28%), Positives = 41/81 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I+L R   G SQ      LGI+     K E G+  +  SRL +I+++L+  I    
Sbjct: 4  LGKNIKLLRHEKGWSQSDFAAKLGISVPAFSKIENGLTDLHLSRLNNIAKILDMSIVELL 63

Query: 75 DVSPTVCSDISSEENNVMDFI 95
              +V ++ ++E ++  + I
Sbjct: 64 SFQKSVRNNDANELDSAKESI 84


>gi|285018770|ref|YP_003376481.1| transcriptional regulator transcription regulator protein
           [Xanthomonas albilineans GPE PC73]
 gi|283473988|emb|CBA16489.1| putative transcriptional regulator transcription regulator protein
           [Xanthomonas albilineans]
          Length = 115

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/109 (19%), Positives = 42/109 (38%), Gaps = 2/109 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R   G++QE+LG  LG+T   +  +E          L  +  VL+  +     
Sbjct: 5   GDRLREARKAAGLTQEQLGFSLGVTKSSISAWENDRETPSFRLLPMLRVVLKRSLDDLVC 64

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                     +  +  +      +   L R   +    + R+ ++EL++
Sbjct: 65  GHVPSARLQEASPDYALQARDPHEQALLTR--YRNMPARRREAVLELLK 111


>gi|268610362|ref|ZP_06144089.1| SOS-response transcriptional repressor [Ruminococcus flavefaciens
           FD-1]
          Length = 217

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 40/93 (43%), Gaps = 3/93 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +  G+R+   R   GM+Q++L   +G  +   + K E G      S +  I++ L++  +
Sbjct: 1   MTFGERVLALRTEKGMTQDELALAVGYKSRSTIAKIESGERDPHQSMIAAIAKALDTTPA 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           +      +  S    ++ N+     T +G  L 
Sbjct: 61  YLMGWEESEQS--PDKDKNLSKIPYTEEGTVLV 91


>gi|307824117|ref|ZP_07654344.1| plasmid maintenance system antidote protein, XRE family
          [Methylobacter tundripaludum SV96]
 gi|307734901|gb|EFO05751.1| plasmid maintenance system antidote protein, XRE family
          [Methylobacter tundripaludum SV96]
          Length = 84

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 33/71 (46%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   +     +++ VG+ +R+ R +  +SQ +L E  GI    +   E     +G  R +
Sbjct: 1  MNEYQIAKKSINVTVGESVRIIRELQELSQNQLAELTGIPQSTISAIEHDKINLGIERAK 60

Query: 61 HISEVLESPIS 71
           +++ L+   +
Sbjct: 61 ILAKALKCHPA 71


>gi|160893483|ref|ZP_02074268.1| hypothetical protein CLOL250_01034 [Clostridium sp. L2-50]
 gi|156864878|gb|EDO58309.1| hypothetical protein CLOL250_01034 [Clostridium sp. L2-50]
          Length = 122

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/106 (15%), Positives = 41/106 (38%), Gaps = 6/106 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI   R    ++Q +L E L I+ +     E+G + +   ++  + ++    + +  
Sbjct: 15  IGQRIVQIRHANNLTQYQLAEMLDISVKHCSAIERGKSSLSLEKMIDLCDIFNIDLDYLI 74

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG------LQLNRYFIQIDDVK 114
                     S   + V++ +++ D             F  I + +
Sbjct: 75  RGVQKTDDIPSYIPHTVVEIMTSDDEEKKQHFRDYIEIFNAISNSQ 120


>gi|22536402|ref|NP_687253.1| Cro/CI family transcriptional regulator [Streptococcus agalactiae
           2603V/R]
 gi|22533229|gb|AAM99125.1|AE014201_23 transcriptional regulator, Cro/CI family [Streptococcus agalactiae
           2603V/R]
          Length = 158

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/99 (16%), Positives = 36/99 (36%), Gaps = 13/99 (13%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R   G++Q  L + +     Q  KYE G   +     + +++     I +   +
Sbjct: 3   NRLKELRKDKGLTQADLAKVINTNQSQYGKYENGKTSLSIENSKILADFFGVSIPYLLGL 62

Query: 77  SPTVCSDISS-------------EENNVMDFISTPDGLQ 102
                   S+             +++   D+ ST + L+
Sbjct: 63  DNNSKIANSTIKDTNLLSFFEQVKKDMGQDYFSTLETLE 101


>gi|73697811|gb|AAZ81511.1| PlcR [Bacillus weihenstephanensis]
          Length = 287

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R + G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRAMRGLTQKQLSDNI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|298243569|ref|ZP_06967376.1| transcriptional regulator, XRE family [Ktedonobacter racemifer
          DSM 44963]
 gi|297556623|gb|EFH90487.1| transcriptional regulator, XRE family [Ktedonobacter racemifer
          DSM 44963]
          Length = 460

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  IR  R  L M+Q +L      +   +   E+G  R     L  ++  L+ P++F  
Sbjct: 17 VGTNIREVRTKLNMTQAQLA-APEFSISYISAIERGKIRPSLKALSILARRLDVPLTFLL 75

Query: 75 DVSPTVCSDISS 86
          + SP   ++  +
Sbjct: 76 EGSPAGAAEARA 87


>gi|284031267|ref|YP_003381198.1| XRE family transcriptional regulator [Kribbella flavida DSM
          17836]
 gi|283810560|gb|ADB32399.1| transcriptional regulator, XRE family [Kribbella flavida DSM
          17836]
          Length = 397

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/86 (26%), Positives = 43/86 (50%), Gaps = 2/86 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLESPIS 71
          ++VG+RI   R   GMSQ+ L   +G++   + + E+G+  V   S L  ++ VL   ++
Sbjct: 1  MHVGERIGAYRKRRGMSQDALAGLIGMSRSWLSQVERGIRGVDRLSTLNDLATVLRIDVA 60

Query: 72 FFFDVSPTVCSDISSEENNVMDFIST 97
                  +  D +SE+   +D + T
Sbjct: 61 DLIGRDWILAPD-ASEQVTAVDAVRT 85


>gi|258543250|ref|YP_003188683.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-01]
 gi|329114057|ref|ZP_08242821.1| Hypothetical protein APO_0832 [Acetobacter pomorum DM001]
 gi|256634328|dbj|BAI00304.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-01]
 gi|256637386|dbj|BAI03355.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-03]
 gi|256640438|dbj|BAI06400.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-07]
 gi|256643495|dbj|BAI09450.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-22]
 gi|256646550|dbj|BAI12498.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-26]
 gi|256649603|dbj|BAI15544.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-32]
 gi|256652591|dbj|BAI18525.1| transcriptional regulator [Acetobacter pasteurianus IFO
           3283-01-42C]
 gi|256655647|dbj|BAI21574.1| transcriptional regulator [Acetobacter pasteurianus IFO 3283-12]
 gi|326696596|gb|EGE48273.1| Hypothetical protein APO_0832 [Acetobacter pomorum DM001]
          Length = 122

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/115 (16%), Positives = 49/115 (42%), Gaps = 13/115 (11%)

Query: 1   MVGNKKIPNP-VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M     + +P +D  +G+RI++ R   G++Q+++ + LG++   +  +E G        +
Sbjct: 1   MADQDDVISPGID--LGQRIKILRKSAGLTQQQVADALGVSRPAIAFWETGREGSARKHI 58

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
             ++ +       F          ++      ++ + TPD   + R +  +D  +
Sbjct: 59  PKLAALFNVDPEIF----------LTGYVQEDIELVITPDEHDVIRLYRMLDPSR 103


>gi|238025551|ref|YP_002909783.1| XRE family transcriptional regulator [Burkholderia glumae BGR1]
 gi|237880216|gb|ACR32548.1| Transcriptional regulator, XRE family protein [Burkholderia glumae
           BGR1]
          Length = 191

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/116 (13%), Positives = 46/116 (39%), Gaps = 6/116 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  R  L ++ +++    GI+   + + E+G      + L  I+  L   + +F 
Sbjct: 15  IGARMRALRQRLKLTLDEVAAAAGISKPFLSQVERGRATPSLASLAGIARALGVTMQYFV 74

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           +      +   ++      F  +         F ++ +    +++  ++  + + E
Sbjct: 75  EAPSEAKAVRRADTLQFFSFADS------ANSFARMTNPGSSRQLDAVLVRLPARE 124


>gi|225018996|ref|ZP_03708188.1| hypothetical protein CLOSTMETH_02947 [Clostridium methylpentosum
           DSM 5476]
 gi|224948221|gb|EEG29430.1| hypothetical protein CLOSTMETH_02947 [Clostridium methylpentosum
           DSM 5476]
          Length = 174

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 36/83 (43%), Gaps = 2/83 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G  +   R   G+SQE++ E LG++ Q + K+E         + + ++ +    +  
Sbjct: 21  MNLGNSLFHARKKCGLSQEEVAEKLGVSRQTISKWETDETIPDIRQSKKMASIYNVSLDE 80

Query: 73  F--FDVSPTVCSDISSEENNVMD 93
              FD+      D   + +   +
Sbjct: 81  LIDFDLDIKEIQDTIDKTSEETE 103


>gi|153954625|ref|YP_001395390.1| hypothetical protein CKL_2007 [Clostridium kluyveri DSM 555]
 gi|219855103|ref|YP_002472225.1| hypothetical protein CKR_1760 [Clostridium kluyveri NBRC 12016]
 gi|146347483|gb|EDK34019.1| Hypothetical protein CKL_2007 [Clostridium kluyveri DSM 555]
 gi|219568827|dbj|BAH06811.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 106

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 37/79 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R +  ++  KL   LGI+  Q+ + E  VN      +  I +     +S FF
Sbjct: 4  LGARIRELRKLNNVTAVKLSAKLGISQGQLSRIENNVNTAQFDTIMRICDFFSITLSEFF 63

Query: 75 DVSPTVCSDISSEENNVMD 93
          +   +    ++SE   +++
Sbjct: 64 NDDNSEHIVLTSELKELLN 82


>gi|119509672|ref|ZP_01628818.1| Transcriptional Regulator of molybdate metabolism, XRE family
          protein [Nodularia spumigena CCY9414]
 gi|119465691|gb|EAW46582.1| Transcriptional Regulator of molybdate metabolism, XRE family
          protein [Nodularia spumigena CCY9414]
          Length = 379

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 31/75 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++  R+ LGMSQ+ L     +T Q +   E G      +    +++ L   +   F +
Sbjct: 9  NKLKQTRIRLGMSQQDLANLANVTRQTISGVESGQYAPSTTIALRLAKALGCQVEDLFWL 68

Query: 77 SPTVCSDISSEENNV 91
             +    ++   NV
Sbjct: 69 EQDLPEIAATPAYNV 83


>gi|88706762|ref|ZP_01104463.1| DNA-binding protein [Congregibacter litoralis KT71]
 gi|88698943|gb|EAQ96061.1| DNA-binding protein [Congregibacter litoralis KT71]
          Length = 186

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/94 (17%), Positives = 37/94 (39%), Gaps = 1/94 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +     +G+R+   R +  M+ E+L    G++   + + E+G      +  Q I++  
Sbjct: 1  MTDSTSRLLGERVSQLRQLQSMTLEQLAAASGVSRSMLSQIERGKANPTLAVTQRIAQTF 60

Query: 67 ESPISFFFDVSPTVCS-DISSEENNVMDFISTPD 99
             I    D      S D+   ++    F +  +
Sbjct: 61 GISIGELVDDPNASASIDVVRGDDPGTVFRADSE 94


>gi|320528169|ref|ZP_08029334.1| helix-turn-helix protein [Solobacterium moorei F0204]
 gi|320131517|gb|EFW24082.1| helix-turn-helix protein [Solobacterium moorei F0204]
          Length = 137

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 37/80 (46%), Gaps = 1/80 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          ++R  R+   M+Q+++ + L ++ Q +  YE GV R     +   ++  +  + +   V+
Sbjct: 15 QMRKLRINHHMTQKQMADILNVSAQSISAYENGVIRPDIEIIMKYADYFKVDMDYLTGVN 74

Query: 78 -PTVCSDISSEENNVMDFIS 96
               +D+   +     F++
Sbjct: 75 LYGPINDVFPTQTEAQMFMA 94


>gi|220911489|ref|YP_002486798.1| XRE family transcriptional regulator [Arthrobacter chlorophenolicus
           A6]
 gi|219858367|gb|ACL38709.1| transcriptional regulator, XRE family [Arthrobacter
           chlorophenolicus A6]
          Length = 504

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 32/91 (35%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I +G+R+R  R   G++ + L   +G    Q+   E G      + LQH++  L   I  
Sbjct: 34  IALGRRVRHLRKQAGLTLDGLSAAVGTAPSQLSLIENGKREPKLTLLQHLAAALNVSIDQ 93

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
                P         E          + L L
Sbjct: 94  LLGAEPPSRRAALEIELERYQRGPLYESLNL 124


>gi|251798962|ref|YP_003013693.1| XRE family transcriptional regulator [Paenibacillus sp. JDR-2]
 gi|247546588|gb|ACT03607.1| transcriptional regulator, XRE family [Paenibacillus sp. JDR-2]
          Length = 122

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 34/81 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G RI   R     +QE+    LGI+   +  YEK         L   +++ +  I +
Sbjct: 1  MNIGNRIAGLREERKWTQEQTASKLGISRAALSHYEKNRREPDTETLAKFADLYQVTIDY 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
              +    + +S +  N +D
Sbjct: 61 LVGRTTNTQAALSEDVRNFVD 81


>gi|76817605|ref|YP_336411.1| DNA-binding protein [Burkholderia pseudomallei 1710b]
 gi|76582078|gb|ABA51552.1| DNA-binding protein [Burkholderia pseudomallei 1710b]
          Length = 236

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/117 (17%), Positives = 46/117 (39%), Gaps = 10/117 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G +IR  R  L  + ++     GI+   + + E+G+     + L  I+  L   + +
Sbjct: 58  VALGSKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSITSLAGIAHALGVTVQY 117

Query: 73  FFDVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFIQIDDVKVRQKI 119
           F +      S    ++     F  +          P+G QL    +++   + R ++
Sbjct: 118 FVETPSEERSVCRGDQLRFFSFADSANLFARLTNVPEGRQLEAILVRMPPGQKRSEV 174


>gi|16801483|ref|NP_471751.1| hypothetical protein lin2421 [Listeria innocua Clip11262]
 gi|16414943|emb|CAC97648.1| lin2421 [Listeria innocua Clip11262]
          Length = 83

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR +R  LG SQ+ +   LG        KYE G  ++ A  L  ++++L+  IS FF
Sbjct: 10 IREKRESLGFSQKDMAIKLGFKNASTYLKYETGEYKIKAEMLPLLAKILKCNISNFF 66


>gi|116688212|ref|YP_833835.1| hypothetical protein Bcen2424_0188 [Burkholderia cenocepacia
          HI2424]
 gi|116646301|gb|ABK06942.1| protein of unknown function DUF955 [Burkholderia cenocepacia
          HI2424]
          Length = 383

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 36/71 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G  +R+ R+    SQ++LGE +G + Q + + E G +   A+ +  + + L     F
Sbjct: 2  IFIGSNLRIARLFHNFSQQELGEHIGCSKQFLSRLESGGDVPTAALVSKLCDQLAVLPEF 61

Query: 73 FFDVSPTVCSD 83
          F +  P   +D
Sbjct: 62 FVEPDPMPIAD 72


>gi|326391550|ref|ZP_08213082.1| helix-turn-helix domain protein [Thermoanaerobacter ethanolicus JW
           200]
 gi|325992431|gb|EGD50891.1| helix-turn-helix domain protein [Thermoanaerobacter ethanolicus JW
           200]
          Length = 427

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/96 (20%), Positives = 45/96 (46%), Gaps = 7/96 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +I+  R+   +SQ +L     ++   + + E G       +L +++E LE P+S+FF
Sbjct: 5   IGDKIKALRLQKNLSQSELCGNF-MSRVVLSRIENGKALPSLEQLAYLAEKLEVPVSYFF 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
             S      +  + ++++        L L + + +I
Sbjct: 64  SDSTGEKYILFEKNSSLLK------DLFLAKDYYEI 93


>gi|298246895|ref|ZP_06970700.1| transcriptional regulator, XRE family [Ktedonobacter racemifer
          DSM 44963]
 gi|297549554|gb|EFH83420.1| transcriptional regulator, XRE family [Ktedonobacter racemifer
          DSM 44963]
          Length = 869

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 29/62 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G R+R  R+   +SQE L E LG++ + + ++E+      AS    +S         
Sbjct: 1  MQFGTRLRQERIQRHLSQEALAEALGVSPRSIARWEQDQALPQASVRLQLSRFFNLHPKE 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|294648966|ref|ZP_06726414.1| hypothetical protein HMP0015_0623 [Acinetobacter haemolyticus ATCC
           19194]
 gi|292825101|gb|EFF83856.1| hypothetical protein HMP0015_0623 [Acinetobacter haemolyticus ATCC
           19194]
          Length = 368

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/84 (28%), Positives = 38/84 (45%), Gaps = 6/84 (7%)

Query: 19  IRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF---- 73
           +R+ R + GMSQ +L + +G IT   + K EKG  +       +I++ L  P  FF    
Sbjct: 21  LRIARDLRGMSQTELVQKMGNITQAALSKIEKGDIKPSDETKFNIAKTLNFPERFFHQND 80

Query: 74  -FDVSPTVCSDISSEENNVMDFIS 96
            F VSP        + +     +S
Sbjct: 81  HFKVSPISLHAYRKKASTTAKILS 104


>gi|257887020|ref|ZP_05666673.1| prophage Lp1 protein 8 [Enterococcus faecium 1,141,733]
 gi|257898175|ref|ZP_05677828.1| prophage Lp1 protein 8 [Enterococcus faecium Com15]
 gi|257823074|gb|EEV50006.1| prophage Lp1 protein 8 [Enterococcus faecium 1,141,733]
 gi|257836087|gb|EEV61161.1| prophage Lp1 protein 8 [Enterococcus faecium Com15]
          Length = 127

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++I+  R+   M+Q+++ + LGIT      YE G      S LQ ++ + +    + 
Sbjct: 8  EKIKELRLSKKMTQQEVADKLGITRPAYTAYESGKREPDFSILQSLANIFDVTTDYL 64


>gi|196033516|ref|ZP_03100928.1| helix-turn-helix Cro and cI family protein [Bacillus cereus W]
 gi|195993950|gb|EDX57906.1| helix-turn-helix Cro and cI family protein [Bacillus cereus W]
          Length = 115

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 32/75 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+R  R    ++Q  LG+ +G+T   V K+E G        ++  ++ L  P+ +    S
Sbjct: 6  RLRQLRRERNLTQHDLGQAIGVTAGSVSKFETGFKPASRETVERAADFLGVPVDYLLGRS 65

Query: 78 PTVCSDISSEENNVM 92
           +   D    +  + 
Sbjct: 66 DSRELDADMNQKYLH 80


>gi|167840807|ref|ZP_02467491.1| DNA-binding protein [Burkholderia thailandensis MSMB43]
          Length = 179

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/117 (17%), Positives = 46/117 (39%), Gaps = 10/117 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G +IR  R  L  + ++     GI+   + + E+G+     + L  I+  L   + +
Sbjct: 1   MALGSKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSITSLAGIAHALGVTVQY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFIQIDDVKVRQKI 119
           F +      S    E+     F  +          P+G QL    +++   + R ++
Sbjct: 61  FVETPSEERSVCRGEQLRFFSFADSANLFARLTNVPEGRQLEAILVRMPPGQKRSEV 117


>gi|37650520|emb|CAE47449.1| PlcR protein [Bacillus thuringiensis]
          Length = 169

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVLRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|37650518|emb|CAE47448.1| PlcR protein [Bacillus thuringiensis]
          Length = 283

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVLRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|331269964|ref|YP_004396456.1| helix-turn-helix domain-containing protein [Clostridium botulinum
          BKT015925]
 gi|329126514|gb|AEB76459.1| helix-turn-helix domain protein [Clostridium botulinum BKT015925]
          Length = 184

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 32/73 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++  R    MS + + +  G++   + + E+G +    S L  I+  L+   S F 
Sbjct: 8  IGSNLKTIRNQKNMSLDNVSKLTGVSKAMLGQIERGESNPTVSTLWKIATGLKVSFSSFI 67

Query: 75 DVSPTVCSDISSE 87
          D S      IS +
Sbjct: 68 DDSNENLKIISQD 80


>gi|291551242|emb|CBL27504.1| Predicted transcriptional regulators [Ruminococcus torques L2-14]
          Length = 255

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I   R   GMSQ++L E + ++ Q V ++E G        L+ +S+VL+  I+
Sbjct: 7  ILELRTQKGMSQDELAEKVFVSRQAVSRWENGETVPNTETLKLLSKVLDVSIN 59


>gi|262043414|ref|ZP_06016539.1| conserved hypothetical protein [Klebsiella pneumoniae subsp.
          rhinoscleromatis ATCC 13884]
 gi|259039240|gb|EEW40386.1| conserved hypothetical protein [Klebsiella pneumoniae subsp.
          rhinoscleromatis ATCC 13884]
          Length = 207

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 32/64 (50%), Gaps = 1/64 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  R + RR+ LGM+Q ++    G++ Q ++  E G  R     +  +++ L+    +
Sbjct: 1  MSLAARFKARRIELGMTQTEVANVAGVSQQSIESIESGRTR-KPRNVLELAKALKCSPDW 59

Query: 73 FFDV 76
            + 
Sbjct: 60 LLNG 63


>gi|253681993|ref|ZP_04862790.1| xre family DNA-binding domain and TPR-repeat-containing protein
           [Clostridium botulinum D str. 1873]
 gi|253561705|gb|EES91157.1| xre family DNA-binding domain and TPR-repeat-containing protein
           [Clostridium botulinum D str. 1873]
          Length = 432

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 40/94 (42%), Gaps = 1/94 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I+ RR  LGM+ + L     IT  Q+   E G +      L++++  L   I +  
Sbjct: 6   LGEKIKRRRKELGMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLANSLNISIEYLM 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
           +   T    I     N+ +     + L L   +I
Sbjct: 65  ESEETQAEKICIYYENMSESHILNNQLNLAEQYI 98


>gi|218290717|ref|ZP_03494799.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
 gi|218239255|gb|EED06454.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
          Length = 77

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 31/69 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G RIR  R   GM+ E L   +GI+   +   E G   V    L  IS+VL+  + +
Sbjct: 7  VKIGSRIRSARQSKGMTVESLANAIGISKGSLSAIETGKRPVSLLNLTRISDVLDISLDY 66

Query: 73 FFDVSPTVC 81
             +S    
Sbjct: 67 LVGLSDNPE 75


>gi|260903897|ref|ZP_05912219.1| helix-turn-helix domain-containing protein [Brevibacterium linens
          BL2]
          Length = 182

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 23/56 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G RIR RR    ++  +L    GI+   + K E+G      S    +S  L   + 
Sbjct: 13 GARIRARRKYNDLTLNELAVRAGISRAALSKIERGEQDTSVSNAMGLSRALGVDVG 68


>gi|91780476|ref|YP_555683.1| XRE family transcriptional regulator [Burkholderia xenovorans
          LB400]
 gi|91693136|gb|ABE36333.1| transcriptional regulator, XRE family [Burkholderia xenovorans
          LB400]
          Length = 109

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 35/75 (46%), Gaps = 4/75 (5%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLE 67
          D    +R++  R+  G++QE+LG   GI       +V +YEKG +       Q ++  L 
Sbjct: 9  DAVFPRRLKQARLRSGLTQEQLGIHAGIDEFSASARVNQYEKGKHTPAIQTSQRLARALL 68

Query: 68 SPISFFFDVSPTVCS 82
           P  F ++    + +
Sbjct: 69 VPTGFLYEDDDLLAN 83


>gi|323483673|ref|ZP_08089056.1| hypothetical protein HMPREF9474_00805 [Clostridium symbiosum
          WAL-14163]
 gi|323692636|ref|ZP_08106868.1| hypothetical protein HMPREF9475_01731 [Clostridium symbiosum
          WAL-14673]
 gi|323403009|gb|EGA95324.1| hypothetical protein HMPREF9474_00805 [Clostridium symbiosum
          WAL-14163]
 gi|323503333|gb|EGB19163.1| hypothetical protein HMPREF9475_01731 [Clostridium symbiosum
          WAL-14673]
          Length = 238

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 35/75 (46%), Gaps = 3/75 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  +R  R + G++ ++L + +  +   + KYE+G   +    ++ IS VL   I  
Sbjct: 6  MELGSILRKVRKLRGLTIQQLADKIQKSKSTLSKYERGEISIDILTIKEISRVLNISID- 64

Query: 73 FFDVSPTVCSDISSE 87
            ++ P    + S  
Sbjct: 65 --ELLPGTADNSSQH 77


>gi|300854557|ref|YP_003779541.1| transcriptional regulator [Clostridium ljungdahlii DSM 13528]
 gi|300434672|gb|ADK14439.1| transcriptional regulator [Clostridium ljungdahlii DSM 13528]
          Length = 365

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 37/89 (41%), Gaps = 6/89 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+ I   R   G++Q++LG  +G++   V K+E G +    + L  ++      I  
Sbjct: 4   LQIGEIIFKLRKEKGITQDQLGGFIGVSTAAVSKWESGNSYPDITLLPVLASYFNVSI-- 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
                  +   I   E  VM+     + L
Sbjct: 62  ----DKLLNYKIELSEKEVMEIFKKCEVL 86


>gi|291560963|emb|CBL39763.1| Predicted transcriptional regulators [butyrate-producing
          bacterium SSC/2]
          Length = 143

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 33/63 (52%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          + VG+RI+L R   GMSQ      + ++ Q + KYE   +  + + +++ ++++     +
Sbjct: 1  MTVGERIQLLRKKTGMSQIDFATKINVSKQTLYKYENNLITNIPSDKIEAVADLCHVSPA 60

Query: 72 FFF 74
          +  
Sbjct: 61 YLM 63


>gi|254470871|ref|ZP_05084274.1| helix-turn-helix domain protein [Pseudovibrio sp. JE062]
 gi|211960013|gb|EEA95210.1| helix-turn-helix domain protein [Pseudovibrio sp. JE062]
          Length = 160

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 41/96 (42%), Gaps = 13/96 (13%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF----- 73
           +R  R+  G+SQE+L    GI+ + +Q+ E+G N      L+ I+  L++          
Sbjct: 3   VRKLRIEKGLSQEQLAHMAGISTRTLQRIERGAN-ASPETLKCIASALDTDFGDLRKDQD 61

Query: 74  -FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
               +  +   +S +E   M+++         R F 
Sbjct: 62  MPSGTHGILPQLSQKEQEAMEYVRD------IRSFY 91


>gi|153815095|ref|ZP_01967763.1| hypothetical protein RUMTOR_01319 [Ruminococcus torques ATCC 27756]
 gi|145847663|gb|EDK24581.1| hypothetical protein RUMTOR_01319 [Ruminococcus torques ATCC 27756]
          Length = 429

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/85 (20%), Positives = 37/85 (43%), Gaps = 5/85 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G+ I  +R   GM+Q+++ E LG+T + V K+E          L  + + L   +     
Sbjct: 48  GEFIARKRKERGMTQKEMAELLGVTNKAVSKWETSQGMPDIGILPELGKALGVTVDEILM 107

Query: 75  ----DVSPTVCSDISSEENNVMDFI 95
               +      + +S E+  +++ +
Sbjct: 108 GEQIEQEKRAETAVSDEDKKLLEIV 132


>gi|170729064|ref|YP_001763090.1| XRE family transcriptional regulator [Shewanella woodyi ATCC
          51908]
 gi|169814411|gb|ACA88995.1| transcriptional regulator, XRE family [Shewanella woodyi ATCC
          51908]
          Length = 77

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 30/69 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R     +Q  L E L ++ Q V   EKG           ++ + ++PI   FD 
Sbjct: 3  NRLKVLRAEQDWTQADLAEKLDVSRQTVNAIEKGKYDPSLPLAFKLARLFDTPIEAIFDD 62

Query: 77 SPTVCSDIS 85
             + SD S
Sbjct: 63 EVRIDSDKS 71


>gi|15668446|ref|NP_247244.1| repressor protein YorfE [Methanocaldococcus jannaschii DSM 2661]
 gi|1590997|gb|AAB98257.1| repressor protein, putative (yorfE) [Methanocaldococcus
          jannaschii DSM 2661]
          Length = 79

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +++  R +  ++QE L + LG++ Q +   EKG           I++     I   F
Sbjct: 16 NKLKYYRALHNLTQEDLAKKLGVSRQTIIAIEKGKYDPSLKLAFKIAKFFGVKIEDIF 73


>gi|296118462|ref|ZP_06837041.1| DNA-binding protein [Corynebacterium ammoniagenes DSM 20306]
 gi|295968603|gb|EFG81849.1| DNA-binding protein [Corynebacterium ammoniagenes DSM 20306]
          Length = 469

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/86 (25%), Positives = 33/86 (38%), Gaps = 6/86 (6%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+R  R    +SQ  L   LG++   V + E  V  +    L  I+EV     +FF
Sbjct: 5  YVGSRLRQLRRERDLSQASLAATLGLSASYVNQIEHDVRPLTVPVLLRITEVFGVDATFF 64

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
                   D S     + D +   +
Sbjct: 65 ------SRDDDSRLLAEIQDVVQDKE 84


>gi|293374084|ref|ZP_06620420.1| cupin domain protein [Turicibacter sanguinis PC909]
 gi|325845732|ref|ZP_08169012.1| cupin domain protein [Turicibacter sp. HGF1]
 gi|292647291|gb|EFF65265.1| cupin domain protein [Turicibacter sanguinis PC909]
 gi|325488246|gb|EGC90675.1| cupin domain protein [Turicibacter sp. HGF1]
          Length = 180

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  RM L ++QE+L +   +T   + + E+ +     + L  I E L + +  
Sbjct: 1  MIIGEKIRRLRMELQLTQEELADRTELTKGYISQVERDLASPSIATLVDILEALGTTLGE 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|293377825|ref|ZP_06624010.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecium PC4.1]
 gi|292643535|gb|EFF61660.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecium PC4.1]
          Length = 123

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++I+  R+   M+Q+++ + LGIT      YE G      S LQ ++ + +    + 
Sbjct: 4  EKIKELRLSKKMTQQEVADKLGITRPAYTAYESGKREPDFSILQSLANIFDVTTDYL 60


>gi|282866826|ref|ZP_06275862.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
 gi|282558318|gb|EFB63884.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
          Length = 509

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +GK IR  R   G +Q +L E L  +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGKLIRDARQHRGWTQTQLAEALATSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|229000727|ref|ZP_04160239.1| hypothetical protein bmyco0003_52430 [Bacillus mycoides Rock3-17]
 gi|228759027|gb|EEM08061.1| hypothetical protein bmyco0003_52430 [Bacillus mycoides Rock3-17]
          Length = 145

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 34/73 (46%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++N+G +++  R     SQE +   +G+T Q V K+E   +      L  +SE+ E  I 
Sbjct: 3  NMNLGSQLKKFRESKNFSQEDVARKVGVTRQAVYKWESNKSYPDIDNLILLSELYEVTID 62

Query: 72 FFFDVSPTVCSDI 84
               S  V  ++
Sbjct: 63 ELIKGSEDVRGEL 75


>gi|229147890|ref|ZP_04276231.1| hypothetical protein bcere0012_50130 [Bacillus cereus BDRD-ST24]
 gi|228635540|gb|EEK92029.1| hypothetical protein bcere0012_50130 [Bacillus cereus BDRD-ST24]
          Length = 285

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSDNI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|227508229|ref|ZP_03938278.1| DNA-binding protein [Lactobacillus brevis subsp. gravesensis ATCC
          27305]
 gi|227192458|gb|EEI72525.1| DNA-binding protein [Lactobacillus brevis subsp. gravesensis ATCC
          27305]
          Length = 174

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 38/79 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++  R+  G SQ+++ + L +T Q +  +E G +R     L  +S+V + P+  F   
Sbjct: 9  SQLKKARIRKGYSQQQVADKLRVTRQSISSWENGHSRPDLYNLTLLSKVYDEPLDNFVKD 68

Query: 77 SPTVCSDISSEENNVMDFI 95
          + +    I S+    + F 
Sbjct: 69 NHSFDLQIESDREEFLHFF 87


>gi|167763862|ref|ZP_02435989.1| hypothetical protein BACSTE_02243 [Bacteroides stercoris ATCC
          43183]
 gi|167697978|gb|EDS14557.1| hypothetical protein BACSTE_02243 [Bacteroides stercoris ATCC
          43183]
          Length = 191

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 32/68 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    +S E+L +  G+  +Q+++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKSLRESQSISMEELAQRSGLAIEQIERIENNIDLPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D       
Sbjct: 67 DDQDENGP 74


>gi|160915810|ref|ZP_02078018.1| hypothetical protein EUBDOL_01825 [Eubacterium dolichum DSM 3991]
 gi|158432286|gb|EDP10575.1| hypothetical protein EUBDOL_01825 [Eubacterium dolichum DSM 3991]
          Length = 171

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 32/55 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + IR  R   G+SQE+L   L +  Q V K+EK ++   +S L  ++E L++ +S
Sbjct: 4  ENIRNLRKAKGLSQEELAIKLNVVRQTVSKWEKSLSVPDSSMLVSLAEELDTSVS 58


>gi|49183978|ref|YP_027230.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|227816122|ref|YP_002816131.1| hypothetical protein BAMEG_3548 [Bacillus anthracis str. CDC 684]
 gi|254682796|ref|ZP_05146657.1| hypothetical protein BantC_02950 [Bacillus anthracis str.
          CNEVA-9066]
 gi|254740143|ref|ZP_05197835.1| hypothetical protein BantKB_03819 [Bacillus anthracis str. Kruger
          B]
 gi|49177905|gb|AAT53281.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|227003523|gb|ACP13266.1| hypothetical protein BAMEG_3548 [Bacillus anthracis str. CDC 684]
          Length = 92

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQSDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|209521228|ref|ZP_03269950.1| transcriptional regulator, XRE family [Burkholderia sp. H160]
 gi|209498341|gb|EDZ98474.1| transcriptional regulator, XRE family [Burkholderia sp. H160]
          Length = 195

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/88 (18%), Positives = 35/88 (39%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  + +RIR  R     S + L E   ++   +   E+G +   A+ L  ++  L  P
Sbjct: 2  DINTLIARRIRELRDAQAWSLDALAERSKVSRSNISLIERGQSSPTATVLDKLATALNVP 61

Query: 70 ISFFFDVSPTVCSDISSEENNVMDFIST 97
          ++  F+      ++ S         + T
Sbjct: 62 LASLFEQDGAPAAEPSPVSRAAEQAVWT 89


>gi|166153466|ref|YP_001653980.1| transcriptional regulator [Bacillus thuringiensis]
 gi|165875305|gb|ABY68462.1| putative transcriptional regulator [Bacillus thuringiensis]
          Length = 186

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 29/65 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++I+  R    MSQEKL E + ++ Q +  +E   N      L  +S +    +  
Sbjct: 1  MNIGRQIQYFRKRDNMSQEKLAEKIHVSRQSISNWENERNYPDIHNLLMMSILFNVSLDD 60

Query: 73 FFDVS 77
               
Sbjct: 61 LVKGD 65


>gi|170722605|ref|YP_001750293.1| XRE family transcriptional regulator [Pseudomonas putida W619]
 gi|169760608|gb|ACA73924.1| transcriptional regulator, XRE family [Pseudomonas putida W619]
          Length = 187

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 29/68 (42%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +      V  +V   +R  R  +GMSQ  L E  G++ + +   E G   V  + L 
Sbjct: 1  MHKDSAHRASVLQHVSFNVRALRNAVGMSQSALAERSGVSRRMLVAIEAGEKNVSLTTLD 60

Query: 61 HISEVLES 68
           I+E L  
Sbjct: 61 LIAEALGV 68


>gi|218131512|ref|ZP_03460316.1| hypothetical protein BACEGG_03131 [Bacteroides eggerthii DSM
          20697]
 gi|317476468|ref|ZP_07935717.1| helix-turn-helix domain-containing protein [Bacteroides eggerthii
          1_2_48FAA]
 gi|329956590|ref|ZP_08297163.1| DNA-binding helix-turn-helix protein [Bacteroides clarus YIT
          12056]
 gi|217986444|gb|EEC52781.1| hypothetical protein BACEGG_03131 [Bacteroides eggerthii DSM
          20697]
 gi|316907494|gb|EFV29199.1| helix-turn-helix domain-containing protein [Bacteroides eggerthii
          1_2_48FAA]
 gi|328523962|gb|EGF51038.1| DNA-binding helix-turn-helix protein [Bacteroides clarus YIT
          12056]
          Length = 191

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 32/68 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    +S E+L +  G+  +Q+++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKSLRESQSISMEELAQRSGLAIEQIERIENNIDLPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D       
Sbjct: 67 DDQDENGP 74


>gi|170759644|ref|YP_001785784.1| hypothetical protein CLK_3646 [Clostridium botulinum A3 str. Loch
          Maree]
 gi|169406633|gb|ACA55044.1| conserved domain protein [Clostridium botulinum A3 str. Loch
          Maree]
          Length = 65

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          K+I++ R+   MSQE+L + +G+  Q +   E G      +    I +VL   ++  F
Sbjct: 4  KKIKIARIECDMSQEQLADAVGVARQTIGLIEAGKYNPSLNLCISICKVLNKTLNDLF 61


>gi|154500601|ref|ZP_02038639.1| hypothetical protein BACCAP_04274 [Bacteroides capillosus ATCC
          29799]
 gi|150270490|gb|EDM97799.1| hypothetical protein BACCAP_04274 [Bacteroides capillosus ATCC
          29799]
          Length = 75

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 25/62 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G  I   R   G+SQ +L E + ++   + + E     V    +  I + LE P   
Sbjct: 10 KYLGLNIAYYRKERGLSQSRLAERINVSRTHMSRIETADCAVSLDVVFAICDALEVPPEK 69

Query: 73 FF 74
           F
Sbjct: 70 LF 71


>gi|139439103|ref|ZP_01772555.1| Hypothetical protein COLAER_01565 [Collinsella aerofaciens ATCC
           25986]
 gi|133775450|gb|EBA39270.1| Hypothetical protein COLAER_01565 [Collinsella aerofaciens ATCC
           25986]
          Length = 127

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/121 (18%), Positives = 43/121 (35%), Gaps = 9/121 (7%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +++  R   G SQ  L + L +  + V  +E+G       +L   +++L +  +      
Sbjct: 4   KLKQARKENGYSQADLADALNVDIKTVGNWERGKTLPDIEQLWKCAKILHTDPNDLLGWY 63

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTIE 137
                D  +         +  +G +L   + Q    K R KI+E  R      +      
Sbjct: 64  EEHPEDRPTVP-------AGAEG-ELIACYRQ-STEKRRSKILETARDQAELSQAQAAAP 114

Query: 138 E 138
           E
Sbjct: 115 E 115


>gi|39997635|ref|NP_953586.1| Cro/CI family transcriptional regulator [Geobacter sulfurreducens
          PCA]
 gi|39984527|gb|AAR35913.1| transcriptional regulator, Cro/CI family [Geobacter
          sulfurreducens PCA]
 gi|298506575|gb|ADI85298.1| helix-turn-helix transcriptional regulator PuuR, cupin
          domain-containing [Geobacter sulfurreducens KN400]
          Length = 181

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 30/68 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R++  RMI  ++QE+L     +T   + + E        + L+ I +V    +  
Sbjct: 1  MKIGERLKRLRMINSLTQEELANRADLTKGYISQLENDATSPSIATLKDILDVFGVSMQE 60

Query: 73 FFDVSPTV 80
          FF      
Sbjct: 61 FFSDPIGE 68


>gi|29375456|ref|NP_814610.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          V583]
 gi|256854283|ref|ZP_05559647.1| transcriptional regulator [Enterococcus faecalis T8]
 gi|257421117|ref|ZP_05598107.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          X98]
 gi|294781282|ref|ZP_06746628.1| DNA-binding protein [Enterococcus faecalis PC1.1]
 gi|300859696|ref|ZP_07105784.1| helix-turn-helix protein [Enterococcus faecalis TUSoD Ef11]
 gi|29342916|gb|AAO80680.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          V583]
 gi|256709843|gb|EEU24887.1| transcriptional regulator [Enterococcus faecalis T8]
 gi|257162941|gb|EEU92901.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          X98]
 gi|294451618|gb|EFG20074.1| DNA-binding protein [Enterococcus faecalis PC1.1]
 gi|295113927|emb|CBL32564.1| Predicted transcriptional regulators [Enterococcus sp. 7L76]
 gi|300850514|gb|EFK78263.1| helix-turn-helix protein [Enterococcus faecalis TUSoD Ef11]
 gi|323480052|gb|ADX79491.1| helix-turn-helix family protein [Enterococcus faecalis 62]
          Length = 82

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 28/70 (40%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I + R +  M+Q+ L   +G++ Q + + E+            I+ V    I   F    
Sbjct: 13 IHVYRAMARMTQQDLANRVGVSRQTIIQLERNKYNPSLLLAHDIANVFGVTIDDVFTFKE 72

Query: 79 TVCSDISSEE 88
          T+  D+  E 
Sbjct: 73 TLNDDVEQEA 82


>gi|330718467|ref|ZP_08313067.1| XRE family DNA-binding protein [Leuconostoc fallax KCTC 3537]
          Length = 249

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 34/77 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G RI+ +R+    +QE+L   L ++   V  +E G N      +  IS++ E  +  
Sbjct: 1  MNIGDRIKEQRLYKSWTQEQLAHFLNVSRSTVSSWEVGRNYPDLETIVAISDLFEISLDK 60

Query: 73 FFDVSPTVCSDISSEEN 89
                 +  + S +  
Sbjct: 61 LLREDSIMVRETSKKAK 77


>gi|313677248|ref|YP_004055244.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
 gi|312943946|gb|ADR23136.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
          Length = 118

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/99 (18%), Positives = 41/99 (41%), Gaps = 2/99 (2%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +  +G  ++  R  LG+SQ +L + L I  +++  YE G   +    ++  +++      
Sbjct: 4   NKLIGLNLKRYRESLGLSQVQLADYLSINREEISYYENGKRTMPVKLIEKAAKLFGIDEF 63

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
             ++  P   +D         D +   + L+    F +I
Sbjct: 64  DLYESDPE-HNDAKVALAFRADSLG-KEDLEQIADFRKI 100


>gi|307129603|ref|YP_003881619.1| MunI regulatory protein [Dickeya dadantii 3937]
 gi|306527132|gb|ADM97062.1| MunI regulatory protein [Dickeya dadantii 3937]
          Length = 76

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 32/69 (46%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K  + V   +G+R++  R+  G+SQE   E  G+    +   E+GV       L  ++  
Sbjct: 2  KTSDSVKTLLGQRVKALRLQAGLSQEAFAEKCGLDRTYISGIERGVRNPTLEVLYILATG 61

Query: 66 LESPISFFF 74
          L + ++  F
Sbjct: 62 LHTDLTTLF 70


>gi|266620773|ref|ZP_06113708.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium hathewayi DSM 13479]
 gi|288867593|gb|EFC99891.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium hathewayi DSM 13479]
          Length = 113

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/102 (18%), Positives = 43/102 (42%), Gaps = 4/102 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
           V KRIR RR  LGMS  ++   +G         E+G   +    L  ++  L+  + +  
Sbjct: 8   VAKRIRQRRKELGMSSAEVAGKIGRAVHYYGDIERGTCGMSIETLLDLAHYLDLSVDYIL 67

Query: 74  FDVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDD 112
           F  +     D       ++   D  +  + +++ ++++ + +
Sbjct: 68  FGQAGEERIDNPDLAYRILKKYDEKTQKEAIEMMKFYLCLRE 109


>gi|229100652|ref|ZP_04231502.1| hypothetical protein bcere0020_58240 [Bacillus cereus Rock3-29]
 gi|228682832|gb|EEL36860.1| hypothetical protein bcere0020_58240 [Bacillus cereus Rock3-29]
          Length = 142

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 33/73 (45%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++N+G +++  R     SQE +   +G+T Q V K+E   +      L  +S++ E  I 
Sbjct: 3  NMNLGSQLKKFRESKSFSQEDVARKVGVTRQAVYKWESNKSYPDIDNLILLSDLYEVTID 62

Query: 72 FFFDVSPTVCSDI 84
               S     D+
Sbjct: 63 ELIKGSGDAREDL 75


>gi|118586301|ref|ZP_01543755.1| transcriptional regulator, helix-turn-helix XRE-family
          [Oenococcus oeni ATCC BAA-1163]
 gi|118433264|gb|EAV39976.1| transcriptional regulator, helix-turn-helix XRE-family
          [Oenococcus oeni ATCC BAA-1163]
          Length = 122

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 34/72 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++  R    +SQ+ L   L I+ Q + K+E G      + L  +SE+L+  +      
Sbjct: 6  EQLKKYRNKKNLSQKDLAGKLFISRQAISKWESGETTPDLNNLIKLSELLDVSLDTLVLG 65

Query: 77 SPTVCSDISSEE 88
          S    S I +++
Sbjct: 66 SEEQNSRIDNKQ 77


>gi|85701408|ref|YP_459993.1| helix-turn-helix Cro and cI family protein [Bacillus phage WBeta]
 gi|89152506|ref|YP_512337.1| transcription regulator [Bacillus phage Fah]
 gi|76445729|gb|ABA42719.1| transcription regulator [Bacillus phage Fah]
 gi|76564034|gb|ABA46423.1| transcriptional regulator, putative [Bacillus phage Cherry]
 gi|81097471|gb|ABB55414.1| putative transcriptional regulator [Bacillus phage Gamma]
 gi|83658644|gb|ABC40428.1| helix-turn-helix Cro and cI family protein [Bacillus phage WBeta]
          Length = 118

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 32/75 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+R  R    ++Q  LG+ +G+T   V K+E G        ++  ++ L  P+ +    S
Sbjct: 9  RLRQLRRERNLTQHDLGQAIGVTAGSVSKFETGFKPASRETVERAADFLGVPVDYLLGRS 68

Query: 78 PTVCSDISSEENNVM 92
           +   D    +  + 
Sbjct: 69 DSRELDADMNQKYLH 83


>gi|329962332|ref|ZP_08300337.1| DNA-binding helix-turn-helix protein [Bacteroides fluxus YIT
          12057]
 gi|328530193|gb|EGF57074.1| DNA-binding helix-turn-helix protein [Bacteroides fluxus YIT
          12057]
          Length = 191

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 33/68 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    +S E+L +  G+  +Q+++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKSLRESQSISMEELAQRSGLAIEQIERIENNIDLPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D    +  
Sbjct: 67 DDQDEMGP 74


>gi|255282774|ref|ZP_05347329.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
 gi|255266795|gb|EET60000.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
          Length = 147

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 27/53 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++  R+   ++QE++ E L +T Q V ++E G        L+ IS   +  I+
Sbjct: 7  LKKIRIENSLTQEEMAERLAVTRQAVSRWENGDATPNIETLKQISTAFDVSIN 59


>gi|225405572|ref|ZP_03760761.1| hypothetical protein CLOSTASPAR_04793 [Clostridium asparagiforme
          DSM 15981]
 gi|225042882|gb|EEG53128.1| hypothetical protein CLOSTASPAR_04793 [Clostridium asparagiforme
          DSM 15981]
          Length = 81

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 33/72 (45%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+ V++  G  +R  R     +QE+  +  GI+     + E+G + V   R + I++ L 
Sbjct: 10 PDNVNVRFGNELRKMREARRYTQEEFAQLCGISRAYYGRLERGEHSVTLERCKQIADALN 69

Query: 68 SPISFFFDVSPT 79
            +S  F   P 
Sbjct: 70 LTLSDLFINLPD 81


>gi|169825863|ref|YP_001696021.1| MerR family transcriptional regulator [Lysinibacillus sphaericus
          C3-41]
 gi|168990351|gb|ACA37891.1| transcriptional regulator, MerR family [Lysinibacillus sphaericus
          C3-41]
          Length = 132

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 3/88 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGE---CLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VG+++R+ R+  G+SQE++ E    LG +  +V   E G + +  S L+ + + L+ P
Sbjct: 9  KLVGEQLRIIRLSKGLSQEEVAERTGKLGFSKGRVSNIEHGQSNITLSTLETLMKALDIP 68

Query: 70 ISFFFDVSPTVCSDISSEENNVMDFIST 97
              F+           E+N ++D   +
Sbjct: 69 PEELFNFQKLSGVTDIEEKNLMLDIHRS 96


>gi|154498955|ref|ZP_02037333.1| hypothetical protein BACCAP_02947 [Bacteroides capillosus ATCC
          29799]
 gi|150271795|gb|EDM99021.1| hypothetical protein BACCAP_02947 [Bacteroides capillosus ATCC
          29799]
          Length = 115

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 28/68 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I   R   G++Q  L E +GI+   V + E+G  ++    L   ++ L   ++   
Sbjct: 10 IGTNIAKYREAAGLTQAALAEIIGISTAFVSRVERGQKKMKVETLYATAKALNVSVNALL 69

Query: 75 DVSPTVCS 82
              +   
Sbjct: 70 STDSSAAQ 77


>gi|89895494|ref|YP_518981.1| hypothetical protein DSY2748 [Desulfitobacterium hafniense Y51]
 gi|89334942|dbj|BAE84537.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 118

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 2/69 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE--KGVNRVGASRLQHISEVLESPI 70
           I +G RI   R +  M+Q++L E +GIT + + + E    V  +    L  I+++   P 
Sbjct: 50  IQIGLRIAYYRKLNEMTQDQLAERIGITSKYLSQVETPSCVQPISLKTLFAIADLFHVPP 109

Query: 71  SFFFDVSPT 79
             F +    
Sbjct: 110 HKFLEFDKD 118


>gi|309800668|ref|ZP_07694811.1| HTH-type transcriptional regulator xre [Streptococcus infantis
           SK1302]
 gi|308115743|gb|EFO53276.1| HTH-type transcriptional regulator xre [Streptococcus infantis
           SK1302]
          Length = 111

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/99 (17%), Positives = 44/99 (44%), Gaps = 7/99 (7%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD-- 75
           R++  R+   ++Q+++      + Q   ++EKG+ +  A  LQ +++       +     
Sbjct: 6   RLKEIRLNNKLTQKEVANHFQTSPQSYAQWEKGLRKPSAENLQKLADFFNVSTDYLLGKT 65

Query: 76  --VSPTVCSDISSEENNVMDFISTP---DGLQLNRYFIQ 109
               P    D+ +  +N + F  TP   D  ++ + +++
Sbjct: 66  DLPEPDSDIDLDTAIDNSVAFDGTPITDDDREIIKNYLK 104


>gi|296327461|ref|ZP_06870007.1| MerR family transcriptional regulator [Fusobacterium nucleatum
          subsp. nucleatum ATCC 23726]
 gi|296155287|gb|EFG96058.1| MerR family transcriptional regulator [Fusobacterium nucleatum
          subsp. nucleatum ATCC 23726]
          Length = 205

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-S 71
          INVG  I+  R    +  + +    GI+   + + EKG      + ++ I++VLE P+  
Sbjct: 25 INVGITIKNIRKSKKLLLKDVALKCGISSSMLSQIEKGNANPSLNTIKSIAQVLEVPLFK 84

Query: 72 FFFDVSPT 79
          FF D+   
Sbjct: 85 FFMDLEKE 92


>gi|296110822|ref|YP_003621203.1| hypothetical protein LKI_03460 [Leuconostoc kimchii IMSNU 11154]
 gi|295832353|gb|ADG40234.1| hypothetical protein LKI_03460 [Leuconostoc kimchii IMSNU 11154]
          Length = 93

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 26/59 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++G  IR  R    ++Q +L + L +T   +  YE G        L  I+  L + ++
Sbjct: 24 KHIGNNIRYLRYANKITQYQLAKILHVTQSTIAHYENGTRIPDIDNLMDIARNLGADMN 82


>gi|229589612|ref|YP_002871731.1| putative regulatory protein [Pseudomonas fluorescens SBW25]
 gi|229361478|emb|CAY48354.1| putative regulatory protein [Pseudomonas fluorescens SBW25]
          Length = 65

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 26/59 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +R  R  LG SQ  L E LG++ Q +   E G           I++V E PI   F+  
Sbjct: 5  MRQLRSELGWSQADLAERLGVSRQTINAIETGRYDPSLPLAFKIAKVFERPIEGIFEAP 63


>gi|226362736|ref|YP_002780514.1| Xre family DNA-binding protein [Rhodococcus opacus B4]
 gi|226241221|dbj|BAH51569.1| putative Xre family DNA-binding protein [Rhodococcus opacus B4]
          Length = 206

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 36/93 (38%), Gaps = 7/93 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R++  R    ++ ++L    GIT   + K E+       + L  I   L  P+   F
Sbjct: 18  IGPRLKAARQAQRLTLDELAAGCGITKGYLSKIERDHASASVATLVRICAALNIPVGSLF 77

Query: 75  DVSPTVC-------SDISSEENNVMDFISTPDG 100
           + S             IS     + +F+ TP G
Sbjct: 78  ENSAAGEVVRADAYPPISFGGERMAEFLLTPFG 110


>gi|183600119|ref|ZP_02961612.1| hypothetical protein PROSTU_03654 [Providencia stuartii ATCC
          25827]
 gi|188022407|gb|EDU60447.1| hypothetical protein PROSTU_03654 [Providencia stuartii ATCC
          25827]
          Length = 123

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 31/59 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ ++  R   G++    G  + ++ QQ+ +YE G+N +  S L  + E L+  +  F
Sbjct: 19 IGRTLKRLRQNQGLTGADFGRLVNLSQQQISRYECGINHINVSMLLLLLEKLDITVGEF 77


>gi|19703890|ref|NP_603452.1| MerR family transcriptional regulator [Fusobacterium nucleatum
          subsp. nucleatum ATCC 25586]
 gi|19714054|gb|AAL94751.1| Transcriptional regulator, MerR family [Fusobacterium nucleatum
          subsp. nucleatum ATCC 25586]
          Length = 199

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-S 71
          INVG  I+  R    +  + +    GI+   + + EKG      + ++ I++VLE P+  
Sbjct: 19 INVGITIKNIRKSKKLLLKDVALKCGISSSMLSQIEKGNANPSLNTIKSIAQVLEVPLFK 78

Query: 72 FFFDVSPT 79
          FF D+   
Sbjct: 79 FFMDLEKE 86


>gi|320528760|ref|ZP_08029911.1| helix-turn-helix protein [Solobacterium moorei F0204]
 gi|320130843|gb|EFW23422.1| helix-turn-helix protein [Solobacterium moorei F0204]
          Length = 349

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 30/69 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK ++  R    +SQE+L   L IT Q V K+E   +      L  I+ +    I  
Sbjct: 13 MTLGKTLKQLRKETFLSQEQLAAKLNITAQAVSKWENEESYPDILFLPKIAAIFGIKIDE 72

Query: 73 FFDVSPTVC 81
           FD +    
Sbjct: 73 LFDYNQESA 81


>gi|310659792|ref|YP_003937513.1| hypothetical protein CLOST_2493 [Clostridium sticklandii DSM 519]
 gi|308826570|emb|CBH22608.1| protein of unknown function [Clostridium sticklandii]
          Length = 234

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/89 (25%), Positives = 40/89 (44%), Gaps = 5/89 (5%)

Query: 13 INVGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++ G+ I+  R +   M+QE+L E LG++ Q V K+E  V      ++  I ++    + 
Sbjct: 1  MSFGQNIQFLRKMRNKMTQEELAEKLGVSRQTVSKWELDVMYPEMDKVIEICKLFSCSMD 60

Query: 72 FF----FDVSPTVCSDISSEENNVMDFIS 96
                 +VS    SDI  E      +I 
Sbjct: 61 ELIRNDMNVSDEAYSDIRMEYVEPFRYIR 89


>gi|284007367|emb|CBA72754.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 134

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/118 (20%), Positives = 53/118 (44%), Gaps = 16/118 (13%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++++  +R+   R   G++Q+ L +   I  QQ+++YE G +   A  L+ ++ VL    
Sbjct: 9   INMSFSQRVVTLRKQRGLTQQGLSDATCIHVQQIKRYESGSSLPTADALKKLAVVLHVTS 68

Query: 71  SF-FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE--LVRS 125
            F  F+       +   +++  + F    + L          D  V + +I+  +V+S
Sbjct: 69  DFLLFE-----PEECEPKDDMKLRF----EALAAMSA----TDQAVVKAVIDAIMVKS 113


>gi|302869253|ref|YP_003837890.1| helix-turn-helix domain-containing protein [Micromonospora
          aurantiaca ATCC 27029]
 gi|315504272|ref|YP_004083159.1| transcriptional regulator, xre family [Micromonospora sp. L5]
 gi|302572112|gb|ADL48314.1| helix-turn-helix domain protein [Micromonospora aurantiaca ATCC
          27029]
 gi|315410891|gb|ADU09008.1| transcriptional regulator, XRE family [Micromonospora sp. L5]
          Length = 81

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 30/64 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  RI + R   G+S+ +L + LG+ +Q V   E+G  R        I+   E P+   F
Sbjct: 5  VHNRIAVLRAERGISRRQLADALGVHYQTVGYLERGEFRPSLHLALRIAAYFEVPVEVVF 64

Query: 75 DVSP 78
           + P
Sbjct: 65 SIEP 68


>gi|253577297|ref|ZP_04854615.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
          D14]
 gi|251843301|gb|EES71331.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
          D14]
          Length = 117

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 33/69 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKR+R  R  + ++QEKL E + ++   + + E+G   +    L  ++  L   + +  
Sbjct: 6  LGKRLRQERHKMHLTQEKLAERIEVSDAYIGQIERGERSLSLETLVKLANQLGVTVDYLL 65

Query: 75 DVSPTVCSD 83
            S  +  D
Sbjct: 66 HDSIEISDD 74


>gi|228911766|ref|ZP_04075535.1| transcriptional regulator [Bacillus thuringiensis IBL 200]
 gi|228847858|gb|EEM92743.1| transcriptional regulator [Bacillus thuringiensis IBL 200]
          Length = 186

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 29/65 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++I+  R    MSQEKL E + ++ Q +  +E   N      L  +S +    +  
Sbjct: 1  MNIGRQIQYFRKRDNMSQEKLAEKIHVSRQSISNWENERNYPDIHNLLMMSILFNVSLDD 60

Query: 73 FFDVS 77
               
Sbjct: 61 LVKGD 65


>gi|225375548|ref|ZP_03752769.1| hypothetical protein ROSEINA2194_01173 [Roseburia inulinivorans
          DSM 16841]
 gi|225212527|gb|EEG94881.1| hypothetical protein ROSEINA2194_01173 [Roseburia inulinivorans
          DSM 16841]
          Length = 145

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            R +  MSQ++L + +G++ Q + KYE G +     R + +++V    +   
Sbjct: 14 QLRKLNHMSQDELADQIGVSRQTLSKYETGESLPDIERCKRLADVFGVTVDDL 66


>gi|239814987|ref|YP_002943897.1| XRE family transcriptional regulator [Variovorax paradoxus S110]
 gi|239801564|gb|ACS18631.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 190

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 31/60 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++R  RM   +S  +L +  GI+   + + E+G+       L+ +++ L  P S FF
Sbjct: 9  IGAQVRALRMAAEVSGGELAKTSGISASMLSRIERGLVSPSVETLERLAQGLHVPTSRFF 68


>gi|188992517|ref|YP_001904527.1| hypothetical protein xccb100_3122 [Xanthomonas campestris pv.
          campestris str. B100]
 gi|167734277|emb|CAP52487.1| hypothetical protein predicted by Glimmer/Critica [Xanthomonas
          campestris pv. campestris]
          Length = 128

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 35/74 (47%), Gaps = 4/74 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V  R+R  R   G+SQ ++G  +G+       ++ +YE G   +    L  ++E LE P 
Sbjct: 12 VAARLRQARERQGLSQREVGMRMGLDKDTASARISRYESGAMSISLEALFEMAEALEVPP 71

Query: 71 SFFFDVSPTVCSDI 84
          +F    SP +   I
Sbjct: 72 AFLLASSPGMADAI 85


>gi|167032863|ref|YP_001668094.1| XRE family transcriptional regulator [Pseudomonas putida GB-1]
 gi|166859351|gb|ABY97758.1| transcriptional regulator, XRE family [Pseudomonas putida GB-1]
          Length = 177

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 25/55 (45%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +V   +R  R   GMSQ  L E  G++ + +   E G   V  + L  I+E L  
Sbjct: 4  HVSLNVRSLRNAAGMSQTALAERSGVSRRMLVAIEAGEKNVSLTTLDLIAEALGV 58


>gi|187250867|ref|YP_001875349.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Elusimicrobium minutum Pei191]
 gi|186971027|gb|ACC98012.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Elusimicrobium minutum Pei191]
          Length = 214

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/81 (16%), Positives = 38/81 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK+I   R  L ++Q++L + +G+    + ++E          ++ +S+ L     +
Sbjct: 1  MSIGKKILQARRELNLTQKELAQKIGLPGSTIARWETDSFSPSPKNIEKLSKALGREYKY 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          F++    + +     +  + D
Sbjct: 61 FYETQEDIFTVFKKAKGEIRD 81


>gi|153813367|ref|ZP_01966035.1| hypothetical protein RUMOBE_03786 [Ruminococcus obeum ATCC 29174]
 gi|149830544|gb|EDM85635.1| hypothetical protein RUMOBE_03786 [Ruminococcus obeum ATCC 29174]
          Length = 84

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/73 (30%), Positives = 31/73 (42%), Gaps = 5/73 (6%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECL-----GITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D+ +GK +R  R   G+SQEKL   L      I      KYE G   +  S L  + ++ 
Sbjct: 11 DVYIGKNLRRLREKFGLSQEKLCAELQCRNCDIGRSTYAKYENGELNIRISVLMELKKIY 70

Query: 67 ESPISFFFDVSPT 79
                FFD   +
Sbjct: 71 NCSYDEFFDDLDS 83


>gi|309776993|ref|ZP_07671962.1| transcriptional regulator [Erysipelotrichaceae bacterium 3_1_53]
 gi|308915203|gb|EFP60974.1| transcriptional regulator [Erysipelotrichaceae bacterium 3_1_53]
          Length = 99

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 36/65 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           N+G+ I+    +  M+Q +LGE LG++ + + KY  G +      L+ I  +L+  I+ 
Sbjct: 2  RNIGEIIQDNLEMKNMTQSELGERLGLSQKAISKYVTGKSLPSIDTLEKICSILDVNITS 61

Query: 73 FFDVS 77
           F+++
Sbjct: 62 CFNLN 66


>gi|259417313|ref|ZP_05741232.1| transcriptional regulator, XRE family with cupin sensor
          [Silicibacter sp. TrichCH4B]
 gi|259346219|gb|EEW58033.1| transcriptional regulator, XRE family with cupin sensor
          [Silicibacter sp. TrichCH4B]
          Length = 204

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 29/69 (42%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          NVG  IR RR  L ++ + L +  G++   + + E+         L  IS  L+  + +F
Sbjct: 11 NVGPAIRKRRKQLKLTLQALCDKSGVSVGYLSQVERDNATPSLGTLAQISAALDVGLDYF 70

Query: 74 FDVSPTVCS 82
             S     
Sbjct: 71 ISASKPSDG 79


>gi|228938970|ref|ZP_04101570.1| hypothetical protein bthur0008_16320 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|228971851|ref|ZP_04132472.1| hypothetical protein bthur0003_16290 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228978459|ref|ZP_04138836.1| hypothetical protein bthur0002_16640 [Bacillus thuringiensis
          Bt407]
 gi|228781476|gb|EEM29677.1| hypothetical protein bthur0002_16640 [Bacillus thuringiensis
          Bt407]
 gi|228787941|gb|EEM35899.1| hypothetical protein bthur0003_16290 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228820819|gb|EEM66844.1| hypothetical protein bthur0008_16320 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|326939471|gb|AEA15367.1| transcriptional repressor [Bacillus thuringiensis serovar
          chinensis CT-43]
          Length = 149

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G++++  R   G SQE + + +G+T Q V K+E   +      L  +SE+    + 
Sbjct: 1  MSIGEQLKKLRESKGFSQEDVAKKIGVTRQAVYKWENDKSYPDIHNLILLSEMYNVTLD 59


>gi|229076564|ref|ZP_04209524.1| hypothetical protein bcere0024_50030 [Bacillus cereus Rock4-18]
 gi|229099783|ref|ZP_04230708.1| hypothetical protein bcere0020_50010 [Bacillus cereus Rock3-29]
 gi|229118845|ref|ZP_04248194.1| hypothetical protein bcere0017_51100 [Bacillus cereus Rock1-3]
 gi|228664646|gb|EEL20139.1| hypothetical protein bcere0017_51100 [Bacillus cereus Rock1-3]
 gi|228683672|gb|EEL37625.1| hypothetical protein bcere0020_50010 [Bacillus cereus Rock3-29]
 gi|228706597|gb|EEL58810.1| hypothetical protein bcere0024_50030 [Bacillus cereus Rock4-18]
          Length = 285

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGIEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|164687366|ref|ZP_02211394.1| hypothetical protein CLOBAR_01007 [Clostridium bartlettii DSM
          16795]
 gi|164603790|gb|EDQ97255.1| hypothetical protein CLOBAR_01007 [Clostridium bartlettii DSM
          16795]
          Length = 125

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 35/80 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ ++  R    +SQ KL + LGI+   +  YE+G      + L  I++  +    +   
Sbjct: 3  GQNLKKLRTSKNLSQSKLSKILGISSSTIGMYEQGRRFPDQTILTKIADFFDVSTDYLLG 62

Query: 76 VSPTVCSDISSEENNVMDFI 95
           +P       +   + M+FI
Sbjct: 63 RNPQNPPTEFNNATDAMEFI 82


>gi|254302178|ref|ZP_04969536.1| MerR family transcriptional regulator [Fusobacterium nucleatum
          subsp. polymorphum ATCC 10953]
 gi|148322370|gb|EDK87620.1| MerR family transcriptional regulator [Fusobacterium nucleatum
          subsp. polymorphum ATCC 10953]
          Length = 184

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/85 (15%), Positives = 38/85 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R   GMS  +L   + ++   + + E+G        L+ I+  L+  +++
Sbjct: 1  MTIGEKLKKSRNDKGMSLRELATKVELSASFLSQIEQGKASPSIENLKKIAHTLDVRVAY 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
            +       +I   +   + +I +
Sbjct: 61 LIEDEEDDIRNIEHIKKENIRYIES 85


>gi|158317409|ref|YP_001509917.1| XRE family transcriptional regulator [Frankia sp. EAN1pec]
 gi|158112814|gb|ABW15011.1| transcriptional regulator, XRE family [Frankia sp. EAN1pec]
          Length = 490

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 1/62 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEV 65
           P P  + +G  +R  R   G++Q++L + LG     V K E G   +   S L+HI+  
Sbjct: 12 RPTPTSVGIGSLLRAYRQAHGLTQQQLADLLGFDQSYVSKVESGRRAIHDISTLRHIARN 71

Query: 66 LE 67
          L 
Sbjct: 72 LG 73


>gi|312794293|ref|YP_004027216.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
          kristjanssonii 177R1B]
 gi|312181433|gb|ADQ41603.1| helix-turn-helix domain protein [Caldicellulosiruptor
          kristjanssonii 177R1B]
          Length = 68

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 30/64 (46%), Gaps = 1/64 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFF 74
          G++IR  R   G+SQ +  +  G++   + + E G       S ++ IS+ L+  I  F 
Sbjct: 4  GRKIRELRKSKGLSQREFAKLAGLSQSYISELENGIKTNPSLSVIKKISKALKVDIKVFI 63

Query: 75 DVSP 78
          +   
Sbjct: 64 EEGE 67


>gi|303238807|ref|ZP_07325339.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
 gi|302593686|gb|EFL63402.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
          Length = 194

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 29/55 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G  I   R   GM+Q++L + + I+ + + K+E+G+     S L  +S +L   I
Sbjct: 7  GNLICSLRKEKGMTQKQLADTMNISDKTISKWERGLGCPDVSLLPELSALLGVNI 61


>gi|291531986|emb|CBK97571.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
          Length = 110

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/82 (18%), Positives = 34/82 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R  R     +Q+++ + LG + Q   KYE G   +   R   +++     + +   +
Sbjct: 5  QRLRDLREDADKTQQEIADYLGTSAQHYGKYESGKAEIPLERAVLLAKYYNVSLDYIAGI 64

Query: 77 SPTVCSDISSEENNVMDFISTP 98
          S +     S    + +  +S  
Sbjct: 65 SSSRHPLTSDSSLSPIGILSDK 86


>gi|169335193|ref|ZP_02862386.1| hypothetical protein ANASTE_01601 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169257931|gb|EDS71897.1| hypothetical protein ANASTE_01601 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 120

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 29/68 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +I+  R   G +QE L E + ++   +   E G+ ++    +  I++ L   +    
Sbjct: 8  VGGKIKEARKKQGYTQETLAEIIDLSASHLSHVESGIAKISLPTIVAIAKTLNVSLDDLL 67

Query: 75 DVSPTVCS 82
           +     S
Sbjct: 68 SLEIDNQS 75


>gi|314937137|ref|ZP_07844484.1| DNA-binding protein [Staphylococcus hominis subsp. hominis C80]
 gi|313655756|gb|EFS19501.1| DNA-binding protein [Staphylococcus hominis subsp. hominis C80]
          Length = 292

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 39/70 (55%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M+  K + +     VGKRI+  R   G++QE  G+  G +   V  +EKG++   ASRL+
Sbjct: 1  MLRRKIMYSYNKEQVGKRIKSIRQQKGLTQESFGKLFGASKGNVATWEKGISLPNASRLR 60

Query: 61 HISEVLESPI 70
           I++++   +
Sbjct: 61 EIADLVSITV 70


>gi|312868622|ref|ZP_07728816.1| DNA-binding helix-turn-helix protein [Lactobacillus oris
          PB013-T2-3]
 gi|311095831|gb|EFQ54081.1| DNA-binding helix-turn-helix protein [Lactobacillus oris
          PB013-T2-3]
          Length = 68

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 2/58 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPISFF 73
           RIR  R   GMSQ +LG  +G++ Q +  YE  + R+    +   ++  L    ++ 
Sbjct: 3  NRIRECRKAAGMSQAELGNIVGLSRQAISLYEINL-RMPTFEMWECLASALHVSPAYL 59


>gi|253577026|ref|ZP_04854349.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
          D14]
 gi|251843636|gb|EES71661.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
          D14]
          Length = 143

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 27/75 (36%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R     +QE+LG  L +T   +  YE G        L  IS V    I +    S
Sbjct: 6  RLKQLRKEHKWTQEELGAKLNLTKVSISGYENGNRTPDMDTLIKISNVFNVSIDYLVGKS 65

Query: 78 PTVCSDISSEENNVM 92
               D       V+
Sbjct: 66 DVRSVDSPIISGQVL 80


>gi|253582192|ref|ZP_04859415.1| transcription regulator [Fusobacterium varium ATCC 27725]
 gi|251835731|gb|EES64269.1| transcription regulator [Fusobacterium varium ATCC 27725]
          Length = 185

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          INVG  I+  R+  G+  + + E   I+   + + EKG      + ++ I++ LE P+  
Sbjct: 5  INVGAIIKRIRIEKGLLLKDVAEKCEISSSMLSQIEKGNANPSLNTIKSIAQALEIPLFK 64

Query: 73 FF 74
          FF
Sbjct: 65 FF 66


>gi|229181840|ref|ZP_04309148.1| Transcriptional regulator [Bacillus cereus 172560W]
 gi|228601638|gb|EEK59151.1| Transcriptional regulator [Bacillus cereus 172560W]
          Length = 116

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 32/66 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R+   M+QE+ G+ L +T   V K+E G        ++ I++    P+++ +  +
Sbjct: 6  RIKQIRLEHKMNQEQFGKELDLTKGTVSKFENGKAFPSRETIEKIAKRFAVPVNYLYGEN 65

Query: 78 PTVCSD 83
               D
Sbjct: 66 NVANHD 71


>gi|332983091|ref|YP_004464532.1| helix-turn-helix domain-containing protein [Mahella australiensis
           50-1 BON]
 gi|332700769|gb|AEE97710.1| helix-turn-helix domain protein [Mahella australiensis 50-1 BON]
          Length = 124

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/125 (18%), Positives = 47/125 (37%), Gaps = 17/125 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+RI+  R    M+QE+ G+  GI    V  YE   +    S  + I++     I +
Sbjct: 2   VTLGQRIKQLRKEHNMTQEEFGKLFGIVKSTVSLYEHDKSIPDDSIKKMIADYFNVSIDY 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
               +        + ++ + + I                   +  +II L  S+   EK+
Sbjct: 62  LMGRTDIRYPAKKTIDDKLKEVIG----------------PYIASQIIAL-ESLSQEEKQ 104

Query: 133 YRTIE 137
             ++ 
Sbjct: 105 TISVL 109


>gi|329769474|ref|ZP_08260885.1| hypothetical protein HMPREF0433_00649 [Gemella sanguinis M325]
 gi|328838805|gb|EGF88401.1| hypothetical protein HMPREF0433_00649 [Gemella sanguinis M325]
          Length = 130

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 32/71 (45%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + ++G  I   R   GM+Q+ L + L IT + V K+E+ +     + L  I+E+    + 
Sbjct: 3  NKSMGDIISTLRKEKGMTQKDLADMLNITDKAVSKWERNIAFPDTATLPKIAEIFGVSVE 62

Query: 72 FFFDVSPTVCS 82
             +      +
Sbjct: 63 ELMNAKSIPGN 73


>gi|258512346|ref|YP_003185780.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
 gi|257479072|gb|ACV59391.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
          Length = 82

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 34/77 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R  R + G+S  +L E  G++   +   E G     A++L  I+E L   +S  +  
Sbjct: 6  QRLRYYRKLRGLSVRELAERAGVSVSYIYAIESGARGSNAAKLGLIAEALGVSLSDLWGD 65

Query: 77 SPTVCSDISSEENNVMD 93
          +     DI  +     D
Sbjct: 66 ARPEKGDIPRDPGGEND 82


>gi|229082949|ref|ZP_04215370.1| transcriptional regulator [Bacillus cereus Rock4-2]
 gi|228700349|gb|EEL52914.1| transcriptional regulator [Bacillus cereus Rock4-2]
          Length = 186

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 29/65 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++I+  R    MSQEKL E + ++ Q +  +E   N      L  +S +    +  
Sbjct: 1  MNIGRQIQYLRKRDNMSQEKLAEKIHVSRQSISNWENERNYPDIHNLLMMSILFNVSLDD 60

Query: 73 FFDVS 77
               
Sbjct: 61 LVKGD 65


>gi|260586996|ref|ZP_05852909.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
           hansenii DSM 20583]
 gi|260542680|gb|EEX23249.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
           hansenii DSM 20583]
          Length = 185

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 35/86 (40%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++   R    ++QE L E   ++ Q V K+E G +     ++  I++  E  +      
Sbjct: 5   EQLSKLRKEANLTQEDLAEKCDVSRQAVAKWEGGESLPDVYKISQIAKTFEVSLEELIWG 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ 102
                S +S   +  M FI   +  Q
Sbjct: 65  KDRQDSQMSIARDIYMQFIDNMESFQ 90


>gi|315926028|ref|ZP_07922230.1| conserved hypothetical protein [Pseudoramibacter alactolyticus ATCC
           23263]
 gi|315620668|gb|EFV00647.1| conserved hypothetical protein [Pseudoramibacter alactolyticus ATCC
           23263]
          Length = 323

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 40/99 (40%), Gaps = 4/99 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R     SQE+L E +G++ Q + K+E   +    +RL  +S++      F     
Sbjct: 6   KIIYLRKRAEWSQEELAEQMGVSRQSISKWEGAQSIPDMNRLLKLSQIFGVSTDFLLKDE 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
                   S E +  +   T D L+    ++   D + R
Sbjct: 66  LGPEQLTPSVETDAPEGTVTVD-LETAGAYL---DARER 100


>gi|313885500|ref|ZP_07819250.1| DNA-binding helix-turn-helix protein [Eremococcus coleocola
           ACS-139-V-Col8]
 gi|312619230|gb|EFR30669.1| DNA-binding helix-turn-helix protein [Eremococcus coleocola
           ACS-139-V-Col8]
          Length = 327

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/94 (19%), Positives = 37/94 (39%), Gaps = 2/94 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE+  E LG++ Q V K+E   +    +RL  +S++      +     
Sbjct: 6   KIIELRKKNGWSQEEFAEMLGVSRQSVSKWEGAQSTPELNRLIQMSKIFSVSTDYLLKDD 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                   ++   + D       L+    ++++ 
Sbjct: 66  VENLDPEQADLEWLED--RRKFSLEEANSYLKLK 97


>gi|291527875|emb|CBK93461.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
          Length = 205

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 38/78 (48%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G+R + RR  L ++Q  + + +G+T   +Q+YE G        +   +SE L   + 
Sbjct: 8  RIIGERAKSRRTELNLTQPYVADKMGVTASTIQRYEAGTIDNTKKMVLEGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    + +  +DI+ ++ 
Sbjct: 68 WLKGETDSYETDITDKKE 85


>gi|260844262|ref|YP_003222040.1| putative phage repressor CI [Escherichia coli O103:H2 str. 12009]
 gi|257759409|dbj|BAI30906.1| putative phage repressor CI [Escherichia coli O103:H2 str. 12009]
          Length = 229

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 29/110 (26%), Positives = 46/110 (41%), Gaps = 3/110 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RI       G +Q +L   LG++ Q VQ +  G     + +L H+SE+   P S+F   
Sbjct: 9   NRIAAMLKAKGWTQAQLARKLGVSAQSVQYWTTGKTFPRSDKLAHLSEISGYPQSWFLGE 68

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             +       +     D +       L+  F   D   VR  +I++VRSI
Sbjct: 69  DSSPTFSSQEKHQTRTDSVVFN---VLDVEFSCGDGTHVRGDLIDVVRSI 115


>gi|257139484|ref|ZP_05587746.1| helix-turn-helix domain-containing protein [Burkholderia
           thailandensis E264]
          Length = 119

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/117 (17%), Positives = 50/117 (42%), Gaps = 16/117 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             VGK I  RR    ++QE + E LG+  + + + E+G+     +RL  +++V +  ++ 
Sbjct: 15  RRVGKAIARRREESQLTQEDVAEQLGVGNEAISRIERGIVMPTVARLVQLAKVFQCNVAD 74

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
               +     D +   + ++  +S                 + R+ ++ +V ++ + 
Sbjct: 75  LLTEASHRPDDQARHLSQLLTKLS----------------PQDRETLVSIVETLAAR 115


>gi|197106394|ref|YP_002131771.1| transcriptional regulator,Cro/CI family [Phenylobacterium
          zucineum HLK1]
 gi|196479814|gb|ACG79342.1| transcriptional regulator,Cro/CI family [Phenylobacterium
          zucineum HLK1]
          Length = 86

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 26/68 (38%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +  R+++ R     SQ  L E LG++ Q V   E G           I+ V   PI 
Sbjct: 19 DAAMKNRLKVLRAERDWSQGDLAERLGVSRQSVNAIETGKYDPSLPLAFRIARVFGLPIE 78

Query: 72 FFFDVSPT 79
            F+    
Sbjct: 79 AIFEDGGA 86


>gi|188492663|ref|ZP_02999933.1| regulatory protein [Escherichia coli 53638]
 gi|188487862|gb|EDU62965.1| regulatory protein [Escherichia coli 53638]
 gi|315615351|gb|EFU95983.1| helix-turn-helix family protein [Escherichia coli 3431]
          Length = 229

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 29/110 (26%), Positives = 46/110 (41%), Gaps = 3/110 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RI       G +Q +L   LG++ Q VQ +  G     + +L H+SE+   P S+F   
Sbjct: 9   NRIAAMLKAKGWTQAQLARKLGVSAQSVQYWTTGKTFPRSDKLAHLSEISGYPQSWFLGE 68

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             +       +     D +       L+  F   D   VR  +I++VRSI
Sbjct: 69  DSSPTFSSQEKHQTRTDSVVFN---VLDVEFSCGDGTHVRGDLIDVVRSI 115


>gi|83309267|ref|YP_419531.1| anaerobic benzoate catabolism transcriptional regulator
           [Magnetospirillum magneticum AMB-1]
 gi|82944108|dbj|BAE48972.1| Shikimate kinase [Magnetospirillum magneticum AMB-1]
          Length = 290

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/114 (20%), Positives = 48/114 (42%), Gaps = 4/114 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G R++  R   GMS++ L    GI+ + + + E G   V  + L  +++ +++PI+ 
Sbjct: 12  RRLGDRVKGFRARRGMSRKDLSSHAGISERYLAQLEGGQANVSVNILWLLAQAMDTPITE 71

Query: 73  FFDVSPTVCSDISSEENNVMDFIS---TPDGLQLNR-YFIQIDDVKVRQKIIEL 122
             +                +D ++     +   L R  F +   +K R  +I L
Sbjct: 72  LIEAEAEASHPDLPLAKKFLDQLTPDQQSEAYVLLRQNFKRGLKLKRRVALIGL 125


>gi|56419027|ref|YP_146345.1| transcriptional repressor of PBSX genes [Geobacillus kaustophilus
           HTA426]
 gi|56378869|dbj|BAD74777.1| transcriptional repressor of PBSX genes [Geobacillus kaustophilus
           HTA426]
          Length = 121

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/121 (17%), Positives = 49/121 (40%), Gaps = 17/121 (14%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  GKR+R  R  + M+Q+ L +   +    +  YE+         ++ +++       +
Sbjct: 1   MTFGKRLRFLRKKMNMTQKDLADKFSLGESTIGMYERDEREPSFEFVRQLADFFNVTTDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPD-GL---QLNRYFIQIDDVKVRQ----KIIELVR 124
                        SE++++ + +  P+ GL   +L          + R+    KI E+++
Sbjct: 61  L---LGRTDHPNPSEQDDIPEELKDPELGLFFKELAEA------PEERREQLLKIWEILK 111

Query: 125 S 125
           S
Sbjct: 112 S 112


>gi|315222450|ref|ZP_07864351.1| helix-turn-helix protein [Streptococcus anginosus F0211]
 gi|315188474|gb|EFU22188.1| helix-turn-helix protein [Streptococcus anginosus F0211]
          Length = 133

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 41/79 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I   R   GM+Q +L E +G+T + V K+E+ ++    + +  ++++ ++ +    
Sbjct: 6  LGMMISSLRKAKGMTQLELAEKMGVTDKAVSKWERDLSYPDINTIPKLADLFDTSVDELM 65

Query: 75 DVSPTVCSDISSEENNVMD 93
               +  +  + +++++D
Sbjct: 66 QGQTVMKENKKNRKSDIVD 84


>gi|325678268|ref|ZP_08157896.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324110031|gb|EGC04219.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 199

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 32/61 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  IR  R+  G++Q++L + + ++ + V K+E G      S L  ++E+ ++ I    +
Sbjct: 7  GALIRKLRVGKGLTQKQLADMINVSDKAVSKWECGGGCPDISLLSALAEIFDTDIQVLLN 66

Query: 76 V 76
           
Sbjct: 67 G 67


>gi|227502499|ref|ZP_03932548.1| transcriptional regulator [Corynebacterium accolens ATCC 49725]
 gi|306835073|ref|ZP_07468116.1| DNA-binding protein [Corynebacterium accolens ATCC 49726]
 gi|227076772|gb|EEI14735.1| transcriptional regulator [Corynebacterium accolens ATCC 49725]
 gi|304569054|gb|EFM44576.1| DNA-binding protein [Corynebacterium accolens ATCC 49726]
          Length = 469

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/86 (26%), Positives = 33/86 (38%), Gaps = 6/86 (6%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+R  R    +SQ  L   LG++   V + E  V  +    L  I+EV     +FF
Sbjct: 5  YVGSRLRQLRRERDLSQASLAGTLGLSASYVNQIEHDVRPLTVPVLLRITEVFGVDATFF 64

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
                   D S     + D I   +
Sbjct: 65 ------SRDDDSRLLAEIQDVIQDKE 84


>gi|160891591|ref|ZP_02072594.1| hypothetical protein BACUNI_04044 [Bacteroides uniformis ATCC
          8492]
 gi|270295331|ref|ZP_06201532.1| conserved hypothetical protein [Bacteroides sp. D20]
 gi|317478327|ref|ZP_07937491.1| helix-turn-helix domain-containing protein [Bacteroides sp.
          4_1_36]
 gi|156858998|gb|EDO52429.1| hypothetical protein BACUNI_04044 [Bacteroides uniformis ATCC
          8492]
 gi|270274578|gb|EFA20439.1| conserved hypothetical protein [Bacteroides sp. D20]
 gi|316905486|gb|EFV27276.1| helix-turn-helix domain-containing protein [Bacteroides sp.
          4_1_36]
          Length = 191

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 32/68 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    +S E+L +  G+  +Q+++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKSLRESQSISMEELAQRSGLAIEQIERIENNIDLPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D       
Sbjct: 67 DDQDENGP 74


>gi|56964891|ref|YP_176622.1| transcriptional regulator [Bacillus clausii KSM-K16]
 gi|56911134|dbj|BAD65661.1| transcriptional regulator [Bacillus clausii KSM-K16]
          Length = 109

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          KR+R  R    ++Q+ +   LGIT      YE+G N     +L+ ++E+    IS+ 
Sbjct: 6  KRLRELRKAHQLTQQDVASFLGITESAYGFYEQGRNEPSLRKLKQLAEIYHVSISYL 62


>gi|328956484|ref|YP_004373870.1| conserved hypothetical protein; possible transcriptional regulator
           A [Carnobacterium sp. 17-4]
 gi|328672808|gb|AEB28854.1| conserved hypothetical protein; possible transcriptional regulator
           A [Carnobacterium sp. 17-4]
          Length = 172

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/102 (21%), Positives = 39/102 (38%), Gaps = 10/102 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+R++  RM    SQ  + + L I+ Q + K+E G +      L  +S   +  I  
Sbjct: 1   MVLGERLKQSRMNKRYSQGDVAKHLHISRQSISKWENGNSYPDLDNLAKLSTYYDVSIDE 60

Query: 73  FFDVS----PTVCSDISSEENNVMDFI------STPDGLQLN 104
                      +  +    ENNV   +         +GL L 
Sbjct: 61  LLKEDQKLKKEIEENKGETENNVHKLVFIHGDTDKDEGLILL 102


>gi|326388765|ref|ZP_08210354.1| XRE family transcriptional regulator [Novosphingobium
          nitrogenifigens DSM 19370]
 gi|326206789|gb|EGD57617.1| XRE family transcriptional regulator [Novosphingobium
          nitrogenifigens DSM 19370]
          Length = 190

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 29/65 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR RR  LGM+ + L    G++   + + E+ +       L  I+  L   +S+F 
Sbjct: 16 IGAAIRDRRKRLGMTLQALATASGLSAPFLSQVERDLAMPSLVSLTAIAAALGVEMSYFV 75

Query: 75 DVSPT 79
             P 
Sbjct: 76 GTPPP 80


>gi|326382822|ref|ZP_08204512.1| transcriptional regulator, XRE family protein [Gordonia
           neofelifaecis NRRL B-59395]
 gi|326198412|gb|EGD55596.1| transcriptional regulator, XRE family protein [Gordonia
           neofelifaecis NRRL B-59395]
          Length = 186

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/98 (19%), Positives = 37/98 (37%), Gaps = 6/98 (6%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D+ +G R+R  R   G+S  +L     I    + + E G        L  +   L+ P++
Sbjct: 3   DLGIGDRLRELRAARGLSLSELARRADIGKATLSEIESGRRNPNIETLYALCAPLDVPLT 62

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTP----DGLQLNR 105
                +P      +     V   +ST     + +++ R
Sbjct: 63  GMLGETPGTHGTAAG--GMVTVLLSTRHLPAETVEVFR 98


>gi|289422894|ref|ZP_06424724.1| transcriptional regulator, xre family [Peptostreptococcus
          anaerobius 653-L]
 gi|289156699|gb|EFD05334.1| transcriptional regulator, xre family [Peptostreptococcus
          anaerobius 653-L]
          Length = 212

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 27/55 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +N G++I+  R    ++Q+K+ + L ++ Q V  +E   N      + ++S    
Sbjct: 1  MNFGEQIKKIRAEKNLTQQKMADMLNVSRQAVSNWENDKNLPDIEMIINMSRAFN 55


>gi|284006177|emb|CBA71418.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 130

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 35/58 (60%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+RI  RR  LG+    L + +G++   V ++E+GV+ +G  +L +ISE L+    +
Sbjct: 9  IGRRIYERRTELGLRAIDLADLIGVSRVAVSQWERGVSVLGGDKLMNISEALKCSPEW 66


>gi|284034421|ref|YP_003384352.1| XRE family transcriptional regulator [Kribbella flavida DSM
          17836]
 gi|283813714|gb|ADB35553.1| transcriptional regulator, XRE family [Kribbella flavida DSM
          17836]
          Length = 200

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 25/66 (37%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R RR   G+S  +L    GI    + + E G        +  +S  L  P+S   
Sbjct: 14 LGVNLRARRDEQGISLSELARRSGIAKGTLSQLESGAGNPTIETVFSLSNALGVPVSALL 73

Query: 75 DVSPTV 80
             P  
Sbjct: 74 SEPPAS 79


>gi|226305059|ref|YP_002765017.1| Xre family DNA-binding protein [Rhodococcus erythropolis PR4]
 gi|226184174|dbj|BAH32278.1| putative Xre family DNA-binding protein [Rhodococcus erythropolis
           PR4]
          Length = 470

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/101 (25%), Positives = 42/101 (41%), Gaps = 12/101 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G+SQ  L + L I+   + + E  V  +    L  ISEV     +FF
Sbjct: 5   FVGVRLRQLRTERGLSQASLAKTLEISASYLNQIEHDVRPLTVPVLLRISEVFGVDTTFF 64

Query: 74  F------------DVSPTVCSDISSEENNVMDFISTPDGLQ 102
                        +V+      I ++ + + + +ST  GL 
Sbjct: 65  SPQDDTRLIAEMREVALDQEMGIDADAHEIAEMVSTHPGLA 105


>gi|126649566|ref|ZP_01721807.1| Transcriptional regulator, MerR family protein [Bacillus sp.
          B14905]
 gi|126593891|gb|EAZ87814.1| Transcriptional regulator, MerR family protein [Bacillus sp.
          B14905]
          Length = 129

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 3/88 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGE---CLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VG+++R+ R+  G+SQE++ E    LG +  +V   E G + +  S L+ + + L+ P
Sbjct: 6  KLVGEQLRIIRLSKGLSQEEVAERTGKLGFSKGRVSNIEHGQSNITLSTLEILMKALDIP 65

Query: 70 ISFFFDVSPTVCSDISSEENNVMDFIST 97
              F+           E+N ++D   +
Sbjct: 66 PEELFNFQKLSGVTDIEEKNLMLDIHRS 93


>gi|73697820|gb|AAZ81517.1| PlcR [Bacillus weihenstephanensis]
          Length = 285

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKQLSDNV-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|34762120|ref|ZP_00143128.1| Transcriptional regulator, MerR family [Fusobacterium nucleatum
          subsp. vincentii ATCC 49256]
 gi|237741413|ref|ZP_04571894.1| transcriptional regulator [Fusobacterium sp. 4_1_13]
 gi|256846585|ref|ZP_05552042.1| transcriptional regulator [Fusobacterium sp. 3_1_36A2]
 gi|294784172|ref|ZP_06749473.1| transcriptional regulator, MerR family [Fusobacterium sp. 3_1_27]
 gi|27888197|gb|EAA25255.1| Transcriptional regulator, MerR family [Fusobacterium nucleatum
          subsp. vincentii ATCC 49256]
 gi|229430945|gb|EEO41157.1| transcriptional regulator [Fusobacterium sp. 4_1_13]
 gi|256718354|gb|EEU31910.1| transcriptional regulator [Fusobacterium sp. 3_1_36A2]
 gi|294488242|gb|EFG35587.1| transcriptional regulator, MerR family [Fusobacterium sp. 3_1_27]
          Length = 184

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/85 (15%), Positives = 38/85 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R   GMS  +L   + ++   + + E+G        L+ I+  L+  +++
Sbjct: 1  MTIGEKLKKSRNDKGMSLRELATKVELSASFLSQIEQGKASPSIENLKKIAHTLDVRVAY 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
            +       +I   +   + +I +
Sbjct: 61 LIEDEEDDIRNIEHIKKENIRYIES 85


>gi|295133170|ref|YP_003583846.1| XRE family transcriptional regulator [Zunongwangia profunda SM-A87]
 gi|294981185|gb|ADF51650.1| XRE family transcriptional regulator [Zunongwangia profunda SM-A87]
          Length = 136

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 30/133 (22%), Positives = 57/133 (42%), Gaps = 13/133 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++G++I   R + GM QE L   LGI+ Q V   E+  + +   +L+ +++VL       
Sbjct: 15  HIGRKISRIRELRGMKQETLAAELGISQQSVSSLEQSEH-IEDEKLERVAKVLGV----- 68

Query: 74  FDVSPTVCSDISSEE--NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
              S     + S E   +N+ +F            F    +     K++EL   +V +EK
Sbjct: 69  ---SKEAIENFSEESIFHNINNFNDNSVNNGPLNNFHCTFNPL--DKVVELYERLVQAEK 123

Query: 132 KYRTIEEECMVEQ 144
                 E+ + ++
Sbjct: 124 DKVAYLEKLLEKK 136


>gi|290968573|ref|ZP_06560111.1| DNA-binding protein [Megasphaera genomosp. type_1 str. 28L]
 gi|290781226|gb|EFD93816.1| DNA-binding protein [Megasphaera genomosp. type_1 str. 28L]
          Length = 117

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 42/92 (45%), Gaps = 1/92 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+ I+  R   G++Q + G   G++ Q V  +E G+     S L  +++  + PI  
Sbjct: 1   MTLGQEIKFYRKKKGLTQTEFGAVFGMSKQAVYSWETGLYAPDISVLLKMADFFQIPICM 60

Query: 73  FFDVSPTVCSD-ISSEENNVMDFISTPDGLQL 103
                   C D  ++ +++   F+S  D   L
Sbjct: 61  LVGRPGVYCRDQEAAADHSDCTFVSKKDSRIL 92


>gi|171779415|ref|ZP_02920379.1| hypothetical protein STRINF_01260 [Streptococcus infantarius
          subsp. infantarius ATCC BAA-102]
 gi|171282032|gb|EDT47463.1| hypothetical protein STRINF_01260 [Streptococcus infantarius
          subsp. infantarius ATCC BAA-102]
          Length = 226

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G++++  R   G SQ  L + L I+      +E G  +     L  +S++ +   ++F
Sbjct: 4  GEKLKALRQENGYSQADLAKRLQISRASYFNWENGKTKPNQKNLGQLSQIFKVDETYF 61


>gi|120406457|ref|YP_956286.1| XRE family transcriptional regulator [Mycobacterium vanbaalenii
           PYR-1]
 gi|119959275|gb|ABM16280.1| transcriptional regulator, XRE family [Mycobacterium vanbaalenii
           PYR-1]
          Length = 222

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/94 (15%), Positives = 38/94 (40%), Gaps = 2/94 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +G+ +RL R+  G++  +    +GI+   + K E        S L  +++  + P+
Sbjct: 35  IEAAIGRNVRLLRLQQGLTVAETAARVGISKAMMSKIENAQTSCSLSTLALLAKGFDVPV 94

Query: 71  SFFFDVSPTVCSDISSEENNVMDFIS--TPDGLQ 102
           +  F  +         +       +   T +G +
Sbjct: 95  TSLFRGADVERPAAFVKAGTGARIVREGTREGHE 128


>gi|85375066|ref|YP_459128.1| DNA-binding protein, putative [Erythrobacter litoralis HTCC2594]
 gi|84788149|gb|ABC64331.1| DNA-binding protein, putative [Erythrobacter litoralis HTCC2594]
          Length = 220

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/110 (21%), Positives = 47/110 (42%), Gaps = 12/110 (10%)

Query: 11  VDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  ++GKR+   R   G++  ++ E LG++   V  +E   ++  ASR+  I+EVL   
Sbjct: 120 IDRASLGKRLATMRQERGLTLAQVAEELGVSKPTVWAWEHDRSQPVASRISAIAEVLGVS 179

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
                ++      D S  E+ +       +  ++          +VR  I
Sbjct: 180 -----EIELATGRDTSQAEHAIA------ETREMIAKAYGCTPQQVRISI 218


>gi|255025294|ref|ZP_05297280.1| hypothetical protein LmonocytFSL_01392 [Listeria monocytogenes FSL
           J2-003]
          Length = 158

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 36/92 (39%), Gaps = 3/92 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           KR+   R   G SQ KL + LG +  QV  YE+G        L  I+E       +    
Sbjct: 4   KRLSELRKKKGFSQYKLADELGFSRGQVANYEQGTREPDYQTLLKIAEFFNVSTDYLLGR 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                +D  +     +D  +T + ++    +I
Sbjct: 64  DDNNLADTIAAH---IDSNATEEDIKEILAYI 92


>gi|228957400|ref|ZP_04119156.1| hypothetical protein bthur0005_9210 [Bacillus thuringiensis
          serovar pakistani str. T13001]
 gi|228802278|gb|EEM49139.1| hypothetical protein bthur0005_9210 [Bacillus thuringiensis
          serovar pakistani str. T13001]
          Length = 149

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQHDLAEKIHVSRQSVSKWETGQNYPSIEIIIHLSDLFSITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   I  +   + 
Sbjct: 65 DEELTQKIIEDSKQLA 80


>gi|54024079|ref|YP_118321.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
 gi|54015587|dbj|BAD56957.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
          Length = 204

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 12/70 (17%), Positives = 31/70 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + +++R  R   G+S  ++   +GI+   + K E        S +  ++  L+ P++  F
Sbjct: 19 IARQVRALRRAAGLSVAEMAAKVGISKAMLSKIENAQTSCSLSTVARLAAGLDVPVTSLF 78

Query: 75 DVSPTVCSDI 84
            + +    +
Sbjct: 79 RGADSAREAV 88


>gi|332971234|gb|EGK10197.1| XRE family transcriptional regulator [Desmospora sp. 8437]
          Length = 108

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/102 (14%), Positives = 45/102 (44%), Gaps = 5/102 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G+R++  R    ++Q +L + LG+    + K+E        + ++ I++       +
Sbjct: 1   MSFGQRLKELRKKRKITQAELAKVLGVDNTTISKWESNTYEPEMTAIKEIADFFNVSADY 60

Query: 73  FF---DVSPTVCSDISSEENNVMDFI--STPDGLQLNRYFIQ 109
                +V     ++ +   ++ MD +     + ++  + FI+
Sbjct: 61  LLGRTNVPSQFETEAAHRTDDPMDDLPQQAREDIEKFKEFIR 102


>gi|294633078|ref|ZP_06711637.1| DNA-binding protein [Streptomyces sp. e14]
 gi|292830859|gb|EFF89209.1| DNA-binding protein [Streptomyces sp. e14]
          Length = 482

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 28/124 (22%), Positives = 54/124 (43%), Gaps = 10/124 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            ++R  R   GM+Q ++   LGI+     + E+    + A+ L  I+EV      FF + 
Sbjct: 14  AKLRRLRREHGMNQVEMARALGISTSYANQIEQSRRPLTATVLLRIAEVFGVDPEFFSEA 73

Query: 77  S-PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
               + +++ +   +      +PD  +L           VR    EL R++V+  ++YR 
Sbjct: 74  DQDRLAAELRTALADEACGAPSPDPRELAEA--------VRDH-PELARALVALHRRYRD 124

Query: 136 IEEE 139
             E+
Sbjct: 125 TAEQ 128


>gi|289661631|ref|ZP_06483212.1| XRE family transcriptional regulator [Xanthomonas campestris pv.
           vasculorum NCPPB702]
          Length = 142

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/105 (21%), Positives = 46/105 (43%), Gaps = 9/105 (8%)

Query: 18  RIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++ RR  +G++Q+ LGE LG    I   ++ +YE  ++         ++EVL   +S  
Sbjct: 38  RLKARRQAMGLTQQDLGEALGLEGRIAQSRISRYEIELHTPDLKTAYELAEVLGVSLSAL 97

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
                   SD   +   ++  +S  +   L +   Q+   K  ++
Sbjct: 98  -----VAESDRLGQIIELIRKLSDDEQEALAKRLRQLTKPKRPRR 137


>gi|229150820|ref|ZP_04279032.1| Transcriptional regulator (Phage-related) protein [Bacillus
          cereus m1550]
 gi|228632609|gb|EEK89226.1| Transcriptional regulator (Phage-related) protein [Bacillus
          cereus m1550]
          Length = 138

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 12/69 (17%), Positives = 30/69 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + +R++  R +  + Q  + E L I+      YE+G N      ++ ++E  +  +S+ 
Sbjct: 8  YIKERLKRLRKLHNLKQRDVAEYLDISESAYGYYEQGRNEPSLDSVRKLAEKYDVSVSYL 67

Query: 74 FDVSPTVCS 82
             +    +
Sbjct: 68 LGETDEEGN 76


>gi|223983578|ref|ZP_03633760.1| hypothetical protein HOLDEFILI_01041 [Holdemania filiformis DSM
           12042]
 gi|223964464|gb|EEF68794.1| hypothetical protein HOLDEFILI_01041 [Holdemania filiformis DSM
           12042]
          Length = 353

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 50/100 (50%), Gaps = 5/100 (5%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR RR  LG++Q+++ E LG++   V K+E G +    + L  ++ +L++ ++       
Sbjct: 7   IRQRRKELGLTQDRVAELLGVSAPAVNKWENGNSYPDITLLPPLARLLKTDLNTLLSFQD 66

Query: 79  TVCS-DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
            +   ++++  N V + + T     L   F    D +VR+
Sbjct: 67  ELTDLEVANLMNEVAEQVKTG---DLEAAFEMARD-RVRE 102


>gi|148378758|ref|YP_001253299.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|153933921|ref|YP_001383147.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|153937706|ref|YP_001386695.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|148288242|emb|CAL82316.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|152929965|gb|ABS35465.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|152933620|gb|ABS39119.1| DNA-binding protein [Clostridium botulinum A str. Hall]
          Length = 64

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V +++++ R+   +SQ++L E +G+T Q +   E G           I EVL   ++  F
Sbjct: 2  VNRKMKIARVECDLSQQQLAEKVGVTRQTISMIESGKYNPSLKLCIGICEVLNKTLNDLF 61


>gi|325917919|ref|ZP_08180091.1| transcriptional regulator [Xanthomonas vesicatoria ATCC 35937]
 gi|325535865|gb|EGD07689.1| transcriptional regulator [Xanthomonas vesicatoria ATCC 35937]
          Length = 66

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           R+R  R   G SQ +L E LG++ Q +   E G           I+ +   PI   F +
Sbjct: 3  SRVRELRESNGWSQGELAEQLGVSRQTINALETGKYDPSLPLAFRIARLFGEPIEQVFLY 62

Query: 75 DVSP 78
          + + 
Sbjct: 63 EGNE 66


>gi|258592092|emb|CBE68397.1| conserved protein of unknown function [NC10 bacterium 'Dutch
          sediment']
          Length = 410

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R+R  R   G+    L + +G+T   V +YE  V       ++ I+  L+ P  +F
Sbjct: 10 GARLREAREARGLPAIALADLIGVTRAAVSQYENSVQTPRPEVMEKIARTLQLPQEYF 67


>gi|282856547|ref|ZP_06265821.1| transcriptional regulator, XRE family [Pyramidobacter piscolens
          W5455]
 gi|282585613|gb|EFB90907.1| transcriptional regulator, XRE family [Pyramidobacter piscolens
          W5455]
          Length = 127

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 28/71 (39%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G RIR  R  L M+Q++L +   ++   +Q  E          L  +++ L    S 
Sbjct: 1  MTLGLRIRTLRKALKMTQQQLADATEVSRIYIQALESNRRSPSMKLLHRLADKLGVETSD 60

Query: 73 FFDVSPTVCSD 83
            +  P     
Sbjct: 61 LLEEFPRDNGG 71


>gi|229490209|ref|ZP_04384056.1| DNA-binding protein [Rhodococcus erythropolis SK121]
 gi|229322957|gb|EEN88731.1| DNA-binding protein [Rhodococcus erythropolis SK121]
          Length = 470

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/101 (25%), Positives = 42/101 (41%), Gaps = 12/101 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G+SQ  L + L I+   + + E  V  +    L  ISEV     +FF
Sbjct: 5   FVGVRLRQLRTERGLSQASLAKTLEISASYLNQIEHDVRPLTVPVLLRISEVFGVDTTFF 64

Query: 74  F------------DVSPTVCSDISSEENNVMDFISTPDGLQ 102
                        +V+      I ++ + + + +ST  GL 
Sbjct: 65  SPQDDTRLIAEMREVALDQEMGIDADAHEIAEMVSTHPGLA 105


>gi|229105942|ref|ZP_04236566.1| hypothetical protein bcere0019_50660 [Bacillus cereus Rock3-28]
 gi|228677516|gb|EEL31769.1| hypothetical protein bcere0019_50660 [Bacillus cereus Rock3-28]
          Length = 289

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGIEIKKIRVMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|156934075|ref|YP_001437991.1| hypothetical protein ESA_01901 [Cronobacter sakazakii ATCC
          BAA-894]
 gi|156532329|gb|ABU77155.1| hypothetical protein ESA_01901 [Cronobacter sakazakii ATCC
          BAA-894]
          Length = 191

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 34/67 (50%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
            I + ++  +G+RIR+ R   G S  +L E  G++   + K E+G +   A+ L  +S 
Sbjct: 2  NNIIDTLNQRIGERIRVERETRGWSLSELAERAGVSRAMIHKIERGESSPTATLLGRLSG 61

Query: 65 VLESPIS 71
           L   +S
Sbjct: 62 ALGLSMS 68


>gi|325961603|ref|YP_004239509.1| transcriptional regulator [Arthrobacter phenanthrenivorans Sphe3]
 gi|323467690|gb|ADX71375.1| putative transcriptional regulator [Arthrobacter
          phenanthrenivorans Sphe3]
          Length = 201

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 25/54 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G R+R  R   G + ++L E  G++ + V   E+G        L  IS+ L  
Sbjct: 12 IGSRVRQERQSRGWTLDQLAEAAGVSRRMVVNVEQGAANPSVGTLLRISDALGI 65


>gi|297617956|ref|YP_003703115.1| hypothetical protein Slip_1795 [Syntrophothermus lipocalidus DSM
          12680]
 gi|297145793|gb|ADI02550.1| protein of unknown function DUF955 [Syntrophothermus lipocalidus
          DSM 12680]
          Length = 371

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 28/59 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+R++  R ++G+SQ +    L IT   V   E G        L  I+     P+SFFF
Sbjct: 7  GERVKQARELIGLSQTEFARRLNITQPAVALIEAGRFTPSEELLNQIAFQTGFPVSFFF 65


>gi|319936789|ref|ZP_08011201.1| hypothetical protein HMPREF9488_02035 [Coprobacillus sp. 29_1]
 gi|319808057|gb|EFW04629.1| hypothetical protein HMPREF9488_02035 [Coprobacillus sp. 29_1]
          Length = 366

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+GK I   R   G++Q++L E +G++   V K+E          L  ++ +    +  
Sbjct: 4  LNLGKNIVYYRRKNGLTQDQLAEYIGVSKSSVSKWENNFTFPDIILLPQLAALFNISVDE 63

Query: 73 FFDVSPTVCSD 83
              SP +  +
Sbjct: 64 LMGYSPQLSKE 74


>gi|256810133|ref|YP_003127502.1| XRE family transcriptional regulator [Methanocaldococcus fervens
           AG86]
 gi|256793333|gb|ACV24002.1| transcriptional regulator, XRE family [Methanocaldococcus fervens
           AG86]
          Length = 319

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 39/90 (43%), Gaps = 9/90 (10%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP----IS 71
           GK ++  R  +G+S  KL E +G++ + + KYE             I E L+ P    I 
Sbjct: 127 GKVLKEVREAMGISVGKLAEVVGVSRKAIYKYETQAANPSVDVAIKIEEYLDVPLVKGID 186

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGL 101
            F    P    ++ ++  N+ DF    + +
Sbjct: 187 LF---EPIKDENVENKLENLEDF--KKEAI 211


>gi|255307046|ref|ZP_05351217.1| putative regulatory protein [Clostridium difficile ATCC 43255]
          Length = 120

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/125 (20%), Positives = 53/125 (42%), Gaps = 15/125 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI++ R+  G++QE +   + +T   +   E G  +V    L  I+  L   +    
Sbjct: 8   IGQRIKIARIKKGITQESVANIINMTPSHMSNVETGKTKVSLPTLIAIANALSVSVDTL- 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            +   V S     E    D  S  D  ++             + ++EL++S  ++ +K R
Sbjct: 67  -LCDNVLSSKVIFEKEAKDIFSDCDEYEI-------------RSLVELLKSAKTAIRKDR 112

Query: 135 TIEEE 139
            I ++
Sbjct: 113 EIRKQ 117


>gi|209918882|ref|YP_002292966.1| putative phage repressor [Escherichia coli SE11]
 gi|209912141|dbj|BAG77215.1| putative phage repressor [Escherichia coli SE11]
          Length = 215

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 42/83 (50%), Gaps = 1/83 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
          +G R++  R   G++Q +LG+  G+T   +  +EK +N  G+  L  +++ L +  S+  
Sbjct: 5  LGIRLKKLRKDKGLTQVELGKLSGVTGVTIGYWEKDLNEPGSKALSKLAQALGTTESYLL 64

Query: 74 FDVSPTVCSDISSEENNVMDFIS 96
          + VS    S + S     + + S
Sbjct: 65 YGVSSPELSFVQSNPGTKIPYFS 87


>gi|167761228|ref|ZP_02433355.1| hypothetical protein CLOSCI_03633 [Clostridium scindens ATCC
          35704]
 gi|167660894|gb|EDS05024.1| hypothetical protein CLOSCI_03633 [Clostridium scindens ATCC
          35704]
          Length = 234

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 35/80 (43%), Gaps = 2/80 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
          + ++  R    M+QE+L E + ++ Q + K+E G       ++  + E+    +      
Sbjct: 6  ENLQFYRKKADMTQEELAERMEVSRQTISKWESGATYPEMEKILQLCEMFRCDMDTLIRG 65

Query: 75 DVSPTVCSDISSEENNVMDF 94
          D + +   D +  + +  +F
Sbjct: 66 DATESFAEDNAQYDQHKNEF 85


>gi|254249643|ref|ZP_04942963.1| Helix-turn-helix protein [Burkholderia cenocepacia PC184]
 gi|124876144|gb|EAY66134.1| Helix-turn-helix protein [Burkholderia cenocepacia PC184]
          Length = 200

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/130 (17%), Positives = 47/130 (36%), Gaps = 11/130 (8%)

Query: 1   MVGNKKIPNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           MV   +     D + +G +IR  R  L  + +      GI+   + + E+G+     + L
Sbjct: 9   MVPPTENSRSADAVALGSKIRALRQRLKRTLDDTATAAGISKPFLSQVERGLASPSLTSL 68

Query: 60  QHISEVLESPISFFFDVSPTVCS----------DISSEENNVMDFISTPDGLQLNRYFIQ 109
             I+  L   + +F D      S            +   N      +  +G QL    ++
Sbjct: 69  AGIAHALGVTVQYFVDTPSEERSVCRGDQLRFFGFADSANLFARLTNVSEGRQLEAILVR 128

Query: 110 IDDVKVRQKI 119
           +   + R ++
Sbjct: 129 MPPGQKRSEV 138


>gi|87201027|ref|YP_498284.1| putative prophage repressor [Novosphingobium aromaticivorans DSM
          12444]
 gi|87136708|gb|ABD27450.1| putative prophage repressor [Novosphingobium aromaticivorans DSM
          12444]
          Length = 227

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 2/73 (2%)

Query: 1  MVGNKKIPNPVDINVG--KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
          M    K  +  DI +G  +R+   R   G++Q  L E +G+    +Q++E+G       +
Sbjct: 1  MAVPLKFASGQDIPMGYLERLAALRKRKGLTQVDLAERMGVEQPTIQRWERGQREPKFEQ 60

Query: 59 LQHISEVLESPIS 71
          L  ++E+L    S
Sbjct: 61 LFRLAEILGVDAS 73


>gi|53718202|ref|YP_107188.1| putative DNA-binding protein [Burkholderia pseudomallei K96243]
 gi|167737073|ref|ZP_02409847.1| putative DNA-binding protein [Burkholderia pseudomallei 14]
 gi|167814187|ref|ZP_02445867.1| putative DNA-binding protein [Burkholderia pseudomallei 91]
 gi|52208616|emb|CAH34552.1| putative DNA-binding protein [Burkholderia pseudomallei K96243]
          Length = 125

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/99 (19%), Positives = 44/99 (44%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P  +   +G+ I   R   G++Q  + E + +  + V ++E+G    G + L+ +  VL
Sbjct: 1   MPTSLASVIGRNIASVRKQRGLTQAAVAEQIDVDAETVSRFERGAVMPGVATLERLCAVL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           E       + S      ++ +   +++ ++  D L L  
Sbjct: 61  ECSWMDLLEGSSGDAQQVAHDIVRLLEPLAGDDRLFLLE 99


>gi|319939789|ref|ZP_08014145.1| hypothetical protein HMPREF9459_01133 [Streptococcus anginosus
          1_2_62CV]
 gi|319811002|gb|EFW07317.1| hypothetical protein HMPREF9459_01133 [Streptococcus anginosus
          1_2_62CV]
          Length = 133

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 41/79 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I   R   GM+Q +L E +G+T + V K+E+ ++    + +  ++++ ++ +    
Sbjct: 6  LGMMISSLRKAKGMTQLELAEKMGVTDKAVSKWERDLSYPDINTIPKLADLFDTSVDELM 65

Query: 75 DVSPTVCSDISSEENNVMD 93
               +  +  + +++++D
Sbjct: 66 QGQTVMKENKKNRKSDIVD 84


>gi|331646784|ref|ZP_08347887.1| putative helix-turn-helix-containing protein [Escherichia coli
          M605]
 gi|331045536|gb|EGI17663.1| putative helix-turn-helix-containing protein [Escherichia coli
          M605]
          Length = 153

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/50 (34%), Positives = 28/50 (56%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +RL R  L + Q  + + +G+T Q   K+E G N   AS ++ +SE+L  
Sbjct: 6  LRLNREKLKLKQSDIADYVGVTTQTYMKWENGKNEPKASHIKKLSEILNV 55


>gi|325677790|ref|ZP_08157432.1| response regulator receiver domain protein [Ruminococcus albus 8]
 gi|324110344|gb|EGC04518.1| response regulator receiver domain protein [Ruminococcus albus 8]
          Length = 197

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 30/56 (53%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +G++I+  R   G+++ +  E LG     +Q++E G      + L HI++VL   +
Sbjct: 137 IGRKIQKYREERGLTRNEFAEMLGCVMPTIQRWESGTRVPDVTMLMHIAKVLGVGV 192


>gi|284030440|ref|YP_003380371.1| XRE family transcriptional regulator [Kribbella flavida DSM 17836]
 gi|283809733|gb|ADB31572.1| transcriptional regulator, XRE family [Kribbella flavida DSM 17836]
          Length = 508

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 29/125 (23%), Positives = 52/125 (41%), Gaps = 16/125 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  IR  R   G +Q +L + LG +   V + EKG   +    L  I E L+S I    
Sbjct: 9   IGNLIRDARKHRGWTQTQLADVLGTSQSAVNRIEKGHQNLTLEMLARIGEALDSEIVSLG 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPD-GLQL------------NRYFIQIDDVKVRQKIIE 121
                +      + +  +D  S+ + G+ L             R   +I++V    +++E
Sbjct: 69  GGPVHLRVAGGRQLSGSIDVKSSKNAGVALLCASLLNKGRTTLRKVARIEEVN---RLLE 125

Query: 122 LVRSI 126
           ++ SI
Sbjct: 126 VLNSI 130


>gi|219669930|ref|YP_002460365.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|219540190|gb|ACL21929.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 81

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 2/69 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE--KGVNRVGASRLQHISEVLESPI 70
          I +G RI   R +  M+Q++L E +GIT + + + E    V  +    L  I+++   P 
Sbjct: 13 IQIGLRIAYYRKLNEMTQDQLAERIGITSKYLSQVETPSCVQPISLKTLFAIADLFHVPP 72

Query: 71 SFFFDVSPT 79
            F +    
Sbjct: 73 HKFLEFDKD 81


>gi|197284839|ref|YP_002150711.1| phage protein [Proteus mirabilis HI4320]
 gi|194682326|emb|CAR42121.1| phage protein [Proteus mirabilis HI4320]
          Length = 86

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 39/74 (52%), Gaps = 4/74 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V KR++  R  + ++QE+LG   GI       +V +YE G +R     +   S++L+ P 
Sbjct: 2  VPKRLKAARARVALTQEELGILAGIDEESAKIRVCQYESGTHRPNFETICRFSKILKVPE 61

Query: 71 SFFFDVSPTVCSDI 84
          ++F+ ++     ++
Sbjct: 62 NYFYTLNDEFAEEL 75


>gi|86148029|ref|ZP_01066331.1| transcriptional regulator, putative [Vibrio sp. MED222]
 gi|85834162|gb|EAQ52318.1| transcriptional regulator, putative [Vibrio sp. MED222]
          Length = 103

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 47/100 (47%), Gaps = 13/100 (13%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQ----KYEKGVNRVGASRLQHISE 64
           NP+ +    R++  R    +SQ+ LG C+G+          +YEKG +      L+ +++
Sbjct: 5   NPIPV----RLKEARKKAKLSQKSLGVCIGMDESSASPRMNQYEKGKHTPDVRTLKLLAD 60

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            L  P+SFFF        + S+E   ++  ++  +  +L 
Sbjct: 61  ELGVPLSFFF-----CEDESSAEIACLVAQMTEKEKKELI 95


>gi|312136641|ref|YP_004003978.1| transcriptional regulator [Methanothermus fervidus DSM 2088]
 gi|311224360|gb|ADP77216.1| transcriptional regulator [Methanothermus fervidus DSM 2088]
          Length = 182

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 32/71 (45%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +     +G RI+  R +  +S +++ + LGI  +  +KYE G   +  S L  +++ L  
Sbjct: 2  HEKSKEIGLRIKELRKLSNISAKEMSKFLGIPVELYKKYENGEEDIPVSLLFEVAQKLNV 61

Query: 69 PISFFFDVSPT 79
           +        T
Sbjct: 62 DMGLLLTGKET 72


>gi|296115933|ref|ZP_06834556.1| transcriptional regulator Xre [Gluconacetobacter hansenii ATCC
           23769]
 gi|295977505|gb|EFG84260.1| transcriptional regulator Xre [Gluconacetobacter hansenii ATCC
           23769]
          Length = 482

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 37/88 (42%), Gaps = 2/88 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RIR +R  +GM+Q  L + LGI+   + + E     +  + L  +  +      +F D
Sbjct: 11  GSRIRHQRHRVGMTQSALAQRLGISASYLNQIEHDTRPLPITLLGALCTLFSVGADYFSD 70

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQL 103
              T       E   + D +   D ++L
Sbjct: 71  TEETRGMQAVREI--LADPVFDMDAIRL 96


>gi|291529971|emb|CBK95556.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
          Length = 122

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 25/53 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +RI+  R   G SQ ++ E LG+T Q    YE G      + L  I+E   + 
Sbjct: 14 ERIKQLRKAKGASQAQVAEYLGVTKQAYSLYETGKREPPFATLLKIAEYFGTD 66


>gi|270300235|gb|ACZ69041.1| Transcriptional regulator, xre family [Staphylococcus aureus]
          Length = 207

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N G++I+  R    ++Q+++G  LG++ Q +  +E   N      L  IS+  +  + 
Sbjct: 1  MNFGEQIKQLRKSNEITQQEMGARLGVSRQAISHWENNRNLPDIEMLIIISKEFDISLD 59


>gi|257469538|ref|ZP_05633630.1| MerR family transcriptional regulator [Fusobacterium ulcerans
          ATCC 49185]
 gi|317063782|ref|ZP_07928267.1| transcriptional regulator [Fusobacterium ulcerans ATCC 49185]
 gi|313689458|gb|EFS26293.1| transcriptional regulator [Fusobacterium ulcerans ATCC 49185]
          Length = 185

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          INVG  I+  R+  G+  + + E   I+   + + EKG      + ++ I++ LE P+  
Sbjct: 5  INVGAIIKRIRIEKGLLLKDVAEKCEISSSMLSQIEKGNANPSLNTIKSIAQALEIPLFK 64

Query: 73 FF 74
          FF
Sbjct: 65 FF 66


>gi|240103012|ref|YP_002959321.1| Transcription regulator, putative [Thermococcus gammatolerans
          EJ3]
 gi|239910566|gb|ACS33457.1| Transcription regulator, putative [Thermococcus gammatolerans
          EJ3]
          Length = 195

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 3/66 (4%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          MV    IP P+D ++   IR  R  LG++QE+L    G+T   + K E G      S   
Sbjct: 1  MVITVIIPRPIDPSI---IRKIRKELGITQEELARKAGVTQAYIAKLESGKVDPRLSTFN 57

Query: 61 HISEVL 66
           I + L
Sbjct: 58 RILQAL 63


>gi|218134838|ref|ZP_03463642.1| hypothetical protein BACPEC_02741 [Bacteroides pectinophilus ATCC
          43243]
 gi|217990223|gb|EEC56234.1| hypothetical protein BACPEC_02741 [Bacteroides pectinophilus ATCC
          43243]
          Length = 219

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 38/78 (48%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G+R + RR  L ++Q  + + +G+T   +Q+YE G        +   +SE L   + 
Sbjct: 22 RIIGERAKSRRTELNLTQPYVADKMGVTASTIQRYEAGTIDNTKKMVLEGLSEALHVSVE 81

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    + +  +DI+ ++ 
Sbjct: 82 WLKGETDSYETDITDKKE 99


>gi|158423697|ref|YP_001524989.1| XRE family-like protein [Azorhizobium caulinodans ORS 571]
 gi|158330586|dbj|BAF88071.1| helix-turn-helix XRE-family like protein [Azorhizobium caulinodans
           ORS 571]
          Length = 231

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 33/79 (41%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
            +  +  D   G  IR  R+  G+S +++ +  G++   + + E+G++      L+ I  
Sbjct: 41  DEAASEHDRAFGSSIREARLARGLSLQRVADAAGLSVGLLSQVERGISSPSVRVLRAICG 100

Query: 65  VLESPISFFFDVSPTVCSD 83
            L   +   F       S+
Sbjct: 101 ALGVTVQSLFGEDGAPLSE 119


>gi|42780950|ref|NP_978197.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|42736871|gb|AAS40805.1| DNA-binding protein [Bacillus cereus ATCC 10987]
          Length = 142

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G++++  R   G SQE + + +G+T Q + ++E   +      L  +SE+    + 
Sbjct: 1  MSLGEQLKKLRESKGFSQEDVAKKIGVTRQAIYRWENNKSYPDIDNLILLSEMYNVTLD 59


>gi|228950422|ref|ZP_04112582.1| transcriptional regulator [Bacillus thuringiensis serovar monterrey
           BGSC 4AJ1]
 gi|228809237|gb|EEM55698.1| transcriptional regulator [Bacillus thuringiensis serovar monterrey
           BGSC 4AJ1]
          Length = 117

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 52/120 (43%), Gaps = 7/120 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++      G++Q++L + +G++   V  Y +G    G   LQ I+  L+    +   +
Sbjct: 5   ERLKSLIEKKGITQQQLADVIGVSHVSVYNYVEGKKAPGTRTLQKIANYLKVTTDYLLGL 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
           S       S +     D   T +  ++ +    + + + R+K +E +   V+ EK    +
Sbjct: 65  SD------SPDLTAGQDLQLTKEAHEILQIINDLPEEQ-RKKALEQLEMFVNYEKSKGNM 117


>gi|229079791|ref|ZP_04212324.1| Transcriptional regulator [Bacillus cereus Rock4-2]
 gi|228703631|gb|EEL56084.1| Transcriptional regulator [Bacillus cereus Rock4-2]
          Length = 116

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 32/66 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R+   M+QE+ G+ + +T   V K+E G        ++ I++    P+++ +  +
Sbjct: 6  RIKQIRLEHKMNQEQFGKEVDLTKGTVSKFENGKAFPSRETIEKIAKRFAVPVNYLYGEN 65

Query: 78 PTVCSD 83
               D
Sbjct: 66 NEANQD 71


>gi|309704472|emb|CBJ03821.1| putative phage repressor protein [Escherichia coli ETEC H10407]
          Length = 216

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 30/61 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RIR RR  L ++Q+ L +  G+    V  +EK   +   + LQ ++  L+    +
Sbjct: 1  MNMSDRIRQRRKELNLTQQALADLTGVNRVTVTGWEKDDYQPNGANLQALANALKCDPLW 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|261256870|ref|ZP_05949403.1| putative repressor protein of prophage [Escherichia coli O157:H7
          str. FRIK966]
          Length = 217

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 30/61 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  RIR RR  L ++Q+ L +  G+    V  +EK   +   + LQ ++  L+    +
Sbjct: 2  MNMSDRIRQRRKELNLTQQALADLTGVNRVTVTGWEKDDYQPNGANLQALANALKCDPLW 61

Query: 73 F 73
           
Sbjct: 62 L 62


>gi|261415345|ref|YP_003249028.1| transcriptional regulator, XRE family [Fibrobacter succinogenes
           subsp. succinogenes S85]
 gi|261371801|gb|ACX74546.1| transcriptional regulator, XRE family [Fibrobacter succinogenes
           subsp. succinogenes S85]
          Length = 138

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 27/59 (45%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           GK IR  R + G +Q  L + LGI+ Q +   E     V       +S++ + P   +F
Sbjct: 78  GKAIRADRGLRGWTQNVLAQKLGISIQNLSAMEHDRRPVSKKMAAKLSQIFDVPPETYF 136


>gi|218133873|ref|ZP_03462677.1| hypothetical protein BACPEC_01762 [Bacteroides pectinophilus ATCC
          43243]
 gi|217991248|gb|EEC57254.1| hypothetical protein BACPEC_01762 [Bacteroides pectinophilus ATCC
          43243]
          Length = 219

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 38/78 (48%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G+R + RR  L ++Q  + + +G+T   +Q+YE G        +   +SE L   + 
Sbjct: 22 RIIGERAKSRRTELNLTQPYVADKMGVTASTIQRYEAGTIDNTKKMVLEGLSEALHVSVE 81

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    + +  +DI+ ++ 
Sbjct: 82 WLKGETDSYETDITDKKE 99


>gi|195940391|ref|ZP_03085773.1| XRE family transcriptional regulator [Escherichia coli O157:H7
          str. EC4024]
          Length = 175

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 31/81 (38%), Gaps = 2/81 (2%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +  ++   ++  R   G S  KL E  G++   + + E+  +    S L  I+  L  P
Sbjct: 2  DITQHLATTLKALRQARGWSLSKLAEETGVSKAMLGQIERNESSPTVSTLWKIATGLNVP 61

Query: 70 ISFFF--DVSPTVCSDISSEE 88
           S F   +  P    D   + 
Sbjct: 62 FSAFITPESDPQAVFDPQQQA 82


>gi|166030550|ref|ZP_02233379.1| hypothetical protein DORFOR_00211 [Dorea formicigenerans ATCC
          27755]
 gi|166029712|gb|EDR48469.1| hypothetical protein DORFOR_00211 [Dorea formicigenerans ATCC
          27755]
          Length = 114

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG  I+++R+  G +QE++ + +G+      +YE         +L  +++  +  +  
Sbjct: 27 MQVGLNIKIKRIGRGYTQEEIADAIGVARSTYTRYESDKRLPDIYKLCALADYFDVSLDD 86

Query: 73 F 73
           
Sbjct: 87 L 87


>gi|153954532|ref|YP_001395297.1| hypothetical protein CKL_1914 [Clostridium kluyveri DSM 555]
 gi|153954634|ref|YP_001395399.1| hypothetical protein CKL_2016 [Clostridium kluyveri DSM 555]
 gi|219855106|ref|YP_002472228.1| hypothetical protein CKR_1763 [Clostridium kluyveri NBRC 12016]
 gi|146347390|gb|EDK33926.1| Hypothetical protein CKL_1914 [Clostridium kluyveri DSM 555]
 gi|146347492|gb|EDK34028.1| Hypothetical protein CKL_2016 [Clostridium kluyveri DSM 555]
 gi|219568830|dbj|BAH06814.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 213

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/108 (16%), Positives = 39/108 (36%), Gaps = 18/108 (16%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF--- 72
           G +I+  R  +  +Q+ LG+ L +    + KYE G   +    L  +S++ +    +   
Sbjct: 94  GNKIKELREEMNWTQDHLGKLLNVKRAAISKYENGKVPLTDEILIKLSKIFDVSCDYILG 153

Query: 73  ---------------FFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
                          F +    +  +   E    ++ +   D L  N+
Sbjct: 154 VSNKRNDSKVENKKSFMEKIEDLSPESKEELEKYIELLKLKDSLDKNK 201


>gi|111024214|ref|YP_707186.1| DNA-binding protein [Rhodococcus jostii RHA1]
 gi|110823744|gb|ABG99028.1| possible DNA-binding protein [Rhodococcus jostii RHA1]
          Length = 184

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/110 (16%), Positives = 34/110 (30%), Gaps = 4/110 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G  +R  R   GMS  ++    G+    + + E G        L  +   L+  +S  
Sbjct: 9   YIGPSLRRERERSGMSLTEVARRAGVAKSTLSQLESGGGNPSVETLWALCVALDVQMSQL 68

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            D        I ++E   +    +     L            R+ +  L 
Sbjct: 69  LDPPRPRVQVIRADEGPELTSDRSDYRATLVAS----SPPSARRDLYRLA 114


>gi|91216784|ref|ZP_01253748.1| hypothetical protein P700755_04602 [Psychroflexus torquis ATCC
          700755]
 gi|91184945|gb|EAS71324.1| hypothetical protein P700755_04602 [Psychroflexus torquis ATCC
          700755]
          Length = 351

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 31/62 (50%), Gaps = 2/62 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          V +RI+  R + G S  KL + +   +++  + KYEK      +  +  +++ L   + +
Sbjct: 5  VARRIKSARTLAGFSLRKLSDKMNGLVSYNAILKYEKAQMMPDSKVMLQLAKALNVKVDY 64

Query: 73 FF 74
          FF
Sbjct: 65 FF 66


>gi|114049377|ref|YP_739927.1| XRE family transcriptional regulator [Shewanella sp. MR-7]
 gi|113890819|gb|ABI44870.1| transcriptional regulator, XRE family [Shewanella sp. MR-7]
          Length = 107

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/84 (26%), Positives = 41/84 (48%), Gaps = 9/84 (10%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R++  R   G +Q +LG  +G+       ++  YEKG +      L+ ++  L  P+++
Sbjct: 8  NRLKQARKQAGYTQMQLGVMIGMDEGSASGRMNHYEKGRHTPDIRTLKKMANALGVPLNY 67

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
          FF        DIS+E +  +D +S
Sbjct: 68 FF-----CEDDISAELSIQIDRLS 86


>gi|229113235|ref|ZP_04242730.1| hypothetical protein bcere0018_54440 [Bacillus cereus Rock1-15]
 gi|228670261|gb|EEL25609.1| hypothetical protein bcere0018_54440 [Bacillus cereus Rock1-15]
          Length = 60

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 27/56 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++  R+ L MSQE L   +G+  + +   E G           IS+VLE+PI   F
Sbjct: 1  MKEYRVKLNMSQEDLANKVGVRRETIGNLENGKYNPSFKLTYDISKVLEAPIETLF 56


>gi|212638622|ref|YP_002315142.1| putative xre family transcriptional regulator [Anoxybacillus
          flavithermus WK1]
 gi|212560102|gb|ACJ33157.1| Predicted transcriptional regulator, xre family [Anoxybacillus
          flavithermus WK1]
          Length = 74

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 30/58 (51%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++ +R+  G++Q+++ + +GI+       E G      S  + I++ L+   + FFD 
Sbjct: 5  LKKKRLDTGLTQKEIAKLVGISRSTYAMIENGERNPSVSVAKRIADALKFDWTIFFDD 62


>gi|134096404|ref|YP_001101479.1| hypothetical protein HEAR3251 [Herminiimonas arsenicoxydans]
 gi|133740307|emb|CAL63358.1| Conserved hypothetical protein; putative cupin domain
           [Herminiimonas arsenicoxydans]
          Length = 198

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/102 (22%), Positives = 43/102 (42%), Gaps = 8/102 (7%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KK P     ++G R+R  R++ G++  +L +    +   + K E+G      + L  ++ 
Sbjct: 16  KKSPT---ASLGLRLRHARLVAGLTLLQLAQKAACSESLISKIERGSATPSLAMLHRLAM 72

Query: 65  VLESPISFFF-DVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            LE+ IS    +  P     +   E  V+       G+ L R
Sbjct: 73  ALETNISSLMSEDGPATGPILRKGERPVI----KAGGISLER 110


>gi|49185356|ref|YP_028608.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|49477744|ref|YP_036632.1| DNA-binding protein [Bacillus thuringiensis serovar konkukian
          str. 97-27]
 gi|65319812|ref|ZP_00392771.1| COG1476: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|229122064|ref|ZP_04251280.1| Transcriptional regulator, XRE [Bacillus cereus 95/8201]
 gi|49179283|gb|AAT54659.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|49329300|gb|AAT59946.1| DNA-binding protein [Bacillus thuringiensis serovar konkukian
          str. 97-27]
 gi|228661407|gb|EEL17031.1| Transcriptional regulator, XRE [Bacillus cereus 95/8201]
          Length = 69

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 28/59 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           RI + R   G +QE+L + +G++ Q +   EK            I+ V E PI+  FD
Sbjct: 7  NRIVVCRAEKGWTQEELAKRVGVSRQTIATLEKNKYNPSLILAFKIANVFEKPITDVFD 65


>gi|302876028|ref|YP_003844661.1| helix-turn-helix domain-containing protein [Clostridium
           cellulovorans 743B]
 gi|307686745|ref|ZP_07629191.1| helix-turn-helix domain-containing protein [Clostridium
           cellulovorans 743B]
 gi|302578885|gb|ADL52897.1| helix-turn-helix domain protein [Clostridium cellulovorans 743B]
          Length = 345

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/100 (20%), Positives = 43/100 (43%), Gaps = 2/100 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+ IR  R    ++QE++   L IT   V K+E G++    + L  ++ VL+  ++ 
Sbjct: 1   MRIGEVIRNYRKKENLTQEQVANYLNITAPAVNKWESGMSYPDITLLAPLARVLKIDVNT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
                  +           +   ++ +G   N+ F +  D
Sbjct: 61  LVAFDDELTDAEVKILTKGIGETASKEGF--NKAFEKASD 98


>gi|229164299|ref|ZP_04292231.1| hypothetical protein bcere0009_50590 [Bacillus cereus R309803]
 gi|228619182|gb|EEK76076.1| hypothetical protein bcere0009_50590 [Bacillus cereus R309803]
          Length = 285

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R + G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRAMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|261346592|ref|ZP_05974236.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282565296|gb|EFB70831.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 114

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/83 (28%), Positives = 40/83 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            VG  +R  R+   ++ E+LG+ L I+ QQV +YE+G+  +    L  +  +L    S 
Sbjct: 10 KEVGLFLRDARVNSSLTGEQLGKMLHISQQQVSRYERGITSISIENLDALLNMLGKDWSE 69

Query: 73 FFDVSPTVCSDISSEENNVMDFI 95
          FF       SD  +E     +F+
Sbjct: 70 FFFKVIANYSDEIAEIKRQDNFL 92


>gi|197287313|ref|YP_002153185.1| transcriptional regulator [Proteus mirabilis HI4320]
 gi|194684800|emb|CAR46871.1| putative transcriptional regulator [Proteus mirabilis HI4320]
          Length = 85

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/60 (33%), Positives = 31/60 (51%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  VGKRI+ RR  L +S  K+   LG+T Q   K E G  ++    L  I+ +L+   
Sbjct: 3  INTVVGKRIQNRRKELNISSSKIALQLGMTEQYYLKLENGYTKITVDELICIAIILKVSP 62


>gi|163759848|ref|ZP_02166932.1| hypothetical protein HPDFL43_16496 [Hoeflea phototrophica DFL-43]
 gi|162282806|gb|EDQ33093.1| hypothetical protein HPDFL43_16496 [Hoeflea phototrophica DFL-43]
          Length = 205

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/97 (20%), Positives = 37/97 (38%), Gaps = 3/97 (3%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D+ +G R+R  R+  G+  + +      +   + K E G      + L  I++VL   IS
Sbjct: 21  DVLIGARLRHMRIASGLKLKDVAAAADCSESMLSKVETGHVSPSINMLHRITKVLNVNIS 80

Query: 72  FFF---DVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
             F   + +        +       ++    GL L R
Sbjct: 81  GLFAPVEETSRFIQRQGTRSVLSESYMRHGPGLALER 117


>gi|331702621|ref|YP_004399580.1| helix-turn-helix domain-containing protein [Lactobacillus buchneri
           NRRL B-30929]
 gi|329129964|gb|AEB74517.1| helix-turn-helix domain protein [Lactobacillus buchneri NRRL
           B-30929]
          Length = 201

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/93 (13%), Positives = 40/93 (43%), Gaps = 11/93 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G R++  R+ LG++Q+++ + + ++ Q +  +E   +      L  +S++    +  
Sbjct: 1   MRFGARLKTERIELGLTQKQVADTMNVSRQTISSWETENSYPDIDSLIQLSDLFHISLDV 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
                         E+  + +++   + L+  R
Sbjct: 61  LL-----------KEDVGMKEYLKKKEALEWIR 82


>gi|307322306|ref|ZP_07601670.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306892049|gb|EFN22871.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
          Length = 161

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 53/122 (43%), Gaps = 12/122 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLE-S 68
           +D  +   ++  R   G+S+  L   LG++     +YE+G   R+   RL H+ E++   
Sbjct: 36  MDEKISAWLKKTREANGISRADLAHLLGLSVSVYGRYERGSEARLSIPRLIHLCEIMGFM 95

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           P+   FD++P +      E  +          L L +   Q+    +R  +I L+R +  
Sbjct: 96  PLDVIFDIAPHLWGKTLEEAEDR---------LTLMKLVEQLPQDTMRD-LIRLLRRMTP 145

Query: 129 SE 130
            E
Sbjct: 146 GE 147


>gi|294813544|ref|ZP_06772187.1| Helix-turn-helix domain protein [Streptomyces clavuligerus ATCC
          27064]
 gi|326442049|ref|ZP_08216783.1| XRE family transcriptional regulator [Streptomyces clavuligerus
          ATCC 27064]
 gi|294326143|gb|EFG07786.1| Helix-turn-helix domain protein [Streptomyces clavuligerus ATCC
          27064]
          Length = 244

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG R++  R   G++   L E  GI+   + + E G  R     L  IS+  + P+ 
Sbjct: 41 VGPRLKRLRAERGITLAALAETTGISKSTLSRLESGGRRPSLELLLPISQAYQVPLD 97


>gi|225851327|ref|YP_002731561.1| transcriptional regulator, xre family [Persephonella marina
          EX-H1]
 gi|225645748|gb|ACO03934.1| transcriptional regulator, xre family [Persephonella marina
          EX-H1]
          Length = 159

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 32/60 (53%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G+RI+  R +LG+SQ +  E +G + + VQ +E        S L+ IS+     + + 
Sbjct: 3  NIGQRIKQLRKMLGLSQREFAEKIGKSLRAVQNWEYEQRTPDESTLRLISQTFGVNLDWL 62


>gi|148548690|ref|YP_001268792.1| XRE family transcriptional regulator [Pseudomonas putida F1]
 gi|148512748|gb|ABQ79608.1| transcriptional regulator, XRE family [Pseudomonas putida F1]
          Length = 104

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 27/71 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R + G++Q +L E  G   + + ++E          +   ++VL      FF
Sbjct: 6  LGIALRRYRKLAGLTQAQLAERTGFDPKTISRFETNTYTPSIDAIMAFAQVLGVKPKDFF 65

Query: 75 DVSPTVCSDIS 85
                    +
Sbjct: 66 AEPDDEEEQRA 76


>gi|313499651|gb|ADR61017.1| XRE family transcriptional regulator [Pseudomonas putida BIRD-1]
          Length = 187

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 28/68 (41%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +      V  +V   +R  R   G+SQ  L E  G++ + +   E G   V  + L 
Sbjct: 1  MHKDSSHRASVLQHVSLNVRSLRNAAGLSQAALAERSGVSRRMLVAIEAGEKNVSLTTLD 60

Query: 61 HISEVLES 68
           I+E L  
Sbjct: 61 LIAEALGV 68


>gi|269139111|ref|YP_003295812.1| predicted transcriptional regulator [Edwardsiella tarda EIB202]
 gi|267984772|gb|ACY84601.1| predicted transcriptional regulator [Edwardsiella tarda EIB202]
          Length = 194

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 31/64 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VD ++ + +   R   G +  +L +  G++   + K E+G +   A+ L  ++  +   +
Sbjct: 10 VDSDIARLLLKHRKTRGWTVAELAQRSGVSQAMISKVERGTSSPSATILSRLASAMNITL 69

Query: 71 SFFF 74
          S FF
Sbjct: 70 STFF 73


>gi|253574698|ref|ZP_04852038.1| predicted protein [Paenibacillus sp. oral taxon 786 str. D14]
 gi|251845744|gb|EES73752.1| predicted protein [Paenibacillus sp. oral taxon 786 str. D14]
          Length = 129

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/103 (18%), Positives = 39/103 (37%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            V   VGK +R  R + G++QE+L E        + + E+G   V    L  I++ L+  
Sbjct: 22  DVAKQVGKNVRYYRKLKGLTQEQLAESTETYGSYIGRLERGEQNVQLETLHKIADALQIS 81

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
           +   F           +    ++  +      +  R +  + +
Sbjct: 82  VYALFRNPGYDELQDQTWIWQIVQLLQEQPAEEQARAYRVLKE 124


>gi|242242403|ref|ZP_04796848.1| transcriptional regulator [Staphylococcus epidermidis W23144]
 gi|242234110|gb|EES36422.1| transcriptional regulator [Staphylococcus epidermidis W23144]
 gi|319401579|gb|EFV89789.1| helix-turn-helix family protein [Staphylococcus epidermidis
          FRI909]
          Length = 179

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 34/81 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G ++R  R I  ++QE+L E   ++   + + E            ++ EVL +  S 
Sbjct: 1  MDIGYKLRNLRRIKNLTQEELAERTDLSKGYISQIESNHASPSMETFLNLIEVLGTSASD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  S          E  + D
Sbjct: 61 FFKESSDEKVLYKKNEQTIYD 81


>gi|210623634|ref|ZP_03293960.1| hypothetical protein CLOHIR_01910 [Clostridium hiranonis DSM
          13275]
 gi|210153504|gb|EEA84510.1| hypothetical protein CLOHIR_01910 [Clostridium hiranonis DSM
          13275]
          Length = 181

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 34/68 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+I+  R+   ++QE+L     ++   + + E  +     + L  I E+L + +  
Sbjct: 3  MEIGKKIKRLRIEKQLTQEELANRCELSKGFISQLENDLTSPSIATLIDILEILGTNLKE 62

Query: 73 FFDVSPTV 80
          FF+ + + 
Sbjct: 63 FFNDTESE 70


>gi|153816388|ref|ZP_01969056.1| hypothetical protein RUMTOR_02640 [Ruminococcus torques ATCC
          27756]
 gi|317500743|ref|ZP_07958960.1| hypothetical protein HMPREF1026_00903 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|331089779|ref|ZP_08338673.1| hypothetical protein HMPREF1025_02256 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|145846276|gb|EDK23194.1| hypothetical protein RUMTOR_02640 [Ruminococcus torques ATCC
          27756]
 gi|316897836|gb|EFV19890.1| hypothetical protein HMPREF1026_00903 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|330403662|gb|EGG83217.1| hypothetical protein HMPREF1025_02256 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 245

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 29/59 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           +IR RR  L MS+ +L E + +T   +  YE G++         +   LE   ++F++
Sbjct: 6  NKIRKRRQELNMSRVQLAEAVQVTPSAIANYENGISYPKPDIFVALMITLEVDANYFYE 64


>gi|77163705|ref|YP_342230.1| XRE family transcriptional regulator [Nitrosococcus oceani ATCC
          19707]
 gi|254435082|ref|ZP_05048589.1| Helix-turn-helix domain protein [Nitrosococcus oceani AFC27]
 gi|76882019|gb|ABA56700.1| transcriptional regulator, XRE family [Nitrosococcus oceani ATCC
          19707]
 gi|207088193|gb|EDZ65465.1| Helix-turn-helix domain protein [Nitrosococcus oceani AFC27]
          Length = 86

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 35/71 (49%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   +K    VD+++G+ +R+ R +  +SQ +L E  GI    +   E+   R+G  R +
Sbjct: 1  MSEYRKAGKRVDVSIGESVRILRELQELSQNELSEMTGIPQSTISAIERDRIRLGVERAK 60

Query: 61 HISEVLESPIS 71
           ++  L    +
Sbjct: 61 VLARALRCHPA 71


>gi|330468614|ref|YP_004406357.1| helix-turn-helix domain-containing protein [Verrucosispora maris
           AB-18-032]
 gi|328811585|gb|AEB45757.1| helix-turn-helix domain protein [Verrucosispora maris AB-18-032]
          Length = 401

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 28/121 (23%), Positives = 53/121 (43%), Gaps = 10/121 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRL 59
           M G  ++P      +G+R+   RM   M+Q+ L + LG +   V K E+G  R+   S +
Sbjct: 1   MTGRSEVP------IGRRVAQWRMRRRMTQQCLADRLGKSKSWVDKVERGARRLDRFSVI 54

Query: 60  QHISEVLESPISFFF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           Q I+EVL    +       P    D+    + V   ++     +      Q+   ++R++
Sbjct: 55  QAIAEVLRIDPAVLLGQHPPPAGGDVRDGFDGVRAALARYGVFE--ASARQVPVAELRRR 112

Query: 119 I 119
           +
Sbjct: 113 V 113


>gi|303239261|ref|ZP_07325790.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
           CD2]
 gi|302593306|gb|EFL63025.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
           CD2]
          Length = 125

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 52/123 (42%), Gaps = 9/123 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-FFD 75
            RIR  R  LG +QE+LG+ +G++ + V  YE          L  ++++ +  I +    
Sbjct: 3   NRIRELRKELGFTQEELGKMIGLSERSVGSYETSDRDPDTDTLNKLAQIFDCTIDYMLMR 62

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL-QLNRYFIQIDDVKVRQKI-----IELVRSIVSS 129
            +     +          +   PD L ++ R   ++   +VR+++      E+ R +   
Sbjct: 63  SNTRKTEEKKEMAEAEEMYRVDPDFLIEMCRA--KVLPDEVRKRLREYAAFEMERFLKEK 120

Query: 130 EKK 132
           + K
Sbjct: 121 DSK 123


>gi|302382805|ref|YP_003818628.1| XRE family transcriptional regulator [Brevundimonas subvibrioides
           ATCC 15264]
 gi|302193433|gb|ADL01005.1| transcriptional regulator, XRE family [Brevundimonas subvibrioides
           ATCC 15264]
          Length = 475

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/128 (19%), Positives = 59/128 (46%), Gaps = 14/128 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G R++  R   G++Q  +   LG++   +   E+    V A  L  +++  +  +  
Sbjct: 9   LFLGARVKRLRRDRGLTQTAMAGDLGVSPSYLNHIERNQRPVSAQLLLRLADAYDVDLR- 67

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP--DGLQLNR-YFIQIDD--VKVRQKIIELVRSIV 127
                 T+    ++ E ++ + ++ P   GL++ R   +Q+ D      + I+ L R+  
Sbjct: 68  ------TLGQTGAAGEADLAEVLADPLFKGLEVPRHELVQLVDDAPGAAEAIVRLYRAF- 120

Query: 128 SSEKKYRT 135
            SE++ +T
Sbjct: 121 -SEQRDKT 127


>gi|238852906|ref|ZP_04643308.1| helix-turn-helix domain protein [Lactobacillus gasseri 202-4]
 gi|238834467|gb|EEQ26702.1| helix-turn-helix domain protein [Lactobacillus gasseri 202-4]
          Length = 266

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 10/84 (11%)

Query: 18 RIRLRRMILGMSQEKLG------ECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          R++  R  +G +QE+L       + L I+   + KYE GVN      L+ +S+ LE    
Sbjct: 5  RLKSIRNKMGFTQEELANYLQEVKHLKISRGTIAKYESGVNFPSKRTLKALSDALEVSED 64

Query: 72 FFFDVSPTVCSDISSEENNVMDFI 95
          F               E  ++DF+
Sbjct: 65 FL----AGKGLQTEDIEEVLLDFL 84


>gi|258515819|ref|YP_003192041.1| transcriptional regulator, XRE family [Desulfotomaculum acetoxidans
           DSM 771]
 gi|257779524|gb|ACV63418.1| transcriptional regulator, XRE family [Desulfotomaculum acetoxidans
           DSM 771]
          Length = 364

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/97 (18%), Positives = 36/97 (37%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G+ I  +R     +QE+L   +G++   V K+E G        L  I+  L + +  
Sbjct: 3   LNIGEVITAKRKEKLWTQEQLANAVGVSTPAVSKWETGTTYPDIMLLSPIARALNTTVDK 62

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
                  +  +   +       +   +G      F Q
Sbjct: 63  LLSYQNELSDEEVDKVTKDAMHVYESEGFDAGWSFCQ 99


>gi|241664279|ref|YP_002982639.1| XRE family transcriptional regulator [Ralstonia pickettii 12D]
 gi|240866306|gb|ACS63967.1| transcriptional regulator, XRE family [Ralstonia pickettii 12D]
          Length = 117

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 43/91 (47%), Gaps = 1/91 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK I   RM   ++QE+L E LG+  + + ++E+G       RL  +++V   P+    
Sbjct: 14  LGKAIARERMARELTQEQLAELLGVEQETISRFERGSTLPPLPRLIQLADVFNVPLESLL 73

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
             +    +D + + + ++  +   DG    R
Sbjct: 74  RTTTGRPADEAVDISKMLAKL-DGDGRDFVR 103


>gi|59801396|ref|YP_208108.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae FA 1090]
 gi|239998753|ref|ZP_04718677.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae 35/02]
 gi|240014330|ref|ZP_04721243.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae DGI18]
 gi|240016763|ref|ZP_04723303.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae FA6140]
 gi|240080961|ref|ZP_04725504.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae FA19]
 gi|240112680|ref|ZP_04727170.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae MS11]
 gi|240115427|ref|ZP_04729489.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae PID18]
 gi|240117722|ref|ZP_04731784.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae PID1]
 gi|240121893|ref|ZP_04734855.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae PID24-1]
 gi|240123275|ref|ZP_04736231.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae PID332]
 gi|240125529|ref|ZP_04738415.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae SK-92-679]
 gi|254493540|ref|ZP_05106711.1| transcriptional regulator [Neisseria gonorrhoeae 1291]
 gi|260440761|ref|ZP_05794577.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae DGI2]
 gi|268594599|ref|ZP_06128766.1| transcriptional regulator [Neisseria gonorrhoeae 35/02]
 gi|268597075|ref|ZP_06131242.1| transcriptional regulator [Neisseria gonorrhoeae FA19]
 gi|268598746|ref|ZP_06132913.1| transcriptional regulator [Neisseria gonorrhoeae MS11]
 gi|268601105|ref|ZP_06135272.1| transcriptional regulator [Neisseria gonorrhoeae PID18]
 gi|268603423|ref|ZP_06137590.1| transcriptional regulator [Neisseria gonorrhoeae PID1]
 gi|268681903|ref|ZP_06148765.1| transcriptional regulator [Neisseria gonorrhoeae PID332]
 gi|268684119|ref|ZP_06150981.1| transcriptional regulator [Neisseria gonorrhoeae SK-92-679]
 gi|291044074|ref|ZP_06569790.1| transcriptional regulator [Neisseria gonorrhoeae DGI2]
 gi|293399253|ref|ZP_06643418.1| phage repressor [Neisseria gonorrhoeae F62]
 gi|59718291|gb|AAW89696.1| putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae FA 1090]
 gi|226512580|gb|EEH61925.1| transcriptional regulator [Neisseria gonorrhoeae 1291]
 gi|268547988|gb|EEZ43406.1| transcriptional regulator [Neisseria gonorrhoeae 35/02]
 gi|268550863|gb|EEZ45882.1| transcriptional regulator [Neisseria gonorrhoeae FA19]
 gi|268582877|gb|EEZ47553.1| transcriptional regulator [Neisseria gonorrhoeae MS11]
 gi|268585236|gb|EEZ49912.1| transcriptional regulator [Neisseria gonorrhoeae PID18]
 gi|268587554|gb|EEZ52230.1| transcriptional regulator [Neisseria gonorrhoeae PID1]
 gi|268622187|gb|EEZ54587.1| transcriptional regulator [Neisseria gonorrhoeae PID332]
 gi|268624403|gb|EEZ56803.1| transcriptional regulator [Neisseria gonorrhoeae SK-92-679]
 gi|291012537|gb|EFE04526.1| transcriptional regulator [Neisseria gonorrhoeae DGI2]
 gi|291610667|gb|EFF39777.1| phage repressor [Neisseria gonorrhoeae F62]
          Length = 126

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 27/122 (22%), Positives = 54/122 (44%), Gaps = 9/122 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GKR++  R+ LG++Q +  E  G + +   K+E+G NR  + +L   S++    I +   
Sbjct: 8   GKRLKEERIKLGLNQAEAAEKCGFSREMWGKWERGENRPSSEKLFSFSKI-GIDIDYVMH 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                 + + SE         + +  +L   F Q+     R+++ +     +  EKK +T
Sbjct: 67  GRRGETAAMPSES-------LSAEEKELLALFRQLGSGS-RKELADYAAFKLVVEKKAQT 118

Query: 136 IE 137
             
Sbjct: 119 AL 120


>gi|331082825|ref|ZP_08331947.1| hypothetical protein HMPREF0992_00871 [Lachnospiraceae bacterium
          6_1_63FAA]
 gi|330400154|gb|EGG79803.1| hypothetical protein HMPREF0992_00871 [Lachnospiraceae bacterium
          6_1_63FAA]
          Length = 91

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 33/83 (39%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++I   R   G+SQ+       ++ Q V  +E G +      +  IS+  +  +  
Sbjct: 1  MNIGEQINNLRKKHGLSQDDFANLFNVSRQTVSNWENGKSYPDLEMIIKISDYFKISVDE 60

Query: 73 FFDVSPTVCSDISSEENNVMDFI 95
                     I +E+    D +
Sbjct: 61 LLRNDVQSEEKIDNEKKVKRDIL 83


>gi|322386543|ref|ZP_08060170.1| XRE family transcriptional regulator [Streptococcus cristatus
          ATCC 51100]
 gi|321269462|gb|EFX52395.1| XRE family transcriptional regulator [Streptococcus cristatus
          ATCC 51100]
          Length = 169

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 32/74 (43%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQE+L E + ++ Q + K+E G       ++  +S++ +    +    D
Sbjct: 7  KLFELRKEKGWSQERLAEQISVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLED 66

Query: 76 VSPTVCSDISSEEN 89
                  I SE+ 
Sbjct: 67 SDKPEIKPILSEDE 80


>gi|293374899|ref|ZP_06621200.1| DNA-binding protein [Turicibacter sanguinis PC909]
 gi|325843168|ref|ZP_08167854.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
 gi|292646502|gb|EFF64511.1| DNA-binding protein [Turicibacter sanguinis PC909]
 gi|325489412|gb|EGC91782.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
          Length = 194

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + VGK +   R    M+Q+++ E + I+ + + K+E+G+     S L  +S++    I 
Sbjct: 4  VKVGKLLYDLRKEKNMTQKQVAELMNISDKTISKWERGLGCPDVSLLPELSQIFGVSID 62


>gi|290954828|ref|YP_003486010.1| DNA-binding protein [Streptomyces scabiei 87.22]
 gi|260644354|emb|CBG67439.1| putative DNA-binding protein [Streptomyces scabiei 87.22]
          Length = 204

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 25/57 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          V + +RL R   G+S  +L    G+  Q +   E+G        L  I+  L  P++
Sbjct: 9  VARNVRLLREQRGLSLARLAREAGLAKQTLSNLEQGTGNPTVDTLFSIATALGVPVT 65


>gi|225378570|ref|ZP_03755791.1| hypothetical protein ROSEINA2194_04238 [Roseburia inulinivorans
          DSM 16841]
 gi|225209584|gb|EEG91938.1| hypothetical protein ROSEINA2194_04238 [Roseburia inulinivorans
          DSM 16841]
          Length = 150

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 33/71 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +++   R    ++QE+L E L ++ Q + K+E G       ++  +S+V +  + +    
Sbjct: 5  EKLITLRKSRELTQEQLAEQLNVSRQSISKWESGQVIPEVEKIVELSKVFDVTVDYLLKP 64

Query: 77 SPTVCSDISSE 87
          S      + +E
Sbjct: 65 SEIDELSVKTE 75


>gi|182440719|ref|YP_001828438.1| putative transcriptional regulator [Streptomyces griseus subsp.
          griseus NBRC 13350]
 gi|178469235|dbj|BAG23755.1| putative transcriptional regulator [Streptomyces griseus subsp.
          griseus NBRC 13350]
          Length = 205

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 32/69 (46%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  V KRIR  R+  G S E+L     ++   + + E G  R+   +L  ++  L++ +
Sbjct: 10 LDSLVRKRIRALRVAQGWSLEELAARAKVSQSTLSRIENGRRRLALDQLVTLARALDTSL 69

Query: 71 SFFFDVSPT 79
              + +  
Sbjct: 70 DQLVETASD 78


>gi|161789249|ref|YP_001595597.1| hypothetical protein BMSA_0010 [Vibrio sp. 23023]
 gi|161761374|gb|ABX77020.1| H-T-H motif hypothetical protein [Vibrio sp. 23023]
          Length = 207

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 32/56 (57%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + V + ++ +R+  G++Q+ L + +G++   V K+E G ++      + +SE+L  
Sbjct: 1  MYVSQILKKKRVEKGLTQQDLADAIGVSAVAVSKWELGQSKPRKKFHEKLSEILGV 56


>gi|266624214|ref|ZP_06117149.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium hathewayi DSM 13479]
 gi|288863957|gb|EFC96255.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium hathewayi DSM 13479]
          Length = 94

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 38/94 (40%), Gaps = 5/94 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G  ++  R+   M+Q +L + LG+T   +  YE G+       L HI+++ +    +
Sbjct: 2   VDFGNTLKTLRLQENMTQAQLSQKLGLTKSVISAYETGLRLPSYDVLIHIAQIFKVSTDY 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
              V      D+S         +     L L + 
Sbjct: 62  LLGVEHKDSLDLSGLTQPEKSAL-----LMLIKA 90


>gi|239977932|ref|ZP_04700456.1| putative transcriptional regulator [Streptomyces albus J1074]
          Length = 211

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 32/93 (34%), Gaps = 5/93 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G +   L    GI+   + + E G  R     L  I+   + P+    
Sbjct: 27  VGPRLRALRKERGATLAGLSAATGISVSTLSRLESGNRRPSLELLLPIAAAHDVPLDRLV 86

Query: 75  DVSPTVCSDISSEE-----NNVMDFISTPDGLQ 102
              P     +  E        V+     P GLQ
Sbjct: 87  GAPPAGDPRVRLEPIEQGNRTVIPLSRRPGGLQ 119


>gi|222086392|ref|YP_002544926.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221723840|gb|ACM26996.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 200

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 30/63 (47%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + VD  +G RIR+ R   G S  +L E   ++   + K E+G +   A+ L  +S     
Sbjct: 17 DSVDKRIGTRIRIERESRGWSLTELAERSAVSRAMIHKIERGDSSPTATLLGKLSGAFGL 76

Query: 69 PIS 71
           +S
Sbjct: 77 SMS 79


>gi|29171585|ref|NP_808631.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           tomato str. DC3000]
 gi|28856078|gb|AAO59134.1| transcriptional regulator, PbsX family [Pseudomonas syringae pv.
           tomato str. DC3000]
 gi|320326981|gb|EFW82998.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           glycinea str. race 4]
 gi|330882666|gb|EGH16815.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           glycinea str. race 4]
 gi|330945149|gb|EGH46863.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           pisi str. 1704B]
          Length = 117

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/99 (25%), Positives = 41/99 (41%), Gaps = 4/99 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG +I+  R + GMSQ  L E +G     V  YE+G++  G  +L  IS   +      
Sbjct: 7   FVGAKIKALRKLSGMSQAALAEKIGCDAPLVGCYERGIHLPGVEQLIKISMAFDVAPGEL 66

Query: 74  F----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                DV  T    +     +    + +P+ L+    F+
Sbjct: 67  LPGGQDVLRTRLISLRQAIADKAIEVDSPESLEEILAFM 105


>gi|47564475|ref|ZP_00235520.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
 gi|47558627|gb|EAL16950.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
          Length = 67

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 2/62 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  L M+QE L + +G+  + +   EKG           I++ L S I   F F+
Sbjct: 6  KIKEYRAKLNMTQEDLAKSVGVRRETISHLEKGKYNPSLQLAYDIAKALHSTIDGIFIFE 65

Query: 76 VS 77
            
Sbjct: 66 DE 67


>gi|332982308|ref|YP_004463749.1| helix-turn-helix domain-containing protein [Mahella australiensis
           50-1 BON]
 gi|332699986|gb|AEE96927.1| helix-turn-helix domain protein [Mahella australiensis 50-1 BON]
          Length = 126

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/108 (18%), Positives = 40/108 (37%), Gaps = 16/108 (14%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R+   R    M+QE+L   LGI+   +  YE    +     +  +++     + +    
Sbjct: 4   ERLVELRKERKMTQEELANVLGISRSALSLYETDKRQPDFQTICRLADFFNVSVDYLLGR 63

Query: 77  SPTVCSDISS--EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           +   C    +  +  N  DFI              + D  +R+ + EL
Sbjct: 64  TDDRCGVARTTYKAGNKADFI--------------LRDPDIREALDEL 97


>gi|332981126|ref|YP_004462567.1| helix-turn-helix domain-containing protein [Mahella australiensis
           50-1 BON]
 gi|332698804|gb|AEE95745.1| helix-turn-helix domain protein [Mahella australiensis 50-1 BON]
          Length = 121

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/114 (14%), Positives = 43/114 (37%), Gaps = 11/114 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +++  R   G++   LG+   ++   +   E G +      L  +++ L   I+   
Sbjct: 4   IGAKLKSIRKQRGLTLRALGKAANVSHSFIADIESGRSNPSLDTLDALAKALNVSITDII 63

Query: 75  DVSPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
             +       + +    +   + +   + L L          + RQ I+E V++
Sbjct: 64  RDTDYENRQEAIDLAEAILEENVMFDGEPLSLT--------PEERQSILEFVKT 109


>gi|319787536|ref|YP_004147011.1| hypothetical protein Psesu_1943 [Pseudoxanthomonas suwonensis 11-1]
 gi|317466048|gb|ADV27780.1| helix-turn-helix domain protein [Pseudoxanthomonas suwonensis 11-1]
          Length = 125

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/115 (18%), Positives = 51/115 (44%), Gaps = 3/115 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPIS 71
           + +  RIR+ R    +SQE L   LG++   V  +E  V  + A +RL+ +++       
Sbjct: 1   MQLSMRIRIARQRAKLSQEALARMLGVSRGAVANWECAVGSLPATTRLERLAQATGVCFE 60

Query: 72  FFFDV-SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +      P   ++     +   ++I  P   +L + + ++    +++ ++ L  +
Sbjct: 61  WLATGRGPITYTEPVPRPSTEGEWIDDPIERRLVQAY-RVASRPLQRMLLRLAEA 114


>gi|295106173|emb|CBL03716.1| Predicted transcriptional regulators [Gordonibacter pamelaeae
          7-10-1-b]
          Length = 384

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 31/67 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            R   G++QE L E LG++ Q V K+E G N     +L  + ++  + +      S  V
Sbjct: 9  YLRQHYGVTQEGLAEQLGVSRQTVSKWEAGTNYPEMDKLLALCDLFHTNLDDLMRGSVHV 68

Query: 81 CSDISSE 87
           +   +E
Sbjct: 69 ANKGDTE 75


>gi|293568750|ref|ZP_06680064.1| transcriptional regulator, putative [Enterococcus faecium E1071]
 gi|291588467|gb|EFF20301.1| transcriptional regulator, putative [Enterococcus faecium E1071]
          Length = 270

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/101 (25%), Positives = 40/101 (39%), Gaps = 5/101 (4%)

Query: 11  VDIN-VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +D   VG RIR  R  L +S EK G+ +G +    V  +E+G+N      L  I+EV   
Sbjct: 3   IDKQAVGNRIRQIRQELKLSMEKFGKLIGDLPRSTVNNWERGINLPKTETLHQIAEVGHV 62

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGL---QLNRY 106
              +           +   +          +GL   +LNR 
Sbjct: 63  TNEYLLYGDQENQYILEMLQKKAGKLDPEIEGLIVDELNRA 103


>gi|169631439|ref|YP_001705088.1| putative DNA-binding protein [Mycobacterium abscessus ATCC 19977]
 gi|169243406|emb|CAM64434.1| Putative DNA-binding protein [Mycobacterium abscessus]
          Length = 191

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/122 (21%), Positives = 47/122 (38%), Gaps = 4/122 (3%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
             +  V + +R  R    +S   L    G++ Q V K E+GV       L  + E L+ P
Sbjct: 3   DHNTLVARNVRRYRQERALSLGDLARRSGLSKQTVSKIEQGVGNPTVETLALLGEALQVP 62

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
                    T      + E+  +D  +  + L L+  +       VR  ++ L R+  + 
Sbjct: 63  PQRLLTEWGTPVFVQRASEDGWVDKGARSERL-LDEIY---GSGYVRNLVVRLERTAQAG 118

Query: 130 EK 131
           E+
Sbjct: 119 EE 120


>gi|148544266|ref|YP_001271636.1| XRE family transcriptional regulator [Lactobacillus reuteri DSM
           20016]
 gi|148531300|gb|ABQ83299.1| transcriptional regulator, XRE family [Lactobacillus reuteri DSM
           20016]
          Length = 264

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 29/110 (26%), Positives = 51/110 (46%), Gaps = 13/110 (11%)

Query: 4   NKKIPNPVDI-------NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA 56
           N K P  +D        N G  I + R    M+Q++LG  +G+T + + +YE G+  +  
Sbjct: 68  NSKAPTLLDRVNFNEKGNPGNNIYVERKKKHMTQKELGMKIGVTREYISEYELGIRPIPI 127

Query: 57  SRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             L+ +SE L S  S+   V+           +++ DFI + D  +L + 
Sbjct: 128 ETLKKLSEALGSEASYLLGVNGKYL------PHSMNDFILSLDDHELLKS 171



 Score = 43.3 bits (101), Expect = 0.012,   Method: Composition-based stats.
 Identities = 10/62 (16%), Positives = 27/62 (43%), Gaps = 5/62 (8%)

Query: 17 KRIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           R++  R    ++Q++L + L      ++   +  YE+        +LQ I+   +  ++
Sbjct: 2  NRLKFLRRKKHLTQQQLSKELKKRNIKVSVALISSYEQEKIPFNKEKLQKIANYFDVSVN 61

Query: 72 FF 73
          + 
Sbjct: 62 YL 63


>gi|325848985|ref|ZP_08170495.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
 gi|325480629|gb|EGC83691.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
          Length = 67

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ +  +IR  R   G+SQ KL + +G+  + +  YE             I +VL+  I
Sbjct: 1  MEVEINNKIREFRKEKGLSQHKLAKMVGLKRRSIMAYENNTISPSLETAYKICKVLDKDI 60

Query: 71 SFFF 74
             F
Sbjct: 61 KEVF 64


>gi|228982712|ref|ZP_04142971.1| Prophage LambdaBa02, repressor protein [Bacillus thuringiensis
          Bt407]
 gi|228776895|gb|EEM25203.1| Prophage LambdaBa02, repressor protein [Bacillus thuringiensis
          Bt407]
          Length = 133

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 25/57 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          KR+RL R   G++QE+L   +      +  YE G +      L  + +VL     F 
Sbjct: 31 KRLRLARKWSGLTQEELAIKVNTKKTTISNYETGYSTPSIEMLDLLCDVLNVSSDFL 87


>gi|227823807|ref|YP_002827780.1| transcriptional regulator, XRE family with cupin sensor
           [Sinorhizobium fredii NGR234]
 gi|227342809|gb|ACP27027.1| transcriptional regulator, XRE family with cupin sensor
           [Sinorhizobium fredii NGR234]
          Length = 220

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/106 (20%), Positives = 43/106 (40%), Gaps = 16/106 (15%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G R+R  R++  +SQ +L +  G+T   +   E   +      L+ I +    PI  
Sbjct: 41  VDIGNRLRHVRLMHNLSQRELAKRAGVTNSTISLIESNASNPSVGALKRILD--GIPIGL 98

Query: 73  --FFDVSPTVCSDISSEENNVMDFISTPDGLQLNR---YFIQIDDV 113
             FF   P         E     F +  + +++ +    + QI D 
Sbjct: 99  AEFFSFEP---------ERPRKAFYAAEELVEIGKGPISYRQIGDN 135


>gi|218529602|ref|YP_002420418.1| phage repressor [Methylobacterium chloromethanicum CM4]
 gi|218521905|gb|ACK82490.1| putative phage repressor [Methylobacterium chloromethanicum CM4]
          Length = 244

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/95 (20%), Positives = 37/95 (38%), Gaps = 10/95 (10%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + NP    +G  IR  R   G++Q  +   L I+   V ++E G       RL  ++ +L
Sbjct: 1   MANP----LGPVIREARKARGLTQGDIASALKISRPAVGQWESGDTGPDRDRLPALARLL 56

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
                   D+      ++   +    + +S  + L
Sbjct: 57  RV------DLGALTNGELVLLDQEAAEGVSDSEAL 85


>gi|86140912|ref|ZP_01059471.1| hypothetical protein MED217_17210 [Leeuwenhoekiella blandensis
           MED217]
 gi|85832854|gb|EAQ51303.1| hypothetical protein MED217_17210 [Leeuwenhoekiella blandensis
           MED217]
          Length = 135

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 30/137 (21%), Positives = 62/137 (45%), Gaps = 17/137 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP---I 70
           ++G++I   R + GM QE L   LGI+ Q V   E+  + +  S+L+ +++VL      I
Sbjct: 8   HIGRKIARIRELRGMKQEALAHELGISQQSVSHMEQSES-LEDSKLEEVAKVLGVTKEGI 66

Query: 71  SFFFDVS---PTVCSDISSEENNVMDFISTPDGLQ-LNRYFIQIDDVKVRQKIIELVRSI 126
             F + +       +  + + +++  +  T + L  L   +   ++ K       L   +
Sbjct: 67  ENFSEEAVFNIIGNTVTNHDNSSLFAYQPTFNPLDKLIEAY---EENKK------LYERL 117

Query: 127 VSSEKKYRTIEEECMVE 143
           V +EK   +  EE + +
Sbjct: 118 VQAEKDKVSYLEELLTK 134


>gi|296131950|ref|YP_003639197.1| transcriptional regulator, XRE family [Thermincola sp. JR]
 gi|296030528|gb|ADG81296.1| transcriptional regulator, XRE family [Thermincola potens JR]
          Length = 129

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/115 (21%), Positives = 50/115 (43%), Gaps = 15/115 (13%)

Query: 6   KIPNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K  + +D   +G+RIR  R  L +S+EK  E +G++   V + E+G  ++    L  I+ 
Sbjct: 2   KKKSEIDNKAIGQRIREEREKLELSREKFAEIIGLSDYYVGQLERGERQMSLRVLFKIAR 61

Query: 65  VLESPISFF---------FDVSPTVCSDISSEENNVMDF-----ISTPDGLQLNR 105
            L   + +          + V     +  + E+N   +        +P+ L+L +
Sbjct: 62  CLHVSLDYLIFGKTVHDTYQVQDARNTYKAVEDNKYKEINILLDKCSPEELELVK 116


>gi|289422954|ref|ZP_06424776.1| helix-turn-helix domain protein [Peptostreptococcus anaerobius
          653-L]
 gi|289156634|gb|EFD05277.1| helix-turn-helix domain protein [Peptostreptococcus anaerobius
          653-L]
          Length = 344

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 37/76 (48%), Gaps = 1/76 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-D 75
          ++I   R  +G SQE+L   L ++ Q V K+E GV+    +++  +SEV      +   +
Sbjct: 5  EKIMSLRKKMGWSQEELANELNVSRQSVSKWETGVSIPDMAKIVMMSEVFGVTTDYLLKE 64

Query: 76 VSPTVCSDISSEENNV 91
           +     +++S    +
Sbjct: 65 GANDEILELNSSSQEI 80


>gi|257063413|ref|YP_003143085.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
 gi|256791066|gb|ACV21736.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
          Length = 106

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 1/60 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG+ +   R   G++QE+L   + ++    + K E G       RL  +++ L+  IS+F
Sbjct: 28 VGRAVAKARETNGLTQEQLAHMIDMSDHSFISKIENGKRIPSMQRLLTLADALDVEISYF 87


>gi|238793272|ref|ZP_04636899.1| hypothetical protein yinte0001_37050 [Yersinia intermedia ATCC
          29909]
 gi|238727440|gb|EEQ18967.1| hypothetical protein yinte0001_37050 [Yersinia intermedia ATCC
          29909]
          Length = 193

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 24/53 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR  R  LG++  +L +  GI    + + E G        L  ++  L+ P+S
Sbjct: 23 IRREREKLGLTVTELAKRAGIAKSTLSQLEGGAGNPSLETLWSLAMALDVPVS 75


>gi|222080797|ref|YP_002542525.1| transcriptional regulator [Agrobacterium radiobacter K84]
 gi|221725476|gb|ACM28565.1| transcriptional regulator [Agrobacterium radiobacter K84]
          Length = 189

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 24/57 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +V   +R  R   G+SQ  L E  GI+ + +   E G   +  S L  ++  L   
Sbjct: 15 AHVSGNLRRLRKSAGLSQTALAEASGISRRMIIAVEAGDANISLSSLDKLAAALGVD 71


>gi|167749275|ref|ZP_02421402.1| hypothetical protein EUBSIR_00226 [Eubacterium siraeum DSM 15702]
 gi|167657768|gb|EDS01898.1| hypothetical protein EUBSIR_00226 [Eubacterium siraeum DSM 15702]
 gi|291556859|emb|CBL33976.1| Predicted transcriptional regulators [Eubacterium siraeum
          V10Sc8a]
          Length = 122

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 25/53 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +RI+  R   G SQ ++ E LG+T Q    YE G      + L  I+E   + 
Sbjct: 14 ERIKQLRKAKGASQAQVAEYLGVTKQAYSLYETGKREPPFATLLKIAEYFGTD 66


>gi|78043201|ref|YP_360517.1| putative prophage LambdaCh01, repressor protein [Carboxydothermus
          hydrogenoformans Z-2901]
 gi|77995316|gb|ABB14215.1| putative prophage LambdaCh01, repressor protein [Carboxydothermus
          hydrogenoformans Z-2901]
          Length = 254

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 25/61 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G+R+R  R    ++Q +L + L I    +  YE    +     L  +S      I F
Sbjct: 1  MNFGQRLRQLRTERDLTQAELAKLLSIGESTISFYESNKRQPDFDTLIKLSNFFNVSIDF 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|325263097|ref|ZP_08129832.1| DNA-binding protein [Clostridium sp. D5]
 gi|324031490|gb|EGB92770.1| DNA-binding protein [Clostridium sp. D5]
          Length = 157

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 33/75 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I   R    ++QE+L E L ++ Q + K+E G       +L  +S V +    +
Sbjct: 1  MEISEKILQLRKANNLTQEELAEKLNVSRQSISKWESGQTIPELEKLISLSSVFQVTTDY 60

Query: 73 FFDVSPTVCSDISSE 87
              S      I +E
Sbjct: 61 LLKPSELDELSIKTE 75


>gi|319936355|ref|ZP_08010771.1| transcriptional regulator [Coprobacillus sp. 29_1]
 gi|319808470|gb|EFW05022.1| transcriptional regulator [Coprobacillus sp. 29_1]
          Length = 176

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 37/72 (51%), Gaps = 2/72 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           ++  R   G+SQE+L + L ++ Q V K+E+G+      +L  +S  L   +      +
Sbjct: 6  NLKQMRKKKGISQEELAQLLNVSRQAVSKWEQGIGYPEVEKLLILSSQLNVSLDSLM--A 63

Query: 78 PTVCSDISSEEN 89
            + ++ +S++N
Sbjct: 64 DEIINNNTSQDN 75


>gi|312905525|ref|ZP_07764639.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|310631254|gb|EFQ14537.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
          Length = 418

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/67 (31%), Positives = 37/67 (55%), Gaps = 4/67 (5%)

Query: 9  NPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          N V+ + +G+ IR+ R   G +Q  L E +GI+   + K EKG  R+ A +L  + + L+
Sbjct: 2  NQVNQHDLGEAIRVSREERGWTQRYLAEKVGISRSLLSKVEKGTRRLSAEKLNLVLDSLQ 61

Query: 68 ---SPIS 71
              P++
Sbjct: 62 EEIVPVN 68


>gi|307706761|ref|ZP_07643566.1| helix-turn-helix family protein [Streptococcus mitis SK321]
 gi|307617846|gb|EFN97008.1| helix-turn-helix family protein [Streptococcus mitis SK321]
          Length = 62

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/57 (40%), Positives = 31/57 (54%), Gaps = 3/57 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++ RR  L MSQ +L E  GI  Q Q+ + E G    GA  L  +S+ L+  I FF
Sbjct: 8  RLKNRRKELKMSQRELAE--GICKQGQISRLENGEFTPGADFLYALSKKLKVSIDFF 62


>gi|291558273|emb|CBL35390.1| Predicted transcriptional regulators [Eubacterium siraeum
          V10Sc8a]
          Length = 110

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/82 (18%), Positives = 34/82 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R  R     +Q+++ + LG + Q   KYE G   +   R   +++     + +   +
Sbjct: 5  QRLRDLREDADKTQQEIADYLGTSAQHYGKYESGKAEIPLERAVRLAKYYNVSLDYIAGI 64

Query: 77 SPTVCSDISSEENNVMDFISTP 98
          S +     S    + +  +S  
Sbjct: 65 SSSRHPLTSDNSLSPIGILSDK 86


>gi|261366533|ref|ZP_05979416.1| transcriptional regulator, Cro/CI family [Subdoligranulum variabile
           DSM 15176]
 gi|282571346|gb|EFB76881.1| transcriptional regulator, Cro/CI family [Subdoligranulum variabile
           DSM 15176]
          Length = 124

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/128 (18%), Positives = 51/128 (39%), Gaps = 17/128 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+RI+  R +  ++Q++L +   ++ + VQ  E+G        L+   +VL   +  
Sbjct: 5   KELGRRIQKARKVKKLTQQELADLSHVSLKHVQSCERGEKNPSFEVLRAFGKVLNLSLDS 64

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
             ++      D+  +E +  D           R          R+ ++   R++   E K
Sbjct: 65  LMNL------DLPEDEQSAND----------MRQLYLSCPPAARKALLNSARALA-DELK 107

Query: 133 YRTIEEEC 140
             T  +EC
Sbjct: 108 EMTQADEC 115


>gi|254439667|ref|ZP_05053161.1| Cupin domain protein [Octadecabacter antarcticus 307]
 gi|198255113|gb|EDY79427.1| Cupin domain protein [Octadecabacter antarcticus 307]
          Length = 189

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 32/68 (47%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           P P    +G  IR  R   G++   LGE LG +   + + E+  +    S L++I+  L
Sbjct: 4  APPPESCTLGADIRALRKARGLTLSGLGETLGRSVGWLSQVERDKSEPSISDLRYIASAL 63

Query: 67 ESPISFFF 74
          +  +S  F
Sbjct: 64 DVSVSSLF 71


>gi|330825988|ref|YP_004389291.1| helix-turn-helix domain-containing protein [Alicycliphilus
           denitrificans K601]
 gi|329311360|gb|AEB85775.1| helix-turn-helix domain protein [Alicycliphilus denitrificans K601]
          Length = 117

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/124 (18%), Positives = 47/124 (37%), Gaps = 16/124 (12%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV  K    P+   +G +I   R     +Q  L E +G+  + + + E+G        L+
Sbjct: 1   MVKKKHPGKPLAQRLGTQIATLRKTKEWTQADLAERIGVEPETISRVERGATTPSLQTLE 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            IS  L   I    ++     +    +   +  +++     +L        D   R  ++
Sbjct: 61  KISHCLRVRIG---ELLAETSAQPDDQATKIAAWLA-----EL--------DEPHRSFVV 104

Query: 121 ELVR 124
           +LV+
Sbjct: 105 DLVK 108


>gi|307608926|emb|CBW98330.1| putative repressor [Legionella pneumophila 130b]
          Length = 227

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/93 (17%), Positives = 41/93 (44%), Gaps = 1/93 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +   +GKRI   R   G++ + LGE   G+   ++  +E+GV   G   ++ ++  L+  
Sbjct: 6   IKKEIGKRILEARKAKGLTLKALGELAGGLKQTRLTNWEQGVRTPGPEEIKSLARALDVS 65

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            ++   +S  +    +   + ++  +      +
Sbjct: 66  PAYLMCLSDELQFKEAKNPSQLIPLLDYRQACE 98


>gi|308071596|ref|YP_003873201.1| transcriptional regulator sinR [Paenibacillus polymyxa E681]
 gi|305860875|gb|ADM72663.1| HTH-type transcriptional regulator sinR [Paenibacillus polymyxa
           E681]
          Length = 114

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/87 (22%), Positives = 37/87 (42%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+RIR  R   G++Q++L E  G+    +   E+G        L+ +   L   IS   
Sbjct: 8   VGERIRTIRKAKGLTQQQLAELSGLDDAYIGSVERGERNFSIDTLEKVLTALNVSISELM 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL 101
                +  D +  +  + +F++    L
Sbjct: 68  FSKEHMTKDETIRQEAIDEFVALTSTL 94


>gi|239995180|ref|ZP_04715704.1| transcriptional regulator, HTH_3 family protein [Alteromonas
          macleodii ATCC 27126]
          Length = 187

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/93 (17%), Positives = 36/93 (38%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M      P+ +  ++   ++  R   G+S +K  +  G++   + + E+G +    + L 
Sbjct: 1  MTKANAQPSAISRSIAHHLQSVRKARGLSLDKTAQLTGVSKAMLGQIERGESSPTIATLW 60

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENNVMD 93
           I+  L    S F     T  +   ++     D
Sbjct: 61 KIATGLACSFSSFLSGDETAPTSQHADNKFAND 93


>gi|163792697|ref|ZP_02186674.1| transcriptional regulator, Cro/CI family protein [alpha
          proteobacterium BAL199]
 gi|159182402|gb|EDP66911.1| transcriptional regulator, Cro/CI family protein [alpha
          proteobacterium BAL199]
          Length = 192

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 30/68 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R+R  R   G++ E L    G+T   + K E G      + L  I++ +   +++FF
Sbjct: 5  IGPRLRQLRKRRGVTLETLAAGTGLTKGYLSKIETGKMVPPIATLSRIAQAIGCDMAYFF 64

Query: 75 DVSPTVCS 82
                 +
Sbjct: 65 QSQQGADA 72


>gi|160893603|ref|ZP_02074387.1| hypothetical protein CLOL250_01157 [Clostridium sp. L2-50]
 gi|156864588|gb|EDO58019.1| hypothetical protein CLOL250_01157 [Clostridium sp. L2-50]
          Length = 145

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 41/91 (45%), Gaps = 3/91 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G +++ +R  LG+SQ++L E  G+  + +  YE G  +   ++L  +++ LE    +  +
Sbjct: 5   GAKVKEQRGNLGLSQKQLAEKAGMGIRTITSYELGERKPYQAQLYKLAKALEVSTEYLQN 64

Query: 76  VSPTVCSDISSEENNVMDF---ISTPDGLQL 103
            +    S        V D      T + L L
Sbjct: 65  DNIEDPSYGLDRMEYVEDMRKNSGTREALDL 95


>gi|91225344|ref|ZP_01260512.1| putative transcriptional regulator [Vibrio alginolyticus 12G01]
 gi|91189983|gb|EAS76255.1| putative transcriptional regulator [Vibrio alginolyticus 12G01]
          Length = 102

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 48/99 (48%), Gaps = 9/99 (9%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLE 67
           D  +  R++  R    ++Q+ LG  +G+       ++  YEKG +      L+ ++E L+
Sbjct: 4   DNPIPARLKAARKKAKITQKDLGVKIGMEPSSASGRMNHYEKGRHVPDIGTLERMAEELD 63

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
            P+++FF       +++S+E    +D +S  +   L + 
Sbjct: 64  VPLNYFF-----CRNELSAELACAIDKMSDEEKAALLKS 97


>gi|75674859|ref|YP_317280.1| XRE family transcriptional regulator [Nitrobacter winogradskyi
           Nb-255]
 gi|74419729|gb|ABA03928.1| transcriptional regulator, XRE family [Nitrobacter winogradskyi
           Nb-255]
          Length = 259

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/111 (22%), Positives = 45/111 (40%), Gaps = 5/111 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VGK +R  R+  G+S E+L +  G++   + + E G +      L  I   L  P + 
Sbjct: 76  VIVGKNLRRIRLRQGLSLERLAKQSGVSRAMLGQIETGKSTPTIGLLWKICTSLTVPFAS 135

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY-FIQIDDVKVRQKIIEL 122
              V       +   + +    +S+  G   +R  F    D + R +  EL
Sbjct: 136 LIAVGDPEGIIVLRRDGS--KLLSSNQGRFTSRALFP--FDSERRTEFYEL 182


>gi|19551615|ref|NP_599617.1| transcriptional regulator [Corynebacterium glutamicum ATCC 13032]
          Length = 469

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 30/132 (22%), Positives = 50/132 (37%), Gaps = 24/132 (18%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R    +SQ  L   LG++   V + E  V  +    L  I+E      +FF  
Sbjct: 2   GSRLRQLRRERDLSQASLAATLGLSASYVNQIEHDVRPLTVPVLLRITEAFGVDATFF-- 59

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV-RQKIIE-------LVRSIV 127
                  D S     V D +   +          I+   V  Q++ E       L R++V
Sbjct: 60  ----SRDDDSRLLAEVQDVMLDRE----------INPANVELQELSEMVYNHPQLARAMV 105

Query: 128 SSEKKYRTIEEE 139
              ++YR + ++
Sbjct: 106 EMHQRYRNVRDK 117


>gi|29374945|ref|NP_814098.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
           V583]
 gi|257088816|ref|ZP_05583177.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           CH188]
 gi|281416438|ref|YP_003347358.1| cI repressor protein [Enterococcus phage phiFL4A]
 gi|29342403|gb|AAO80169.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
           V583]
 gi|256997628|gb|EEU84148.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           CH188]
 gi|270209614|gb|ACZ64153.1| cI repressor protein [Enterococcus phage phiFL4A]
 gi|315160614|gb|EFU04631.1| toxin-antitoxin system, antitoxin component, Xre family
           [Enterococcus faecalis TX0645]
 gi|315579460|gb|EFU91651.1| toxin-antitoxin system, antitoxin component, Xre family
           [Enterococcus faecalis TX0630]
          Length = 120

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 30/108 (27%), Positives = 51/108 (47%), Gaps = 11/108 (10%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPISFFFDV 76
           R++  R    MSQ++L   LG+  + +  YE+GV   V +  L+ ISE+ +  I +    
Sbjct: 7   RLKELRKNKKMSQQELATFLGMKRENISNYERGVITNVSSDTLEKISELFDVSIDYLLGK 66

Query: 77  SPTVCSDISSEENNVM-----DFISTPDGLQL----NRYFI-QIDDVK 114
           S T      S    VM     D +S+    +L     R+F  +I+++K
Sbjct: 67  SDTSNQKNESMAKQVMMRMDTDGLSSKQVKELEDEMERFFSWRIEEIK 114


>gi|107027653|ref|YP_625164.1| XRE family transcriptional regulator [Burkholderia cenocepacia AU
           1054]
 gi|116693636|ref|YP_839169.1| XRE family transcriptional regulator [Burkholderia cenocepacia
           HI2424]
 gi|170737089|ref|YP_001778349.1| XRE family transcriptional regulator [Burkholderia cenocepacia
           MC0-3]
 gi|105897027|gb|ABF80191.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia cenocepacia AU 1054]
 gi|116651636|gb|ABK12276.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia cenocepacia HI2424]
 gi|169819277|gb|ACA93859.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
           MC0-3]
          Length = 192

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/130 (17%), Positives = 47/130 (36%), Gaps = 11/130 (8%)

Query: 1   MVGNKKIPNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           MV   +     D + +G +IR  R  L  + +      GI+   + + E+G+     + L
Sbjct: 1   MVPPTENSRSADAVALGSKIRALRQRLKRTLDDTATAAGISKPFLSQVERGLASPSLTSL 60

Query: 60  QHISEVLESPISFFFDVSPTVCS----------DISSEENNVMDFISTPDGLQLNRYFIQ 109
             I+  L   + +F D      S            +   N      +  +G QL    ++
Sbjct: 61  AGIAHALGVTVQYFVDTPSEERSVCRGDQLRFFGFADSANLFARLTNVSEGRQLEAILVR 120

Query: 110 IDDVKVRQKI 119
           +   + R ++
Sbjct: 121 MPPGQKRSEV 130


>gi|320526956|ref|ZP_08028145.1| cupin domain protein [Solobacterium moorei F0204]
 gi|320132541|gb|EFW25082.1| cupin domain protein [Solobacterium moorei F0204]
          Length = 180

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 35/81 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++G RI+  R+   ++ E+L     +T   + + E+ +       L  I+E L   +S 
Sbjct: 2  IDIGHRIKQLRIKNDLTLEELASRTELTKGFLSQLERNLTSPSIQTLADIAEALGVDMSR 61

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF          + E+  + +
Sbjct: 62 FFAEEHEEKIVFTPEDVFIDE 82


>gi|291546057|emb|CBL19165.1| Helix-turn-helix [Ruminococcus sp. SR1/5]
          Length = 81

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/73 (30%), Positives = 31/73 (42%), Gaps = 5/73 (6%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECL-----GITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D+ +GK +R  R   G+SQEKL   L      I      KYE G   +  S L  + ++ 
Sbjct: 8  DVYIGKNLRRLREKFGLSQEKLCAELQCRNCDIGRSTYAKYENGELNIRISVLMELKKIY 67

Query: 67 ESPISFFFDVSPT 79
                FFD   +
Sbjct: 68 NCSYDEFFDDLDS 80


>gi|291008215|ref|ZP_06566188.1| DNA-binding protein [Saccharopolyspora erythraea NRRL 2338]
          Length = 201

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 28/75 (37%), Gaps = 3/75 (4%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   +  P  +   +   +R  R  +G+S  +L +  GI    + + E G        L 
Sbjct: 16 MSTTESTPLEI---ISAALRRERDRVGLSLTELAKRAGIAKSTLSQLESGAGNPSVETLW 72

Query: 61 HISEVLESPISFFFD 75
           ++  L  P S   D
Sbjct: 73 ALAVALGVPFSRLVD 87


>gi|269794649|ref|YP_003314104.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Sanguibacter
          keddieii DSM 10542]
 gi|269096834|gb|ACZ21270.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Sanguibacter
          keddieii DSM 10542]
          Length = 509

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 27/53 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G  IR  R + G +Q  L + +G +   V + EKG   +    ++ ISE L+
Sbjct: 9  IGTLIRDARKLHGWTQAHLADKIGTSQSAVNRIEKGGQNLSLDTVRRISEALD 61


>gi|259418297|ref|ZP_05742215.1| transcriptional regulator, XRE family with cupin sensor
          [Silicibacter sp. TrichCH4B]
 gi|259345692|gb|EEW57536.1| transcriptional regulator, XRE family with cupin sensor
          [Silicibacter sp. TrichCH4B]
          Length = 190

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 32/80 (40%), Gaps = 4/80 (5%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N    +  D  +G+R+R  R   G+SQ  L +  G+    +   E G        L+ I 
Sbjct: 2  NNTNADSEDYELGQRLRAVREQSGVSQRALAKKTGVPNSTISLIESGKMNPSVGALRRIL 61

Query: 64 EVLESPISF--FFDVSPTVC 81
          +    PIS   FF   P + 
Sbjct: 62 D--GVPISLSEFFAFEPELE 79


>gi|167768466|ref|ZP_02440519.1| hypothetical protein CLOSS21_03025 [Clostridium sp. SS2/1]
 gi|291086900|ref|ZP_06344824.2| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium sp. M62/1]
 gi|167709990|gb|EDS20569.1| hypothetical protein CLOSS21_03025 [Clostridium sp. SS2/1]
 gi|291077343|gb|EFE14707.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium sp. M62/1]
          Length = 232

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 36/76 (47%), Gaps = 1/76 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
             +G R++ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 31  KLIGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 90

Query: 72  FFFDVSPTVCSDISSE 87
           +    +    +DI+ +
Sbjct: 91  WLKGETDEYETDITDK 106


>gi|167749537|ref|ZP_02421664.1| hypothetical protein EUBSIR_00495 [Eubacterium siraeum DSM 15702]
 gi|167657461|gb|EDS01591.1| hypothetical protein EUBSIR_00495 [Eubacterium siraeum DSM 15702]
          Length = 380

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+ ++  R+   ++QE+L + LG++ Q V ++E G      + L  I+   E  + 
Sbjct: 16 LGENLKKFRLQRELTQEQLADVLGVSAQAVSRWENGSTYPDITLLPTIASYFEITLD 72


>gi|217960750|ref|YP_002339314.1| DNA-binding protein [Bacillus cereus AH187]
 gi|217064586|gb|ACJ78836.1| DNA-binding protein [Bacillus cereus AH187]
          Length = 67

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 2/61 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          RI+  R  L M+QE L + +G+  + +   EKG           I++ L S I   F F+
Sbjct: 6  RIKEYRAKLNMTQEDLAKNVGVRRETISHLEKGKYNPSLQLAYDIAKALHSTIDEVFIFE 65

Query: 76 V 76
           
Sbjct: 66 D 66


>gi|163761211|ref|ZP_02168287.1| transcriptional regulator, XRE family with cupin sensor [Hoeflea
           phototrophica DFL-43]
 gi|162281550|gb|EDQ31845.1| transcriptional regulator, XRE family with cupin sensor [Hoeflea
           phototrophica DFL-43]
          Length = 203

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/96 (19%), Positives = 35/96 (36%), Gaps = 6/96 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+RIR  R   G++ + L +  GI+   + + E+         L  ++  L   +  F  
Sbjct: 23  GERIREMRHKAGLTLQTLADQSGISVGFLSQVERDKATPSLGTLASVAAALGVDVDVFIS 82

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                  D  + E     F+     LQ    + +I 
Sbjct: 83  TPKPA--DSVTREGERPSFVLADSSLQ----YERIS 112


>gi|160896156|ref|YP_001561738.1| XRE family transcriptional regulator [Delftia acidovorans SPH-1]
 gi|160361740|gb|ABX33353.1| transcriptional regulator, XRE family [Delftia acidovorans SPH-1]
          Length = 104

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 1/57 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLES 68
           ++G+RIR RR  LGM+Q +L E  GIT   V + E G  R +    L  ++  L++
Sbjct: 2  RHIGERIRARRAELGMTQGRLAEAAGITASAVSQIESGAIRTLKNDTLARVALALQT 58


>gi|89068976|ref|ZP_01156358.1| Predicted transcriptional regulator [Oceanicola granulosus
          HTCC2516]
 gi|89045557|gb|EAR51621.1| Predicted transcriptional regulator [Oceanicola granulosus
          HTCC2516]
          Length = 439

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 28/68 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RIR RR+  G+ Q  L +  GI+   +   E    R+    L  I+ VLE       +
Sbjct: 8  GSRIRARRLDRGLRQADLAQMAGISASYLNLIEHNRRRIAGRLLHEIARVLEIDPVVLSE 67

Query: 76 VSPTVCSD 83
           +     D
Sbjct: 68 GAGGATVD 75


>gi|330966069|gb|EGH66329.1| DNA-binding protein [Pseudomonas syringae pv. actinidiae str.
           M302091]
          Length = 189

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/100 (21%), Positives = 35/100 (35%), Gaps = 1/100 (1%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           PV  +V   +R  R    +SQ  L E  G++ + +   E G   V  + L  ++E LE  
Sbjct: 10  PVLQHVSHNVRRLRNAADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRVAEALEVV 69

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
            S              +E         +   + L R   +
Sbjct: 70  FSDLIQAPENRDHSRINELAWAGTIPGSK-AVLLARAIAR 108


>gi|319900779|ref|YP_004160507.1| transcriptional regulator [Bacteroides helcogenes P 36-108]
 gi|319415810|gb|ADV42921.1| transcriptional regulator [Bacteroides helcogenes P 36-108]
          Length = 191

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 31/68 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    +S E L +  G+  +QV++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKSLRESQSISMEDLAQRSGLAIEQVERIENNIDLPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D       
Sbjct: 67 DDQDENGP 74


>gi|317488752|ref|ZP_07947286.1| hypothetical protein HMPREF1023_00984 [Eggerthella sp. 1_3_56FAA]
 gi|316912122|gb|EFV33697.1| hypothetical protein HMPREF1023_00984 [Eggerthella sp. 1_3_56FAA]
          Length = 112

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 34/69 (49%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M    K  + +++ + +R+   R   G SQE+L E LG++ Q V K+E+  +      L 
Sbjct: 1  MSPTSKKGSFMNVEIAQRLAAMRREQGYSQEELAERLGLSRQAVSKWERAESSPDTGNLI 60

Query: 61 HISEVLESP 69
           ++++    
Sbjct: 61 ALAKLYGVS 69


>gi|325675508|ref|ZP_08155192.1| DNA binding regulatory protein [Rhodococcus equi ATCC 33707]
 gi|325553479|gb|EGD23157.1| DNA binding regulatory protein [Rhodococcus equi ATCC 33707]
          Length = 241

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 2/63 (3%)

Query: 10  PVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           PVD N  + + ++  R    MS   L +   ++ Q + K E+GV       +  I+  L+
Sbjct: 43  PVDSNGLIARNVQRFRNERQMSMGDLAKRADLSKQTLSKIEQGVGNPTVETIDAIATALD 102

Query: 68  SPI 70
            P+
Sbjct: 103 VPL 105


>gi|289551818|ref|YP_003472722.1| Transcriptional regulator, XRE family [Staphylococcus lugdunensis
          HKU09-01]
 gi|315660010|ref|ZP_07912868.1| cro/CI family transcriptional regulator [Staphylococcus
          lugdunensis M23590]
 gi|289181349|gb|ADC88594.1| Transcriptional regulator, XRE family [Staphylococcus lugdunensis
          HKU09-01]
 gi|315494911|gb|EFU83248.1| cro/CI family transcriptional regulator [Staphylococcus
          lugdunensis M23590]
          Length = 190

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 28/65 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          INVG++++  R+  G SQE L E L ++ Q +  +E   +      L  +  +    +  
Sbjct: 2  INVGQQLKKYRIQQGYSQEVLAEKLYVSRQTISNWENNKSLPDIHNLLMMCSLFNVSLDD 61

Query: 73 FFDVS 77
               
Sbjct: 62 LVKGD 66


>gi|229156920|ref|ZP_04285001.1| hypothetical protein bcere0010_31040 [Bacillus cereus ATCC 4342]
 gi|228626410|gb|EEK83156.1| hypothetical protein bcere0010_31040 [Bacillus cereus ATCC 4342]
          Length = 374

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  IHIHKIIADKRKEKGITQEELATYIGITKASVSKWETGQSYPDITFLPLLASYFNVSIDE 63

Query: 73 FFDVSPTVCSD 83
              +P +  +
Sbjct: 64 LISYTPQMEQE 74


>gi|209965957|ref|YP_002298872.1| hypothetical protein RC1_2685 [Rhodospirillum centenum SW]
 gi|209959423|gb|ACJ00060.1| conserved hypothetical protein [Rhodospirillum centenum SW]
          Length = 480

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/149 (17%), Positives = 52/149 (34%), Gaps = 30/149 (20%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   K +       +G ++R  R  L ++Q ++ + LGI+   +   E     +    L 
Sbjct: 1   MTEKKAM-------LGHKVRRLRRDLKLTQAQMADELGISPSYLNLIESNQRPLTVPLLL 53

Query: 61  HISEVLESPISFFFDVSPTVCSDISSE-------------ENNVMDFISTPDGL-----Q 102
            I ++ +  +S F +   T       E               ++ +  +    L     Q
Sbjct: 54  KIGQIYDVDLSTFAETDETRLVAGLKEVFADPLFETSDIKNQDMKELAAVAPTLGQAVVQ 113

Query: 103 LNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           L R +      + RQ +  L  S+   +K
Sbjct: 114 LYRAYR-----EARQDLSVLAESMADGDK 137


>gi|184153646|ref|YP_001841987.1| hypothetical protein LAR_0991 [Lactobacillus reuteri JCM 1112]
 gi|227364982|ref|ZP_03849023.1| conserved hypothetical protein [Lactobacillus reuteri MM2-3]
 gi|325681705|ref|ZP_08161225.1| hypothetical protein HMPREF0536_10144 [Lactobacillus reuteri
           MM4-1A]
 gi|183224990|dbj|BAG25507.1| hypothetical protein [Lactobacillus reuteri JCM 1112]
 gi|227069993|gb|EEI08375.1| conserved hypothetical protein [Lactobacillus reuteri MM2-3]
 gi|324979017|gb|EGC15964.1| hypothetical protein HMPREF0536_10144 [Lactobacillus reuteri
           MM4-1A]
          Length = 266

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 29/110 (26%), Positives = 51/110 (46%), Gaps = 13/110 (11%)

Query: 4   NKKIPNPVDI-------NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA 56
           N K P  +D        N G  I + R    M+Q++LG  +G+T + + +YE G+  +  
Sbjct: 70  NSKAPTLLDRVNFNEKGNPGNNIYVERKKKHMTQKELGMKIGVTREYISEYELGIRPIPI 129

Query: 57  SRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             L+ +SE L S  S+   V+           +++ DFI + D  +L + 
Sbjct: 130 ETLKKLSEALGSEASYLLGVNGKYL------PHSMNDFILSLDDHELLKS 173



 Score = 43.3 bits (101), Expect = 0.013,   Method: Composition-based stats.
 Identities = 10/62 (16%), Positives = 27/62 (43%), Gaps = 5/62 (8%)

Query: 17 KRIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           R++  R    ++Q++L + L      ++   +  YE+        +LQ I+   +  ++
Sbjct: 4  NRLKFLRRKKHLTQQQLSKELKKRNIKVSVALISSYEQEKIPFNKEKLQKIANYFDVSVN 63

Query: 72 FF 73
          + 
Sbjct: 64 YL 65


>gi|154482433|ref|ZP_02024881.1| hypothetical protein EUBVEN_00100 [Eubacterium ventriosum ATCC
          27560]
 gi|149736710|gb|EDM52596.1| hypothetical protein EUBVEN_00100 [Eubacterium ventriosum ATCC
          27560]
          Length = 195

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 36/77 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R  L +SQ++L E + ++ Q +  +E   +    + L  +SEV ++ I  
Sbjct: 1  MELGNQIKKYRSELQLSQDQLAEHIYVSRQTISNWENEKSYPDVNSLVLLSEVFKTSIDN 60

Query: 73 FFDVSPTVCSDISSEEN 89
                    +  +E+ 
Sbjct: 61 LIKGDIENMKEKINEQE 77


>gi|53723158|ref|YP_112143.1| MerR family transcriptional regulator [Burkholderia pseudomallei
           K96243]
 gi|134281916|ref|ZP_01768623.1| DNA-binding protein [Burkholderia pseudomallei 305]
 gi|254264128|ref|ZP_04954993.1| DNA-binding protein [Burkholderia pseudomallei 1710a]
 gi|52213572|emb|CAH39625.1| putative MerR family transcriptional regulator [Burkholderia
           pseudomallei K96243]
 gi|134246978|gb|EBA47065.1| DNA-binding protein [Burkholderia pseudomallei 305]
 gi|254215130|gb|EET04515.1| DNA-binding protein [Burkholderia pseudomallei 1710a]
          Length = 193

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/117 (17%), Positives = 46/117 (39%), Gaps = 10/117 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G +IR  R  L  + ++     GI+   + + E+G+     + L  I+  L   + +
Sbjct: 15  VALGSKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSITSLAGIAHALGVTVQY 74

Query: 73  FFDVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFIQIDDVKVRQKI 119
           F +      S    ++     F  +          P+G QL    +++   + R ++
Sbjct: 75  FVETPSEERSVCRGDQLRFFSFADSANLFARLTNVPEGRQLEAILVRMPPGQKRSEV 131


>gi|54296142|ref|YP_122511.1| hypothetical protein lpp0165 [Legionella pneumophila str. Paris]
 gi|53749927|emb|CAH11312.1| hypothetical protein lpp0165 [Legionella pneumophila str. Paris]
          Length = 227

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/93 (17%), Positives = 41/93 (44%), Gaps = 1/93 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +   +GKRI   R   G++ + LGE   G+   ++  +E+GV   G   ++ ++  L+  
Sbjct: 6   IKKEIGKRILEARKAKGLTLKALGELAGGLKQTRLTNWEQGVRTPGPEEIKSLARALDVS 65

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            ++   +S  +    +   + ++  +      +
Sbjct: 66  PAYLMCLSDELQFKEAKNPSQLIPLLDYRQACE 98


>gi|332798162|ref|YP_004459661.1| helix-turn-helix domain-containing protein [Tepidanaerobacter sp.
          Re1]
 gi|332695897|gb|AEE90354.1| helix-turn-helix domain protein [Tepidanaerobacter sp. Re1]
          Length = 123

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 32/59 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +GKRIR  R  LG+S+E+  E +G++   + + E+G  ++    L  ++  L   + + 
Sbjct: 8  IGKRIREEREKLGLSREEFAEIIGLSDYYIGQLERGERQMSMPTLIKVANCLHVSLDYL 66


>gi|319939025|ref|ZP_08013389.1| DNA-binding protein [Streptococcus anginosus 1_2_62CV]
 gi|319812075|gb|EFW08341.1| DNA-binding protein [Streptococcus anginosus 1_2_62CV]
          Length = 115

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/70 (35%), Positives = 36/70 (51%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +GKRIRL R+  GM+QE+L E   +    V K E     V  + L+ + + LE  I  F
Sbjct: 15 YIGKRIRLLRLERGMTQEQLEERADLGTNYVYKLEHLAPNVKINTLERVMQALEVDIETF 74

Query: 74 FDVSPTVCSD 83
          FD+ P    +
Sbjct: 75 FDMVPDKEKE 84


>gi|309778211|ref|ZP_07673144.1| DNA-binding protein [Erysipelotrichaceae bacterium 3_1_53]
 gi|308914045|gb|EFP59852.1| DNA-binding protein [Erysipelotrichaceae bacterium 3_1_53]
          Length = 135

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/79 (16%), Positives = 33/79 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+++  R+  GM+QE + E + ++ Q +  +E   +      +  +S +    +  
Sbjct: 1  MEIGKKLKNARVQSGMTQENVAEKINVSRQTISNWENEKSYPDIISVIELSNLYSISLDV 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                 +   +    N V
Sbjct: 61 LLKGDEKMIEHLEESTNVV 79


>gi|317056742|ref|YP_004105209.1| helix-turn-helix domain-containing protein [Ruminococcus albus 7]
 gi|315449011|gb|ADU22575.1| helix-turn-helix domain protein [Ruminococcus albus 7]
          Length = 146

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/53 (33%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR  R+  G+SQE+L E + +T Q V ++E G        L+ +S + E  I+
Sbjct: 7  IRELRVKRGLSQEELAEKVYVTRQAVSRWENGDTVPNTETLKLLSVLFEVSIN 59


>gi|323706165|ref|ZP_08117733.1| helix-turn-helix domain protein [Thermoanaerobacterium
          xylanolyticum LX-11]
 gi|323534458|gb|EGB24241.1| helix-turn-helix domain protein [Thermoanaerobacterium
          xylanolyticum LX-11]
          Length = 118

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/82 (18%), Positives = 37/82 (45%), Gaps = 1/82 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
          VG RIR  R  +G+++E+  E +G++   +   E+    +       I++ L     +  
Sbjct: 14 VGMRIRAERERIGLTREQFAEAVGVSAMYIGHIERAQRVMSLKTFVRIAKSLHVSTDYLL 73

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
          F +      +   +E+ +++ +
Sbjct: 74 FGIGEAENKNNDGKEDALIELL 95


>gi|313889294|ref|ZP_07822945.1| DNA-binding helix-turn-helix protein [Streptococcus
          pseudoporcinus SPIN 20026]
 gi|313122342|gb|EFR45430.1| DNA-binding helix-turn-helix protein [Streptococcus
          pseudoporcinus SPIN 20026]
          Length = 367

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 30/68 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I  +R   G++QE+L E + +T   V K+E G +      L  ++      +    
Sbjct: 4  IGENILQKRKERGITQEELAEFMMVTKASVSKWETGQSHPDILLLPKLATFFNISVDELI 63

Query: 75 DVSPTVCS 82
             P + S
Sbjct: 64 GYDPDLSS 71


>gi|257463085|ref|ZP_05627486.1| MerR family transcriptional regulator [Fusobacterium sp. D12]
 gi|317060684|ref|ZP_07925169.1| transcriptional regulator [Fusobacterium sp. D12]
 gi|313686360|gb|EFS23195.1| transcriptional regulator [Fusobacterium sp. D12]
          Length = 182

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 11/70 (15%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++I+  R    +S  +L   + ++   + + E+G        L+ I+  L+  +S+
Sbjct: 1  MSIGEKIKKSRNEKSLSLRELAVKVDLSASFLSQIEQGKASPSIENLKKIATALDVRVSY 60

Query: 73 FFDVSPTVCS 82
            +      +
Sbjct: 61 LIEDDEVQKN 70


>gi|188591420|ref|YP_001796019.1| putative transcriptional regulator, XRE family [Cupriavidus
           taiwanensis]
 gi|170938815|emb|CAP63813.1| putative transcriptional regulator, XRE family [Cupriavidus
           taiwanensis LMG 19424]
          Length = 120

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/134 (14%), Positives = 48/134 (35%), Gaps = 15/134 (11%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  +   P         R+R  R   G++Q +L +  G+    +  +E G  +     L+
Sbjct: 1   MSQSTPPPTSPSAVFPSRLRTAREYRGLNQGELAQKAGMQPSAISHFETGTRKPSFDNLR 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            +++ L+    +                  V DF +     +L+R++  +     R+   
Sbjct: 61  ILADSLDVTTDYLL--------------GRVEDFKALAGADRLHRHYGSL-QPSDRKMAD 105

Query: 121 ELVRSIVSSEKKYR 134
           +L+  +    ++  
Sbjct: 106 DLITMLAKRAQEKG 119


>gi|116334877|ref|YP_796403.1| XRE family transcriptional regulator [Lactobacillus brevis ATCC
          367]
 gi|116100224|gb|ABJ65372.1| Transcriptional regulator, xre family [Lactobacillus brevis ATCC
          367]
          Length = 254

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 1/76 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFFFDVS 77
          I+  R    ++QE L + L +T Q V  +E G N      L  +S++    +    F+  
Sbjct: 7  IKTLRRQSNLTQEALAQQLHVTRQTVSTWETGKNMPNLETLHALSQLFNISLEKLLFNEE 66

Query: 78 PTVCSDISSEENNVMD 93
           T+  D        +D
Sbjct: 67 ITMKKDKDPSLATQID 82


>gi|90592682|ref|YP_529597.1| hypothetical protein CDBPCV119_gp46 [Clostridium phage phi CD119]
 gi|71482537|gb|AAX53474.1| hypothetical protein [Clostridium phage phi CD119]
          Length = 72

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 27/66 (40%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           I+L R  + M+Q++     GI+ +  Q YE G        L  IS  L     F   +S
Sbjct: 7  NIKLVRKQMNMTQKQFASLFGISERAYQYYEAGSREPNLETLILISNKLNVSTDFLLGLS 66

Query: 78 PTVCSD 83
          P    +
Sbjct: 67 PNQNRN 72


>gi|82702660|ref|YP_412226.1| XRE family transcriptional regulator [Nitrosospira multiformis
          ATCC 25196]
 gi|82410725|gb|ABB74834.1| transcriptional regulator, XRE family [Nitrosospira multiformis
          ATCC 25196]
          Length = 189

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/59 (33%), Positives = 36/59 (61%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++ + IR  R  L ++Q +L E +G++ Q VQ++E G  +    RL  I+EVL+ P +
Sbjct: 6  MDIARIIREGREKLKLNQSELAELVGVSPQAVQQWESGATQPRGKRLNKIAEVLKLPPA 64


>gi|328885857|emb|CCA59096.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Streptomyces
          venezuelae ATCC 10712]
          Length = 509

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 30/64 (46%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +   + +GK IR  R   G +Q +L + L  +   V + E+G   +    +  I E L
Sbjct: 1  MADDYLVRIGKLIRDARQHRGWTQTQLADALATSQSAVNRIERGNQNISLEMIARIGEAL 60

Query: 67 ESPI 70
          +S I
Sbjct: 61 DSEI 64


>gi|269929183|ref|YP_003321504.1| transcriptional regulator, XRE family [Sphaerobacter thermophilus
           DSM 20745]
 gi|269788540|gb|ACZ40682.1| transcriptional regulator, XRE family [Sphaerobacter thermophilus
           DSM 20745]
          Length = 367

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/125 (16%), Positives = 57/125 (45%), Gaps = 4/125 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G  +R  R   G +  +L    G++  QV + E+G N      L  +++ LE  I++F
Sbjct: 17  QIGPALRALRERRGWTLAQLAAESGVSRSQVWRLEQGQNVPSYLTLARLAKALEVEINYF 76

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
                T  +++  + ++ +  +  P+       F ++  ++ R  +++ +R +   +++ 
Sbjct: 77  TSFESTA-TELDRDLSSYLRRVGVPE--DTWAEFGRLG-LEARGALLDALRRLTEPQEQV 132

Query: 134 RTIEE 138
            + + 
Sbjct: 133 ASRQR 137


>gi|288549632|ref|ZP_05967658.2| DNA-binding protein [Enterobacter cancerogenus ATCC 35316]
 gi|288318084|gb|EFC57022.1| DNA-binding protein [Enterobacter cancerogenus ATCC 35316]
          Length = 183

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/90 (18%), Positives = 31/90 (34%), Gaps = 2/90 (2%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++   ++  R   G S   L E  G++   + + E+  +    S L  I+  L  P S F
Sbjct: 14  HLASTLKALRQARGWSLSMLAEKTGVSKAMLGQIERNESSPTVSTLWKIATGLNVPFSAF 73

Query: 74  F--DVSPTVCSDISSEENNVMDFISTPDGL 101
              +       D   +   V       + L
Sbjct: 74  ITPEAESPAVYDPQQQAMVVKPLFPWDEAL 103


>gi|154483973|ref|ZP_02026421.1| hypothetical protein EUBVEN_01681 [Eubacterium ventriosum ATCC
          27560]
 gi|149735015|gb|EDM50901.1| hypothetical protein EUBVEN_01681 [Eubacterium ventriosum ATCC
          27560]
          Length = 236

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 36/83 (43%), Gaps = 3/83 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +    +++  R    +SQE+L   L ++ Q + K+E G      + L  IS   +  + +
Sbjct: 1  MTFSSKLQKLRKDNNLSQEQLASELCVSRQAISKWELGT-LPDINNLVKISNFFDCSLDY 59

Query: 73 FFDVSPTV--CSDISSEENNVMD 93
            +         + S+E+N + +
Sbjct: 60 LMNDDKEDQFEEEFSNEQNKIAN 82


>gi|324328552|gb|ADY23812.1| putative DNA-binding protein [Bacillus thuringiensis serovar
          finitimus YBT-020]
          Length = 387

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/62 (32%), Positives = 30/62 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++L R    MS   L   L I+ Q V KYEK ++      +  +  VL  P  F+F+
Sbjct: 8  GERLKLARRFNAMSLLDLAGKLSISKQMVSKYEKNISPPSGEIMLQLEGVLGFPRKFYFE 67

Query: 76 VS 77
            
Sbjct: 68 DD 69


>gi|322434732|ref|YP_004216944.1| helix-turn-helix domain protein [Acidobacterium sp. MP5ACTX9]
 gi|321162459|gb|ADW68164.1| helix-turn-helix domain protein [Acidobacterium sp. MP5ACTX9]
          Length = 177

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/116 (20%), Positives = 41/116 (35%), Gaps = 7/116 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I V   +R  R +  +SQ +L   + +    + K E G      S L  ++  LE  IS 
Sbjct: 63  IQVATAVRDLRHVRNLSQRQLAARMNVPRTYISKIENGKAMPTLSSLDRLARALEVDIS- 121

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
                  +  D  +  +N    + T   L     +    D   R   +  VR + +
Sbjct: 122 ------ALLRDAPTRHSNETAMLVTDPFLAEIAAYTSQLDSLQRSIFLNHVRELAA 171


>gi|291283823|ref|YP_003500641.1| hypothetical protein G2583_3129 [Escherichia coli O55:H7 str.
          CB9615]
 gi|290763696|gb|ADD57657.1| hypothetical protein G2583_3129 [Escherichia coli O55:H7 str.
          CB9615]
          Length = 224

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 35/71 (49%), Gaps = 3/71 (4%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +  NP  +++  R + RR+ LGM+Q ++    G++ Q ++  E G  R     L  +++ 
Sbjct: 13 RRTNP--MSLAARFKARRLELGMTQVEVANSAGVSQQSIESIESGRTR-KPRNLLDLAKA 69

Query: 66 LESPISFFFDV 76
          L+    +  + 
Sbjct: 70 LKCSPDWLLNG 80


>gi|256377995|ref|YP_003101655.1| XRE family transcriptional regulator [Actinosynnema mirum DSM
           43827]
 gi|255922298|gb|ACU37809.1| transcriptional regulator, XRE family [Actinosynnema mirum DSM
           43827]
          Length = 197

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 37/88 (42%), Gaps = 7/88 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G RIR  R   G+S  +L E  G++ + + + E G      S +  ++  L +    
Sbjct: 11  VLLGNRIRALRKAAGLSVVRLAELSGVSRRMLTQIELGQANPSLSTVDRVASALGTT--- 67

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDG 100
            F     V  D   E    ++  STP G
Sbjct: 68  -FSALAGVLGDPLPEG---VEVWSTPGG 91


>gi|227873927|ref|ZP_03992147.1| transcriptional regulator [Oribacterium sinus F0268]
 gi|227840233|gb|EEJ50643.1| transcriptional regulator [Oribacterium sinus F0268]
          Length = 191

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 29/56 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          GK+I+  R    ++Q+ L E + ++ Q +  +E   +    + +  +SEVLE  + 
Sbjct: 4  GKKIKYYRNEKSLTQDNLAERIFVSRQTISNWENDKSYPDINSIILLSEVLEVSVD 59


>gi|223986398|ref|ZP_03636404.1| hypothetical protein HOLDEFILI_03716 [Holdemania filiformis DSM
          12042]
 gi|223961640|gb|EEF66146.1| hypothetical protein HOLDEFILI_03716 [Holdemania filiformis DSM
          12042]
          Length = 358

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/80 (30%), Positives = 38/80 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  I L R   G +Q +L E LGIT + V K+E G +    + L  +SE L   +S 
Sbjct: 4  MKIGGFIALCRKEKGWTQSQLAEILGITDKAVSKWETGKSLPDYALLTPLSEALGITLSE 63

Query: 73 FFDVSPTVCSDISSEENNVM 92
           F        D+  + + V+
Sbjct: 64 LFSGERIRAEDLMEKTDQVL 83


>gi|261408465|ref|YP_003244706.1| XRE family transcriptional regulator [Paenibacillus sp. Y412MC10]
 gi|261284928|gb|ACX66899.1| transcriptional regulator, XRE family [Paenibacillus sp. Y412MC10]
          Length = 189

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/91 (18%), Positives = 40/91 (43%), Gaps = 3/91 (3%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P+   VG+ ++  R   G+S + + E  G++   + + E+G +    S L  I   L   
Sbjct: 3   PIHKKVGRNLQAIRKSRGLSLDNVAELTGVSKAMLGQIERGDSNPTISVLWRIVSGLGIS 62

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
            +   + + T  + +S ++   ++     +G
Sbjct: 63  FTTLIEEAETEVTVVSPDD---VEPFHEAEG 90


>gi|187780191|ref|ZP_02996664.1| hypothetical protein CLOSPO_03787 [Clostridium sporogenes ATCC
          15579]
 gi|187773816|gb|EDU37618.1| hypothetical protein CLOSPO_03787 [Clostridium sporogenes ATCC
          15579]
          Length = 183

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 30/65 (46%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + + ++  R    +S  +L E  GI+   + + EKG      + L  I++ L+ P 
Sbjct: 3  INSIIAENLKTLRTERNLSLGQLAELSGISKVMLSQIEKGDTNPTINTLWKIAKGLKVPY 62

Query: 71 SFFFD 75
          +   +
Sbjct: 63 TSLLE 67


>gi|118617981|ref|YP_906313.1| transcriptional regulatory protein [Mycobacterium ulcerans Agy99]
 gi|118570091|gb|ABL04842.1| transcriptional regulatory protein [Mycobacterium ulcerans Agy99]
          Length = 483

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 33/77 (42%)

Query: 3  GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          G +++ +      G R+R  R   G++Q  L   LG++   V + E     +  S L  +
Sbjct: 4  GARRVSHVPKTFAGARLRRLREDHGLTQVALARALGLSTSYVNQLENDQRPITVSVLLAL 63

Query: 63 SEVLESPISFFFDVSPT 79
          +E  + P  +F   S  
Sbjct: 64 AERFDLPTHYFAPDSDA 80


>gi|71725303|ref|YP_272277.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           phaseolicola 1448A]
 gi|71558893|gb|AAZ38102.1| transcriptional regulator, PbsX family [Pseudomonas syringae pv.
           phaseolicola 1448A]
          Length = 118

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/99 (25%), Positives = 41/99 (41%), Gaps = 4/99 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG +I+  R + GMSQ  L E +G     V  YE+G++  G  +L  IS   +      
Sbjct: 7   FVGAKIKALRKLSGMSQAALAEKIGCDAPLVGCYERGIHLPGVEQLIKISMAFDVAPGEL 66

Query: 74  F----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                DV  T    +     +    + +P+ L+    F+
Sbjct: 67  LPGGQDVLRTRLISLRQAIADKAIEVDSPESLEEILAFM 105


>gi|28211116|ref|NP_782060.1| putative transcriptional regulatory protein [Clostridium tetani
           E88]
 gi|28203556|gb|AAO35997.1| putative transcriptional regulatory protein [Clostridium tetani
           E88]
          Length = 235

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 30/65 (46%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  + + ++  R    +S  +L E  GI+   + + EKG      + L  I++ L+ P 
Sbjct: 55  INSIIAENLKTLRTERNLSLGQLAELSGISKVMLSQIEKGDTNPTINTLWKIAKGLKVPY 114

Query: 71  SFFFD 75
           +   +
Sbjct: 115 TSLLE 119


>gi|331092590|ref|ZP_08341409.1| hypothetical protein HMPREF9477_02052 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330400601|gb|EGG80215.1| hypothetical protein HMPREF9477_02052 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 162

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 29/55 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++   R    +SQ ++ E L +T Q+V ++E G +      ++ ++E+    ++
Sbjct: 5  EKLCKYRKERKLSQAEIAEKLNVTRQKVSRWEHGTSVPNIETMKQLAEIYGVNVT 59


>gi|300904120|ref|ZP_07121994.1| transcriptional repressor DicA [Escherichia coli MS 84-1]
 gi|301307000|ref|ZP_07213040.1| transcriptional repressor DicA [Escherichia coli MS 124-1]
 gi|300403913|gb|EFJ87451.1| transcriptional repressor DicA [Escherichia coli MS 84-1]
 gi|300837790|gb|EFK65550.1| transcriptional repressor DicA [Escherichia coli MS 124-1]
 gi|315253246|gb|EFU33214.1| transcriptional repressor DicA [Escherichia coli MS 85-1]
          Length = 135

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/131 (16%), Positives = 50/131 (38%), Gaps = 18/131 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+R+  RR  L ++Q +     G+    + ++E+   +    RL  +++ L+   ++
Sbjct: 4   RTLGQRVLARRKELRLTQREAARLAGVAHVTISQWERDETQPVGKRLFALADALKCSPTW 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
                       + E +   +   +                   +++IEL  ++ SSE++
Sbjct: 64  LMFGDEDKAPVPAQELHVETELTPSH------------------KELIELFDALPSSEQE 105

Query: 133 YRTIEEECMVE 143
               E    VE
Sbjct: 106 ALLSEMRARVE 116


>gi|291534560|emb|CBL07672.1| Predicted transcriptional regulators [Roseburia intestinalis
          M50/1]
          Length = 144

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 34/62 (54%), Gaps = 1/62 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPI 70
          ++ +G RI + R     + E++ + +G+    +Q+YEKG +N V    +Q I++ L    
Sbjct: 3  NVEIGYRIYMARKENHATLEEVAKKVGLAKSTIQRYEKGLINDVKLPNIQSIAKALNVNP 62

Query: 71 SF 72
          ++
Sbjct: 63 NW 64


>gi|262066094|ref|ZP_06025706.1| transcriptional regulator, MerR family [Fusobacterium
          periodonticum ATCC 33693]
 gi|291380189|gb|EFE87707.1| transcriptional regulator, MerR family [Fusobacterium
          periodonticum ATCC 33693]
          Length = 184

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 12/74 (16%), Positives = 33/74 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R   GMS  +L   + ++   + + E+G        L+ I+  L+  +++
Sbjct: 1  MTIGEKLKKSRNDKGMSLRELATKVELSASFLSQIEQGKASPSIENLKKIAHTLDVRVAY 60

Query: 73 FFDVSPTVCSDISS 86
            +       +I  
Sbjct: 61 LIEDEEDDIRNIEH 74


>gi|222081485|ref|YP_002540848.1| adenylate/guanylate cyclase protein [Agrobacterium radiobacter
          K84]
 gi|221726164|gb|ACM29253.1| adenylate/guanylate cyclase protein [Agrobacterium radiobacter
          K84]
          Length = 1342

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/49 (28%), Positives = 27/49 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           +I   R  LG+SQ +L   LG+  Q + ++E G +R    ++  I+++
Sbjct: 15 AKIIEGRTRLGLSQTELAAELGLKQQAISRWEAGTHRPSVDQVPAIAKL 63


>gi|251794538|ref|YP_003009269.1| XRE family transcriptional regulator [Paenibacillus sp. JDR-2]
 gi|247542164|gb|ACS99182.1| transcriptional regulator, XRE family [Paenibacillus sp. JDR-2]
          Length = 74

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/66 (31%), Positives = 29/66 (43%), Gaps = 3/66 (4%)

Query: 15 VGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-- 71
          VG  IR  R  L  M+Q++L + +G+T Q +   EKG           IS     PI   
Sbjct: 6  VGNHIRKLRFNLNEMTQQQLADKVGVTRQTIVALEKGNYSPSLELAFRISHTFGLPIEEI 65

Query: 72 FFFDVS 77
          FF+   
Sbjct: 66 FFYGDD 71


>gi|46402122|ref|YP_006616.1| Gp36 [Klebsiella phage phiKO2]
 gi|40218266|gb|AAR83052.1| Gp36 [Klebsiella phage phiKO2]
          Length = 202

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 3/77 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          G+R++ RR+ L M+ +++ E +GI+   VQ  E+G           +++ L  P+ +   
Sbjct: 9  GERLKARRLELKMTLKQVAESVGISLPGVQNLERGDVMPSLEIGLALAKCLRMPVQWILY 68

Query: 75 --DVSPTVCSDISSEEN 89
            +  P     I + E+
Sbjct: 69 GTESDPDRVPVIGTTES 85


>gi|27467714|ref|NP_764351.1| hypothetical protein SE0796 [Staphylococcus epidermidis ATCC
          12228]
 gi|57866618|ref|YP_188269.1| Cro/CI family transcriptional regulator [Staphylococcus
          epidermidis RP62A]
 gi|251810551|ref|ZP_04825024.1| transcriptional regulator [Staphylococcus epidermidis
          BCM-HMP0060]
 gi|293366914|ref|ZP_06613589.1| cro/CI family transcriptional regulator [Staphylococcus
          epidermidis M23864:W2(grey)]
 gi|27315258|gb|AAO04393.1|AE016746_183 conserved hypothetical protein [Staphylococcus epidermidis ATCC
          12228]
 gi|57637276|gb|AAW54064.1| transcriptional regulator, Cro/CI family [Staphylococcus
          epidermidis RP62A]
 gi|251805962|gb|EES58619.1| transcriptional regulator [Staphylococcus epidermidis
          BCM-HMP0060]
 gi|291318889|gb|EFE59260.1| cro/CI family transcriptional regulator [Staphylococcus
          epidermidis M23864:W2(grey)]
 gi|329732828|gb|EGG69174.1| DNA-binding helix-turn-helix protein [Staphylococcus epidermidis
          VCU144]
 gi|329734233|gb|EGG70549.1| DNA-binding helix-turn-helix protein [Staphylococcus epidermidis
          VCU028]
 gi|329735546|gb|EGG71834.1| DNA-binding helix-turn-helix protein [Staphylococcus epidermidis
          VCU045]
          Length = 179

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 34/81 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G ++R  R I  ++QE+L E   ++   + + E            ++ EVL +  S 
Sbjct: 1  MDIGYKLRNLRRIKNLTQEELAERTDLSKGYISQIESNHASPSMETFLNLIEVLGTSASD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF            +E  + D
Sbjct: 61 FFKEPSDEKVLYKKKEQTIYD 81


>gi|116493699|ref|YP_805433.1| XRE family transcriptional regulator [Lactobacillus casei ATCC
          334]
 gi|116103849|gb|ABJ68991.1| Transcriptional regulator, xre family [Lactobacillus casei ATCC
          334]
          Length = 373

 Score = 56.4 bits (135), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++INVG  I   R   G++Q+ L + +G++   V K+E G +    + L  ++   +  I
Sbjct: 1  MEINVGAVISANRKQKGITQQALADFVGVSKASVSKWETGQSYPDITLLPILAAYFDVSI 60

Query: 71 S 71
           
Sbjct: 61 D 61


>gi|307129762|ref|YP_003881778.1| hypothetical protein Dda3937_04485 [Dickeya dadantii 3937]
 gi|306527291|gb|ADM97221.1| hypothetical protein Dda3937_04485 [Dickeya dadantii 3937]
          Length = 86

 Score = 56.0 bits (134), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 4/70 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R++  R+   ++QEKLG   GI       +V +YE G++R     +   ++VL  P  +
Sbjct: 4  ARLKTARLRADLTQEKLGVLAGIEEETARSRVSQYEGGIHRPTFEMMCAFAKVLNVPECY 63

Query: 73 FFDVSPTVCS 82
          F+ V+     
Sbjct: 64 FYTVNDDFAE 73


>gi|295107554|emb|CBL05097.1| Predicted transcriptional regulators [Gordonibacter pamelaeae
           7-10-1-b]
          Length = 451

 Score = 56.0 bits (134), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/98 (25%), Positives = 39/98 (39%), Gaps = 11/98 (11%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            ++N+G  I   R   G++Q  L   LG+T   V K+E G +    + L  I+      +
Sbjct: 2   HEVNIGATIARERSAAGVTQGALAAHLGVTKAAVSKWELGQSLPDVALLPRIAAYFGITL 61

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
              F   P +  D   E  +V         L+L R F 
Sbjct: 62  DELFAFRPQLTED---EVRDVY--------LELCRLFA 88


>gi|212697471|ref|ZP_03305599.1| hypothetical protein ANHYDRO_02041 [Anaerococcus hydrogenalis DSM
          7454]
 gi|212675470|gb|EEB35077.1| hypothetical protein ANHYDRO_02041 [Anaerococcus hydrogenalis DSM
          7454]
          Length = 140

 Score = 56.0 bits (134), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 39/77 (50%), Gaps = 1/77 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPI 70
          +++ G ++R  R    ++Q++L + +G++ + + +YE G ++    ++   ++EVL++  
Sbjct: 8  NMSFGTKLRQLRESKNLTQDQLAKLVGVSLKTISRYEMGESKPRYRKVYDKLAEVLDTSH 67

Query: 71 SFFFDVSPTVCSDISSE 87
           +          D   +
Sbjct: 68 DYLVTDEDNFILDAREK 84


>gi|220926724|ref|YP_002502026.1| XRE family transcriptional regulator [Methylobacterium nodulans
          ORS 2060]
 gi|219951331|gb|ACL61723.1| transcriptional regulator, XRE family [Methylobacterium nodulans
          ORS 2060]
          Length = 245

 Score = 56.0 bits (134), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 27/72 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI   R   G++ E L E  G +   + + + G   V    L  ISE L+ P++     
Sbjct: 16 NRIAEWREKRGLTLEALAEATGFSTGYLSRMQNGSRNVSLKNLAKISEALKVPVADLVPE 75

Query: 77 SPTVCSDISSEE 88
             V     +  
Sbjct: 76 GEEVPPGGEASP 87


>gi|295095877|emb|CBK84967.1| Predicted transcriptional regulators [Enterobacter cloacae subsp.
           cloacae NCTC 9394]
          Length = 175

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 34/94 (36%), Gaps = 2/94 (2%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +  ++   ++  R   G S  KL E  G++   + + E+  +    S L  I+  L  P
Sbjct: 2   DITQHLATTLKALRQARGWSLSKLAEETGVSKAMLGQIERNESSPTVSTLWKIATGLNVP 61

Query: 70  ISFFF--DVSPTVCSDISSEENNVMDFISTPDGL 101
            S F   +  P    D   +   V       + L
Sbjct: 62  FSAFITPESEPQAVFDPQQQAMVVKPLFPWDEQL 95


>gi|289167282|ref|YP_003445549.1| repressor (phage associated) [Streptococcus mitis B6]
 gi|288906847|emb|CBJ21681.1| repressor (phage associated) [Streptococcus mitis B6]
          Length = 246

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/118 (18%), Positives = 50/118 (42%), Gaps = 29/118 (24%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLG------ITFQQ--VQKYEKGVNRVGASRLQHISEVL 66
           +G +IR  R    ++ E+L + L       I F +  + K+E        S ++ I++  
Sbjct: 2   IGTKIRELRKNNKLTLEELADALNQKYPNTINFNKGKISKWENNKEEPRLSSVKIIADFF 61

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           + P+ +F D                    S P+ L +   + Q+++ K ++K+++  +
Sbjct: 62  DVPLDYFNDTPD-----------------SHPEILTI---YNQLEEPK-QEKVLDYAK 98


>gi|251790166|ref|YP_003004887.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247538787|gb|ACT07408.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 76

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 32/69 (46%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K  + V   +G+R++  R+  G+SQE   E  G+    +   E+GV       L  ++  
Sbjct: 2  KTSDSVKTLLGQRVKALRLQAGLSQEAFAEKCGLDRTYISGIERGVRNPTLEVLYILAAG 61

Query: 66 LESPISFFF 74
          L + ++  F
Sbjct: 62 LHTDLTTLF 70


>gi|228995259|ref|ZP_04154973.1| hypothetical protein bpmyx0001_58780 [Bacillus pseudomycoides DSM
          12442]
 gi|228764497|gb|EEM13332.1| hypothetical protein bpmyx0001_58780 [Bacillus pseudomycoides DSM
          12442]
          Length = 142

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 33/72 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +++  R     SQE +   +G+T Q V K+E   +      L  +SE+ E  I  
Sbjct: 1  MNLGSQLKKFRESKNFSQEDVARKVGVTRQAVYKWESNKSYPDIDNLILLSELYEVTIDE 60

Query: 73 FFDVSPTVCSDI 84
              S  V  ++
Sbjct: 61 LIKGSEDVRGEL 72


>gi|169824019|ref|YP_001691630.1| putative transcriptional regulator [Finegoldia magna ATCC 29328]
 gi|167830824|dbj|BAG07740.1| putative transcriptional regulator [Finegoldia magna ATCC 29328]
          Length = 176

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/82 (25%), Positives = 42/82 (51%), Gaps = 6/82 (7%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + I+  R   G+SQE+L   + +  Q V K+E+G++   +  L  +SE+L++ +S     
Sbjct: 6  ENIKSLRKQNGLSQEQLANEMHVVRQTVSKWERGLSVPDSDSLIKLSEILQTSVSVL--- 62

Query: 77 SPTVCSDISSEENNVMDFISTP 98
             +  ++   E + +D IS  
Sbjct: 63 ---LGENVEETEQSELDKISEK 81


>gi|156933191|ref|YP_001437107.1| hypothetical protein ESA_01002 [Cronobacter sakazakii ATCC BAA-894]
 gi|156531445|gb|ABU76271.1| hypothetical protein ESA_01002 [Cronobacter sakazakii ATCC BAA-894]
          Length = 229

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/95 (24%), Positives = 44/95 (46%), Gaps = 6/95 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R   G+SQ +L E +G+T Q + K E GV      +++ ++  L    ++    
Sbjct: 6   ERLKKAREKAGLSQLQLAEQVGLTQQSIAKIENGVTE-QPRKIKQLALALGVTANWL--Q 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
              + ++ S  E  V ++ ST     L   F +I 
Sbjct: 63  YGDIDANGSYSEMIVKEWESTSADPDL---FTEIP 94


>gi|83720757|ref|YP_443247.1| helix-turn-helix domain-containing protein [Burkholderia
           thailandensis E264]
 gi|83654582|gb|ABC38645.1| Helix-turn-helix domain protein, putative [Burkholderia
           thailandensis E264]
          Length = 115

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/117 (17%), Positives = 50/117 (42%), Gaps = 16/117 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             VGK I  RR    ++QE + E LG+  + + + E+G+     +RL  +++V +  ++ 
Sbjct: 11  RRVGKAIARRREESQLTQEDVAEQLGVGNEAISRIERGIVMPTVARLVQLAKVFQCNVAD 70

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
               +     D +   + ++  +S                 + R+ ++ +V ++ + 
Sbjct: 71  LLTEASHRPDDQARHLSQLLTKLS----------------PQDRETLVSIVETLAAR 111


>gi|15895738|ref|NP_349087.1| transcriptional regulator [Clostridium acetobutylicum ATCC 824]
 gi|15025492|gb|AAK80427.1|AE007746_14 Predicted transcriptional regulator [Clostridium acetobutylicum
          ATCC 824]
 gi|325509888|gb|ADZ21524.1| transcriptional regulator [Clostridium acetobutylicum EA 2018]
          Length = 78

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G++QE+LG  +G++ Q +   E             IS+V    I + F
Sbjct: 3  NRLKELREAFGLTQEQLGNLIGVSRQAINSIETEKCEPSIWLAYDISKVFHKSIEYIF 60


>gi|257438888|ref|ZP_05614643.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
 gi|257198703|gb|EEU96987.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
          Length = 99

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 28/74 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             G RIR  R   G++QE+L   L ++   + K E G        LQ +S  L     +
Sbjct: 6  KEFGGRIRDLRKKKGITQEQLSIMLNVSANHLAKVETGSRCCSIELLQDLSSCLNVRTDY 65

Query: 73 FFDVSPTVCSDISS 86
            +      + +  
Sbjct: 66 LLNGDAPHNNHLRE 79


>gi|229190704|ref|ZP_04317700.1| Transcriptional regulator [Bacillus cereus ATCC 10876]
 gi|228592837|gb|EEK50660.1| Transcriptional regulator [Bacillus cereus ATCC 10876]
          Length = 116

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 32/66 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R+   M+QE+ G+ + +T   V K+E G        ++ I++    P+++ +  +
Sbjct: 6  RIKQIRLEHKMNQEQFGKEVDLTKGTVSKFENGKAFPSRETIEKIAKRFAVPVNYLYGEN 65

Query: 78 PTVCSD 83
               D
Sbjct: 66 NEANKD 71


>gi|213968238|ref|ZP_03396382.1| phage repressor [Pseudomonas syringae pv. tomato T1]
 gi|301381283|ref|ZP_07229701.1| putative phage repressor [Pseudomonas syringae pv. tomato Max13]
 gi|302062899|ref|ZP_07254440.1| putative phage repressor [Pseudomonas syringae pv. tomato K40]
 gi|213926876|gb|EEB60427.1| phage repressor [Pseudomonas syringae pv. tomato T1]
          Length = 228

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ IR  R   G+SQ+ L    G  +  ++  YEKG  +     ++ IS+ L   
Sbjct: 4  LGQHIRKLRKEKGLSQQALAHACGWESQSRIGNYEKGTRQPSLQDIRKISDTLGVS 59


>gi|196038079|ref|ZP_03105389.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|196031349|gb|EDX69946.1| DNA-binding protein [Bacillus cereus NVH0597-99]
          Length = 67

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 2/62 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  L M+QE L + +G+  + +   EKG           I+  L S I   F F+
Sbjct: 6  KIKEYRTKLNMTQEDLAKSVGVRRETISHLEKGKYNPSLQLAHDIARALHSTIDEVFIFE 65

Query: 76 VS 77
            
Sbjct: 66 DE 67


>gi|118590306|ref|ZP_01547709.1| putative transcription regulator protein [Stappia aggregata IAM
           12614]
 gi|118437278|gb|EAV43916.1| putative transcription regulator protein [Stappia aggregata IAM
           12614]
          Length = 147

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/124 (20%), Positives = 47/124 (37%), Gaps = 14/124 (11%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N  D  +G+RI   R    +S  +L   LGI    +Q +E   +   +++L  ++ VL  
Sbjct: 35  NSSDYTLGERICKARDASSLSTAQLARRLGIKTSTLQSWESDRSEPRSNKLVLLAGVLNV 94

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
             ++         +   SE N   D  S    L            +V+++   L   I +
Sbjct: 95  SPTWL---LVGRGTPPFSETNTTSDLDSMRVALD-----------RVQRQAQALADEIAA 140

Query: 129 SEKK 132
            + +
Sbjct: 141 LQDR 144


>gi|227533389|ref|ZP_03963438.1| DNA-binding protein; transcriptional regulator [Lactobacillus
          paracasei subsp. paracasei ATCC 25302]
 gi|227188955|gb|EEI69022.1| DNA-binding protein; transcriptional regulator [Lactobacillus
          paracasei subsp. paracasei ATCC 25302]
          Length = 373

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++INVG  I   R   G++Q+ L + +G++   V K+E G +    + L  ++   +  I
Sbjct: 1  MEINVGAVISANRKQKGITQQALADFVGVSKASVSKWETGQSYPDITLLPILAAYFDVSI 60

Query: 71 S 71
           
Sbjct: 61 D 61


>gi|255519174|ref|ZP_05386850.1| putative prophage repressor [Clostridium difficile QCD-97b34]
          Length = 109

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 45/108 (41%), Gaps = 6/108 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RI+  R I  +SQ++ GE L ++   +   EKGV  V    +  I +       +    
Sbjct: 3   NRIKELRQIKHLSQKEFGETLNLSQNHISSIEKGVRTVTDRTINDICDKYNVNKKWLLTG 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
              +  D+    N     +   +  +  R F ++ D + R+ ++ L++
Sbjct: 63  QGEIFKDVLEGFN-----LDNSEVEEFIRLFYEV-DSETREYVLGLMQ 104


>gi|154250004|ref|YP_001410829.1| cupin 2 domain-containing protein [Fervidobacterium nodosum
          Rt17-B1]
 gi|154153940|gb|ABS61172.1| Cupin 2 conserved barrel domain protein [Fervidobacterium nodosum
          Rt17-B1]
          Length = 175

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 29/65 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R+  G +QE+L +   ++   + + E          L+ +  VL + +  
Sbjct: 1  MKIGSKIKRLRLARGYTQEELADRCDLSRSFISQLESDKVSPSVETLERVLRVLGTDLKH 60

Query: 73 FFDVS 77
          FF   
Sbjct: 61 FFSDE 65


>gi|159898456|ref|YP_001544703.1| XRE family transcriptional regulator [Herpetosiphon aurantiacus
          ATCC 23779]
 gi|159891495|gb|ABX04575.1| transcriptional regulator, XRE family [Herpetosiphon aurantiacus
          ATCC 23779]
          Length = 80

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 32/71 (45%), Gaps = 1/71 (1%)

Query: 15 VGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +  RIRL R I G M+Q  LG+ +G+T Q +   E G           I+ V + P+   
Sbjct: 6  LSNRIRLLRFINGEMTQADLGQRIGVTRQTIAAIEAGKYAPTLEAAFRIAHVFQVPLDEV 65

Query: 74 FDVSPTVCSDI 84
          F   P   + +
Sbjct: 66 FQWIPHDGAGM 76


>gi|160881041|ref|YP_001560009.1| XRE family transcriptional regulator [Clostridium phytofermentans
          ISDg]
 gi|160429707|gb|ABX43270.1| transcriptional regulator, XRE family [Clostridium
          phytofermentans ISDg]
          Length = 200

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VGK I+  R   G +Q+++   L I+ + V K+E G      S L  +S VL   +
Sbjct: 6  VGKLIKQLRKEHGYTQQQVANALNISNKTVSKWENGFGCPDVSLLGELSIVLGVDL 61


>gi|229014519|ref|ZP_04171637.1| hypothetical protein bmyco0001_49220 [Bacillus mycoides DSM 2048]
 gi|229170059|ref|ZP_04297750.1| hypothetical protein bcere0007_49950 [Bacillus cereus AH621]
 gi|55419791|gb|AAV51966.1| PlcR [Bacillus cereus]
 gi|228613406|gb|EEK70540.1| hypothetical protein bcere0007_49950 [Bacillus cereus AH621]
 gi|228746869|gb|EEL96754.1| hypothetical protein bmyco0001_49220 [Bacillus mycoides DSM 2048]
          Length = 285

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKRLSDNI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|49479015|ref|YP_037453.1| transcriptional regulator [Bacillus thuringiensis serovar
          konkukian str. 97-27]
 gi|49330571|gb|AAT61217.1| transcriptional regulator [Bacillus thuringiensis serovar
          konkukian str. 97-27]
          Length = 67

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 2/62 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  L M+QE L + +G+  + +   EKG           I+  L S I   F F+
Sbjct: 6  KIKEYRTKLNMTQEDLAKQVGVRRETISHLEKGKYNPSLQLAHDIARALHSTIDEVFIFE 65

Query: 76 VS 77
            
Sbjct: 66 DE 67


>gi|30262515|ref|NP_844892.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47778059|ref|YP_019162.2| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|52142975|ref|YP_083853.1| DNA-binding protein [Bacillus cereus E33L]
 gi|165868912|ref|ZP_02213572.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167631977|ref|ZP_02390304.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|167637695|ref|ZP_02395974.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170685312|ref|ZP_02876536.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|170704891|ref|ZP_02895357.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|177649731|ref|ZP_02932733.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190565261|ref|ZP_03018181.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|196040422|ref|ZP_03107723.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|218903655|ref|YP_002451489.1| DNA-binding protein [Bacillus cereus AH820]
 gi|227814666|ref|YP_002814675.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|228915109|ref|ZP_04078706.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
 gi|228927582|ref|ZP_04090634.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|228933813|ref|ZP_04096659.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|228946161|ref|ZP_04108495.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|229600860|ref|YP_002866842.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|254685091|ref|ZP_05148951.1| DNA-binding protein [Bacillus anthracis str. CNEVA-9066]
 gi|254722499|ref|ZP_05184287.1| DNA-binding protein [Bacillus anthracis str. A1055]
 gi|254737541|ref|ZP_05195244.1| DNA-binding protein [Bacillus anthracis str. Western North
          America USA6153]
 gi|254743274|ref|ZP_05200959.1| DNA-binding protein [Bacillus anthracis str. Kruger B]
 gi|254751856|ref|ZP_05203893.1| DNA-binding protein [Bacillus anthracis str. Vollum]
 gi|254760376|ref|ZP_05212400.1| DNA-binding protein [Bacillus anthracis str. Australia 94]
 gi|301054058|ref|YP_003792269.1| DNA-binding protein [Bacillus anthracis CI]
 gi|30257147|gb|AAP26378.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47551764|gb|AAT31637.2| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|51976444|gb|AAU17994.1| DNA-binding protein [Bacillus cereus E33L]
 gi|164715638|gb|EDR21155.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167514244|gb|EDR89611.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|167532275|gb|EDR94911.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|170130692|gb|EDS99553.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|170670672|gb|EDT21411.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|172084805|gb|EDT69863.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190563288|gb|EDV17253.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|196028907|gb|EDX67513.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|218535205|gb|ACK87603.1| DNA-binding protein [Bacillus cereus AH820]
 gi|227004640|gb|ACP14383.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|228813507|gb|EEM59794.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|228825885|gb|EEM71672.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|228832062|gb|EEM77647.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|228844538|gb|EEM89592.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
 gi|229265268|gb|ACQ46905.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|300376227|gb|ADK05131.1| DNA-binding protein [Bacillus cereus biovar anthracis str. CI]
          Length = 66

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 28/63 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI + R   G +QE+L + +G++ Q +   EK            I+ V E PI+  FD 
Sbjct: 4  NRIVVCRAEKGWTQEELAKRVGVSRQTIATLEKNKYNPSLILAFKIANVFEKPITDVFDY 63

Query: 77 SPT 79
             
Sbjct: 64 QEE 66


>gi|50121363|ref|YP_050530.1| regulator of pectin lyase production [Pectobacterium atrosepticum
          SCRI1043]
 gi|49611889|emb|CAG75338.1| regulator of pectin lyase production [Pectobacterium atrosepticum
          SCRI1043]
          Length = 244

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R   G+SQ+ LG+ +G++   +QK E G      +++  +S  L     +  + 
Sbjct: 7  ERLKTARTAQGLSQKALGDMIGVSQAAIQKIEVGKAS-QTTKIVELSNALHIRPEWLANG 65

Query: 77 SPTVCSD 83
             + SD
Sbjct: 66 GGPMHSD 72


>gi|75758326|ref|ZP_00738450.1| Transcriptional regulator, Xre family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|74494188|gb|EAO57280.1| Transcriptional regulator, Xre family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
          Length = 145

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 38/82 (46%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++N+G +++  R     SQE +   +G+T Q V K+E   +      L  +SE+ E  I 
Sbjct: 3  NMNLGSQLKRFRESKSFSQEDVARKVGVTRQAVYKWESNKSYPDIDNLILLSELYEVTID 62

Query: 72 FFFDVSPTVCSDISSEENNVMD 93
               S     +++ ++ +  +
Sbjct: 63 ELIKGSEDAREELNKKDKDECE 84


>gi|311693576|gb|ADP96449.1| phage repressor [marine bacterium HP15]
          Length = 327

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 41/82 (50%), Gaps = 3/82 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPIS 71
          + +G+R++  R + G +QE+LGE +G+T   +   EK    R  +++   ++E L   + 
Sbjct: 1  MALGQRLKQARKLAGYTQEQLGERVGLTQAAIGALEKRDSQR--SNKAAEMAEALGVSLL 58

Query: 72 FFFDVSPTVCSDISSEENNVMD 93
          +    S  +  + + +    +D
Sbjct: 59 WLVSGSGPMLEEEARKARKELD 80


>gi|297617996|ref|YP_003703155.1| XRE family transcriptional regulator [Syntrophothermus lipocalidus
           DSM 12680]
 gi|297145833|gb|ADI02590.1| transcriptional regulator, XRE family [Syntrophothermus lipocalidus
           DSM 12680]
          Length = 127

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 1/82 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           +R+R  R   G+S + + + LG +T     K E G+ R      + I++ L + I   F 
Sbjct: 19  QRLRDLRKSKGISAKHMADLLGLVTKAAYYKKESGMTRFTLHEARIIAQRLGTSIDELFF 78

Query: 76  VSPTVCSDISSEENNVMDFIST 97
                C D  ++   V  + ++
Sbjct: 79  ADEVSCRDTKADTETVSQYFAS 100


>gi|225026228|ref|ZP_03715420.1| hypothetical protein EUBHAL_00469 [Eubacterium hallii DSM 3353]
 gi|224956479|gb|EEG37688.1| hypothetical protein EUBHAL_00469 [Eubacterium hallii DSM 3353]
          Length = 141

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/115 (17%), Positives = 50/115 (43%), Gaps = 17/115 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFF 73
           VG+RI+  R    ++QE+L   + ++   V   E+G+          I+  L+    +  
Sbjct: 43  VGQRIKAAREAKNLTQEELAALVNLSTTHVSVIERGLKVTKLDTFVAIANALDVSADALL 102

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            DV     + +++E +++++ +   +                +++I+  VR++V 
Sbjct: 103 IDVVTHSVTGVTNELSDMIEKLPKDE----------------QKRILNAVRALVD 141


>gi|197302202|ref|ZP_03167261.1| hypothetical protein RUMLAC_00929 [Ruminococcus lactaris ATCC
          29176]
 gi|197298633|gb|EDY33174.1| hypothetical protein RUMLAC_00929 [Ruminococcus lactaris ATCC
          29176]
 gi|291526721|emb|CBK92307.1| Helix-turn-helix [Eubacterium rectale M104/1]
          Length = 209

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 36/76 (47%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R++ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 8  KLIGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSE 87
          +    +    +DI+ +
Sbjct: 68 WLKGETDEYETDITDK 83


>gi|160894257|ref|ZP_02075034.1| hypothetical protein CLOL250_01810 [Clostridium sp. L2-50]
 gi|156863958|gb|EDO57389.1| hypothetical protein CLOL250_01810 [Clostridium sp. L2-50]
 gi|295099077|emb|CBK88166.1| Helix-turn-helix. [Eubacterium cylindroides T2-87]
          Length = 209

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 36/76 (47%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R++ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 8  KLIGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSE 87
          +    +    +DI+ +
Sbjct: 68 WLKGETDEYETDITDK 83


>gi|153811810|ref|ZP_01964478.1| hypothetical protein RUMOBE_02203 [Ruminococcus obeum ATCC 29174]
 gi|149832213|gb|EDM87298.1| hypothetical protein RUMOBE_02203 [Ruminococcus obeum ATCC 29174]
          Length = 209

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 36/76 (47%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R++ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 8  KLIGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSE 87
          +    +    +DI+ +
Sbjct: 68 WLKGETDEYETDITDK 83


>gi|295400956|ref|ZP_06810931.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
 gi|294976958|gb|EFG52561.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
          Length = 139

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 30/61 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G++++  R     +QE+L + L I+  Q+ K+E G        L+ +S + E  I F
Sbjct: 5  RKLGEKLKYLRKQHNWTQEQLAQHLNISRSQISKWENGELLPDVQSLEKLSNLYEVSIDF 64

Query: 73 F 73
           
Sbjct: 65 L 65


>gi|228969784|ref|ZP_04130548.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228789936|gb|EEM37754.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          sotto str. T04001]
          Length = 90

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 35/77 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ IR+ R   G++QE+L E + +    +   E+G   +    LQ I+  LE      F
Sbjct: 2  VGENIRILRKKRGLTQEELAERINLQQAYIGGIERGERNISMLTLQKIAVGLEISPDKIF 61

Query: 75 DVSPTVCSDISSEENNV 91
          + S     +   +E  +
Sbjct: 62 NFSNINSLENPQQEEFL 78


>gi|206725168|dbj|BAG71784.1| repressor of rdgA and rdgB [Pectobacterium carotovorum subsp.
          carotovorum]
          Length = 244

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 32/66 (48%), Gaps = 1/66 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R   G+SQ+ LG+ +G++   +QK E G      +++  +S  L     +  + 
Sbjct: 7  ERLKTARTAQGLSQKALGDMIGVSQAAIQKIEVGKAS-QTTKIVELSNALHVRPEWLANG 65

Query: 77 SPTVCS 82
             + S
Sbjct: 66 EDPMRS 71


>gi|168183925|ref|ZP_02618589.1| putative DNA-binding protein [Clostridium botulinum Bf]
 gi|237795812|ref|YP_002863364.1| putative DNA-binding protein [Clostridium botulinum Ba4 str. 657]
 gi|182672917|gb|EDT84878.1| putative DNA-binding protein [Clostridium botulinum Bf]
 gi|229263033|gb|ACQ54066.1| putative DNA-binding protein [Clostridium botulinum Ba4 str. 657]
          Length = 78

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +++  R  LG++QE+LGE +G++ Q +   E G           I++V    I   F F
Sbjct: 3  NKLKQFREDLGLTQEQLGELVGVSRQAINAIETGKFEPSIWLAYDIAKVFHGTIEEVFLF 62

Query: 75 DVSP 78
          + S 
Sbjct: 63 EESE 66


>gi|167768231|ref|ZP_02440284.1| hypothetical protein CLOSS21_02787 [Clostridium sp. SS2/1]
 gi|317497813|ref|ZP_07956125.1| helix-turn-helix domain-containing protein [Lachnospiraceae
           bacterium 5_1_63FAA]
 gi|167709755|gb|EDS20334.1| hypothetical protein CLOSS21_02787 [Clostridium sp. SS2/1]
 gi|291560246|emb|CBL39046.1| Helix-turn-helix [butyrate-producing bacterium SSC/2]
 gi|316894926|gb|EFV17096.1| helix-turn-helix domain-containing protein [Lachnospiraceae
           bacterium 5_1_63FAA]
          Length = 115

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/118 (17%), Positives = 46/118 (38%), Gaps = 11/118 (9%)

Query: 11  VD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D   +GKRI+L R    ++QE L E  G++   + + E G   +       ++  L+  
Sbjct: 3   IDLKELGKRIKLTRKGQDLTQEMLAEKAGVSQHYIYEIEAGRKAMSIHSFASLTTALDVS 62

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
             +          D+ +  ++    +      +LN           R  ++E++  +V
Sbjct: 63  ADYLLFGDGQRIFDVDTPAHHNNQLMEI--AAELN--------PSQRDHVLEILEVMV 110


>gi|103487671|ref|YP_617232.1| XRE family transcriptional regulator [Sphingopyxis alaskensis
           RB2256]
 gi|98977748|gb|ABF53899.1| transcriptional regulator, XRE family [Sphingopyxis alaskensis
           RB2256]
          Length = 222

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 29/56 (51%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           G R++  R+   ++Q +L   LG++   +  +E    R  A R++ +SE L   IS
Sbjct: 128 GSRLQRLRVARELTQGQLAAQLGVSEPSISAWELDKARPKAGRMEALSEALGVEIS 183


>gi|330822028|ref|YP_004350890.1| Transcriptional regulator, XRE family protein [Burkholderia
           gladioli BSR3]
 gi|327374023|gb|AEA65378.1| Transcriptional regulator, XRE family protein [Burkholderia
           gladioli BSR3]
          Length = 191

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/99 (18%), Positives = 36/99 (36%), Gaps = 6/99 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R  L ++ +++    GI+   + + E+G        L  I+  L   + +F 
Sbjct: 15  IGGRIRALRQRLKLTLDEVAVMAGISKPFLSQVERGRATPSLQSLVGIARALGVSMQYFV 74

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           +      S   +E      F  +         F ++   
Sbjct: 75  EAPTEAKSVRRAETLQFFSFADS------ANSFARLTSQ 107


>gi|304440739|ref|ZP_07400622.1| XRE family transcriptional regulator [Peptoniphilus duerdenii ATCC
           BAA-1640]
 gi|304370772|gb|EFM24395.1| XRE family transcriptional regulator [Peptoniphilus duerdenii ATCC
           BAA-1640]
          Length = 135

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/95 (16%), Positives = 38/95 (40%), Gaps = 5/95 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
           +N G +I+  R   G++Q++L + LG + + +  YE    R    +    ++E+ +  ++
Sbjct: 1   MNFGNKIKSLREEKGLTQKELADMLGTSLKTISNYEVKGTRPRTMKNFEKLAEIFDVNVN 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           +      T       +  +   +    D   L   
Sbjct: 61  YLL----TDEEYFIMQARDTYGYKGAKDAQDLVES 91


>gi|261402920|ref|YP_003247144.1| transcriptional regulator, XRE family [Methanocaldococcus vulcanius
           M7]
 gi|261369913|gb|ACX72662.1| transcriptional regulator, XRE family [Methanocaldococcus vulcanius
           M7]
          Length = 314

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 38/90 (42%), Gaps = 9/90 (10%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP----IS 71
           G  ++  R  +G+S  KL E  G++ + + KYE  +          I E L+ P    I 
Sbjct: 125 GNVLKEVRESMGISVGKLAEVAGVSRKAIYKYETQMANPSVDVAIKIEEFLDVPLVRGID 184

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGL 101
            F    P    D+ ++  N+ DF    + +
Sbjct: 185 LF---EPVEDEDVENKLENLEDF--KKEAI 209


>gi|169633405|ref|YP_001707141.1| putative repressor protein from bacteriophage [Acinetobacter
           baumannii SDF]
 gi|169152197|emb|CAP01101.1| putative repressor protein from bacteriophage [Acinetobacter
           baumannii]
          Length = 254

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/103 (20%), Positives = 37/103 (35%), Gaps = 14/103 (13%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+RIR  R    ++Q  L + +G++   V  +EK      A  L  ++       S+  +
Sbjct: 8   GQRIRALRREKKLTQGDLAKIVGVSAPNVTGWEKDAYAPKADPLSKMAAYFGVSTSYITN 67

Query: 76  VSPTVCS-DISSEENNVMDFISTPDGLQLNRYF---IQIDDVK 114
              +    D    + NV+D             F     I D +
Sbjct: 68  GDESGPQLDSGGAQLNVLD----------IEAFKQKYNIPDSE 100


>gi|157150768|ref|YP_001451299.1| Cro/CI family transcriptional regulator [Streptococcus gordonii
          str. Challis substr. CH1]
 gi|157075562|gb|ABV10245.1| transcriptional regulator, Cro/CI family [Streptococcus gordonii
          str. Challis substr. CH1]
          Length = 167

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 32/74 (43%), Gaps = 2/74 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          ++   R   G SQEKL E + ++ Q + K+E G       ++  +S++ +    +    D
Sbjct: 6  KLFELRKEKGWSQEKLSEQINVSRQSISKWESGQALPELEKIVELSKIFQVTTDYLLLED 65

Query: 76 VSPTVCSDISSEEN 89
                  + SE+ 
Sbjct: 66 SDKPEIKPVLSEDE 79


>gi|114769125|ref|ZP_01446751.1| DNA-binding protein, putative [alpha proteobacterium HTCC2255]
 gi|114550042|gb|EAU52923.1| DNA-binding protein, putative [alpha proteobacterium HTCC2255]
          Length = 201

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 29/68 (42%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N   I +G  IR  R   G++   L   L  +   + + E+G  +V    +  IS  L
Sbjct: 1  MTNSDKIRLGSEIREVRKARGLTLNNLSSMLSCSTAYLSRIERGTAQVSEILIVEISTAL 60

Query: 67 ESPISFFF 74
              ++FF
Sbjct: 61 NIEKNWFF 68


>gi|121607191|ref|YP_994998.1| XRE family transcriptional regulator [Verminephrobacter eiseniae
           EF01-2]
 gi|121551831|gb|ABM55980.1| transcriptional regulator, XRE family [Verminephrobacter eiseniae
           EF01-2]
          Length = 229

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 34/60 (56%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ +G+++R RR  LG+  +++    GI+   + + E+G+  +    L  +++ L  PI
Sbjct: 42  IDLWLGEQLRRRRQALGLPLQQVARACGISVSLLSQLERGLRSISMRTLGALAQELRLPI 101


>gi|148262729|ref|YP_001229435.1| XRE family transcriptional regulator [Geobacter uraniireducens
          Rf4]
 gi|146396229|gb|ABQ24862.1| transcriptional regulator, XRE family [Geobacter uraniireducens
          Rf4]
          Length = 187

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/88 (14%), Positives = 33/88 (37%), Gaps = 9/88 (10%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D N+G +I+  R+   ++ + + +  G +   + + E        + L  I++  +  + 
Sbjct: 3  DYNIGAKIKKLRLAKKLTLQAVAKETGFSPALISQIENNNVSPPIATLSRIAKFFDVKVG 62

Query: 72 FFFDVSPTVCSDISSEENNVMDFISTPD 99
           FF            EE    + +   +
Sbjct: 63 MFF---------TEDEEEYKYEVVRKSE 81


>gi|328955940|ref|YP_004373273.1| helix-turn-helix domain protein [Coriobacterium glomerans PW2]
 gi|328456264|gb|AEB07458.1| helix-turn-helix domain protein [Coriobacterium glomerans PW2]
          Length = 218

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/89 (17%), Positives = 37/89 (41%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++   +R+   R   G SQE+L + LG++ Q + K+E+  +      L  ++ +    +
Sbjct: 1  MNVQTAQRLAELRRTKGYSQEELAQRLGLSRQAISKWERAESSPDTDNLIALARLYSVSL 60

Query: 71 SFFFDVSPTVCSDISSEENNVMDFISTPD 99
                     ++   EE       +T +
Sbjct: 61 DELVGAPFGGTAEDLVEEAAAATRETTRE 89


>gi|295101511|emb|CBK99056.1| Predicted acetyltransferase [Faecalibacterium prausnitzii L2-6]
          Length = 381

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 33/77 (42%), Gaps = 1/77 (1%)

Query: 11 VDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D  V G  IR  R    ++Q +L E L ++ + + K+E        S L+ ++  L   
Sbjct: 1  MDSYVTGTAIRQLREAKHLTQAELAEKLAVSAKAISKWETAHGLPDISLLEPLAAALGVS 60

Query: 70 ISFFFDVSPTVCSDISS 86
          +       P V  + S+
Sbjct: 61 VLELMQGEPVVNRNRSA 77


>gi|289191957|ref|YP_003457898.1| transcriptional regulator, XRE family [Methanocaldococcus sp.
          FS406-22]
 gi|288938407|gb|ADC69162.1| transcriptional regulator, XRE family [Methanocaldococcus sp.
          FS406-22]
          Length = 66

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++++ R +  ++QE L + LG++ Q +   EKG           I++     I   F
Sbjct: 3  NKLKIYRAMYNLTQEDLAKKLGVSRQTIIAIEKGKYDPSLKLAFKIAKFFGVKIEDIF 60


>gi|262200767|ref|YP_003271975.1| XRE family transcriptional regulator [Gordonia bronchialis DSM
           43247]
 gi|262084114|gb|ACY20082.1| helix-turn-helix domain protein [Gordonia bronchialis DSM 43247]
          Length = 182

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/104 (20%), Positives = 34/104 (32%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI   R    MS   L    GI    + + E G        L  ++  L  P+S   
Sbjct: 16  IGARITELRTARSMSLSALARAAGIGKGSLSELESGQRNPTIDTLYAVAGPLGVPLSALL 75

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
                      S    ++     PDG     +++ +    VR+ 
Sbjct: 76  GEESGTEGSGRSLSARLLHVEHHPDGAVTEVFWLTVTPGDVRES 119


>gi|255102927|ref|ZP_05331904.1| putative transcriptional regulator [Clostridium difficile
          QCD-63q42]
 gi|296449255|ref|ZP_06891041.1| XRE family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296261924|gb|EFH08733.1| XRE family transcriptional regulator [Clostridium difficile
          NAP08]
          Length = 135

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/79 (16%), Positives = 33/79 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+++  R+  GM+QE + E + ++ Q +  +E   +      +  +S +    +  
Sbjct: 1  MEIGKKLKNARVQSGMTQENVAEKINVSRQTISNWENEKSYPDIISVIELSNLYSISLDV 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                 +   +    N V
Sbjct: 61 LLKGDEKMIEHLEESTNVV 79


>gi|225016323|ref|ZP_03705515.1| hypothetical protein CLOSTMETH_00226 [Clostridium methylpentosum
           DSM 5476]
 gi|224950928|gb|EEG32137.1| hypothetical protein CLOSTMETH_00226 [Clostridium methylpentosum
           DSM 5476]
          Length = 119

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/99 (21%), Positives = 40/99 (40%), Gaps = 6/99 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R   GMSQE+L     ++   + + E+ +       + HI++ L   +   F
Sbjct: 14  LGSRIRTLRQQKGMSQEELAFKASLSAAHLGQIERALKNPTVDTVSHIADALGITVDQLF 73

Query: 75  DVSPTVCSDISSEENNVMDFIST------PDGLQLNRYF 107
                     +   N ++  ++        D L+L + F
Sbjct: 74  QFDLPKQERENVTANKILAQLADMTPGQQRDVLKLIKIF 112


>gi|182418674|ref|ZP_02949950.1| helix-turn-helix domain protein [Clostridium butyricum 5521]
 gi|237669723|ref|ZP_04529700.1| helix-turn-helix domain protein [Clostridium butyricum E4 str.
          BoNT E BL5262]
 gi|182377451|gb|EDT75006.1| helix-turn-helix domain protein [Clostridium butyricum 5521]
 gi|237654797|gb|EEP52360.1| helix-turn-helix domain protein [Clostridium butyricum E4 str.
          BoNT E BL5262]
          Length = 171

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 29/70 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VG  I+  R    +SQ+ + + L +       YE       A  L+ I++VL   +  
Sbjct: 7  IKVGNNIKKIRKEKNISQKDMAKKLNMPSSTYSNYENNNREPNALTLKKIADVLSVDVHD 66

Query: 73 FFDVSPTVCS 82
            +V  +  +
Sbjct: 67 LLNVQSSNNN 76


>gi|149279478|ref|ZP_01885608.1| hypothetical protein PBAL39_16801 [Pedobacter sp. BAL39]
 gi|149229771|gb|EDM35160.1| hypothetical protein PBAL39_16801 [Pedobacter sp. BAL39]
          Length = 71

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/58 (34%), Positives = 32/58 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            V ++I++ R  LG+SQ  + E LGI+     K E G   +  +RL  I++VLE  +
Sbjct: 4  RIVNQKIKVLRNKLGISQTMMAERLGISQNAFSKIELGQIDLTLNRLYKIADVLEVDV 61


>gi|54293108|ref|YP_125523.1| hypothetical protein lpl0147 [Legionella pneumophila str. Lens]
 gi|53752940|emb|CAH14376.1| hypothetical protein lpl0147 [Legionella pneumophila str. Lens]
          Length = 234

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +   +GKRI   R   G++ + LGE   G+   ++  +E+GV   G   ++ ++E L+  
Sbjct: 16 IKKEIGKRILEARKAKGLTLKALGELAGGLKQTRLTNWEQGVRTPGPEEIKSLAEALDVS 75

Query: 70 ISFFFDVSPTV 80
           ++   +S   
Sbjct: 76 PAYLMCLSDEA 86


>gi|84686565|ref|ZP_01014458.1| transcriptional regulator, putative [Maritimibacter alkaliphilus
           HTCC2654]
 gi|84665478|gb|EAQ11955.1| transcriptional regulator, putative [Rhodobacterales bacterium
           HTCC2654]
          Length = 435

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/99 (21%), Positives = 38/99 (38%), Gaps = 2/99 (2%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P     G RIR RR+ LG  Q  L   +G++   +   E    R+G   L  ++  L + 
Sbjct: 2   PQSRLTGSRIRERRLALGTRQADLARAVGVSPAYLNLIEHNRRRIGGKLLVDLARELNTE 61

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
            +   + +     +   +     + + TP+ L     F 
Sbjct: 62  PAQLSEGAGQALVNALRDAAARFENV-TPE-LDRVEEFA 98


>gi|332982997|ref|YP_004464438.1| helix-turn-helix domain-containing protein [Mahella australiensis
          50-1 BON]
 gi|332700675|gb|AEE97616.1| helix-turn-helix domain protein [Mahella australiensis 50-1 BON]
          Length = 71

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 29/65 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R+   + Q +L +  GI+   +   E G        L  +++ L+  I+ F 
Sbjct: 2  LGTKIKKLRINKKIKQIELAKAAGISNSFLSDIENGRTMPSLKTLYKLADALDVSITVFL 61

Query: 75 DVSPT 79
          +   +
Sbjct: 62 EDDSS 66


>gi|260662800|ref|ZP_05863694.1| DNA-binding protein [Lactobacillus fermentum 28-3-CHN]
 gi|260552881|gb|EEX25880.1| DNA-binding protein [Lactobacillus fermentum 28-3-CHN]
          Length = 204

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 37/79 (46%), Gaps = 2/79 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GK I   R   GM+Q  L E L I+ + + K+E G +   +  +  + ++L+  ++ 
Sbjct: 4  IKIGKFIASCRKERGMTQANLAEKLRISDRAISKWETGKSMPDSGIMLELCDLLKINVNE 63

Query: 73 FFDVSP--TVCSDISSEEN 89
                  T   D  +EEN
Sbjct: 64 LLSGERIMTEAYDKRAEEN 82


>gi|221070070|ref|ZP_03546175.1| transcriptional regulator, XRE family [Comamonas testosteroni
          KF-1]
 gi|220715093|gb|EED70461.1| transcriptional regulator, XRE family [Comamonas testosteroni
          KF-1]
          Length = 104

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 39/81 (48%), Gaps = 1/81 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISF 72
          ++G+RIR RR  LG+SQ +L +   +T   + + E G  R +    L  ++  L++    
Sbjct: 3  HLGERIRARRQALGLSQGRLAQMADVTASAISQIESGAIRTLKNDTLARLAIALQTTALE 62

Query: 73 FFDVSPTVCSDISSEENNVMD 93
                +    + ++E  ++D
Sbjct: 63 LMAGLHSETLSLPNDEQRLLD 83


>gi|55419787|gb|AAV51964.1| PlcR [Bacillus thuringiensis]
 gi|55419789|gb|AAV51965.1| PlcR [Bacillus thuringiensis]
          Length = 285

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R + G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGIEIKKIRAMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|16799151|ref|NP_469419.1| hypothetical protein lin0073 [Listeria innocua Clip11262]
 gi|16412493|emb|CAC95306.1| lin0073 [Listeria innocua Clip11262]
          Length = 158

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 26/68 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KR+   R   G SQ KL + LG +  QV  YE+G        L  I+E       +    
Sbjct: 4  KRLSELRKKKGFSQYKLADELGFSRGQVANYEQGTREPDYQTLLKIAEFFNVSTDYLLGR 63

Query: 77 SPTVCSDI 84
               +D 
Sbjct: 64 DDNNLADT 71


>gi|120536951|ref|YP_957009.1| XRE family transcriptional regulator [Marinobacter aquaeolei VT8]
 gi|120326785|gb|ABM21094.1| transcriptional regulator, XRE family [Marinobacter aquaeolei
          VT8]
          Length = 229

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 4/85 (4%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+  G RI+  R I  +SQ  L   +G+T   + + E G+    AS L  ++  L+    
Sbjct: 4  DMQFGTRIKQIREIRKISQGFLARQVGLTQATISRIESGIPEATAS-LLDMARALKVDPF 62

Query: 72 FFFDVSPTVCSDISSEENNVMDFIS 96
          +         S  S+ E  V +F+ 
Sbjct: 63 WL---QTGEGSPDSAPEWLVSNFLR 84


>gi|315612472|ref|ZP_07887385.1| XRE family transcriptional regulator [Streptococcus sanguinis
          ATCC 49296]
 gi|315315453|gb|EFU63492.1| XRE family transcriptional regulator [Streptococcus sanguinis
          ATCC 49296]
          Length = 71

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 11/64 (17%), Positives = 26/64 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R    +SQ+ L + +G+    +  +E G +++     + ++E     I +    
Sbjct: 7  NRIKELRKQSRLSQQALADQIGVFRNTISNWETGYSQISLENAKKVAEYFGVTIDYLLGS 66

Query: 77 SPTV 80
              
Sbjct: 67 ESDQ 70


>gi|317499111|ref|ZP_07957390.1| helix-turn-helix domain-containing protein [Lachnospiraceae
          bacterium 5_1_63FAA]
 gi|291524086|emb|CBK89673.1| Helix-turn-helix [Eubacterium rectale DSM 17629]
 gi|316893631|gb|EFV15834.1| helix-turn-helix domain-containing protein [Lachnospiraceae
          bacterium 5_1_63FAA]
          Length = 209

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 36/76 (47%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R++ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 8  KLIGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSE 87
          +    +    +DI+ +
Sbjct: 68 WLKGETDEYETDITDK 83


>gi|283797040|ref|ZP_06346193.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
 gi|291075456|gb|EFE12820.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
 gi|291528288|emb|CBK93874.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
 gi|291534520|emb|CBL07632.1| Predicted transcriptional regulators [Roseburia intestinalis
          M50/1]
          Length = 207

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/87 (22%), Positives = 44/87 (50%), Gaps = 2/87 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPIS 71
            +G R + RR  LG++Q  + E +G+T   +Q+YE G  +      L+ +++ L   + 
Sbjct: 9  KTIGSRAKSRRQELGLNQPYVAEKMGVTASTIQRYEAGTIDNTKKMTLEGLADALHVSVE 68

Query: 72 FFFDVSPTVCSDISSE-ENNVMDFIST 97
          +    +    +DI+ + E  + D +++
Sbjct: 69 WLKGETDEYETDITDKRELQIRDVMTS 95


>gi|225018741|ref|ZP_03707933.1| hypothetical protein CLOSTMETH_02691 [Clostridium methylpentosum
           DSM 5476]
 gi|224948469|gb|EEG29678.1| hypothetical protein CLOSTMETH_02691 [Clostridium methylpentosum
           DSM 5476]
          Length = 116

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 31/109 (28%), Positives = 50/109 (45%), Gaps = 7/109 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G RI   R  L + Q+ L   +GIT   + KYE+ +N   A  L  I++ L +   F
Sbjct: 2   LTLGDRIISLRQDLDIQQKDLAAQIGITKSSMSKYERNINIPNAEILSKIADALNTTTDF 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
               +P+     SS        +ST +   L R F  ++D   R +I+E
Sbjct: 62  LLGRTPSKQPLSSSLMR-----LSTDEQRLLQR-FGLLNDQN-RARILE 103


>gi|329927927|ref|ZP_08281955.1| cupin domain protein [Paenibacillus sp. HGF5]
 gi|328938146|gb|EGG34542.1| cupin domain protein [Paenibacillus sp. HGF5]
          Length = 189

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/91 (17%), Positives = 40/91 (43%), Gaps = 3/91 (3%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P+   VG+ ++  R   G+S + + E  G++   + + E+G +    S L  I   L   
Sbjct: 3   PIHKKVGRNLQAIRKSRGLSLDNVAELTGVSKAMLGQIERGDSNPTISVLWRIVSGLGIS 62

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
            +   + + T  + ++ ++   ++     +G
Sbjct: 63  FTTLIEEAETEVTVVAPDD---VEPFHEAEG 90


>gi|330468037|ref|YP_004405780.1| XRE family transcriptional regulator [Verrucosispora maris
           AB-18-032]
 gi|328811008|gb|AEB45180.1| XRE family transcriptional regulator [Verrucosispora maris
           AB-18-032]
          Length = 192

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/105 (22%), Positives = 37/105 (35%), Gaps = 10/105 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G +  +L +  GI+   + + E G  R     L  ++   + P+    
Sbjct: 11  VGPRLRALRKNRGTTLSELADTTGISVSTLSRLESGQRRPTLELLLPLARAHQVPLDELV 70

Query: 75  DVSPTVCSDISSEENNV------MDFISTPDGLQLNRYFIQIDDV 113
             +P V          V      +     P GLQ    F QI   
Sbjct: 71  -GAPAVGDPRVHPRPIVRHGTTFLPLTRRPGGLQ---AFKQILPP 111


>gi|257419815|ref|ZP_05596809.1| predicted protein [Enterococcus faecalis T11]
 gi|257161643|gb|EEU91603.1| predicted protein [Enterococcus faecalis T11]
          Length = 141

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 26/51 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          ++  R+   MSQ+KL E  GI+   + KYEKG   +       +S+VL   
Sbjct: 11 LKSLRLERKMSQKKLAELAGISQSALAKYEKGTRNISNELDSALSKVLNVD 61


>gi|225863781|ref|YP_002749159.1| transcriptional regulator [Bacillus cereus 03BB102]
 gi|225789739|gb|ACO29956.1| transcriptional regulator [Bacillus cereus 03BB102]
          Length = 116

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 42/92 (45%), Gaps = 6/92 (6%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
           RI+  R+   M+QE+ G+ + +T   V K+E G    G   ++ I++    P+++ +  +
Sbjct: 6   RIKQIRIDNKMNQEQFGKEVDLTKGTVSKFENGKAFPGRETIEKIAKRFNVPVNYLYGEN 65

Query: 76  VSPTVCSDISSEENNVMDFIS----TPDGLQL 103
                  D   +   +MD++       + + L
Sbjct: 66  KDDNSIDDKYKKFKEIMDWLEPLPKDKEDIAL 97


>gi|3219886|sp|Q57720|Y272_METJA RecName: Full=Uncharacterized HTH-type transcriptional regulator
          MJ0272
          Length = 66

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +++  R +  ++QE L + LG++ Q +   EKG           I++     I   F
Sbjct: 3  NKLKYYRALHNLTQEDLAKKLGVSRQTIIAIEKGKYDPSLKLAFKIAKFFGVKIEDIF 60


>gi|313888356|ref|ZP_07822026.1| DNA-binding helix-turn-helix protein [Peptoniphilus harei
          ACS-146-V-Sch2b]
 gi|312845636|gb|EFR33027.1| DNA-binding helix-turn-helix protein [Peptoniphilus harei
          ACS-146-V-Sch2b]
          Length = 367

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 30/68 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I  +R   G++QE+L E + +T   V K+E G +      L  ++      +    
Sbjct: 4  IGENILQKRKERGITQEELAEFMMVTKASVSKWETGQSHPDILLLPKLATFFNISVDELI 63

Query: 75 DVSPTVCS 82
             P + S
Sbjct: 64 GYDPGLSS 71


>gi|312126654|ref|YP_003991528.1| XRE family transcriptional regulator [Caldicellulosiruptor
          hydrothermalis 108]
 gi|311776673|gb|ADQ06159.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          hydrothermalis 108]
          Length = 105

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 24/66 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGKRI+  R   G+S  KL +  G+    +   E G        +  I   L   +  FF
Sbjct: 4  VGKRIKELREQCGLSMSKLAKIAGVGQSTLSYIENGERSPTIDVIMKICNALGITLVEFF 63

Query: 75 DVSPTV 80
                
Sbjct: 64 GGEEKT 69


>gi|257063944|ref|YP_003143616.1| 4-diphosphocytidyl-2-methyl-D-erythritol synthase [Slackia
          heliotrinireducens DSM 20476]
 gi|256791597|gb|ACV22267.1| 4-diphosphocytidyl-2-methyl-D-erythritol synthase [Slackia
          heliotrinireducens DSM 20476]
          Length = 321

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 37/78 (47%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +   I+LRR+ LG++Q++L   +G  +   V K E     +  S+L  +++ L++   
Sbjct: 1  MTIATNIKLRRLELGLTQDQLARAIGYRSRSAVAKIESDATDLPVSKLLLLAQALDTTPE 60

Query: 72 FFFDVSPTVCSDISSEEN 89
             + +       +  E+
Sbjct: 61 RLLEGAGEFSYSDAGSES 78


>gi|283795786|ref|ZP_06344939.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
 gi|291076417|gb|EFE13781.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
          Length = 115

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/91 (26%), Positives = 41/91 (45%), Gaps = 1/91 (1%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          + +K      D   G RI  RR  +G+SQ++L   +GI  Q +   E G +      L +
Sbjct: 1  MSSKAQTREKDYERGIRIADRRKEIGLSQDELAHRVGIGRQALSAIENGGD-FKTQTLDN 59

Query: 62 ISEVLESPISFFFDVSPTVCSDISSEENNVM 92
          ++ VL   + F         S++ SE  +V+
Sbjct: 60 LAIVLGVSVDFIMYGKNEEKSELLSEAMDVL 90


>gi|225019513|ref|ZP_03708705.1| hypothetical protein CLOSTMETH_03466 [Clostridium methylpentosum
           DSM 5476]
 gi|224947734|gb|EEG28943.1| hypothetical protein CLOSTMETH_03466 [Clostridium methylpentosum
           DSM 5476]
          Length = 154

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/105 (18%), Positives = 41/105 (39%), Gaps = 16/105 (15%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+R  R+  G++Q  L + L ++   V  +E G      + +  ++ +  + +      S
Sbjct: 50  RLRQLRLERGLTQAALAKHLDVSQGTVGNWEGGKREPDFATVARLAALFGTTVDDLIGNS 109

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           PT                     + L R    I + + R+KI+++
Sbjct: 110 PTKAETKL---------------ILLARKAEHIPEQE-REKILQV 138


>gi|254466890|ref|ZP_05080301.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
           Y4I]
 gi|206687798|gb|EDZ48280.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
           Y4I]
          Length = 218

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 37/89 (41%), Gaps = 9/89 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++R  R    M   +LGE  G++   + + E+G      + L  I+ V    +  FF
Sbjct: 31  IGPKLRSLRQGKDMGLAQLGEHTGLSAAMLSRIERGQVFPTLATLLRIAMVFGVGLDHFF 90

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL 103
                       E+  V++ +   D L+L
Sbjct: 91  ---------GPGEDAPVLEIVRQRDRLKL 110


>gi|257459294|ref|ZP_05624408.1| putative transcriptional regulator [Campylobacter gracilis
          RM3268]
 gi|257443307|gb|EEV18436.1| putative transcriptional regulator [Campylobacter gracilis
          RM3268]
          Length = 259

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 26/90 (28%), Positives = 39/90 (43%), Gaps = 14/90 (15%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-----GVN-------RVGASR 58
          +DI+  ++IR  R   G++Q +  E LGIT   V  YE      G N       +    +
Sbjct: 1  MDIH--QKIRAFRQEAGLTQVQFAEKLGITQGLVAHYETQPGEIGKNGKEKKSSKPELEK 58

Query: 59 LQHISEVLESPISFFFDVSPTVCSDISSEE 88
          L  I+E+L   +   FD   T    I  +E
Sbjct: 59 LPLIAEILGKNVIDLFDDEETSKRQIVKKE 88


>gi|239630941|ref|ZP_04673972.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|301065263|ref|YP_003787286.1| XRE family transcriptional regulator [Lactobacillus casei str.
          Zhang]
 gi|239527224|gb|EEQ66225.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|300437670|gb|ADK17436.1| Transcriptional regulator, xre family [Lactobacillus casei str.
          Zhang]
          Length = 373

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++INVG  I   R   G++Q+ L + +G++   V K+E G +    + L  ++   +  I
Sbjct: 1  MEINVGAVISANRKQKGITQQALADFVGVSKASVSKWETGQSYPDITLLPILAAYFDVSI 60

Query: 71 S 71
           
Sbjct: 61 D 61


>gi|183597688|ref|ZP_02959181.1| hypothetical protein PROSTU_00981 [Providencia stuartii ATCC 25827]
 gi|188022960|gb|EDU61000.1| hypothetical protein PROSTU_00981 [Providencia stuartii ATCC 25827]
          Length = 145

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/102 (24%), Positives = 48/102 (47%), Gaps = 4/102 (3%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +R  R    ++ ++L + +GI+ QQ+ +YE G+  +    L     +LE   + F     
Sbjct: 14  LRKARKEKKITGKELAKLMGISQQQISRYENGITPLTIDLLYKFLLILEIDGASFIQ--- 70

Query: 79  TVCSDISSEENNVMDFISTPDGL-QLNRYFIQIDDVKVRQKI 119
            +  + ++  NN     +TP  L Q  R+FI+  +   R +I
Sbjct: 71  KIFHEYANGSNNKEPAPATPPSLSQYIRHFIKDKNSATRDEI 112


>gi|254359387|ref|ZP_04975659.1| DNA-binding protein [Burkholderia mallei 2002721280]
 gi|148028574|gb|EDK86534.1| DNA-binding protein [Burkholderia mallei 2002721280]
          Length = 201

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/117 (17%), Positives = 46/117 (39%), Gaps = 10/117 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G +IR  R  L  + ++     GI+   + + E+G+     + L  I+  L   + +
Sbjct: 23  VALGSKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSITSLAGIAHALGVTVQY 82

Query: 73  FFDVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFIQIDDVKVRQKI 119
           F +      S    ++     F  +          P+G QL    +++   + R ++
Sbjct: 83  FVETPSEERSVCRGDQLRFFSFADSANLFARLTNVPEGRQLEAILVRMPPGQKRSEV 139


>gi|30021440|ref|NP_833071.1| PbsX family transcriptional regulator [Bacillus cereus ATCC
          14579]
 gi|206969324|ref|ZP_03230279.1| DNA-binding protein [Bacillus cereus AH1134]
 gi|218232223|ref|YP_002368049.1| DNA-binding protein [Bacillus cereus B4264]
 gi|29896994|gb|AAP10272.1| Transcriptional regulator, PBSX family [Bacillus cereus ATCC
          14579]
 gi|206736365|gb|EDZ53523.1| DNA-binding protein [Bacillus cereus AH1134]
 gi|218160180|gb|ACK60172.1| DNA-binding protein [Bacillus cereus B4264]
          Length = 66

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 2/61 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          RI+  R  L M+QE L + +G+  + +   EKG           I++ L S I   F F+
Sbjct: 6  RIKEYRAKLNMTQEDLAKSVGVRRETISHLEKGKYNPSLQLAHDIAKALHSTIDEIFIFE 65

Query: 76 V 76
           
Sbjct: 66 D 66


>gi|148548716|ref|YP_001268818.1| XRE family transcriptional regulator [Pseudomonas putida F1]
 gi|148512774|gb|ABQ79634.1| transcriptional regulator, XRE family [Pseudomonas putida F1]
          Length = 187

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 28/68 (41%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +      V  +V   +R  R   G+SQ  L E  G++ + +   E G   V  + L 
Sbjct: 1  MHKDSSHRASVLQHVSLNVRSLRNAAGLSQAALAERSGVSRRMLVAIEAGEKNVSLTTLD 60

Query: 61 HISEVLES 68
           I+E L  
Sbjct: 61 LIAEALGV 68


>gi|329851805|ref|ZP_08266486.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328839654|gb|EGF89227.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 67

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 25/57 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +R  R  +G++Q  L   LG++ Q V   E   +         IS V + P+   F+
Sbjct: 5  LRELRTEMGLTQADLAAKLGVSRQAVIALETDKHIPSLDLAYKISAVFDRPVESIFE 61


>gi|314937222|ref|ZP_07844567.1| transcriptional Regulator of molybdate metabolism, XRE family
          [Staphylococcus hominis subsp. hominis C80]
 gi|313654655|gb|EFS18402.1| transcriptional Regulator of molybdate metabolism, XRE family
          [Staphylococcus hominis subsp. hominis C80]
          Length = 87

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            I+  R  L +SQ++L + + +T Q V   E G      +    I++ L+  ++  F
Sbjct: 22 NNIKYYRKELKISQQELADRVEVTRQTVSLIELGKYNPTINLCIRIAKALDVDLNKLF 79


>gi|313499627|gb|ADR60993.1| XRE family transcriptional regulator [Pseudomonas putida BIRD-1]
          Length = 99

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 26/70 (37%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +R  R + G++Q +L E  G   + + ++E          +   ++VL      FF 
Sbjct: 2  GIALRRYRKLAGLTQAQLAERTGFDPKTISRFETSTYTPSIDAIMAFAQVLGVKPKDFFA 61

Query: 76 VSPTVCSDIS 85
                   +
Sbjct: 62 EPDDEEEQRA 71


>gi|325918018|ref|ZP_08180182.1| Helix-turn-helix protein [Xanthomonas vesicatoria ATCC 35937]
 gi|325535782|gb|EGD07614.1| Helix-turn-helix protein [Xanthomonas vesicatoria ATCC 35937]
          Length = 128

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/116 (19%), Positives = 56/116 (48%), Gaps = 14/116 (12%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLESPISF 72
            R+   R + G+SQ  LG+ +G+  +    ++ +YE  V  +G   L  +++VL+ P+++
Sbjct: 12  ARLAQARQLRGLSQRALGDRMGLGKEKGSSRINRYEHQVTAIGFDNLNTLAQVLDVPVAY 71

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ--LNRYFIQ-IDDVKVRQKIIELVRS 125
                    +D +S  + ++      +  +  L +     + D  +  K++EL+++
Sbjct: 72  L-------LADDASMADAILALSQADEAQRKVLTKLIPAVLQDPSMLSKLVELLQA 120


>gi|322804725|emb|CBZ02277.1| transcriptional repressor [Clostridium botulinum H04402 065]
          Length = 63

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          K++++ R+   MSQE+L + +G+T Q +   E G      +    I + L   ++  F
Sbjct: 4  KKMKIARIECDMSQEQLADAIGVTRQTIGLIELGKYNPSLNLCIAICKALNKTLNDLF 61


>gi|309777026|ref|ZP_07671995.1| transcriptional regulator [Erysipelotrichaceae bacterium 3_1_53]
 gi|308915236|gb|EFP61007.1| transcriptional regulator [Erysipelotrichaceae bacterium 3_1_53]
          Length = 147

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++  R    ++QE+L E + +T Q V ++E G  +     L+ +S V +  I+
Sbjct: 7  LKNLREKNNLTQEQLAERVQVTRQAVSRWETGETQPNTDTLKLLSRVFDVSIN 59


>gi|307704202|ref|ZP_07641125.1| helix-turn-helix family protein [Streptococcus mitis SK597]
 gi|307622233|gb|EFO01247.1| helix-turn-helix family protein [Streptococcus mitis SK597]
          Length = 108

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 31/66 (46%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +  N+  +IR  R+   ++Q++L E   ++   + + E     +       I + LE 
Sbjct: 2  DDILENISNQIRDLRVSKKITQQELAERTNLSVPYISQIENSHRNISLETFVKIVDALEV 61

Query: 69 PISFFF 74
          P+S FF
Sbjct: 62 PLSDFF 67


>gi|293374278|ref|ZP_06620606.1| toxin-antitoxin system, antitoxin component, Xre family
          [Turicibacter sanguinis PC909]
 gi|292647111|gb|EFF65093.1| toxin-antitoxin system, antitoxin component, Xre family
          [Turicibacter sanguinis PC909]
          Length = 119

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 25/59 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +GKR++  R   G++Q++L   + I+   V  YE          L   S+V      + 
Sbjct: 2  LGKRLKQLRNSAGLTQKELANKMNISSSAVSMYEADRRDPDTETLVKFSKVFNVTTDYL 60


>gi|255528351|ref|ZP_05395157.1| transcriptional regulator, XRE family [Clostridium carboxidivorans
           P7]
 gi|296185570|ref|ZP_06853979.1| tetratricopeptide repeat protein [Clostridium carboxidivorans P7]
 gi|255507961|gb|EET84395.1| transcriptional regulator, XRE family [Clostridium carboxidivorans
           P7]
 gi|296049698|gb|EFG89123.1| tetratricopeptide repeat protein [Clostridium carboxidivorans P7]
          Length = 434

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 38/87 (43%), Gaps = 1/87 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I+ RR  L M+ + L     IT  Q+   E G +      L++++  L + I +  
Sbjct: 6   LGEKIKRRRKDLNMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLANALNTSIEYLM 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL 101
           +   T    I +   N+ +     + L
Sbjct: 65  ESEETQAEKICTYFENIAESYIINEDL 91


>gi|255505268|ref|ZP_05345130.3| conserved domain protein [Bryantella formatexigens DSM 14469]
 gi|255269040|gb|EET62245.1| conserved domain protein [Bryantella formatexigens DSM 14469]
          Length = 86

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 29/62 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I + R    M+Q++L + +G++ Q + + E+            I++V +  I   FD 
Sbjct: 22 SKIHIYRATKRMTQQELADLVGVSRQTIMQLERNRYNPSMLLAYSIAKVFDVTIEDLFDF 81

Query: 77 SP 78
          S 
Sbjct: 82 SE 83


>gi|218133915|ref|ZP_03462719.1| hypothetical protein BACPEC_01804 [Bacteroides pectinophilus ATCC
           43243]
 gi|217991290|gb|EEC57296.1| hypothetical protein BACPEC_01804 [Bacteroides pectinophilus ATCC
           43243]
          Length = 128

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/112 (19%), Positives = 48/112 (42%), Gaps = 7/112 (6%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  +KK    +D ++G R++  R+   ++ ++L E  G++ + +++ E   N     +L 
Sbjct: 13  MAKSKK----IDKDMGFRLKKARLDQKLTYDELSEKSGVSSRYIKEIENHGNVPSLEKLG 68

Query: 61  HISEVLESPIS-FFFDVSPTVCSDISSEENNVMDFISTPDG--LQLNRYFIQ 109
            +   L      FF+  +PT   D       + +  S      L L   +++
Sbjct: 69  QLIRALHISADPFFYPAAPTDNLDYQRLLVYLSECTSDQITTILALVEAYLR 120


>gi|147918990|ref|YP_687283.1| transcription regulator [uncultured methanogenic archaeon RC-I]
 gi|110622679|emb|CAJ37957.1| predicted transcription regulator [uncultured methanogenic
          archaeon RC-I]
          Length = 184

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/59 (35%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            V  RI+  R IL +SQE +   L I+    ++YE G   + AS L  IS  L   +S
Sbjct: 6  KEVAARIKELREILDISQESMASDLRISQDTYRRYENGEEDIPASILYEISRKLGVEMS 64


>gi|53716415|ref|YP_105155.1| DNA-binding protein [Burkholderia mallei ATCC 23344]
 gi|121597232|ref|YP_991127.1| DNA-binding protein [Burkholderia mallei SAVP1]
 gi|124381577|ref|YP_001025521.1| DNA-binding protein [Burkholderia mallei NCTC 10229]
 gi|126442447|ref|YP_001064011.1| DNA-binding protein [Burkholderia pseudomallei 668]
 gi|126446100|ref|YP_001077587.1| DNA-binding protein [Burkholderia mallei NCTC 10247]
 gi|126458019|ref|YP_001076933.1| DNA-binding protein [Burkholderia pseudomallei 1106a]
 gi|167000254|ref|ZP_02266073.1| DNA-binding protein [Burkholderia mallei PRL-20]
 gi|167725174|ref|ZP_02408410.1| DNA-binding protein [Burkholderia pseudomallei DM98]
 gi|167744105|ref|ZP_02416879.1| DNA-binding protein [Burkholderia pseudomallei 14]
 gi|167821307|ref|ZP_02452987.1| DNA-binding protein [Burkholderia pseudomallei 91]
 gi|167829646|ref|ZP_02461117.1| DNA-binding protein [Burkholderia pseudomallei 9]
 gi|167899756|ref|ZP_02487157.1| DNA-binding protein [Burkholderia pseudomallei 7894]
 gi|167908062|ref|ZP_02495267.1| DNA-binding protein [Burkholderia pseudomallei NCTC 13177]
 gi|167916410|ref|ZP_02503501.1| DNA-binding protein [Burkholderia pseudomallei 112]
 gi|167924271|ref|ZP_02511362.1| DNA-binding protein [Burkholderia pseudomallei BCC215]
 gi|217424415|ref|ZP_03455914.1| DNA-binding protein [Burkholderia pseudomallei 576]
 gi|226194042|ref|ZP_03789643.1| DNA-binding protein [Burkholderia pseudomallei Pakistan 9]
 gi|237509646|ref|ZP_04522361.1| DNA-binding protein [Burkholderia pseudomallei MSHR346]
 gi|238561521|ref|ZP_00441977.2| DNA-binding protein [Burkholderia mallei GB8 horse 4]
 gi|242313514|ref|ZP_04812531.1| DNA-binding protein [Burkholderia pseudomallei 1106b]
 gi|254177387|ref|ZP_04884043.1| DNA-binding protein [Burkholderia mallei ATCC 10399]
 gi|254182642|ref|ZP_04889236.1| DNA-binding protein [Burkholderia pseudomallei 1655]
 gi|254185685|ref|ZP_04892203.1| DNA-binding protein [Burkholderia pseudomallei Pasteur 52237]
 gi|254192472|ref|ZP_04898911.1| DNA-binding protein [Burkholderia pseudomallei S13]
 gi|254203094|ref|ZP_04909456.1| DNA-binding protein [Burkholderia mallei FMH]
 gi|254208427|ref|ZP_04914776.1| DNA-binding protein [Burkholderia mallei JHU]
 gi|254296435|ref|ZP_04963891.1| DNA-binding protein [Burkholderia pseudomallei 406e]
 gi|52422385|gb|AAU45955.1| DNA-binding protein [Burkholderia mallei ATCC 23344]
 gi|121225030|gb|ABM48561.1| DNA-binding protein [Burkholderia mallei SAVP1]
 gi|126221938|gb|ABN85443.1| DNA-binding protein [Burkholderia pseudomallei 668]
 gi|126231787|gb|ABN95200.1| DNA-binding protein [Burkholderia pseudomallei 1106a]
 gi|126238954|gb|ABO02066.1| DNA-binding protein [Burkholderia mallei NCTC 10247]
 gi|147746139|gb|EDK53217.1| DNA-binding protein [Burkholderia mallei FMH]
 gi|147751114|gb|EDK58182.1| DNA-binding protein [Burkholderia mallei JHU]
 gi|157806343|gb|EDO83513.1| DNA-binding protein [Burkholderia pseudomallei 406e]
 gi|157933371|gb|EDO89041.1| DNA-binding protein [Burkholderia pseudomallei Pasteur 52237]
 gi|160698427|gb|EDP88397.1| DNA-binding protein [Burkholderia mallei ATCC 10399]
 gi|169649230|gb|EDS81923.1| DNA-binding protein [Burkholderia pseudomallei S13]
 gi|184213177|gb|EDU10220.1| DNA-binding protein [Burkholderia pseudomallei 1655]
 gi|217392880|gb|EEC32903.1| DNA-binding protein [Burkholderia pseudomallei 576]
 gi|225933987|gb|EEH29973.1| DNA-binding protein [Burkholderia pseudomallei Pakistan 9]
 gi|235001851|gb|EEP51275.1| DNA-binding protein [Burkholderia pseudomallei MSHR346]
 gi|238524516|gb|EEP87949.1| DNA-binding protein [Burkholderia mallei GB8 horse 4]
 gi|242136753|gb|EES23156.1| DNA-binding protein [Burkholderia pseudomallei 1106b]
 gi|243063746|gb|EES45932.1| DNA-binding protein [Burkholderia mallei PRL-20]
 gi|261826389|gb|ABN00454.2| DNA-binding protein [Burkholderia mallei NCTC 10229]
          Length = 179

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/117 (17%), Positives = 46/117 (39%), Gaps = 10/117 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G +IR  R  L  + ++     GI+   + + E+G+     + L  I+  L   + +
Sbjct: 1   MALGSKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSITSLAGIAHALGVTVQY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFIQIDDVKVRQKI 119
           F +      S    ++     F  +          P+G QL    +++   + R ++
Sbjct: 61  FVETPSEERSVCRGDQLRFFSFADSANLFARLTNVPEGRQLEAILVRMPPGQKRSEV 117


>gi|330719170|ref|ZP_08313770.1| XRE family transcriptional regulator [Leuconostoc fallax KCTC
          3537]
          Length = 286

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 36/81 (44%), Gaps = 4/81 (4%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  I+  R + G+SQ++LG+ +G +   V + E          L  +   L      +FD
Sbjct: 6  GSVIKEIRKLRGISQQQLGQLIG-SQSMVSRIENNKAEPSDHTLLLLCHALNISFDEYFD 64

Query: 76 VSPTVCSDISSEENNVMDFIS 96
          +   V    +S+   + DF+S
Sbjct: 65 M---VYGTHASDTERLFDFVS 82


>gi|291543534|emb|CBL16643.1| Predicted transcriptional regulators [Ruminococcus sp. 18P13]
          Length = 201

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 25/55 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R   GM+QE+L   L ++   V K+E G        L+ IS      + 
Sbjct: 5  EKLQELRKQRGMTQEELATALYVSRTAVSKWESGRGYPSIDSLKAISGFFGVSLD 59


>gi|255282960|ref|ZP_05347515.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
 gi|255266499|gb|EET59704.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
          Length = 228

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 34/77 (44%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G +I+  R+   MSQE+L E + +T Q +  +E G N      L  +S +    +  
Sbjct: 34  MEIGTQIKKYRLASEMSQEELAEKIYVTRQTISNWENGRNYPDVKSLLLLSSLFNISLDI 93

Query: 73  FFDVSPTVCSDISSEEN 89
                     +  +EE+
Sbjct: 94  LVKGDIEEMKEKINEED 110


>gi|332653329|ref|ZP_08419074.1| putative helix-turn-helix domain containing protein
          [Ruminococcaceae bacterium D16]
 gi|332518475|gb|EGJ48078.1| putative helix-turn-helix domain containing protein
          [Ruminococcaceae bacterium D16]
          Length = 194

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G  IR  R   G++Q +L + L ++ + V K+E+G      S L  +++ L   +
Sbjct: 6  IGALIRSLRTQQGLTQRELAQRLTVSDKAVSKWERGQGCPDVSLLPSLAQTLGVEV 61


>gi|291518587|emb|CBK73808.1| Predicted transcription factor, homolog of eukaryotic MBF1
          [Butyrivibrio fibrisolvens 16/4]
          Length = 251

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 32/77 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  I   R   G++Q++L + +G++ + V ++E G      S +  + + L+  I+    
Sbjct: 8  GSFISEMRKEKGLTQKQLADLVGVSDKAVSRWETGKGLPDTSIMPELCKALDININELLS 67

Query: 76 VSPTVCSDISSEENNVM 92
                     +   +M
Sbjct: 68 GERLNPEAYRGKAEEIM 84


>gi|169351011|ref|ZP_02867949.1| hypothetical protein CLOSPI_01788 [Clostridium spiroforme DSM
          1552]
 gi|169292073|gb|EDS74206.1| hypothetical protein CLOSPI_01788 [Clostridium spiroforme DSM
          1552]
          Length = 117

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 27/59 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +GKRIR  R+   +SQ+ L E   I+   +   E+G  ++    L  I+  L     F 
Sbjct: 8  IGKRIREERISQNLSQQTLAEISNISPTNISHIERGATKLSLPTLVSIANALAVSADFL 66


>gi|160932990|ref|ZP_02080379.1| hypothetical protein CLOLEP_01832 [Clostridium leptum DSM 753]
 gi|156868064|gb|EDO61436.1| hypothetical protein CLOLEP_01832 [Clostridium leptum DSM 753]
          Length = 222

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 24/56 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R   G+SQ    E +GI+   V  +E G        ++ I++     + + 
Sbjct: 20 RLKELRENAGLSQYGFAEKIGISQSTVGNWEAGSREPNFKTMERIADFFGVSVDYL 75


>gi|91779338|ref|YP_554546.1| XRE family transcriptional regulator [Burkholderia xenovorans
           LB400]
 gi|296157048|ref|ZP_06839885.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
 gi|91691998|gb|ABE35196.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia xenovorans LB400]
 gi|295892934|gb|EFG72715.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
          Length = 190

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/129 (17%), Positives = 46/129 (35%), Gaps = 11/129 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV   +  NP  + +G +IR  R  L  + +      GI+   + + E+G+     + L 
Sbjct: 1   MVTTIQKSNPA-LEIGSKIRALRQRLKRTLDDTATAAGISKPFLSQVERGLASPSITSLA 59

Query: 61  HISEVLESPISFFFDVSPTVC----------SDISSEENNVMDFISTPDGLQLNRYFIQI 110
            I+  L   + +F D                   +   N      +   G QL    +++
Sbjct: 60  GIANALGVTVQYFVDTPSEERCVSRGDQLRFFGFADSANLFARLTNVTGGRQLEAILVRM 119

Query: 111 DDVKVRQKI 119
              + R ++
Sbjct: 120 PPGQKRSEV 128


>gi|13488172|ref|NP_085894.1| hypothetical protein mll9374 [Mesorhizobium loti MAFF303099]
 gi|14028429|dbj|BAB54981.1| mll9374 [Mesorhizobium loti MAFF303099]
          Length = 405

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 34/86 (39%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M    ++   ++  VGKR+R  R    +S E L   +G++  Q+ K E G      + L 
Sbjct: 16  MDARSEVEKQINGMVGKRLREARKAKSLSLEALAGKVGMSVSQLSKLETGKAPASIAALV 75

Query: 61  HISEVLESPISFFFDVSPTVCSDISS 86
                L+    +F      +   + +
Sbjct: 76  RFGLELDRSAQYFLQSDSEMPRCLGT 101


>gi|256377491|ref|YP_003101151.1| XRE family transcriptional regulator [Actinosynnema mirum DSM
          43827]
 gi|255921794|gb|ACU37305.1| transcriptional regulator, XRE family [Actinosynnema mirum DSM
          43827]
          Length = 192

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 25/65 (38%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG+R+R  R   G +   L E  GI+   + + E G  R     L  I+     P+   
Sbjct: 8  QVGERLRALRASRGATLADLAEVTGISKSTLSRLESGQRRPSLELLLPIARAHRVPLDEL 67

Query: 74 FDVSP 78
              P
Sbjct: 68 VGAPP 72


>gi|238761245|ref|ZP_04622222.1| hypothetical protein ykris0001_35970 [Yersinia kristensenii ATCC
          33638]
 gi|238761498|ref|ZP_04622474.1| hypothetical protein ykris0001_22380 [Yersinia kristensenii ATCC
          33638]
 gi|238700472|gb|EEP93213.1| hypothetical protein ykris0001_22380 [Yersinia kristensenii ATCC
          33638]
 gi|238700725|gb|EEP93465.1| hypothetical protein ykris0001_35970 [Yersinia kristensenii ATCC
          33638]
          Length = 193

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 24/53 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR  R  LG++  +L +  GI    + + E G        L  ++  L+ P+S
Sbjct: 23 IRREREKLGLTVTELAKRAGIAKSTLSQLEGGAGNPSLETLWSLAMALDVPVS 75


>gi|46019834|emb|CAE52358.1| putative transcriptional regulator [Streptococcus thermophilus]
          Length = 113

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 34/76 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +   +R++  R     +Q ++ E LGI+      +E+GV +     L  I+++L   + +
Sbjct: 1  MEFSERLKELRKKANFTQVEVAEKLGISQPAYASWERGVKKPTQDNLVRIAQILNVSVDY 60

Query: 73 FFDVSPTVCSDISSEE 88
              S     ++ + E
Sbjct: 61 LVGNSEEKADELDNIE 76


>gi|91774792|ref|YP_544548.1| transcriptional regulator [Methylobacillus flagellatus KT]
 gi|91708779|gb|ABE48707.1| transcriptional regulator, XRE family with cupin sensor domain
          [Methylobacillus flagellatus KT]
          Length = 212

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 30/75 (40%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           G      P+  ++G  I+  R   G++  ++ E   I+   + K E G+       L+ 
Sbjct: 11 AGGDSEIKPLGKHLGNVIKDIRQQHGLTIAEVAERANISRGMLSKIENGLVSTSLDTLEQ 70

Query: 62 ISEVLESPISFFFDV 76
          ++  L   IS  F  
Sbjct: 71 LANSLGVTISRLFQG 85


>gi|55419783|gb|AAV51962.1| PlcR [Bacillus mycoides]
          Length = 285

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVMRGLTQKRLSDNI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|32141280|ref|NP_733681.1| UDP-N-acetylglucosamine transferase [Streptomyces coelicolor
          A3(2)]
 gi|256784482|ref|ZP_05522913.1| UDP-N-acetylglucosamine transferase [Streptomyces lividans TK24]
 gi|289768363|ref|ZP_06527741.1| UDP-N-acetylglucosamine transferase [Streptomyces lividans TK24]
 gi|24429550|emb|CAD55243.1| putative UDP-N-acetylglucosamine transferase [Streptomyces
          coelicolor A3(2)]
 gi|289698562|gb|EFD65991.1| UDP-N-acetylglucosamine transferase [Streptomyces lividans TK24]
          Length = 509

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +G+ IR  R   G +Q +L E L  +   V + E+G   +    +  I E L+S I
Sbjct: 7  VRIGRLIRDARQHRGWTQSQLAEALNTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|325954495|ref|YP_004238155.1| helix-turn-helix domain protein [Weeksella virosa DSM 16922]
 gi|323437113|gb|ADX67577.1| helix-turn-helix domain protein [Weeksella virosa DSM 16922]
          Length = 113

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 12/68 (17%), Positives = 31/68 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  GKR+R  R    +SQ+ L + +G     + +YE+   +     ++ +++ L + + +
Sbjct: 2  VTFGKRLREAREAKNLSQQDLAKLIGSVHTVIGRYERDEMKPSIDVVKRLADELGTTVGY 61

Query: 73 FFDVSPTV 80
              +   
Sbjct: 62 LIGEAKEA 69


>gi|170760571|ref|YP_001787673.1| putative DNA-binding protein [Clostridium botulinum A3 str. Loch
          Maree]
 gi|169407560|gb|ACA55971.1| putative DNA-binding protein [Clostridium botulinum A3 str. Loch
          Maree]
          Length = 78

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +++  R  LG++QE+LGE +G++ Q +   E G           I++V    I   F F
Sbjct: 3  NKLKQFREDLGLTQEQLGELVGVSRQAINAIETGKFEPSIWLAYDIAKVFHDTIEEVFLF 62

Query: 75 DVSP 78
          + S 
Sbjct: 63 EESE 66


>gi|167768289|ref|ZP_02440342.1| hypothetical protein CLOSS21_02845 [Clostridium sp. SS2/1]
 gi|296450915|ref|ZP_06892663.1| XRE family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296878605|ref|ZP_06902610.1| XRE family transcriptional regulator [Clostridium difficile
          NAP07]
 gi|167709813|gb|EDS20392.1| hypothetical protein CLOSS21_02845 [Clostridium sp. SS2/1]
 gi|296260218|gb|EFH07065.1| XRE family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296430412|gb|EFH16254.1| XRE family transcriptional regulator [Clostridium difficile
          NAP07]
          Length = 135

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/79 (16%), Positives = 33/79 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+++  R+  GM+QE + E + ++ Q +  +E   +      +  +S +    +  
Sbjct: 1  MEIGKKLKNARVQSGMTQENVAEKINVSRQTISNWENEKSYPDIINVIELSNLYSISLDE 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                 +   +    N V
Sbjct: 61 LLKGDEKMIEHLEESTNVV 79


>gi|134098587|ref|YP_001104248.1| DNA-binding protein [Saccharopolyspora erythraea NRRL 2338]
 gi|133911210|emb|CAM01323.1| possible DNA-binding protein [Saccharopolyspora erythraea NRRL
          2338]
          Length = 186

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 28/75 (37%), Gaps = 3/75 (4%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   +  P  +   +   +R  R  +G+S  +L +  GI    + + E G        L 
Sbjct: 1  MSTTESTPLEI---ISAALRRERDRVGLSLTELAKRAGIAKSTLSQLESGAGNPSVETLW 57

Query: 61 HISEVLESPISFFFD 75
           ++  L  P S   D
Sbjct: 58 ALAVALGVPFSRLVD 72


>gi|159043954|ref|YP_001532748.1| transcriptional regulator [Dinoroseobacter shibae DFL 12]
 gi|157911714|gb|ABV93147.1| transcriptional regulator [Dinoroseobacter shibae DFL 12]
          Length = 431

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/79 (24%), Positives = 30/79 (37%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P     G RIR RR  L + Q  L   +GI+   +   E    R+G   L  +++ L   
Sbjct: 2  PQSALTGSRIRERRQSLRIKQADLARQVGISASYLNLIEHNRRRIGGKVLVKLAQALRVD 61

Query: 70 ISFFFDVSPTVCSDISSEE 88
          I+     +     +   E 
Sbjct: 62 ITILTQGAEETLLEGLREA 80


>gi|28415739|gb|AAO40754.1| transcriptional regulator PlcR [Bacillus cereus]
          Length = 285

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSGIKKIRVLRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|37650618|emb|CAE46900.1| transcriptional regulator [Bacillus thuringiensis]
          Length = 285

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R + G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGIEIKKIRAMRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|293374855|ref|ZP_06621157.1| DNA-binding protein [Turicibacter sanguinis PC909]
 gi|325840161|ref|ZP_08166969.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
 gi|292646524|gb|EFF64532.1| DNA-binding protein [Turicibacter sanguinis PC909]
 gi|325490400|gb|EGC92723.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
          Length = 356

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 30/61 (49%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++N+GK I   R    ++QE+L   +G++   V K+E   +    + L  I+    + I
Sbjct: 1  MNLNIGKVIYELRKKAKVTQEQLANAVGVSVPAVSKWENNTSYPDITLLPAIARYFNTSI 60

Query: 71 S 71
           
Sbjct: 61 D 61


>gi|238922027|ref|YP_002935541.1| hypothetical protein EUBELI_20262 [Eubacterium eligens ATCC 27750]
 gi|238873699|gb|ACR73407.1| Hypothetical protein EUBELI_20262 [Eubacterium eligens ATCC 27750]
          Length = 135

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 43/92 (46%), Gaps = 2/92 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPIS 71
           + +G+R++ +R    +S E + + LG++   V +YE   + ++  S  + +  VL +  +
Sbjct: 1   MELGQRLKAKRKEQKISAEYMAKELGVSVSTVYRYEDSSIVKIPVSTFEKMCNVLGTTPA 60

Query: 72  FFFDVSPTVCSDISSEENNVM-DFISTPDGLQ 102
                 P +  D S + N +   F    + ++
Sbjct: 61  EMMGNVPEMSHDKSDDTNKLPGTFEDPKEAME 92


>gi|228986400|ref|ZP_04146536.1| hypothetical protein bthur0001_30820 [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
 gi|228773221|gb|EEM21651.1| hypothetical protein bthur0001_30820 [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
          Length = 374

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I++ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I 
Sbjct: 4  IHIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNVSID 62


>gi|227873856|ref|ZP_03992078.1| helix-turn-helix motif protein [Oribacterium sinus F0268]
 gi|227840282|gb|EEJ50690.1| helix-turn-helix motif protein [Oribacterium sinus F0268]
          Length = 331

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/93 (21%), Positives = 35/93 (37%), Gaps = 5/93 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +I   R   G SQE L E L ++ Q + K+E   +    +++  +SEV      +     
Sbjct: 6   KIIELRKKNGWSQEDLAEKLDVSRQSISKWEGAQSIPDMNKILKLSEVFSVSTDYLLKDE 65

Query: 78  PTVCSDISSEENNVMDFISTPD---GLQLNRYF 107
             +  D   E   V    S  +    ++    F
Sbjct: 66  IEL--DSPGEAPKVDTESSLKEVSVSMEEANAF 96


>gi|310819908|ref|YP_003952266.1| phage-like DNA-binding protein [Stigmatella aurantiaca DW4/3-1]
 gi|309392980|gb|ADO70439.1| Phage-like DNA-binding protein [Stigmatella aurantiaca DW4/3-1]
          Length = 401

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 29/60 (48%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G R+   R+  G+    L E + I+   +  YEKG +   A  L+ + + L+ P  +F
Sbjct: 8  FIGSRLVEARLERGIPVRALAERVEISVPAIYGYEKGASSPRADVLRRLCDALDVPERYF 67


>gi|304560689|gb|ADM43352.1| P22 repressor protein c2 [Edwardsiella tarda FL6-60]
          Length = 216

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 30/67 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RI  RR  L +SQ  L + +G++   + ++E+         L +++E L+    +  +
Sbjct: 7  GYRIHKRRKELKLSQVSLSKAVGVSNVAISQWERDETSPRGDALLNLAEALQCSAEYLVN 66

Query: 76 VSPTVCS 82
                +
Sbjct: 67 GGDVDHN 73


>gi|291537564|emb|CBL10676.1| Helix-turn-helix [Roseburia intestinalis M50/1]
 gi|291560441|emb|CBL39241.1| Helix-turn-helix [butyrate-producing bacterium SSC/2]
          Length = 209

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R++ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 8  KLIGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ +  
Sbjct: 68 WLKGETDEYETDITDKRE 85


>gi|239502087|ref|ZP_04661397.1| hypothetical protein AbauAB_07212 [Acinetobacter baumannii AB900]
          Length = 356

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 19 IRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R+ R + GMSQ +L + +G IT   + K EKG  +       +I++ L  P  FF
Sbjct: 9  LRIARDLRGMSQTELVQKMGNITQAALSKIEKGDIKPSDETKFNIAKTLNFPERFF 64


>gi|254441108|ref|ZP_05054601.1| Helix-turn-helix domain protein [Octadecabacter antarcticus 307]
 gi|198251186|gb|EDY75501.1| Helix-turn-helix domain protein [Octadecabacter antarcticus 307]
          Length = 427

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/119 (21%), Positives = 49/119 (41%), Gaps = 11/119 (9%)

Query: 12  DINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           D  + G R+R RR+ LG+ Q  + +  GI+   +   E    R+G   L+ ++ VLE  +
Sbjct: 3   DRIITGTRVRNRRIDLGLRQVNVAKATGISGSYLNLIEHNRRRIGGKLLRDLARVLEIDV 62

Query: 71  SFFFD-----VSPTVCSDISSEENNVMDFISTPDGLQLNRYFI--QIDDVKVRQKIIEL 122
           +   D     +   +    ++     ++ + T     L   F          R++I +L
Sbjct: 63  ALLGDEVGDAILGPLKEAAAAFPGASVEDLRTK---DLVERFPGWAALIAAQRRRITQL 118


>gi|168998508|ref|YP_001687776.1| putative regulatory protein [Staphylococcus aureus]
          Length = 113

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 26/59 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I+ +R + G SQE+L   L ++ Q V K+E   N      L  +S++    +       
Sbjct: 7  IKEQRELKGWSQEELANILKVSRQSVSKWESAKNYPSLDILIAMSDLFGISLEHLIKGD 65


>gi|28209943|ref|NP_780887.1| transcriptional regulator [Clostridium tetani E88]
 gi|28202378|gb|AAO34824.1| predicted transcriptional regulator [Clostridium tetani E88]
          Length = 219

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 36/72 (50%), Gaps = 3/72 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES---PIS 71
          VG+ I+  R+   MSQ++LG+ +G++   + + E G   +  + +  I ++L      I+
Sbjct: 4  VGRNIKTYRLEANMSQKQLGKKIGVSENFINEIETGKRIINENLIDRIGKILNKDLNDIT 63

Query: 72 FFFDVSPTVCSD 83
           F++       +
Sbjct: 64 MFYEDMKDEKEN 75


>gi|32470379|ref|NP_863294.1| hypothetical protein MWP024 [Staphylococcus aureus]
 gi|49398102|ref|YP_031701.1| putative regulatory protein [Staphylococcus aureus subsp. aureus
          MSSA476]
 gi|253730993|ref|ZP_04865158.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          USA300_TCH959]
 gi|297208875|ref|ZP_06925281.1| probable DNA-binding protein [Staphylococcus aureus subsp. aureus
          ATCC 51811]
 gi|300913080|ref|ZP_07130516.1| probable DNA-binding protein [Staphylococcus aureus subsp. aureus
          TCH70]
 gi|21205830|dbj|BAB96521.1| truncated conserved hypothetical protein [Staphylococcus aureus]
 gi|49168433|emb|CAG43234.1| putative regulatory protein [Staphylococcus aureus subsp. aureus
          MSSA476]
 gi|253725270|gb|EES93999.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          USA300_TCH959]
 gi|270055309|gb|ACZ58802.1| hypothetical protein SAP032A_013 [Staphylococcus aureus]
 gi|270055397|gb|ACZ58890.1| hypothetical protein SAP037A_010 [Staphylococcus aureus]
 gi|270269036|gb|ACZ66028.1| hypothetical protein SAP111A_016 [Staphylococcus aureus]
 gi|270269153|gb|ACZ66145.1| hypothetical protein SAP043A_012 [Staphylococcus aureus]
 gi|270299957|gb|ACZ68763.1| hypothetical protein SAP072A_021 [Staphylococcus aureus]
 gi|281334960|gb|ADA62044.1| hypothetical protein SAP053A_001 [Staphylococcus aureus]
 gi|296886493|gb|EFH25420.1| probable DNA-binding protein [Staphylococcus aureus subsp. aureus
          ATCC 51811]
 gi|300885633|gb|EFK80842.1| probable DNA-binding protein [Staphylococcus aureus subsp. aureus
          TCH70]
 gi|302334349|gb|ADL24541.1| putative bacteriophage CI repressor [Staphylococcus aureus subsp.
          aureus JKD6159]
 gi|304388021|gb|ADM29122.1| Transcriptional regulator, Cro/CI family [Staphylococcus aureus]
          Length = 113

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 26/59 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I+ +R + G SQE+L   L ++ Q V K+E   N      L  +S++    +       
Sbjct: 7  IKEQRELKGWSQEELANILKVSRQSVSKWESAKNYPSLDILIAMSDLFGISLEHLIKGD 65


>gi|163939160|ref|YP_001644044.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|163861357|gb|ABY42416.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
          Length = 71

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKAFQTTIEHVF 60


>gi|83859650|ref|ZP_00953170.1| probable transcriptional regulator [Oceanicaulis alexandrii
          HTCC2633]
 gi|83852009|gb|EAP89863.1| probable transcriptional regulator [Oceanicaulis alexandrii
          HTCC2633]
          Length = 66

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 22/61 (36%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+  R   G SQ  L + L ++ Q V   E G           I+ V   PI   FD   
Sbjct: 5  IKELRADRGWSQAALADKLDVSRQTVISIENGKYDPSLPLAFRIARVFGLPIETIFDDEN 64

Query: 79 T 79
           
Sbjct: 65 A 65


>gi|289579505|ref|YP_003478132.1| XRE family transcriptional regulator [Thermoanaerobacter italicus
          Ab9]
 gi|289529218|gb|ADD03570.1| transcriptional regulator, XRE family [Thermoanaerobacter
          italicus Ab9]
          Length = 319

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 34/71 (47%), Gaps = 1/71 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I++G +I+  R+   +SQ +L     +    + + E G       +L +I+E LE P+
Sbjct: 1  MNISIGTKIKSLRLQKKLSQSELCGNF-MNRVVLSRIENGKALPSLEQLIYIAEKLEVPV 59

Query: 71 SFFFDVSPTVC 81
           +FF       
Sbjct: 60 GYFFSDLKDTS 70


>gi|255103192|ref|ZP_05332169.1| putative prophage LambdaCh01, repressor protein [Clostridium
          difficile QCD-63q42]
          Length = 103

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 32/73 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R   G S +++GE LG+ +  +Q YE    ++    L  +S +    I +   +
Sbjct: 2  NRLRELRKEKGYSTQQVGELLGVHYVTIQNYETNRRKIDNETLIKLSNIYNVSIDYILCL 61

Query: 77 SPTVCSDISSEEN 89
          +    +    EE 
Sbjct: 62 TDNRENIQLEEEE 74


>gi|218695133|ref|YP_002402800.1| transcriptional repressor DicA [Escherichia coli 55989]
 gi|253773470|ref|YP_003036301.1| transcriptional repressor DicA [Escherichia coli
           'BL21-Gold(DE3)pLysS AG']
 gi|254161633|ref|YP_003044741.1| transcriptional repressor DicA [Escherichia coli B str. REL606]
 gi|297519572|ref|ZP_06937958.1| transcriptional repressor DicA [Escherichia coli OP50]
 gi|301018731|ref|ZP_07183033.1| transcriptional repressor DicA [Escherichia coli MS 69-1]
 gi|331668029|ref|ZP_08368884.1| HTH-type transcriptional regulator DicA (Repressor protein of
           divisioninhibition protein dicA) [Escherichia coli
           TA271]
 gi|218351865|emb|CAU97588.1| HTH-type transcriptional regulator dicA (Repressor protein of
           division inhibition gene dicA) of prophage [Escherichia
           coli 55989]
 gi|242377304|emb|CAQ32048.1| ybl80 [Escherichia coli BL21(DE3)]
 gi|253324514|gb|ACT29116.1| transcriptional regulator, XRE family [Escherichia coli
           'BL21-Gold(DE3)pLysS AG']
 gi|253973534|gb|ACT39205.1| prophage CP-9330 DicA-like protein [Escherichia coli B str. REL606]
 gi|253977729|gb|ACT43399.1| prophage CP-9330 DicA-like protein [Escherichia coli BL21(DE3)]
 gi|300399570|gb|EFJ83108.1| transcriptional repressor DicA [Escherichia coli MS 69-1]
 gi|312946171|gb|ADR26998.1| transcriptional repressor DicA [Escherichia coli O83:H1 str. NRG
           857C]
 gi|323947994|gb|EGB43988.1| helix-turn-helix protein [Escherichia coli H120]
 gi|331064771|gb|EGI36675.1| HTH-type transcriptional regulator DicA (Repressor protein of
           divisioninhibition protein dicA) [Escherichia coli
           TA271]
          Length = 135

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/113 (15%), Positives = 48/113 (42%), Gaps = 3/113 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+R+  RR  L ++Q +     G+    + ++E+   +    RL  +++ L+   ++
Sbjct: 4   RTLGQRVLARRKELRLTQREAARLAGVAHVTISQWERDETQPVGKRLFALADALKCSPTW 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
                       + E +   +   TP+  +L   F  +   + ++ ++  +R+
Sbjct: 64  LMFGDEDKAPVPAQELHVETEL--TPNHKELIELFDALPSSE-QEALLSEMRA 113


>gi|220904000|ref|YP_002479312.1| putative phage repressor [Desulfovibrio desulfuricans subsp.
          desulfuricans str. ATCC 27774]
 gi|219868299|gb|ACL48634.1| putative phage repressor [Desulfovibrio desulfuricans subsp.
          desulfuricans str. ATCC 27774]
          Length = 225

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 29/66 (43%), Gaps = 1/66 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R RR  LGM ++ +   +G++   +QKYE G           +++ L+  + +    
Sbjct: 15 QRLRQRREELGMHKQDMAARVGVSLTTIQKYENG-QMPKGEYAVRLADTLDCSLDWLLAG 73

Query: 77 SPTVCS 82
                
Sbjct: 74 KGAADG 79


>gi|146318119|ref|YP_001197831.1| transcriptional regulator [Streptococcus suis 05ZYH33]
 gi|146320301|ref|YP_001200012.1| transcriptional regulator [Streptococcus suis 98HAH33]
 gi|253753209|ref|YP_003026349.1| DNA-binding protein [Streptococcus suis P1/7]
 gi|253755032|ref|YP_003028172.1| DNA-binding protein [Streptococcus suis BM407]
 gi|145688925|gb|ABP89431.1| transcriptional regulator [Streptococcus suis 05ZYH33]
 gi|145691107|gb|ABP91612.1| transcriptional regulator [Streptococcus suis 98HAH33]
 gi|251817496|emb|CAZ55238.1| putative DNA-binding protein [Streptococcus suis BM407]
 gi|251819454|emb|CAR44956.1| putative DNA-binding protein [Streptococcus suis P1/7]
 gi|292557878|gb|ADE30879.1| transcriptional regulator [Streptococcus suis GZ1]
 gi|319757590|gb|ADV69532.1| transcriptional regulator [Streptococcus suis JS14]
          Length = 384

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/135 (17%), Positives = 51/135 (37%), Gaps = 17/135 (12%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R++ G+++  L   L +T Q + ++E GV          ++   +  + +F  
Sbjct: 4   GSRLEELRLLNGLTRADLARELEVTEQAIWQFETGVTLPKMKNKIAMARFFQVEVDYFDA 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDG-------------LQLNRYFIQIDDVKVRQKIIEL 122
           V       +S       D  +  +              +     F+ I +    Q I +L
Sbjct: 64  VDKNGSFSLSRIAFRNADLEAKKNIHIQMVYLEKMNQMIDYLENFVSIPN----QIIYQL 119

Query: 123 VRSIVSSEKKYRTIE 137
           V SI    +++ ++E
Sbjct: 120 VDSIEQKLQQHESLE 134


>gi|21219711|ref|NP_625490.1| regulatory protein [Streptomyces coelicolor A3(2)]
 gi|6468452|emb|CAB61612.1| putative regulatory protein [Streptomyces coelicolor A3(2)]
          Length = 191

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 29/72 (40%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           P+ V   VG R+R  R    ++   L E  GI+   + + E G+ R     L  I+   
Sbjct: 3  TPDDVLAGVGPRLRQVRKEREVTLAALSEATGISVSTLSRLESGLRRPSLELLLPIARAH 62

Query: 67 ESPISFFFDVSP 78
          + P+       P
Sbjct: 63 QVPLDELVGAPP 74


>gi|322378022|ref|ZP_08052509.1| transcriptional regulator [Streptococcus sp. M334]
 gi|321281004|gb|EFX58017.1| transcriptional regulator [Streptococcus sp. M334]
          Length = 305

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/65 (33%), Positives = 38/65 (58%), Gaps = 1/65 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ +GKRIR  R   G+S+E   G+   +T +Q+ + E G N    ++L +I+++L  PI
Sbjct: 8  NLEIGKRIRTLRTEKGLSREAFCGDEKELTVRQLGRIETGNNLPSLAKLDYIAKILGVPI 67

Query: 71 SFFFD 75
          S   D
Sbjct: 68 SQLID 72


>gi|260597879|ref|YP_003210450.1| hypothetical protein CTU_20870 [Cronobacter turicensis z3032]
 gi|260217056|emb|CBA30782.1| hypothetical protein CTU_20870 [Cronobacter turicensis z3032]
          Length = 191

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 34/67 (50%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
            I + ++  +G+RIR+ R   G S  +L E  G++   + K E+G +   A+ L  +S 
Sbjct: 2  NNIIDTLNQRIGERIRVERETRGWSLSELAERAGVSRAMIHKIERGESSPTATLLGRLSG 61

Query: 65 VLESPIS 71
           L   +S
Sbjct: 62 ALGLSMS 68


>gi|257074512|ref|YP_003162909.1| transcriptional regulator, XRE family [Candidatus Accumulibacter
           phosphatis clade IIA str. UW-1]
 gi|257048733|gb|ACV37918.1| transcriptional regulator, XRE family [Candidatus Accumulibacter
           phosphatis clade IIA str. UW-1]
          Length = 108

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/88 (22%), Positives = 40/88 (45%), Gaps = 1/88 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
           +G+++R  R   G++ E+  E +G +   V + E K   R  A R+  +++VL     F 
Sbjct: 4   LGEKVRALRKKAGLTLEQFAEQIGASKSSVWELENKEKARPSADRIHEVAKVLGVTPEFL 63

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
            +      S   ++E     + S  +G+
Sbjct: 64  MNDDVAEPSIDVADEAFFRKYQSLDNGV 91


>gi|258517274|ref|YP_003193496.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257780979|gb|ACV64873.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
          Length = 170

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 32/60 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG R++  R  LG+SQ+  GECLGI+ + + + EK         ++H+     +  S+
Sbjct: 1  MYVGVRVQKLRKHLGLSQKDFGECLGISQKHISQIEKDTREPSEQLIKHLCLRYNTSESW 60


>gi|229056996|ref|ZP_04196390.1| Helix-turn-helix repressor protein [Bacillus cereus AH603]
 gi|228720273|gb|EEL71849.1| Helix-turn-helix repressor protein [Bacillus cereus AH603]
          Length = 71

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKAFQTTIEHVF 60


>gi|326781392|ref|ZP_08240657.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
 gi|326661725|gb|EGE46571.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
          Length = 203

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 32/69 (46%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  V KRIR  R+  G S E+L     ++   + + E G  R+   +L  ++  L++ +
Sbjct: 8  LDSLVRKRIRALRVAQGWSLEELAARAKVSQSTLSRIENGRRRLALDQLVTLARALDTSL 67

Query: 71 SFFFDVSPT 79
              + +  
Sbjct: 68 DQLVETASD 76


>gi|291544051|emb|CBL17160.1| Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Ruminococcus
           sp. 18P13]
          Length = 770

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/116 (14%), Positives = 45/116 (38%), Gaps = 6/116 (5%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
            + + +   V +RIR  R  +G+S E++ +   ++ ++ +  E G +    + +   ++ 
Sbjct: 4   NMDHAI-KEVAERIRAVREDVGLSVEEMAKRTDVSVEEYKALEAGQSDFSFTFIYKCAKA 62

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
               I+   +      +  +         I   +G      + ++   + R KI E
Sbjct: 63  CGVEITDVMEGESPKVTSYTVTRAGKGLPIVRREGF----AYYRLA-PQFRHKISE 113


>gi|239617008|ref|YP_002940330.1| transcriptional regulator, XRE family [Kosmotoga olearia TBF
          19.5.1]
 gi|239505839|gb|ACR79326.1| transcriptional regulator, XRE family [Kosmotoga olearia TBF
          19.5.1]
          Length = 69

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 1/62 (1%)

Query: 19 IRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I+  R+  G ++QE+L   +G+T Q +   EKG           I++VL   +   F++ 
Sbjct: 5  IKKVRITKGEITQEELARRVGVTRQTIIYIEKGKFNPSVKLALKIAKVLGCSVEELFELE 64

Query: 78 PT 79
            
Sbjct: 65 EG 66


>gi|52081992|ref|YP_080783.1| transcriptional regulator Slr [Bacillus licheniformis ATCC 14580]
 gi|52787379|ref|YP_093208.1| Slr [Bacillus licheniformis ATCC 14580]
 gi|319647856|ref|ZP_08002074.1| slr protein [Bacillus sp. BT1B_CT2]
 gi|52005203|gb|AAU25145.1| transcriptional regulator Slr [Bacillus licheniformis ATCC 14580]
 gi|52349881|gb|AAU42515.1| Slr [Bacillus licheniformis ATCC 14580]
 gi|317390197|gb|EFV71006.1| slr protein [Bacillus sp. BT1B_CT2]
          Length = 152

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+ IR+ R   G S  +L +  G++   + K E+GV+R      L+ IS  L+  +   
Sbjct: 2  IGRVIRMYRKRKGYSINQLADIAGVSKSYLSKIERGVHRNPSVEFLKKISRALKVELKEL 61

Query: 74 FDVSPTVCSDISSEEN 89
          FD    +      E+ 
Sbjct: 62 FDTEVILYRRTEQEDE 77


>gi|88799578|ref|ZP_01115154.1| transcriptional regulator, Cro/CI family protein [Reinekea sp.
           MED297]
 gi|88777663|gb|EAR08862.1| transcriptional regulator, Cro/CI family protein [Reinekea sp.
           MED297]
          Length = 181

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 26/108 (24%), Positives = 47/108 (43%), Gaps = 14/108 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +NVGKR++  R   G+SQ +L + +G+T   +   EK       S LQ +   +   +  
Sbjct: 1   MNVGKRLQEVRKKAGISQRELAKRVGVTNSTISMIEKNNVSPSVSSLQKVLSGMSMTLLE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           FF+      +DI   + N  D             F  +   +VR++++
Sbjct: 61  FFEAED---NDIYVPQINYTD-----------DDFQDVSSSQVRRRLL 94


>gi|295108102|emb|CBL22055.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 174

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 32/60 (53%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + N+ K +   R    +SQE+  E +G+T Q V ++E GV+    + L  ISE  + P+ 
Sbjct: 40 NQNIAKAVLKIRQDNKLSQEQFAEMVGVTRQAVSRWEMGVSVPNINTLILISEKFDIPVD 99


>gi|239820607|ref|YP_002947792.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
 gi|239805460|gb|ACS22526.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 187

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +++  RM   +S   L +  GI+   + + E+G+       L+ ++  L  P S FF
Sbjct: 6  IGAQVKALRMAADVSGGALAKTSGISASMLSRIERGLVSPSVETLERLANGLGVPASRFF 65


>gi|126669228|ref|ZP_01740140.1| probable transcriptional regulator [Marinobacter sp. ELB17]
 gi|126626309|gb|EAZ96991.1| probable transcriptional regulator [Marinobacter sp. ELB17]
          Length = 237

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 2/83 (2%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           + N V + +G+R++  R+  GMSQ KLG    +T   +   E   ++  +S    ++  
Sbjct: 1  NLQNEVSMALGQRLKEVRVQRGMSQAKLGALADLTQAAIGALESRDSK-HSSMALQLARA 59

Query: 66 LESPISFFFDVS-PTVCSDISSE 87
          L   + +      P    D   E
Sbjct: 60 LHVSVDWLVTGEGPKSVPDADGE 82


>gi|157370727|ref|YP_001478716.1| XRE family transcriptional regulator [Serratia proteamaculans
          568]
 gi|157322491|gb|ABV41588.1| transcriptional regulator, XRE family [Serratia proteamaculans
          568]
          Length = 189

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 23/53 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR  R  LG+S  +L    GI    + + E G        L  ++  L+ P+S
Sbjct: 19 IRRERERLGLSVTELARRAGIAKSTLSQLETGNGNPSLETLWALAMALDVPVS 71


>gi|152986025|ref|YP_001346033.1| putative transcriptional regulator [Pseudomonas aeruginosa PA7]
 gi|150961183|gb|ABR83208.1| probable transcriptional regulator [Pseudomonas aeruginosa PA7]
          Length = 184

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 34/72 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   GM+ + L + +  +   V + E+G++R     L  IS+VL  P ++FF    
Sbjct: 15 VRELRKRKGMTLQALADGIRRSVGFVSQVERGLSRPAVDDLVAISQVLGVPATYFFCSPK 74

Query: 79 TVCSDISSEENN 90
          T  S   +  + 
Sbjct: 75 TQASPWVTRPDE 86


>gi|260888022|ref|ZP_05899285.1| toxin-antitoxin system, antitoxin component, Xre family
          [Selenomonas sputigena ATCC 35185]
 gi|330838504|ref|YP_004413084.1| helix-turn-helix domain protein [Selenomonas sputigena ATCC
          35185]
 gi|260862273|gb|EEX76773.1| toxin-antitoxin system, antitoxin component, Xre family
          [Selenomonas sputigena ATCC 35185]
 gi|329746268|gb|AEB99624.1| helix-turn-helix domain protein [Selenomonas sputigena ATCC
          35185]
          Length = 202

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 26/52 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +++  R    ++Q +L E L I+  Q+ +YE G++      LQ +S   E  
Sbjct: 9  KLKYLRKKANLTQVQLAEMLHISQAQISRYETGLDEPSEDCLQALSSAFEID 60



 Score = 38.3 bits (88), Expect = 0.34,   Method: Composition-based stats.
 Identities = 12/49 (24%), Positives = 22/49 (44%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           +R+R  R   G SQ+   + LGI+   +   E G        +Q + ++
Sbjct: 89  RRLRAIRQYHGKSQKDFAQFLGISQSLISALEIGKATPDLVLIQKLGKM 137


>gi|229000137|ref|ZP_04159707.1| hypothetical protein bmyco0003_46900 [Bacillus mycoides Rock3-17]
 gi|229007658|ref|ZP_04165251.1| hypothetical protein bmyco0002_45370 [Bacillus mycoides Rock1-4]
 gi|228753609|gb|EEM03054.1| hypothetical protein bmyco0002_45370 [Bacillus mycoides Rock1-4]
 gi|228759674|gb|EEM08650.1| hypothetical protein bmyco0003_46900 [Bacillus mycoides Rock3-17]
          Length = 296

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 38/84 (45%), Gaps = 1/84 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  RM+ G++Q++L + +     +V + E G        LQ I+  L  PI  F+
Sbjct: 6  LGAEIKKIRMLRGLTQKQLSDNI-CHQSEVSRIEAGSVYPSMDILQGIAAKLRVPIIHFY 64

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
          +V      +   +  + +  +S  
Sbjct: 65 EVLIYSDIERKKQFKDQIQLLSKK 88


>gi|254831247|ref|ZP_05235902.1| hypothetical protein Lmon1_07812 [Listeria monocytogenes 10403S]
          Length = 158

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 36/92 (39%), Gaps = 3/92 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           KR+   R   G SQ KL + LG +  QV  YE+G        L  I+E       +    
Sbjct: 4   KRLSELRKKKGFSQYKLADELGFSRGQVANYEQGTREPDYQTLLKIAEFFNVSTDYLLGR 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                +D  +     +D  +T + ++    +I
Sbjct: 64  DDNNLADTIAAH---IDSNATEEDIKEILAYI 92


>gi|154505077|ref|ZP_02041815.1| hypothetical protein RUMGNA_02587 [Ruminococcus gnavus ATCC
          29149]
 gi|153794556|gb|EDN76976.1| hypothetical protein RUMGNA_02587 [Ruminococcus gnavus ATCC
          29149]
          Length = 209

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R++ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 8  KLIGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ +  
Sbjct: 68 WLKGETDEYETDITDKRE 85


>gi|241662630|ref|YP_002980990.1| XRE family transcriptional regulator [Ralstonia pickettii 12D]
 gi|240864657|gb|ACS62318.1| transcriptional regulator, XRE family [Ralstonia pickettii 12D]
          Length = 107

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/96 (18%), Positives = 38/96 (39%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            +K   NP+   +GKR+++ R+   ++QE+L     +    V   E+GV       L ++
Sbjct: 9   ASKDKRNPIATAIGKRVKVCRVEAELTQEQLAHEALVDRSYVSSIERGVANPSIETLANL 68

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTP 98
              +   +S  F+             +N    + + 
Sbjct: 69  CYCMGITLSRLFEPLAISLKPTGERRSNAHVPVGSR 104


>gi|73697814|gb|AAZ81513.1| PlcR [Bacillus weihenstephanensis]
 gi|83316468|gb|ABC02408.1| PlcR [Bacillus weihenstephanensis]
          Length = 285

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R + G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRGMRGLTQKQLSDNV-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|47564876|ref|ZP_00235920.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
 gi|228984110|ref|ZP_04144296.1| Transcriptional regulator, Cro/CI [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
 gi|47558249|gb|EAL16573.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
 gi|228775638|gb|EEM24018.1| Transcriptional regulator, Cro/CI [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
          Length = 117

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 42/89 (47%), Gaps = 6/89 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I+  R    ++QE+LG  +G++   +  +EKG    G   L+ I++   +   +  
Sbjct: 2  IGEIIKKLRKEKNITQEQLGAAVGVSKMAISYFEKGKKAPGRETLEKIADFFNTTTDYLL 61

Query: 75 ------DVSPTVCSDISSEENNVMDFIST 97
                +++      ++ E NN++  I T
Sbjct: 62 GRSDDPELTEFESRVVTEEGNNIIKLIET 90


>gi|311895251|dbj|BAJ27659.1| putative transcriptional regulator [Kitasatospora setae KM-6054]
          Length = 111

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 30/74 (40%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+R RR  LG++  +L   LG+    V ++E G      SR+  ++  L  P        
Sbjct: 6  RMRDRRKRLGLTLAQLAVPLGVHEATVGRWEGGAVEPSVSRVVALAAALRVPFEALLKPV 65

Query: 78 PTVCSDISSEENNV 91
          P     + S    V
Sbjct: 66 PASVRRVYSAAEAV 79


>gi|297156604|gb|ADI06316.1| UDP-N-acetylglucosamine transferase [Streptomyces bingchenggensis
          BCW-1]
          Length = 509

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 27/56 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK IR  R   G +Q +L E L  +   V + E+G   +    +  I E L+S I
Sbjct: 9  IGKLIRDARQHRGWTQAQLAEALNTSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|291459407|ref|ZP_06598797.1| DNA-binding protein [Oribacterium sp. oral taxon 078 str. F0262]
 gi|291418006|gb|EFE91725.1| DNA-binding protein [Oribacterium sp. oral taxon 078 str. F0262]
          Length = 173

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 29/63 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++  R    ++QE+L E L ++ + V ++E G N      L  I++  E  I    
Sbjct: 6  IGALLKELRRQRAVTQEQLAEMLNVSRRTVSRWETGSNMPDLDILIEIADYYEIDIRELL 65

Query: 75 DVS 77
          D  
Sbjct: 66 DGE 68


>gi|256394949|ref|YP_003116513.1| XRE family transcriptional regulator [Catenulispora acidiphila
          DSM 44928]
 gi|256361175|gb|ACU74672.1| transcriptional regulator, XRE family [Catenulispora acidiphila
          DSM 44928]
          Length = 193

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 31/79 (39%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  V +RIR  R+  G + + L     ++   + + E G  R+   +L  I+  L + 
Sbjct: 6  DMDALVRRRIRTLRLARGWTLDSLASRCDLSPSNLSRIETGQRRIALDQLVPIARALGTT 65

Query: 70 ISFFFDVSPTVCSDISSEE 88
          +    +        I  E 
Sbjct: 66 LDQLVEPGDDTGVVIRPEP 84


>gi|225377603|ref|ZP_03754824.1| hypothetical protein ROSEINA2194_03253 [Roseburia inulinivorans
          DSM 16841]
 gi|225210579|gb|EEG92933.1| hypothetical protein ROSEINA2194_03253 [Roseburia inulinivorans
          DSM 16841]
          Length = 156

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N+G++I+  R   G SQE+L E L ++ Q + K+E          L  IS+     + 
Sbjct: 12 MNLGEKIKECRKQAGFSQEQLAERLNVSRQAITKWETNKGIPDIVNLIAISDEFGLSLD 70


>gi|167766468|ref|ZP_02438521.1| hypothetical protein CLOSS21_00974 [Clostridium sp. SS2/1]
 gi|167711877|gb|EDS22456.1| hypothetical protein CLOSS21_00974 [Clostridium sp. SS2/1]
          Length = 123

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 35/75 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G+R+R +R    +SQE L E +GI+   V + E G   +       + EVL +  + 
Sbjct: 18 IQLGERVRQKRKDCHLSQETLAEKVGISVNTVSRIEGGQAAISIEIFVKLVEVLGADANE 77

Query: 73 FFDVSPTVCSDISSE 87
              +P    + + +
Sbjct: 78 LLGKNPEGDRNPAHK 92


>gi|73697817|gb|AAZ81515.1| PlcR [Bacillus weihenstephanensis]
          Length = 285

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R + G++Q++L + +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRGMRGLTQKQLSDNV-CHQSEVSRIESGAVYPSMDILQGIAAKLQVPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|323351737|ref|ZP_08087391.1| transcriptional regulator [Streptococcus sanguinis VMC66]
 gi|322122223|gb|EFX93949.1| transcriptional regulator [Streptococcus sanguinis VMC66]
          Length = 136

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + K I + R    +SQEKL E +G++ Q + K+E G +         +++  +  + 
Sbjct: 2  ISKNIAILRKRENISQEKLAEEIGVSRQTIAKWEAGESVPDVIYSSQLADFFDVSLD 58


>gi|227494440|ref|ZP_03924756.1| possible transcriptional regulator [Actinomyces coleocanis DSM
           15436]
 gi|226832174|gb|EEH64557.1| possible transcriptional regulator [Actinomyces coleocanis DSM
           15436]
          Length = 354

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/80 (18%), Positives = 32/80 (40%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R   G++QE+L   LG++ Q + K+E         +L  I ++    +      
Sbjct: 29  ENLQHLRSTRGLTQERLAVLLGVSRQAISKWESDRAYPEMDKLLTICDLFGCTLDELVTG 88

Query: 77  SPTVCSDISSEENNVMDFIS 96
                   + E+  V   +S
Sbjct: 89  DLRTTDADTLEDPLVSQAVS 108


>gi|205371967|ref|ZP_03224785.1| Xre family transcriptional regulator [Bacillus coahuilensis m4-4]
          Length = 69

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 29/54 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          G+RIR  R + G +QE   + LG++   + + E+G     A  +  ++EVL  P
Sbjct: 7  GRRIRAYRKLKGFTQEDFAKELGVSVSVLGEVERGNRMPSAELIHKVTEVLNIP 60


>gi|83853906|gb|ABC47902.1| RstR-like protein [Vibrio phage CTX]
          Length = 114

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/82 (25%), Positives = 43/82 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I+  R+   + QE + + LGIT Q + K+EKG      S+L+ +SE+   P     D +
Sbjct: 5  KIKQCRIEKNLKQEDVAKALGITTQTLLKWEKGDYEPKVSQLKKLSEIYGVPTCELIDDN 64

Query: 78 PTVCSDISSEENNVMDFISTPD 99
           +V S+    +  +++ ++  +
Sbjct: 65 ESVSSEKMRAKLYLLEQLNEEE 86


>gi|163940620|ref|YP_001645504.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
           KBAB4]
 gi|163862817|gb|ABY43876.1| transcriptional regulator, XRE family [Bacillus weihenstephanensis
           KBAB4]
          Length = 422

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/99 (23%), Positives = 42/99 (42%), Gaps = 3/99 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+RIR  RM  G++Q +L   +  +   + + E G  +  +S L+ +S+ L     F
Sbjct: 1   MEIGERIRQVRMHKGLTQGELVSEI-CSITYLSRIESGKIKPSSSFLKQVSKKLGVDCDF 59

Query: 73  FFDVSPTVCSDISSE--ENNVMDFISTPDGLQLNRYFIQ 109
             D +         E       D I T   L L   +++
Sbjct: 60  LIDGNYEEIKLTILEICNKYKKDKIITEAELSLLELYVR 98


>gi|329115906|ref|ZP_08244623.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
 gi|326906311|gb|EGE53225.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
          Length = 135

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 33/71 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R    ++Q+ LG  +G++   + K+EK       S++  ++   +  I +    +
Sbjct: 7  RLKELRKEKKITQQDLGNAIGVSRVTITKWEKEYIEPNISQITDLAIFFDVSIDYLTGKT 66

Query: 78 PTVCSDISSEE 88
              S +++E 
Sbjct: 67 DLDYSKLNAES 77


>gi|269216832|ref|ZP_06160686.1| toxin-antitoxin system, antitoxin component, Xre family [Slackia
          exigua ATCC 700122]
 gi|269129639|gb|EEZ60723.1| toxin-antitoxin system, antitoxin component, Xre family [Slackia
          exigua ATCC 700122]
          Length = 200

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/75 (18%), Positives = 32/75 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I + KR+   R   G+SQE++   + ++ Q V K+E   +      L  ++ +    +  
Sbjct: 3  IEIAKRLYEYRRASGLSQEQVAAKISVSRQAVSKWECAESSPDTDNLIALAMLYGVTVDE 62

Query: 73 FFDVSPTVCSDISSE 87
               P   +  +++
Sbjct: 63 LLFADPEKTAAETTK 77


>gi|311739938|ref|ZP_07713772.1| possible DNA-binding protein [Corynebacterium pseudogenitalium
          ATCC 33035]
 gi|311305011|gb|EFQ81080.1| possible DNA-binding protein [Corynebacterium pseudogenitalium
          ATCC 33035]
          Length = 124

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 33/83 (39%), Gaps = 6/83 (7%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA------SRLQHISEVLESPI 70
          +++R  R   G+SQ+ L E  G++  Q+   E+  N V A      S +  ++  LE P 
Sbjct: 17 QQLRRVRKRRGISQQALAEISGVSRSQISNLERNENGVHAMADPQLSTVYKLALALEIPP 76

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          +        V     ++      
Sbjct: 77 AVLLPAGGDVVEGHLTDSAVAAA 99


>gi|227505314|ref|ZP_03935363.1| HTH_3 family transcriptional regulator [Corynebacterium striatum
          ATCC 6940]
 gi|227198016|gb|EEI78064.1| HTH_3 family transcriptional regulator [Corynebacterium striatum
          ATCC 6940]
          Length = 86

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 4/74 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   KK  +P+      R+RL R+   MS+ +L + +G+  Q +   E+G +        
Sbjct: 1  MSPKKKPSSPIF----NRVRLLRVERDMSRAQLADAVGVNPQSIGALERGDHSPSLDLAF 56

Query: 61 HISEVLESPISFFF 74
           I EV + P+   F
Sbjct: 57 SICEVFDLPVEAVF 70


>gi|126698607|ref|YP_001087504.1| putative transcriptional regulator [Clostridium difficile 630]
 gi|254974574|ref|ZP_05271046.1| putative transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255091964|ref|ZP_05321442.1| putative transcriptional regulator [Clostridium difficile CIP
          107932]
 gi|255100060|ref|ZP_05329037.1| putative transcriptional regulator [Clostridium difficile
          QCD-63q42]
 gi|255305949|ref|ZP_05350121.1| putative transcriptional regulator [Clostridium difficile ATCC
          43255]
 gi|255313699|ref|ZP_05355282.1| putative transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255516381|ref|ZP_05384057.1| putative transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255649481|ref|ZP_05396383.1| putative transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|255655000|ref|ZP_05400409.1| putative transcriptional regulator [Clostridium difficile
          QCD-23m63]
 gi|260682647|ref|YP_003213932.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260686247|ref|YP_003217380.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|296449749|ref|ZP_06891519.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296877934|ref|ZP_06901953.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP07]
 gi|115250044|emb|CAJ67864.1| putative transcriptional regulator, HTH [Clostridium difficile]
 gi|260208810|emb|CBA61711.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260212263|emb|CBE02999.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|296261473|gb|EFH08298.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296431002|gb|EFH16830.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP07]
          Length = 179

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 35/76 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++I+  R    ++QE+L     ++   + + E  +     + L  I E+L + +  
Sbjct: 1  MDIGEKIKRLRTEKQLTQEELANRCELSKGFISQLENNLTSPSIATLIDILEILGTNLRE 60

Query: 73 FFDVSPTVCSDISSEE 88
          FF+         + E+
Sbjct: 61 FFNEIDDERISFTKED 76


>gi|78043854|ref|YP_360727.1| DNA-binding protein [Carboxydothermus hydrogenoformans Z-2901]
 gi|77995969|gb|ABB14868.1| DNA-binding protein [Carboxydothermus hydrogenoformans Z-2901]
          Length = 107

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 29/63 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I+  R    MS+++L + L I++  + KYE        + L+ I++     I +   +
Sbjct: 5  NKIKKLREERKMSRKELADKLQISYWALSKYENNERTPDITLLRKIAQEFGVSIEYLAGL 64

Query: 77 SPT 79
          S  
Sbjct: 65 SDE 67


>gi|117924798|ref|YP_865415.1| phage lambda repressor protein. serine peptidase. MEROPS family
          S24 [Magnetococcus sp. MC-1]
 gi|117608554|gb|ABK44009.1| phage repressor protein, Serine peptidase, MEROPS family S24
          [Magnetococcus sp. MC-1]
          Length = 220

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          RIR  R   G +Q++L + + I+   + K E G +R  + R   I+        + 
Sbjct: 6  RIRTAREYAGFTQKELADRVDISQTAIHKLECGRSR-SSRRTVAIALACGVNPIWL 60


>gi|323358883|ref|YP_004225279.1| transcriptional regulator [Microbacterium testaceum StLB037]
 gi|323275254|dbj|BAJ75399.1| predicted transcriptional regulator [Microbacterium testaceum
          StLB037]
          Length = 474

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 29/74 (39%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RIR  R   G++ + L   +G    Q+   E G      + LQ I+  LE  +  
Sbjct: 4  LTIGRRIRQLRTARGLTLDDLATAVGRAPSQMSMIENGRREAKLTLLQAIARALECKLDQ 63

Query: 73 FFDVSPTVCSDISS 86
            D  P        
Sbjct: 64 ILDAEPLDARSTLE 77


>gi|257452737|ref|ZP_05618036.1| MerR family transcriptional regulator [Fusobacterium sp. 3_1_5R]
 gi|257466598|ref|ZP_05630909.1| MerR family transcriptional regulator [Fusobacterium
          gonidiaformans ATCC 25563]
 gi|315917753|ref|ZP_07913993.1| transcriptional regulator [Fusobacterium gonidiaformans ATCC
          25563]
 gi|317059278|ref|ZP_07923763.1| transcriptional regulator [Fusobacterium sp. 3_1_5R]
 gi|313684954|gb|EFS21789.1| transcriptional regulator [Fusobacterium sp. 3_1_5R]
 gi|313691628|gb|EFS28463.1| transcriptional regulator [Fusobacterium gonidiaformans ATCC
          25563]
          Length = 182

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 11/70 (15%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++I+  R    +S  +L   + ++   + + E+G        L+ I+  L+  +S+
Sbjct: 1  MSIGEKIKKSRNEKSLSLRELAVKVDLSASFLSQIEQGKASPSIENLKKIATALDVRVSY 60

Query: 73 FFDVSPTVCS 82
            +      +
Sbjct: 61 LIEDDEIQKN 70


>gi|256789205|ref|ZP_05527636.1| regulatory protein [Streptomyces lividans TK24]
 gi|289773098|ref|ZP_06532476.1| regulatory protein [Streptomyces lividans TK24]
 gi|289703297|gb|EFD70726.1| regulatory protein [Streptomyces lividans TK24]
          Length = 191

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 29/72 (40%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           P+ V   VG R+R  R    ++   L E  GI+   + + E G+ R     L  I+   
Sbjct: 3  TPDDVLAGVGPRLRQVRKEREVTLAALSEATGISVSTLSRLESGLRRPSLELLLPIARAH 62

Query: 67 ESPISFFFDVSP 78
          + P+       P
Sbjct: 63 QVPLDELVGAPP 74


>gi|253751308|ref|YP_003024449.1| DNA-binding protein [Streptococcus suis SC84]
 gi|251815597|emb|CAZ51181.1| putative DNA-binding protein [Streptococcus suis SC84]
          Length = 384

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/135 (17%), Positives = 51/135 (37%), Gaps = 17/135 (12%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R++ G+++  L   L +T Q + ++E GV          ++   +  + +F  
Sbjct: 4   GSRLEELRLLNGLTRADLARELEVTEQAIWQFETGVTLPKMKNKIAMARFFQVEVDYFDA 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDG-------------LQLNRYFIQIDDVKVRQKIIEL 122
           V       +S       D  +  +              +     F+ I +    Q I +L
Sbjct: 64  VDKNGSFSLSRIAFRNADLEAKKNIHIQMVYLEKMNQMIDYLENFVSIPN----QIIYQL 119

Query: 123 VRSIVSSEKKYRTIE 137
           V SI    +++ ++E
Sbjct: 120 VDSIEQKLQQHESLE 134


>gi|254382948|ref|ZP_04998303.1| transcriptional regulator [Streptomyces sp. Mg1]
 gi|194341848|gb|EDX22814.1| transcriptional regulator [Streptomyces sp. Mg1]
          Length = 411

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/102 (23%), Positives = 39/102 (38%), Gaps = 5/102 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI---SEVLESPIS 71
           +G+R+R +R+ +GM+Q  L   LG T   V K EKG  R+   R   I   +  L    +
Sbjct: 11  IGQRVRRQRLSVGMTQADLAAALGRTQGWVSKLEKG--RIELDRAGLINAVAAALHCHPN 68

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
              +   T     +  + +    +       L   F  I   
Sbjct: 69  TLIERPYTGGGAETKWQVSAASILRELRRYDLAPVFDGIPRP 110


>gi|169342435|ref|ZP_02863498.1| LexA repressor [Clostridium perfringens C str. JGS1495]
 gi|169299434|gb|EDS81499.1| LexA repressor [Clostridium perfringens C str. JGS1495]
          Length = 330

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/129 (19%), Positives = 55/129 (42%), Gaps = 4/129 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            I+  R    +SQ +L E LG+    +  YE+         L  +S+++   I     ++
Sbjct: 12  NIKEFRKKNKLSQAELAEKLGVARTTIGYYERAEVEPNIYTLIQLSKLMNRSIDSLLGLN 71

Query: 78  PTVC--SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR--QKIIELVRSIVSSEKKY 133
            +    +D+++ + +   FI      + N+ F +++  K+R  +   EL R+   +E   
Sbjct: 72  HSTENTNDLNNSDLSKKIFILNKLIEKNNQSFKELESSKLRTERMFNELKRTRNRAENDI 131

Query: 134 RTIEEECMV 142
           +  +E    
Sbjct: 132 KLFQELSKE 140


>gi|59801958|ref|YP_208670.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae FA 1090]
 gi|240014865|ref|ZP_04721778.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae DGI18]
 gi|240017310|ref|ZP_04723850.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae FA6140]
 gi|240081048|ref|ZP_04725591.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae FA19]
 gi|240113258|ref|ZP_04727748.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae MS11]
 gi|240115331|ref|ZP_04729393.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae PID18]
 gi|240118675|ref|ZP_04732737.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae PID1]
 gi|240121954|ref|ZP_04734916.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae PID24-1]
 gi|240124219|ref|ZP_04737175.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae PID332]
 gi|240128889|ref|ZP_04741550.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae SK-93-1035]
 gi|260440172|ref|ZP_05793988.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae DGI2]
 gi|268597160|ref|ZP_06131327.1| conserved hypothetical protein [Neisseria gonorrhoeae FA19]
 gi|268599338|ref|ZP_06133505.1| transcriptional regulator [Neisseria gonorrhoeae MS11]
 gi|268601016|ref|ZP_06135183.1| transcriptional regulator [Neisseria gonorrhoeae PID18]
 gi|268604387|ref|ZP_06138554.1| transcriptional regulator [Neisseria gonorrhoeae PID1]
 gi|268682845|ref|ZP_06149707.1| transcriptional regulator [Neisseria gonorrhoeae PID332]
 gi|268687271|ref|ZP_06154133.1| transcriptional regulator [Neisseria gonorrhoeae SK-93-1035]
 gi|291043464|ref|ZP_06569180.1| conserved hypothetical protein [Neisseria gonorrhoeae DGI2]
 gi|293398766|ref|ZP_06642935.1| phage repressor protein [Neisseria gonorrhoeae F62]
 gi|59718853|gb|AAW90258.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae FA 1090]
 gi|268550948|gb|EEZ45967.1| conserved hypothetical protein [Neisseria gonorrhoeae FA19]
 gi|268583469|gb|EEZ48145.1| transcriptional regulator [Neisseria gonorrhoeae MS11]
 gi|268585147|gb|EEZ49823.1| transcriptional regulator [Neisseria gonorrhoeae PID18]
 gi|268588518|gb|EEZ53194.1| transcriptional regulator [Neisseria gonorrhoeae PID1]
 gi|268623129|gb|EEZ55529.1| transcriptional regulator [Neisseria gonorrhoeae PID332]
 gi|268627555|gb|EEZ59955.1| transcriptional regulator [Neisseria gonorrhoeae SK-93-1035]
 gi|291011927|gb|EFE03916.1| conserved hypothetical protein [Neisseria gonorrhoeae DGI2]
 gi|291610823|gb|EFF39929.1| phage repressor protein [Neisseria gonorrhoeae F62]
          Length = 251

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 17 KRI-RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          KRI   ++  L ++Q KL E +G+T   V  Y  G N + AS     +++L+ P+S F
Sbjct: 18 KRIFNSKKEELKLTQYKLAEAVGVTQSAVNHYLNGTNALNASIASQFAKILQIPVSDF 75


>gi|89896477|ref|YP_519964.1| hypothetical protein DSY3731 [Desulfitobacterium hafniense Y51]
 gi|89335925|dbj|BAE85520.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 373

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/135 (15%), Positives = 51/135 (37%), Gaps = 19/135 (14%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            +R   G++Q++L   +G++   V K+E G +    + L  ++      I      SP +
Sbjct: 17  AKRREKGITQDELAAYIGVSKASVSKWETGQSYPDITFLPLLAAYFNISIDELMSYSPQM 76

Query: 81  CSDISSE--ENNVMDFISTP------DGLQLNRYFIQIDDVKVRQKIIELVR------SI 126
                ++       DF S P      +   L + +           +++LV+       +
Sbjct: 77  ERSDIAKLYTRLAADFASRPFEDVIAECAALIKKYYSCFP-----LLVQLVKLYTNHFML 131

Query: 127 VSSEKKYRTIEEECM 141
             ++++   +  E +
Sbjct: 132 AGTQERQEVLLNETV 146


>gi|86559618|ref|YP_473438.1| LexA repressor [Clostridium perfringens]
 gi|86475890|dbj|BAE79065.1| LexA repressor [Clostridium perfringens]
          Length = 330

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/129 (19%), Positives = 55/129 (42%), Gaps = 4/129 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            I+  R    +SQ +L E LG+    +  YE+         L  +S+++   I     ++
Sbjct: 12  NIKEFRKKNKLSQAELAEKLGVARTTIGYYERAEVEPNIYTLIQLSKLMNRSIDSLLGLN 71

Query: 78  PTVC--SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR--QKIIELVRSIVSSEKKY 133
            +    +D+++ + +   FI      + N+ F +++  K+R  +   EL R+   +E   
Sbjct: 72  HSTENTNDLNNSDLSKKIFILNKLIEKNNQSFKELESSKLRTERMFNELKRTRNRAENDI 131

Query: 134 RTIEEECMV 142
           +  +E    
Sbjct: 132 KLFQELSKE 140


>gi|150015531|ref|YP_001307785.1| XRE family transcriptional regulator [Clostridium beijerinckii
          NCIMB 8052]
 gi|149901996|gb|ABR32829.1| putative transcriptional regulator, XRE family [Clostridium
          beijerinckii NCIMB 8052]
          Length = 436

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ + L +   IT  Q+   E G +      L+++++ L + + +  
Sbjct: 6  LGEKIKRRRKQLNMTLKDLAKD-RITPGQISLVESGRSNPSVDLLEYLADALNTNVEYLM 64

Query: 75 DVSPTVCSDIS 85
          +   +    IS
Sbjct: 65 ESEESQAEKIS 75


>gi|313206573|ref|YP_004045750.1| helix-turn-helix domain protein [Riemerella anatipestifer DSM
          15868]
 gi|312445889|gb|ADQ82244.1| helix-turn-helix domain protein [Riemerella anatipestifer DSM
          15868]
 gi|315023431|gb|EFT36439.1| helix-turn-helix domain protein [Riemerella anatipestifer RA-YM]
 gi|325335979|gb|ADZ12253.1| Helix-turn-helix type 3 [Riemerella anatipestifer RA-GD]
          Length = 122

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/61 (34%), Positives = 32/61 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R   G SQE + + L I+     + E    +V   RL  I+E+LE+ I+ FF
Sbjct: 4  IGVNIRRLRERKGFSQEYVAQELNISQASYARLENENTKVTVERLSKIAEILETDITEFF 63

Query: 75 D 75
          +
Sbjct: 64 N 64


>gi|312142963|ref|YP_003994409.1| helix-turn-helix domain protein [Halanaerobium sp. 'sapolanicus']
 gi|311903614|gb|ADQ14055.1| helix-turn-helix domain protein [Halanaerobium sp. 'sapolanicus']
          Length = 112

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 34/80 (42%), Gaps = 1/80 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KR++  R  +  SQ+++   +G    Q+  YE G  ++  S L   S +    I +F 
Sbjct: 7  IAKRLKAARKEMNYSQQEVANFIGKKRSQISYYETGARKINLSLLNQFSNLYGKSIEYFI 66

Query: 75 -DVSPTVCSDISSEENNVMD 93
           +       +I+    ++  
Sbjct: 67 GEREEEDKLEIAHRSTDIAQ 86


>gi|257064611|ref|YP_003144283.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
 gi|256792264|gb|ACV22934.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
          Length = 141

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 32/62 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+RIR  R   G++Q++L   +G+T   V+ YE G+      +L  +++ +        
Sbjct: 3  VGERIRALRRSAGLTQKELAASIGLTESAVRNYELGLRTPSDDQLAAMADSIGVAPEALM 62

Query: 75 DV 76
          D+
Sbjct: 63 DI 64


>gi|261420641|ref|YP_003254323.1| XRE family transcriptional regulator [Geobacillus sp. Y412MC61]
 gi|319768311|ref|YP_004133812.1| helix-turn-helix domain protein [Geobacillus sp. Y412MC52]
 gi|261377098|gb|ACX79841.1| transcriptional regulator, XRE family [Geobacillus sp. Y412MC61]
 gi|317113177|gb|ADU95669.1| helix-turn-helix domain protein [Geobacillus sp. Y412MC52]
          Length = 135

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/134 (17%), Positives = 55/134 (41%), Gaps = 8/134 (5%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G+ ++  R     +QE+L E L ++  Q+ K+E G        L+ + ++      F 
Sbjct: 3   NLGETLKQLRKQRRWTQEQLAEQLNVSRSQISKWENGSLLPDVQSLEKLCQLFNISADFL 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
                T   ++  E  ++       + + L      + + ++ + +  L + +   ++K+
Sbjct: 63  L-GGETRQRELLREVTDMYGTADVHETV-LAALDYLLHNQEMSEAMYALAK-LPDKKRKH 119

Query: 134 R-----TIEEECMV 142
                 TI +EC  
Sbjct: 120 VETMIMTIVKECSE 133


>gi|198276651|ref|ZP_03209182.1| hypothetical protein BACPLE_02847 [Bacteroides plebeius DSM
          17135]
 gi|198270176|gb|EDY94446.1| hypothetical protein BACPLE_02847 [Bacteroides plebeius DSM
          17135]
          Length = 192

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 37/82 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    +S ++L E  G+T +QV + E+ ++    + L  I+  L   +  F 
Sbjct: 7  IGEKIKSLRTNQEISIQELAERAGLTVEQVSRIEENIDIPSLAPLIKIARALGVRLGTFL 66

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
          D   +    +   +    D I 
Sbjct: 67 DDQTSEAGPVICRKGEADDTIG 88


>gi|206564567|ref|YP_002235330.1| MerR family regulatory protein [Burkholderia cenocepacia J2315]
 gi|198040607|emb|CAR56593.1| MerR family regulatory protein [Burkholderia cenocepacia J2315]
          Length = 192

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/130 (17%), Positives = 47/130 (36%), Gaps = 11/130 (8%)

Query: 1   MVGNKKIPNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           MV   +     D + +G +IR  R  L  + +      GI+   + + E+G+     + L
Sbjct: 1   MVPPTENSRSADAVALGSKIRALRQRLKRTLDDTATAAGISKPFLSQVERGLASPSLTSL 60

Query: 60  QHISEVLESPISFFFDVSPTVCS----------DISSEENNVMDFISTPDGLQLNRYFIQ 109
             I+  L   + +F D      S            +   N      +  +G QL    ++
Sbjct: 61  AGIAHALGVTVQYFVDTPSEERSVCRGDQLRFFGFADSTNLFARLTNVSEGRQLEAILVR 120

Query: 110 IDDVKVRQKI 119
           +   + R ++
Sbjct: 121 MPPGQKRSEV 130


>gi|111221785|ref|YP_712579.1| putative DNA-binding protein [Frankia alni ACN14a]
 gi|111149317|emb|CAJ61003.1| putative DNA-binding protein [Frankia alni ACN14a]
          Length = 500

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 32/84 (38%), Gaps = 6/84 (7%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+R  R    MSQ +L   LGI+   + + E     +    L  I+E       FF
Sbjct: 5  FVGTRLRELREERAMSQVELARLLGISPSYLNQIEHNSRPLTVPVLLRITEAFGVDAGFF 64

Query: 74 FDVSPTVCSDISSEENNVMDFIST 97
                   D++     V + +S 
Sbjct: 65 ------AAHDVTRLIAEVREVLSD 82


>gi|312794244|ref|YP_004027167.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
          kristjanssonii 177R1B]
 gi|312181384|gb|ADQ41554.1| helix-turn-helix domain protein [Caldicellulosiruptor
          kristjanssonii 177R1B]
          Length = 66

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R   G+SQ+KL +   +    +   E G++      L+ ++  LE P+  F 
Sbjct: 2  LGEKIKELRQKKGLSQQKLSKLANVPQSTIWYIENGISSPTLKTLEKLARALEVPVHEFV 61

Query: 75 D 75
          D
Sbjct: 62 D 62


>gi|226949453|ref|YP_002804544.1| putative DNA-binding protein [Clostridium botulinum A2 str.
          Kyoto]
 gi|226843380|gb|ACO86046.1| putative DNA-binding protein [Clostridium botulinum A2 str.
          Kyoto]
          Length = 148

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 38/82 (46%), Gaps = 1/82 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+++   R   G+SQE + E L ++ Q V K+E        ++ + +SE+      +
Sbjct: 1  MSLGEKLLYLRKKAGLSQEDVAEKLSVSRQTVSKWETDQTVPELNKAKLLSELYNVSYDY 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
                 +  D++  E  V + 
Sbjct: 61 LI-GESHISGDVTGIEMIVDEI 81


>gi|212710579|ref|ZP_03318707.1| hypothetical protein PROVALCAL_01642 [Providencia alcalifaciens
          DSM 30120]
 gi|212686816|gb|EEB46344.1| hypothetical protein PROVALCAL_01642 [Providencia alcalifaciens
          DSM 30120]
          Length = 92

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/81 (27%), Positives = 44/81 (54%), Gaps = 3/81 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R+  G+S ++L   + ++ QQV +YE GVN++   +L  I+ +LE  I    
Sbjct: 11 LGNHLRKARVRKGLSGQELATIIQLSQQQVSRYELGVNKLSLDKLIEIAILLEMDIH--- 67

Query: 75 DVSPTVCSDISSEENNVMDFI 95
          +++  +      E+NN  + +
Sbjct: 68 EITTMIARQFEKEKNNSEEVM 88


>gi|209515409|ref|ZP_03264275.1| transcriptional regulator, XRE family [Burkholderia sp. H160]
 gi|209504129|gb|EEA04119.1| transcriptional regulator, XRE family [Burkholderia sp. H160]
          Length = 204

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 38/83 (45%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K+  +P   +VG R+R  R+  G+S  +L    G++   V + E+         L+ + +
Sbjct: 9  KRAADPGHGDVGTRLRALRIAHGLSVNELAMRAGVSVGTVSQVERNKANPSVRILERLRQ 68

Query: 65 VLESPISFFFDVSPTVCSDISSE 87
           LE P++   +    V   ++ +
Sbjct: 69 ALEVPLTALLEEDDAVSDPVTGD 91


>gi|167768271|ref|ZP_02440324.1| hypothetical protein CLOSS21_02827 [Clostridium sp. SS2/1]
 gi|167709795|gb|EDS20374.1| hypothetical protein CLOSS21_02827 [Clostridium sp. SS2/1]
          Length = 84

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          KRI++ R+   MSQE L + +G+T Q +   E G           I + L   +   F
Sbjct: 24 KRIKIARLECDMSQEDLAKTVGVTRQTIGLIEAGNYNPTLKLCLAICKALNKTLDDLF 81


>gi|217958090|ref|YP_002336634.1| helix-turn-helix domain protein [Bacillus cereus AH187]
 gi|217067385|gb|ACJ81635.1| helix-turn-helix domain protein [Bacillus cereus AH187]
 gi|282765843|gb|ADA84966.1| helix-turn-helix domain protein [Bacillus phage 11143]
          Length = 139

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/88 (26%), Positives = 36/88 (40%), Gaps = 2/88 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFFFD 75
           K+++  R   G+SQE+L   L I    +  YE   +R    SRL  I++     + F   
Sbjct: 5   KKLKELREGKGLSQEELALKLNIPRSSITHYENSDDRLPRKSRLLEIADFFNVSVDFLLS 64

Query: 76  VSPTVCSDISSEENNVM-DFISTPDGLQ 102
            S         EE ++  D   T + L 
Sbjct: 65  DSKEEIQLSKKEERDIARDLERTLEQLD 92


>gi|218779200|ref|YP_002430518.1| XRE family transcriptional regulator [Desulfatibacillum
          alkenivorans AK-01]
 gi|218760584|gb|ACL03050.1| transcriptional regulator, XRE family [Desulfatibacillum
          alkenivorans AK-01]
          Length = 196

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 32/78 (41%), Gaps = 1/78 (1%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  N ++       + K + + R    MSQ+ L +  G++   +   E G      S + 
Sbjct: 1  MTKNDEVLQQTKYALAKNVAVGRKAHNMSQQALADASGVSKSTIAAIETGKGEPSLSTIV 60

Query: 61 HISEVLES-PISFFFDVS 77
           I+  L+  P   FFD S
Sbjct: 61 AIACTLQCSPQMLFFDDS 78


>gi|21227029|ref|NP_632951.1| PbsX family transcriptional regulator [Methanosarcina mazei Go1]
 gi|20905349|gb|AAM30623.1| transcriptional regulator, PBSX family [Methanosarcina mazei Go1]
          Length = 67

 Score = 56.0 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R +  ++QE L + +G+T Q +   EKG           ++ +  + I   F
Sbjct: 3  NKIKVYRAMHDLTQENLADRVGVTRQTIHAIEKGKYDPSLDLAFKLARLFNANIEDIF 60


>gi|328477026|gb|EGF47309.1| transcriptional regulator [Lactobacillus rhamnosus MTCC 5462]
          Length = 106

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 44/84 (52%), Gaps = 2/84 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L  S+E+L + +  + QQV ++EKG++     +L  IS+ LE  +    
Sbjct: 3  IGEQIKDRREALAWSKEELAQAVNGSVQQVSRWEKGISYPNIKQLIAISDRLELSLDNLI 62

Query: 75 DVSPTVCSDISSEEN--NVMDFIS 96
             P +   I  ++N     D++ 
Sbjct: 63 QSDPKLQKTIQIDKNAKEASDYLR 86


>gi|313668496|ref|YP_004048780.1| DNA-binding protein [Neisseria lactamica ST-640]
 gi|313005958|emb|CBN87415.1| putative DNA-binding protein [Neisseria lactamica 020-06]
          Length = 110

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/98 (18%), Positives = 44/98 (44%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +P++  VG+ +   R + G++Q +L E L ++   V + E+G   +   RL  ++E+ 
Sbjct: 1   MKSPINQTVGRAMAKWRKVSGLTQAQLAERLNLSLDAVSRLERGNIALTVERLVELAEIF 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
               +       T   D +    +++  +   + + L 
Sbjct: 61  GCETADLLGEGSTRVRDQAVRLESLLGRLDEEERVGLL 98


>gi|293402337|ref|ZP_06646474.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291304184|gb|EFE45436.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 286

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 35/84 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK I   R    ++Q +L E L IT + V K+E G +   +S +  + ++L   ++    
Sbjct: 14 GKFIARCRKEKKLTQAQLAERLSITDRAVSKWETGKSMPDSSIMLELCKLLGITVNELLS 73

Query: 76 VSPTVCSDISSEENNVMDFISTPD 99
                  +  + +  +  +   D
Sbjct: 74 GEKVTMDSLERKADENLIALKRKD 97


>gi|228963418|ref|ZP_04124579.1| Prophage LambdaBa04, DNA-binding protein [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|228796312|gb|EEM43759.1| Prophage LambdaBa04, DNA-binding protein [Bacillus thuringiensis
          serovar sotto str. T04001]
          Length = 117

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 26/56 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+ ++  R    ++QE+LGE L ++  Q+  YE  +       L  IS   +  + 
Sbjct: 8  GQNLKKLRKSKDLTQEQLGEQLNLSRNQINNYENAMFEPSMETLLQISSFFDVSLD 63


>gi|227832086|ref|YP_002833793.1| putative transcriptional regulator, MerR family [Corynebacterium
          aurimucosum ATCC 700975]
 gi|262184059|ref|ZP_06043480.1| putative transcriptional regulator, MerR family protein
          [Corynebacterium aurimucosum ATCC 700975]
 gi|227453102|gb|ACP31855.1| putative transcriptional regulator, MerR family [Corynebacterium
          aurimucosum ATCC 700975]
          Length = 468

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/86 (24%), Positives = 32/86 (37%), Gaps = 6/86 (6%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+R  R    +SQ  L   LG++   V + E  V  +    L  I+E      +FF
Sbjct: 5  YVGSRLRQLRRERDLSQASLAATLGLSASYVNQIEHDVRPLTVPVLLKITEAFGVDATFF 64

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
                   D S     + D +   +
Sbjct: 65 ------SRDDDSRLLAEIQDVVQDQE 84


>gi|160894096|ref|ZP_02074874.1| hypothetical protein CLOL250_01650 [Clostridium sp. L2-50]
 gi|156864129|gb|EDO57560.1| hypothetical protein CLOL250_01650 [Clostridium sp. L2-50]
          Length = 222

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 28/64 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + ++I+  R  L M+Q+     +GI    +  YE GV       L  I++     + + F
Sbjct: 24 ISEKIKELRTDLKMNQKNFSAAIGIRQSTLSSYENGVVTPSNDVLLTIAQKFHVSLDWLF 83

Query: 75 DVSP 78
           +S 
Sbjct: 84 GLSE 87


>gi|21910500|ref|NP_664768.1| hypothetical protein SpyM3_0964 [Streptococcus pyogenes MGAS315]
 gi|21910882|ref|NP_665150.1| hypothetical protein SpyM3_1346 [Streptococcus pyogenes MGAS315]
 gi|28876248|ref|NP_795443.1| hypothetical protein SpyM3_0964 [Streptococcus pyogenes phage
          315.2]
 gi|28876428|ref|NP_795613.1| hypothetical protein SpyM3_1346 [Streptococcus pyogenes phage
          315.5]
 gi|28895430|ref|NP_801780.1| hypothetical protein SPs0518 [Streptococcus pyogenes SSI-1]
 gi|28895801|ref|NP_802151.1| hypothetical protein SPs0889 [Streptococcus pyogenes SSI-1]
 gi|21904699|gb|AAM79571.1| conserved hypothetical protein - phage-associated [Streptococcus
          pyogenes MGAS315]
 gi|21905088|gb|AAM79953.1| conserved hypothetical protein - phage-associated [Streptococcus
          pyogenes MGAS315]
 gi|28810676|dbj|BAC63613.1| hypothetical protein (phage associated) [Streptococcus pyogenes
          SSI-1]
 gi|28811050|dbj|BAC63984.1| hypothetical protein (phage associated) [Streptococcus pyogenes
          SSI-1]
          Length = 104

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 34/67 (50%), Gaps = 1/67 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R   G++Q+ L E + + ++ +Q++E   + +   + Q +++  +  +++    
Sbjct: 2  NRIKELRKEKGLTQQDLAEEIYVHYRTIQRWEN-EHIIALDQAQLLADHFDVSVAYLLGY 60

Query: 77 SPTVCSD 83
          S T   +
Sbjct: 61 SDTTKDN 67


>gi|107100810|ref|ZP_01364728.1| hypothetical protein PaerPA_01001838 [Pseudomonas aeruginosa
          PACS2]
 gi|296390262|ref|ZP_06879737.1| putative transcriptional regulator [Pseudomonas aeruginosa PAb1]
          Length = 185

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 8/84 (9%)

Query: 7  IPNPVDI-----NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +PNP +      +V   +R  R+  G+SQE L     ++ + +   E G   V  S L  
Sbjct: 1  MPNPTERPSVLEHVSGNVRRLRLQAGLSQEALARAASVSRRMLVGIESGDVNVSLSTLDR 60

Query: 62 ISEVLESPISFFFDVSPTVCSDIS 85
          I+  L      F D+     +D S
Sbjct: 61 IAAALGV---LFPDLVQAPATDRS 81


>gi|307129602|ref|YP_003881618.1| MunI regulatory protein [Dickeya dadantii 3937]
 gi|306527131|gb|ADM97061.1| MunI regulatory protein [Dickeya dadantii 3937]
          Length = 89

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 33/75 (44%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M+   K    +    G+R++  R+  G+SQE   +  G+    +   E+GV       + 
Sbjct: 14 MLIGMKNTKDITARFGQRVKTLRLQAGLSQEAFADKCGLDRTYISGIERGVRNPTLEVIG 73

Query: 61 HISEVLESPISFFFD 75
           I++ LE  +   FD
Sbjct: 74 VIADGLEIQLQSLFD 88


>gi|257870115|ref|ZP_05649768.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
          gallinarum EG2]
 gi|257804279|gb|EEV33101.1| cupin/helix-turn-helix domain-containing protein [Enterococcus
          gallinarum EG2]
          Length = 180

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 36/78 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+++R  R+   ++QE+LGE   ++   + + E+ ++         I EVL      
Sbjct: 1  MEIGEKLRNLRVQKNLTQEELGERTDLSKGYISQLERDLSSPSMETFFTILEVLGVTPEE 60

Query: 73 FFDVSPTVCSDISSEENN 90
          FF         +  EE++
Sbjct: 61 FFRQENADHQVVYREEDS 78


>gi|238024352|ref|YP_002908584.1| XRE family transcriptional regulator [Burkholderia glumae BGR1]
 gi|237879017|gb|ACR31349.1| Transcriptional regulator, XRE family with Cupin sensor domain
           [Burkholderia glumae BGR1]
          Length = 204

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 38/89 (42%), Gaps = 6/89 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R+  G+S  +L    G++   V + E+         L+ + + L  P+S   
Sbjct: 19  VGGRLRALRVEQGLSVNELAMRAGVSVGTVSQVERNKANPSVRILERLRQALSVPLSALL 78

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL 103
           +       + ++ +  V DF+   D   L
Sbjct: 79  ED------EGAASDPVVGDFVRKADERPL 101


>gi|296124304|ref|YP_003632082.1| helix-turn-helix domain protein [Planctomyces limnophilus DSM
          3776]
 gi|296016644|gb|ADG69883.1| helix-turn-helix domain protein [Planctomyces limnophilus DSM
          3776]
          Length = 380

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 32/77 (41%), Gaps = 3/77 (3%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
               +  P+      ++R  R++ G++Q++L E  GI+   V   E        +    
Sbjct: 18 SYGTIMTYPISA---NQVRKFRLLAGLTQQQLAEQSGISRTAVTAIEGAKLVPSVAAALA 74

Query: 62 ISEVLESPISFFFDVSP 78
          +S  L + +   FD SP
Sbjct: 75 LSRTLGASVEDLFDSSP 91


>gi|56696154|ref|YP_166510.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
 gi|56677891|gb|AAV94557.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
          Length = 130

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/91 (19%), Positives = 36/91 (39%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R   GM+Q +L   LG+    +  +E  ++   A+RL  ++ +L   I +   
Sbjct: 16  GDRLAAAREASGMTQAQLARRLGVKKATINGWEDDLSEPRANRLSMLAGLLNVSIVWLIT 75

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                   ++  +    D  +    L+  R 
Sbjct: 76  GEGQGGEALNETDETARDMAALLTELRSLRA 106


>gi|85544221|pdb|2B5A|A Chain A, C.Bcli, Control Element Of The Bcli Restriction-
          Modification System
 gi|85544222|pdb|2B5A|B Chain B, C.Bcli, Control Element Of The Bcli Restriction-
          Modification System
 gi|85544223|pdb|2B5A|C Chain C, C.Bcli, Control Element Of The Bcli Restriction-
          Modification System
 gi|85544224|pdb|2B5A|D Chain D, C.Bcli, Control Element Of The Bcli Restriction-
          Modification System
 gi|311977251|gb|ADQ20505.1| C.BclI [Bacillus caldolyticus]
          Length = 77

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 30/64 (46%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +    G+ ++  R   G+SQE+L +  G+    + + E+G   +    +  I   L+ P 
Sbjct: 7  IKRKFGRTLKKIRTQKGVSQEELADLAGLHRTYISEVERGDRNISLINIHKICAALDIPA 66

Query: 71 SFFF 74
          S FF
Sbjct: 67 STFF 70


>gi|325847068|ref|ZP_08169894.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
 gi|325481040|gb|EGC84085.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
          Length = 132

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/76 (17%), Positives = 38/76 (50%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
          ++ G ++R  R    ++Q++L + +G++ + + +YE G ++    ++   ++EVL++   
Sbjct: 1  MSFGTKLRQLRESKNLTQDQLAKLVGVSLKTISRYEMGESKPRYRKVYDKLAEVLDTSHD 60

Query: 72 FFFDVSPTVCSDISSE 87
          +          D   +
Sbjct: 61 YLVTDEDNFILDAREK 76


>gi|169335030|ref|ZP_02862223.1| hypothetical protein ANASTE_01436 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169257768|gb|EDS71734.1| hypothetical protein ANASTE_01436 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 310

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 35/76 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           ++  R I  +SQE+L E L ++ Q V K+E G +     +L  + ++    +      +
Sbjct: 9  NLQNLRKIHNLSQEQLAEKLDVSRQAVSKWENGTSYPEMDKLLILCDIFSLNMDELVKGN 68

Query: 78 PTVCSDISSEENNVMD 93
           ++  +   E+  + +
Sbjct: 69 ISLDDNSFKEDKALYE 84


>gi|170756150|ref|YP_001780099.1| hypothetical protein CLD_0298 [Clostridium botulinum B1 str.
          Okra]
 gi|169121362|gb|ACA45198.1| conserved domain protein [Clostridium botulinum B1 str. Okra]
          Length = 65

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 30/58 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          K++++ R+   MSQE+L + +G+T Q +   E G      +    I +VL   ++  F
Sbjct: 4  KKMKIARIECDMSQEQLADAIGVTRQTIGLIELGKYNPSLNLCIAICKVLNKTLNDLF 61


>gi|170754757|ref|YP_001781905.1| putative DNA-binding protein [Clostridium botulinum B1 str. Okra]
 gi|169119969|gb|ACA43805.1| putative DNA-binding protein [Clostridium botulinum B1 str. Okra]
          Length = 78

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +++  R  LG++QE+LGE +G++ Q +   E G           I++V    I   F F
Sbjct: 3  NKLKQFRENLGLTQEQLGELVGVSRQAINAIETGKFEPSIWLAYDIAKVFHDTIEEVFLF 62

Query: 75 DVSP 78
          + S 
Sbjct: 63 EESE 66


>gi|154252262|ref|YP_001413086.1| XRE family transcriptional regulator [Parvibaculum
          lavamentivorans DS-1]
 gi|154156212|gb|ABS63429.1| transcriptional regulator, XRE family [Parvibaculum
          lavamentivorans DS-1]
          Length = 72

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 24/57 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VG  +R  R+  G++QE+  E  G + Q +   E+G        L  ++  L   
Sbjct: 5  KTVGGNVRRIRLKKGLTQEQFAEISGFSQQYISGLEQGRRNPTVVTLYELATALGVS 61


>gi|324323883|gb|ADY24926.1| putative transcriptional regulator [Bacillus thuringiensis
          serovar finitimus YBT-020]
          Length = 125

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 30/72 (41%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   GK +R  R   G++ ++LG+ LG++   +  +E G        ++ I+E     + 
Sbjct: 3  DNIFGKNLRNLRTQKGLTLKELGQELGVSGNTISGWELGNKEPNMDMIKVIAEFFTVSVD 62

Query: 72 FFFDVSPTVCSD 83
          +          D
Sbjct: 63 YLLQHEVLESED 74


>gi|294633421|ref|ZP_06711980.1| xre family toxin-antitoxin system, antitoxin component
          [Streptomyces sp. e14]
 gi|292831202|gb|EFF89552.1| xre family toxin-antitoxin system, antitoxin component
          [Streptomyces sp. e14]
          Length = 181

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 25/57 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG+R+R  R   G+S  +L    G+    + + E G        L  ++  L  P+S
Sbjct: 7  VGRRLRELRTARGLSLSELARRSGVGKGTLSELESGTRNPTLDTLYALTTALNRPLS 63


>gi|317053257|ref|YP_004119024.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
 gi|316952996|gb|ADU72468.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
          Length = 157

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 36/82 (43%), Gaps = 1/82 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G + R  R+    SQE+L E  G++ + VQ+ E G +R G   L  ++ V    +S    
Sbjct: 4  GNKFREYRLARAWSQEQLAEMAGLSTRTVQRIENG-DRPGLETLSALASVFGVSVSELTG 62

Query: 76 VSPTVCSDISSEENNVMDFIST 97
              +   +     +  + +++
Sbjct: 63 SDKNIDEALDRRITDAHNKVAS 84


>gi|254854276|ref|ZP_05243624.1| phage protein [Listeria monocytogenes FSL R2-503]
 gi|258607668|gb|EEW20276.1| phage protein [Listeria monocytogenes FSL R2-503]
          Length = 83

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR +R  LG SQ+ +   LG        KYE G  ++ A  L  ++++L+  I+ FF
Sbjct: 10 IREKRESLGFSQKDMAIKLGFKNASTYLKYETGEYKIKAEMLPLLAKILKCNIANFF 66


>gi|167758894|ref|ZP_02431021.1| hypothetical protein CLOSCI_01240 [Clostridium scindens ATCC
          35704]
 gi|167663634|gb|EDS07764.1| hypothetical protein CLOSCI_01240 [Clostridium scindens ATCC
          35704]
          Length = 108

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 35/65 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G+RI+  R+ L M+QE+L E + ++   + + E+G  ++    L +I+  L   + +
Sbjct: 4  IALGRRIKEERLKLNMTQERLAEEVNLSTSYIGQIERGERKLTLDSLINITNCLGVTVDY 63

Query: 73 FFDVS 77
              S
Sbjct: 64 LLQES 68


>gi|163853865|ref|YP_001641908.1| helix-turn-helix domain-containing protein [Methylobacterium
           extorquens PA1]
 gi|163665470|gb|ABY32837.1| helix-turn-helix domain protein [Methylobacterium extorquens PA1]
          Length = 209

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 46/113 (40%), Gaps = 14/113 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK I+  R    +S  +L E  G+    + + E+       + +  +S+ L+  I   
Sbjct: 26  QLGKTIQRLRKAYNLSLSELAEQSGVAKSIISQIERNETNPTLATIWRLSQALDVSI--- 82

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                      +S+E   ++  S  D  +L       DD KVR  II  ++++
Sbjct: 83  ------ERVLATSDEEPFIERFSRADTPRLVS-----DDGKVRLAIIGWIKTV 124


>gi|332361883|gb|EGJ39686.1| transcriptional regulator [Streptococcus sanguinis SK355]
          Length = 136

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + K I + R    +SQEKL E +G++ Q + K+E G +         +++  +  + 
Sbjct: 2  ISKNIAILRKRENISQEKLAEEIGVSRQTIAKWEAGESVPDVIYSSQLADFFDVSLD 58


>gi|291562330|emb|CBL41146.1| Helix-turn-helix [butyrate-producing bacterium SS3/4]
          Length = 96

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 38/86 (44%), Gaps = 1/86 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
             GKR+   R   G++QE+L   LG+ + Q V + E G        L  +S +L     
Sbjct: 6  KEFGKRLHDVRTSRGITQEELAVRLGLASKQHVSRMENGERNCSIDLLIELSCILHVSTD 65

Query: 72 FFFDVSPTVCSDISSEENNVMDFIST 97
          +    S     ++ ++  +++  +ST
Sbjct: 66 YLLMGSEPSKEEVKNDLLSIISELST 91


>gi|291517925|emb|CBK73146.1| Predicted transcription factor, homolog of eukaryotic MBF1
          [Butyrivibrio fibrisolvens 16/4]
          Length = 97

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 37/76 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I+  R+  G +Q+++   LG+T + V K+E G +    + ++ IS  L   ++   
Sbjct: 6  IGKLIKNARLSKGYTQKEIANKLGVTDKAVSKWECGKSFPDITMIESISRELGISVNQLV 65

Query: 75 DVSPTVCSDISSEENN 90
           V+     +    E N
Sbjct: 66 GVADNSKEEAVMLEKN 81


>gi|261213196|ref|ZP_05927479.1| putative transcriptional regulator [Vibrio sp. RC341]
 gi|260837614|gb|EEX64308.1| putative transcriptional regulator [Vibrio sp. RC341]
          Length = 105

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 33/61 (54%), Gaps = 4/61 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    +SQ+ LG  +G+       ++ +YEKG +      L+ +++ L  P+S+F
Sbjct: 10 RLKEARKKAKLSQKALGVRIGMDESSASPRMNQYEKGKHTPDVQTLKLLADELGVPLSYF 69

Query: 74 F 74
          F
Sbjct: 70 F 70


>gi|281416428|ref|YP_003347452.1| DNA binding protein [Streptococcus phage Abc2]
 gi|226823079|gb|ACO83206.1| DNA binding protein [Streptococcus phage Abc2]
          Length = 168

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R +  +++ +L E +G+T   +  +E G + +  S  + ++E     I + 
Sbjct: 2  NRLKELRELRKITRVELAEKIGVTKLTILNWEHGTHEIKGSNAKKLAEYFNVSIPYL 58


>gi|239637715|ref|ZP_04678683.1| conserved hypothetical protein [Staphylococcus warneri L37603]
 gi|239596674|gb|EEQ79203.1| conserved hypothetical protein [Staphylococcus warneri L37603]
          Length = 66

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R    MSQ++L   +G++ Q +   E            +I++VL   ++  F
Sbjct: 5  NRVKQYRAHQKMSQQELARRIGVSRQTINMIENDKYNPSLKLCINIAKVLSVTLNDLF 62


>gi|228939741|ref|ZP_04102322.1| Transcriptional regulator [Bacillus thuringiensis serovar berliner
           ATCC 10792]
 gi|228972604|ref|ZP_04133208.1| Transcriptional regulator [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228979211|ref|ZP_04139554.1| Transcriptional regulator [Bacillus thuringiensis Bt407]
 gi|228780568|gb|EEM28792.1| Transcriptional regulator [Bacillus thuringiensis Bt407]
 gi|228787145|gb|EEM35120.1| Transcriptional regulator [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228819973|gb|EEM66017.1| Transcriptional regulator [Bacillus thuringiensis serovar berliner
           ATCC 10792]
 gi|326940335|gb|AEA16231.1| transcriptional regulator [Bacillus thuringiensis serovar chinensis
           CT-43]
          Length = 116

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/92 (18%), Positives = 41/92 (44%), Gaps = 6/92 (6%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
           RI+  R+   M+QE+ G+ + +T   V K+E G        ++ I++    P+++ +  +
Sbjct: 6   RIKQIRIDNKMNQEQFGKEVDLTKGTVSKFENGKAFPSRETIEKIAKRFNVPVNYLYGEN 65

Query: 76  VSPTVCSDISSEENNVMDFIS----TPDGLQL 103
                  D   +   +M+++       + + L
Sbjct: 66  KDDHSSDDKYKKFKEIMEWLEPLPKDKEDMAL 97


>gi|190570733|ref|YP_001975091.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|213019309|ref|ZP_03335116.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|213019398|ref|ZP_03335204.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|190357005|emb|CAQ54398.1| Putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|212994820|gb|EEB55462.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212995418|gb|EEB56059.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 184

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/129 (17%), Positives = 54/129 (41%), Gaps = 6/129 (4%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +   + +++R  R+    + + L +   I +  + +YE+G   +   +L+ ++  L  P
Sbjct: 5   SIRYQIAQKVRSWRLKRKYTLKVLIDKTSINYHTLLRYEQGTCGIPIEKLKILAGALSIP 64

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           I   F     +       EN+  D         L + +IQI + ++R+ +  L +SI + 
Sbjct: 65  IRNLFPKRKVLR------ENSCFDKAKEQAMYNLMQGYIQIGERELRKVVYALTQSIQAE 118

Query: 130 EKKYRTIEE 138
           ++       
Sbjct: 119 KESNIKAAR 127


>gi|167463651|ref|ZP_02328740.1| predicted transcription regulator, containing DNA-binding HTH
          domain [Paenibacillus larvae subsp. larvae BRL-230010]
          Length = 64

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G+SQEKL + LG++ Q +   E G           I +     I + F
Sbjct: 3  NRVRELREERGISQEKLAQILGVSRQSIISIENGRYNPSLILAYQIPKYFNKSIEYVF 60


>gi|110632911|ref|YP_673119.1| XRE family transcriptional regulator [Mesorhizobium sp. BNC1]
 gi|110283895|gb|ABG61954.1| transcriptional regulator, XRE family [Chelativorans sp. BNC1]
          Length = 106

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/106 (18%), Positives = 38/106 (35%), Gaps = 1/106 (0%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPIS 71
           +  G+RI+  R   G + + L +  G +   + + E K   R  A +L  I+  L   + 
Sbjct: 1   MKFGERIKDLRTKKGFTLDHLAQETGSSKSYIWELENKNPPRPSAEKLSAIASALGVTVD 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           + F        +               +  +  R   +I D K R+
Sbjct: 61  YLFGADAQTLGEAEDTAFFRQYSGLPEETRRQIREMARILDTKSRK 106


>gi|307324211|ref|ZP_07603419.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
 gi|306889942|gb|EFN20920.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
          Length = 406

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 31/65 (47%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P   D ++G RIR  R+I   S  +LG    ++  Q+ + E G      S L  ++  L
Sbjct: 1  MPETNDKHIGVRIREFRIIRDFSLAELGRRAHVSTSQLSRVETGEQPASPSVLAAVARAL 60

Query: 67 ESPIS 71
          E  +S
Sbjct: 61 EVTLS 65


>gi|168206392|ref|ZP_02632397.1| LexA repressor [Clostridium perfringens E str. JGS1987]
 gi|170662087|gb|EDT14770.1| LexA repressor [Clostridium perfringens E str. JGS1987]
          Length = 330

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/129 (19%), Positives = 55/129 (42%), Gaps = 4/129 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            I+  R    +SQ +L E LG+    +  YE+         L  +S+++   I     ++
Sbjct: 12  NIKEFRKKNKLSQAELAEKLGVARTTIGYYERAEVEPNIYTLIQLSKLMNRSIDSLLGLN 71

Query: 78  PTVC--SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR--QKIIELVRSIVSSEKKY 133
            +    +D+++ + +   FI      + N+ F +++  K+R  +   EL R+   +E   
Sbjct: 72  HSTENTNDLNNSDLSKKIFILNKLIEKNNQSFKELESSKLRTERMFNELKRTRNRAENDI 131

Query: 134 RTIEEECMV 142
           +  +E    
Sbjct: 132 KLFQELSKE 140


>gi|154497828|ref|ZP_02036206.1| hypothetical protein BACCAP_01806 [Bacteroides capillosus ATCC
          29799]
 gi|150273326|gb|EDN00471.1| hypothetical protein BACCAP_01806 [Bacteroides capillosus ATCC
          29799]
          Length = 122

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 31/61 (50%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++ +G R++  R   G++QE+L E + IT Q +   E+G   +    LQ +  VL     
Sbjct: 8  NVQIGARVKEAREAAGLTQERLAELIDITAQYLSGVERGAVGLSVPVLQRLCSVLLVSSD 67

Query: 72 F 72
          +
Sbjct: 68 Y 68


>gi|9632458|ref|NP_049430.1| hypothetical protein DT1p41 [Streptococcus phage DT1]
 gi|4530178|gb|AAD21918.1| unknown [Streptococcus phage DT1]
          Length = 165

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R +  +++ +L E +G+T   +  +E G + +  S  + ++E     I + 
Sbjct: 2  NRLKELRELRKITRVELAEKIGVTKLTILNWEHGTHEIKGSNAKKLAEYFNVSIPYL 58


>gi|291541151|emb|CBL14262.1| Predicted transcriptional regulators [Roseburia intestinalis
          XB6B4]
          Length = 179

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 22/56 (39%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++  R    +SQ+  G  +GI+   +  YE G        +  I+E     I + 
Sbjct: 18 NLKELRQEHSLSQKDFGASIGISAMAISSYESGTKSPSIDTVCRIAETYHVSIDWL 73


>gi|153954271|ref|YP_001395036.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|146347152|gb|EDK33688.1| Transcriptional regulator [Clostridium kluyveri DSM 555]
          Length = 207

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/117 (18%), Positives = 44/117 (37%), Gaps = 19/117 (16%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF---- 73
           R+R  R    ++Q  +   L +T   + KYE G  +     L+ +S+     I +     
Sbjct: 6   RLRELREENNLTQGAIASILNLTKANISKYELGRLQPNIETLKLLSDHFNVSIDYLIGVT 65

Query: 74  ---------------FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                          F ++    S   +E  +  ++   P+ L  N +F +I+D  +
Sbjct: 66  NIKKVESNYLSRIPIFQITKNHPSLFIAENISGYEYFDKPEELSKNYFFFKIEDNSM 122


>gi|26249039|ref|NP_755079.1| putative repressor protein of prophage [Escherichia coli CFT073]
 gi|331651509|ref|ZP_08352529.1| repressor protein C2 [Escherichia coli M718]
 gi|26109446|gb|AAN81649.1|AE016765_51 Putative repressor protein of prophage [Escherichia coli CFT073]
 gi|331050782|gb|EGI22839.1| repressor protein C2 [Escherichia coli M718]
          Length = 208

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 32/58 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          VG+RI+  R +   SQ++LG+  G++   V  +EK +N  G   L  +++   + I +
Sbjct: 4  VGQRIKALRRVTRTSQKELGKFCGVSDVAVGYWEKDINTPGGEALSKLAKFFNTSIDY 61


>gi|322516069|ref|ZP_08069006.1| XRE family transcriptional regulator [Streptococcus vestibularis
          ATCC 49124]
 gi|322125484|gb|EFX96830.1| XRE family transcriptional regulator [Streptococcus vestibularis
          ATCC 49124]
          Length = 233

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 8/57 (14%), Positives = 30/57 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++R  R    M+Q +L + + ++ + + ++EK    + A++ + ++++    + + 
Sbjct: 28 SKLRKLRKAKNMTQSELAKKIKVSEKTISRWEKDKTLMKANKAKELADLFGVSVGYL 84


>gi|302335133|ref|YP_003800340.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
 gi|301318973|gb|ADK67460.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
          Length = 335

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 26/60 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           ++  R   GM+QE+L   +G++ Q V K+E         +L  I +V +  I       
Sbjct: 6  NLQHLRATRGMTQEQLAMMVGVSRQSVTKWESERAYPEMDKLLKICQVFDCTIDDLVQGD 65


>gi|315500763|ref|YP_004089564.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
 gi|315418775|gb|ADU15413.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
          Length = 68

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 25/55 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VG+ ++  R   G++QE L    G++ Q +   E+G        +  IS+ L   
Sbjct: 2  VGENLKRLRQEKGLTQEVLESRSGLSQQYLSGLERGKRNPTIITVYEISQALGVH 56


>gi|240141318|ref|YP_002965798.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens AM1]
 gi|240011295|gb|ACS42521.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens AM1]
          Length = 209

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 46/113 (40%), Gaps = 14/113 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK I+  R    +S  +L E  G+    + + E+       + +  +S+ L+  I   
Sbjct: 26  QLGKTIQRLRKAYNLSLSELAEQSGVAKSIISQIERNETNPTLTTIWRLSQALDVSI--- 82

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                      +S+E   ++  S  D  +L       DD KVR  II  ++++
Sbjct: 83  ------ERVLATSDEEPFIERFSRADTPRLVS-----DDGKVRLAIIGWIKTV 124


>gi|225874839|ref|YP_002756298.1| DNA-binding protein [Acidobacterium capsulatum ATCC 51196]
 gi|225793286|gb|ACO33376.1| DNA-binding protein [Acidobacterium capsulatum ATCC 51196]
          Length = 148

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/118 (17%), Positives = 50/118 (42%), Gaps = 7/118 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS- 71
           + +G  IR  R+  G+SQ  + +  G+    + + E G        L  I+  L+ P++ 
Sbjct: 34  MKIGMTIRGYRLQKGLSQGDIEKRTGLLRCYLSRVENGHTVPSLDTLAKIAGALDLPLAQ 93

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           FF + S     +     ++ + F++        R +    +   R+ ++ +V+   ++
Sbjct: 94  FFAEDSLGRELNTQKLTDDELRFLTQ------IRRYSSNLNDSDRKLLLAMVKKFAAT 145


>gi|188587172|ref|YP_001918717.1| transcriptional regulator, XRE family [Natranaerobius thermophilus
           JW/NM-WN-LF]
 gi|179351859|gb|ACB86129.1| transcriptional regulator, XRE family [Natranaerobius thermophilus
           JW/NM-WN-LF]
          Length = 192

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 31/131 (23%), Positives = 57/131 (43%), Gaps = 12/131 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ I+  R    +  + + E  GI+   + + E+G  +     L  IS+ LE P+  FF
Sbjct: 15  IGETIKKLRQTKDLKLKDVSEETGISTGLLSQIERGQVQASLGSLWKISKALEVPLGSFF 74

Query: 75  -DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS---SE 130
            +++    S +  E+   +D   +    QL           + +KI  L+ ++ S    E
Sbjct: 75  EELNREKVSVVRKEDRKQLDIPRSNVIYQLL-------SPDMNRKIEMLLVTLKSGEVEE 127

Query: 131 KKYRTIE-EEC 140
            +  T E EEC
Sbjct: 128 HEKVTHEGEEC 138


>gi|296162693|ref|ZP_06845479.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
 gi|295887081|gb|EFG66913.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
          Length = 113

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/73 (17%), Positives = 32/73 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  R+   R   G++Q+ L + +G+   Q+++YE G ++     ++ I+  L      
Sbjct: 1  MSIAARLATLRKQKGLTQQALADAIGLHITQIKRYEAGTSQPSLEAIKKIARTLRVTTDS 60

Query: 73 FFDVSPTVCSDIS 85
                 +  D  
Sbjct: 61 LIFEEEELEPDAD 73


>gi|325677942|ref|ZP_08157584.1| response regulator receiver domain protein [Ruminococcus albus 8]
 gi|324110496|gb|EGC04670.1| response regulator receiver domain protein [Ruminococcus albus 8]
          Length = 196

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 28/57 (49%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +GKRI   R   GMS++   + +G++ Q V ++E G      +    I +VL   I 
Sbjct: 137 IGKRIVRLREESGMSRQDFIKAMGVSAQTVYRWENGERIPSMATYMKIMQVLGVDID 193


>gi|229492212|ref|ZP_04386020.1| putative transcriptional regulator [Rhodococcus erythropolis
          SK121]
 gi|229320838|gb|EEN86651.1| putative transcriptional regulator [Rhodococcus erythropolis
          SK121]
          Length = 292

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 24/56 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G  IR  R   G+S  +L   L ++   +   E G  RV   RL  I  +L  
Sbjct: 8  VLIGASIRQARRHSGLSLRELARRLDVSPATLSAVETGKTRVSVDRLAAIGGILGV 63


>gi|218281525|ref|ZP_03487954.1| hypothetical protein EUBIFOR_00519 [Eubacterium biforme DSM 3989]
 gi|218217314|gb|EEC90852.1| hypothetical protein EUBIFOR_00519 [Eubacterium biforme DSM 3989]
          Length = 255

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I   R   GMSQ++L E + ++ Q V ++E G        L+ +S+V +  I+
Sbjct: 7  ILELRTQRGMSQDELAEKVFVSRQAVSRWENGETVPNTETLKLLSKVFDVSIN 59


>gi|52079830|ref|YP_078621.1| transcriptional regulator [Bacillus licheniformis ATCC 14580]
 gi|52785200|ref|YP_091029.1| YqaE [Bacillus licheniformis ATCC 14580]
 gi|52003041|gb|AAU22983.1| probable transcriptional regulator (phage-related) [Bacillus
           licheniformis ATCC 14580]
 gi|52347702|gb|AAU40336.1| YqaE [Bacillus licheniformis ATCC 14580]
          Length = 122

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/95 (25%), Positives = 40/95 (42%), Gaps = 7/95 (7%)

Query: 13  INVGKRIRLRRMIL-GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +  G R+R  R +   +SQ+KLGE LG+    +  YE+         L  I++  +  I 
Sbjct: 1   MKFGDRLRELRKMRPNLSQKKLGEHLGLAESTISMYEQNRREPEYEILIKIADYFDVSID 60

Query: 72  FFFDVSPTVCSDISSEE------NNVMDFISTPDG 100
           +    +     D   E+      N+   FI+  DG
Sbjct: 61  YLLRGTDPKVQDKIFEDEAKRILNDPKTFIAARDG 95


>gi|319897230|ref|YP_004135425.1| hypothetical protein HIBPF09641 [Haemophilus influenzae F3031]
 gi|317432734|emb|CBY81099.1| Conserved hypothetical protein [Haemophilus influenzae F3031]
          Length = 230

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/83 (15%), Positives = 33/83 (39%), Gaps = 3/83 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R   G++Q++LG+ +G++   +QK E G           ++ VL     +    
Sbjct: 6  NRLKIARKAAGLTQDQLGKLVGVSQNAIQKIEAGG---ETKYTLALASVLGVDPIWLQSG 62

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
                  ++    ++      +
Sbjct: 63 EGKTPEKTTALSTELVTTQRDNE 85


>gi|295705528|ref|YP_003598603.1| helix-turn-helix family protein [Bacillus megaterium DSM 319]
 gi|294803187|gb|ADF40253.1| helix-turn-helix family protein [Bacillus megaterium DSM 319]
          Length = 141

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 39/81 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R    +S+E++ E L ++ Q + K+E   +      L  +S++ E+ I  
Sbjct: 1  MRLGNQLQTLREEQKISEEEVAEQLSVSVQHIHKWENNKSYPDIQHLLKLSDIYETTIDE 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          F     T+ + I+  E    D
Sbjct: 61 FIKKDATLQNRINIREEEKKD 81


>gi|257453157|ref|ZP_05618456.1| MerR family transcriptional regulator [Fusobacterium sp. 3_1_5R]
 gi|317059692|ref|ZP_07924177.1| transcriptional regulator [Fusobacterium sp. 3_1_5R]
 gi|313685368|gb|EFS22203.1| transcriptional regulator [Fusobacterium sp. 3_1_5R]
          Length = 185

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 33/62 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          INVG  IR  R+  G+  +++     I+   + + EKG      + ++ I++VLE P+  
Sbjct: 5  INVGNIIRNIRLSKGLLIKEVAMKCDISSSMLSQIEKGNANPSLNTIKSIAQVLEVPLFK 64

Query: 73 FF 74
          FF
Sbjct: 65 FF 66


>gi|227545279|ref|ZP_03975328.1| transcriptional regulator [Lactobacillus reuteri CF48-3A]
 gi|300908649|ref|ZP_07126112.1| XRE family transcriptional regulator [Lactobacillus reuteri
          SD2112]
 gi|227184748|gb|EEI64819.1| transcriptional regulator [Lactobacillus reuteri CF48-3A]
 gi|300894056|gb|EFK87414.1| XRE family transcriptional regulator [Lactobacillus reuteri
          SD2112]
          Length = 69

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G+SQ KL + +G+  Q +   E            ++++ L + ++  F
Sbjct: 2  NRVKQFRKDQGLSQLKLAQKIGVARQTINLIENNKYNPSLELCINLAKALNTDLNSLF 59


>gi|226303576|ref|YP_002763534.1| TetR family transcriptional regulator [Rhodococcus erythropolis
          PR4]
 gi|226182691|dbj|BAH30795.1| putative TetR family transcriptional regulator [Rhodococcus
          erythropolis PR4]
          Length = 308

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 24/56 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G  IR  R   G+S  +L   L ++   +   E G  RV   RL  I  +L  
Sbjct: 24 VLIGASIRQARRHSGLSLRELARRLDVSPATLSAVETGKTRVSVDRLAAIGGILGV 79


>gi|226322738|ref|ZP_03798256.1| hypothetical protein COPCOM_00510 [Coprococcus comes ATCC 27758]
 gi|225208899|gb|EEG91253.1| hypothetical protein COPCOM_00510 [Coprococcus comes ATCC 27758]
          Length = 106

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 28/64 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + ++I+  R  L M+Q+     +GI    +  YE GV       L  I++     + + F
Sbjct: 24 ISEKIKELRTDLKMNQKNFSAAIGIRQSTLSSYENGVVTPSNDVLLTIAQKFHVSLDWLF 83

Query: 75 DVSP 78
           +S 
Sbjct: 84 GLSE 87


>gi|225387540|ref|ZP_03757304.1| hypothetical protein CLOSTASPAR_01293 [Clostridium asparagiforme
          DSM 15981]
 gi|225046376|gb|EEG56622.1| hypothetical protein CLOSTASPAR_01293 [Clostridium asparagiforme
          DSM 15981]
          Length = 300

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 33/76 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+  R   GMSQE+L   L ++ Q V K+E          L+ IS + +  +    +   
Sbjct: 6  IKTLRKQAGMSQEQLAGRLNVSRQAVTKWETAAGTPDVENLRAISALFQISLDDLLENRS 65

Query: 79 TVCSDISSEENNVMDF 94
           +  +     ++V ++
Sbjct: 66 PIPPEQEFRFHSVTEY 81


>gi|199598993|ref|ZP_03212401.1| putative regulatory protein [Lactobacillus rhamnosus HN001]
 gi|199590101|gb|EDY98199.1| putative regulatory protein [Lactobacillus rhamnosus HN001]
          Length = 106

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 44/84 (52%), Gaps = 2/84 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L  S+E+L + +  + QQV ++EKG++     +L  IS+ LE  +    
Sbjct: 3  IGEQIKDRREALAWSKEELAQAVNGSVQQVSRWEKGISYPNIKQLIAISDRLELSLDNLI 62

Query: 75 DVSPTVCSDISSEEN--NVMDFIS 96
             P +   I  ++N     D++ 
Sbjct: 63 KSDPKLQKTIQIDKNAKEASDYLR 86


>gi|187923443|ref|YP_001895085.1| XRE family transcriptional regulator [Burkholderia phytofirmans
           PsJN]
 gi|187714637|gb|ACD15861.1| transcriptional regulator, XRE family [Burkholderia phytofirmans
           PsJN]
          Length = 191

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 30/136 (22%), Positives = 51/136 (37%), Gaps = 7/136 (5%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV        V I++G +IR  R  L  + +++    GI+   + + E+G      + L 
Sbjct: 1   MVLPLNNKAHVAISIGSKIRALRQRLSRTLDEVATTAGISKPFLSQVERGHATPSITSLV 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI- 119
            I+  L   + +F D      S     E     F  T         F ++ ++ V  K+ 
Sbjct: 61  GIARALGVTVQYFVDTPTEDKSVRRGSELKYFGFDGT------ANLFGRLTNLSVGGKLE 114

Query: 120 IELVRSIVSSEKKYRT 135
           + LVR  V       T
Sbjct: 115 VILVRMPVGQNPSEVT 130


>gi|52081939|ref|YP_080730.1| phage-like protein [Bacillus licheniformis ATCC 14580]
 gi|52005150|gb|AAU25092.1| hypothetical phagelike protein [Bacillus licheniformis ATCC
          14580]
          Length = 212

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 38/76 (50%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          + VG+RIR RR  L MS ++L + L      V +YE   ++ +  + L+ +++ L    +
Sbjct: 1  MTVGERIRSRRKQLNMSVDQLAQKLKKNRATVYRYESNEIDNMPLTVLEPLAKALNVTPA 60

Query: 72 FFFDVSPTVCSDISSE 87
          +      T    +S++
Sbjct: 61 YLMGWESTEPVQLSTK 76


>gi|219667669|ref|YP_002458104.1| XRE family transcriptional regulator [Desulfitobacterium hafniense
           DCB-2]
 gi|219537929|gb|ACL19668.1| transcriptional regulator, XRE family [Desulfitobacterium hafniense
           DCB-2]
          Length = 368

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/135 (15%), Positives = 51/135 (37%), Gaps = 19/135 (14%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            +R   G++Q++L   +G++   V K+E G +    + L  ++      I      SP +
Sbjct: 12  AKRREKGITQDELAAYIGVSKASVSKWETGQSYPDITFLPLLAAYFNISIDELMSYSPQM 71

Query: 81  CSDISSE--ENNVMDFISTP------DGLQLNRYFIQIDDVKVRQKIIELVR------SI 126
                ++       DF S P      +   L + +           +++LV+       +
Sbjct: 72  ERSDIAKLYTRLAADFASRPFEDVIAECAALIKKYYSCFP-----LLVQLVKLYTNHFML 126

Query: 127 VSSEKKYRTIEEECM 141
             ++++   +  E +
Sbjct: 127 AGTQERQEALLNETV 141


>gi|302326335|gb|ADL25536.1| DNA-binding protein [Fibrobacter succinogenes subsp. succinogenes
           S85]
          Length = 106

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 27/59 (45%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           GK IR  R + G +Q  L + LGI+ Q +   E     V       +S++ + P   +F
Sbjct: 46  GKAIRADRGLRGWTQNVLAQKLGISIQNLSAMEHDRRPVSKKMAAKLSQIFDVPPETYF 104


>gi|332855796|ref|ZP_08436047.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
          6013150]
 gi|332870031|ref|ZP_08439007.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
          6013113]
 gi|332727271|gb|EGJ58715.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
          6013150]
 gi|332732531|gb|EGJ63782.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
          6013113]
          Length = 213

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 33/59 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R    +S+ KLG+ +G++   V  +EK VN      L+ + +VL++ I + 
Sbjct: 4  IGLRIQKLRKEKKLSKVKLGDLVGVSDVTVGFWEKDVNEPKYENLEALCQVLDTTIDYL 62


>gi|260768699|ref|ZP_05877633.1| putrescine utilization regulator [Vibrio furnissii CIP 102972]
 gi|260616729|gb|EEX41914.1| putrescine utilization regulator [Vibrio furnissii CIP 102972]
          Length = 184

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 25/60 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I   R    +SQ +L E   IT   +   E        S L  I +V    +S FF
Sbjct: 6  IGQKIAQLRKEHKLSQRELAEKANITHSAISSIENNKVSPSVSSLHKIVKVFNLSLSEFF 65


>gi|257440134|ref|ZP_05615889.1| transcriptional regulator, AraC family [Faecalibacterium
           prausnitzii A2-165]
 gi|257197486|gb|EEU95770.1| transcriptional regulator, AraC family [Faecalibacterium
           prausnitzii A2-165]
          Length = 109

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 27/119 (22%), Positives = 50/119 (42%), Gaps = 21/119 (17%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            ++I +G  I++ R   G +Q+ L E LG+T   +   E+G + +    LQ +  +L   
Sbjct: 6   DINIEIGGNIQVAREQAGYTQDTLSEMLGMTPNHLSAIERGASGISLEALQRLCRLLGI- 64

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVRSI 126
                           ++E          + L L R   +I D   + RQ++ EL+ +I
Sbjct: 65  --------SADRIIFGTDEPE-------AEALALAR---RISDIKPEYRQQVQELLSAI 105


>gi|167755494|ref|ZP_02427621.1| hypothetical protein CLORAM_01008 [Clostridium ramosum DSM 1402]
 gi|237733722|ref|ZP_04564203.1| predicted protein [Mollicutes bacterium D7]
 gi|167704433|gb|EDS19012.1| hypothetical protein CLORAM_01008 [Clostridium ramosum DSM 1402]
 gi|229383320|gb|EEO33411.1| predicted protein [Coprobacillus sp. D7]
          Length = 287

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/80 (18%), Positives = 33/80 (41%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I +  R+   R    +SQE L   LGI+ Q V K+E+         L  ++++    +
Sbjct: 13 MNIEIANRLVRLRKEKNLSQEALANELGISRQAVSKWERAEASPDTDNLILLAKLYGMSL 72

Query: 71 SFFFDVSPTVCSDISSEENN 90
                        ++++ +
Sbjct: 73 DDLLKTDQKEFESGNNQQAS 92


>gi|166091592|ref|YP_001654042.1| putative transcriptional regulator [Bacillus thuringiensis]
 gi|165875369|gb|ABY68524.1| putative transcriptional regulator [Bacillus thuringiensis]
          Length = 130

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/99 (18%), Positives = 36/99 (36%), Gaps = 3/99 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
             G+ +R+ R + G++ ++LG+ LG+    +  +E          LQ IS          
Sbjct: 5   YFGENVRILRTLKGLNMKELGDVLGVASSTISNWENNRKEPSFEMLQKISIYFNVSTDRL 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
            +        +++E+      I       L   +  I D
Sbjct: 65  LNHKIGDSEALTTEDRK---LIVERLAQDLYESYKSIPD 100


>gi|293400467|ref|ZP_06644612.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291305493|gb|EFE46737.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 162

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 30/68 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RI+  R  LG++Q K  + +  T   +  YEKG        +  IS+  +  + +   
Sbjct: 11 GNRIKEIRQSLGLTQVKFAKIINCTQATLSSYEKGSIIPSLETMIKISKECQISLDWLCG 70

Query: 76 VSPTVCSD 83
          +S    SD
Sbjct: 71 LSDVKDSD 78


>gi|262037710|ref|ZP_06011152.1| transcription regulator [Leptotrichia goodfellowii F0264]
 gi|261748182|gb|EEY35579.1| transcription regulator [Leptotrichia goodfellowii F0264]
          Length = 293

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 31/55 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R    MSQEKL E LG++ Q V K+E G+       ++ ISE+ E  I 
Sbjct: 5  EKLKSFRKQAKMSQEKLSEKLGVSRQAVTKWETGLGIPEIENIRAISELFEISID 59


>gi|153938949|ref|YP_001391593.1| putative DNA-binding protein [Clostridium botulinum F str.
          Langeland]
 gi|168180756|ref|ZP_02615420.1| putative DNA-binding protein [Clostridium botulinum NCTC 2916]
 gi|226949661|ref|YP_002804752.1| putative DNA-binding protein [Clostridium botulinum A2 str.
          Kyoto]
 gi|152934845|gb|ABS40343.1| putative DNA-binding protein [Clostridium botulinum F str.
          Langeland]
 gi|182668489|gb|EDT80468.1| putative DNA-binding protein [Clostridium botulinum NCTC 2916]
 gi|226842839|gb|ACO85505.1| putative DNA-binding protein [Clostridium botulinum A2 str.
          Kyoto]
 gi|295319621|gb|ADF99998.1| putative DNA-binding protein [Clostridium botulinum F str.
          230613]
 gi|322806632|emb|CBZ04201.1| transcriptional regulator, Cro/CI family [Clostridium botulinum
          H04402 065]
          Length = 78

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +++  R  LG++QE+LGE +G++ Q +   E G           I++V    I   F F
Sbjct: 3  NKLKQFRENLGLTQEQLGELVGVSRQAINAIETGKFEPSIWLAYDIAKVFHDTIEEVFLF 62

Query: 75 DVSP 78
          + S 
Sbjct: 63 EESE 66


>gi|307352509|ref|YP_003893560.1| XRE family transcriptional regulator [Methanoplanus petrolearius
          DSM 11571]
 gi|307155742|gb|ADN35122.1| transcriptional regulator, XRE family [Methanoplanus petrolearius
          DSM 11571]
          Length = 64

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI++ R +  ++QE L + LG+T Q +   EKG           I++     I   F
Sbjct: 3  NRIKVFRAMHDLTQEGLAKELGVTRQTILAIEKGKYDPSLDLAFKIAKYFNVKIEEVF 60


>gi|325674989|ref|ZP_08154676.1| DNA-binding protein [Rhodococcus equi ATCC 33707]
 gi|325554575|gb|EGD24250.1| DNA-binding protein [Rhodococcus equi ATCC 33707]
          Length = 182

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 39/91 (42%), Gaps = 11/91 (12%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G++ E L E  G+T   + K E+G++    +    I+  L++ +S  F  +P
Sbjct: 5  LRSHRRRAGLTLEALAEDTGLTKSYLSKVERGISTPSIAVALKIARALDADVSQLFSDTP 64

Query: 79 -----------TVCSDISSEENNVMDFISTP 98
                           + +++ V D I+T 
Sbjct: 65 DNSVMAIERHAERAQVDADDDSAVYDAIATR 95


>gi|210621510|ref|ZP_03292670.1| hypothetical protein CLOHIR_00613 [Clostridium hiranonis DSM
          13275]
 gi|210154709|gb|EEA85715.1| hypothetical protein CLOHIR_00613 [Clostridium hiranonis DSM
          13275]
          Length = 136

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 36/73 (49%), Gaps = 2/73 (2%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ I   R   GM+Q  L + +G+T + V K+E+ ++    + +  ++E+ +  +     
Sbjct: 7  GEMISSLRKDRGMTQLDLAKKMGVTDKAVSKWERDLSFPDINSIPKLAEIFDVSVDELMQ 66

Query: 76 VSPTVCSDISSEE 88
          V   V  ++  EE
Sbjct: 67 VKSDV--NVGEEE 77


>gi|153007564|ref|YP_001368779.1| putative phage repressor [Ochrobactrum anthropi ATCC 49188]
 gi|151559452|gb|ABS12950.1| putative phage repressor [Ochrobactrum anthropi ATCC 49188]
          Length = 235

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 31/59 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RIR  R   G +Q++L +  GI    V ++E    + G+ +L  ++E+L     ++
Sbjct: 4  IGDRIRRARTQKGFTQQQLADHFGIARVSVTQWENNTTQPGSDKLIGLTELLGGDAEWY 62


>gi|300933872|ref|ZP_07149128.1| hypothetical protein CresD4_07355 [Corynebacterium resistens DSM
          45100]
          Length = 294

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 33/76 (43%), Gaps = 5/76 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
          G+R+R  R+  G+SQ  L E +  +   + ++E GV+      +  ++  L   +S    
Sbjct: 12 GRRLRHARLDRGLSQNALAEGI-CSASAISRWEAGVHLPPEDAIWSLANRLGIDVSVLTG 70

Query: 74 --FDVSPTVCSDISSE 87
            FD       D  +E
Sbjct: 71 LGFDTRFAESPDRFAE 86


>gi|256843791|ref|ZP_05549278.1| transcriptional regulator [Lactobacillus crispatus 125-2-CHN]
 gi|262047764|ref|ZP_06020716.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
 gi|293381647|ref|ZP_06627629.1| helix-turn-helix protein [Lactobacillus crispatus 214-1]
 gi|312977082|ref|ZP_07788831.1| helix-turn-helix domain-containing protein [Lactobacillus crispatus
           CTV-05]
 gi|256613696|gb|EEU18898.1| transcriptional regulator [Lactobacillus crispatus 125-2-CHN]
 gi|260571969|gb|EEX28537.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
 gi|290921789|gb|EFD98809.1| helix-turn-helix protein [Lactobacillus crispatus 214-1]
 gi|310896410|gb|EFQ45475.1| helix-turn-helix domain-containing protein [Lactobacillus crispatus
           CTV-05]
          Length = 270

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 27/112 (24%), Positives = 51/112 (45%), Gaps = 13/112 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G  +R  R  LG++Q+++ +   IT     K EKG NR+    L  I +     +S+
Sbjct: 1   MDIGTALRHLRDDLGLTQKQMIQGTKITVSHYSKLEKGQNRIFIENLVEILKQRNISLSY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI---QIDDVKVRQKIIE 121
           F D    +  + S +E N  +         LN  F    +I   +++++I  
Sbjct: 61  FVDHY--LNDENSEKEVNYSEI--------LNIAFYEKDKIAAEEIKRQIFS 102


>gi|229122159|ref|ZP_04251374.1| Transcriptional regulator [Bacillus cereus 95/8201]
 gi|228661285|gb|EEL16910.1| Transcriptional regulator [Bacillus cereus 95/8201]
          Length = 116

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 33/66 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R+   M+QE+ G+ + +T   V K+E G        ++ I++    P+++ +  +
Sbjct: 6  RIKQIRLEHKMNQEQFGKEVDLTKGTVSKFENGKAFPSRETIEKIAKRFSVPVNYLYGEN 65

Query: 78 PTVCSD 83
            V  D
Sbjct: 66 NEVNLD 71


>gi|227358409|ref|ZP_03842744.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
 gi|227161367|gb|EEI46420.1| fimbrial operon regulator [Proteus mirabilis ATCC 29906]
          Length = 104

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 27/58 (46%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++  +  RI  +R  LGM+  ++   L I+ Q   + E G  ++    L  I+ +L  
Sbjct: 7  INSIIAYRIMQKRKELGMTGREIAHSLEISQQHYSRIENGHTKITVEHLFSIAFILGV 64


>gi|300362438|ref|ZP_07058614.1| helix-turn-helix domain protein [Lactobacillus gasseri JV-V03]
 gi|300353429|gb|EFJ69301.1| helix-turn-helix domain protein [Lactobacillus gasseri JV-V03]
          Length = 95

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 35/78 (44%), Gaps = 7/78 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I   R    +SQE L E + ++ Q V K+E   +     ++ ++SE+      +
Sbjct: 1  MRLGQKIADLRKKNNLSQEGLAEKMNVSRQAVSKWESEQSIPDIEKIVNLSELFGVTTDY 60

Query: 73 F-------FDVSPTVCSD 83
                  F++     +D
Sbjct: 61 LLKSGEPSFELKNEDIND 78


>gi|226325411|ref|ZP_03800929.1| hypothetical protein COPCOM_03216 [Coprococcus comes ATCC 27758]
 gi|225206154|gb|EEG88508.1| hypothetical protein COPCOM_03216 [Coprococcus comes ATCC 27758]
          Length = 135

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/79 (16%), Positives = 34/79 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+++  R+  G++QEK  E + ++ Q +  +E   +      +  +S++    +  
Sbjct: 1  MEIGKKLKNARIEAGLTQEKAAEKIDVSRQTISNWENEKSYPDIISVIALSDLYSVSLDE 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                 +   +    N V
Sbjct: 61 LLKGDQKMAEHLEESTNVV 79


>gi|160902585|ref|YP_001568166.1| XRE family transcriptional regulator [Petrotoga mobilis SJ95]
 gi|160360229|gb|ABX31843.1| transcriptional regulator, XRE family [Petrotoga mobilis SJ95]
          Length = 105

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/79 (31%), Positives = 43/79 (54%), Gaps = 2/79 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+ RR+ +G++Q+ L E +G T   + K+EKG        LQ ++EVL   I  +F+  P
Sbjct: 23 IKKRRLQMGITQKDLAERMGTTQAIISKFEKGNYNPTYLFLQRLTEVLGGSIKLYFE--P 80

Query: 79 TVCSDISSEENNVMDFIST 97
              +I+S++ +  D   T
Sbjct: 81 RDDKEINSDDVSKNDNFET 99


>gi|126727400|ref|ZP_01743235.1| hypothetical protein RB2150_09379 [Rhodobacterales bacterium
           HTCC2150]
 gi|126703395|gb|EBA02493.1| hypothetical protein RB2150_09379 [Rhodobacterales bacterium
           HTCC2150]
          Length = 195

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/94 (18%), Positives = 36/94 (38%), Gaps = 4/94 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++IR  R    +   +LG    ++   + K E+G        L  I+ V    +  FF
Sbjct: 15  IGQKIRALRTEKALGLTQLGNHTDLSAGMLSKIERGQVIPTLPTLLRIAMVFGVGLEHFF 74

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
           +       +I   +    + +  PD ++    + 
Sbjct: 75  EEGDAPTLEIVRSK----ERLKMPDTMERMPSYY 104


>gi|90581157|ref|ZP_01236956.1| Hypothetical transcriptional regulator [Vibrio angustum S14]
 gi|90437678|gb|EAS62870.1| Hypothetical transcriptional regulator [Vibrio angustum S14]
          Length = 130

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ ++IR  R   G++Q  + + LG+  Q     E G        L +I+++   P+ +
Sbjct: 21 AHIAQKIREAREWKGITQVSMAKQLGVARQTYLDVESGKTEPRILMLMNIAKITGRPLHW 80

Query: 73 F 73
          F
Sbjct: 81 F 81


>gi|21233393|ref|NP_639310.1| transcriptional regulator [Xanthomonas campestris pv. campestris
          str. ATCC 33913]
 gi|66770358|ref|YP_245120.1| transcriptional regulator [Xanthomonas campestris pv. campestris
          str. 8004]
 gi|188993556|ref|YP_001905566.1| transcriptional regulator [Xanthomonas campestris pv. campestris
          str. B100]
 gi|325920249|ref|ZP_08182199.1| transcriptional regulator [Xanthomonas gardneri ATCC 19865]
 gi|325923520|ref|ZP_08185169.1| transcriptional regulator [Xanthomonas gardneri ATCC 19865]
 gi|325923552|ref|ZP_08185196.1| transcriptional regulator [Xanthomonas gardneri ATCC 19865]
 gi|21115231|gb|AAM43192.1| transcriptional regulator [Xanthomonas campestris pv. campestris
          str. ATCC 33913]
 gi|66575690|gb|AAY51100.1| transcriptional regulator [Xanthomonas campestris pv. campestris
          str. 8004]
 gi|167735316|emb|CAP53530.1| transcriptional regulator [Xanthomonas campestris pv. campestris]
 gi|325545969|gb|EGD17179.1| transcriptional regulator [Xanthomonas gardneri ATCC 19865]
 gi|325545992|gb|EGD17197.1| transcriptional regulator [Xanthomonas gardneri ATCC 19865]
 gi|325549272|gb|EGD20176.1| transcriptional regulator [Xanthomonas gardneri ATCC 19865]
          Length = 66

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 2/63 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           R+R  R   G SQ +LGE LG++ Q +   E G           I+ +    I   F F
Sbjct: 3  SRVRELREASGWSQGELGERLGVSRQTINALETGKYDPSLPLAFRIARLFGESIEHVFLF 62

Query: 75 DVS 77
          +  
Sbjct: 63 EDG 65


>gi|56965325|ref|YP_177057.1| transcriptional regulator [Bacillus clausii KSM-K16]
 gi|56911569|dbj|BAD66096.1| transcriptional regulator [Bacillus clausii KSM-K16]
          Length = 112

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 29/55 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          R+R  R    ++Q+++   LGIT      YE+G N    ++L+ ++E     I++
Sbjct: 7  RLRELRKAHQLTQQEVASFLGITESAYGFYEQGRNEPSIAKLKQLAEKYNVSIAY 61


>gi|330996840|ref|ZP_08320709.1| DNA-binding helix-turn-helix protein [Paraprevotella xylaniphila
          YIT 11841]
 gi|329572283|gb|EGG53942.1| DNA-binding helix-turn-helix protein [Paraprevotella xylaniphila
          YIT 11841]
          Length = 117

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 37/84 (44%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G+ ++  R + G +QE++ + +GI       YE G   V    L+ IS +     
Sbjct: 4  INQIIGENLKKIRELSGFTQEQIAKSIGIERSAYSNYEGGTREVPYDILERISNMFGCEP 63

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
             F+ +    ++I +    + D 
Sbjct: 64 FILFEDNIQADNEIMATAFRISDL 87


>gi|255609178|ref|XP_002539013.1| conserved hypothetical protein [Ricinus communis]
 gi|223509258|gb|EEF23370.1| conserved hypothetical protein [Ricinus communis]
          Length = 110

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/111 (18%), Positives = 47/111 (42%), Gaps = 16/111 (14%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISF 72
           ++G+++   R   G + +KL E  G++   + + E K   R  A +L  +++VL    +F
Sbjct: 7   HLGEKLYELRKQRGFTLDKLAELSGLSKSYIWELENKESQRPSAEKLTALADVLGVSTAF 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR--QKIIE 121
           F +       +   +E                R + +++    +  +KI++
Sbjct: 67  FMEEDIRQPEERHLDEAFF-------------RNYQKLEPDSKQQLRKILD 104


>gi|218532810|ref|YP_002423626.1| XRE family transcriptional regulator [Methylobacterium
           chloromethanicum CM4]
 gi|254563828|ref|YP_003070923.1| XRE family transcriptional regulator [Methylobacterium extorquens
           DM4]
 gi|218525113|gb|ACK85698.1| transcriptional regulator, XRE family [Methylobacterium
           chloromethanicum CM4]
 gi|254271106|emb|CAX27113.1| putative transcriptional regulator, XRE family [Methylobacterium
           extorquens DM4]
          Length = 209

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 46/113 (40%), Gaps = 14/113 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK I+  R    +S  +L E  G+    + + E+       + +  +S+ L+  I   
Sbjct: 26  QLGKTIQRLRKAYNLSLSELAEQSGVAKSIISQIERNETNPTLATIWRLSQALDVSI--- 82

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                      +S+E   ++  S  D  +L       DD KVR  II  ++++
Sbjct: 83  ------ERVLATSDEEPFIERFSRADTPRLVS-----DDGKVRLAIIGWIKTV 124


>gi|159038929|ref|YP_001538182.1| XRE family transcriptional regulator [Salinispora arenicola
          CNS-205]
 gi|157917764|gb|ABV99191.1| transcriptional regulator, XRE family [Salinispora arenicola
          CNS-205]
          Length = 83

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 28/64 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  RI + R   G+S+  L   LG+ +Q +   E+G  R        I+   E P+   F
Sbjct: 5  VHNRIAVLRAERGISRRDLAGALGVHYQTIGYLERGEFRPSLHLALRIAAYFEVPVEVVF 64

Query: 75 DVSP 78
           + P
Sbjct: 65 SIEP 68


>gi|302531579|ref|ZP_07283921.1| transcriptional regulator [Streptomyces sp. AA4]
 gi|302440474|gb|EFL12290.1| transcriptional regulator [Streptomyces sp. AA4]
          Length = 82

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+R+R  R   G++QE+L E  G+ +  V + E+G+  +    L   ++ L    + 
Sbjct: 11 RIIGERVREFRNKAGLNQEQLAEAAGVHWTFVSQVERGLRNINLHNLLKFADGLGVNPAK 70

Query: 73 FFDVS-PTVCSD 83
            D   P   SD
Sbjct: 71 LVDGLRPPSDSD 82


>gi|167463515|ref|ZP_02328604.1| transcriptional regulator, XRE family protein [Paenibacillus larvae
           subsp. larvae BRL-230010]
          Length = 151

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 26/124 (20%), Positives = 55/124 (44%), Gaps = 10/124 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G+RIR RR +L ++Q ++ E L +        E G     +S LQ I+++L++   +
Sbjct: 1   MSIGERIRQRRKLLQITQLEIAEQLKMGRSNFGHIENGRVTPSSSDLQKIADILQTNADY 60

Query: 73  FFD-VSPTVCSDISSEENNVMDFISTPDGLQL--------NRYFIQID-DVKVRQKIIEL 122
                        ++      ++ ++ D   L          YF  I+   + R KI+ +
Sbjct: 61  LLGRTDDPSPQGAAAGLKTYPEWATSKDKRDLKKMLQSPDVLYFDGIEFSDEDRAKILGV 120

Query: 123 VRSI 126
           + +I
Sbjct: 121 METI 124


>gi|331092591|ref|ZP_08341410.1| hypothetical protein HMPREF9477_02053 [Lachnospiraceae bacterium
           2_1_46FAA]
 gi|330400602|gb|EGG80216.1| hypothetical protein HMPREF9477_02053 [Lachnospiraceae bacterium
           2_1_46FAA]
          Length = 148

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/99 (21%), Positives = 45/99 (45%), Gaps = 9/99 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++++  R    +SQ ++ E L +T Q V  +E  +       LQ ++E+ E     
Sbjct: 1   MKLGEKLKKYRKERKLSQREVAEKLNVTRQVVSYWECDLTIPDIQILQQLAELYEI---- 56

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
             D+   +  + S+ +N  +  +    G+ L   F +I 
Sbjct: 57  --DMEEMLQEENSTTQNEEIAALIC--GIILAVAF-KIP 90


>gi|229043105|ref|ZP_04190833.1| Helix-turn-helix repressor protein [Bacillus cereus AH676]
 gi|228726244|gb|EEL77473.1| Helix-turn-helix repressor protein [Bacillus cereus AH676]
          Length = 69

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 26/54 (48%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I+++ ++ I   F
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKIFQTTIEHVF 60


>gi|222530497|ref|YP_002574379.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
           DSM 6725]
 gi|222457344|gb|ACM61606.1| transcriptional regulator, XRE family [Caldicellulosiruptor bescii
           DSM 6725]
          Length = 145

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/141 (16%), Positives = 53/141 (37%), Gaps = 17/141 (12%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
             N +   +G +IR  R   G +  +L    G+    + + E+G + +    L  I++ L
Sbjct: 3   KKNKIARALGLKIRKLREEKGWTINQLALYAGVNPTSIMRAERGESELSLGNLLRIAKAL 62

Query: 67  ESPISFFFD--------VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID--DVKVR 116
           +  ++   +            +  +   +  ++ + I   + L     F  I   +  V+
Sbjct: 63  KVDLNTLVEESMDQIVLGDEELVPEEKDKTPDIYEIIRKAENL----NFKGIPVNEPDVK 118

Query: 117 QKIIE---LVRSIVSSEKKYR 134
           Q I+E       + + EK+  
Sbjct: 119 QAIVEAITFAIRLKAKEKRQE 139


>gi|90592681|ref|YP_529596.1| RepR; putative repressor [Clostridium phage phi CD119]
 gi|61697872|gb|AAX53417.1| RepR; putative repressor [Clostridium phage phi CD119]
          Length = 131

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/110 (19%), Positives = 43/110 (39%), Gaps = 7/110 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G R++  R    ++ E+LG+ L +T   V  +E          L++I++  +  + +   
Sbjct: 6   GNRLKNLRSEKRITGEELGKILNVTKVAVSNWESDRRFPDQDTLKNIADYFDVSVDYLLC 65

Query: 75  -DVSPTVCSDISSEENNVMDFISTPDG----LQLNRYFIQIDDVKVRQKI 119
              +    +D  +  N   D I   D      +L +    ++D   R  I
Sbjct: 66  RSDARNTINDKVNTSNTTFDIIENSDANKKVKELMKKIYSLNDDD-RNAI 114


>gi|18310949|ref|NP_562883.1| DNA-binding protein [Clostridium perfringens str. 13]
 gi|110801118|ref|YP_696646.1| DNA-binding protein [Clostridium perfringens ATCC 13124]
 gi|168204849|ref|ZP_02630854.1| DNA-binding protein [Clostridium perfringens E str. JGS1987]
 gi|168208668|ref|ZP_02634293.1| DNA-binding protein [Clostridium perfringens B str. ATCC 3626]
 gi|168212998|ref|ZP_02638623.1| DNA-binding protein [Clostridium perfringens CPE str. F4969]
 gi|168215593|ref|ZP_02641218.1| DNA-binding protein [Clostridium perfringens NCTC 8239]
 gi|169343522|ref|ZP_02864521.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
 gi|182624367|ref|ZP_02952151.1| DNA-binding protein [Clostridium perfringens D str. JGS1721]
 gi|18145631|dbj|BAB81673.1| conserved hypothetical protein [Clostridium perfringens str. 13]
 gi|110675765|gb|ABG84752.1| DNA-binding protein [Clostridium perfringens ATCC 13124]
 gi|169298082|gb|EDS80172.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
 gi|170663587|gb|EDT16270.1| DNA-binding protein [Clostridium perfringens E str. JGS1987]
 gi|170713177|gb|EDT25359.1| DNA-binding protein [Clostridium perfringens B str. ATCC 3626]
 gi|170715478|gb|EDT27660.1| DNA-binding protein [Clostridium perfringens CPE str. F4969]
 gi|177910370|gb|EDT72747.1| DNA-binding protein [Clostridium perfringens D str. JGS1721]
 gi|182382433|gb|EDT79912.1| DNA-binding protein [Clostridium perfringens NCTC 8239]
          Length = 179

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 34/76 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +IR  R+   ++QE+L     ++   + + E  +     + L  I ++L + ++ 
Sbjct: 1  MEIGDKIRRLRVAKQLTQEELANRCELSKGFISQLENDLTSPSIATLIDILDILGTNLTE 60

Query: 73 FFDVSPTVCSDISSEE 88
          FF          S ++
Sbjct: 61 FFSEDTNEKIAFSKDD 76


>gi|58699616|ref|ZP_00374309.1| DNA-binding protein, putative [Wolbachia endosymbiont of
          Drosophila ananassae]
 gi|58533867|gb|EAL58173.1| DNA-binding protein, putative [Wolbachia endosymbiont of
          Drosophila ananassae]
          Length = 74

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/37 (35%), Positives = 29/37 (78%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK 49
          + +GK+I+  R+  G++Q +LG+ +G++++Q+Q+YE 
Sbjct: 1  MELGKKIKELRLYCGLTQTELGKKIGVSYRQIQRYEN 37


>gi|303246058|ref|ZP_07332339.1| transcriptional regulator, XRE family [Desulfovibrio
          fructosovorans JJ]
 gi|302492454|gb|EFL52325.1| transcriptional regulator, XRE family [Desulfovibrio
          fructosovorans JJ]
          Length = 107

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 35/63 (55%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK+I+  R    ++QEKL +  G++ Q + + E+G      + ++ +++ L+ P++  F 
Sbjct: 9  GKKIKSIRRARDITQEKLADLSGLSLQYIGEIERGRRNPSLTSIEQLAKALDIPMAELFS 68

Query: 76 VSP 78
          +  
Sbjct: 69 LEE 71


>gi|295398102|ref|ZP_06808151.1| XRE family transcriptional regulator [Aerococcus viridans ATCC
          11563]
 gi|294973621|gb|EFG49399.1| XRE family transcriptional regulator [Aerococcus viridans ATCC
          11563]
          Length = 263

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 31/60 (51%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  +G+RI+  R  LGMSQ +  + +G T   V  +E G N     R++ I+ +  + + 
Sbjct: 4  NKRLGERIKKIRKKLGMSQLEFSKAIGATKSAVSNWENGYNAPNNERIKAIANLGNTTVD 63


>gi|255038320|ref|YP_003088941.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
          18053]
 gi|254951076|gb|ACT95776.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
          18053]
          Length = 124

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 36/57 (63%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          N+ ++IR  R+  G+SQE + + LG++       E+G   +  SRL++++++L+ P+
Sbjct: 6  NLSEKIRQIRLQKGLSQENMADMLGLSTTAYGDIERGRTELSVSRLENVAKLLDVPL 62


>gi|227357903|ref|ZP_03842249.1| hypothetical protein HMPREF0693_3140 [Proteus mirabilis ATCC 29906]
 gi|227161876|gb|EEI46900.1| hypothetical protein HMPREF0693_3140 [Proteus mirabilis ATCC 29906]
          Length = 101

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/110 (21%), Positives = 48/110 (43%), Gaps = 14/110 (12%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            ++  +G+ I+  R    +S  +L +  GI+ Q + + E+G  +   S L  +    + P
Sbjct: 2   DINKILGREIKFLRKRSLLSGCELAKAFGISQQHLSRIERGEVQWSVSFLLRVCAFFDIP 61

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +  F  +     S  S  +NN+  F            FI+I++   R++I
Sbjct: 62  MIHFIKLIEKETSSFSIVDNNLCQF-----------EFIEINN---RRRI 97


>gi|158320882|ref|YP_001513389.1| XRE family transcriptional regulator [Alkaliphilus oremlandii
           OhILAs]
 gi|158141081|gb|ABW19393.1| transcriptional regulator, XRE family [Alkaliphilus oremlandii
           OhILAs]
          Length = 125

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 47/108 (43%), Gaps = 9/108 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
           +R++  R    M+Q++L + LG+    +  YE G     A  L  I+ +L +   +    
Sbjct: 9   ERLKELRKENNMTQQELADKLGLVRTAIANYETGRTVPDAETLNLIANILSTTTDYLLGR 68

Query: 75  ------DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
                 + +    +DI SE+   +   S  +  +L   + ++ D++ R
Sbjct: 69  ANYIPKEKNKPSSTDIISEDIRKLSPESQEELKKLIELY-KMRDMQKR 115


>gi|23505482|ref|NP_700411.1| regulatory protein [Salmonella phage ST64B]
 gi|168822352|ref|ZP_02834352.1| regulatory protein [Salmonella enterica subsp. enterica serovar
          Weltevreden str. HI_N05-537]
 gi|23379229|gb|AAL25916.1| Sb38 [Salmonella phage ST64B]
 gi|205341260|gb|EDZ28024.1| regulatory protein [Salmonella enterica subsp. enterica serovar
          Weltevreden str. HI_N05-537]
 gi|261247208|emb|CBG25032.1| phage encoded transcriptional regulator [Salmonella enterica
          subsp. enterica serovar Typhimurium str. D23580]
 gi|267994039|gb|ACY88924.1| regulatory protein [Salmonella enterica subsp. enterica serovar
          Typhimurium str. 14028S]
 gi|301158553|emb|CBW18064.1| predicted bacteriophage protein [Salmonella enterica subsp.
          enterica serovar Typhimurium str. SL1344]
 gi|320086315|emb|CBY96088.1| 26 kDa repressor protein Regulatory protein CI [Salmonella
          enterica subsp. enterica serovar Weltevreden str.
          2007-60-3289-1]
 gi|323130316|gb|ADX17746.1| regulatory protein [Salmonella enterica subsp. enterica serovar
          Typhimurium str. 4/74]
 gi|332988930|gb|AEF07913.1| hypothetical protein STMUK_2020 [Salmonella enterica subsp.
          enterica serovar Typhimurium str. UK-1]
          Length = 231

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 36/90 (40%), Gaps = 6/90 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M   +L E +G+    + + E G  +      L  +++ L   I+
Sbjct: 1  MNIGNRVRQLRRAKNMKIAELAEAIGVDAANISRLETGKQKQFTEQTLSRLADCLGVDIA 60

Query: 72 FFFDVSPTVC-----SDISSEENNVMDFIS 96
            F   P        SD+  +  NV D   
Sbjct: 61 ELFTSDPKGNTVCKHSDMRKDSANVKDLFR 90


>gi|83720019|ref|YP_443629.1| DNA-binding protein [Burkholderia thailandensis E264]
 gi|83653844|gb|ABC37907.1| DNA-binding protein [Burkholderia thailandensis E264]
          Length = 80

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 31/64 (48%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +    +P  + +G+ IR  R   G+SQE+L    GI    + + E+G N      L +I+
Sbjct: 5  SSSRQHPTLVALGRAIRRIRKDRGLSQEQLALTAGIDVSYLGRVERGDNNASVLALHYIA 64

Query: 64 EVLE 67
          E L 
Sbjct: 65 EALG 68


>gi|71083930|ref|YP_266650.1| transcription regulator [Candidatus Pelagibacter ubique HTCC1062]
 gi|91763002|ref|ZP_01264966.1| probable transcription regulator [Candidatus Pelagibacter ubique
           HTCC1002]
 gi|71063043|gb|AAZ22046.1| probable transcription regulator [Candidatus Pelagibacter ubique
           HTCC1062]
 gi|91717415|gb|EAS84066.1| probable transcription regulator [Candidatus Pelagibacter ubique
           HTCC1002]
          Length = 477

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 28/111 (25%), Positives = 44/111 (39%), Gaps = 6/111 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +DI +G +I+  R  LG+   KL E LGI+   +   E G  ++    L  + E L   +
Sbjct: 4   LDIKIGPKIKAFRRQLGLQANKLSEDLGISPSYLNLIESGKRKIDGDLLLKVCEKLNIQL 63

Query: 71  SFFFDVSPTVCSDISSEE-----NNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           S     S     +  SE         +D +  P+   L     +I    VR
Sbjct: 64  SDLTSKSDINLENTISEILDDKLFEDLDILG-PEVKDLVGTNPKIGRALVR 113


>gi|78063409|ref|YP_373317.1| XRE family transcriptional regulator [Burkholderia sp. 383]
 gi|77971294|gb|ABB12673.1| transcriptional regulator, XRE family [Burkholderia sp. 383]
          Length = 281

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 36/70 (51%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +++ P+     +G+ +R  R + G+SQ  L    GI+ +Q+   E G +  G   L 
Sbjct: 1  MNASRREPHAPPHELGQLLRYWRDVRGVSQLDLSLDAGISQRQISFIESGRSVPGRDTLL 60

Query: 61 HISEVLESPI 70
           +++ L+ P+
Sbjct: 61 TLAQTLDVPL 70


>gi|312891359|ref|ZP_07750876.1| transcriptional regulator, XRE family [Mucilaginibacter paludis DSM
           18603]
 gi|311296053|gb|EFQ73205.1| transcriptional regulator, XRE family [Mucilaginibacter paludis DSM
           18603]
          Length = 113

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 29/117 (24%), Positives = 50/117 (42%), Gaps = 15/117 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +GK+IRL R   G SQE + + L I+     K E G+  +  SRL+ IS + +  +  
Sbjct: 2   KTLGKKIRLLRHQRGWSQEDVAKRLDISIPAFSKIETGITDINLSRLEQISILFDMTVVQ 61

Query: 73  FFDVSPTVCSDISSEE-NNVMDFISTP--DGLQLNRYFIQIDDVKVRQKIIELVRSI 126
               +        S E ++V   +S    + + L            ++K+IEL   +
Sbjct: 62  LLTFNDAEQEQKYSNELDSVSKRLSDRDTEVIDL------------QKKVIELYEEL 106


>gi|304439390|ref|ZP_07399302.1| XRE family transcriptional regulator [Peptoniphilus duerdenii
          ATCC BAA-1640]
 gi|304372172|gb|EFM25766.1| XRE family transcriptional regulator [Peptoniphilus duerdenii
          ATCC BAA-1640]
          Length = 67

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 24/60 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  RI+  R    MSQE L   +G+  + +   E G          +I++V    I   F
Sbjct: 2  ISNRIKEFRARNSMSQEDLANAVGVRRETIGNLENGRYNPSLVLAWNIAKVFGVTIEEIF 61


>gi|296102379|ref|YP_003612525.1| XRE family transcriptional regulator [Enterobacter cloacae subsp.
          cloacae ATCC 13047]
 gi|295056838|gb|ADF61576.1| XRE family transcriptional regulator [Enterobacter cloacae subsp.
          cloacae ATCC 13047]
          Length = 175

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +  ++   ++ +R   G S  KL E  G++   + + E+  +    S L  I+  L  P 
Sbjct: 3  ITQHLATTLKTQRQARGWSLSKLAEETGVSKAMLGQIERNESSPTVSTLWKIATGLNVPF 62

Query: 71 SFF 73
          S F
Sbjct: 63 SAF 65


>gi|291545678|emb|CBL18786.1| Predicted transcriptional regulators [Ruminococcus sp. SR1/5]
          Length = 166

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 38/92 (41%), Gaps = 2/92 (2%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DVS 77
           I   R   GMSQ++L + + +T Q V ++E G        L+ +S+  +  I+    +  
Sbjct: 7   ILKLRTERGMSQDELADKIMVTRQAVSRWENGDTVPNTDTLKLLSKEFDVSINTLLGEPR 66

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
             +C       ++        DG  LN  + +
Sbjct: 67  KLICQCCGMPIDDDSILGRDKDG-TLNEEYCK 97


>gi|260576097|ref|ZP_05844091.1| transcriptional regulator, XRE family [Rhodobacter sp. SW2]
 gi|259021796|gb|EEW25098.1| transcriptional regulator, XRE family [Rhodobacter sp. SW2]
          Length = 228

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 32/69 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  + R  R + G++QE L +  G+T + +QK E G +      L+ ++  L   ++ 
Sbjct: 9  KYIADQCRYIRKMFGLTQENLADAAGLTVRTIQKVESGRHMPEVQTLRSLARGLGFDMAV 68

Query: 73 FFDVSPTVC 81
          F   +P   
Sbjct: 69 FLRPTPEQE 77


>gi|253988423|ref|YP_003039779.1| phage regulatory protein [Photorhabdus asymbiotica subsp.
          asymbiotica ATCC 43949]
 gi|253988445|ref|YP_003039801.1| hypothetical protein PAU_00964 [Photorhabdus asymbiotica subsp.
          asymbiotica ATCC 43949]
 gi|211638950|emb|CAR67565.1| similar to unknown protein of bacteriophage (similar to phag
          transcriptional repressor) [Photorhabdus asymbiotica
          subsp. asymbiotica ATCC 43949]
 gi|253779873|emb|CAQ83034.1| putative phage regulatory protein [Photorhabdus asymbiotica]
 gi|253779895|emb|CAQ83056.1| conserved hypothetical protein [Photorhabdus asymbiotica]
          Length = 130

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 32/59 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G RI L R    ++Q++L + LGI  Q +  YE G  +V A+ L  ++++L   + 
Sbjct: 21 KELGARIALARKEQQLTQQQLADQLGIAQQTMAHYEGGRLKVSAALLPLLAQILNLSLD 79


>gi|187919154|ref|YP_001888185.1| XRE family transcriptional regulator [Burkholderia phytofirmans
           PsJN]
 gi|187717592|gb|ACD18815.1| transcriptional regulator, XRE family [Burkholderia phytofirmans
           PsJN]
          Length = 190

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/129 (17%), Positives = 47/129 (36%), Gaps = 11/129 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV   +  NP  + +G +IR  R  L  + +      GI+   + + E+G+     + L 
Sbjct: 1   MVTTIQKSNPA-LEIGSKIRALRQRLKRTLDDTATAAGISKPFLSQVERGLASPSITSLA 59

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTP----------DGLQLNRYFIQI 110
            I+  L   + +F D           ++     F  +            G QL    +++
Sbjct: 60  GIAHALGVTVQYFVDTPSEERCVSRGDQLKFFGFADSANLFARLTNLTGGRQLEAILVRM 119

Query: 111 DDVKVRQKI 119
              + R ++
Sbjct: 120 PPGQKRSEV 128


>gi|83950311|ref|ZP_00959044.1| DNA-binding protein, putative [Roseovarius nubinhibens ISM]
 gi|83838210|gb|EAP77506.1| DNA-binding protein, putative [Roseovarius nubinhibens ISM]
          Length = 190

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 33/72 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R   G++   L + LG +   + + E+ ++    S L+ +++VL  PIS  F
Sbjct: 12 LGADLRALRKARGVTLAALADALGRSVGWLSQVERDLSEPSISDLRKMADVLGVPISMLF 71

Query: 75 DVSPTVCSDISS 86
            +     +   
Sbjct: 72 GQAMAPAEEAGH 83


>gi|312794292|ref|YP_004027215.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
           kristjanssonii 177R1B]
 gi|312181432|gb|ADQ41602.1| helix-turn-helix domain protein [Caldicellulosiruptor
           kristjanssonii 177R1B]
          Length = 144

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 29/144 (20%), Positives = 63/144 (43%), Gaps = 26/144 (18%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++GKRI   R   G ++ KL E  G++   + + E+G+ +   + +++I       ++ 
Sbjct: 1   MDIGKRIVELREKYGFTRYKLSELSGVSQSALSEIERGIKQPTITTIENICRAFNLTLAD 60

Query: 73  FF-DVSPTVCSDISSEENNVMD-----------FIST-------------PDGLQLNRYF 107
           FF +  P +  ++ S  N   +           F+ T             P+  +L +  
Sbjct: 61  FFAEKEPEIPPEVRSLINTAANLSPTQIQLLDSFLQTFQPGRIVFLDDLLPEAAELIKIT 120

Query: 108 IQIDDVKVRQKIIELVRSIVSSEK 131
            ++D  K+R  ++ + RS+  SE 
Sbjct: 121 KKLDKEKIR-ILLNVARSMFESED 143


>gi|298383894|ref|ZP_06993455.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides sp. 1_1_14]
 gi|298263498|gb|EFI06361.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides sp. 1_1_14]
          Length = 102

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 30/58 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+R++  R+  GM+QE+L   +G     + + E G   +  S L  I + L   ISF
Sbjct: 42 IGERLKAERLKAGMTQEQLAAKIGTKKSYISRIENGHADIQLSTLFKIFQGLGRKISF 99


>gi|242398850|ref|YP_002994274.1| Predicted transcription regulator, containing CBS domains
          [Thermococcus sibiricus MM 739]
 gi|242265243|gb|ACS89925.1| Predicted transcription regulator, containing CBS domains
          [Thermococcus sibiricus MM 739]
          Length = 186

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 3/61 (4%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          IP P+D    K I+  R  LG++QE+L +  G+T   + K E G      S    I + L
Sbjct: 4  IPQPIDP---KEIKRFRKELGITQEELAQRAGVTQAYIAKLETGKVDPRLSTFNRILQAL 60

Query: 67 E 67
          +
Sbjct: 61 K 61


>gi|227511236|ref|ZP_03941285.1| possible DNA-binding protein [Lactobacillus buchneri ATCC 11577]
 gi|227085531|gb|EEI20843.1| possible DNA-binding protein [Lactobacillus buchneri ATCC 11577]
          Length = 171

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 38/78 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++  R+  G SQ+K+ + L +T Q +  +E G +R     L  +S+V + P+  F   +
Sbjct: 7  QLKKARIKKGYSQQKVADELQVTRQSISSWENGHSRPDLYNLTLLSKVYDEPLDNFVKDN 66

Query: 78 PTVCSDISSEENNVMDFI 95
           +    I S+    + F 
Sbjct: 67 HSFDLQIESDREEFLRFF 84


>gi|160914768|ref|ZP_02076982.1| hypothetical protein EUBDOL_00775 [Eubacterium dolichum DSM 3991]
 gi|158433308|gb|EDP11597.1| hypothetical protein EUBDOL_00775 [Eubacterium dolichum DSM 3991]
          Length = 69

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          KRI++ R+   MSQE L + +G T Q +   E G           I + L   +   F
Sbjct: 4  KRIKIARLECDMSQEDLAKAVGATRQTIGLIEAGNYNPSLKLCLAICKALNKTLDDLF 61


>gi|153004833|ref|YP_001379158.1| XRE family transcriptional regulator [Anaeromyxobacter sp. Fw109-5]
 gi|152028406|gb|ABS26174.1| transcriptional regulator, XRE family [Anaeromyxobacter sp.
           Fw109-5]
          Length = 112

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 3/74 (4%)

Query: 1   MVGNKKIPNPV-D--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           M   K   +P  D     G+R+R +R   G++QE L E L ++   V   E+G      +
Sbjct: 33  MAKTKSQRDPRRDELRRFGERVREQRRTRGLTQEALAEALDLSVAYVSLIERGGRNPPYT 92

Query: 58  RLQHISEVLESPIS 71
            +  I+  L  P S
Sbjct: 93  TVVAIARALGIPAS 106


>gi|118578551|ref|YP_899801.1| helix-turn-helix domain-containing protein [Pelobacter
          propionicus DSM 2379]
 gi|118501261|gb|ABK97743.1| helix-turn-helix domain protein [Pelobacter propionicus DSM 2379]
          Length = 372

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RI   R + G S++ L + +  T   + + EK + R     L  IS  L  P SFF
Sbjct: 8  ERITYARELKGFSKKDLAQKVDKTPSAISQIEKSIIRPDTETLMRISLALSVPPSFF 64


>gi|307710145|ref|ZP_07646589.1| helix-turn-helix family protein [Streptococcus mitis SK564]
 gi|307619125|gb|EFN98257.1| helix-turn-helix family protein [Streptococcus mitis SK564]
          Length = 108

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 30/66 (45%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +  N+  +IR  R    ++Q++L E   ++   + + E     +       I + LE 
Sbjct: 2  DDILENISNQIRDLRASKKITQQELAERTNLSVPYISQIENNHRNISLETFVKIVDALEV 61

Query: 69 PISFFF 74
          P+S FF
Sbjct: 62 PLSDFF 67


>gi|291544668|emb|CBL17777.1| Predicted transcriptional regulators [Ruminococcus sp. 18P13]
          Length = 119

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 12/64 (18%), Positives = 26/64 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R    ++Q +L     I    +  YE G+    A  + ++++     + +  
Sbjct: 8  IGNKIRQLRKENKLTQAQLAAVCYINRSSIGLYENGLREPSAGTIAYLAKYFNVSVDYLL 67

Query: 75 DVSP 78
           V  
Sbjct: 68 GVDE 71


>gi|289166201|ref|YP_003456339.1| phage repressor [Legionella longbeachae NSW150]
 gi|288859374|emb|CBJ13310.1| putative phage repressor [Legionella longbeachae NSW150]
          Length = 229

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/106 (17%), Positives = 47/106 (44%), Gaps = 3/106 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +   +G+RI + R   G++++ L E  G +   ++  YE+G    G + ++ +++VLE  
Sbjct: 5   IKKKIGQRIMIERKAKGLTRKALAELTGELKISRINNYERGDRTPGPTEIKLLADVLEVS 64

Query: 70  ISFFFDVSPTVCSDISSEENN--VMDFISTPDGLQLNRYFIQIDDV 113
            S+   ++      I+       ++  +       L+    +I + 
Sbjct: 65  ASYLMCLTDNREGKITKSPGMGALIPVLDYKQAADLDNCIQKIKED 110


>gi|169335943|ref|ZP_02863136.1| hypothetical protein ANASTE_02378 [Anaerofustis stercorihominis DSM
           17244]
 gi|169258681|gb|EDS72647.1| hypothetical protein ANASTE_02378 [Anaerofustis stercorihominis DSM
           17244]
          Length = 351

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/90 (20%), Positives = 42/90 (46%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+ + I+ +R+  G++QE +   LG++   V K+EKGV+    + L  I+ +    ++ 
Sbjct: 1   MNINEIIKNKRVEAGLTQENVANYLGVSTPAVNKWEKGVSYPDITLLPPIARLFNIDMNT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
               +  +         N +  +   +G +
Sbjct: 61  LLSFNEDLSEKEIGSILNKVSELMKDEGFE 90


>gi|78357361|ref|YP_388810.1| transcriptional regulator [Desulfovibrio desulfuricans subsp.
          desulfuricans str. G20]
 gi|78219766|gb|ABB39115.1| transcriptional regulator, XRE family with cupin sensor domain
          [Desulfovibrio desulfuricans subsp. desulfuricans str.
          G20]
          Length = 188

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 31/73 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R+   R  +G S E+L + +G+T Q V++YE G   +  S L  ++      ++ 
Sbjct: 11 REIAPRLLGLRDAVGFSAEELAQKVGVTSQVVERYESGEVEIPVSYLTDVARACGVDLTA 70

Query: 73 FFDVSPTVCSDIS 85
                    D +
Sbjct: 71 LVSGGDAHLHDFT 83


>gi|89100265|ref|ZP_01173131.1| hypothetical protein B14911_24576 [Bacillus sp. NRRL B-14911]
 gi|89085003|gb|EAR64138.1| hypothetical protein B14911_24576 [Bacillus sp. NRRL B-14911]
          Length = 116

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 33/74 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R  L ++Q++L   L I    ++KYE G  +     +  IS +L+ P S   
Sbjct: 4  IGLAIKQNRERLNLTQQELAVKLRIGTSTIEKYENGCQQPDTQTILKISTILDVPASELL 63

Query: 75 DVSPTVCSDISSEE 88
          +   T C      E
Sbjct: 64 EHGFTACQTGLDPE 77


>gi|325842510|ref|ZP_08167681.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
 gi|325489554|gb|EGC91918.1| DNA-binding helix-turn-helix protein [Turicibacter sp. HGF1]
          Length = 367

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 34/71 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          INVGK I L+R    ++Q++L + +G++   + K+E G +    + L  ++      I  
Sbjct: 4  INVGKMIILKRKEKKITQDELAKYIGVSKAAISKWETGQSYPDITLLPILAAYFNMSIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LIGYEPQMVKE 74


>gi|323342509|ref|ZP_08082741.1| DNA-binding protein [Erysipelothrix rhusiopathiae ATCC 19414]
 gi|322463621|gb|EFY08815.1| DNA-binding protein [Erysipelothrix rhusiopathiae ATCC 19414]
          Length = 258

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/52 (32%), Positives = 27/52 (51%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPT 79
          MSQE L E L I+ Q + K+E+G +      L  +SE+L  P++       +
Sbjct: 1  MSQEMLAEKLNISRQSISKWERGESLPSIDNLIRLSEILGIPLNDLVKGKES 52


>gi|49188540|ref|YP_025638.1| pbsX-like transcriptional regulator [Pseudomonas syringae pv.
           maculicola]
 gi|47525123|gb|AAT35137.1| pbsX-like transcriptional regulator [Pseudomonas syringae pv.
           maculicola]
 gi|320321602|gb|EFW77709.1| pbsX-like transcriptional regulator [Pseudomonas syringae pv.
           glycinea str. B076]
 gi|330962559|gb|EGH62819.1| pbsX-like transcriptional regulator [Pseudomonas syringae pv.
           maculicola str. ES4326]
          Length = 116

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/118 (17%), Positives = 47/118 (39%), Gaps = 11/118 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + +   +G RI+  R   G++Q  L E +      + +YE+        +L  ++E  
Sbjct: 1   MMSSIRKIIGSRIKAHRKSRGLTQSALAEAIECEVASIGRYERAETAPDGEQLIKMAE-- 58

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                 FF++SP     +  +           + + L R    I+D    +++I + +
Sbjct: 59  ------FFEISPMDLLPVKIDVKLQAVLDLRSELIDLVR---TINDPSQLERLIGVAK 107


>gi|47459180|ref|YP_016042.1| adenine-specific DNA methyltransferase [Mycoplasma mobile 163K]
 gi|47458509|gb|AAT27831.1| adenine-specific DNA methyltransferase [Mycoplasma mobile 163K]
          Length = 361

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 26/55 (47%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N G R++  R    +SQ++L E  GI  +Q+ + E G+       L  IS  L  
Sbjct: 7  NFGTRLKELRKSKQISQKELSESTGIVREQISRIENGLVNPTLDTLHKISLALNI 61


>gi|52079512|ref|YP_078303.1| putative transcriptional regulator [Bacillus licheniformis ATCC
          14580]
 gi|52784877|ref|YP_090706.1| hypothetical protein BLi01105 [Bacillus licheniformis ATCC 14580]
 gi|52002723|gb|AAU22665.1| putative transcriptional regulator [Bacillus licheniformis ATCC
          14580]
 gi|52347379|gb|AAU40013.1| putative protein [Bacillus licheniformis ATCC 14580]
          Length = 183

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/84 (17%), Positives = 34/84 (40%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N ++  V + I+  R I   S ++L    G++   + + EKG +    + L  I+  L+ 
Sbjct: 2  NSIEKQVAENIKRLRKIRNYSLDQLSSMTGVSKGMLAQIEKGSSSPTITTLWKIANGLQV 61

Query: 69 PISFFFDVSPTVCSDISSEENNVM 92
            +   +      + +   E   +
Sbjct: 62 SFTSLAERPAGEPTVVRKHEKTPV 85


>gi|134299415|ref|YP_001112911.1| cupin 2 domain-containing protein [Desulfotomaculum reducens MI-1]
 gi|134052115|gb|ABO50086.1| Cupin 2, conserved barrel domain protein [Desulfotomaculum reducens
           MI-1]
          Length = 180

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 42/92 (45%), Gaps = 1/92 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++R  R    M+ + L E  G++   + + E+G + +  + L+ I++ L   I+ FF  
Sbjct: 6   EKVRTLRNQKNMTLKDLSEKTGLSVSFLSQVERGTSSLAITSLKKIADALNVHIASFFAN 65

Query: 77  SPTVCSDISSEENNVMDFI-STPDGLQLNRYF 107
                    ++E        S+ + ++L+  F
Sbjct: 66  YSNTNFTTRADEQKSFKIEGSSTEYIRLSGEF 97


>gi|332981042|ref|YP_004462483.1| helix-turn-helix domain-containing protein [Mahella australiensis
          50-1 BON]
 gi|332698720|gb|AEE95661.1| helix-turn-helix domain protein [Mahella australiensis 50-1 BON]
          Length = 209

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/82 (18%), Positives = 35/82 (42%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK +   R    ++QE + E LG++ Q +  +E    +    +++ I  +LE  ++    
Sbjct: 5  GKLLMDLRNAKQLTQEDVAEKLGVSRQTISSWETNRTKPNYDQIKQICAILEVDMNTLLG 64

Query: 76 VSPTVCSDISSEENNVMDFIST 97
                   + + +N+   + T
Sbjct: 65 NGAGSNKKSAKQVSNIFPILVT 86


>gi|324990830|gb|EGC22765.1| transcriptional regulator [Streptococcus sanguinis SK353]
          Length = 136

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + K I + R    +SQEKL E +G++ Q + K+E G +         +++  +  + 
Sbjct: 2  ISKNIAILRKRENISQEKLAEEIGVSRQTIAKWEAGESVPDVIYSSQLADFFDVSLD 58


>gi|317056543|ref|YP_004105010.1| XRE family transcriptional regulator [Ruminococcus albus 7]
 gi|315448812|gb|ADU22376.1| transcriptional regulator, XRE family [Ruminococcus albus 7]
          Length = 63

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI+  R    ++Q++L   +G++ Q +   E             ++  L  P+   F
Sbjct: 3  NRIKELRKSQKLTQDELANAVGVSRQTINAIENDKYNPTLELAIKLARYLRIPVEDLF 60


>gi|293375349|ref|ZP_06621631.1| DNA-binding protein [Turicibacter sanguinis PC909]
 gi|292646105|gb|EFF64133.1| DNA-binding protein [Turicibacter sanguinis PC909]
          Length = 367

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 34/71 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          INVGK I L+R    ++Q++L + +G++   + K+E G +    + L  ++      I  
Sbjct: 4  INVGKMIILKRKEKKITQDELAKYIGVSKAAISKWETGQSYPDITLLPILAAYFNMSIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LIGYEPQMVKE 74


>gi|271499444|ref|YP_003332469.1| XRE family transcriptional regulator [Dickeya dadantii Ech586]
 gi|270342999|gb|ACZ75764.1| transcriptional regulator, XRE family [Dickeya dadantii Ech586]
          Length = 86

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 4/70 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R++  R+   ++QEKLG   GI       +V +YE G++R     +   ++VL  P  +
Sbjct: 4  ARLKTARLRADLTQEKLGVLAGIEEETARSRVSQYEGGIHRPTFEMMCAFAKVLNVPECY 63

Query: 73 FFDVSPTVCS 82
          F+ V+     
Sbjct: 64 FYTVNDDFAD 73


>gi|262171043|ref|ZP_06038721.1| transcriptional regulator YidN, Cro/CI family [Vibrio mimicus
           MB-451]
 gi|261892119|gb|EEY38105.1| transcriptional regulator YidN, Cro/CI family [Vibrio mimicus
           MB-451]
          Length = 217

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 36/78 (46%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +  ++++ R   G+S +   +  G++   + + E+G +    + L  I+  LE+  S F
Sbjct: 46  QIANQLKMLRKSKGLSLDATAQLTGVSKAMLGQIERGESSPTIATLWKIASGLEASFSAF 105

Query: 74  FDVSPTVCSDISSEENNV 91
           F   P + S   S  ++ 
Sbjct: 106 FANDPQLLSSERSFPDDP 123


>gi|297587718|ref|ZP_06946362.1| DNA-binding protein [Finegoldia magna ATCC 53516]
 gi|297574407|gb|EFH93127.1| DNA-binding protein [Finegoldia magna ATCC 53516]
          Length = 172

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 43/88 (48%), Gaps = 7/88 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + I+  R   G+SQE+L   + +  Q V K+E+G++   +  L  +SE+L + +S     
Sbjct: 4   ENIKSLRKSNGLSQEQLANEMHVVRQTVSKWERGLSVPDSDSLIKLSEILHTSVSVL--- 60

Query: 77  SPTVCSDISSEENNVMDFISTP-DGLQL 103
              +  ++   +   +D IS   + + L
Sbjct: 61  ---LGENVEETQQTELDKISEKLEEINL 85


>gi|162448051|ref|YP_001621183.1| XRE family transcriptional regulator [Acholeplasma laidlawii
          PG-8A]
 gi|161986158|gb|ABX81807.1| transcriptional regulator, XRE family [Acholeplasma laidlawii
          PG-8A]
          Length = 182

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 32/72 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++GK+IR  R+   ++QE+L   L +T   + + E  +       L  + EVL      
Sbjct: 2  IDIGKKIRALRLGNNLTQEELANRLELTKGYISQLENNLTSPSIQTLFSLLEVLGVETHE 61

Query: 73 FFDVSPTVCSDI 84
          FF       + I
Sbjct: 62 FFSKPEGEDAKI 73


>gi|154502378|ref|ZP_02039438.1| hypothetical protein RUMGNA_00191 [Ruminococcus gnavus ATCC 29149]
 gi|153797003|gb|EDN79423.1| hypothetical protein RUMGNA_00191 [Ruminococcus gnavus ATCC 29149]
          Length = 126

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 38/90 (42%), Gaps = 2/90 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R+   R  LG++ +K GE LG+    + K EK    +    ++ I         +  D
Sbjct: 4   GERVLEIRKALGLTMDKFGEKLGVQKSAISKIEKDRVNLSDQMVKLICREYNVNYDWLMD 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNR 105
               + SD+   +  + +  S  +   L+R
Sbjct: 64  GEGEMFSDL--PQTVLDELCSQYELDDLDR 91


>gi|110802551|ref|YP_699244.1| DNA-binding protein [Clostridium perfringens SM101]
 gi|110683052|gb|ABG86422.1| DNA-binding protein [Clostridium perfringens SM101]
          Length = 179

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 34/76 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +IR  R+   ++QE+L     ++   + + E  +     + L  I ++L + ++ 
Sbjct: 1  MEIGDKIRRLRVAKQLTQEELANRCELSKGFISQLENDLTSPSIATLIDILDILGTNLTE 60

Query: 73 FFDVSPTVCSDISSEE 88
          FF          S ++
Sbjct: 61 FFSEDTNEKIAFSKDD 76


>gi|323142495|ref|ZP_08077315.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
 gi|322413072|gb|EFY03971.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
          Length = 97

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/80 (30%), Positives = 37/80 (46%), Gaps = 4/80 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+RIRL R    ++Q  L + +GI+   +   E G   V    L  +  +LE  +S 
Sbjct: 6  KLIGRRIRLLRTAKNLTQTGLAKEMGISQTHLCNIECGRVPVTLPNLLKLHSLLECNMSS 65

Query: 73 FF----DVSPTVCSDISSEE 88
          FF    + +     DIS EE
Sbjct: 66 FFVDLDEQADAKDKDISLEE 85


>gi|303242620|ref|ZP_07329095.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
 gi|302589828|gb|EFL59601.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
          Length = 64

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          K++++ R+   +SQE+L E +G+T Q +   E G      +    I + L   ++  F
Sbjct: 4  KKMKIARIECDLSQEQLAEKVGVTRQTIGMIESGNYNPTLNLCIEICKALNKTLNDLF 61


>gi|269216039|ref|ZP_06159893.1| toxin-antitoxin system, antitoxin component, Xre family [Slackia
          exigua ATCC 700122]
 gi|269130298|gb|EEZ61376.1| toxin-antitoxin system, antitoxin component, Xre family [Slackia
          exigua ATCC 700122]
          Length = 139

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 31/71 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I + R   GMSQE+L E LG++ Q V K+E   +     +   ++++    +       
Sbjct: 6  KIIMLRKKAGMSQEQLAERLGVSRQSVSKWEGSQSMPDMDKAVKLADLFGLSLDSLIRDD 65

Query: 78 PTVCSDISSEE 88
            V   + +  
Sbjct: 66 LDVEDGVEAPS 76


>gi|256423763|ref|YP_003124416.1| XRE family transcriptional regulator [Chitinophaga pinensis DSM
           2588]
 gi|256038671|gb|ACU62215.1| transcriptional regulator, XRE family [Chitinophaga pinensis DSM
           2588]
          Length = 113

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/107 (18%), Positives = 44/107 (41%), Gaps = 5/107 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I  GKR+   R    +SQ+++ + +G+    + +YE+   +       +I+  LE  + +
Sbjct: 4   ITFGKRLTEVRKDKKLSQDEIAKKVGVHGAVIGRYERDEVKPSIEMAANIATALEVSLDY 63

Query: 73  FFDVSPTVCSDISSEENNVMDFIST---PDGLQLNRYFIQIDDVKVR 116
               +  +      +    +  +S     D  +L   F++  D K R
Sbjct: 64  LVGNTDLLLDQTILDRIMDIQKLSDQDKADAFKLLDMFLR--DAKAR 108


>gi|229083930|ref|ZP_04216233.1| Transcriptional regulator [Bacillus cereus Rock3-44]
 gi|228699365|gb|EEL52047.1| Transcriptional regulator [Bacillus cereus Rock3-44]
          Length = 80

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+ L ++Q++L E +G+T Q +   EKG          +I   L   ++  F
Sbjct: 17 SKIKVARVQLDLTQQQLAEKVGVTRQTISLIEKGKYNPSLELCLNICYALNQTLNDLF 74


>gi|218709348|ref|YP_002416969.1| putative transcriptional regulator [Vibrio splendidus LGP32]
 gi|218322367|emb|CAV18518.1| putative transcriptional regulator [Vibrio splendidus LGP32]
          Length = 101

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 34/61 (55%), Gaps = 4/61 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R    +SQ+ LGE +G+       ++ +YEKG +      L+ I++ L  P+++
Sbjct: 9  ERLKQARKKAKLSQKALGESIGMDASSASPRMNQYEKGKHAPDVQTLKLIADELGVPLNY 68

Query: 73 F 73
          F
Sbjct: 69 F 69


>gi|171778203|ref|ZP_02919432.1| hypothetical protein STRINF_00271 [Streptococcus infantarius
          subsp. infantarius ATCC BAA-102]
 gi|171283027|gb|EDT48451.1| hypothetical protein STRINF_00271 [Streptococcus infantarius
          subsp. infantarius ATCC BAA-102]
          Length = 184

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 27/61 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+   R    +SQE++ E L ++ Q + K+E+G      + L  ++   +  +      
Sbjct: 5  RRLAELRKEKNVSQEEIAEKLYVSRQTISKWERGKTYPDINSLLLMANYFDVSLDHLIKG 64

Query: 77 S 77
           
Sbjct: 65 D 65


>gi|170751194|ref|YP_001757454.1| XRE family transcriptional regulator [Methylobacterium
          radiotolerans JCM 2831]
 gi|170657716|gb|ACB26771.1| transcriptional regulator, XRE family [Methylobacterium
          radiotolerans JCM 2831]
          Length = 201

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 28/65 (43%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  +G ++R  R    +S   L    GI+   V K E G      + +  +++ L  P
Sbjct: 15 SLERALGHQVRALRRERELSVADLSAAAGISPGMVSKIENGQISPSLATVNAVAKALNVP 74

Query: 70 ISFFF 74
          I+  F
Sbjct: 75 ITTLF 79


>gi|46205131|ref|ZP_00209716.1| COG2932: Predicted transcriptional regulator [Magnetospirillum
          magnetotacticum MS-1]
          Length = 77

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 31/72 (43%), Gaps = 1/72 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR RR +LG++Q   G  +G+    +   E+G   +  ++L  I++       +  
Sbjct: 4  LGDRIRERRKLLGLNQTAFGTLVGLDQNTISDLERGKT-LETTKLHEIAQACGVSADWLI 62

Query: 75 DVSPTVCSDISS 86
            +        +
Sbjct: 63 GRTDDPKGGPPT 74


>gi|309778298|ref|ZP_07673226.1| DNA-binding protein [Erysipelotrichaceae bacterium 3_1_53]
 gi|308913930|gb|EFP59742.1| DNA-binding protein [Erysipelotrichaceae bacterium 3_1_53]
          Length = 373

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 31/75 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++GK++   R    M+QE+L   +G++   V K+E          L  ++ +    +  
Sbjct: 10 IHLGKKLISLRREANMTQEELATYMGVSKSSVSKWETETTLPDILLLPQLATLFNVSVDE 69

Query: 73 FFDVSPTVCSDISSE 87
               P +     +E
Sbjct: 70 LIGYEPQLSMKAVNE 84


>gi|256379464|ref|YP_003103124.1| XRE family transcriptional regulator [Actinosynnema mirum DSM
          43827]
 gi|255923767|gb|ACU39278.1| transcriptional regulator, XRE family [Actinosynnema mirum DSM
          43827]
          Length = 79

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 33/87 (37%), Gaps = 9/87 (10%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMIL-GMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          MV   ++ N         IR  R    GM+Q +L E +G+T Q V   E+G         
Sbjct: 1  MVKPTRVTNS--------IRSLRFARDGMTQAELAERVGVTRQTVIAIEQGRYSPSLEMA 52

Query: 60 QHISEVLESPISFFFDVSPTVCSDISS 86
            I+ V + P+   F        +  +
Sbjct: 53 FRIARVFKVPLDDVFHYPEGDVGEGET 79


>gi|229166202|ref|ZP_04293962.1| Helix-turn-helix repressor protein [Bacillus cereus AH621]
 gi|228617300|gb|EEK74365.1| Helix-turn-helix repressor protein [Bacillus cereus AH621]
          Length = 71

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIEHVF 60


>gi|167749383|ref|ZP_02421510.1| hypothetical protein EUBSIR_00335 [Eubacterium siraeum DSM 15702]
 gi|167657664|gb|EDS01794.1| hypothetical protein EUBSIR_00335 [Eubacterium siraeum DSM 15702]
 gi|291556256|emb|CBL33373.1| Predicted transcriptional regulators [Eubacterium siraeum
          V10Sc8a]
          Length = 108

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI  RR  LG+ Q ++ E + + ++ +   E G +      +  +  VL +   +F 
Sbjct: 8  LGKRIAKRRKELGLKQYEVCELIDVNYKYLSNIETGRSAPSLELIMSLCSVLNTTPDYFL 67

Query: 75 DVSPTVC---SDISSEENNVMD 93
            + +     +DI+S+   + D
Sbjct: 68 LGTASAELYDNDIASKITPMTD 89


>gi|158522991|ref|YP_001530861.1| helix-turn-helix domain-containing protein [Desulfococcus
          oleovorans Hxd3]
 gi|158511817|gb|ABW68784.1| helix-turn-helix domain protein [Desulfococcus oleovorans Hxd3]
          Length = 387

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 28/66 (42%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+ IR  R   G +  +L   +G+    + + E+G N   A+ +  +S  L   +   
Sbjct: 10 FIGRNIRKLRRQRGWTISRLAGEIGMAEIPLGRIERGGNAPSAAVIFQLSRALGVSVDTL 69

Query: 74 FDVSPT 79
          F    +
Sbjct: 70 FAEDES 75


>gi|5758923|gb|AAD50896.1|AF169189_1 434-GCN4-linker [Cloning vector pLS3]
          Length = 138

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 35/68 (51%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  R++ +R+ LG++Q +L + +G T Q +++ E G  +     L  ++  L   + +
Sbjct: 1  MSISSRVKSKRIQLGLNQAELAQKVGTTQQSIEQLENGKTK-RPRFLPELASALGVSVDW 59

Query: 73 FFDVSPTV 80
            + +   
Sbjct: 60 LLNGTSDS 67


>gi|332671809|ref|YP_004454817.1| helix-turn-helix domain-containing protein [Cellulomonas fimi ATCC
           484]
 gi|332340847|gb|AEE47430.1| helix-turn-helix domain protein [Cellulomonas fimi ATCC 484]
          Length = 221

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 34/81 (41%), Gaps = 3/81 (3%)

Query: 2   VGNKKIPNPVDIN---VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
            G++  P  V+     VG R+R  R   G++  ++ +  G++   + + E G  R     
Sbjct: 20  AGDRLRPTDVEAALEGVGSRLRALRQDRGLTLAQVADATGVSLSTLSRLESGGRRPTLEL 79

Query: 59  LQHISEVLESPISFFFDVSPT 79
           L  ++   + P+    D   T
Sbjct: 80  LLPLAREYQVPLDELVDAPAT 100


>gi|300172531|ref|YP_003771696.1| XRE family transcriptional regulator [Leuconostoc gasicomitatum
          LMG 18811]
 gi|299886909|emb|CBL90877.1| Transcriptional regulator, helix-turn-helix XRE-family
          [Leuconostoc gasicomitatum LMG 18811]
          Length = 132

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 35/82 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++  R  L MSQE + + L ++ Q V ++E G      + L  ++E+ +  +      
Sbjct: 7  NQLKKYRSDLNMSQEDVADKLFVSRQAVSRWESGDATPDLTNLIKLTEIFKCSLDSLVLG 66

Query: 77 SPTVCSDISSEENNVMDFISTP 98
               S   + E +  +F   P
Sbjct: 67 IEETPSKSGTPEIDSSEFTFDP 88


>gi|257485767|ref|ZP_05639808.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           tabaci ATCC 11528]
 gi|302130289|ref|ZP_07256279.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           tomato NCPPB 1108]
 gi|331012863|gb|EGH92919.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           tabaci ATCC 11528]
          Length = 131

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 42/107 (39%), Gaps = 8/107 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG +I+  R    +SQ  L E +G     + +YE+G+   G  +L  I+ +         
Sbjct: 18  VGAKIKALRKSSTLSQADLAEKIGCEAPLIGRYERGITLPGIEQLIRIATIFNVAPGELL 77

Query: 75  DVSPTVC--------SDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
                V          ++S + N V    S  + ++L   FI  ++ 
Sbjct: 78  PGGQDVLRTRLISLRQELSEKINQVDSPESLEEIIRLTDKFIAYNNP 124


>gi|38232718|ref|NP_938485.1| putative regulatory protein [Corynebacterium diphtheriae NCTC
          13129]
 gi|38198976|emb|CAE48592.1| Putative regulatory protein [Corynebacterium diphtheriae]
          Length = 99

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 32/78 (41%), Gaps = 4/78 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   KK    ++  +  RIR+ R    MS+ +L E + +  Q +   E+G +        
Sbjct: 13 MSPKKK----LERTIYNRIRVLRTERDMSRAQLAELVDVNPQTIGALERGDHSPSLDLAL 68

Query: 61 HISEVLESPISFFFDVSP 78
           I +V   PI   F   P
Sbjct: 69 RICDVFNLPIEAIFSRIP 86


>gi|329729091|gb|EGG65502.1| DNA-binding helix-turn-helix protein [Staphylococcus epidermidis
          VCU144]
          Length = 175

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/78 (17%), Positives = 32/78 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  I+  R    ++Q +L   L I+   +   E     +G   ++ I++ L   +++
Sbjct: 1  MNIGDNIKKIRKEKKVTQSELASSLKISQSYLSDLENNRKNLGIKTIEKIAKKLNVSVAY 60

Query: 73 FFDVSPTVCSDISSEENN 90
              +  +      E N 
Sbjct: 61 LTSGNKMLSDLTEDEINE 78


>gi|309388333|gb|ADO76213.1| transcriptional regulator, XRE family [Halanaerobium praevalens
          DSM 2228]
          Length = 375

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 25/57 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          KR++  R    +SQ+KL E LG     +  YE+ +       +  I++     + + 
Sbjct: 6  KRLKNIRNQHNLSQKKLAEELGYARTTISNYEQNIRIPSLQTITEIADYFNVSVDYL 62


>gi|300723769|ref|YP_003713076.1| putative Cryptic phage CTXphi transcriptional repressor rstR
          [Xenorhabdus nematophila ATCC 19061]
 gi|300723780|ref|YP_003713087.1| putative Cryptic phage CTXphi transcriptional repressor rstR
          [Xenorhabdus nematophila ATCC 19061]
 gi|297630293|emb|CBJ90947.1| putative Cryptic phage CTXphi transcriptional repressor rstR
          [Xenorhabdus nematophila ATCC 19061]
 gi|297630304|emb|CBJ90958.1| putative Cryptic phage CTXphi transcriptional repressor rstR
          [Xenorhabdus nematophila ATCC 19061]
          Length = 123

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 12/83 (14%), Positives = 33/83 (39%), Gaps = 1/83 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-FFDV 76
          ++   R  LG +Q+++ + +G+   Q ++YE G ++      + I+  L        F+ 
Sbjct: 16 KLAASRKELGFTQQQMADKIGMHVSQYKRYEAGTSQPTIDVFRRIALALNVSADMLLFEP 75

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
                +    +   +  +   +
Sbjct: 76 DERGPDERLKLQFEAISQLDEKE 98


>gi|260868456|ref|YP_003234858.1| putative phage repressor protein CI [Escherichia coli O111:H- str.
           11128]
 gi|257764812|dbj|BAI36307.1| putative phage repressor protein CI [Escherichia coli O111:H- str.
           11128]
          Length = 229

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 28/110 (25%), Positives = 47/110 (42%), Gaps = 3/110 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RI +     G SQ +L   LG++ Q VQ +  G     + +L  +S +   P S+F   
Sbjct: 9   NRIAMMLKTKGWSQAELARKLGVSAQSVQYWTTGKTFPRSDKLAQLSVISGYPQSWFLGE 68

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             +     + + +   D +       L+  F   D   VR  +I++VRSI
Sbjct: 69  DASSTFSSAEKHHTREDSVVFN---VLDVEFSCGDGTHVRGDLIDVVRSI 115


>gi|228940374|ref|ZP_04102945.1| hypothetical protein bthur0008_30230 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|228973291|ref|ZP_04133880.1| hypothetical protein bthur0003_30510 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228979854|ref|ZP_04140175.1| hypothetical protein bthur0002_30270 [Bacillus thuringiensis
          Bt407]
 gi|228779869|gb|EEM28115.1| hypothetical protein bthur0002_30270 [Bacillus thuringiensis
          Bt407]
 gi|228786487|gb|EEM34477.1| hypothetical protein bthur0003_30510 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228819500|gb|EEM65554.1| hypothetical protein bthur0008_30230 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|326941011|gb|AEA16907.1| transcriptional repressor [Bacillus thuringiensis serovar
          chinensis CT-43]
          Length = 374

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  IHIHKIIANKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
              +P +  +
Sbjct: 64 LISYTPQMEQE 74


>gi|269957018|ref|YP_003326807.1| XRE family transcriptional regulator [Xylanimonas cellulosilytica
           DSM 15894]
 gi|269305699|gb|ACZ31249.1| transcriptional regulator, XRE family [Xylanimonas cellulosilytica
           DSM 15894]
          Length = 190

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/112 (19%), Positives = 40/112 (35%), Gaps = 16/112 (14%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           NVG R+R  R  L ++   L E  G+T   + + E+   R    +L  ++ V   P+   
Sbjct: 10  NVGPRLRAFRQALRLTLSDLAEQTGLTSSTISRLERSQIRPTLEQLLPLARVYGVPLD-- 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLN---------RYFIQIDDVKVR 116
                 + +  +  +  V       DGL            + +  I   + R
Sbjct: 68  -----ELVAAPAHGDPRVHLRPIRRDGLTFVPLGINRGQLQAYKVIYPPESR 114


>gi|226307935|ref|YP_002767895.1| Xre family DNA-binding protein [Rhodococcus erythropolis PR4]
 gi|226187052|dbj|BAH35156.1| putative Xre family DNA-binding protein [Rhodococcus erythropolis
          PR4]
          Length = 196

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 1/80 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DVS 77
          +R  R   G++ E L E  G+T   + K E+G++    +    I+ VL++ +   F D  
Sbjct: 5  LRTHRRRAGLTLEGLAEQTGLTKSYLSKVERGISTPSIAVALKIARVLDADVGQLFSDSM 64

Query: 78 PTVCSDISSEENNVMDFIST 97
                I   ++ V+D  S+
Sbjct: 65 EGNAMTIVRAKDRVIDPASS 84


>gi|210615069|ref|ZP_03290438.1| hypothetical protein CLONEX_02652 [Clostridium nexile DSM 1787]
 gi|210150452|gb|EEA81461.1| hypothetical protein CLONEX_02652 [Clostridium nexile DSM 1787]
          Length = 179

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R+   ++QE+L     ++   + + E+ +     + L  I + L + ++ 
Sbjct: 1  MNIGNKIKELRIEKNLTQEELANRAELSKGFISQLERNLTSPSIATLIDILQCLGTNLTE 60

Query: 73 FFDVSPTV 80
          FF      
Sbjct: 61 FFAEESDE 68


>gi|197285395|ref|YP_002151267.1| regulatory protein [Proteus mirabilis HI4320]
 gi|227355829|ref|ZP_03840222.1| repressor of rdgA and rdgB [Proteus mirabilis ATCC 29906]
 gi|194682882|emb|CAR43223.1| regulatory protein [Proteus mirabilis HI4320]
 gi|227164148|gb|EEI49045.1| repressor of rdgA and rdgB [Proteus mirabilis ATCC 29906]
          Length = 230

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 35/78 (44%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ KR + +R+ LG++Q +L    G T Q +++ E G  +     L  +++ L   +S+
Sbjct: 1  MSIAKRTKDKRIALGLTQSELATLAGTTQQSIEQLESGKTK-RPRFLPELAKALNCELSW 59

Query: 73 FFDVSPTVCSDISSEENN 90
            +              +
Sbjct: 60 LLEGDNKQTHASEIPPQD 77


>gi|197284430|ref|YP_002150302.1| fimbrial operon regulator [Proteus mirabilis HI4320]
 gi|194681917|emb|CAR41287.1| fimbrial operon regulator [Proteus mirabilis HI4320]
          Length = 101

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 27/58 (46%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++  +  RI  +R  LGM+  ++   L I+ Q   + E G  ++    L  I+ +L  
Sbjct: 4  INSIIAYRIMQKRKELGMTGREIAHSLEISQQHYSRIENGHTKITVEHLFSIAFILGV 61


>gi|160878668|ref|YP_001557636.1| XRE family transcriptional regulator [Clostridium phytofermentans
           ISDg]
 gi|160427334|gb|ABX40897.1| transcriptional regulator, XRE family [Clostridium phytofermentans
           ISDg]
          Length = 114

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/90 (20%), Positives = 34/90 (37%), Gaps = 1/90 (1%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R    ++Q +L E LG+    V  YE   N     +L  +S   +    +   +S
Sbjct: 6   RLKQLRQKHKLTQSELAEILGLKPTAVSNYESRRNEPSFEKLIALSRYFDVSCDYLLGIS 65

Query: 78  PTVCSDISSE-ENNVMDFISTPDGLQLNRY 106
                      + +++DF +    L  N  
Sbjct: 66  DAYLPVGGEVLDKDIVDFFNLYQQLDSNNA 95


>gi|148977928|ref|ZP_01814481.1| putative transcriptional regulator [Vibrionales bacterium SWAT-3]
 gi|145962874|gb|EDK28146.1| putative transcriptional regulator [Vibrionales bacterium SWAT-3]
          Length = 100

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/102 (22%), Positives = 46/102 (45%), Gaps = 9/102 (8%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQK----YEKGVNRVGASRLQHISEVLE 67
           D  +  R++  R    ++Q+ LG  +G+           YEKG +      L+ ++E L+
Sbjct: 4   DNPIPARLKAARKKAKITQKDLGVKIGMEQSSASGRMNHYEKGRHVPDIGTLERMAEELD 63

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
            P+++FF       S++S+E    +D +S  +   L     +
Sbjct: 64  VPLNYFF-----CRSELSAELACAIDKMSDEEKAVLLENLNK 100


>gi|146298916|ref|YP_001193507.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
           UW101]
 gi|146153334|gb|ABQ04188.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
           UW101]
          Length = 129

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 28/130 (21%), Positives = 53/130 (40%), Gaps = 16/130 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP---I 70
           ++G++I   R +  M QE L   LG++ Q +   E     V   +L+ I+EVL      I
Sbjct: 9   HIGRKISRIRELRDMKQEALAYALGMSQQSISIIENSET-VDEEKLKAIAEVLGVSAEGI 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
             F + +       +  ++NV++             +    +     K++EL   +V +E
Sbjct: 68  KNFSEEAVLNIIGNTYHDSNVVN----------GNAYSC--NFNPLDKMVELFERLVQAE 115

Query: 131 KKYRTIEEEC 140
           K      E+ 
Sbjct: 116 KDKVEYLEKL 125


>gi|325688485|gb|EGD30502.1| XRE family transcriptional regulator [Streptococcus sanguinis SK72]
          Length = 150

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 28/125 (22%), Positives = 55/125 (44%), Gaps = 10/125 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+RI+  R+  G +Q +L E L ++   V K+E   N      L++++ +      +  
Sbjct: 4   VGERIKKLRIAQGFTQARLAEILHVSKAAVCKWESNTNLPKVMELKNMNSLFHVSADYLL 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            ++     +  S E  +           +  YF Q++  + +Q  I+ V S   +E++  
Sbjct: 64  GLANRSAIEQLSSEKKLE---------AMAGYFHQLESPERQQACIDFVIS-QFNEQEAV 113

Query: 135 TIEEE 139
            IE E
Sbjct: 114 KIEAE 118


>gi|291282703|ref|YP_003499521.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Escherichia coli O55:H7 str. CB9615]
 gi|290762576|gb|ADD56537.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Escherichia coli O55:H7 str. CB9615]
          Length = 238

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/41 (36%), Positives = 27/41 (65%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG 55
          + +RIR RR  +G++QE++ + +GIT   V K+E G ++  
Sbjct: 19 ISERIRNRRKDVGLTQEQVAKAIGITRVSVTKWENGSSKPD 59


>gi|224540895|ref|ZP_03681434.1| hypothetical protein CATMIT_00038 [Catenibacterium mitsuokai DSM
           15897]
 gi|224526193|gb|EEF95298.1| hypothetical protein CATMIT_00038 [Catenibacterium mitsuokai DSM
           15897]
          Length = 117

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 29/56 (51%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
             +G  I+  RM   M+QE + E LG++ Q V K+E G +    + L  ++ + + 
Sbjct: 52  KTLGGVIKKHRMECQMTQEFVAETLGVSRQAVSKWENGSSDPSTTNLIALASLFDI 107


>gi|220914255|ref|YP_002489564.1| XRE family transcriptional regulator [Arthrobacter chlorophenolicus
           A6]
 gi|219861133|gb|ACL41475.1| transcriptional regulator, XRE family [Arthrobacter
           chlorophenolicus A6]
          Length = 210

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/75 (17%), Positives = 32/75 (42%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +  ++R  R   G+S  +L    G++   + + E        + LQ +++ L+ P++  F
Sbjct: 32  IAAQVRHYRTAAGLSSAELAARTGLSKAMISRVETATTSCSLTTLQRLADGLKVPVTALF 91

Query: 75  DVSPTVCSDISSEEN 89
             + T      ++  
Sbjct: 92  RGADTDRDATFTKSG 106


>gi|217973784|ref|YP_002358535.1| putative phage repressor [Shewanella baltica OS223]
 gi|217498919|gb|ACK47112.1| putative phage repressor [Shewanella baltica OS223]
          Length = 243

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 34/77 (44%), Gaps = 3/77 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGAS--RLQHISEVLESPISF 72
          GKRI  RR  LG+SQ+ + + +GI    V  +E  G N        L  ++E+L+    +
Sbjct: 6  GKRIAERRKELGLSQDVVAKYVGINRVSVSNWETDGKNGTSPKGANLIALAELLKCTPEW 65

Query: 73 FFDVSPTVCSDISSEEN 89
            +         + E N
Sbjct: 66 LLNGEDEALKTENRESN 82


>gi|17158094|ref|NP_478090.1| hypothetical protein pTET3_p18 [Corynebacterium glutamicum]
 gi|17059613|emb|CAD12221.1| hypothetical protein [Corynebacterium glutamicum]
          Length = 81

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 4/69 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +KK    + I +G RIR  R  LG+SQE+L    G+    V   E+G   +    L 
Sbjct: 1  MTPDKK----ILIQLGGRIRDVRKSLGISQEELAHLSGMHRTYVSSVERGERNISVLNLL 56

Query: 61 HISEVLESP 69
           ++ VL   
Sbjct: 57 SLAGVLGVD 65


>gi|332652423|ref|ZP_08418168.1| putative helix-turn-helix domain containing protein
          [Ruminococcaceae bacterium D16]
 gi|332517569|gb|EGJ47172.1| putative helix-turn-helix domain containing protein
          [Ruminococcaceae bacterium D16]
          Length = 75

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 2/66 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN--RVGASRLQHISEVLESPI 70
          I  G +++  R + GM+QE   + +G ++  V K E       V    +  I+EVLE P+
Sbjct: 10 IRFGLKVQYYRKLHGMTQEAFADAIGKSWSFVAKVESPTRPFGVSMETIFKIAEVLEIPV 69

Query: 71 SFFFDV 76
          S  F+ 
Sbjct: 70 SKLFED 75


>gi|289664753|ref|ZP_06486334.1| putative DNA binding protein [Xanthomonas campestris pv.
          vasculorum NCPPB702]
 gi|289669222|ref|ZP_06490297.1| putative DNA binding protein [Xanthomonas campestris pv.
          musacearum NCPPB4381]
          Length = 66

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G SQ +LGE LG++ Q +   E G           I+ +    I   F
Sbjct: 3  SRVRELREASGWSQGELGERLGVSRQTINALETGKYDPSLPLAFRIARLFGESIEHVF 60


>gi|283768814|ref|ZP_06341725.1| DNA-binding protein [Bulleidia extructa W1219]
 gi|283104600|gb|EFC05973.1| DNA-binding protein [Bulleidia extructa W1219]
          Length = 331

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 32/73 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I   R   G SQE+L + L ++ Q V K+E   +    +++  +S+V      +     
Sbjct: 6  KIITLRKKNGWSQEELADQLEVSRQSVSKWEGAQSIPDMNKILKLSKVFGVSTDYLLKDE 65

Query: 78 PTVCSDISSEENN 90
            +  + +  E +
Sbjct: 66 IVIAENETQPETD 78


>gi|229020917|ref|ZP_04177610.1| HTH-type transcriptional regulator sinR [Bacillus cereus AH1273]
 gi|229022840|ref|ZP_04179361.1| HTH-type transcriptional regulator sinR [Bacillus cereus AH1272]
 gi|228738451|gb|EEL88926.1| HTH-type transcriptional regulator sinR [Bacillus cereus AH1272]
 gi|228740379|gb|EEL90684.1| HTH-type transcriptional regulator sinR [Bacillus cereus AH1273]
          Length = 107

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 40/85 (47%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE-ENNVMDFIST 97
               T  S + SE    V D +S+
Sbjct: 62 LHDETTTESHLDSEWTQLVKDAMSS 86


>gi|228477619|ref|ZP_04062252.1| conserved domain protein [Streptococcus salivarius SK126]
 gi|228250763|gb|EEK09961.1| conserved domain protein [Streptococcus salivarius SK126]
          Length = 69

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 28/56 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R  LG+SQ +L + +G++ Q +   E            ++++ L++ ++  F
Sbjct: 4  VREFRKNLGLSQLELAKSIGVSRQTINMIENNKYNPTLELCLNLAKALDTDLNSLF 59


>gi|188584169|ref|YP_001927614.1| XRE family transcriptional regulator [Methylobacterium populi
           BJ001]
 gi|179347667|gb|ACB83079.1| transcriptional regulator, XRE family [Methylobacterium populi
           BJ001]
          Length = 209

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 46/113 (40%), Gaps = 14/113 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK I+  R    +S  +L E  G+    + + E+       + +  +S+ L+  I   
Sbjct: 26  QLGKTIQRLRKAYNLSLSELAEQSGVAKSIISQIERNETNPTLATIWRLSQALDVSI--- 82

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                      +S+E   ++  S  D  +L       DD KVR  II  ++++
Sbjct: 83  ------ERVLATSDEEPFIERFSRADTPRLVS-----DDGKVRLAIIGWIKTV 124


>gi|169832395|ref|YP_001695343.1| transcriptional activator [Streptococcus pneumoniae Hungary19A-6]
 gi|168994897|gb|ACA35509.1| transcriptional activator [Streptococcus pneumoniae Hungary19A-6]
          Length = 299

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 36/71 (50%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+  G+T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQGLTVRQLSRIESGASQPSLPKLAYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|168211008|ref|ZP_02636633.1| LexA repressor [Clostridium perfringens B str. ATCC 3626]
 gi|170710935|gb|EDT23117.1| LexA repressor [Clostridium perfringens B str. ATCC 3626]
          Length = 330

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/129 (19%), Positives = 54/129 (41%), Gaps = 4/129 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            I+  R    +SQ +L E LG+    +  YE+         L  +S+++   I     ++
Sbjct: 12  NIKEFRKKNKLSQAELAEKLGVARTTIGYYERAEVEPNIYTLVQLSKLMNRSIDSLLGLN 71

Query: 78  PTVC--SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR--QKIIELVRSIVSSEKKY 133
            +    +D+++ + +   FI      + N+ F +++  K+R  +   EL R+   +E   
Sbjct: 72  HSTENTNDLNNSDLSKKIFILNKLIEKNNQSFKELESSKLRTERMFNELKRTRNRAENDI 131

Query: 134 RTIEEECMV 142
           +   E    
Sbjct: 132 KLFRELSKE 140


>gi|26988956|ref|NP_744381.1| Cro/CI family transcriptional regulator [Pseudomonas putida
          KT2440]
 gi|24983771|gb|AAN67845.1|AE016415_10 transcriptional regulator, Cro/CI family [Pseudomonas putida
          KT2440]
          Length = 177

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 25/55 (45%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +V   +R  R   G+SQ  L E  G++ + +   E G   V  + L  I+E L  
Sbjct: 4  HVSLNVRSLRNAAGLSQAALAERSGVSRRMLVAIEAGEKNVSLTTLDLIAEALGV 58


>gi|192360811|ref|YP_001984256.1| Helix-turn-helix domain-containing protein [Cellvibrio japonicus
          Ueda107]
 gi|190686976|gb|ACE84654.1| Helix-turn-helix domain protein [Cellvibrio japonicus Ueda107]
          Length = 152

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 33/65 (50%), Gaps = 1/65 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R+  G SQE+L E  G++ + +Q+ E+G  + G   ++ ++ V E   + F   + 
Sbjct: 3  VRKLRLQRGWSQEQLAELTGLSIRTIQRIERGS-KPGLETIKSLASVFEVDPATFESGAD 61

Query: 79 TVCSD 83
           +   
Sbjct: 62 DMSEQ 66


>gi|168212348|ref|ZP_02637973.1| DNA-binding protein [Clostridium perfringens CPE str. F4969]
 gi|170716147|gb|EDT28329.1| DNA-binding protein [Clostridium perfringens CPE str. F4969]
          Length = 348

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 30/53 (56%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I+ +R   G++QE++   LG++   V K+EKG      + L  ++ +L+  ++
Sbjct: 7  IKEKRNAQGLTQEQVAMYLGVSTPAVNKWEKGTCYPDITLLPALARLLKVDLN 59


>gi|153932210|ref|YP_001385236.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|152928254|gb|ABS33754.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
          Length = 92

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R++  R    ++QE+LG+ L ++ Q +  YE        + L  ++ +    + + 
Sbjct: 3  GDRLKELREEKQLTQEELGKFLNVSRQAISSYESEETEPSINNLIKLANIFNISLDYL 60


>gi|153811887|ref|ZP_01964555.1| hypothetical protein RUMOBE_02280 [Ruminococcus obeum ATCC 29174]
 gi|149832021|gb|EDM87106.1| hypothetical protein RUMOBE_02280 [Ruminococcus obeum ATCC 29174]
          Length = 122

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 28/62 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R   G+ QE L   LGIT Q + KYE+ V  +    L+ I+        +   +
Sbjct: 3  SRIKQLREKRGLIQEILAAELGITQQMLSKYERDVTFIKVDILKKIAVYFNVTTDYLLGL 62

Query: 77 SP 78
          S 
Sbjct: 63 SE 64


>gi|126699658|ref|YP_001088555.1| putative regulatory protein [Clostridium difficile 630]
 gi|255101172|ref|ZP_05330149.1| putative regulatory protein [Clostridium difficile QCD-63q42]
 gi|115251095|emb|CAJ68926.1| Transcriptional regulator, HTH-type [Clostridium difficile]
          Length = 120

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/111 (20%), Positives = 45/111 (40%), Gaps = 15/111 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI++ R+  G++QE +   + +T   +   E G  +V    L  I+  L   +    
Sbjct: 8   IGQRIKIARIKKGITQESVANIINMTPSHMSNVETGKTKVSLPTLIAIANALSVSVDTL- 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
            +   V S     E    D  S  D  ++             + ++EL++S
Sbjct: 67  -LCDNVLSSKVIFEKEAKDIFSDCDEYEI-------------RSLVELLKS 103


>gi|70734303|ref|YP_257943.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
 gi|68348602|gb|AAY96208.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
          Length = 209

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 35/87 (40%), Gaps = 2/87 (2%)

Query: 3  GNKKIPNP-VDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +    +P +D   VG R+R  R    ++ ++L E  G+    + K E     V   +L 
Sbjct: 9  ASSSHAHPLIDRTQVGARLRTIRKNQKLTLKQLSERSGVALSTLSKMELAQVSVSYEKLA 68

Query: 61 HISEVLESPISFFFDVSPTVCSDISSE 87
            +  L   I+  F  +P +     ++
Sbjct: 69 AAARALGVDIARLFTPAPNLIQTGGAQ 95


>gi|70729981|ref|YP_259721.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
 gi|68344280|gb|AAY91886.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
          Length = 187

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 33/93 (35%), Gaps = 1/93 (1%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +V   +R  R   G+SQ  L E   ++ + +   E G   V    L  ++E L+   S  
Sbjct: 14  HVSLNVRRLRNAAGLSQSALAEKSNVSRRMLVAIEAGEKNVSLGTLDRVAEALDVAFSDL 73

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                +  S   +E         +   L L + 
Sbjct: 74  IQAPESRDSSRINELAWAGAIPGSK-ALLLAKA 105


>gi|85711364|ref|ZP_01042423.1| putative DNA-binding protein [Idiomarina baltica OS145]
 gi|85694865|gb|EAQ32804.1| putative DNA-binding protein [Idiomarina baltica OS145]
          Length = 174

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/124 (12%), Positives = 43/124 (34%), Gaps = 15/124 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V +R++  R   G S     E  G++   + + E+  +    + L  ++      +S+  
Sbjct: 8   VARRLKKLRKDKGWSLTACAEHTGVSKAMLGQIERQESSPTLATLWKLATGFNVSLSWLL 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
           +           ++    DF      ++    F    D + +Q++ +L   +    + + 
Sbjct: 68  ND---------EQQPMTFDFAHERIQVERLLAF----DPQTQQEVYKL--CMAEGAQSHS 112

Query: 135 TIEE 138
               
Sbjct: 113 DAHR 116


>gi|116495520|ref|YP_807254.1| XRE family transcriptional regulator [Lactobacillus casei ATCC
          334]
 gi|191638999|ref|YP_001988165.1| Transcriptional regulator, xre family [Lactobacillus casei BL23]
 gi|227533926|ref|ZP_03963975.1| XRE family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
 gi|239629921|ref|ZP_04672952.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|301067057|ref|YP_003789080.1| XRE family transcriptional regulator [Lactobacillus casei str.
          Zhang]
 gi|116105670|gb|ABJ70812.1| Transcriptional regulator, xre family [Lactobacillus casei ATCC
          334]
 gi|190713301|emb|CAQ67307.1| Transcriptional regulator, xre family [Lactobacillus casei BL23]
 gi|227188441|gb|EEI68508.1| XRE family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
 gi|239527533|gb|EEQ66534.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|300439464|gb|ADK19230.1| Transcriptional regulator, xre family [Lactobacillus casei str.
          Zhang]
 gi|327383053|gb|AEA54529.1| DNA-binding protein [Lactobacillus casei LC2W]
 gi|327386239|gb|AEA57713.1| DNA-binding protein [Lactobacillus casei BD-II]
          Length = 103

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISF 72
          N+GK +  +R  L ++ EKL E  G++   + + E+G VN +   +L  I+  L   +  
Sbjct: 4  NIGKLVHQQRRSLNLTIEKLAERSGVSISLISRMERGDVNNISIKKLTDIARALNMQVGD 63

Query: 73 FF 74
          FF
Sbjct: 64 FF 65


>gi|319936291|ref|ZP_08010709.1| hypothetical protein HMPREF9488_01542 [Coprobacillus sp. 29_1]
 gi|319808667|gb|EFW05211.1| hypothetical protein HMPREF9488_01542 [Coprobacillus sp. 29_1]
          Length = 142

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 5/66 (7%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQ-----VQKYEKGVNRVGASRLQHISEVLE 67
          +N+GKRI+  RM+ GM QE+L   +G+ + +     + +YE G        L+ ISE L 
Sbjct: 1  MNIGKRIKYVRMLRGMRQEELAGKVGLGYNENGRTRISQYENGKRTPKEDMLEKISEALN 60

Query: 68 SPISFF 73
              + 
Sbjct: 61 VESYYL 66


>gi|302529249|ref|ZP_07281591.1| helix-turn-helix domain-containing protein [Streptomyces sp. AA4]
 gi|302438144|gb|EFL09960.1| helix-turn-helix domain-containing protein [Streptomyces sp. AA4]
          Length = 79

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 28/62 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI + R   G+S+ +L + LG+ +Q +   E+G           I+E  E  +   F  
Sbjct: 7  NRIAVLRAERGISRRQLADALGVHYQTIGYLERGEYSPSLYLALRIAEFFEVAVEVLFST 66

Query: 77 SP 78
          +P
Sbjct: 67 AP 68


>gi|288942496|ref|YP_003444736.1| XRE family transcriptional regulator [Allochromatium vinosum DSM
           180]
 gi|288897868|gb|ADC63704.1| transcriptional regulator, XRE family [Allochromatium vinosum DSM
           180]
          Length = 132

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/126 (19%), Positives = 51/126 (40%), Gaps = 17/126 (13%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQ 60
           + N KI   +   +G+R+R  R    +S   L      ++  ++  YE+G+ R+G     
Sbjct: 1   MHNIKITMDLTKRIGQRLRSARHEQKLSLADLSARTNSLSKSRISNYEQGIRRMGLEEAH 60

Query: 61  HISEVLE-SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
            +S  L     ++   +                  +S  + L+L  +F +  D + R+ +
Sbjct: 61  ELSVALGTVTPTYLLCLDDRG-------------PLSDRE-LELIDHFRR-TDERGRETL 105

Query: 120 IELVRS 125
           + L RS
Sbjct: 106 LSLARS 111


>gi|94310168|ref|YP_583378.1| anaerobic benzoate catabolism transcriptional regulator
          [Cupriavidus metallidurans CH34]
 gi|93354020|gb|ABF08109.1| transcriptional regulator, XRE family with shikimate kinase
          activity [Cupriavidus metallidurans CH34]
          Length = 316

 Score = 55.6 bits (133), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 30/62 (48%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +P   ++G+RIR  R   GMS++ L     ++ + +   E G        L+ ++  L+ 
Sbjct: 24 DPYLTHLGERIRSLRAARGMSRKDLARGADVSERYLANLETGTGNASVLLLRQVANALDV 83

Query: 69 PI 70
          P+
Sbjct: 84 PL 85


>gi|295110810|emb|CBL24763.1| Helix-turn-helix. [Ruminococcus obeum A2-162]
          Length = 71

 Score = 55.6 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/62 (32%), Positives = 28/62 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R   G+ QE L   LGIT Q + KYE+ V  +    L+ I+        +   V
Sbjct: 3  SRIKQLREKRGLIQEILAAELGITQQMLSKYERDVTLIKVDILKKIATYFNVTTDYLLGV 62

Query: 77 SP 78
          S 
Sbjct: 63 SD 64


>gi|320007854|gb|ADW02704.1| transcriptional regulator, XRE family [Streptomyces flavogriseus
          ATCC 33331]
          Length = 509

 Score = 55.6 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 27/56 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK IR  R   G +Q +L E L  +   V + E+G   +    +  I E L+S I
Sbjct: 9  IGKLIRDARQHRGWTQSQLAEALATSQSAVNRIERGNQNISLEMIARIGEALDSEI 64


>gi|258621267|ref|ZP_05716301.1| transcriptional regulator, HTH_3 family [Vibrio mimicus VM573]
 gi|258586655|gb|EEW11370.1| transcriptional regulator, HTH_3 family [Vibrio mimicus VM573]
          Length = 211

 Score = 55.6 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 36/78 (46%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +  ++++ R   G+S +   +  G++   + + E+G +    + L  I+  LE+  S F
Sbjct: 40  QIANQLKMLRKSKGLSLDATAQLTGVSKAMLGQIERGESSPTIATLWKIASGLEASFSAF 99

Query: 74  FDVSPTVCSDISSEENNV 91
           F   P + S   S  ++ 
Sbjct: 100 FANDPQLLSSERSFPDDP 117


>gi|317054347|ref|YP_004118372.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
 gi|316952342|gb|ADU71816.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
          Length = 200

 Score = 55.6 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 39/92 (42%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + V   V  R+R +R    +S ++L    G++   + + EKG      + L  I+  L  
Sbjct: 16  DHVSAAVSSRVRTQRKEQKLSLDELARRAGVSKGMLVEVEKGDANPSIAILCKIAAALGL 75

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
            ++   DVS    + + + ++  + +     G
Sbjct: 76  SVADMVDVSDEPLAHLIAAQDMPILWQGEKGG 107


>gi|260587052|ref|ZP_05852965.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
          hansenii DSM 20583]
 gi|260542542|gb|EEX23111.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
          hansenii DSM 20583]
          Length = 215

 Score = 55.6 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 34/77 (44%), Gaps = 6/77 (7%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++I   R   G+SQ+       ++ Q V  +E G +      +  IS+  +  +  
Sbjct: 1  MNIGEQINNLRKKHGLSQDDFANLFNVSRQTVSNWENGKSYPDLEMIIKISDYFKISV-- 58

Query: 73 FFDVSPTVCSDISSEEN 89
                 + +D+ SEE 
Sbjct: 59 ----DELLRNDVQSEEK 71


>gi|225575462|ref|ZP_03784072.1| hypothetical protein RUMHYD_03552 [Blautia hydrogenotrophica DSM
          10507]
 gi|225037314|gb|EEG47560.1| hypothetical protein RUMHYD_03552 [Blautia hydrogenotrophica DSM
          10507]
          Length = 145

 Score = 55.6 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 28/53 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I   R   G+SQ++L E + +T Q V ++E G        L+ +S++ +  I+
Sbjct: 7  ISELRKEYGLSQDELAEKVYVTRQAVSRWETGETIPNIETLKLLSKLFDVSIN 59


>gi|183981401|ref|YP_001849692.1| transcriptional regulatory protein [Mycobacterium marinum M]
 gi|183174727|gb|ACC39837.1| transcriptional regulatory protein [Mycobacterium marinum M]
          Length = 473

 Score = 55.6 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 28/64 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+R  R   G++Q  L   LG++   V + E     +  S L  ++E  + P  +F  
Sbjct: 7  GARLRRLREDHGLTQVALARALGLSTSYVNQLENDQRPITVSVLLALAERFDLPTHYFAP 66

Query: 76 VSPT 79
           S  
Sbjct: 67 DSDA 70


>gi|148985572|ref|ZP_01818761.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP3-BS71]
 gi|147922292|gb|EDK73413.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP3-BS71]
 gi|301800751|emb|CBW33399.1| putative DNA-binding protein [Streptococcus pneumoniae OXC141]
          Length = 299

 Score = 55.6 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 36/71 (50%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+  G+T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQGLTVRQLSRIESGASQPSLPKLAYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|126466145|ref|YP_001041254.1| helix-turn-helix domain-containing protein [Staphylothermus marinus
           F1]
 gi|126014968|gb|ABN70346.1| helix-turn-helix domain protein [Staphylothermus marinus F1]
          Length = 296

 Score = 55.6 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 37/82 (45%), Gaps = 3/82 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS---FF 73
           ++ R +R+ LG+S  +L + +G+T + +  YE G   V  +    I+E++   +      
Sbjct: 134 EKFREKRIELGLSLGELADKIGVTRKAIYNYEHGKIGVTINTAIKIAEIMGIDVFKPVDL 193

Query: 74  FDVSPTVCSDISSEENNVMDFI 95
           F        +  S  N + + +
Sbjct: 194 FKPEKIEVKEEFSPRNKIEELL 215


>gi|121534819|ref|ZP_01666639.1| putative prophage repressor [Thermosinus carboxydivorans Nor1]
 gi|121306614|gb|EAX47536.1| putative prophage repressor [Thermosinus carboxydivorans Nor1]
          Length = 215

 Score = 55.6 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/83 (15%), Positives = 32/83 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R++  R   G++Q+++ + LGI       YE        + L  +++     + +  
Sbjct: 2  LGERLKSLREQKGITQQEMADILGIARGTYAHYEIDRREPDNATLSRLADFFGVSVDYLL 61

Query: 75 DVSPTVCSDISSEENNVMDFIST 97
                 S      + +   +S 
Sbjct: 62 GRDKPKPSITDLFPDAIPADLSN 84


>gi|21228496|ref|NP_634418.1| MerR family transcriptional regulator [Methanosarcina mazei Go1]
 gi|20906980|gb|AAM32090.1| transcriptional regulator, MerR family [Methanosarcina mazei Go1]
          Length = 192

 Score = 55.6 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 25/107 (23%), Positives = 40/107 (37%), Gaps = 11/107 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG +IR  R    M+ E+L E    + + +Q+ E G      + L  I+  L   +  F 
Sbjct: 7   VGSKIRQLREARDMTVEELAEASQSSSELIQQLENGALVPSLTPLLKIARALGVRLGTFL 66

Query: 75  DVSPTVCSDI--SSEENNVMDFISTPD-----GLQLNRYFIQIDDVK 114
           D  P     +  S    NV+ F    +      L+    F  +   K
Sbjct: 67  DDMPQSGPVLVRSGLSENVVRFSGKTERPKKSALE----FYSLASDK 109


>gi|95931307|ref|ZP_01314023.1| transcriptional regulator, XRE family with cupin sensor
          [Desulfuromonas acetoxidans DSM 684]
 gi|95132638|gb|EAT14321.1| transcriptional regulator, XRE family with cupin sensor
          [Desulfuromonas acetoxidans DSM 684]
          Length = 219

 Score = 55.6 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 12/66 (18%), Positives = 28/66 (42%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N ++ N+G +I+  R    ++ + +    G +   + + E        + L  ++   + 
Sbjct: 32 NVLEYNIGAKIKELRKARKLTLQAVATETGFSPALISQIENNNVSPPIATLSKLARFFDV 91

Query: 69 PISFFF 74
           IS FF
Sbjct: 92 KISHFF 97


>gi|302670016|ref|YP_003829976.1| HTH/TPR domain-containing protein [Butyrivibrio proteoclasticus
           B316]
 gi|302394489|gb|ADL33394.1| HTH/TPR domain-containing protein [Butyrivibrio proteoclasticus
           B316]
          Length = 210

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/125 (16%), Positives = 45/125 (36%), Gaps = 5/125 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
             ++  R+   ++QE + E LGIT Q V K+E+G +    + L  ++ + E+ +     +
Sbjct: 6   ANLKKYRIQKDLTQEDVAEFLGITAQSVSKWERGESYPDITLLPALANIFETSVDLLLGM 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ----IDDVKVRQKIIELVRSIVSSEKK 132
                     + +             +     +    I   K    I+ L  ++    + 
Sbjct: 66  DTIRAEQTRLDIHKKAISFQRSGNYDMAEKTYREALLIYPNKP-GMILGLASTLALKGET 124

Query: 133 YRTIE 137
              IE
Sbjct: 125 EEAIE 129


>gi|293606756|ref|ZP_06689108.1| DNA-binding protein [Achromobacter piechaudii ATCC 43553]
 gi|292814847|gb|EFF73976.1| DNA-binding protein [Achromobacter piechaudii ATCC 43553]
          Length = 184

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 37/85 (43%), Gaps = 5/85 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+R  R    +S E+L +  G+T   + K E+G++    S +  ++E     +S      
Sbjct: 7   RLRTLRRQQALSLEQLAQRTGLTKSYLSKLERGLSEPSISTVLRLAEAYGVGVSQL---- 62

Query: 78  PTVCSDISSEENNVMDFISTPDGLQ 102
                D + +E   +  ++  + LQ
Sbjct: 63  -VGADDAAQDEVVSVVRVADREALQ 86


>gi|289450287|ref|YP_003474554.1| DNA-binding helix-turn-helix protein [Clostridiales genomosp.
          BVAB3 str. UPII9-5]
 gi|289184834|gb|ADC91259.1| DNA-binding helix-turn-helix protein [Clostridiales genomosp.
          BVAB3 str. UPII9-5]
          Length = 243

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 1/61 (1%)

Query: 9  NP-VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          NP +   +G  IR  R  L ++Q  LG  +      V KYE G   +    L  I+  L 
Sbjct: 7  NPDISPIIGDNIRFFRKRLKLTQSDLGSLINKGKATVAKYESGQIILDVQTLYEIARALG 66

Query: 68 S 68
           
Sbjct: 67 V 67


>gi|284044033|ref|YP_003394373.1| XRE family transcriptional regulator [Conexibacter woesei DSM
           14684]
 gi|283948254|gb|ADB50998.1| transcriptional regulator, XRE family [Conexibacter woesei DSM
           14684]
          Length = 182

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 39/93 (41%), Gaps = 6/93 (6%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G+R+R  R    ++   L E + +T   + + E+G+       L  + EVL+ P+   
Sbjct: 5   QIGERLRAARQRQELTLSALAERVELTKGFLSQVERGLTSPSVGSLLRLCEVLDLPVGEL 64

Query: 74  FDVSPTVCSDISSEE------NNVMDFISTPDG 100
           FD +P      +           V +F  TP G
Sbjct: 65  FDANPAPLVRAAERSPISFGGAGVDEFQLTPAG 97


>gi|269120006|ref|YP_003308183.1| XRE family transcriptional regulator [Sebaldella termitidis ATCC
           33386]
 gi|268613884|gb|ACZ08252.1| transcriptional regulator, XRE family [Sebaldella termitidis ATCC
           33386]
          Length = 142

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/94 (19%), Positives = 47/94 (50%), Gaps = 3/94 (3%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPI 70
           + ++  R++ +R+ L  S + L +  GIT   +Q+YE G  N++   +L+ I++ L+   
Sbjct: 3   NKDIANRMKRQRLNLEYSYKDLEKITGITASTLQRYETGAINKLPIDKLEVIAKALKVSP 62

Query: 71  SFFFDVSPTVCSDISSEE--NNVMDFISTPDGLQ 102
           S+         + ++++    + +  +S  +  +
Sbjct: 63  SYLMGWEDEKGNPLTNKSKITDPISQLSKKEKFE 96


>gi|282599906|ref|ZP_05972292.2| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282567565|gb|EFB73100.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 108

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 27/56 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I   R    +S  +LG  +G++ QQ+ +YE G+  +  S L  +   L   +  FF
Sbjct: 22 IASLRRKRLLSGRQLGSLIGVSQQQISRYENGICEITLSTLCILLHYLGVSLETFF 77


>gi|157145741|ref|YP_001453060.1| hypothetical protein CKO_01491 [Citrobacter koseri ATCC BAA-895]
 gi|157082946|gb|ABV12624.1| hypothetical protein CKO_01491 [Citrobacter koseri ATCC BAA-895]
          Length = 191

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 31/65 (47%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + ++  +  RIR+ R   G S  +L E  G++   + K E+G +   A+ L  +S   
Sbjct: 4  IEDSINQRISARIRIERESRGWSLTELAERAGVSRAMIHKIERGESSPTATLLGRLSGAF 63

Query: 67 ESPIS 71
             +S
Sbjct: 64 GISMS 68


>gi|157145722|ref|YP_001453041.1| hypothetical protein CKO_01472 [Citrobacter koseri ATCC BAA-895]
 gi|157082927|gb|ABV12605.1| hypothetical protein CKO_01472 [Citrobacter koseri ATCC BAA-895]
          Length = 178

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 33/80 (41%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R     S  +L E  G++   + + E+  +    S L  I+  L  P S F  +SP
Sbjct: 12 LKALRQQREWSLSRLAEATGVSKAMLGQIERNESSPTVSTLWKIATGLNVPFSTF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
              D+ + +      + TP
Sbjct: 70 PEAEDLPTFDPQQQAMVITP 89


>gi|167038622|ref|YP_001666200.1| XRE family transcriptional regulator [Thermoanaerobacter
          pseudethanolicus ATCC 33223]
 gi|320117013|ref|YP_004187172.1| helix-turn-helix domain-containing protein [Thermoanaerobacter
          brockii subsp. finnii Ako-1]
 gi|166857456|gb|ABY95864.1| transcriptional regulator, XRE family [Thermoanaerobacter
          pseudethanolicus ATCC 33223]
 gi|319930104|gb|ADV80789.1| helix-turn-helix domain protein [Thermoanaerobacter brockii
          subsp. finnii Ako-1]
          Length = 74

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 2/63 (3%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFDV 76
          +   R    ++QE+L + LGI+   +  YE G      SR + I++    P+   FF D+
Sbjct: 4  LAELRKSRRLTQEQLSKLLGISKSSIAMYETGQRVPSLSRAKKIAKFFNVPVEKIFFGDI 63

Query: 77 SPT 79
          + T
Sbjct: 64 NHT 66


>gi|301382108|ref|ZP_07230526.1| peptidase [Pseudomonas syringae pv. tomato Max13]
          Length = 151

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/95 (21%), Positives = 36/95 (37%), Gaps = 10/95 (10%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G K         +G R++L R   G++Q +L E +G++   + + E+G     A    
Sbjct: 1  MSGAKNSST-----LGGRVKLARDATGLTQLELAELVGVSQAAISEIERGE---SARTAY 52

Query: 61 --HISEVLESPISFFFDVSPTVCSDISSEENNVMD 93
             IS    + I +         S+       V +
Sbjct: 53 LPEISRACGADIQWLAFGGERPASEPCEPAPTVAE 87


>gi|210611267|ref|ZP_03288822.1| hypothetical protein CLONEX_01012 [Clostridium nexile DSM 1787]
 gi|210152031|gb|EEA83038.1| hypothetical protein CLONEX_01012 [Clostridium nexile DSM 1787]
          Length = 122

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 28/125 (22%), Positives = 52/125 (41%), Gaps = 17/125 (13%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  +GKRI+  R  LG++QE+  E  G T   +   E+G +      L  +   LE   
Sbjct: 13  IDKRIGKRIKQCRERLGLTQEEFAEKTGFTANYISTLERGASFPRCENLILLLNALEVSA 72

Query: 71  SFFF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
              F DV        +++ +N +  +S                V  + +I+++V  ++  
Sbjct: 73  DAIFCDVLDHTTEYKATQLSNELGTLS----------------VDAQNRILQIVELLIRQ 116

Query: 130 EKKYR 134
           EK+  
Sbjct: 117 EKENE 121


>gi|330971410|gb|EGH71476.1| transcriptional regulator, XRE family protein [Pseudomonas
          syringae pv. aceris str. M302273PT]
          Length = 114

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 42/94 (44%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          KI    D  +G+ I  RR  LG++Q++L E L +  +   + E G   +   +L  +S  
Sbjct: 3  KIIAAADKQIGQMIAKRRRALGLTQDQLAERLSMGREAYSRLELGKTSLSVPKLIQLSGA 62

Query: 66 LESPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
          L+S ++          +D   +   ++  +S  D
Sbjct: 63 LDSGLAELVTDFSPRPTDQGHKIGLLLAPLSDAD 96


>gi|326391782|ref|ZP_08213301.1| helix-turn-helix domain protein [Thermoanaerobacter ethanolicus
          JW 200]
 gi|325992170|gb|EGD50643.1| helix-turn-helix domain protein [Thermoanaerobacter ethanolicus
          JW 200]
          Length = 88

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I++G +I+  R+   +SQ +L     +    + + E G       +L +I+E LE P+
Sbjct: 1  MNISIGTKIKSLRLQKKLSQSELCGNF-MNRVVLSRIENGKALPSLEQLIYIAEKLEVPV 59

Query: 71 SFFFDVSPTVC 81
          S+FF       
Sbjct: 60 SYFFSDLKDTS 70


>gi|304405221|ref|ZP_07386881.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
 gi|304346100|gb|EFM11934.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
          Length = 127

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 26/61 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G RI   R   G +QE+    LGI+   +  YEK         L   +++    I F
Sbjct: 1  MNIGTRIAHLREQRGWTQEQTSHSLGISRAALSHYEKNRREPDTETLTKFADLFNVTIDF 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|295697361|ref|YP_003590599.1| transcriptional regulator, XRE family [Bacillus tusciae DSM 2912]
 gi|295412963|gb|ADG07455.1| transcriptional regulator, XRE family [Bacillus tusciae DSM 2912]
          Length = 143

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 37/87 (42%), Gaps = 2/87 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFFF 74
           G +++  R   G + E+L    G++   +   E+G   +        ++  LE P++ F 
Sbjct: 6   GVKLKQLRTERGWTLEQLSARSGLSISHISSLERGTRMKPSFQVAVRLARALEVPLATFL 65

Query: 75  DVSPTVCSD-ISSEENNVMDFISTPDG 100
           + +    SD +      + +F+S  D 
Sbjct: 66  EDAGKEESDPLEHLPPEIREFVSREDA 92


>gi|253315441|ref|ZP_04838654.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus str. CF-Marseille]
 gi|315130180|gb|EFT86168.1| helix-turn-helix domain protein [Staphylococcus aureus subsp.
          aureus CGS03]
          Length = 61

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 32/60 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +++ R+ L M+Q++L   +G+T Q +   EKGV+    S  ++I  VL   +   F   P
Sbjct: 1  MKIARVSLSMTQKELANKVGVTRQTISLIEKGVHNPSLSLCKNICSVLNKNLDEIFGEKP 60


>gi|228990384|ref|ZP_04150349.1| HTH-type transcriptional regulator sinR [Bacillus pseudomycoides
          DSM 12442]
 gi|228996484|ref|ZP_04156123.1| HTH-type transcriptional regulator sinR [Bacillus mycoides
          Rock3-17]
 gi|229004136|ref|ZP_04161937.1| HTH-type transcriptional regulator sinR [Bacillus mycoides
          Rock1-4]
 gi|228756997|gb|EEM06241.1| HTH-type transcriptional regulator sinR [Bacillus mycoides
          Rock1-4]
 gi|228763116|gb|EEM12024.1| HTH-type transcriptional regulator sinR [Bacillus mycoides
          Rock3-17]
 gi|228768910|gb|EEM17508.1| HTH-type transcriptional regulator sinR [Bacillus pseudomycoides
          DSM 12442]
          Length = 107

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQRGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIANVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
                  + + SE
Sbjct: 62 LHDEIPSENQLDSE 75


>gi|257414283|ref|ZP_04745847.2| putative transcriptional regulator [Roseburia intestinalis L1-82]
 gi|257200563|gb|EEU98847.1| putative transcriptional regulator [Roseburia intestinalis L1-82]
          Length = 107

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 31/58 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+RI+  R    M++++L E +G++   ++K E GVN      L  I+E+    + + 
Sbjct: 9  GERIKELRAARRMTRQQLAEQIGLSVDALRKIEAGVNGAKIDTLISIAELFHISLDYL 66


>gi|212694772|ref|ZP_03302900.1| hypothetical protein BACDOR_04305 [Bacteroides dorei DSM 17855]
 gi|237710957|ref|ZP_04541438.1| transcriptional regulator [Bacteroides sp. 9_1_42FAA]
 gi|237727255|ref|ZP_04557736.1| transcriptional regulator [Bacteroides sp. D4]
 gi|265750545|ref|ZP_06086608.1| transcriptional regulator [Bacteroides sp. 3_1_33FAA]
 gi|212662626|gb|EEB23200.1| hypothetical protein BACDOR_04305 [Bacteroides dorei DSM 17855]
 gi|229434111|gb|EEO44188.1| transcriptional regulator [Bacteroides dorei 5_1_36/D4]
 gi|229454801|gb|EEO60522.1| transcriptional regulator [Bacteroides sp. 9_1_42FAA]
 gi|263237441|gb|EEZ22891.1| transcriptional regulator [Bacteroides sp. 3_1_33FAA]
          Length = 191

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 38/89 (42%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++I+  R    +S  +L    G+  +Q+++ E  V+    + L  I+  L   +  F 
Sbjct: 7   VGEKIKSLRETKEISVAELAVRSGLAEEQIERIENNVDLPSLAPLIKIARALGVRLGTFL 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL 103
           D      + I  ++ +      + + + L
Sbjct: 67  DDQEEQGAVICRKQESEDTISFSNNAMDL 95


>gi|163761507|ref|ZP_02168579.1| TRANSCRIPTIONAL REGULATOR, MERR FAMILY [Hoeflea phototrophica
          DFL-43]
 gi|162281221|gb|EDQ31520.1| TRANSCRIPTIONAL REGULATOR, MERR FAMILY [Hoeflea phototrophica
          DFL-43]
          Length = 480

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 34/86 (39%), Gaps = 6/86 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +IR  R   G++Q      LGI+   + + E     V AS L  ++E     I+ 
Sbjct: 6  LFIGGKIRAIRGEQGLTQAGFATKLGISTSYLNQIENNQRHVSASVLLALAEAFSVDITT 65

Query: 73 FFDVSPTVCSDISSEENNVMDFISTP 98
                    D      +V + ++ P
Sbjct: 66 L------SDQDTDRLLADVSEALADP 85


>gi|117621210|ref|YP_858380.1| DNA-binding protein [Aeromonas hydrophila subsp. hydrophila ATCC
           7966]
 gi|117562617|gb|ABK39565.1| DNA-binding protein [Aeromonas hydrophila subsp. hydrophila ATCC
           7966]
          Length = 230

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/98 (16%), Positives = 41/98 (41%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++ ++ +R++  R  LG S +      G++   + + E+G +    + L  I+       
Sbjct: 45  MNQHLAQRLKGLRSELGWSLDVAARETGVSKAMLGQIERGESSPTVATLWKIATGFRVSF 104

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
           S F + +P    ++     + +      +G+Q+   F 
Sbjct: 105 SSFIEPTPAEQGEVLYRTADAIRQQPAGEGMQVAPLFP 142


>gi|15887791|ref|NP_353472.1| putative phage repressor [Agrobacterium tumefaciens str. C58]
 gi|15155365|gb|AAK86257.1| putative phage repressor [Agrobacterium tumefaciens str. C58]
          Length = 231

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/82 (25%), Positives = 35/82 (42%), Gaps = 2/82 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ IR  R+  G+    L E  G++   V  +E+G N +    LQ IS+ L        
Sbjct: 10 IGQAIRTARIRRGLVMRDLAEAGGVSTGAVGNWERGANAIAMEHLQAISQKLRIDPVALS 69

Query: 75 DVSPT--VCSDISSEENNVMDF 94
          + S       +  ++   V DF
Sbjct: 70 NGSLRYLDEEEALADAEQVTDF 91


>gi|328463792|gb|EGF35345.1| hypothetical protein AAULH_12086 [Lactobacillus helveticus MTCC
          5463]
          Length = 140

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 21/57 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           RI+  R     SQ +L   +  + Q +  YE G         Q +++     + + 
Sbjct: 2  NRIKELRQENKFSQIELANKVHASNQAISAYESGTREPKEPMWQALADFFNVSVDYL 58


>gi|317498013|ref|ZP_07956317.1| helix-turn-helix domain-containing protein [Lachnospiraceae
           bacterium 5_1_63FAA]
 gi|316894689|gb|EFV16867.1| helix-turn-helix domain-containing protein [Lachnospiraceae
           bacterium 5_1_63FAA]
          Length = 136

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/95 (22%), Positives = 46/95 (48%), Gaps = 4/95 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + +++ R   G +QE+L   + +  Q + K+EKG++   A  L  +++VLE  +S   ++
Sbjct: 4   ENLKIIRKAKGYTQEELAIKIHVVRQTISKWEKGLSVPDADTLSKLADVLEIKVS---EL 60

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQL-NRYFIQI 110
             +   + +++           + L L NR   +I
Sbjct: 61  LGSEIKEETNKNEVAEQLAKISEQLALKNRRHKRI 95


>gi|317498577|ref|ZP_07956870.1| helix-turn-helix domain-containing protein [Lachnospiraceae
          bacterium 5_1_63FAA]
 gi|316894064|gb|EFV16253.1| helix-turn-helix domain-containing protein [Lachnospiraceae
          bacterium 5_1_63FAA]
          Length = 217

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 31/57 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + +G++IR  R  +G++Q KL E  GI    ++KYE    +    +L+ I+  L+  
Sbjct: 1  MTIGEKIRYCREQIGITQGKLAELTGIHPVSIRKYETNKMQPQPPQLEKIAAALDVS 57


>gi|302380010|ref|ZP_07268489.1| helix-turn-helix protein [Finegoldia magna ACS-171-V-Col3]
 gi|302312236|gb|EFK94238.1| helix-turn-helix protein [Finegoldia magna ACS-171-V-Col3]
          Length = 174

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 33/69 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + I+  R   G+SQE+L   + +  Q V K+E+G++   +  L  +SE+L + +S     
Sbjct: 4  ENIKSLRKQNGLSQEQLANEMHVVRQTVSKWERGLSVPDSDSLIKLSEILHTSVSVLLGE 63

Query: 77 SPTVCSDIS 85
          +        
Sbjct: 64 NIEEIQQTE 72


>gi|237794603|ref|YP_002862155.1| transcriptional regulator [Clostridium botulinum Ba4 str. 657]
 gi|229262963|gb|ACQ53996.1| transcriptional regulator [Clostridium botulinum Ba4 str. 657]
          Length = 136

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 28/64 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R    ++QE+LG+ +G+T   V  YE    +     L  I+E       F  
Sbjct: 2  LGDKIKKLRKSKNITQEELGKNIGVTTSMVGMYETNARKPSYEVLIKIAEFFSVSTDFLL 61

Query: 75 DVSP 78
          +   
Sbjct: 62 NTEE 65


>gi|225387513|ref|ZP_03757277.1| hypothetical protein CLOSTASPAR_01266 [Clostridium asparagiforme
          DSM 15981]
 gi|225046443|gb|EEG56689.1| hypothetical protein CLOSTASPAR_01266 [Clostridium asparagiforme
          DSM 15981]
          Length = 86

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/63 (31%), Positives = 26/63 (41%), Gaps = 2/63 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI+  R   GM+QE+LGE +G + Q +   E             IS V    I   F F
Sbjct: 3  NRIKELRERRGMTQEQLGEMVGTSRQAINAIETEKFEPSIWLAYDISRVFGCAIEEVFLF 62

Query: 75 DVS 77
            S
Sbjct: 63 GES 65


>gi|138896745|ref|YP_001127198.1| prophage LambdaBa04, DNA-binding protein [Geobacillus
          thermodenitrificans NG80-2]
 gi|196249440|ref|ZP_03148138.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
 gi|134268258|gb|ABO68453.1| Prophage LambdaBa04, DNA-binding protein [Geobacillus
          thermodenitrificans NG80-2]
 gi|196211197|gb|EDY05958.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
          Length = 137

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ ++  R     +QE+L E L ++  Q+ K+E G        L+ +  +      F 
Sbjct: 5  LGEMLKRLRKQQRWTQEQLAEQLNVSRSQISKWENGSTLPDIQSLEKLCRLFNVSADFL 63


>gi|38257067|ref|NP_940721.1| Orf36 [Pseudomonas syringae pv. syringae]
 gi|37723844|gb|AAR02170.1| Orf36 [Pseudomonas syringae pv. syringae]
          Length = 115

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/115 (18%), Positives = 45/115 (39%), Gaps = 11/115 (9%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +   +G RI+  R   G++Q  L E +      + +YE+        +L  ++E     
Sbjct: 3   SIRKIIGSRIKAHRKSRGLTQSALAEAIECEVASIGRYERAETAPDGEQLIKMAE----- 57

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
              FF++SP     +  +           + + L R    I+D    +++I + +
Sbjct: 58  ---FFEISPMDLLPVKIDLKLQAVLDLRSELIDLVR---TINDPSQLERLIGVAK 106


>gi|332530423|ref|ZP_08406367.1| XRE family transcriptional regulator [Hylemonella gracilis ATCC
          19624]
 gi|332040135|gb|EGI76517.1| XRE family transcriptional regulator [Hylemonella gracilis ATCC
          19624]
          Length = 113

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 5/70 (7%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISE 64
          +P  +  G R+R  R+   + Q+KLG  +G+       ++ +YE G +         I++
Sbjct: 15 HPASVF-GLRLRQARIQADIPQDKLGVAIGLDETTASARISRYETGTHAAPYDLAVKIAK 73

Query: 65 VLESPISFFF 74
          VL  P +F F
Sbjct: 74 VLNVPPTFLF 83


>gi|228920080|ref|ZP_04083429.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar huazhongensis BGSC 4BD1]
 gi|228839536|gb|EEM84828.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar huazhongensis BGSC 4BD1]
          Length = 69

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIEHVF 60


>gi|197336241|ref|YP_002155779.1| transcriptional regulator, XRE family [Vibrio fischeri MJ11]
 gi|197317731|gb|ACH67178.1| transcriptional regulator, XRE family [Vibrio fischeri MJ11]
          Length = 100

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 25/94 (26%), Positives = 49/94 (52%), Gaps = 9/94 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           KR++  R    ++Q++LG  +G+       ++  YEKG +    S LQ +++ L  P+S+
Sbjct: 9   KRLKEARKHAKVTQKELGIRIGMEESSASGRMNHYEKGRHTPDISVLQRMAKELGVPLSY 68

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           FF       SD  +E N ++  +S  + ++L + 
Sbjct: 69  FF-----CESDSLAELNLLIGKMSEEERVKLIKS 97


>gi|170739100|ref|YP_001767755.1| XRE family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168193374|gb|ACA15321.1| transcriptional regulator, XRE family [Methylobacterium sp. 4-46]
          Length = 183

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 32/80 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R + G+SQ  L    GI    +   E G        L+ I + +   ++ FF
Sbjct: 6  VGARLRYVRTLHGLSQRALARKAGIVNSTISLIESGQTNPSVGALKRILDAVPIGLAEFF 65

Query: 75 DVSPTVCSDISSEENNVMDF 94
           + PT           +++ 
Sbjct: 66 SLEPTRTEKAFYAAEELVEI 85


>gi|15894128|ref|NP_347477.1| transcriptional regulator [Clostridium acetobutylicum ATCC 824]
 gi|15023733|gb|AAK78817.1|AE007599_13 Predicted transcriptional regulator [Clostridium acetobutylicum
          ATCC 824]
 gi|325508255|gb|ADZ19891.1| transcriptional regulator [Clostridium acetobutylicum EA 2018]
          Length = 179

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 32/65 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++I+  R+   ++QE+L     ++   + + E+ +     + L  I + L + +  
Sbjct: 1  MDIGEKIKRLRIEKQLTQEELANRCELSKGFISQIERNLTSPSIATLTDILDALGTNLPD 60

Query: 73 FFDVS 77
          FF   
Sbjct: 61 FFKED 65


>gi|302387998|ref|YP_003823820.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
 gi|302198626|gb|ADL06197.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
          Length = 93

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 1/63 (1%)

Query: 12 DINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          D +V G RI+  R   G +QE L E + I  +++ K E+GV     + +   SE     +
Sbjct: 4  DQHVCGARIQELRKSKGYTQEALAEAIDIDAKRISKIERGVISASYNDMILFSEFFGVTL 63

Query: 71 SFF 73
           + 
Sbjct: 64 DYL 66


>gi|228984217|ref|ZP_04144399.1| hypothetical protein bthur0001_9250 [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
 gi|228775504|gb|EEM23888.1| hypothetical protein bthur0001_9250 [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
          Length = 124

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 30/76 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I      
Sbjct: 5  ERLKEEREKRNWSQSDLSEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRS 64

Query: 77 SPTVCSDISSEENNVM 92
             +   +  +   + 
Sbjct: 65 DEELTQKVIEDSKQLA 80


>gi|170755295|ref|YP_001781771.1| transcriptional regulator [Clostridium botulinum B1 str. Okra]
 gi|169120507|gb|ACA44343.1| transcriptional regulator [Clostridium botulinum B1 str. Okra]
          Length = 149

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 25/57 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RI+  R    ++QE+L + +G++   V  YE    +     L  I++       + 
Sbjct: 4  ERIKKLRKERDITQEELAKNIGVSTSMVGMYETNARKPSYEVLSKIAKYFRVSTDYL 60


>gi|206972991|ref|ZP_03233913.1| dna-binding protein [Bacillus cereus AH1134]
 gi|229194134|ref|ZP_04320999.1| Transcriptional regulator, MerR [Bacillus cereus ATCC 10876]
 gi|206731875|gb|EDZ49075.1| dna-binding protein [Bacillus cereus AH1134]
 gi|228589350|gb|EEK47304.1| Transcriptional regulator, MerR [Bacillus cereus ATCC 10876]
          Length = 184

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 42/84 (50%), Gaps = 1/84 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI- 70
          +IN+G++I + R   G++ ++L E   IT   + + EKG+       L+ IS  L   + 
Sbjct: 3  NINIGEKIMIFRKGAGLTSKRLAELADITPSMLSQIEKGITNPSLQTLKLISAALNIALF 62

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          +FF + + T    + + +   + F
Sbjct: 63 NFFLEDTITEELVVRANQRKKITF 86


>gi|170718159|ref|YP_001785187.1| phage repressor [Haemophilus somnus 2336]
 gi|168826288|gb|ACA31659.1| putative phage repressor [Haemophilus somnus 2336]
          Length = 235

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/97 (15%), Positives = 38/97 (39%), Gaps = 1/97 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR +R  L +++ +L + + ++   +Q +E       AS +  I+  L    ++  
Sbjct: 11  IGNRIREQRERLNLTRPELAKAVDVSLSALQGWEMNEREPQASMIITIANELGVTPNYLL 70

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                            +  + T + + +   +  I+
Sbjct: 71  TGENDQPKKTIERAVEKVKDL-TENVVIMIASYSSIN 106


>gi|333028514|ref|ZP_08456578.1| putative transcriptional regulatory protein [Streptomyces sp.
           Tu6071]
 gi|332748366|gb|EGJ78807.1| putative transcriptional regulatory protein [Streptomyces sp.
           Tu6071]
          Length = 212

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 30/80 (37%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             + + +R  R   G + + L    G++   + + E+         +  +++ L   I  
Sbjct: 28  RTLARNVRHWRTERGHTLDALAARAGVSRGMIVQIEQARTNPSLGTVVKVADALGVSIPT 87

Query: 73  FFDVSPTVCSDISSEENNVM 92
             D  P     I  EE+ V+
Sbjct: 88  LLDQVPGPRVRIVPEEDAVV 107


>gi|331090228|ref|ZP_08339116.1| hypothetical protein HMPREF1025_02699 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|330402174|gb|EGG81746.1| hypothetical protein HMPREF1025_02699 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 346

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 31/53 (58%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR +R  L ++QE++ E LG++   V K+EKG      + L  ++ +L+  ++
Sbjct: 7  IREKRKELSLTQEQIAELLGVSTPAVNKWEKGSTYPDITLLPALARLLKIDLN 59


>gi|295101241|emb|CBK98786.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii L2-6]
          Length = 74

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 29/63 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+  R    ++Q ++   + +       YEKG  R+    L  +++  +  +++   V
Sbjct: 5  ERIKALRSDHDLNQTQVARAIHVAQTTYSDYEKGKVRIPVECLIQLAKFYDVDMNYITGV 64

Query: 77 SPT 79
          S T
Sbjct: 65 SDT 67


>gi|302517812|ref|ZP_07270154.1| transcriptional regulatory protein [Streptomyces sp. SPB78]
 gi|318061036|ref|ZP_07979757.1| transcriptional regulatory protein [Streptomyces sp. SA3_actG]
 gi|302426707|gb|EFK98522.1| transcriptional regulatory protein [Streptomyces sp. SPB78]
          Length = 193

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 30/80 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            + + +R  R   G + + L    G++   + + E+         +  +++ L   I  
Sbjct: 9  RTLARNVRHWRTERGHTLDALAARAGVSRGMIVQIEQARTNPSLGTVVKVADALGVSIPT 68

Query: 73 FFDVSPTVCSDISSEENNVM 92
            D  P     I  EE+ V+
Sbjct: 69 LLDQVPGPRVRIVPEEDAVV 88


>gi|254498006|ref|ZP_05110769.1| phage repressor [Legionella drancourtii LLAP12]
 gi|254352783|gb|EET11555.1| phage repressor [Legionella drancourtii LLAP12]
          Length = 227

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 33/61 (54%), Gaps = 1/61 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RI+  R I G++++ L E    +   ++  YE+G    G   ++ +++VLE   +F 
Sbjct: 7  IGQRIKHERTIKGLTRKALAELTDSLKISRINNYERGERTPGPEEIKQLAKVLEVSPAFL 66

Query: 74 F 74
           
Sbjct: 67 M 67


>gi|206975640|ref|ZP_03236552.1| transcriptional regulator, XRE family [Bacillus cereus H3081.97]
 gi|206746102|gb|EDZ57497.1| transcriptional regulator, XRE family [Bacillus cereus H3081.97]
          Length = 110

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 41/87 (47%), Gaps = 1/87 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R+ L ++QE L E + I+   + + E+G   +    L  ++  L   + +  
Sbjct: 6   LGNRIREERLKLNLTQEILAEDINISVSYMGQIERGERNLSLDTLVKLAYRLSVTVDYLL 65

Query: 75  DVSPTVCSDISSEE-NNVMDFISTPDG 100
             S    ++ S ++  +++D  S  + 
Sbjct: 66  LDSVQANNENSIKQFASLIDGRSQKET 92


>gi|154498443|ref|ZP_02036821.1| hypothetical protein BACCAP_02432 [Bacteroides capillosus ATCC
          29799]
 gi|150272511|gb|EDM99696.1| hypothetical protein BACCAP_02432 [Bacteroides capillosus ATCC
          29799]
          Length = 210

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 30/67 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI   R   GMSQE+LGE LG++ Q V K+E G  +     +  + E+      +    
Sbjct: 5  ERIAAARRAAGMSQEQLGEALGVSRQAVSKWESGQTKPDLEAVGKMCELFHLSADYLLLG 64

Query: 77 SPTVCSD 83
                D
Sbjct: 65 KEEKKDD 71


>gi|313575261|emb|CBI71200.1| hypothetical protein [uncultured bacterium]
          Length = 75

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 1/61 (1%)

Query: 15 VGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +   IR  R   G M+Q++L + +G+T Q +   E+            I+EV   PI   
Sbjct: 6  ISNSIRRLRFDHGEMTQQELADRIGMTRQTIAAIEQNKYSPSLEAAFRIAEVFGVPIGDV 65

Query: 74 F 74
          F
Sbjct: 66 F 66


>gi|239983769|ref|ZP_04706293.1| transcriptional regulator [Streptomyces albus J1074]
 gi|291455574|ref|ZP_06594964.1| transcriptional regulator [Streptomyces albus J1074]
 gi|291358523|gb|EFE85425.1| transcriptional regulator [Streptomyces albus J1074]
          Length = 200

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 33/71 (46%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +D  V KRIR  R+  G S E+L     ++   + + E G  R+   +L  ++  L++
Sbjct: 6  DELDGLVRKRIRALRLAQGWSLEELAGRANLSQSSLSRIENGRRRLALDQLVTLARALDT 65

Query: 69 PISFFFDVSPT 79
           +    + +  
Sbjct: 66 TLDQLVETASD 76


>gi|237750719|ref|ZP_04581199.1| conserved hypothetical protein [Helicobacter bilis ATCC 43879]
 gi|229373809|gb|EEO24200.1| conserved hypothetical protein [Helicobacter bilis ATCC 43879]
          Length = 243

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R   G++Q  L +  G++   +Q YE     +    L+ I+  L+  +  
Sbjct: 1  MKLGLKIKTAREEKGLTQNDLVKISGVSRASLQLYEADKGNITLDNLEKIANALDYEVVH 60

Query: 73 F 73
          F
Sbjct: 61 F 61


>gi|229029051|ref|ZP_04185150.1| HTH-type transcriptional regulator sinR [Bacillus cereus AH1271]
 gi|228732331|gb|EEL83214.1| HTH-type transcriptional regulator sinR [Bacillus cereus AH1271]
          Length = 107

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE-ENNVMDFIST 97
               T  + + SE    V D +S+
Sbjct: 62 LHDETTKENHLDSEWTQLVKDAMSS 86


>gi|229166214|ref|ZP_04293974.1| HTH-type transcriptional regulator sinR [Bacillus cereus AH621]
 gi|228617312|gb|EEK74377.1| HTH-type transcriptional regulator sinR [Bacillus cereus AH621]
          Length = 107

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 40/85 (47%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE-ENNVMDFIST 97
               T  S + SE    V D +S+
Sbjct: 62 LHDETTTESHLDSEWTQLVKDAMSS 86


>gi|229199677|ref|ZP_04326322.1| hypothetical protein bcere0001_51600 [Bacillus cereus m1293]
 gi|228583823|gb|EEK41996.1| hypothetical protein bcere0001_51600 [Bacillus cereus m1293]
          Length = 139

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 36/88 (40%), Gaps = 2/88 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFFFD 75
           K+++  R   G+SQE+L   L I    +  YE   +R    SRL  I++     + F   
Sbjct: 5   KKLKELREGKGLSQEELALKLNIPRSSITHYENSDDRLPRKSRLLEIADFFNVSVDFLLS 64

Query: 76  VSPTVCSDISSEENNVM-DFISTPDGLQ 102
            +         EE ++  D   T + L 
Sbjct: 65  DAKEEIQLSKKEERDIARDLERTLEQLD 92


>gi|255283629|ref|ZP_05348184.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
 gi|255265891|gb|EET59096.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
          Length = 204

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 4/76 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI+  R   G++Q +LG  LG        +V +YE G        L  I+ +L  
Sbjct: 16 MMLGERIKRIRTFRGLTQRELGLKLGYEERNADVRVAQYESGYRVPKKDTLMEIARILNV 75

Query: 69 PISFFFDVSPTVCSDI 84
              F    P    DI
Sbjct: 76 NYINFITEVPGCAEDI 91


>gi|254452205|ref|ZP_05065642.1| DNA-binding protein [Octadecabacter antarcticus 238]
 gi|198266611|gb|EDY90881.1| DNA-binding protein [Octadecabacter antarcticus 238]
          Length = 215

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/95 (17%), Positives = 40/95 (42%), Gaps = 9/95 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R    ++   L    G++   + K E G+     + LQ ++  L  P+
Sbjct: 25  LEVAIGREVRAFRRKQEITVADLSATTGLSIGMLSKIENGITSPSLTTLQTLAHALAVPL 84

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           + FF         + ++           +G++L R
Sbjct: 85  TSFFRGFEEKRMAVHTKAG---------EGVELER 110


>gi|163939188|ref|YP_001644072.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|229010668|ref|ZP_04167868.1| HTH-type transcriptional regulator sinR [Bacillus mycoides DSM
          2048]
 gi|229132174|ref|ZP_04261032.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          BDRD-ST196]
 gi|163861385|gb|ABY42444.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
 gi|228651321|gb|EEL07298.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          BDRD-ST196]
 gi|228750633|gb|EEM00459.1| HTH-type transcriptional regulator sinR [Bacillus mycoides DSM
          2048]
          Length = 107

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/85 (24%), Positives = 39/85 (45%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE-ENNVMDFIST 97
               T    + SE    V D +S+
Sbjct: 62 LHDETTTEGHLDSEWTQLVKDAMSS 86


>gi|331091384|ref|ZP_08340223.1| hypothetical protein HMPREF9477_00866 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330404248|gb|EGG83795.1| hypothetical protein HMPREF9477_00866 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 63

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 28/56 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR RR  LG+SQ +L +  G++ Q V   E        +   ++++ L++ +   F
Sbjct: 5  IRNRRKELGLSQVELAKKCGVSRQTVNAIENNKYDPTLTLAFNLAKELKTTVDELF 60


>gi|301169786|emb|CBW29387.1| unnamed protein product [Haemophilus influenzae 10810]
          Length = 111

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 28/116 (24%), Positives = 48/116 (41%), Gaps = 16/116 (13%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  VG  I   R   G+SQ K+ E LG++   + + E+G   +   RL   + + +  +
Sbjct: 7   INKQVGASIAKYRKASGLSQAKVAEILGLSNDAISRMERGRIALNVERLCEFATLFQCRV 66

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           S     S    SD                  QL+R   Q+ D   R+K+I L+  +
Sbjct: 67  SDLITDSSLQPSD---------------QIYQLDRLLNQL-DHTERKKLILLIEQM 106


>gi|300814822|ref|ZP_07095058.1| helix-turn-helix protein [Peptoniphilus sp. oral taxon 836 str.
          F0141]
 gi|300511068|gb|EFK38332.1| helix-turn-helix protein [Peptoniphilus sp. oral taxon 836 str.
          F0141]
          Length = 367

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 30/68 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I  +R   G++QE+L E + +T   V K+E G +      L  ++      +    
Sbjct: 4  IGENILQKRKERGITQEELAEFMMVTKASVSKWETGQSYPDILLLPKLATFFNISVDELI 63

Query: 75 DVSPTVCS 82
             P + S
Sbjct: 64 GYDPDLSS 71


>gi|221200648|ref|ZP_03573689.1| DNA-binding protein [Burkholderia multivorans CGD2M]
 gi|221208477|ref|ZP_03581479.1| DNA-binding protein [Burkholderia multivorans CGD2]
 gi|221210397|ref|ZP_03583377.1| DNA-binding protein [Burkholderia multivorans CGD1]
 gi|221169353|gb|EEE01820.1| DNA-binding protein [Burkholderia multivorans CGD1]
 gi|221171665|gb|EEE04110.1| DNA-binding protein [Burkholderia multivorans CGD2]
 gi|221179220|gb|EEE11626.1| DNA-binding protein [Burkholderia multivorans CGD2M]
          Length = 201

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/115 (18%), Positives = 45/115 (39%), Gaps = 10/115 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +IR  R  L  + ++     GI+   + + E+G+     + L  I++ L   + +F 
Sbjct: 25  LGSKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSLTSLAGIAQALGVTVQYFV 84

Query: 75  DVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFIQIDDVKVRQKI 119
           D      S    E+     F  +           +G QL    +++   + R ++
Sbjct: 85  DTPSEERSVCRGEQLRFFGFADSANLFARLTNLSEGRQLEAILVRMPPGQKRSEV 139


>gi|167465058|ref|ZP_02330147.1| SOS-response transcriptional repressor [Paenibacillus larvae
          subsp. larvae BRL-230010]
          Length = 211

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 31/72 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            I+  R   GM+Q  L + LG+    V  +EK      A  ++ +S+  + P S FF+V
Sbjct: 12 ANIKRLRKSRGMTQGDLAKILGVGISTVSDWEKAKKYPRAGVIEKLSQYFDMPKSSFFEV 71

Query: 77 SPTVCSDISSEE 88
                    E+
Sbjct: 72 QGNAIEVYIEED 83


>gi|167465026|ref|ZP_02330115.1| Transcriptional regulator, MerR family protein [Paenibacillus
          larvae subsp. larvae BRL-230010]
          Length = 181

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 32/62 (51%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I++GK++   R   G+S  +L +   IT   + + E+G+       L+ +++ L+ P  
Sbjct: 3  NIDIGKKVEKYRKAKGLSSRELAKLAEITPSMLSQIERGLANPSIQTLKVLAKTLDVPTF 62

Query: 72 FF 73
           F
Sbjct: 63 SF 64


>gi|67078040|ref|YP_245660.1| transcriptional regulator [Bacillus cereus E33L]
 gi|66970346|gb|AAY60322.1| transcriptional regulator [Bacillus cereus E33L]
          Length = 145

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++N+G +++  R     SQE +   +G+T Q V K+E   +      L  +SE+ E  I 
Sbjct: 3  NMNLGSQLKRFRESKSFSQEDVARKVGVTRQAVYKWESNKSYPDIDNLILLSELYEVTID 62

Query: 72 FFFDVSPTVCSDIS 85
               S     ++ 
Sbjct: 63 ELIKGSEDAREELD 76


>gi|15903845|ref|NP_359395.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae R6]
 gi|116516188|ref|YP_817208.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae D39]
 gi|15459488|gb|AAL00606.1| Transcriptional activator [Streptococcus pneumoniae R6]
 gi|116076764|gb|ABJ54484.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae D39]
          Length = 299

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 36/71 (50%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+  G+T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQGLTVRQLSRIESGASQPSLPKLAYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|313889505|ref|ZP_07823151.1| DNA-binding helix-turn-helix protein [Streptococcus pseudoporcinus
           SPIN 20026]
 gi|313122117|gb|EFR45210.1| DNA-binding helix-turn-helix protein [Streptococcus pseudoporcinus
           SPIN 20026]
          Length = 135

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/92 (18%), Positives = 44/92 (47%), Gaps = 8/92 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
           K+++  R+    SQ+ L + L I+ Q + K+E G +      L  ++E+ +  +      
Sbjct: 6   KQLKKYRLEKNYSQDTLADQLFISRQAISKWENGDSTPDLENLVKLAEIFDVTLDQLVRG 65

Query: 75  -DVSPTVCSDISSEENNVM-----DFISTPDG 100
            + + ++ ++ S E +N+      +++  P+ 
Sbjct: 66  KESTSSLDNENSLENDNLNLLEGREYVINPET 97


>gi|229088569|ref|ZP_04220228.1| Helix-turn-helix repressor protein [Bacillus cereus Rock3-44]
 gi|228694744|gb|EEL48061.1| Helix-turn-helix repressor protein [Bacillus cereus Rock3-44]
          Length = 67

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFDV 76
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F ++ 
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFKTTIESVFLYEG 64


>gi|209963569|ref|YP_002296484.1| DNA-binding protein (HTH domain), putative [Rhodospirillum centenum
           SW]
 gi|209957035|gb|ACI97671.1| DNA-binding protein (HTH domain), putative [Rhodospirillum centenum
           SW]
          Length = 203

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 40/99 (40%), Gaps = 4/99 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P  V +    R+R  R   GMS   L   +G++  ++ K E GV  +    +  ++   
Sbjct: 1   MPPDVPVRDSSRLRSLRTARGMSLSALAAKVGLSKGELSKLETGVRPLRPDHVAKLARAF 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           E   S     +  + + I+ E   +  +    DG  L R
Sbjct: 61  EIAPSDLVGEASALRAMIAPEPATLPLY----DGRDLAR 95


>gi|167747793|ref|ZP_02419920.1| hypothetical protein ANACAC_02514 [Anaerostipes caccae DSM 14662]
 gi|167653155|gb|EDR97284.1| hypothetical protein ANACAC_02514 [Anaerostipes caccae DSM 14662]
          Length = 352

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 24/106 (22%), Positives = 51/106 (48%), Gaps = 10/106 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + + IR  R+  G++QE++   LG++   V K+EK V+    + L  ++ +LE+ ++ 
Sbjct: 1   MKINEMIRELRIKKGLTQEQMASLLGVSAPAVNKWEKAVSYPDITLLPALARLLETDLNT 60

Query: 73  F--FDVSPTVCSDISSEENNVMDFISTPD-------GLQLNRYFIQ 109
              F   PT   +I+   N +   +S+         G++  R +  
Sbjct: 61  LLSFKEEPT-KEEITDFLNELAADVSSNGAEHAFHMGMEKVREYPS 105


>gi|149004413|ref|ZP_01829153.1| prophage Sa05, DNA-binding protein [Streptococcus pneumoniae
          SP14-BS69]
 gi|147757662|gb|EDK64680.1| prophage Sa05, DNA-binding protein [Streptococcus pneumoniae
          SP14-BS69]
          Length = 120

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 8/77 (10%), Positives = 36/77 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    +SQ+++ + + I+ + + ++E G +++   +++ +++     + +    
Sbjct: 2  NRLKELRQEKKLSQKEIAKEMSISEKTLSRWENGESQIKPEKVKQLADYFGVSVGYLLGY 61

Query: 77 SPTVCSDISSEENNVMD 93
                 + S  + + +
Sbjct: 62 ESNPLERLESLVDELKE 78


>gi|223933356|ref|ZP_03625344.1| protein of unknown function DUF955 [Streptococcus suis 89/1591]
 gi|330833524|ref|YP_004402349.1| hypothetical protein SSUST3_1750 [Streptococcus suis ST3]
 gi|223898006|gb|EEF64379.1| protein of unknown function DUF955 [Streptococcus suis 89/1591]
 gi|329307747|gb|AEB82163.1| protein of unknown function DUF955 [Streptococcus suis ST3]
          Length = 385

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/58 (34%), Positives = 33/58 (56%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R+R  R     S  +L E +G++ Q + KYEK +++  +  LQ I   L+ P+SF+
Sbjct: 7  GDRLRESRYFRHYSISQLAENVGVSKQMISKYEKNLSKPSSEVLQKIIFELKFPLSFY 64


>gi|303235344|ref|ZP_07321962.1| helix-turn-helix protein [Finegoldia magna BVS033A4]
 gi|302493658|gb|EFL53446.1| helix-turn-helix protein [Finegoldia magna BVS033A4]
          Length = 174

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 32/55 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G+SQE+L   + +  Q V K+E+G++   +  L  +SE+L + +S
Sbjct: 4  ENIKSLRKSNGLSQEQLANEMHVVRQTVSKWERGLSVPDSDSLIKLSEILHTSVS 58


>gi|295110847|emb|CBL24800.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 255

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I   R   GMSQ++L E + ++ Q V ++E G        L+ +S+V +  I+
Sbjct: 7  ILELRTQKGMSQDELAEKVFVSRQAVSRWENGETVPNTETLKLLSKVFDVSIN 59


>gi|295107606|emb|CBL05149.1| Helix-turn-helix. [Gordonibacter pamelaeae 7-10-1-b]
          Length = 83

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 28/71 (39%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+ I   R    +SQ++L     I    + + E G++ +  ++L  I++ L  P   
Sbjct: 8  RQLGQHIVEMRKAQRISQKQLALMSDINKGYLSEIENGISNISVNKLFRIADALGVPPMD 67

Query: 73 FFDVSPTVCSD 83
           F         
Sbjct: 68 LFAGIEGEEEG 78


>gi|317132632|ref|YP_004091946.1| helix-turn-helix domain protein [Ethanoligenens harbinense
          YUAN-3]
 gi|315470611|gb|ADU27215.1| helix-turn-helix domain protein [Ethanoligenens harbinense
          YUAN-3]
          Length = 74

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 26/61 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I   R   G+SQ +L + + I+   + + E     V    +  I++ L   +   F
Sbjct: 12 LGLNIAYYRKERGLSQMQLADAIDISRTHMSRIENNDCAVSLDVIFSIADALNIAVEKLF 71

Query: 75 D 75
          +
Sbjct: 72 E 72


>gi|270290740|ref|ZP_06196964.1| XRE family DNA-binding protein [Pediococcus acidilactici 7_4]
 gi|270280800|gb|EFA26634.1| XRE family DNA-binding protein [Pediococcus acidilactici 7_4]
          Length = 108

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 40/93 (43%), Gaps = 8/93 (8%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R +   +Q  L   L ++   V  YE+G++      L  I  +L++   +   +S
Sbjct: 16  RLKSARKLKHFTQLDLANRLDVSKGTVSAYEQGLSYPSLETLVKICNILDTSADYLLGIS 75

Query: 78  PTVC---SDISSEENN-VMDFIS----TPDGLQ 102
             +      ++ E+   ++ FIS      + LQ
Sbjct: 76  DDLTFKMGGLTDEQTESILQFISLIEKANETLQ 108


>gi|270261929|ref|ZP_06190201.1| XRE family transcriptional regulator [Serratia odorifera 4Rx13]
 gi|270043805|gb|EFA16897.1| XRE family transcriptional regulator [Serratia odorifera 4Rx13]
          Length = 189

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 23/53 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR  R  LG+S  +L    GI    + + E G        L  ++  L+ P+S
Sbjct: 19 IRRERERLGLSVTELARRAGIAKSTLSQLETGSGNPSLETLWSLAMALDVPVS 71


>gi|271968400|ref|YP_003342596.1| XRE family transcriptional regulator [Streptosporangium roseum
          DSM 43021]
 gi|270511575|gb|ACZ89853.1| transcriptional regulator, XRE family [Streptosporangium roseum
          DSM 43021]
          Length = 78

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 2/67 (2%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D++   RI + R   G+S++ L   LG+ +Q +   E+G           I+E  E P+ 
Sbjct: 5  DVH--NRISVLRAERGVSRKDLAAALGVHYQTIGYLERGQYSPSLFLALRIAEYFEVPVE 62

Query: 72 FFFDVSP 78
            F + P
Sbjct: 63 IVFSLRP 69


>gi|153853942|ref|ZP_01995275.1| hypothetical protein DORLON_01266 [Dorea longicatena DSM 13814]
 gi|149753324|gb|EDM63255.1| hypothetical protein DORLON_01266 [Dorea longicatena DSM 13814]
          Length = 147

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 33/80 (41%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +GK+++  RM  G +QE + E + ++ Q +  +E   +      +  +S +    + 
Sbjct: 12 DMEIGKKLKDARMKSGFTQETVAERINVSRQTISNWENEKSYPDIISVIELSSLYSISLD 71

Query: 72 FFFDVSPTVCSDISSEENNV 91
                  +   +    N V
Sbjct: 72 DLLKGDERMMEHLEESTNVV 91


>gi|78044374|ref|YP_359408.1| AraC family transcriptional regulator [Carboxydothermus
           hydrogenoformans Z-2901]
 gi|77996489|gb|ABB15388.1| transcriptional regulator, AraC family [Carboxydothermus
           hydrogenoformans Z-2901]
          Length = 257

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/102 (13%), Positives = 47/102 (46%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +++  R  +G++Q +L    G++   + + E+G  +     ++ ++EVL +   +F 
Sbjct: 139 LGYKLKKLREDMGLTQAELASQAGVSPGLIGQIEQGKVQPSLKTIEKLAEVLGTTPCYFI 198

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
               +    ++     + + +  P+   L      +++ +++
Sbjct: 199 LEQTSPEQMLNLMSPELRELLLNPNVQSLLSSICTLNEKELQ 240



 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 31/64 (48%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V + +G+RIRL R    ++  +L   +GI+   + + E+       + L+ I+E L   +
Sbjct: 70  VSLTLGERIRLIREEKKLTISELAARVGISVSYLSEIERDTVNPSVATLRRIAEELGVSV 129

Query: 71  SFFF 74
           +   
Sbjct: 130 ADLM 133



 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 25/53 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G +IR  R   G++  +L +  G++   + + E+G  +     +  I++ L  
Sbjct: 5  GNKIRELREERGLTLNELSKKAGLSISYLSEIERGSKKPSLKTIDKIAKALNV 57


>gi|313207090|ref|YP_004046267.1| helix-turn-helix domain protein [Riemerella anatipestifer DSM
          15868]
 gi|312446406|gb|ADQ82761.1| helix-turn-helix domain protein [Riemerella anatipestifer DSM
          15868]
 gi|315022512|gb|EFT35539.1| putative prophage LambdaCh01, repressor protein [Riemerella
          anatipestifer RA-YM]
 gi|325335473|gb|ADZ11747.1| Helix-turn-helix type 3 [Riemerella anatipestifer RA-GD]
          Length = 198

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 34/86 (39%), Gaps = 2/86 (2%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            G  I+  R I G+SQ+   + L +T   +  YE G        L  I++ L+      
Sbjct: 3  YFGTNIKKIRQIKGLSQQAFADMLNLTRGIISSYEDGRAEPKVETLLRIAQFLDMKADDL 62

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
              P   + +++ E  V D I   +
Sbjct: 63 I-SKPLTVNQLANFE-EVEDLIYKKE 86


>gi|293400331|ref|ZP_06644477.1| helix-turn-helix protein [Erysipelotrichaceae bacterium
          5_2_54FAA]
 gi|291306731|gb|EFE47974.1| helix-turn-helix protein [Erysipelotrichaceae bacterium
          5_2_54FAA]
          Length = 353

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/86 (16%), Positives = 37/86 (43%), Gaps = 2/86 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
          +G +IR  R+   ++QE+L +   ++   + K+E  ++    + L  ++ +         
Sbjct: 5  LGNKIRELRLHKQLTQEQLAQLCKVSSAAISKWEHDLSYPDITLLPILARIFHVSTDELL 64

Query: 74 -FDVSPTVCSDISSEENNVMDFISTP 98
           F+  P+    +   +  +  + S P
Sbjct: 65 NFESEPSEEEIVEMAKKALEMYQSVP 90


>gi|268610105|ref|ZP_06143832.1| putative regulatory protein [Ruminococcus flavefaciens FD-1]
 gi|325679993|ref|ZP_08159562.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324108431|gb|EGC02678.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 126

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 33/85 (38%), Gaps = 2/85 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +GKRI+  R    M Q  L E   I+   +   E G        +  I+  L++ +  
Sbjct: 6  KLIGKRIKEVRTARKMPQMLLAEKCDISDSYLSYIECGRKTPSLEVIIRIARELDTTVDS 65

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
            + +    +D  + E  + + ++ 
Sbjct: 66 LLEGN--QNTDTGTYEKEISEMMND 88


>gi|300773794|ref|ZP_07083663.1| DNA-binding protein [Sphingobacterium spiritivorum ATCC 33861]
 gi|300759965|gb|EFK56792.1| DNA-binding protein [Sphingobacterium spiritivorum ATCC 33861]
          Length = 110

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 26/113 (23%), Positives = 51/113 (45%), Gaps = 11/113 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK+IRL R   G SQE + + L I+     K E G+  V  SRL  IS++    +    
Sbjct: 4   LGKKIRLLRHQKGWSQEDVAKRLDISIPAFSKIETGITDVNLSRLNQISKLFSLSVVQLL 63

Query: 75  DVSPTVCS-DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             S +      ++E  ++   +   +           + +++++K+I+L   +
Sbjct: 64  STSDSEEDKQYANELADMSKKLQVRET----------EVIELQKKVIDLYEQL 106


>gi|255530826|ref|YP_003091198.1| helix-turn-helix domain-containing protein [Pedobacter heparinus
          DSM 2366]
 gi|255343810|gb|ACU03136.1| helix-turn-helix domain protein [Pedobacter heparinus DSM 2366]
          Length = 106

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 32/74 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+ +++R  R   G +Q  +   L I+     K E     +  SRL+ ++ +L+  + + 
Sbjct: 7  NISQKLRALRKNRGWTQSDMAAQLDISVPAYSKIECAQTELTLSRLKLLATILKVKVCWL 66

Query: 74 FDVSPTVCSDISSE 87
           D    V    + E
Sbjct: 67 LDEEEAVLHQENEE 80


>gi|227539648|ref|ZP_03969697.1| conserved hypothetical protein [Sphingobacterium spiritivorum ATCC
           33300]
 gi|227240561|gb|EEI90576.1| conserved hypothetical protein [Sphingobacterium spiritivorum ATCC
           33300]
          Length = 110

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 26/113 (23%), Positives = 51/113 (45%), Gaps = 11/113 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK+IRL R   G SQE + + L I+     K E G+  V  SRL  IS++    +    
Sbjct: 4   LGKKIRLLRHQKGWSQEDVAKRLDISIPAFSKIETGITDVNLSRLNQISKLFSLSVVQLL 63

Query: 75  DVSPTVCS-DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             S +      ++E  ++   +   +           + +++++K+I+L   +
Sbjct: 64  STSDSEEDKQYANELADMSKKLQVRET----------EVIELQKKVIDLYEQL 106


>gi|197303443|ref|ZP_03168482.1| hypothetical protein RUMLAC_02165 [Ruminococcus lactaris ATCC
          29176]
 gi|197297441|gb|EDY32002.1| hypothetical protein RUMLAC_02165 [Ruminococcus lactaris ATCC
          29176]
          Length = 368

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K++   R    ++QE+L   +G++   V K+E GV+    + L  ++      I  
Sbjct: 4  INIAKQLLAARHEKKITQEELASYVGVSKAAVSKWESGVSFPDITLLPKLATYFNVSIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LIGYEPQLTRE 74


>gi|220928893|ref|YP_002505802.1| XRE family transcriptional regulator [Clostridium cellulolyticum
          H10]
 gi|219999221|gb|ACL75822.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
          H10]
          Length = 182

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 2/73 (2%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI V  RI+  R++ G ++E++ + LGI   Q + YE   + +  S L  ++E+ +  I+
Sbjct: 7  DIAV--RIKGLRLLAGYTEEEVADQLGIKLDQYKLYENAEDDIPVSLLYELAEIYKVNIT 64

Query: 72 FFFDVSPTVCSDI 84
               +     DI
Sbjct: 65 EILTGTSPKLHDI 77


>gi|222053937|ref|YP_002536299.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221563226|gb|ACM19198.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 187

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 12/70 (17%), Positives = 29/70 (41%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D N+G +I+  R+   ++ + + +  G +   + + E        + L  I++  +  + 
Sbjct: 3  DYNIGAKIKKLRLAKKLTLQAVAKETGFSPALISQIENNNVSPPIATLSKIAKFFDVKVG 62

Query: 72 FFFDVSPTVC 81
           FF      C
Sbjct: 63 MFFAEDEEEC 72


>gi|73668235|ref|YP_304250.1| XRE family transcriptional regulator [Methanosarcina barkeri str.
          Fusaro]
 gi|72395397|gb|AAZ69670.1| transcriptional regulator, XRE family [Methanosarcina barkeri
          str. Fusaro]
          Length = 74

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 30/69 (43%), Gaps = 2/69 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
            I++ R +  ++QE L E +G+T Q +   EKG           ++ + +  I   F +
Sbjct: 3  NNIKVYRAMHDLTQENLAEKVGVTRQTIHAIEKGKYDPSLELAFKLARLFDVRIEDIFLY 62

Query: 75 DVSPTVCSD 83
          +      S+
Sbjct: 63 EDRKARNSE 71


>gi|320093956|ref|ZP_08025785.1| XRE family transcriptional regulator [Actinomyces sp. oral taxon
          178 str. F0338]
 gi|319979114|gb|EFW10628.1| XRE family transcriptional regulator [Actinomyces sp. oral taxon
          178 str. F0338]
          Length = 80

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 23/57 (40%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R   G+SQ  L E +G+T Q +   E G      +    I   L   +   F
Sbjct: 22 RMKAARAGRGLSQASLAEQVGVTRQTISAVESGDYNPTIALCVRICRALGVTLDDLF 78


>gi|313113972|ref|ZP_07799527.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii KLE1255]
 gi|310623674|gb|EFQ07074.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii KLE1255]
          Length = 136

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/131 (17%), Positives = 56/131 (42%), Gaps = 7/131 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++L R  LG++Q   G  +GI    + K+E GVN +  + +  +        ++  + +
Sbjct: 4   RLKLLRKTLGLNQVDFGTRIGIGGTAISKFESGVNAISDTLVLLVCREFNVNEAWLRNGT 63

Query: 78  PT----VCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
                   +D+ +E +      +  +  QL   ++Q+ D   R  +   V  + ++ +K 
Sbjct: 64  GEMFTHTSNDLVAELSETYHLGTYGE--QLLATYLQLSDADKR-AVERFVSQLTANVQKA 120

Query: 134 RTIEEECMVEQ 144
              + +   ++
Sbjct: 121 EDAQSDACEKE 131


>gi|291525635|emb|CBK91222.1| Predicted transcriptional regulators [Eubacterium rectale DSM
          17629]
          Length = 115

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/81 (28%), Positives = 36/81 (44%), Gaps = 1/81 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G RI  RR  +G+SQ++L    GI  Q +   E G +      L  ++ VL   + 
Sbjct: 11 DYERGLRIADRRKEMGLSQDELAHRAGIGRQALSAIENGGD-FKTQTLDSLAIVLGVSVD 69

Query: 72 FFFDVSPTVCSDISSEENNVM 92
          F         S++ SE  +V+
Sbjct: 70 FIMYGEKEEKSELLSEAMDVL 90


>gi|289644282|ref|ZP_06476368.1| transcriptional regulator, XRE family [Frankia symbiont of Datisca
           glomerata]
 gi|289505894|gb|EFD26907.1| transcriptional regulator, XRE family [Frankia symbiont of Datisca
           glomerata]
          Length = 488

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 26/118 (22%), Positives = 42/118 (35%), Gaps = 11/118 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLES---PI 70
           VG  +R  R   G++Q++L E LG     V K E G   +   S L+HI+  L      +
Sbjct: 20  VGLLLRSYRQTFGLTQQQLAERLGFDQSYVSKVESGRRAIHDISTLRHIARRLSLSPEDV 79

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
                       D    +       ++    +L R ++       R   I L R+   
Sbjct: 80  GLAAGSLIESRRDADPADPLDERIAASQRTWRLTRDYL----NHHR---ISLARAAAG 130


>gi|284006683|emb|CBA71944.1| phage transcriptional regulator [Arsenophonus nasoniae]
          Length = 220

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 31/61 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+R++  R +   +Q  LG+ +G+T   V  +EK +N  G   L  ++  L +  ++
Sbjct: 6  KTLGQRLKYLRKLKKYTQVTLGKAIGVTGVTVGYWEKDLNEPGGKALSKLARALNTTENY 65

Query: 73 F 73
           
Sbjct: 66 L 66


>gi|281334739|gb|ADA61823.1| hypothetical protein SAP047A_004 [Staphylococcus aureus]
          Length = 113

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 26/59 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I+ +R + G SQE+L   L ++ Q V K+E   N      L  +S++    +       
Sbjct: 7  IKEQRELKGWSQEELANILKVSRQNVSKWESAKNYPSLDILIAMSDLFGISLEHLIKGD 65


>gi|289192276|ref|YP_003458217.1| transcriptional regulator, XRE family [Methanocaldococcus sp.
           FS406-22]
 gi|288938726|gb|ADC69481.1| transcriptional regulator, XRE family [Methanocaldococcus sp.
           FS406-22]
          Length = 317

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 39/90 (43%), Gaps = 9/90 (10%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP----IS 71
           GK ++  R  +G+S  KL E  G++ + + KYE  +          I E L+ P    I 
Sbjct: 127 GKVLKEVREAMGISVGKLAEVAGVSRKAIYKYETQMANPSVDVAIKIEEFLDVPLVKGID 186

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGL 101
            F    P    ++ ++  N+ DF    + +
Sbjct: 187 LF---EPIDDEEVENKLENLEDF--KKEAI 211


>gi|257880858|ref|ZP_05660511.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|260562694|ref|ZP_05833195.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          C68]
 gi|261209352|ref|ZP_05923730.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|257815086|gb|EEV43844.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|260072923|gb|EEW61277.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          C68]
 gi|260076680|gb|EEW64429.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
          Length = 153

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G ++R  R+  G +QE +     +T Q + K+E          L+ I E   + I+
Sbjct: 4  LGSKLRELRVKKGYTQEYVARKFNVTRQTISKWENNKTTPDIETLKKICEFYSTNIN 60


>gi|255016915|ref|ZP_05289041.1| DNA-binding protein [Listeria monocytogenes FSL F2-515]
          Length = 106

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 36/101 (35%), Gaps = 18/101 (17%)

Query: 22  RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVC 81
            R    ++Q++L   +G T   + KYE   +R     L  ++E+L +   F  D    + 
Sbjct: 1   LRKKNRLTQKQLAAKIGTTASTISKYENDNHRPPIFILAKLAEILGTTTDFLLDDVAGLR 60

Query: 82  SDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
              S                     F  I + ++ +  +EL
Sbjct: 61  EKNS------------------VNAFPLIGNPELEKWYLEL 83


>gi|150005248|ref|YP_001299992.1| transcriptional regulator [Bacteroides vulgatus ATCC 8482]
 gi|254883715|ref|ZP_05256425.1| transcriptional regulator [Bacteroides sp. 4_3_47FAA]
 gi|294777357|ref|ZP_06742809.1| DNA-binding protein [Bacteroides vulgatus PC510]
 gi|319643440|ref|ZP_07998063.1| transcriptional regulator [Bacteroides sp. 3_1_40A]
 gi|149933672|gb|ABR40370.1| transcriptional regulator [Bacteroides vulgatus ATCC 8482]
 gi|254836508|gb|EET16817.1| transcriptional regulator [Bacteroides sp. 4_3_47FAA]
 gi|294448825|gb|EFG17373.1| DNA-binding protein [Bacteroides vulgatus PC510]
 gi|317384845|gb|EFV65801.1| transcriptional regulator [Bacteroides sp. 3_1_40A]
          Length = 191

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 38/89 (42%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++I+  R    +S  +L    G+  +Q+++ E  V+    + L  I+  L   +  F 
Sbjct: 7   VGEKIKSLRETKEISVAELAVRSGLAEEQIERIENNVDLPSLAPLIKIARALGVRLGTFL 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL 103
           D      + I  ++ +      + + + L
Sbjct: 67  DDQEEQGAVICRKQESEDTISFSNNAMDL 95


>gi|114800095|ref|YP_759955.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114740269|gb|ABI78394.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 479

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/98 (21%), Positives = 43/98 (43%), Gaps = 11/98 (11%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   K+        +G R+R  R  LG++Q ++ E LG++   +   E     + A+ L 
Sbjct: 1  MAERKEKT-----LIGPRVRRLRRTLGITQAQMAEDLGVSASYINLIEANQRPISANLLL 55

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTP 98
           ++ V +      FD+S    +  +   + +M+ +  P
Sbjct: 56 TLARVYD------FDISDVGGAGDARLVSELMEVVRDP 87


>gi|69248820|ref|ZP_00604806.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|257894941|ref|ZP_05674594.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,408]
 gi|294623392|ref|ZP_06702249.1| transcriptional regulator [Enterococcus faecium U0317]
 gi|68194345|gb|EAN08856.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|257831320|gb|EEV57927.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,408]
 gi|281336179|gb|ADA62728.1| hypothetical membrane protein [Enterococcus faecium]
 gi|291597192|gb|EFF28386.1| transcriptional regulator [Enterococcus faecium U0317]
          Length = 153

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G ++R  R+  G +QE +     +T Q + K+E          L+ I E   + I+
Sbjct: 4  LGSKLRELRVKKGYTQEYVARKFNVTRQTISKWENNKTTPDIETLKKICEFYSTNIN 60


>gi|310828836|ref|YP_003961193.1| hypothetical protein ELI_3266 [Eubacterium limosum KIST612]
 gi|308740570|gb|ADO38230.1| hypothetical protein ELI_3266 [Eubacterium limosum KIST612]
          Length = 66

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R  L M+Q+ L E +G+T Q +   EKG           I  VL   +   F
Sbjct: 6  RIKAARAALDMTQKDLAEAVGVTRQTMNAIEKGDYNPTIKLCVAICRVLGKTLDELF 62


>gi|291556800|emb|CBL33917.1| Predicted transcriptional regulators [Eubacterium siraeum
          V10Sc8a]
          Length = 131

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ-HISEVLESPISFF 73
          +++  R   G++Q++  + LG++ + +  YEKG +      +   ++E+L   I++ 
Sbjct: 6  KVKKERRAKGLTQQQFADMLGVSLRTITNYEKGESYPKQREIYGKMAEILGVDINYL 62


>gi|293402548|ref|ZP_06646683.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291304062|gb|EFE45316.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 100

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 24/85 (28%), Positives = 40/85 (47%), Gaps = 3/85 (3%)

Query: 23  RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV--SPTV 80
           R  L M+Q ++ E LGIT + V K+E G +   AS +  + E L   I+          +
Sbjct: 14  RKELNMTQRQIAERLGITNRAVSKWETGKSMPDASLMLELCEALHISINELLCGKRLNEL 73

Query: 81  CSDISSEENNVMDFISTPDGLQLNR 105
                SE+N +  F++  + L+  R
Sbjct: 74  EERKESEQNTLAMFMAKNE-LENLR 97


>gi|228992527|ref|ZP_04152454.1| Transcriptional regulator, XRE [Bacillus pseudomycoides DSM 12442]
 gi|229006074|ref|ZP_04163762.1| Transcriptional regulator, XRE [Bacillus mycoides Rock1-4]
 gi|228755150|gb|EEM04507.1| Transcriptional regulator, XRE [Bacillus mycoides Rock1-4]
 gi|228767161|gb|EEM15797.1| Transcriptional regulator, XRE [Bacillus pseudomycoides DSM 12442]
          Length = 123

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/101 (16%), Positives = 38/101 (37%), Gaps = 6/101 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ +R  R    ++ ++LG+ L +    +  YE G  +     L   ++  E    +  
Sbjct: 2   IGENLRKLRKTNNLTMKELGQKLNLAESTISGYENGNRKPDYDTLNKFADFFEVSTDYLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
               T     ++ +    + ++ P    L  +F  I D   
Sbjct: 62  GRDITKN---TTRDTYTYNPLTDP---DLGLWFKDIKDASP 96


>gi|226325896|ref|ZP_03801414.1| hypothetical protein COPCOM_03709 [Coprococcus comes ATCC 27758]
 gi|225206020|gb|EEG88374.1| hypothetical protein COPCOM_03709 [Coprococcus comes ATCC 27758]
 gi|291546627|emb|CBL19735.1| Predicted transcriptional regulators [Ruminococcus sp. SR1/5]
          Length = 129

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 25/57 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GKRIR  R   G+S E+L E   ++   +   E    +     L  IS  LE  I 
Sbjct: 8  IGKRIRETRKQRGLSAEELAEIADLSTVYISYIENAKRKPSLESLIKISNALEITID 64


>gi|225405607|ref|ZP_03760796.1| hypothetical protein CLOSTASPAR_04828 [Clostridium asparagiforme
          DSM 15981]
 gi|225042871|gb|EEG53117.1| hypothetical protein CLOSTASPAR_04828 [Clostridium asparagiforme
          DSM 15981]
          Length = 180

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 34/76 (44%), Gaps = 4/76 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + VG++I+  R   GM+Q++LG  +G        ++ +YE          L  I++VL+ 
Sbjct: 1  MTVGEKIKFIRNFRGMTQKELGVGIGFDEKGADNRIAQYETNYRVPKKDTLLQIAKVLDV 60

Query: 69 PISFFFDVSPTVCSDI 84
           +  F         DI
Sbjct: 61 NLLNFISEVSGSAEDI 76


>gi|159038045|ref|YP_001537298.1| XRE family transcriptional regulator [Salinispora arenicola
           CNS-205]
 gi|157916880|gb|ABV98307.1| transcriptional regulator, XRE family [Salinispora arenicola
           CNS-205]
          Length = 524

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/82 (25%), Positives = 38/82 (46%), Gaps = 11/82 (13%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR---LQHISEVLES 68
           D+ +G+R+   R   G+SQE L   +G T + ++K E   NR    R   ++ I++ L+ 
Sbjct: 120 DMTIGQRVAFYRRRRGLSQEVLAGLVGKTQEWLRKVE--TNRADLDRLSVIRAIAKALDV 177

Query: 69  PISF------FFDVSPTVCSDI 84
           P+         F+ S     + 
Sbjct: 178 PLGDLIGAPSLFEWSDDSGRET 199


>gi|332535597|ref|ZP_08411365.1| hypothetical protein PH505_db00030 [Pseudoalteromonas
          haloplanktis ANT/505]
 gi|332034981|gb|EGI71502.1| hypothetical protein PH505_db00030 [Pseudoalteromonas
          haloplanktis ANT/505]
          Length = 95

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 31/80 (38%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P    +G  I+L R   G SQ +L + L +    + + E G       R+  I  +L   
Sbjct: 16 PALKIIGLNIKLARTKSGFSQAELADKLNVEQSYISRVESGSVAASCERIYEIIHLLGCK 75

Query: 70 ISFFFDVSPTVCSDISSEEN 89
           S  F  S  V +  +  E 
Sbjct: 76 ASDIFPESKEVETQFNRAEQ 95


>gi|315925644|ref|ZP_07921854.1| XRE family transcriptional regulator [Pseudoramibacter
          alactolyticus ATCC 23263]
 gi|315621185|gb|EFV01156.1| XRE family transcriptional regulator [Pseudoramibacter
          alactolyticus ATCC 23263]
          Length = 235

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 26/56 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G  IR+ R   G++ + L + +  +   + KYE G   +    L  ++E L   +
Sbjct: 8  IGHNIRIYRKKNGLTLDALSDLVFKSKSALSKYENGDISIDIETLYELAEALHIHV 63


>gi|294782189|ref|ZP_06747515.1| toxin-antitoxin system, antitoxin component, Xre family
           [Fusobacterium sp. 1_1_41FAA]
 gi|294480830|gb|EFG28605.1| toxin-antitoxin system, antitoxin component, Xre family
           [Fusobacterium sp. 1_1_41FAA]
          Length = 131

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 24/87 (27%), Positives = 39/87 (44%), Gaps = 2/87 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RIR RR  LGM+Q++L    G      + K E     +  S++   +E L+   S+  D 
Sbjct: 6   RIRNRRKELGMTQDELARLTGYNDRSSIAKIEAKKADLSQSKIIAFAEALKVTTSYLMDG 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQL 103
                  I  EENN+   ++  +  +L
Sbjct: 66  D-GKEKIIKKEENNIFSQLTEDELAKL 91


>gi|253988431|ref|YP_003039787.1| phage regulator [Photorhabdus asymbiotica subsp. asymbiotica ATCC
          43949]
 gi|253988437|ref|YP_003039793.1| phage regulator [Photorhabdus asymbiotica subsp. asymbiotica ATCC
          43949]
 gi|211638957|emb|CAR67572.1| putative phage regulatory protein [Photorhabdus asymbiotica
          subsp. asymbiotica ATCC 43949]
 gi|253779881|emb|CAQ83042.1| putative phage regulator [Photorhabdus asymbiotica]
 gi|253779887|emb|CAQ83048.1| putative phage regulator [Photorhabdus asymbiotica]
          Length = 133

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 8/71 (11%)

Query: 9  NPVDIN--------VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          NP+D            +R+RL R    +SQ +L E LG+  +   ++EKG +      + 
Sbjct: 2  NPIDSLCAGLDMSAFAERLRLLREARNLSQVRLAELLGVDPRAYNRWEKGASAPHLETVI 61

Query: 61 HISEVLESPIS 71
           I++VL+  I 
Sbjct: 62 KIADVLQVTID 72


>gi|167760715|ref|ZP_02432842.1| hypothetical protein CLOSCI_03100 [Clostridium scindens ATCC
          35704]
 gi|167661602|gb|EDS05732.1| hypothetical protein CLOSCI_03100 [Clostridium scindens ATCC
          35704]
          Length = 202

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 31/57 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + VG++I+  R  +G++Q+KL E  GI    ++KYE    +    +L+ I+  L   
Sbjct: 1  MTVGEKIKYCRKQIGITQDKLAELTGIHPVSIRKYETNKMQPQPPQLEKIAAALGVS 57


>gi|154496299|ref|ZP_02034995.1| hypothetical protein BACCAP_00587 [Bacteroides capillosus ATCC
           29799]
 gi|150274382|gb|EDN01459.1| hypothetical protein BACCAP_00587 [Bacteroides capillosus ATCC
           29799]
          Length = 155

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 37/81 (45%), Gaps = 1/81 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I V +R++  R   G++Q+++ + L +    +  YE G +      L  ++ +    + +
Sbjct: 51  IAVSRRLKKAREESGLTQKEVADKLELKKTTLSGYENGKSEPSMETLVQLANLYGVSLDY 110

Query: 73  FFDVSPTVCSDISSEENNVMD 93
               + T   + + EE  V+D
Sbjct: 111 LMCRTDTRI-EFNEEEYKVID 130


>gi|145221887|ref|YP_001132565.1| XRE family transcriptional regulator [Mycobacterium gilvum PYR-GCK]
 gi|315446377|ref|YP_004079256.1| XRE family transcriptional regulator [Mycobacterium sp. Spyr1]
 gi|145214373|gb|ABP43777.1| transcriptional regulator, XRE family [Mycobacterium gilvum
           PYR-GCK]
 gi|315264680|gb|ADU01422.1| transcriptional regulator, XRE family [Mycobacterium sp. Spyr1]
          Length = 222

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/94 (15%), Positives = 37/94 (39%), Gaps = 2/94 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +G+ +RL R   G++  +    +GI+   + K E        S L  +++  + P+
Sbjct: 35  IESAIGRNVRLLRQQQGLTVAETAARVGISKAMMSKIENAQTSCSLSTLALLAKGFDVPV 94

Query: 71  SFFFDVSPTVCSDISSEENNVMDFIS--TPDGLQ 102
           +  F  +         +       +   T +G +
Sbjct: 95  TSLFRGADVERPAAFVKAGTGARIVREGTREGHE 128


>gi|148263053|ref|YP_001229759.1| XRE family transcriptional regulator [Geobacter uraniireducens
          Rf4]
 gi|146396553|gb|ABQ25186.1| transcriptional regulator, XRE family [Geobacter uraniireducens
          Rf4]
          Length = 181

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R++  RMI  ++QE+L     +T   + + E        + L+ I +V    +  
Sbjct: 1  MKIGERLKRLRMINSLTQEELASRADLTKGYISQLENDATSPSIATLKDIIDVFGVSMQE 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|332978243|gb|EGK14973.1| aspartate aminotransferase [Psychrobacter sp. 1501(2011)]
          Length = 551

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/86 (15%), Positives = 37/86 (43%), Gaps = 5/86 (5%)

Query: 16 GKRIRLRRMILGMSQEKLGECL-----GITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+R+   R   G++ E+L   +      ++   +  +E+G+N + +S+L  ++ +L    
Sbjct: 11 GERLSKLRKAKGLTAEQLATAMTNAGSKVSRGAISNWERGINGIVSSKLPALANILGCSE 70

Query: 71 SFFFDVSPTVCSDISSEENNVMDFIS 96
           +            +S ++  +   +
Sbjct: 71 GYLLRGELIEPDSNNSSQSQALSLQA 96


>gi|330718468|ref|ZP_08313068.1| XRE family transcriptional regulator [Leuconostoc fallax KCTC 3537]
          Length = 260

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/93 (18%), Positives = 37/93 (39%), Gaps = 4/93 (4%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+  R+  G++Q++L E + ++ Q V  +E G N      L+ +S +        F+   
Sbjct: 7   IKRMRLEKGLTQQELAESIHVSRQTVSTWETGKNYPSLEVLRSLSLLFNVS----FEQII 62

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                  ++   V    +    + L   + +I 
Sbjct: 63  FGEKPTMADNKEVNIATTIDTDILLKHKYKRIS 95


>gi|326802631|ref|YP_004320449.1| DNA-binding helix-turn-helix protein [Aerococcus urinae
          ACS-120-V-Col10a]
 gi|326651355|gb|AEA01538.1| DNA-binding helix-turn-helix protein [Aerococcus urinae
          ACS-120-V-Col10a]
          Length = 69

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G+SQ+ L E +G+  Q V   E             +++ L++ ++  F
Sbjct: 2  NRLKYYRTRSGLSQKALAEEIGVARQTVNMIENDRYNPSLELCIALAKALDTDLNALF 59


>gi|258507112|ref|YP_003169863.1| transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|257147039|emb|CAR86012.1| Transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|259648482|dbj|BAI40644.1| hypothetical protein [Lactobacillus rhamnosus GG]
          Length = 106

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 44/84 (52%), Gaps = 2/84 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L  S+E+L + +  + QQV ++EKG++     +L  IS+ LE  +    
Sbjct: 3  IGEQIKDRREALAWSREELAQVVNGSVQQVSRWEKGISYPNIKQLIAISDRLELSLDNLI 62

Query: 75 DVSPTVCSDISSEEN--NVMDFIS 96
             P +   I  ++N     D++ 
Sbjct: 63 KSDPKLQKTIQIDKNAKEASDYLR 86


>gi|182625421|ref|ZP_02953194.1| conserved domain protein [Clostridium perfringens D str. JGS1721]
 gi|177909418|gb|EDT71870.1| conserved domain protein [Clostridium perfringens D str. JGS1721]
          Length = 64

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 33/58 (56%), Gaps = 1/58 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPISFFF 74
           I+L+R+ +G++Q++L   +GI+   + + EKG    +    +  ++E L++ +   F
Sbjct: 2  NIKLKRISMGLTQKELAHKVGISHVTLSRIEKGAYENITLRTMLKLAEALDTTVQELF 59


>gi|168184227|ref|ZP_02618891.1| transcriptional regulator [Clostridium botulinum Bf]
 gi|182672749|gb|EDT84710.1| transcriptional regulator [Clostridium botulinum Bf]
          Length = 136

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 28/64 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R    ++QE+LG+ +G+T   V  YE    +     L  I+E       F  
Sbjct: 2  LGDKIKKLRKSKNITQEELGKNIGVTTSMVGMYETNARKPSYEVLIKIAEFFSVSTDFLL 61

Query: 75 DVSP 78
          +   
Sbjct: 62 NTEE 65


>gi|118444002|ref|YP_878514.1| DNA-binding protein [Clostridium novyi NT]
 gi|118134458|gb|ABK61502.1| DNA-binding protein, putative [Clostridium novyi NT]
          Length = 184

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 29/66 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++  R    MS + + +  G++   + + E+G +    S L  I+  L+   S F 
Sbjct: 8  IGMNLKTIRTKRNMSLDNVSKLTGVSKAMLGQIERGESNPTVSTLWKIATGLKVSFSSFI 67

Query: 75 DVSPTV 80
          D S   
Sbjct: 68 DESKET 73


>gi|14520844|ref|NP_126319.1| repressor protein, putative [Pyrococcus abyssi GE5]
 gi|5458060|emb|CAB49550.1| Helix-turn-helix repressor protein family [Pyrococcus abyssi GE5]
          Length = 73

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G++QE+L   LG+T Q +   EKG           I+      I   F
Sbjct: 3  NRLREFREKYGLTQEELARILGVTRQTIIAIEKGKYDPSLRLAFKIARFFGVRIEDIF 60


>gi|329116759|ref|ZP_08245476.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis NCFD
           2020]
 gi|326907164|gb|EGE54078.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis NCFD
           2020]
          Length = 113

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/108 (21%), Positives = 45/108 (41%), Gaps = 8/108 (7%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R    ++Q K+ + L IT Q   ++E G       +L  I++       +  +  
Sbjct: 6   RLKELRQQKNLTQAKVADSLEITQQSYARWENGKVTPTPEKLSKIAKFYGVTTDYLLEGQ 65

Query: 78  PTVCSDISSEENNVMDFISTPDGL-QLNRYFIQ---IDDVKVRQKIIE 121
                D     N  + F  T DGL +  +   +   I+ +K R+K+ +
Sbjct: 66  K----DDIDLSNVEVLFRMTSDGLTEEEKAIFRDELIEFMKERKKLFD 109


>gi|325262607|ref|ZP_08129344.1| DNA-binding protein [Clostridium sp. D5]
 gi|324032439|gb|EGB93717.1| DNA-binding protein [Clostridium sp. D5]
          Length = 365

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 32/65 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR +R  +G++QE+L   LG++   V K+EKG++    + L  ++      +       P
Sbjct: 7  IRCKRKEMGLTQEELARYLGVSAPAVNKWEKGLSYPDITLLPVLAAYFNLSVDDLIGYEP 66

Query: 79 TVCSD 83
           +  +
Sbjct: 67 QMVKE 71


>gi|294787640|ref|ZP_06752884.1| DNA-binding protein [Simonsiella muelleri ATCC 29453]
 gi|294483933|gb|EFG31616.1| DNA-binding protein [Simonsiella muelleri ATCC 29453]
          Length = 135

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/54 (33%), Positives = 29/54 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++IR  R     SQE+L   LG++     K E+G  R+  SRL  ++E+ +  I
Sbjct: 5  EKIRKIREEKKWSQEELANKLGLSTNGYAKIERGETRLTLSRLFQLAEIFKLDI 58


>gi|262402969|ref|ZP_06079529.1| predicted transcriptional regulator [Vibrio sp. RC586]
 gi|262350468|gb|EEY99601.1| predicted transcriptional regulator [Vibrio sp. RC586]
          Length = 237

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RIR  R  L ++Q+++   +G++   +  +E+       S L  + + L     +  
Sbjct: 6  IGERIRRVRKELKLTQQQVASSIGVSPTSLVFWERNETTPKGSNLIALCKKLRVDPLWLQ 65

Query: 75 DVSPTVCSDISSEE 88
              T  S   + E
Sbjct: 66 TGKGTQDSTAGNAE 79


>gi|282600159|ref|ZP_05973201.2| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282566606|gb|EFB72141.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 107

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 29/59 (49%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          N +    GK +R  R    M+ ++L + + ++ QQ+ +YE G   +   +L  +   L+
Sbjct: 6  NSISFYTGKFLRKARKEKNMTGKQLAKLMHVSQQQISRYETGRTSLTLEQLSQLLFFLD 64


>gi|149924308|ref|ZP_01912679.1| transcriptional regulator, XRE family protein [Plesiocystis
           pacifica SIR-1]
 gi|149814844|gb|EDM74411.1| transcriptional regulator, XRE family protein [Plesiocystis
           pacifica SIR-1]
          Length = 494

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/135 (15%), Positives = 46/135 (34%), Gaps = 9/135 (6%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G ++R +R   GM+Q +L   LGI+   +   E     + A  L  ++      +  F
Sbjct: 15  NLGSKVRAKRRARGMTQAELARRLGISASYLNLIEHNQRPLRAELLLSLAREFGLGLDDF 74

Query: 74  FDVSPTVCS----DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
                        +  S+       +++ +  +L           V + ++ L      +
Sbjct: 75  ASDDDHRLGAHLLEAFSDPLFEEHPLNSAEVRELAS-----TSPAVARAVLTLYEQYQRA 129

Query: 130 EKKYRTIEEECMVEQ 144
                 + E+    Q
Sbjct: 130 RNSLAELAEDSYARQ 144


>gi|217980293|ref|YP_002364269.1| putative phage repressor [Shewanella baltica OS223]
 gi|217500930|gb|ACK48902.1| putative phage repressor [Shewanella baltica OS223]
          Length = 209

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 38/73 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G R++  R I G++Q ++ E +G++   V ++E G ++    +L  +  +LE   ++
Sbjct: 1  MKLGDRLKNTRKIKGLTQLQIAEGVGVSKVAVSRWELGYSQPKGEKLNALCNLLEIDSNW 60

Query: 73 FFDVSPTVCSDIS 85
                  C +++
Sbjct: 61 LLTGLKDECKNVA 73


>gi|229528221|ref|ZP_04417612.1| hypothetical protein VCG_001301 [Vibrio cholerae 12129(1)]
 gi|261212926|ref|ZP_05927210.1| predicted transcriptional regulator [Vibrio sp. RC341]
 gi|297580070|ref|ZP_06941997.1| HTH-type transcriptional regulator PrtR [Vibrio cholerae RC385]
 gi|229334583|gb|EEO00069.1| hypothetical protein VCG_001301 [Vibrio cholerae 12129(1)]
 gi|260837991|gb|EEX64668.1| predicted transcriptional regulator [Vibrio sp. RC341]
 gi|297535716|gb|EFH74550.1| HTH-type transcriptional regulator PrtR [Vibrio cholerae RC385]
          Length = 237

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RIR  R  L ++Q+++   +G++   +  +E+       S L  + + L     +  
Sbjct: 6  IGERIRRVRKELKLTQQQVASSIGVSPTSLVFWERNETTPKGSNLIALCKKLRVDPLWLQ 65

Query: 75 DVSPTVCSDISSEE 88
              T  S   + E
Sbjct: 66 TGKGTQDSTAGNAE 79


>gi|323142483|ref|ZP_08077303.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
 gi|322413060|gb|EFY03959.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
          Length = 141

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 7  IPNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +   +D   +G RI+  R   G++Q  +    G++   +   E G  ++G   + H++ V
Sbjct: 1  MKLDIDYKAIGLRIKAARARKGLTQGNIANLTGLSTPHISNIETGNTKLGLPTIIHLANV 60

Query: 66 LESPIS 71
          L+  + 
Sbjct: 61 LDVSVD 66


>gi|312174394|emb|CBX82641.1| HTH-type transcriptional regulator dicA Repressor protein of
          division inhibition gene dicA [Erwinia amylovora ATCC
          BAA-2158]
          Length = 141

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 31/56 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR+   R   GM+Q ++   L ++ Q VQ +E G  R+  S L  ++++L   +
Sbjct: 29 LGKRMTGYRKACGMTQAQMALALDVSQQAVQSWEAGRRRIQISVLPAVAKLLSVSL 84


>gi|269838246|ref|YP_003320474.1| transcriptional regulator, XRE family [Sphaerobacter thermophilus
          DSM 20745]
 gi|269787509|gb|ACZ39652.1| transcriptional regulator, XRE family [Sphaerobacter thermophilus
          DSM 20745]
          Length = 71

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I+  R   G +Q +L   +G+T   +  +E G N   AS+L+ ++++    + 
Sbjct: 4  IKELREARGWTQLELAYRVGVTPATIYNWEAGRNEPKASQLRKLAQIFGVSMD 56


>gi|254463689|ref|ZP_05077100.1| DNA-binding protein [Rhodobacterales bacterium Y4I]
 gi|206684597|gb|EDZ45079.1| DNA-binding protein [Rhodobacterales bacterium Y4I]
          Length = 189

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 30/69 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R   G++   +   L  +   + + E+ ++    S L+ I+E L  P+S  F
Sbjct: 11 LGADIRALRKARGLTLTDVAAVLNRSVGWLSQVERDMSEPSISDLRQIAEALGVPMSMLF 70

Query: 75 DVSPTVCSD 83
            S     +
Sbjct: 71 AHSGAPAHE 79


>gi|119962787|ref|YP_946870.1| helix-turn-helix domain-containing protein [Arthrobacter
          aurescens TC1]
 gi|119949646|gb|ABM08557.1| putative Helix-turn-helix domain protein [Arthrobacter aurescens
          TC1]
          Length = 175

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 28/62 (45%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
          R   GM+  +L +  G++   V + E+G+     + L  ++  L+ P+  FF       S
Sbjct: 2  RKAKGMTLAQLSDVTGLSQAIVSQIERGMANPSFTTLAQLAHGLDIPVGRFFIGQDESKS 61

Query: 83 DI 84
           +
Sbjct: 62 PV 63


>gi|70725248|ref|YP_252162.1| hypothetical protein SH0247 [Staphylococcus haemolyticus
          JCSC1435]
 gi|68445972|dbj|BAE03556.1| unnamed protein product [Staphylococcus haemolyticus JCSC1435]
          Length = 112

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 32/87 (36%), Gaps = 5/87 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++IR  R    ++Q++L   L  T Q V K+E+G        +  +++  +         
Sbjct: 5  EQIRKHRKENNLTQDQLATELHTTRQTVSKWEQGTIEPNVQMIVQLAQRFDISTDELLTG 64

Query: 77 S-----PTVCSDISSEENNVMDFISTP 98
                    S    E  N  DF+S  
Sbjct: 65 QTSHPYKREESQSYPEHLNFWDFLSQK 91


>gi|37526811|ref|NP_930155.1| hypothetical protein plu2921 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36786243|emb|CAE15295.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 67

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 33/64 (51%), Gaps = 1/64 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + +R++ +R  + M+Q  L   +G+T Q +Q  E G+ +     +  I+ VL+   S+  
Sbjct: 4  LSERLKRKRSEMNMTQSDLAGRVGMTQQSIQLIEAGITK-RPRFIFEIANVLKCDPSWLL 62

Query: 75 DVSP 78
            +P
Sbjct: 63 YGNP 66


>gi|332298423|ref|YP_004440345.1| helix-turn-helix domain protein [Treponema brennaborense DSM
          12168]
 gi|332181526|gb|AEE17214.1| helix-turn-helix domain protein [Treponema brennaborense DSM
          12168]
          Length = 195

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 28/62 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  I   R   GM+Q++L + L ++ + V K+E G      + L  +S +L    +   +
Sbjct: 7  GNLIARLRKERGMTQKQLADGLFVSDKAVSKWETGAGCPDVTLLSALSRILGVDTAALLN 66

Query: 76 VS 77
            
Sbjct: 67 GD 68


>gi|321157319|emb|CBW39301.1| Helix-turn-helix DNA binding protein [Streptococcus pneumoniae]
          Length = 116

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 30/71 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +   +R++  R    ++Q  + E LGI+      +E+G  +     L  I++VL   I +
Sbjct: 1  MEFSERLKNLRKQAHLTQVDVAEKLGISQPAYASWERGAKKPTQDNLVKIAQVLNVSIDY 60

Query: 73 FFDVSPTVCSD 83
              S     +
Sbjct: 61 LVGNSDEHLKE 71


>gi|302875300|ref|YP_003843933.1| helix-turn-helix domain-containing protein [Clostridium
           cellulovorans 743B]
 gi|307688151|ref|ZP_07630597.1| helix-turn-helix domain-containing protein [Clostridium
           cellulovorans 743B]
 gi|302578157|gb|ADL52169.1| helix-turn-helix domain protein [Clostridium cellulovorans 743B]
          Length = 119

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/95 (22%), Positives = 44/95 (46%), Gaps = 9/95 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFF- 74
           +RI+ RR+ LG+S + + +  GI+    Q+YE G +  +G  +L  ++++L++  S+   
Sbjct: 11  ERIKNRRIELGLSYQDMQDATGISKSTWQRYETGFIKNLGIDKLDIVAKILQTTPSYLMG 70

Query: 75  -DVSPTVCSDISSEENNVMDF------ISTPDGLQ 102
            D       D S        F       +  + ++
Sbjct: 71  WDTDKKAEIDTSGIHTIAAHFEGEDFTEADKEDIE 105


>gi|42782413|ref|NP_979660.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|42738338|gb|AAS42268.1| DNA-binding protein [Bacillus cereus ATCC 10987]
          Length = 67

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 2/62 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  L M+QE L + +G+  + +   EKG           I++ L+S I   F F+
Sbjct: 6  KIKEYRAKLNMTQEDLAKSVGVRRETISHLEKGKYNPSLQLAHDIAKALQSTIDEVFIFE 65

Query: 76 VS 77
            
Sbjct: 66 DE 67


>gi|148265511|ref|YP_001232217.1| XRE family transcriptional regulator [Geobacter uraniireducens
          Rf4]
 gi|146399011|gb|ABQ27644.1| transcriptional regulator, XRE family [Geobacter uraniireducens
          Rf4]
          Length = 187

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 27/71 (38%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D N+G +I+  R  + ++ + +    G +   + + E        + L  I+      I 
Sbjct: 3  DYNIGAKIKELRRAIKLTLQDVANETGFSTALLSQIENNNISPPIATLDKIAHFFGVRIG 62

Query: 72 FFFDVSPTVCS 82
           FF  S   C 
Sbjct: 63 HFFIESEEECP 73


>gi|254190407|ref|ZP_04896915.1| probable transcription regulator protein [Burkholderia
          pseudomallei Pasteur 52237]
 gi|157938083|gb|EDO93753.1| probable transcription regulator protein [Burkholderia
          pseudomallei Pasteur 52237]
          Length = 109

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/82 (26%), Positives = 32/82 (39%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
            P P+ I +GKRI+  R  +  SQE L     +    +   E+GV       L +I   
Sbjct: 11 SRPAPISIALGKRIKQCRHAVDKSQETLAFEAHVDRTYISAIERGVANPSVETLANICHA 70

Query: 66 LESPISFFFDVSPTVCSDISSE 87
          L   +S  F     V    + E
Sbjct: 71 LNVTLSELFAPLDGVSLKPTGE 92


>gi|329668140|gb|AEB94088.1| hypothetical protein LJP_1772 [Lactobacillus johnsonii DPC 6026]
          Length = 161

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 25/55 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++I+  R    ++QE++ + L +T Q +  +E   N      +  I+E     + 
Sbjct: 5  EQIKRLRKENNLTQEEMAKKLNVTRQAISNWENNRNLPDFEMIILIAETFGVSLD 59


>gi|315650286|ref|ZP_07903358.1| helix-turn-helix domain protein [Eubacterium saburreum DSM 3986]
 gi|315487397|gb|EFU77707.1| helix-turn-helix domain protein [Eubacterium saburreum DSM 3986]
          Length = 121

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 26/58 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+R+R  R  LG++ E  GE +G+    V + EKG N +    +  I         + 
Sbjct: 2  GERVRELRKALGLTLEAFGEKVGVGKSAVSRLEKGTNNLTEQMILAICREFNVNEEWL 59


>gi|303233322|ref|ZP_07319992.1| helix-turn-helix protein [Atopobium vaginae PB189-T1-4]
 gi|302480567|gb|EFL43657.1| helix-turn-helix protein [Atopobium vaginae PB189-T1-4]
          Length = 328

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/111 (18%), Positives = 42/111 (37%), Gaps = 19/111 (17%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DV 76
           +I   R   G SQE+L + LG++ Q V K+E   +     R+  +S +          D 
Sbjct: 6   KILELRKQNGWSQEELADKLGVSRQSVSKWEGAQSIPDMERIIALSRLFGVSTDLLVKDE 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
              +  ++ ++E    +                  +  VR ++I+L  +  
Sbjct: 66  IDVMEKNVDADEAACQE------------------EAGVRMRVIKLEEATA 98


>gi|291441034|ref|ZP_06580424.1| regulatory protein [Streptomyces ghanaensis ATCC 14672]
 gi|291343929|gb|EFE70885.1| regulatory protein [Streptomyces ghanaensis ATCC 14672]
          Length = 190

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 41/110 (37%), Gaps = 11/110 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R    ++   L E  GI+   + + E G+ R     L  I++  + P+    
Sbjct: 10  VGPRLRRIRKEREVTLAALSEATGISVSTLSRLESGLRRPSLELLLPIAQAHQVPLDELV 69

Query: 75  DVSPTVCSDISSEENNVMD-----FISTPDGLQLNRYFIQIDDVKVRQKI 119
              P     + S+               P GLQ    +  ++    R+K+
Sbjct: 70  GAPPVGDPRVRSKPIERYGRTHWPLTRQPGGLQ---AYKVLEP---RRKL 113


>gi|317131914|ref|YP_004091228.1| helix-turn-helix domain protein [Ethanoligenens harbinense
          YUAN-3]
 gi|315469893|gb|ADU26497.1| helix-turn-helix domain protein [Ethanoligenens harbinense
          YUAN-3]
          Length = 118

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G R+R  R  + +SQ K+   +G T   + +YE GV+    + L   ++  +  + +
Sbjct: 2  KEIGNRLRALREGVKLSQAKIANLVGTTQATINRYETGVSSPPLNVLIWYADHFDVSMDY 61

Query: 73 FF 74
           F
Sbjct: 62 IF 63


>gi|266623508|ref|ZP_06116443.1| putative transcriptional regulatory protein [Clostridium
          hathewayi DSM 13479]
 gi|288864705|gb|EFC97003.1| putative transcriptional regulatory protein [Clostridium
          hathewayi DSM 13479]
          Length = 345

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 30/56 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+ IR  R    M+QE++G  LG+T   V K+E G +    + L  I+ +L  
Sbjct: 1  MQLGQVIRKYRKNKNMTQEEMGGRLGVTAPAVNKWENGASMPDITLLAPIARLLGI 56


>gi|254497228|ref|ZP_05110037.1| conserved hypothetical protein [Legionella drancourtii LLAP12]
 gi|254353552|gb|EET12278.1| conserved hypothetical protein [Legionella drancourtii LLAP12]
          Length = 84

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 33/79 (41%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K+ +   I +G++IR  R   G SQE++ +  G+    + + E+G   +    L  I+  
Sbjct: 2  KVKHQNLIKIGEKIRTLRTSEGYSQEEIADASGMGRTYMGRVERGEQNISIQNLIQIAFA 61

Query: 66 LESPISFFFDVSPTVCSDI 84
          L   +         + +  
Sbjct: 62 LNVEVGVLVPALSELINPA 80


>gi|229082772|ref|ZP_04215209.1| hypothetical protein bcere0023_53730 [Bacillus cereus Rock4-2]
 gi|228700527|gb|EEL53076.1| hypothetical protein bcere0023_53730 [Bacillus cereus Rock4-2]
          Length = 144

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/89 (16%), Positives = 36/89 (40%), Gaps = 6/89 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R    ++Q+ L + +  T   +  YE G +      L+ ++ VL     +    
Sbjct: 4   QRLKEMRKTRKLTQQGLADKVNTTKGTISNYENGHSTPSNEMLKDLANVLGVTTDYL--- 60

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNR 105
              +  +  S  +N +  ++  D   + R
Sbjct: 61  ---LGREDESRMSNALPDLNKKDTRDIAR 86


>gi|225419976|ref|ZP_03762279.1| hypothetical protein CLOSTASPAR_06317 [Clostridium asparagiforme
          DSM 15981]
 gi|225041368|gb|EEG51614.1| hypothetical protein CLOSTASPAR_06317 [Clostridium asparagiforme
          DSM 15981]
          Length = 139

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 2/69 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--F 74
          +++++    L +SQ KL +  GI    + +Y  G N     R + I+  L     +F  F
Sbjct: 5  EKLKVLMGELDLSQSKLSDLTGIGKSSISQYLSGKNEPSKDRKKEIARKLGVQEDYFDTF 64

Query: 75 DVSPTVCSD 83
          + + TV  D
Sbjct: 65 ETAATVQHD 73


>gi|218134626|ref|ZP_03463430.1| hypothetical protein BACPEC_02529 [Bacteroides pectinophilus ATCC
          43243]
 gi|217990011|gb|EEC56022.1| hypothetical protein BACPEC_02529 [Bacteroides pectinophilus ATCC
          43243]
          Length = 107

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 31/58 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+RI+  R    M++++L E +G++   ++K E GVN      L  I+E+    + + 
Sbjct: 9  GERIKELRAARRMTRQQLAEQIGLSVDALRKIEAGVNGAKIDTLISIAELFHITLDYL 66


>gi|72161652|ref|YP_289309.1| helix-hairpin-helix DNA-binding motif-containing protein
          [Thermobifida fusca YX]
 gi|71915384|gb|AAZ55286.1| helix-turn-helix motif [Thermobifida fusca YX]
          Length = 267

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 29/57 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + +G++IR  R   G+SQE+L + + ++   +   E+G   +    ++ I   L  P
Sbjct: 9  VKIGQKIREHRQHAGLSQEELAKLVALSPTMLSAMERGTRGIKRDHVERIDAALGIP 65


>gi|68536003|ref|YP_250708.1| hypothetical protein jk0926 [Corynebacterium jeikeium K411]
 gi|68263602|emb|CAI37090.1| hypothetical protein jk0926 [Corynebacterium jeikeium K411]
          Length = 294

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+R+R  R+  G+SQ  L E +  +   + ++E GV+      +  ++  L   +S
Sbjct: 12 GRRLRHARLDRGLSQNALAEGI-CSASAISRWEAGVHLPPEDAIWSLANRLGIDVS 66


>gi|56963615|ref|YP_175346.1| transcriptional regulator [Bacillus clausii KSM-K16]
 gi|56909858|dbj|BAD64385.1| transcriptional regulator [Bacillus clausii KSM-K16]
          Length = 106

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/98 (20%), Positives = 39/98 (39%), Gaps = 9/98 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V +R++  R    ++QE+LGE + +T   +  YE G        L+ +++V      +  
Sbjct: 4   VPERLKTLRKERQLTQEQLGELINVTKVSISGYENGNRTPDTDTLRRLADVFGVSTDYLL 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNR---YFIQ 109
             S               + ++  +  QL R    FI+
Sbjct: 64  GRSKEKNGSF-----FYDNELTHKEA-QLLREHLAFIR 95


>gi|158311928|ref|YP_001504436.1| hypothetical protein Franean1_0062 [Frankia sp. EAN1pec]
 gi|158107333|gb|ABW09530.1| protein of unknown function DUF955 [Frankia sp. EAN1pec]
          Length = 394

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 30/62 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+   R + G+++  +   LG++   V ++E G +      +  ++EVL+ P +F    
Sbjct: 33 ARLAQARRLAGLTKRAVAGQLGVSPVAVGQWEAGTHAPRPDHVGRLAEVLDVPPAFLAAG 92

Query: 77 SP 78
           P
Sbjct: 93 RP 94


>gi|322388685|ref|ZP_08062284.1| cro/CI family transcriptional regulator [Streptococcus infantis
          ATCC 700779]
 gi|321140474|gb|EFX35980.1| cro/CI family transcriptional regulator [Streptococcus infantis
          ATCC 700779]
          Length = 113

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 33/72 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R    ++Q +L + LGI       +E+G  +     L  I+++L+  I +    
Sbjct: 5  ERLKELRKQAHLTQVELAKRLGIGQSSYADWERGKKKPTQENLVKIAQILDVSIDYLVGN 64

Query: 77 SPTVCSDISSEE 88
          S     ++ + E
Sbjct: 65 SEEKSDELDNIE 76


>gi|310640587|ref|YP_003945345.1| transcription factor,eukaryotic mbf1-like protein [Paenibacillus
          polymyxa SC2]
 gi|309245537|gb|ADO55104.1| Predicted transcription factor,eukaryotic MBF1-like protein
          [Paenibacillus polymyxa SC2]
          Length = 115

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 2/87 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
          VG RIR  R   G+SQE L E  G     +   E+    +    L+ I++ L   +    
Sbjct: 8  VGTRIRDIRKSKGLSQEALAEQAGFNSSYIGFIERAERNISLKNLEKIAKALNVGVYQLL 67

Query: 74 -FDVSPTVCSDISSEENNVMDFISTPD 99
           +       ++  S    ++  + T +
Sbjct: 68 TYVKENDELTEEDSSIKAILSLLRTRE 94


>gi|290956627|ref|YP_003487809.1| regulator protein [Streptomyces scabiei 87.22]
 gi|260646153|emb|CBG69246.1| putative regulator protein [Streptomyces scabiei 87.22]
          Length = 410

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 24/89 (26%), Positives = 40/89 (44%), Gaps = 5/89 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLESPISFF 73
           +G+RI   R   G +Q  L   +G +   + K E+GV +     +L  ++ VL  P+S  
Sbjct: 10  IGQRIAFYRERRGYTQPVLAGLVGHSTDWLSKIERGVRKPPRIDKLAELARVLRVPLSDL 69

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQ 102
               P +  D   EE ++ D  +  D L 
Sbjct: 70  M-GQPVLLED---EEKHMDDVPAVRDALM 94


>gi|302530030|ref|ZP_07282372.1| predicted protein [Streptomyces sp. AA4]
 gi|302438925|gb|EFL10741.1| predicted protein [Streptomyces sp. AA4]
          Length = 180

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/88 (22%), Positives = 31/88 (35%), Gaps = 1/88 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
           VG RIR  R   G+    L    G+    + + E G        L  I+  L  P+S   
Sbjct: 16  VGTRIRTLRTRAGVGLTTLAADSGLGKGTLSELENGRRNPTLDTLFAIATALSIPLSDLL 75

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGL 101
           F       +   S    ++     P+G+
Sbjct: 76  FGDDGVAEAHGDSVTATLLGRWEDPEGV 103


>gi|290894052|ref|ZP_06557026.1| phage protein [Listeria monocytogenes FSL J2-071]
 gi|290556396|gb|EFD89936.1| phage protein [Listeria monocytogenes FSL J2-071]
          Length = 100

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/99 (19%), Positives = 39/99 (39%), Gaps = 2/99 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK+++  R     +QE L   LGI+       E G N      +  ++   E    +   
Sbjct: 3   GKKLKKLRNKTNKTQEDLANILGISRAAYSHIENGRNEPDMETIVKLANYFEVSTDYLLG 62

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
            +    SD+ +    + D ++  + +++ +Y   I   K
Sbjct: 63  RNEIGNSDLLAAH--IDDDLTEEERIEIEKYLKFIRSQK 99


>gi|239820586|ref|YP_002947771.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
 gi|239805439|gb|ACS22505.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 95

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 32/67 (47%), Gaps = 4/67 (5%)

Query: 19 IRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +RL R+  G+ Q+KLG   G+       ++ +YE GV+    S    +++ L  P  +F+
Sbjct: 1  MRLARLAAGLPQDKLGVKAGLDDGTASARISRYESGVHEPNISFAHRLADELGVPAPYFY 60

Query: 75 DVSPTVC 81
               + 
Sbjct: 61 AADDELA 67


>gi|228990347|ref|ZP_04150313.1| Helix-turn-helix repressor protein [Bacillus pseudomycoides DSM
          12442]
 gi|228769423|gb|EEM18020.1| Helix-turn-helix repressor protein [Bacillus pseudomycoides DSM
          12442]
          Length = 64

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 2/62 (3%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFDVSP 78
            R  LG+SQEKL E LG++ Q +   EKG           I++  ++ I   F ++   
Sbjct: 3  EYRKKLGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKAFQTTIENVFIYEGKE 62

Query: 79 TV 80
            
Sbjct: 63 RE 64


>gi|206974554|ref|ZP_03235470.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|222096804|ref|YP_002530861.1| transcriptional regulator [Bacillus cereus Q1]
 gi|206747197|gb|EDZ58588.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|221240862|gb|ACM13572.1| transcriptional regulator [Bacillus cereus Q1]
          Length = 67

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 2/61 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  L M+QE L + +G+  + +   EKG           I+  L S I   F F+
Sbjct: 6  KIKEYRAKLNMTQEDLAKSVGVRRETISHLEKGKYNPSLQLAHDIARALHSTIDEVFIFE 65

Query: 76 V 76
           
Sbjct: 66 D 66


>gi|163795463|ref|ZP_02189430.1| transcriptional regulator, XRE family protein [alpha
           proteobacterium BAL199]
 gi|159179449|gb|EDP63980.1| transcriptional regulator, XRE family protein [alpha
           proteobacterium BAL199]
          Length = 481

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/114 (18%), Positives = 41/114 (35%), Gaps = 18/114 (15%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +IR  R+  G+SQ ++   +GI+   +   E     V    L  +    E  +  F 
Sbjct: 12  LGHKIRRFRLDQGLSQTEMAAQIGISPSYLNLIEHNQRPVTVPLLFKLGNAFEIDLKEFA 71

Query: 75  DVSPTVCSDISSE-------------ENNVMDFISTP-----DGLQLNRYFIQI 110
           +      +   SE             E  + + +++        L L R + +I
Sbjct: 72  EDDDQRLAAGLSEVFGDPLFEGQAVSEREMRELVASAPAAAQGVLTLYRAYRRI 125


>gi|134098034|ref|YP_001103695.1| XRE family transcriptional regulator [Saccharopolyspora erythraea
           NRRL 2338]
 gi|291007202|ref|ZP_06565175.1| XRE family transcriptional regulator [Saccharopolyspora erythraea
           NRRL 2338]
 gi|133910657|emb|CAM00770.1| transcriptional regulator, XRE family [Saccharopolyspora erythraea
           NRRL 2338]
          Length = 488

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 27/142 (19%), Positives = 52/142 (36%), Gaps = 4/142 (2%)

Query: 3   GNKKIPNPVDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            ++      D+ V G+R+R  R   G++  +LGE +G    Q+   E G      S L+ 
Sbjct: 8   EDRNFSTDQDLLVFGQRLRHLRRAAGLTLVELGERVGRAPSQLSLLENGHREPKLSLLRS 67

Query: 62  ISEVLESPISFFFDVSPTVCSDISSE--ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +++ L S +       P           E   +D +     L   +   ++    + + +
Sbjct: 68  LADALGSSVDELMSKKPPNRRAELEIAVEQAQLDPLYQRLSLPPLKVGKRVPTEAL-EHV 126

Query: 120 IELVRSIVSSEKKYRTIEEECM 141
           + L   +   E K     EE  
Sbjct: 127 LALYDELKRRENKQVATPEEAR 148


>gi|167032884|ref|YP_001668115.1| XRE family transcriptional regulator [Pseudomonas putida GB-1]
 gi|166859372|gb|ABY97779.1| transcriptional regulator, XRE family [Pseudomonas putida GB-1]
          Length = 197

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 31/71 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+R+R  R    M+ ++L E  G+    + K E     V   +L   +  L   I+  F
Sbjct: 13 VGQRLRQVRKARQMTLKQLSEASGVPVSTLSKMELAQVSVSYEKLAAAARALNVDIAQLF 72

Query: 75 DVSPTVCSDIS 85
            S TV + + 
Sbjct: 73 RASGTVSAPVP 83


>gi|113461078|ref|YP_719146.1| hypothetical protein HS_0935 [Haemophilus somnus 129PT]
 gi|112823121|gb|ABI25210.1| conserved hypothetical protein [Haemophilus somnus 129PT]
          Length = 143

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 31/63 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + IR  R    M+QE + E L ++     K+E+G +++   RL  I+++LE P+      
Sbjct: 9  ENIRTFRENKKMTQEMMAERLNVSKTCYAKWERGESQIRIERLVQIAQILEVPLEDLMSS 68

Query: 77 SPT 79
             
Sbjct: 69 MNE 71


>gi|288917740|ref|ZP_06412103.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
 gi|288350955|gb|EFC85169.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
          Length = 254

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/82 (15%), Positives = 31/82 (37%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            N      ++  +   +R  R   G++  +L    G++   + K E        + L  +
Sbjct: 56  ENASRQGRLERAIAGNVRRLRHDRGLTLAELAARSGVSSAMISKVENASISCSLTTLDRL 115

Query: 63  SEVLESPISFFFDVSPTVCSDI 84
           +E L+ P++  F  +      +
Sbjct: 116 AETLDVPVTSLFRGADAAREAV 137


>gi|240145805|ref|ZP_04744406.1| toxin-antitoxin system, antitoxin component, Xre family
          [Roseburia intestinalis L1-82]
 gi|257202094|gb|EEV00379.1| toxin-antitoxin system, antitoxin component, Xre family
          [Roseburia intestinalis L1-82]
          Length = 87

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R++ RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   + 
Sbjct: 8  KLIGSRVKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ +  
Sbjct: 68 WLKGETDEYETDITDKRE 85


>gi|23016781|ref|ZP_00056533.1| COG0703: Shikimate kinase [Magnetospirillum magnetotacticum MS-1]
          Length = 290

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/116 (18%), Positives = 47/116 (40%), Gaps = 4/116 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +   +G R++  R   GMS++ L    GI+ + + + E G   V  + L  +++ +++ I
Sbjct: 10  LSRRLGDRVKAFRARRGMSRKDLSSHAGISERYLAQLEGGQANVSVNILWLLAQAMDTAI 69

Query: 71  SFFFDVSPTVCSDISSEENNVMDFI---STPDGLQLNR-YFIQIDDVKVRQKIIEL 122
           +   +                +D +      +   L R  F +   +K R  +I L
Sbjct: 70  TDLIEAESETGHPDLPLAKKFLDQLNPDQQSEAYVLLRQNFKRGLKLKRRVALIGL 125


>gi|306835386|ref|ZP_07468407.1| DNA-binding protein [Corynebacterium accolens ATCC 49726]
 gi|304568752|gb|EFM44296.1| DNA-binding protein [Corynebacterium accolens ATCC 49726]
          Length = 437

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/125 (14%), Positives = 49/125 (39%), Gaps = 11/125 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RI   R   G++Q  + + LG++   + + E     +  + L  +++      S+F +
Sbjct: 7   GARIHALRKQRGLTQVAMAKKLGLSTSYLNQLENDQRPLTVTVLMQLAQRFTVDPSYFAE 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL-QLNRYFIQIDDVKVRQKIIELV-RSIVSSEKKY 133
                   I+   +   D  ++ + L  L   F ++       + +++  R+  +    +
Sbjct: 67  DRD--IHTITELRHIFPD--ASEETLSDLASRFPELMP-----RFVDVASRAPAADPSPF 117

Query: 134 RTIEE 138
             + +
Sbjct: 118 EVVRD 122


>gi|303246095|ref|ZP_07332376.1| transcriptional regulator, XRE family [Desulfovibrio
          fructosovorans JJ]
 gi|302492491|gb|EFL52362.1| transcriptional regulator, XRE family [Desulfovibrio
          fructosovorans JJ]
          Length = 107

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 35/63 (55%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GK+I+  R    ++QEKL +  G++ Q + + E+G      + ++ +S+ L+ P++  F 
Sbjct: 9  GKKIKSIRRARDITQEKLADLSGLSLQYIGEIERGRRNPSLTSIEQLSKALDIPMAELFS 68

Query: 76 VSP 78
          +  
Sbjct: 69 LEE 71


>gi|253574793|ref|ZP_04852133.1| predicted protein [Paenibacillus sp. oral taxon 786 str. D14]
 gi|251845839|gb|EES73847.1| predicted protein [Paenibacillus sp. oral taxon 786 str. D14]
          Length = 127

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 40/86 (46%), Gaps = 2/86 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI+  R +  ++Q+ L     I+  Q+ +YE    +     L++I + L++   +  
Sbjct: 13  LGERIKYLRELRQLTQKDLASQAEISVVQLSRYETNDRKPDPEVLRNIVDALDTSADYL- 71

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
            +  T     ++E+   + F   P+ 
Sbjct: 72  -LGRTNDPSPAAEKGMSLSFFGGPEA 96


>gi|255279970|ref|ZP_05344525.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
 gi|255269743|gb|EET62948.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
          Length = 257

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/104 (17%), Positives = 47/104 (45%), Gaps = 9/104 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ +  +R    ++Q++L + L ++ + V K+E+G +    + L  ++E L   ++   +
Sbjct: 10  GRFVAQQRKKKKLTQKELAQKLYVSDKAVSKWERGSSMPDIALLTPLAEALGVTVTELLE 69

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQ 117
                     +EE+ + D         L +  + I +   ++R+
Sbjct: 70  GKEMEK----TEESRMAD---DSHLEMLLKKAVTITEDTPEMRR 106


>gi|332140175|ref|YP_004425913.1| transcriptional regulator, HTH_3 family protein [Alteromonas
          macleodii str. 'Deep ecotype']
 gi|327550197|gb|AEA96915.1| transcriptional regulator, HTH_3 family protein [Alteromonas
          macleodii str. 'Deep ecotype']
          Length = 187

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/93 (17%), Positives = 38/93 (40%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M      P+ +  ++ + ++  R   G+S +K  +  G++   + + E+G +    + L 
Sbjct: 1  MTKANAQPSAISKSIAQHLQSVRTGRGLSLDKTAKLTGVSKAMLGQIERGESSPTIATLW 60

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENNVMD 93
           I+  L    S F     T  +   +++    D
Sbjct: 61 KIATGLACSFSSFLSGDETAPTSQHADDKFAND 93


>gi|56709057|ref|YP_165102.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
 gi|56680742|gb|AAV97407.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
          Length = 188

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/86 (26%), Positives = 34/86 (39%), Gaps = 6/86 (6%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPI 70
          D  +G+R+R+ R   G+SQ  L +  GI    +   E G      S L+    VL   PI
Sbjct: 8  DAELGQRLRVIRERAGLSQRALAKRSGIPNSTISLIEGGKINPSVSTLR---RVLGGIPI 64

Query: 71 --SFFFDVSPTVCSDISSEENNVMDF 94
            S FF   P           ++ + 
Sbjct: 65 GLSDFFAFEPEQEKASFYAAEDLTEI 90


>gi|84385211|ref|ZP_00988243.1| DNA-binding protein [Vibrio splendidus 12B01]
 gi|84379808|gb|EAP96659.1| DNA-binding protein [Vibrio splendidus 12B01]
          Length = 188

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 8/92 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VG  ++  R   G S +K  +  G++   + + E+G +    ++L  I+   E  +S 
Sbjct: 5  IKVGVNLKRLRQEKGWSLDKTAKETGVSKAMLGQIERGESSPTVAKLWQIASGFEVSLSS 64

Query: 73 FFDVSPTV--------CSDISSEENNVMDFIS 96
          F   S            +++  EE N+  F+S
Sbjct: 65 FIAASSNSELTSLFRDANELRHEEYNIGFFVS 96


>gi|319646699|ref|ZP_08000928.1| hypothetical protein HMPREF1012_01965 [Bacillus sp. BT1B_CT2]
 gi|317391287|gb|EFV72085.1| hypothetical protein HMPREF1012_01965 [Bacillus sp. BT1B_CT2]
          Length = 183

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/84 (16%), Positives = 34/84 (40%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N ++  V + I+  R +   S ++L    G++   + + EKG +    + L  I+  L+ 
Sbjct: 2  NSIEKQVAENIKRLRKVRNYSLDQLSSMTGVSKGMLAQIEKGSSSPTITTLWKIANGLQV 61

Query: 69 PISFFFDVSPTVCSDISSEENNVM 92
            +   +      + +   E   +
Sbjct: 62 SFTSLAEKPAGEPTVVRKHEKTPV 85


>gi|313904693|ref|ZP_07838067.1| transcriptional regulator, XRE family [Eubacterium cellulosolvens
           6]
 gi|313470486|gb|EFR65814.1| transcriptional regulator, XRE family [Eubacterium cellulosolvens
           6]
          Length = 106

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 41/92 (44%), Gaps = 7/92 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ I  RR  + ++QE+L + +G++   + K+E          L+ ISEV++  +    
Sbjct: 7   LGQFISTRRKHMRLTQEELADQVGVSKSAIAKWETDGGLPDRDNLRRISEVMDVSVD--- 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                +   I   E N  DF      L++ + 
Sbjct: 64  ----ELHRIIEQPETNHKDFFDVNITLEVIKA 91


>gi|312884735|ref|ZP_07744436.1| hypothetical protein VIBC2010_19520 [Vibrio caribbenthicus ATCC
           BAA-2122]
 gi|309367648|gb|EFP95199.1| hypothetical protein VIBC2010_19520 [Vibrio caribbenthicus ATCC
           BAA-2122]
          Length = 222

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 43/94 (45%), Gaps = 7/94 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV-----LESPI 70
           G+RIR  R + G+++++L +  G+    +Q +E   N++ A   + ++EV     L+   
Sbjct: 17  GERIRSARNLSGLTRQQLLDKYGLNTNTLQSWELERNKLSAKGAKKLAEVFESEGLKVSQ 76

Query: 71  SF--FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            +  F +  P       S E      IS  + +Q
Sbjct: 77  EWLLFGEGLPPQTKFFDSGEEFFQTSISEDEAIQ 110


>gi|317152201|ref|YP_004120249.1| helix-turn-helix domain-containing protein [Desulfovibrio
          aespoeensis Aspo-2]
 gi|316942452|gb|ADU61503.1| helix-turn-helix domain protein [Desulfovibrio aespoeensis
          Aspo-2]
          Length = 108

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 33/75 (44%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + + + +GKRIR  R    +SQ +L E  G+  + + + E+G N +    L  I+  L  
Sbjct: 2  DDILLKLGKRIRELRKKKELSQSRLAEMAGLNDKYLGEVERGSNNISVKNLGQIAAALGV 61

Query: 69 PISFFFDVSPTVCSD 83
                D +     D
Sbjct: 62 ETYELLDGAHEYEID 76


>gi|238801890|ref|YP_002925093.1| DNA binding protein [Streptococcus phage 5093]
 gi|238558576|gb|ACR45906.1| DNA binding protein [Streptococcus phage 5093]
          Length = 170

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD- 75
           R++  R +  M++ +L E +G+T   +  +E G + +  S  + +++     I +    
Sbjct: 2  NRLKELRELRKMTRVELAEKIGVTKLTILNWEHGTHEIKGSNAKKLADHFGVSIPYLLGY 61

Query: 76 VSPTVCSDISSEENNVMD 93
           +    SD+ ++ N   D
Sbjct: 62 DTDNTFSDLVAKINEWAD 79


>gi|160947469|ref|ZP_02094636.1| hypothetical protein PEPMIC_01403 [Parvimonas micra ATCC 33270]
 gi|158446603|gb|EDP23598.1| hypothetical protein PEPMIC_01403 [Parvimonas micra ATCC 33270]
          Length = 200

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 28/62 (45%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  V +R++  R I   +Q++  E LGI    +  YE G N      L  I++  +  + 
Sbjct: 3  NKTVSERLKYLRSINKKTQKEFAEFLGIPQPSMSAYENGKNNPTIDVLIDIADKCKVSLD 62

Query: 72 FF 73
          + 
Sbjct: 63 WL 64


>gi|86739571|ref|YP_479971.1| XRE family transcriptional regulator [Frankia sp. CcI3]
 gi|86566433|gb|ABD10242.1| transcriptional regulator, XRE family [Frankia sp. CcI3]
          Length = 497

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEV 65
             P  + VG+ +R  R   G++Q++L + LG     V K E G   +   S L+HI+  
Sbjct: 12 RSTPTSVGVGQLLRAYRQAHGLTQQQLADRLGFDQSYVSKVESGRRAIHDISTLRHIARN 71

Query: 66 L 66
          L
Sbjct: 72 L 72


>gi|297537332|ref|YP_003673101.1| XRE family transcriptional regulator [Methylotenera sp. 301]
 gi|297256679|gb|ADI28524.1| transcriptional regulator, XRE family [Methylotenera sp. 301]
          Length = 223

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 27/100 (27%), Positives = 45/100 (45%), Gaps = 13/100 (13%)

Query: 1   MVGNKKIP--NPVDIN---VGKRIRLRRMILGMSQEKLGEC--------LGITFQQVQKY 47
           M  +KK    N VD+    +GKRI   R  LG+SQE L +         +GI+   +  Y
Sbjct: 1   MSDDKKQSEKNKVDVLARDIGKRIFDARDGLGLSQESLYKRTKLNDHDGIGISRAVLSLY 60

Query: 48  EKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           E+G+N+ GA  +  +   L+   ++    S +    +   
Sbjct: 61  ERGINKPGAREISILCVTLKISPNWLLFGSESPAEALLPS 100


>gi|295099455|emb|CBK88544.1| Predicted transcriptional regulators [Eubacterium cylindroides
          T2-87]
          Length = 124

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 35/75 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+RI+  R   G++Q++L +   ++ + VQ  E+GV       L+   +VL   +  
Sbjct: 5  KELGRRIQKARKEKGLTQQELADLSHVSLKHVQGCERGVKNPSFEVLRAFCKVLNLSLDS 64

Query: 73 FFDVSPTVCSDISSE 87
            ++        +++
Sbjct: 65 LMNLDLPEDEQAAND 79


>gi|227508343|ref|ZP_03938392.1| transcription regulator [Lactobacillus brevis subsp. gravesensis
          ATCC 27305]
 gi|227192161|gb|EEI72228.1| transcription regulator [Lactobacillus brevis subsp. gravesensis
          ATCC 27305]
          Length = 209

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 31/75 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I+  R   G++Q  L E L I+ + V  +E G +    S +  +S+V    +      
Sbjct: 6  NKIKQYRTTKGLTQAGLAEKLSISRKTVSSWENGRSFPNFSTIIQLSKVFGIKVDDLLKN 65

Query: 77 SPTVCSDISSEENNV 91
             V    + ++  V
Sbjct: 66 DNKVIEHFNKQDKQV 80


>gi|225855406|ref|YP_002736918.1| cI repressor [Streptococcus pneumoniae JJA]
 gi|225724232|gb|ACO20085.1| cI repressor [Streptococcus pneumoniae JJA]
          Length = 250

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 32/70 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R    ++Q+KL E  G     +  +E G  ++    ++  ++ LE    + F
Sbjct: 4  LGSSIKEVRKSKKLTQKKLAELTGFKQNTISNHENGNRQLDEKDIRIYAQALEVSPQYLF 63

Query: 75 DVSPTVCSDI 84
          D++     +I
Sbjct: 64 DLAKPSSIEI 73


>gi|206972608|ref|ZP_03233551.1| DNA-binding protein [Bacillus cereus AH1134]
 gi|206732510|gb|EDZ49689.1| DNA-binding protein [Bacillus cereus AH1134]
          Length = 67

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 27/55 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE   + LG++   + + E+G        +  +++ L   I
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKALGVSVSVLGEVERGNRSPSQDFVVEVAKALNVSI 61


>gi|126011121|ref|YP_001039946.1| hypothetical protein phi3396_59 [Streptococcus phage phi3396]
 gi|124389390|gb|ABN10832.1| hypothetical protein phi3396_59 [Streptococcus phage phi3396]
          Length = 86

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 27/60 (45%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG++IR +R +  ++Q +L E L    Q +   E G  R     L  + ++    +  F
Sbjct: 23 FVGEQIRHQRKLAKLNQSQLAELLDTNQQTIGMMENGKRRATLQDLVKLRKIFNVSVDDF 82


>gi|37525095|ref|NP_928439.1| hypothetical protein plu1127 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|37525319|ref|NP_928663.1| hypothetical protein plu1363 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|37527554|ref|NP_930898.1| hypothetical protein plu3690 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|37527562|ref|NP_930906.1| hypothetical protein plu3698 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36784521|emb|CAE13421.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36784746|emb|CAE13656.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36786989|emb|CAE16063.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36786997|emb|CAE16071.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 112

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/83 (16%), Positives = 34/83 (40%), Gaps = 1/83 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-FFDV 76
          ++   R  LG +Q+++ + +G+   Q ++YE G ++      + I+  L        FD 
Sbjct: 6  KLAASRKELGFTQQQMADKIGMHVSQYKRYEAGTSQPTIDVFRRIALALNVSADMLLFDP 65

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
          +     D    +   +  +   +
Sbjct: 66 NERGPDDRLKLQFEAVSQLDEKE 88


>gi|103487098|ref|YP_616659.1| XRE family transcriptional regulator [Sphingopyxis alaskensis
          RB2256]
 gi|98977175|gb|ABF53326.1| transcriptional regulator, XRE family [Sphingopyxis alaskensis
          RB2256]
          Length = 71

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 27/69 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++ R +   SQ +L + L ++ Q V   E G           ++ + + PI   FD 
Sbjct: 3  NQLKVLRAMRNWSQAELADRLDVSRQAVNAIETGKYDPSLPLAFKLARLFDMPIEEIFDD 62

Query: 77 SPTVCSDIS 85
                D  
Sbjct: 63 GHKGQDDGE 71


>gi|331090621|ref|ZP_08339472.1| hypothetical protein HMPREF9477_00115 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330401061|gb|EGG80656.1| hypothetical protein HMPREF9477_00115 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 160

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 31/70 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G++I+  R    ++QE+    L ++ Q V  +E   N      L  +S+V +  + +
Sbjct: 1  MDFGEQIKSIRQKEKLTQEQFAMKLNVSRQAVSNWENNKNLPDIGMLILMSDVFQISLDY 60

Query: 73 FFDVSPTVCS 82
                 + +
Sbjct: 61 LIKGENEMNN 70


>gi|325274702|ref|ZP_08140747.1| XRE family transcriptional regulator [Pseudomonas sp. TJI-51]
 gi|324100169|gb|EGB97970.1| XRE family transcriptional regulator [Pseudomonas sp. TJI-51]
          Length = 187

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 27/132 (20%), Positives = 45/132 (34%), Gaps = 10/132 (7%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +V   +R  R   GMSQ  L E  G++ + +   E G   V  + L  I+E L    S  
Sbjct: 14  HVSLNVRSLRNAAGMSQAVLAERSGVSRRMLVAIEAGEKNVSLTTLDLIAEALGVAFSTL 73

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR-SIVSSEKK 132
                        E     +   +   L        +     R+++ EL   ++   E+ 
Sbjct: 74  IQAPDLRDPGRIEELAWAGEHPQSRAVL--------LGTSAARREV-ELWEWTLAPGERY 124

Query: 133 YRTIEEECMVEQ 144
               + E   EQ
Sbjct: 125 ASEADAEGWSEQ 136


>gi|257784647|ref|YP_003179864.1| transcriptional regulator, XRE family [Atopobium parvulum DSM
          20469]
 gi|257473154|gb|ACV51273.1| transcriptional regulator, XRE family [Atopobium parvulum DSM
          20469]
          Length = 142

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 27/69 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + +   R     SQE+L + +G++ Q + KYE G +     + +  + V    I      
Sbjct: 5  ENLVELRKYHDFSQEELADMIGVSRQTLSKYETGESLPDIEKCKRFANVFGVTIDDLISY 64

Query: 77 SPTVCSDIS 85
                ++ 
Sbjct: 65 DKKNEDNLG 73


>gi|167760938|ref|ZP_02433065.1| hypothetical protein CLOSCI_03326 [Clostridium scindens ATCC
          35704]
 gi|167661541|gb|EDS05671.1| hypothetical protein CLOSCI_03326 [Clostridium scindens ATCC
          35704]
          Length = 112

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 26/53 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G+RI+  R   G++Q +L E L ++   + + E G + +       I++ L  
Sbjct: 8  GQRIQEIRKAQGITQNQLAEKLHVSPSFISRIENGSSSLTVDFACEIADALHV 60


>gi|187927014|ref|YP_001893359.1| transcriptional regulator, XRE family [Ralstonia pickettii 12J]
 gi|241665343|ref|YP_002983702.1| XRE family transcriptional regulator [Ralstonia pickettii 12D]
 gi|187728768|gb|ACD29932.1| transcriptional regulator, XRE family [Ralstonia pickettii 12J]
 gi|240867370|gb|ACS65030.1| transcriptional regulator, XRE family [Ralstonia pickettii 12D]
          Length = 198

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/73 (17%), Positives = 33/73 (45%), Gaps = 2/73 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +++  R    +S ++L    G++   + + E+ +     + L  ++  L   ++ F 
Sbjct: 17 VGAKLQALRQARKLSLDELSRHAGVSKSMLSQVERNLANPTVAVLWRLATALGVSLADF- 75

Query: 75 DVSPTVCSDISSE 87
           +SP   +D +  
Sbjct: 76 -LSPESAADAAPA 87


>gi|114328257|ref|YP_745414.1| transcriptional repressor [Granulibacter bethesdensis CGDNIH1]
 gi|114316431|gb|ABI62491.1| transcriptional repressor [Granulibacter bethesdensis CGDNIH1]
          Length = 255

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/85 (20%), Positives = 37/85 (43%), Gaps = 6/85 (7%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES- 68
          P+++ VG+R+R  R+  G SQ+ L +  G +   + K E+ + +     L  +++ L   
Sbjct: 14 PIEMTVGERMRHARIQRGWSQDALAKEAGTSQTTIDKIERNLTQRS-RALPRLAQCLGVD 72

Query: 69 ----PISFFFDVSPTVCSDISSEEN 89
                 +  D  P   ++   +  
Sbjct: 73 LLTLDPDYLGDYQPGTEAEAPPQSP 97


>gi|71736183|ref|YP_275333.1| DNA-binding protein [Pseudomonas syringae pv. phaseolicola 1448A]
 gi|71556736|gb|AAZ35947.1| DNA-binding protein [Pseudomonas syringae pv. phaseolicola 1448A]
          Length = 189

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 28/135 (20%), Positives = 51/135 (37%), Gaps = 35/135 (25%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +V + +R  R    +SQ  L E  G++ + +   E G   V  + L  ++E LE   S  
Sbjct: 14  HVSQNVRRLRNCADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRVAEALEVAFS-- 71

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD------VKVRQKIIELVRSIV 127
                              D I  P+    NR + +I++      +   + ++ L R+I 
Sbjct: 72  -------------------DLIQAPE----NRDYSRINELAWAGTISGSKAVL-LARAIA 107

Query: 128 SSEKKYRTIEEECMV 142
             E     + E C+ 
Sbjct: 108 RRE---VELWEFCLE 119


>gi|332359913|gb|EGJ37727.1| XRE family transcriptional regulator [Streptococcus sanguinis
           SK1056]
          Length = 120

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/118 (15%), Positives = 48/118 (40%), Gaps = 2/118 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R+   ++Q  +    G++      +EKG  +    +   I+E       +    
Sbjct: 4   ERLKALRLEANLTQNDVSRQFGVSQPTYSNWEKGEKKPTPDKYPKIAEFYNVSTDYLLGK 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
           S    SD    + +  + +       L+    +I +  +R+ ++E  ++I +  K+ +
Sbjct: 64  SDYKNSD--EIDLSTFEVLYRKTSKNLSDEEKKILEEDLREFLLEREKAIKAMNKEKK 119


>gi|310827041|ref|YP_003959398.1| hypothetical protein ELI_1449 [Eubacterium limosum KIST612]
 gi|308738775|gb|ADO36435.1| hypothetical protein ELI_1449 [Eubacterium limosum KIST612]
          Length = 183

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/113 (17%), Positives = 42/113 (37%), Gaps = 17/113 (15%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  + K I+  R    +S E+L    G++   + + E+G      S L  +S  +  P 
Sbjct: 4   MNQIIAKNIKRLREERKLSMEELARLSGVSKSMLAQIERGEGNPTISTLWKLSNGMGVP- 62

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQL------NRYFIQIDDVKVRQ 117
              FD        ++    N  + + T +   L       + +    D + R+
Sbjct: 63  ---FDA-------LTVRPKNPYEIVKTAELQPLLEDDGRVKNYALFPDDENRR 105


>gi|320105917|ref|YP_004181507.1| helix-turn-helix domain-containing protein [Terriglobus saanensis
           SP1PR4]
 gi|319924438|gb|ADV81513.1| helix-turn-helix domain protein [Terriglobus saanensis SP1PR4]
          Length = 116

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 29/119 (24%), Positives = 53/119 (44%), Gaps = 8/119 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G  IR  R+  GMSQ  + +  G+    + + E G        L+ I+  L+ P+S 
Sbjct: 1   MNIGGTIRGFRLQKGMSQGDIEKRTGLLRCYLSRVENGHTVPSLETLKKIASALDLPLSQ 60

Query: 73  FF--DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           FF  +      S   S   + + F++     Q+ RY   + D   R+ ++ +VR    +
Sbjct: 61  FFAEEGVVRDMSQQLSLSEDEIKFLT-----QVQRYSSNLSDGD-RKLLLAMVRKFAQT 113


>gi|222153931|ref|YP_002563108.1| DNA-binding phage protein [Streptococcus uberis 0140J]
 gi|222114744|emb|CAR43890.1| putative DNA-binding phage protein [Streptococcus uberis 0140J]
          Length = 233

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 10/57 (17%), Positives = 29/57 (50%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           RI+  R    ++Q++L + L I+ + +  +EKG   +   + + +++  +  + + 
Sbjct: 2  NRIKELREEKNLTQQELADILDISKRTLGYWEKGKQ-IKPDKAKQLADYFKVTVGYL 57



 Score = 44.4 bits (104), Expect = 0.005,   Method: Composition-based stats.
 Identities = 21/86 (24%), Positives = 39/86 (45%), Gaps = 2/86 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQK-YEKGVN-RVGASRLQHISEVLESPISF 72
           VG R++  R+  G++ EK+   L I      K +E   N   G    Q I++     +++
Sbjct: 65  VGSRLKQLRLNSGLTIEKVCNDLKIEDLDYWKLWETQDNITFGKELAQEIADYFSVDVNY 124

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP 98
               +  V ++ SS E N  +F+ + 
Sbjct: 125 LLGKTNIVNTNFSSIEQNDKEFLYSK 150


>gi|222153050|ref|YP_002562227.1| phage repressor-like protein [Streptococcus uberis 0140J]
 gi|222113863|emb|CAR42005.1| putative phage repressor-like protein [Streptococcus uberis
          0140J]
          Length = 230

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GK+++  R    MSQE LG+ LG+    +  +EKG N      L  + E+       F
Sbjct: 4  GKQLKTIRQKHQMSQESLGQKLGVNKMTISNWEKGKNVPNQKHLNQLLEIFHLDADSF 61


>gi|167567036|ref|ZP_02359952.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia oklahomensis EO147]
          Length = 191

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/116 (18%), Positives = 45/116 (38%), Gaps = 7/116 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +IR  R  L ++ ++     GI+   + + E+G      + L  I+  L   + +F 
Sbjct: 15  IGIKIRALRQRLKLTLDEAAAAAGISKPFLSQVERGRATPSITSLVGIARALGVTMQYFV 74

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRSIVSS 129
           D      S   SE        ++         F ++ +V   +++   LVR   + 
Sbjct: 75  DAPTEARSVCRSEALQYFSLANS------TNAFARLTNVVDGRQLDAILVRMPAAQ 124


>gi|118478631|ref|YP_895782.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|196042846|ref|ZP_03110085.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|225865314|ref|YP_002750692.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|300118327|ref|ZP_07056074.1| DNA-binding protein [Bacillus cereus SJ1]
 gi|118417856|gb|ABK86275.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|196026330|gb|EDX64998.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|225788363|gb|ACO28580.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|298724296|gb|EFI64991.1| DNA-binding protein [Bacillus cereus SJ1]
          Length = 67

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 2/62 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  L M+QE L + +G+  + +   EKG           I+  L S I   F F+
Sbjct: 6  KIKEYRAKLNMTQEDLAKQVGVRRETISHLEKGKYNPSLQLAHDIARALHSTIDEVFIFE 65

Query: 76 VS 77
            
Sbjct: 66 DE 67


>gi|187921133|ref|YP_001890165.1| XRE family transcriptional regulator [Burkholderia phytofirmans
          PsJN]
 gi|187719571|gb|ACD20794.1| transcriptional regulator, XRE family [Burkholderia phytofirmans
          PsJN]
          Length = 107

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 38/71 (53%), Gaps = 4/71 (5%)

Query: 16 GKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G R++  R+  G+SQ++LG   G    +   ++ +YE GV++V  +    ++ VL+ P++
Sbjct: 10 GTRLKEARLEAGLSQKRLGIEAGLDPFVASTRINRYELGVHKVDHTFASRLATVLKVPVA 69

Query: 72 FFFDVSPTVCS 82
          F +     +  
Sbjct: 70 FLYAEDSDLAQ 80


>gi|238797083|ref|ZP_04640586.1| Predicted transcriptional regulator [Yersinia mollaretii ATCC
          43969]
 gi|238719128|gb|EEQ10941.1| Predicted transcriptional regulator [Yersinia mollaretii ATCC
          43969]
          Length = 88

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 33/59 (55%), Gaps = 4/59 (6%)

Query: 28 MSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
          MSQ+KLG   G    +   ++ +YEKGV+ V  +    +++VLE P+++F+     +  
Sbjct: 1  MSQKKLGIAAGLDEFVASTRINRYEKGVHEVSITTANQLAQVLEVPLAYFYTADDALAE 59


>gi|117926057|ref|YP_866674.1| phage repressor [Magnetococcus sp. MC-1]
 gi|117609813|gb|ABK45268.1| putative phage repressor [Magnetococcus sp. MC-1]
          Length = 264

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G R++  R+ LG+SQ+KL +  G++   + K E G    G  ++  I+  L+    + 
Sbjct: 33 LGHRLKDARLALGLSQKKLADKAGVSQGLIHKLETGFYE-GTGQIVPIAGALDVRPEWL 90


>gi|47565539|ref|ZP_00236580.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
 gi|47557529|gb|EAL15856.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
          Length = 137

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/102 (21%), Positives = 41/102 (40%), Gaps = 8/102 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G+ ++  R   G SQ  + + +G+T Q V K+E   +      L  +SE+    +  
Sbjct: 1   MNLGELLKKLRESKGFSQGDVAKKIGVTRQAVYKWENDKSYPDIDNLILLSEMYNVTLDE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPD-------GLQLNRYF 107
               +      I S+  +  DF    +       GL +   F
Sbjct: 61  LIKGNQDFKKKIHSDAED-EDFEKGNEFGFYIGCGLLILSAF 101


>gi|329846732|ref|ZP_08262005.1| hypothetical protein ABI_00390 [Asticcacaulis biprosthecum C19]
 gi|328844239|gb|EGF93807.1| hypothetical protein ABI_00390 [Asticcacaulis biprosthecum C19]
          Length = 61

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 31/61 (50%)

Query: 25 ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDI 84
          +L +S + L   L +    +  +E+G+ R+ AS L  I  +L+ PI FFFD       + 
Sbjct: 1  MLKLSADALASRLFLPVAVIYAFEEGMVRIRASTLHDIGNILKVPIRFFFDGYTASADND 60

Query: 85 S 85
          +
Sbjct: 61 A 61


>gi|311900356|dbj|BAJ32764.1| putative UDP-N-acetylglucosamine transferase [Kitasatospora setae
          KM-6054]
          Length = 509

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 27/56 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK +R  R   G +Q +L   LG T   V + E G   +G   +  I E L+S I
Sbjct: 9  IGKLVRAARTHKGWTQSQLAAALGTTQSAVARIESGGQNIGLDLVARIGEALDSEI 64


>gi|302327864|gb|ADL27065.1| DNA-binding protein [Fibrobacter succinogenes subsp. succinogenes
          S85]
          Length = 75

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 27/56 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++L R   G +Q++L +  GIT QQV   E+G   +G      ++  L +     F
Sbjct: 19 LKLLRTTFGYTQQQLADKAGITKQQVSAMERGKEPIGRKMAHRLANALGTSYKNLF 74


>gi|297624714|ref|YP_003706148.1| XRE family transcriptional regulator [Truepera radiovictrix DSM
          17093]
 gi|297165894|gb|ADI15605.1| transcriptional regulator, XRE family [Truepera radiovictrix DSM
          17093]
          Length = 93

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 27/62 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+ + R   G+S++ L + +G+ +Q +   E+G            +++   PI   F  
Sbjct: 10 NRLAVLRAERGLSRQALADAVGVNYQTIGYLERGDYNPSLELAFRFAKLFGLPIEAIFST 69

Query: 77 SP 78
           P
Sbjct: 70 EP 71


>gi|296503848|ref|YP_003665548.1| PbsX family transcriptional regulator [Bacillus thuringiensis
          BMB171]
 gi|296324900|gb|ADH07828.1| PbsX family transcriptional regulator [Bacillus thuringiensis
          BMB171]
          Length = 67

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 2/61 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  L M+QE L + +G+  + +   EKG           I++ L S I   F F+
Sbjct: 6  KIKEYRAKLNMTQEDLAKSVGVRRETISHLEKGKYNPSLQLAHDIAKALHSTIDEIFIFE 65

Query: 76 V 76
           
Sbjct: 66 D 66


>gi|291541918|emb|CBL15028.1| looped-hinge helix DNA binding domain, AbrB family [Ruminococcus
          bromii L2-63]
          Length = 136

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 32/77 (41%), Gaps = 5/77 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-- 72
          +G  ++  R   G SQE L E L ++ Q V K+E   +     +   ++++ E+ +    
Sbjct: 2  IGMNLKYLRKKYGYSQEDLAERLEVSRQSVAKWENEESLPDVEKCVTMAQIFETTVEMLL 61

Query: 73 ---FFDVSPTVCSDISS 86
             F++      +    
Sbjct: 62 VCPFYEEESDALTPDGD 78


>gi|260430057|ref|ZP_05784032.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
 gi|260418980|gb|EEX12235.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
          Length = 184

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 26/115 (22%), Positives = 47/115 (40%), Gaps = 15/115 (13%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  VG  IR  R   G++ + L E  G +   +   E+G        L+ I+ +    I
Sbjct: 1   MNRQVGTDIRALRKSRGLTLQALAEATGRSAGWLSLIERGQAEPSIRDLEKIAALFGLTI 60

Query: 71  SFFFDVSPTVCSD------------ISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           SFFF  +     +            I S+E+ +++ + +P    L+  F  I  V
Sbjct: 61  SFFFRSAGRAEREQGLVLRQEDRMPIGSDESGLVEELLSP---SLDGAFEMIRSV 112


>gi|210617721|ref|ZP_03291715.1| hypothetical protein CLONEX_03939 [Clostridium nexile DSM 1787]
 gi|210149163|gb|EEA80172.1| hypothetical protein CLONEX_03939 [Clostridium nexile DSM 1787]
          Length = 228

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 40/109 (36%), Gaps = 14/109 (12%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  VG  IR  R+    + + L   +  ++  + KYEKG+  V    L+   EV   P 
Sbjct: 3   INERVGNNIRKYRIAHHYTLKDLSALVHKSYSTLSKYEKGILPVSVETLEEFGEVFHIPT 62

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           S           D+S +               L + +   +    R++I
Sbjct: 63  SHLLSAPSEGKPDVSRKS--------------LLKKYYMYNYDGRRKRI 97


>gi|189465130|ref|ZP_03013915.1| hypothetical protein BACINT_01474 [Bacteroides intestinalis DSM
          17393]
 gi|218131566|ref|ZP_03460370.1| hypothetical protein BACEGG_03186 [Bacteroides eggerthii DSM
          20697]
 gi|189437404|gb|EDV06389.1| hypothetical protein BACINT_01474 [Bacteroides intestinalis DSM
          17393]
 gi|217986235|gb|EEC52573.1| hypothetical protein BACEGG_03186 [Bacteroides eggerthii DSM
          20697]
          Length = 117

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 37/84 (44%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G+ ++  R + G +QE++ + +GI       YE G   V    L+ +S +     
Sbjct: 4  INQIIGENLKKIRELSGFTQEQIAKSIGIERSAYSNYEGGTREVPYDILERLSNLFGCEP 63

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
             F+ +    ++I +    + D 
Sbjct: 64 FILFEDNIQADNEIMATAFRISDL 87


>gi|167554296|ref|ZP_02348037.1| HTH-type transcriptional regulator DicA [Salmonella enterica subsp.
           enterica serovar Saintpaul str. SARA29]
 gi|205321471|gb|EDZ09310.1| HTH-type transcriptional regulator DicA [Salmonella enterica subsp.
           enterica serovar Saintpaul str. SARA29]
          Length = 133

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/119 (18%), Positives = 48/119 (40%), Gaps = 24/119 (20%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF--F 73
           G R+  RR  L +SQ  LG+ + +    + ++E+   +    RL  +S+ L+   ++  F
Sbjct: 7   GARLLARRKKLKLSQAALGKLVKVAHVTISQWERDETQPAGKRLFSLSQALQCSPTWLLF 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
            D        I+   +   D                      ++++++L  ++  SE+K
Sbjct: 67  GDEDKQPAEPIAPPPDLRDD----------------------QKELLKLYEALPESEQK 103


>gi|160914122|ref|ZP_02076344.1| hypothetical protein EUBDOL_00130 [Eubacterium dolichum DSM 3991]
 gi|158433933|gb|EDP12222.1| hypothetical protein EUBDOL_00130 [Eubacterium dolichum DSM 3991]
          Length = 124

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 35/75 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+RI+  R   G++Q++L +   ++ + VQ  E+GV       L+   +VL   +  
Sbjct: 5  KELGRRIQKARKEKGLTQQELADLSHVSLKHVQGCERGVKNPSFEVLRAFCKVLNLSLDS 64

Query: 73 FFDVSPTVCSDISSE 87
            ++        +++
Sbjct: 65 LMNLDLPEDEQAAND 79


>gi|157150934|ref|YP_001450194.1| Cro/CI family transcriptional regulator putative [Streptococcus
          gordonii str. Challis substr. CH1]
 gi|262282528|ref|ZP_06060296.1| conserved hypothetical protein [Streptococcus sp. 2_1_36FAA]
 gi|157075728|gb|ABV10411.1| transcriptional regulator, Cro/CI family, putative [Streptococcus
          gordonii str. Challis substr. CH1]
 gi|262261819|gb|EEY80517.1| conserved hypothetical protein [Streptococcus sp. 2_1_36FAA]
          Length = 136

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + K I + R    +SQEKL E +G++ Q + K+E G +         +++  +  + 
Sbjct: 2  ISKNIAILRKRENISQEKLAEEIGVSRQTIAKWEAGESVPDVIYSSQLADYFDVSLD 58


>gi|154483937|ref|ZP_02026385.1| hypothetical protein EUBVEN_01644 [Eubacterium ventriosum ATCC
          27560]
 gi|149734979|gb|EDM50865.1| hypothetical protein EUBVEN_01644 [Eubacterium ventriosum ATCC
          27560]
          Length = 98

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 34/79 (43%), Gaps = 2/79 (2%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GKRI+  R   G +QE   E L I+ +     E G +         ++ +L++ + +   
Sbjct: 9  GKRIKELRKAKGYTQESFAEELNISHRTYSGIELGNHSTTIETFVEMASILDTTLDYLII 68

Query: 76 V--SPTVCSDISSEENNVM 92
             S  + +D+  E+  + 
Sbjct: 69 GRKSSELLTDVPEEKKELA 87


>gi|138893751|ref|YP_001124204.1| Xre family transcriptional regulator [Geobacillus
          thermodenitrificans NG80-2]
 gi|196250794|ref|ZP_03149481.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
 gi|134265264|gb|ABO65459.1| Transcriptional regulator Xre family [Geobacillus
          thermodenitrificans NG80-2]
 gi|196209744|gb|EDY04516.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
          Length = 73

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 32/55 (58%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE+L + LG++   + + E+G      S ++ I+E+L   +
Sbjct: 7  GRRIRAFRKLKGYTQERLAKELGVSVSILGEIERGNRMPSDSLVEQIAELLNISV 61


>gi|30261146|ref|NP_843523.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|30254760|gb|AAP25009.1| DNA-binding protein [Bacillus anthracis str. Ames]
          Length = 73

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R++  R     SQ  L E + ++ Q V K+E G N      + H+S++    I 
Sbjct: 5  ERLKEEREKRNWSQSDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITID 59


>gi|56964628|ref|YP_176359.1| SOS-response transcriptional repressor [Bacillus clausii KSM-K16]
 gi|56910871|dbj|BAD65398.1| SOS-response transcriptional repressor [Bacillus clausii KSM-K16]
          Length = 209

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 28/54 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +   R+  G SQ  L E L ++   + +YEKG       +L  I++VL++ I
Sbjct: 10 ENLMKARIRKGYSQTDLAEILNVSSATISQYEKGKRSPDVEKLHTIAKVLDTTI 63


>gi|18978223|ref|NP_579580.1| hypothetical protein PF1851 [Pyrococcus furiosus DSM 3638]
 gi|18894036|gb|AAL81975.1| hypothetical protein PF1851 [Pyrococcus furiosus DSM 3638]
          Length = 316

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 30/55 (54%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           G+R+R  R   G S  +L E LG++ + VQ+YEKG   V       + E+ + P+
Sbjct: 129 GERLRELREKYGYSTTELAEMLGVSRKSVQRYEKGEGMVSIDVAIRLEEIFDEPL 183


>gi|328553993|gb|AEB24485.1| DNA-binding protein [Bacillus amyloliquefaciens TA208]
          Length = 128

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/120 (17%), Positives = 52/120 (43%), Gaps = 6/120 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + KR+++ R    ++Q +L + +  T   +  YE G +      L+ +++ L++   +  
Sbjct: 2   LSKRLKICRKQKKLTQTELAQKVKTTKGTISNYENGHSTPSNEMLRDLADALDTTTDYLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVRSIVSSEKK 132
                   +   E +   D     D LQL   F +  D   + +++ I+ ++ +   E++
Sbjct: 62  -GRIDNHMNFIRESSEFYDTFGDDD-LQL--AFREARDFSEESQKQAIDFIKYLKEKEER 117


>gi|319646362|ref|ZP_08000592.1| XRE family Transcriptional regulator [Bacillus sp. BT1B_CT2]
 gi|317392112|gb|EFV72909.1| XRE family Transcriptional regulator [Bacillus sp. BT1B_CT2]
          Length = 82

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 2/73 (2%)

Query: 13 INVGKRIRLRRMILG--MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +G+R+++ R      +SQE L E LGI      +YE G N  G   L  I++  +  +
Sbjct: 1  MTLGERLKMLRNKQKPKLSQETLSEELGINRSTYARYETGDNDPGYKTLIKIADFYKVSL 60

Query: 71 SFFFDVSPTVCSD 83
           +          D
Sbjct: 61 DYLIQGIVKQEQD 73


>gi|291559127|emb|CBL37927.1| Predicted transcriptional regulators [butyrate-producing bacterium
           SSC/2]
          Length = 278

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 37/92 (40%), Gaps = 2/92 (2%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DVS 77
           I   R   GMSQ+ L + + +T Q V ++E G        L+ +S+  +  I+    +  
Sbjct: 30  ILKLRTERGMSQDDLADKVMVTRQAVSRWENGDTVPNTDTLRLLSKEFDVSINMLLGEPR 89

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
             +C       ++        DG  LN  + +
Sbjct: 90  KLICQCCGMPMDDDSILGRDKDG-TLNEEYCK 120


>gi|225377886|ref|ZP_03755107.1| hypothetical protein ROSEINA2194_03546 [Roseburia inulinivorans
          DSM 16841]
 gi|225210255|gb|EEG92609.1| hypothetical protein ROSEINA2194_03546 [Roseburia inulinivorans
          DSM 16841]
          Length = 107

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 31/58 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+RI+  R    M++++L E +G++   ++K E GVN      L  I+E+    + + 
Sbjct: 9  GERIKELRAARRMTRQQLAEQIGLSVDALRKIEAGVNGAKIDTLISIAELFHITLDYL 66


>gi|167765761|ref|ZP_02437814.1| hypothetical protein CLOSS21_00252 [Clostridium sp. SS2/1]
 gi|167712478|gb|EDS23057.1| hypothetical protein CLOSS21_00252 [Clostridium sp. SS2/1]
          Length = 264

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 37/92 (40%), Gaps = 2/92 (2%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DVS 77
           I   R   GMSQ+ L + + +T Q V ++E G        L+ +S+  +  I+    +  
Sbjct: 16  ILKLRTERGMSQDDLADKVMVTRQAVSRWENGDTVPNTDTLRLLSKEFDVSINMLLGEPR 75

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
             +C       ++        DG  LN  + +
Sbjct: 76  KLICQCCGMPMDDDSILGRDKDG-TLNEEYCK 106


>gi|150020470|ref|YP_001305824.1| cupin 2 domain-containing protein [Thermosipho melanesiensis
          BI429]
 gi|149792991|gb|ABR30439.1| Cupin 2, conserved barrel domain protein [Thermosipho
          melanesiensis BI429]
          Length = 178

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 28/67 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R+  G +QE+L +   ++   + + E          L+ I  VL S +  FF
Sbjct: 4  LGSKIRTLRVARGYTQEELADRCDLSRSFISQLENDQVSPSIDTLERILRVLGSDLKTFF 63

Query: 75 DVSPTVC 81
                 
Sbjct: 64 SNDKRQE 70


>gi|118574103|sp|Q8TZX4|Y1851_PYRFU RecName: Full=Putative HTH-type transcriptional regulatory protein
           PF1851
          Length = 315

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 30/55 (54%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           G+R+R  R   G S  +L E LG++ + VQ+YEKG   V       + E+ + P+
Sbjct: 128 GERLRELREKYGYSTTELAEMLGVSRKSVQRYEKGEGMVSIDVAIRLEEIFDEPL 182


>gi|77919058|ref|YP_356873.1| transcriptional regulator [Pelobacter carbinolicus DSM 2380]
 gi|77545141|gb|ABA88703.1| transcriptional regulator, XRE family [Pelobacter carbinolicus
          DSM 2380]
          Length = 188

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 12/72 (16%), Positives = 33/72 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +GK+++  R+  G++ + L    G++   + + E+G+       L  ++  L   I
Sbjct: 2  IKTLIGKKLKTTRLGKGLTIQGLTNLSGVSANMISRIERGLTVPSVKILMKLASALGMSI 61

Query: 71 SFFFDVSPTVCS 82
           +F + +    +
Sbjct: 62 GYFVEEAEKSST 73


>gi|19705233|ref|NP_602728.1| MerR family transcriptional regulator [Fusobacterium nucleatum
          subsp. nucleatum ATCC 25586]
 gi|296329087|ref|ZP_06871592.1| MerR family transcriptional regulator [Fusobacterium nucleatum
          subsp. nucleatum ATCC 23726]
 gi|19713186|gb|AAL94027.1| Transcriptional regulator, MerR family [Fusobacterium nucleatum
          subsp. nucleatum ATCC 25586]
 gi|296153806|gb|EFG94619.1| MerR family transcriptional regulator [Fusobacterium nucleatum
          subsp. nucleatum ATCC 23726]
          Length = 184

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 12/73 (16%), Positives = 33/73 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R   GMS  +L   + ++   + + E+G        L+ I+  L+  +++
Sbjct: 1  MTIGEKLKKSRNDKGMSLRELATKVELSASFLSQIEQGKASPSIENLKKIAHTLDVRVAY 60

Query: 73 FFDVSPTVCSDIS 85
            +       +I 
Sbjct: 61 LIEDEEDDIRNIE 73


>gi|15837298|ref|NP_297986.1| phage-related repressor protein [Xylella fastidiosa 9a5c]
 gi|9105580|gb|AAF83506.1|AE003913_2 phage-related repressor protein [Xylella fastidiosa 9a5c]
          Length = 221

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 31/78 (39%), Gaps = 1/78 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           D+ +G RIR  R   G+S+ +L +  GI    +   E G +R   + L  I+E L    
Sbjct: 2  HDMKIGSRIRAERENQGISRTELAKFAGIATSTLSDLELGHSR-STTALHKIAERLGVSA 60

Query: 71 SFFFDVSPTVCSDISSEE 88
           +         +D     
Sbjct: 61 QWLETGRGEKSTDTFPAP 78


>gi|331086747|ref|ZP_08335824.1| hypothetical protein HMPREF0987_02127 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330409913|gb|EGG89348.1| hypothetical protein HMPREF0987_02127 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 242

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 26/101 (25%), Positives = 48/101 (47%), Gaps = 10/101 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G R++ RR++L +S++KL E   IT Q +  YE G++      L  + + LE   ++
Sbjct: 1   MSLGDRLKERRVMLNLSRKKLSEITYITPQALANYENGISTPKFEILVSLFQSLECDANY 60

Query: 73  FF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
            + D  P              DF  T +   L   + Q++D
Sbjct: 61  LYQDYLPANLQ---------TDFNITKNEQDLIEKYRQLND 92


>gi|325663144|ref|ZP_08151594.1| hypothetical protein HMPREF0490_02335 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|325470598|gb|EGC73828.1| hypothetical protein HMPREF0490_02335 [Lachnospiraceae bacterium
           4_1_37FAA]
          Length = 242

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 26/101 (25%), Positives = 48/101 (47%), Gaps = 10/101 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G R++ RR++L +S++KL E   IT Q +  YE G++      L  + + LE   ++
Sbjct: 1   MSLGDRLKERRVMLNLSRKKLSEITYITPQALANYENGISTPKFEILVSLFQSLECDANY 60

Query: 73  FF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
            + D  P              DF  T +   L   + Q++D
Sbjct: 61  LYQDYLPANLQ---------TDFNITKNEQDLIEKYRQLND 92


>gi|225571479|ref|ZP_03780475.1| hypothetical protein CLOHYLEM_07577 [Clostridium hylemonae DSM
          15053]
 gi|225159955|gb|EEG72574.1| hypothetical protein CLOHYLEM_07577 [Clostridium hylemonae DSM
          15053]
          Length = 361

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 34/58 (58%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +GK I+  R + G +QE++ E LG++   V K+E GV+    + L  ++  L++ ++
Sbjct: 4  QLGKTIQQMRKVQGCTQEQMAETLGVSVAAVSKWENGVSCPDITLLPALARYLKTDLN 61


>gi|153813072|ref|ZP_01965740.1| hypothetical protein RUMOBE_03480 [Ruminococcus obeum ATCC 29174]
 gi|153814732|ref|ZP_01967400.1| hypothetical protein RUMTOR_00947 [Ruminococcus torques ATCC
          27756]
 gi|154502995|ref|ZP_02040055.1| hypothetical protein RUMGNA_00817 [Ruminococcus gnavus ATCC
          29149]
 gi|317501372|ref|ZP_07959574.1| xre family Toxin-antitoxin system [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|145847763|gb|EDK24681.1| hypothetical protein RUMTOR_00947 [Ruminococcus torques ATCC
          27756]
 gi|149830874|gb|EDM85964.1| hypothetical protein RUMOBE_03480 [Ruminococcus obeum ATCC 29174]
 gi|153796349|gb|EDN78769.1| hypothetical protein RUMGNA_00817 [Ruminococcus gnavus ATCC
          29149]
 gi|295107719|emb|CBL21672.1| Helix-turn-helix. [Ruminococcus obeum A2-162]
 gi|316897236|gb|EFV19305.1| xre family Toxin-antitoxin system [Lachnospiraceae bacterium
          8_1_57FAA]
          Length = 209

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 35/78 (44%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R + RR  L ++Q  + E +G+T   +Q+YE G        +   +SE L   + 
Sbjct: 8  KLIGSRAKQRRTELNLTQPYIAEKMGVTASTIQRYEAGTIDNTKKMVLEGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ +  
Sbjct: 68 WLRGETDEYETDITDKRE 85


>gi|186470704|ref|YP_001862022.1| XRE family transcriptional regulator [Burkholderia phymatum
          STM815]
 gi|184197013|gb|ACC74976.1| transcriptional regulator, XRE family [Burkholderia phymatum
          STM815]
          Length = 213

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 28/77 (36%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  +GK ++  R   G++   L E  G++   V K E G        +  ++  L   
Sbjct: 21 SIESFLGKVVKEHRTNQGLTIADLAEQSGLSRSMVSKIENGQVSTSLDSIVSLARALGIS 80

Query: 70 ISFFFDVSPTVCSDISS 86
          IS  F        +   
Sbjct: 81 ISALFKNFEHREGNAQH 97


>gi|94989193|ref|YP_597294.1| transcriptional regulator [Streptococcus pyogenes MGAS9429]
 gi|94993080|ref|YP_601179.1| transcriptional regulator [Streptococcus pyogenes MGAS2096]
 gi|94542701|gb|ABF32750.1| transcriptional regulator [Streptococcus pyogenes MGAS9429]
 gi|94546588|gb|ABF36635.1| Transcriptional regulator [Streptococcus pyogenes MGAS2096]
          Length = 198

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I   R    +SQEKL E + +++Q +  +E          L  +S++ +  + 
Sbjct: 4  MEIGQQIIRYRKQQALSQEKLAEKVYVSYQSISNWENDKTYPDIHSLLLLSQIFQVSLD 62


>gi|88802552|ref|ZP_01118079.1| hypothetical protein PI23P_08180 [Polaribacter irgensii 23-P]
 gi|88781410|gb|EAR12588.1| hypothetical protein PI23P_08180 [Polaribacter irgensii 23-P]
          Length = 297

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 36/68 (52%), Gaps = 4/68 (5%)

Query: 11 VDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D  + GK +   R   G++Q ++ E   +T + +Q+ E G     +S ++ IS+ LE  
Sbjct: 1  MDTLIFGKELIKARKARGLTQAEVAEKCNVTIRTIQRIESGEVTPRSSTIKIISKFLEVD 60

Query: 70 ISFFFDVS 77
             FF++S
Sbjct: 61 ---FFEIS 65


>gi|117926204|ref|YP_866821.1| phage repressor [Magnetococcus sp. MC-1]
 gi|117609960|gb|ABK45415.1| putative phage repressor [Magnetococcus sp. MC-1]
          Length = 264

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G R++  R+ LG+SQ+KL +  G++   + K E G    G  ++  I+  L+    + 
Sbjct: 33 LGHRLKDARLALGLSQKKLADKAGVSQGLIHKLETGFYE-GTGQIVPIAGALDVRPEWL 90


>gi|330465134|ref|YP_004402877.1| helix-turn-helix domain-containing protein [Verrucosispora maris
          AB-18-032]
 gi|328808105|gb|AEB42277.1| helix-turn-helix domain protein [Verrucosispora maris AB-18-032]
          Length = 195

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 23/57 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+R+R  R   G+S   L    G+    +   E G        L  I+  L  P++
Sbjct: 28 IGRRVRALREARGISLSALARQAGVGKATLSGLENGTRNPTLETLYAITAQLGVPLT 84


>gi|327472731|gb|EGF18158.1| transcriptional regulator [Streptococcus sanguinis SK408]
          Length = 71

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 27/67 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    MSQ +L + +G++ Q +   E            +++  L++ ++  F  
Sbjct: 2  NRVKEFRKEKKMSQLELAKSIGVSRQTINMIENNKYNPTLELCINLARALDTDLNALFWD 61

Query: 77 SPTVCSD 83
                D
Sbjct: 62 PQLTDED 68


>gi|323190487|gb|EFZ75761.1| helix-turn-helix family protein [Escherichia coli RN587/1]
          Length = 238

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/41 (31%), Positives = 27/41 (65%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG 55
          + +RIR RR  +G++Q+++ + +GI+   V K+E G ++  
Sbjct: 19 ISERIRNRRKDVGLTQQQVAKAIGISRVSVTKWENGSSKPD 59


>gi|320658814|gb|EFX26482.1| putative phage repressor protein [Escherichia coli O55:H7 str.
          USDA 5905]
          Length = 238

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/41 (31%), Positives = 27/41 (65%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG 55
          + +RIR RR  +G++Q+++ + +GI+   V K+E G ++  
Sbjct: 19 ISERIRNRRKDVGLTQQQVAKAIGISRVSVTKWENGSSKPD 59


>gi|331674164|ref|ZP_08374924.1| 26 kDa repressor protein (Regulatory protein CI) [Escherichia coli
           TA280]
 gi|331068258|gb|EGI39653.1| 26 kDa repressor protein (Regulatory protein CI) [Escherichia coli
           TA280]
          Length = 229

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 30/111 (27%), Positives = 46/111 (41%), Gaps = 5/111 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-D 75
            RI       G SQ +L   LG++ Q VQ +  G      +RL  +SE+   P S+F  +
Sbjct: 9   NRITKLLQEKGWSQAELARKLGVSAQSVQYWTTGKTFPRGNRLAQLSEISGYPQSWFLGE 68

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           ++    S     +      +       L+  F   D   VR   I++VRSI
Sbjct: 69  ITSRQFSSKEKHQTRTDSVVFN----VLDVEFSCGDGTHVRGDFIDVVRSI 115


>gi|227502798|ref|ZP_03932847.1| transcriptional regulatory protein [Corynebacterium accolens ATCC
           49725]
 gi|227076528|gb|EEI14491.1| transcriptional regulatory protein [Corynebacterium accolens ATCC
           49725]
          Length = 437

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/125 (14%), Positives = 49/125 (39%), Gaps = 11/125 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RI   R   G++Q  + + LG++   + + E     +  + L  +++      S+F +
Sbjct: 7   GARIHALRKQRGLTQVAMAKKLGLSTSYLNQLENDQRPLTVTVLMQLAQRFTVDPSYFAE 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL-QLNRYFIQIDDVKVRQKIIELV-RSIVSSEKKY 133
                   I+   +   D  ++ + L  L   F ++       + +++  R+  +    +
Sbjct: 67  DRD--IHTITELRHIFPD--ASEETLSDLASRFPELMP-----RFVDVASRAPAADPSPF 117

Query: 134 RTIEE 138
             + +
Sbjct: 118 EVVRD 122


>gi|255283309|ref|ZP_05347864.1| putative helix-turn-helix protein [Bryantella formatexigens DSM
          14469]
 gi|255266163|gb|EET59368.1| putative helix-turn-helix protein [Bryantella formatexigens DSM
          14469]
          Length = 224

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/86 (24%), Positives = 38/86 (44%), Gaps = 4/86 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +++++ R   G SQE+L + +GI  Q V K+E G      + L  +SE+    I      
Sbjct: 5  EKLQMLRKKNGYSQEQLADKIGIARQTVSKWENGQAIPELNGLILLSELYGVTIDRIVKD 64

Query: 77 SPT----VCSDISSEENNVMDFISTP 98
                 +C     + N V+ F+ + 
Sbjct: 65 DDECNILLCKSADIDLNKVVSFLVSA 90


>gi|194289442|ref|YP_002005349.1| anaerobic benzoate catabolism transcriptional regulator
           [Cupriavidus taiwanensis LMG 19424]
 gi|193223277|emb|CAQ69282.1| putative transcriptional regulator, ATP-binding kinase,
           Helix-turn-helix motif, Shikimate kinase motif
           [Cupriavidus taiwanensis LMG 19424]
          Length = 315

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/97 (20%), Positives = 42/97 (43%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P    +G+RIR  R   GMS++ L     ++ + +   E G        L+ ++  L+ 
Sbjct: 29  DPYLTQLGERIRSLRASRGMSRKDLARGAAVSERYLANLETGTGNASVLLLRQVARALDV 88

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           P+        T+    +SE   ++ +++     +L R
Sbjct: 89  PLPVVLAEVDTLNGQQASEFAQMVQWLAQLPAGELAR 125


>gi|161519811|ref|YP_001583238.1| XRE family transcriptional regulator [Burkholderia multivorans ATCC
           17616]
 gi|160343861|gb|ABX16946.1| transcriptional regulator, XRE family [Burkholderia multivorans
           ATCC 17616]
          Length = 193

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/115 (18%), Positives = 45/115 (39%), Gaps = 10/115 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +IR  R  L  + ++     GI+   + + E+G+     + L  I++ L   + +F 
Sbjct: 17  LGSKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSLTSLAGIAQALGVTVQYFV 76

Query: 75  DVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFIQIDDVKVRQKI 119
           D      S    E+     F  +           +G QL    +++   + R ++
Sbjct: 77  DTPSEERSVCRGEQLRFFGFADSANLFARLTNLSEGRQLEAILVRMPPGQKRSEV 131


>gi|193070021|ref|ZP_03050968.1| repressor protein C2 [Escherichia coli E110019]
 gi|260867149|ref|YP_003233551.1| putative phage repressor protein [Escherichia coli O111:H- str.
          11128]
 gi|192956618|gb|EDV87074.1| repressor protein C2 [Escherichia coli E110019]
 gi|257763505|dbj|BAI35000.1| putative phage repressor protein [Escherichia coli O111:H- str.
          11128]
 gi|323175391|gb|EFZ60986.1| helix-turn-helix family protein [Escherichia coli 1180]
          Length = 224

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/41 (31%), Positives = 27/41 (65%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG 55
          + +RIR RR  +G++Q+++ + +GI+   V K+E G ++  
Sbjct: 5  ISERIRNRRKDVGLTQQQVAKAIGISRVSVTKWENGSSKPD 45


>gi|75761940|ref|ZP_00741861.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|218898416|ref|YP_002446827.1| DNA-binding protein [Bacillus cereus G9842]
 gi|74490571|gb|EAO53866.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|218540574|gb|ACK92968.1| DNA-binding protein [Bacillus cereus G9842]
          Length = 67

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 2/61 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  L M+QE L + +G+  + +   EKG           I++ L S I   F F+
Sbjct: 6  KIKEYRAKLNMTQEDLAKQVGVRRETISHLEKGKYNPSLQLAHDIAKALHSTIDEIFIFE 65

Query: 76 V 76
           
Sbjct: 66 D 66


>gi|323342274|ref|ZP_08082506.1| repressor lexA [Erysipelothrix rhusiopathiae ATCC 19414]
 gi|322463386|gb|EFY08580.1| repressor lexA [Erysipelothrix rhusiopathiae ATCC 19414]
          Length = 118

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/55 (32%), Positives = 33/55 (60%), Gaps = 1/55 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G+R++ RR  L +SQ++L   +G  +   + K E GV  +  S++  I+E LE+
Sbjct: 5  LGQRLKARRKELRISQQELAVAVGYTSRSTIAKIEAGVIDLPQSKIYDIAEALET 59


>gi|149907858|ref|ZP_01896526.1| DNA-binding protein [Moritella sp. PE36]
 gi|149808864|gb|EDM68795.1| DNA-binding protein [Moritella sp. PE36]
          Length = 214

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 39/78 (50%), Gaps = 2/78 (2%)

Query: 11 VDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++I+  +G R++  R   G S +K  +  G++   + + E+G +     +L +I+   E 
Sbjct: 19 INIHTSLGSRLKTARSNKGWSLDKTSQHTGVSKAMLGQIERGESSPTVVKLWNIANGFEL 78

Query: 69 PISFFFDVSPTVCSDISS 86
          P+S+F        ++ S+
Sbjct: 79 PLSYFLTDLAQTQAETSA 96


>gi|148358304|ref|YP_001249511.1| phage repressor [Legionella pneumophila str. Corby]
 gi|296105654|ref|YP_003617354.1| hypothetical protein lpa_00219 [Legionella pneumophila 2300/99
          Alcoy]
 gi|148280077|gb|ABQ54165.1| phage repressor [Legionella pneumophila str. Corby]
 gi|295647555|gb|ADG23402.1| hypothetical protein lpa_00219 [Legionella pneumophila 2300/99
          Alcoy]
          Length = 219

 Score = 55.2 bits (132), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 33/65 (50%), Gaps = 1/65 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +   +GKRI   R   G++ ++LGE   G+   ++  +E+G    G   ++ +++ L+  
Sbjct: 3  IKKEIGKRIFEARKEKGLTLKELGELTGGLKQTRLTNWEQGTRAPGPEEIKLLAQALDVS 62

Query: 70 ISFFF 74
           +F  
Sbjct: 63 PAFLM 67


>gi|229189448|ref|ZP_04316465.1| hypothetical protein bcere0002_11280 [Bacillus cereus ATCC 10876]
 gi|228594039|gb|EEK51841.1| hypothetical protein bcere0002_11280 [Bacillus cereus ATCC 10876]
          Length = 69

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 26/54 (48%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R  +G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 7  EYRKKIGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIEHVF 60


>gi|197261594|ref|YP_002154411.1| helix-turn-helix domain protein [Bacillus phage IEBH]
 gi|197092466|gb|ACH42341.1| helix-turn-helix domain protein [Bacillus phage IEBH]
          Length = 79

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  G R+R  R    ++QEKL + L  +    +   E G  R+ A ++  ++  L   I 
Sbjct: 1  MTFGSRVRDIRKQKNITQEKLAKKLDFSHASAISFIENGKRRLDAEKIPTLANALGVSID 60

Query: 72 FFF 74
            F
Sbjct: 61 ELF 63


>gi|146311755|ref|YP_001176829.1| XRE family transcriptional regulator [Enterobacter sp. 638]
 gi|145318631|gb|ABP60778.1| transcriptional regulator, XRE family [Enterobacter sp. 638]
          Length = 191

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 31/65 (47%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+ ++  +  RIRL R   G S  +L E  G++   + K E+  +   A+ L  +S   
Sbjct: 4  MPDDMNHRISARIRLERESRGWSLSELAERAGVSRAMIHKIERSESSPTATLLARLSGAF 63

Query: 67 ESPIS 71
             +S
Sbjct: 64 GISMS 68


>gi|110641376|ref|YP_669106.1| transcriptional regulator [Escherichia coli 536]
 gi|191170900|ref|ZP_03032451.1| probable transcriptional regulator [Escherichia coli F11]
 gi|218689103|ref|YP_002397315.1| putative transcriptional regulator [Escherichia coli ED1a]
 gi|110342968|gb|ABG69205.1| probable transcriptional regulator [Escherichia coli 536]
 gi|190908632|gb|EDV68220.1| probable transcriptional regulator [Escherichia coli F11]
 gi|218426667|emb|CAR07498.1| conserved hypothetical protein , putative transcriptional
          regulator [Escherichia coli ED1a]
 gi|324015721|gb|EGB84940.1| toxin-antitoxin system, antitoxin component, Xre family
          [Escherichia coli MS 60-1]
          Length = 194

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 4  NKKIPNPV-DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          +K+  N + D ++ + +   R    ++  +L +  G++   + K E+G +   A+ L  +
Sbjct: 2  DKRAKNQIVDSDIARLLLKLRKSRNLTVTELAQRSGVSQAMISKVERGTSSPSATILSRL 61

Query: 63 SEVLESPISFFF 74
          +  L   +S  F
Sbjct: 62 ANALNITLSKLF 73


>gi|194467261|ref|ZP_03073248.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
 gi|194454297|gb|EDX43194.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
          Length = 74

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G+SQ KL + +G+  Q +   E            ++++ L + ++  F
Sbjct: 2  NRVKQFRKDQGLSQLKLAQKIGVARQTINLIENNKYNPSLELCINLAKALNTDLNSLF 59


>gi|150016139|ref|YP_001308393.1| helix-turn-helix domain-containing protein [Clostridium
          beijerinckii NCIMB 8052]
 gi|149902604|gb|ABR33437.1| helix-turn-helix domain protein [Clostridium beijerinckii NCIMB
          8052]
          Length = 184

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 30/68 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +++  R    +S ++  +  G++   + + E+G +    S L  IS  L+   SFF 
Sbjct: 8  IGSKLKEIRNKRELSLDEAAKLTGVSKAMLGQIERGQSNPTVSTLWKISTGLKVSFSFFI 67

Query: 75 DVSPTVCS 82
          D       
Sbjct: 68 DEEQDELE 75


>gi|325568711|ref|ZP_08145004.1| XRE family transcriptional regulator [Enterococcus casseliflavus
          ATCC 12755]
 gi|325157749|gb|EGC69905.1| XRE family transcriptional regulator [Enterococcus casseliflavus
          ATCC 12755]
          Length = 263

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 34/72 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK I+  R    ++QE+L +   +T Q + K+E G +     ++  +S   E  + +
Sbjct: 1  MDIGKIIKEERTKRNLTQEQLAQEFFVTRQLISKWENGKSYPDLDQVVKLSNYFELTLDY 60

Query: 73 FFDVSPTVCSDI 84
                 +  ++
Sbjct: 61 LLKEDKQMVQEL 72


>gi|313898821|ref|ZP_07832355.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956403|gb|EFR38037.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 73

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 31/75 (41%), Gaps = 4/75 (5%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK     D     +I + R    MSQ++L + +G++ Q + + E+            I++
Sbjct: 3  KKNKYSFD----SKIHVYRATKRMSQQELADLVGVSRQTIIQLERNRYNPSMLLAYSIAK 58

Query: 65 VLESPISFFFDVSPT 79
          V +  I   FD    
Sbjct: 59 VFDVTIEDLFDFRED 73


>gi|229160318|ref|ZP_04288317.1| Helix-turn-helix repressor protein [Bacillus cereus R309803]
 gi|228623279|gb|EEK80106.1| Helix-turn-helix repressor protein [Bacillus cereus R309803]
          Length = 69

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIEHVF 60


>gi|169346966|ref|ZP_02865914.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
 gi|169297025|gb|EDS79149.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
          Length = 349

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 30/53 (56%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I+ +R   G++QE++   LG++   V K+EKG      + L  ++ +L+  ++
Sbjct: 7  IKEKRNAQGLTQEQVAMYLGVSTPAVNKWEKGTCYPDITLLPALARLLKVDLN 59


>gi|167574113|ref|ZP_02366987.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia oklahomensis C6786]
          Length = 191

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/116 (18%), Positives = 45/116 (38%), Gaps = 7/116 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +IR  R  L ++ ++     GI+   + + E+G      + L  I+  L   + +F 
Sbjct: 15  IGIKIRALRQRLKLTLDEAAAAAGISKPFLSQVERGRATPSITSLVGIARALGVTMQYFV 74

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRSIVSS 129
           D      S   SE        ++         F ++ +V   +++   LVR   + 
Sbjct: 75  DAPTEARSVCRSEALQYFSLANS------TNAFARLTNVVDGRQLDAILVRMPAAQ 124


>gi|30019406|ref|NP_831037.1| PbsX family transcriptional regulator [Bacillus cereus ATCC
          14579]
 gi|229126668|ref|ZP_04255680.1| Helix-turn-helix repressor protein [Bacillus cereus BDRD-Cer4]
 gi|296501947|ref|YP_003663647.1| PbsX family transcriptional regulator [Bacillus thuringiensis
          BMB171]
 gi|29894950|gb|AAP08238.1| Transcriptional regulator, PBSX family [Bacillus cereus ATCC
          14579]
 gi|228656608|gb|EEL12434.1| Helix-turn-helix repressor protein [Bacillus cereus BDRD-Cer4]
 gi|296322999|gb|ADH05927.1| PbsX family transcriptional regulator [Bacillus thuringiensis
          BMB171]
          Length = 69

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIEHVF 60


>gi|312126655|ref|YP_003991529.1| XRE family transcriptional regulator [Caldicellulosiruptor
          hydrothermalis 108]
 gi|311776674|gb|ADQ06160.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          hydrothermalis 108]
          Length = 77

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 27/63 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK++R  R+   +SQ++L +  G+    +   E          ++ ++  L   I  F 
Sbjct: 2  VGKKLRELRIQKRLSQQQLAKIAGVPQSTIWYIESENRNPTIKTMKRLATALGVSIEEFL 61

Query: 75 DVS 77
          D  
Sbjct: 62 DSE 64


>gi|291529806|emb|CBK95391.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
          Length = 122

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 2/62 (3%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P D   G R++  R    ++QE++ + LG++   + KYE          L  +S+ L   
Sbjct: 4  PYD--FGARLKKYRNEKNITQERIAKILGVSNSMISKYENNTASPSLDSLCTLSKELCVS 61

Query: 70 IS 71
          I 
Sbjct: 62 ID 63


>gi|260432343|ref|ZP_05786314.1| DNA-binding protein [Silicibacter lacuscaerulensis ITI-1157]
 gi|260416171|gb|EEX09430.1| DNA-binding protein [Silicibacter lacuscaerulensis ITI-1157]
          Length = 198

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 28/60 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R   G++   +   L  +   + + E+ ++    S L+ I+E L  P+S  F
Sbjct: 20 LGADIRALRKSRGLTLTDVARRLDRSVGWLSQVERDLSEPSISDLRQIAECLGVPMSMLF 79


>gi|229074620|ref|ZP_04207643.1| Helix-turn-helix repressor protein [Bacillus cereus Rock4-18]
 gi|229095849|ref|ZP_04226828.1| Helix-turn-helix repressor protein [Bacillus cereus Rock3-29]
 gi|229114801|ref|ZP_04244215.1| Helix-turn-helix repressor protein [Bacillus cereus Rock1-3]
 gi|228668866|gb|EEL24294.1| Helix-turn-helix repressor protein [Bacillus cereus Rock1-3]
 gi|228687682|gb|EEL41581.1| Helix-turn-helix repressor protein [Bacillus cereus Rock3-29]
 gi|228708502|gb|EEL60652.1| Helix-turn-helix repressor protein [Bacillus cereus Rock4-18]
          Length = 71

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIEHVF 60


>gi|255655753|ref|ZP_05401162.1| putative transcriptional regulator [Clostridium difficile
          QCD-23m63]
 gi|296451015|ref|ZP_06892760.1| DNA-binding protein [Clostridium difficile NAP08]
 gi|296879020|ref|ZP_06903017.1| DNA-binding protein [Clostridium difficile NAP07]
 gi|296260146|gb|EFH06996.1| DNA-binding protein [Clostridium difficile NAP08]
 gi|296429973|gb|EFH15823.1| DNA-binding protein [Clostridium difficile NAP07]
          Length = 181

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+N+G++I   R    +S   L +   +T   + + E+G+     + L+ I+  L  P+ 
Sbjct: 3  DLNLGEKIAEVRKKQNLSIRDLAKLADVTPSLLSQIERGLANPSVNSLKSIASSLNVPLF 62

Query: 72 FFF 74
           FF
Sbjct: 63 TFF 65


>gi|300765733|ref|ZP_07075710.1| cro/CI family transcriptional regulator [Listeria monocytogenes FSL
           N1-017]
 gi|300513606|gb|EFK40676.1| cro/CI family transcriptional regulator [Listeria monocytogenes FSL
           N1-017]
          Length = 158

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 36/92 (39%), Gaps = 3/92 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           KR+   R   G SQ KL + LG +  QV  YE+G        L  I+E       +    
Sbjct: 4   KRLSELRKKKGFSQYKLADELGFSRGQVANYEQGTREPDYQTLLKIAEFFNVSTDYLLGR 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                ++  +     +D  ++ + ++    +I
Sbjct: 64  DDNNLAETIAAH---IDSNASEEDIKEILAYI 92


>gi|301052920|ref|YP_003791131.1| transcriptional regulator [Bacillus anthracis CI]
 gi|300375089|gb|ADK03993.1| transcriptional regulator [Bacillus cereus biovar anthracis str.
          CI]
          Length = 107

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE-ENNVMDFIST 97
               T  + + SE    V D +S+
Sbjct: 62 LHDETTKENHLDSEWTQLVKDAMSS 86


>gi|288553474|ref|YP_003425409.1| putative transcriptional regulator XRE [Bacillus pseudofirmus
          OF4]
 gi|288544634|gb|ADC48517.1| putative transcriptional regulator XRE [Bacillus pseudofirmus
          OF4]
          Length = 188

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/78 (17%), Positives = 33/78 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +G R++  R+  G S + L +   ++   + + E+G +      L  I++ L    
Sbjct: 6  LSKLIGVRLKALRVEQGYSLDHLAQITTVSKPMLGQIERGESNPTVGTLWKIAKGLNVSF 65

Query: 71 SFFFDVSPTVCSDISSEE 88
          + F +      + +  EE
Sbjct: 66 TSFLEEEQDAVTVVKKEE 83


>gi|237731580|ref|ZP_04562061.1| conserved hypothetical protein [Citrobacter sp. 30_2]
 gi|226907119|gb|EEH93037.1| conserved hypothetical protein [Citrobacter sp. 30_2]
          Length = 191

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 31/65 (47%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + ++  +  RIR+ R   G S  +L E  G++   + K E+G +   A+ L  +S   
Sbjct: 4  IEDSINQRISARIRIERESRGWSLTELAERAGVSRAMIHKIERGESSPTATLLGRLSGAF 63

Query: 67 ESPIS 71
             +S
Sbjct: 64 GISMS 68


>gi|223984758|ref|ZP_03634870.1| hypothetical protein HOLDEFILI_02166 [Holdemania filiformis DSM
           12042]
 gi|223963244|gb|EEF67644.1| hypothetical protein HOLDEFILI_02166 [Holdemania filiformis DSM
           12042]
          Length = 180

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/103 (19%), Positives = 37/103 (35%), Gaps = 5/103 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V   I+  R    +S E+L +   ++   + + E+G      S L  IS  L+ P     
Sbjct: 5   VAANIKRLREERKLSMEELAKFSSVSKSMIAQIERGEGNPTLSTLWKISNGLKVPFDSLT 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
               T    +   E   +  +   +G    R +    D + R+
Sbjct: 65  VRPKTQHEIVKISE---IQPLFENEG--KVRNYSLFPDDENRR 102


>gi|209967957|ref|YP_002265383.1| putative peptidase, S24-like [Aliivibrio salmonicida LFI1238]
 gi|208011481|emb|CAQ81944.1| putative peptidase, S24-like [Aliivibrio salmonicida LFI1238]
          Length = 205

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+SQE L E + +T   + ++E G  +     L  I    ++   + 
Sbjct: 4  IGERIKSLRLNQGLSQESLAEKINVTKSTISQWEVGKAQPKNKNLLSIVTFFDTTYEYL 62


>gi|163737060|ref|ZP_02144478.1| transcriptional regulator, XRE family with cupin sensor domain
          [Phaeobacter gallaeciensis BS107]
 gi|161389664|gb|EDQ14015.1| transcriptional regulator, XRE family with cupin sensor domain
          [Phaeobacter gallaeciensis BS107]
          Length = 205

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 38/93 (40%), Gaps = 5/93 (5%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
             +  P P+   +G  IR RR  +G++ + L +  G++   + + E+         L  
Sbjct: 11 AKTRSSPGPM---LGALIRKRRKQMGLTLQALCDTAGVSVGYLSQVERDNATPTLGTLAQ 67

Query: 62 ISEVLESPISFFFDVSPTVCSDISSEENNVMDF 94
          I+  LE  + +F  ++    SD  +       F
Sbjct: 68 IASALEVGLEYF--IATPKPSDALTRATTRTQF 98


>gi|163740517|ref|ZP_02147911.1| transcriptional regulator, XRE family with cupin sensor domain
          [Phaeobacter gallaeciensis 2.10]
 gi|161386375|gb|EDQ10750.1| transcriptional regulator, XRE family with cupin sensor domain
          [Phaeobacter gallaeciensis 2.10]
          Length = 205

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 38/93 (40%), Gaps = 5/93 (5%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
             +  P P+   +G  IR RR  +G++ + L +  G++   + + E+         L  
Sbjct: 11 AKTRSSPGPM---LGALIRKRRKQMGLTLQALCDTAGVSVGYLSQVERDNATPTLGTLAQ 67

Query: 62 ISEVLESPISFFFDVSPTVCSDISSEENNVMDF 94
          I+  LE  + +F  ++    SD  +       F
Sbjct: 68 IASALEVGLEYF--IATPKPSDALTRATTRTQF 98


>gi|158320320|ref|YP_001512827.1| XRE family transcriptional regulator [Alkaliphilus oremlandii
           OhILAs]
 gi|158140519|gb|ABW18831.1| transcriptional regulator, XRE family [Alkaliphilus oremlandii
           OhILAs]
          Length = 130

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 39/90 (43%), Gaps = 4/90 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++IR  R     S   + E  G++   + + E   +   A  LQ I+  LE  +  
Sbjct: 1   MTLGEKIRALRKEKRYSIMNIRELTGLSKSTISEIENDKSSPTAETLQKIANALEVTVDT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
           FF        D S  + N+ +F +  + ++
Sbjct: 61  FFKDDDH---DESLSQQNI-EFTTPQEAME 86


>gi|16766060|ref|NP_461675.1| transcriptional regulator [Salmonella enterica subsp. enterica
          serovar Typhimurium str. LT2]
 gi|16421295|gb|AAL21634.1| putative transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Typhimurium str. LT2]
 gi|261247891|emb|CBG25722.1| putative transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Typhimurium str. D23580]
 gi|267994850|gb|ACY89735.1| putative transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Typhimurium str. 14028S]
 gi|301159316|emb|CBW18832.1| putative transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Typhimurium str. SL1344]
 gi|323131102|gb|ADX18532.1| putative transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Typhimurium str. 4/74]
 gi|332989625|gb|AEF08608.1| putative transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Typhimurium str. UK-1]
          Length = 118

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 38/76 (50%), Gaps = 4/76 (5%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVL 66
          + I +GKR+++ R+   ++Q +LG   G+       ++  YEK V+      +  ++  L
Sbjct: 20 IAIVIGKRLKISRVRADLTQAELGALAGLDEESASARISSYEKEVHAPDFKLVCKLAAAL 79

Query: 67 ESPISFFFDVSPTVCS 82
          + P ++F+ V   +  
Sbjct: 80 DVPEAYFYAVDDELAE 95


>gi|330901746|gb|EGH33165.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. japonica str. M301072PT]
          Length = 118

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 39/107 (36%), Gaps = 2/107 (1%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            N + P PV  +V + +R  R    +SQ  L E  G++ + +   E G   V  + L  +
Sbjct: 4   ENSQRP-PVLQHVSQNVRRLRNSADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRV 62

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           +E LE   S              +E         +   + L R   +
Sbjct: 63  AEALEVAFSDLIQAPENHDYSRINELAWAGTIAGSK-AVLLARAVAR 108


>gi|313673082|ref|YP_004051193.1| transcriptional regulator, merr family [Calditerrivibrio
          nitroreducens DSM 19672]
 gi|312939838|gb|ADR19030.1| transcriptional regulator, MerR family [Calditerrivibrio
          nitroreducens DSM 19672]
          Length = 178

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 28/62 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++IR  R  LGM+ E +    G T   + + E G N    + L+ I   +   IS  F+
Sbjct: 4  GEKIRDIRKRLGMTLEDVSLKTGFTKSFISQIENGKNSPSIASLKKICYAIGISISELFE 63

Query: 76 VS 77
            
Sbjct: 64 DE 65


>gi|301794241|emb|CBW36661.1| Phage transcriptional regulator [Streptococcus pneumoniae INV104]
          Length = 167

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 44/101 (43%), Gaps = 4/101 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
            RI+  R    ++Q +L     I ++ +Q++E G   + +   Q +++     I      
Sbjct: 5   NRIKQLRKENNLTQRELANETKIPYRTIQRWENGETDIKSDAAQVLADYFGVSIPHLLGY 64

Query: 75  -DVSPTVCSDI-SSEENNVMDFISTPDGLQLNRYFIQIDDV 113
            D+     SDI +   ++++ F+      +  + FI+ +D 
Sbjct: 65  SDLIADTDSDIKAMAYSHLLTFVDEKQIKEFEKEFIRANDN 105


>gi|169335374|ref|ZP_02862567.1| hypothetical protein ANASTE_01786 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169258112|gb|EDS72078.1| hypothetical protein ANASTE_01786 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 225

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G ++   R   G+SQE     +G++ Q + K+E   +     +L  IS++ +  + 
Sbjct: 1  MDLGNKLYTLRKQKGISQETAANEIGVSRQTISKWETNSSYPEFDKLVLISKLYDISLD 59


>gi|167758542|ref|ZP_02430669.1| hypothetical protein CLOSCI_00882 [Clostridium scindens ATCC 35704]
 gi|167663738|gb|EDS07868.1| hypothetical protein CLOSCI_00882 [Clostridium scindens ATCC 35704]
          Length = 94

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/95 (21%), Positives = 39/95 (41%), Gaps = 5/95 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +  +I+  R    M+Q  L + L IT   V  +E G++    + L  +S++      +
Sbjct: 1   MMIADKIKQLRTSRDMTQSDLAKKLNITRSSVNAWEMGLSTPSTAYLVELSQLFHVSTDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
              +S     DIS+     +  +       L +YF
Sbjct: 61  LLGLSGNATLDISNLSEKEVQIV-----YDLVQYF 90


>gi|118477924|ref|YP_895075.1| transcriptional regulator, DNA-binding protein [Bacillus
          thuringiensis str. Al Hakam]
 gi|118417149|gb|ABK85568.1| transcriptional regulator, DNA-binding protein [Bacillus
          thuringiensis str. Al Hakam]
          Length = 69

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 27/63 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI + R   G +QE+L + +G++ Q +   EK            I+ V E  I+  FD 
Sbjct: 7  NRIVVYRAEKGWTQEELAKRVGVSRQTIATLEKNKYNPSLILAFKIANVFEKSITDVFDY 66

Query: 77 SPT 79
             
Sbjct: 67 QEE 69


>gi|86739602|ref|YP_480002.1| XRE family transcriptional regulator [Frankia sp. CcI3]
 gi|86566464|gb|ABD10273.1| transcriptional regulator, XRE family [Frankia sp. CcI3]
          Length = 81

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 34/68 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+R +R  LG+SQE+L +  G+ +  V + E+G   +    +  +++ L+   +    
Sbjct: 14 GERVRAQRHELGLSQEQLADECGLHWTFVGQVERGRRNISLHNILKLADALKIDPAELVR 73

Query: 76 VSPTVCSD 83
                ++
Sbjct: 74 GLQAPSNE 81


>gi|90961232|ref|YP_535148.1| Cro-like protein, phage associated [Lactobacillus phage Sal2]
 gi|301300635|ref|ZP_07206824.1| toxin-antitoxin system, antitoxin component, Xre family
          [Lactobacillus salivarius ACS-116-V-Col5a]
 gi|90820426|gb|ABD99065.1| Cro-like protein, phage associated [Lactobacillus phage Sal2]
 gi|300851743|gb|EFK79438.1| toxin-antitoxin system, antitoxin component, Xre family
          [Lactobacillus salivarius ACS-116-V-Col5a]
          Length = 63

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 32/56 (57%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++  R+  G++Q++  + +GI++Q +  YEK  +++  S ++ +  V   PI   F
Sbjct: 6  LKAARVNAGLTQKEAAKKIGISYQTLSDYEKDESKIKLSMIRKMCSVYNMPIDCIF 61


>gi|88604161|ref|YP_504339.1| XRE family transcriptional regulator [Methanospirillum hungatei
          JF-1]
 gi|88189623|gb|ABD42620.1| transcriptional regulator, XRE family [Methanospirillum hungatei
          JF-1]
          Length = 70

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 2/62 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          RI+  R+  G++Q  L    G+  + +   EKG          HI+ +L + I   FFFD
Sbjct: 4  RIKEFRVRQGITQADLARKAGVRRETIVFLEKGKYNPSLRLAHHIACILNTSIEELFFFD 63

Query: 76 VS 77
            
Sbjct: 64 DE 65


>gi|319892586|ref|YP_004149461.1| probable transcriptional repressor [Staphylococcus pseudintermedius
           HKU10-03]
 gi|317162282|gb|ADV05825.1| probable transcriptional repressor [Staphylococcus pseudintermedius
           HKU10-03]
          Length = 103

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 45/101 (44%), Gaps = 3/101 (2%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFDVS 77
           I+ RR+ L ++ E++G  +G+    V+K+E G +  +   ++  ++E L+   S+   V 
Sbjct: 5   IKARRLELNLTLEQVGNMVGVGKSTVRKWETGDIENMKRDKIVKLAEALKVSPSYIMGVE 64

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
                  +   +   D+  T + L     + +    K R K
Sbjct: 65  DEKPQQNTLAAHLDGDY--TEEELAEILEYAKFVRQKHRNK 103


>gi|296270730|ref|YP_003653362.1| XRE family transcriptional regulator [Thermobispora bispora DSM
          43833]
 gi|296093517|gb|ADG89469.1| transcriptional regulator, XRE family [Thermobispora bispora DSM
          43833]
          Length = 192

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 35/87 (40%), Gaps = 2/87 (2%)

Query: 7  IPNP--VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          +P+P  ++  +   +R  R   GM+ ++L     ++   + + E+G      + L  I+E
Sbjct: 1  MPDPETINAAIAANVRSLRGQRGMTLDELAARSKVSRGMLIQIEQGRTNPSINTLNRIAE 60

Query: 65 VLESPISFFFDVSPTVCSDISSEENNV 91
           L   I    +V+      I      V
Sbjct: 61 ALGVSIGRLVEVADVPVVRIVQPSEAV 87


>gi|229918744|ref|YP_002887390.1| XRE family transcriptional regulator [Exiguobacterium sp. AT1b]
 gi|229470173|gb|ACQ71945.1| transcriptional regulator, XRE family [Exiguobacterium sp. AT1b]
          Length = 74

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R+   R    ++QE+L   +G+T   +   E G    G      ++      + + F
Sbjct: 8  QRLVSLRKAAQLTQEQLALKIGVTQSMIAHIESGTKDPGKDNKLKLAAFFGVTVEYLF 65


>gi|169335543|ref|ZP_02862736.1| hypothetical protein ANASTE_01958 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169258281|gb|EDS72247.1| hypothetical protein ANASTE_01958 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 126

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/92 (18%), Positives = 38/92 (41%), Gaps = 3/92 (3%)

Query: 11 VD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D   +G +I+  R    ++QE L E L ++   +   E G+ +V    +  I+++L   
Sbjct: 7  IDYKKLGGKIKKARQKENLTQETLAEILDLSASHLSHVENGLAKVSLPTIYSIAKILNVS 66

Query: 70 ISFF--FDVSPTVCSDISSEENNVMDFISTPD 99
          +      +           E   +++F S  +
Sbjct: 67 LDNLLGLEFENESLYVTIKEIKKLLEFCSITE 98


>gi|160933079|ref|ZP_02080468.1| hypothetical protein CLOLEP_01922 [Clostridium leptum DSM 753]
 gi|156868153|gb|EDO61525.1| hypothetical protein CLOLEP_01922 [Clostridium leptum DSM 753]
          Length = 152

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 38/83 (45%), Gaps = 2/83 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  +   R   G+SQE + E LG++ Q + K+E G       + + ++ + +  +  
Sbjct: 1  MNLGNSLFHARKRRGLSQEDVAEKLGVSRQTISKWETGETIPDIRQCKRLAVLYQMSLDE 60

Query: 73 F--FDVSPTVCSDISSEENNVMD 93
             FD++     ++  +     D
Sbjct: 61 LIDFDINTAEIQEMIKKSGEKAD 83


>gi|49078644|gb|AAT49805.1| PA1359 [synthetic construct]
          Length = 219

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 8/83 (9%)

Query: 8   PNPVDI-----NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           PNP +      +V   +R  R+  G+SQE L     ++ + +   E G   V  S L  I
Sbjct: 33  PNPTERPSVLEHVSGNVRRLRLQAGLSQEALARAASVSRRMLVGIESGDVNVSLSTLDRI 92

Query: 63  SEVLESPISFFFDVSPTVCSDIS 85
           +  L      F D+     +D S
Sbjct: 93  AAALGV---LFPDLVQAPATDRS 112


>gi|18313906|ref|NP_560573.1| helix-turn-helix protein [Pyrobaculum aerophilum str. IM2]
 gi|18161474|gb|AAL64755.1| helix-turn-helix protein [Pyrobaculum aerophilum str. IM2]
          Length = 516

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 25/106 (23%), Positives = 44/106 (41%), Gaps = 11/106 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG RI   R   G+S   L +  G++   +   E+G      S L +I+  L      F 
Sbjct: 5   VGSRIAELREKRGLSLTALAKLSGVSKSTLWGIERGEVVPTVSTLWNIANALGVT---FG 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNR--YFIQIDDVKVRQK 118
           ++   +  DI  +E  V   +   +G   NR  Y ++++    R+ 
Sbjct: 62  EL---ITYDIVVKEEGVEVRLIEREG---NREVYLMRLEGGSYRRA 101


>gi|312126546|ref|YP_003991420.1| XRE family transcriptional regulator [Caldicellulosiruptor
           hydrothermalis 108]
 gi|311776565|gb|ADQ06051.1| transcriptional regulator, XRE family [Caldicellulosiruptor
           hydrothermalis 108]
          Length = 145

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 24/146 (16%), Positives = 55/146 (37%), Gaps = 17/146 (11%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
             N +   +G +I+  R   G +  +L    G+    + + E+G + +    L  I++ L
Sbjct: 3   KKNKIARTLGLKIKKLREEKGWTINQLALYAGVNPTSIMRAERGESELSLGNLLRIAKAL 62

Query: 67  ESPISFFFD--------VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID--DVKVR 116
           +  ++   +            +  +   +  ++ + I   + L     F  I   +  V+
Sbjct: 63  KVDLNTLVEESMGQIKLGDEELVPEEKDKTPDIYEIIKKAENL----NFKGIPVNEPDVK 118

Query: 117 QKIIE---LVRSIVSSEKKYRTIEEE 139
           Q I+E       + + EK+    E E
Sbjct: 119 QAIVEAITFAIRLKAKEKRQENKEIE 144


>gi|291521725|emb|CBK80018.1| Predicted transcriptional regulators [Coprococcus catus GD/7]
          Length = 129

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 25/57 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GKRIR  R   G+S E+L E   ++   +   E    +     L  IS  LE  I 
Sbjct: 8  IGKRIRETRKQRGLSAEELAEIADLSTVYISYIENAKRKPSLESLIKISNALEITID 64


>gi|260664376|ref|ZP_05865229.1| predicted protein [Lactobacillus jensenii SJ-7A-US]
 gi|260562262|gb|EEX28231.1| predicted protein [Lactobacillus jensenii SJ-7A-US]
          Length = 80

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 3/61 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP---ISFF 73
           R++  R+  G SQ+K    LG+++    + E G   +   +   I E+L+ P   I+ F
Sbjct: 7  ARLKAERIARGYSQQKFARALGVSYVTYNQKENGKKPISIDQFVKILEILKIPDNEINIF 66

Query: 74 F 74
          F
Sbjct: 67 F 67


>gi|228950623|ref|ZP_04112758.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|229067839|ref|ZP_04201157.1| Transcriptional regulator Xre [Bacillus cereus F65185]
 gi|229077365|ref|ZP_04210032.1| Transcriptional regulator Xre [Bacillus cereus Rock4-2]
 gi|229176675|ref|ZP_04304080.1| Transcriptional regulator Xre [Bacillus cereus 172560W]
 gi|229188360|ref|ZP_04315409.1| Transcriptional regulator Xre [Bacillus cereus ATCC 10876]
 gi|228595159|gb|EEK52929.1| Transcriptional regulator Xre [Bacillus cereus ATCC 10876]
 gi|228606842|gb|EEK64258.1| Transcriptional regulator Xre [Bacillus cereus 172560W]
 gi|228705944|gb|EEL58263.1| Transcriptional regulator Xre [Bacillus cereus Rock4-2]
 gi|228715323|gb|EEL67181.1| Transcriptional regulator Xre [Bacillus cereus F65185]
 gi|228809098|gb|EEM55582.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
          Length = 82

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 27/55 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE   + LG++   + + E+G        +  +++ L   I
Sbjct: 22 GRRIRAFRKLKGYTQEGFAKALGVSVSVLGEVERGNRSPSQDFVVEVAKALNVSI 76


>gi|225019632|ref|ZP_03708824.1| hypothetical protein CLOSTMETH_03585 [Clostridium methylpentosum
           DSM 5476]
 gi|224947599|gb|EEG28808.1| hypothetical protein CLOSTMETH_03585 [Clostridium methylpentosum
           DSM 5476]
          Length = 120

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/89 (16%), Positives = 34/89 (38%), Gaps = 2/89 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ I+  R   G+S+ +L + L I  + +   E             +   L+  +  FF 
Sbjct: 14  GQAIKEARKAKGISRNQLADRLNIAPRYIASIENSGQHPSLQIFYELVTFLDVSVDQFF- 72

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLN 104
             P    D +++   + + ++  +   L 
Sbjct: 73  -FPVKTPDKTTQRRQLDELLNGVEETDLV 100


>gi|150398657|ref|YP_001329124.1| XRE family transcriptional regulator [Sinorhizobium medicae WSM419]
 gi|150030172|gb|ABR62289.1| transcriptional regulator, XRE family [Sinorhizobium medicae
           WSM419]
          Length = 197

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/96 (19%), Positives = 38/96 (39%), Gaps = 2/96 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  VG R+R  R    ++ + L    G++   + + E+G     A  L  +   L + +
Sbjct: 13  LDEVVGMRVRALRAAQDLTLDDLANRAGVSRAMISRIERGEASPTAQLLARLCSALGTTL 72

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           S  F    +  S ++  ++        P+   L R 
Sbjct: 73  SALFASGVSEASPLARRQD--QRLWRDPESGYLRRS 106


>gi|26988980|ref|NP_744405.1| Cro/CI family transcriptional regulator [Pseudomonas putida
          KT2440]
 gi|24983798|gb|AAN67869.1|AE016418_9 transcriptional regulator, Cro/CI family [Pseudomonas putida
          KT2440]
          Length = 104

 Score = 54.8 bits (131), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 27/71 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R + G++Q +L E  G   + + ++E          +   ++VL      FF
Sbjct: 6  LGIALRRYRKLAGLTQAQLAERTGFDPKTISRFETSTYTPSIDAIMAFAQVLGVKTKDFF 65

Query: 75 DVSPTVCSDIS 85
                    +
Sbjct: 66 AEPDDEEEQRA 76


>gi|325568656|ref|ZP_08144949.1| XRE family transcriptional regulator [Enterococcus casseliflavus
          ATCC 12755]
 gi|325157694|gb|EGC69850.1| XRE family transcriptional regulator [Enterococcus casseliflavus
          ATCC 12755]
          Length = 139

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 34/63 (53%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          + VG+RI+ RR  LG + + L   LG++   + +YEKG + ++    L+ ++  L +   
Sbjct: 1  MEVGERIKQRRKELGYNADYLASKLGVSRSTIFRYEKGEIEKLPTEVLEKLAISLNTTPG 60

Query: 72 FFF 74
          +  
Sbjct: 61 YLM 63


>gi|323487380|ref|ZP_08092678.1| xre family Toxin-antitoxin system [Clostridium symbiosum
          WAL-14163]
 gi|323693858|ref|ZP_08108049.1| hypothetical protein HMPREF9475_02912 [Clostridium symbiosum
          WAL-14673]
 gi|323399286|gb|EGA91686.1| xre family Toxin-antitoxin system [Clostridium symbiosum
          WAL-14163]
 gi|323502110|gb|EGB17981.1| hypothetical protein HMPREF9475_02912 [Clostridium symbiosum
          WAL-14673]
          Length = 115

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 36/77 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R+++ R   G +Q+ L E LG++   +   E G        ++ I ++L    ++
Sbjct: 1  MTIGERLKIARKARGYTQDSLAEALGMSRGVITNIEYGRAEPQTLVIKAICDILHISQTW 60

Query: 73 FFDVSPTVCSDISSEEN 89
              +  +  D   E++
Sbjct: 61 LMTGNGNMDIDFDLEKS 77


>gi|312967403|ref|ZP_07781618.1| helix-turn-helix family protein [Escherichia coli 2362-75]
 gi|312287600|gb|EFR15505.1| helix-turn-helix family protein [Escherichia coli 2362-75]
          Length = 255

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 30/111 (27%), Positives = 46/111 (41%), Gaps = 5/111 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-D 75
            RI       G SQ +L   LG++ Q VQ +  G      +RL  +SE+   P S+F  +
Sbjct: 35  NRITKLLQEKGWSQAELARKLGVSAQSVQYWTTGKTFPRGNRLAQLSEISGYPQSWFLGE 94

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           ++    S     +      +       L+  F   D   VR   I++VRSI
Sbjct: 95  ITSRQFSSKEKHQARTDSVVFN----VLDVEFSCGDGTHVRGDFIDVVRSI 141


>gi|257438852|ref|ZP_05614607.1| acetyltransferase, GNAT family [Faecalibacterium prausnitzii
          A2-165]
 gi|257198667|gb|EEU96951.1| acetyltransferase, GNAT family [Faecalibacterium prausnitzii
          A2-165]
          Length = 381

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 30/71 (42%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  IR  R   G++Q +L   L ++ + + K+E        S L+ ++  L   +     
Sbjct: 7  GSTIRQLREAKGLTQAELAGTLSVSAKTISKWETAKGLPDISLLEPLAAALGVSVLELMQ 66

Query: 76 VSPTVCSDISS 86
            P +  + ++
Sbjct: 67 GEPIINRNRAA 77


>gi|237717327|ref|ZP_04547808.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262406092|ref|ZP_06082642.1| transcriptional regulator [Bacteroides sp. 2_1_22]
 gi|294648160|ref|ZP_06725703.1| DNA-binding protein [Bacteroides ovatus SD CC 2a]
 gi|229443310|gb|EEO49101.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262356967|gb|EEZ06057.1| transcriptional regulator [Bacteroides sp. 2_1_22]
 gi|292636544|gb|EFF55019.1| DNA-binding protein [Bacteroides ovatus SD CC 2a]
          Length = 191

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 33/68 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    +S E+L +  G+  +Q+++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKALREDKSISIEELAQRSGLAIEQIERIENNIDIPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D    V  
Sbjct: 67 DDQDEVGP 74


>gi|227364951|ref|ZP_03848993.1| bacteriophage transcriptional regulator [Lactobacillus reuteri
           MM2-3]
 gi|325682427|ref|ZP_08161944.1| XRE family transcriptional regulator [Lactobacillus reuteri MM4-1A]
 gi|227070005|gb|EEI08386.1| bacteriophage transcriptional regulator [Lactobacillus reuteri
           MM2-3]
 gi|324978266|gb|EGC15216.1| XRE family transcriptional regulator [Lactobacillus reuteri MM4-1A]
          Length = 124

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/112 (16%), Positives = 37/112 (33%), Gaps = 24/112 (21%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D+++G RI   R    MSQ +L + LGI    +  YE    +     L  I++  +    
Sbjct: 13  DMSIGNRIADLRTNNHMSQFQLAKVLGIGTSTLGMYETNKRKPSPKVLNKIADYFDVSTD 72

Query: 72  FF------------------------FDVSPTVCSDISSEENNVMDFISTPD 99
           +                         F+  P    D    ++ +  ++   +
Sbjct: 73  YLLGRKSKADQVHNATVDEALGTIMSFEGQPVTEHDKKVMKDLLESYLRNKE 124


>gi|164688807|ref|ZP_02212835.1| hypothetical protein CLOBAR_02454 [Clostridium bartlettii DSM
          16795]
 gi|164602283|gb|EDQ95748.1| hypothetical protein CLOBAR_02454 [Clostridium bartlettii DSM
          16795]
          Length = 364

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 31/71 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+GK I   R   G++Q++L   +G++   V K+E  +       L  ++ +    +  
Sbjct: 4  INIGKNITKFRRSKGITQDELASYIGVSKSSVSKWENSITYPDIMLLPQLATLFNISLDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LMGYEPQLIKE 74


>gi|162146218|ref|YP_001600677.1| transcriptional regulatory protein [Gluconacetobacter
          diazotrophicus PAl 5]
 gi|161784793|emb|CAP54335.1| putative transcriptional regulatory protein [Gluconacetobacter
          diazotrophicus PAl 5]
          Length = 83

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 28/71 (39%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +R  R   G+SQE L E +G+    +   E G        L H S+ L    +   D
Sbjct: 8  GANVRRLRRAAGLSQEALAERMGVDRAYISWIETGRQNATLLSLWHASQALGVRPATLLD 67

Query: 76 VSPTVCSDISS 86
           S    ++ + 
Sbjct: 68 ESHVAATEEAP 78


>gi|154148443|ref|YP_001405854.1| hypothetical protein CHAB381_0248 [Campylobacter hominis ATCC
          BAA-381]
 gi|153804452|gb|ABS51459.1| conserved hypothetical protein [Campylobacter hominis ATCC
          BAA-381]
          Length = 233

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 33/66 (50%), Gaps = 1/66 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPIS 71
          + +  RI+  R I G +Q++L +  G++   ++ YE K    +    L  I++  +  IS
Sbjct: 1  MELSNRIKQLRDIKGWTQQELADYSGVSIDSIKGYESKKTKNITTENLNKIAKAFDLNIS 60

Query: 72 FFFDVS 77
           F++  
Sbjct: 61 NFYNND 66


>gi|15830918|ref|NP_309691.1| hypothetical protein ECs1664 [Escherichia coli O157:H7 str.
          Sakai]
 gi|168756532|ref|ZP_02781539.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4401]
 gi|168771061|ref|ZP_02796068.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4486]
 gi|168782527|ref|ZP_02807534.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4076]
 gi|168787669|ref|ZP_02812676.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC869]
 gi|195938823|ref|ZP_03084205.1| hypothetical protein EscherichcoliO157_20767 [Escherichia coli
          O157:H7 str. EC4024]
 gi|208806950|ref|ZP_03249287.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4206]
 gi|208815716|ref|ZP_03256895.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4045]
 gi|208822642|ref|ZP_03262961.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4042]
 gi|209396624|ref|YP_002270109.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4115]
 gi|217328417|ref|ZP_03444499.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          TW14588]
 gi|261224908|ref|ZP_05939189.1| hypothetical protein EscherichiacoliO157_09974 [Escherichia coli
          O157:H7 str. FRIK2000]
 gi|261257236|ref|ZP_05949769.1| hypothetical protein EscherichiacoliO157EcO_15627 [Escherichia
          coli O157:H7 str. FRIK966]
 gi|291281508|ref|YP_003498326.1| Helix-turn-helix domain protein [Escherichia coli O55:H7 str.
          CB9615]
 gi|13361128|dbj|BAB35087.1| hypothetical protein [Escherichia coli O157:H7 str. Sakai]
 gi|188999971|gb|EDU68957.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4076]
 gi|189356349|gb|EDU74768.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4401]
 gi|189360126|gb|EDU78545.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4486]
 gi|189372536|gb|EDU90952.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC869]
 gi|208726751|gb|EDZ76352.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4206]
 gi|208732364|gb|EDZ81052.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4045]
 gi|208738127|gb|EDZ85810.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4042]
 gi|209158024|gb|ACI35457.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4115]
 gi|217318844|gb|EEC27270.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          TW14588]
 gi|290761381|gb|ADD55342.1| Helix-turn-helix domain protein [Escherichia coli O55:H7 str.
          CB9615]
 gi|320638144|gb|EFX07905.1| hypothetical protein ECO5101_18657 [Escherichia coli O157:H7 str.
          G5101]
 gi|320643564|gb|EFX12729.1| hypothetical protein ECO9389_18000 [Escherichia coli O157:H- str.
          493-89]
 gi|320648883|gb|EFX17507.1| hypothetical protein ECO2687_10168 [Escherichia coli O157:H- str.
          H 2687]
 gi|320654469|gb|EFX22513.1| hypothetical protein ECO7815_15353 [Escherichia coli O55:H7 str.
          3256-97 TW 07815]
 gi|320664959|gb|EFX32089.1| hypothetical protein ECOSU61_14426 [Escherichia coli O157:H7 str.
          LSU-61]
 gi|326346440|gb|EGD70177.1| transcriptional regulator, XRE family [Escherichia coli O157:H7
          str. 1125]
          Length = 194

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 4  NKKIPNPV-DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          +K+  N + D ++ + +   R    ++  +L +  G++   + K E+G +   A+ L  +
Sbjct: 2  DKRAKNQIVDSDIARLLLKLRKSRNLTVTELAQRSGVSQAMISKVERGTSSPSATILSRL 61

Query: 63 SEVLESPISFFF 74
          +  L   +S  F
Sbjct: 62 ANALNITLSKLF 73


>gi|312868183|ref|ZP_07728385.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
 gi|311096288|gb|EFQ54530.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
          Length = 158

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 25/55 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGENIKTLRKAHNLTQPEFAKIVGISRNSLSRYENGASSVSTELIDRICQKFNVS 56


>gi|260463673|ref|ZP_05811871.1| transcriptional regulator, XRE family [Mesorhizobium
          opportunistum WSM2075]
 gi|319785160|ref|YP_004144636.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
          biserrulae WSM1271]
 gi|259030527|gb|EEW31805.1| transcriptional regulator, XRE family [Mesorhizobium
          opportunistum WSM2075]
 gi|317171048|gb|ADV14586.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
          biserrulae WSM1271]
          Length = 124

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 37/66 (56%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          PNP  + +GKR++  R  +G++QE+    L +    + + E G   VGA  ++ ++ + E
Sbjct: 11 PNPEAVRLGKRLKDAREYVGITQEEAANHLKVRRSAISEMEAGKRGVGALEMKSLAVLYE 70

Query: 68 SPISFF 73
           P S+F
Sbjct: 71 RPTSWF 76


>gi|257484651|ref|ZP_05638692.1| DNA-binding protein [Pseudomonas syringae pv. tabaci ATCC 11528]
 gi|320323844|gb|EFW79928.1| DNA-binding protein [Pseudomonas syringae pv. glycinea str. B076]
 gi|330888838|gb|EGH21499.1| DNA-binding protein [Pseudomonas syringae pv. mori str. 301020]
 gi|330986306|gb|EGH84409.1| DNA-binding protein [Pseudomonas syringae pv. lachrymans str.
           M301315]
 gi|331011269|gb|EGH91325.1| DNA-binding protein [Pseudomonas syringae pv. tabaci ATCC 11528]
          Length = 189

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 28/135 (20%), Positives = 51/135 (37%), Gaps = 35/135 (25%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +V + +R  R    +SQ  L E  G++ + +   E G   V  + L  ++E LE   S  
Sbjct: 14  HVSQNVRRLRNCADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRVAEALEVAFS-- 71

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD------VKVRQKIIELVRSIV 127
                              D I  P+    NR + +I++      +   + ++ L R+I 
Sbjct: 72  -------------------DLIQAPE----NRDYSRINELAWAGTISGSKAVL-LARAIA 107

Query: 128 SSEKKYRTIEEECMV 142
             E     + E C+ 
Sbjct: 108 RRE---VELWEFCLE 119


>gi|224825809|ref|ZP_03698913.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
 gi|224602033|gb|EEG08212.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
          Length = 119

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 21/121 (17%), Positives = 47/121 (38%), Gaps = 7/121 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G RI+  R     +Q+ L + +G+    V ++E G      +    +++ L     +
Sbjct: 1   MIIGFRIKEARKARRRTQKWLADEVGVKQSSVSQWEMGETEPTTANCSSVAQALRISFEW 60

Query: 73  FF----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
                 ++  T  S +        D        +L   F Q+   K RQ +++ +R   +
Sbjct: 61  LTTGRGEMDVTYASAVVHVAEPGQDLDDDKK--ELLALFDQLP-KKKRQILLQFMRDWAA 117

Query: 129 S 129
           +
Sbjct: 118 T 118


>gi|219667624|ref|YP_002458059.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|219537884|gb|ACL19623.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 63

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            IR  R    +SQE L +   ++ Q +   E        S    ++EVL+  +   F
Sbjct: 3  NNIRQYRKEKNISQEDLAKRCNVSRQTINAIENNKYDPTLSLAFKLAEVLQVTVDELF 60


>gi|149189093|ref|ZP_01867381.1| Putative transcriptional regulator [Vibrio shilonii AK1]
 gi|148837056|gb|EDL54005.1| Putative transcriptional regulator [Vibrio shilonii AK1]
          Length = 100

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 22/105 (20%), Positives = 49/105 (46%), Gaps = 15/105 (14%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQ 60
           KK P P       R++  R    ++Q+ LG  +G+       ++  YEKG +      L+
Sbjct: 3   KKNPIP------SRLKSARKKAKITQKDLGVKIGMEESSASGRMNHYEKGRHVPDIGTLR 56

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            +++ L+ P+ +FF       +++++E    ++ ++  + L L  
Sbjct: 57  RMAKELDVPLCYFF-----CDNELTAEIACAVEKMTDEERLALLE 96


>gi|170742021|ref|YP_001770676.1| XRE family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168196295|gb|ACA18242.1| transcriptional regulator, XRE family [Methylobacterium sp. 4-46]
          Length = 183

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R + G+SQ  L    GI    +   E G        L+ I + +   ++ FF
Sbjct: 6  VGARLRYVRTLHGLSQRALARKAGIVNSTISLIESGQTNPSVGALKRILDAVPIGLAEFF 65

Query: 75 DVSPTVCSDISSEENNVMDF 94
           + P           ++++ 
Sbjct: 66 SLEPARTEKAFYAAEDLVEI 85


>gi|134298768|ref|YP_001112264.1| helix-turn-helix domain-containing protein [Desulfotomaculum
           reducens MI-1]
 gi|134051468|gb|ABO49439.1| helix-turn-helix domain protein [Desulfotomaculum reducens MI-1]
          Length = 255

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 32/55 (58%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +G++IR+ R   G+S ++L + +GI+   + + E+G      + L+ ++E L  P
Sbjct: 74  LGEKIRIIRNETGLSLQELADKIGISLSYLSEIERGTVYPALNTLKRVAEGLGVP 128



 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 37/84 (44%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +++  R   G++Q +L    G+T   + + E+G  +     L+ +SEV+     +F 
Sbjct: 139 LGYKLKHLREEYGLTQAQLANLAGVTAGLIGQIEQGKVQPSLKTLEKLSEVMGVSPCYFI 198

Query: 75  DVSPTVCSDISSEENNVMDFISTP 98
                V   +S     + + +  P
Sbjct: 199 MEPGAVDQMVSLMNPELRELLIHP 222



 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/95 (17%), Positives = 33/95 (34%), Gaps = 3/95 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G +IR  R   G + + L     ++   + + E+G  R     +  ++  L    +   +
Sbjct: 5   GDQIRALREERGYTLQDLARRAKLSLSYLSEIERGSKRPSLKTIDKLAAALNVSKTQLVE 64

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
              T       E+   +  I    GL L     +I
Sbjct: 65  GEITDSGLGLGEK---IRIIRNETGLSLQELADKI 96


>gi|256962367|ref|ZP_05566538.1| predicted protein [Enterococcus faecalis Merz96]
 gi|256952863|gb|EEU69495.1| predicted protein [Enterococcus faecalis Merz96]
          Length = 308

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 26/61 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +++  R  +GM+Q+ L E L    Q + K+E G        L  I   L   I    
Sbjct: 7  IGNKLKEARENMGMTQQVLAEKLDENPQYISKWENGKMIPPTHLLPEICSHLNISIDDLL 66

Query: 75 D 75
          D
Sbjct: 67 D 67


>gi|225377903|ref|ZP_03755124.1| hypothetical protein ROSEINA2194_03563 [Roseburia inulinivorans
          DSM 16841]
 gi|260438260|ref|ZP_05792076.1| putative transcriptional regulator [Butyrivibrio crossotus DSM
          2876]
 gi|225210234|gb|EEG92588.1| hypothetical protein ROSEINA2194_03563 [Roseburia inulinivorans
          DSM 16841]
 gi|292809280|gb|EFF68485.1| putative transcriptional regulator [Butyrivibrio crossotus DSM
          2876]
          Length = 107

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 31/58 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+RI+  R    M++++L E +G++   ++K E GVN      L  I+E+    + + 
Sbjct: 9  GERIKELRAARRMTRQQLAEQIGLSVDALRKIEAGVNGAKIDTLISIAELFHITLDYL 66


>gi|110801073|ref|YP_695499.1| DNA-binding protein [Clostridium perfringens ATCC 13124]
 gi|168211126|ref|ZP_02636751.1| DNA-binding protein [Clostridium perfringens B str. ATCC 3626]
 gi|110675720|gb|ABG84707.1| DNA-binding protein [Clostridium perfringens ATCC 13124]
 gi|170710868|gb|EDT23050.1| DNA-binding protein [Clostridium perfringens B str. ATCC 3626]
          Length = 348

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 30/53 (56%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I+ +R   G++QE++   LG++   V K+EKG      + L  ++ +L+  ++
Sbjct: 7  IKEKRNSQGLTQEQVAMYLGVSTPAVNKWEKGTCYPDITLLPALARLLKVDLN 59


>gi|320327981|gb|EFW83986.1| DNA-binding protein [Pseudomonas syringae pv. glycinea str. race 4]
 gi|330875480|gb|EGH09629.1| DNA-binding protein [Pseudomonas syringae pv. glycinea str. race 4]
          Length = 189

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 28/135 (20%), Positives = 51/135 (37%), Gaps = 35/135 (25%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +V + +R  R    +SQ  L E  G++ + +   E G   V  + L  ++E LE   S  
Sbjct: 14  HVSQNVRRLRNCADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRVAEALEVAFS-- 71

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD------VKVRQKIIELVRSIV 127
                              D I  P+    NR + +I++      +   + ++ L R+I 
Sbjct: 72  -------------------DLIQAPE----NRDYSRINELAWAGTISGSKAVL-LARAIA 107

Query: 128 SSEKKYRTIEEECMV 142
             E     + E C+ 
Sbjct: 108 RRE---VELWEFCLE 119


>gi|300779705|ref|ZP_07089561.1| DNA-binding protein [Corynebacterium genitalium ATCC 33030]
 gi|300533815|gb|EFK54874.1| DNA-binding protein [Corynebacterium genitalium ATCC 33030]
          Length = 135

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 31/76 (40%), Gaps = 6/76 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR------VGASRLQHISEVLES 68
           +  R++  R + G+SQ++L +  G++  QV   E+  N          S +  ++  L  
Sbjct: 29  LSARLKSVRTMRGVSQQRLADLSGLSRSQVSNLERNHNNSRRSNDPNLSTIYRLAYALRV 88

Query: 69  PISFFFDVSPTVCSDI 84
           P       +     +I
Sbjct: 89  PPVLLLPGAGEEVGEI 104


>gi|258516973|ref|YP_003193195.1| helix-turn-helix domain-containing protein [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257780678|gb|ACV64572.1| helix-turn-helix domain protein [Desulfotomaculum acetoxidans DSM
          771]
          Length = 383

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 26/60 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R   G +Q ++ +  GI+    +  E G      S LQ+I+  +   +   F
Sbjct: 6  IGANLRRIREAKGWTQSQVADLAGISRVAYRNIENGNTTPKVSTLQNIASAVGVKLQDLF 65


>gi|229111169|ref|ZP_04240726.1| Immunity repressor protein [Bacillus cereus Rock1-15]
 gi|228672333|gb|EEL27620.1| Immunity repressor protein [Bacillus cereus Rock1-15]
          Length = 142

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 31/78 (39%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NV   I+  R    M+Q+ L E   I+   +   E G        L+ I+  L+  I+ 
Sbjct: 1  MNVSINIKKYRKEKKMTQKALAEKANISRSYLGDLESGRYNPSLDTLRTIASALDIDINL 60

Query: 73 FFDVSPTVCSDISSEENN 90
                   +D  + +++
Sbjct: 61 LLTEDGATQTDNLTSKDD 78


>gi|255038048|ref|YP_003088669.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
          18053]
 gi|254950804|gb|ACT95504.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
          18053]
          Length = 79

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 30/58 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+ IR  R    ++QE+LGE +G+   Q+ K E G N      +  +   L++ I F
Sbjct: 10 LGRAIRTVRKERNLTQEQLGELVGVQKAQISKLENGNNSATIDTILKVFSALKAEIQF 67


>gi|212696759|ref|ZP_03304887.1| hypothetical protein ANHYDRO_01301 [Anaerococcus hydrogenalis DSM
          7454]
 gi|212676258|gb|EEB35865.1| hypothetical protein ANHYDRO_01301 [Anaerococcus hydrogenalis DSM
          7454]
          Length = 82

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 35/69 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++GK++R  R    +++++L E   I+ + +++ EK  N    S L  + E L+  +   
Sbjct: 6  HIGKKLRKLREEKNITRKELAEKTYISEETIRRIEKEENDPRISTLYSLCENLDVDLQLL 65

Query: 74 FDVSPTVCS 82
          F+ +   C 
Sbjct: 66 FNENKKNCD 74


>gi|169334596|ref|ZP_02861789.1| hypothetical protein ANASTE_00999 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169259313|gb|EDS73279.1| hypothetical protein ANASTE_00999 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 117

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 29/55 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G++++ +R   G++QE L E + ++   +   E G  +V    + +I+ +L   
Sbjct: 8  LGEKLKQQRKKQGITQETLAEYVDLSVSHLSHIENGSTKVSLQTIVNIANILNIS 62


>gi|166219126|gb|ABY85413.1| transcriptional regulator [Streptococcus suis]
          Length = 195

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 24/135 (17%), Positives = 51/135 (37%), Gaps = 17/135 (12%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R++ G+++  L   L +T Q + ++E GV          ++   +  + +F  
Sbjct: 4   GSRLEELRLLNGLTRADLARELEVTEQAIWQFETGVTLPKMKNKIAMARFFQVEVDYFDA 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDG-------------LQLNRYFIQIDDVKVRQKIIEL 122
           V       +S       D  +  +              +     F+ I +    Q I +L
Sbjct: 64  VDKNGSFSLSRIAFRNADLEAKKNIHIQMVYLEKMNQMIDYLENFVSIPN----QIIYQL 119

Query: 123 VRSIVSSEKKYRTIE 137
           V SI    +++ ++E
Sbjct: 120 VDSIEQKLQQHESLE 134


>gi|160916079|ref|ZP_02078286.1| hypothetical protein EUBDOL_02106 [Eubacterium dolichum DSM 3991]
 gi|158431803|gb|EDP10092.1| hypothetical protein EUBDOL_02106 [Eubacterium dolichum DSM 3991]
          Length = 194

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 31/77 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +I+  R    +SQE+L   + ++ Q +  +E   +      L  +S +    +  
Sbjct: 1  MDIGLQIKKFREQQKISQEELALKIFVSRQTISNWETNKSCPDIKSLITLSNIFNVSLDN 60

Query: 73 FFDVSPTVCSDISSEEN 89
          F         +I  +  
Sbjct: 61 FIKEDIKEMREIVEKAT 77


>gi|254245401|ref|ZP_04938722.1| Transcriptional regulator, MerR family [Burkholderia cenocepacia
           PC184]
 gi|124870177|gb|EAY61893.1| Transcriptional regulator, MerR family [Burkholderia cenocepacia
           PC184]
          Length = 216

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/102 (17%), Positives = 41/102 (40%), Gaps = 6/102 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V +++G +IR  R  L ++ ++     GI+   + + E+G      + L  I++ L   +
Sbjct: 36  VAVSLGNKIRALRQRLKLTLDEAATTAGISKPFLSQVERGRATPSITSLVRIAKALGVTM 95

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
            +F D      S    +      F ++         F ++ +
Sbjct: 96  QYFIDTPTEARSVCRGDALQYFQFANS------ASSFARLTN 131


>gi|83858712|ref|ZP_00952234.1| transcriptional regulator, Cro/CI family protein [Oceanicaulis
          alexandrii HTCC2633]
 gi|83853535|gb|EAP91387.1| transcriptional regulator, Cro/CI family protein [Oceanicaulis
          alexandrii HTCC2633]
          Length = 67

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 27/59 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           RIR+ R     SQ  LGE +G++ Q +   E   +    S    I+E  E+ I   FD
Sbjct: 3  NRIRVLRAERRWSQADLGERVGVSRQAINAVETSKHDPSLSLAFKIAEAFEAKIEDVFD 61


>gi|317498279|ref|ZP_07956578.1| helix-turn-helix domain-containing protein [Lachnospiraceae
          bacterium 5_1_63FAA]
 gi|316894488|gb|EFV16671.1| helix-turn-helix domain-containing protein [Lachnospiraceae
          bacterium 5_1_63FAA]
          Length = 159

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 35/83 (42%), Gaps = 5/83 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-FD 75
          KRI+  R  L ++QEK G  +G+    V ++E G N    S L  I         +  F 
Sbjct: 3  KRIKKLRRELDLTQEKFGARIGVKGNTVAQWESGRNEPPDSSLAFICREFGVMDEWLRFG 62

Query: 76 VSPTVCSDISSEENNVMDFISTP 98
            P    + ++E    +D ++  
Sbjct: 63 TGPMYAPEPTTE----LDALAKK 81


>gi|312901966|ref|ZP_07761228.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
 gi|311290902|gb|EFQ69458.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
          Length = 69

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 28/59 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          K IR  R    ++Q+++ E L ++     +YE G     AS L  +++  +  + +  D
Sbjct: 4  KNIRSIREDNDVTQQQMAELLNVSQNTYSQYETGKIEWTASTLIKVADYFDVSVDYLLD 62


>gi|251779221|ref|ZP_04822141.1| DNA-binding protein [Clostridium botulinum E1 str. 'BoNT E
          Beluga']
 gi|243083536|gb|EES49426.1| DNA-binding protein [Clostridium botulinum E1 str. 'BoNT E
          Beluga']
          Length = 94

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 26/58 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+R+   R   G+ QE +G+ L I+      YE G      S L  +++     + +
Sbjct: 2  LGERLAELRKDKGLKQEDIGKILRISRSTYGNYESGYAEPSVSILIDLAKFYNVSLDY 59


>gi|254454592|ref|ZP_05068029.1| DNA-binding protein [Octadecabacter antarcticus 238]
 gi|198268998|gb|EDY93268.1| DNA-binding protein [Octadecabacter antarcticus 238]
          Length = 189

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 35/68 (51%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           P+P    +G  IR  R   G++   LG+ LG +   + + E+ ++    + L+HI+ VL
Sbjct: 4  APSPEIHTLGADIRALRKARGLTLSGLGKTLGRSVGWLSQVERDMSEPSITDLRHIASVL 63

Query: 67 ESPISFFF 74
          +  +S  F
Sbjct: 64 DVSVSSLF 71


>gi|169631196|ref|YP_001704845.1| transcriptional regulatory protein [Mycobacterium abscessus ATCC
          19977]
 gi|169243163|emb|CAM64191.1| Probable transcriptional regulatory protein [Mycobacterium
          abscessus]
          Length = 476

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 28/60 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5  YVGGRLRQLRSERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64


>gi|217958856|ref|YP_002337404.1| transcriptional regulator SinR [Bacillus cereus AH187]
 gi|222095015|ref|YP_002529075.1| transcriptional regulator sinr [Bacillus cereus Q1]
 gi|229138068|ref|ZP_04266666.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          BDRD-ST26]
 gi|229172021|ref|ZP_04299586.1| HTH-type transcriptional regulator sinR [Bacillus cereus MM3]
 gi|217067870|gb|ACJ82120.1| transcriptional regulator SinR [Bacillus cereus AH187]
 gi|221239073|gb|ACM11783.1| transcriptional regulator SinR [Bacillus cereus Q1]
 gi|228611364|gb|EEK68621.1| HTH-type transcriptional regulator sinR [Bacillus cereus MM3]
 gi|228645413|gb|EEL01647.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          BDRD-ST26]
 gi|324325398|gb|ADY20658.1| transcriptional regulator SinR [Bacillus thuringiensis serovar
          finitimus YBT-020]
          Length = 107

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE-ENNVMDFIST 97
               T  + + SE    V D +S+
Sbjct: 62 LHDETTKENHLDSEWTQLVKDAMSS 86


>gi|220923328|ref|YP_002498630.1| XRE family transcriptional regulator [Methylobacterium nodulans
          ORS 2060]
 gi|219947935|gb|ACL58327.1| transcriptional regulator, XRE family [Methylobacterium nodulans
          ORS 2060]
          Length = 183

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 33/80 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R+  G+SQ  L +  G+    +   E G        L+ I + +   ++ FF
Sbjct: 6  VGARLRYVRLRHGLSQRALAKKAGVVNSTISLIESGKANPSVGALKRILDAVPIGLAEFF 65

Query: 75 DVSPTVCSDISSEENNVMDF 94
           ++P            +++ 
Sbjct: 66 SLTPDRSEKAFYASEELVEI 85


>gi|124003437|ref|ZP_01688286.1| probable transcriptional regulator, putative [Microscilla marina
          ATCC 23134]
 gi|123991006|gb|EAY30458.1| probable transcriptional regulator, putative [Microscilla marina
          ATCC 23134]
          Length = 93

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 29/72 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++I+  R    + QE L + +G+T  Q   YE     +  S    I    E  +  FF +
Sbjct: 9  EKIKQIRKERKIKQEALAKAIGVTTGQYSHYETLKTEISLSNFLKILAYFEMSVKDFFML 68

Query: 77 SPTVCSDISSEE 88
               S  + +E
Sbjct: 69 DSATISKENLDE 80


>gi|320106693|ref|YP_004182283.1| XRE family transcriptional regulator [Terriglobus saanensis
          SP1PR4]
 gi|319925214|gb|ADV82289.1| transcriptional regulator, XRE family [Terriglobus saanensis
          SP1PR4]
          Length = 71

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            IR  R   G++Q++L + +G+T Q V   E             I+EVL+ P+   F
Sbjct: 7  NNIRNLRAEAGLTQQELADLIGVTRQTVNAIEGDKYSPTLEAAFRIAEVLKVPLESVF 64


>gi|256423770|ref|YP_003124423.1| XRE family transcriptional regulator [Chitinophaga pinensis DSM
           2588]
 gi|256038678|gb|ACU62222.1| transcriptional regulator, XRE family [Chitinophaga pinensis DSM
           2588]
          Length = 114

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/107 (18%), Positives = 44/107 (41%), Gaps = 5/107 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I  GKR+   R    +SQ+++ + +G+    + +YE+   +       +I+  LE  + +
Sbjct: 4   ITFGKRLTEVRKDKKLSQDEIAKKVGVHGAVIGRYERDEVKPSIEMAANIAAALEVSLDY 63

Query: 73  FFDVSPTVCSDISSEENNVMDFIST---PDGLQLNRYFIQIDDVKVR 116
               +  +      +    +  +S     D  +L   F++  D K R
Sbjct: 64  LVGNTDLLLDQTILDRIMDIQKLSDQDKADAFKLLDMFLR--DAKAR 108


>gi|255531474|ref|YP_003091846.1| helix-turn-helix domain-containing protein [Pedobacter heparinus
           DSM 2366]
 gi|255344458|gb|ACU03784.1| helix-turn-helix domain protein [Pedobacter heparinus DSM 2366]
          Length = 109

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 26/113 (23%), Positives = 49/113 (43%), Gaps = 11/113 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK IR  R   G SQ ++ + L I+     K E G+  +  SRL  I+ + E       
Sbjct: 4   IGKNIRQLRQKNGWSQGEVAKRLNISIPAFSKIETGITDINISRLAQIANLFEVSTMDII 63

Query: 75  DVSPTVCSDISSEE-NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                    ++ EE N + + ++  +           + +K+++K+I+L   I
Sbjct: 64  SKEGENPQSLNFEEINGLKEKLAQREE----------EIIKLQKKVIDLYEEI 106


>gi|146319181|ref|YP_001198893.1| transcriptional regulator [Streptococcus suis 05ZYH33]
 gi|146321385|ref|YP_001201096.1| transcriptional regulator [Streptococcus suis 98HAH33]
 gi|253752226|ref|YP_003025367.1| DNA-binding phage protein [Streptococcus suis SC84]
 gi|253754052|ref|YP_003027193.1| DNA-binding phage protein [Streptococcus suis P1/7]
 gi|253755986|ref|YP_003029126.1| DNA-binding phage protein [Streptococcus suis BM407]
 gi|145689987|gb|ABP90493.1| Predicted transcriptional regulator [Streptococcus suis 05ZYH33]
 gi|145692191|gb|ABP92696.1| Predicted transcriptional regulator [Streptococcus suis 98HAH33]
 gi|251816515|emb|CAZ52151.1| putative DNA-binding phage protein [Streptococcus suis SC84]
 gi|251818450|emb|CAZ56279.1| putative DNA-binding phage protein [Streptococcus suis BM407]
 gi|251820298|emb|CAR46798.1| putative DNA-binding phage protein [Streptococcus suis P1/7]
 gi|292558817|gb|ADE31818.1| prophage Sa05, DNA-binding protein [Streptococcus suis GZ1]
 gi|319758615|gb|ADV70557.1| transcriptional regulator [Streptococcus suis JS14]
          Length = 173

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 10/68 (14%), Positives = 31/68 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++  R    ++QE+L + +G+  + +QK+E G + +     + +++     + +    
Sbjct: 2  NKLKTLRKENNLTQEELAKKIGVNLRTLQKWENGESSIRTKNAEKLAKHFGVSVGYLLGY 61

Query: 77 SPTVCSDI 84
             V  + 
Sbjct: 62 EDKVKKEF 69


>gi|84500659|ref|ZP_00998908.1| DNA-binding protein, putative [Oceanicola batsensis HTCC2597]
 gi|84391612|gb|EAQ03944.1| DNA-binding protein, putative [Oceanicola batsensis HTCC2597]
          Length = 214

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 39/92 (42%), Gaps = 2/92 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R    M+  +L    G++   + K E GV     + +  ++  L+ P+
Sbjct: 26  LEVAIGREVRSLRHRQRMTGAELAAQTGLSVGMLSKIENGVISPSLTTISALAHALKVPL 85

Query: 71  SFFFDV--SPTVCSDISSEENNVMDFISTPDG 100
              F     P  C  + + +   +D   T  G
Sbjct: 86  VQLFSGYEEPRGCMHVKAGQGVEIDRAGTRAG 117


>gi|294085034|ref|YP_003551794.1| helix-turn-helix domain-containing protein [Candidatus
           Puniceispirillum marinum IMCC1322]
 gi|292664609|gb|ADE39710.1| helix-turn-helix domain protein [Candidatus Puniceispirillum
           marinum IMCC1322]
          Length = 131

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 32/87 (36%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  +G RI   R  +G+S   L   +G+    +  +E   +    ++L  ++ +L    
Sbjct: 16  IDSTLGGRIFKCREQVGLSLNMLAHLVGVNPSTLASWENDSSEPRVNKLVSMAGILGVSP 75

Query: 71  SFFFDVSPTVCSDISSEENNVMDFIST 97
           ++F        S            IS 
Sbjct: 76  TYFIAEEGHSGSATKPARGRTGKLISN 102


>gi|269468586|gb|EEZ80235.1| hypothetical protein Sup05_0706 [uncultured SUP05 cluster
          bacterium]
          Length = 131

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 31/64 (48%), Gaps = 3/64 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV---NRVGASRLQHISEVLESP 69
           ++  RI+  R + G+SQ++L + +G++   + +YE      +      L  +++VL   
Sbjct: 2  KSIAIRIKQSRELKGLSQKELADKIGVSSSAISQYESTSYFHSEPSVKNLIKLTKVLNVS 61

Query: 70 ISFF 73
            + 
Sbjct: 62 FEWL 65


>gi|238925959|ref|YP_002939477.1| hypothetical protein EUBREC_3617 [Eubacterium rectale ATCC 33656]
 gi|238877636|gb|ACR77343.1| Hypothetical protein EUBREC_3617 [Eubacterium rectale ATCC 33656]
          Length = 183

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/87 (22%), Positives = 41/87 (47%), Gaps = 3/87 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQ-VQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++  R    M+Q++L E +G+T Q  + +YEKGV       +  +++ L+      +D 
Sbjct: 6   KLKKIRTFRKMTQKELSEKIGLTDQHRIVQYEKGVRVPKKDLVDKMAKALDVNPYTLYDT 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQL 103
           +    S++      + +F   P  L L
Sbjct: 66  AGRDASEMMELLFWLDEF--NPSALHL 90


>gi|237733314|ref|ZP_04563795.1| predicted protein [Mollicutes bacterium D7]
 gi|229383695|gb|EEO33786.1| predicted protein [Coprobacillus sp. D7]
          Length = 297

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 33/78 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++   +R  R   G SQE+L E L ++ Q V K+E          L  +S++ E  I
Sbjct: 5  IKMSLSDNLRALRKQKGYSQEQLAERLNVSRQAVSKWESDNGYPEMESLIILSDLFECTI 64

Query: 71 SFFFDVSPTVCSDISSEE 88
                  T  +  + + 
Sbjct: 65 DDLLKNDLTQHNPTAKQA 82


>gi|227893879|ref|ZP_04011684.1| transcriptional regulator [Lactobacillus ultunensis DSM 16047]
 gi|227864368|gb|EEJ71789.1| transcriptional regulator [Lactobacillus ultunensis DSM 16047]
          Length = 65

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R    +SQ  L + +G+  Q +   E            +++  L + ++  F
Sbjct: 2  NRVKKYRKQKNLSQMALAKKIGVARQTINLIENDKYNPSLELCLNLAHALGTDLNSLF 59


>gi|126727106|ref|ZP_01742943.1| transcriptional regulator, putative [Rhodobacterales bacterium
          HTCC2150]
 gi|126703534|gb|EBA02630.1| transcriptional regulator, putative [Rhodobacterales bacterium
          HTCC2150]
          Length = 424

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 24/92 (26%), Positives = 33/92 (35%), Gaps = 11/92 (11%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RIR RR+ LG+ Q  L   +GI+   +   E    R+G   L  ++  L         
Sbjct: 8  GSRIRERRIDLGLRQGDLALKVGISPAYLNLIEHNKRRIGGKLLVSLAATLAVEPIALTQ 67

Query: 76 VSPTV-----------CSDISSEENNVMDFIS 96
                             I  EE NV  F+S
Sbjct: 68 GGAAAVVAGLKNAASNAPQIDVEEANVDQFLS 99


>gi|67078349|ref|YP_245967.1| transcriptional regulator [Bacillus cereus E33L]
 gi|66970655|gb|AAY60629.1| transcriptional regulator [Bacillus cereus E33L]
          Length = 87

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R+  GM+Q +L +   ++ Q +   EKG           I + L   ++  F
Sbjct: 27 KVKRIRLEKGMTQGELAKLTNVSRQTIGLIEKGEYNPSLKLCIEICKSLGVTLNDLF 83


>gi|73670284|ref|YP_306299.1| MerR family transcriptional regulator [Methanosarcina barkeri str.
           Fusaro]
 gi|72397446|gb|AAZ71719.1| transcriptional regulator, MerR family [Methanosarcina barkeri str.
           Fusaro]
          Length = 192

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 30/125 (24%), Positives = 49/125 (39%), Gaps = 18/125 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG +IR  R    M+ E+L E    + + +Q+ E G      + L  I+  L   +  F 
Sbjct: 7   VGSKIRQLREAREMTIEELAEASQSSEELIQQLENGALVPSLTPLLKIARALGVRLGTFL 66

Query: 75  DVSPTVCSDI--SSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
           D  P     I  +   +NV+ F    +              K R+  +E   S+  S+K 
Sbjct: 67  DDMPQSGPVIVRAGLSDNVVRFSGKTE--------------KPRKSALEFY-SLA-SDKA 110

Query: 133 YRTIE 137
            R +E
Sbjct: 111 DRNME 115


>gi|329964525|ref|ZP_08301579.1| DNA-binding helix-turn-helix protein [Bacteroides fluxus YIT
          12057]
 gi|328524925|gb|EGF51977.1| DNA-binding helix-turn-helix protein [Bacteroides fluxus YIT
          12057]
          Length = 127

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 35/68 (51%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   +   VG+R++L RM   ++QE++GE L ++     K E G   +  +RL  I+ +L
Sbjct: 1  METDLKKIVGQRLQLLRMEKNLTQEQMGEQLNLSTSAYCKIEYGETDLTLTRLNKIANIL 60

Query: 67 ESPISFFF 74
              +  F
Sbjct: 61 NMSAAELF 68


>gi|325833460|ref|ZP_08165909.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|325485384|gb|EGC87853.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 71

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +    NVG+R+R  R    ++QE+L    G+    + K E G        ++ ++  L
Sbjct: 1  MTHATRKNVGQRVRALREESNLTQEQLALMTGVGRSYLAKVEAGNRNATIDFMEKVALGL 60

Query: 67 ESPISFFFDV 76
             +   F+ 
Sbjct: 61 GVTLGQLFEG 70


>gi|317403434|gb|EFV83946.1| transcriptional regulator [Achromobacter xylosoxidans C54]
          Length = 225

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 11/76 (14%), Positives = 31/76 (40%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD+ +G+++R  R   G S   + +  G++   + + E+G++      L  ++      +
Sbjct: 29  VDMWLGQQLRQLRKQHGRSLADVAQACGMSLGLLSQIERGLSSASVKTLHQLAREFGVSV 88

Query: 71  SFFFDVSPTVCSDISS 86
           +     +     +   
Sbjct: 89  NTLLRNAEHTEGEDGG 104


>gi|258626503|ref|ZP_05721343.1| transcriptional regulator, HTH_3 family [Vibrio mimicus VM603]
 gi|258581214|gb|EEW06123.1| transcriptional regulator, HTH_3 family [Vibrio mimicus VM603]
          Length = 180

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 35/78 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  +++  R   G+S +   +  G++   + + E+G +    + L  I+  LE+  S F
Sbjct: 9  QIANQLKTLRKSKGLSLDATAQLTGVSKAMLGQIERGESSPTIATLWKIASGLEASFSAF 68

Query: 74 FDVSPTVCSDISSEENNV 91
          F   P + S   S  ++ 
Sbjct: 69 FANDPQLLSSERSFPDDP 86


>gi|226526961|ref|YP_002790980.1| transcriptional regulator [Lactobacillus brevis]
 gi|226442553|dbj|BAH56423.1| transcriptional regulator [Lactobacillus brevis]
          Length = 65

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 26/59 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           +IR  R    +SQ +L E +G+  Q V   E            +I+ VL++ +   F+
Sbjct: 3  NKIREYRKKKNLSQAELAEKVGLARQTVSLLENKSYNPSLKVCLNIANVLDTTLDSLFN 61


>gi|226225799|ref|YP_002759905.1| Xre family DNA binding protein [Gemmatimonas aurantiaca T-27]
 gi|226088990|dbj|BAH37435.1| Xre family DNA binding protein [Gemmatimonas aurantiaca T-27]
          Length = 145

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 25/128 (19%), Positives = 45/128 (35%), Gaps = 10/128 (7%)

Query: 11  VDINV--GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +D+ V  GK +R  R   G SQE   + +G+    +   E+G   +    +  I+  L  
Sbjct: 1   MDLFVRFGKTVRRLRTNAGFSQETFADLVGMHRNYIGTVERGETNISIENIHRIARGLRI 60

Query: 69  PISFFFDVSPTVCSDISSEENNVMDF-----ISTPDGLQLNR-YFIQIDDVKVRQKIIEL 122
            I+  F        D     +              +   L R    ++ +   RQ I E 
Sbjct: 61  TIAGLFQEMEGSAEDTPRSADTAGSTRTPGDQHERERTDLLRPALDRVAEA--RQAIEEA 118

Query: 123 VRSIVSSE 130
            + ++  E
Sbjct: 119 AKHLLQLE 126


>gi|194430884|ref|ZP_03063221.1| repressor protein C2 [Escherichia coli B171]
 gi|194411072|gb|EDX27557.1| repressor protein C2 [Escherichia coli B171]
 gi|324014358|gb|EGB83577.1| helix-turn-helix protein [Escherichia coli MS 60-1]
          Length = 207

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 32/64 (50%), Gaps = 1/64 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  R + RR+ LGM+Q ++    G++ Q ++  E G  R     L  +++ L+    +
Sbjct: 1  MSLAARFKARRLELGMTQVEVANSAGVSQQSIESIESGRTR-KPRNLLDLAKALKCSPDW 59

Query: 73 FFDV 76
            + 
Sbjct: 60 LLNG 63


>gi|168209872|ref|ZP_02635497.1| transcriptional regulator [Clostridium perfringens B str. ATCC
          3626]
 gi|170712005|gb|EDT24187.1| transcriptional regulator [Clostridium perfringens B str. ATCC
          3626]
          Length = 141

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 25/55 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +++  R    +SQE+L + L I+ Q + K+E G        L  + ++    + 
Sbjct: 5  NKLKELRKEKNISQEQLAKELNISRQAISKWESGKAYPDIDNLILLRKIFGVSLD 59


>gi|119899299|ref|YP_934512.1| putative DNA binding helix-turn helix protein [Azoarcus sp. BH72]
 gi|119671712|emb|CAL95625.1| putative DNA binding helix-turn helix protein [Azoarcus sp. BH72]
          Length = 200

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 27/60 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  IR  R+  G++  ++ E  GI+   + K E G    G   L  I+  L   +S  F
Sbjct: 16 VGAVIRELRLKEGLTIAQVAELAGISRGMLSKIETGSTMAGMDTLARIARSLGVAMSALF 75


>gi|332358032|gb|EGJ35865.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1056]
          Length = 62

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R    MSQ +L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 2  NRVKEFRKEKKMSQLELAKSIGVSRQTINMIENNKYNPTLELCINLARALDTDLNALF 59


>gi|329890393|ref|ZP_08268736.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
 gi|328845694|gb|EGF95258.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC 11568]
          Length = 476

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/124 (18%), Positives = 46/124 (37%), Gaps = 21/124 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G R++  R  L +SQ  +   LG++   +   E+    V A  L  ++E  +     
Sbjct: 9   LFLGGRLKRLRRELDLSQTAMAADLGVSPSYLNHIERNQRPVSAQLLLRLAETYDV---- 64

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP----------DGLQLNRYFIQIDDVKVRQKIIEL 122
             D+     S   + E  + +  + P          + +QL       D   V   ++ L
Sbjct: 65  --DLRNLGQSGGPASEAELAEVFADPLFQGLAVPRHEIMQLAE-----DQPAVADAVLRL 117

Query: 123 VRSI 126
            R+ 
Sbjct: 118 YRAF 121


>gi|311894296|dbj|BAJ26704.1| putative transcriptional regulator [Kitasatospora setae KM-6054]
          Length = 208

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 27/72 (37%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R+  G+S  +L    G+    +   E G        L  ++  L  P+S   
Sbjct: 15 VGLRLRELRVARGLSLSELARRSGVGKATLSGLESGTRNPTLETLYALTTALGLPLSAAL 74

Query: 75 DVSPTVCSDISS 86
                  + ++
Sbjct: 75 QAPEQAVREAAT 86


>gi|258423246|ref|ZP_05686138.1| conserved hypothetical protein [Staphylococcus aureus A9635]
 gi|257846575|gb|EEV70597.1| conserved hypothetical protein [Staphylococcus aureus A9635]
          Length = 189

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 30/72 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ K+I+  R   G SQE L E L ++ Q +  +E   +      L  I E+    +  
Sbjct: 1  MNLSKQIKKYRERDGYSQEYLAEKLYVSRQSISNWENDKSLPDIHNLLMICELFNVTLDD 60

Query: 73 FFDVSPTVCSDI 84
              +     DI
Sbjct: 61 LVKGTIPFVPDI 72


>gi|206967661|ref|ZP_03228617.1| DNA-binding protein [Bacillus cereus AH1134]
 gi|218236090|ref|YP_002365489.1| DNA-binding protein [Bacillus cereus B4264]
 gi|228919545|ref|ZP_04082909.1| Transcriptional regulator [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|228951193|ref|ZP_04113308.1| Transcriptional regulator [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|228957113|ref|ZP_04118883.1| Transcriptional regulator [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|229042556|ref|ZP_04190299.1| Transcriptional regulator [Bacillus cereus AH676]
 gi|229068379|ref|ZP_04201682.1| Transcriptional regulator [Bacillus cereus F65185]
 gi|229078006|ref|ZP_04210615.1| Transcriptional regulator [Bacillus cereus Rock4-2]
 gi|229149032|ref|ZP_04277277.1| Transcriptional regulator [Bacillus cereus m1550]
 gi|229177222|ref|ZP_04304609.1| Transcriptional regulator [Bacillus cereus 172560W]
 gi|229188901|ref|ZP_04315934.1| Transcriptional regulator [Bacillus cereus ATCC 10876]
 gi|206736581|gb|EDZ53728.1| DNA-binding protein [Bacillus cereus AH1134]
 gi|218164047|gb|ACK64039.1| DNA-binding protein [Bacillus cereus B4264]
 gi|228594606|gb|EEK52392.1| Transcriptional regulator [Bacillus cereus ATCC 10876]
 gi|228606228|gb|EEK63662.1| Transcriptional regulator [Bacillus cereus 172560W]
 gi|228634572|gb|EEK91156.1| Transcriptional regulator [Bacillus cereus m1550]
 gi|228705344|gb|EEL57721.1| Transcriptional regulator [Bacillus cereus Rock4-2]
 gi|228714840|gb|EEL66712.1| Transcriptional regulator [Bacillus cereus F65185]
 gi|228726775|gb|EEL77989.1| Transcriptional regulator [Bacillus cereus AH676]
 gi|228802560|gb|EEM49407.1| Transcriptional regulator [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|228808490|gb|EEM54994.1| Transcriptional regulator [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|228840188|gb|EEM85465.1| Transcriptional regulator [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
          Length = 67

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+ L ++Q++L E +G+T Q +   EKG           I   ++  ++  F
Sbjct: 4  SKIKVARVQLDLTQQQLAEKVGVTRQTISLIEKGKYNPSLDLCLKICYAVDKTLNDLF 61


>gi|146319128|ref|YP_001198840.1| hypothetical protein SSU05_1474 [Streptococcus suis 05ZYH33]
 gi|146321334|ref|YP_001201045.1| hypothetical protein SSU98_1487 [Streptococcus suis 98HAH33]
 gi|145689934|gb|ABP90440.1| hypothetical protein SSU05_1474 [Streptococcus suis 05ZYH33]
 gi|145692140|gb|ABP92645.1| hypothetical protein SSU98_1487 [Streptococcus suis 98HAH33]
 gi|292558766|gb|ADE31767.1| hypothetical protein SSGZ1_1311 [Streptococcus suis GZ1]
          Length = 178

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N G++I+  R   G++QE+    L +T Q V  +E   N      L  +S V    + 
Sbjct: 21 MNFGQQIKDLRKKKGLTQEQFALKLNVTRQAVSNWENDKNLPDLELLILMSSVFSISLD 79


>gi|47526538|ref|YP_017887.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|47569194|ref|ZP_00239881.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
 gi|65318632|ref|ZP_00391591.1| COG1476: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|222094987|ref|YP_002529047.1| transcriptional regulator [Bacillus cereus Q1]
 gi|47501686|gb|AAT30362.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|47554166|gb|EAL12530.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
 gi|221239045|gb|ACM11755.1| probable transcriptional regulator [Bacillus cereus Q1]
          Length = 65

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 3  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIEHVF 56


>gi|332798978|ref|YP_004460477.1| helix-turn-helix domain-containing protein [Tepidanaerobacter sp.
          Re1]
 gi|332696713|gb|AEE91170.1| helix-turn-helix domain protein [Tepidanaerobacter sp. Re1]
          Length = 85

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+ + R   G++Q  L   LG++   +  YE G    G    + I++     I + F
Sbjct: 6  NRLAMLRNSKGLTQRDLANELGVSPSTIAMYEIGERTPGLKMAKIIADFFGVGIEYIF 63


>gi|297560394|ref|YP_003679368.1| XRE family transcriptional regulator [Nocardiopsis dassonvillei
          subsp. dassonvillei DSM 43111]
 gi|296844842|gb|ADH66862.1| transcriptional regulator, XRE family [Nocardiopsis dassonvillei
          subsp. dassonvillei DSM 43111]
          Length = 490

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 26/68 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+R+R  R   G++   LGE +G    Q+   E G      S L  ++  L   +  
Sbjct: 19 VTFGQRLRHLRRARGLTLSDLGERVGRAPSQLSLLENGKREPKLSLLTSLASALGVSVEE 78

Query: 73 FFDVSPTV 80
               P  
Sbjct: 79 LLSKQPPS 86


>gi|296110846|ref|YP_003621227.1| hypothetical protein LKI_03580 [Leuconostoc kimchii IMSNU 11154]
 gi|295832377|gb|ADG40258.1| hypothetical protein LKI_03580 [Leuconostoc kimchii IMSNU 11154]
          Length = 296

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 30/60 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++ L R    +SQE L + L ++ Q V K+E G      ++L  ++E+L   ++F    
Sbjct: 7  SQLSLLRQKKNLSQEALAQKLYVSRQSVSKWEHGDAEPDIAKLISLAEILAVDLNFLLSG 66


>gi|227329669|ref|ZP_03833693.1| putative transcriptional regulator [Pectobacterium carotovorum
          subsp. carotovorum WPP14]
          Length = 98

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 39/76 (51%), Gaps = 4/76 (5%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVL 66
          + I +GKR+++ R+  G++Q +LG   G+       ++  YE  V+      +   + VL
Sbjct: 1  MSIMIGKRLKIARVNAGLTQTELGVRAGLDEESASSRISSYENEVHAPDFGLVCKFAAVL 60

Query: 67 ESPISFFFDVSPTVCS 82
          + P ++F+ V   + +
Sbjct: 61 DIPEAYFYAVDDDLAT 76


>gi|187777166|ref|ZP_02993639.1| hypothetical protein CLOSPO_00711 [Clostridium sporogenes ATCC
          15579]
 gi|187774094|gb|EDU37896.1| hypothetical protein CLOSPO_00711 [Clostridium sporogenes ATCC
          15579]
          Length = 393

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/87 (26%), Positives = 37/87 (42%), Gaps = 7/87 (8%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRL 59
          M+ NK   N      G+R++  R+  G++  +L E L +  Q V  YE    N      +
Sbjct: 1  MMRNKTAFN------GERLKAARIYRGLTVAELAEKLELQRQTVSMYENNKLNNPELVTI 54

Query: 60 QHISEVLESPISFFFDVSPTVCSDISS 86
            +S VL  P  FF +       + S+
Sbjct: 55 AKMSTVLGFPKKFFLENDKIGIKNGST 81


>gi|146311635|ref|YP_001176709.1| XRE family transcriptional regulator [Enterobacter sp. 638]
 gi|145318511|gb|ABP60658.1| transcriptional regulator, XRE family [Enterobacter sp. 638]
          Length = 175

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 27/63 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +  ++   ++  R   G S  KL +  G++   + + E+  +    S L  I+  L  P 
Sbjct: 3  ITQHLATTLKTERQARGWSLSKLADETGVSKAMLGQIERNESSPTVSTLWKIATGLNVPF 62

Query: 71 SFF 73
          S F
Sbjct: 63 SAF 65


>gi|90413760|ref|ZP_01221748.1| Hypothetical transcriptional regulator [Photobacterium profundum
          3TCK]
 gi|90325229|gb|EAS41726.1| Hypothetical transcriptional regulator [Photobacterium profundum
          3TCK]
          Length = 126

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 36/80 (45%), Gaps = 1/80 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-FDV 76
          +IR  R    ++Q  + + LG+  Q     E G      S L  I+++   P+ +F ++ 
Sbjct: 16 KIREARERKDITQVAMAKALGLARQTYLDLESGKTEPRISTLVSIADITGRPLIWFIYED 75

Query: 77 SPTVCSDISSEENNVMDFIS 96
             + S+  ++   ++D  +
Sbjct: 76 EGPISSEDKNDIQVLLDLFA 95


>gi|332142476|ref|YP_004428214.1| transcriptional regulator, Cro/CI family protein [Alteromonas
           macleodii str. 'Deep ecotype']
 gi|327552498|gb|AEA99216.1| transcriptional regulator, Cro/CI family protein [Alteromonas
           macleodii str. 'Deep ecotype']
          Length = 175

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/122 (14%), Positives = 42/122 (34%), Gaps = 8/122 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ ++  R   G+S  +L    GI    + + E+G        +  +++ L+ P    F
Sbjct: 9   LGRHLKKLRQDKGVSLSQLAAGAGIAKSNLSRLEQGNGNPTLDTIWRLAKQLDVP----F 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
                  S    E    +  I    G+     +        R++      +  +  ++  
Sbjct: 65  GQLVQPLSTSVGENGVEVRLIEQGQGVPNVDAYWMSVAPNTRRE----AEAHATETQETI 120

Query: 135 TI 136
           T+
Sbjct: 121 TV 122


>gi|312126461|ref|YP_003991335.1| XRE family transcriptional regulator [Caldicellulosiruptor
           hydrothermalis 108]
 gi|311776480|gb|ADQ05966.1| transcriptional regulator, XRE family [Caldicellulosiruptor
           hydrothermalis 108]
          Length = 124

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 24/91 (26%), Positives = 39/91 (42%), Gaps = 12/91 (13%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VDI V  +I   R+   +SQ++L + LGI+   V K E G        L  I++ L    
Sbjct: 33  VDIAV--KIIQYRIKNNLSQKELAQKLGISQAMVSKLESGDYNPTVKMLYEIAKKLG--- 87

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
              F++          EEN    ++ + + L
Sbjct: 88  ---FELEIEFREKTECEEN----WLESSEEL 111


>gi|300173806|ref|YP_003772972.1| helix-turn-helix domain-containing protein [Leuconostoc
          gasicomitatum LMG 18811]
 gi|299888185|emb|CBL92153.1| helix-turn-helix domain protein [Leuconostoc gasicomitatum LMG
          18811]
          Length = 176

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 33/62 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R+    +Q+ + + LG+T Q VQ+YE  ++    +  + +++  + P+S+   +
Sbjct: 7  SRLKSERLKKKKTQKDIADFLGMTKQAVQRYESSLSIPKLATWEKLADYFDVPVSYLMGI 66

Query: 77 SP 78
            
Sbjct: 67 DE 68


>gi|320012637|gb|ADW07487.1| helix-turn-helix domain protein [Streptomyces flavogriseus ATCC
          33331]
          Length = 206

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 34/79 (43%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M    +  + +D  V KRIR  R+  G S E+L     I    + + E G  R+   +L 
Sbjct: 1  MSPVTQNDDELDSLVRKRIRALRVAQGWSLEELAGRAHIGQSTLSRIENGRRRLALDQLV 60

Query: 61 HISEVLESPISFFFDVSPT 79
           ++  L++ +    + +  
Sbjct: 61 TLARALDTSLDQLVETASD 79


>gi|302540026|ref|ZP_07292368.1| xre family toxin-antitoxin system, antitoxin component
          [Streptomyces hygroscopicus ATCC 53653]
 gi|302457644|gb|EFL20737.1| xre family toxin-antitoxin system, antitoxin component
          [Streptomyces himastatinicus ATCC 53653]
          Length = 207

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 31/80 (38%), Gaps = 4/80 (5%)

Query: 9  NPVD----INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          NP D      +  R R  R   G+S  ++ + +GI+   + K E        + L  ++ 
Sbjct: 13 NPDDKALERVIAVRAREYRQAAGLSVGEMAQRVGISKAMLSKIENAQTACSLTTLSRLAR 72

Query: 65 VLESPISFFFDVSPTVCSDI 84
           L+ P++  F         +
Sbjct: 73 GLDVPVTALFRGMDDEREAV 92


>gi|255007620|ref|ZP_05279746.1| putative DNA-binding protein [Bacteroides fragilis 3_1_12]
          Length = 93

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G +IR RR +LG++Q+ L +   I+   + K E G   +   +L  I EVL   +S
Sbjct: 25 KQIGIQIRQRRKMLGINQQTLADLAQISINTITKIENGEININFQKLYAILEVLGLELS 83


>gi|9858108|gb|AAG00996.1|AF287346_1 regulator SinR [Bacillus thuringiensis]
          Length = 107

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
               T  +++ SE
Sbjct: 62 LHDDTTKETNLDSE 75


>gi|332202990|gb|EGJ17058.1| helix-turn-helix family protein [Streptococcus pneumoniae GA47901]
          Length = 164

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 44/101 (43%), Gaps = 4/101 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
            RI+  R    ++Q +L     I ++ +Q++E G   + +   Q +++     I      
Sbjct: 2   NRIKQLRKENNLTQRELANETKIPYRTIQRWENGETDIKSDAAQVLADYFGVSIPHLLGY 61

Query: 75  -DVSPTVCSDI-SSEENNVMDFISTPDGLQLNRYFIQIDDV 113
            D+     SDI +   ++++ F+      +  + FI+ +D 
Sbjct: 62  SDLIADTDSDIKAMAYSHLLTFVDEKQIKEFEKEFIRANDN 102


>gi|323490301|ref|ZP_08095516.1| AnsR [Planococcus donghaensis MPA1U2]
 gi|323395971|gb|EGA88802.1| AnsR [Planococcus donghaensis MPA1U2]
          Length = 118

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 34/82 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            + KRI+  R   G+S E+L + +G     V  YE G  +V    L+ +++  E  +  
Sbjct: 2  KQLSKRIKDLREAKGLSTEELADAIGFAKSTVWAYESGKKQVSVVHLERLADYFEISVDS 61

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
            D      +      + + D+
Sbjct: 62 LLDRDERTINVDLQNTSFLNDY 83


>gi|312794333|ref|YP_004027256.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
           kristjanssonii 177R1B]
 gi|312181473|gb|ADQ41643.1| helix-turn-helix domain protein [Caldicellulosiruptor
           kristjanssonii 177R1B]
          Length = 145

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 25/144 (17%), Positives = 54/144 (37%), Gaps = 17/144 (11%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
             N +   +G +I+  R   G +  +LG   G+    + + E+G + +    L  I++ L
Sbjct: 3   KKNKIAKALGLKIKKLREEKGWTINQLGLYAGVNPTSIMRAERGESELSLGNLLRIAKAL 62

Query: 67  ESPISFFFD--------VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID--DVKVR 116
           +  ++   +            +  +   +  ++ + I   + L     F  I   D  V+
Sbjct: 63  KVDLNTLVEESMEQIVLGDEELVPNEKDKTPDIYEIIKKAENL----NFKGIPVTDPDVK 118

Query: 117 QKIIE---LVRSIVSSEKKYRTIE 137
           Q I+E       + + EK     E
Sbjct: 119 QAIVEAITFAIRLKAKEKTQEDNE 142


>gi|307292241|ref|ZP_07572105.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|306496747|gb|EFM66300.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
          Length = 418

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 3/62 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE---SP 69
           ++G+ IR+ R   G +Q  L E +GI+   + K EKG  R+ A +L  + + L+    P
Sbjct: 7  RDLGEAIRVSREERGWTQRYLAEKVGISRSLLSKVEKGTRRLSAEKLNLVLDSLQEEIVP 66

Query: 70 IS 71
          ++
Sbjct: 67 VN 68


>gi|253995592|ref|YP_003047656.1| XRE family transcriptional regulator [Methylotenera mobilis JLW8]
 gi|253982271|gb|ACT47129.1| transcriptional regulator, XRE family [Methylotenera mobilis
          JLW8]
          Length = 114

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 24/99 (24%), Positives = 49/99 (49%), Gaps = 3/99 (3%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +KK    +   +G+ I  RR+  G++Q+++ E LGI ++ V + E+GV      RL 
Sbjct: 2  MTKSKK---YLAEQIGQSIAKRRLAAGLTQDQVSEKLGIGYEAVSRMERGVTIPTVIRLA 58

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
           ++E+    I      S     D + +  +++  +++ D
Sbjct: 59 ELAEIFGCGIQELLIESSDRPDDQAEQIKSMLAKLNSED 97


>gi|261414728|ref|YP_003248411.1| transcriptional regulator, XRE family [Fibrobacter succinogenes
           subsp. succinogenes S85]
 gi|261371184|gb|ACX73929.1| transcriptional regulator, XRE family [Fibrobacter succinogenes
           subsp. succinogenes S85]
          Length = 130

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 27/56 (48%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++L R   G +Q++L +  GIT QQV   E+G   +G      ++  L +     F
Sbjct: 74  LKLLRTTFGYTQQQLADKAGITKQQVSAMERGKEPIGRKMAHRLANALGTSYKNLF 129


>gi|163755625|ref|ZP_02162744.1| helix-turn-helix family protein [Kordia algicida OT-1]
 gi|161324538|gb|EDP95868.1| helix-turn-helix family protein [Kordia algicida OT-1]
          Length = 66

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 32/58 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI++ R IL ++Q++L + +G++ Q +   EKG           +S + + PI+ FF
Sbjct: 3  NRIKIERAILDITQDELAKKIGVSRQTINSIEKGRYVPSTVLALKLSNLFDKPINEFF 60


>gi|160878327|ref|YP_001557295.1| XRE family transcriptional regulator [Clostridium phytofermentans
          ISDg]
 gi|160426993|gb|ABX40556.1| transcriptional regulator, XRE family [Clostridium
          phytofermentans ISDg]
          Length = 141

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/85 (20%), Positives = 33/85 (38%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KR++  R     +QE +   L I  Q    YE G N      L  ++ +   P++   
Sbjct: 6  IAKRLKELRKSFEYTQEFVASYLNIGRQAYSHYETGRNAPTTDTLYKLASLYHIPVNDLL 65

Query: 75 DVSPTVCSD--ISSEENNVMDFIST 97
           +      +   + E NN+   + +
Sbjct: 66 KLLSPHPQETYTTPESNNIASNMLS 90


>gi|57234348|ref|YP_181599.1| DNA-binding protein, putative [Dehalococcoides ethenogenes 195]
 gi|57224796|gb|AAW39853.1| DNA-binding protein, putative [Dehalococcoides ethenogenes 195]
          Length = 222

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/92 (25%), Positives = 41/92 (44%), Gaps = 5/92 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
           +++G++IR  R   G + E LG   G++ Q ++K EKG  + +  +    +S       S
Sbjct: 10  MSIGEKIREFRKARGWTPEYLGSRSGLSGQYIRKLEKGERQSITLTTASKLSSAFGIEPS 69

Query: 72  FFFDVS----PTVCSDISSEENNVMDFISTPD 99
                S    P    DI +E  +V   + T +
Sbjct: 70  KLISESEATLPRQIEDILTEIRSVFQRLETVE 101


>gi|329848824|ref|ZP_08263852.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328843887|gb|EGF93456.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 75

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  RM  G SQ +LGE LG++ Q V   E G +         ++ +   P+   F   P
Sbjct: 5  VRDLRMQRGWSQGELGERLGVSRQAVNAIEVGKHDPSLELTFKLAYLFNLPVEEIF-HPP 63

Query: 79 TVCSDISSEENN 90
              DI  ++ +
Sbjct: 64 FTAEDIRHDQRD 75


>gi|325567650|ref|ZP_08144317.1| XRE family transcriptional regulator [Enterococcus casseliflavus
           ATCC 12755]
 gi|325159083|gb|EGC71229.1| XRE family transcriptional regulator [Enterococcus casseliflavus
           ATCC 12755]
          Length = 172

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 37/89 (41%), Gaps = 3/89 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++  R   G+SQ  + E L I+ Q + K+E G        L  +S++ +  I      
Sbjct: 5   EQLKSCRESSGLSQTAVAEKLQISRQSISKWENGRGYPDIENLILLSDLYQVSIDELLRE 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNR 105
           +  +   I +    + D     + L L +
Sbjct: 65  NEALKERIETNNQEIND---KKEKLSLLQ 90


>gi|315122488|ref|YP_004062977.1| hypothetical protein CKC_03700 [Candidatus Liberibacter
           solanacearum CLso-ZC1]
 gi|313495890|gb|ADR52489.1| hypothetical protein CKC_03700 [Candidatus Liberibacter
           solanacearum CLso-ZC1]
          Length = 185

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/97 (20%), Positives = 36/97 (37%), Gaps = 2/97 (2%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           V  KKI +P    +G R++  R   GM+Q + G  +G+T   + K E G           
Sbjct: 85  VQTKKIIDPH--AIGARLKAIRKDEGMTQGEFGALVGLTHTGISKIETGHRTPEIKTALK 142

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTP 98
           I   L   + + +     +    +       +F+   
Sbjct: 143 IKRSLGKTLDWIYFGDEEIIPKKNRLRAKQSNFLHES 179


>gi|293980676|ref|YP_003543434.1| Xre-family transcriptional regulator [Sphingobium japonicum
          UT26S]
 gi|292677693|dbj|BAI99208.1| Xre-family transcriptional regulator [Sphingobium japonicum
          UT26S]
          Length = 77

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 28/62 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG+  R RR+ L MSQ +L E  G+T   + + E G        L  I+  L   +  
Sbjct: 14 MLVGRNCRERRVQLEMSQTELSERSGVTASYLSRIENGRGNPTLELLDSIAGALGCHVVD 73

Query: 73 FF 74
           F
Sbjct: 74 LF 75


>gi|282879243|ref|ZP_06287993.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella buccalis ATCC 35310]
 gi|281298636|gb|EFA91055.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella buccalis ATCC 35310]
          Length = 112

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 31/55 (56%), Gaps = 1/55 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ I+  R+   ++QE+LGE +G+   Q+ + EKG + +    +  + + L  P
Sbjct: 44 LGEAIKKARIEQNLTQEELGERIGVKRAQISRLEKGYS-ISIPTMSRVFKALGVP 97


>gi|317054283|ref|YP_004118308.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
 gi|316952278|gb|ADU71752.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
          Length = 192

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 1  MVGNKKIP-NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M   K    + ++I +G++++  R   G S   L E  G++   + K E+G +   A+ L
Sbjct: 1  MSDEKSSKEDSINIRIGQKVKAEREKRGWSLTDLAENSGVSRAMIHKIERGESSPTATLL 60

Query: 60 QHISEVLESPIS 71
            ++   +  +S
Sbjct: 61 ARLAGSFDMSMS 72


>gi|257866249|ref|ZP_05645902.1| DNA binding protein [Enterococcus casseliflavus EC30]
 gi|257873237|ref|ZP_05652890.1| DNA binding protein [Enterococcus casseliflavus EC10]
 gi|257875884|ref|ZP_05655537.1| DNA binding protein [Enterococcus casseliflavus EC20]
 gi|257800207|gb|EEV29235.1| DNA binding protein [Enterococcus casseliflavus EC30]
 gi|257807401|gb|EEV36223.1| DNA binding protein [Enterococcus casseliflavus EC10]
 gi|257810050|gb|EEV38870.1| DNA binding protein [Enterococcus casseliflavus EC20]
          Length = 172

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 37/89 (41%), Gaps = 3/89 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++  R   G+SQ  + E L I+ Q + K+E G        L  +S++ +  I      
Sbjct: 5   EQLKSCRESSGLSQTAVAEKLQISRQSISKWENGRGYPDIENLILLSDLYQVSIDELLRE 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNR 105
           +  +   I +    + D     + L L +
Sbjct: 65  NEALKERIETNNQEIND---KKEKLSLLQ 90


>gi|298345880|ref|YP_003718567.1| hypothetical protein HMPREF0573_10754 [Mobiluncus curtisii ATCC
          43063]
 gi|304390415|ref|ZP_07372368.1| XRE family transcriptional regulator [Mobiluncus curtisii subsp.
          curtisii ATCC 35241]
 gi|298235941|gb|ADI67073.1| hypothetical protein HMPREF0573_10754 [Mobiluncus curtisii ATCC
          43063]
 gi|304326171|gb|EFL93416.1| XRE family transcriptional regulator [Mobiluncus curtisii subsp.
          curtisii ATCC 35241]
          Length = 80

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 2/71 (2%)

Query: 10 PVDI--NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          PVD     G+ IR+RR+I   +QE L E  G++   +++ E G   V        ++ + 
Sbjct: 9  PVDTPEKFGQLIRMRRVIFDYTQENLAEKAGVSRMAIKRLEAGNPNVRLDTALKAAQAVG 68

Query: 68 SPISFFFDVSP 78
           P+    + +P
Sbjct: 69 VPLPTILEGNP 79


>gi|187779176|ref|ZP_02995649.1| hypothetical protein CLOSPO_02771 [Clostridium sporogenes ATCC
          15579]
 gi|187772801|gb|EDU36603.1| hypothetical protein CLOSPO_02771 [Clostridium sporogenes ATCC
          15579]
          Length = 155

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 31/61 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+++   R   G+SQE + E L ++ Q + K+E        ++ + +S++      +
Sbjct: 1  MSLGEKLLYLRKKSGLSQEDVAEKLSVSRQTISKWETDQTVPELNKAKLLSQLYNVSYDY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|167032796|ref|YP_001668027.1| XRE family transcriptional regulator [Pseudomonas putida GB-1]
 gi|166859284|gb|ABY97691.1| transcriptional regulator, XRE family [Pseudomonas putida GB-1]
          Length = 184

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 40/89 (44%), Gaps = 9/89 (10%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR  R   G++  +L + +G +   + + E+GV+R   + L  ISE L    ++F+ +  
Sbjct: 14  IRDLRKFKGLTLGELAQRIGRSVGFLSQVERGVSRPTVADLTAISEELGVSTAYFYKLDK 73

Query: 79  TVCSDISSEENN---------VMDFISTP 98
               D  +  +          + D +++P
Sbjct: 74  PRELDWVTRPHERRTLHLAGGITDVLASP 102


>gi|89096956|ref|ZP_01169847.1| dna-binding protein [Bacillus sp. NRRL B-14911]
 gi|89088336|gb|EAR67446.1| dna-binding protein [Bacillus sp. NRRL B-14911]
          Length = 69

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+  R   G+SQE+L +  G++ Q +   E        +    ++E L   +   F
Sbjct: 3  NQIKEVRKSSGLSQEELAKACGVSRQTINAIENNKYDPSLALAFQLAESLGMTVDQLF 60


>gi|332880985|ref|ZP_08448655.1| DNA-binding helix-turn-helix protein [Capnocytophaga sp. oral
          taxon 329 str. F0087]
 gi|332681159|gb|EGJ54086.1| DNA-binding helix-turn-helix protein [Capnocytophaga sp. oral
          taxon 329 str. F0087]
          Length = 117

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 37/87 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G+ ++  R + G +QE++ + +GI       YE G   V    L+ +S +     
Sbjct: 4  INQIIGENLKKIRELSGFTQEQIAKSIGIERSAYSNYEGGTREVPYDILEKLSNLFGCEP 63

Query: 71 SFFFDVSPTVCSDISSEENNVMDFIST 97
             F+ +    ++I +    + D    
Sbjct: 64 FILFEDNVQADNEILATAFRISDLEDD 90


>gi|332298496|ref|YP_004440418.1| helix-turn-helix domain protein [Treponema brennaborense DSM
          12168]
 gi|332181599|gb|AEE17287.1| helix-turn-helix domain protein [Treponema brennaborense DSM
          12168]
          Length = 106

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 21/76 (27%), Positives = 35/76 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VG  IR  R   G +Q  + E LG+T   +   E G   +    ++ +SE+ + P + 
Sbjct: 6  IIVGDNIRRLRREYGWTQAYVAENLGVTAPFLTMIESGQRGMSLDLIEKLSELFDVPAAS 65

Query: 73 FFDVSPTVCSDISSEE 88
          FF       + +S +E
Sbjct: 66 FFVQYSDTSAGVSRQE 81


>gi|239628519|ref|ZP_04671550.1| predicted protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239518665|gb|EEQ58531.1| predicted protein [Clostridiales bacterium 1_7_47FAA]
          Length = 123

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 29/116 (25%), Positives = 48/116 (41%), Gaps = 13/116 (11%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +DI+  +R++  R  LG++    G  + +T   +   EKG+  +    L+ I        
Sbjct: 1   MDIH--ERLKYLRTQLGLTTRAFGASINMTGGAITNMEKGLRNITDRTLKDICREYNVNP 58

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
            +  D    V  D  S  +   D        QL R +  ++D K R    ELV+SI
Sbjct: 59  EWLTDGKEPVFLDTVSSLDVEEDVK------QLARQYSLLND-KDR----ELVKSI 103


>gi|218232808|ref|YP_002367302.1| transcriptional regulator [Bacillus cereus B4264]
 gi|229127969|ref|ZP_04256953.1| Transcriptional regulator [Bacillus cereus BDRD-Cer4]
 gi|218160765|gb|ACK60757.1| transcriptional regulator [Bacillus cereus B4264]
 gi|228655531|gb|EEL11385.1| Transcriptional regulator [Bacillus cereus BDRD-Cer4]
          Length = 116

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 30/57 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R+   M+QE+ G+ + +T   V K+E G        ++ I++    P+++ +
Sbjct: 6  RIKQIRIDNKMNQEQFGKEVDLTKGTVSKFENGKAFPSRETIEKIAKRFNVPVNYLY 62


>gi|77919689|ref|YP_357504.1| transcriptional regulator Cro/CI family protein [Pelobacter
          carbinolicus DSM 2380]
 gi|77545772|gb|ABA89334.1| transcriptional regulator, XRE family [Pelobacter carbinolicus
          DSM 2380]
          Length = 188

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 35/78 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++N+G++++  RMI  ++QE+LG    +T   + + E        + L+ I +V    + 
Sbjct: 4  NLNIGEKLKRLRMINSLTQEELGNRADLTKGYISQLENDTACPSIATLKDILDVFGVSMQ 63

Query: 72 FFFDVSPTVCSDISSEEN 89
           FF           ++  
Sbjct: 64 EFFTDPVDTEVVFGTDAR 81


>gi|148548701|ref|YP_001268803.1| XRE family transcriptional regulator [Pseudomonas putida F1]
 gi|148512759|gb|ABQ79619.1| transcriptional regulator, XRE family [Pseudomonas putida F1]
          Length = 197

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 31/71 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+R+R  R    M+ ++L E  G+    + K E     V   +L   +  L   I+  F
Sbjct: 13 VGQRLRQVRKARQMTLKQLSEASGVPLSTLSKMELAQVSVSYEKLAAAARALNVDIAQLF 72

Query: 75 DVSPTVCSDIS 85
            S TV + + 
Sbjct: 73 RASGTVSAPVP 83


>gi|323487870|ref|ZP_08093128.1| immunity repressor protein [Planococcus donghaensis MPA1U2]
 gi|323398604|gb|EGA91392.1| immunity repressor protein [Planococcus donghaensis MPA1U2]
          Length = 114

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 29/59 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + KR++L R    M+QE+L   LG T   +  YE G +      L +I+ +L S   + 
Sbjct: 2  LSKRLKLVRQKRKMTQEELARTLGTTKGSISNYENGRSSPSVEVLVNIANILNSSTDYL 60


>gi|295105624|emb|CBL03168.1| Helix-turn-helix. [Faecalibacterium prausnitzii SL3/3]
          Length = 167

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 37/76 (48%), Gaps = 4/76 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + VG RI+  R + GM+Q++LG  +G   +    ++ +YE          L+ I+EVL+ 
Sbjct: 1  MAVGDRIKRARNLRGMTQKELGIAIGFEEKSADIRIAQYESNTRTPKEELLRKIAEVLDV 60

Query: 69 PISFFFDVSPTVCSDI 84
               ++ +     D+
Sbjct: 61 NYRSLYEPTLYAAEDV 76


>gi|291531647|emb|CBK97232.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
          Length = 136

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ-HISEVLESPISFF 73
          +++  R   G++Q++  + LG++ + +  YEKG +      +   ++E+L   I++ 
Sbjct: 6  KVKKERRAKGLTQQQFADMLGVSLRTITNYEKGESYPKQREIYGKMAEILGVDINYL 62


>gi|257090410|ref|ZP_05584771.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           CH188]
 gi|256999222|gb|EEU85742.1| cro/CI family transcriptional regulator [Enterococcus faecalis
           CH188]
 gi|315034707|gb|EFT46639.1| toxin-antitoxin system, antitoxin component, Xre family
           [Enterococcus faecalis TX0027]
 gi|315578682|gb|EFU90873.1| toxin-antitoxin system, antitoxin component, Xre family
           [Enterococcus faecalis TX0630]
          Length = 125

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/111 (18%), Positives = 46/111 (41%), Gaps = 3/111 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +++  R+    +Q+++ + LGIT      +E   N      L  ++ + +    F  
Sbjct: 2   LGNKLKQLRISKNKTQQQVADYLGITRAAYSHFENNRNDPDKETLVKLAILFDVTTDFLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
             + T       E   +   + +  G+    Y  +I   + R++I +L+ S
Sbjct: 62  GRNHTPEWASKDEVIELDKILKSNPGMT---YGSEIMTDEDREQINDLIAS 109


>gi|256848433|ref|ZP_05553875.1| transcriptional regulator [Lactobacillus coleohominis 101-4-CHN]
 gi|256714700|gb|EEU29679.1| transcriptional regulator [Lactobacillus coleohominis 101-4-CHN]
          Length = 211

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 29/54 (53%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I++RR   G++Q  + + L +T Q +  +E+G +    + L  IS+  +  I 
Sbjct: 6  QIKMRRKKRGLTQSVVAKKLYVTRQTISNWEQGKSYPDLNTLVRISDFYQISID 59


>gi|324992002|gb|EGC23924.1| transcriptional regulator [Streptococcus sanguinis SK405]
          Length = 71

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/67 (19%), Positives = 28/67 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    MSQ +L + +G++ Q +   E            +++  L++ ++  F  
Sbjct: 2  NRVKEFRKEKKMSQLELAKSIGVSRQTINMIENNKYNPTLELCINLARALDTDLNALFWD 61

Query: 77 SPTVCSD 83
          S     D
Sbjct: 62 SQLTDED 68


>gi|197284861|ref|YP_002150733.1| transcriptional regulator [Proteus mirabilis HI4320]
 gi|227355259|ref|ZP_03839661.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
 gi|194682348|emb|CAR42162.1| putative transcriptional regulator [Proteus mirabilis HI4320]
 gi|227164632|gb|EEI49499.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
          Length = 104

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 29/57 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          ++  +  +I+ RR  L ++  ++G  LGI+ Q   + E G  ++    L  I+ +L 
Sbjct: 4  INSTIAHKIKQRRKELRLTGIEMGNRLGISQQHYSRIENGNIKITVELLFSIAFILN 60


>gi|218231166|ref|YP_002366047.1| DNA-binding protein [Bacillus cereus B4264]
 gi|228938478|ref|ZP_04101087.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|228951741|ref|ZP_04113842.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
 gi|228971357|ref|ZP_04131984.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228977969|ref|ZP_04138349.1| Helix-turn-helix repressor protein [Bacillus thuringiensis Bt407]
 gi|228984435|ref|ZP_04144613.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
 gi|229010654|ref|ZP_04167854.1| Helix-turn-helix repressor protein [Bacillus mycoides DSM 2048]
 gi|229029033|ref|ZP_04185132.1| Helix-turn-helix repressor protein [Bacillus cereus AH1271]
 gi|229108820|ref|ZP_04238425.1| Helix-turn-helix repressor protein [Bacillus cereus Rock1-15]
 gi|229132161|ref|ZP_04261019.1| Helix-turn-helix repressor protein [Bacillus cereus BDRD-ST196]
 gi|229149564|ref|ZP_04277796.1| Helix-turn-helix repressor protein [Bacillus cereus m1550]
 gi|229154928|ref|ZP_04283042.1| Helix-turn-helix repressor protein [Bacillus cereus ATCC 4342]
 gi|229172007|ref|ZP_04299572.1| Helix-turn-helix repressor protein [Bacillus cereus MM3]
 gi|229177773|ref|ZP_04305147.1| Helix-turn-helix repressor protein [Bacillus cereus 172560W]
 gi|218159123|gb|ACK59115.1| DNA-binding protein [Bacillus cereus B4264]
 gi|228605737|gb|EEK63184.1| Helix-turn-helix repressor protein [Bacillus cereus 172560W]
 gi|228611350|gb|EEK68607.1| Helix-turn-helix repressor protein [Bacillus cereus MM3]
 gi|228628486|gb|EEK85199.1| Helix-turn-helix repressor protein [Bacillus cereus ATCC 4342]
 gi|228633910|gb|EEK90507.1| Helix-turn-helix repressor protein [Bacillus cereus m1550]
 gi|228651308|gb|EEL07285.1| Helix-turn-helix repressor protein [Bacillus cereus BDRD-ST196]
 gi|228674589|gb|EEL29828.1| Helix-turn-helix repressor protein [Bacillus cereus Rock1-15]
 gi|228732313|gb|EEL83196.1| Helix-turn-helix repressor protein [Bacillus cereus AH1271]
 gi|228750619|gb|EEM00445.1| Helix-turn-helix repressor protein [Bacillus mycoides DSM 2048]
 gi|228775301|gb|EEM23689.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
 gi|228781757|gb|EEM29955.1| Helix-turn-helix repressor protein [Bacillus thuringiensis Bt407]
 gi|228788393|gb|EEM36345.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228807936|gb|EEM54454.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
 gi|228821215|gb|EEM67231.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|326938985|gb|AEA14881.1| PbsX family transcriptional regulator [Bacillus thuringiensis
          serovar chinensis CT-43]
          Length = 69

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIEHVF 60


>gi|194466453|ref|ZP_03072440.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
 gi|194453489|gb|EDX42386.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
          Length = 220

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/83 (16%), Positives = 34/83 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  +++  R   G +Q +L + L ++ Q +  +E G        LQ+++++    I    
Sbjct: 6  IASQLKRLRKSRGWTQTQLADKLSVSKQTISNWETGTKVPRMGSLQNLADLFHVKIGEIT 65

Query: 75 DVSPTVCSDISSEENNVMDFIST 97
          + S       S    N++  +  
Sbjct: 66 NASIIKEETQSHLPTNIIYPLGD 88


>gi|254932545|ref|ZP_05265904.1| LcmR protein [Listeria monocytogenes HPB2262]
 gi|12275199|emb|CAC22274.1| LcmR protein [Listeria monocytogenes]
 gi|293584102|gb|EFF96134.1| LcmR protein [Listeria monocytogenes HPB2262]
 gi|332310736|gb|EGJ23831.1| Transcriptional repressor [Listeria monocytogenes str. Scott A]
          Length = 68

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 28/59 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          + IR  R    ++Q+++ + L ++     +YE G     A+ L  I++  +  + +  D
Sbjct: 4  RNIRSIREDNDITQQQMAKLLNVSQNTYSQYETGKIEWTATTLIKIADYFDVSVDYLLD 62


>gi|15596556|ref|NP_250050.1| transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|9947301|gb|AAG04748.1|AE004565_7 probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
          Length = 218

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 8/83 (9%)

Query: 8   PNPVDI-----NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           PNP +      +V   +R  R+  G+SQE L     ++ + +   E G   V  S L  I
Sbjct: 33  PNPTERPSVLEHVSGNVRRLRLQAGLSQEALARAASVSRRMLVGIESGDVNVSLSTLDRI 92

Query: 63  SEVLESPISFFFDVSPTVCSDIS 85
           +  L      F D+     +D S
Sbjct: 93  AAALGV---LFPDLVQAPATDRS 112


>gi|42780455|ref|NP_977702.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|49184196|ref|YP_027448.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|52144076|ref|YP_082752.1| transcriptional regulator [Bacillus cereus E33L]
 gi|75761307|ref|ZP_00741285.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|118476827|ref|YP_893978.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|165870447|ref|ZP_02215102.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167634466|ref|ZP_02392787.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|167639256|ref|ZP_02397528.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170686708|ref|ZP_02877928.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|170706264|ref|ZP_02896725.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|177651467|ref|ZP_02934256.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190568777|ref|ZP_03021681.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|196035321|ref|ZP_03102726.1| DNA-binding protein [Bacillus cereus W]
 gi|196040762|ref|ZP_03108061.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|196046481|ref|ZP_03113706.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|206977826|ref|ZP_03238715.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|217958841|ref|YP_002337389.1| DNA-binding protein [Bacillus cereus AH187]
 gi|218896296|ref|YP_002444707.1| DNA-binding protein [Bacillus cereus G9842]
 gi|218902459|ref|YP_002450293.1| DNA-binding protein [Bacillus cereus AH820]
 gi|225863209|ref|YP_002748587.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|227815895|ref|YP_002815904.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|228899941|ref|ZP_04064182.1| Helix-turn-helix repressor protein [Bacillus thuringiensis IBL
          4222]
 gi|228906995|ref|ZP_04070862.1| Helix-turn-helix repressor protein [Bacillus thuringiensis IBL
          200]
 gi|228913933|ref|ZP_04077558.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
 gi|228926397|ref|ZP_04089469.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar pondicheriensis BGSC 4BA1]
 gi|228932638|ref|ZP_04095513.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
 gi|228944966|ref|ZP_04107327.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
 gi|228964309|ref|ZP_04125428.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|229090316|ref|ZP_04221560.1| Helix-turn-helix repressor protein [Bacillus cereus Rock3-42]
 gi|229120884|ref|ZP_04250126.1| Helix-turn-helix repressor protein [Bacillus cereus 95/8201]
 gi|229138054|ref|ZP_04266652.1| Helix-turn-helix repressor protein [Bacillus cereus BDRD-ST26]
 gi|229183559|ref|ZP_04310783.1| Helix-turn-helix repressor protein [Bacillus cereus BGSC 6E1]
 gi|229195562|ref|ZP_04322329.1| Helix-turn-helix repressor protein [Bacillus cereus m1293]
 gi|229602614|ref|YP_002865785.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|254682576|ref|ZP_05146437.1| transcriptional regulator [Bacillus anthracis str. CNEVA-9066]
 gi|254726237|ref|ZP_05188019.1| transcriptional regulator [Bacillus anthracis str. A1055]
 gi|254733994|ref|ZP_05191708.1| transcriptional regulator [Bacillus anthracis str. Western North
          America USA6153]
 gi|254740319|ref|ZP_05198010.1| transcriptional regulator [Bacillus anthracis str. Kruger B]
 gi|254753706|ref|ZP_05205741.1| transcriptional regulator [Bacillus anthracis str. Vollum]
 gi|254758802|ref|ZP_05210829.1| transcriptional regulator [Bacillus anthracis str. Australia 94]
 gi|270000577|ref|NP_843743.2| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|301052901|ref|YP_003791112.1| putative transcriptional regulator [Bacillus anthracis CI]
 gi|42736374|gb|AAS40310.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|49178123|gb|AAT53499.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|51977545|gb|AAU19095.1| probable transcriptional regulator [Bacillus cereus E33L]
 gi|74491199|gb|EAO54437.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|118416052|gb|ABK84471.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|164713942|gb|EDR19464.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167512695|gb|EDR88069.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|167530354|gb|EDR93080.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|170128798|gb|EDS97664.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|170669231|gb|EDT19974.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|172082745|gb|EDT67808.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190560193|gb|EDV14174.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|195991998|gb|EDX55961.1| DNA-binding protein [Bacillus cereus W]
 gi|196022665|gb|EDX61347.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|196028552|gb|EDX67160.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|206743923|gb|EDZ55341.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|217064238|gb|ACJ78488.1| DNA-binding protein [Bacillus cereus AH187]
 gi|218536514|gb|ACK88912.1| DNA-binding protein [Bacillus cereus AH820]
 gi|218542381|gb|ACK94775.1| DNA-binding protein [Bacillus cereus G9842]
 gi|225786808|gb|ACO27025.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|227007839|gb|ACP17582.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|228587939|gb|EEK45990.1| Helix-turn-helix repressor protein [Bacillus cereus m1293]
 gi|228599969|gb|EEK57565.1| Helix-turn-helix repressor protein [Bacillus cereus BGSC 6E1]
 gi|228645399|gb|EEL01633.1| Helix-turn-helix repressor protein [Bacillus cereus BDRD-ST26]
 gi|228662544|gb|EEL18142.1| Helix-turn-helix repressor protein [Bacillus cereus 95/8201]
 gi|228693010|gb|EEL46727.1| Helix-turn-helix repressor protein [Bacillus cereus Rock3-42]
 gi|228795406|gb|EEM42894.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|228814635|gb|EEM60895.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
 gi|228827010|gb|EEM72769.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
 gi|228833221|gb|EEM78786.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar pondicheriensis BGSC 4BA1]
 gi|228845872|gb|EEM90898.1| Helix-turn-helix repressor protein [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
 gi|228852743|gb|EEM97530.1| Helix-turn-helix repressor protein [Bacillus thuringiensis IBL
          200]
 gi|228859720|gb|EEN04139.1| Helix-turn-helix repressor protein [Bacillus thuringiensis IBL
          4222]
 gi|229267022|gb|ACQ48659.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|269850308|gb|AAP25229.2| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|300375070|gb|ADK03974.1| probable transcriptional regulator [Bacillus cereus biovar
          anthracis str. CI]
 gi|324325377|gb|ADY20637.1| transcriptional regulator [Bacillus thuringiensis serovar
          finitimus YBT-020]
          Length = 69

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIEHVF 60


>gi|262404323|ref|ZP_06080878.1| transcriptional regulator YidN, Cro/CI family [Vibrio sp. RC586]
 gi|262349355|gb|EEY98493.1| transcriptional regulator YidN, Cro/CI family [Vibrio sp. RC586]
          Length = 181

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 36/78 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  ++++ R   G+S +   +  G++   + + E+G +    + L  I+  LE+  S F
Sbjct: 9  QIANQLKVLRKSKGLSLDATAQLTGVSKAMLGQIERGESSPTIATLWKIASGLEASFSAF 68

Query: 74 FDVSPTVCSDISSEENNV 91
          F   P + S   S  ++ 
Sbjct: 69 FANDPQLLSSERSFPDDP 86


>gi|239621498|ref|ZP_04664529.1| helix-turn-helix domain-containing protein [Bifidobacterium
          longum subsp. infantis CCUG 52486]
 gi|239515959|gb|EEQ55826.1| helix-turn-helix domain-containing protein [Bifidobacterium
          longum subsp. infantis CCUG 52486]
          Length = 380

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 5/73 (6%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR  R   G+S+ +L E LG+T + +  YE   +   +S+   ++EVL    S FF V 
Sbjct: 9  RIRCARETAGLSKVQLAESLGVTTRTIANYE--EDGAPSSKGYALAEVLGVRPS-FFSVL 65

Query: 78 PTV--CSDISSEE 88
          P      D+SSE+
Sbjct: 66 PDEPPIEDLSSEQ 78


>gi|219847619|ref|YP_002462052.1| XRE family transcriptional regulator [Chloroflexus aggregans DSM
          9485]
 gi|219541878|gb|ACL23616.1| transcriptional regulator, XRE family [Chloroflexus aggregans DSM
          9485]
          Length = 779

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 25/51 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +R RR+ L ++Q +LG   G++   ++K E    R      + ++  L  P
Sbjct: 13 VRRRRLALDLTQAELGRRAGVSAAAIRKIEADERRPSCELAELLASALGVP 63


>gi|187922165|ref|YP_001893807.1| XRE family transcriptional regulator [Burkholderia phytofirmans
          PsJN]
 gi|187713359|gb|ACD14583.1| transcriptional regulator, XRE family [Burkholderia phytofirmans
          PsJN]
          Length = 109

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 34/75 (45%), Gaps = 4/75 (5%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLE 67
          D    +R++  R   G++QE+LG   GI       +V +YEKG +       Q ++  L 
Sbjct: 9  DAVFPRRLKQARQRSGLTQEQLGIQAGIDEFSASTRVNQYEKGKHTPAIQTSQRLARALL 68

Query: 68 SPISFFFDVSPTVCS 82
           P  F ++    + S
Sbjct: 69 VPTGFLYEDDDLLAS 83


>gi|146299807|ref|YP_001194398.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
           UW101]
 gi|146154225|gb|ABQ05079.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
           UW101]
          Length = 136

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 27/138 (19%), Positives = 61/138 (44%), Gaps = 17/138 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI--- 70
           ++G++I   R +  M QE L + LG   Q V   E     +   +L  +++ L   +   
Sbjct: 9   HIGRKISRIRELRDMKQEALAQALGTNQQAVSIIENSET-IDEEKLVEVAKALGVTVEAI 67

Query: 71  -SFFFDVSPTVCSDISSEENNVMDFIS--TPDGLQ-LNRYFIQIDDVKVRQKIIELVRSI 126
            +F  + +    +  +  +N+ ++F +  T + L  L   F   ++ K       L   +
Sbjct: 68  KNFSDEAAINYFNSFTDTKNSQVNFGNHCTFNPLDKLVEAF---EENKK------LYERL 118

Query: 127 VSSEKKYRTIEEECMVEQ 144
           + SEK+ ++  E+ + ++
Sbjct: 119 LESEKEKKSYLEKLLKDK 136


>gi|103486719|ref|YP_616280.1| XRE family transcriptional regulator [Sphingopyxis alaskensis
          RB2256]
 gi|98976796|gb|ABF52947.1| transcriptional regulator, XRE family [Sphingopyxis alaskensis
          RB2256]
          Length = 261

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 29/55 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VG+++R  R+   MSQ  L     I+ + +   E G +R  A  LQ I++ LE P
Sbjct: 6  VGEQLREWRVRRRMSQMDLALESEISTRHLSFIETGRSRPSALMLQRIADCLEVP 60


>gi|312890063|ref|ZP_07749607.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
 gi|311297595|gb|EFQ74720.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
          Length = 135

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 36/68 (52%), Gaps = 4/68 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  ++K   P + ++G++I   R + G+ QE L   LG++ + V + E+    +    L+
Sbjct: 1  MTTSEK---PTNQHIGRKISRIRELRGIKQEDLATQLGVSQKTVSRMEQSEV-IEDDVLE 56

Query: 61 HISEVLES 68
           I+++L  
Sbjct: 57 SIAKILGV 64


>gi|312977312|ref|ZP_07789060.1| toxin-antitoxin system, antitoxin component, Xre family
          [Lactobacillus crispatus CTV-05]
 gi|310895743|gb|EFQ44809.1| toxin-antitoxin system, antitoxin component, Xre family
          [Lactobacillus crispatus CTV-05]
          Length = 69

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 30/56 (53%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    ++QE+L E +G+  + + +YE+G +      L  +++VL+    + 
Sbjct: 10 RLKRTRKNKNLTQEQLAEAVGLGVRTIGRYEQGSSFPNKRVLHELAKVLKVKTDWL 65


>gi|331659971|ref|ZP_08360909.1| transcriptional regulator, HTH_3 family [Escherichia coli TA206]
 gi|315296978|gb|EFU56258.1| helix-turn-helix protein [Escherichia coli MS 16-3]
 gi|331053186|gb|EGI25219.1| transcriptional regulator, HTH_3 family [Escherichia coli TA206]
          Length = 370

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 2/61 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG--VNRVGASRLQHISEVLESPISFFF 74
          +R+R+ R   G++Q  L E   +T + +  YEK    + + +  ++ IS VL  PI FF 
Sbjct: 5  ERLRIARERRGLTQRALAEATELTSKTISNYEKAGIFDAIASDTMERISAVLGYPIEFFL 64

Query: 75 D 75
          D
Sbjct: 65 D 65


>gi|229018544|ref|ZP_04175403.1| hypothetical protein bcere0030_30680 [Bacillus cereus AH1273]
 gi|229024800|ref|ZP_04181236.1| hypothetical protein bcere0029_31090 [Bacillus cereus AH1272]
 gi|228736511|gb|EEL87070.1| hypothetical protein bcere0029_31090 [Bacillus cereus AH1272]
 gi|228742756|gb|EEL92897.1| hypothetical protein bcere0030_30680 [Bacillus cereus AH1273]
          Length = 374

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  IHIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
              +P +  +
Sbjct: 64 LISYTPQMEQE 74


>gi|206562215|ref|YP_002232978.1| putative transcriptional regulator [Burkholderia cenocepacia J2315]
 gi|198038255|emb|CAR54209.1| putative transcriptional regulator [Burkholderia cenocepacia J2315]
          Length = 126

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 25/109 (22%), Positives = 46/109 (42%), Gaps = 12/109 (11%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+RL R  LGM+Q +     G+       YEKG      S L  I++ L   + +     
Sbjct: 10  RLRLERKRLGMNQTEFAAAGGVQQHAQVNYEKGARLPDVSYLVGIAD-LGVDVQYLL--- 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                      + V   +++ + L L   F ++  ++ R+ ++ LV +I
Sbjct: 66  ------TGRTSDPVTLALTSDEEL-LLAGFRELK-LRERRGVLALVAAI 106


>gi|194017594|ref|ZP_03056205.1| conserved domain protein [Bacillus pumilus ATCC 7061]
 gi|194010866|gb|EDW20437.1| conserved domain protein [Bacillus pumilus ATCC 7061]
          Length = 71

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 26/62 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +  RI++ R     +Q+ L E LG+T Q V   E G   +       I+   E  +  
Sbjct: 1  MEIKNRIKVLRAERDWTQKDLAEKLGVTRQTVAAIENGKYSLSLKLAFQIARTFEVDLYD 60

Query: 73 FF 74
           F
Sbjct: 61 VF 62


>gi|218895211|ref|YP_002443622.1| DNA-binding protein [Bacillus cereus G9842]
 gi|228898828|ref|ZP_04063111.1| Transcriptional regulator Xre [Bacillus thuringiensis IBL 4222]
 gi|228905871|ref|ZP_04069769.1| Transcriptional regulator Xre [Bacillus thuringiensis IBL 200]
 gi|228937377|ref|ZP_04100024.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228963175|ref|ZP_04124345.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|218540820|gb|ACK93214.1| DNA-binding protein [Bacillus cereus G9842]
 gi|228796560|gb|EEM43998.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228822335|gb|EEM68316.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228853811|gb|EEM98570.1| Transcriptional regulator Xre [Bacillus thuringiensis IBL 200]
 gi|228860853|gb|EEN05230.1| Transcriptional regulator Xre [Bacillus thuringiensis IBL 4222]
 gi|326937867|gb|AEA13763.1| XRE family transcriptional regulator [Bacillus thuringiensis
          serovar chinensis CT-43]
          Length = 67

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+RIR  R + G +QE   + LG++   + + E+G        +  +++ L   I 
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKELGVSVSVLGEVERGNRSPSQDFVVEVAKALNVSID 62


>gi|218892536|ref|YP_002441405.1| putative transcriptional regulator [Pseudomonas aeruginosa LESB58]
 gi|254234475|ref|ZP_04927798.1| hypothetical protein PACG_00331 [Pseudomonas aeruginosa C3719]
 gi|254239730|ref|ZP_04933052.1| hypothetical protein PA2G_00354 [Pseudomonas aeruginosa 2192]
 gi|126166406|gb|EAZ51917.1| hypothetical protein PACG_00331 [Pseudomonas aeruginosa C3719]
 gi|126193108|gb|EAZ57171.1| hypothetical protein PA2G_00354 [Pseudomonas aeruginosa 2192]
 gi|218772764|emb|CAW28549.1| probable transcriptional regulator [Pseudomonas aeruginosa LESB58]
          Length = 216

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 8/83 (9%)

Query: 8   PNPVDI-----NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           PNP +      +V   +R  R+  G+SQE L     ++ + +   E G   V  S L  I
Sbjct: 33  PNPTERPSVLEHVSGNVRRLRLQAGLSQEALARAASVSRRMLVGIESGDVNVSLSTLDRI 92

Query: 63  SEVLESPISFFFDVSPTVCSDIS 85
           +  L      F D+     +D S
Sbjct: 93  AAALGV---LFPDLVQAPATDRS 112


>gi|89054537|ref|YP_509988.1| XRE family transcriptional regulator [Jannaschia sp. CCS1]
 gi|88864086|gb|ABD54963.1| transcriptional regulator, XRE family with cupin sensor
          [Jannaschia sp. CCS1]
          Length = 205

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 33/82 (40%), Gaps = 3/82 (3%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   K   +P    +G  IR RR  L ++ + L +  G++   + + E+G        L 
Sbjct: 1  MARPKSNNDPA---LGALIRKRRKQLDLTLQALCDDAGLSVGYLSQVERGQATPSLGTLA 57

Query: 61 HISEVLESPISFFFDVSPTVCS 82
           I++ L   + +F        S
Sbjct: 58 QIAQGLSVELEYFIATPKPADS 79


>gi|319937843|ref|ZP_08012245.1| DNA-binding protein [Coprobacillus sp. 29_1]
 gi|319807073|gb|EFW03689.1| DNA-binding protein [Coprobacillus sp. 29_1]
          Length = 194

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +  +I+  R+   +SQE+L + + +T Q +  +E G N    + +  +S +    + 
Sbjct: 1  MKISSQIKKYRLESSLSQEELADKIFVTRQTISNWENGKNYPDINSIVLLSTLFGISLD 59


>gi|254171970|ref|ZP_04878646.1| inosine monophosphate dehydrogenase [Thermococcus sp. AM4]
 gi|214033866|gb|EEB74692.1| inosine monophosphate dehydrogenase [Thermococcus sp. AM4]
          Length = 191

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 3/60 (5%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          IP P+D +V   IR  R  LG++QE+L    G+T   + K E G      S    I + L
Sbjct: 3  IPRPIDPSV---IRKIRKELGITQEELARKAGVTQAYIAKLESGRVDPRLSTFNRILQAL 59


>gi|218897578|ref|YP_002445989.1| putative DNA-binding protein [Bacillus cereus G9842]
 gi|228906186|ref|ZP_04070074.1| transcriptional regulator [Bacillus thuringiensis IBL 200]
 gi|229110034|ref|ZP_04239611.1| transcriptional regulator [Bacillus cereus Rock1-15]
 gi|218543081|gb|ACK95475.1| putative DNA-binding protein [Bacillus cereus G9842]
 gi|228673387|gb|EEL28654.1| transcriptional regulator [Bacillus cereus Rock1-15]
 gi|228853443|gb|EEM98212.1| transcriptional regulator [Bacillus thuringiensis IBL 200]
          Length = 117

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 55/120 (45%), Gaps = 7/120 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++       ++Q++L + +G++   V  Y +G    G   LQ I+  L+    +   +
Sbjct: 5   ERLKSLIEKKSITQQQLADAIGVSHVSVYNYVEGKKAPGTRTLQKIANYLKVTTDYLLGL 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
           S +   D+++ E    D   T +  ++ +    + + + R+K +E +   V+ EK    +
Sbjct: 65  SDS--PDLTAGE----DLQLTKEAHEILQIINDLPEEQ-RKKALEQLEMFVNYEKSKGNM 117


>gi|160940816|ref|ZP_02088158.1| hypothetical protein CLOBOL_05710 [Clostridium bolteae ATCC
          BAA-613]
 gi|158436336|gb|EDP14103.1| hypothetical protein CLOBOL_05710 [Clostridium bolteae ATCC
          BAA-613]
          Length = 131

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R+R  R   G+SQE+ G+ LG+T   V K E G  ++  + L+ I         + 
Sbjct: 6  ERLRELRKKCGLSQEEFGKKLGVTKTAVSKMELGTYQITDTMLKLICSEFNVNEKWL 62


>gi|160876037|ref|YP_001555353.1| XRE family transcriptional regulator [Shewanella baltica OS195]
 gi|160861559|gb|ABX50093.1| transcriptional regulator, XRE family [Shewanella baltica OS195]
          Length = 204

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 42/85 (49%), Gaps = 2/85 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ +R+R  R  LGM+Q +L + +      +QK E+G  +     ++ +++ L++   F
Sbjct: 1  MDIAERVRKLRKALGMTQYQLADLVSTAQTSIQKLERGDTK-NPRNIEALAKALQTTPEF 59

Query: 73 F-FDVSPTVCSDISSEENNVMDFIS 96
            F V     + + +   N +  IS
Sbjct: 60 LRFGVGDMDNATVVASAGNYLPLIS 84


>gi|26988905|ref|NP_744330.1| Cro/CI family transcriptional regulator [Pseudomonas putida KT2440]
 gi|24983715|gb|AAN67794.1|AE016410_10 transcriptional regulator, Cro/CI family [Pseudomonas putida
           KT2440]
 gi|313499699|gb|ADR61065.1| Cro/CI family transcriptional regulator [Pseudomonas putida BIRD-1]
          Length = 184

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 40/89 (44%), Gaps = 9/89 (10%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR  R   G++  +L + +G +   + + E+GV+R   + L  ISE L    ++F+ +  
Sbjct: 14  IRDLRKFKGLTLGELAQRIGRSVGFLSQVERGVSRPTVADLTAISEELGVSTAYFYKLDK 73

Query: 79  TVCSDISSEENN---------VMDFISTP 98
               D  +  +          + D +++P
Sbjct: 74  PRELDWVTRPHERRTLHLAGGITDVLASP 102


>gi|327467239|gb|EGF12743.1| transcriptional regulator [Streptococcus sanguinis SK330]
          Length = 71

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 27/67 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    MSQ +L + +G++ Q +   E            +++  L++ ++  F  
Sbjct: 2  NRVKEFRKEKKMSQLELAKSIGVSRQTINMIENNKYNPTLELCINLARALDTDLNALFWD 61

Query: 77 SPTVCSD 83
                D
Sbjct: 62 PQLTDED 68


>gi|319778353|ref|YP_004129266.1| Putative phage repressor [Taylorella equigenitalis MCE9]
 gi|317108377|gb|ADU91123.1| Putative phage repressor [Taylorella equigenitalis MCE9]
          Length = 110

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/97 (20%), Positives = 42/97 (43%), Gaps = 7/97 (7%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N ++  +G R+++ R+   +SQ  L +  G++   +   E G NR     L  +++ L  
Sbjct: 2   NGLNATLGDRVKIARINSKLSQIDLAKKTGLSQGTIAHIENGRNR-DTKHLMDLAKALSV 60

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
              + +        + + ++      IS  + LQLN 
Sbjct: 61  RAEWLY------YGEGNVKDTWPFRRISQNEYLQLNE 91


>gi|313902341|ref|ZP_07835745.1| helix-turn-helix domain protein [Thermaerobacter subterraneus DSM
          13965]
 gi|313467389|gb|EFR62899.1| helix-turn-helix domain protein [Thermaerobacter subterraneus DSM
          13965]
          Length = 435

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 1/65 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR RR  LGM+QE+L   L      + + E          LQ ++  L  P+++F 
Sbjct: 2  IGDRIRARRRELGMTQEQLAAGL-FDRSYISRIEANEVVPPLPTLQLLAGRLGKPVAYFL 60

Query: 75 DVSPT 79
               
Sbjct: 61 GDEDA 65


>gi|300812901|ref|ZP_07093295.1| helix-turn-helix protein [Lactobacillus delbrueckii subsp.
          bulgaricus PB2003/044-T3-4]
 gi|300496127|gb|EFK31255.1| helix-turn-helix protein [Lactobacillus delbrueckii subsp.
          bulgaricus PB2003/044-T3-4]
          Length = 122

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 35/81 (43%), Gaps = 1/81 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK +R  R   GMSQ++L   LG++ Q +  +E G        ++ I+ +     +   
Sbjct: 6  IGKYLRDLRRRRGMSQQELALALGVSKQTISNWEVGRKVPRMKTVEKIANIFGVSRNSIL 65

Query: 75 DVSP-TVCSDISSEENNVMDF 94
             P  +      E+  V+D 
Sbjct: 66 AGLPVEMLEQEGQEDRRVVDL 86


>gi|229191966|ref|ZP_04318936.1| hypothetical protein bcere0002_36230 [Bacillus cereus ATCC 10876]
 gi|228591517|gb|EEK49366.1| hypothetical protein bcere0002_36230 [Bacillus cereus ATCC 10876]
          Length = 144

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 39/91 (42%), Gaps = 5/91 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK+I   R    +SQ +L + LG +  ++  YE+G        L+ I++  E    +  
Sbjct: 2   LGKKISELRKKQKLSQYELADRLGFSRGKLANYEQGQREPDYDTLKKIADFFEVSTDYLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           D + T     ++  N     +S  +   + R
Sbjct: 62  DRTQTKEMVSNNSSN-----LSIKEERDIAR 87


>gi|196043612|ref|ZP_03110850.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|225864505|ref|YP_002749883.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|229184749|ref|ZP_04311948.1| hypothetical protein bcere0004_23090 [Bacillus cereus BGSC 6E1]
 gi|196025921|gb|EDX64590.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|225786797|gb|ACO27014.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|228598763|gb|EEK56384.1| hypothetical protein bcere0004_23090 [Bacillus cereus BGSC 6E1]
          Length = 66

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 27/59 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           RI + R   G +QE+L + +G++ Q +   EK            I+ V E  I+  FD
Sbjct: 4  NRIVVYRAEKGWTQEELAKRVGVSRQTIATLEKNKYNPSLILAFKIANVFEKSITDVFD 62


>gi|152988204|ref|YP_001349378.1| putative transcriptional regulator [Pseudomonas aeruginosa PA7]
 gi|150963362|gb|ABR85387.1| probable transcriptional regulator [Pseudomonas aeruginosa PA7]
          Length = 195

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 8/83 (9%)

Query: 8  PNPVDI-----NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          PNP +      +V   +R  R+  G+SQE L     ++ + +   E G   V  S L  I
Sbjct: 12 PNPTERPSVLEHVSGNVRRLRLQAGLSQEALARAASVSRRMLVGIESGDVNVSLSTLDRI 71

Query: 63 SEVLESPISFFFDVSPTVCSDIS 85
          +  L      F D+     +D S
Sbjct: 72 AAALGV---LFPDLVQAAATDRS 91


>gi|149921943|ref|ZP_01910386.1| DNA-binding protein [Plesiocystis pacifica SIR-1]
 gi|149817205|gb|EDM76683.1| DNA-binding protein [Plesiocystis pacifica SIR-1]
          Length = 128

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/94 (21%), Positives = 41/94 (43%), Gaps = 1/94 (1%)

Query: 12  DIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           D +  GK ++  RM  GM+QE+L E  G++   +++ E          L  +    +  +
Sbjct: 13  DRHRFGKHVKSLRMARGMTQEQLAERAGLSADTIRRLEHAGFSPSLDTLFKLCLGFDLLL 72

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           S FF        D + E  +++     P+ +++ 
Sbjct: 73  STFFISYELGERDEARELIDIVSGRRDPEDIEMA 106


>gi|126734314|ref|ZP_01750061.1| hypothetical protein RCCS2_09144 [Roseobacter sp. CCS2]
 gi|126717180|gb|EBA14044.1| hypothetical protein RCCS2_09144 [Roseobacter sp. CCS2]
          Length = 151

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/111 (18%), Positives = 50/111 (45%), Gaps = 1/111 (0%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++ +RI+  R+  G++  +    LG++  QV + E     + A RL  +++V     +  
Sbjct: 3   HLYERIKDARIRAGLTVNEAASRLGVSRVQVWRMENKAETISAERLFVLADVYGIDPAVL 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
           F          S+  N + + ++  +  ++ R   +     V + ++E++R
Sbjct: 63  FKGINATSQSTSALYNMIGEIVTLVEA-EVQRLDAKPPPRVVGEAVVEILR 112


>gi|117927278|ref|YP_871829.1| XRE family transcriptional regulator [Acidothermus cellulolyticus
           11B]
 gi|117647741|gb|ABK51843.1| transcriptional regulator, XRE family [Acidothermus cellulolyticus
           11B]
          Length = 233

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 49/123 (39%), Gaps = 8/123 (6%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M    ++  P   N+G  IR +R +  MS  +L    G++   + + E+G+ R  A  LQ
Sbjct: 1   MRKTGRMATPF--NIGDFIREQRRLAQMSLRQLARIAGVSNPYLSQVERGLRRPSAEILQ 58

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ-----LNRYFIQIDDVKV 115
            I+  L       + V   +  + +++   V   ++ P  L+     L   +        
Sbjct: 59  QIARGLRISAEALY-VRAGILDERTADGAVVDAVLADPHLLERQKQTLLEIYDAFRKENS 117

Query: 116 RQK 118
           R+ 
Sbjct: 118 RRA 120


>gi|147673117|ref|YP_001218249.1| hypothetical protein VC0395_A2349 [Vibrio cholerae O395]
 gi|262166988|ref|ZP_06034706.1| hypothetical protein VIJ_000150 [Vibrio cholerae RC27]
 gi|146315000|gb|ABQ19539.1| conserved domain protein [Vibrio cholerae O395]
 gi|227011827|gb|ACP08037.1| hypothetical protein VC395_0008 [Vibrio cholerae O395]
 gi|262024572|gb|EEY43255.1| hypothetical protein VIJ_000150 [Vibrio cholerae RC27]
          Length = 69

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 27/56 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VGKRI   R   G++Q+KL     I    V + E+G   +   +L  I++ L   +
Sbjct: 9  VGKRIAKMRKSKGLTQDKLALLAEIDRSYVGRIERGEVNITVEKLYQIADTLGCDV 64


>gi|320108099|ref|YP_004183689.1| helix-turn-helix domain-containing protein [Terriglobus saanensis
          SP1PR4]
 gi|319926620|gb|ADV83695.1| helix-turn-helix domain protein [Terriglobus saanensis SP1PR4]
          Length = 365

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 2/73 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  R+RL R   G+S   L   +   +T Q + KYE+G +   +  L  +S+ L   +S+
Sbjct: 2  IADRVRLARAKAGLSLRDLASEMNDKVTAQAIGKYERGEDIPSSGVLMALSKALGVSLSY 61

Query: 73 FFDVSPTVCSDIS 85
            D      S + 
Sbjct: 62 LLDTQGIELSGVE 74


>gi|302561948|ref|ZP_07314290.1| helix-turn-helix domain-containing protein [Streptomyces
          griseoflavus Tu4000]
 gi|302479566|gb|EFL42659.1| helix-turn-helix domain-containing protein [Streptomyces
          griseoflavus Tu4000]
          Length = 191

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 32/83 (38%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            + V   VG R+R  R    ++   L E  GI+   + + E G+ +     L  I++  
Sbjct: 2  TTDDVLAEVGPRLRRIRKEREVTLAALSEATGISVSTLSRLESGLRKPSLELLLPIAQAH 61

Query: 67 ESPISFFFDVSPTVCSDISSEEN 89
          + P+       P     I + E 
Sbjct: 62 QVPLDELVGAPPVGDPRIRASEP 84


>gi|296122389|ref|YP_003630167.1| helix-turn-helix domain protein [Planctomyces limnophilus DSM
          3776]
 gi|296014729|gb|ADG67968.1| helix-turn-helix domain protein [Planctomyces limnophilus DSM
          3776]
          Length = 82

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 30/64 (46%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           PN +     + ++  R   GMSQ KL E  G +F  V ++E G      + +  ++E L
Sbjct: 2  KPNELPEVFSRNLKAARQRAGMSQRKLAEITGCSFASVCRWETGRESPNLTTIVKLAEGL 61

Query: 67 ESPI 70
          + P 
Sbjct: 62 QVPP 65


>gi|260892046|ref|YP_003238143.1| transcriptional regulator, XRE family [Ammonifex degensii KC4]
 gi|260864187|gb|ACX51293.1| transcriptional regulator, XRE family [Ammonifex degensii KC4]
          Length = 81

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 29/75 (38%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R+  G++Q ++   +G+T       E+G           I++VL   +   F   P
Sbjct: 5  LRKARLRAGLTQSEVARLVGLTRASYTNIERGHKNPSVVTALRIAQVLNRSVEELFSDEP 64

Query: 79 TVCSDISSEENNVMD 93
                  E N  MD
Sbjct: 65 PAGQAAKREANTTMD 79


>gi|271502279|ref|YP_003335305.1| XRE family transcriptional regulator [Dickeya dadantii Ech586]
 gi|270345834|gb|ACZ78599.1| transcriptional regulator, XRE family [Dickeya dadantii Ech586]
          Length = 87

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 41/86 (47%), Gaps = 11/86 (12%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R++ G+SQE+LG   GI       ++ +YE+G++       + ++ VL  P  +F
Sbjct: 5  RLKAARLMAGLSQERLGILAGIDEATASARMNQYERGIHTPDFELARRLAAVLHVPACYF 64

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
          + V   +          ++ F  T +
Sbjct: 65 YTVEDDLAE-------MILSFYDTKE 83


>gi|241896164|ref|ZP_04783460.1| transcriptional regulator [Weissella paramesenteroides ATCC
          33313]
 gi|241870583|gb|EER74334.1| transcriptional regulator [Weissella paramesenteroides ATCC
          33313]
          Length = 140

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +  +I+ RR  LG+SQE+  + L I+ Q +  +E          L  IS + +  + 
Sbjct: 11 MELSNKIKKRRKELGISQEEAAKKLYISRQTLSNWENDKTLPDIDHLIDISNLYDLSLD 69


>gi|225389221|ref|ZP_03758945.1| hypothetical protein CLOSTASPAR_02967 [Clostridium asparagiforme
           DSM 15981]
 gi|225044715|gb|EEG54961.1| hypothetical protein CLOSTASPAR_02967 [Clostridium asparagiforme
           DSM 15981]
          Length = 156

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/99 (23%), Positives = 45/99 (45%), Gaps = 1/99 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  GK I   R    ++Q +LG+ LG+T + + ++E G      + LQ +  VL+  I+ 
Sbjct: 4   VQTGKFIAELRKEKSLTQAQLGDLLGVTNKTISRWENGNYMPDLAVLQSLCAVLDVNINE 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                    +D   + +N +  +S     ++ R +  ID
Sbjct: 64  MISGRRLDEADFRQQADNNL-LLSLDQARRMRREYKLID 101


>gi|26988969|ref|NP_744394.1| Cro/CI family transcriptional regulator [Pseudomonas putida
          KT2440]
 gi|24983786|gb|AAN67858.1|AE016417_6 transcriptional regulator, Cro/CI family [Pseudomonas putida
          KT2440]
          Length = 197

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 31/71 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+R+R  R    M+ ++L E  G+    + K E     V   +L   +  L   I+  F
Sbjct: 13 VGQRLRQVRKARQMTLKQLSEASGVPLSTLSKMELAQVSVSYEKLAAAARALNVDIAQLF 72

Query: 75 DVSPTVCSDIS 85
            S TV + + 
Sbjct: 73 RASGTVSAPVP 83


>gi|33599736|ref|NP_887296.1| putative transcriptional regulator [Bordetella bronchiseptica
          RB50]
 gi|33567333|emb|CAE31246.1| putative transcriptional regulator [Bordetella bronchiseptica
          RB50]
          Length = 201

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 26/62 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            VG+ IR  R    +S + L    G+    + + E+ +       L  I + L+ P+S 
Sbjct: 7  RLVGQAIRRIRKEKKISLQTLAARSGVATGMLSQIERDLGNPSLKTLARIRQALDVPLSA 66

Query: 73 FF 74
           F
Sbjct: 67 LF 68


>gi|326803357|ref|YP_004321175.1| DNA-binding helix-turn-helix protein [Aerococcus urinae
          ACS-120-V-Col10a]
 gi|326651652|gb|AEA01835.1| DNA-binding helix-turn-helix protein [Aerococcus urinae
          ACS-120-V-Col10a]
          Length = 73

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 27/63 (42%), Gaps = 2/63 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           R++  R   G+SQ+ L + +G++   +   E G     A     +   L+      F+F
Sbjct: 9  NRLKTIRKEKGLSQQALADMIGVSRNSISSIETGQFNPTAKLALILCIALDCQFENMFYF 68

Query: 75 DVS 77
          + +
Sbjct: 69 EGN 71


>gi|320321186|gb|EFW77327.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           glycinea str. B076]
          Length = 121

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 24/99 (24%), Positives = 41/99 (41%), Gaps = 4/99 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG +I+  R + GMSQ  L E +G     V  YE+G++  G  +L  IS   +      
Sbjct: 14  FVGAKIKALRKLSGMSQAVLAEKIGCDAPLVGCYERGIHLPGVEQLIKISMAFDVAPGEL 73

Query: 74  F----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                D+  T    +     +    + +P+ L+    F+
Sbjct: 74  LPGGQDILRTRLISLRQAIADKAIEVDSPESLEEILAFM 112


>gi|319652450|ref|ZP_08006566.1| transcriptional regulator [Bacillus sp. 2_A_57_CT2]
 gi|317395912|gb|EFV76634.1| transcriptional regulator [Bacillus sp. 2_A_57_CT2]
          Length = 212

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 30/62 (48%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I++GK++   R   G S  +L     IT   + + E+G+       L+ +++ L+ P  
Sbjct: 34 NIDIGKKVEKFRKEKGYSSRELARIAEITPSMLSQIERGIANPSIQTLKVLAKALDVPTF 93

Query: 72 FF 73
           F
Sbjct: 94 SF 95


>gi|326204880|ref|ZP_08194733.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
 gi|325984929|gb|EGD45772.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
          Length = 133

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/102 (16%), Positives = 43/102 (42%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + +R++  R + G SQ+ + + LG + + + KYE+G   +    +   ++       +  
Sbjct: 4   LSERVKSLRNVKGQSQKDVAKALGKSREAISKYERGTRNLDPDAIILFAKYFNVSSDYML 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
            ++  +    S +       +   +    N+ FI   ++ VR
Sbjct: 64  GITDYIEEMASGKRTPYSPELYAFEKYLNNQAFIPYLELAVR 105


>gi|237668382|ref|ZP_04528366.1| transcriptional regulator, Cro/CI family [Clostridium butyricum E4
           str. BoNT E BL5262]
 gi|237656730|gb|EEP54286.1| transcriptional regulator, Cro/CI family [Clostridium butyricum E4
           str. BoNT E BL5262]
          Length = 149

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/95 (21%), Positives = 45/95 (47%), Gaps = 8/95 (8%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFDVS 77
           I+ RR+ LG++ E+LG+ +G+    V+K+E G +  +    +  +S+ L+   S      
Sbjct: 7   IKSRRLELGLTYEELGKKIGVGKSTVRKWETGLIENIKRDNIIALSKALDISPSIIMGWD 66

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
            T  +++S    +          ++L   F +++ 
Sbjct: 67  DTNSNELSETHLSESQ-------IELLNIFNKLNQ 94


>gi|291302743|ref|YP_003514021.1| XRE family transcriptional regulator [Stackebrandtia nassauensis
          DSM 44728]
 gi|290571963|gb|ADD44928.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis
          DSM 44728]
          Length = 194

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG R+R  R    ++  +L E  GI+   + + E G  R     L  +++V   P+ 
Sbjct: 14 VGPRLRELRRQRNVTLARLAEATGISESTLSRLESGARRPNLELLLPLAKVYGVPLD 70


>gi|228907010|ref|ZP_04070876.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          IBL 200]
 gi|228852624|gb|EEM97412.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          IBL 200]
          Length = 107

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
               T  +++ SE
Sbjct: 62 LHDEKTKETNLDSE 75


>gi|169334830|ref|ZP_02862023.1| hypothetical protein ANASTE_01236 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169257568|gb|EDS71534.1| hypothetical protein ANASTE_01236 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 113

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 29/56 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+R++ +R+   ++QE+L E + ++   +   E G  +     + +I+ VL   I 
Sbjct: 9  GERLKRQRIKQKLTQEQLAEAVDLSVSHLSHIENGNTKTSLQTVLNIANVLNISID 64


>gi|167463701|ref|ZP_02328790.1| hypothetical phagelike protein [Paenibacillus larvae subsp.
          larvae BRL-230010]
 gi|322384406|ref|ZP_08058092.1| transcriptional regulator-like protein [Paenibacillus larvae
          subsp. larvae B-3650]
 gi|321150764|gb|EFX44224.1| transcriptional regulator-like protein [Paenibacillus larvae
          subsp. larvae B-3650]
          Length = 217

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          G+ I+L R   G++Q++L   LG+ T+  + K+E G N      ++ +SE  +    +
Sbjct: 5  GEIIKLLREQRGLTQQQLANILGLKTYTTITKWESGDNFPKGKDIKRLSEFFKVSSDY 62


>gi|154495860|ref|ZP_02034556.1| hypothetical protein BACCAP_00140 [Bacteroides capillosus ATCC
           29799]
 gi|150275058|gb|EDN02106.1| hypothetical protein BACCAP_00140 [Bacteroides capillosus ATCC
           29799]
          Length = 253

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 45/110 (40%), Gaps = 5/110 (4%)

Query: 9   NPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           N +D    G  +   R    ++Q++L E L ++ + V K+E+G++      L  +++ L 
Sbjct: 2   NDIDKERFGGFLLQLRREKNLTQKELAERLFVSDKAVSKWERGLSLPDVGLLLPMADCLG 61

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
             ++       T  + +  EE   +        LQL     Q    + R+
Sbjct: 62  VTVTELLRGERTAAAQLPVEEVEAL----VKSTLQLTEEERQAQKTRRRK 107


>gi|325262228|ref|ZP_08128966.1| putative helix-turn-helix protein [Clostridium sp. D5]
 gi|324033682|gb|EGB94959.1| putative helix-turn-helix protein [Clostridium sp. D5]
          Length = 643

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
          R + G +Q ++ E L I+      YE G        L+ ISEVLE  +   F  +P   +
Sbjct: 13 RKLKGYTQAQMAEKLEISRSTYTNYEIGNRSPDLETLERISEVLECSLDELFGKTPVRTA 72

Query: 83 DISSEENNVMDFISTPD 99
          D+ SE       +S+ +
Sbjct: 73 DMVSETPVPYR-VSSKE 88


>gi|319936820|ref|ZP_08011232.1| transcriptional regulator [Coprobacillus sp. 29_1]
 gi|319808088|gb|EFW04660.1| transcriptional regulator [Coprobacillus sp. 29_1]
          Length = 220

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 24/58 (41%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
            R    ++QE+L E L ++ Q + K+E GV       L  +S +    I  F     
Sbjct: 8  YYRKKNMLTQEELAEKLCVSRQTITKWENGVITPSLEYLIDLSHIFGITIDHFIKDDD 65


>gi|296137789|ref|YP_003645032.1| XRE family transcriptional regulator [Tsukamurella paurometabola
          DSM 20162]
 gi|296025923|gb|ADG76693.1| transcriptional regulator, XRE family [Tsukamurella paurometabola
          DSM 20162]
          Length = 377

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 24/92 (26%), Positives = 40/92 (43%), Gaps = 7/92 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV--NRVGASRLQHISEVLESPISF 72
          +G+RI+  R+  GMSQ+ L + +  +   +QK E     +    S L+ +SE L  P+S 
Sbjct: 6  LGERIKAWRLRRGMSQQDLADRMSRSKSWIQKLEGSERHSDPRLSVLREVSEALGVPLSI 65

Query: 73 FFDVSPTVCSDISS-----EENNVMDFISTPD 99
                             EE+     +STP+
Sbjct: 66 LIRNDQEPDRSAGRNLEQIEESIACAPLSTPE 97


>gi|218288780|ref|ZP_03493043.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
 gi|218241138|gb|EED08314.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
          Length = 167

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG+RI   R   G++Q KL E   ++   +  YE    +     L  I+E L   ++
Sbjct: 10 VGERIAQLRKERGLTQAKLAERARLSTSAIAMYETNRRQPDERTLAQIAEALGVEMA 66


>gi|196042830|ref|ZP_03110069.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|229185561|ref|ZP_04312741.1| hypothetical protein bcere0004_31130 [Bacillus cereus BGSC 6E1]
 gi|196026314|gb|EDX64982.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|228597956|gb|EEK55596.1| hypothetical protein bcere0004_31130 [Bacillus cereus BGSC 6E1]
          Length = 374

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 33/75 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  IHIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSDISSE 87
               P +  +   E
Sbjct: 64 LISYKPQMEQEDIKE 78


>gi|148272408|ref|YP_001221969.1| Cro/CI family transcriptional regulator [Clavibacter
          michiganensis subsp. michiganensis NCPPB 382]
 gi|147830338|emb|CAN01272.1| putative transcriptional regulator, Cro/CI family [Clavibacter
          michiganensis subsp. michiganensis NCPPB 382]
          Length = 209

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 34/81 (41%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  V +RIR  R   G S + L     ++   + + E G  R+   +L  I++ LE+ 
Sbjct: 6  DLDALVRQRIRSLREARGWSLDALAARCFLSPSTLSRIETGHRRIALDQLVPIAQALETS 65

Query: 70 ISFFFDVSPTVCSDISSEENN 90
          +    +        I  + ++
Sbjct: 66 LDALIESGDDADVVIRPQADS 86


>gi|323693418|ref|ZP_08107631.1| hypothetical protein HMPREF9475_02494 [Clostridium symbiosum
           WAL-14673]
 gi|323502526|gb|EGB18375.1| hypothetical protein HMPREF9475_02494 [Clostridium symbiosum
           WAL-14673]
          Length = 180

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/113 (20%), Positives = 44/113 (38%), Gaps = 17/113 (15%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ V K IR  R    +S ++L    G++   + + E+G      S L  IS  ++ P 
Sbjct: 1   MNLIVAKNIRRLREENKLSMDELSRLSGVSKSMLAQIERGDGNPTISTLWKISNGMKVP- 59

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQL------NRYFIQIDDVKVRQ 117
              FD        ++    N+   + T +   L       R +    D + R+
Sbjct: 60  ---FDA-------LTVRPENLYQIVKTSEIQPLLEDNGKVRNYPVFPDDENRR 102


>gi|295402355|ref|ZP_06812310.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
 gi|294975628|gb|EFG51251.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
          Length = 67

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 30/55 (54%)

Query: 20 RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  R+  G++Q+++ E L ++  Q ++ E G  R  A  L  ++++    IS FF
Sbjct: 8  KALRVNSGLTQKEVAEYLNLSLTQYKRRENGKTRWYADELYRLAKLYNVDISVFF 62


>gi|293385315|ref|ZP_06631128.1| DNA-binding protein [Enterococcus faecalis R712]
 gi|293386573|ref|ZP_06631156.1| DNA-binding protein [Enterococcus faecalis S613]
 gi|312908107|ref|ZP_07767087.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|312979000|ref|ZP_07790720.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
 gi|291077421|gb|EFE14785.1| DNA-binding protein [Enterococcus faecalis R712]
 gi|291083978|gb|EFE20941.1| DNA-binding protein [Enterococcus faecalis S613]
 gi|310625918|gb|EFQ09201.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|311288179|gb|EFQ66735.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
          Length = 320

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 26/61 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +++  R  +GM+Q+ L E L    Q + K+E G        L  I   L   I    
Sbjct: 19 IGNKLKEARENMGMTQQVLAEKLDENPQYISKWENGKMIPPTHLLPEICSHLNISIDDLL 78

Query: 75 D 75
          D
Sbjct: 79 D 79


>gi|256396383|ref|YP_003117947.1| XRE family transcriptional regulator [Catenulispora acidiphila
          DSM 44928]
 gi|256362609|gb|ACU76106.1| transcriptional regulator, XRE family [Catenulispora acidiphila
          DSM 44928]
          Length = 189

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 24/77 (31%), Gaps = 1/77 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEV 65
           P+     +G RIR  R+  G+S   L     +    +   E G         L  I+  
Sbjct: 5  TPSDFATQIGARIRRLRLERGVSLSALARDAAVGKATLSGLEDGSRGNPTIETLYAIAGR 64

Query: 66 LESPISFFFDVSPTVCS 82
          L  PI       P    
Sbjct: 65 LGVPIGALLPDPPHPGE 81


>gi|258406641|ref|YP_003199382.1| transcriptional regulator, XRE family [Desulfohalobium retbaense
          DSM 5692]
 gi|257798868|gb|ACV69804.1| transcriptional regulator, XRE family [Desulfohalobium retbaense
          DSM 5692]
          Length = 76

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 34/69 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I+ RR  LG+SQEKL +  G     +   E+G        L  I++ LE+ +S   
Sbjct: 8  LGQEIKSRRKQLGLSQEKLADKCGFDRTYISMVERGKRNPSLLNLLKIAKGLEASVSELT 67

Query: 75 DVSPTVCSD 83
          +V     S+
Sbjct: 68 EVINGANSE 76


>gi|222085057|ref|YP_002543586.1| hypothetical protein Arad_1139 [Agrobacterium radiobacter K84]
 gi|221722505|gb|ACM25661.1| conserved hypothetical protein [Agrobacterium radiobacter K84]
          Length = 207

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 28/61 (45%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +    G+ +R  R   G S ++L +  G++   + + E G +    S L  I+  L+ 
Sbjct: 19 DEISSLTGQNLRRLRTRRGYSLDRLAKISGVSRAMLGQVETGKSSPTISILWKIAAALDV 78

Query: 69 P 69
          P
Sbjct: 79 P 79


>gi|218133018|ref|ZP_03461822.1| hypothetical protein BACPEC_00879 [Bacteroides pectinophilus ATCC
          43243]
 gi|238925712|ref|YP_002939229.1| hypothetical protein EUBREC_3369 [Eubacterium rectale ATCC 33656]
 gi|260439193|ref|ZP_05793009.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
 gi|217991891|gb|EEC57895.1| hypothetical protein BACPEC_00879 [Bacteroides pectinophilus ATCC
          43243]
 gi|238877388|gb|ACR77095.1| Hypothetical protein EUBREC_3369 [Eubacterium rectale ATCC 33656]
 gi|291524650|emb|CBK90237.1| Helix-turn-helix [Eubacterium rectale DSM 17629]
 gi|292808363|gb|EFF67568.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
 gi|295093967|emb|CBK83058.1| Helix-turn-helix. [Coprococcus sp. ART55/1]
          Length = 206

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 38/76 (50%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R + RR+ LG++Q  + E +G+T   +Q+YE G        +   +SE L   + 
Sbjct: 8  KLIGSRAKQRRLELGVNQPYIAEKMGVTASTIQRYEAGTIDNTKKLVLDGLSEALHVSVE 67

Query: 72 FFFDVSPTVCSDISSE 87
          +    +  + SD++ +
Sbjct: 68 WLKGETEEMTSDVTDK 83


>gi|295837554|ref|ZP_06824487.1| transcriptional regulator [Streptomyces sp. SPB74]
 gi|197698364|gb|EDY45297.1| transcriptional regulator [Streptomyces sp. SPB74]
          Length = 226

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 32/71 (45%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +D  V KR+R  R+  G S E+L     ++   + + E G  R+    L  ++  L++
Sbjct: 6  DDLDSLVRKRVRALRVAQGWSLEELARRANLSQSTLSRIENGQRRLALDSLVTLARALDT 65

Query: 69 PISFFFDVSPT 79
           +    + +  
Sbjct: 66 SLDQLVETASD 76


>gi|153941561|ref|YP_001393012.1| hypothetical protein CLI_A0008 [Clostridium botulinum F str.
          Langeland]
 gi|152937441|gb|ABS42938.1| conserved domain protein [Clostridium botulinum F str. Langeland]
 gi|295320987|gb|ADG01364.1| hypothetical protein CBF_P0008 [Clostridium botulinum F str.
          230613]
          Length = 64

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++++ R+   +SQ++L E +GIT Q +   E G           I +VL   ++  F
Sbjct: 4  RKMKIARVECDLSQQQLAEKVGITRQTISMIEAGKYNPSLKLCIGICKVLNKTLNDLF 61


>gi|153810982|ref|ZP_01963650.1| hypothetical protein RUMOBE_01373 [Ruminococcus obeum ATCC 29174]
 gi|149832870|gb|EDM87953.1| hypothetical protein RUMOBE_01373 [Ruminococcus obeum ATCC 29174]
          Length = 126

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 28/66 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++   R    +SQ++L + LG++   +  +E G         Q IS+  + PIS  F  
Sbjct: 8  NKLAQLRQNAHLSQKQLAQKLGVSQASINYWENGQRTPSVKAAQKISDYFKMPISEIFSP 67

Query: 77 SPTVCS 82
               +
Sbjct: 68 YKEEIN 73


>gi|257083082|ref|ZP_05577443.1| conserved hypothetical protein [Enterococcus faecalis Fly1]
 gi|256991112|gb|EEU78414.1| conserved hypothetical protein [Enterococcus faecalis Fly1]
          Length = 257

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 29/60 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++ RR+    +QE++ + L +T Q V K+E G +      L  +S++    I      SP
Sbjct: 7  LKTRRITNHYTQEQIAQKLHVTTQAVSKWETGQSIPSIDNLLMLSDLYNVSIDELIQGSP 66


>gi|256960587|ref|ZP_05564758.1| conserved hypothetical protein [Enterococcus faecalis Merz96]
 gi|293384412|ref|ZP_06630293.1| putative helix-turn-helix protein [Enterococcus faecalis R712]
 gi|293389773|ref|ZP_06634215.1| putative helix-turn-helix protein [Enterococcus faecalis S613]
 gi|312906563|ref|ZP_07765564.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|312910745|ref|ZP_07769584.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
 gi|256951083|gb|EEU67715.1| conserved hypothetical protein [Enterococcus faecalis Merz96]
 gi|291078260|gb|EFE15624.1| putative helix-turn-helix protein [Enterococcus faecalis R712]
 gi|291080931|gb|EFE17894.1| putative helix-turn-helix protein [Enterococcus faecalis S613]
 gi|310627432|gb|EFQ10715.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|311289008|gb|EFQ67564.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
          Length = 257

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 29/60 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++ RR+    +QE++ + L +T Q V K+E G +      L  +S++    I      SP
Sbjct: 7  LKTRRITNHYTQEQIAQKLHVTTQAVSKWETGQSIPSIDNLLMLSDLYNVSIDELIQGSP 66


>gi|218134569|ref|ZP_03463373.1| hypothetical protein BACPEC_02472 [Bacteroides pectinophilus ATCC
          43243]
 gi|217989954|gb|EEC55965.1| hypothetical protein BACPEC_02472 [Bacteroides pectinophilus ATCC
          43243]
          Length = 268

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I   R   GMSQ++L E + +T Q V ++E G        L+ +S+     I+
Sbjct: 14 ILQLRTERGMSQDELAEKIMVTRQAVSRWENGETIPNTETLKLLSKEFNVSIN 66


>gi|89901996|ref|YP_524467.1| transcriptional regulator [Rhodoferax ferrireducens T118]
 gi|89346733|gb|ABD70936.1| transcriptional regulator, XRE family with cupin sensor domain
          [Rhodoferax ferrireducens T118]
          Length = 201

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 38/81 (46%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          + ++  P+  +  +G+RIR +R  LG + E+  +  G+    + K E G+       L  
Sbjct: 1  MNDQSEPSSSEALLGQRIRAQRSQLGWTLEQTSQATGLARSTLSKIENGLMSPTYDALIK 60

Query: 62 ISEVLESPISFFFDVSPTVCS 82
          ++  L+  IS  F+ +  +  
Sbjct: 61 LATGLQIDISELFEPNKNISG 81


>gi|71904207|ref|YP_281010.1| transcriptional regulator [Streptococcus pyogenes MGAS6180]
 gi|71803302|gb|AAX72655.1| transcriptional regulator [Streptococcus pyogenes MGAS6180]
          Length = 128

 Score = 54.8 bits (131), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I   R    +SQEKL E + ++ Q +  +E          L  +S++ +  + 
Sbjct: 4  MEIGQQIIRYRKQQALSQEKLAEKVYVSRQSISNWENDKTYPDIHSLLLLSQIFQVSLD 62


>gi|317406552|gb|EFV86747.1| hypothetical protein HMPREF0005_04959 [Achromobacter xylosoxidans
           C54]
          Length = 184

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 39/87 (44%), Gaps = 9/87 (10%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+R  R    +S E+LGE  G+T   + K E+G++    S +  ++E     +S      
Sbjct: 7   RLRALRRQQSLSLEQLGERTGLTKSYLSKLERGLSEPSISTVLRLAEAYGVGVS------ 60

Query: 78  PTVCSDISSEENNVMDF--ISTPDGLQ 102
             +     + ++ V+    ++  + LQ
Sbjct: 61  -QLVGGDGAAQDEVVSLVRVADREALQ 86


>gi|315147042|gb|EFT91058.1| helix-turn-helix protein [Enterococcus faecalis TX4244]
          Length = 257

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++ RR+    +QE++ + L +T Q + K+E G +      L  +S++    I      SP
Sbjct: 7  LKTRRINNHYTQEQIAQKLHVTTQAISKWETGQSIPSIDNLLMLSDLYNVSIDELIQGSP 66


>gi|310830109|ref|YP_003962466.1| toxin-antitoxin system [Eubacterium limosum KIST612]
 gi|308741843|gb|ADO39503.1| toxin-antitoxin system [Eubacterium limosum KIST612]
          Length = 111

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/94 (18%), Positives = 35/94 (37%), Gaps = 2/94 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+R+R  R    ++Q +L +  GIT   +   E+G          +++ VL      
Sbjct: 4   KYLGQRLRQFRKDAHLTQNQLAKKAGITPTYLSIIERGAQLPRLETFINLANVLSVSADD 63

Query: 73  -FFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
              +       ++        D + T + L L +
Sbjct: 64  LLMEDQTESRKNLYPSFCVPSDNL-TDEQLVLVQ 96


>gi|295093301|emb|CBK82392.1| Predicted transcriptional regulators [Coprococcus sp. ART55/1]
          Length = 255

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 27/53 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I   R   G+SQ+ L E + +T Q V ++E G        L+ +S+ L+  I+
Sbjct: 7  ILELRTKRGLSQDDLAEKVMVTRQAVSRWENGETVPNTDTLKLLSKELDVSIN 59


>gi|295399293|ref|ZP_06809275.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
 gi|294978759|gb|EFG54355.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
          Length = 80

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 34/63 (53%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G+RI+  R+  G++Q  + + LG  +   + + E G   + A ++  ++++L+  I+
Sbjct: 3  RQIGERIKEIRIKKGLTQSYVAKELGYKSPSMLSEIEAGKKGIDADKIPLLAKILDVDIN 62

Query: 72 FFF 74
            F
Sbjct: 63 ELF 65


>gi|295705639|ref|YP_003598714.1| DNA-binding protein [Bacillus megaterium DSM 319]
 gi|294803298|gb|ADF40364.1| DNA-binding protein [Bacillus megaterium DSM 319]
          Length = 66

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 26/60 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  RI+  R    MSQ++L +  G++ Q +   E        +    ++E L + +   F
Sbjct: 2  VENRIKELRKSKKMSQDELAKVCGVSRQTINAIENNKYDPSLTLAFQLAEELGATVDELF 61


>gi|257870456|ref|ZP_05650109.1| predicted protein [Enterococcus gallinarum EG2]
 gi|257804620|gb|EEV33442.1| predicted protein [Enterococcus gallinarum EG2]
          Length = 207

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 29/57 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + +G+ I+  R    M+Q+++   L +T Q + K+E+ ++      L  +S++    
Sbjct: 2  VEIGENIKKLRKAKRMTQKEVANQLNVTPQTISKWERNISYPDLDMLVKLSQLFHIS 58


>gi|326204877|ref|ZP_08194730.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
 gi|325984926|gb|EGD45769.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
          Length = 108

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 43/92 (46%), Gaps = 2/92 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +GKRIR  R  +G+++E+  E L ++   V + E+G  ++    + +IS+ L   + +
Sbjct: 4   KEIGKRIRDERESIGLTRERFAELLELSINFVGQIERGEKKMSLETITNISDCLHVSLDY 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
               +P    + +  +  +     + + + L 
Sbjct: 64  LIKGTPDSKINTTKLQKLISK--CSKEEISLI 93


>gi|255513995|gb|EET90259.1| transcriptional regulator, XRE family [Candidatus Micrarchaeum
           acidiphilum ARMAN-2]
          Length = 291

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 39/87 (44%), Gaps = 6/87 (6%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           K +PN      G+ I+  R + GMS+E L + +G++   + +YE G + +    L+ + +
Sbjct: 122 KSMPN------GELIKSLRKLSGMSREDLAKEVGLSKDSIYRYESGKSWISKKNLKKLED 175

Query: 65  VLESPISFFFDVSPTVCSDISSEENNV 91
                + F  +    V   I +    +
Sbjct: 176 YFGRSLKFDTEEYANVLEPIGTSSKGM 202


>gi|300861593|ref|ZP_07107677.1| helix-turn-helix protein [Enterococcus faecalis TUSoD Ef11]
 gi|295114549|emb|CBL33186.1| Predicted transcriptional regulators [Enterococcus sp. 7L76]
 gi|300849054|gb|EFK76807.1| helix-turn-helix protein [Enterococcus faecalis TUSoD Ef11]
 gi|315144082|gb|EFT88098.1| helix-turn-helix protein [Enterococcus faecalis TX2141]
          Length = 257

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++ RR+    +QE++ + L +T Q + K+E G +      L  +S++    I      SP
Sbjct: 7  LKTRRINNHYTQEQIAQKLHVTTQAISKWETGQSIPSIDNLLMLSDLYNVSIDELIQGSP 66


>gi|229016613|ref|ZP_04173552.1| Helix-turn-helix repressor protein [Bacillus cereus AH1273]
 gi|229022822|ref|ZP_04179345.1| Helix-turn-helix repressor protein [Bacillus cereus AH1272]
 gi|228738481|gb|EEL88954.1| Helix-turn-helix repressor protein [Bacillus cereus AH1272]
 gi|228744700|gb|EEL94763.1| Helix-turn-helix repressor protein [Bacillus cereus AH1273]
          Length = 71

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 7  EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIEHVF 60


>gi|218551631|ref|YP_002385423.1| Repressor protein C2 [Escherichia fergusonii ATCC 35469]
 gi|218359173|emb|CAQ91836.1| Repressor protein C2 [Escherichia fergusonii ATCC 35469]
          Length = 208

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 32/58 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          VG+RI+  R +   SQ++LG+  G++   V  +EK +N  G   L  +++   + I +
Sbjct: 4  VGQRIKALRRVTRTSQKELGKFCGVSDVAVGYWEKDINVPGGEALSKLAKFFNTSIDY 61


>gi|254245084|ref|ZP_04938406.1| hypothetical protein PA2G_05970 [Pseudomonas aeruginosa 2192]
 gi|126198462|gb|EAZ62525.1| hypothetical protein PA2G_05970 [Pseudomonas aeruginosa 2192]
          Length = 265

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 3/66 (4%)

Query: 20  RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPT 79
           + +R  LG++QE +   LGIT   +  Y  G N + A     I+E+L+  +  F   SP 
Sbjct: 41  QQKRHELGLTQEGIARRLGITQGSLSHYLNGRNALNAEFAVKIAELLQVAVGSF---SPR 97

Query: 80  VCSDIS 85
           +  +I+
Sbjct: 98  LEEEIT 103


>gi|110680615|ref|YP_683622.1| DNA-binding protein, putative [Roseobacter denitrificans OCh 114]
 gi|109456731|gb|ABG32936.1| DNA-binding protein, putative [Roseobacter denitrificans OCh 114]
          Length = 356

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 31/62 (50%), Gaps = 1/62 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R    ++ + L E +G++   + KYE G +    +  + ++  L  P+ FFF  +
Sbjct: 6  RLKTARERRMLTAKGLAERVGVSAVTLSKYENG-HAPDEATAKRLAMALSYPLDFFFREA 64

Query: 78 PT 79
          P 
Sbjct: 65 PE 66


>gi|325833014|ref|ZP_08165641.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|325485731|gb|EGC88196.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 153

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 34/92 (36%), Gaps = 7/92 (7%)

Query: 5   KKIPNPVDINV-------GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           K  P   D  V       G+ +R  R   G++QE+LG  +G    ++   E+G       
Sbjct: 36  KNTPAYHDPLVQQYAFILGENLRQLRKAQGLTQERLGLMIGTGHSRISNIERGRVVPSVP 95

Query: 58  RLQHISEVLESPISFFFDVSPTVCSDISSEEN 89
            +  +   LE+      D +    SD    + 
Sbjct: 96  DMIKLCRALEADPVELVDTAAFKLSDFPERQQ 127


>gi|317508465|ref|ZP_07966134.1| hypothetical protein HMPREF9336_02506 [Segniliparus rugosus ATCC
          BAA-974]
 gi|316253243|gb|EFV12644.1| hypothetical protein HMPREF9336_02506 [Segniliparus rugosus ATCC
          BAA-974]
          Length = 177

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 27/63 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R    M+ E+L E  G+T   + K E+G++    +    I+  L   ++  FD   
Sbjct: 5  LRAARHQQRMTLEELAERTGLTKSYLSKVERGLSTPSIAVALKIAGALGVDVARLFDPES 64

Query: 79 TVC 81
             
Sbjct: 65 GDE 67


>gi|309777434|ref|ZP_07672392.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 3_1_53]
 gi|308914830|gb|EFP60612.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 3_1_53]
          Length = 183

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 31/75 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RIR  R    ++Q+ +   L I    + ++E+G       +L  + E+LE+   +   +
Sbjct: 3  NRIRQVRKAKKLTQQDIARKLNINQTAISQWERGSTVPKNEKLIQLCEILETSSDYLLGI 62

Query: 77 SPTVCSDISSEENNV 91
          S       +  +  V
Sbjct: 63 SDDPAFRDAESKAVV 77


>gi|257792151|ref|YP_003182757.1| transcriptional regulator, XRE family [Eggerthella lenta DSM 2243]
 gi|257476048|gb|ACV56368.1| transcriptional regulator, XRE family [Eggerthella lenta DSM 2243]
          Length = 141

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 34/92 (36%), Gaps = 7/92 (7%)

Query: 5   KKIPNPVDINV-------GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           K  P   D  V       G+ +R  R   G++QE+LG  +G    ++   E+G       
Sbjct: 24  KNTPAYHDPLVQQYAFILGENLRQLRKAQGLTQERLGLMIGTGHSRISNIERGRVVPSVP 83

Query: 58  RLQHISEVLESPISFFFDVSPTVCSDISSEEN 89
            +  +   LE+      D +    SD    + 
Sbjct: 84  DMIKLCRALEADPVELVDTAAFKLSDFPERQQ 115


>gi|222150964|ref|YP_002560117.1| hypothetical protein MCCL_0714 [Macrococcus caseolyticus
          JCSC5402]
 gi|222120086|dbj|BAH17421.1| conserved hypothetical protein [Macrococcus caseolyticus
          JCSC5402]
          Length = 180

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 32/62 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK+I+  R    ++QE+LGE   ++   + + E+ +         +I EVL S    
Sbjct: 1  MDIGKKIKDLRRQKNLTQEELGERTDLSKGYISQLERNLCSPSMETFFNILEVLGSKPKD 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|154497045|ref|ZP_02035741.1| hypothetical protein BACCAP_01338 [Bacteroides capillosus ATCC
          29799]
 gi|150273444|gb|EDN00572.1| hypothetical protein BACCAP_01338 [Bacteroides capillosus ATCC
          29799]
          Length = 94

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 2/66 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           R+   R   GM+QE+L E L ++ Q V   E G           I+ + E+ I   F +
Sbjct: 29 NRLEELRKARGMTQEELAEALEVSRQTVGSLENGRYNPSILLAFKIARLFETTIEEVFLY 88

Query: 75 DVSPTV 80
          +     
Sbjct: 89 EEQGEE 94


>gi|153813857|ref|ZP_01966525.1| hypothetical protein RUMTOR_00063 [Ruminococcus torques ATCC
          27756]
 gi|331088191|ref|ZP_08337110.1| hypothetical protein HMPREF1025_00693 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|145848253|gb|EDK25171.1| hypothetical protein RUMTOR_00063 [Ruminococcus torques ATCC
          27756]
 gi|330408435|gb|EGG87901.1| hypothetical protein HMPREF1025_00693 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 215

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N+G++I   R   G+SQ+       ++ Q +  +E G +      +  +S+  +  I 
Sbjct: 1  MNIGEQINNLRKQHGLSQDDFANLFNVSRQTISNWENGKSYPDLEMIIKVSDYFKISID 59


>gi|110636925|ref|YP_677132.1| transcriptional regulator [Cytophaga hutchinsonii ATCC 33406]
 gi|110279606|gb|ABG57792.1| transcriptional regulator [Cytophaga hutchinsonii ATCC 33406]
          Length = 75

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 34/76 (44%), Gaps = 1/76 (1%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M+ +    + +   +GK+I+  R   G+SQ  L +  GI+  Q+ + E G      + L 
Sbjct: 1  MIMSLTKEHFL-KTIGKKIKTLREAKGLSQYALSDESGISRSQIVRLENGDLNCTLATLL 59

Query: 61 HISEVLESPISFFFDV 76
           ++E L        DV
Sbjct: 60 VLAETLGVEPKDLLDV 75


>gi|27764612|ref|NP_776234.1| Yga2B [Corynebacterium glutamicum]
 gi|27657783|gb|AAO18211.1| Yga2B [Corynebacterium glutamicum]
          Length = 81

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 4/69 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +KK    + I +G RIR  R  LG+SQE+L    G+    V   E+G   +    L 
Sbjct: 1  MTPDKK----ILIQLGGRIRDVRKGLGISQEELAHLSGMHRTYVSSVERGERNISVLNLL 56

Query: 61 HISEVLESP 69
           ++ VL   
Sbjct: 57 SLAGVLGVD 65


>gi|330447298|ref|ZP_08310948.1| helix-turn-helix family protein [Photobacterium leiognathi subsp.
          mandapamensis svers.1.1.]
 gi|328491489|dbj|GAA05445.1| helix-turn-helix family protein [Photobacterium leiognathi subsp.
          mandapamensis svers.1.1.]
          Length = 112

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 30/68 (44%), Gaps = 1/68 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-FDV 76
          +IR  R   G++Q  + + LG+  Q     E G        L +I+++    +S+F +D 
Sbjct: 7  KIREAREWKGITQVAMAKQLGVARQTYLDLESGKTEPRVLMLLNIAKITGRSLSWFLYDD 66

Query: 77 SPTVCSDI 84
                DI
Sbjct: 67 GNPEYGDI 74


>gi|229070774|ref|ZP_04204003.1| hypothetical protein bcere0025_29500 [Bacillus cereus F65185]
 gi|228712353|gb|EEL64299.1| hypothetical protein bcere0025_29500 [Bacillus cereus F65185]
          Length = 374

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  IHIHKIIADKRKEKGITQEELATYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
              +P +  +
Sbjct: 64 LISYTPQMKQE 74


>gi|125718672|ref|YP_001035805.1| YorfE protein [Streptococcus sanguinis SK36]
 gi|323350334|ref|ZP_08085999.1| transcriptional regulator [Streptococcus sanguinis VMC66]
 gi|125498589|gb|ABN45255.1| YorfE protein, putative [Streptococcus sanguinis SK36]
 gi|322123519|gb|EFX95190.1| transcriptional regulator [Streptococcus sanguinis VMC66]
 gi|328945063|gb|EGG39219.1| transcriptional regulator [Streptococcus sanguinis SK1087]
          Length = 71

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R    MSQ +L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 2  NRVKEFRKEKKMSQLELAKSIGVSRQTINMIENNKYNPTLELCINLARALDTDLNALF 59


>gi|118478614|ref|YP_895765.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|118417839|gb|ABK86258.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
          Length = 374

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 33/75 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  IHIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSDISSE 87
               P +  +   E
Sbjct: 64 LISYKPQMEQEDIKE 78


>gi|29348192|ref|NP_811695.1| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482]
 gi|253569505|ref|ZP_04846915.1| transcriptional regulator [Bacteroides sp. 1_1_6]
 gi|298386116|ref|ZP_06995673.1| DNA-binding protein [Bacteroides sp. 1_1_14]
 gi|29340095|gb|AAO77889.1| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482]
 gi|251841524|gb|EES69605.1| transcriptional regulator [Bacteroides sp. 1_1_6]
 gi|298261344|gb|EFI04211.1| DNA-binding protein [Bacteroides sp. 1_1_14]
          Length = 191

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 33/68 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    +S E+L +  G+  +Q+++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKALREDKSISIEELAQRSGLAIEQIERIENNIDIPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D    +  
Sbjct: 67 DDQDEIGP 74


>gi|329116487|ref|ZP_08245204.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
 gi|326906892|gb|EGE53806.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
          Length = 121

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLES 68
          VG+RI+  R    + Q +L E +G   Q  + K+E G N     +L  +++ L +
Sbjct: 10 VGRRIKQLRESRNIEQLELAELMGYKSQSTISKWESGTNLPNGGKLVKLAKALNT 64


>gi|326381708|ref|ZP_08203402.1| helix-turn-helix domain-containing protein [Gordonia
          neofelifaecis NRRL B-59395]
 gi|326199955|gb|EGD57135.1| helix-turn-helix domain-containing protein [Gordonia
          neofelifaecis NRRL B-59395]
          Length = 96

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 32/69 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +   R+  GM+Q++L    G++   + + E G + + + R+  ++E L +  +  + 
Sbjct: 24 GAALAQARLTAGMTQDELAAASGVSRPTISRLELGTSSISSDRVWDLAEALGTTPADIYA 83

Query: 76 VSPTVCSDI 84
          V+       
Sbjct: 84 VAQREARAT 92


>gi|325068956|ref|ZP_08127629.1| XRE family transcriptional regulator [Actinomyces oris K20]
          Length = 80

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 1/70 (1%)

Query: 1  MVGNKKIP-NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M  ++K P +P     G+R+R RR  LG+SQEKL E   + +  + + E+G   +    +
Sbjct: 1  MPTDRKPPLSPATGEFGRRVRARREQLGLSQEKLAERTTLHWSYIGQVERGQRNLSLHNI 60

Query: 60 QHISEVLESP 69
            I+  L++ 
Sbjct: 61 LRIAHALDTD 70


>gi|289522427|ref|ZP_06439281.1| LexA repressor [Anaerobaculum hydrogeniformans ATCC BAA-1850]
 gi|289504263|gb|EFD25427.1| LexA repressor [Anaerobaculum hydrogeniformans ATCC BAA-1850]
          Length = 216

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 29/59 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RIR  R  + M+  +L   +  +   + + E+G      + L  I++ L++ I + 
Sbjct: 2  LGERIRTLRKKMRMTATELARRVKTSPSHISEIERGEKTPSLNLLVKIAKELQTSIDYL 60


>gi|269838117|ref|YP_003320345.1| transcriptional regulator, XRE family [Sphaerobacter thermophilus
          DSM 20745]
 gi|269787380|gb|ACZ39523.1| transcriptional regulator, XRE family [Sphaerobacter thermophilus
          DSM 20745]
          Length = 68

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G +Q+ LG  +G++ Q +   E G           ++ V E+ I   F
Sbjct: 3  NRVREARQKQGWTQDDLGRRVGVSRQTINAIENGRYDPSLPLAFKLARVFETTIEDLF 60


>gi|258512333|ref|YP_003185767.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
 gi|257479059|gb|ACV59378.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
          Length = 165

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 24/54 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          VG+RI   R   G++Q KL E   ++   +  YE    +     L  I+E L  
Sbjct: 10 VGERIAQLRKERGLTQAKLAERARLSTSAIAMYETNRRQPDERTLAQIAEALGV 63


>gi|218690255|ref|YP_002398467.1| Repressor protein CI from phage [Escherichia coli ED1a]
 gi|218427819|emb|CAR08732.2| Repressor protein CI from phage [Escherichia coli ED1a]
          Length = 215

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 3/69 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-- 71
          +G+RI+  R   G+SQ +L +  G     ++  YE G  +V A     +   L    +  
Sbjct: 8  IGERIKSLREAKGLSQAQLAKLCGWAAPSRLGNYELGTRKVSADDALVLGAALGVSPAKI 67

Query: 72 FFFDVSPTV 80
           F + S  V
Sbjct: 68 MFGEDSDAV 76


>gi|222054772|ref|YP_002537134.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221564061|gb|ACM20033.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 181

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 39/87 (44%), Gaps = 2/87 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R++  RMI  ++QE+L     +T   + + E        + L+ I +V    +  
Sbjct: 1  MKIGERLKRLRMINSLTQEELASRADLTKGYISQLENDATSPSIATLKDIIDVFGVSMQE 60

Query: 73 FFDVSPTVCSDISSEENNVMDFISTPD 99
          FF  S T+  D+   ++  +      +
Sbjct: 61 FF--SETIDEDVVYGKDYRVQASGDDE 85


>gi|15802659|ref|NP_288686.1| putative repressor protein CI of prophage CP-933V [Escherichia
          coli O157:H7 EDL933]
 gi|12516411|gb|AAG57241.1|AE005443_9 putative repressor protein CI of prophage CP-933V [Escherichia
          coli O157:H7 str. EDL933]
          Length = 215

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 3/69 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-- 71
          +G+RI+  R   G+SQ +L +  G     ++  YE G  +V A     +   L    +  
Sbjct: 8  IGERIKSLREAKGLSQAQLAKLCGWAAPSRLGNYELGTRKVSADDALVLGAALGVSPAKI 67

Query: 72 FFFDVSPTV 80
           F + S  V
Sbjct: 68 MFGEDSDAV 76


>gi|15832244|ref|NP_311017.1| prophage repressor CI [Escherichia coli O157:H7 str. Sakai]
 gi|168764190|ref|ZP_02789197.1| repressor protein CI [Escherichia coli O157:H7 str. EC4501]
 gi|11875129|dbj|BAB19608.1| CI protein [Enterobacteria phage VT1-Sakai]
 gi|13362459|dbj|BAB36413.1| putative prophage repressor CI [Escherichia coli O157:H7 str.
          Sakai]
 gi|189365770|gb|EDU84186.1| repressor protein CI [Escherichia coli O157:H7 str. EC4501]
 gi|326343910|gb|EGD67671.1| Putative prophage repressor CI [Escherichia coli O157:H7 str.
          1044]
          Length = 212

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 3/69 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-- 71
          +G+RI+  R   G+SQ +L +  G     ++  YE G  +V A     +   L    +  
Sbjct: 5  IGERIKSLREAKGLSQAQLAKLCGWAAPSRLGNYELGTRKVSADDALVLGAALGVSPAKI 64

Query: 72 FFFDVSPTV 80
           F + S  V
Sbjct: 65 MFGEDSDAV 73


>gi|193070526|ref|ZP_03051466.1| repressor protein CI [Escherichia coli E110019]
 gi|192956220|gb|EDV86683.1| repressor protein CI [Escherichia coli E110019]
          Length = 215

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 3/69 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-- 71
          +G+RI+  R   G+SQ +L +  G     ++  YE G  +V A     +   L    +  
Sbjct: 8  IGERIKSLREAKGLSQAQLAKLCGWAAPSRLGNYELGTRKVSADDALVLGAALGVSPAKI 67

Query: 72 FFFDVSPTV 80
           F + S  V
Sbjct: 68 MFGEDSDAV 76


>gi|329117486|ref|ZP_08246203.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
 gi|326907891|gb|EGE54805.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
          Length = 194

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 32/77 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK++   R   G+SQE L E + ++ Q +  +E   +      L  ++ + +  +  
Sbjct: 1  MELGKKLSSCRKKAGLSQEDLAEKIYVSRQTISNWENDKSYPDIHSLIALANLFQLSLDQ 60

Query: 73 FFDVSPTVCSDISSEEN 89
            +        I   ++
Sbjct: 61 LVEGDIDEMKKIVQSDD 77


>gi|255528296|ref|ZP_05395109.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|255508014|gb|EET84441.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
          Length = 71

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 30/68 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R   G++  +L +  G+T   + + E+ +     S L+ IS  LE PI  F 
Sbjct: 2  LGPKIREIRQEKGLTLNELADKTGLTASYLSQIERNIIDPSLSSLRKISLSLEVPIYTFL 61

Query: 75 DVSPTVCS 82
                  
Sbjct: 62 TDEKKTKG 69


>gi|182624148|ref|ZP_02951935.1| transcriptional regulator [Clostridium perfringens D str.
          JGS1721]
 gi|177910764|gb|EDT73124.1| transcriptional regulator [Clostridium perfringens D str.
          JGS1721]
          Length = 141

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 25/55 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +++  R    +SQE+L + L I+ Q + K+E G        L  + ++    + 
Sbjct: 5  NKLKELRKEKNISQEQLAKELNISRQAISKWESGKAYPDIDNLILLRKIFGVSLD 59


>gi|153954530|ref|YP_001395295.1| hypothetical protein CKL_1912 [Clostridium kluyveri DSM 555]
 gi|146347388|gb|EDK33924.1| Hypothetical protein CKL_1912 [Clostridium kluyveri DSM 555]
          Length = 100

 Score = 54.4 bits (130), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/97 (18%), Positives = 41/97 (42%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G+RI+  R+   ++  +L + +G+T + + + E          L+ +   L   ++ 
Sbjct: 1   MQFGERIKSLRLSNKLTATQLAKDIGVTREYLSRLENNAKSPSFELLEKLCGALNITLAE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
           FF    +       +E    +   TP+ L+    FI+
Sbjct: 61  FFKTDSSDIIPEHFKEFINQNKNLTPEQLEKLNEFIK 97


>gi|325849104|ref|ZP_08170596.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
 gi|325480349|gb|EGC83412.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
          Length = 202

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 28/60 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++VG R++  R   G +Q  L + L +T   +  YE+         L+  +++ +  + +
Sbjct: 1  MSVGVRLKQLRKSSGKTQRDLAKLLYVTASSIGMYERDERTPSPDVLKKYADIFDVSLDY 60


>gi|306824544|ref|ZP_07457890.1| XRE family transcriptional regulator [Streptococcus sp. oral
          taxon 071 str. 73H25AP]
 gi|306830126|ref|ZP_07463310.1| XRE family transcriptional regulator [Streptococcus mitis ATCC
          6249]
 gi|304427652|gb|EFM30748.1| XRE family transcriptional regulator [Streptococcus mitis ATCC
          6249]
 gi|304433331|gb|EFM36301.1| XRE family transcriptional regulator [Streptococcus sp. oral
          taxon 071 str. 73H25AP]
          Length = 64

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R  LG+SQ  L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 2  NRVKEFRKELGISQLDLAKDIGVSRQTINMIENDKYNPTLELCLNLARSLQTDLNSLF 59


>gi|322434546|ref|YP_004216758.1| helix-turn-helix domain protein [Acidobacterium sp. MP5ACTX9]
 gi|321162273|gb|ADW67978.1| helix-turn-helix domain protein [Acidobacterium sp. MP5ACTX9]
          Length = 135

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 28/121 (23%), Positives = 52/121 (42%), Gaps = 7/121 (5%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            + +N+G  IR  R+  GMSQ  + +  G+    + + E G        LQ I+  L+  
Sbjct: 18  SISMNIGTTIRDYRLQRGMSQGDIEKRTGLLRCYLSRVENGHTVPSLETLQKIAGALDLQ 77

Query: 70  IS-FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           +S FF +          +     + F++     Q+ RY   + D   R+ ++ +VR   S
Sbjct: 78  LSQFFAEDQVQKEVSTLNLSEEEIRFLT-----QVQRYSAHLSDSD-RRLLLAMVRKFAS 131

Query: 129 S 129
           +
Sbjct: 132 T 132


>gi|289769674|ref|ZP_06529052.1| transcriptional regulator [Streptomyces lividans TK24]
 gi|289699873|gb|EFD67302.1| transcriptional regulator [Streptomyces lividans TK24]
          Length = 208

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 28/71 (39%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G       V  ++G R+R  R   G++  +L    GI+   + + E G    G   L 
Sbjct: 7  MSGGDDETAQVMTSLGARLRAIRQARGLTLAQLAAATGISVSTLSRLESGQREPGLRHLL 66

Query: 61 HISEVLESPIS 71
           ++     P+ 
Sbjct: 67 PLARAHRLPLD 77


>gi|253752177|ref|YP_003025318.1| DNA-binding membrane protein [Streptococcus suis SC84]
 gi|253754003|ref|YP_003027144.1| DNA-binding membrane protein [Streptococcus suis P1/7]
 gi|253755938|ref|YP_003029078.1| DNA-binding membrane protein [Streptococcus suis BM407]
 gi|251816466|emb|CAZ52102.1| putative DNA-binding membrane protein [Streptococcus suis SC84]
 gi|251818402|emb|CAZ56230.1| putative DNA-binding membrane protein [Streptococcus suis BM407]
 gi|251820249|emb|CAR46699.1| putative DNA-binding membrane protein [Streptococcus suis P1/7]
 gi|319758564|gb|ADV70506.1| putative DNA-binding membrane protein [Streptococcus suis JS14]
          Length = 158

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N G++I+  R   G++QE+    L +T Q V  +E   N      L  +S V    + 
Sbjct: 1  MNFGQQIKDLRKKKGLTQEQFALKLNVTRQAVSNWENDKNLPDLELLILMSSVFSISLD 59


>gi|198277577|ref|ZP_03210108.1| hypothetical protein BACPLE_03799 [Bacteroides plebeius DSM
          17135]
 gi|198270075|gb|EDY94345.1| hypothetical protein BACPLE_03799 [Bacteroides plebeius DSM
          17135]
          Length = 184

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 28/67 (41%), Gaps = 1/67 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+RIR  R  L +S E +    G+   + Q+ E G   +  S LQ I      P+  
Sbjct: 6  RQIGERIRGLRDALDLSVEDMAGQCGLPVDKYQQIESGECDIAVSTLQQIGRKCNVPLDV 65

Query: 73 F-FDVSP 78
            F   P
Sbjct: 66 LMFGEEP 72


>gi|332974608|gb|EGK11526.1| LexA family repressor/S24 family protease [Psychrobacter sp.
          1501(2011)]
          Length = 212

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 32/68 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+   R    +S++ LG  +G++   ++ +E+  N      +  +S+V    I +  
Sbjct: 4  LGQRLFNLRRSKKLSRDALGAKIGVSKTAIKNWEEDSNFPKHEFIDGLSKVFGCSIGYLV 63

Query: 75 DVSPTVCS 82
          D  P   +
Sbjct: 64 DGIPDGDN 71


>gi|312868248|ref|ZP_07728448.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
 gi|311095993|gb|EFQ54237.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
          Length = 115

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/87 (16%), Positives = 39/87 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +   +R++  R   G++Q  + E LGI+      +E+G+ +     L  +S++L   + +
Sbjct: 1  MEFSERLKNLRKEAGLTQVDVAEKLGISQPAYASWERGIKKPTQDNLVKLSKILYVSVDY 60

Query: 73 FFDVSPTVCSDISSEENNVMDFISTPD 99
              +    +    E+  ++  +++  
Sbjct: 61 LLGNTENRQTSDVLEDIELLFRMNSKG 87


>gi|307545572|ref|YP_003898051.1| XRE family transcriptional regulator [Halomonas elongata DSM
          2581]
 gi|307217596|emb|CBV42866.1| transcriptional regulator, XRE family [Halomonas elongata DSM
          2581]
          Length = 200

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 27/66 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R    +SQ +L +   +T   +   E+       S L+ I + L   I+ FF
Sbjct: 7  VGARLRQLRQERQLSQRELAKRAQVTNSTISLIEQNSVSPSVSSLKKILDALPVSITAFF 66

Query: 75 DVSPTV 80
                
Sbjct: 67 AGEEPS 72


>gi|262368258|ref|ZP_06061587.1| transcriptional regulator [Acinetobacter johnsonii SH046]
 gi|262315936|gb|EEY96974.1| transcriptional regulator [Acinetobacter johnsonii SH046]
          Length = 106

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 26/92 (28%), Positives = 47/92 (51%), Gaps = 9/92 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R+R+ R    +SQE+LG   GI       ++ +YE+G +         I+E+L+ P ++F
Sbjct: 12  RLRIARKAKKLSQERLGILAGIDESSASARMNQYERGKHVPDFLMASKIAEILDLPTAYF 71

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           +     V +D+S+E   V   +S    L++ R
Sbjct: 72  Y-----VENDLSAEIIQVSHALSNEQKLEVLR 98


>gi|229529008|ref|ZP_04418398.1| Transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          12129(1)]
 gi|229332782|gb|EEN98268.1| Transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          12129(1)]
 gi|327484506|gb|AEA78913.1| Transcriptional regulator yidN, Cro/CI family [Vibrio cholerae
          LMA3894-4]
          Length = 181

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 35/78 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  +++  R   G+S +   +  G++   + + E+G +    + L  I+  LE+  S F
Sbjct: 9  QIANQLKKLRKSRGLSLDTTAQLTGVSKAMLGQIERGESSPTIATLWKIASGLEASFSAF 68

Query: 74 FDVSPTVCSDISSEENNV 91
          F   P + S   S  ++ 
Sbjct: 69 FANDPQLLSSERSFPDDP 86


>gi|228991352|ref|ZP_04151308.1| Transcriptional regulator, MerR [Bacillus pseudomycoides DSM
          12442]
 gi|228997428|ref|ZP_04157047.1| Transcriptional regulator, MerR [Bacillus mycoides Rock3-17]
 gi|229005073|ref|ZP_04162797.1| Transcriptional regulator, MerR [Bacillus mycoides Rock1-4]
 gi|228756175|gb|EEM05496.1| Transcriptional regulator, MerR [Bacillus mycoides Rock1-4]
 gi|228762304|gb|EEM11231.1| Transcriptional regulator, MerR [Bacillus mycoides Rock3-17]
 gi|228768370|gb|EEM16977.1| Transcriptional regulator, MerR [Bacillus pseudomycoides DSM
          12442]
          Length = 181

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 32/62 (51%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +IN+GK+++  R    +S  +L +   IT   + + E+G+       L+ +++ LE P  
Sbjct: 3  NINIGKKVKELREYKELSMRELAKMAEITPSMLSQIERGLANPSIQTLKLLAKALEVPTF 62

Query: 72 FF 73
           F
Sbjct: 63 SF 64


>gi|218289603|ref|ZP_03493823.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
 gi|218240253|gb|EED07436.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
          Length = 436

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G++IR  R   GM+Q +L   L  T   + + E       A  L HI+  L   +S F
Sbjct: 4  LGQKIRALRKARGMTQSELARGLA-TASMISQIESDRTMPSAQLLAHIAARLGVDVSEF 61


>gi|222530443|ref|YP_002574325.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
          DSM 6725]
 gi|222457290|gb|ACM61552.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          bescii DSM 6725]
          Length = 67

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPI 70
          GK+I+  R + G SQ++L +  G++   + + E G         ++ I+EVLE  I
Sbjct: 4  GKKIKELRKLKGFSQKELAKLTGVSQSYISELEAGIKTNPSIKVIKRIAEVLEIDI 59


>gi|166032986|ref|ZP_02235815.1| hypothetical protein DORFOR_02707 [Dorea formicigenerans ATCC
          27755]
 gi|225028332|ref|ZP_03717524.1| hypothetical protein EUBHAL_02604 [Eubacterium hallii DSM 3353]
 gi|166027343|gb|EDR46100.1| hypothetical protein DORFOR_02707 [Dorea formicigenerans ATCC
          27755]
 gi|224954378|gb|EEG35587.1| hypothetical protein EUBHAL_02604 [Eubacterium hallii DSM 3353]
          Length = 152

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 13/76 (17%), Positives = 37/76 (48%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
          +  G+++R  R    MSQ++L   +G++++ ++ +E        + L   +++ L+  +S
Sbjct: 14 MTFGEKVRSLRKEKKMSQQELASMVGVSYRTIRSWEVEGRFPKQNVLYQKLADALQCDVS 73

Query: 72 FFFDVSPTVCSDISSE 87
          +         ++ S +
Sbjct: 74 YLMSEDEAFITEASEQ 89


>gi|154502909|ref|ZP_02039969.1| hypothetical protein RUMGNA_00729 [Ruminococcus gnavus ATCC
          29149]
 gi|153796448|gb|EDN78868.1| hypothetical protein RUMGNA_00729 [Ruminococcus gnavus ATCC
          29149]
          Length = 118

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 23/91 (25%), Positives = 45/91 (49%), Gaps = 4/91 (4%)

Query: 10 PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+D    +G+++R  R    ++Q++L +   ++ +Q+ K EKG        L+ +++VL 
Sbjct: 2  PIDDLTALGQKMREARKKKDLTQQELADLSHVSIKQIAKIEKGKINPSYLILKALAKVL- 60

Query: 68 SPISFFFDVSPTVCSDISSEENNVMDFISTP 98
           PIS    ++P V  +        M + S P
Sbjct: 61 -PISLDTLINPDVSPEDEGATQMKMLYCSCP 90


>gi|145220714|ref|YP_001131392.1| hypothetical protein Mflv_0109 [Mycobacterium gilvum PYR-GCK]
 gi|315442334|ref|YP_004075213.1| transcriptional regulator [Mycobacterium sp. Spyr1]
 gi|145213200|gb|ABP42604.1| protein of unknown function DUF955 [Mycobacterium gilvum PYR-GCK]
 gi|315260637|gb|ADT97378.1| predicted transcriptional regulator [Mycobacterium sp. Spyr1]
          Length = 482

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 26/134 (19%), Positives = 51/134 (38%), Gaps = 18/134 (13%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5   FVGARVRQLRSERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74  FDVSPTVCS------------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                T               D+  +   + + +++     L R  + +     R+  + 
Sbjct: 65  ASQDDTRLIAELREVTMDRDLDVEVDPAEIAEVVASH--PSLARAMVNL----HRRYQLT 118

Query: 122 LVRSIVSSEKKYRT 135
             +   ++E ++ T
Sbjct: 119 TTQLAAATEDRFNT 132


>gi|104780997|ref|YP_607495.1| Cro/CI family transcriptional regulator [Pseudomonas entomophila
          L48]
 gi|95109984|emb|CAK14689.1| putative transcriptional regulator, Cro/CI family [Pseudomonas
          entomophila L48]
          Length = 104

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 28/71 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R +  ++Q +LGE  G   + + ++E G        L + +E L      FF
Sbjct: 6  LGPALRRYRKLASLTQAQLGERTGFDPKTISRFETGTYTPSIEALMNFAEALGVKPKVFF 65

Query: 75 DVSPTVCSDIS 85
                    +
Sbjct: 66 AEPDDEEEQRA 76


>gi|9630498|ref|NP_046933.1| CB [Enterobacteria phage N15]
 gi|1184742|gb|AAB81655.1| repressor protein [Enterobacteria phage N15]
 gi|3192717|gb|AAC19070.1| gp38 [Enterobacteria phage N15]
 gi|89158281|gb|ABD62892.1| cB [Cloning vector pJAZZ-KA]
 gi|124491097|gb|ABN12903.1| CB [Cloning vector pN15E4]
 gi|124491104|gb|ABN12909.1| CB [Cloning vector pN15E6]
 gi|205318621|gb|ACI02337.1| CB [Linear cloning vector pJAZZ-OK]
 gi|269974867|gb|ACZ55231.1| phage repressor cB [Cloning vector pJAZZ-OCmin]
          Length = 202

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 36/77 (46%), Gaps = 3/77 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          G+R++ RR+ L ++ +++ E +GI+   VQ  E+G           +++ L  P+ +   
Sbjct: 9  GERLKARRLELKLTLKQVAEAVGISLPGVQNLERGDVMPSLEIGLSLAKCLRKPVQWILY 68

Query: 75 --DVSPTVCSDISSEEN 89
            +  P     I + E 
Sbjct: 69 GTESDPDRVPVIGTTET 85


>gi|107029107|ref|YP_626202.1| XRE family transcriptional regulator [Burkholderia cenocepacia AU
           1054]
 gi|116689734|ref|YP_835357.1| XRE family transcriptional regulator [Burkholderia cenocepacia
           HI2424]
 gi|170733070|ref|YP_001765017.1| XRE family transcriptional regulator [Burkholderia cenocepacia
           MC0-3]
 gi|105898271|gb|ABF81229.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia cenocepacia AU 1054]
 gi|116647823|gb|ABK08464.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia cenocepacia HI2424]
 gi|169816312|gb|ACA90895.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
           MC0-3]
          Length = 191

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 24/126 (19%), Positives = 47/126 (37%), Gaps = 7/126 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V +++G +IR  R  L ++ ++     GI+   + + E+G      + L  I++ L   +
Sbjct: 11  VAVSLGNKIRALRQRLKLTLDETAGIAGISKPFLSQVERGRATPSITSLVRIAQALGVTM 70

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-VKVRQKIIELVRSIVSS 129
            +F D      S           F ++         F ++ + V  R+    LVR     
Sbjct: 71  QYFIDTPTEARSVCRGNAMQYFQFANS------ASLFARLTNLVDGRKLDAILVRMPAGQ 124

Query: 130 EKKYRT 135
                T
Sbjct: 125 SPSEIT 130


>gi|167746879|ref|ZP_02419006.1| hypothetical protein ANACAC_01591 [Anaerostipes caccae DSM 14662]
 gi|317471690|ref|ZP_07931031.1| hypothetical protein HMPREF1011_01379 [Anaerostipes sp.
          3_2_56FAA]
 gi|167653839|gb|EDR97968.1| hypothetical protein ANACAC_01591 [Anaerostipes caccae DSM 14662]
 gi|316900794|gb|EFV22767.1| hypothetical protein HMPREF1011_01379 [Anaerostipes sp.
          3_2_56FAA]
          Length = 194

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK I+  R    ++Q +L E + I+ + + K+E+G+     S    +S V +  +
Sbjct: 6  IGKLIKTLRKEKQLTQMQLAEHMNISDKTISKWERGLGCPDISFFPKLSGVFDVDL 61


>gi|78186562|ref|YP_374605.1| XRE family transcriptional regulator [Chlorobium luteolum DSM
          273]
 gi|78166464|gb|ABB23562.1| transcriptional regulator, XRE family [Chlorobium luteolum DSM
          273]
          Length = 101

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 29/62 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR+ R++   +QEKL    G++   +   E+G   +       +++ L+  I    
Sbjct: 24 LGLKIRIARIMASYTQEKLAVRSGLSMAYIGMIERGEKNITILNCHKLAKALDITIGDLL 83

Query: 75 DV 76
          D 
Sbjct: 84 DG 85


>gi|56698227|ref|YP_168599.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
 gi|56679964|gb|AAV96630.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
          Length = 189

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P    +G  +R  R   G++  ++   LG +   + + E+ ++    S L+ I+  L  P
Sbjct: 6  PSSATLGADLRALRKARGLTLSEIAARLGRSVGWLSQVERDMSEPSISDLRQIAGCLGVP 65

Query: 70 ISFFFDVSPTVCSD 83
          +S  F  +     +
Sbjct: 66 MSMLFAHAAAPAEE 79


>gi|55822658|ref|YP_141099.1| restriction-modification system regulatory protein [Streptococcus
          thermophilus CNRZ1066]
 gi|55738643|gb|AAV62284.1| restriction-modification system regulatory protein, putative
          [Streptococcus thermophilus CNRZ1066]
          Length = 75

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 28/64 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +  GKRI+  R   G+SQEK    +G+        E G   V    ++ I+   +  I
Sbjct: 2  IQVAFGKRIKELRKQTGLSQEKFALKIGMDRTYYASIESGKRNVSLKNIEKIASGFDISI 61

Query: 71 SFFF 74
          S  F
Sbjct: 62 SQLF 65


>gi|42780467|ref|NP_977714.1| transcriptional regulator SinR [Bacillus cereus ATCC 10987]
 gi|42736386|gb|AAS40322.1| transcriptional regulator SinR [Bacillus cereus ATCC 10987]
          Length = 107

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE-ENNVMDFIST 97
               T  + + SE    V D +S+
Sbjct: 62 LHDETTRENHLDSEWTQLVKDAMSS 86


>gi|148548763|ref|YP_001268865.1| XRE family transcriptional regulator [Pseudomonas putida F1]
 gi|148512821|gb|ABQ79681.1| transcriptional regulator, XRE family [Pseudomonas putida F1]
          Length = 184

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 40/89 (44%), Gaps = 9/89 (10%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR  R   G++  +L + +G +   + + E+GV+R   + L  ISE L    ++F+ +  
Sbjct: 14  IRDLRKFKGLTLGELAQRIGRSVGFLSQVERGVSRPTVADLTAISEELGVSTAYFYKLDK 73

Query: 79  TVCSDISSEENN---------VMDFISTP 98
               D  +  +          + D +++P
Sbjct: 74  PRELDWVTRPHERRTLHLAGGITDVLASP 102


>gi|330502985|ref|YP_004379854.1| XRE family transcriptional regulator [Pseudomonas mendocina NK-01]
 gi|328917271|gb|AEB58102.1| XRE family transcriptional regulator [Pseudomonas mendocina NK-01]
          Length = 190

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 40/89 (44%), Gaps = 9/89 (10%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I   R    ++  +L E +G +   + + E+G++R   + L  I+E L+ P ++F+ +  
Sbjct: 19  IHDLRKHKKVTLNELAERIGRSVGFLSQVERGLSRPTVADLTAIAEALDVPTTYFYSLPK 78

Query: 79  TVCSDISSEENN---------VMDFISTP 98
               D  +  +          + D +++P
Sbjct: 79  PKALDWVTRPDERRTLYLAGGITDIMASP 107


>gi|323486113|ref|ZP_08091444.1| hypothetical protein HMPREF9474_03195 [Clostridium symbiosum
          WAL-14163]
 gi|323400680|gb|EGA93047.1| hypothetical protein HMPREF9474_03195 [Clostridium symbiosum
          WAL-14163]
          Length = 86

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/76 (27%), Positives = 31/76 (40%), Gaps = 3/76 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS---FF 73
           RIR  R   G++QE+LGE +G + Q +   E             IS++    I     F
Sbjct: 3  NRIRELREQKGLTQEQLGEMVGASRQAINAIETEKFEPSIWLAYDISQIFGCSIEEVFLF 62

Query: 74 FDVSPTVCSDISSEEN 89
           +      +D S  EN
Sbjct: 63 AESQKKSRADRSRGEN 78


>gi|307710469|ref|ZP_07646906.1| putative transcriptional regulator [Streptococcus mitis SK564]
 gi|307618732|gb|EFN97871.1| putative transcriptional regulator [Streptococcus mitis SK564]
          Length = 113

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +   +R++  R    ++Q  + E LGI+      +E+G+ +     L  I+++L   + +
Sbjct: 1  MEFSERLKTLRKQAQLTQVDVAEKLGISQPAYASWERGIKKPTQENLVKIAQILNVSVDY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|182625932|ref|ZP_02953697.1| DNA-binding protein [Clostridium perfringens D str. JGS1721]
 gi|177908845|gb|EDT71343.1| DNA-binding protein [Clostridium perfringens D str. JGS1721]
          Length = 348

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 30/53 (56%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I+ +R   G++QE++   LG++   V K+EKG      + L  ++ +L+  ++
Sbjct: 7  IKEKRNSQGLTQEQVAMYLGVSTPAVNKWEKGTCYPDITLLPALARLLKVDLN 59


>gi|169335357|ref|ZP_02862550.1| hypothetical protein ANASTE_01769 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169258095|gb|EDS72061.1| hypothetical protein ANASTE_01769 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 138

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 29/55 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          K ++  R   G++QE+L E +G++ Q + K+EKG +      +  +S V    I 
Sbjct: 4  KNLKDLRKNNGLTQEQLSEKIGVSRQAIGKWEKGESIPDLYSILELSNVYSITID 58


>gi|148380346|ref|YP_001254887.1| DNA-binding phage protein [Clostridium botulinum A str. ATCC
          3502]
 gi|148289830|emb|CAL83938.1| putative DNA-binding phage protein [Clostridium botulinum A str.
          ATCC 3502]
          Length = 144

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 26/61 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+RI+  R   G++Q +L + L +    V  +E       A  L  I++     + +
Sbjct: 2  KTIGERIKELREEKGINQLELSKILNVHKGSVSNWENNKRTPDADMLTKIADFFNCSVDY 61

Query: 73 F 73
           
Sbjct: 62 L 62


>gi|290890363|ref|ZP_06553439.1| hypothetical protein AWRIB429_0829 [Oenococcus oeni AWRIB429]
 gi|290479981|gb|EFD88629.1| hypothetical protein AWRIB429_0829 [Oenococcus oeni AWRIB429]
          Length = 67

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 28/55 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R    +SQE L   L I+ Q + K+E G      + L  +SE+L+  + 
Sbjct: 6  EQLKKYRNKKNLSQEDLAGKLFISRQAISKWESGETTPDLNNLIKLSELLDVSLD 60


>gi|322390908|ref|ZP_08064416.1| transcriptional regulator [Streptococcus parasanguinis ATCC 903]
 gi|321142421|gb|EFX37891.1| transcriptional regulator [Streptococcus parasanguinis ATCC 903]
          Length = 158

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 25/55 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGENIKALRKTHDLTQPEFAKIVGISRNSLSRYENGTSSVSTELIDRICQKFNVS 56


>gi|310640139|ref|YP_003944897.1| hth-type transcriptional regulator [Paenibacillus polymyxa SC2]
 gi|309245089|gb|ADO54656.1| Putative HTH-type transcriptional regulator [Paenibacillus
          polymyxa SC2]
          Length = 184

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 13/83 (15%), Positives = 36/83 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ + K ++  R    +S +KL +  GI+   + + E+G +    + +  I+  L+   
Sbjct: 5  INLILSKNLKHLRNERKLSLDKLADLTGISKTMLGQIERGESNPSITTVWKIANGLKISF 64

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          +      P     +   +  V++
Sbjct: 65 TALISEPPADAVVVPKSKVQVLE 87


>gi|260437613|ref|ZP_05791429.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
 gi|292809966|gb|EFF69171.1| toxin-antitoxin system, antitoxin component, Xre family
          [Butyrivibrio crossotus DSM 2876]
          Length = 117

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 34/72 (47%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +         N+GKR+R  R    +SQ+ + + LGI  +Q Q+YE G + +   +L 
Sbjct: 1  MSNDNDKDQEYQKNMGKRLRKIRKENALSQDDVADALGICTKQYQRYEYGDSAISCEKLS 60

Query: 61 HISEVLESPISF 72
           + E     + +
Sbjct: 61 ILEESFHFDVRY 72


>gi|258511714|ref|YP_003185148.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
 gi|257478440|gb|ACV58759.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
          Length = 436

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G++IR  R   GM+Q +L   L  T   + + E       A  L HI+  L   +S F
Sbjct: 4  LGQKIRALRKARGMTQSELARGLA-TASMISQIESDRTMPSAQLLAHIAARLGVDVSEF 61


>gi|291286857|ref|YP_003503673.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
 gi|290884017|gb|ADD67717.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
          Length = 244

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 1/65 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G++I+  R I   +Q K+ + L IT+Q  Q +EK  N   + ++  I+  L    + 
Sbjct: 3  KHIGEKIKDLRRIKNYTQVKIADILSITYQTYQHHEKTGN-FDSHKIIKIANALGVDYNT 61

Query: 73 FFDVS 77
           FD+ 
Sbjct: 62 IFDLE 66


>gi|167747594|ref|ZP_02419721.1| hypothetical protein ANACAC_02315 [Anaerostipes caccae DSM 14662]
 gi|239623032|ref|ZP_04666063.1| predicted protein [Clostridiales bacterium 1_7_47_FAA]
 gi|167652956|gb|EDR97085.1| hypothetical protein ANACAC_02315 [Anaerostipes caccae DSM 14662]
 gi|239522611|gb|EEQ62477.1| predicted protein [Clostridiales bacterium 1_7_47FAA]
          Length = 123

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/52 (34%), Positives = 24/52 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + IR  R   G++QE L E  GI+   + K E G   +G      I E LE 
Sbjct: 10 ENIRRAREERGLTQEALAELAGISHSHLSKVESGSRTIGMKTYIKILEALEV 61


>gi|91780754|ref|YP_555961.1| transcriptional regulator [Burkholderia xenovorans LB400]
 gi|91693414|gb|ABE36611.1| Transcriptional regulator, XRE family with Cupin sensor domain
          [Burkholderia xenovorans LB400]
          Length = 204

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 33/73 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R+  G+S  +L    G++   V + E+         L+ + + LE P++   
Sbjct: 19 VGARLRALRVAQGLSVNELAMRAGVSVGTVSQVERNKANPSVRILERLRQALEVPLTALL 78

Query: 75 DVSPTVCSDISSE 87
          +    V   I+ +
Sbjct: 79 EEDDAVSDPITGD 91


>gi|89896521|ref|YP_520008.1| hypothetical protein DSY3775 [Desulfitobacterium hafniense Y51]
 gi|89335969|dbj|BAE85564.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 63

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 24/59 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
            I+  R    +SQE L +   ++ Q +   E        S    ++EVL+  +   F+
Sbjct: 3  NNIKQHRKEKNISQEDLAKRCNVSRQTINAIENNKYDPTLSLAFKLAEVLQVTVDELFN 61


>gi|294794380|ref|ZP_06759516.1| DNA-binding protein [Veillonella sp. 3_1_44]
 gi|294454710|gb|EFG23083.1| DNA-binding protein [Veillonella sp. 3_1_44]
          Length = 127

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 2/59 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV--NRVGASRLQHISEVLESPIS 71
          +G +I + R+ L MSQ++L   +GI+   + K E G   + +    L  I++  +  + 
Sbjct: 28 LGHKIAIIRVSLNMSQQELARHIGISRSYLSKLECGTGISGMSLEILFKIAQAFQINVG 86


>gi|289649967|ref|ZP_06481310.1| XRE family transcriptional regulator [Pseudomonas syringae pv.
          aesculi str. 2250]
 gi|320321116|gb|EFW77260.1| XRE family transcriptional regulator [Pseudomonas syringae pv.
          glycinea str. B076]
 gi|330988517|gb|EGH86620.1| XRE family transcriptional regulator [Pseudomonas syringae pv.
          lachrymans str. M301315]
          Length = 221

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 35/79 (44%), Gaps = 1/79 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+++ R   G+SQ +L    GI    + + E G N  G+S +  I++       +  +  
Sbjct: 7  RLKIARAHAGLSQGELALKAGIKQPVISQLETGKN-AGSSFVVSIAKACGVNAEWLVNGQ 65

Query: 78 PTVCSDISSEENNVMDFIS 96
            +  + S  + NV   ++
Sbjct: 66 GGMLPETSGFDANVEPALA 84


>gi|257414251|ref|ZP_04745748.2| toxin-antitoxin system, antitoxin component, Xre family [Roseburia
           intestinalis L1-82]
 gi|257200672|gb|EEU98956.1| toxin-antitoxin system, antitoxin component, Xre family [Roseburia
           intestinalis L1-82]
          Length = 128

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/112 (18%), Positives = 48/112 (42%), Gaps = 7/112 (6%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  +KK    +D ++G R++  R+   ++ ++L E  G++ + +++ E   N     +L 
Sbjct: 13  MAKSKK----IDKDMGFRLKKARLDQKLTYDELSEKSGVSSRYIKEIENHGNVPSLEKLG 68

Query: 61  HISEVLESPIS-FFFDVSPTVCSDISSEENNVMDFISTPDG--LQLNRYFIQ 109
            +   L      FF+  +PT   D       + +  +      L L   +++
Sbjct: 69  QLIRALHISADPFFYPAAPTDNLDYQRLLVYLSECTNDQITTILALVEAYLR 120


>gi|187933844|ref|YP_001884286.1| adenine-specific DNA methyltransferase [Clostridium botulinum B
          str. Eklund 17B]
 gi|187721997|gb|ACD23218.1| adenine-specific DNA methyltransferase [Clostridium botulinum B
          str. Eklund 17B]
          Length = 194

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/49 (32%), Positives = 26/49 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          VG+++   R ILG+SQ +LG   G++ Q + K E  +       L  I+
Sbjct: 2  VGEKVAKFRKILGISQRELGRRTGLSGQMISKIENNLTNPSLETLGKIA 50


>gi|159043315|ref|YP_001532109.1| transcriptional regulator [Dinoroseobacter shibae DFL 12]
 gi|157911075|gb|ABV92508.1| transcriptional regulator [Dinoroseobacter shibae DFL 12]
          Length = 130

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 37/78 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+   R  +G++Q +L + LG+  + ++ +E+ ++   A+R+Q +S +L   +S+   
Sbjct: 16 GDRLAGAREAVGLTQAQLAKRLGVKAKTLRDWEEDLSEPRANRIQMLSGLLNVSLSWLMT 75

Query: 76 VSPTVCSDISSEENNVMD 93
                       +   D
Sbjct: 76 GEGEGIDAPDLGSDMPGD 93


>gi|313145312|ref|ZP_07807505.1| predicted protein [Bacteroides fragilis 3_1_12]
 gi|313134079|gb|EFR51439.1| predicted protein [Bacteroides fragilis 3_1_12]
          Length = 89

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G +IR RR +LG++Q+ L +   I+   + K E G   +   +L  I EVL   +S
Sbjct: 21 KQIGIQIRQRRKMLGINQQTLADLAQISINTITKIENGEININFQKLYAILEVLGLELS 79


>gi|302672095|ref|YP_003832055.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
 gi|302396568|gb|ADL35473.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
          Length = 346

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          K ++  R+   MS + L + +G+T   +  YE G  +     +  ++EVL   +  F
Sbjct: 4  KNLKYYRLKKNMSMKDLADAVGVTSMAISNYESGKRQPEIEIINKMAEVLGIKVVDF 60


>gi|300716279|ref|YP_003741082.1| regulatory protein [Erwinia billingiae Eb661]
 gi|299062115|emb|CAX59231.1| Regulatory protein [Erwinia billingiae Eb661]
          Length = 229

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 28/59 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+RIR  R    M+   L   +G     + + E+GV     + LQ +++ L  PIS  F
Sbjct: 4  GERIRQLRKAKKMTLNALAMQVGSDVGNLSRLERGVQGYSDALLQKLADALAVPISALF 62


>gi|295099031|emb|CBK88120.1| Helix-turn-helix. [Eubacterium cylindroides T2-87]
          Length = 139

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 13/76 (17%), Positives = 37/76 (48%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
          +  G+++R  R    MSQ++L   +G++++ ++ +E        + L   +++ L+  +S
Sbjct: 1  MTFGEKVRSLRKEKKMSQQELASMVGVSYRTIRSWEVEGRFPKQNVLYQKLADALQCDVS 60

Query: 72 FFFDVSPTVCSDISSE 87
          +         ++ S +
Sbjct: 61 YLMSEDEAFITEASEQ 76


>gi|326441821|ref|ZP_08216555.1| hypothetical protein SclaA2_12194 [Streptomyces clavuligerus ATCC
          27064]
          Length = 417

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 5/64 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR---LQHISEVLESPIS 71
          +G+RI+ RR+ LGM Q  LG  +G +   V K EKG  R+   R   +  I+  L    +
Sbjct: 11 IGRRIKRRRLALGMPQADLGAAVGQSQGWVSKVEKG--RIELDRAALINSIAAALHCHPN 68

Query: 72 FFFD 75
             D
Sbjct: 69 DLID 72


>gi|282600115|ref|ZP_05973067.2| conserved domain protein [Providencia rustigianii DSM 4541]
 gi|282566469|gb|EFB72004.1| conserved domain protein [Providencia rustigianii DSM 4541]
          Length = 96

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 35/67 (52%), Gaps = 1/67 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + +R++ RR+ L ++Q +L + +G+  Q +Q+ E G+ +     +  I+  L+   S+  
Sbjct: 31 LSERVKSRRVELNLTQSELADMVGLKQQSIQQIESGLIK-KPRFIIEIASALKCEPSWLI 89

Query: 75 DVSPTVC 81
            S  V 
Sbjct: 90 SGSKNVA 96


>gi|210611542|ref|ZP_03288946.1| hypothetical protein CLONEX_01136 [Clostridium nexile DSM 1787]
 gi|210151943|gb|EEA82950.1| hypothetical protein CLONEX_01136 [Clostridium nexile DSM 1787]
          Length = 194

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 31/77 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +I+  R    +SQE+L   + ++ Q +  +E   +      L  +S +    +  
Sbjct: 1  MDIGLQIKKFREQQKISQEELALKIFVSRQTISNWETNKSCPDVKSLITLSNIFNVSLDN 60

Query: 73 FFDVSPTVCSDISSEEN 89
          F         +I  +  
Sbjct: 61 FIKEDIKEMREIVEKAT 77


>gi|254390105|ref|ZP_05005326.1| hypothetical protein SSCG_02653 [Streptomyces clavuligerus ATCC
           27064]
 gi|294813466|ref|ZP_06772109.1| Transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|197703813|gb|EDY49625.1| hypothetical protein SSCG_02653 [Streptomyces clavuligerus ATCC
           27064]
 gi|294326065|gb|EFG07708.1| Transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
          Length = 466

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 5/64 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR---LQHISEVLESPIS 71
           +G+RI+ RR+ LGM Q  LG  +G +   V K EKG  R+   R   +  I+  L    +
Sbjct: 60  IGRRIKRRRLALGMPQADLGAAVGQSQGWVSKVEKG--RIELDRAALINSIAAALHCHPN 117

Query: 72  FFFD 75
              D
Sbjct: 118 DLID 121


>gi|153814064|ref|ZP_01966732.1| hypothetical protein RUMTOR_00272 [Ruminococcus torques ATCC
          27756]
 gi|317499821|ref|ZP_07958059.1| hypothetical protein HMPREF1026_00001 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|331087904|ref|ZP_08336828.1| hypothetical protein HMPREF1025_00411 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|145848460|gb|EDK25378.1| hypothetical protein RUMTOR_00272 [Ruminococcus torques ATCC
          27756]
 gi|316898723|gb|EFV20756.1| hypothetical protein HMPREF1026_00001 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|330409391|gb|EGG88837.1| hypothetical protein HMPREF1025_00411 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 194

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 31/77 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +I+  R    +SQE+L   + ++ Q +  +E   +      L  +S +    +  
Sbjct: 1  MDIGLQIKKFREQQKISQEELALKIFVSRQTISNWETNKSCPDIKSLITLSNIFNVSLDN 60

Query: 73 FFDVSPTVCSDISSEEN 89
          F         +I  +  
Sbjct: 61 FIKEDIKEMKEIVEKAT 77


>gi|119964507|ref|YP_946525.1| helix-turn-helix domain-containing protein [Arthrobacter aurescens
           TC1]
 gi|119951366|gb|ABM10277.1| putative Helix-turn-helix domain protein [Arthrobacter aurescens
           TC1]
          Length = 495

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/91 (19%), Positives = 30/91 (32%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G+R+R  R   G++ + L   +G    Q+   E          LQ ++  L   I  
Sbjct: 25  ISLGRRVRHLRKQAGLTLDDLSAAVGTAPSQLSLIENAKREPKLGLLQQLAASLNVTIDQ 84

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
                P         E          + L L
Sbjct: 85  LLGAEPPSRRAALEIELERYQRGPLYESLNL 115


>gi|89071275|ref|ZP_01158446.1| transcriptional regulator, XRE family protein [Oceanicola
          granulosus HTCC2516]
 gi|89043205|gb|EAR49438.1| transcriptional regulator, XRE family protein [Oceanicola
          granulosus HTCC2516]
          Length = 134

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 32/73 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+   R   G+SQ+ L   LG+  Q ++ +E  +    A++LQ +S +L   + +   
Sbjct: 21 GDRLAAAREAAGLSQKDLARRLGVKHQTLKHWEDDIAEPRANKLQMLSGLLSVSLRWLLT 80

Query: 76 VSPTVCSDISSEE 88
                    + E
Sbjct: 81 GHGEGVEPPGAAE 93


>gi|291544611|emb|CBL17720.1| Predicted transcriptional regulators [Ruminococcus sp. 18P13]
          Length = 145

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I   R  +G+SQ+ L E + +T Q V ++E G        L+ +S+V +  I+
Sbjct: 7  ILQLRTQMGLSQDALAEKIYVTRQAVSRWENGETIPNVEALKLLSQVFDVSIN 59


>gi|191639822|ref|YP_001988988.1| Prophage Lp3 protein 2 [Lactobacillus casei BL23]
 gi|190714124|emb|CAQ68130.1| Prophage Lp3 protein 2 [Lactobacillus casei BL23]
 gi|327383933|gb|AEA55409.1| Transcriptional regulator, XRE family [Lactobacillus casei LC2W]
 gi|327387114|gb|AEA58588.1| Transcriptional regulator, XRE family [Lactobacillus casei BD-II]
          Length = 212

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 34/83 (40%), Gaps = 4/83 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R    +SQ  L   L +T Q +  YE+G+        + +S+ L   I +    
Sbjct: 4  NRIKAAREAAHLSQGDLAAQLKVTRQTISAYERGLREPRMDVWKSLSDALSVSIPYL--- 60

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
             + SD  + +  +   ++  +
Sbjct: 61 -QGISSDPIAIDETIAHTMTNRE 82


>gi|158422455|ref|YP_001523747.1| putative transcriptional regulator [Azorhizobium caulinodans ORS
           571]
 gi|158329344|dbj|BAF86829.1| putative transcriptional regulator [Azorhizobium caulinodans ORS
           571]
          Length = 301

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 5/73 (6%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +PN       +RIR  R  LGM+Q +    LG++   V K+E    +   + L  I+E+ 
Sbjct: 59  MPNYA-----RRIREIRKNLGMNQAEFAAALGVSQGSVSKWEAAKEQPRTTALLKIAELA 113

Query: 67  ESPISFFFDVSPT 79
             P    F  +  
Sbjct: 114 GLPSFSLFSGTDH 126


>gi|147724743|gb|ABQ45979.1| repressor [Linear cloning vector pJAZZ-OC]
          Length = 198

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 36/77 (46%), Gaps = 3/77 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          G+R++ RR+ L ++ +++ E +GI+   VQ  E+G           +++ L  P+ +   
Sbjct: 5  GERLKARRLELKLTLKQVAEAVGISLPGVQNLERGDVMPSLEIGLSLAKCLRKPVQWILY 64

Query: 75 --DVSPTVCSDISSEEN 89
            +  P     I + E 
Sbjct: 65 GTESDPDRVPVIGTTET 81


>gi|326388271|ref|ZP_08209874.1| transcription regulator, putative [Novosphingobium
          nitrogenifigens DSM 19370]
 gi|326207437|gb|EGD58251.1| transcription regulator, putative [Novosphingobium
          nitrogenifigens DSM 19370]
          Length = 197

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 32/82 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+R+   R   G+SQ  L     +   Q+ + E        + L+ I   L   ++ FF
Sbjct: 11 VGQRLLELRRRAGLSQRALAARADVPHAQISQIESNRISPSIASLRRILGGLGLSMAEFF 70

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
          +        +    + ++D  S
Sbjct: 71 EPERKEADQVFFRTDELVDLTS 92


>gi|254792649|ref|YP_003077486.1| hypothetical protein ECSP_1569 [Escherichia coli O157:H7 str.
          TW14359]
 gi|254592049|gb|ACT71410.1| hypothetical protein ECSP_1569 [Escherichia coli O157:H7 str.
          TW14359]
          Length = 200

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 4  NKKIPNPV-DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          +K+  N + D ++ + +   R    ++  +L +  G++   + K E+G +   A+ L  +
Sbjct: 8  DKRAKNQIVDSDIARLLLKLRKSRNLTVTELAQRSGVSQAMISKVERGTSSPSATILSRL 67

Query: 63 SEVLESPISFFF 74
          +  L   +S  F
Sbjct: 68 ANALNITLSKLF 79


>gi|237746752|ref|ZP_04577232.1| transcriptional regulator [Oxalobacter formigenes HOxBLS]
 gi|229378103|gb|EEO28194.1| transcriptional regulator [Oxalobacter formigenes HOxBLS]
          Length = 109

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 35/69 (50%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R   G+SQ +LG   G    +   +V +YEKG++    +    +++VL  P+++F
Sbjct: 15 RLKEAREKAGISQRRLGIEAGMDEFVASTRVNRYEKGIHEPDEATAVKLAQVLNIPLAYF 74

Query: 74 FDVSPTVCS 82
          +     +  
Sbjct: 75 YADDDRLAE 83


>gi|218898949|ref|YP_002447360.1| immunity repressor protein [Bacillus cereus G9842]
 gi|218543383|gb|ACK95777.1| immunity repressor protein [Bacillus cereus G9842]
          Length = 144

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/89 (16%), Positives = 36/89 (40%), Gaps = 6/89 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R    ++Q+ L + +  T   +  YE G +      L+ ++ VL     +    
Sbjct: 4   QRLKEMRKTRKLTQQGLADKVNTTKGTISNYENGHSTPSNEMLKDLANVLGVTTDYL--- 60

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNR 105
              +  +  S  +N +  ++  D   + R
Sbjct: 61  ---LGREDESRVSNTLPDLNKKDTRDIAR 86


>gi|126699343|ref|YP_001088240.1| putative transcriptional regulator [Clostridium difficile 630]
 gi|255100870|ref|ZP_05329847.1| putative transcriptional regulator [Clostridium difficile
          QCD-63q42]
 gi|255306758|ref|ZP_05350929.1| putative transcriptional regulator [Clostridium difficile ATCC
          43255]
 gi|115250780|emb|CAJ68604.1| Transcriptional regulator, HTH-type [Clostridium difficile]
          Length = 181

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+N+G++I   R    +S   L +   +T   + + E+G+     + L+ I+  L  P+ 
Sbjct: 3  DLNLGEKIAEVRKKQNLSIRDLAKLADVTPSLLSQIERGLANPSVNSLKSIASSLNVPLF 62

Query: 72 FFF 74
           FF
Sbjct: 63 TFF 65


>gi|77459530|ref|YP_349037.1| transcriptional regulator [Pseudomonas fluorescens Pf0-1]
 gi|77383533|gb|ABA75046.1| putative XRE-family transcriptional regulator [Pseudomonas
          fluorescens Pf0-1]
          Length = 187

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 29/74 (39%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +V + +R  R    MSQ  L E  G++ + +   E G   V  + L  ++E LE   S  
Sbjct: 14 HVSQNVRRLRHAADMSQTALAEKSGVSRRMLVAIEAGEKNVSLTTLDRVAEALEVAFSDL 73

Query: 74 FDVSPTVCSDISSE 87
                      +E
Sbjct: 74 IQAPDNRDPGRINE 87


>gi|30020775|ref|NP_832406.1| MerR family transcriptional regulator [Bacillus cereus ATCC
          14579]
 gi|229127990|ref|ZP_04256973.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-Cer4]
 gi|29896327|gb|AAP09607.1| Transcriptional regulator, MerR family [Bacillus cereus ATCC
          14579]
 gi|228655457|gb|EEL11312.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-Cer4]
          Length = 119

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG+ IR  R   G++QE+L E + +    +   E+G   +    LQ I+  LE    
Sbjct: 6  KLVGENIRFLRKKRGLTQEELAEQINLQQAYIGGVERGERNISMLTLQKIAVGLEVSPD 64


>gi|60594530|pdb|1Y9Q|A Chain A, Crystal Structure Of Hth_3 Family Transcriptional
          Regulator From Vibrio Cholerae
          Length = 192

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/84 (21%), Positives = 38/84 (45%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  +++  R   G+S +   +  G++   + + E+G +    + L  I+  LE+  S F
Sbjct: 11 QIANQLKNLRKSRGLSLDATAQLTGVSKAXLGQIERGESSPTIATLWKIASGLEASFSAF 70

Query: 74 FDVSPTVCSDISSEENNVMDFIST 97
          F   P + S   S  +++   I T
Sbjct: 71 FANDPQLLSSERSFPDDLNXKIHT 94


>gi|322390901|ref|ZP_08064409.1| transcriptional regulator PlcR [Streptococcus parasanguinis ATCC
           903]
 gi|321142414|gb|EFX37884.1| transcriptional regulator PlcR [Streptococcus parasanguinis ATCC
           903]
          Length = 273

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/85 (24%), Positives = 38/85 (44%), Gaps = 9/85 (10%)

Query: 28  MSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISS 86
           MSQ +L E  GI  Q Q+ + E G    GA  L  +++ L+  + +FF+        +  
Sbjct: 1   MSQRELAE--GICKQGQISRLENGDYTPGADFLYALAQKLKVSMDYFFE------EQVEQ 52

Query: 87  EENNVMDFISTPDGLQLNRYFIQID 111
           + + + +F        LNR +  + 
Sbjct: 53  KTDELSEFKKLAHIFILNRNYESLK 77


>gi|291528282|emb|CBK93868.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
          Length = 104

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 20/115 (17%), Positives = 49/115 (42%), Gaps = 17/115 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFF 73
           VG+RI+  R    ++QE+L   + ++   V   E+G+          I+  L+    +  
Sbjct: 6   VGQRIKAAREAKNLTQEELAALVNLSTTHVSVIERGLKVTKLDTFVAIANALDVSADALL 65

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            DV     + +++E ++++  +   +                +++I+  VR++V 
Sbjct: 66  IDVVTHSVTGVTNELSDMIGKLPKDE----------------QKRILNAVRALVD 104


>gi|289422857|ref|ZP_06424689.1| DNA-binding protein [Peptostreptococcus anaerobius 653-L]
 gi|289156719|gb|EFD05352.1| DNA-binding protein [Peptostreptococcus anaerobius 653-L]
          Length = 215

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/83 (16%), Positives = 43/83 (51%), Gaps = 2/83 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++++G++I+  R    ++QE+L     ++   + + E  +     + L  I ++L + +
Sbjct: 35  INMDIGEKIKRLRTGKQLTQEELANRCELSKGFISQVENNLTSPSIATLIDILDILGTNL 94

Query: 71  SFFFDVSPTVCSDISSEENNVMD 93
             FF  S  +   I+ +++++ +
Sbjct: 95  KEFF--SEDLNEKITFKQDDMFE 115


>gi|225860372|ref|YP_002741881.1| hypothetical protein SPT_0383 [Streptococcus pneumoniae
          Taiwan19F-14]
 gi|270292145|ref|ZP_06198360.1| conserved domain protein [Streptococcus sp. M143]
 gi|303255209|ref|ZP_07341283.1| transcriptional regulator, putative [Streptococcus pneumoniae
          BS455]
 gi|307710486|ref|ZP_07646923.1| helix-turn-helix family protein [Streptococcus mitis SK564]
 gi|307711382|ref|ZP_07647800.1| helix-turn-helix family protein [Streptococcus mitis SK321]
 gi|322377106|ref|ZP_08051598.1| conserved domain protein [Streptococcus sp. M334]
 gi|331265735|ref|YP_004325365.1| putative transcriptional regulator [Streptococcus oralis Uo5]
 gi|225726800|gb|ACO22651.1| conserved domain protein [Streptococcus pneumoniae Taiwan19F-14]
 gi|270279673|gb|EFA25515.1| conserved domain protein [Streptococcus sp. M143]
 gi|302597842|gb|EFL64914.1| transcriptional regulator, putative [Streptococcus pneumoniae
          BS455]
 gi|307616800|gb|EFN95982.1| helix-turn-helix family protein [Streptococcus mitis SK321]
 gi|307618749|gb|EFN97888.1| helix-turn-helix family protein [Streptococcus mitis SK564]
 gi|321281819|gb|EFX58827.1| conserved domain protein [Streptococcus sp. M334]
 gi|326682407|emb|CBZ00024.1| putative transcriptional regulator [Streptococcus oralis Uo5]
 gi|332202241|gb|EGJ16310.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA41317]
          Length = 64

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R  LG+SQ +L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 2  NRVKEFRKELGISQLELAKDIGVSRQTINMIENDKYNPTLELCLNLARSLQTDLNSLF 59


>gi|58580009|ref|YP_199025.1| transcriptional regulator [Xanthomonas oryzae pv. oryzae
          KACC10331]
 gi|84622006|ref|YP_449378.1| transcriptional regulator [Xanthomonas oryzae pv. oryzae MAFF
          311018]
 gi|166713709|ref|ZP_02244916.1| transcriptional regulator [Xanthomonas oryzae pv. oryzicola
          BLS256]
 gi|58424603|gb|AAW73640.1| transcriptional regulator [Xanthomonas oryzae pv. oryzae
          KACC10331]
 gi|84365946|dbj|BAE67104.1| transcriptional regulator [Xanthomonas oryzae pv. oryzae MAFF
          311018]
          Length = 66

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G SQ +LGE LG++ Q +   E G           I+ +    I   F
Sbjct: 3  SRVRELREASGWSQGELGERLGVSRQTINALETGKYDPSLPLAFRIARLFGESIEHVF 60


>gi|294478948|gb|ADE87513.1| Cro-repressor [Deep-sea thermophilic phage D6E]
          Length = 67

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 31/55 (56%)

Query: 20 RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  R+  G++Q+++ + L ++  Q ++ E G +R  A  L  ++++    IS FF
Sbjct: 8  KALRVNSGLTQKEVADYLNMSLTQYKRRENGKSRWYADELYRLAKLYNVDISVFF 62


>gi|291522925|emb|CBK81218.1| Helix-turn-helix [Coprococcus catus GD/7]
          Length = 139

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 39/79 (49%), Gaps = 1/79 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
          +  G+++R  R    MSQ++L   +G++++ ++ +E        + L   +++ L+  +S
Sbjct: 1  MTFGEKVRSLRKEKKMSQQELASMVGVSYRTIRSWEVEGRFPKQNVLYQKLADALQCDVS 60

Query: 72 FFFDVSPTVCSDISSEENN 90
          +    +    ++ S +  N
Sbjct: 61 YLMSENEAFITEASEQFGN 79


>gi|153810652|ref|ZP_01963320.1| hypothetical protein RUMOBE_01036 [Ruminococcus obeum ATCC 29174]
 gi|149833048|gb|EDM88130.1| hypothetical protein RUMOBE_01036 [Ruminococcus obeum ATCC 29174]
          Length = 137

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 31/54 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          VG+ I+  R  +GM+Q++LG+ +G +  Q+  YE     +    L  I+EV ++
Sbjct: 9  VGQEIKKVRYRMGMTQKELGKLIGKSESQIGAYENASASITLDVLFKIAEVTKT 62


>gi|126727939|ref|ZP_01743764.1| DNA-binding protein, putative [Rhodobacterales bacterium HTCC2150]
 gi|126702770|gb|EBA01878.1| DNA-binding protein, putative [Rhodobacterales bacterium HTCC2150]
          Length = 211

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/83 (16%), Positives = 35/83 (42%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R    ++  +L     ++   + K E G      S LQ ++  L  P+
Sbjct: 20  LEVAIGREVRAYRKQQNITVAELSGLTELSIGMLSKIENGNTSPSLSTLQTLANALAVPL 79

Query: 71  SFFFDVSPTVCSDISSEENNVMD 93
           + FF         + ++    ++
Sbjct: 80  TAFFRQYEERRQAVHTKAGEGVE 102


>gi|111220943|ref|YP_711737.1| putative HTH-type transcriptional regulator [Frankia alni ACN14a]
 gi|111148475|emb|CAJ60147.1| Putative HTH-type transcriptional regulator [Frankia alni ACN14a]
          Length = 498

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEV 65
             P  + VG+ +R  R   G++Q++L + LG     V K E G   +   S L+HI+  
Sbjct: 12 RATPASVGVGQLLRAYRQAHGLTQQQLADRLGFDQSYVSKVESGRRAIHDISTLRHIARN 71

Query: 66 L 66
          L
Sbjct: 72 L 72


>gi|125974945|ref|YP_001038855.1| XRE family transcriptional regulator [Clostridium thermocellum
          ATCC 27405]
 gi|125715170|gb|ABN53662.1| transcriptional regulator, XRE family [Clostridium thermocellum
          ATCC 27405]
          Length = 142

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 25/55 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R  R    +SQ+ + + +G+      KYE G ++     +Q ++E     + + 
Sbjct: 7  LRQLRTEKNLSQKDVADAIGVDRTTYTKYETGKSQPDFVTIQKLAEFYSVSVDYL 61


>gi|317473438|ref|ZP_07932732.1| hypothetical protein HMPREF1011_03082 [Anaerostipes sp.
          3_2_56FAA]
 gi|316899088|gb|EFV21108.1| hypothetical protein HMPREF1011_03082 [Anaerostipes sp.
          3_2_56FAA]
          Length = 356

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 2/72 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + + IR  R+  G +QE+L   LG++   V K+EK  +    + L  ++ VL++ ++ 
Sbjct: 1  MKINEMIRELRIKKGFTQEQLASLLGVSAPAVNKWEKAASYPDITLLPALARVLDTDLNT 60

Query: 73 F--FDVSPTVCS 82
             F   PT   
Sbjct: 61 LLSFKNEPTREE 72


>gi|261400347|ref|ZP_05986472.1| helix-turn-helix protein [Neisseria lactamica ATCC 23970]
 gi|269209981|gb|EEZ76436.1| helix-turn-helix protein [Neisseria lactamica ATCC 23970]
          Length = 111

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/98 (18%), Positives = 44/98 (44%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + +P++  VG+ +   R + G++Q +L E L ++   V + E+G   +   RL  ++E+ 
Sbjct: 2   VKSPINQTVGRAMAKWRKVSGLTQAQLAERLNLSLDAVSRLERGNIALTVERLVELAEIF 61

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
               +       T   D +    +++  +   + + L 
Sbjct: 62  GCETADLLGEGSTRVRDQAVRLESLLGRLDEEERVGLL 99


>gi|255655682|ref|ZP_05401091.1| putative transcriptional regulator [Clostridium difficile
          QCD-23m63]
 gi|296451687|ref|ZP_06893419.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296878931|ref|ZP_06902930.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP07]
 gi|296259450|gb|EFH06313.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296430044|gb|EFH15892.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP07]
          Length = 183

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 26/60 (43%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  + K +   R    +S  +L E  G++   + + EKG +    + +  I+  L  P
Sbjct: 2  SINTIIAKNLNRLRNERNLSLGQLAELSGVSKVMLSQIEKGDSNPTVNTIWKIASGLNVP 61


>gi|220962066|gb|ACL93461.1| putative DNA binding helix-turn-helix protein [Acinetobacter
          baumannii]
          Length = 94

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 19 IRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R+ R + GMSQ +L + +G IT   + K EKG  +       +I++ L  P  FF
Sbjct: 21 LRIARDLRGMSQTELVQKMGNITQAALSKIEKGDIKPSDETKFNIAKTLNFPERFF 76


>gi|168183849|ref|ZP_02618513.1| putative DNA-binding protein [Clostridium botulinum Bf]
 gi|182673110|gb|EDT85071.1| putative DNA-binding protein [Clostridium botulinum Bf]
          Length = 148

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 31/61 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+++   R   G+SQE + E L ++ Q V K+E        ++ + +SE+      +
Sbjct: 1  MSLGEKLLYLRKKAGLSQEDVAEKLSVSRQTVSKWETDQTVPELNKAKLLSELYNVSYDY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|157737361|ref|YP_001490044.1| hypothetical protein Abu_1115 [Arcobacter butzleri RM4018]
 gi|157699215|gb|ABV67375.1| hypothetical protein Abu_1115 [Arcobacter butzleri RM4018]
          Length = 104

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/103 (17%), Positives = 43/103 (41%), Gaps = 3/103 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R   G++ E+L + + I+ + +Q YE   N    S +  I++       +    +
Sbjct: 5   RLKEAREKAGLTLEELSKRVNISKRTLQNYESNKNEPTVSIVSKIAKYCFVDEIYLLTGN 64

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
             +  +   E   +++  +T +  +    +  I    +R KI 
Sbjct: 65  DDIEINYEKEILKILNN-ATKE--EKAYIYYLIKIEHIRNKIF 104


>gi|148380140|ref|YP_001254681.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|153934013|ref|YP_001384438.1| putative DNA-binding protein [Clostridium botulinum A str. ATCC
          19397]
 gi|153937509|ref|YP_001387974.1| putative DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|148289624|emb|CAL83727.1| putative DNA-binding protein [Clostridium botulinum A str. ATCC
          3502]
 gi|152930057|gb|ABS35557.1| putative DNA-binding protein [Clostridium botulinum A str. ATCC
          19397]
 gi|152933423|gb|ABS38922.1| putative DNA-binding protein [Clostridium botulinum A str. Hall]
          Length = 155

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 31/61 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+++   R   G+SQE + E L ++ Q V K+E        ++ + +SE+      +
Sbjct: 1  MSLGEKLLYLRKKAGLSQEDVAEKLSVSRQTVSKWETDQTVPELNKAKLLSELYNVSYDY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|194467259|ref|ZP_03073246.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
 gi|194454295|gb|EDX43192.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
          Length = 203

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 28/60 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+ +R  LG +Q ++ E L +T Q +  +E+G +      L  IS++ +  I        
Sbjct: 7  IKKQRNNLGFTQAEIAEKLHVTRQTISNWEQGKSYPDLDTLVKISDIYKISIDTLLKGDK 66


>gi|20090284|ref|NP_616359.1| transcriptional regulator [Methanosarcina acetivorans C2A]
 gi|19915282|gb|AAM04839.1| transcriptional regulator, Hth-3 family [Methanosarcina
          acetivorans C2A]
          Length = 192

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 36/87 (41%), Gaps = 2/87 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +IR  R    M+ E+L E    + + +Q+ E G      + L  I+  L   +  F 
Sbjct: 7  VGSKIRHLREAQDMTVEELAEASQSSVELIQQLENGALVPSLTPLLKIARALGVRLGTFL 66

Query: 75 DVSPTVCSDI--SSEENNVMDFISTPD 99
          D +P     +  +    NV+ F    +
Sbjct: 67 DDAPQKGPVVVRAGLSENVVRFSGKTE 93


>gi|78049702|ref|YP_365877.1| putative DNA binding protein [Xanthomonas campestris pv.
          vesicatoria str. 85-10]
 gi|325927530|ref|ZP_08188768.1| transcriptional regulator [Xanthomonas perforans 91-118]
 gi|78038132|emb|CAJ25877.1| putative DNA binding protein [Xanthomonas campestris pv.
          vesicatoria str. 85-10]
 gi|325542123|gb|EGD13627.1| transcriptional regulator [Xanthomonas perforans 91-118]
          Length = 66

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G SQ +LGE LG++ Q +   E G           I+ +    I   F
Sbjct: 3  SRVRELREANGWSQGELGERLGVSRQTINALETGKYDPSLPLAFRIARLFGESIEHVF 60


>gi|238796839|ref|ZP_04640344.1| Predicted transcriptional regulator [Yersinia mollaretii ATCC
          43969]
 gi|238719327|gb|EEQ11138.1| Predicted transcriptional regulator [Yersinia mollaretii ATCC
          43969]
          Length = 95

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 20/72 (27%), Positives = 39/72 (54%), Gaps = 4/72 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR++L R+   ++Q  LG+  GI       +V +YEK  +      ++  +EVL+ P 
Sbjct: 2  IGKRLKLARVNAELTQAGLGQRAGIDEESASSRVSQYEKETHAPDFKLVRKFAEVLDVPE 61

Query: 71 SFFFDVSPTVCS 82
          ++F+ V   + +
Sbjct: 62 AYFYAVDDDLAA 73


>gi|328880928|emb|CCA54167.1| putative transcriptional regulatory protein [Streptomyces
          venezuelae ATCC 10712]
          Length = 190

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 10/75 (13%), Positives = 26/75 (34%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + ++  R   G++ + L    G++   + + E+            +++ L   I+   D 
Sbjct: 13 RNLKRWRKERGLTLDALAARAGVSRGMIIQIEQARTNPSVGTTVKLADALGVSITTLLDY 72

Query: 77 SPTVCSDISSEENNV 91
                 I   +  V
Sbjct: 73 EQGPQVRIVPPDQAV 87


>gi|329962680|ref|ZP_08300603.1| DNA-binding helix-turn-helix protein [Bacteroides fluxus YIT
          12057]
 gi|328529514|gb|EGF56417.1| DNA-binding helix-turn-helix protein [Bacteroides fluxus YIT
          12057]
          Length = 117

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 37/84 (44%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G+ ++  R + G +QE++ + +GI       YE G   V    L+ +S +     
Sbjct: 4  INQIIGENLKKIRELSGFTQEQIAKSIGIERSAYSNYEGGTREVPYDILERLSSLFGCEP 63

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
             F+ +    ++I +    + D 
Sbjct: 64 FILFEDNIQADNEIMATAFRISDL 87


>gi|291523377|emb|CBK81670.1| Helix-turn-helix [Coprococcus catus GD/7]
          Length = 202

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 31/57 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + +G++I+  R  +G++Q+KL E  GI    ++KYE    +    +L+ I+  L   
Sbjct: 1  MTIGEKIKYCRKQIGITQDKLAELTGIHPVSIRKYETNKMQPQPPQLEKIAAALGVS 57


>gi|251790167|ref|YP_003004888.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247538788|gb|ACT07409.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 77

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 33/75 (44%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M+   K    +    G+R++  R+  G+SQE   +  G+    +   E+GV       + 
Sbjct: 2  MLIGMKNTKDITARFGQRVKTLRLQAGLSQEAFADKCGLDRTYISGIERGVRNPTLEVIG 61

Query: 61 HISEVLESPISFFFD 75
           I++ LE  +   FD
Sbjct: 62 VIADGLEIQLQSLFD 76


>gi|302869114|ref|YP_003837751.1| helix-turn-helix domain-containing protein [Micromonospora
           aurantiaca ATCC 27029]
 gi|315504414|ref|YP_004083301.1| helix-turn-helix domain protein [Micromonospora sp. L5]
 gi|302571973|gb|ADL48175.1| helix-turn-helix domain protein [Micromonospora aurantiaca ATCC
           27029]
 gi|315411033|gb|ADU09150.1| helix-turn-helix domain protein [Micromonospora sp. L5]
          Length = 409

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 22/113 (19%), Positives = 46/113 (40%), Gaps = 8/113 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPISFF 73
           +G+R+   R    MSQ+   + LG +   V K E+GV R+   S L  I+++L+  +   
Sbjct: 6   IGRRVAYWRSRRKMSQQVFADRLGKSKSWVDKVERGVRRLDKFSVLYEIADILQIDVQLL 65

Query: 74  FDVSPTVCSDISS--EENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKI 119
               P   +D  +  ++  V +  +  +       +            +R+ +
Sbjct: 66  HGKDPERRTDALNCIDQVEVEEIRTALERYDSMSAYFDAAPYPPPLADMRKAV 118


>gi|239815237|ref|YP_002944147.1| XRE family transcriptional regulator [Variovorax paradoxus S110]
 gi|239801814|gb|ACS18881.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 190

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G ++R  RM   +S  +L +  GI+   + + E+G+       L+ ++  L  P S 
Sbjct: 7  VRIGTQVRALRMAADVSGGELAKTSGISASMLSRIERGLVSPSVETLERLANGLGVPASR 66

Query: 73 FF 74
           F
Sbjct: 67 LF 68


>gi|229057010|ref|ZP_04196404.1| HTH-type transcriptional regulator sinR [Bacillus cereus AH603]
 gi|228720287|gb|EEL71863.1| HTH-type transcriptional regulator sinR [Bacillus cereus AH603]
          Length = 107

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ IS VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKISAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE-ENNVMDFIST 97
               T  S + SE    V D +S+
Sbjct: 62 LHDETTTESHLDSEWTQLVKDAMSS 86


>gi|94971596|ref|YP_593644.1| XRE family transcriptional regulator [Candidatus Koribacter
          versatilis Ellin345]
 gi|94553646|gb|ABF43570.1| transcriptional regulator, XRE family [Candidatus Koribacter
          versatilis Ellin345]
          Length = 99

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 1/55 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           N+G  IR  R+  G++Q +L   + +   Q+ + EKG N V  S L  IS  L+
Sbjct: 6  KNIGSLIRAERLRRGLTQTELASHVRMPQSQLSRIEKGAN-VSLSTLAEISRALD 59


>gi|75760672|ref|ZP_00740699.1| SinR protein [Bacillus thuringiensis serovar israelensis ATCC
          35646]
 gi|74491853|gb|EAO55042.1| SinR protein [Bacillus thuringiensis serovar israelensis ATCC
          35646]
          Length = 114

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 9  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 68

Query: 74 FDVSPTVCSDISSE 87
               T  +++ SE
Sbjct: 69 LHDETTKATNLDSE 82


>gi|325971904|ref|YP_004248095.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
 gi|324027142|gb|ADY13901.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
          Length = 190

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 11/64 (17%), Positives = 24/64 (37%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I+  R    ++   L E  G++   + + E        + +  I+  L   ++   
Sbjct: 7  IGKNIQRIRNSRKLTLNVLSERSGVSKAMLSQIESDKVNPTVATVWKIARGLNVELNDLL 66

Query: 75 DVSP 78
          D   
Sbjct: 67 DTDD 70


>gi|309792776|ref|ZP_07687220.1| helix-turn-helix domain protein [Oscillochloris trichoides DG6]
 gi|308225186|gb|EFO78970.1| helix-turn-helix domain protein [Oscillochloris trichoides DG6]
          Length = 393

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 31/66 (46%), Gaps = 2/66 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +++R  R+  G+S E L + +G  +T Q + KYE+G        L  I+  L   ++ 
Sbjct: 2  LSQQLRHLRLARGLSLEALAQQMGGLVTKQALSKYEQGKAHPSPLVLNRIAAALGVKVAD 61

Query: 73 FFDVSP 78
              S 
Sbjct: 62 LVQASD 67


>gi|317132318|ref|YP_004091632.1| helix-turn-helix domain protein [Ethanoligenens harbinense
          YUAN-3]
 gi|315470297|gb|ADU26901.1| helix-turn-helix domain protein [Ethanoligenens harbinense
          YUAN-3]
          Length = 373

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I +G  I   R   G++QE+L + LGI+   V K+E G +      L  ++      + 
Sbjct: 4  IQIGANIASLRKEKGVTQEELADYLGISKPAVSKWESGQSYPDILLLPRLAAYFNRTVD 62


>gi|262199984|ref|YP_003271193.1| XRE family transcriptional regulator [Haliangium ochraceum DSM
           14365]
 gi|262083331|gb|ACY19300.1| transcriptional regulator, XRE family [Haliangium ochraceum DSM
           14365]
          Length = 199

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 23/133 (17%), Positives = 48/133 (36%), Gaps = 3/133 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+  R  R  L ++QE   E + ++ +   + E+G +         I   L      
Sbjct: 7   KTIGRAAREARTALQLTQEDAAERIHVSVEFYARIERGKSLPSIGTFARIVSALGVSADA 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI--VSSE 130
                P + +  +           +P+  +L+R   +     +R  +  LV+ I   + E
Sbjct: 67  LLGARPPIATVAAGMPALWTPPSESPEMRRLSRRLRKARPATLR-LVSLLVKEIESAAGE 125

Query: 131 KKYRTIEEECMVE 143
            +    E+   VE
Sbjct: 126 SQAGESEDGDSVE 138


>gi|255655369|ref|ZP_05400778.1| putative phage repressor [Clostridium difficile QCD-23m63]
          Length = 118

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 31/58 (53%), Gaps = 2/58 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ-HISEVLESPISFF 73
          KR+R  R   G++Q +LGE +G++ + +  YE   NR     +   +++V +  + + 
Sbjct: 4  KRLRELRKEFGLTQRELGEKVGVSQRVLGYYET-ENRFPDEHILNKLADVFDVSVDYL 60


>gi|207857403|ref|YP_002244054.1| phage encoded transcriptional regulator [Salmonella enterica
          subsp. enterica serovar Enteritidis str. P125109]
 gi|206709206|emb|CAR33539.1| phage encoded transcriptional regulator [Salmonella enterica
          subsp. enterica serovar Enteritidis str. P125109]
          Length = 231

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 36/90 (40%), Gaps = 6/90 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M   +L E +G+    + + E G  +      L  +++ L   I+
Sbjct: 1  MNIGNRVRQLRRAKNMKIAELAEAIGVDAANISRLETGKQKQFTEQTLSRLADCLSVDIA 60

Query: 72 FFFDVSPTVC-----SDISSEENNVMDFIS 96
            F   P        SD+  +  NV D   
Sbjct: 61 ELFTSDPKGNTVCKHSDMRKDSANVKDLFR 90


>gi|148976562|ref|ZP_01813258.1| transcriptional regulator, putative [Vibrionales bacterium
          SWAT-3]
 gi|145964138|gb|EDK29395.1| transcriptional regulator, putative [Vibrionales bacterium
          SWAT-3]
          Length = 108

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 37/69 (53%), Gaps = 4/69 (5%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEV 65
           +D  +  R++  R    +SQ++LG  +GI       ++ + EKG +    S L+ +++ 
Sbjct: 2  SIDNPIPVRLKEVRKKAKISQKELGVRIGIDESSASARMNQDEKGKHTPDISTLKKMADE 61

Query: 66 LESPISFFF 74
          L  P+++FF
Sbjct: 62 LGVPLNYFF 70


>gi|187476768|ref|YP_784792.1| transcriptional regulator [Bordetella avium 197N]
 gi|115421354|emb|CAJ47859.1| putative transcriptional regulator [Bordetella avium 197N]
          Length = 136

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/85 (17%), Positives = 37/85 (43%), Gaps = 6/85 (7%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+R  R++ G +Q+ L    G++   +  YE G  R+ +  ++ ++  L   + +     
Sbjct: 7   RLRQARVLRGYTQQDLARICGLSQSAIGSYETG-QRLSSRSIRRLALALNVSLDWL---- 61

Query: 78  PTVCSDISSEENNVMDFISTPDGLQ 102
             +         ++M+   T +G +
Sbjct: 62  -EMGQGPMGPAASLMEPPPTREGCE 85


>gi|47566166|ref|ZP_00237194.1| SinR protein [Bacillus cereus G9241]
 gi|228984453|ref|ZP_04144631.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
 gi|229154947|ref|ZP_04283061.1| HTH-type transcriptional regulator sinR [Bacillus cereus ATCC
          4342]
 gi|229195577|ref|ZP_04322343.1| HTH-type transcriptional regulator sinR [Bacillus cereus m1293]
 gi|47556719|gb|EAL15050.1| SinR protein [Bacillus cereus G9241]
 gi|228587826|gb|EEK45878.1| HTH-type transcriptional regulator sinR [Bacillus cereus m1293]
 gi|228628505|gb|EEK85218.1| HTH-type transcriptional regulator sinR [Bacillus cereus ATCC
          4342]
 gi|228775319|gb|EEM23707.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
          Length = 107

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
               T  + + SE
Sbjct: 62 LHDETTKENHLDSE 75


>gi|330943932|gb|EGH46140.1| RtrR protein [Pseudomonas syringae pv. pisi str. 1704B]
          Length = 133

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +G+RIR +R    +SQ+ L     I    + + E+G   +   +L  I+ VL    S
Sbjct: 65  LGRRIRTQRKACQISQDALALACNIDRSYMGRIERGEVNITVEKLYRIAGVLACDPS 121


>gi|332288631|ref|YP_004419483.1| hypothetical protein UMN179_00550 [Gallibacterium anatis UMN179]
 gi|330431527|gb|AEC16586.1| conserved hypothetical protein [Gallibacterium anatis UMN179]
          Length = 129

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 41/86 (47%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++IRL R +   SQE++ E + ++     K E+G  R+   +L+ I+++ +  IS     
Sbjct: 5   EKIRLIREMNHWSQEEMAEKMNLSPSGYAKIERGETRLHLDKLEKIAQIFDVDISELLSN 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ 102
              +C  I+       ++    +G+ 
Sbjct: 65  DKKICFLINENSQLSSNYYGANEGMA 90


>gi|314939500|ref|ZP_07846732.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|314944174|ref|ZP_07850819.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|314951901|ref|ZP_07854933.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|314994467|ref|ZP_07859746.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|314997871|ref|ZP_07862772.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313588096|gb|EFR66941.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313591122|gb|EFR69967.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|313595935|gb|EFR74780.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|313597236|gb|EFR76081.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|313641201|gb|EFS05781.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
          Length = 254

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 25/94 (26%), Positives = 44/94 (46%), Gaps = 9/94 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQ--VQKYEKGVNRVGASRLQHISEVLESPISF 72
           VG RIRL R  LG+S ++ G+ +  T     V ++E+G++     RL  I+++    I++
Sbjct: 8   VGNRIRLVRKELGLSMKEFGKKITPTAADSIVSRWERGISLPNNDRLTQIAKIAHKDINW 67

Query: 73  F----FDVSPTVCSDISSEENNVMDFISTPDGLQ 102
                F    +   D     N + DF   P+ + 
Sbjct: 68  LLWGTFKEFISSLLDKEGYTNFLNDF---PETVD 98


>gi|313885235|ref|ZP_07818987.1| peptidase S24-like protein [Eremococcus coleocola ACS-139-V-Col8]
 gi|312619926|gb|EFR31363.1| peptidase S24-like protein [Eremococcus coleocola ACS-139-V-Col8]
          Length = 228

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 37/82 (45%), Gaps = 3/82 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
          G +++ RR    +SQ  L   L I       +E G  +   + L+H++++L     +F  
Sbjct: 4  GDQLKRRRQERQLSQADLARQLNIARSSYYNWETGKTQPNQANLEHLAKLLLVTPDYFDQ 63

Query: 74 -FDVSPTVCSDISSEENNVMDF 94
           + +        S+ ++ V+DF
Sbjct: 64 DYRLLHPYHQLQSARQDQVVDF 85


>gi|310659876|ref|YP_003937597.1| transcriptional regulator [Clostridium sticklandii DSM 519]
 gi|308826654|emb|CBH22692.1| putative transcriptional regulator [Clostridium sticklandii]
          Length = 433

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 38/85 (44%), Gaps = 1/85 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++ ++L     IT  Q+   E+  +      L++ SE LE+PI +F 
Sbjct: 6  LGQKIKKLRKEKNLTLKELAGN-RITAAQISHIERDKSYPSQDLLEYFSEKLETPIDYFL 64

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
          +        I+S      + +   +
Sbjct: 65 ESKEAQAKKIASSIILKSEVLFKTE 89


>gi|258615577|ref|ZP_05713347.1| hypothetical protein EfaeD_07687 [Enterococcus faecium DO]
 gi|293560245|ref|ZP_06676744.1| transcription regulator [Enterococcus faecium E1162]
 gi|294620833|ref|ZP_06700037.1| transcription regulator [Enterococcus faecium U0317]
 gi|314947723|ref|ZP_07851130.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|291599618|gb|EFF30631.1| transcription regulator [Enterococcus faecium U0317]
 gi|291605789|gb|EFF35224.1| transcription regulator [Enterococcus faecium E1162]
 gi|295113443|emb|CBL32080.1| Predicted transcriptional regulators [Enterococcus sp. 7L76]
 gi|313645703|gb|EFS10283.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|315030236|gb|EFT42168.1| helix-turn-helix protein [Enterococcus faecalis TX4000]
 gi|315144773|gb|EFT88789.1| helix-turn-helix protein [Enterococcus faecalis TX2141]
 gi|315158696|gb|EFU02713.1| helix-turn-helix protein [Enterococcus faecalis TX0312]
          Length = 71

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G+SQ +L + + +T Q V  ++ G       +++ +SE+L  PI+  F
Sbjct: 5  SNLSRYRKEKGLSQTELAKKMNVTQQCVSSWQTGRTIPKPYQMKMLSEILSVPINELF 62


>gi|295401956|ref|ZP_06811918.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
 gi|294975958|gb|EFG51574.1| transcriptional regulator, XRE family [Geobacillus
          thermoglucosidasius C56-YS93]
          Length = 72

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/55 (32%), Positives = 30/55 (54%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE+L + LGI+   + + E+G        +Q I+E L   +
Sbjct: 7  GRRIRAFRKLKGYTQERLAKELGISVSTLGEIERGNRLPTEELVQQIAERLNISV 61


>gi|266621706|ref|ZP_06114641.1| transcriptional regulator [Clostridium hathewayi DSM 13479]
 gi|288866607|gb|EFC98905.1| transcriptional regulator [Clostridium hathewayi DSM 13479]
          Length = 291

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +++ R    M+QE+L E L ++ Q V K+E G +     +L  I ++    +       
Sbjct: 6  NLQVLRKRNNMTQEQLAEQLEVSRQAVSKWESGQSYPEMEKLLIICDMFHCDMDSLVKGD 65

Query: 78 PTVCSDISSE 87
           T+     + 
Sbjct: 66 LTLEDQADAA 75


>gi|311743857|ref|ZP_07717663.1| HTH_3 family transcriptional regulator [Aeromicrobium marinum DSM
          15272]
 gi|311312987|gb|EFQ82898.1| HTH_3 family transcriptional regulator [Aeromicrobium marinum DSM
          15272]
          Length = 80

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V +RI + R   G+S+  L + +G+ +Q +   E+G           I+   E P+   F
Sbjct: 8  VHQRIAMLRAERGISRRDLADGVGVHYQTIGYLERGEFSPSLHLALSIAAFFEVPVEVVF 67

Query: 75 DVSP 78
           + P
Sbjct: 68 SLEP 71


>gi|253682587|ref|ZP_04863384.1| helix-turn-helix domain protein [Clostridium botulinum D str.
          1873]
 gi|253562299|gb|EES91751.1| helix-turn-helix domain protein [Clostridium botulinum D str.
          1873]
          Length = 184

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 29/65 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++  R    MS + + +  G++   + + E+G +    S L  I+  L+   S F 
Sbjct: 8  IGINLKTIRTQKNMSLDTVSKLTGVSKAMLGQIERGESNPTVSTLWKIATGLKVSFSSFI 67

Query: 75 DVSPT 79
          D S  
Sbjct: 68 DDSNE 72


>gi|228994857|ref|ZP_04154652.1| Transcriptional regulator [Bacillus pseudomycoides DSM 12442]
 gi|228764882|gb|EEM13641.1| Transcriptional regulator [Bacillus pseudomycoides DSM 12442]
          Length = 64

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R+  GM+Q +L +   ++ Q +   EKG           I + L   ++  F
Sbjct: 4  KVKRIRLEKGMTQGELAKLTNVSRQTIGLIEKGEYNPSLKLCIEICKSLGVTLNDLF 60


>gi|218235129|ref|YP_002366064.1| transcriptional regulator SinR [Bacillus cereus B4264]
 gi|228938496|ref|ZP_04101105.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|228971375|ref|ZP_04132001.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228977987|ref|ZP_04138367.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          Bt407]
 gi|229108836|ref|ZP_04238441.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          Rock1-15]
 gi|229149581|ref|ZP_04277813.1| HTH-type transcriptional regulator sinR [Bacillus cereus m1550]
 gi|218163086|gb|ACK63078.1| transcriptional regulator SinR [Bacillus cereus B4264]
 gi|228633927|gb|EEK90524.1| HTH-type transcriptional regulator sinR [Bacillus cereus m1550]
 gi|228674605|gb|EEL29844.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          Rock1-15]
 gi|228781775|gb|EEM29973.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          Bt407]
 gi|228788242|gb|EEM36195.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228821233|gb|EEM67249.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|326939004|gb|AEA14900.1| SinR protein [Bacillus thuringiensis serovar chinensis CT-43]
          Length = 107

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
               T  +++ SE
Sbjct: 62 LHDETTKETNLDSE 75


>gi|153805880|ref|ZP_01958548.1| hypothetical protein BACCAC_00119 [Bacteroides caccae ATCC 43185]
 gi|149130557|gb|EDM21763.1| hypothetical protein BACCAC_00119 [Bacteroides caccae ATCC 43185]
          Length = 191

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 33/68 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    ++ E+L +  G+  +Q+++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKSLREDKSITIEELAQRSGLAMEQIERIENNIDIPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D    V  
Sbjct: 67 DDQDEVGP 74


>gi|254975373|ref|ZP_05271845.1| putative transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255092763|ref|ZP_05322241.1| putative transcriptional regulator [Clostridium difficile CIP
          107932]
 gi|255314502|ref|ZP_05356085.1| putative transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255517179|ref|ZP_05384855.1| putative transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255650283|ref|ZP_05397185.1| putative transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|260683399|ref|YP_003214684.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260686995|ref|YP_003218128.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|306520257|ref|ZP_07406604.1| putative transcriptional regulator [Clostridium difficile
          QCD-32g58]
 gi|260209562|emb|CBA63177.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260213011|emb|CBE04338.1| putative transcriptional regulator [Clostridium difficile R20291]
          Length = 181

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+N+G++I   R    +S   L +   +T   + + E+G+     + L+ I+  L  P+ 
Sbjct: 3  DLNLGEKIAEVRKKQNLSIRDLAKLADVTPSLLSQIERGLANPSVNSLKSIASSLNVPLF 62

Query: 72 FFF 74
           FF
Sbjct: 63 TFF 65


>gi|41057272|ref|NP_958300.1| hypothetical protein VWBp58 [Streptomyces phage VWB]
 gi|39656095|gb|AAR29746.1| hypothetical protein [Streptomyces phage VWB]
          Length = 76

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 31/57 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G RIR  R++  +SQ +L    G+  + + + E G++  G   L  I+  ++ P++
Sbjct: 16 IGARIRDARILTNLSQLELATLAGVDHKTIHRVEYGLSDPGLGLLLQIAHAVDVPLA 72


>gi|42519880|ref|NP_965810.1| hypothetical protein LJ1831 [Lactobacillus johnsonii NCC 533]
 gi|41584170|gb|AAS09776.1| hypothetical protein LJ_1831 [Lactobacillus johnsonii NCC 533]
          Length = 161

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 25/55 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++I+  R    ++QE++ + L +T Q +  +E   N      +  I+E     + 
Sbjct: 5  EQIKRLRKENNLTQEEMAKKLNVTRQTISNWENNRNLPDFEIIILIAETFGVSLD 59


>gi|315180160|gb|ADT87074.1| hypothetical protein vfu_A01915 [Vibrio furnissii NCTC 11218]
 gi|315181548|gb|ADT88461.1| hypothetical protein vfu_B00214 [Vibrio furnissii NCTC 11218]
 gi|315181554|gb|ADT88467.1| hypothetical protein vfu_B00220 [Vibrio furnissii NCTC 11218]
          Length = 173

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++  R   G+ Q ++ E +G+T Q   K+E G N+  A  ++ ++E+L    S
Sbjct: 9  LKRTREAKGLKQAQVAEYVGVTAQTYMKWENGKNQPKADDIKKLAEILGVSES 61


>gi|240146357|ref|ZP_04744958.1| putative helix-turn-helix protein [Roseburia intestinalis L1-82]
 gi|257201519|gb|EEU99803.1| putative helix-turn-helix protein [Roseburia intestinalis L1-82]
          Length = 113

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/115 (18%), Positives = 45/115 (39%), Gaps = 15/115 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+ RR     SQE L   +G +   +   E G  +V  + L  I+  L++ +    
Sbjct: 8   IGMRIKERRTKKEWSQEMLASTVGNSNPHMSNIEWGKTKVSLATLIDIANALDTTLDALI 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
             +      +  EE +      + + +               + + ++V+++V S
Sbjct: 68  CDNLVKGKAVFDEEISQELEECSEEDI---------------RIVYDMVKALVKS 107


>gi|218288753|ref|ZP_03493016.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
 gi|218241111|gb|EED08287.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
          Length = 82

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 32/73 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R  R + G+S  +L E  G++   +   E G     A++L  I+E L   +S  +  
Sbjct: 6  QRLRYYRKLRGLSVRELAERAGVSVSYIYAIESGARGSNAAKLGLIAEALGVSLSDLWGD 65

Query: 77 SPTVCSDISSEEN 89
          +      +  +  
Sbjct: 66 ARPEKGGVPRDPG 78


>gi|332655084|ref|ZP_08420825.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
 gi|332515944|gb|EGJ45553.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
          Length = 130

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 34/66 (51%), Gaps = 4/66 (6%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLE 67
          D ++G+R++  R    ++Q++LG  +G + +    ++ +YEK      A      +EVL+
Sbjct: 7  DTSIGQRLKFIRRFRRLTQKELGLRMGYSEKTADVRIAQYEKNARTPNAETTAKFAEVLK 66

Query: 68 SPISFF 73
             + F
Sbjct: 67 VSPAVF 72


>gi|295133913|ref|YP_003584589.1| hypothetical protein ZPR_2068 [Zunongwangia profunda SM-A87]
 gi|294981928|gb|ADF52393.1| membrane protein [Zunongwangia profunda SM-A87]
          Length = 214

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 31/59 (52%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + N+  RI+  R++ G SQE L E  G++ + +Q+ E       A  L+ ++E L   I
Sbjct: 3  NQNLSNRIKNFRILKGFSQEALAEHSGLSVRTIQRMENNDRIPNADSLKKVAEALGISI 61


>gi|258515463|ref|YP_003191685.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257779168|gb|ACV63062.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
          Length = 116

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G  I+  R   G+ Q+ +   LG+    + K+E G   + +  L  I+ +   P+S
Sbjct: 6  KTIGANIKELRDNAGLGQKHIAGYLGVDQSLISKFESGERAISSDMLDKIAALFCCPVS 64


>gi|254450572|ref|ZP_05064009.1| transcriptional regulator, XRE family [Octadecabacter antarcticus
           238]
 gi|198264978|gb|EDY89248.1| transcriptional regulator, XRE family [Octadecabacter antarcticus
           238]
          Length = 427

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 26/118 (22%), Positives = 46/118 (38%), Gaps = 12/118 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G R R RR+ LG+ Q  + + LGI+   +   E    R+G   L  ++ VL+   + 
Sbjct: 5   VLTGTRARNRRIDLGLRQTNVAKALGISGSYLNLIEHNRRRIGGKLLHDLARVLDMDAAL 64

Query: 73  FFD------VSPTVCSDISSEENNVMDFISTPDGLQLNRYFI--QIDDVKVRQKIIEL 122
             D      + P   +  +    +V D  +      L   F          R++I +L
Sbjct: 65  LGDEVGDTILGPLKEAAAAFPHASVEDLRAE----DLVARFPGWAALIAAQRRRITQL 118


>gi|163816403|ref|ZP_02207769.1| hypothetical protein COPEUT_02592 [Coprococcus eutactus ATCC
          27759]
 gi|158448400|gb|EDP25395.1| hypothetical protein COPEUT_02592 [Coprococcus eutactus ATCC
          27759]
          Length = 213

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 3/80 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  IR  R+   M+Q++L +  G+    ++ YE G      + L +I+  L      F+
Sbjct: 9  VGYLIRNFRIASDMTQKELADKCGLNESTIRNYELGNRYPDEATLLNIANNLGVS---FY 65

Query: 75 DVSPTVCSDISSEENNVMDF 94
           +S    ++I S  + + D 
Sbjct: 66 ALSDPDVANIFSALHVLFDI 85


>gi|148381133|ref|YP_001255674.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|153930841|ref|YP_001385508.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|153937138|ref|YP_001388914.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|168179166|ref|ZP_02613830.1| DNA-binding protein [Clostridium botulinum NCTC 2916]
 gi|168183501|ref|ZP_02618165.1| DNA-binding protein [Clostridium botulinum Bf]
 gi|226950613|ref|YP_002805704.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
 gi|148290617|emb|CAL84746.1| putative transcriptional regulator [Clostridium botulinum A str.
          ATCC 3502]
 gi|152926885|gb|ABS32385.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|152933052|gb|ABS38551.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|182669975|gb|EDT81951.1| DNA-binding protein [Clostridium botulinum NCTC 2916]
 gi|182673310|gb|EDT85271.1| DNA-binding protein [Clostridium botulinum Bf]
 gi|226843650|gb|ACO86316.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
 gi|322807499|emb|CBZ05074.1| transcriptional regulator, MerR family [Clostridium botulinum
          H04402 065]
          Length = 189

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D ++GK+I+  R    ++ ++L E   ++   + + E+G+  V    L  I++ L+  +
Sbjct: 2  ID-DIGKKIKKLRTNKKLTLKELSEKTNLSIGFLSQLERGLTTVAIDSLTKIAKELDVSL 60

Query: 71 SFFFDVSP 78
          ++FF    
Sbjct: 61 TYFFQAPK 68


>gi|146301462|ref|YP_001196053.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
          UW101]
 gi|146155880|gb|ABQ06734.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
          UW101]
          Length = 138

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++G++I   R +  M QE L + LG   Q +   E     +   +L  +++ L   +
Sbjct: 9  HIGRKISRIRELKDMKQEALAQALGTNQQAISIMENSET-IEEEKLMEVAKALGVSV 64


>gi|298480154|ref|ZP_06998353.1| DNA-binding protein [Bacteroides sp. D22]
 gi|298273963|gb|EFI15525.1| DNA-binding protein [Bacteroides sp. D22]
          Length = 191

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 33/68 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    +S E+L +  G+  +QV++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKALREDKSISIEELAQRSGLAIEQVERIENNIDIPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D    V  
Sbjct: 67 DDQDEVGP 74


>gi|288573106|ref|ZP_06391463.1| transcriptional regulator, XRE family [Dethiosulfovibrio
           peptidovorans DSM 11002]
 gi|288568847|gb|EFC90404.1| transcriptional regulator, XRE family [Dethiosulfovibrio
           peptidovorans DSM 11002]
          Length = 212

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/98 (19%), Positives = 39/98 (39%), Gaps = 2/98 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RI+  R    ++Q++L + +G++   V  +EK            ++  LE+  S+   
Sbjct: 5   GDRIKELRKRKQLTQDQLAQKMGVSRTTVVSWEKSKFEPDRQNTIDLAAALETTTSYLMG 64

Query: 76  --VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
               P+         + ++  +    GL L+     ID
Sbjct: 65  ETDDPSPQKADRQVPSGILAPMRQETGLSLDEAAALID 102


>gi|240140512|ref|YP_002964992.1| hypothetical protein MexAM1_META1p4053 [Methylobacterium
          extorquens AM1]
 gi|240010489|gb|ACS41715.1| conserved hypothetical protein [Methylobacterium extorquens AM1]
          Length = 87

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 30/59 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G  +R  R+  G+SQE+L    GI    V + E+G   V  S L+ ++  L  P++  
Sbjct: 7  IGWNLRRLRVAQGLSQERLALAAGIDRAYVGRVERGSENVTISTLEAMARALAVPVAHL 65


>gi|238018404|ref|ZP_04598830.1| hypothetical protein VEIDISOL_00230 [Veillonella dispar ATCC
          17748]
 gi|237864875|gb|EEP66165.1| hypothetical protein VEIDISOL_00230 [Veillonella dispar ATCC
          17748]
          Length = 129

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 2/59 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV--NRVGASRLQHISEVLESPIS 71
          +G +I   R+ L MSQ +L   +GI+   + K E G   + +    L  I+E  +  ++
Sbjct: 28 LGHKIAHIRISLNMSQYELAHHVGISRSYLSKLECGTGISGMSLEILFKIAEAFQIDVA 86


>gi|225019955|ref|ZP_03709147.1| hypothetical protein CLOSTMETH_03914 [Clostridium methylpentosum
          DSM 5476]
 gi|224947319|gb|EEG28528.1| hypothetical protein CLOSTMETH_03914 [Clostridium methylpentosum
          DSM 5476]
          Length = 127

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 32/77 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + K+++  R+  G+ Q ++ E + I    +  YE          L  ++      I +
Sbjct: 1  MEIAKKLQELRIEKGLKQTEVAEAINIVQSTLANYESNATLPDYPILIKLANFYNVSIDY 60

Query: 73 FFDVSPTVCSDISSEEN 89
            D SPT  S   + EN
Sbjct: 61 LLDNSPTKLSWQDAAEN 77


>gi|160883113|ref|ZP_02064116.1| hypothetical protein BACOVA_01081 [Bacteroides ovatus ATCC 8483]
 gi|237718837|ref|ZP_04549318.1| transcriptional regulator [Bacteroides sp. 2_2_4]
 gi|260173280|ref|ZP_05759692.1| transcriptional regulator [Bacteroides sp. D2]
 gi|293371883|ref|ZP_06618287.1| DNA-binding protein [Bacteroides ovatus SD CMC 3f]
 gi|315921554|ref|ZP_07917794.1| transcriptional regulator [Bacteroides sp. D2]
 gi|156111585|gb|EDO13330.1| hypothetical protein BACOVA_01081 [Bacteroides ovatus ATCC 8483]
 gi|229451969|gb|EEO57760.1| transcriptional regulator [Bacteroides sp. 2_2_4]
 gi|292633129|gb|EFF51706.1| DNA-binding protein [Bacteroides ovatus SD CMC 3f]
 gi|295085499|emb|CBK67022.1| transcriptional regulator [Bacteroides xylanisolvens XB1A]
 gi|313695429|gb|EFS32264.1| transcriptional regulator [Bacteroides sp. D2]
          Length = 191

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 33/68 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    +S E+L +  G+  +QV++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKALREDKSISIEELAQRSGLAIEQVERIENNIDIPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D    V  
Sbjct: 67 DDQDEVGP 74


>gi|29833680|ref|NP_828314.1| regulatory protein [Streptomyces avermitilis MA-4680]
 gi|29610804|dbj|BAC74849.1| putative regulatory protein [Streptomyces avermitilis MA-4680]
          Length = 206

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 29/74 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R   G +   L E  GI+   + + E G+ +     L  I+   + P+    
Sbjct: 26 VGPRLRRIRKERGATLAGLSEATGISVSTLSRLESGLRKPSLELLLPIARAHQVPLDELV 85

Query: 75 DVSPTVCSDISSEE 88
             P     + ++ 
Sbjct: 86 GAPPVSDPRVRAKP 99


>gi|47564457|ref|ZP_00235502.1| transcriptional regulator, Cro/CI family, putative [Bacillus
          cereus G9241]
 gi|47558609|gb|EAL16932.1| transcriptional regulator, Cro/CI family, putative [Bacillus
          cereus G9241]
          Length = 374

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I++ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I 
Sbjct: 4  IHIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISID 62


>gi|324993465|gb|EGC25385.1| transcriptional regulator [Streptococcus sanguinis SK405]
 gi|327458828|gb|EGF05176.1| transcriptional regulator [Streptococcus sanguinis SK1057]
          Length = 65

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 24/57 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R+++ R    M+Q  L + +G+T Q +   E G      S    I + L   +   F
Sbjct: 6  RLKMARAERDMTQGDLADAIGVTRQTIGLIEAGKYNPSLSLCLAICKCLNKTLDQLF 62


>gi|299144678|ref|ZP_07037746.1| DNA-binding protein [Bacteroides sp. 3_1_23]
 gi|298515169|gb|EFI39050.1| DNA-binding protein [Bacteroides sp. 3_1_23]
          Length = 191

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 33/68 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    +S E+L +  G+  +QV++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKALREDKSISIEELAQRSGLAIEQVERIENNIDIPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D    V  
Sbjct: 67 DDQDEVGP 74


>gi|261821438|ref|YP_003259544.1| phage repressor [Pectobacterium wasabiae WPP163]
 gi|261605451|gb|ACX87937.1| putative phage repressor [Pectobacterium wasabiae WPP163]
          Length = 244

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R   G+SQ+ LG+ +G++   +QK E G      +++  +S  L     +  + 
Sbjct: 7  ERLKTVRTSQGLSQKALGDMVGVSQAAIQKIEGGKAS-QTTKIVELSNALHIRPEWLANG 65

Query: 77 SPTVCSD 83
             + SD
Sbjct: 66 EGPMRSD 72


>gi|256785782|ref|ZP_05524213.1| hypothetical protein SlivT_14926 [Streptomyces lividans TK24]
          Length = 202

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 28/71 (39%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G       V  ++G R+R  R   G++  +L    GI+   + + E G    G   L 
Sbjct: 1  MSGGDDETAQVMTSLGARLRAIRQARGLTLAQLAAATGISVSTLSRLESGQREPGLRHLL 60

Query: 61 HISEVLESPIS 71
           ++     P+ 
Sbjct: 61 PLARAHRLPLD 71


>gi|326204104|ref|ZP_08193965.1| Cupin 2 conserved barrel domain protein [Clostridium
          papyrosolvens DSM 2782]
 gi|325985871|gb|EGD46706.1| Cupin 2 conserved barrel domain protein [Clostridium
          papyrosolvens DSM 2782]
          Length = 184

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 26/59 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +  RI+  R I G++ E L   L I+ +  + YE G   +  S L  I+      +S
Sbjct: 6  RLIASRIKELREISGITVEALAAELKISEEAYRSYESGETDIPVSFLYQIANKFNVELS 64


>gi|228962124|ref|ZP_04123604.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|228797560|gb|EEM44693.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pakistani str. T13001]
          Length = 108

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 13/80 (16%), Positives = 35/80 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R    ++Q+ + + LGI    + ++E G   + +  +   ++  +  + +   
Sbjct: 5  GQRLKDLRREKKLTQQDIADVLGIEKSNISRFESGKQSLSSENIIKTAKYFDVSVDYILG 64

Query: 76 VSPTVCSDISSEENNVMDFI 95
          +S     +   EE    D +
Sbjct: 65 ISDYKTINKKKEEQIPKDVV 84


>gi|261366571|ref|ZP_05979454.1| LexA repressor [Subdoligranulum variabile DSM 15176]
 gi|282571390|gb|EFB76925.1| LexA repressor [Subdoligranulum variabile DSM 15176]
          Length = 209

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 27/51 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          R++  R     SQ ++   LG+T Q V K+E G +      +  ++E+L++
Sbjct: 5  RLKEARKAKKYSQAEISRMLGVTQQAVGKWETGRSTPDPQTVARLAEILDT 55


>gi|212696766|ref|ZP_03304894.1| hypothetical protein ANHYDRO_01308 [Anaerococcus hydrogenalis DSM
          7454]
 gi|212676265|gb|EEB35872.1| hypothetical protein ANHYDRO_01308 [Anaerococcus hydrogenalis DSM
          7454]
          Length = 116

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 35/74 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ +  +R    M+Q+ + E L ++ Q V K+E+G +    S L  ++++L+  +    +
Sbjct: 10 GEFVCKKRKEKNMTQKDIAEKLYVSVQAVSKWERGKSLPDISLLMPLAKILDVKLVNLLE 69

Query: 76 VSPTVCSDISSEEN 89
                 D    EN
Sbjct: 70 AREEKTEDSQKIEN 83


>gi|254389389|ref|ZP_05004617.1| transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|294817070|ref|ZP_06775712.1| Transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|326445868|ref|ZP_08220602.1| putative XRE family transcriptional regulator [Streptomyces
          clavuligerus ATCC 27064]
 gi|197703104|gb|EDY48916.1| transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|294321885|gb|EFG04020.1| Transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
          Length = 246

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 23/59 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG R+R  R   G++   L    G++   + + E G  R     L  ++     P+   
Sbjct: 13 VGPRLRALRRDRGITLADLATTTGVSESTLSRLENGQRRPTLELLLPLARTYNVPLDDL 71


>gi|184155136|ref|YP_001843476.1| hypothetical protein LAF_0660 [Lactobacillus fermentum IFO 3956]
 gi|183226480|dbj|BAG26996.1| hypothetical phage protein [Lactobacillus fermentum IFO 3956]
          Length = 104

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 34/80 (42%), Gaps = 3/80 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G+RI   R    MSQ +L + L I    +  YE    +     L+ +++     + F
Sbjct: 1  MNIGERIAQLRKSRSMSQFQLAKTLNIATSTLGMYETNKRKPNMEMLEKLADFFGVSVDF 60

Query: 73 FF---DVSPTVCSDISSEEN 89
               +      +D++ ++ 
Sbjct: 61 LLGRPEKDDLKTADLADDDT 80


>gi|168217416|ref|ZP_02643041.1| transcriptional regulator [Clostridium perfringens NCTC 8239]
 gi|182380504|gb|EDT77983.1| transcriptional regulator [Clostridium perfringens NCTC 8239]
          Length = 141

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 25/55 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +++  R    +SQE+L + L I+ Q + K+E G        L  + ++    + 
Sbjct: 5  NKLKELRKEKNISQEQLAKELNISRQAISKWESGKAYPDIENLILLRKIFGVSLD 59


>gi|160947244|ref|ZP_02094411.1| hypothetical protein PEPMIC_01177 [Parvimonas micra ATCC 33270]
 gi|158446378|gb|EDP23373.1| hypothetical protein PEPMIC_01177 [Parvimonas micra ATCC 33270]
          Length = 180

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 36/59 (61%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G++I+  R ILG++QE+L E   +T   + + E+G+     S L+ + E L + IS
Sbjct: 1  MDIGEKIKNLRTILGLTQEELAERAELTKGFISQLERGLTSPSISSLEDVLEALGTNIS 59


>gi|222054124|ref|YP_002536486.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221563413|gb|ACM19385.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 196

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 37/86 (43%), Gaps = 11/86 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++IR  R     + ++L +  G++   + + E        + L  I++ L+  I +FF
Sbjct: 13  LGEKIRKLRQEQRHTLQELADVTGLSKPLLSQIENDQVTPPLATLLRIAKGLKVGIHYFF 72

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
           +           EE +   F+ T  G
Sbjct: 73  E-----------EEGDRQKFVLTRGG 87


>gi|19908850|gb|AAM03020.1|AF472611_1 regulatory protein C.BcnI [Brevibacillus centrosporus]
          Length = 74

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 31/59 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+++R+ R   G++QEKL E  G+    +   E+G   +  + ++ I+  L+  I   F
Sbjct: 9  GRKVRIIREQKGLTQEKLAEEAGLHRTYISSLERGERSISLNNIEKIARALDVEIYQLF 67


>gi|298206777|ref|YP_003714956.1| transcriptional regulator [Croceibacter atlanticus HTCC2559]
 gi|83849409|gb|EAP87277.1| transcriptional regulator [Croceibacter atlanticus HTCC2559]
          Length = 240

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+RI+  R     SQ+ + E L I+       E   N V    +  +S++ +    F
Sbjct: 4  IGQRIKSLRKEKKYSQQFIAEKLNISQSAYSLIESAHNNVMIGHVLTLSKLYDVSTDF 61


>gi|325168260|ref|YP_004277301.1| XRE family transcriptional regulator [Acidiphilium multivorum
          AIU301]
 gi|325052939|dbj|BAJ83272.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
          Length = 73

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 28/56 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G++++  R+  G +QE+L E  G+    +   E+G   +G   L  I+  L  P +
Sbjct: 10 GRKVKQLRLAKGWTQEELAEHTGLHPTYIGGVERGERNLGLDNLLKIARALGEPPA 65


>gi|313898304|ref|ZP_07831841.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956686|gb|EFR38317.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 180

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 23/106 (21%), Positives = 46/106 (43%), Gaps = 3/106 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQ--QVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +G R++  R    M+++++G+ +GI +   ++  YE G        L  ++E L+   S+
Sbjct: 4   LGYRLKKVRKARRMTRKEIGDLIGINYADTRLDAYETGKTYPREKMLNKLAEALDVSSSW 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
                    +  S EE  +   +  P   +  +Y+ Q  D   R K
Sbjct: 64  LATGELDDKTVKSLEEKGIFYVVFKPFS-EEIKYYYQYTDFLARNK 108


>gi|310815538|ref|YP_003963502.1| transcriptional regulator, XRE family with cupin sensor
          [Ketogulonicigenium vulgare Y25]
 gi|308754273|gb|ADO42202.1| transcriptional regulator, XRE family with cupin sensor
          [Ketogulonicigenium vulgare Y25]
          Length = 214

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 28/58 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G RIR  R   G++ ++L +  G++   + + E+         L  +++VL+  I  F
Sbjct: 30 GSRIRELRKKNGLTLQQLSDRAGLSVGFLSQLERDKAVPSLGSLARLAQVLQVDIDHF 87


>gi|282866034|ref|ZP_06275082.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
 gi|282559073|gb|EFB64627.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
          Length = 191

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 30/70 (42%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  V KRIR  R   G S + L     ++   + + E G  R+   +L  I+  L + 
Sbjct: 7  DLDSLVRKRIRALRAAHGWSLDDLAARCHLSPSTLSRIETGHRRIALDQLTVIARALSTS 66

Query: 70 ISFFFDVSPT 79
          +    + +P 
Sbjct: 67 LDQLVEAAPD 76


>gi|258515642|ref|YP_003191864.1| transcriptional regulator, XRE family [Desulfotomaculum acetoxidans
           DSM 771]
 gi|257779347|gb|ACV63241.1| transcriptional regulator, XRE family [Desulfotomaculum acetoxidans
           DSM 771]
          Length = 125

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/109 (16%), Positives = 44/109 (40%), Gaps = 8/109 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R+   R    +  E+L E +G+  + +  YEK  ++     L   ++     + +   
Sbjct: 5   GERLYQLRKSKNLKAEELAEFVGLKRRIIFLYEKNESKPSYDTLILFADFFNVSLDYLVG 64

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            S      +S+    + +F S     ++          +VRQ + ++++
Sbjct: 65  RSDNPQRILSALSITLDEFFSDDSAPEML--------PEVRQIVNKVIK 105


>gi|228996463|ref|ZP_04156103.1| Helix-turn-helix repressor protein [Bacillus mycoides Rock3-17]
 gi|229008187|ref|ZP_04165710.1| Helix-turn-helix repressor protein [Bacillus mycoides Rock1-4]
 gi|228753084|gb|EEM02599.1| Helix-turn-helix repressor protein [Bacillus mycoides Rock1-4]
 gi|228763293|gb|EEM12200.1| Helix-turn-helix repressor protein [Bacillus mycoides Rock3-17]
          Length = 64

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 2/62 (3%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFDVSP 78
            R  LG+SQEKL E LG++ Q +   EKG           I++  ++ I   F ++   
Sbjct: 3  EYRKKLGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIENVFIYEGKE 62

Query: 79 TV 80
            
Sbjct: 63 RE 64


>gi|255038652|ref|YP_003089273.1| helix-turn-helix domain-containing protein [Dyadobacter
          fermentans DSM 18053]
 gi|254951408|gb|ACT96108.1| helix-turn-helix domain protein [Dyadobacter fermentans DSM
          18053]
          Length = 85

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 25/57 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            V + IR  R     +QE L   LGI+     K E    R+   RL  I+++L+  
Sbjct: 10 RAVARNIRKIREYRDYTQEYLAMKLGISQNAYSKIELAYTRITLERLIQIAQILDVD 66


>gi|254474601|ref|ZP_05087987.1| DNA-binding protein [Ruegeria sp. R11]
 gi|214028844|gb|EEB69679.1| DNA-binding protein [Ruegeria sp. R11]
          Length = 189

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 34/80 (42%), Gaps = 2/80 (2%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
            + P P    +G  +R  R    ++   L   LG +   + + E+  +    S L+ I+
Sbjct: 2  TDQSPQP--ATLGADLRALRKSRSLTLTDLAARLGRSVGWLSQVERDKSEPSISDLRAIA 59

Query: 64 EVLESPISFFFDVSPTVCSD 83
          + L+ P+S  F  S +   +
Sbjct: 60 KCLDVPMSMLFAHSASPADE 79


>gi|152964475|ref|YP_001360259.1| XRE family transcriptional regulator [Kineococcus radiotolerans
          SRS30216]
 gi|151358992|gb|ABS01995.1| transcriptional regulator, XRE family [Kineococcus radiotolerans
          SRS30216]
          Length = 194

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/96 (16%), Positives = 39/96 (40%), Gaps = 3/96 (3%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   +D  + +RIR  R+  G S + L     ++   + + E G  R+   +L  ++  L
Sbjct: 1  MEQDIDAIIRQRIRGLRLAKGWSLDALAARCFMSPSTLSRIETGHRRIALDQLVPLARAL 60

Query: 67 ESPISFFFDV---SPTVCSDISSEENNVMDFISTPD 99
          ++ +    D       V   ++     V  ++ + +
Sbjct: 61 DTTLDDLVDSGAEDDVVIRPLAEHRPGVTTWLLSRE 96


>gi|39998413|ref|NP_954364.1| Cro/CI family transcriptional regulator [Geobacter sulfurreducens
          PCA]
 gi|39985360|gb|AAR36714.1| transcriptional regulator, Cro/CI family [Geobacter
          sulfurreducens PCA]
 gi|298507358|gb|ADI86081.1| helix-turn-helix transcriptional regulator, LexA-related
          [Geobacter sulfurreducens KN400]
          Length = 212

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 25/62 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R   GM+Q+   + LGI    +   E+G      + +  +       +++  
Sbjct: 12 LGGRIRKLRQARGMTQKAFADSLGIVQGFLSSIERGRKVPSDTLVIALCRTYGVNVTWLL 71

Query: 75 DV 76
            
Sbjct: 72 QG 73


>gi|324020380|gb|EGB89599.1| helix-turn-helix protein [Escherichia coli MS 117-3]
          Length = 153

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 29/62 (46%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   + I  G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++E L
Sbjct: 1  MKKSLRILFGQRVKELRIATGMSQEAFADLCGFARSYLSRIERGGSNASLDAIEVLAEAL 60

Query: 67 ES 68
            
Sbjct: 61 SV 62


>gi|295704387|ref|YP_003597462.1| transcriptional regulator [Bacillus megaterium DSM 319]
 gi|294802046|gb|ADF39112.1| transcriptional regulator [Bacillus megaterium DSM 319]
          Length = 297

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/75 (28%), Positives = 40/75 (53%), Gaps = 1/75 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            VG+ I+  R I  M+  +L E +  T +++ ++E+G     +  L H+S+ L  P+++
Sbjct: 5  KQVGQLIQDLRKIAEMTTVELSEGI-CTEEELHRFEQGEIHASSEVLYHLSKRLGVPMNY 63

Query: 73 FFDVSPTVCSDISSE 87
          FF+      +D S E
Sbjct: 64 FFEAGELTPNDYSKE 78


>gi|291537143|emb|CBL10255.1| Predicted transcriptional regulators [Roseburia intestinalis
          M50/1]
          Length = 86

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 29/74 (39%), Gaps = 2/74 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV--NRVGASRLQHISEVLESPISF 72
          +G  I   R + G+SQ KL E +GI+   +   E       V    L  I++ L+ P   
Sbjct: 12 IGLNIAYFRKLKGISQMKLAETIGISRTHMSNIEAPNMPTSVSLETLMDIADALDIPAYV 71

Query: 73 FFDVSPTVCSDISS 86
                 V  D  S
Sbjct: 72 LLSFHSDVEIDTPS 85


>gi|262191222|ref|ZP_06049420.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae CT
          5369-93]
 gi|262032888|gb|EEY51428.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae CT
          5369-93]
          Length = 181

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 35/78 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  +++  R   G+S +   +  G++   + + E+G +    + L  I+  LE+  S F
Sbjct: 9  QIANQLKNLRKSRGLSLDATAQLTGVSKAMLGQIERGESSPTIATLWKIASGLEASFSAF 68

Query: 74 FDVSPTVCSDISSEENNV 91
          F   P + S   S  ++ 
Sbjct: 69 FANDPQLLSSERSFPDDP 86


>gi|257871444|ref|ZP_05651097.1| conserved hypothetical protein [Enterococcus gallinarum EG2]
 gi|257805608|gb|EEV34430.1| conserved hypothetical protein [Enterococcus gallinarum EG2]
          Length = 121

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/88 (19%), Positives = 37/88 (42%), Gaps = 9/88 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-- 72
           +G+R++  R+ +  +Q+++ + LGIT      +E   N      +  ++E+      +  
Sbjct: 13  LGERLKALRIGMNQTQQQIADHLGITRAAYSHFENDRNEPDGETIVKLAELFHVSTDYLL 72

Query: 73  -------FFDVSPTVCSDISSEENNVMD 93
                  F   S  V +  +  + NV D
Sbjct: 73  GRHAIDNFTQPSKRVQTVAAHIDENVTD 100


>gi|228899959|ref|ZP_04064198.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          IBL 4222]
 gi|228964335|ref|ZP_04125453.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|228795344|gb|EEM42833.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|228859670|gb|EEN04091.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          IBL 4222]
          Length = 107

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
               T  +++ SE
Sbjct: 62 LHDETTKATNLDSE 75


>gi|254428879|ref|ZP_05042586.1| Helix-turn-helix domain protein [Alcanivorax sp. DG881]
 gi|196195048|gb|EDX90007.1| Helix-turn-helix domain protein [Alcanivorax sp. DG881]
          Length = 119

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 24/107 (22%), Positives = 47/107 (43%), Gaps = 3/107 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R+ LGM+QE+LG  L +T   +  +E G +  G   L  +  VL   +      
Sbjct: 15  ERLKAARLALGMTQEQLGFELEVTKSTISAWENGRDSPGFRLLPKLKAVLGVSLDHLI-C 73

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
              V      +        +  +  QL + + ++  VK RQ ++ ++
Sbjct: 74  GDQVEGASELKSKYDAQVRNDAEA-QLLKGYRRL-SVKRRQGLLAMI 118


>gi|168186931|ref|ZP_02621566.1| putative phage related transcriptional regulator [Clostridium
          botulinum C str. Eklund]
 gi|169295256|gb|EDS77389.1| putative phage related transcriptional regulator [Clostridium
          botulinum C str. Eklund]
          Length = 122

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 30/61 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + KR++  R  + ++Q++L E +G++   +   E G         + +++   +   ++F
Sbjct: 4  ISKRLKESRTEVNLTQQQLAEKIGVSTSIIGDIESGRRVASKKTAKKLADFFNTNSEYWF 63

Query: 75 D 75
          D
Sbjct: 64 D 64


>gi|154685684|ref|YP_001420845.1| Xre [Bacillus amyloliquefaciens FZB42]
 gi|154351535|gb|ABS73614.1| Xre [Bacillus amyloliquefaciens FZB42]
          Length = 112

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 12/75 (16%), Positives = 32/75 (42%), Gaps = 2/75 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R++  R     +QE++   +G++  +   YE G +      LQ +++  +    +  
Sbjct: 2  IGGRLKSLRGKK--TQEEVANHIGVSRARYSHYENGRSEPDYDTLQKLADYFKVSTDYLL 59

Query: 75 DVSPTVCSDISSEEN 89
                  D+ ++ +
Sbjct: 60 TGKEPSDEDMFADPD 74


>gi|78060967|ref|YP_370875.1| XRE family transcriptional regulator [Burkholderia sp. 383]
 gi|77968852|gb|ABB10231.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia sp. 383]
          Length = 193

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/115 (18%), Positives = 43/115 (37%), Gaps = 10/115 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +IR  R  L  + +      GI+   + + E+G+     + L  I+  L   + +F 
Sbjct: 17  LGSKIRALRQRLKRTLDDTATAAGISKPFLSQVERGLASPSLTSLAGIAHALGVTVQYFV 76

Query: 75  DVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFIQIDDVKVRQKI 119
           D      S    E+     F  +           +G QL    +++   + R ++
Sbjct: 77  DTPSEERSVCRGEQLRFFGFADSANLFARLTNVSEGRQLEAILVRMPPGQKRSEV 131


>gi|16804446|ref|NP_465931.1| hypothetical protein lmo2408 [Listeria monocytogenes EGD-e]
 gi|224503444|ref|ZP_03671751.1| hypothetical protein LmonFR_13202 [Listeria monocytogenes FSL
          R2-561]
 gi|254831169|ref|ZP_05235824.1| hypothetical protein Lmon1_07403 [Listeria monocytogenes 10403S]
 gi|255018503|ref|ZP_05290629.1| hypothetical protein LmonF_13781 [Listeria monocytogenes FSL
          F2-515]
 gi|16411896|emb|CAD00486.1| lmo2408 [Listeria monocytogenes EGD-e]
          Length = 67

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 27/61 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +++ R   G++Q +L   L ++ Q +   EKG           I++  + P+   F++  
Sbjct: 7  VKIIREKKGITQNELAHSLDVSRQTIHAIEKGKYNPSLELSLKIAKFFDLPVEEIFNLEG 66

Query: 79 T 79
           
Sbjct: 67 E 67


>gi|329941606|ref|ZP_08290871.1| regulatory protein [Streptomyces griseoaurantiacus M045]
 gi|329299323|gb|EGG43223.1| regulatory protein [Streptomyces griseoaurantiacus M045]
          Length = 229

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 27/64 (42%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
            + V   VG R+R  R   G +   L E  GI+   + + E G+ +     L  I+   +
Sbjct: 41  TDEVLAEVGPRLRRIRKERGATLAALSEATGISVSTLSRLESGLRKPSLELLLPIARAHQ 100

Query: 68  SPIS 71
            P+ 
Sbjct: 101 VPLD 104


>gi|323693921|ref|ZP_08108108.1| XRE family Transcriptional regulator [Clostridium symbiosum
          WAL-14673]
 gi|323502018|gb|EGB17893.1| XRE family Transcriptional regulator [Clostridium symbiosum
          WAL-14673]
          Length = 192

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 29/71 (40%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  I   R   G +Q +L E L ++ + V K+E G+     S L  +S VL   I    +
Sbjct: 7  GALISSLRKEKGYTQRQLAEALHVSDKAVSKWECGLGCPDVSLLGALSSVLGVNIEKILE 66

Query: 76 VSPTVCSDISS 86
                S+   
Sbjct: 67 GELEPNSEDGG 77


>gi|323486288|ref|ZP_08091614.1| XRE family Transcriptional regulator [Clostridium symbiosum
          WAL-14163]
 gi|323400398|gb|EGA92770.1| XRE family Transcriptional regulator [Clostridium symbiosum
          WAL-14163]
          Length = 192

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 29/71 (40%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  I   R   G +Q +L E L ++ + V K+E G+     S L  +S VL   I    +
Sbjct: 7  GALISSLRKEKGYTQRQLAEALHVSDKAVSKWECGLGCPDVSLLGALSSVLGVNIEKILE 66

Query: 76 VSPTVCSDISS 86
                S+   
Sbjct: 67 GELEPNSEDGG 77


>gi|313674149|ref|YP_004052145.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
 gi|312940847|gb|ADR20037.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
          Length = 214

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 27/56 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+ I+  R + G++Q +L + + ++   +  YE+G        +   +EV +  I 
Sbjct: 5  GENIKKIRSVRGLTQSQLADIIDVSRGVISSYEEGRAEPKIETIIKTAEVFQVTID 60


>gi|296140142|ref|YP_003647385.1| XRE family transcriptional regulator [Tsukamurella paurometabola
           DSM 20162]
 gi|296028276|gb|ADG79046.1| transcriptional regulator, XRE family [Tsukamurella paurometabola
           DSM 20162]
          Length = 113

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 39/93 (41%), Gaps = 7/93 (7%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV------NRVGASRLQHISEVLESPIS 71
           R+   R   G+SQEKL E  G+   Q+   E+ V      +    S L  ++  L+ P +
Sbjct: 18  RLLTLRKARGISQEKLAERAGLHRNQISNIERNVSSGDRFSDPHMSTLYRLAAALDVPPA 77

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
                +    +  S+E++   D  +T +   L 
Sbjct: 78  LLLPDADRRVAPRSAEQDG-ADAAATVESSLLV 109


>gi|291528651|emb|CBK94237.1| Predicted transcriptional regulators [Eubacterium rectale M104/1]
          Length = 213

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 3/80 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  IR  R+   M+Q++L +  G+    ++ YE G      + L +I+  L      F+
Sbjct: 9  VGYLIRNFRIASDMTQKELADKCGLNESTIRNYELGNRYPDEATLLNIANNLGVS---FY 65

Query: 75 DVSPTVCSDISSEENNVMDF 94
           +S    ++I S  + + D 
Sbjct: 66 ALSDPDVANIFSALHVLFDI 85


>gi|238063042|ref|ZP_04607751.1| transcriptional regulator [Micromonospora sp. ATCC 39149]
 gi|237884853|gb|EEP73681.1| transcriptional regulator [Micromonospora sp. ATCC 39149]
          Length = 199

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG R++  R   G++   L E  GI+   + + E G  R     L  I++  + P+ 
Sbjct: 15 VGPRLKRLRTQRGVTLTALAEATGISKSTLSRLEGGQRRPSLELLLPIAQAHQVPLD 71


>gi|59713765|ref|YP_206540.1| transcriptional repressor rstR [Vibrio fischeri ES114]
 gi|59482013|gb|AAW87652.1| transcriptional repressor rstR [Vibrio fischeri ES114]
          Length = 111

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/113 (18%), Positives = 45/113 (39%), Gaps = 7/113 (6%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +RI+  R    ++QE +   + I      KYEKG        ++ +++     IS FFD 
Sbjct: 4   ERIKELRSSRNLTQEDVANAMKIAKSTYIKYEKGTQSPQLETIEVMAKFYGVDISEFFDE 63

Query: 77  SPTVCSDISSEENNVMDFI--STPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                      +  +++ +     + + L      I+ +  R++ I L + + 
Sbjct: 64  KKPDLDLQLMSKLELINQLEKDEKESIILM-----IEGLIFRRQNINLSKRLA 111


>gi|15675661|ref|NP_269835.1| hypothetical protein SPy_1834 [Streptococcus pyogenes M1 GAS]
 gi|71911371|ref|YP_282921.1| transcriptional regulator [Streptococcus pyogenes MGAS5005]
 gi|13622874|gb|AAK34556.1| hypothetical protein SPy_1834 [Streptococcus pyogenes M1 GAS]
 gi|71854153|gb|AAZ52176.1| transcriptional regulator [Streptococcus pyogenes MGAS5005]
          Length = 195

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I   R    +SQEKL E + ++ Q +  +E          L  +S++ +  + 
Sbjct: 1  MEIGQQIIRYRKQQALSQEKLAEKVYVSRQSISNWENDKTYPDIHSLLLLSQIFQVSLD 59


>gi|60680282|ref|YP_210426.1| putative DNA-binding protein [Bacteroides fragilis NCTC 9343]
 gi|253563871|ref|ZP_04841328.1| conserved hypothetical protein [Bacteroides sp. 3_2_5]
 gi|265765427|ref|ZP_06093702.1| conserved hypothetical protein [Bacteroides sp. 2_1_16]
 gi|60491716|emb|CAH06472.1| putative DNA-binding protein [Bacteroides fragilis NCTC 9343]
 gi|251947647|gb|EES87929.1| conserved hypothetical protein [Bacteroides sp. 3_2_5]
 gi|263254811|gb|EEZ26245.1| conserved hypothetical protein [Bacteroides sp. 2_1_16]
 gi|301161810|emb|CBW21351.1| putative DNA-binding protein [Bacteroides fragilis 638R]
          Length = 89

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G +IR RR +LG++Q+ L +   I+   + K E G   +   +L  I EVL   +S
Sbjct: 21 KQIGIQIRQRRKMLGINQQTLADLAQISINTITKIENGEININFQKLYAILEVLGLELS 79


>gi|154248612|ref|YP_001419570.1| XRE family transcriptional regulator [Xanthobacter autotrophicus
           Py2]
 gi|154162697|gb|ABS69913.1| transcriptional regulator, XRE family [Xanthobacter autotrophicus
           Py2]
          Length = 224

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 27/65 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++R  R  L ++   L     I+   + K E G      + LQ IS+ L  PI+  F
Sbjct: 41  LGVQVRSIRRELDLTVSDLAGAASISVGMLSKIENGQISPSLATLQAISKALNVPITTLF 100

Query: 75  DVSPT 79
                
Sbjct: 101 SAFEE 105


>gi|119717792|ref|YP_924757.1| hypothetical protein Noca_3570 [Nocardioides sp. JS614]
 gi|119538453|gb|ABL83070.1| protein of unknown function DUF955 [Nocardioides sp. JS614]
          Length = 372

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/113 (18%), Positives = 46/113 (40%), Gaps = 13/113 (11%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
           G R+ + R +   ++ +L   LGI+   + +YEKG  R  +  L  I   L  P  FF  
Sbjct: 16  GTRLTVARRLRRKTKAQLARELGISATAIAQYEKGQARPSSGVLNQICLSLGLPREFFGV 75

Query: 74  ---FDVSPTVCSDI----SSEENNVMDFIS----TPDGLQLNRYFIQIDDVKV 115
                + P   +      ++   +    ++    + + + L   ++ +  V++
Sbjct: 76  SRPLTLLPASGAHFRSLRATPATSREQALAYGELSLELIDLISQYVHLPPVRL 128


>gi|30260266|ref|NP_842643.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|42779154|ref|NP_976401.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|47525328|ref|YP_016677.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49183109|ref|YP_026361.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|49479321|ref|YP_034428.1| transcriptional regulator [Bacillus thuringiensis serovar
          konkukian str. 97-27]
 gi|52145140|ref|YP_081687.1| transcriptional regulator [Bacillus cereus E33L]
 gi|65317536|ref|ZP_00390495.1| COG1396: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|118475846|ref|YP_892997.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|165872558|ref|ZP_02217190.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167635071|ref|ZP_02393388.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|167641513|ref|ZP_02399761.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170688934|ref|ZP_02880136.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|170707546|ref|ZP_02897999.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|177655635|ref|ZP_02936998.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190569001|ref|ZP_03021902.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|196036381|ref|ZP_03103778.1| DNA-binding protein [Bacillus cereus W]
 gi|196041773|ref|ZP_03109063.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|196047358|ref|ZP_03114571.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|206977949|ref|ZP_03238836.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|217957651|ref|YP_002336193.1| DNA-binding protein [Bacillus cereus AH187]
 gi|218901277|ref|YP_002449111.1| DNA-binding protein [Bacillus cereus AH820]
 gi|222093845|ref|YP_002527894.1| transcriptional regulator [Bacillus cereus Q1]
 gi|225862128|ref|YP_002747506.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|227812749|ref|YP_002812758.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|228912814|ref|ZP_04076462.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
 gi|228925328|ref|ZP_04088425.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|228931577|ref|ZP_04094484.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|228943881|ref|ZP_04106267.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|229015477|ref|ZP_04172476.1| Transcriptional regulator Xre [Bacillus cereus AH1273]
 gi|229021686|ref|ZP_04178269.1| Transcriptional regulator Xre [Bacillus cereus AH1272]
 gi|229089206|ref|ZP_04220488.1| Transcriptional regulator Xre [Bacillus cereus Rock3-42]
 gi|229100872|ref|ZP_04231679.1| Transcriptional regulator Xre [Bacillus cereus Rock3-28]
 gi|229119737|ref|ZP_04248999.1| Transcriptional regulator Xre [Bacillus cereus 95/8201]
 gi|229136921|ref|ZP_04265549.1| Transcriptional regulator Xre [Bacillus cereus BDRD-ST26]
 gi|229159248|ref|ZP_04287273.1| Transcriptional regulator Xre [Bacillus cereus R309803]
 gi|229182469|ref|ZP_04309721.1| Transcriptional regulator Xre [Bacillus cereus BGSC 6E1]
 gi|229194465|ref|ZP_04321269.1| Transcriptional regulator Xre [Bacillus cereus m1293]
 gi|229603974|ref|YP_002864727.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|254682298|ref|ZP_05146159.1| DNA-binding protein [Bacillus anthracis str. CNEVA-9066]
 gi|254724216|ref|ZP_05186001.1| DNA-binding protein [Bacillus anthracis str. A1055]
 gi|254735477|ref|ZP_05193185.1| DNA-binding protein [Bacillus anthracis str. Western North
          America USA6153]
 gi|254744621|ref|ZP_05202300.1| DNA-binding protein [Bacillus anthracis str. Kruger B]
 gi|254756326|ref|ZP_05208355.1| DNA-binding protein [Bacillus anthracis str. Vollum]
 gi|254762382|ref|ZP_05214224.1| DNA-binding protein [Bacillus anthracis str. Australia 94]
 gi|300119170|ref|ZP_07056871.1| DNA-binding protein [Bacillus cereus SJ1]
 gi|301051813|ref|YP_003790024.1| putative transcriptional regulator [Bacillus anthracis CI]
 gi|30253587|gb|AAP24129.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|42735069|gb|AAS39009.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|47500476|gb|AAT29152.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49177036|gb|AAT52412.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|49330877|gb|AAT61523.1| probable transcriptional regulator [Bacillus thuringiensis
          serovar konkukian str. 97-27]
 gi|51978609|gb|AAU20159.1| probable transcriptional regulator [Bacillus cereus E33L]
 gi|118415071|gb|ABK83490.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|164711686|gb|EDR17231.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167510498|gb|EDR85896.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|167529545|gb|EDR92295.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|170127542|gb|EDS96416.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|170667158|gb|EDT17919.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|172080046|gb|EDT65145.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190559925|gb|EDV13909.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|195991011|gb|EDX54982.1| DNA-binding protein [Bacillus cereus W]
 gi|196021760|gb|EDX60454.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|196027393|gb|EDX66010.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|206743855|gb|EDZ55275.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|217064728|gb|ACJ78978.1| DNA-binding protein [Bacillus cereus AH187]
 gi|218537235|gb|ACK89633.1| DNA-binding protein [Bacillus cereus AH820]
 gi|221237892|gb|ACM10602.1| probable transcriptional regulator [Bacillus cereus Q1]
 gi|225785876|gb|ACO26093.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|227005378|gb|ACP15121.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|228589055|gb|EEK47069.1| Transcriptional regulator Xre [Bacillus cereus m1293]
 gi|228601049|gb|EEK58617.1| Transcriptional regulator Xre [Bacillus cereus BGSC 6E1]
 gi|228624263|gb|EEK81064.1| Transcriptional regulator Xre [Bacillus cereus R309803]
 gi|228646586|gb|EEL02792.1| Transcriptional regulator Xre [Bacillus cereus BDRD-ST26]
 gi|228663762|gb|EEL19340.1| Transcriptional regulator Xre [Bacillus cereus 95/8201]
 gi|228682550|gb|EEL36620.1| Transcriptional regulator Xre [Bacillus cereus Rock3-28]
 gi|228694169|gb|EEL47850.1| Transcriptional regulator Xre [Bacillus cereus Rock3-42]
 gi|228739622|gb|EEL90035.1| Transcriptional regulator Xre [Bacillus cereus AH1272]
 gi|228745820|gb|EEL95823.1| Transcriptional regulator Xre [Bacillus cereus AH1273]
 gi|228815838|gb|EEM62073.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|228828129|gb|EEM73856.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|228834375|gb|EEM79915.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|228846874|gb|EEM91878.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
 gi|229268382|gb|ACQ50019.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|298723492|gb|EFI64233.1| DNA-binding protein [Bacillus cereus SJ1]
 gi|300373982|gb|ADK02886.1| probable transcriptional regulator [Bacillus cereus biovar
          anthracis str. CI]
 gi|324324065|gb|ADY19325.1| putative transcriptional regulator [Bacillus thuringiensis
          serovar finitimus YBT-020]
          Length = 67

 Score = 54.4 bits (130), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 28/56 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+RIR  R + G +QE   + LG++   + + E+G        +  +++ L+  I 
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKELGVSVSVLGEVERGNRSPSQDFVVEVAKALKVSID 62


>gi|325661078|ref|ZP_08149705.1| hypothetical protein HMPREF0490_00438 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|331085193|ref|ZP_08334279.1| hypothetical protein HMPREF0987_00582 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|325472585|gb|EGC75796.1| hypothetical protein HMPREF0490_00438 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|330407976|gb|EGG87466.1| hypothetical protein HMPREF0987_00582 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 195

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 30/72 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +I+  R    +SQE+L   + ++ Q +  +E   +      L  +S +    +  
Sbjct: 1  MDIGLQIKKFREQQKISQEELALKIFVSRQTISNWETNKSCPDVKSLISLSNIFNVSLDN 60

Query: 73 FFDVSPTVCSDI 84
          F         +I
Sbjct: 61 FIKEDIKEMREI 72


>gi|302336146|ref|YP_003801353.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
 gi|301319986|gb|ADK68473.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
          Length = 324

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/87 (22%), Positives = 39/87 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++  RI   R +LGM+Q  L + LG++ + V ++E+GV     + L+ ++  L+  +S 
Sbjct: 4  KSLSSRISSHRRVLGMTQAALAQMLGVSDKAVSRWERGVGFPDVTLLEPLATALQIDLSE 63

Query: 73 FFDVSPTVCSDISSEENNVMDFISTPD 99
                 V +          D   + D
Sbjct: 64 LVIGPCEVGACTEDAHTETADAEESND 90


>gi|261381037|ref|ZP_05985610.1| transcriptional regulator, Cro/CI family [Neisseria subflava
          NJ9703]
 gi|284796072|gb|EFC51419.1| transcriptional regulator, Cro/CI family [Neisseria subflava
          NJ9703]
          Length = 228

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R+R  R   G+SQ  L + LG++   +   E G N+   + L  I++ L+    + 
Sbjct: 7  RLREARRNKGLSQAGLSKLLGVSQASIAAIEAGRNK-RPTNLVSIAKALDVSPYWL 61


>gi|192291255|ref|YP_001991860.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
          TIE-1]
 gi|192285004|gb|ACF01385.1| transcriptional regulator, XRE family [Rhodopseudomonas palustris
          TIE-1]
          Length = 207

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 25/55 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VG  +R  R+  G S E+L +  G++   + + E G +      L  ++  L  P
Sbjct: 26 VGHNLRRLRVRQGYSLERLAKQSGVSRAMLGQIETGKSVPTIGTLWKVATALGVP 80


>gi|148994361|ref|ZP_01823604.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP9-BS68]
 gi|289168600|ref|YP_003446869.1| transcriptional regulator [Streptococcus mitis B6]
 gi|293364230|ref|ZP_06610956.1| XRE family transcriptional regulator [Streptococcus oralis ATCC
          35037]
 gi|307702415|ref|ZP_07639371.1| helix-turn-helix family protein [Streptococcus oralis ATCC 35037]
 gi|315611783|ref|ZP_07886705.1| XRE family transcriptional regulator [Streptococcus sanguinis
          ATCC 49296]
 gi|322375921|ref|ZP_08050432.1| conserved domain protein [Streptococcus sp. C300]
 gi|147927292|gb|EDK78325.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP9-BS68]
 gi|288908167|emb|CBJ23009.1| transcriptional regulator [Streptococcus mitis B6]
 gi|291317076|gb|EFE57503.1| XRE family transcriptional regulator [Streptococcus oralis ATCC
          35037]
 gi|307623997|gb|EFO02978.1| helix-turn-helix family protein [Streptococcus oralis ATCC 35037]
 gi|315316198|gb|EFU64228.1| XRE family transcriptional regulator [Streptococcus sanguinis
          ATCC 49296]
 gi|321279189|gb|EFX56231.1| conserved domain protein [Streptococcus sp. C300]
          Length = 64

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R  LG+SQ +L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 2  NRVKEFRKELGISQLELAKDIGVSRQTINMIENDKYNPTLELCLNLARSLQTDLNSLF 59


>gi|149001557|ref|ZP_01826530.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP14-BS69]
 gi|149006084|ref|ZP_01829813.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP18-BS74]
 gi|168490030|ref|ZP_02714229.1| conserved domain protein [Streptococcus pneumoniae SP195]
 gi|168494685|ref|ZP_02718828.1| conserved domain protein [Streptococcus pneumoniae CDC3059-06]
 gi|182683306|ref|YP_001835053.1| transcriptional regulator, putative [Streptococcus pneumoniae
          CGSP14]
 gi|221231212|ref|YP_002510364.1| DNA-binding protein [Streptococcus pneumoniae ATCC 700669]
 gi|237649376|ref|ZP_04523628.1| putative DNA-binding protein [Streptococcus pneumoniae CCRI 1974]
 gi|237821593|ref|ZP_04597438.1| putative DNA-binding protein [Streptococcus pneumoniae CCRI
          1974M2]
 gi|298230655|ref|ZP_06964336.1| putative DNA-binding protein [Streptococcus pneumoniae str.
          Canada MDR_19F]
 gi|147760015|gb|EDK67004.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP14-BS69]
 gi|147762440|gb|EDK69401.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP18-BS74]
 gi|182628640|gb|ACB89588.1| transcriptional regulator, putative [Streptococcus pneumoniae
          CGSP14]
 gi|183571579|gb|EDT92107.1| conserved domain protein [Streptococcus pneumoniae SP195]
 gi|183575410|gb|EDT95938.1| conserved domain protein [Streptococcus pneumoniae CDC3059-06]
 gi|220673672|emb|CAR68163.1| putative DNA-binding protein [Streptococcus pneumoniae ATCC
          700669]
 gi|327390749|gb|EGE89089.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA04375]
 gi|332075179|gb|EGI85649.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA17570]
 gi|332076774|gb|EGI87236.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA17545]
          Length = 64

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R  LG+SQ +L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 2  NRVKEFRKELGISQLELAKDIGVSRQTINMIENDKYNPTLELCLNLARSLQTDLNSLF 59


>gi|312873901|ref|ZP_07733939.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2052A-d]
 gi|311090577|gb|EFQ48983.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2052A-d]
          Length = 199

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 27/62 (43%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  V +R++  R I   +Q++  E LGI    +  YE G N      L  I++     + 
Sbjct: 3  NRTVSERLKYLRSINKKTQKEFAEFLGIPQPSMSAYENGKNNPTIDVLIDIADKCSVSLD 62

Query: 72 FF 73
          + 
Sbjct: 63 WL 64


>gi|311033076|ref|ZP_07711166.1| hypothetical protein Bm3-1_21479 [Bacillus sp. m3-13]
          Length = 68

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 26/66 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R    M+QE L   +G++ Q +   E G          +IS+V +  I   F +
Sbjct: 3  NRIKDLRKAAKMTQEDLAVQVGVSRQSIIAIESGKYNPSLELAYNISKVFDCIIEEVFIL 62

Query: 77 SPTVCS 82
                
Sbjct: 63 EEGGEE 68


>gi|296394145|ref|YP_003659029.1| XRE family transcriptional regulator [Segniliparus rotundus DSM
           44985]
 gi|296181292|gb|ADG98198.1| transcriptional regulator, XRE family [Segniliparus rotundus DSM
           44985]
          Length = 258

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/96 (20%), Positives = 37/96 (38%), Gaps = 9/96 (9%)

Query: 22  RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS---- 77
            R+  G++Q  L E LG     +  +E+G + V   ++   +  L   +   FD      
Sbjct: 80  LRLAAGLTQIDLAEKLGTNKSMISVWERGKSAVPNEKVVQYATALGVSVGDVFDAIAAVV 139

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
           P      +++E  + + +    G   NRYF      
Sbjct: 140 PAEFVGFTNDEVRIGELLV--GG---NRYFYAASPD 170



 Score = 43.6 bits (102), Expect = 0.010,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 28/58 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G  +R  R+  G++  +L   L ++ + V  +E G+ +  A  L  ++  + S I+  
Sbjct: 10 GVALRRARIASGLTTAELAHKLHVSVEAVYHWETGITQPSAKNLPKVAAAVNSSIADL 67


>gi|293396430|ref|ZP_06640708.1| cro/CI family transcriptional regulator [Serratia odorifera DSM
          4582]
 gi|291421219|gb|EFE94470.1| cro/CI family transcriptional regulator [Serratia odorifera DSM
          4582]
          Length = 185

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 1/80 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R  LG+SQ ++ E  G+T   +   E+       S LQ +  V    +S FF 
Sbjct: 9  GKRLSQIRQQLGLSQRRVAELSGLTHSAISTIEQDKVSPAISTLQKLLTVYGLSLSAFFA 68

Query: 75 DVSPTVCSDISSEENNVMDF 94
          +        I  E+ ++++ 
Sbjct: 69 EPDKPAEPQIVIEQADLIEI 88


>gi|271964933|ref|YP_003339129.1| transcriptional regulator [Streptosporangium roseum DSM 43021]
 gi|270508108|gb|ACZ86386.1| transcriptional regulator protein-like protein [Streptosporangium
           roseum DSM 43021]
          Length = 489

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 31/133 (23%), Positives = 50/133 (37%), Gaps = 5/133 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I  G+R+R  R   G++   LGE +     Q+   E G      S L+ ++  L  P+  
Sbjct: 19  IAFGQRLRHLRKQRGLTLSDLGERVSRAPSQLSLLENGKREPKLSLLKSLATALNVPVEE 78

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP--DGLQLNRYFIQID-DVKVRQKIIELVRSIVSS 129
              +     S  +  E  + +    P   GL L R  +       V + I+ L   + S 
Sbjct: 79  L--LRRQAPSRRAQLEMALEEAQRDPLYAGLGLARLKVSARVPNDVLEHILGLYGELRSR 136

Query: 130 EKKYRTIEEECMV 142
           + K     EE  V
Sbjct: 137 QAKGTATPEEARV 149


>gi|260880974|ref|ZP_05403308.2| repressor protein C2 [Mitsuokella multacida DSM 20544]
 gi|260850090|gb|EEX70097.1| repressor protein C2 [Mitsuokella multacida DSM 20544]
          Length = 141

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 26/111 (23%), Positives = 48/111 (43%), Gaps = 11/111 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
           +++G  IR RR  L ++Q KLG+ +    Q +  +E G    +    L  +++ L   I 
Sbjct: 10  MSIGDNIRKRRKELKLTQTKLGQMVHKCSQVISNWEGGYTTGITIEDLIALADALRISIL 69

Query: 72  FFF----DVSPTVCSDISSEENN------VMDFISTPDGLQLNRYFIQIDD 112
                  D S +   + +S E +      V + I+    LQL   +  +D+
Sbjct: 70  SLIPYVKDDSNSYREEQASFETDYINTTKVAENITNKRLLQLINEYPHLDE 120


>gi|224543501|ref|ZP_03684040.1| hypothetical protein CATMIT_02710 [Catenibacterium mitsuokai DSM
           15897]
 gi|224523628|gb|EEF92733.1| hypothetical protein CATMIT_02710 [Catenibacterium mitsuokai DSM
           15897]
          Length = 126

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 31/56 (55%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
            ++G+ ++  R+   M+QE + E LG++ Q V K+E G +    + L  +S + + 
Sbjct: 54  KSLGESLKENRLRCKMTQEFVAETLGVSRQAVSKWENGTSDPNTTNLIALSRLYKV 109


>gi|167841812|ref|ZP_02468496.1| transcriptional regulator, XRE family with cupin sensor domain
           [Burkholderia thailandensis MSMB43]
          Length = 191

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/102 (17%), Positives = 41/102 (40%), Gaps = 6/102 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V +++G +IR     L ++ ++     GI+   + + E+G  R   + L  I++ L   +
Sbjct: 11  VAVSLGNKIRALWQRLKLTLDETATTAGISKPFLSQVERGRARPSITSLVRIAKALGVTM 70

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
            +F D      S    +      F ++         F ++ +
Sbjct: 71  QYFIDTPTEAGSVCRGDALQYFQFANS------ASSFARLTN 106


>gi|125717479|ref|YP_001034612.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK36]
 gi|125497396|gb|ABN44062.1| Transcriptional regulator (XRE family), SOS-response
          transcriptional repressors (RecA-mediated
          autopeptidases), putative [Streptococcus sanguinis
          SK36]
          Length = 225

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 34/63 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR+ L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   S+F D 
Sbjct: 5  EKLKKRRLELNLTQSSIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQESYFVDE 64

Query: 77 SPT 79
          +  
Sbjct: 65 TSA 67


>gi|254301853|ref|ZP_04969296.1| DNA-binding protein [Burkholderia pseudomallei 406e]
 gi|157811641|gb|EDO88811.1| DNA-binding protein [Burkholderia pseudomallei 406e]
          Length = 88

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 29/82 (35%), Gaps = 4/82 (4%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  IR  R     SQE+L E  G+    V + E+G        +  ++     PI+    
Sbjct: 9  GAAIRQLREARAWSQEQLAEHAGLNRSYVGEIERGTAIASIVTVDKLARAFGVPIARLL- 67

Query: 76 VSPTVCSDISSEENNVMDFIST 97
             +   D     +     +S+
Sbjct: 68 ---SPAGDAGPPPHGFGAPLSS 86


>gi|328953267|ref|YP_004370601.1| Cupin 2 conserved barrel domain protein [Desulfobacca acetoxidans
          DSM 11109]
 gi|328453591|gb|AEB09420.1| Cupin 2 conserved barrel domain protein [Desulfobacca acetoxidans
          DSM 11109]
          Length = 180

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 32/66 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R    ++QE+L     +T   + + E+       + L+ I +VL   ++ 
Sbjct: 1  MKIGEKLKRLRQANSLTQEELANRAYLTKGFISQLERDQTSPSIATLKDILDVLGVSLAD 60

Query: 73 FFDVSP 78
          FF   P
Sbjct: 61 FFRDLP 66


>gi|324327259|gb|ADY22519.1| DNA-binding protein [Bacillus thuringiensis serovar finitimus
          YBT-020]
          Length = 67

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 2/62 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  L M+QE L + +G+  + +   EKG           I+ VL S I   F F+
Sbjct: 6  KIKEYRAKLNMTQEDLAKQVGVRRETINHLEKGKYNPSLQLAHDIARVLHSTIDEVFIFE 65

Query: 76 VS 77
            
Sbjct: 66 DE 67


>gi|332654987|ref|ZP_08420729.1| toxin-antitoxin system, antitoxin component, Xre family
           [Ruminococcaceae bacterium D16]
 gi|332516330|gb|EGJ45938.1| toxin-antitoxin system, antitoxin component, Xre family
           [Ruminococcaceae bacterium D16]
          Length = 118

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 23/95 (24%), Positives = 47/95 (49%), Gaps = 4/95 (4%)

Query: 10  PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+D    +G+++R  R    ++Q++L +   ++ +Q+   EKG        L+ +++VL 
Sbjct: 2   PIDDLTALGQKMREARKKKDLTQQELADLSHVSVKQIASIEKGQINPSYLILKALAKVL- 60

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            PIS    ++P V  +        M + S P G++
Sbjct: 61  -PISLDTLINPDVSPEDEGATQMKMLYCSCPSGMR 94


>gi|229125204|ref|ZP_04254327.1| Helix-turn-helix domain protein [Bacillus cereus 95/8201]
 gi|228658251|gb|EEL13968.1| Helix-turn-helix domain protein [Bacillus cereus 95/8201]
          Length = 80

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/79 (24%), Positives = 35/79 (44%), Gaps = 2/79 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  G R+R  R    ++QEKL + L  +    +   E G  R+ A ++  ++  L   I+
Sbjct: 1  MTFGSRVRDIRKQKNITQEKLAKKLDFSHASAISFIENGKRRLDAEKIPTLANALGVSIN 60

Query: 72 -FFFDVSPTVCSDISSEEN 89
            FF  +    +   +EE 
Sbjct: 61 ELFFAQNVVEMTTDETEER 79


>gi|167751298|ref|ZP_02423425.1| hypothetical protein EUBSIR_02284 [Eubacterium siraeum DSM 15702]
 gi|167655805|gb|EDR99934.1| hypothetical protein EUBSIR_02284 [Eubacterium siraeum DSM 15702]
          Length = 131

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ-HISEVLESPISFF 73
          +++  R   G++Q++  + LG++ + +  YEKG +      +   ++E+L   I++ 
Sbjct: 6  KVKKERRAKGLTQQQFADILGVSLRTITNYEKGESYPKQREIYGKMAEILGVDINYL 62


>gi|15894244|ref|NP_347593.1| Xre family DNA-binding domain-/TPR repeat-containing protein
           [Clostridium acetobutylicum ATCC 824]
 gi|15023861|gb|AAK78933.1|AE007611_1 Xre family DNA-binding domain and TPR-repeat-containing protein
           [Clostridium acetobutylicum ATCC 824]
 gi|325508372|gb|ADZ20008.1| Xre family DNA-binding domain and TPR-repeat-containing protein
           [Clostridium acetobutylicum EA 2018]
          Length = 434

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/90 (21%), Positives = 41/90 (45%), Gaps = 7/90 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I+ RR  L M+ + L     IT  Q+   E G +      L++++  L + + +  
Sbjct: 6   LGEKIKARRKELNMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLAGALNTSVEYLM 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           +      S+ +  E   + + +T +   LN
Sbjct: 65  E------SEETQAEKICVYYENTAEAYMLN 88


>gi|75762482|ref|ZP_00742345.1| Transcriptional regulator, Xre family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228901189|ref|ZP_04065390.1| Transcriptional regulator, Xre [Bacillus thuringiensis IBL 4222]
 gi|74490035|gb|EAO53388.1| Transcriptional regulator, Xre family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228858439|gb|EEN02898.1| Transcriptional regulator, Xre [Bacillus thuringiensis IBL 4222]
          Length = 122

 Score = 54.4 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            VG+ IRL R   G++QE+L E + +    +   E+G   +    LQ I+  LE   
Sbjct: 9  KLVGENIRLLRKKRGLTQEELAERINLQQAYIGGVERGERNISMLTLQKIAVGLEVSP 66


>gi|325954072|ref|YP_004237732.1| helix-turn-helix domain protein [Weeksella virosa DSM 16922]
 gi|323436690|gb|ADX67154.1| helix-turn-helix domain protein [Weeksella virosa DSM 16922]
          Length = 127

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 27/59 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D  +G +IR  R I  +SQ  + + L I+       E    ++   +L  I+ VLE  
Sbjct: 1  MDTVIGYKIRKVREIKNLSQSYMADKLSISQSSYSDIENCKTKISEEKLNEIARVLEVD 59


>gi|317471753|ref|ZP_07931093.1| hypothetical protein HMPREF1011_01441 [Anaerostipes sp.
          3_2_56FAA]
 gi|316900776|gb|EFV22750.1| hypothetical protein HMPREF1011_01441 [Anaerostipes sp.
          3_2_56FAA]
          Length = 159

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/84 (21%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+ +R   G++Q +L   LGIT + V K+E G      S  + + + L   ++   
Sbjct: 6  IGNYIKCKRKAQGLTQAELAGLLGITNKAVSKWENGKCLPDLSLHEKLCDALHITLNELV 65

Query: 75 DVSPTVCSDISS-EENNVMDFIST 97
                 + +    E N+   + +
Sbjct: 66 AGQDIESTQLPEASEQNMKTMLGS 89


>gi|257791171|ref|YP_003181777.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|325832901|ref|ZP_08165574.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|257475068|gb|ACV55388.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|325485766|gb|EGC88230.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 64

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  IR RR    +SQ+KL   +G +   + + E G   VG   L  I++ L+  +  
Sbjct: 1  MLLGSAIRERREAQSLSQQKLALMIGSSKSHIWRIESGRVSVGLDDLGRIADALDVQVRD 60

Query: 73 FF 74
           F
Sbjct: 61 LF 62


>gi|257090409|ref|ZP_05584770.1| predicted protein [Enterococcus faecalis CH188]
 gi|256999221|gb|EEU85741.1| predicted protein [Enterococcus faecalis CH188]
          Length = 75

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 28/55 (50%)

Query: 20 RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++ R  L ++Q++L E L ++   ++K E G +     +   I+E    P+ + F
Sbjct: 6  KMEREKLKLTQKELAEKLDLSEVYIRKLESGASSPSTKKAVIIAEFFGKPLDYLF 60


>gi|269798723|ref|YP_003312623.1| XRE family transcriptional regulator [Veillonella parvula DSM
          2008]
 gi|269095352|gb|ACZ25343.1| transcriptional regulator, XRE family [Veillonella parvula DSM
          2008]
          Length = 127

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 2/59 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV--NRVGASRLQHISEVLESPIS 71
          +G +I + R+ L MSQ++L   +GI+   + K E G   + +    L  I++  +  + 
Sbjct: 28 LGHKIAIIRVSLNMSQQELARHIGISRSYLSKLECGTGISGMSLEILFKIAQAFQINVG 86


>gi|206561422|ref|YP_002232187.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
 gi|198037464|emb|CAR53400.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
          Length = 75

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 1/64 (1%)

Query: 16 GKRIRLRRMIL-GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G R+R  R     +SQE   + +G       + E G        +Q I+E L   +S  F
Sbjct: 12 GARVRQLRKEKTDLSQEAFADKVGFARSYFGRVETGKANPSLDAIQTIAEGLGVEVSALF 71

Query: 75 DVSP 78
          +   
Sbjct: 72 EDDD 75


>gi|167746942|ref|ZP_02419069.1| hypothetical protein ANACAC_01654 [Anaerostipes caccae DSM 14662]
 gi|167653902|gb|EDR98031.1| hypothetical protein ANACAC_01654 [Anaerostipes caccae DSM 14662]
          Length = 159

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/84 (21%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+ +R   G++Q +L   LGIT + V K+E G      S  + + + L   ++   
Sbjct: 6  IGNYIKCKRKAQGLTQAELAGLLGITNKAVSKWENGKCLPDLSLHEKLCDALHITLNELV 65

Query: 75 DVSPTVCSDISS-EENNVMDFIST 97
                 + +    E N+   + +
Sbjct: 66 AGQDIESTQLPEASEQNMKTMLGS 89


>gi|153003797|ref|YP_001378122.1| XRE family transcriptional regulator [Anaeromyxobacter sp. Fw109-5]
 gi|152027370|gb|ABS25138.1| transcriptional regulator, XRE family [Anaeromyxobacter sp.
           Fw109-5]
          Length = 224

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 25/108 (23%), Positives = 42/108 (38%), Gaps = 3/108 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  +R  R   G+S E+L    G++   + + E G +    + L  IS  L  P S   
Sbjct: 44  VGANLRRLRNQRGLSLERLSHLSGVSRAMLGQIELGQSAPTINVLWKISSALGVPFSALI 103

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
               +    +   E      + + DG   +R     D+ + R +  EL
Sbjct: 104 TARGSPGPHVLRAEQ--AKLLRSNDGSFSSRALFPFDEPR-RVEFYEL 148


>gi|114800333|ref|YP_761750.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114740507|gb|ABI78632.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 75

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 22/67 (32%), Positives = 26/67 (38%), Gaps = 1/67 (1%)

Query: 17 KRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           RIR  R   G MSQ  L E +G+T Q V   E G           I+ V +  I   F 
Sbjct: 9  NRIRELRESHGAMSQAALAEAIGVTRQTVIAIELGKYSPSLESAFRIARVFDLGIEDVFG 68

Query: 76 VSPTVCS 82
            P   S
Sbjct: 69 WQPPPLS 75


>gi|146278343|ref|YP_001168502.1| hypothetical protein Rsph17025_2308 [Rhodobacter sphaeroides ATCC
           17025]
 gi|145556584|gb|ABP71197.1| protein of unknown function DUF955 [Rhodobacter sphaeroides ATCC
           17025]
          Length = 461

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/130 (15%), Positives = 52/130 (40%), Gaps = 12/130 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R+ LG++Q+   E LG +   + + E     V A+ +  +++     ++ 
Sbjct: 5   LYAGAKLRELRVKLGLTQKVFAERLGASLPYLNQMENNHRPVSATVVLALAQEFGVDVTK 64

Query: 73  F---------FDVSPTVCSDISSEENNVMDF-ISTPDGLQLNRYFIQIDDV--KVRQKII 120
                      D+   +   I ++   + D  +   +   L R F+ +     +  +++ 
Sbjct: 65  LTTSEAERIVTDMREALADPIFTDSPPLADLRLVASNAPALARAFLDLHRAYRQTHERLA 124

Query: 121 ELVRSIVSSE 130
            L  ++   E
Sbjct: 125 SLDEALGRDE 134


>gi|327441790|dbj|BAK18155.1| predicted transcriptional regulator [Solibacillus silvestris
          StLB046]
          Length = 194

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 33/56 (58%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+ I   R   GM+Q+++ + L ++ + + K+E+G+     + L H++ + + PI
Sbjct: 6  IGQLIYTLRKGKGMTQKQVADALFLSDRTISKWERGIGCPDITLLPHLAALFDIPI 61


>gi|308173224|ref|YP_003919929.1| Phage PBSX transcriptional regulator [Bacillus amyloliquefaciens
          DSM 7]
 gi|307606088|emb|CBI42459.1| Phage PBSX transcriptional regulator [Bacillus amyloliquefaciens
          DSM 7]
 gi|328553856|gb|AEB24348.1| Phage PBSX transcriptional regulator [Bacillus amyloliquefaciens
          TA208]
 gi|328911289|gb|AEB62885.1| Phage PBSX transcriptional regulator [Bacillus amyloliquefaciens
          LL3]
          Length = 112

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 12/75 (16%), Positives = 31/75 (41%), Gaps = 2/75 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R++  R     +QE++   +G++  +   YE G +      LQ +++       +  
Sbjct: 2  IGGRLKSLRGKK--TQEEVANHIGVSRARYSHYENGRSEPDYETLQKLADYFNVSTDYLL 59

Query: 75 DVSPTVCSDISSEEN 89
                  D+ ++ +
Sbjct: 60 TGKEPSDEDLFADPD 74


>gi|300814289|ref|ZP_07094561.1| helix-turn-helix protein [Peptoniphilus sp. oral taxon 836 str.
          F0141]
 gi|300511556|gb|EFK38784.1| helix-turn-helix protein [Peptoniphilus sp. oral taxon 836 str.
          F0141]
          Length = 67

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 27/63 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            I   R   G++Q+++   +G T Q + K E G++    ++   I+  LE  +   +  
Sbjct: 4  NNILEIRKKKGITQKQIANAVGTTPQFISKLELGISNPSLTKAFEIARFLECGVEELYSF 63

Query: 77 SPT 79
             
Sbjct: 64 EDD 66


>gi|300172339|ref|YP_003771504.1| helix-turn-helix domain-containing protein [Leuconostoc
          gasicomitatum LMG 18811]
 gi|299886717|emb|CBL90685.1| helix-turn-helix domain protein [Leuconostoc gasicomitatum LMG
          18811]
          Length = 246

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 12/71 (16%), Positives = 31/71 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R    ++Q++    + I++Q V  +E          +  I +  + P+++
Sbjct: 1  MTIGDQIKHLRTAHHLTQQEFATKIYISYQSVSNWENHRGYPSTEIMLLIIDTFDLPLNY 60

Query: 73 FFDVSPTVCSD 83
          F        +D
Sbjct: 61 FIAKDIDATTD 71


>gi|229085629|ref|ZP_04217861.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          Rock3-44]
 gi|228697709|gb|EEL50462.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          Rock3-44]
          Length = 422

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 32/70 (45%), Gaps = 1/70 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RIR  R+  GM+Q +L   +  +   + + E G  +  +S L+ +S+ L     F
Sbjct: 1  MQIGERIRQIRIHKGMTQGELVSGI-CSVAYLSRIENGQIKPSSSFLKKVSQKLNVDWDF 59

Query: 73 FFDVSPTVCS 82
            D       
Sbjct: 60 LIDGKNEGIE 69


>gi|227499690|ref|ZP_03929793.1| hypothetical protein HMPREF0077_0428 [Anaerococcus tetradius ATCC
          35098]
 gi|227218287|gb|EEI83546.1| hypothetical protein HMPREF0077_0428 [Anaerococcus tetradius ATCC
          35098]
          Length = 74

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 30/58 (51%), Gaps = 1/58 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            IR+ R +  +SQ++L + +G++ Q +   E   +R+  +  + I++  +  I   F
Sbjct: 7  NNIRVLRAMKNVSQKELAKAVGVSQQTISTAEN-TSRMSLTTAKKIADYFDVKIDDIF 63


>gi|170761027|ref|YP_001788505.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
 gi|169408016|gb|ACA56427.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
          Length = 189

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D ++GK+I+  R    ++ ++L E   ++   + + E+G+  V    L  I++ L+  +
Sbjct: 2  ID-DIGKKIKKLRTNKKLTLKELSEKTNLSIGFLSQLERGLTTVAIDSLTKIAKELDVSL 60

Query: 71 SFFFDVSP 78
          ++FF    
Sbjct: 61 TYFFQAPK 68


>gi|170756136|ref|YP_001782824.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
 gi|169121348|gb|ACA45184.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
          Length = 189

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D ++GK+I+  R    ++ ++L E   ++   + + E+G+  V    L  I++ L+  +
Sbjct: 2  ID-DIGKKIKKLRTNKKLTLKELSEKTNLSIGFLSQLERGLTTVAIDSLTKIAKELDVSL 60

Query: 71 SFFFDVSP 78
          ++FF    
Sbjct: 61 TYFFQAPK 68


>gi|160895159|ref|ZP_02075932.1| hypothetical protein CLOL250_02719 [Clostridium sp. L2-50]
 gi|156863193|gb|EDO56624.1| hypothetical protein CLOL250_02719 [Clostridium sp. L2-50]
          Length = 273

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 7/67 (10%)

Query: 12 DINVGKR-------IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          D+N G R       I   R   GMSQ++L E + +T Q V ++E G        L+ +S+
Sbjct: 11 DMNKGGRVMETKNIIFELRTKRGMSQDELAEKIMVTRQAVSRWENGETIPNTDTLKLLSK 70

Query: 65 VLESPIS 71
            +  I+
Sbjct: 71 EFDVSIN 77


>gi|160895617|ref|YP_001561199.1| XRE family transcriptional regulator [Delftia acidovorans SPH-1]
 gi|160361201|gb|ABX32814.1| transcriptional regulator, XRE family [Delftia acidovorans SPH-1]
          Length = 227

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/73 (17%), Positives = 32/73 (43%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG ++R  R   G++ +++ E  G+    + K E+G   +   ++  +   L+  ++  F
Sbjct: 46  VGAKLRKARKERGLTLQQVAESSGLAVSTISKAERGQIALSYEKVLMLGNALDIDMTRLF 105

Query: 75  DVSPTVCSDISSE 87
            V     +   + 
Sbjct: 106 MVGDAQQAAGDTP 118


>gi|157371454|ref|YP_001479443.1| DNA-binding transcriptional repressor PuuR [Serratia
          proteamaculans 568]
 gi|157323218|gb|ABV42315.1| transcriptional regulator, XRE family [Serratia proteamaculans
          568]
          Length = 185

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 5/78 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GKR+   R+ LG+SQ ++ E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSQIRLQLGLSQRRVAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSAFF- 67

Query: 76 VSPTVCSDISSEENNVMD 93
                 + ++E   V++
Sbjct: 68 ----AEPEAANEPKVVIE 81


>gi|219669136|ref|YP_002459571.1| XRE family transcriptional regulator [Desulfitobacterium hafniense
           DCB-2]
 gi|219539396|gb|ACL21135.1| transcriptional regulator, XRE family [Desulfitobacterium hafniense
           DCB-2]
          Length = 208

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 38/89 (42%), Gaps = 3/89 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++I   R    MSQ  L   L ++ Q V K+E   +     +L  +SEV    +  
Sbjct: 1   MTLGEKIYELRTKNAMSQGDLANTLEVSRQSVSKWENNTSVPELDKLVKMSEVFSISLD- 59

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
             ++     ++    E    D  + P+GL
Sbjct: 60  --ELIRGEKTEKMQRETQSPDISAPPNGL 86


>gi|116751125|ref|YP_847812.1| molybdate metabolism transcriptional regulator [Syntrophobacter
           fumaroxidans MPOB]
 gi|116700189|gb|ABK19377.1| transcriptional regulator of molybdate metabolism, XRE family
           [Syntrophobacter fumaroxidans MPOB]
          Length = 374

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/90 (17%), Positives = 32/90 (35%), Gaps = 6/90 (6%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--- 74
            ++  R   G+SQ +L   +G+  Q +   E G      +   +I+  L   +   F   
Sbjct: 13  NLKSARKARGLSQSELAGRVGVKRQAIYDMESGRYLPNTALALYIARELGCRVEDLFVLE 72

Query: 75  ---DVSPTVCSDISSEENNVMDFISTPDGL 101
              +  P    + +   N  +   S  + L
Sbjct: 73  ESEEEQPVTLVEKAGAANPRVAVASVRERL 102


>gi|325263349|ref|ZP_08130084.1| putative helix-turn-helix protein [Clostridium sp. D5]
 gi|324031742|gb|EGB93022.1| putative helix-turn-helix protein [Clostridium sp. D5]
          Length = 354

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 33/74 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I   R   GM+QE+L   LGI+   V K+E   +    + L  ++  L + +   
Sbjct: 4  NLGAHIAALRKTKGMTQEQLAAVLGISAPAVSKWETDSSCPDITLLCPLARALGTNLDTL 63

Query: 74 FDVSPTVCSDISSE 87
               T+  +  +E
Sbjct: 64 LQFEETLTDEQIAE 77


>gi|303246038|ref|ZP_07332319.1| transcriptional regulator, XRE family [Desulfovibrio fructosovorans
           JJ]
 gi|302492434|gb|EFL52305.1| transcriptional regulator, XRE family [Desulfovibrio fructosovorans
           JJ]
          Length = 107

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 26/103 (25%), Positives = 47/103 (45%), Gaps = 17/103 (16%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK+IR  R    M+QEKL E  G++ Q + + E+G      + ++ ++     P++  F 
Sbjct: 9   GKKIRTIRRNRDMTQEKLAELSGLSLQYIGEIERGRRNPSLTSVETLAAAFGIPLAELF- 67

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ--LNRYFIQIDDVKVR 116
                         N+ +F  TP+ L+  L R     D+ ++R
Sbjct: 68  --------------NLDEFKLTPEDLRRILARQIEDADEERLR 96


>gi|282876544|ref|ZP_06285409.1| DNA-binding protein [Staphylococcus epidermidis SK135]
 gi|281294632|gb|EFA87161.1| DNA-binding protein [Staphylococcus epidermidis SK135]
          Length = 96

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 37/92 (40%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G ++R  R I  ++QE+L E   ++   + + E            ++ EVL +  S 
Sbjct: 1   MDIGYKLRNLRRIKNLTQEELAERTDLSKGYISQIESNHASPSMETFLNLIEVLGTSASD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           FF            +E  + D       L+L 
Sbjct: 61  FFKEPSDEKVLYKKKEQTIYDEYDKRLYLELA 92


>gi|271966030|ref|YP_003340226.1| XRE family transcriptional regulator [Streptosporangium roseum DSM
           43021]
 gi|270509205|gb|ACZ87483.1| putative transcriptional regulator, XRE family [Streptosporangium
           roseum DSM 43021]
          Length = 197

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/108 (19%), Positives = 36/108 (33%), Gaps = 12/108 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G++   L    G++   + + E G  R     L  ++   + P+    
Sbjct: 8   VGPRLRALRRHRGITLADLAATTGVSESTLSRLESGQRRATLELLLPLARTYDVPLDDL- 66

Query: 75  DVSPTVCSDISSEENNVMDFIST-------PDGLQLNRYFIQIDDVKV 115
            V      D       ++ F  T       P G    + F  I   + 
Sbjct: 67  -VGAPRTGDPRIHLKPILRFGMTFVPLSRRPGG---VQAFKMIIPAQP 110


>gi|270654679|ref|ZP_06222291.1| DNA-binding protein [Haemophilus influenzae HK1212]
 gi|270317067|gb|EFA28714.1| DNA-binding protein [Haemophilus influenzae HK1212]
          Length = 81

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +IR+ R +  +SQE + E + ++     K E+G  R+   +L  I+++    +S   D  
Sbjct: 6  KIRMMRELRQLSQEDMAEKMNMSPSGYAKIERGETRLQYDKLVQIAQIFNVSLSDLVDND 65

Query: 78 PTV 80
            V
Sbjct: 66 KGV 68


>gi|269838403|ref|YP_003320631.1| hypothetical protein Sthe_2392 [Sphaerobacter thermophilus DSM
          20745]
 gi|269787666|gb|ACZ39809.1| protein of unknown function DUF955 [Sphaerobacter thermophilus
          DSM 20745]
          Length = 406

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 33/83 (39%), Gaps = 2/83 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R+R  R   G++QE+    LG+T   +  +E      G   L  ++E+  + ++   
Sbjct: 7  LGARLRAAREWAGLTQEEAASALGVTHALISYWENDRRTPGLGHLTRLAEIYGTTVTNLL 66

Query: 75 DVSPTVCSDISSEENNVMDFIST 97
          D  P        +   +   +  
Sbjct: 67 D--PAHEEPAGPQPALLFRDLRD 87


>gi|256784548|ref|ZP_05522979.1| hypothetical protein SlivT_08668 [Streptomyces lividans TK24]
 gi|289768432|ref|ZP_06527810.1| XRE family transcriptional regulator [Streptomyces lividans TK24]
 gi|289698631|gb|EFD66060.1| XRE family transcriptional regulator [Streptomyces lividans TK24]
          Length = 290

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 29/135 (21%), Positives = 52/135 (38%), Gaps = 16/135 (11%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G  +R  R    M Q +LGE +G++   V ++E G +     +L  I+  L+ P+   F 
Sbjct: 8   GSLVRAVRRRRDMHQRQLGELVGVSGATVARWESGKDFPKGEKLPAIATALDEPLDELFP 67

Query: 75  -DVSPTVCS---DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRSIVSS 129
            +  P +     D         + I    G   N           R+++    V+ + ++
Sbjct: 68  HEGPPDLQLLRCDAGLSVAEATEIIGASRGPVSNA-------ESGRRRLNASYVKPLAAA 120

Query: 130 EKKYRTIEEECMVEQ 144
              Y   EEE +  Q
Sbjct: 121 ---YGVTEEELLAAQ 132


>gi|237733222|ref|ZP_04563703.1| predicted protein [Mollicutes bacterium D7]
 gi|229383766|gb|EEO33857.1| predicted protein [Coprobacillus sp. D7]
          Length = 189

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 31/61 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G++I   R   G+ QE+LG  +G+    + ++E    ++    L  +S++ E  + +
Sbjct: 1  MNTGEKIHELRKNKGLLQEELGTLIGVDTSVISRWESSQRQIKIEDLTKLSDLFEVSVDY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|262200800|ref|YP_003272008.1| transcriptional regulator [Gordonia bronchialis DSM 43247]
 gi|262084147|gb|ACY20115.1| helix-turn-helix domain protein [Gordonia bronchialis DSM 43247]
          Length = 192

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/97 (19%), Positives = 42/97 (43%), Gaps = 3/97 (3%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +D+ V +RIR  R+  G + + L     ++   + + E G  RV   +L  I++ L
Sbjct: 1   MAQELDVVVRQRIRGLRIAKGWTLDALAARCFLSPSTLSRIETGHRRVALDQLVPIAQAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENN---VMDFISTPDG 100
            + +    + +      I  E +    V  ++ + +G
Sbjct: 61  GTTLDQLVEPADDGDVVIRPEPHTAEGVTVWVLSREG 97


>gi|261363946|ref|ZP_05976829.1| toxin-antitoxin system, antitoxin component, Xre family [Neisseria
           mucosa ATCC 25996]
 gi|296314023|ref|ZP_06863964.1| toxin-antitoxin system, antitoxin component, Xre family [Neisseria
           polysaccharea ATCC 43768]
 gi|288567969|gb|EFC89529.1| toxin-antitoxin system, antitoxin component, Xre family [Neisseria
           mucosa ATCC 25996]
 gi|296839393|gb|EFH23331.1| toxin-antitoxin system, antitoxin component, Xre family [Neisseria
           polysaccharea ATCC 43768]
          Length = 120

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 22/96 (22%), Positives = 38/96 (39%), Gaps = 9/96 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+R++  R   G S+E+L E  GI+   +Q YE G     A  L    +     + +
Sbjct: 10  KLLGERLKKIRTDNGYSREQLSELFGISRASIQNYENGERSPNADYLVQFYKHFGINLHW 69

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDG---LQLNR 105
               +            + +D +S+P     L L R
Sbjct: 70  LLTGNKAAKF------QDFIDSVSSPREEVLLHLAR 99


>gi|207722896|ref|YP_002253330.1| hypothetical protein RSMK05553 [Ralstonia solanacearum MolK2]
 gi|206588080|emb|CAQ18660.1| hypothetical protein RSMK05553 [Ralstonia solanacearum MolK2]
          Length = 182

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 1/68 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R   G + E L E  G+T   + K E+G++    +    ++  L  P    F   
Sbjct: 4  RLKPLRKDRGWTLEVLAERTGLTKSYLSKVERGLSVPSIAVAMKLARALGVPAEDLF-GE 62

Query: 78 PTVCSDIS 85
          P   S I+
Sbjct: 63 PAAASAIT 70


>gi|168181316|ref|ZP_02615980.1| prolyl aminopeptidase [Clostridium botulinum Bf]
 gi|237793769|ref|YP_002861321.1| hypothetical protein CLJ_B0515 [Clostridium botulinum Ba4 str.
          657]
 gi|182675351|gb|EDT87312.1| prolyl aminopeptidase [Clostridium botulinum Bf]
 gi|229264073|gb|ACQ55106.1| conserved domain protein [Clostridium botulinum Ba4 str. 657]
          Length = 65

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          K++++ R+   MSQE+L + +G+  Q +   E G      +    I +VL   ++  F
Sbjct: 4  KKMKIARIECDMSQEQLADAVGVARQTIGLIEAGKYNPSLNLCISICKVLNKTLNDLF 61


>gi|153826821|ref|ZP_01979488.1| transcriptional regulator, HTH_3 family [Vibrio cholerae MZO-2]
 gi|149739342|gb|EDM53588.1| transcriptional regulator, HTH_3 family [Vibrio cholerae MZO-2]
          Length = 181

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 36/78 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  +++  R   G+S +   +  G++   + + E+G +    + L  I+  LE+  S F
Sbjct: 9  QIANQLKNLRKSRGLSLDATAQLTGVSKAMLGQIERGESSPTIATLWKIASGLEASFSAF 68

Query: 74 FDVSPTVCSDISSEENNV 91
          F   P + S   S  +++
Sbjct: 69 FANDPQLLSSERSFPDDL 86


>gi|266622653|ref|ZP_06115588.1| putative helix-turn-helix protein [Clostridium hathewayi DSM
          13479]
 gi|288865608|gb|EFC97906.1| putative helix-turn-helix protein [Clostridium hathewayi DSM
          13479]
          Length = 195

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 33/56 (58%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG+ I   R   G++Q+++ + LGI+ + V K+E+G+     S  + +S VL + I
Sbjct: 6  VGRLILQFRKEKGLTQQQVADLLGISNKTVSKWERGLGCPDVSLWEGLSTVLGADI 61


>gi|228940885|ref|ZP_04103444.1| hypothetical protein bthur0008_35250 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|228973814|ref|ZP_04134390.1| hypothetical protein bthur0003_35690 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228980403|ref|ZP_04140713.1| hypothetical protein bthur0002_35710 [Bacillus thuringiensis
          Bt407]
 gi|228779223|gb|EEM27480.1| hypothetical protein bthur0002_35710 [Bacillus thuringiensis
          Bt407]
 gi|228785839|gb|EEM33842.1| hypothetical protein bthur0003_35690 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228818721|gb|EEM64787.1| hypothetical protein bthur0008_35250 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|326941562|gb|AEA17458.1| ans operon repressor protein [Bacillus thuringiensis serovar
          chinensis CT-43]
          Length = 145

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 29/61 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK+I   R    +SQ +L + LG +  ++  YE+G        L+ I++  E    +  
Sbjct: 2  LGKKISELRKKQKLSQYELADRLGFSRGKLANYEQGQREPDYDTLKKIADFFEVSTDYLL 61

Query: 75 D 75
          D
Sbjct: 62 D 62


>gi|224372182|ref|YP_002606554.1| helix-turn-helix protein [Nautilia profundicola AmH]
 gi|223588476|gb|ACM92212.1| helix-turn-helix protein [Nautilia profundicola AmH]
          Length = 272

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 27/57 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + +G++I+  R   G++  +L    G+    + K E+       + +  I+EVL  P
Sbjct: 1  MTLGEKIKFFRENKGLNLSELASRAGVAKSTLFKIEENKTNPTINTIWAIAEVLGVP 57


>gi|238799127|ref|ZP_04642582.1| hypothetical protein ymoll0001_17150 [Yersinia mollaretii ATCC
           43969]
 gi|238717035|gb|EEQ08896.1| hypothetical protein ymoll0001_17150 [Yersinia mollaretii ATCC
           43969]
          Length = 160

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/103 (20%), Positives = 41/103 (39%), Gaps = 6/103 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RIR  R     SQE+L E   +  + +Q+ E G        L  I+ VL+  +S  +   
Sbjct: 5   RIRELRQARAWSQEQLAELCSLNVRTIQRIENGEQ-ASLETLSAIAAVLDLKVSELYAPG 63

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
                D  ++  +    +   D ++    F +    ++ + +I
Sbjct: 64  ANQQQDAPADAVD-QRVLDARDAVENEMAFFR----QLLRAVI 101


>gi|325918054|ref|ZP_08180215.1| transcriptional regulator, XRE family [Xanthomonas vesicatoria
          ATCC 35937]
 gi|325535751|gb|EGD07586.1| transcriptional regulator, XRE family [Xanthomonas vesicatoria
          ATCC 35937]
          Length = 116

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 33/62 (53%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R+  G+SQ++LG   G    +   ++ +YE+G +       + +++ L  P +F
Sbjct: 21 RRLKQARLHTGLSQKELGIRAGLDPHVASPRINQYERGKHEPKLETAERLAQALGIPAAF 80

Query: 73 FF 74
           +
Sbjct: 81 LY 82


>gi|312897912|ref|ZP_07757326.1| helix-turn-helix protein [Megasphaera micronuciformis F0359]
 gi|310621007|gb|EFQ04553.1| helix-turn-helix protein [Megasphaera micronuciformis F0359]
          Length = 125

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 33/84 (39%), Gaps = 3/84 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          +RIR  R    MSQ+KL +  G  +   + K E G   +  ++++  ++ L    ++   
Sbjct: 6  ERIRRLRQENNMSQDKLAKKTGYTSRSTINKIEAGKIDISRAKIKVFADALGVTPAYLMG 65

Query: 75 -DVSPTVCSDISSEENNVMDFIST 97
           +           E     + + T
Sbjct: 66 WEDESEQGYYTDPEVAEYAEELRT 89


>gi|296163497|ref|ZP_06846243.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
 gi|295886255|gb|EFG66127.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
          Length = 124

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 37/82 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ +   R+   M+QE++ E LG+  + + ++E+G       RL  ++EV   P     
Sbjct: 15 IGQALARARLDADMTQEQVSEALGVNTETISRFERGHTAPPLFRLFELAEVYGVPPETLI 74

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
                  D + +   +M  +S
Sbjct: 75 AGGEGRSLDPARDVTALMGNLS 96


>gi|270262720|ref|ZP_06190991.1| transcriptional regulatory protein [Serratia odorifera 4Rx13]
 gi|270043404|gb|EFA16497.1| transcriptional regulatory protein [Serratia odorifera 4Rx13]
          Length = 185

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 5/78 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GKR+   R+ LG+SQ ++ E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSQIRLQLGLSQRRVAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSAFF- 67

Query: 76 VSPTVCSDISSEENNVMD 93
                 + + E   V++
Sbjct: 68 ----AEPEAADEPKVVIE 81


>gi|222530280|ref|YP_002574162.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
           DSM 6725]
 gi|312621353|ref|YP_004022966.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
           kronotskyensis 2002]
 gi|222457127|gb|ACM61389.1| transcriptional regulator, XRE family [Caldicellulosiruptor bescii
           DSM 6725]
 gi|312201820|gb|ADQ45147.1| helix-turn-helix domain protein [Caldicellulosiruptor
           kronotskyensis 2002]
          Length = 124

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 26/92 (28%), Positives = 39/92 (42%), Gaps = 11/92 (11%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VDI V  +I   R+   +SQ++L + LGI+   V K E G        L  I++ L    
Sbjct: 33  VDIAV--KIIQYRIKNNLSQKELAQKLGISQAMVSKLESGDYNPTVKMLYEIAKKLG--- 87

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
              F++          EEN V    S+ + L 
Sbjct: 88  ---FELEIEFREKTEYEENWVE---SSEELLD 113


>gi|167755998|ref|ZP_02428125.1| hypothetical protein CLORAM_01518 [Clostridium ramosum DSM 1402]
 gi|167703990|gb|EDS18569.1| hypothetical protein CLORAM_01518 [Clostridium ramosum DSM 1402]
          Length = 291

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 32/76 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++   +R  R   G SQE+L E L ++ Q V K+E          L  +S++ E  I  
Sbjct: 1  MSLSDNLRALRKQKGYSQEQLAERLNVSRQAVSKWESDNGYPEMESLIILSDLFECTIDD 60

Query: 73 FFDVSPTVCSDISSEE 88
                T  +  + + 
Sbjct: 61 LLKNDLTQHNPTAKQA 76


>gi|163838939|ref|YP_001623344.1| HTH transcriptional regulator [Renibacterium salmoninarum ATCC
           33209]
 gi|162952415|gb|ABY21930.1| HTH transcriptional regulator [Renibacterium salmoninarum ATCC
           33209]
          Length = 551

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 24/135 (17%), Positives = 48/135 (35%), Gaps = 13/135 (9%)

Query: 9   NPVDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           + +D+ ++G+R+R  R    M+ + LG  +     Q+   E G      S L  +++ L 
Sbjct: 71  DEIDVISLGRRVRHLRKSANMTLDDLGLMVDAAPSQLSMIENGKREPKLSLLNSLAKSLG 130

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR---QKIIELVR 124
             I       P         E       +  + L L          KVR   +  ++ + 
Sbjct: 131 VSIEQLLGSEPPSRRAALEIELERAQRGALYESLGL---------PKVRVSSRLSMDALE 181

Query: 125 SIVSSEKKYRTIEEE 139
           ++V  + +      E
Sbjct: 182 ALVGLQAELERRLNE 196


>gi|39935673|ref|NP_947949.1| transcriptional regulator [Rhodopseudomonas palustris CGA009]
 gi|39649526|emb|CAE28048.1| possible transcriptional regulator, XRE family, CUPIN domain
          [Rhodopseudomonas palustris CGA009]
          Length = 207

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 25/55 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VG  +R  R+  G S E+L +  G++   + + E G +      L  ++  L  P
Sbjct: 26 VGHNLRRLRVRQGYSLERLAKQSGVSRAMLGQIETGKSVPTIGTLWKVATALGVP 80


>gi|25011800|ref|NP_736195.1| hypothetical protein gbs1761 [Streptococcus agalactiae NEM316]
 gi|77413672|ref|ZP_00789856.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 515]
 gi|24413341|emb|CAD47420.1| Unknown [Streptococcus agalactiae NEM316]
 gi|77160272|gb|EAO71399.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 515]
          Length = 197

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I   R    +SQE+L E + ++ Q +  +E          L  +S++ +  + 
Sbjct: 1  MEIGQQIIRYRKQQALSQEELAEKVYVSRQSISNWENDKTYPDIYSLLLLSQIFQVSLD 59


>gi|329667149|gb|AEB93097.1| transcriptional regulator, XRE family [Lactobacillus johnsonii
          DPC 6026]
          Length = 114

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 32/80 (40%), Gaps = 3/80 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I   R   G+SQ +L + LGI    +  YE          L  I++  +  +    
Sbjct: 4  LGENISNLRKSRGLSQAQLADRLGIATSTLGMYETNKREPSNQTLLLIADFFDKTVD--- 60

Query: 75 DVSPTVCSDISSEENNVMDF 94
          ++     S  +S E N  D 
Sbjct: 61 ELLGRQTSTHTSTELNYEDL 80


>gi|313106352|ref|ZP_07792591.1| putative transcriptional regulator [Pseudomonas aeruginosa 39016]
 gi|310879093|gb|EFQ37687.1| putative transcriptional regulator [Pseudomonas aeruginosa 39016]
          Length = 195

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 8/83 (9%)

Query: 8  PNPVDI-----NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          PNP +      +V   +R  R+  G+SQE L     ++ + +   E G   V  S L  I
Sbjct: 12 PNPTERPSVLEHVSGNVRRLRLQAGLSQEALARAASVSRRMLVGIESGDVNVSLSTLDRI 71

Query: 63 SEVLESPISFFFDVSPTVCSDIS 85
          +  L      F D+     +D S
Sbjct: 72 AAALGV---LFPDLVQAPATDRS 91


>gi|293401810|ref|ZP_06645951.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291304762|gb|EFE46010.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 371

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 12/73 (16%), Positives = 29/73 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I   R    ++Q++L   +G++   V K+E   +      L  ++ +    +    
Sbjct: 6  LGENIAALRRKANITQDQLANWIGVSKSSVSKWETNTSYPDIIFLPQLATLFNVTVDELM 65

Query: 75 DVSPTVCSDISSE 87
             P +  +   E
Sbjct: 66 GYEPQLTQEAIVE 78


>gi|261866843|ref|YP_003254765.1| XRE family transcriptional regulator [Aggregatibacter
          actinomycetemcomitans D11S-1]
 gi|261412175|gb|ACX81546.1| transcriptional regulator, XRE family [Aggregatibacter
          actinomycetemcomitans D11S-1]
          Length = 70

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 25/59 (42%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GK+++  R   G+SQE L     +    +   E+G   +    +  I+  L   I  FF
Sbjct: 11 GKKVKELRKQKGLSQEALALLCDLDRSYIGGVERGERNISLINIYKITLALNIDIKDFF 69


>gi|257455556|ref|ZP_05620786.1| phage repressor [Enhydrobacter aerosaccus SK60]
 gi|257447022|gb|EEV22035.1| phage repressor [Enhydrobacter aerosaccus SK60]
          Length = 222

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 27/59 (45%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G R++  R   G++Q +L +  G     +   E G N   +++L  ++E +     + 
Sbjct: 5  IGSRVKKARKYAGLTQVELAKKSGSKQGAISDLESGRNE-SSTKLVEMAEAMGVSAKWL 62


>gi|300768439|ref|ZP_07078339.1| XRE family transcriptional regulator [Lactobacillus plantarum
           subsp. plantarum ATCC 14917]
 gi|300493957|gb|EFK29125.1| XRE family transcriptional regulator [Lactobacillus plantarum
           subsp. plantarum ATCC 14917]
          Length = 133

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/85 (20%), Positives = 36/85 (42%), Gaps = 1/85 (1%)

Query: 17  KRIRLRRM-ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           +R++  R    G++QE+L   LG+    +  YE+G  +     L  I++       +   
Sbjct: 17  ERLKELRKKEAGLTQERLAMQLGMAKTTLASYEQGKRQPDLETLSKIADRFSVTTDYLLG 76

Query: 76  VSPTVCSDISSEENNVMDFISTPDG 100
            + T       +  ++ DF+   +G
Sbjct: 77  KNGTPKWATKKDTIDLKDFLEANEG 101


>gi|218132388|ref|ZP_03461192.1| hypothetical protein BACPEC_00247 [Bacteroides pectinophilus ATCC
           43243]
 gi|217992726|gb|EEC58728.1| hypothetical protein BACPEC_00247 [Bacteroides pectinophilus ATCC
           43243]
          Length = 115

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/107 (19%), Positives = 42/107 (39%), Gaps = 1/107 (0%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  +R  R  LG +Q  + E L +++    + E+G +R+    +  I        +   
Sbjct: 9   VGDALRTIRNKLGYTQNNMAERLDVSYIHYSQIEQGRHRMSLELMMKIVSEFGIEPNTLL 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY-FIQIDDVKVRQKII 120
            +  +   D   E  N +      +   L     I ID  + R++++
Sbjct: 69  GIDNSKKEDAVCEIENRIKMFKPKEQEYLTSACLIFIDGYEARKEVV 115


>gi|154502561|ref|ZP_02039621.1| hypothetical protein RUMGNA_00374 [Ruminococcus gnavus ATCC 29149]
 gi|153796753|gb|EDN79173.1| hypothetical protein RUMGNA_00374 [Ruminococcus gnavus ATCC 29149]
          Length = 136

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/116 (14%), Positives = 40/116 (34%), Gaps = 11/116 (9%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           ++  R    ++Q +L   L +T   +  YE    +    RL  I++     + +    S 
Sbjct: 28  LKELREQNHVTQNQLASHLKLTRSTIAGYETKGTQPDYERLLQIADYFHVSVDYLLTGSE 87

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
           T    +  + +            +L   ++ +     RQ++ E    +   + K  
Sbjct: 88  TNGISVPPDSSEY----------RLLCAYLNLSSDS-RQQLFEYTEFLQDQDTKKG 132


>gi|220931592|ref|YP_002508500.1| helix-turn-helix domain protein [Halothermothrix orenii H 168]
 gi|219992902|gb|ACL69505.1| helix-turn-helix domain protein [Halothermothrix orenii H 168]
          Length = 301

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 22/57 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R+R  R    + Q+ L   LG+    +  YE+ +       L  +++     I + 
Sbjct: 6  SRLRSLRKEKKLRQKDLAGALGVAQTTIANYEQNLRFPNQDILNKLADYFNVSIDYL 62


>gi|163940990|ref|YP_001645874.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|163863187|gb|ABY44246.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
          Length = 66

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 2/61 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  + M+QE L + +G+  + +   EKG           I+  L S I   F F+
Sbjct: 6  KIKEYRAKVHMTQEDLAKKVGVRRETISHLEKGKYNPSLQLAHDIARALHSTIDEVFIFE 65

Query: 76 V 76
           
Sbjct: 66 D 66


>gi|15641970|ref|NP_231602.1| transcriptional regulator [Vibrio cholerae O1 biovar El Tor str.
          N16961]
 gi|121590656|ref|ZP_01677990.1| transcriptional regulator, HTH_3 family [Vibrio cholerae 2740-80]
 gi|121728635|ref|ZP_01681654.1| transcriptional regulator, HTH_3 family [Vibrio cholerae V52]
 gi|147674892|ref|YP_001217496.1| transcriptional regulator [Vibrio cholerae O395]
 gi|153217017|ref|ZP_01950781.1| transcriptional regulator, HTH_3 family [Vibrio cholerae 1587]
 gi|153801860|ref|ZP_01956446.1| transcriptional regulator, HTH_3 family [Vibrio cholerae MZO-3]
 gi|153819310|ref|ZP_01971977.1| transcriptional regulator, HTH_3 family [Vibrio cholerae NCTC
          8457]
 gi|153822466|ref|ZP_01975133.1| transcriptional regulator, HTH_3 family [Vibrio cholerae B33]
 gi|227082095|ref|YP_002810646.1| transcriptional regulator, HTH_3 family [Vibrio cholerae M66-2]
 gi|229507941|ref|ZP_04397446.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae BX
          330286]
 gi|229511823|ref|ZP_04401302.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          B33]
 gi|229515349|ref|ZP_04404809.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          TMA 21]
 gi|229518960|ref|ZP_04408403.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          RC9]
 gi|229607486|ref|YP_002878134.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          MJ-1236]
 gi|254849056|ref|ZP_05238406.1| transcriptional regulator [Vibrio cholerae MO10]
 gi|255745280|ref|ZP_05419229.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholera
          CIRS 101]
 gi|262156005|ref|ZP_06029125.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          INDRE 91/1]
 gi|262167921|ref|ZP_06035621.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          RC27]
 gi|298497998|ref|ZP_07007805.1| transcriptional regulator [Vibrio cholerae MAK 757]
 gi|9656508|gb|AAF95116.1| transcriptional regulator, HTH_3 family [Vibrio cholerae O1
          biovar El Tor str. N16961]
 gi|121547499|gb|EAX57605.1| transcriptional regulator, HTH_3 family [Vibrio cholerae 2740-80]
 gi|121629098|gb|EAX61543.1| transcriptional regulator, HTH_3 family [Vibrio cholerae V52]
 gi|124113941|gb|EAY32761.1| transcriptional regulator, HTH_3 family [Vibrio cholerae 1587]
 gi|124122632|gb|EAY41375.1| transcriptional regulator, HTH_3 family [Vibrio cholerae MZO-3]
 gi|126510130|gb|EAZ72724.1| transcriptional regulator, HTH_3 family [Vibrio cholerae NCTC
          8457]
 gi|126520042|gb|EAZ77265.1| transcriptional regulator, HTH_3 family [Vibrio cholerae B33]
 gi|146316775|gb|ABQ21314.1| transcriptional regulator, HTH_3 family [Vibrio cholerae O395]
 gi|227009983|gb|ACP06195.1| transcriptional regulator, HTH_3 family [Vibrio cholerae M66-2]
 gi|227013865|gb|ACP10075.1| transcriptional regulator, HTH_3 family [Vibrio cholerae O395]
 gi|229343649|gb|EEO08624.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          RC9]
 gi|229348054|gb|EEO13013.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          TMA 21]
 gi|229351788|gb|EEO16729.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          B33]
 gi|229355446|gb|EEO20367.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae BX
          330286]
 gi|229370141|gb|ACQ60564.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          MJ-1236]
 gi|254844761|gb|EET23175.1| transcriptional regulator [Vibrio cholerae MO10]
 gi|255737110|gb|EET92506.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholera
          CIRS 101]
 gi|262023648|gb|EEY42349.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          RC27]
 gi|262030183|gb|EEY48827.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae
          INDRE 91/1]
 gi|297542331|gb|EFH78381.1| transcriptional regulator [Vibrio cholerae MAK 757]
          Length = 181

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 36/78 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  +++  R   G+S +   +  G++   + + E+G +    + L  I+  LE+  S F
Sbjct: 9  QIANQLKNLRKSRGLSLDATAQLTGVSKAMLGQIERGESSPTIATLWKIASGLEASFSAF 68

Query: 74 FDVSPTVCSDISSEENNV 91
          F   P + S   S  +++
Sbjct: 69 FANDPQLLSSERSFPDDL 86


>gi|313892448|ref|ZP_07826038.1| peptidase S24-like protein [Dialister microaerophilus UPII 345-E]
 gi|313119130|gb|EFR42332.1| peptidase S24-like protein [Dialister microaerophilus UPII 345-E]
          Length = 218

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/106 (19%), Positives = 44/106 (41%), Gaps = 3/106 (2%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLE 67
           N ++  +G+RIR  R    ++  ++   +G++   VQ+YE G       S L   ++VL 
Sbjct: 3   NNINKEIGQRIRKTRKANKLTLLEVAHKMGLSEGNVQRYEIGKIENFALSTLTKFAKVLN 62

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFIST--PDGLQLNRYFIQID 111
           +                S + + V + +S   P+ +   +   +I 
Sbjct: 63  TTPEELLGWVDKEDVTNSFDYSYVDEPVSAGLPENINAIKNLPKIP 108


>gi|308067389|ref|YP_003868994.1| transcriptional regulator ydcN [Paenibacillus polymyxa E681]
 gi|305856668|gb|ADM68456.1| Putative HTH-type transcriptional regulator ydcN [Paenibacillus
          polymyxa E681]
          Length = 183

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/83 (15%), Positives = 38/83 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ + K ++  R    +S +KL +  GI+   + + E+G +    + +  I+  L+   
Sbjct: 4  INLILSKNLKYLRNERKLSLDKLADLTGISKTMLGQIERGESNPSITTVWKIANGLKISF 63

Query: 71 SFFFDVSPTVCSDISSEENNVMD 93
          +   +  P+    +   +  V++
Sbjct: 64 TALINEPPSDAVVVPKSKVQVLE 86


>gi|288921266|ref|ZP_06415550.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
 gi|288347356|gb|EFC81649.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
          Length = 490

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 26/123 (21%), Positives = 48/123 (39%), Gaps = 6/123 (4%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEV 65
              P  + +G  +R  R   G++Q++L + LG     V K E G   +   S L+HI+  
Sbjct: 12  RTTPTSVGIGSLLRAYRQAHGLTQQQLADLLGFDQSYVSKVESGRRAIHDISTLRHIARN 71

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           L         ++P   +D   E        ST + +  ++   ++    +    I L R+
Sbjct: 72  LGLSPED-VGLAPGGLADRRREPPRG----STVEKVAGSQRAWRLTRDHLNHHRISLARA 126

Query: 126 IVS 128
              
Sbjct: 127 AAR 129


>gi|237727408|ref|ZP_04557889.1| conserved hypothetical protein [Bacteroides sp. D4]
 gi|229434264|gb|EEO44341.1| conserved hypothetical protein [Bacteroides dorei 5_1_36/D4]
          Length = 77

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 21/55 (38%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+ I   R    M+Q KL E +G     + + E G      S    I+  L   +
Sbjct: 17 GQIIEEARKKANMTQAKLAEKIGTNKSYISRVETGKTEPKVSTFYRIASALGLNV 71


>gi|224542005|ref|ZP_03682544.1| hypothetical protein CATMIT_01178 [Catenibacterium mitsuokai DSM
          15897]
 gi|224525062|gb|EEF94167.1| hypothetical protein CATMIT_01178 [Catenibacterium mitsuokai DSM
          15897]
          Length = 378

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 32/57 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GK I   R   G++QE+LG  LG++ + + ++E G      S L  +SE L+  ++
Sbjct: 6  IGKFISENRKRKGLTQEQLGNILGVSNKTISRWENGNYMPDLSLLIPLSETLDISLN 62


>gi|192291420|ref|YP_001992025.1| phage repressor [Rhodopseudomonas palustris TIE-1]
 gi|192285169|gb|ACF01550.1| putative phage repressor [Rhodopseudomonas palustris TIE-1]
          Length = 264

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 1/78 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  IR  R   G SQ+ L + +GI+   ++K E G   V +  L  I++VL   +    +
Sbjct: 33  GNIIRQAREQKGWSQKDLADRVGISQPAIRKIEGGST-VKSKHLPKIAQVLGLDLQHLDE 91

Query: 76  VSPTVCSDISSEENNVMD 93
               + +  S   ++  D
Sbjct: 92  SLDQLTNVESQAFSSTGD 109


>gi|254286899|ref|ZP_04961851.1| transcriptional regulator, HTH_3 family [Vibrio cholerae
          AM-19226]
 gi|150423049|gb|EDN14998.1| transcriptional regulator, HTH_3 family [Vibrio cholerae
          AM-19226]
          Length = 181

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 36/78 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  +++  R   G+S +   +  G++   + + E+G +    + L  I+  LE+  S F
Sbjct: 9  QIANQLKNLRKSRGLSLDATAQLTGVSKAMLGQIERGESSPTIATLWKIASGLEASFSAF 68

Query: 74 FDVSPTVCSDISSEENNV 91
          F   P + S   S  +++
Sbjct: 69 FANDPQLLSSERSFPDDL 86


>gi|91224506|ref|ZP_01259768.1| transcriptional regulator, putative [Vibrio alginolyticus 12G01]
 gi|91190848|gb|EAS77115.1| transcriptional regulator, putative [Vibrio alginolyticus 12G01]
          Length = 113

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R++  R    +SQ+ LG  +G+       ++ +YE+  +      L+ I++ L  P+++
Sbjct: 9  ARLKHARKQANLSQKALGIRIGMDDSSASARMNQYERERHTPDVKTLKLIADELNVPLNY 68

Query: 73 FF 74
          FF
Sbjct: 69 FF 70


>gi|328947050|ref|YP_004364387.1| hypothetical protein Tresu_0124 [Treponema succinifaciens DSM
          2489]
 gi|328447374|gb|AEB13090.1| helix-turn-helix domain protein [Treponema succinifaciens DSM
          2489]
          Length = 106

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 2/70 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD- 75
          + ++  R   G++QEKL E + ++   +   E       A  +  I+  LE P+S  F+ 
Sbjct: 9  QNMKYYRKQAGLTQEKLAEAIDMSTSYIGDMEARERFPSAETIDKIAAALEIPVSLLFNE 68

Query: 76 -VSPTVCSDI 84
            SP    D 
Sbjct: 69 RGSPDSLKDT 78


>gi|317501992|ref|ZP_07960176.1| hypothetical protein HMPREF1026_02120 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|316896672|gb|EFV18759.1| hypothetical protein HMPREF1026_02120 [Lachnospiraceae bacterium
          8_1_57FAA]
          Length = 102

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N+G++I   R   G+SQ+       ++ Q +  +E G +      +  +S+  +  I 
Sbjct: 1  MNIGEQINNLRKQHGLSQDDFANLFNVSRQTISNWENGKSYPDLEMIIKVSDYFKISID 59


>gi|300704470|ref|YP_003746073.1| transcriptional regulator protein [Ralstonia solanacearum
          CFBP2957]
 gi|299072134|emb|CBJ43466.1| putative transcription regulator protein [Ralstonia solanacearum
          CFBP2957]
          Length = 182

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 1/68 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R   G + E L E  G+T   + K E+G++    +    ++  L  P    F   
Sbjct: 4  RLKPLRKDRGWTLEVLAERTGLTKSYLSKVERGLSVPSIAVAMKLARALGVPAEDLF-GE 62

Query: 78 PTVCSDIS 85
          P   S I+
Sbjct: 63 PAAGSAIT 70


>gi|296314367|ref|ZP_06864308.1| putative helix-turn-helix protein [Neisseria polysaccharea ATCC
          43768]
 gi|296838924|gb|EFH22862.1| putative helix-turn-helix protein [Neisseria polysaccharea ATCC
          43768]
          Length = 112

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 39/81 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+   IR  R   G +Q++L +    +   +   E G      S L+++SE L+ P+S 
Sbjct: 1  MNISHAIRFLRKQKGWTQQQLADFANTSKSNISNLENGNQGYSESILKYLSEALDCPVSS 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
           F ++ ++    ++   N+ D
Sbjct: 61 IFLLAESLERQQNNTATNMED 81


>gi|237796640|ref|YP_002864192.1| DNA-binding protein [Clostridium botulinum Ba4 str. 657]
 gi|229260795|gb|ACQ51828.1| DNA-binding protein [Clostridium botulinum Ba4 str. 657]
          Length = 189

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D ++GK+I+  R    ++ ++L E   ++   + + E+G+  V    L  I++ L+  +
Sbjct: 2  ID-DIGKKIKKLRTNKKLTLKELSEKTNLSIGFLSQLERGLTTVAIDSLTKIAKELDVSL 60

Query: 71 SFFFDVSP 78
          ++FF    
Sbjct: 61 TYFFQAPK 68


>gi|229145225|ref|ZP_04273615.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST24]
 gi|228638236|gb|EEK94676.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST24]
          Length = 113

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG+ IR  R   G++QE+L E + +    +   E+G   +    LQ I+  LE    
Sbjct: 2  VGENIRFLRKKRGLTQEELAEQINLQQAYIGGVERGERNISMLTLQKIAVGLEVSPD 58


>gi|163841313|ref|YP_001625718.1| transcriptional regulator [Renibacterium salmoninarum ATCC 33209]
 gi|162954789|gb|ABY24304.1| transcriptional regulator [Renibacterium salmoninarum ATCC 33209]
          Length = 194

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/84 (17%), Positives = 34/84 (40%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          ++   +D  + +RIR  R+  G S + L     ++   + + E G  R+   +L  +++ 
Sbjct: 4  RMTQDLDAVIRQRIRAARLARGWSLDSLAAKCALSPSTLSRIETGNRRIALDQLVPLAKA 63

Query: 66 LESPISFFFDVSPTVCSDISSEEN 89
          L   +    + +      I  E  
Sbjct: 64 LGMTLDELVESTDEDSVVIRPEPE 87


>gi|153940942|ref|YP_001392536.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|152936838|gb|ABS42336.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|295320522|gb|ADG00900.1| DNA-binding protein [Clostridium botulinum F str. 230613]
          Length = 189

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D ++GK+I+  R    ++ ++L E   ++   + + E+G+  V    L  I++ L+  +
Sbjct: 2  ID-DIGKKIKKLRTNKKLTLKELSEKTNLSIGFLSQLERGLTTVAIDSLTKIAKELDVSL 60

Query: 71 SFFFDVSP 78
          ++FF    
Sbjct: 61 TYFFQAPK 68


>gi|145299927|ref|YP_001142768.1| DNA-binding transcriptional repressor PuuR [Aeromonas salmonicida
          subsp. salmonicida A449]
 gi|142852699|gb|ABO91020.1| transcriptional regulator [Aeromonas salmonicida subsp.
          salmonicida A449]
          Length = 187

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 22/89 (24%), Positives = 41/89 (46%), Gaps = 1/89 (1%)

Query: 7  IPNPV-DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
            NP+ D ++G+R+   R  LG+SQ ++ E  G+T   +   E+       + LQ +  V
Sbjct: 2  TANPLMDKSMGERLAATRRRLGLSQRRVAELSGLTHGAICMIEQDKVSPSVASLQKLLNV 61

Query: 66 LESPISFFFDVSPTVCSDISSEENNVMDF 94
           E P+S FF         +  +   +++ 
Sbjct: 62 YELPLSRFFAEEEGRAPSVVIKAEQLIEL 90


>gi|91772638|ref|YP_565330.1| cupin sensor transcriptional regulator [Methanococcoides burtonii
          DSM 6242]
 gi|91711653|gb|ABE51580.1| Protein with helix-turn-helix and cupin domain [Methanococcoides
          burtonii DSM 6242]
          Length = 184

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 30/67 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +  RI   R +  +  E + E LGI+    ++Y+ G + + AS L  IS++L   +  
Sbjct: 6  IEIASRISELRELSDIGLETMAEKLGISVDAYKQYDSGESDIPASMLFEISQILNVDMGL 65

Query: 73 FFDVSPT 79
                 
Sbjct: 66 LLTGEEP 72


>gi|83855136|ref|ZP_00948666.1| DNA binding protein, putative [Sulfitobacter sp. NAS-14.1]
 gi|83842979|gb|EAP82146.1| DNA binding protein, putative [Sulfitobacter sp. NAS-14.1]
          Length = 188

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 14/78 (17%), Positives = 35/78 (44%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
             P+ +   +  R++  R   G+S + + +  G++   V + E+G +    + L +++ 
Sbjct: 2  TDNPDAILTQLPARLKAARTAQGLSLDAVAKLSGVSRSMVSQIERGESSPTIATLWNLTR 61

Query: 65 VLESPISFFFDVSPTVCS 82
           L+   +   D +PT   
Sbjct: 62 ALQVDFAGLLDSAPTPAQ 79


>gi|258591602|emb|CBE67903.1| conserved protein of unknown function [NC10 bacterium 'Dutch
          sediment']
          Length = 71

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 30/55 (54%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+++R RR+ L +SQE+L E  G+    V   E+G   +    +   ++ L+ P+
Sbjct: 10 GQKVRQRRLSLAISQEELAERAGVHRTYVGMIERGEKNITLRNIVKFAKALDMPV 64


>gi|288904825|ref|YP_003430047.1| transcriptional regulator [Streptococcus gallolyticus UCN34]
 gi|288731551|emb|CBI13106.1| putative transcriptional regulator [Streptococcus gallolyticus
          UCN34]
          Length = 65

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R+ LG+SQ  L + +G+  Q V   E             ++E L++ ++  F
Sbjct: 2  NRVREFRLNLGISQLALAKQIGVARQTVNLIENNKYNPSLDLCIKLAEALQTDLNTLF 59


>gi|291087268|ref|ZP_06571878.1| putative toxin-antitoxin system, toxin component [Clostridium sp.
          M62/1]
 gi|291075626|gb|EFE12990.1| putative toxin-antitoxin system, toxin component [Clostridium sp.
          M62/1]
          Length = 96

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 38/86 (44%), Gaps = 1/86 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
             GKR+   R   G++QE+L   LG+ + Q V + E G        L  +S +L     
Sbjct: 6  KEFGKRLHDVRTSRGITQEELAVRLGLASKQHVSRMENGERSCSIDLLIELSCILHVSTD 65

Query: 72 FFFDVSPTVCSDISSEENNVMDFIST 97
          +    S     ++ ++  +++  +ST
Sbjct: 66 YLLMGSEPSKEEVKNDLLSIISELST 91


>gi|224542424|ref|ZP_03682963.1| hypothetical protein CATMIT_01606 [Catenibacterium mitsuokai DSM
           15897]
 gi|224524655|gb|EEF93760.1| hypothetical protein CATMIT_01606 [Catenibacterium mitsuokai DSM
           15897]
          Length = 117

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/116 (18%), Positives = 51/116 (43%), Gaps = 24/116 (20%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQ----VQKYEKGVNRVGASRLQHISEVLESPISF 72
           +R++  R   G++Q++LG  +G+  +     + +YEKGV+    +  + I++ L  P++F
Sbjct: 14  QRLKAAREDAGLTQKELGMSVGLPQEAAAVRINRYEKGVHDADLATARRIAQSLGVPLAF 73

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            +       +D+ +E    +  +S  +                R+ + +L   +  
Sbjct: 74  LY-----ADTDVLAEAILTLGLLSKSE---------------QRKAVADLKARLAQ 109


>gi|187940017|gb|ACD39152.1| hypothetical protein PACL_0364 [Pseudomonas aeruginosa]
          Length = 112

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 30/72 (41%), Gaps = 1/72 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ IR  R   G+ QE++ E  GI     + YE G       R+  I+  L      
Sbjct: 1  MAIGENIRKARERKGLRQEQVAEMAGIPLSTYKNYEHGKQPPPGDRIGAIARTLGVSADE 60

Query: 73 F-FDVSPTVCSD 83
            F+ S    +D
Sbjct: 61 LVFEESERQVAD 72


>gi|331018707|gb|EGH98763.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
          lachrymans str. M302278PT]
          Length = 118

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G R+R  R   G +Q++L E +G     + +YE+GV       L  +   L+   +
Sbjct: 6  AFIGVRVRAFRKAHGFNQDQLAELVGCEKMTISRYERGVGTPNLDHLVKLCVALKISPA 64


>gi|312140854|ref|YP_004008190.1| transcriptional regulator [Rhodococcus equi 103S]
 gi|311890193|emb|CBH49511.1| putative transcriptional regulator [Rhodococcus equi 103S]
          Length = 198

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 25/56 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + + ++  R    MS   L +   ++ Q + K E+GV       +  I+  L+ P+
Sbjct: 7  IARNVQRFRNERQMSMGDLAKRADLSKQTLSKIEQGVGNPTVETIDAIATALDVPL 62


>gi|307276551|ref|ZP_07557669.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|306506661|gb|EFM75813.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
          Length = 270

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 11 VDIN-VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEV 65
          +D   VG RIR  R  L +S EK G+ +G +    V  +E+G+N      L  I+EV
Sbjct: 3  IDKQAVGNRIRQIRQELKLSMEKFGKLIGDLPRSTVNNWERGINLPKTETLHQIAEV 59


>gi|291531478|emb|CBK97063.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
          Length = 380

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 31/59 (52%), Gaps = 7/59 (11%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ ++  R+   ++QE+L + LG++ Q V ++E G      + L  I       +S+F
Sbjct: 16 LGENLKKFRLQRELTQEQLADVLGVSAQAVSRWENGTTYPDITLLPTI-------VSYF 67


>gi|167770416|ref|ZP_02442469.1| hypothetical protein ANACOL_01759 [Anaerotruncus colihominis DSM
           17241]
 gi|167667423|gb|EDS11553.1| hypothetical protein ANACOL_01759 [Anaerotruncus colihominis DSM
           17241]
          Length = 112

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/115 (18%), Positives = 46/115 (40%), Gaps = 10/115 (8%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            ++  R   G+SQ+ + + LGIT Q    YE G  +   + L  ++      +       
Sbjct: 3   NLKALRESKGVSQQTVADYLGITRQAYGNYETGKRQADYAALLRLAAFFGVSVDALLQPD 62

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
           P   +   + ++    +    +G QL          + +QK++E+ +     ++K
Sbjct: 63  PPAQTKELAFDD--FTYAMYEEGKQLTE--------ENKQKLLEMAKFFKQQQEK 107


>gi|21244773|ref|NP_644355.1| transcriptional regulator [Xanthomonas axonopodis pv. citri str.
          306]
 gi|21110470|gb|AAM38891.1| transcriptional regulator [Xanthomonas axonopodis pv. citri str.
          306]
          Length = 66

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G SQ +LGE LG++ Q +   E G           I+ +    I   F
Sbjct: 3  SRVRELREANGWSQGELGERLGVSRQTINALETGKYDPSLPLAFRIARLFGESIEHVF 60


>gi|230647|pdb|2OR1|L Chain L, Recognition Of A Dna Operator By The Repressor Of Phage
          434. A View At High Resolution
 gi|230648|pdb|2OR1|R Chain R, Recognition Of A Dna Operator By The Repressor Of Phage
          434. A View At High Resolution
 gi|494439|pdb|1PER|L Chain L, The Complex Between Phage 434 Repression Dna-Binding
          Domain And Operator Site Or3: Structural Differences
          Between Consensus And Non-Consensus Half-Sites
 gi|494440|pdb|1PER|R Chain R, The Complex Between Phage 434 Repression Dna-Binding
          Domain And Operator Site Or3: Structural Differences
          Between Consensus And Non-Consensus Half-Sites
 gi|494569|pdb|1RPE|L Chain L, The Phage 434 Or2R1-69 Complex At 2.5 Angstroms
          Resolution
 gi|494570|pdb|1RPE|R Chain R, The Phage 434 Or2R1-69 Complex At 2.5 Angstroms
          Resolution
 gi|157833619|pdb|1R69|A Chain A, Structure Of The Amino-Terminal Domain Of Phage 434
          Repressor At 2.0 Angstroms Resolution
          Length = 69

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 33/66 (50%), Gaps = 1/66 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  R++ +R+ LG++Q +L + +G T Q +++ E G  +     L  ++  L   + +  
Sbjct: 2  ISSRVKSKRIQLGLNQAELAQKVGTTQQSIEQLENGKTK-RPRFLPELASALGVSVDWLL 60

Query: 75 DVSPTV 80
          + +   
Sbjct: 61 NGTSDS 66


>gi|121583517|ref|YP_973943.1| hypothetical protein Pnap_4792 [Polaromonas naphthalenivorans
          CJ2]
 gi|120596767|gb|ABM40201.1| protein of unknown function DUF955 [Polaromonas naphthalenivorans
          CJ2]
          Length = 395

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 34/66 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KR  L R   GM++ ++ E +G++ + V  YEKG      S +Q +++ L  P +FF   
Sbjct: 5  KRFSLARRRRGMTKREIAESIGVSERSVSAYEKGDQEPEPSNVQRMTKALNFPEAFFHAA 64

Query: 77 SPTVCS 82
           P   +
Sbjct: 65 DPEELT 70


>gi|332652846|ref|ZP_08418591.1| putative transcriptional regulator [Ruminococcaceae bacterium D16]
 gi|332517992|gb|EGJ47595.1| putative transcriptional regulator [Ruminococcaceae bacterium D16]
          Length = 149

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 25/122 (20%), Positives = 54/122 (44%), Gaps = 12/122 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV----LES 68
           +++G  +   R   G+SQE + E LG++ Q + K+E         + + ++ +    L+ 
Sbjct: 1   MSLGSSLYHARKKSGLSQENVAEKLGVSRQTISKWETNETLPDIRQSKGLAMLYHMTLDE 60

Query: 69  PISFFFDVSPTVC--SDISSEENNVMDF--ISTPDGLQLNRYF--IQIDD--VKVRQKII 120
            I + FD          +S E    +D+  + +     L  Y   ++I+D    +R+ + 
Sbjct: 61  LIEYDFDEQQAQQMIDSVSDEAQARIDWNKVWSKKYPVLATYHKTVRINDYAPALREMLT 120

Query: 121 EL 122
           +L
Sbjct: 121 QL 122


>gi|228994924|ref|ZP_04154702.1| Transcriptional regulator [Bacillus pseudomycoides DSM 12442]
 gi|228764826|gb|EEM13602.1| Transcriptional regulator [Bacillus pseudomycoides DSM 12442]
          Length = 115

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG+ I+  R   G++QE+L +  G++  Q++ +E   +      L+ ++    + I 
Sbjct: 5  VGQNIKNFRKSFGLTQEQLSDRTGLSRGQIKNWEVDRHEPDLESLKVLASFFNTSID 61


>gi|218132335|ref|ZP_03461139.1| hypothetical protein BACPEC_00194 [Bacteroides pectinophilus ATCC
           43243]
 gi|291086949|ref|ZP_06344978.2| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium sp. M62/1]
 gi|217992673|gb|EEC58675.1| hypothetical protein BACPEC_00194 [Bacteroides pectinophilus ATCC
           43243]
 gi|291076456|gb|EFE13820.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium sp. M62/1]
          Length = 204

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 35/79 (44%), Gaps = 2/79 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV--NRVGASRLQHISEVLESPISFFFD 75
           R++  R I   +QE+LG+   I+ Q +++YE+G       A  L  +++ L+    +   
Sbjct: 35  RLKELRNIRNYTQEELGKITNISVQSIRRYEQGRLNEEPSAYNLLQLAKALDVTPEYLLI 94

Query: 76  VSPTVCSDISSEENNVMDF 94
               + S   + +  +   
Sbjct: 95  GDNNMTSYTEAIKRELKQL 113


>gi|197104892|ref|YP_002130269.1| hypothetical protein PHZ_c1427 [Phenylobacterium zucineum HLK1]
 gi|196478312|gb|ACG77840.1| conserved hypothetical protein [Phenylobacterium zucineum HLK1]
          Length = 416

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 33/65 (50%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+++RL R+  G S E++GE +G T Q + + E G        +  +++ L    +F  +
Sbjct: 54  GEQLRLARLARGYSLEEIGERVGATRQFIHQLETGARSASDDLIAALADELGVTAAFLGE 113

Query: 76  VSPTV 80
             P+ 
Sbjct: 114 PIPST 118


>gi|126699269|ref|YP_001088166.1| putative transcriptional regulator [Clostridium difficile 630]
 gi|254975298|ref|ZP_05271770.1| putative transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255092688|ref|ZP_05322166.1| putative transcriptional regulator [Clostridium difficile CIP
          107932]
 gi|255100793|ref|ZP_05329770.1| putative transcriptional regulator [Clostridium difficile
          QCD-63q42]
 gi|255306676|ref|ZP_05350847.1| putative transcriptional regulator [Clostridium difficile ATCC
          43255]
 gi|255314426|ref|ZP_05356009.1| putative transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255517102|ref|ZP_05384778.1| putative transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255650208|ref|ZP_05397110.1| putative transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|260683328|ref|YP_003214613.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260686924|ref|YP_003218057.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|306520193|ref|ZP_07406540.1| putative transcriptional regulator [Clostridium difficile
          QCD-32g58]
 gi|115250706|emb|CAJ68530.1| Transcriptional regulator, RmlC-type [Clostridium difficile]
 gi|260209491|emb|CBA63038.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260212940|emb|CBE04210.1| putative transcriptional regulator [Clostridium difficile R20291]
          Length = 183

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 26/60 (43%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  + K +   R    +S  +L E  G++   + + EKG +    + +  I+  L  P
Sbjct: 2  SINTVIAKNLNRLRNERNLSLGQLAELSGVSKVMLSQIEKGDSNPTVNTIWKIASGLNVP 61


>gi|253723068|pdb|1PRA|A Chain A, Determination Of The Nuclear Magnetic Resonance Solution
          Structure Of The Dna-Binding Domain (Residues 1 To 69)
          Of The 434 Repressor And Comparison With The X-Ray
          Crystal Structure
          Length = 69

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 33/66 (50%), Gaps = 1/66 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  R++ +R+ LG++Q +L + +G T Q +++ E G  +     L  ++  L   + +  
Sbjct: 2  ISSRVKSKRIQLGLNQAELAQKVGTTQQSIEQLENGKTK-RPRFLPELASALGVSVDWLL 60

Query: 75 DVSPTV 80
          + +   
Sbjct: 61 NGTSDS 66


>gi|322384426|ref|ZP_08058110.1| transcriptional regulator-like protein [Paenibacillus larvae subsp.
           larvae B-3650]
 gi|321150734|gb|EFX44196.1| transcriptional regulator-like protein [Paenibacillus larvae subsp.
           larvae B-3650]
          Length = 151

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 42/92 (45%), Gaps = 1/92 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G+RIR RR +L ++Q ++ E L +        E G     +S LQ I+++L++   +
Sbjct: 1   MSIGERIRQRRKLLQITQLEIAEQLKMGRSNFGHIENGRVTPSSSDLQKIADILQTNADY 60

Query: 73  FFD-VSPTVCSDISSEENNVMDFISTPDGLQL 103
                        ++      ++ ++ D   L
Sbjct: 61  LLGRTDDPSPQGAAAGLKTYPEWATSKDKRDL 92


>gi|312879205|ref|ZP_07739005.1| transcriptional regulator, XRE family [Aminomonas paucivorans DSM
          12260]
 gi|310782496|gb|EFQ22894.1| transcriptional regulator, XRE family [Aminomonas paucivorans DSM
          12260]
          Length = 134

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 33/72 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RIR  R   G+ Q++L E +GI+   + + E+G        L+  S VL  P++   +
Sbjct: 5  GSRIREARKARGLEQKELAERMGISAAFLSRIERGERGCSLDLLRRASAVLGCPLAELAE 64

Query: 76 VSPTVCSDISSE 87
           +P        +
Sbjct: 65 ETPRPERQALED 76


>gi|326201808|ref|ZP_08191679.1| Cupin 2 conserved barrel domain protein [Clostridium
          papyrosolvens DSM 2782]
 gi|325988408|gb|EGD49233.1| Cupin 2 conserved barrel domain protein [Clostridium
          papyrosolvens DSM 2782]
          Length = 182

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 2/73 (2%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          DI V  RI+  R++ G ++E++ E LG+   Q + YE   + +  S L  ++E+ +  I+
Sbjct: 7  DIAV--RIKGLRLLAGSTEEEVAEQLGVMLAQYKSYENAEDDIPVSLLYELAEIYKVNIT 64

Query: 72 FFFDVSPTVCSDI 84
               +     DI
Sbjct: 65 EILTGTSPKLHDI 77


>gi|124009645|ref|ZP_01694317.1| DNA-binding protein [Microscilla marina ATCC 23134]
 gi|123984695|gb|EAY24680.1| DNA-binding protein [Microscilla marina ATCC 23134]
          Length = 85

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 31/70 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G+ + + R     SQ +L + +GIT   + +YE+   +        I+  LE  + +
Sbjct: 1  MSFGENVAVERKKKDFSQGELAKQVGITAVTIGRYERDEIKPSIDIATKIANALEVSLDY 60

Query: 73 FFDVSPTVCS 82
              S TV  
Sbjct: 61 LVGNSETVLD 70


>gi|56418607|ref|YP_145925.1| hypothetical protein GK0072 [Geobacillus kaustophilus HTA426]
 gi|261417572|ref|YP_003251254.1| XRE family transcriptional regulator [Geobacillus sp. Y412MC61]
 gi|297528447|ref|YP_003669722.1| XRE family transcriptional regulator [Geobacillus sp. C56-T3]
 gi|319765229|ref|YP_004130730.1| helix-turn-helix domain protein [Geobacillus sp. Y412MC52]
 gi|56378449|dbj|BAD74357.1| hypothetical conserved protein [Geobacillus kaustophilus HTA426]
 gi|261374029|gb|ACX76772.1| transcriptional regulator, XRE family [Geobacillus sp. Y412MC61]
 gi|297251699|gb|ADI25145.1| transcriptional regulator, XRE family [Geobacillus sp. C56-T3]
 gi|317110095|gb|ADU92587.1| helix-turn-helix domain protein [Geobacillus sp. Y412MC52]
          Length = 73

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/55 (32%), Positives = 30/55 (54%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE+L + LGI+   + + E+G      S +  I+E L   +
Sbjct: 7  GRRIRAFRKLKGYTQERLAKELGISVSILGEIERGNRMPSDSLVGQIAERLNISV 61


>gi|85702861|ref|ZP_01033965.1| DNA-binding protein, putative [Roseovarius sp. 217]
 gi|85671789|gb|EAQ26646.1| DNA-binding protein, putative [Roseovarius sp. 217]
          Length = 215

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/84 (15%), Positives = 35/84 (41%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R    ++  +L     ++   + K E G      + LQ ++  L  P+
Sbjct: 27  LEVAIGREVRAYRKKQNITVAELSNMTELSIGMLSKIENGNTSPSLTTLQTLARALSVPL 86

Query: 71  SFFFDVSPTVCSDISSEENNVMDF 94
           + FF         + ++    ++ 
Sbjct: 87  TAFFKEYEERREAVHTKAGQGVEI 110


>gi|330508079|ref|YP_004384507.1| hypothetical protein MCON_2169 [Methanosaeta concilii GP-6]
 gi|328928887|gb|AEB68689.1| conserved domain protein [Methanosaeta concilii GP-6]
          Length = 74

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 32/71 (45%), Gaps = 1/71 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFFFD 75
           R+R+ R I  ++QE+L + +G+T Q V   EKG           ++++    I   F  
Sbjct: 3  NRVRVYRAINDLTQEELAKKIGVTRQTVLAIEKGKYSPSLDLAFKMAKIFGVKIEEIFIY 62

Query: 76 VSPTVCSDISS 86
            P   +D+  
Sbjct: 63 EDPQEKNDVEG 73


>gi|324996098|gb|EGC28009.1| transcriptional regulator [Streptococcus sanguinis SK678]
          Length = 386

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 32/71 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R++  R+    S  ++ E L ++ Q V KYEKG        L+ + + L+ P  FFF 
Sbjct: 8  GARLKEARLFNKKSITQIAEFLNVSKQMVSKYEKGRATPSEESLEILEKKLKFPRDFFFG 67

Query: 76 VSPTVCSDISS 86
                S   +
Sbjct: 68 NDNFSLSSTGT 78


>gi|324994099|gb|EGC26013.1| transcriptional regulator [Streptococcus sanguinis SK678]
 gi|332366386|gb|EGJ44137.1| transcriptional regulator [Streptococcus sanguinis SK355]
          Length = 71

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R    MSQ +L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 2  NRVKEFRKEKKMSQLELAKSIGVSRQTINMIENNKYNPTLELCINLARALDTDLNALF 59


>gi|324991744|gb|EGC23676.1| transcriptional regulator [Streptococcus sanguinis SK353]
 gi|325686944|gb|EGD28968.1| transcriptional regulator [Streptococcus sanguinis SK72]
 gi|325688753|gb|EGD30762.1| transcriptional regulator [Streptococcus sanguinis SK115]
 gi|325697682|gb|EGD39567.1| transcriptional regulator [Streptococcus sanguinis SK160]
 gi|327459306|gb|EGF05652.1| transcriptional regulator [Streptococcus sanguinis SK1]
 gi|327462426|gb|EGF08751.1| transcriptional regulator [Streptococcus sanguinis SK1057]
 gi|332362960|gb|EGJ40749.1| transcriptional regulator [Streptococcus sanguinis SK49]
 gi|332364603|gb|EGJ42372.1| transcriptional regulator [Streptococcus sanguinis SK1059]
          Length = 71

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R    MSQ +L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 2  NRVKEFRKEKKMSQLELAKSIGVSRQTINMIENNKYNPTLELCINLARALDTDLNALF 59


>gi|297560849|ref|YP_003679823.1| XRE family transcriptional regulator [Nocardiopsis dassonvillei
          subsp. dassonvillei DSM 43111]
 gi|296845297|gb|ADH67317.1| transcriptional regulator, XRE family [Nocardiopsis dassonvillei
          subsp. dassonvillei DSM 43111]
          Length = 198

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 36/79 (45%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M+   +    +D  V +RIR  R+  G S E+L +   ++   + + E G  R+   +L 
Sbjct: 1  MMPMTQEDGELDGLVRRRIRALRVAQGWSLEELAKRAHLSQSSLSRIENGRRRLALDQLV 60

Query: 61 HISEVLESPISFFFDVSPT 79
           ++  L++ +    + +  
Sbjct: 61 TLARALDTTLDQLVETADD 79


>gi|289773956|ref|ZP_06533334.1| transcriptional regulator [Streptomyces lividans TK24]
 gi|289704155|gb|EFD71584.1| transcriptional regulator [Streptomyces lividans TK24]
          Length = 200

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 32/70 (45%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  V KRIR  R+  G S E+L     ++   + + E G  R+   +L  ++  L++ 
Sbjct: 10 DLDSLVRKRIRALRVAQGWSLEELAGRARLSQSSLSRIENGRRRLALDQLVTLARALDTT 69

Query: 70 ISFFFDVSPT 79
          +    + +  
Sbjct: 70 LDQLVETADE 79


>gi|282862576|ref|ZP_06271637.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
 gi|282562262|gb|EFB67803.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
          Length = 477

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 24/112 (21%), Positives = 44/112 (39%), Gaps = 9/112 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            ++R  R   GM+Q  +   LGI+     + E+    + AS L  I+EV     +FF + 
Sbjct: 14  AKLRRLRREHGMNQVDMARALGISTSYANQIEQSRRPLTASVLLRIAEVFGVDAAFFSEA 73

Query: 77  SP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                        ++E   +  I+  +  +  R     D   V + ++ L R
Sbjct: 74  DEDRLAADLRAAIADEACGVAPIAPDEISEAAR-----DHPDVARALVALHR 120


>gi|228962054|ref|ZP_04123549.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|228797628|gb|EEM44746.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pakistani str. T13001]
          Length = 125

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 33/81 (40%), Gaps = 1/81 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R    +S  +LGE LG+    V  +E          L  I++  +    +   
Sbjct: 9  GQRLKELRKNKKLSMRQLGEVLGVKQTNVSNWENVGTEPDYKTLIRIAQFFDVSTDYLI- 67

Query: 76 VSPTVCSDISSEENNVMDFIS 96
           +    +D  S+E   +  ++
Sbjct: 68 GNSVEFNDNESKEKREIALLA 88


>gi|229008902|ref|ZP_04166256.1| hypothetical protein bmyco0002_56320 [Bacillus mycoides Rock1-4]
 gi|228752339|gb|EEM02013.1| hypothetical protein bmyco0002_56320 [Bacillus mycoides Rock1-4]
          Length = 218

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 39/81 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK I+  R    +SQ++LGE  G++ + V  +EKG+       +Q I++      S 
Sbjct: 1  MSIGKNIKKLRDKHNLSQKELGEIAGVSDKAVSTWEKGLKEPRMGVIQKIADHFGILKSD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
            +   +  + I   +  + +
Sbjct: 61 IIEDQDSKVTHIRPNQPEIKN 81


>gi|116628615|ref|YP_821234.1| XRE family transcriptional regulator [Streptococcus thermophilus
          LMD-9]
 gi|116101892|gb|ABJ67038.1| Transcriptional regulator, xre family [Streptococcus thermophilus
          LMD-9]
          Length = 170

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEYLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74 FDVSPTVCSDIS-SEENNVMDFIS 96
          F  S  +  + S  E N   D +S
Sbjct: 67 FGTSKEIELEKSVLESNEYSDKVS 90


>gi|313899221|ref|ZP_07832739.1| cupin domain protein [Clostridium sp. HGF2]
 gi|312955982|gb|EFR37632.1| cupin domain protein [Clostridium sp. HGF2]
          Length = 177

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 37/81 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++IR  R    ++ E+L     +T   + + E+ +     S L+ I E L + ++ 
Sbjct: 1  MDIGQKIRQLRTQNNLTLEELASRSELTKGFLSQVERNLTSPSVSTLEDILEALGTDLAS 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  S         E+  V +
Sbjct: 61 FFKDSKENKVVFKKEDYFVDE 81


>gi|301061892|ref|ZP_07202622.1| cupin domain protein [delta proteobacterium NaphS2]
 gi|300443996|gb|EFK08031.1| cupin domain protein [delta proteobacterium NaphS2]
          Length = 182

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 28/121 (23%), Positives = 46/121 (38%), Gaps = 13/121 (10%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M G KK     D  +GKR+   R    ++ + LG   G+  + + + EKG      S + 
Sbjct: 1   MAGIKK-----DQPIGKRLMKLRKEKKLTLKHLGNETGLNPRFISRVEKGEVMPPVSVIL 55

Query: 61  HISEVLESPISFFFDVSPTVCSDISSE------ENNVMDFISTPDGLQL-NRYFIQIDDV 113
            +S  LE   S           + S+E      E+   + + TP+      + F    D 
Sbjct: 56  QLSRALEVDSSLLLLEEKKRAGEKSAEGYQKRTEDYSYETL-TPEARHKHLKAFKVFIDP 114

Query: 114 K 114
           K
Sbjct: 115 K 115


>gi|300917853|ref|ZP_07134492.1| helix-turn-helix protein [Escherichia coli MS 115-1]
 gi|300414950|gb|EFJ98260.1| helix-turn-helix protein [Escherichia coli MS 115-1]
          Length = 185

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 32/77 (41%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   + I  G+R++  R+  G+SQE   +  G     + + E+G +      ++ ++  L
Sbjct: 32  MKKSLRIQFGERVKELRIATGLSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLANAL 91

Query: 67  ESPISFFFDVSPTVCSD 83
                      P+  +D
Sbjct: 92  SVEPWQLLAPGPSEDND 108


>gi|295700360|ref|YP_003608253.1| XRE family transcriptional regulator [Burkholderia sp. CCGE1002]
 gi|295439573|gb|ADG18742.1| transcriptional regulator, XRE family [Burkholderia sp. CCGE1002]
          Length = 195

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/88 (17%), Positives = 36/88 (40%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  + +R++  R     S + L E   ++   +   E+G +   A+ L  ++  L  P
Sbjct: 2  DINALIARRVKALRDAQNWSLDALAERSKVSRSNISLIERGQSSPTATVLDKLATALNVP 61

Query: 70 ISFFFDVSPTVCSDISSEENNVMDFIST 97
          ++  F+   T  ++ S         + T
Sbjct: 62 LASLFEREGTPAAEPSPVSRAAEQPVWT 89


>gi|227500542|ref|ZP_03930593.1| DNA-binding protein [Anaerococcus tetradius ATCC 35098]
 gi|227217354|gb|EEI82684.1| DNA-binding protein [Anaerococcus tetradius ATCC 35098]
          Length = 367

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 30/68 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I  +R   G++QE+L E + +T   V K+E G +      L  ++      +    
Sbjct: 4  IGEIILQKRKERGITQEELAEFMMVTKASVSKWETGQSHPDILLLPKLATFFNISVDELI 63

Query: 75 DVSPTVCS 82
             P + S
Sbjct: 64 GYDPDLSS 71


>gi|49479791|ref|YP_035494.1| transcriptional regulator [Bacillus thuringiensis serovar
          konkukian str. 97-27]
 gi|49331347|gb|AAT61993.1| probable transcriptional regulator [Bacillus thuringiensis
          serovar konkukian str. 97-27]
          Length = 80

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R   G+SQEKL E LG++ Q +   EKG           I++  ++ I   F
Sbjct: 18 EYRKKFGLSQEKLAEKLGVSRQTIISIEKGKYDPSLPLAFEIAKTFQTTIEHVF 71


>gi|49081740|gb|AAT50270.1| PA5301 [synthetic construct]
          Length = 183

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 25/97 (25%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG R+R  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGARLRTIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLK---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  D+     + +  + + ++D  S    ++L 
Sbjct: 58  LVEFFSLDLEQDSHTQVVYKADELIDISSGAVSMRLV 94


>gi|75759042|ref|ZP_00739149.1| Transcriptional activator plcR [Bacillus thuringiensis serovar
          israelensis ATCC 35646]
 gi|218900476|ref|YP_002448887.1| putative transcriptional regulator PlcR [Bacillus cereus G9842]
 gi|228903829|ref|ZP_04067944.1| hypothetical protein bthur0014_49830 [Bacillus thuringiensis IBL
          4222]
 gi|228942497|ref|ZP_04105033.1| hypothetical protein bthur0008_51270 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|228968481|ref|ZP_04129469.1| hypothetical protein bthur0004_52560 [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|228975431|ref|ZP_04135986.1| hypothetical protein bthur0003_51760 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228982064|ref|ZP_04142356.1| hypothetical protein bthur0002_52210 [Bacillus thuringiensis
          Bt407]
 gi|1212805|emb|CAA63744.1| PlcR protein [Bacillus thuringiensis]
 gi|37650598|emb|CAE46796.1| PlcR protein [Bacillus thuringiensis]
 gi|37650604|emb|CAE46799.1| PlcR protein [Bacillus thuringiensis]
 gi|37650612|emb|CAE46897.1| transcriptional regulator [Bacillus thuringiensis]
 gi|37650616|emb|CAE46899.1| transcriptional regulator [Bacillus thuringiensis]
 gi|37650624|emb|CAE46903.1| transcriptional regulator [Bacillus thuringiensis]
 gi|74493441|gb|EAO56550.1| Transcriptional activator plcR [Bacillus thuringiensis serovar
          israelensis ATCC 35646]
 gi|218545337|gb|ACK97731.1| putative transcriptional regulator PlcR [Bacillus cereus G9842]
 gi|228777602|gb|EEM25877.1| hypothetical protein bthur0002_52210 [Bacillus thuringiensis
          Bt407]
 gi|228784225|gb|EEM32249.1| hypothetical protein bthur0003_51760 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228791187|gb|EEM38801.1| hypothetical protein bthur0004_52560 [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|228817180|gb|EEM63269.1| hypothetical protein bthur0008_51270 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|228855738|gb|EEN00283.1| hypothetical protein bthur0014_49830 [Bacillus thuringiensis IBL
          4222]
 gi|326943148|gb|AEA19044.1| transcriptional activator plcR [Bacillus thuringiensis serovar
          chinensis CT-43]
          Length = 285

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVLRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQIPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|326623794|gb|EGE30139.1| regulatory protein [Salmonella enterica subsp. enterica serovar
          Dublin str. 3246]
          Length = 231

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 36/90 (40%), Gaps = 6/90 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M   +L E +G+    + + E G  +      L  +++ L   I+
Sbjct: 1  MNIGNRVRQLRRAKNMKIAELAEAIGVDAANISRLETGKQKQFTEQTLSRLADCLGVDIA 60

Query: 72 FFFDVSPTVC-----SDISSEENNVMDFIS 96
            F            SD+  + +NV D   
Sbjct: 61 ELFTSDSKGNTVCKHSDMRKDSDNVKDLFR 90


>gi|319783030|ref|YP_004142506.1| cupin [Mesorhizobium ciceri biovar biserrulae WSM1271]
 gi|317168918|gb|ADV12456.1| Cupin 2 conserved barrel domain protein [Mesorhizobium ciceri
          biovar biserrulae WSM1271]
          Length = 187

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 32/65 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R   G++  ++G  LG +   V + E+G++      L+  +E+   PIS FF    
Sbjct: 13 IRALRKARGLTLAEIGLKLGRSVGWVSQVERGLSTPSLGDLRAFAELFGVPISLFFSHDV 72

Query: 79 TVCSD 83
           V S+
Sbjct: 73 PVESE 77


>gi|256790076|ref|ZP_05528507.1| transcriptional regulator [Streptomyces lividans TK24]
          Length = 197

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 32/70 (45%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  V KRIR  R+  G S E+L     ++   + + E G  R+   +L  ++  L++ 
Sbjct: 7  DLDSLVRKRIRALRVAQGWSLEELAGRARLSQSSLSRIENGRRRLALDQLVTLARALDTT 66

Query: 70 ISFFFDVSPT 79
          +    + +  
Sbjct: 67 LDQLVETADE 76


>gi|256848878|ref|ZP_05554312.1| predicted protein [Lactobacillus crispatus MV-1A-US]
 gi|256714417|gb|EEU29404.1| predicted protein [Lactobacillus crispatus MV-1A-US]
          Length = 68

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++++ R+  GMSQ  L + LG T   V  +E G +      +Q I++         F
Sbjct: 4  KLKILRVEKGMSQSDLAQALGTTQVTVSAWETGRSTPRPPMMQKIADYFGVSKDDIF 60


>gi|229100015|ref|ZP_04230935.1| Transcriptional regulator, XRE [Bacillus cereus Rock3-29]
 gi|228683443|gb|EEL37401.1| Transcriptional regulator, XRE [Bacillus cereus Rock3-29]
          Length = 66

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 27/63 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI + R   G +QE+L + +G++ Q +   EK            I+   E PI+  FD 
Sbjct: 4  NRIVVCRAEKGWTQEELAKRVGVSRQTIATLEKNKYNPSLILAFKIANEFEKPITDVFDY 63

Query: 77 SPT 79
             
Sbjct: 64 QEE 66


>gi|260587659|ref|ZP_05853572.1| putative helix-turn-helix protein [Blautia hansenii DSM 20583]
 gi|260541924|gb|EEX22493.1| putative helix-turn-helix protein [Blautia hansenii DSM 20583]
          Length = 205

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 32/61 (52%), Gaps = 3/61 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE---KGVNRVGASRLQHISEVLESPISFFF 74
            ++  RM  G +Q++L +  G++ + +Q YE   K +N+  A  L  +S++L   I    
Sbjct: 144 NLKRIRMTYGFTQKELADNSGVSLRSIQMYEQRHKNINKASAETLYRLSKILGCTIEDLM 203

Query: 75  D 75
           +
Sbjct: 204 E 204


>gi|255092294|ref|ZP_05321772.1| putative phage repressor [Clostridium difficile CIP 107932]
 gi|255100378|ref|ZP_05329355.1| putative phage repressor [Clostridium difficile QCD-63q42]
 gi|255306320|ref|ZP_05350491.1| putative phage repressor [Clostridium difficile ATCC 43255]
 gi|255649811|ref|ZP_05396713.1| putative phage repressor [Clostridium difficile QCD-37x79]
          Length = 118

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 30/58 (51%), Gaps = 2/58 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ-HISEVLESPISFF 73
          KR+R  R   G++Q +LGE +G++ + +  YE   NR     +   +++V    + + 
Sbjct: 4  KRLRELRKEFGLTQRELGEKVGVSQRVLGYYET-ENRFPDEHILNKLADVFNVSVDYL 60


>gi|170722460|ref|YP_001750148.1| XRE family transcriptional regulator [Pseudomonas putida W619]
 gi|169760463|gb|ACA73779.1| transcriptional regulator, XRE family [Pseudomonas putida W619]
          Length = 114

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 43/94 (45%), Gaps = 2/94 (2%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K P+P   ++G+++   R    ++Q K+GE L I+ + V + E+G   +  S+L  ++++
Sbjct: 4  KEPSPH--HIGRQLAAYRRACRLTQAKVGEYLKISGEAVSRLERGEVELSVSKLLKLADL 61

Query: 66 LESPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
             P             D   +  +++  +   D
Sbjct: 62 YGCPADELLLAISPRPQDQGQQITSIIKELGEAD 95


>gi|167756260|ref|ZP_02428387.1| hypothetical protein CLORAM_01791 [Clostridium ramosum DSM 1402]
 gi|167703668|gb|EDS18247.1| hypothetical protein CLORAM_01791 [Clostridium ramosum DSM 1402]
          Length = 71

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R  L M+Q+ L + +G++ Q +   EKG           I +VL   +   F
Sbjct: 6  RIKAARAALDMTQKDLADAVGVSRQTMNAIEKGDYNPTVKLCIKICKVLNKSLDELF 62


>gi|163745005|ref|ZP_02152365.1| transcriptional regulator, XRE family with cupin sensor domain
          [Oceanibulbus indolifex HEL-45]
 gi|161381823|gb|EDQ06232.1| transcriptional regulator, XRE family with cupin sensor domain
          [Oceanibulbus indolifex HEL-45]
          Length = 196

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 35/80 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R +R  L ++ ++LGE  G++   + + E+G+       L  I+  L+  + FF     
Sbjct: 1  MRKQRHRLSLTLQQLGEASGVSVGYLSQVERGLATPSLGTLSQIAVALQVEVGFFIHTPK 60

Query: 79 TVCSDISSEENNVMDFISTP 98
          T  S   ++E        + 
Sbjct: 61 TQDSLTRADERQRFAVSGSS 80


>gi|116331586|ref|YP_801304.1| transcriptional regulator [Leptospira borgpetersenii serovar
           Hardjo-bovis JB197]
 gi|116125275|gb|ABJ76546.1| Transcriptional regulator [Leptospira borgpetersenii serovar
           Hardjo-bovis JB197]
          Length = 204

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/84 (23%), Positives = 34/84 (40%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V + ++L R   G S +KL    G++   + + E+G +    S L  I+  L  P S   
Sbjct: 24  VKENLKLIRHTKGFSLDKLASRCGVSRAMLSQIEQGKSVPTISVLWKIANGLNVPFSELL 83

Query: 75  DVSPTVCSDISSEENNVMDFISTP 98
                    +   EN  + F S+ 
Sbjct: 84  KEKGAEGVIVMKAENTKVLFSSSK 107


>gi|50085608|ref|YP_047118.1| putative transcriptional regulator [Acinetobacter sp. ADP1]
 gi|49531584|emb|CAG69296.1| putative transcriptional regulator [Acinetobacter sp. ADP1]
          Length = 198

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/104 (18%), Positives = 39/104 (37%), Gaps = 8/104 (7%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +   K    ++  +G +I+  R   G+   ++ +  GI+   + K E          L  
Sbjct: 1   MRQTKNSVKLEQYIGIQIKRHRQEQGLKLSEVAQIAGISQGMLSKIENAQVSTSLETLSR 60

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           + +VL  P+S  F       S            + + DG+++ R
Sbjct: 61  LCDVLGIPMSTLFSQYDQQESHAM--------LVKSGDGMEVVR 96


>gi|300172999|ref|YP_003772165.1| Transcriptional activator [Leuconostoc gasicomitatum LMG 18811]
 gi|299887378|emb|CBL91346.1| Transcriptional activator [Leuconostoc gasicomitatum LMG 18811]
          Length = 275

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/97 (20%), Positives = 42/97 (43%), Gaps = 1/97 (1%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+ RR I  +SQ +LG  +G +   V + E G        +  I + L+  +  +F    
Sbjct: 10  IKERRKIKNISQSELGRIIG-SQAMVSRIENGQILPNLQTIHLICKTLDLTVEEYFYTYY 68

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
            + +D++   N++ +   + D   L + +  I    +
Sbjct: 69  KIGTDMTDFRNDLDEKYMSTDTTALEQQYSDIKATNM 105


>gi|227537772|ref|ZP_03967821.1| transcriptional regulator [Sphingobacterium spiritivorum ATCC
          33300]
 gi|300772451|ref|ZP_07082321.1| transcriptional regulator [Sphingobacterium spiritivorum ATCC
          33861]
 gi|227242386|gb|EEI92401.1| transcriptional regulator [Sphingobacterium spiritivorum ATCC
          33300]
 gi|300760754|gb|EFK57580.1| transcriptional regulator [Sphingobacterium spiritivorum ATCC
          33861]
          Length = 138

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 1/57 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++G +I   R ++G++Q+ L E +G+T Q V K E+  N V   RL+ ++  L   +
Sbjct: 15 HMGIKIGSARRLVGITQKDLAERMGVTKQAVSKLEQTEN-VDDERLEKVAIALGVSV 70


>gi|182683999|ref|YP_001835746.1| transcriptional regulator, putative [Streptococcus pneumoniae
          CGSP14]
 gi|182629333|gb|ACB90281.1| transcriptional regulator, putative [Streptococcus pneumoniae
          CGSP14]
          Length = 177

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 21 IGKNIKSLRKTHDLTQHEFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVS 75


>gi|169334539|ref|ZP_02861732.1| hypothetical protein ANASTE_00942 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169259256|gb|EDS73222.1| hypothetical protein ANASTE_00942 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 104

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 1/60 (1%)

Query: 11 VD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D   +GKR++  R   G++QEKL E + ++   +   E G  +     + +I+ VL   
Sbjct: 3  IDYRKLGKRLKEERKKQGVTQEKLAEYVNLSVSHLSHIENGNEKTSLQTIVNIANVLNVS 62


>gi|169342567|ref|ZP_02863620.1| helix-turn-helix domain protein [Clostridium perfringens C str.
           JGS1495]
 gi|169299339|gb|EDS81406.1| helix-turn-helix domain protein [Clostridium perfringens C str.
           JGS1495]
          Length = 112

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/97 (20%), Positives = 43/97 (44%), Gaps = 2/97 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R  L +SQ+  G  L ++   +   E+G  +     +  I    +   S+  + 
Sbjct: 3   NRLKELRKTLNLSQKDFGAKLKLSPDMISLLERGKRKFTERVISDICREFDVNRSWLENG 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
              +  DI +E +   +  +  D  ++ R ++Q+DDV
Sbjct: 63  EGDMFIDILAEIDEFNN--ADKDVQEMVRLYMQLDDV 97


>gi|153938184|ref|YP_001392454.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|152934080|gb|ABS39578.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|295320440|gb|ADG00818.1| DNA-binding protein [Clostridium botulinum F str. 230613]
          Length = 93

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R++  R    ++QE+LG+ L ++ Q V  YE  V     + L  +S++    + + 
Sbjct: 3  GDRLKELREEKELTQEELGKLLSVSRQTVSGYEAEVIEPNINNLVRLSDIFNVSLDYL 60


>gi|149189972|ref|ZP_01868250.1| hypothetical protein VSAK1_25545 [Vibrio shilonii AK1]
 gi|148836138|gb|EDL53097.1| hypothetical protein VSAK1_25545 [Vibrio shilonii AK1]
          Length = 155

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 25/80 (31%), Positives = 44/80 (55%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R+  G SQE+L E  G++ + +Q+ E+G  + G   L+ ++ V E+ I+       
Sbjct: 3  IRKLRLQRGWSQEQLAELSGLSIRTIQRIERG-QKPGLESLKSLAAVFETTITELQQEPK 61

Query: 79 -TVCSDISSEENNVMDFIST 97
           T   +I+ EE NV+D + +
Sbjct: 62 MTSKVEITQEEQNVIDQVRS 81


>gi|91787958|ref|YP_548910.1| XRE family transcriptional regulator [Polaromonas sp. JS666]
 gi|91697183|gb|ABE44012.1| transcriptional regulator, XRE family [Polaromonas sp. JS666]
          Length = 207

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 31/71 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + +R+R  R    +S + L    G++   +   E+G +   A  L+ ++  L  P++  F
Sbjct: 20 IAQRVRDLRAARSLSLDALATHCGVSRSMISLIERGESSPTAVLLEKLATGLNVPLASLF 79

Query: 75 DVSPTVCSDIS 85
          +        ++
Sbjct: 80 EAPQPTKDPVA 90


>gi|49081770|gb|AAT50285.1| PA0535 [synthetic construct]
          Length = 185

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 30/56 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R   G++ + L + +  +   V + E+G++R     L  IS+VL  P ++FF
Sbjct: 15 VRELRKRKGITLQALADGIRRSVGLVSQVERGLSRPAVDDLVAISQVLGVPATYFF 70


>gi|23006264|ref|ZP_00048663.1| COG0766: UDP-N-acetylglucosamine enolpyruvyl transferase
          [Magnetospirillum magnetotacticum MS-1]
          Length = 216

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 27/57 (47%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VG  IR  R   G++Q +L E LG +   V + E+G   +    L  I   L+S I
Sbjct: 11 QVGALIRGARQNRGLTQTQLAERLGTSQSAVHRIEQGSQNLSLEMLNRIGLALDSEI 67


>gi|317501285|ref|ZP_07959488.1| xre family Toxin-antitoxin system [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|316897249|gb|EFV19317.1| xre family Toxin-antitoxin system [Lachnospiraceae bacterium
          8_1_57FAA]
          Length = 209

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R + RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   I 
Sbjct: 8  KLIGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ ++ 
Sbjct: 68 WLKGETDEYETDITDKKE 85


>gi|312134839|ref|YP_004002177.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
          owensensis OL]
 gi|311774890|gb|ADQ04377.1| helix-turn-helix domain protein [Caldicellulosiruptor owensensis
          OL]
          Length = 84

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 32/61 (52%), Gaps = 1/61 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FFFDV 76
          R++  R +  + Q+++ E L I+ Q+  +YE G  ++       I+++L   +   F+D 
Sbjct: 2  RLKEIRKMKNLKQKEVAEKLQISPQRYCQYENGKRKIPIDIAIKIAQILNMSMDEIFYDK 61

Query: 77 S 77
          S
Sbjct: 62 S 62


>gi|302669238|ref|YP_003832388.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
 gi|302396902|gb|ADL35806.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
          Length = 359

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 30/73 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G +I+  R     +Q++L   LGIT Q V ++E          +  I+      I  
Sbjct: 3  IMLGDKIKELRKRDRRTQDELATALGITNQAVSRWEANKAYPDMEMIPAIANYFHVSIDE 62

Query: 73 FFDVSPTVCSDIS 85
           F  +    S +S
Sbjct: 63 LFGYNNDRESTLS 75


>gi|300691862|ref|YP_003752857.1| hypothetical protein RPSI07_2218 [Ralstonia solanacearum PSI07]
 gi|299078922|emb|CBM10198.1| conserved protein of unknown function [Ralstonia solanacearum
          PSI07]
          Length = 182

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 1/68 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R   G + E L E  G+T   + K E+G++    +    ++  L  P    F   
Sbjct: 4  RLKPLRKDRGWTLEVLAERTGLTKSYLSKVERGLSVPSIAVAMKLARALGVPAEDLF-GE 62

Query: 78 PTVCSDIS 85
          P   S I+
Sbjct: 63 PAAASAIT 70


>gi|295090423|emb|CBK76530.1| Predicted transcriptional regulators [Clostridium cf.
          saccharolyticum K10]
          Length = 171

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 33/55 (60%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G+SQE+L   L +  Q V K+EKG++   ++ L  +++ L++ +S
Sbjct: 4  ENIKNLRKAKGLSQEELSVKLNVVRQTVSKWEKGLSVPDSNMLISLADELDTSVS 58


>gi|293568751|ref|ZP_06680065.1| putative transcriptional regulator [Enterococcus faecium E1071]
 gi|291588468|gb|EFF20302.1| putative transcriptional regulator [Enterococcus faecium E1071]
          Length = 410

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 36/67 (53%), Gaps = 4/67 (5%)

Query: 9  NPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          N V+ + +G+ IR+ R   G +Q  L E +GI+   + K EKG  ++   +L  I + L+
Sbjct: 2  NQVNQHDLGESIRVSREERGWTQRYLAEKVGISRSLLSKVEKGTRQLSEEKLNLILDSLQ 61

Query: 68 ---SPIS 71
              P++
Sbjct: 62 EELVPVN 68


>gi|269967853|ref|ZP_06181897.1| hypothetical protein VMC_33270 [Vibrio alginolyticus 40B]
 gi|269827558|gb|EEZ81848.1| hypothetical protein VMC_33270 [Vibrio alginolyticus 40B]
          Length = 112

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R++  R    +SQ+ LG  +G+       ++ +YE+  +      L+ I++ L  P+++
Sbjct: 9  ARLKHARKQANLSQKALGIRIGMDDSSASARMNQYERERHTPDVKTLKLIADELNVPLNY 68

Query: 73 FF 74
          FF
Sbjct: 69 FF 70


>gi|225378528|ref|ZP_03755749.1| hypothetical protein ROSEINA2194_04196 [Roseburia inulinivorans DSM
           16841]
 gi|225209631|gb|EEG91985.1| hypothetical protein ROSEINA2194_04196 [Roseburia inulinivorans DSM
           16841]
          Length = 131

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 37/86 (43%), Gaps = 1/86 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
              GKR+   R   G++QE+L   LG+ + Q V + E G        L  +S +L     
Sbjct: 41  KEFGKRLHDVRTSRGITQEELAVRLGLASKQHVSRMENGERSCSIDLLIELSCILHVSTD 100

Query: 72  FFFDVSPTVCSDISSEENNVMDFIST 97
           +    S      + ++  +++  +ST
Sbjct: 101 YLLMGSEPSKEKVKNDLLSIISELST 126


>gi|126741323|ref|ZP_01757000.1| DNA-binding protein, putative [Roseobacter sp. SK209-2-6]
 gi|126717579|gb|EBA14304.1| DNA-binding protein, putative [Roseobacter sp. SK209-2-6]
          Length = 189

 Score = 54.0 bits (129), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 29/69 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R   G++   +   L  +   + + E+ ++    S L+ IS  L  P+S  F
Sbjct: 11 LGADIRALRKARGLTLTDIAGMLDRSVGWLSQVERDLSEPSISDLRQISNCLGVPMSMLF 70

Query: 75 DVSPTVCSD 83
            S     +
Sbjct: 71 AHSGAPAEE 79


>gi|325688546|gb|EGD30563.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK72]
          Length = 170

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74 FDVSPTVCSDIS-SEENNVMDFIS 96
          F  S  +  + S  E N   D +S
Sbjct: 67 FGTSKEIELEKSVLESNEYSDKVS 90


>gi|297171001|gb|ADI22016.1| predicted transcriptional regulators [uncultured myxobacterium
           HF0200_01L06]
          Length = 265

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 24/105 (22%), Positives = 44/105 (41%), Gaps = 5/105 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI---S 71
           +G+ +R  R   G++Q  L +  GI+ + +   E G        +  ++ VLE P    S
Sbjct: 5   IGELLRYWRDKRGLTQFDLADRSGISCRHLSFVETGRAGPSRQTILTLARVLEIPSIERS 64

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDG-LQLNRYFIQ-IDDVK 114
               ++      +  EE  V  ++++ +G L  N  F   I D  
Sbjct: 65  RILILAGYAVDWLGPEEEAVEWWLTSLEGALAANEPFPAWITDPN 109


>gi|317508458|ref|ZP_07966127.1| hypothetical protein HMPREF9336_02499 [Segniliparus rugosus ATCC
           BAA-974]
 gi|316253236|gb|EFV12637.1| hypothetical protein HMPREF9336_02499 [Segniliparus rugosus ATCC
           BAA-974]
          Length = 486

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 24/95 (25%), Positives = 38/95 (40%), Gaps = 12/95 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG R+R  R+  G+SQ  L   L I+   + + E  V  +    L  +SE L     FF
Sbjct: 20  YVGPRLRQLRVERGLSQVALAADLAISPSYLNQIEHDVRPITMPLLLRLSEKLGVDTEFF 79

Query: 74  F------------DVSPTVCSDISSEENNVMDFIS 96
                        +V+     DI +   +V + +S
Sbjct: 80  TAQEEARLVAEIREVAMDTGVDIDTSPESVAEVVS 114


>gi|307292240|ref|ZP_07572104.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|306496746|gb|EFM66299.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
          Length = 270

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 11 VDIN-VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEV 65
          +D   VG RIR  R  L +S EK G+ +G +    V  +E+G+N      L  I+E+
Sbjct: 3  IDKQAVGNRIRQIRQELKLSMEKFGKLIGDLPRSTVNNWERGINLPKTETLHQIAEI 59


>gi|291563698|emb|CBL42514.1| Predicted transcriptional regulators [butyrate-producing
          bacterium SS3/4]
          Length = 189

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 35/70 (50%), Gaps = 3/70 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFF- 74
           R+  RR  LG++ E +G+ +G+T   V+K+E G +  +   ++  +++ L     +   
Sbjct: 3  NRLYERRKELGLTLEDVGKIVGVTKSTVKKWESGYIENMRRDKIALLAKALNVSPLYIMG 62

Query: 75 -DVSPTVCSD 83
           D  P   +D
Sbjct: 63 IDAGPDQVND 72


>gi|258515442|ref|YP_003191664.1| hypothetical protein Dtox_2224 [Desulfotomaculum acetoxidans DSM
          771]
 gi|257779147|gb|ACV63041.1| protein of unknown function DUF955 [Desulfotomaculum acetoxidans
          DSM 771]
          Length = 399

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/63 (30%), Positives = 29/63 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  RM  G +  +L +   I+ Q +  YE G N+     +  IS  L  P  FF  
Sbjct: 9  GERLKSARMYNGYTLTELSKITNISKQSLSLYENGNNKPEWDNISKISVALGFPRDFFLQ 68

Query: 76 VSP 78
           S 
Sbjct: 69 ESD 71


>gi|296138750|ref|YP_003645993.1| XRE family transcriptional regulator [Tsukamurella paurometabola
           DSM 20162]
 gi|296026884|gb|ADG77654.1| transcriptional regulator, XRE family [Tsukamurella paurometabola
           DSM 20162]
          Length = 191

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 20/116 (17%), Positives = 40/116 (34%), Gaps = 8/116 (6%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
            +  +PV   VG R+R  R    ++   + E  GI+   + + E G  +     L  ++ 
Sbjct: 2   TETTDPVLAQVGPRLRAIRQERDITLTAVAEATGISVSTLSRLEGGTRKPTLELLLPLAR 61

Query: 65  VLESPISFFFDVSPTVCS-----DISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
               P+    D   T         +   +  ++       GL   R F ++   + 
Sbjct: 62  TYGLPLDELVDAPETGDPRVRLKPVRHGDRTIVPLTRRAGGL---RTFKEVIRPRP 114


>gi|237731126|ref|ZP_04561607.1| P22 repressor protein c2 [Citrobacter sp. 30_2]
 gi|226906665|gb|EEH92583.1| P22 repressor protein c2 [Citrobacter sp. 30_2]
          Length = 208

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 32/58 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          VG+RI+  R +   SQ++LG+  G++   V  +EK +N  G   L  +++   + I +
Sbjct: 4  VGQRIKALRRVTKTSQKELGKFCGVSDVAVGYWEKDINVPGGESLSKLAKYFNTSIDY 61


>gi|226322393|ref|ZP_03797911.1| hypothetical protein COPCOM_00161 [Coprococcus comes ATCC 27758]
 gi|225209193|gb|EEG91547.1| hypothetical protein COPCOM_00161 [Coprococcus comes ATCC 27758]
          Length = 109

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 31/74 (41%)

Query: 20 RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPT 79
          +  RM    +Q ++ + LGI+   V  YE G        L+ I++     +++    S T
Sbjct: 9  KNLRMQNHYTQGQMADLLGISRSAVSMYETGNREPDLETLEKIAKFFNVDMNYLLGSSVT 68

Query: 80 VCSDISSEENNVMD 93
          V SD        ++
Sbjct: 69 VTSDNPEPSYEDIE 82


>gi|225018551|ref|ZP_03707743.1| hypothetical protein CLOSTMETH_02500 [Clostridium methylpentosum
           DSM 5476]
 gi|224948683|gb|EEG29892.1| hypothetical protein CLOSTMETH_02500 [Clostridium methylpentosum
           DSM 5476]
          Length = 118

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/109 (16%), Positives = 43/109 (39%), Gaps = 3/109 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            I+  R  L ++Q   GE LG++   V   E G        ++ I         +  +  
Sbjct: 6   NIKQLRKQLELTQTAFGERLGVSRNVVNNLELGRVDPSDLVIKSICREFNVNSLWLLEGK 65

Query: 78  PTVCSDISSE--ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
             + S  + +  ++   ++      + L R ++ + D   R+ I++ ++
Sbjct: 66  GEMFSGYADDLIQSVAEEYNLNNFDVDLIRAYLDL-DKDSRRVIMDFIK 113


>gi|153811705|ref|ZP_01964373.1| hypothetical protein RUMOBE_02098 [Ruminococcus obeum ATCC 29174]
 gi|149832108|gb|EDM87193.1| hypothetical protein RUMOBE_02098 [Ruminococcus obeum ATCC 29174]
 gi|291540232|emb|CBL13343.1| Helix-turn-helix [Roseburia intestinalis XB6B4]
          Length = 152

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/76 (17%), Positives = 38/76 (50%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
          +  G+++R  R    MSQ++L   +G++++ ++ +E        + L   +++ L+  +S
Sbjct: 14 MTFGEKVRSLRKEKKMSQQELASMVGVSYRTIRSWEVEGRFPKQNVLYQKLADALQCDVS 73

Query: 72 FFFDVSPTVCSDISSE 87
          +    +    ++ S +
Sbjct: 74 YLMSENEAFITEASEQ 89


>gi|153815957|ref|ZP_01968625.1| hypothetical protein RUMTOR_02202 [Ruminococcus torques ATCC
          27756]
 gi|317500717|ref|ZP_07958935.1| hypothetical protein HMPREF1026_00878 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|331089807|ref|ZP_08338700.1| hypothetical protein HMPREF1025_02283 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|145846776|gb|EDK23694.1| hypothetical protein RUMTOR_02202 [Ruminococcus torques ATCC
          27756]
 gi|316897911|gb|EFV19964.1| hypothetical protein HMPREF1026_00878 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|330403504|gb|EGG83062.1| hypothetical protein HMPREF1025_02283 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 106

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 12/75 (16%), Positives = 29/75 (38%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G++++  R+   ++QE +     +    +   E    +V  S L  I   L++ + + 
Sbjct: 8  QIGEKLKKIRLSKNLTQEYIANAADVNTSHISNIENNRVKVSLSVLVQICNALDTTVDYI 67

Query: 74 FDVSPTVCSDISSEE 88
                  S    +E
Sbjct: 68 LSDEYNDSSSAIEQE 82


>gi|291543305|emb|CBL16414.1| Helix-turn-helix [Ruminococcus sp. 18P13]
          Length = 215

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 3/62 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG---ASRLQHISEVLESPISFF 73
             ++  R   G+SQ +L E  GI  + +Q YE+ VN +    A  L  +S VL   I   
Sbjct: 150 SNLKRIRESRGLSQSELAEQSGIKVRNIQMYEQRVNNIDKAQAQTLYKLSRVLGCDIEDL 209

Query: 74  FD 75
            +
Sbjct: 210 LE 211


>gi|281491219|ref|YP_003353199.1| Cro/CI family transcriptional regulator [Lactococcus lactis
          subsp. lactis KF147]
 gi|281374960|gb|ADA64478.1| Transcriptional regulator, Cro/CI family [Lactococcus lactis
          subsp. lactis KF147]
          Length = 104

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/82 (15%), Positives = 33/82 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G +++  R    ++Q++L + + +  + V  YE+G        L  I + L     + 
Sbjct: 5  YLGDKLKASRKSKNLTQKELADKINVKTRTVASYEQGSAYPSIEVLGKICDTLGISSDYL 64

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
            +S     ++    ++ M   
Sbjct: 65 LGISDKTPLEMGGLTDDQMQLF 86


>gi|260161768|emb|CAZ39312.1| hypothetical protein [Streptococcus suis]
 gi|313575350|emb|CBR26879.1| hypothetical protein [Streptococcus phage phi-SsUD.1]
          Length = 80

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R+R RR    +S  ++   L I       +E G  +     L  ++ +L+ P+++F
Sbjct: 4  GLRLRERREKQNLSHVEIANILEINRSSYNSWESGRAKPNQKNLTALAAILDVPVTYF 61


>gi|239942469|ref|ZP_04694406.1| XRE family transcriptional regulator [Streptomyces roseosporus
          NRRL 15998]
 gi|239988933|ref|ZP_04709597.1| XRE family transcriptional regulator [Streptomyces roseosporus
          NRRL 11379]
 gi|291445925|ref|ZP_06585315.1| transcriptional regulator [Streptomyces roseosporus NRRL 15998]
 gi|291348872|gb|EFE75776.1| transcriptional regulator [Streptomyces roseosporus NRRL 15998]
          Length = 486

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 28/61 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++R  R   GM+Q  +   LGI+     + E G   + AS L  I++V      FF + 
Sbjct: 14 SKLRRLRRERGMNQVDMARALGISASYANQIELGQRPLTASVLLQIAKVFGVDAEFFSEA 73

Query: 77 S 77
          +
Sbjct: 74 A 74


>gi|238921821|ref|YP_002935335.1| hypothetical protein EUBELI_20054 [Eubacterium eligens ATCC
          27750]
 gi|238873493|gb|ACR73201.1| Hypothetical protein EUBELI_20054 [Eubacterium eligens ATCC
          27750]
          Length = 154

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R    M+ ++L    GI    ++KYE         +L+ I+  L+  +  F D+  
Sbjct: 18 IRKYREARKMTMKQLSIKSGIKLSTIKKYETDNRNPKLEQLEKIAAALDVSVFEFLDIEV 77

Query: 79 TVCSDISS 86
             SDI S
Sbjct: 78 KSISDIIS 85


>gi|169350485|ref|ZP_02867423.1| hypothetical protein CLOSPI_01253 [Clostridium spiroforme DSM
          1552]
 gi|169292805|gb|EDS74938.1| hypothetical protein CLOSPI_01253 [Clostridium spiroforme DSM
          1552]
          Length = 117

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ I   R   G+SQE+LG  + +T Q +  +E         +L+ +S+V +  +  
Sbjct: 1  MTLGENILKLRKKQGLSQEQLGYQIDVTRQTISNWESEDTAPNPEQLKRLSKVFDISVDE 60

Query: 73 FFD 75
            D
Sbjct: 61 LLD 63


>gi|167840953|ref|ZP_02467637.1| transcriptional regulator, XRE family with cupin sensor domain
           [Burkholderia thailandensis MSMB43]
          Length = 191

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/98 (16%), Positives = 38/98 (38%), Gaps = 6/98 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++R  R  LG++ ++     G++   + + E+G      + L  I+  L   + +F 
Sbjct: 15  IGNKMRALRQRLGLTLDEAAAAAGLSKPFLSQVERGRATPSITSLVGIARALGVTMQYFV 74

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
           D      S   +E        ++         F ++ +
Sbjct: 75  DAPTEARSVCRNEALRYFSLANS------TNAFARLTN 106


>gi|160285873|pdb|2QFC|A Chain A, Crystal Structure Of Bacillus Thuringiensis Plcr
          Complexed With Papr
 gi|160285874|pdb|2QFC|B Chain B, Crystal Structure Of Bacillus Thuringiensis Plcr
          Complexed With Papr
          Length = 293

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R++ G++Q++L E +     +V + E G        LQ I+  L+ PI  F+
Sbjct: 6  LGSEIKKIRVLRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQIPIIHFY 64

Query: 75 DV 76
          +V
Sbjct: 65 EV 66


>gi|159036440|ref|YP_001535693.1| XRE family transcriptional regulator [Salinispora arenicola
          CNS-205]
 gi|157915275|gb|ABV96702.1| transcriptional regulator, XRE family [Salinispora arenicola
          CNS-205]
          Length = 394

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 23/87 (26%), Positives = 37/87 (42%), Gaps = 5/87 (5%)

Query: 10 PVDINVGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLE 67
          P D  VG RIR  R+  G MSQ  L    G++   + + E G   +   S L  I+  L+
Sbjct: 2  PTDT-VGSRIRYWRIRRGGMSQTVLAGLAGLSQPYISQVESGHRSIDRRSTLIAIAAALQ 60

Query: 68 SPISFFFD--VSPTVCSDISSEENNVM 92
            ++   D    PT  + + + +    
Sbjct: 61 VTVADLLDQPGDPTDPALLGAADAVPA 87


>gi|254250154|ref|ZP_04943474.1| hypothetical protein BCPG_05038 [Burkholderia cenocepacia PC184]
 gi|124876655|gb|EAY66645.1| hypothetical protein BCPG_05038 [Burkholderia cenocepacia PC184]
          Length = 242

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 23/108 (21%), Positives = 44/108 (40%), Gaps = 14/108 (12%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR  R    ++   L E +G +   + + E+G++R   + L  I E L  P ++F+ +S 
Sbjct: 71  IRDLRKHRKVTLNDLAERIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLSK 130

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD----VKVRQKIIEL 122
                        + +++ PD  +   Y   I D      +R +   L
Sbjct: 131 PRS----------VPWVTRPDERRTVYYAAGITDILVSPNMRSRFSIL 168


>gi|121609979|ref|YP_997786.1| XRE family transcriptional regulator [Verminephrobacter eiseniae
          EF01-2]
 gi|121554619|gb|ABM58768.1| transcriptional regulator, XRE family [Verminephrobacter eiseniae
          EF01-2]
          Length = 208

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 27/60 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  IR  R+  G++  ++ E  GI+   + K E G    G   L  I+  L   +S  F
Sbjct: 24 VGAAIRELRLREGLTIAQVSEQAGISRGMLSKIETGSTMAGLDTLARIARTLGVAMSALF 83


>gi|313114704|ref|ZP_07800206.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii
          KLE1255]
 gi|310622929|gb|EFQ06382.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii
          KLE1255]
          Length = 231

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 32/71 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+L R   G++Q++  E LG++   +  YEKG+   G   +  +++       +    S 
Sbjct: 7  IKLLRKERGITQKQAAEDLGVSQALLSHYEKGIRECGLDFVVRVADYYNVSCDYLLGRSA 66

Query: 79 TVCSDISSEEN 89
               + S E+
Sbjct: 67 ERNGMMLSAED 77


>gi|304397398|ref|ZP_07379276.1| transcriptional regulator, XRE family [Pantoea sp. aB]
 gi|304355016|gb|EFM19385.1| transcriptional regulator, XRE family [Pantoea sp. aB]
          Length = 185

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 25/111 (22%), Positives = 49/111 (44%), Gaps = 7/111 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G+R+   R  LG+SQ ++ E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9   GRRLAQIRQTLGLSQRRVAEQAGLTHSAISTIEQDKVSPAVSTLQKLLKVYGLSLSEFFS 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +  P     +     ++++  S    L+L      ID+   ++ +  L+ +
Sbjct: 69  EPKPDAEPKVIVRPGDLVEIGSQGVSLKL------IDNGGAQRSLGMLLET 113


>gi|260426928|ref|ZP_05780907.1| transcriptional regulator, XRE family with cupin sensor
          [Citreicella sp. SE45]
 gi|260421420|gb|EEX14671.1| transcriptional regulator, XRE family with cupin sensor
          [Citreicella sp. SE45]
          Length = 189

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/75 (17%), Positives = 34/75 (45%), Gaps = 3/75 (4%)

Query: 9  NPVDINVGK---RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +  D  +G+   R++  R   G+S + + +  G++   V + E+G +    + L +++  
Sbjct: 4  HDADAVLGRIPGRLKDARQAKGLSLDAVAKLSGVSRSMVSQIERGESNPTVATLWNLTRA 63

Query: 66 LESPISFFFDVSPTV 80
          L+   +   D+    
Sbjct: 64 LQVDFAGLLDLGAPA 78


>gi|238754555|ref|ZP_04615909.1| Helix-turn-helix domain protein [Yersinia ruckeri ATCC 29473]
 gi|238707186|gb|EEP99549.1| Helix-turn-helix domain protein [Yersinia ruckeri ATCC 29473]
          Length = 166

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 28/62 (45%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   + I  G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++  L
Sbjct: 13 MKKSLRIQFGERVKELRIATGMSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLANAL 72

Query: 67 ES 68
            
Sbjct: 73 SV 74


>gi|227508341|ref|ZP_03938390.1| transcription regulator [Lactobacillus brevis subsp. gravesensis
          ATCC 27305]
 gi|227192159|gb|EEI72226.1| transcription regulator [Lactobacillus brevis subsp. gravesensis
          ATCC 27305]
          Length = 237

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/73 (19%), Positives = 31/73 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K+I+  R    ++Q++L E + ++ + +  +E G N      +  +SE+ E  I    
Sbjct: 26 LSKKIKQYRKEKNLTQKQLAEKMFVSRKLISNWENGRNFPDFRAMIRLSEIFEIKIDDLL 85

Query: 75 DVSPTVCSDISSE 87
               V      +
Sbjct: 86 KNDNKVIEHFDDQ 98


>gi|255280273|ref|ZP_05344828.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
 gi|255269364|gb|EET62569.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
          Length = 421

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 25/106 (23%), Positives = 41/106 (38%), Gaps = 15/106 (14%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           + NKK         G  +  RR  LGM+Q++    L +T   V K+E+G++    + ++ 
Sbjct: 8   MENKKT-------FGAFVLRRRKELGMTQKEFAARLYVTESAVSKWERGMSYPDITLIRS 60

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
           I  VLE         S       S +             L+L R +
Sbjct: 61  ICSVLEVSEHELLTGSEDTEKRTSEKLAEKY--------LRLTRNY 98


>gi|219855742|ref|YP_002472864.1| hypothetical protein CKR_2399 [Clostridium kluyveri NBRC 12016]
 gi|219569466|dbj|BAH07450.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 448

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 43/91 (47%), Gaps = 1/91 (1%)

Query: 3  GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          G +K  +   +++G++I+ RR  L M+ + L     IT  Q+   E G +      L+++
Sbjct: 8  GQRKREHMEILSLGEKIKRRRKELNMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYL 66

Query: 63 SEVLESPISFFFDVSPTVCSDISSEENNVMD 93
          +  L++ I +  +   T    I +   N+ +
Sbjct: 67 AFELKTSIEYLMESEETQAEKICTYFENIAE 97


>gi|160945036|ref|ZP_02092262.1| hypothetical protein FAEPRAM212_02551 [Faecalibacterium
          prausnitzii M21/2]
 gi|158442767|gb|EDP19772.1| hypothetical protein FAEPRAM212_02551 [Faecalibacterium
          prausnitzii M21/2]
 gi|295104555|emb|CBL02099.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii SL3/3]
          Length = 231

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 32/71 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+L R   G++Q++  E LG++   +  YEKG+   G   +  +++       +    S 
Sbjct: 7  IKLLRKERGITQKQAAEDLGVSQALLSHYEKGIRECGLDFVVRVADYYNVSCDYLLGRSA 66

Query: 79 TVCSDISSEEN 89
               + S E+
Sbjct: 67 ERNGMMLSAED 77


>gi|157149688|ref|YP_001449888.1| transcription regulator [Streptococcus gordonii str. Challis
          substr. CH1]
 gi|157074482|gb|ABV09165.1| transcription regulator [Streptococcus gordonii str. Challis
          substr. CH1]
          Length = 71

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 28/67 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    MSQ +L + +G++ Q +   E            ++++ L++ ++  F  
Sbjct: 2  NRVKEFRKEKKMSQLELAKSIGVSRQTINMIENNKYNPTLELCINLAKTLDTDLNALFWD 61

Query: 77 SPTVCSD 83
                D
Sbjct: 62 PQLTDED 68


>gi|160884331|ref|ZP_02065334.1| hypothetical protein BACOVA_02309 [Bacteroides ovatus ATCC 8483]
 gi|255691648|ref|ZP_05415323.1| transcriptional regulator, Cro/CI family [Bacteroides finegoldii
          DSM 17565]
 gi|156110070|gb|EDO11815.1| hypothetical protein BACOVA_02309 [Bacteroides ovatus ATCC 8483]
 gi|260622719|gb|EEX45590.1| transcriptional regulator, Cro/CI family [Bacteroides finegoldii
          DSM 17565]
          Length = 94

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 32/73 (43%), Gaps = 2/73 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  I+L R    +SQ++L    GI+   +   E G      S +  I   L+ P S+
Sbjct: 1  MDIGNAIKLLRKRKDISQKELSNLCGISANALCSIESGGTFPSKSTIAKICNALKIPESY 60

Query: 73 --FFDVSPTVCSD 83
             F +S     +
Sbjct: 61 LLLFSISEEDIPE 73


>gi|149277999|ref|ZP_01884138.1| hypothetical protein PBAL39_24955 [Pedobacter sp. BAL39]
 gi|149231197|gb|EDM36577.1| hypothetical protein PBAL39_24955 [Pedobacter sp. BAL39]
          Length = 108

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 28/55 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK IR  R   G SQ ++ + L I+     K E G+  +  SRL+ I+ + +  
Sbjct: 4  IGKNIRQLRQKNGWSQGEVAKRLNISIPAFSKIETGITDINISRLEQIAHLFQVS 58


>gi|42518979|ref|NP_964909.1| hypothetical protein LJ1054 [Lactobacillus johnsonii NCC 533]
 gi|41583266|gb|AAS08875.1| hypothetical protein LJ_1054 [Lactobacillus johnsonii NCC 533]
          Length = 392

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 21/104 (20%), Positives = 43/104 (41%), Gaps = 17/104 (16%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G++++  R + G S+  L + L +T Q + +YE          ++ + ++    +S FF+
Sbjct: 4   GEKLKQLRELQGFSRNDLAKKLSLTEQTIGQYENNQITPRLDIMEKLLQIFHVDLS-FFN 62

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
               V  ++ SEE+                   +  D   R+KI
Sbjct: 63  TPSFVEKNVISEESIA----------------YRTKDRNSRKKI 90


>gi|15902995|ref|NP_358545.1| transcriptional regulator [Streptococcus pneumoniae R6]
 gi|15458561|gb|AAK99755.1| Hypothetical protein spr0951 [Streptococcus pneumoniae R6]
          Length = 177

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 21 IGKNIKSLRKTHDLTQPEFARIIGISRNSLSRYENGTSSVSTELIDIICQKFNVS 75


>gi|89074743|ref|ZP_01161201.1| Hypothetical transcriptional regulator [Photobacterium sp. SKA34]
 gi|89049507|gb|EAR55068.1| Hypothetical transcriptional regulator [Photobacterium sp. SKA34]
          Length = 130

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 29/69 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ ++IR  R   G++Q  + + LG+  Q     E G        L +I+++    + +
Sbjct: 21 AHIAQKIREAREWKGITQVSMAKQLGVARQTYLDLESGKTEPRVLMLMNIAKITGRSLHW 80

Query: 73 FFDVSPTVC 81
          F     T  
Sbjct: 81 FISDDNTPE 89


>gi|300172401|ref|YP_003771566.1| ABC transporter ATP-binding protein [Leuconostoc gasicomitatum
          LMG 18811]
 gi|299886779|emb|CBL90747.1| ABC transporter, ATP-binding protein [Leuconostoc gasicomitatum
          LMG 18811]
          Length = 296

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 31/66 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++ L R  + +SQ+ L + L ++ Q V K+E G       +L  ++E+L   ++F    
Sbjct: 7  SQLCLLRQKMSLSQDALAQKLYVSRQSVSKWEHGDAEPDIDKLISLAEILAVDLNFLLSG 66

Query: 77 SPTVCS 82
            +   
Sbjct: 67 QQSNEE 72


>gi|288935233|ref|YP_003439292.1| XRE family transcriptional regulator [Klebsiella variicola At-22]
 gi|288889942|gb|ADC58260.1| transcriptional regulator, XRE family [Klebsiella variicola
          At-22]
          Length = 189

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/88 (19%), Positives = 36/88 (40%), Gaps = 2/88 (2%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +  ++   ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P 
Sbjct: 3  IAQHLAATLKTLRQQRGWSLSRLAEETGVSKAMLGQIERNESSPTVATLWKIATGLNVPF 62

Query: 71 SFFFDVSPTVCSDISSEENNVMDFISTP 98
          S F  + P   +  S+ +      + TP
Sbjct: 63 SAF--IVPDASAAPSAFDPQQQAMVVTP 88


>gi|257879451|ref|ZP_05659104.1| conserved hypothetical protein [Enterococcus faecium 1,230,933]
 gi|323142576|ref|ZP_08077392.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
 gi|332655057|ref|ZP_08420798.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
 gi|257813679|gb|EEV42437.1| conserved hypothetical protein [Enterococcus faecium 1,230,933]
 gi|322413009|gb|EFY03912.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
 gi|332515917|gb|EGJ45526.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
          Length = 149

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 41/81 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G++I+  R+ + +SQ +L +  GI+ + +  YE+       S ++ ++E L   +S+
Sbjct: 1  MTFGEKIKEARLAMNLSQTELAQMTGISERSLYTYEQLGTLPRKSNIRKLAEALHISVSY 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
            D S T       ++  +++
Sbjct: 61 LLDESETDSQSHIDQDMFILE 81


>gi|256854918|ref|ZP_05560282.1| predicted protein [Enterococcus faecalis T8]
 gi|307290768|ref|ZP_07570666.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|256710478|gb|EEU25522.1| predicted protein [Enterococcus faecalis T8]
 gi|306498188|gb|EFM67707.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|315028649|gb|EFT40581.1| helix-turn-helix protein [Enterococcus faecalis TX4000]
          Length = 257

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 29/60 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++ RR+    +QE++ + L +T Q V K+E G +      L  +S++    I      SP
Sbjct: 7  LKTRRINNHYTQEQIAQKLHVTTQAVSKWETGQSIPSIDNLLMLSDLYNVSIDELIQGSP 66


>gi|256617991|ref|ZP_05474837.1| conserved hypothetical protein [Enterococcus faecalis ATCC 4200]
 gi|257091482|ref|ZP_05585843.1| predicted protein [Enterococcus faecalis CH188]
 gi|312905563|ref|ZP_07764677.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|256597518|gb|EEU16694.1| conserved hypothetical protein [Enterococcus faecalis ATCC 4200]
 gi|257000294|gb|EEU86814.1| predicted protein [Enterococcus faecalis CH188]
 gi|310631292|gb|EFQ14575.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|315576531|gb|EFU88722.1| helix-turn-helix protein [Enterococcus faecalis TX0630]
          Length = 257

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 29/60 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++ RR+    +QE++ + L +T Q V K+E G +      L  +S++    I      SP
Sbjct: 7  LKTRRINNHYTQEQIAQKLHVTTQAVSKWETGQSIPSIDNLLMLSDLYNVSIDELIQGSP 66


>gi|237734898|ref|ZP_04565379.1| transcriptional regulator [Mollicutes bacterium D7]
 gi|229382226|gb|EEO32317.1| transcriptional regulator [Coprobacillus sp. D7]
          Length = 71

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R  L M+Q+ L + +G++ Q +   EKG           I +VL   +   F
Sbjct: 6  RIKAARAALDMTQKDLADAVGVSRQTMNAIEKGDYNPTVKLCIKICKVLNKSLDELF 62


>gi|227111558|ref|ZP_03825214.1| regulator of pectin lyase production [Pectobacterium carotovorum
          subsp. brasiliensis PBR1692]
          Length = 244

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 32/66 (48%), Gaps = 1/66 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R   G+SQ+ LG+ +G++   +QK E G      +++  +S  L     +  + 
Sbjct: 7  ERLKTARTAQGLSQKALGDMIGVSQAAIQKIEVGKAS-QTTKIVELSNSLHVRPEWLANG 65

Query: 77 SPTVCS 82
             + S
Sbjct: 66 EGPMRS 71


>gi|206580811|ref|YP_002238246.1| DNA-binding protein [Klebsiella pneumoniae 342]
 gi|290509290|ref|ZP_06548661.1| HTH-type transcriptional regulator ydcN [Klebsiella sp. 1_1_55]
 gi|206569869|gb|ACI11645.1| DNA-binding protein [Klebsiella pneumoniae 342]
 gi|289778684|gb|EFD86681.1| HTH-type transcriptional regulator ydcN [Klebsiella sp. 1_1_55]
          Length = 189

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/88 (19%), Positives = 36/88 (40%), Gaps = 2/88 (2%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +  ++   ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P 
Sbjct: 3  IAQHLAATLKTLRQQRGWSLSRLAEETGVSKAMLGQIERNESSPTVATLWKIATGLNVPF 62

Query: 71 SFFFDVSPTVCSDISSEENNVMDFISTP 98
          S F  + P   +  S+ +      + TP
Sbjct: 63 SAF--IVPDASAAPSAFDPQQQAMVVTP 88


>gi|169350968|ref|ZP_02867906.1| hypothetical protein CLOSPI_01745 [Clostridium spiroforme DSM 1552]
 gi|169292030|gb|EDS74163.1| hypothetical protein CLOSPI_01745 [Clostridium spiroforme DSM 1552]
          Length = 335

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 39/101 (38%), Gaps = 4/101 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +  +I   R   G SQE+L + L +T Q + K+E   +     ++  +SE+     
Sbjct: 13  MNVILADKIIELRKKNGWSQEQLAQKLNVTRQSISKWEGEQSVPDLQKIILLSEIFGVTT 72

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
            +           +    N  +D       L   + F+ I 
Sbjct: 73  DYLIKDEIEEEEFL----NEDVDLKVRKVTLTEAKEFLNIK 109


>gi|164687400|ref|ZP_02211428.1| hypothetical protein CLOBAR_01041 [Clostridium bartlettii DSM
          16795]
 gi|164603174|gb|EDQ96639.1| hypothetical protein CLOBAR_01041 [Clostridium bartlettii DSM
          16795]
          Length = 179

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +I+  RM   ++QE+L     ++   + + E  +     + L  I E+L + +  
Sbjct: 1  MDIGSKIKSMRMEKQLTQEELANRCELSKGFISQLENNLTSPSIATLIDILEILGTNLRE 60

Query: 73 FF-DVSPTVCS 82
          FF ++ P   +
Sbjct: 61 FFNEIDPERIT 71


>gi|152970487|ref|YP_001335596.1| putative regulator [Klebsiella pneumoniae subsp. pneumoniae MGH
          78578]
 gi|238894976|ref|YP_002919710.1| putative regulator [Klebsiella pneumoniae NTUH-K2044]
 gi|262044571|ref|ZP_06017627.1| DNA-binding protein [Klebsiella pneumoniae subsp.
          rhinoscleromatis ATCC 13884]
 gi|330003723|ref|ZP_08304741.1| DNA-binding helix-turn-helix protein [Klebsiella sp. MS 92-3]
 gi|150955336|gb|ABR77366.1| putative regulator [Klebsiella pneumoniae subsp. pneumoniae MGH
          78578]
 gi|238547292|dbj|BAH63643.1| putative regulator [Klebsiella pneumoniae subsp. pneumoniae
          NTUH-K2044]
 gi|259038115|gb|EEW39330.1| DNA-binding protein [Klebsiella pneumoniae subsp.
          rhinoscleromatis ATCC 13884]
 gi|328536860|gb|EGF63164.1| DNA-binding helix-turn-helix protein [Klebsiella sp. MS 92-3]
          Length = 189

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/88 (19%), Positives = 36/88 (40%), Gaps = 2/88 (2%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +  ++   ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P 
Sbjct: 3  IAQHLAATLKTLRQQRGWSLSRLAEETGVSKAMLGQIERNESSPTVATLWKIATGLNVPF 62

Query: 71 SFFFDVSPTVCSDISSEENNVMDFISTP 98
          S F  + P   +  S+ +      + TP
Sbjct: 63 SAF--IVPDASAAPSAFDPQQQAMVVTP 88


>gi|153952986|ref|YP_001393751.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219853643|ref|YP_002470765.1| hypothetical protein CKR_0300 [Clostridium kluyveri NBRC 12016]
 gi|146345867|gb|EDK32403.1| Transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219567367|dbj|BAH05351.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 368

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 37/89 (41%), Gaps = 6/89 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+ I   R    ++QE+LG+ +G++   V K+E G +    + L  ++      I  
Sbjct: 4   LQIGEVILKLRKKREITQEQLGKFIGVSTAAVSKWEVGNSYPDITLLPVLASFFNISI-- 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
                  +   I   E  VM+     + +
Sbjct: 62  ----DELLNYKIELSEKEVMEIFRECEAM 86


>gi|104782559|ref|YP_609057.1| Cro/CI family transcriptional regulator [Pseudomonas entomophila
          L48]
 gi|95111546|emb|CAK16266.1| putative transcriptional regulator, Cro/CI family [Pseudomonas
          entomophila L48]
          Length = 177

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 26/55 (47%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +V + +R  R   G+SQ  L E  G++ + +   E G   V  + L  I+E L  
Sbjct: 4  HVSQNVRRLRSDAGLSQAALSERSGVSRRMLVAIEAGEKNVSLTTLDLIAEALGV 58


>gi|330836178|ref|YP_004410819.1| helix-turn-helix domain-containing protein [Spirochaeta coccoides
          DSM 17374]
 gi|329748081|gb|AEC01437.1| helix-turn-helix domain protein [Spirochaeta coccoides DSM 17374]
          Length = 99

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 2/56 (3%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE--VLESPISF 72
          +   R    ++Q +L E +G++   + K EKG  R+  SRLQ ++    ++  I+F
Sbjct: 41 LSEIRKAQNLTQAELAEKVGLSQTDISKIEKGKKRITISRLQELANGMGMDVHITF 96


>gi|322378166|ref|ZP_08052651.1| toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. M334]
 gi|321280896|gb|EFX57911.1| toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. M334]
          Length = 110

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 10/77 (12%), Positives = 33/77 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R    ++Q+ +   L I+    Q++E G  ++    ++ +++       +    
Sbjct: 4  ERLKKLRKEGKLTQKDIAAFLNISQPAYQQFESGKKKMNLETMKKLADFFNVSTDYLLGK 63

Query: 77 SPTVCSDISSEENNVMD 93
          +     D+  + +  +D
Sbjct: 64 TDFPDLDLEVDIDTAID 80


>gi|318061096|ref|ZP_07979817.1| putative transcriptional regulator [Streptomyces sp. SA3_actG]
          Length = 243

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 32/71 (45%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +D  V KR+R  R+  G S E+L     ++   + + E G  R+    L  ++  L++
Sbjct: 6  DDLDSLVRKRVRALRVAQGWSLEELARRANLSQSTLSRIENGQRRLALDSLVTLARALDT 65

Query: 69 PISFFFDVSPT 79
           +    + +  
Sbjct: 66 SLDQLVETASD 76


>gi|315222885|ref|ZP_07864765.1| helix-turn-helix protein [Streptococcus anginosus F0211]
 gi|315188024|gb|EFU21759.1| helix-turn-helix protein [Streptococcus anginosus F0211]
          Length = 116

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 24/64 (37%), Positives = 35/64 (54%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +GKRIRL R+  GM+QE+L E   +    V K E     V  + L+ + + LE  I  F
Sbjct: 15 YIGKRIRLLRLERGMTQEQLEERADLGTNYVYKLEHLAPNVKINTLERVMQALEVDIETF 74

Query: 74 FDVS 77
          FD++
Sbjct: 75 FDMA 78


>gi|312868567|ref|ZP_07728762.1| DNA-binding helix-turn-helix protein [Lactobacillus oris
          PB013-T2-3]
 gi|311095864|gb|EFQ54113.1| DNA-binding helix-turn-helix protein [Lactobacillus oris
          PB013-T2-3]
          Length = 204

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 31/65 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I+ +R  LG++Q  +   L +T Q +  +E+G +    S L  +SEV +  +       
Sbjct: 6  QIKQQRQQLGLTQADVASQLFVTRQTISNWEQGKSYPDLSMLVKLSEVYQVSLDSLLKGD 65

Query: 78 PTVCS 82
            + +
Sbjct: 66 AQLKN 70


>gi|308177557|ref|YP_003916963.1| helix-turn-helix domain-containing protein [Arthrobacter
          arilaitensis Re117]
 gi|307745020|emb|CBT75992.1| helix-turn-helix domain-containing protein [Arthrobacter
          arilaitensis Re117]
          Length = 191

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 29/61 (47%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VD  + +RIR  R  LG S E L     ++   + + E G  R+   +L  I++ L + +
Sbjct: 7  VDQVIRQRIRNLRQNLGWSLESLASKASMSVSTLSRIETGSRRIALDQLIPIAKALNTSL 66

Query: 71 S 71
           
Sbjct: 67 D 67


>gi|297160623|gb|ADI10335.1| helix-turn-helix domain-containing protein [Streptomyces
          bingchenggensis BCW-1]
          Length = 80

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 28/65 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           V  R+ + R    +S++ L E +G+ +Q +   E+G           I++    P+   
Sbjct: 4  QVHNRLAMVRAERKVSRQSLAESVGVHYQTIGYIERGQYNPSLDLALKIAKFFGLPVEAL 63

Query: 74 FDVSP 78
          F + P
Sbjct: 64 FSLEP 68


>gi|251778373|ref|ZP_04821293.1| transcriptional regulator, Cro/CI family [Clostridium botulinum E1
           str. 'BoNT E Beluga']
 gi|243082688|gb|EES48578.1| transcriptional regulator, Cro/CI family [Clostridium botulinum E1
           str. 'BoNT E Beluga']
          Length = 160

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 25/110 (22%), Positives = 51/110 (46%), Gaps = 13/110 (11%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFFFDVS 77
           IR RR  L ++ E+LG+ +G+    V+K+E G+   + +  +  +++ L    S      
Sbjct: 7   IRKRREELDLTYEQLGKIVGVGKSTVRKWETGIIGNLRSDSILALAKGLNLSPSTLMGW- 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD---VKVRQKIIELVR 124
                   +EE N  DF  T +   L  ++ +++D    +  +++ EL  
Sbjct: 66  --------TEEENTYDFNLTKEETNLLEHYNKLNDLGKKEANKRVAELTE 107


>gi|229495100|ref|ZP_04388846.1| DNA-binding protein [Rhodococcus erythropolis SK121]
 gi|229318031|gb|EEN83906.1| DNA-binding protein [Rhodococcus erythropolis SK121]
          Length = 196

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 1/76 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DVS 77
          +R  R   G++ E L E  G+T   + K E+G++    +    I+ VL++ +   F D  
Sbjct: 5  LRTHRRRAGLTLEGLAEQTGLTKSYLSKVERGISTPSIAVALKIARVLDADVGQLFSDSM 64

Query: 78 PTVCSDISSEENNVMD 93
                I   ++ V+D
Sbjct: 65 EGNAMTIVRAKDRVID 80


>gi|291327181|ref|ZP_06127260.2| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291311305|gb|EFE51758.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 118

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 32/51 (62%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R   G+S  +LG+ +G++ QQ+ +YE+ V+R+    L ++   L+ P+S F
Sbjct: 40 RRNKGLSGSELGKKIGVSQQQISRYERNVSRLDFGSLIYLLHHLDMPLSDF 90


>gi|160879054|ref|YP_001558022.1| XRE family transcriptional regulator [Clostridium phytofermentans
          ISDg]
 gi|160427720|gb|ABX41283.1| transcriptional regulator, XRE family [Clostridium
          phytofermentans ISDg]
          Length = 179

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 31/62 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R+   ++QE+L +   ++   + + E+ +     + L  I + L + +  
Sbjct: 1  MKIGAKIKELRVQKSLTQEELADRAELSKGFISQLERDITSPSIATLVDILQCLGTNLEA 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|24215594|ref|NP_713075.1| transcriptional regulator [Leptospira interrogans serovar Lai str.
           56601]
 gi|45657038|ref|YP_001124.1| transcriptional regulator [Leptospira interrogans serovar
           Copenhageni str. Fiocruz L1-130]
 gi|24196747|gb|AAN50093.1| transcriptional regulator [Leptospira interrogans serovar Lai str.
           56601]
 gi|45600275|gb|AAS69761.1| transcriptional regulator [Leptospira interrogans serovar
           Copenhageni str. Fiocruz L1-130]
          Length = 203

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 35/84 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V + ++L R   G S +KL    G++   + + E+G +    S L  I+  L  P S   
Sbjct: 23  VKENLKLIRHTKGFSLDKLASRCGVSRAMLSQIEQGKSVPTISVLWKIANGLNVPFSELL 82

Query: 75  DVSPTVCSDISSEENNVMDFISTP 98
               T    +   EN  + F S+ 
Sbjct: 83  KEKGTEGVIVMKAENTKVLFSSSK 106


>gi|330847157|gb|AEC46565.1| hypothetical transcriptional repressor [Xanthomonas alfalfae
          subsp. citrumelonis]
          Length = 116

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 33/62 (53%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R+  G+SQ++LG   G    +   ++ +YE+G +       + +++ L  P +F
Sbjct: 21 RRLKQARLHTGLSQKELGIRAGLDPHVASPRINQYERGKHEPKLETAERLAQALGIPAAF 80

Query: 73 FF 74
           +
Sbjct: 81 LY 82


>gi|320539287|ref|ZP_08038957.1| hypothetical protein SSYM_1010 [Serratia symbiotica str. Tucson]
 gi|320030679|gb|EFW12688.1| hypothetical protein SSYM_1010 [Serratia symbiotica str. Tucson]
          Length = 91

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 37/77 (48%), Gaps = 4/77 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+  G+SQE+LG   GI       ++ +YE+G++         ++ VL  P  +F
Sbjct: 5  RLKAARLKAGLSQERLGILAGIDEATASARMNQYERGIHTPDFELASRLASVLHVPACYF 64

Query: 74 FDVSPTVCSDISSEENN 90
          + V   +   I    ++
Sbjct: 65 YAVEDDLAETILGYSDS 81


>gi|256849649|ref|ZP_05555081.1| transcriptional regulator [Lactobacillus crispatus MV-1A-US]
 gi|256713765|gb|EEU28754.1| transcriptional regulator [Lactobacillus crispatus MV-1A-US]
          Length = 187

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 27/112 (24%), Positives = 51/112 (45%), Gaps = 13/112 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G  +R  R  LG++Q+++ +   IT     K EKG NR+    L  I +     +S+
Sbjct: 1   MDIGTALRHLRDDLGLTQKQMIQGTKITVSHYSKLEKGQNRIFIENLVEILKQRNISLSY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI---QIDDVKVRQKIIE 121
           F D    +  + S +E N  +         LN  F    +I   +++++I  
Sbjct: 61  FVDHY--LNDENSEKEVNYSEI--------LNIAFYEKDKIAAEEIKRQIFS 102


>gi|256827543|ref|YP_003151502.1| putative transcriptional regulator [Cryptobacterium curtum DSM
          15641]
 gi|256583686|gb|ACU94820.1| predicted transcriptional regulator [Cryptobacterium curtum DSM
          15641]
          Length = 197

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 32/81 (39%), Gaps = 2/81 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS- 71
          I + KR+   R   G+SQE++   + ++ Q V K+E          L  ++ +    +  
Sbjct: 3  IEIAKRLYEYRRAAGLSQEQVAAKIDVSRQAVSKWECAEASPDTDNLIALALLYGITVDE 62

Query: 72 -FFFDVSPTVCSDISSEENNV 91
            F D    +     S+   V
Sbjct: 63 LLFADPEKAIGEAPVSKAAGV 83


>gi|238060397|ref|ZP_04605106.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
           39149]
 gi|237882208|gb|EEP71036.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
           39149]
          Length = 408

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 21/113 (18%), Positives = 45/113 (39%), Gaps = 8/113 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPISFF 73
           +G+R+   R    +SQ+   + LG +   V K E+GV R+   S L  I+ +L+  +   
Sbjct: 6   IGRRVAYWRGRRKLSQQVFADRLGKSKSWVDKVERGVRRLDKFSVLYEIAYILQVDVQLL 65

Query: 74  FDVSPTVCSDISS--EENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKI 119
               P   +D  +  ++  V +  +  +       +            +R+ +
Sbjct: 66  LGKDPERRTDALNCIDQVEVQEIRAALERYDSMSAYFDAAPYPPPLADMRKAV 118


>gi|255101457|ref|ZP_05330434.1| putative transcriptional regulator [Clostridium difficile
          QCD-63q42]
 gi|255307330|ref|ZP_05351501.1| putative transcriptional regulator [Clostridium difficile ATCC
          43255]
          Length = 66

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++  R +  ++QE+L E +G+  + + + E G           IS+++++PI   F
Sbjct: 7  NLKKYRQLKELTQEQLAEKVGVRRETIMRLEAGKYNPSLKLAIDISKIVDTPIDELF 63


>gi|224823652|ref|ZP_03696761.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
 gi|224604107|gb|EEG10281.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
          Length = 132

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 36/88 (40%), Gaps = 3/88 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R   G SQ  L +  GI+   V   E+G +    ++L  I+  L+   ++  
Sbjct: 22  LGTRIKAERERRGWSQAALAQRAGISQTTVADLERGTS-AATTKLIPIARALKVNPNWLE 80

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQ 102
                  +  S +   V     TP+ L 
Sbjct: 81  TGQGPRDTIPSGDGRYVCA--DTPEELA 106


>gi|218281915|ref|ZP_03488247.1| hypothetical protein EUBIFOR_00815 [Eubacterium biforme DSM 3989]
 gi|218217058|gb|EEC90596.1| hypothetical protein EUBIFOR_00815 [Eubacterium biforme DSM 3989]
          Length = 152

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 39/79 (49%), Gaps = 1/79 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
          +  G+++R  R    MSQ++L   +G++++ ++ +E        + L   +++ L+  +S
Sbjct: 14 MTFGEKVRSLRKEKKMSQQELASMVGVSYRTIRSWEVEGRFPKQNVLYQKLADALQCDVS 73

Query: 72 FFFDVSPTVCSDISSEENN 90
          +    +    ++ S +  N
Sbjct: 74 YLMSENEAFITEASEQFGN 92


>gi|157690974|ref|YP_001485436.1| transcriptional regulator [Bacillus pumilus SAFR-032]
 gi|157679732|gb|ABV60876.1| transcriptional regulator [Bacillus pumilus SAFR-032]
          Length = 71

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 26/62 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +  RI++ R     +Q+ L E LG+T Q V   E G   +       I+   E  +  
Sbjct: 1  MEIKNRIKVLRAERDWTQKDLAEKLGVTRQTVAAIENGKYSLSLKLAFQIARTFEVDLYD 60

Query: 73 FF 74
           F
Sbjct: 61 VF 62


>gi|160884700|ref|ZP_02065703.1| hypothetical protein BACOVA_02689 [Bacteroides ovatus ATCC 8483]
 gi|237717098|ref|ZP_04547579.1| conserved hypothetical protein [Bacteroides sp. D1]
 gi|237721923|ref|ZP_04552404.1| conserved hypothetical protein [Bacteroides sp. 2_2_4]
 gi|262405867|ref|ZP_06082417.1| conserved hypothetical protein [Bacteroides sp. 2_1_22]
 gi|294647828|ref|ZP_06725380.1| DNA-binding protein [Bacteroides ovatus SD CC 2a]
 gi|294806223|ref|ZP_06765070.1| DNA-binding protein [Bacteroides xylanisolvens SD CC 1b]
 gi|156109735|gb|EDO11480.1| hypothetical protein BACOVA_02689 [Bacteroides ovatus ATCC 8483]
 gi|229443081|gb|EEO48872.1| conserved hypothetical protein [Bacteroides sp. D1]
 gi|229448792|gb|EEO54583.1| conserved hypothetical protein [Bacteroides sp. 2_2_4]
 gi|262356742|gb|EEZ05832.1| conserved hypothetical protein [Bacteroides sp. 2_1_22]
 gi|292636736|gb|EFF55202.1| DNA-binding protein [Bacteroides ovatus SD CC 2a]
 gi|294446479|gb|EFG15099.1| DNA-binding protein [Bacteroides xylanisolvens SD CC 1b]
 gi|295085704|emb|CBK67227.1| Helix-turn-helix. [Bacteroides xylanisolvens XB1A]
          Length = 131

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 35/69 (50%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   +   VG R+++ RM   ++QE++GE L ++     K E G   +  +RL  I+EVL
Sbjct: 1  METDLKKIVGHRLQMLRMEKNLTQEQMGEKLNLSTSAYCKIEYGETDLTLTRLNKIAEVL 60

Query: 67 ESPISFFFD 75
                 F+
Sbjct: 61 NMSALELFN 69


>gi|330985511|gb|EGH83614.1| AraC family transcriptional regulator [Pseudomonas syringae pv.
          lachrymans str. M301315]
          Length = 225

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 25/55 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R+   R   G++Q +LG   G+ +  + KYE G +      L  +++ L     
Sbjct: 7  ERLAHLRAEKGLTQRELGAAAGVAWSMISKYESGKSAPRLKVLMKLADALGVSAD 61


>gi|312961727|ref|ZP_07776225.1| transcriptional regulator, XRE family with cupin sensor domain
           [Pseudomonas fluorescens WH6]
 gi|311283986|gb|EFQ62569.1| transcriptional regulator, XRE family with cupin sensor domain
           [Pseudomonas fluorescens WH6]
          Length = 191

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 34/93 (36%), Gaps = 1/93 (1%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +V + +R  R    +SQ  L E  G++ + +   E G   V  S L  ++E LE   S  
Sbjct: 18  HVSQNVRRLRHAADLSQTALSEKSGVSRRMLVAIEAGEKNVSLSTLDRVAEALEVAFSDL 77

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                       +E     +   +   + L + 
Sbjct: 78  IQAPDAPDHSRINELAWAGEIPGSK-AVLLAKA 109


>gi|302063488|ref|ZP_07255029.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
          tomato K40]
          Length = 129

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G R+R  R   G +Q++L E +G     + +YE+GV       L  +   L+   +
Sbjct: 17 AFIGVRVRAFRKAHGFNQDQLAELVGCEKMTISRYERGVGTPNLDHLVKLCVALKISPA 75


>gi|301066067|ref|YP_003788090.1| transcriptional regulator [Lactobacillus casei str. Zhang]
 gi|300438474|gb|ADK18240.1| transcriptional regulator [Lactobacillus casei str. Zhang]
          Length = 187

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 25/137 (18%), Positives = 52/137 (37%), Gaps = 11/137 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RI+  R   G +  +L +  G+    +  YE+G     A  L+ ++++ E+  ++   +
Sbjct: 3   NRIKAFRYEKGWTLSQLAKKAGMPITTLSNYERGTRTPSAEVLKKLADIFETNTAYLMGL 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ-LNRYFIQI----------DDVKVRQKIIELVRS 125
           +      +++     + F    +  Q L    + I          D   +   I+    S
Sbjct: 63  TDAPAETLTNSNLKNIKFEVRSEAFQRLANIVLSIGSEYGGNIDEDSENIVSHILRFYIS 122

Query: 126 IVSSEKKYRTIEEECMV 142
              SE  +  IEE  +V
Sbjct: 123 SSRSEHLHENIEELQIV 139


>gi|295102882|emb|CBL00427.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii L2-6]
          Length = 233

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 32/71 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+L R   G++Q++  E LG++   +  YEKG+   G   +  +++       +    S 
Sbjct: 7  IKLLRKERGITQKQAAEDLGVSQALLSHYEKGIRECGLDFVVRVADYYNVSCDYLLGRSA 66

Query: 79 TVCSDISSEEN 89
               + S E+
Sbjct: 67 ERNGMMLSAED 77


>gi|269968531|ref|ZP_06182537.1| hypothetical protein VMC_39670 [Vibrio alginolyticus 40B]
 gi|269826866|gb|EEZ81194.1| hypothetical protein VMC_39670 [Vibrio alginolyticus 40B]
          Length = 210

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 37/81 (45%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + ++  V  RI+  R  L +S + L +  GI+   + + EKG      S L  +S  L  
Sbjct: 26  DFINQAVAARIKEHRKRLKLSLDALSKRAGISKGMLVEVEKGAANPSISTLCKLSAALGI 85

Query: 69  PISFFFDVSPTVCSDISSEEN 89
            ++   +V+     +I  +E+
Sbjct: 86  SVADIVNVASNPTVNIIDKED 106


>gi|269124932|ref|YP_003298302.1| XRE family transcriptional regulator [Thermomonospora curvata DSM
           43183]
 gi|268309890|gb|ACY96264.1| transcriptional regulator, XRE family [Thermomonospora curvata DSM
           43183]
          Length = 383

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 26/107 (24%), Positives = 47/107 (43%), Gaps = 2/107 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLESPIS 71
             +G+ I  RRM LGMSQ  L   +G +   V + E+GV++V   S L  ++  L   ++
Sbjct: 6   RRIGENIVRRRMRLGMSQSVLAGLIGRSESWVSQVERGVHKVDRLSVLVTLARALNVEVA 65

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV-KVRQ 117
              +  P V      +   +     + +     R    +DD  ++R+
Sbjct: 66  DLVNEIPIVKQGNGPDLEGLQRLRRSLEIPDALRDDEIVDDPARLRR 112


>gi|255975390|ref|ZP_05425976.1| prophage Lp1 protein 8 [Enterococcus faecalis T2]
 gi|255968262|gb|EET98884.1| prophage Lp1 protein 8 [Enterococcus faecalis T2]
          Length = 125

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 25/56 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +I+  R    ++Q+++ + LGIT      YE G  +     LQ ++ +      F 
Sbjct: 5  KIKELRNEKKLTQQEVADYLGITRPAYTAYESGKRQPDFETLQKLATLFNVTTDFL 60


>gi|229160333|ref|ZP_04288331.1| HTH-type transcriptional regulator sinR [Bacillus cereus R309803]
 gi|228623057|gb|EEK79885.1| HTH-type transcriptional regulator sinR [Bacillus cereus R309803]
          Length = 107

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
               T  +++ SE
Sbjct: 62 LHDETTKEANLDSE 75


>gi|227499743|ref|ZP_03929843.1| helix-turn-helix motif:protein of hypothetical function DUF955
          [Anaerococcus tetradius ATCC 35098]
 gi|227218210|gb|EEI83473.1| helix-turn-helix motif:protein of hypothetical function DUF955
          [Anaerococcus tetradius ATCC 35098]
          Length = 388

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 33/71 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G++++  R    M+  +LG+ + ++ Q +  YE          +  +S+VL+ P ++F  
Sbjct: 7  GEKLKTARTYRSMTLAELGKLIDLSKQTLSLYENNKGNPDFETIIKLSKVLKFPTNYFTQ 66

Query: 76 VSPTVCSDISS 86
           S       S+
Sbjct: 67 ESNNNIKSGST 77


>gi|225374970|ref|ZP_03752191.1| hypothetical protein ROSEINA2194_00593 [Roseburia inulinivorans
          DSM 16841]
 gi|225213184|gb|EEG95538.1| hypothetical protein ROSEINA2194_00593 [Roseburia inulinivorans
          DSM 16841]
          Length = 85

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 22/56 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           RIR  R    MSQE LG  +  T Q V K EK    +    L  ++        +
Sbjct: 4  NRIRELRRSHNMSQEALGTIINTTQQAVSKMEKDTCAISTDLLISMARYFNVTTDY 59


>gi|168758877|ref|ZP_02783884.1| I C protein [Escherichia coli O157:H7 str. EC4401]
 gi|168771404|ref|ZP_02796411.1| DNA binding protein [Escherichia coli O157:H7 str. EC4486]
 gi|189354385|gb|EDU72804.1| I C protein [Escherichia coli O157:H7 str. EC4401]
 gi|189359820|gb|EDU78239.1| DNA binding protein [Escherichia coli O157:H7 str. EC4486]
          Length = 112

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 31/70 (44%), Gaps = 4/70 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R     SQEKL + + I    +  ++  YE G        +Q +++VL+ P  +
Sbjct: 4  KRLKEAREAANFSQEKLAQLVDIESVNSRSRISNYESGRFTPPFEFIQKVAKVLDYPEGY 63

Query: 73 FFDVSPTVCS 82
          F+        
Sbjct: 64 FYTSDDDFAE 73


>gi|163857884|ref|YP_001632182.1| anaerobic benzoate catabolism transcriptional regulator [Bordetella
           petrii DSM 12804]
 gi|163261612|emb|CAP43914.1| aroK1 [Bordetella petrii]
          Length = 302

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 22/116 (18%), Positives = 48/116 (41%), Gaps = 19/116 (16%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P  + +G+R+R  R I GM+++ L +  G++ + +   E GV       L  I++     
Sbjct: 16  PFLVALGERVRRLRAIRGMTRKSLSQATGVSERHLANLEHGVGNASILVLLQIAKAFNC- 74

Query: 70  ISFFFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                     +  D+++E  +   + + +S      L R          R+ +++L
Sbjct: 75  ------ALAELVGDVTTESPDWLLIRELLSGRTESDLQRA---------REALVQL 115


>gi|158319286|ref|YP_001511793.1| XRE family transcriptional regulator [Alkaliphilus oremlandii
           OhILAs]
 gi|158139485|gb|ABW17797.1| transcriptional regulator, XRE family [Alkaliphilus oremlandii
           OhILAs]
          Length = 428

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 28/141 (19%), Positives = 57/141 (40%), Gaps = 33/141 (23%)

Query: 14  NVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            VG +IR  R    MSQ++L G+ +  +   + + E         ++ +I+  L++PI +
Sbjct: 4   YVGYKIRALRKKKQMSQQELCGDFMNRSI--LSRIENNRMEPSLHQIIYIANKLDTPIHY 61

Query: 73  FF------DVSPTVCSDISSEENN---------VMDFISTPDGL-----QLNRYFI---- 108
           FF      +  P+    ++ E  N         ++DF +            N+Y+     
Sbjct: 62  FFYDVDYTENIPSDVQSVTHELQNLFVKESFHKIIDFFNDNHDEFKKLNDFNKYYYLGMS 121

Query: 109 ----QIDDVKVR--QKIIELV 123
               +I+   +R  +K + L 
Sbjct: 122 CYHDRINKESLRHLRKYVNLY 142


>gi|30019433|ref|NP_831064.1| SinR protein [Bacillus cereus ATCC 14579]
 gi|206967979|ref|ZP_03228935.1| transcriptional regulator SinR [Bacillus cereus AH1134]
 gi|228920093|ref|ZP_04083442.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar huazhongensis BGSC 4BD1]
 gi|228951761|ref|ZP_04113860.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
 gi|229043120|ref|ZP_04190847.1| HTH-type transcriptional regulator sinR [Bacillus cereus AH676]
 gi|229068931|ref|ZP_04202225.1| HTH-type transcriptional regulator sinR [Bacillus cereus F65185]
 gi|229078565|ref|ZP_04211123.1| HTH-type transcriptional regulator sinR [Bacillus cereus Rock4-2]
 gi|229126696|ref|ZP_04255708.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          BDRD-Cer4]
 gi|229143985|ref|ZP_04272401.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          BDRD-ST24]
 gi|229177788|ref|ZP_04305161.1| HTH-type transcriptional regulator sinR [Bacillus cereus 172560W]
 gi|296501962|ref|YP_003663662.1| SinR protein [Bacillus thuringiensis BMB171]
 gi|29894977|gb|AAP08265.1| SinR protein [Bacillus cereus ATCC 14579]
 gi|206736899|gb|EDZ54046.1| transcriptional regulator SinR [Bacillus cereus AH1134]
 gi|228605579|gb|EEK63027.1| HTH-type transcriptional regulator sinR [Bacillus cereus 172560W]
 gi|228639382|gb|EEK95796.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          BDRD-ST24]
 gi|228656636|gb|EEL12462.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          BDRD-Cer4]
 gi|228704709|gb|EEL57137.1| HTH-type transcriptional regulator sinR [Bacillus cereus Rock4-2]
 gi|228714215|gb|EEL66096.1| HTH-type transcriptional regulator sinR [Bacillus cereus F65185]
 gi|228726212|gb|EEL77442.1| HTH-type transcriptional regulator sinR [Bacillus cereus AH676]
 gi|228807883|gb|EEM54403.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
 gi|228839549|gb|EEM84841.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar huazhongensis BGSC 4BD1]
 gi|296323014|gb|ADH05942.1| SinR protein [Bacillus thuringiensis BMB171]
          Length = 107

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
               T  +++ SE
Sbjct: 62 LHDETTKETNLDSE 75


>gi|268320250|ref|YP_003293906.1| hypothetical protein FI9785_1788 [Lactobacillus johnsonii FI9785]
 gi|262398625|emb|CAX67639.1| hypothetical protein predicted by Glimmer/Critica [Lactobacillus
          johnsonii FI9785]
          Length = 161

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 10/55 (18%), Positives = 25/55 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++I+  R    ++QE++ + L +T Q +  +E   N      +  I++     + 
Sbjct: 5  EQIKRLRKENNLTQEEMAKKLNVTRQAISNWENNRNLPDFEMIILIAKTFGVSLD 59


>gi|213972069|ref|ZP_03400162.1| transcriptional regulator, PbsX family [Pseudomonas syringae pv.
          tomato T1]
 gi|213923155|gb|EEB56757.1| transcriptional regulator, PbsX family [Pseudomonas syringae pv.
          tomato T1]
          Length = 118

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G R+R  R   G +Q++L E +G     + +YE+GV       L  +   L+   +
Sbjct: 6  AFIGVRVRAFRKAHGFNQDQLAELVGCEKMTISRYERGVGTPNLDHLVKLCVALKISPA 64


>gi|116327751|ref|YP_797471.1| transcriptional regulator [Leptospira borgpetersenii serovar
           Hardjo-bovis L550]
 gi|116120495|gb|ABJ78538.1| Transcriptional regulator [Leptospira borgpetersenii serovar
           Hardjo-bovis L550]
          Length = 204

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 20/84 (23%), Positives = 34/84 (40%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V + ++L R   G S +KL    G++   + + E+G +    S L  I+  L  P S   
Sbjct: 24  VKENLKLIRHTKGFSLDKLASRCGVSRAMLSQIEQGKSVPTISVLWKIANGLNVPFSELL 83

Query: 75  DVSPTVCSDISSEENNVMDFISTP 98
                    +   EN  + F S+ 
Sbjct: 84  KEKGAEGVIVMKAENTKVLFSSSK 107


>gi|114321708|ref|YP_743391.1| XRE family transcriptional regulator [Alkalilimnicola ehrlichii
          MLHE-1]
 gi|114228102|gb|ABI57901.1| transcriptional regulator, XRE family [Alkalilimnicola ehrlichii
          MLHE-1]
          Length = 86

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 33/71 (46%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   +K    ++++VG+ +R+ R +  MSQ +L    GI    +   E    R+G  R +
Sbjct: 1  MSEYRKARKRLEVSVGESVRIMRELQEMSQNELARATGIPQSTISAIENDRVRLGVDRAK 60

Query: 61 HISEVLESPIS 71
           ++  L    +
Sbjct: 61 VLARALRCHPA 71


>gi|116054262|ref|YP_788706.1| Cro/CI family transcriptional regulator [Pseudomonas aeruginosa
          UCBPP-PA14]
 gi|296387039|ref|ZP_06876538.1| Cro/CI family transcriptional regulator [Pseudomonas aeruginosa
          PAb1]
 gi|313111831|ref|ZP_07797624.1| putative transcriptional regulator, Cro/CI family [Pseudomonas
          aeruginosa 39016]
 gi|115589483|gb|ABJ15498.1| putative transcriptional regulator, Cro/CI family [Pseudomonas
          aeruginosa UCBPP-PA14]
 gi|310884126|gb|EFQ42720.1| putative transcriptional regulator, Cro/CI family [Pseudomonas
          aeruginosa 39016]
          Length = 184

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 32/64 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G++ + L + +  +   V + E+G++R     L  IS+VL  P ++FF    
Sbjct: 15 VRELRKRKGITLQALADGIRRSVGFVSQVERGLSRPAVDDLVAISQVLGVPATYFFCSPK 74

Query: 79 TVCS 82
          T  S
Sbjct: 75 TQAS 78


>gi|294992441|gb|ADF57361.1| hypothetical repressor protein [Roseburia inulinivorans DSM
          16841]
          Length = 68

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 22/56 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           RIR  R    MSQE LG  +  T Q V K EK    +    L  ++        +
Sbjct: 4  NRIRELRRSHNMSQEALGTIINTTQQAVSKMEKDTCAISTDLLISMARYFNVTTDY 59


>gi|291531440|emb|CBK97025.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
          Length = 108

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI  RR  LG+ Q ++ E + + ++ +   E G +      +  +  VL +   +F 
Sbjct: 8  LGKRIAKRRKELGLKQYEVCELIDVNYKYLSNIETGRSAPSLELIMSLCSVLNATPDYFL 67

Query: 75 DVSPTVC---SDISSEENNVMD 93
            + +     +DI+S+   + D
Sbjct: 68 LGTASAELYDNDIASKITPMTD 89


>gi|291530482|emb|CBK96067.1| Helix-turn-helix [Eubacterium siraeum 70/3]
          Length = 209

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R + RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   I 
Sbjct: 8  KLIGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ ++ 
Sbjct: 68 WLKGETDEYETDITDKKE 85


>gi|238062141|ref|ZP_04606850.1| transcriptional regulator [Micromonospora sp. ATCC 39149]
 gi|237883952|gb|EEP72780.1| transcriptional regulator [Micromonospora sp. ATCC 39149]
          Length = 189

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/93 (18%), Positives = 32/93 (34%), Gaps = 2/93 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   GMS   L    G+    +   E G        L  ++  L  P++   
Sbjct: 22  VGARVRALREERGMSLSTLARLAGVGKATLSGLENGTRNPTLETLYAVTAQLGVPLTAAL 81

Query: 75  DVSPTVCSDISSE-ENNVMDFISTPDG-LQLNR 105
                  +   +     +++  +  +   +L R
Sbjct: 82  SGPAATPTVRGTAVSATLLEVFTEAEATFELYR 114


>gi|226938551|ref|YP_002802313.1| hypothetical protein pCC3_03 [Leuconostoc citreum]
 gi|229587262|ref|YP_002860113.1| hypothetical protein pFMBL1_p3 [Leuconostoc citreum]
 gi|209165330|gb|ACI41226.1| hypothetical protein [Leuconostoc citreum]
 gi|225380896|gb|ACN88702.1| hypothetical protein [Leuconostoc citreum]
          Length = 204

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 6/77 (7%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +   R   G++Q++L +   +T + VQ+ E G + V  S L  I+  L  PIS  FD  
Sbjct: 5  NVSQLRKQHGLTQQELADKSYVTIRTVQRLEAGED-VSLSSLSAIANALSVPISGLFDDI 63

Query: 78 PTVCSDISSEENNVMDF 94
                   +E  ++D+
Sbjct: 64 EQK-----EKEQEILDY 75


>gi|16800829|ref|NP_471097.1| hypothetical protein lin1761 [Listeria innocua Clip11262]
 gi|16414248|emb|CAC96992.1| lin1761 [Listeria innocua Clip11262]
          Length = 74

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 26/52 (50%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R   G++Q++L E L +    V  +E G +  G S     + +L+  +SF F
Sbjct: 10 RKEKGLTQQELAEKLQVRKSTVSNWETGYSSPGISTAIQTAIILDKDVSFLF 61


>gi|89096842|ref|ZP_01169733.1| hypothetical protein B14911_18095 [Bacillus sp. NRRL B-14911]
 gi|89101363|ref|ZP_01174151.1| hypothetical protein B14911_05451 [Bacillus sp. NRRL B-14911]
 gi|89083922|gb|EAR63135.1| hypothetical protein B14911_05451 [Bacillus sp. NRRL B-14911]
 gi|89088222|gb|EAR67332.1| hypothetical protein B14911_18095 [Bacillus sp. NRRL B-14911]
          Length = 91

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 29/60 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  ++   R++  MSQ++L E +G++ Q +   EKG           I+E  +  ++  F
Sbjct: 21 ISNKVYEYRVLARMSQQELAEQVGVSKQTIFVMEKGNYVPTLLLAFRIAEFFKVDVNDIF 80


>gi|15900264|ref|NP_344868.1| transcriptional regulator, putative [Streptococcus pneumoniae
          TIGR4]
 gi|15902345|ref|NP_357895.1| transcriptional regulator [Streptococcus pneumoniae R6]
 gi|111657195|ref|ZP_01407970.1| hypothetical protein SpneT_02001592 [Streptococcus pneumoniae
          TIGR4]
 gi|116515521|ref|YP_815820.1| transcriptional regulator, putative [Streptococcus pneumoniae
          D39]
 gi|148983739|ref|ZP_01817058.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP3-BS71]
 gi|148988089|ref|ZP_01819552.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP6-BS73]
 gi|148996747|ref|ZP_01824465.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP11-BS70]
 gi|149013057|ref|ZP_01833923.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP19-BS75]
 gi|149018025|ref|ZP_01834484.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP23-BS72]
 gi|168484208|ref|ZP_02709160.1| conserved domain protein [Streptococcus pneumoniae CDC1873-00]
 gi|168486615|ref|ZP_02711123.1| conserved domain protein [Streptococcus pneumoniae CDC1087-00]
 gi|168490753|ref|ZP_02714896.1| conserved domain protein [Streptococcus pneumoniae CDC0288-04]
 gi|168576734|ref|ZP_02722592.1| conserved domain protein [Streptococcus pneumoniae MLV-016]
 gi|169833560|ref|YP_001693853.1| hypothetical protein SPH_0443 [Streptococcus pneumoniae
          Hungary19A-6]
 gi|194396813|ref|YP_002037017.1| transcriptional regulator [Streptococcus pneumoniae G54]
 gi|225853916|ref|YP_002735428.1| hypothetical protein SPJ_0326 [Streptococcus pneumoniae JJA]
 gi|225856074|ref|YP_002737585.1| hypothetical protein SPP_0367 [Streptococcus pneumoniae P1031]
 gi|225858186|ref|YP_002739696.1| hypothetical protein SP70585_0396 [Streptococcus pneumoniae
          70585]
 gi|298254745|ref|ZP_06978331.1| hypothetical protein SpneCM_03900 [Streptococcus pneumoniae str.
          Canada MDR_19A]
 gi|298502137|ref|YP_003724077.1| transcriptional regulator [Streptococcus pneumoniae TCH8431/19A]
 gi|303259428|ref|ZP_07345405.1| hypothetical protein CGSSp9vBS293_07336 [Streptococcus pneumoniae
          SP-BS293]
 gi|303261183|ref|ZP_07347132.1| hypothetical protein CGSSp14BS292_03428 [Streptococcus pneumoniae
          SP14-BS292]
 gi|303263510|ref|ZP_07349433.1| hypothetical protein CGSSpBS397_04091 [Streptococcus pneumoniae
          BS397]
 gi|303265803|ref|ZP_07351701.1| hypothetical protein CGSSpBS457_06837 [Streptococcus pneumoniae
          BS457]
 gi|303267766|ref|ZP_07353568.1| hypothetical protein CGSSpBS458_09998 [Streptococcus pneumoniae
          BS458]
 gi|307066993|ref|YP_003875959.1| putative transcriptional regulator [Streptococcus pneumoniae
          AP200]
 gi|307704192|ref|ZP_07641115.1| helix-turn-helix family protein [Streptococcus mitis SK597]
 gi|1536960|emb|CAB01931.1| yorfE [Streptococcus pneumoniae]
 gi|14971806|gb|AAK74508.1| putative transcriptional regulator [Streptococcus pneumoniae
          TIGR4]
 gi|15457855|gb|AAK99105.1| Transcription regulator [Streptococcus pneumoniae R6]
 gi|116076097|gb|ABJ53817.1| transcriptional regulator, putative [Streptococcus pneumoniae
          D39]
 gi|147757322|gb|EDK64361.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP11-BS70]
 gi|147763092|gb|EDK70034.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP19-BS75]
 gi|147923886|gb|EDK74998.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP3-BS71]
 gi|147926553|gb|EDK77626.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP6-BS73]
 gi|147931589|gb|EDK82567.1| gluconate 5-dehydrogenase [Streptococcus pneumoniae SP23-BS72]
 gi|168996062|gb|ACA36674.1| conserved domain protein [Streptococcus pneumoniae Hungary19A-6]
 gi|172042565|gb|EDT50611.1| conserved domain protein [Streptococcus pneumoniae CDC1873-00]
 gi|183570358|gb|EDT90886.1| conserved domain protein [Streptococcus pneumoniae CDC1087-00]
 gi|183574941|gb|EDT95469.1| conserved domain protein [Streptococcus pneumoniae CDC0288-04]
 gi|183577574|gb|EDT98102.1| conserved domain protein [Streptococcus pneumoniae MLV-016]
 gi|194356480|gb|ACF54928.1| transcriptional regulator, putative [Streptococcus pneumoniae
          G54]
 gi|225720654|gb|ACO16508.1| conserved domain protein [Streptococcus pneumoniae 70585]
 gi|225723727|gb|ACO19580.1| conserved domain protein [Streptococcus pneumoniae JJA]
 gi|225726347|gb|ACO22199.1| conserved domain protein [Streptococcus pneumoniae P1031]
 gi|298237732|gb|ADI68863.1| transcriptional regulator [Streptococcus pneumoniae TCH8431/19A]
 gi|301793585|emb|CBW35962.1| putative DNA-binding protein [Streptococcus pneumoniae INV104]
 gi|301799462|emb|CBW32002.1| putative DNA-binding protein [Streptococcus pneumoniae OXC141]
 gi|301801258|emb|CBW33933.1| putative DNA-binding protein [Streptococcus pneumoniae INV200]
 gi|302638020|gb|EFL68506.1| hypothetical protein CGSSp14BS292_03428 [Streptococcus pneumoniae
          SP14-BS292]
 gi|302639362|gb|EFL69820.1| hypothetical protein CGSSpBS293_07336 [Streptococcus pneumoniae
          SP-BS293]
 gi|302642462|gb|EFL72807.1| hypothetical protein CGSSpBS458_09998 [Streptococcus pneumoniae
          BS458]
 gi|302644711|gb|EFL74960.1| hypothetical protein CGSSpBS457_06837 [Streptococcus pneumoniae
          BS457]
 gi|302647283|gb|EFL77507.1| hypothetical protein CGSSpBS397_04091 [Streptococcus pneumoniae
          BS397]
 gi|306408530|gb|ADM83957.1| Predicted transcriptional regulator [Streptococcus pneumoniae
          AP200]
 gi|307622223|gb|EFO01237.1| helix-turn-helix family protein [Streptococcus mitis SK597]
 gi|332077619|gb|EGI88080.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA41301]
 gi|332203500|gb|EGJ17567.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA47368]
 gi|332204335|gb|EGJ18400.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA47901]
          Length = 64

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R  LG+SQ +L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 2  NRVKEFRKELGISQLELAKDIGVSRQTINMIENDKYNPTLELCLNLARSLQTDLNSLF 59


>gi|331084051|ref|ZP_08333158.1| hypothetical protein HMPREF0992_02082 [Lachnospiraceae bacterium
           6_1_63FAA]
 gi|330402413|gb|EGG81983.1| hypothetical protein HMPREF0992_02082 [Lachnospiraceae bacterium
           6_1_63FAA]
          Length = 213

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 32/61 (52%), Gaps = 3/61 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE---KGVNRVGASRLQHISEVLESPISFFF 74
            ++  RM  G +Q++L +  G++ + +Q YE   K +N+  A  L  +S++L   I    
Sbjct: 152 NLKRIRMTYGFTQKELADNSGVSLRSIQMYEQRHKNINKASAETLYRLSKILGCTIEDLM 211

Query: 75  D 75
           +
Sbjct: 212 E 212


>gi|320322230|gb|EFW78326.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. glycinea str. B076]
 gi|320331879|gb|EFW87817.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. glycinea str. race 4]
          Length = 199

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 25/108 (23%), Positives = 49/108 (45%), Gaps = 8/108 (7%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            G  K    + ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+ 
Sbjct: 7   TGPDKTWGNIALDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR- 65

Query: 62  ISEVL-ESPISF--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
             +VL   P+S   FF  +  P   + +  + + ++D       ++L 
Sbjct: 66  --KVLGGIPMSMVEFFSEETVPENAAQVVYKASELIDISDGAVTMKLV 111


>gi|312905524|ref|ZP_07764638.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|310631253|gb|EFQ14536.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
          Length = 270

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 11 VDIN-VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEV 65
          +D   VG RIR  R  L +S EK G+ +G +    V  +E+G+N      L  I+E+
Sbjct: 3  IDKQAVGNRIRQIRQELKLSMEKFGKLIGDLPRSTVNNWERGINLPKTETLHQIAEI 59


>gi|299535208|ref|ZP_07048532.1| MerR family transcriptional regulator [Lysinibacillus fusiformis
          ZC1]
 gi|298729329|gb|EFI69880.1| MerR family transcriptional regulator [Lysinibacillus fusiformis
          ZC1]
          Length = 129

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 42/88 (47%), Gaps = 3/88 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGE---CLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VG+++R+ R+  G+SQE++ E    LG +  +V   E G + +  S L+ I + L+  
Sbjct: 6  KLVGEQLRIIRLSKGLSQEEVAERTGKLGFSKGRVSNIEHGQSNITLSTLETIMKALDIT 65

Query: 70 ISFFFDVSPTVCSDISSEENNVMDFIST 97
              F+           E+N ++D   +
Sbjct: 66 PEELFNFQKLSGVTDIEEKNLMLDIHRS 93


>gi|291523416|emb|CBK81709.1| Helix-turn-helix [Coprococcus catus GD/7]
          Length = 209

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R + RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   I 
Sbjct: 8  KLIGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ ++ 
Sbjct: 68 WLKGETDEYETDITDKKE 85


>gi|293414771|ref|ZP_06657420.1| HTH-type transcriptional regulator ydcN [Escherichia coli B185]
 gi|291434829|gb|EFF07802.1| HTH-type transcriptional regulator ydcN [Escherichia coli B185]
          Length = 178

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 30/78 (38%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVMDFIS 96
          +    +   +   M  IS
Sbjct: 72 SATPSVYDPQQQAMVIIS 89


>gi|293433580|ref|ZP_06662008.1| DNA-binding protein [Escherichia coli B088]
 gi|291324399|gb|EFE63821.1| DNA-binding protein [Escherichia coli B088]
          Length = 200

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/100 (19%), Positives = 39/100 (39%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M     I + V+  V +RI+L R    +S ++L    G++   + + E        + L 
Sbjct: 8   MTDVNSIVSTVNEAVSQRIKLYRKQKKISLDELSRRAGVSKGALVEIEGCRANPSITMLC 67

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
            ++  +   ++ F DVS      + +E      +     G
Sbjct: 68  RLAAAMGVSVADFVDVSSKPTVHLITESEIPELWEGEKGG 107


>gi|256025208|ref|ZP_05439073.1| hypothetical protein E4_17688 [Escherichia sp. 4_1_40B]
 gi|301325184|ref|ZP_07218708.1| helix-turn-helix protein [Escherichia coli MS 78-1]
 gi|300847945|gb|EFK75705.1| helix-turn-helix protein [Escherichia coli MS 78-1]
          Length = 185

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 32/77 (41%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   + I  G+R++  R+  G+SQE   +  G     + + E+G +      ++ ++  L
Sbjct: 32  MKKSLRIQFGERVKELRIATGLSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLANAL 91

Query: 67  ESPISFFFDVSPTVCSD 83
                      P+  +D
Sbjct: 92  SVEPWQLLAPGPSEDND 108


>gi|149003138|ref|ZP_01828047.1| DNA polymerase III subunit beta [Streptococcus pneumoniae
          SP14-BS69]
 gi|237651078|ref|ZP_04525330.1| Hypothetical phage associated protein SpyM3_0964 [Streptococcus
          pneumoniae CCRI 1974]
 gi|237821191|ref|ZP_04597036.1| Hypothetical phage associated protein SpyM3_0964 [Streptococcus
          pneumoniae CCRI 1974M2]
 gi|147758879|gb|EDK65875.1| DNA polymerase III subunit beta [Streptococcus pneumoniae
          SP14-BS69]
          Length = 207

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R    +SQ+++ E LG + +  Q+ E G +++   + Q +++     + + 
Sbjct: 2  NRLKELRQKNELSQKEIAEILGFSLRSFQRMENGESQIKPEKAQQLADFFGVSVGYL 58


>gi|82777001|ref|YP_403350.1| hypothetical protein SDY_1742 [Shigella dysenteriae Sd197]
 gi|81241149|gb|ABB61859.1| conserved hypothetical protein [Shigella dysenteriae Sd197]
          Length = 178

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 30/78 (38%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVMDFIS 96
          +    +   +   M  IS
Sbjct: 72 SATPSVYDPQQQAMVIIS 89


>gi|15801709|ref|NP_287727.1| hypothetical protein Z2285 [Escherichia coli O157:H7 EDL933]
 gi|15831292|ref|NP_310065.1| hypothetical protein ECs2037 [Escherichia coli O157:H7 str.
          Sakai]
 gi|168748967|ref|ZP_02773989.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4113]
 gi|168759171|ref|ZP_02784178.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4401]
 gi|168761476|ref|ZP_02786483.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4501]
 gi|168769035|ref|ZP_02794042.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4486]
 gi|168774335|ref|ZP_02799342.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4196]
 gi|168781404|ref|ZP_02806411.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4076]
 gi|168788512|ref|ZP_02813519.1| DNA-binding protein [Escherichia coli O157:H7 str. EC869]
 gi|168799439|ref|ZP_02824446.1| DNA-binding protein [Escherichia coli O157:H7 str. EC508]
 gi|195936926|ref|ZP_03082308.1| hypothetical protein EscherichcoliO157_10762 [Escherichia coli
          O157:H7 str. EC4024]
 gi|208810881|ref|ZP_03252714.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4206]
 gi|208815156|ref|ZP_03256335.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4045]
 gi|208818249|ref|ZP_03258569.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4042]
 gi|209397754|ref|YP_002270440.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4115]
 gi|217329087|ref|ZP_03445167.1| DNA-binding protein [Escherichia coli O157:H7 str. TW14588]
 gi|254792977|ref|YP_003077814.1| putative DNA-binding transcriptional regulator [Escherichia coli
          O157:H7 str. TW14359]
 gi|261224380|ref|ZP_05938661.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          O157:H7 str. FRIK2000]
 gi|261257365|ref|ZP_05949898.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          O157:H7 str. FRIK966]
 gi|291282537|ref|YP_003499355.1| DNA-binding protein [Escherichia coli O55:H7 str. CB9615]
 gi|12515268|gb|AAG56341.1|AE005362_11 orf, hypothetical protein [Escherichia coli O157:H7 str. EDL933]
 gi|13361504|dbj|BAB35461.1| hypothetical protein [Escherichia coli O157:H7 str. Sakai]
 gi|187770139|gb|EDU33983.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4196]
 gi|188016678|gb|EDU54800.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4113]
 gi|189000937|gb|EDU69923.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4076]
 gi|189354230|gb|EDU72649.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4401]
 gi|189361883|gb|EDU80302.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4486]
 gi|189368111|gb|EDU86527.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4501]
 gi|189371782|gb|EDU90198.1| DNA-binding protein [Escherichia coli O157:H7 str. EC869]
 gi|189378128|gb|EDU96544.1| DNA-binding protein [Escherichia coli O157:H7 str. EC508]
 gi|208724387|gb|EDZ74095.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4206]
 gi|208731804|gb|EDZ80492.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4045]
 gi|208738372|gb|EDZ86054.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4042]
 gi|209159154|gb|ACI36587.1| DNA-binding protein [Escherichia coli O157:H7 str. EC4115]
 gi|209771028|gb|ACI83826.1| hypothetical protein ECs2037 [Escherichia coli]
 gi|209771030|gb|ACI83827.1| hypothetical protein ECs2037 [Escherichia coli]
 gi|209771032|gb|ACI83828.1| hypothetical protein ECs2037 [Escherichia coli]
 gi|209771034|gb|ACI83829.1| hypothetical protein ECs2037 [Escherichia coli]
 gi|209771036|gb|ACI83830.1| hypothetical protein ECs2037 [Escherichia coli]
 gi|217317526|gb|EEC25954.1| DNA-binding protein [Escherichia coli O157:H7 str. TW14588]
 gi|254592377|gb|ACT71738.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          O157:H7 str. TW14359]
 gi|290762410|gb|ADD56371.1| DNA-binding protein [Escherichia coli O55:H7 str. CB9615]
 gi|320190111|gb|EFW64762.1| Transcriptional regulator yidN, Cro/CI family [Escherichia coli
          O157:H7 str. EC1212]
 gi|320637032|gb|EFX06893.1| putative DNA-binding transcriptional regulator [Escherichia coli
          O157:H7 str. G5101]
 gi|320642399|gb|EFX11685.1| putative DNA-binding transcriptional regulator [Escherichia coli
          O157:H- str. 493-89]
 gi|320647755|gb|EFX16500.1| putative DNA-binding transcriptional regulator [Escherichia coli
          O157:H- str. H 2687]
 gi|320653362|gb|EFX21499.1| putative DNA-binding transcriptional regulator [Escherichia coli
          O55:H7 str. 3256-97 TW 07815]
 gi|320659028|gb|EFX26651.1| putative DNA-binding transcriptional regulator [Escherichia coli
          O55:H7 str. USDA 5905]
 gi|320663862|gb|EFX31090.1| putative DNA-binding transcriptional regulator [Escherichia coli
          O157:H7 str. LSU-61]
 gi|326340694|gb|EGD64491.1| Transcriptional regulator yidN, Cro/CI family [Escherichia coli
          O157:H7 str. 1044]
 gi|326340945|gb|EGD64738.1| Transcriptional regulator yidN, Cro/CI family [Escherichia coli
          O157:H7 str. 1125]
          Length = 178

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 30/78 (38%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVMDFIS 96
          +    +   +   M  IS
Sbjct: 72 SATPSVYDPQQQAMVIIS 89


>gi|300917947|ref|ZP_07134577.1| toxin-antitoxin system, antitoxin component, Xre family
          [Escherichia coli MS 115-1]
 gi|300414844|gb|EFJ98154.1| toxin-antitoxin system, antitoxin component, Xre family
          [Escherichia coli MS 115-1]
          Length = 73

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 33/64 (51%), Gaps = 1/64 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
          +G+++R  R   G++ EKL +  G++   + + E +   R  A +L  +++ L    SFF
Sbjct: 5  LGEKLRDLRKQRGLTLEKLADMAGLSKSYLWELENRESQRPSAEKLTALADALGVGTSFF 64

Query: 74 FDVS 77
           +  
Sbjct: 65 LEDD 68


>gi|238925837|ref|YP_002939355.1| hypothetical protein EUBREC_3495 [Eubacterium rectale ATCC 33656]
 gi|238877514|gb|ACR77221.1| Hypothetical protein EUBREC_3495 [Eubacterium rectale ATCC 33656]
 gi|295098807|emb|CBK87896.1| Helix-turn-helix. [Eubacterium cylindroides T2-87]
          Length = 209

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R + RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   I 
Sbjct: 8  KLIGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ ++ 
Sbjct: 68 WLKGETDEYETDITDKKE 85


>gi|257063253|ref|YP_003142925.1| hypothetical protein Shel_05170 [Slackia heliotrinireducens DSM
          20476]
 gi|256790906|gb|ACV21576.1| uncharacterized conserved protein [Slackia heliotrinireducens DSM
          20476]
          Length = 436

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 29/60 (48%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G  I   R   G++Q +L + +G+T + V K+E G ++     ++ +S +    + 
Sbjct: 3  DYAFGNYIFHLRKQAGLTQAELAKLVGVTNKAVSKWEVGKSKPSVESVRKLSGLFHVSVD 62


>gi|257065249|ref|YP_003144921.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
 gi|256792902|gb|ACV23572.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
          Length = 194

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 30/65 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VGK I+  R   GMSQE+L + + ++ Q V  +E   +      L  I+E+  + I  
Sbjct: 1  MEVGKTIKDLRTRSGMSQEELAKNVFVSRQTVSSWENEKSYPDVQSLALIAELFNTSIDA 60

Query: 73 FFDVS 77
               
Sbjct: 61 LVKGD 65


>gi|225571208|ref|ZP_03780206.1| hypothetical protein CLOHYLEM_07297 [Clostridium hylemonae DSM
          15053]
 gi|225160039|gb|EEG72658.1| hypothetical protein CLOHYLEM_07297 [Clostridium hylemonae DSM
          15053]
          Length = 114

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 28/55 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RL R   G+SQ++L   LGI+   V  YE+G  +     L+ I++  +    + 
Sbjct: 14 LRLLRNGRGLSQQELALSLGISKSAVNMYERGERQPNFETLELIADFFKVDTDYL 68


>gi|210631905|ref|ZP_03297117.1| hypothetical protein COLSTE_01007 [Collinsella stercoris DSM 13279]
 gi|210159830|gb|EEA90801.1| hypothetical protein COLSTE_01007 [Collinsella stercoris DSM 13279]
          Length = 212

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 30/56 (53%), Gaps = 3/56 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG---VNRVGASRLQHISEVLESP 69
            R++  R   G+SQ +L    G+  + +Q+YE+G   VNR     +  +++ + +P
Sbjct: 149 SRLKKYRTSAGLSQSQLAALSGVPVRSIQQYEQGQKRVNRASFETVLRLAQAVGAP 204


>gi|170780657|ref|YP_001708989.1| putative DNA-binding membrane protein [Clavibacter michiganensis
          subsp. sepedonicus]
 gi|169155225|emb|CAQ00326.1| putative DNA-binding membrane protein [Clavibacter michiganensis
          subsp. sepedonicus]
          Length = 173

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 1/57 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI   R   G +Q++L E  GIT + VQ+ E G N      L  +++ LE P+   F
Sbjct: 5  RIVELRRERGWTQDRLAEASGITVRTVQRLEAG-NDASLETLSLVAKALEVPVRDLF 60


>gi|188587111|ref|YP_001918656.1| transcriptional regulator, XRE family [Natranaerobius
          thermophilus JW/NM-WN-LF]
 gi|179351798|gb|ACB86068.1| transcriptional regulator, XRE family [Natranaerobius
          thermophilus JW/NM-WN-LF]
          Length = 118

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 32/56 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G++IR+ R   G +QE++   +  + Q++ + EKG+  +  S +  I+ +L+   
Sbjct: 5  LGEQIRVLRESAGKTQEEIAFKMNCSRQKIARIEKGLVDISYSNILDIARILQISP 60


>gi|166032258|ref|ZP_02235087.1| hypothetical protein DORFOR_01961 [Dorea formicigenerans ATCC
          27755]
 gi|166027981|gb|EDR46738.1| hypothetical protein DORFOR_01961 [Dorea formicigenerans ATCC
          27755]
          Length = 213

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 3/80 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  IR  R+   M+Q++L +  G+    ++ YE G      + L +I+  L      F+
Sbjct: 9  VGYLIRNFRIASDMTQKELADKCGLNESTIRNYELGNRYPDEATLLNIANNLGVS---FY 65

Query: 75 DVSPTVCSDISSEENNVMDF 94
           +S    ++I S  + + D 
Sbjct: 66 ALSDPDVANIFSALHVLFDI 85


>gi|150378302|ref|YP_001314896.1| XRE family transcriptional regulator [Sinorhizobium medicae WSM419]
 gi|150032849|gb|ABR64963.1| transcriptional regulator, XRE family [Sinorhizobium medicae
           WSM419]
          Length = 165

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 26/128 (20%), Positives = 52/128 (40%), Gaps = 12/128 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLE-S 68
           +D  +   ++  R   G+S+  L   LG++     +YE+G   R+   RL H+ E++   
Sbjct: 40  MDEKISAWLKKTREAKGISRADLAHLLGLSVSVYGRYERGSEARLSIPRLIHLCEIIGFM 99

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           P+   FD +P +      E  +            L +    +    +R  +I L++ +  
Sbjct: 100 PLDIIFDTAPHLWGKTPEEAEDRK---------MLTKIVESLPHDTIRD-LIRLMKRMTP 149

Query: 129 SEKKYRTI 136
            E    T+
Sbjct: 150 GEPSTDTV 157


>gi|15485444|emb|CAC67538.1| hypothetical transcriptional regulator [Streptococcus
          thermophilus]
          Length = 111

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 32/76 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +   +R++  R    ++Q +L   LGI       +E+G  +     L  I+++L   + +
Sbjct: 1  MEFSERLKELRKQAHLTQVELASKLGIVQSSYADWERGKKKPTQENLVKIAQILNVSVDY 60

Query: 73 FFDVSPTVCSDISSEE 88
              S     ++ + E
Sbjct: 61 LVGNSEEKNDELDNIE 76


>gi|30018346|ref|NP_829977.1| XRE family transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|218235456|ref|YP_002364925.1| DNA-binding protein [Bacillus cereus B4264]
 gi|228919025|ref|ZP_04082405.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|228956516|ref|ZP_04118313.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|229107761|ref|ZP_04237398.1| Transcriptional regulator Xre [Bacillus cereus Rock1-15]
 gi|229125592|ref|ZP_04254625.1| Transcriptional regulator Xre [Bacillus cereus BDRD-Cer4]
 gi|229142881|ref|ZP_04271323.1| Transcriptional regulator Xre [Bacillus cereus BDRD-ST24]
 gi|229148484|ref|ZP_04276741.1| Transcriptional regulator Xre [Bacillus cereus m1550]
 gi|296500908|ref|YP_003662608.1| XRE family transcriptional regulator [Bacillus thuringiensis
          BMB171]
 gi|29893886|gb|AAP07178.1| Transcriptional regulator, Xre family [Bacillus cereus ATCC
          14579]
 gi|218163413|gb|ACK63405.1| DNA-binding protein [Bacillus cereus B4264]
 gi|228635026|gb|EEK91598.1| Transcriptional regulator Xre [Bacillus cereus m1550]
 gi|228640593|gb|EEK96981.1| Transcriptional regulator Xre [Bacillus cereus BDRD-ST24]
 gi|228657909|gb|EEL13714.1| Transcriptional regulator Xre [Bacillus cereus BDRD-Cer4]
 gi|228675734|gb|EEL30941.1| Transcriptional regulator Xre [Bacillus cereus Rock1-15]
 gi|228803206|gb|EEM50027.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|228840674|gb|EEM85935.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|296321960|gb|ADH04888.1| XRE family transcriptional regulator [Bacillus thuringiensis
          BMB171]
          Length = 67

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 27/55 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE   + LG++   + + E+G        +  +++ L   I
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKELGVSVSVLGEVERGNRSPSQDFVVEVAKALNVSI 61


>gi|329937439|ref|ZP_08286997.1| putative transcriptional regulator [Streptomyces
          griseoaurantiacus M045]
 gi|329303315|gb|EGG47202.1| putative transcriptional regulator [Streptomyces
          griseoaurantiacus M045]
          Length = 232

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 32/68 (47%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  V +RIR  R+  G S E+L     ++   + + E G  R+   +L  ++  L++ 
Sbjct: 11 DLDGLVRRRIRALRVAQGWSLEELAARARLSQSTLSRIETGRRRLALDQLVTLARALDTS 70

Query: 70 ISFFFDVS 77
          +    + +
Sbjct: 71 LDQLVETA 78


>gi|325833141|ref|ZP_08165689.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|325485697|gb|EGC88164.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 71

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 24/62 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  IR  R    ++Q+ L   +G T   V   E G   +   RL  I++ L      
Sbjct: 9  VRLGAAIRAERRRQNITQQVLAGMIGTTQDYVSDLEAGEYNIKVGRLWQIADALGVHPGD 68

Query: 73 FF 74
            
Sbjct: 69 LM 70


>gi|289769326|ref|ZP_06528704.1| DNA-binding protein [Streptomyces lividans TK24]
 gi|289699525|gb|EFD66954.1| DNA-binding protein [Streptomyces lividans TK24]
          Length = 198

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 25/59 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG R+R  R   G++   L    G++   + + E G  R     L  ++ + + P+   
Sbjct: 20 VGPRLRTLRRERGITLAHLSAATGVSESTLSRLESGQRRATLELLLPLARIYDVPLDDL 78


>gi|270291339|ref|ZP_06197561.1| transcriptional regulator [Pediococcus acidilactici 7_4]
 gi|304385092|ref|ZP_07367438.1| possible transcriptional regulator [Pediococcus acidilactici DSM
          20284]
 gi|270280185|gb|EFA26021.1| transcriptional regulator [Pediococcus acidilactici 7_4]
 gi|304329286|gb|EFL96506.1| possible transcriptional regulator [Pediococcus acidilactici DSM
          20284]
          Length = 66

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 28/63 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+++ R+   +SQ +L   +G+T Q +   E G           I + L+  +   F  
Sbjct: 4  QRLKIARLEKDLSQAELANLIGVTRQTIGLIEAGNYNPTLKLCVAICQALDKTLDDLFWE 63

Query: 77 SPT 79
           P+
Sbjct: 64 DPS 66


>gi|323343150|ref|ZP_08083381.1| transcription regulator [Erysipelothrix rhusiopathiae ATCC 19414]
 gi|322463214|gb|EFY08409.1| transcription regulator [Erysipelothrix rhusiopathiae ATCC 19414]
          Length = 136

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/78 (17%), Positives = 31/78 (39%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           ++  R    ++Q+K+ + L ++ Q V  +E+G     A  L  ISE    P+       
Sbjct: 6  NLKRLREENALTQDKVAQSLNVSRQAVSNWEQGKRYPDAIMLIQISEFYGVPVDDLLKSD 65

Query: 78 PTVCSDISSEENNVMDFI 95
                +  ++    + +
Sbjct: 66 RDYAKALVIDKARFEEVL 83


>gi|82703914|ref|YP_413478.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Nitrosospira multiformis ATCC 25196]
 gi|82411979|gb|ABB76086.1| transcriptional regulator, XRE family [Nitrosospira multiformis
           ATCC 25196]
          Length = 106

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 50/115 (43%), Gaps = 19/115 (16%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
           +G++IR  R  L ++ E+L E  G +   + + E + V R  A ++  ISEV   P+ F 
Sbjct: 5   LGEKIRTERKRLKLTLEELAEKTGSSKSYIWELENRPVVRPSAEKISKISEVFGVPVEFL 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID--DVKVRQKIIELVRSI 126
            D +        S+ + V               F +I   D   R ++ + +++I
Sbjct: 65  LDDAKHEL--TPSDADQVF--------------FRRITQLDPAKRAQLEKFLKAI 103


>gi|310639686|ref|YP_003944444.1| transcriptional regulator [Paenibacillus polymyxa SC2]
 gi|309244636|gb|ADO54203.1| Predicted transcriptional regulator [Paenibacillus polymyxa SC2]
          Length = 116

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 33/70 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R  L ++QEKL E + ++   + + E+G   +    L  ++  L S + +  
Sbjct: 6  LGTRIRQERQRLNLTQEKLAERVDLSHAYIGQIERGERSLSLETLVKLANELGSTVDYLL 65

Query: 75 DVSPTVCSDI 84
            +  V  + 
Sbjct: 66 SEAVEVKDEA 75


>gi|296451357|ref|ZP_06893095.1| XRE family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296880293|ref|ZP_06904258.1| XRE family transcriptional regulator [Clostridium difficile
          NAP07]
 gi|296259773|gb|EFH06630.1| XRE family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296428736|gb|EFH14618.1| XRE family transcriptional regulator [Clostridium difficile
          NAP07]
          Length = 106

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 31/58 (53%), Gaps = 2/58 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ-HISEVLESPISFF 73
          KR+R  R   G++Q +LGE +G++ + +  YE   NR     +   +++V +  + + 
Sbjct: 4  KRLRELRKEFGLTQRELGEKVGVSQRVLGYYET-ENRFPDEHILNKLADVFDVSVDYL 60


>gi|291551231|emb|CBL27493.1| Helix-turn-helix [Ruminococcus torques L2-14]
          Length = 209

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R + RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   I 
Sbjct: 8  KLIGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ ++ 
Sbjct: 68 WLKGETDEYETDITDKKE 85


>gi|257065055|ref|YP_003144727.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
 gi|256792708|gb|ACV23378.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
          Length = 338

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 33/81 (40%), Gaps = 1/81 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           ++  R    M+QE+L   +G++ Q V K+E         +L  IS++ +  I       
Sbjct: 6  NLQYLRSTRSMTQEQLAMMVGVSRQSVTKWESERAYPEMDKLLKISQIFDCTIDELVQGD 65

Query: 78 PTVCSDISSEENNVMDFISTP 98
               DI  E+   +D  S  
Sbjct: 66 -LTHRDIQPEKAMPVDMSSDS 85


>gi|21218919|ref|NP_624698.1| transcriptional regulator [Streptomyces coelicolor A3(2)]
 gi|6066657|emb|CAB58317.1| putative transcriptional regulator [Streptomyces coelicolor
          A3(2)]
          Length = 200

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 32/70 (45%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  V KRIR  R+  G S E+L     ++   + + E G  R+   +L  ++  L++ 
Sbjct: 10 DLDSLVRKRIRALRVAQGWSLEELAGRARLSQSSLSRIENGRRRLALDQLVTLARALDTT 69

Query: 70 ISFFFDVSPT 79
          +    + +  
Sbjct: 70 LDQLVETADE 79


>gi|238783913|ref|ZP_04627930.1| Predicted transcriptional regulator [Yersinia bercovieri ATCC
          43970]
 gi|238715152|gb|EEQ07147.1| Predicted transcriptional regulator [Yersinia bercovieri ATCC
          43970]
          Length = 87

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 33/59 (55%), Gaps = 4/59 (6%)

Query: 28 MSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
          MSQ+KLG   G    +   ++ +YEKGV+ V     + +++VLE P+++F+     +  
Sbjct: 1  MSQKKLGIAAGLDEFVASTRINRYEKGVHEVSIEMAKQLADVLEVPLAYFYTADDVLAE 59


>gi|30018872|ref|NP_830503.1| PbsX family transcriptional regulator [Bacillus cereus ATCC
          14579]
 gi|30260845|ref|NP_843222.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|42779842|ref|NP_977089.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|47525976|ref|YP_017325.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49183686|ref|YP_026938.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|49476873|ref|YP_034951.1| transcriptional regulator [Bacillus thuringiensis serovar
          konkukian str. 97-27]
 gi|52144616|ref|YP_082212.1| transcriptional regulator [Bacillus cereus E33L]
 gi|65318122|ref|ZP_00391081.1| COG1476: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|118476376|ref|YP_893527.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|163938619|ref|YP_001643503.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|165872916|ref|ZP_02217540.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167635166|ref|ZP_02393482.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|167641831|ref|ZP_02400071.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170689445|ref|ZP_02880636.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|170709002|ref|ZP_02899433.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|177652794|ref|ZP_02935167.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190568571|ref|ZP_03021477.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|196042062|ref|ZP_03109347.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|196047106|ref|ZP_03114324.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|206977794|ref|ZP_03238684.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|217958280|ref|YP_002336826.1| DNA-binding protein [Bacillus cereus AH187]
 gi|218901889|ref|YP_002449723.1| DNA-binding protein [Bacillus cereus AH820]
 gi|222094450|ref|YP_002528509.1| transcriptional regulator [Bacillus cereus Q1]
 gi|225862672|ref|YP_002748050.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|227816434|ref|YP_002816443.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|228906448|ref|ZP_04070329.1| Transcriptional regulator [Bacillus thuringiensis IBL 200]
 gi|229010123|ref|ZP_04167337.1| Transcriptional regulator [Bacillus mycoides DSM 2048]
 gi|229056462|ref|ZP_04195875.1| Transcriptional regulator [Bacillus cereus AH603]
 gi|229089756|ref|ZP_04221016.1| Transcriptional regulator [Bacillus cereus Rock3-42]
 gi|229108302|ref|ZP_04237921.1| Transcriptional regulator [Bacillus cereus Rock1-15]
 gi|229120344|ref|ZP_04249594.1| Transcriptional regulator [Bacillus cereus 95/8201]
 gi|229126121|ref|ZP_04255142.1| Transcriptional regulator [Bacillus cereus BDRD-Cer4]
 gi|229131641|ref|ZP_04260523.1| Transcriptional regulator [Bacillus cereus BDRD-ST196]
 gi|229137494|ref|ZP_04266105.1| Transcriptional regulator [Bacillus cereus BDRD-ST26]
 gi|229143419|ref|ZP_04271848.1| Transcriptional regulator [Bacillus cereus BDRD-ST24]
 gi|229165635|ref|ZP_04293408.1| Transcriptional regulator [Bacillus cereus AH621]
 gi|229183027|ref|ZP_04310259.1| Transcriptional regulator [Bacillus cereus BGSC 6E1]
 gi|229195018|ref|ZP_04321795.1| Transcriptional regulator [Bacillus cereus m1293]
 gi|229602348|ref|YP_002865290.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|254684228|ref|ZP_05148088.1| DNA-binding protein [Bacillus anthracis str. CNEVA-9066]
 gi|254725890|ref|ZP_05187672.1| DNA-binding protein [Bacillus anthracis str. A1055]
 gi|254734410|ref|ZP_05192123.1| DNA-binding protein [Bacillus anthracis str. Western North
          America USA6153]
 gi|254742096|ref|ZP_05199783.1| DNA-binding protein [Bacillus anthracis str. Kruger B]
 gi|254755782|ref|ZP_05207815.1| DNA-binding protein [Bacillus anthracis str. Vollum]
 gi|254762352|ref|ZP_05214196.1| DNA-binding protein [Bacillus anthracis str. Australia 94]
 gi|296501446|ref|YP_003663146.1| PbsX family transcriptional regulator [Bacillus thuringiensis
          BMB171]
 gi|301052344|ref|YP_003790555.1| transcriptional regulator [Bacillus anthracis CI]
 gi|29894414|gb|AAP07704.1| Transcriptional regulator, PBSX family [Bacillus cereus ATCC
          14579]
 gi|30254294|gb|AAP24708.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|42735759|gb|AAS39697.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|47501124|gb|AAT29800.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49177613|gb|AAT52989.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|49328429|gb|AAT59075.1| transcriptional regulator [Bacillus thuringiensis serovar
          konkukian str. 97-27]
 gi|51978085|gb|AAU19635.1| transcriptional regulator [Bacillus cereus E33L]
 gi|118415601|gb|ABK84020.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|163860816|gb|ABY41875.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
 gi|164711329|gb|EDR16882.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167510179|gb|EDR85585.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|167529425|gb|EDR92176.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|170126104|gb|EDS95000.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|170666607|gb|EDT17379.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|172081828|gb|EDT66897.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190560365|gb|EDV14344.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|196022087|gb|EDX60776.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|196027087|gb|EDX65709.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|206743991|gb|EDZ55408.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|217065587|gb|ACJ79837.1| DNA-binding protein [Bacillus cereus AH187]
 gi|218536097|gb|ACK88495.1| DNA-binding protein [Bacillus cereus AH820]
 gi|221238507|gb|ACM11217.1| transcriptional regulator [Bacillus cereus Q1]
 gi|225788360|gb|ACO28577.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|227005797|gb|ACP15540.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|228588453|gb|EEK46494.1| Transcriptional regulator [Bacillus cereus m1293]
 gi|228600484|gb|EEK58072.1| Transcriptional regulator [Bacillus cereus BGSC 6E1]
 gi|228617870|gb|EEK74922.1| Transcriptional regulator [Bacillus cereus AH621]
 gi|228640047|gb|EEK96448.1| Transcriptional regulator [Bacillus cereus BDRD-ST24]
 gi|228646052|gb|EEL02275.1| Transcriptional regulator [Bacillus cereus BDRD-ST26]
 gi|228651867|gb|EEL07822.1| Transcriptional regulator [Bacillus cereus BDRD-ST196]
 gi|228657328|gb|EEL13145.1| Transcriptional regulator [Bacillus cereus BDRD-Cer4]
 gi|228663154|gb|EEL18744.1| Transcriptional regulator [Bacillus cereus 95/8201]
 gi|228675139|gb|EEL30364.1| Transcriptional regulator [Bacillus cereus Rock1-15]
 gi|228693564|gb|EEL47267.1| Transcriptional regulator [Bacillus cereus Rock3-42]
 gi|228720936|gb|EEL72485.1| Transcriptional regulator [Bacillus cereus AH603]
 gi|228751256|gb|EEM01068.1| Transcriptional regulator [Bacillus mycoides DSM 2048]
 gi|228853175|gb|EEM97951.1| Transcriptional regulator [Bacillus thuringiensis IBL 200]
 gi|229266756|gb|ACQ48393.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|296322498|gb|ADH05426.1| PbsX family transcriptional regulator [Bacillus thuringiensis
          BMB171]
 gi|300374513|gb|ADK03417.1| transcriptional regulator [Bacillus cereus biovar anthracis str.
          CI]
          Length = 66

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+ L ++Q++L E +G+T Q +   EKG           I   ++  ++  F
Sbjct: 4  SKIKVARVQLDLTQQQLAEKVGVTRQTISLIEKGKYNPSLDLCLKICYAVDKTLNDLF 61


>gi|323443643|gb|EGB01257.1| transcriptional regulator [Staphylococcus aureus O46]
          Length = 391

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK +   R +  +S+++L E + ++ Q + +YE        S++  ++ +     S+
Sbjct: 1  MFIGKNLEYVRKLNALSRKELSEKINVSEQAIWQYETKNMMPEISKIYDMTSIFNVKSSY 60

Query: 73 FFDVSPTV 80
          F    P  
Sbjct: 61 FISEQPEE 68


>gi|310818410|ref|YP_003950768.1| transcriptional regulator [Stigmatella aurantiaca DW4/3-1]
 gi|309391482|gb|ADO68941.1| transcriptional regulator [Stigmatella aurantiaca DW4/3-1]
          Length = 270

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 26/121 (21%), Positives = 59/121 (48%), Gaps = 20/121 (16%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESPISFFF 74
           G  +RL R+  G+S   L + +G++   + + E G++ V   +R+  I+  L+ P +   
Sbjct: 2   GATLRLLRVEAGLSLRDLAKRIGVSSAYLSRVEHGLDAVPTPARISAIARELDIPPTLLM 61

Query: 75  DVSPTVCSDISSEENNVMDFIST-----PDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           DV            + V  F+++     P+  QL   F++I   ++ ++ +  +R ++++
Sbjct: 62  DV-----------AHRVSPFMASYLEQEPEAGQL---FLEIAQRQLNRQQLSRLRQLLNA 107

Query: 130 E 130
           E
Sbjct: 108 E 108


>gi|326315473|ref|YP_004233145.1| helix-turn-helix domain-containing protein [Acidovorax avenae
          subsp. avenae ATCC 19860]
 gi|323372309|gb|ADX44578.1| helix-turn-helix domain protein [Acidovorax avenae subsp. avenae
          ATCC 19860]
          Length = 189

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 24/56 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
            V + +R  R   G+SQ  L E  G++ + +   E G   +  + L  ++  L  
Sbjct: 16 AFVSENLRRLRAEAGLSQLALAEAAGLSRRMISSLEAGDTNISLASLDRLAAALGV 71


>gi|257869016|ref|ZP_05648669.1| transcriptional regulator [Enterococcus gallinarum EG2]
 gi|257803180|gb|EEV32002.1| transcriptional regulator [Enterococcus gallinarum EG2]
          Length = 397

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/102 (18%), Positives = 41/102 (40%), Gaps = 10/102 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ I  RR    ++Q +L + + ++   V K+E G +    + L  ++   +  +    
Sbjct: 5   IGQEIAKRRKDKQITQTELADFMSVSKASVSKWETGQSYPDITLLPLLAAFFDCSVD--- 61

Query: 75  DVSPTVCSDISSEENNVMDFI-------STPDGLQLNRYFIQ 109
           D+        + E   +   +       S  D L + R FI+
Sbjct: 62  DLLVINSQLTTQEIKRIYQLLKDSFETKSADDVLLMLRGFIR 103


>gi|229073601|ref|ZP_04206721.1| transcriptional regulator [Bacillus cereus F65185]
 gi|228709534|gb|EEL61588.1| transcriptional regulator [Bacillus cereus F65185]
          Length = 186

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 27/65 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+GK+I   R    MSQE+L   + ++ Q +  +E   N      L  +S +    +  
Sbjct: 1  MNIGKQIHYFRKRDNMSQEELAAKIHVSRQSISNWENERNYPDIHNLLIMSILFNVSLDD 60

Query: 73 FFDVS 77
               
Sbjct: 61 LVKGD 65


>gi|227508228|ref|ZP_03938277.1| XRE family transcriptional regulator [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
 gi|227192457|gb|EEI72524.1| XRE family transcriptional regulator [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
          Length = 244

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          ++ G+++++RR  L ++Q +L + L +T Q V ++E          L  +S+ 
Sbjct: 1  MDFGEQLQIRRKQLNLTQAQLAQKLHVTRQTVSRWENNATYPNLDILVEMSDF 53


>gi|116511497|ref|YP_808713.1| XRE family transcriptional regulator [Lactococcus lactis subsp.
          cremoris SK11]
 gi|116107151|gb|ABJ72291.1| Transcriptional regulator, xre family [Lactococcus lactis subsp.
          cremoris SK11]
          Length = 85

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 26/54 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           IR  R+ +G++Q +L E L  + Q V  +EKG        L+ ++ +    + 
Sbjct: 28 NIRNERLAIGLTQNQLAEQLQFSKQAVYNWEKGKCEPNIETLKALATLFNISVD 81


>gi|85709950|ref|ZP_01041015.1| transcriptional regulator, Cro/CI family protein [Erythrobacter
          sp. NAP1]
 gi|85688660|gb|EAQ28664.1| transcriptional regulator, Cro/CI family protein [Erythrobacter
          sp. NAP1]
          Length = 63

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+++ R     SQ+ L + LG++ Q V   EKG          +ISEV   PI   F
Sbjct: 3  NRLKVLRAERDWSQQDLADRLGVSRQSVNAIEKGRYDPSLPLAFNISEVFGLPIEEIF 60


>gi|330470351|ref|YP_004408094.1| helix-turn-helix domain-containing protein [Verrucosispora maris
          AB-18-032]
 gi|328813322|gb|AEB47494.1| helix-turn-helix domain protein [Verrucosispora maris AB-18-032]
          Length = 226

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 5/69 (7%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +K +P+     VG  IR  R    +S  +L E  G++   + + E+G+ R  A  LQ
Sbjct: 1  MATSKDLPD-----VGGFIRDLRRNAKISLRQLAEQAGVSNPYLSQIERGLRRPSAEVLQ 55

Query: 61 HISEVLESP 69
           ++  L   
Sbjct: 56 QLASALRVS 64


>gi|323353576|ref|ZP_08088109.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          VMC66]
 gi|322121522|gb|EFX93285.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          VMC66]
          Length = 170

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74 FDVSPTVCSDIS-SEENNVMDFIS 96
          F  S  +  + S  E N   D +S
Sbjct: 67 FGTSKEIELEKSVLESNEYSDKVS 90


>gi|262371152|ref|ZP_06064473.1| RtrR protein [Acinetobacter johnsonii SH046]
 gi|262313882|gb|EEY94928.1| RtrR protein [Acinetobacter johnsonii SH046]
          Length = 70

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 28/58 (48%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + I +G+ IR +R     +QE L    GI    + + E+G   +   +L  I+ +L+ 
Sbjct: 4  LSIEIGQLIRKKRKEKKFTQEALALQCGIDRSYLGRIERGEVNITVLKLYEIAHILKV 61


>gi|83648921|ref|YP_437356.1| Zn peptidase [Hahella chejuensis KCTC 2396]
 gi|83636964|gb|ABC32931.1| predicted Zn peptidase [Hahella chejuensis KCTC 2396]
          Length = 387

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 6/77 (7%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R  L R   G+++  L + +G+T + +  YE G     +  ++ I+  L  P+ FFF   
Sbjct: 6  RFALARKRRGLTKRALAKEVGVTDRSITAYESGQTVPESQTVEKIASALRFPVEFFF--- 62

Query: 78 PTVCSDISSEENNVMDF 94
               D+      V  F
Sbjct: 63 ---ADDVEELPVEVASF 76


>gi|154244764|ref|YP_001415722.1| helix-turn-helix domain-containing protein [Xanthobacter
           autotrophicus Py2]
 gi|154158849|gb|ABS66065.1| helix-turn-helix domain protein [Xanthobacter autotrophicus Py2]
          Length = 425

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 3/66 (4%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS--RLQHISEVLESPISFFFDVSP 78
             R+  GMSQ  L E L +  QQVQ+YE   + +GAS  RL  IS+ L    S  F+   
Sbjct: 82  QARIASGMSQTDLAEKLRMKPQQVQRYE-ATDYMGASLGRLIEISKALGVKASGSFEGPK 140

Query: 79  TVCSDI 84
                +
Sbjct: 141 PAGGSV 146


>gi|150017576|ref|YP_001309830.1| XRE family transcriptional regulator [Clostridium beijerinckii
           NCIMB 8052]
 gi|149904041|gb|ABR34874.1| transcriptional regulator, XRE family [Clostridium beijerinckii
           NCIMB 8052]
          Length = 343

 Score = 54.0 bits (129), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/100 (17%), Positives = 47/100 (47%), Gaps = 2/100 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + + IR  R    ++QE++ + L ++   V K+E GV+    + L  ++ VL+  ++ 
Sbjct: 1   MMISEVIRHYRKKENLTQEQVADYLNVSTPAVNKWENGVSYPDITLLPPLARVLKIDVNT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
               +  +      +    +   ++ +G++  + F + +D
Sbjct: 61  LLAFNEELTDTEVKKLTKEVGETASKEGIK--KAFEKGND 98


>gi|325697795|gb|EGD39679.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK160]
 gi|327466976|gb|EGF12490.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK330]
          Length = 170

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74 FDVSPTVCSDIS-SEENNVMDFIS 96
          F  S  +  + S  E N   D +S
Sbjct: 67 FGTSKEIELEKSVLESNEYSDKVS 90


>gi|311279146|ref|YP_003941377.1| helix-turn-helix domain-containing protein [Enterobacter cloacae
           SCF1]
 gi|308748341|gb|ADO48093.1| helix-turn-helix domain protein [Enterobacter cloacae SCF1]
          Length = 129

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 48/109 (44%), Gaps = 13/109 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+R++  R    +SQ +L +  G  T  +V  YE GV  +G      ++ +L++  SF 
Sbjct: 8   IGERLKALRESKNLSQAQLSKLCGWATASRVGNYELGVRNIGVDDAVVLARILDTSPSFL 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                    +   E+             ++ + F Q+ + + + ++I+L
Sbjct: 68  LFGDEVSQGNELPEKQ-----------RRMLKLFTQLPESE-QDRMIDL 104


>gi|312198964|ref|YP_004019025.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
 gi|311230300|gb|ADP83155.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
          Length = 221

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 12/79 (15%), Positives = 32/79 (40%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +  ++R  R   G++  +L    GI+   + K E        + L  +++ L+ P+
Sbjct: 32  LERLIAAQVRRLRQGAGLTLAELATRSGISKPMLSKIENANTSCSLTTLARLADALDVPV 91

Query: 71  SFFFDVSPTVCSDISSEEN 89
           +  F  +      + +   
Sbjct: 92  TALFRGADDQREAVFTPAG 110


>gi|229039980|ref|ZP_04189744.1| Transcriptional regulator Xre [Bacillus cereus AH676]
 gi|228727388|gb|EEL78581.1| Transcriptional regulator Xre [Bacillus cereus AH676]
          Length = 82

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 27/55 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE   + LG++   + + E+G        +  +++ L   I
Sbjct: 22 GRRIRAFRKLKGYTQEGFAKELGVSVSVLGEVERGNRSPSQDFVVEVAKALNVSI 76


>gi|262200762|ref|YP_003271970.1| hypothetical protein Gbro_0761 [Gordonia bronchialis DSM 43247]
 gi|262084109|gb|ACY20077.1| Protein of unknown function DUF2083,transcriptional regulator
          [Gordonia bronchialis DSM 43247]
          Length = 475

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 26/60 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+R  R   G+SQ  L + L ++   + + E     +    L HI+E       FF
Sbjct: 5  YVGSRLRQLRSERGLSQVALAQTLSLSPSYLNQIEHDARPLTPKVLSHITEAFGVDAGFF 64


>gi|188589861|ref|YP_001921889.1| transcriptional regulator, Cro/CI family [Clostridium botulinum E3
           str. Alaska E43]
 gi|188500142|gb|ACD53278.1| transcriptional regulator, Cro/CI family [Clostridium botulinum E3
           str. Alaska E43]
          Length = 160

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 25/110 (22%), Positives = 52/110 (47%), Gaps = 13/110 (11%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFFFDVS 77
           IR RR  L ++ E+LG+ +G+    V+K+E G+   + +  +  +++ L    S      
Sbjct: 7   IRKRREELDLTYEQLGKIVGVGKSTVRKWETGMIGNLRSDNILALAKGLNLSPSTLMGW- 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD---VKVRQKIIELVR 124
                   +EE N  DF  T +  +L  ++ +++D    +  +++ EL  
Sbjct: 66  --------TEEENTYDFNLTKEETKLLEHYNKLNDLGKKEANKRVAELTE 107


>gi|160937081|ref|ZP_02084444.1| hypothetical protein CLOBOL_01970 [Clostridium bolteae ATCC
          BAA-613]
 gi|158439982|gb|EDP17730.1| hypothetical protein CLOBOL_01970 [Clostridium bolteae ATCC
          BAA-613]
          Length = 119

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GKRI+++R+   M+QEKL E  G++   +   E G  +V    L  I+  LE    
Sbjct: 8  IGKRIKIQRIQREMTQEKLAELTGLSNPHISNVETGSTQVSLKSLIAIANALEITPD 64


>gi|77463742|ref|YP_353246.1| transcriptional regulator [Rhodobacter sphaeroides 2.4.1]
 gi|77388160|gb|ABA79345.1| Predicted transcriptional regulators [Rhodobacter sphaeroides
          2.4.1]
          Length = 428

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 35/98 (35%), Gaps = 11/98 (11%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+    G R+R RR+ LG+ Q  L    GI+   +   E    R+G   L  ++  L+  
Sbjct: 2  PMTALTGSRVRERRLQLGLRQADLARAAGISASYLNLIEHNRRRIGDEVLARLARALKVE 61

Query: 70 ISFFFDVSP-----------TVCSDISSEENNVMDFIS 96
                 +                D   E + V DF+ 
Sbjct: 62 AQTLLAGAEGVLVEDLRAAAASAGDDQPELDRVEDFVG 99


>gi|29375989|ref|NP_815143.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          V583]
 gi|29343451|gb|AAO81213.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          V583]
          Length = 107

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/89 (14%), Positives = 31/89 (34%), Gaps = 6/89 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
          G R+   R    ++Q  +   LG+       YE+G           I++     + +   
Sbjct: 3  GTRLTELRKQKKLTQTDVANALGVARTTYSSYEQGRRTPDIDIQNKIADYFNVSLDYLHG 62

Query: 74 ---FDVSPTVCSDISSEENNVMDFISTPD 99
             F+ +      ++   + + D +S  +
Sbjct: 63 RESFEDTSLSKKQLTVAAH-IDDNVSDTE 90


>gi|157833618|pdb|1R63|A Chain A, Structural Role Of A Buried Salt Bridge In The 434
          Repressor Dna-Binding Domain, Nmr, 20 Structures
          Length = 63

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  R++ +R+ LG++Q +L + +G T Q +++ E G  +     L  ++  L   + +  
Sbjct: 2  ISSRVKSKRIQLGLNQAELAQKVGTTQQSIEQLENGKTK-RPRFLPELASALGVSVDWLL 60

Query: 75 DV 76
          + 
Sbjct: 61 NG 62


>gi|319946276|ref|ZP_08020516.1| transcriptional regulator [Streptococcus australis ATCC 700641]
 gi|319747658|gb|EFV99911.1| transcriptional regulator [Streptococcus australis ATCC 700641]
          Length = 158

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 25/55 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGENIKALRKTHDLTQPEFAKIVGISRNSLSRYENGTSSVSTELIDRICQKFNVS 56


>gi|317407356|gb|EFV87322.1| XRE family Transcriptional regulator [Achromobacter xylosoxidans
          C54]
          Length = 63

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 22/58 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RIR  R   G SQ  L E L ++ Q V   E G           I+ V   PI   F
Sbjct: 3  NRIRDLRAERGWSQAALAEQLNVSRQTVNAIETGRYDPSLPLAFAIARVFGQPIEAIF 60


>gi|295108159|emb|CBL22112.1| Helix-turn-helix. [Ruminococcus obeum A2-162]
          Length = 110

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 29/112 (25%), Positives = 46/112 (41%), Gaps = 8/112 (7%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G RI        MSQ +L +  GIT   + +Y KG      + L +I+  L +   F 
Sbjct: 4   NLGGRIAELLTQYNMSQRELADKAGITEVSMSRYIKGDRVPKGTTLANIATALHTTTDFL 63

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
            +   +   D  SE   +   I+        R   Q+   + R+ II L+ S
Sbjct: 64  LNGEGSGTGDFESEYYQIHRLIA--------RNASQMSPKQRRELIIALLES 107


>gi|269102614|ref|ZP_06155311.1| putative cI prophage repressor protein [Photobacterium damselae
          subsp. damselae CIP 102761]
 gi|268162512|gb|EEZ41008.1| putative cI prophage repressor protein [Photobacterium damselae
          subsp. damselae CIP 102761]
          Length = 220

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 25/54 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          VG R++  R   G+SQ+ L +  G    +V  YE G+  +       +++ L  
Sbjct: 7  VGLRLKQFRAKRGISQKDLADLCGWGASRVSNYESGIRSISLDDADTLAKHLGI 60


>gi|237748842|ref|ZP_04579322.1| predicted protein [Oxalobacter formigenes OXCC13]
 gi|229380204|gb|EEO30295.1| predicted protein [Oxalobacter formigenes OXCC13]
          Length = 99

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 23/96 (23%), Positives = 35/96 (36%), Gaps = 6/96 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS- 71
           +++G  I+  R+  G SQ KL E    +   +   E     +  S LQ I   L  PI  
Sbjct: 1   MDIGNAIKTCRIRRGYSQTKLAELAECSVSYLSLIEHNQRDITLSTLQKICHALHVPIGI 60

Query: 72  -FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             F   S     ++S E    ++       L L   
Sbjct: 61  LLFLGTSHDEFGEMSKE----LEAELAKSTLVLLSA 92


>gi|218259484|ref|ZP_03475207.1| hypothetical protein PRABACTJOHN_00865 [Parabacteroides johnsonii
          DSM 18315]
 gi|218225077|gb|EEC97727.1| hypothetical protein PRABACTJOHN_00865 [Parabacteroides johnsonii
          DSM 18315]
          Length = 196

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 39/82 (47%), Gaps = 7/82 (8%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          ++GN KI       +G +I+  R    +S +++ E  G++ +Q+++ E  ++    + L 
Sbjct: 2  LMGNNKI-------IGAKIKSIRESKQLSTQEVSERSGLSIEQIERIEGNIDFPSLAPLI 54

Query: 61 HISEVLESPISFFFDVSPTVCS 82
           I+ VL   +  F D    +  
Sbjct: 55 KIARVLGVRLGTFLDDQSELGP 76


>gi|152965999|ref|YP_001361783.1| XRE family transcriptional regulator [Kineococcus radiotolerans
          SRS30216]
 gi|151360516|gb|ABS03519.1| transcriptional regulator, XRE family [Kineococcus radiotolerans
          SRS30216]
          Length = 96

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 27/75 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R  LGM+Q +L + + +T Q V   E G           I+  L   +   F  
Sbjct: 20 NRVRTTRTALGMTQAELADAVEVTRQTVVAVEAGNYAPSVYLALAIAHRLGRSVEELFGP 79

Query: 77 SPTVCSDISSEENNV 91
          +       S     V
Sbjct: 80 AGAPSRPDSHPATEV 94


>gi|150376587|ref|YP_001313183.1| XRE family transcriptional regulator [Sinorhizobium medicae
          WSM419]
 gi|150031134|gb|ABR63250.1| transcriptional regulator, XRE family [Sinorhizobium medicae
          WSM419]
          Length = 193

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 27/66 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R+   +   +L    G++   + K E+G        L  I+ V    +  FF
Sbjct: 15 IGPRIKALRLRKKLGLVQLAGHTGLSPAMLSKIERGQMFPTLPTLLRIAMVFGVGLDHFF 74

Query: 75 DVSPTV 80
          +V    
Sbjct: 75 NVDKEE 80


>gi|78187660|ref|YP_375703.1| hypothetical protein Plut_1806 [Chlorobium luteolum DSM 273]
 gi|78167562|gb|ABB24660.1| conserved hypothetical protein [Chlorobium luteolum DSM 273]
          Length = 370

 Score = 53.7 bits (128), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 29/60 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +   +R  R +   SQ++L E  G++   ++  E   +    S LQ I+  L+ P+  FF
Sbjct: 6  LSANVRRLRSMKRFSQKELAEAAGMSLPAIKNLELQKSEPRMSSLQAIARALDVPLQDFF 65


>gi|333025545|ref|ZP_08453609.1| putative transcriptional regulator [Streptomyces sp. Tu6071]
 gi|332745397|gb|EGJ75838.1| putative transcriptional regulator [Streptomyces sp. Tu6071]
          Length = 209

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 32/71 (45%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +D  V KR+R  R+  G S E+L     ++   + + E G  R+    L  ++  L++
Sbjct: 6  DDLDSLVRKRVRALRVAQGWSLEELARRANLSQSTLSRIENGQRRLALDSLVTLARALDT 65

Query: 69 PISFFFDVSPT 79
           +    + +  
Sbjct: 66 SLDQLVETASD 76


>gi|310659824|ref|YP_003937545.1| hypothetical protein CLOST_2525 [Clostridium sticklandii DSM 519]
 gi|308826602|emb|CBH22640.1| protein of unknown function [Clostridium sticklandii]
          Length = 102

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 27/61 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RIR  R I  ++Q +L E +  +   +   E+         L+ I+E      S+
Sbjct: 1  MTIGERIRQLRRIKDVTQRELAESVNFSHSYIGDLERNRTNPSIKALEIIAEYFNVDTSY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|294495678|ref|YP_003542171.1| transcriptional regulator [Methanohalophilus mahii DSM 5219]
 gi|292666677|gb|ADE36526.1| transcriptional regulator [Methanohalophilus mahii DSM 5219]
          Length = 183

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 33/67 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R++  R + G+S E++   L I+ ++  KYE G   + AS L  I+++L+  ++ 
Sbjct: 6  KEISSRVKELRGLSGISTEEIASNLDISLEEYNKYESGELDIPASILFEIAQLLKVDMTV 65

Query: 73 FFDVSPT 79
                 
Sbjct: 66 LLTGEDP 72


>gi|293401684|ref|ZP_06645826.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291304942|gb|EFE46189.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 201

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 32/81 (39%), Gaps = 2/81 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +++  R  L  SQ+   E LGI    +  YE   N      L +I++     + +  
Sbjct: 7  LGDKLQYLRKTLTFSQKDFAEFLGIPQPSLSAYENNRNSPTVDVLINIAKKCNISLDWL- 65

Query: 75 DVSPTVCSDISSEENNVMDFI 95
              +      S   +V DF+
Sbjct: 66 -CGISTSKQTLSSLGDVSDFL 85


>gi|257455791|ref|ZP_05621017.1| helix-turn-helix domain protein [Enhydrobacter aerosaccus SK60]
 gi|257446805|gb|EEV21822.1| helix-turn-helix domain protein [Enhydrobacter aerosaccus SK60]
          Length = 70

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 30/69 (43%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N + I  G++IR  R    +SQE+L E  G     +   E+G        ++  +   
Sbjct: 1  MENDILIKFGQKIRQLRKAKNLSQEQLAELTGFHRNYIGMVERGERNPALVNIEIFANAF 60

Query: 67 ESPISFFFD 75
          +  +S  FD
Sbjct: 61 DLSLSELFD 69


>gi|168188074|ref|ZP_02622709.1| DNA-binding protein [Clostridium botulinum C str. Eklund]
 gi|169294075|gb|EDS76208.1| DNA-binding protein [Clostridium botulinum C str. Eklund]
          Length = 184

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 30/66 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK ++  R    MS + + +  G++   + + E+G +    S L  I+  L+   S F 
Sbjct: 8  IGKNLKTIRNKKNMSLDNVCKLTGVSKAMLGQIERGESNPTVSTLWRIATGLKISFSSFI 67

Query: 75 DVSPTV 80
          D S   
Sbjct: 68 DESKET 73


>gi|197122398|ref|YP_002134349.1| XRE family transcriptional regulator [Anaeromyxobacter sp. K]
 gi|220917180|ref|YP_002492484.1| transcriptional regulator, XRE family [Anaeromyxobacter
          dehalogenans 2CP-1]
 gi|196172247|gb|ACG73220.1| transcriptional regulator, XRE family [Anaeromyxobacter sp. K]
 gi|219955034|gb|ACL65418.1| transcriptional regulator, XRE family [Anaeromyxobacter
          dehalogenans 2CP-1]
          Length = 81

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +G+R+R  R   GM+QE L E L ++   V   E+G      + +  I+  L  P
Sbjct: 17 RRLGERVREHRRGRGMTQEALAEALDLSVAYVSLIERGGRNPPYTTVVAIARALGIP 73


>gi|306521451|ref|ZP_07407798.1| putative phage DNA-binding protein [Clostridium difficile
          QCD-32g58]
          Length = 166

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 33/72 (45%), Gaps = 1/72 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK ++  R    ++Q +L E  GI+   +  YE          L  +++ L+   + 
Sbjct: 1  MQIGKNLKKIRKQKELTQIQLAEISGISRNALINYENDKRIPSIDTLSKLAKALKIEKTI 60

Query: 73 F-FDVSPTVCSD 83
          F FD+   V ++
Sbjct: 61 FYFDIENEVMTN 72


>gi|38233250|ref|NP_939017.1| putative DNA-binding protein [Corynebacterium diphtheriae NCTC
           13129]
 gi|38199509|emb|CAE49160.1| Putative DNA-binding protein [Corynebacterium diphtheriae]
          Length = 193

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 30/78 (38%), Gaps = 6/78 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN------RVGASRLQHISEVLESP 69
           G R+   R + G++Q+ L E   ++  Q+   E+  N          S +  ++  L  P
Sbjct: 26  GVRLHKLRRLRGLTQDGLAEIANLSRNQISNLERNENSATKSSDPTMSTIYRLARALHVP 85

Query: 70  ISFFFDVSPTVCSDISSE 87
            +          +DI  +
Sbjct: 86  PAALMPAVGDYVTDICQD 103


>gi|28377505|ref|NP_784397.1| prophage Lp1 protein 8 [Lactobacillus plantarum WCFS1]
 gi|28270337|emb|CAD63238.1| prophage Lp1 protein 8 [Lactobacillus plantarum WCFS1]
          Length = 120

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/85 (20%), Positives = 36/85 (42%), Gaps = 1/85 (1%)

Query: 17  KRIRLRRM-ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           +R++  R    G++QE+L   LG+    +  YE+G  +     L  I++       +   
Sbjct: 4   ERLKELRKREAGLTQERLAMQLGMAKTTLASYEQGKRQPDLETLSKIADRFSVTTDYLLG 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDG 100
            + T       +  ++ DF+   +G
Sbjct: 64  KNGTPKWATKKDTIDLKDFLEANEG 88


>gi|56808631|ref|ZP_00366358.1| COG1396: Predicted transcriptional regulators [Streptococcus
          pyogenes M49 591]
          Length = 195

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I   R    +SQE+L E + ++ Q +  +E          L  +S++ +  ++
Sbjct: 1  MEIGQQIIRYRKQQALSQEELAEKVYVSRQSISNWENDKTYPDIHSLLLLSQIFQVSLN 59


>gi|323485634|ref|ZP_08090973.1| transcriptional regulator [Clostridium symbiosum WAL-14163]
 gi|323401045|gb|EGA93404.1| transcriptional regulator [Clostridium symbiosum WAL-14163]
          Length = 289

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 27/66 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + ++  R    ++QE+  E + ++ Q V K+E G +     +L  I E     +      
Sbjct: 5  ENLQYLRKKQNLTQEQFAEQMEVSRQAVSKWESGQSYPEMEKLLQICEQFGCSMDSLIKG 64

Query: 77 SPTVCS 82
            T  +
Sbjct: 65 DVTEAA 70


>gi|295102573|emb|CBL00118.1| Predicted transcriptional regulator [Faecalibacterium prausnitzii
          L2-6]
          Length = 138

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 33/69 (47%), Gaps = 1/69 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPISFFFD 75
          +R++ +R    ++Q +L E  G+T + +Q YE G  +      +Q I++ L +   +   
Sbjct: 5  ERLKEKRTEANLTQVELAEKAGVTARTIQNYELGSRKPSNMVTMQKIADALNTTTEYLLG 64

Query: 76 VSPTVCSDI 84
           S T   + 
Sbjct: 65 SSGTYVVEA 73


>gi|227878081|ref|ZP_03996068.1| possible transcriptional regulator [Lactobacillus crispatus JV-V01]
 gi|227862319|gb|EEJ69851.1| possible transcriptional regulator [Lactobacillus crispatus JV-V01]
          Length = 196

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 27/112 (24%), Positives = 51/112 (45%), Gaps = 13/112 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G  +R  R  LG++Q+++ +   IT     K EKG NR+    L  I +     +S+
Sbjct: 1   MDIGTALRHLRDDLGLTQKQMIQGTKITVSHYSKLEKGQNRIFIENLVEILKQRNISLSY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI---QIDDVKVRQKIIE 121
           F D    +  + S +E N  +         LN  F    +I   +++++I  
Sbjct: 61  FVDHY--LNDENSEKEVNYSEI--------LNIAFYEKDKIAAEEIKRQIFS 102


>gi|222142571|ref|YP_002559327.1| hypothetical protein MCCL_plsA0010 [Macrococcus caseolyticus
          JCSC5402]
 gi|222121340|dbj|BAH18674.1| conserved hypothetical protein [Macrococcus caseolyticus
          JCSC5402]
          Length = 280

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 35/66 (53%), Gaps = 1/66 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G+ I+ +R  + M+Q +L   +  T  Q+ K EKG     +  L  I++ L+  +  
Sbjct: 2  LNIGEFIKNKRNEMNMTQIQLSNGI-CTQGQISKIEKGEIDPSSEILVKIAQKLDFSLDD 60

Query: 73 FFDVSP 78
           F+++ 
Sbjct: 61 LFNLTS 66


>gi|163940975|ref|YP_001645859.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|163863172|gb|ABY44231.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
          Length = 242

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I++ K I  +R   G++QE+L   +GIT   V K+E G +    + +  ++      I 
Sbjct: 4  IHIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFVPLLASYFNISID 62


>gi|328882934|emb|CCA56173.1| hypothetical protein SVEN_2887 [Streptomyces venezuelae ATCC
          10712]
          Length = 62

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 29/60 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+R  RM   ++Q+++GE  G+    +Q+ E G        +  +++ +  P    F+
Sbjct: 3  GARVRDARMYANLTQQRVGELSGLARATIQEIESGRAAPTVDTVLLLADAIGVPPGVLFE 62


>gi|306825347|ref|ZP_07458687.1| transcriptional regulator [Streptococcus sp. oral taxon 071 str.
          73H25AP]
 gi|304432285|gb|EFM35261.1| transcriptional regulator [Streptococcus sp. oral taxon 071 str.
          73H25AP]
          Length = 158

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 26/55 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ I+  R    ++Q +  + +GI+   + +YE G++ V    +  I +     
Sbjct: 2  IGENIKALRKTHNLTQPEFAKIVGISRNSLSRYENGISSVSTELIDRICKKFNVS 56


>gi|253730501|ref|ZP_04864666.1| transcription regulator [Staphylococcus aureus subsp. aureus
          USA300_TCH959]
 gi|253725750|gb|EES94479.1| transcription regulator [Staphylococcus aureus subsp. aureus
          USA300_TCH959]
          Length = 391

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK +   R +  +S+++L E + ++ Q + +YE        S++  ++ +     S+
Sbjct: 1  MFIGKNLEYVRKLNALSRKELSEKINVSEQAIWQYETKNMMPEISKIYDMTSIFNVKSSY 60

Query: 73 FFDVSPTV 80
          F    P  
Sbjct: 61 FISEQPEE 68


>gi|239834287|ref|ZP_04682615.1| Repressor protein C [Ochrobactrum intermedium LMG 3301]
 gi|239822350|gb|EEQ93919.1| Repressor protein C [Ochrobactrum intermedium LMG 3301]
          Length = 264

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 14/89 (15%), Positives = 33/89 (37%), Gaps = 1/89 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D +   R++  R+   MSQ +L + +G     +   E G        +  +++ L    
Sbjct: 36  MDKDFAFRLKNARVARDMSQAQLADLVGRDKSAISLLESGKRGASVDFVARLAKALNVRE 95

Query: 71  SFF-FDVSPTVCSDISSEENNVMDFISTP 98
            +  F+    +  +  +E     D  +  
Sbjct: 96  DWLAFEKGDMIGQEERAELERPADIFTPK 124


>gi|228478091|ref|ZP_04062702.1| transcriptional regulator, xre family [Streptococcus salivarius
          SK126]
 gi|228250271|gb|EEK09524.1| transcriptional regulator, xre family [Streptococcus salivarius
          SK126]
          Length = 169

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74 FDVSPTVCSDIS-SEENNVMDFIS 96
          F  S  +  + S  E N   D +S
Sbjct: 67 FGTSKEIELEKSVLESNEYSDKVS 90


>gi|254510314|ref|ZP_05122381.1| transcriptional regulator, XRE family with cupin sensor
           [Rhodobacteraceae bacterium KLH11]
 gi|221534025|gb|EEE37013.1| transcriptional regulator, XRE family with cupin sensor
           [Rhodobacteraceae bacterium KLH11]
          Length = 211

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 29/63 (46%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R   G+S E +    G++   V + E+G +    S L +++  L+   +   D 
Sbjct: 38  ARLKEARRAKGLSLEAVANLSGVSRSMVSQIERGESSPTISTLWNLTRALQVDFAGLLDG 97

Query: 77  SPT 79
           + T
Sbjct: 98  AKT 100


>gi|254416780|ref|ZP_05030530.1| hypothetical protein MC7420_100 [Microcoleus chthonoplastes PCC
          7420]
 gi|254417544|ref|ZP_05031282.1| hypothetical protein MC7420_5296 [Microcoleus chthonoplastes PCC
          7420]
 gi|196175642|gb|EDX70668.1| hypothetical protein MC7420_5296 [Microcoleus chthonoplastes PCC
          7420]
 gi|196176520|gb|EDX71534.1| hypothetical protein MC7420_100 [Microcoleus chthonoplastes PCC
          7420]
          Length = 77

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 35/70 (50%), Gaps = 2/70 (2%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG--VNRVGASRLQHISEVLESPISFF 73
          G ++   R  LG++Q+++ + +G+T Q V  +E G    R+   + Q +  +L+ P+   
Sbjct: 4  GHKLMKLRKRLGLTQKQVADAVGVTDQTVSNWEAGRFEPRLTIRQTQALCSILQCPLDEL 63

Query: 74 FDVSPTVCSD 83
             +    SD
Sbjct: 64 PSFNEAQESD 73


>gi|166032930|ref|ZP_02235759.1| hypothetical protein DORFOR_02651 [Dorea formicigenerans ATCC
          27755]
 gi|167766611|ref|ZP_02438664.1| hypothetical protein CLOSS21_01117 [Clostridium sp. SS2/1]
 gi|218132240|ref|ZP_03461044.1| hypothetical protein BACPEC_00097 [Bacteroides pectinophilus ATCC
          43243]
 gi|225026928|ref|ZP_03716120.1| hypothetical protein EUBHAL_01184 [Eubacterium hallii DSM 3353]
 gi|323487598|ref|ZP_08092888.1| hypothetical protein HMPREF9474_04639 [Clostridium symbiosum
          WAL-14163]
 gi|166027287|gb|EDR46044.1| hypothetical protein DORFOR_02651 [Dorea formicigenerans ATCC
          27755]
 gi|167711734|gb|EDS22313.1| hypothetical protein CLOSS21_01117 [Clostridium sp. SS2/1]
 gi|217992849|gb|EEC58849.1| hypothetical protein BACPEC_00097 [Bacteroides pectinophilus ATCC
          43243]
 gi|224955739|gb|EEG36948.1| hypothetical protein EUBHAL_01184 [Eubacterium hallii DSM 3353]
 gi|291526845|emb|CBK92431.1| Helix-turn-helix [Eubacterium rectale M104/1]
 gi|291535072|emb|CBL08184.1| Helix-turn-helix [Roseburia intestinalis M50/1]
 gi|291558633|emb|CBL37433.1| Helix-turn-helix [butyrate-producing bacterium SSC/2]
 gi|323399097|gb|EGA91505.1| hypothetical protein HMPREF9474_04639 [Clostridium symbiosum
          WAL-14163]
          Length = 209

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R + RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   I 
Sbjct: 8  KLIGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ ++ 
Sbjct: 68 WLRGETDEYETDITDKKE 85


>gi|118476856|ref|YP_894007.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|118416081|gb|ABK84500.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
          Length = 114

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 9  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 68

Query: 74 FDVSPTVCSDISSE 87
               T  +++ SE
Sbjct: 69 LHDETTKEANLDSE 82


>gi|9635004|ref|NP_056720.1| putative DNA binding protein [Streptococcus phage Sfi11]
 gi|7523564|gb|AAF63067.1|AF158600_21 putative DNA binding protein [Streptococcus phage Sfi11]
          Length = 167

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 12/74 (16%), Positives = 33/74 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+ L R    +++ +L E +G++   V K E G +++     + +++     + +   +
Sbjct: 2  NRLYLLRESRKITRVELAEKIGVSKLTVLKLEHGTSKISRREAKKLADFFGVSVGYLLGL 61

Query: 77 SPTVCSDISSEENN 90
            T    + ++ N 
Sbjct: 62 DTTENDSLIAKINE 75


>gi|57641201|ref|YP_183679.1| transcription regulator [Thermococcus kodakarensis KOD1]
 gi|57159525|dbj|BAD85455.1| predicted transcription regulator, containing CBS domains
          [Thermococcus kodakarensis KOD1]
          Length = 192

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 21/60 (35%), Positives = 30/60 (50%), Gaps = 3/60 (5%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          IP P+D    + IR  R  LG++QE+L +  G+T   + K E G      S L  I + L
Sbjct: 4  IPRPIDP---REIRKIRKELGITQEELAKKAGVTQAYIAKLEAGKVDPRLSTLNRILQAL 60


>gi|322390777|ref|ZP_08064288.1| cro/CI family transcriptional regulator [Streptococcus
          parasanguinis ATCC 903]
 gi|321142532|gb|EFX37999.1| cro/CI family transcriptional regulator [Streptococcus
          parasanguinis ATCC 903]
          Length = 169

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74 FDVSPTVCSDIS-SEENNVMDFIS 96
          F  S  +  + S  E N   D +S
Sbjct: 67 FGTSKEIELEKSVLESNEYSDKVS 90


>gi|319442546|ref|ZP_07991702.1| putative regulatory protein [Corynebacterium variabile DSM 44702]
          Length = 104

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 28/62 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R+ R    MS+ +L E +G+  Q V   E+G +         I E+   P+   F  
Sbjct: 11 NRVRVLRAERDMSRAQLAELIGVNPQTVGALERGDHSPSLDLAFRICEIFSLPVEAVFSR 70

Query: 77 SP 78
          +P
Sbjct: 71 TP 72


>gi|296330703|ref|ZP_06873180.1| Phage PBSX transcriptional regulator [Bacillus subtilis subsp.
           spizizenii ATCC 6633]
 gi|305673960|ref|YP_003865632.1| Phage PBSZ transcriptional regulator [Bacillus subtilis subsp.
           spizizenii str. W23]
 gi|296152167|gb|EFG93039.1| Phage PBSX transcriptional regulator [Bacillus subtilis subsp.
           spizizenii ATCC 6633]
 gi|305412204|gb|ADM37323.1| Phage PBSZ transcriptional regulator [Bacillus subtilis subsp.
           spizizenii str. W23]
          Length = 113

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 22/120 (18%), Positives = 45/120 (37%), Gaps = 16/120 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R++  R     +QE++   +G++  +   YE G +      LQ +++  +    +  
Sbjct: 2   IGSRLKSLRGKR--TQEEIASHIGVSRARYSHYENGRSEPDYDTLQKLADYFQVTTDYLL 59

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVRSIVSSEKK 132
                   D         D  S P    L   +  + D   + +Q+ IE +  +   EK 
Sbjct: 60  TGKDKKSDD---------DMFSDP---DLQVAYRDMQDFSPESKQQAIEFINYLKEKEKN 107


>gi|291548979|emb|CBL25241.1| Predicted transcriptional regulators [Ruminococcus torques L2-14]
 gi|295110025|emb|CBL23978.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 67

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 29/57 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +++ R+  G++QE+L E +G+  + + + EK            IS VL +PI   F
Sbjct: 8  NLKVYRVAQGLTQEQLAEKVGVRRETIMRLEKAQYNPSLKLAIDISRVLNAPIEDIF 64


>gi|326204926|ref|ZP_08194779.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
 gi|325984975|gb|EGD45818.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
          Length = 110

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/97 (17%), Positives = 33/97 (34%), Gaps = 11/97 (11%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            ++  R     SQE L E L  T Q +  YE+G+       L  +++     + +  D  
Sbjct: 6   NLKKLRKQYKYSQEYLAEKLKTTQQNISLYERGLVAPNIETLTQLADCFRVSVDYLIDYK 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
                              + + + L + F ++   K
Sbjct: 66  KDPNHTGL-----------SQEAIDLLKIFDELPHNK 91


>gi|229828089|ref|ZP_04454158.1| hypothetical protein GCWU000342_00139 [Shuttleworthia satelles DSM
           14600]
 gi|229792683|gb|EEP28797.1| hypothetical protein GCWU000342_00139 [Shuttleworthia satelles DSM
           14600]
          Length = 327

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 39/87 (44%), Gaps = 2/87 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
           +I   R   G SQE+L E L ++ Q V K+E   +    +++  +SEV      +    +
Sbjct: 6   KIIDLRKKNGWSQEELAEKLDVSRQSVSKWEGARSVPDMNKILRLSEVFAVSTDYLLKDE 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
           +S    +++  +  +    +S  + + 
Sbjct: 66  ISAPEGTNVPVDTESEAVRVSMEEAVD 92


>gi|256419075|ref|YP_003119728.1| helix-turn-helix domain protein [Chitinophaga pinensis DSM 2588]
 gi|256033983|gb|ACU57527.1| helix-turn-helix domain protein [Chitinophaga pinensis DSM 2588]
          Length = 347

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 27/68 (39%), Gaps = 3/68 (4%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            G+R++  R I G S + L       IT Q + KYE  V       L  +S  L     
Sbjct: 3  YFGERLKAARKIKGWSLQDLANQTANSITKQALSKYEADVMHPSRKILLLLSAALGVKPG 62

Query: 72 FFFDVSPT 79
          +F +  P 
Sbjct: 63 YF-EGQPA 69


>gi|163938083|ref|YP_001642967.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|229165063|ref|ZP_04292859.1| Transcriptional regulator Xre [Bacillus cereus AH621]
 gi|163860280|gb|ABY41339.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
 gi|228618448|gb|EEK75477.1| Transcriptional regulator Xre [Bacillus cereus AH621]
          Length = 67

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+RIR  R + G +QE   + LG++   + + E+G        +  +++ L   I 
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKELGVSVSVLGEVERGNRSPSQDFVVEVAKTLNVSID 62


>gi|94499248|ref|ZP_01305786.1| transcriptional regulator, Cro/CI family protein [Oceanobacter
          sp. RED65]
 gi|94428880|gb|EAT13852.1| transcriptional regulator, Cro/CI family protein [Oceanobacter
          sp. RED65]
          Length = 182

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 6/76 (7%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
          ++VG R++  R   G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1  MDVGTRLKEVRKKSGLSQRELAKRAGVTNSTISMIEKNSVSPSVSSLK---KVLGGIPLS 57

Query: 72 F--FFDVSPTVCSDIS 85
             FF+   T  +   
Sbjct: 58 LTEFFETEDTSQTATP 73


>gi|317499839|ref|ZP_07958077.1| transcriptional regulator [Lachnospiraceae bacterium 8_1_57FAA]
 gi|316898741|gb|EFV20774.1| transcriptional regulator [Lachnospiraceae bacterium 8_1_57FAA]
          Length = 102

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/92 (18%), Positives = 37/92 (40%), Gaps = 4/92 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R+  G+SQ+++ E +G+       YE G      + ++ I++VL         +
Sbjct: 7   ENLKEARIKSGLSQKEVSENIGVAKSTYSLYESGNREPNVNTIKKIADVLNVSADTLLGI 66

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                +  +  + +      T D L   R F 
Sbjct: 67  DEEPTTMAAHFDGDEY----TEDELDEIRQFA 94


>gi|298693412|gb|ADI96634.1| Putative transcription regulator [Staphylococcus aureus subsp.
          aureus ED133]
 gi|323440125|gb|EGA97839.1| transcriptional regulator [Staphylococcus aureus O11]
          Length = 391

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK +   R +  +S+++L E + ++ Q + +YE        S++  ++ +     S+
Sbjct: 1  MFIGKNLEYVRKLNALSRKELSEKINVSEQAIWQYETKNMMPEISKIYDMTSIFNVKSSY 60

Query: 73 FFDVSPTV 80
          F    P  
Sbjct: 61 FISEQPEE 68


>gi|170692962|ref|ZP_02884123.1| transcriptional regulator, XRE family [Burkholderia graminis C4D1M]
 gi|170141960|gb|EDT10127.1| transcriptional regulator, XRE family [Burkholderia graminis C4D1M]
          Length = 190

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 26/136 (19%), Positives = 51/136 (37%), Gaps = 8/136 (5%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV      N   + VG +IR  R  L  + +      GI+   + + E+G+     + L 
Sbjct: 1   MVTTIHKSNSA-LEVGSKIRALRQRLKRTLDDTATAAGISKPFLSQVERGLASPSITSLA 59

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            I+  L   + +F D      S    ++     F  +         F ++ +V   +++ 
Sbjct: 60  GIAHALGVTVQYFVDTPSEERSVSRGDQLKFFGFADS------ANLFARLTNVTGGRQLE 113

Query: 121 E-LVRSIVSSEKKYRT 135
             LV+  V  ++   T
Sbjct: 114 AILVKMPVGQKRSEVT 129


>gi|167820072|ref|ZP_02451752.1| transcriptional regulator, XRE family protein [Burkholderia
          pseudomallei 91]
          Length = 113

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 23/56 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G  IR  R     SQE+L E  G+    V + E+G        +  ++     PI+
Sbjct: 28 GAAIRQLREARAWSQEQLAEHAGLNRSYVGEIERGTAIASIVTVDKLARAFGVPIA 83


>gi|145221479|ref|YP_001132157.1| XRE family transcriptional regulator [Mycobacterium gilvum
          PYR-GCK]
 gi|145213965|gb|ABP43369.1| transcriptional regulator, XRE family [Mycobacterium gilvum
          PYR-GCK]
          Length = 83

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG +IR  R+   M+QE L    G+T   +   E G   +   RL  I++ L+  ++
Sbjct: 21 RLVGAKIRELRIARDMTQEALALRSGVTRNVLIDVEHGRRGLLYERLFDIADALDVNVA 79


>gi|117164576|emb|CAJ88122.1| putative transcriptional regulator [Streptomyces ambofaciens ATCC
          23877]
          Length = 200

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 33/69 (47%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +D  V KRIR  R+  G S E+L     ++   + + E G  R+   +L  I+  L++
Sbjct: 9  DDLDGLVRKRIRALRVAQGWSLEELATRARLSQSSLSRIENGQRRLALDQLVTIARALDT 68

Query: 69 PISFFFDVS 77
           +    + +
Sbjct: 69 TLDQLVETA 77


>gi|92118817|ref|YP_578546.1| hypothetical protein Nham_3355 [Nitrobacter hamburgensis X14]
 gi|91801711|gb|ABE64086.1| protein of unknown function DUF955 [Nitrobacter hamburgensis X14]
          Length = 354

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 1/83 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+ L RM    +   L E  G+    + + E G N    + ++ +S+ L  P++FF D 
Sbjct: 5  RRLSLARMRRRKTARALAEETGLAADTISRLEAGSNAPDETTIEKLSKALGFPVAFFMDA 64

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
           P    D  +        +S  +
Sbjct: 65 DPEDI-DTGAVSFRSFSKMSARE 86


>gi|89895561|ref|YP_519048.1| hypothetical protein DSY2815 [Desulfitobacterium hafniense Y51]
 gi|89335009|dbj|BAE84604.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 91

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 22/68 (32%), Positives = 30/68 (44%), Gaps = 5/68 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECL-----GITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D + G  IR  R   GM+QE+L   L      I+   + K E G+  +    LQ I  +L
Sbjct: 22 DKSFGDNIRKWRNAKGMTQEELSTQLQIHGCDISRGTLAKIEAGIRHISVDELQAIKIIL 81

Query: 67 ESPISFFF 74
          E     FF
Sbjct: 82 EITYEDFF 89


>gi|126462571|ref|YP_001043685.1| helix-turn-helix domain-containing protein [Rhodobacter
          sphaeroides ATCC 17029]
 gi|332558597|ref|ZP_08412919.1| helix-turn-helix domain-containing protein [Rhodobacter
          sphaeroides WS8N]
 gi|126104235|gb|ABN76913.1| helix-turn-helix domain protein [Rhodobacter sphaeroides ATCC
          17029]
 gi|332276309|gb|EGJ21624.1| helix-turn-helix domain-containing protein [Rhodobacter
          sphaeroides WS8N]
          Length = 428

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 27/59 (45%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          P+    G R+R RR+ LG+ Q  L    GI+   +   E    R+G   L  ++  L+ 
Sbjct: 2  PMTALTGSRVRERRLQLGLRQADLARAAGISASYLNLIEHNRRRIGDEVLARLARALKV 60


>gi|69245018|ref|ZP_00603176.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|257879285|ref|ZP_05658938.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|257881898|ref|ZP_05661551.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,502]
 gi|257890113|ref|ZP_05669766.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,410]
 gi|258615689|ref|ZP_05713459.1| hypothetical protein EfaeD_08257 [Enterococcus faecium DO]
 gi|260558729|ref|ZP_05830918.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          C68]
 gi|293563230|ref|ZP_06677683.1| transcriptional regulator, putative [Enterococcus faecium E1162]
 gi|294622366|ref|ZP_06701395.1| transcriptional regulator, putative [Enterococcus faecium U0317]
 gi|314937319|ref|ZP_07844659.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|314943378|ref|ZP_07850149.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|314949074|ref|ZP_07852436.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|314953479|ref|ZP_07856395.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|314994167|ref|ZP_07859474.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|314995977|ref|ZP_07861057.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|68196019|gb|EAN10451.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|257813513|gb|EEV42271.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|257817556|gb|EEV44884.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,502]
 gi|257826473|gb|EEV53099.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,410]
 gi|260075188|gb|EEW63501.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          C68]
 gi|291598126|gb|EFF29229.1| transcriptional regulator, putative [Enterococcus faecium U0317]
 gi|291604825|gb|EFF34306.1| transcriptional regulator, putative [Enterococcus faecium E1162]
 gi|313589853|gb|EFR68698.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313591434|gb|EFR70279.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|313594512|gb|EFR73357.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|313597922|gb|EFR76767.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|313643270|gb|EFS07850.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|313644551|gb|EFS09131.1| helix-turn-helix protein [Enterococcus faecium TX0082]
          Length = 270

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 11 VDIN-VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEV 65
          +D   VG RIR  R  L +S EK G+ +G +    V  +E+G+N      L  I+E+
Sbjct: 3  IDKQAVGNRIRQIRQELKLSMEKFGKLIGDLPRSTVNNWERGINLPKTETLHQIAEI 59


>gi|326772673|ref|ZP_08231957.1| transcriptional regulator, XRE family [Actinomyces viscosus C505]
 gi|326637305|gb|EGE38207.1| transcriptional regulator, XRE family [Actinomyces viscosus C505]
          Length = 65

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R   G++Q +LG  LG++ Q +   EKG           I+   E+ +   F
Sbjct: 8  VRSLREACGLTQAQLGVALGVSRQSINSIEKGKYDPSLPLAIAIARYFETTVEEIF 63


>gi|316941295|gb|ADU75329.1| helix-turn-helix domain protein [Clostridium thermocellum DSM
          1313]
          Length = 374

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 31/71 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ + I   R   G++QE +   +G++   V K+E G +    + L  ++ +    I  
Sbjct: 4  INIARTIVKMRREKGLTQEDIANYIGVSKASVSKWETGQSYPDITFLPQLATLFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LMGYEPQMSKE 74


>gi|291539287|emb|CBL12398.1| Helix-turn-helix [Roseburia intestinalis XB6B4]
          Length = 209

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R + RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   I 
Sbjct: 8  KLIGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ ++ 
Sbjct: 68 WLRGETDEYETDITDKKE 85


>gi|289643382|ref|ZP_06475503.1| transcriptional regulator, XRE family [Frankia symbiont of
          Datisca glomerata]
 gi|289506780|gb|EFD27758.1| transcriptional regulator, XRE family [Frankia symbiont of
          Datisca glomerata]
          Length = 407

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 4/75 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLESPISFF 73
          VG+R+   R   G+SQ  LG+ +G +   V + E+G   V   S L  +++ L  P+S  
Sbjct: 7  VGERLAFHRKRRGLSQVALGKLIGRSESWVSQVERGTRMVDRLSVLAQVADALNIPVS-- 64

Query: 74 FDVSPTVCSDISSEE 88
           +++P V  D    E
Sbjct: 65 -ELAPDVPQDALPAE 78


>gi|288870099|ref|ZP_06112925.2| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium hathewayi DSM 13479]
 gi|288868454|gb|EFD00753.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium hathewayi DSM 13479]
          Length = 67

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR  R   G+SQE+L +  G++ Q +   E        +   H+++ L++ +   F
Sbjct: 9  IRSMRKQQGLSQEELAKKCGVSRQTINAIENNKYDPTLALAFHLAKELQTTVDNLF 64


>gi|283767889|ref|ZP_06340804.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          H19]
 gi|283461768|gb|EFC08852.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          H19]
          Length = 391

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK +   R +  +S+++L E + ++ Q + +YE        S++  ++ +     S+
Sbjct: 1  MFIGKNLEYVRKLNALSRKELSEKINVSEQAIWQYETKNMMPEISKIYDMTSIFNVKSSY 60

Query: 73 FFDVSPTV 80
          F    P  
Sbjct: 61 FISEQPEE 68


>gi|256004475|ref|ZP_05429455.1| transcriptional regulator, XRE family [Clostridium thermocellum
          DSM 2360]
 gi|255991616|gb|EEU01718.1| transcriptional regulator, XRE family [Clostridium thermocellum
          DSM 2360]
          Length = 376

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 31/71 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ + I   R   G++QE +   +G++   V K+E G +    + L  ++ +    I  
Sbjct: 6  INIARTIVKMRREKGLTQEDIANYIGVSKASVSKWETGQSYPDITFLPQLATLFNISIDE 65

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 66 LMGYEPQMSKE 76


>gi|227513208|ref|ZP_03943257.1| hypothetical protein HMPREF0497_2330 [Lactobacillus buchneri ATCC
           11577]
 gi|227083589|gb|EEI18901.1| hypothetical protein HMPREF0497_2330 [Lactobacillus buchneri ATCC
           11577]
          Length = 104

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 19/99 (19%), Positives = 42/99 (42%), Gaps = 10/99 (10%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           GK+++  R   G++  +LG  +G +   + ++E        + L  + + L + I  FF 
Sbjct: 7   GKKLKELRKAKGLTASELGSKMGYSQSYISRFETDRATPDINALGDMLKYLGTDIPSFFG 66

Query: 75  -DVSP---TVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
            ++ P    + + IS      +  ++     +L R F  
Sbjct: 67  DELEPKKRALLNAISHLSEEQIILLT-----ELLRSFNS 100


>gi|210614272|ref|ZP_03290143.1| hypothetical protein CLONEX_02356 [Clostridium nexile DSM 1787]
 gi|210150756|gb|EEA81765.1| hypothetical protein CLONEX_02356 [Clostridium nexile DSM 1787]
          Length = 209

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R + RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   I 
Sbjct: 8  KLIGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ ++ 
Sbjct: 68 WLRGETDEYETDITDKKE 85


>gi|281418200|ref|ZP_06249220.1| transcriptional regulator, XRE family [Clostridium thermocellum
          JW20]
 gi|281409602|gb|EFB39860.1| transcriptional regulator, XRE family [Clostridium thermocellum
          JW20]
          Length = 376

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 31/71 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ + I   R   G++QE +   +G++   V K+E G +    + L  ++ +    I  
Sbjct: 6  INIARTIVKMRREKGLTQEDIANYIGVSKASVSKWETGQSYPDITFLPQLATLFNISIDE 65

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 66 LMGYEPQMSKE 76


>gi|111225661|ref|YP_716455.1| hypothetical protein FRAAL6319 [Frankia alni ACN14a]
 gi|111153193|emb|CAJ64942.1| hypothetical protein FRAAL6319 [Frankia alni ACN14a]
          Length = 409

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 44/119 (36%), Gaps = 15/119 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
           +G R+   R    ++Q +L E  G++   V K E G  + V  S L  ++  L  P + F
Sbjct: 12  LGSRVAQVRRRRSLTQAELAEAAGVSVDLVCKLEAGSKDGVRLSSLHALARALAVPTATF 71

Query: 74  FDVSPTVCSDISSEENNVMDFI-------STPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
            +       D        +  +       S  +G  L           +R +++ + R+
Sbjct: 72  LEAREGPVMDAGDLAVLPLRRMLVPGPAASRAEGPSLLLA-------SLRGRVLAVTRA 123


>gi|67078395|ref|YP_246012.1| transcriptional regulator [Bacillus cereus E33L]
 gi|66970701|gb|AAY60673.1| conserved hypothetical protein [Bacillus cereus E33L]
          Length = 186

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 30/65 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++I+  R    MSQE+L E + ++ Q +  +E   N      L  +S +  + +  
Sbjct: 1  MNIGRQIQYFRKRDNMSQEELAEKIHVSRQSISNWENERNYPDIHNLLMMSILFNASLDD 60

Query: 73 FFDVS 77
               
Sbjct: 61 LVKGD 65


>gi|125974048|ref|YP_001037958.1| XRE family transcriptional regulator [Clostridium thermocellum
          ATCC 27405]
 gi|125714273|gb|ABN52765.1| transcriptional regulator, XRE family [Clostridium thermocellum
          ATCC 27405]
          Length = 374

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 31/71 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ + I   R   G++QE +   +G++   V K+E G +    + L  ++ +    I  
Sbjct: 4  INIARTIVKMRREKGLTQEDIANYIGVSKASVSKWETGQSYPDITFLPQLATLFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LMGYEPQMSKE 74


>gi|322388761|ref|ZP_08062358.1| cro/CI family transcriptional regulator [Streptococcus infantis
          ATCC 700779]
 gi|321140380|gb|EFX35888.1| cro/CI family transcriptional regulator [Streptococcus infantis
          ATCC 700779]
          Length = 169

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74 FDVSPTVCSDIS-SEENNVMDFIS 96
          F  S  +  + S  E N   D +S
Sbjct: 67 FGTSKEIELEKSVLESNEYSDKVS 90


>gi|307704468|ref|ZP_07641378.1| helix-turn-helix family protein [Streptococcus mitis SK597]
 gi|307706023|ref|ZP_07642846.1| helix-turn-helix family protein [Streptococcus mitis SK564]
 gi|322376999|ref|ZP_08051492.1| putative transcriptional repressor [Streptococcus sp. M334]
 gi|307620442|gb|EFN99555.1| helix-turn-helix family protein [Streptococcus mitis SK564]
 gi|307621988|gb|EFO01015.1| helix-turn-helix family protein [Streptococcus mitis SK597]
 gi|321282806|gb|EFX59813.1| putative transcriptional repressor [Streptococcus sp. M334]
          Length = 69

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+ L ++Q +L E +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 6  KLKLARVELDLTQGQLAEAVGVTRQTIGLIEAGKYNPSLSLCQSICRCLGKTLDQLF 62


>gi|262282190|ref|ZP_06059959.1| transcription regulator [Streptococcus sp. 2_1_36FAA]
 gi|262262644|gb|EEY81341.1| transcription regulator [Streptococcus sp. 2_1_36FAA]
          Length = 71

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 28/67 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    MSQ +L + +G++ Q +   E            ++++ L++ ++  F  
Sbjct: 2  NRVKEFRKEKKMSQLELAKSIGVSRQTINMIENNKYNPTLELCINLAKTLDTDLNALFWD 61

Query: 77 SPTVCSD 83
                D
Sbjct: 62 PQLTDED 68


>gi|228943003|ref|ZP_04105508.1| Transcriptional regulator [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228975941|ref|ZP_04136462.1| Transcriptional regulator [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228977442|ref|ZP_04137836.1| Transcriptional regulator [Bacillus thuringiensis Bt407]
 gi|228782266|gb|EEM30450.1| Transcriptional regulator [Bacillus thuringiensis Bt407]
 gi|228783777|gb|EEM31835.1| Transcriptional regulator [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228816667|gb|EEM62787.1| Transcriptional regulator [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|326938467|gb|AEA14363.1| PbsX family transcriptional regulator [Bacillus thuringiensis
          serovar chinensis CT-43]
          Length = 66

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+ L ++Q+KL E +G+T Q +   EKG           I   ++  ++  F
Sbjct: 4  SKIKVARVQLDLTQQKLAEKVGVTRQTISLIEKGKYNPSLDLCLKICYAVDKTLNDLF 61


>gi|224368187|ref|YP_002602350.1| transcriptional regulator (XRE family protein) [Desulfobacterium
          autotrophicum HRM2]
 gi|223690903|gb|ACN14186.1| transcriptional regulator (XRE family protein) [Desulfobacterium
          autotrophicum HRM2]
          Length = 182

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 34/92 (36%), Gaps = 3/92 (3%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +  KK P    +++G+ I+  R+   +  + L    G++   ++K E G  R     L  
Sbjct: 1  MAKKKTPL---VHIGETIKKVRLEKSVDLDFLANETGLSIDFLKKVESGEQRPSVGSLLQ 57

Query: 62 ISEVLESPISFFFDVSPTVCSDISSEENNVMD 93
          IS  L     +F     +     +       D
Sbjct: 58 ISRALGIDSGYFLKDQASNAEKRAEAYTKRTD 89


>gi|218248605|ref|YP_002373976.1| XRE family transcriptional regulator [Cyanothece sp. PCC 8801]
 gi|257061671|ref|YP_003139559.1| XRE family transcriptional regulator [Cyanothece sp. PCC 8802]
 gi|218169083|gb|ACK67820.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 8801]
 gi|256591837|gb|ACV02724.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 8802]
          Length = 72

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+R  R +LG+SQ+ L E  G+    +   E+G   V    +  +++ LE  +   F+
Sbjct: 9  GMRVRYFRKLLGISQDDLAEKAGMHRTYIGAIERGERNVSLLNILRLADALEIKVKELFN 68

Query: 76 VSPT 79
          V   
Sbjct: 69 VDID 72


>gi|86157299|ref|YP_464084.1| transcriptional regulator [Anaeromyxobacter dehalogenans 2CP-C]
 gi|85773810|gb|ABC80647.1| transcriptional regulator, XRE family with cupin sensor domain
           protein [Anaeromyxobacter dehalogenans 2CP-C]
          Length = 192

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 26/108 (24%), Positives = 44/108 (40%), Gaps = 3/108 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  +R  R    +S EKL +  G++   + + E G +    + L  IS  L  P S   
Sbjct: 12  VGTNLRRLRTQRDLSLEKLSKLSGVSRAMLGQIELGQSAPTINVLWKISSALGVPFSALI 71

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
               +    +   E+     +S+ DG   +R     D+ + R +  EL
Sbjct: 72  TARSSGGLHVLRAEH--AKVLSSHDGSYSSRALFPFDEPR-RVEFYEL 116


>gi|30261384|ref|NP_843761.1| transcriptional regulator SinR [Bacillus anthracis str. Ames]
 gi|47526558|ref|YP_017907.1| transcriptional regulator SinR [Bacillus anthracis str. 'Ames
          Ancestor']
 gi|49184213|ref|YP_027465.1| transcriptional regulator SinR [Bacillus anthracis str. Sterne]
 gi|49479785|ref|YP_035509.1| transcriptional regulator [Bacillus thuringiensis serovar
          konkukian str. 97-27]
 gi|52144053|ref|YP_082775.1| transcriptional regulator [Bacillus cereus E33L]
 gi|65318649|ref|ZP_00391608.1| COG1396: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|165870458|ref|ZP_02215113.1| transcriptional regulator SinR [Bacillus anthracis str. A0488]
 gi|167634445|ref|ZP_02392766.1| transcriptional regulator SinR [Bacillus anthracis str. A0442]
 gi|167639233|ref|ZP_02397505.1| transcriptional regulator SinR [Bacillus anthracis str. A0193]
 gi|170686721|ref|ZP_02877941.1| transcriptional regulator SinR [Bacillus anthracis str. A0465]
 gi|170706389|ref|ZP_02896850.1| transcriptional regulator SinR [Bacillus anthracis str. A0389]
 gi|177651426|ref|ZP_02934215.1| transcriptional regulator SinR [Bacillus anthracis str. A0174]
 gi|190568774|ref|ZP_03021678.1| transcriptional regulator SinR [Bacillus anthracis
          Tsiankovskii-I]
 gi|196040706|ref|ZP_03108005.1| transcriptional regulator SinR [Bacillus cereus NVH0597-99]
 gi|196046437|ref|ZP_03113662.1| transcriptional regulator SinR [Bacillus cereus 03BB108]
 gi|218902488|ref|YP_002450322.1| transcriptional regulator SinR [Bacillus cereus AH820]
 gi|225863243|ref|YP_002748621.1| transcriptional regulator SinR [Bacillus cereus 03BB102]
 gi|227815879|ref|YP_002815888.1| transcriptional regulator SinR [Bacillus anthracis str. CDC 684]
 gi|228913951|ref|ZP_04077575.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
 gi|228926412|ref|ZP_04089484.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar pondicheriensis BGSC 4BA1]
 gi|228932662|ref|ZP_04095536.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
 gi|228944980|ref|ZP_04107341.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
 gi|229090334|ref|ZP_04221578.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          Rock3-42]
 gi|229120921|ref|ZP_04250163.1| HTH-type transcriptional regulator sinR [Bacillus cereus 95/8201]
 gi|229183574|ref|ZP_04310798.1| HTH-type transcriptional regulator sinR [Bacillus cereus BGSC
          6E1]
 gi|229600133|ref|YP_002865801.1| transcriptional regulator SinR [Bacillus anthracis str. A0248]
 gi|254682559|ref|ZP_05146420.1| transcriptional regulator [Bacillus anthracis str. CNEVA-9066]
 gi|254726220|ref|ZP_05188002.1| transcriptional regulator [Bacillus anthracis str. A1055]
 gi|254733977|ref|ZP_05191691.1| transcriptional regulator [Bacillus anthracis str. Western North
          America USA6153]
 gi|254740336|ref|ZP_05198027.1| transcriptional regulator [Bacillus anthracis str. Kruger B]
 gi|254753723|ref|ZP_05205758.1| transcriptional regulator [Bacillus anthracis str. Vollum]
 gi|254758819|ref|ZP_05210846.1| transcriptional regulator [Bacillus anthracis str. Australia 94]
 gi|30255238|gb|AAP25247.1| transcriptional regulator SinR [Bacillus anthracis str. Ames]
 gi|47501706|gb|AAT30382.1| transcriptional regulator SinR [Bacillus anthracis str. 'Ames
          Ancestor']
 gi|49178140|gb|AAT53516.1| transcriptional regulator SinR [Bacillus anthracis str. Sterne]
 gi|49331341|gb|AAT61987.1| transcriptional regulator [Bacillus thuringiensis serovar
          konkukian str. 97-27]
 gi|51977522|gb|AAU19072.1| transcriptional regulator [Bacillus cereus E33L]
 gi|164713953|gb|EDR19475.1| transcriptional regulator SinR [Bacillus anthracis str. A0488]
 gi|167512672|gb|EDR88046.1| transcriptional regulator SinR [Bacillus anthracis str. A0193]
 gi|167530333|gb|EDR93059.1| transcriptional regulator SinR [Bacillus anthracis str. A0442]
 gi|170128923|gb|EDS97789.1| transcriptional regulator SinR [Bacillus anthracis str. A0389]
 gi|170669244|gb|EDT19987.1| transcriptional regulator SinR [Bacillus anthracis str. A0465]
 gi|172082704|gb|EDT67767.1| transcriptional regulator SinR [Bacillus anthracis str. A0174]
 gi|190560190|gb|EDV14171.1| transcriptional regulator SinR [Bacillus anthracis
          Tsiankovskii-I]
 gi|196022621|gb|EDX61303.1| transcriptional regulator SinR [Bacillus cereus 03BB108]
 gi|196028496|gb|EDX67104.1| transcriptional regulator SinR [Bacillus cereus NVH0597-99]
 gi|218539564|gb|ACK91962.1| transcriptional regulator SinR [Bacillus cereus AH820]
 gi|225790845|gb|ACO31062.1| transcriptional regulator SinR [Bacillus cereus 03BB102]
 gi|227003466|gb|ACP13209.1| transcriptional regulator SinR [Bacillus anthracis str. CDC 684]
 gi|228599984|gb|EEK57580.1| HTH-type transcriptional regulator sinR [Bacillus cereus BGSC
          6E1]
 gi|228662581|gb|EEL18179.1| HTH-type transcriptional regulator sinR [Bacillus cereus 95/8201]
 gi|228693028|gb|EEL46745.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          Rock3-42]
 gi|228814649|gb|EEM60909.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
 gi|228826980|gb|EEM72740.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
 gi|228833236|gb|EEM78801.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar pondicheriensis BGSC 4BA1]
 gi|228845673|gb|EEM90700.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
 gi|229264541|gb|ACQ46178.1| transcriptional regulator SinR [Bacillus anthracis str. A0248]
          Length = 107

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
               T  +++ SE
Sbjct: 62 LHDETTKEANLDSE 75


>gi|327490523|gb|EGF22304.1| transcriptional regulator [Streptococcus sanguinis SK1058]
          Length = 71

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R    MSQ +L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 2  NRVKEFRKEKKMSQLELAKSIGVSRQTINMIENNKYNPTLELCINLARALDTDLNALF 59


>gi|331697390|ref|YP_004333629.1| helix-turn-helix domain-containing protein [Pseudonocardia
           dioxanivorans CB1190]
 gi|326952079|gb|AEA25776.1| helix-turn-helix domain protein [Pseudonocardia dioxanivorans
           CB1190]
          Length = 190

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 14/88 (15%), Positives = 28/88 (31%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +R  R    +S  +L    G++   + + E G        L  ++  L  P +   +   
Sbjct: 20  VRRERTRRDLSLGELARRAGLSKSTLSQLESGAGNPSVETLWALAVALGVPFARLVETPV 79

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRY 106
                + S E+  +     P    L   
Sbjct: 80  QAVRVLRSGESAALTAERAPFSSALLAA 107


>gi|315143624|gb|EFT87640.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX2141]
          Length = 68

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 23/62 (37%), Positives = 31/62 (50%), Gaps = 3/62 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP---ISFF 73
           R++  R+  G SQE+L + LG T     K E G   +G   L  I+  LE P   IS F
Sbjct: 6  NRLKAERIAKGYSQEELAKKLGWTRSMYTKRENGAVSLGVDELAKIATALEMPESRISIF 65

Query: 74 FD 75
          F+
Sbjct: 66 FN 67


>gi|310766355|gb|ADP11305.1| hypothetical protein EJP617_16240 [Erwinia sp. Ejp617]
 gi|310766360|gb|ADP11310.1| hypothetical protein EJP617_16290 [Erwinia sp. Ejp617]
 gi|310768308|gb|ADP13258.1| hypothetical protein EJP617_35770 [Erwinia sp. Ejp617]
          Length = 129

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ +R+   R   G+SQ+ + + +GI     +KYE G  +     L+ I+  L     F
Sbjct: 11 MSLSERLFELRRQHGLSQQAMADAVGIHANSWKKYETGQAQPSIDILKKIATALHVSTDF 70

Query: 73 -FFDVSPTVCSD 83
            FD    V   
Sbjct: 71 LLFDAHERVPEG 82


>gi|307701893|ref|ZP_07638902.1| helix-turn-helix domain protein [Streptococcus mitis NCTC 12261]
 gi|307616708|gb|EFN95896.1| helix-turn-helix domain protein [Streptococcus mitis NCTC 12261]
          Length = 158

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 25/55 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQPEFAQIIGISRNSLSRYENGTSPVSTELIDIICQKFNVS 56


>gi|290769910|gb|ADD61680.1| putative protein [uncultured organism]
          Length = 209

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R + RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   I 
Sbjct: 8  KLIGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ ++ 
Sbjct: 68 WLKGETDEYETDITDKKE 85


>gi|283786292|ref|YP_003366157.1| phage repressor protein [Citrobacter rodentium ICC168]
 gi|282949746|emb|CBG89365.1| putative phage repressor protein [Citrobacter rodentium ICC168]
          Length = 231

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 22/81 (27%), Positives = 34/81 (41%), Gaps = 1/81 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G RIR  R+  GM    L + +GI    V + E G  +      L   +  L   ++
Sbjct: 1  MNIGNRIRELRLARGMKISDLADAVGIDGANVSRVETGKQKSFTEQSLSKYANALGVDVA 60

Query: 72 FFFDVSPTVCSDISSEENNVM 92
            F  S    +   S ENN +
Sbjct: 61 ELFTPSINETTVYKSSENNPV 81


>gi|312194132|ref|YP_004014193.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
 gi|311225468|gb|ADP78323.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
          Length = 419

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 39/90 (43%), Gaps = 3/90 (3%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D  +   +R  R   G+SQE+L    G++   V+K E+G +      L  ++  L    S
Sbjct: 5   DRPISGNLRDLRRTAGLSQEELAGRTGLSVSTVRKVEQGGS-ARVETLHVLARALGVETS 63

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGL 101
             F       +D  +EE N ++ ++    L
Sbjct: 64  ALFGSQAPKPAD--AEEENKLNLVAFRHAL 91


>gi|78061653|ref|YP_371561.1| XRE family transcriptional regulator [Burkholderia sp. 383]
 gi|77969538|gb|ABB10917.1| transcriptional regulator, XRE family [Burkholderia sp. 383]
          Length = 185

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 29/140 (20%), Positives = 53/140 (37%), Gaps = 26/140 (18%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR  R    ++   L E +G +   + + E+G++R   + L  I EVL  P ++F+ +S 
Sbjct: 14  IRDLRKHRKVTLNDLAERIGRSVGFLSQVERGLSRPTVADLTAIGEVLGVPTTYFYSLSK 73

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD----VKVRQKIIELVRSIV------- 127
                        + +++ PD  +   Y   I D      +R +   L   +        
Sbjct: 74  PRS----------VPWVTRPDERRTVYYAAGITDILVSPNMRSRFSILESHLAPGASSGE 123

Query: 128 -----SSEKKYRTIEEECMV 142
                S E+    +E E  V
Sbjct: 124 RPVDDSDEQGGFVLEGELTV 143


>gi|47092425|ref|ZP_00230215.1| transcriptional regulator, putative [Listeria monocytogenes str.
          4b H7858]
 gi|47019202|gb|EAL09945.1| transcriptional regulator, putative [Listeria monocytogenes str.
          4b H7858]
 gi|328465412|gb|EGF36656.1| hypothetical protein LM1816_14852 [Listeria monocytogenes 1816]
          Length = 89

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 24/74 (32%), Positives = 37/74 (50%), Gaps = 3/74 (4%)

Query: 19 IRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--D 75
          IR +R  LG  Q+ +   LG        KYE G  ++ A  L  ++++L+  IS FF  +
Sbjct: 10 IREKRESLGFPQKDMAIKLGFKNASTYFKYETGEYKIKAEMLPLLAKILKCNISNFFTKN 69

Query: 76 VSPTVCSDISSEEN 89
          V+ T  +D   EE 
Sbjct: 70 VAKTEMTDDLLEEQ 83


>gi|327473031|gb|EGF18458.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK408]
          Length = 170

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 23/77 (29%), Positives = 36/77 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74 FDVSPTVCSDISSEENN 90
          F  S  +  + S  E+N
Sbjct: 67 FGTSKEIELEKSVLESN 83


>gi|325695196|gb|EGD37097.1| transcriptional regulator [Streptococcus sanguinis SK150]
          Length = 71

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R    MSQ +L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 2  NRVKEFRKEKKMSQLELAKSIGVSRQTINMIENNKYNPTLELCINLARALDTDLNALF 59


>gi|300857312|ref|YP_003782296.1| putative membrane-associated gene regulator [Clostridium
           ljungdahlii DSM 13528]
 gi|300437427|gb|ADK17194.1| putative membrane-associated gene regulator with a HTH motif
           [Clostridium ljungdahlii DSM 13528]
          Length = 344

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/91 (18%), Positives = 38/91 (41%), Gaps = 11/91 (12%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK I  +R    ++Q++L E L ++   V K+E+G++    S +  I + L+        
Sbjct: 8   GKFIIKKRKENNLTQKELAEKLYVSESAVSKWERGISYPDISLILSICDALKIS------ 61

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                  ++ +   ++         ++L R 
Sbjct: 62  -----EHELITASEDLHQHEIERQAMKLKRA 87


>gi|323528510|ref|YP_004230662.1| Cupin 2 barrel domain-containing protein [Burkholderia sp.
           CCGE1001]
 gi|323385512|gb|ADX57602.1| Cupin 2 conserved barrel domain protein [Burkholderia sp. CCGE1001]
          Length = 190

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 21/117 (17%), Positives = 43/117 (36%), Gaps = 10/117 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG +IR  R  L  + +      GI+   + + E+G+     + L  I+  L   + +
Sbjct: 12  LEVGSKIRALRQRLKRTLDDTATAAGISKPFLSQVERGLASPSITSLAGIAHALGVTVQY 71

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP----------DGLQLNRYFIQIDDVKVRQKI 119
           F D      S    ++     F  +            G QL    +++   + R ++
Sbjct: 72  FVDTPSEERSVSRGDQLKFFGFADSANLFARLTNVTGGRQLEAILVKMPPGQKRSEV 128


>gi|239906602|ref|YP_002953343.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
 gi|239796468|dbj|BAH75457.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
          Length = 186

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 27/67 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R+R  R   GM+ + L E  G+T   V  YE G   +  S L  +++   + ++ 
Sbjct: 9  REIAMRLRGLREATGMTAQALAEATGVTAADVAAYETGNKEIPVSYLYEVAKACGADLTA 68

Query: 73 FFDVSPT 79
                 
Sbjct: 69 LLTGDDA 75


>gi|238921831|ref|YP_002935345.1| hypothetical protein EUBELI_20064 [Eubacterium eligens ATCC 27750]
 gi|238873503|gb|ACR73211.1| Hypothetical protein EUBELI_20064 [Eubacterium eligens ATCC 27750]
          Length = 111

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/101 (17%), Positives = 39/101 (38%), Gaps = 5/101 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G R++ RR  + + Q  + + LG++   +   E G        L  I  +L     +
Sbjct: 6   VNIGPRLKQRRKEMHIKQIDMAKQLGVSQAFLSNVEAGRINCSLPLLTDICCILNVTPDY 65

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
              +     +  SS+  + +   +T +         +I D 
Sbjct: 66  LI-LGHMRGNKASSDLIDELKMCNTEE----LEAIKRIVDA 101


>gi|227500450|ref|ZP_03930512.1| UDP-glucose 6-dehydrogenase [Anaerococcus tetradius ATCC 35098]
 gi|227217513|gb|EEI82832.1| UDP-glucose 6-dehydrogenase [Anaerococcus tetradius ATCC 35098]
          Length = 492

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 32/76 (42%)

Query: 22 RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVC 81
          +R  +G++Q KL E  GI    + + E+        +LQ I EVL   I   F+      
Sbjct: 16 KRKEMGLTQAKLAEMTGINRAMISRLEQADYTPSIDQLQAIGEVLHFEIVDLFEEEEKAE 75

Query: 82 SDISSEENNVMDFIST 97
          + I  ++   +    T
Sbjct: 76 NIIPIDKKYKIAVAGT 91


>gi|221639612|ref|YP_002525874.1| Helix-turn-helix domain-containing protein [Rhodobacter
          sphaeroides KD131]
 gi|221160393|gb|ACM01373.1| Helix-turn-helix domain protein [Rhodobacter sphaeroides KD131]
          Length = 428

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 27/59 (45%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          P+    G R+R RR+ LG+ Q  L    GI+   +   E    R+G   L  ++  L+ 
Sbjct: 2  PMTALTGSRVRERRLQLGLRQADLARAAGISASYLNLIEHNRRRIGDEVLARLARALKV 60


>gi|187776895|ref|ZP_02993368.1| hypothetical protein CLOSPO_00434 [Clostridium sporogenes ATCC
          15579]
 gi|187775554|gb|EDU39356.1| hypothetical protein CLOSPO_00434 [Clostridium sporogenes ATCC
          15579]
          Length = 189

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D ++GK+I+  R    ++ ++L E   ++   + + E+G+  V    L  I++ L+  +
Sbjct: 2  ID-DIGKKIKKLRTNKKLTLKELSERTNLSIGFLSQLERGLTTVAIDSLTKIAKELDVNL 60

Query: 71 SFFFDVSP 78
          ++FF    
Sbjct: 61 TYFFQAPK 68


>gi|146301944|ref|YP_001196535.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
          UW101]
 gi|146156362|gb|ABQ07216.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
          UW101]
          Length = 129

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 28/54 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +I+  R +   +QE + + LG+T     K EKG   +   +L  I+++LE  +
Sbjct: 7  SKIKSIRELKNYTQEYMADQLGVTQAGYSKIEKGKTILSYVKLVEIAKILEVSV 60


>gi|22537855|ref|NP_688706.1| Cro/CI family transcriptional regulator [Streptococcus agalactiae
          2603V/R]
 gi|76787796|ref|YP_330325.1| DNA-binding protein [Streptococcus agalactiae A909]
 gi|76798410|ref|ZP_00780651.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 18RS21]
 gi|77405968|ref|ZP_00783047.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae H36B]
 gi|77409450|ref|ZP_00786144.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae COH1]
 gi|22534750|gb|AAN00579.1|AE014269_23 transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 2603V/R]
 gi|76562853|gb|ABA45437.1| DNA-binding protein [Streptococcus agalactiae A909]
 gi|76586242|gb|EAO62759.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 18RS21]
 gi|77171942|gb|EAO75117.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae COH1]
 gi|77175420|gb|EAO78210.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae H36B]
          Length = 197

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I   R    +SQE+L E + ++ Q +  +E          L  +S++ +  + 
Sbjct: 1  MEIGQQIIRYRKQQALSQEELAEKVYVSRQSISNWENDKTYPDIHSLLLLSQIFQVSLD 59


>gi|15595732|ref|NP_249226.1| transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|107099522|ref|ZP_01363440.1| hypothetical protein PaerPA_01000534 [Pseudomonas aeruginosa
          PACS2]
 gi|218889277|ref|YP_002438141.1| putative transcriptional regulator [Pseudomonas aeruginosa
          LESB58]
 gi|254237245|ref|ZP_04930568.1| hypothetical protein PACG_03304 [Pseudomonas aeruginosa C3719]
 gi|254243628|ref|ZP_04936950.1| hypothetical protein PA2G_04453 [Pseudomonas aeruginosa 2192]
 gi|9946402|gb|AAG03924.1|AE004490_4 probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|126169176|gb|EAZ54687.1| hypothetical protein PACG_03304 [Pseudomonas aeruginosa C3719]
 gi|126197006|gb|EAZ61069.1| hypothetical protein PA2G_04453 [Pseudomonas aeruginosa 2192]
 gi|218769500|emb|CAW25260.1| probable transcriptional regulator [Pseudomonas aeruginosa
          LESB58]
          Length = 184

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 30/56 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R   G++ + L + +  +   V + E+G++R     L  IS+VL  P ++FF
Sbjct: 15 VRELRKRKGITLQALADGIRRSVGFVSQVERGLSRPAVDDLVAISQVLGVPATYFF 70


>gi|330817330|ref|YP_004361035.1| DNA-binding protein [Burkholderia gladioli BSR3]
 gi|327369723|gb|AEA61079.1| DNA-binding protein [Burkholderia gladioli BSR3]
          Length = 192

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 29/65 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++L R  LG+S + L E  G+T   + K E+G++    +    ++  L   +   F   
Sbjct: 5  RLKLLRKQLGLSLQDLAERAGLTKSYLSKVERGLSTPSVAVAMQLATALHVEVGQLFASD 64

Query: 78 PTVCS 82
              +
Sbjct: 65 EDEKA 69


>gi|312279272|gb|ADQ63929.1| Transcriptional regulator, xre family [Streptococcus thermophilus
          ND03]
          Length = 170

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74 FDVSPTVCSDIS-SEENNVMDFIS 96
          F  S  +  + S  E N   D +S
Sbjct: 67 FGTSKEIELEKSVLESNEYSDKVS 90


>gi|302540835|ref|ZP_07293177.1| xre family toxin-antitoxin system, antitoxin component
           [Streptomyces hygroscopicus ATCC 53653]
 gi|302458453|gb|EFL21546.1| xre family toxin-antitoxin system, antitoxin component
           [Streptomyces himastatinicus ATCC 53653]
          Length = 195

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 20/120 (16%), Positives = 37/120 (30%), Gaps = 19/120 (15%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P+D ++   +R  R   G+S  ++    G+    + + E G        L  +   L+ P
Sbjct: 17  PMD-SIAAVLRRERGRAGLSLTEVARRAGVAKSTLSQLESGNGNPSLETLWALCVTLDVP 75

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR-------YFIQIDDVKVRQKIIEL 122
            S   D                +  I   +G+ L           +       R+ I  L
Sbjct: 76  PSRLLD-----------PPRPRVQVIRADEGVTLASAQADYQAAMLSASPPGARRDIYRL 124


>gi|229012522|ref|ZP_04169696.1| hypothetical protein bmyco0001_29650 [Bacillus mycoides DSM 2048]
 gi|228748682|gb|EEL98533.1| hypothetical protein bmyco0001_29650 [Bacillus mycoides DSM 2048]
          Length = 242

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I++ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I 
Sbjct: 4  IHIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISID 62


>gi|171778687|ref|ZP_02919783.1| hypothetical protein STRINF_00635 [Streptococcus infantarius
          subsp. infantarius ATCC BAA-102]
 gi|171282644|gb|EDT48068.1| hypothetical protein STRINF_00635 [Streptococcus infantarius
          subsp. infantarius ATCC BAA-102]
          Length = 65

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R  LG+SQ  L + +GI  Q V   E             ++E L + ++  F
Sbjct: 2  NRVKEFRTNLGISQLTLAKQIGIARQTVNLIENNKYNPSLDLCIKLAEALGTDLNTLF 59


>gi|170748375|ref|YP_001754635.1| XRE family transcriptional regulator [Methylobacterium
           radiotolerans JCM 2831]
 gi|170654897|gb|ACB23952.1| transcriptional regulator, XRE family [Methylobacterium
           radiotolerans JCM 2831]
          Length = 208

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 23/113 (20%), Positives = 44/113 (38%), Gaps = 14/113 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK I+  R    +S  +L E  G+    + + E+       + +  +S+ L+  I   
Sbjct: 26  QLGKTIQRLRKAYNLSLSELAEQSGVAKSIISQIERNETNPTLATIWRLSQALDVSI--- 82

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                      + +E   ++  S  D   L       +D KVR  II  +++I
Sbjct: 83  ------ERVLAAGDEEPFIEKTSRADTPILVS-----EDGKVRLAIIGWLKTI 124


>gi|170017111|ref|YP_001728030.1| transcriptional regulator [Leuconostoc citreum KM20]
 gi|169803968|gb|ACA82586.1| Predicted transcriptional regulator [Leuconostoc citreum KM20]
          Length = 275

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 23/104 (22%), Positives = 44/104 (42%), Gaps = 3/104 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFFF 74
           G+ IR  R   GMSQ KLG  +G +   V + E          +  + + L      +F+
Sbjct: 6   GELIRKTRQKRGMSQAKLGALIG-SQSMVSRIENNQTDPSDQTVLMLCDALMITFEEYFY 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
            +     S +S+  N +       DG+ L++ ++ +   + R +
Sbjct: 65  SIFDKKQSKLSALANQLEIIDHNNDGVMLDKLYV-LTQSQSRSQ 107


>gi|126740655|ref|ZP_01756341.1| DNA-binding protein, putative [Roseobacter sp. SK209-2-6]
 gi|126718170|gb|EBA14886.1| DNA-binding protein, putative [Roseobacter sp. SK209-2-6]
          Length = 138

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 41/89 (46%), Gaps = 1/89 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R   GM+Q +L   +GI    +  +E+ ++   A++L  +S +L   +S+   
Sbjct: 23  GDRVAAAREAAGMTQAELSRRMGIKKSTLTGWEQDLSEPRANKLSTLSGLLNVSMSWLLT 82

Query: 76  VSPTVCSDISSEENNVMDFIST-PDGLQL 103
                 S+ + +   + DF +   +  +L
Sbjct: 83  GEGEGMSEPADQVIELSDFGAVLKELREL 111


>gi|86158292|ref|YP_465077.1| XRE family transcriptional regulator [Anaeromyxobacter
          dehalogenans 2CP-C]
 gi|85774803|gb|ABC81640.1| transcriptional regulator, XRE family [Anaeromyxobacter
          dehalogenans 2CP-C]
          Length = 81

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +G+R+R  R   GM+QE L E L ++   V   E+G      + +  I+  L  P
Sbjct: 17 RRLGERVREHRRGRGMTQEALAEALDLSVAYVSLIERGGRNPPYTTVVAIARALGIP 73


>gi|134298781|ref|YP_001112277.1| XRE family transcriptional regulator [Desulfotomaculum reducens
          MI-1]
 gi|134051481|gb|ABO49452.1| transcriptional regulator, XRE family [Desulfotomaculum reducens
          MI-1]
          Length = 115

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/88 (20%), Positives = 38/88 (43%), Gaps = 4/88 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G R++  R    +S+E+L + L +++  + KYE          +  I++     I +
Sbjct: 1  MSFGNRLKSLREKNNISREELAKLLDLSYWAISKYENNERIPDHETINKIADYFIVTIDY 60

Query: 73 FF----DVSPTVCSDISSEENNVMDFIS 96
                + SP+  S I  E   V + + 
Sbjct: 61 LLGRSDNPSPSPKSTIDEEWPGVANILR 88


>gi|77412137|ref|ZP_00788460.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae CJB111]
 gi|77161797|gb|EAO72785.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae CJB111]
          Length = 197

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I   R    +SQE+L E + ++ Q +  +E          L  +S++ +  + 
Sbjct: 1  MEIGQQIIRYRKQQALSQEELAEKVYVSRQSISNWENDKTYPDIHSLLLLSQIFQVSLD 59


>gi|322386654|ref|ZP_08060279.1| cro/CI family transcriptional regulator [Streptococcus cristatus
          ATCC 51100]
 gi|321269327|gb|EFX52262.1| cro/CI family transcriptional regulator [Streptococcus cristatus
          ATCC 51100]
          Length = 169

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 1/84 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74 FDVSPTVCSDIS-SEENNVMDFIS 96
          F  S  +  + S  E N   D +S
Sbjct: 67 FGTSKEIELEKSVLESNEYSDKVS 90


>gi|320536515|ref|ZP_08036545.1| helix-turn-helix protein [Treponema phagedenis F0421]
 gi|320146641|gb|EFW38227.1| helix-turn-helix protein [Treponema phagedenis F0421]
          Length = 369

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 23/91 (25%), Positives = 33/91 (36%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R+   R     + + L   LG+T   V  YEKG     A     ++E L  PI FF+  
Sbjct: 7   ARLTQARNWNNYTLDYLAGMLGVTKASVSLYEKGARNPDAFVQIRLAEALGFPIEFFYKP 66

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
           S    +   S   N           +L + F
Sbjct: 67  SFDTSNARISYRKNSSTKKKEKQRAELLKQF 97


>gi|312863214|ref|ZP_07723452.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
          F0396]
 gi|311100750|gb|EFQ58955.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
          F0396]
          Length = 158

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 25/55 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGENIKSLRKTHDLTQPEFAKIVGISRNSLSRYENGTSSVSTELIDRICQKFNVS 56


>gi|307324371|ref|ZP_07603579.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
 gi|306890102|gb|EFN21080.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
          Length = 203

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 29/67 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  V KRIR  R  LG S + L     ++   + + E G  R+   +L  I+  L + +
Sbjct: 8  LDGLVRKRIRGLRSALGWSLDDLAARCYLSPSTLSRIETGHRRISLDQLSAIARALGTTL 67

Query: 71 SFFFDVS 77
              +  
Sbjct: 68 DQLVESD 74


>gi|303229713|ref|ZP_07316499.1| helix-turn-helix protein [Veillonella atypica ACS-134-V-Col7a]
 gi|302515610|gb|EFL57566.1| helix-turn-helix protein [Veillonella atypica ACS-134-V-Col7a]
          Length = 127

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 2/59 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK--GVNRVGASRLQHISEVLESPIS 71
          +G +I   R  +G+SQ +L + +GI+   + K E   G++ V    +  I+  L    S
Sbjct: 28 LGHKISTLRTSMGISQRQLADVVGISRSYLSKLECGYGISGVSIEVVFKIAYCLNVSTS 86


>gi|261208781|ref|ZP_05923218.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289565534|ref|ZP_06445981.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|294614441|ref|ZP_06694357.1| helix-turn-helix domain protein [Enterococcus faecium E1636]
 gi|294617957|ref|ZP_06697562.1| helix-turn-helix domain protein [Enterococcus faecium E1679]
 gi|260077283|gb|EEW65003.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289162616|gb|EFD10469.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|291592749|gb|EFF24342.1| helix-turn-helix domain protein [Enterococcus faecium E1636]
 gi|291595766|gb|EFF27054.1| helix-turn-helix domain protein [Enterococcus faecium E1679]
          Length = 270

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 11 VDIN-VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEV 65
          +D   VG RIR  R  L +S EK G+ +G +    V  +E+G+N      L  I+E+
Sbjct: 3  IDKQAVGNRIRQIRQELKLSMEKFGKLIGDLPRSTVNNWERGINLPKTETLHQIAEI 59


>gi|259047873|ref|ZP_05738274.1| Xre family toxin-antitoxin system, antitoxin component
          [Granulicatella adiacens ATCC 49175]
 gi|259035550|gb|EEW36805.1| Xre family toxin-antitoxin system, antitoxin component
          [Granulicatella adiacens ATCC 49175]
          Length = 63

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 31/56 (55%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++  R+ + ++Q+++ E LG+  Q + KYEK   ++  + L  +S + +  +   F
Sbjct: 6  LKAARVNVNLTQKEVAEKLGVHQQTIAKYEKDSTKIPMNLLHQLSALYKVKLDHIF 61


>gi|229087060|ref|ZP_04219212.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-44]
 gi|228696253|gb|EEL49086.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-44]
          Length = 190

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 24/103 (23%), Positives = 43/103 (41%), Gaps = 10/103 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG+ +R  R    +S E+L +  G++   + K E+G        +  I++ L  P S  
Sbjct: 15  QVGQLLRKIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLGVIWKITKGLSIPFSRL 74

Query: 74  FDVSPTVCSDISSEENNVMD---------FISTPD-GLQLNRY 106
             V  +V    S E   V +         F  T + G++++R 
Sbjct: 75  MVVGESVTISRSGEGFAVDEGQAWRLETMFRYTKETGMEMHRA 117


>gi|255692636|ref|ZP_05416311.1| DNA-binding protein [Bacteroides finegoldii DSM 17565]
 gi|260621612|gb|EEX44483.1| DNA-binding protein [Bacteroides finegoldii DSM 17565]
          Length = 191

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 33/68 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    ++ E+L +  G+  +Q+++ E  ++    + L  I+ VL   +  F 
Sbjct: 7  VGEKIKALREDKTITIEELAQRSGLAIEQIERIENNIDIPSLAPLIKIARVLGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D    V  
Sbjct: 67 DDQDEVGP 74


>gi|224540522|ref|ZP_03681061.1| hypothetical protein BACCELL_05436 [Bacteroides cellulosilyticus
          DSM 14838]
 gi|224517863|gb|EEF86968.1| hypothetical protein BACCELL_05436 [Bacteroides cellulosilyticus
          DSM 14838]
          Length = 105

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G+ I+  R    ++QE+LGE +G+   Q+ K E G + +  S +    + +  
Sbjct: 37 IGEAIKQAREARNLTQEQLGELMGVKRAQISKIESGKS-ISFSTIVRAFKAMGV 89


>gi|218510320|ref|ZP_03508198.1| transcriptional regulator [Rhizobium etli Brasil 5]
          Length = 206

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/104 (17%), Positives = 41/104 (39%), Gaps = 2/104 (1%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
             K   + + +  G+ +R  R   G S ++L +  G++   + + E G +    S L  I
Sbjct: 12  EAKDAADEITVQTGQNLRRIRTRRGYSLDRLAKIAGVSRAMLGQIETGKSSPTLSILSKI 71

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           +  L  P +    ++    + I +        +++ +G    R 
Sbjct: 72  AVALGIPCAAL--IAERGETPIIAVPRAKSKILASSEGRFQTRA 113


>gi|212710302|ref|ZP_03318430.1| hypothetical protein PROVALCAL_01361 [Providencia alcalifaciens
          DSM 30120]
 gi|212687109|gb|EEB46637.1| hypothetical protein PROVALCAL_01361 [Providencia alcalifaciens
          DSM 30120]
          Length = 185

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 41/92 (44%), Gaps = 4/92 (4%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N ++I +G+++RL R    +S  +L    GI+   + K E G +      L+ I+  L
Sbjct: 1  MENKINIKIGQKVRLLRQARNLSLSELSHLSGISKAALSKLESGDSNPRIDTLESIAAAL 60

Query: 67 ESPISFFF----DVSPTVCSDISSEENNVMDF 94
            P+S  F    +  P +      E + +  F
Sbjct: 61 RFPLSDLFTRQNESYPYLVKSTPLEGDYLEQF 92


>gi|212638621|ref|YP_002315141.1| putative xre family transcriptional regulator [Anoxybacillus
          flavithermus WK1]
 gi|212560101|gb|ACJ33156.1| Predicted transcriptional regulator, xre family [Anoxybacillus
          flavithermus WK1]
          Length = 115

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 12/71 (16%), Positives = 27/71 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I+ G R++  R  + + QE + + +G+       YE+G        L  I+      + +
Sbjct: 9  ISFGDRLQELRNKMKLRQEDVAKKIGVGRTTYAMYEQGKREPDYETLLKIANFFGVSVDY 68

Query: 73 FFDVSPTVCSD 83
                   ++
Sbjct: 69 LLTGQDKTDNE 79


>gi|157377494|ref|YP_001476094.1| transcriptional regulator protein-like protein [Shewanella
          sediminis HAW-EB3]
 gi|157319868|gb|ABV38966.1| transcriptional regulator protein-like protein [Shewanella
          sediminis HAW-EB3]
          Length = 78

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 30/70 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R     +Q  L E L ++ Q +   EKG           ++ + E+ I   FD 
Sbjct: 3  NRLKVLRAERNWTQADLAEKLDVSRQTINAIEKGKYDPSLPLAFKVARLFEASIETIFDD 62

Query: 77 SPTVCSDISS 86
             V S+ SS
Sbjct: 63 EVEVDSEPSS 72


>gi|146307658|ref|YP_001188123.1| XRE family transcriptional regulator [Pseudomonas mendocina ymp]
 gi|145575859|gb|ABP85391.1| transcriptional regulator, XRE family [Pseudomonas mendocina ymp]
          Length = 185

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 41/89 (46%), Gaps = 9/89 (10%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I   R    ++  +L E +G +   + + E+G++R   + L  ISE L+ P ++F+++  
Sbjct: 14  IHDLRKHKKVTLNELAERIGRSVGFLSQVERGLSRPTVADLTAISEALDVPTTYFYNLPK 73

Query: 79  TVCSDISSEENN---------VMDFISTP 98
               D  +  +          + D +++P
Sbjct: 74  PKALDWVTRPDERRTLYLAGGITDIMASP 102


>gi|28557093|dbj|BAC57552.1| immunity repressor protein [Clostridium sordellii]
          Length = 133

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 27/70 (38%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R   G + +++ + L  T   + +YE G     +  L  +S+     I + F  +
Sbjct: 7  RLKELRKEKGYTLDQMAQDLNTTKVTLSRYENGTREPKSETLNQLSDYFNVSIDYLFGKT 66

Query: 78 PTVCSDISSE 87
                   E
Sbjct: 67 DERNPKTKDE 76


>gi|67921508|ref|ZP_00515026.1| Helix-turn-helix motif [Crocosphaera watsonii WH 8501]
 gi|67856620|gb|EAM51861.1| Helix-turn-helix motif [Crocosphaera watsonii WH 8501]
          Length = 229

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 32/69 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+R++  R   GM+Q +  + + +    +   EKG  R+ +S L  ++      +S F
Sbjct: 13 QLGERLQQARKQCGMTQAEAAKIIKVARTTIVAIEKGERRLKSSELIKLARAYGRNVSDF 72

Query: 74 FDVSPTVCS 82
             +P   S
Sbjct: 73 VKETPVAES 81


>gi|268608968|ref|ZP_06142695.1| hypothetical protein RflaF_05659 [Ruminococcus flavefaciens FD-1]
          Length = 69

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          I   R  L M+Q +L   +G+T   + +YE G  +     L+ +++ L +      +
Sbjct: 4  IYKYRTALHMTQTQLAALVGVTPNAITQYESGARKPNILMLKKLAKALNTTADALLE 60


>gi|251789127|ref|YP_003003848.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247537748|gb|ACT06369.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 95

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 4/72 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR+RL R+  G+ Q +LG   G+       +V +YE+ V+    S +   + VL+ P 
Sbjct: 2  IGKRLRLARVNAGLKQVELGCLAGLDEETASSRVSQYEREVSSPDFSLVCRFAAVLDVPE 61

Query: 71 SFFFDVSPTVCS 82
          ++F+ V   + +
Sbjct: 62 AYFYAVDEDLAT 73


>gi|291301766|ref|YP_003513044.1| XRE family transcriptional regulator [Stackebrandtia nassauensis
          DSM 44728]
 gi|290570986|gb|ADD43951.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis
          DSM 44728]
          Length = 80

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 28/62 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI + R   G+S+ +L E LG+ +Q +   E+G           I++  E  +   F  
Sbjct: 10 NRIAMLRAERGISRRQLAEALGVHYQTIGYLERGEYSPSLYLALRIAQYFEVEVEVVFST 69

Query: 77 SP 78
          +P
Sbjct: 70 AP 71


>gi|229189462|ref|ZP_04316479.1| HTH-type transcriptional regulator sinR [Bacillus cereus ATCC
          10876]
 gi|228594053|gb|EEK51855.1| HTH-type transcriptional regulator sinR [Bacillus cereus ATCC
          10876]
          Length = 107

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
               T  +++ SE
Sbjct: 62 LHDETTRETNLDSE 75


>gi|221141579|ref|ZP_03566072.1| hypothetical protein SauraJ_08055 [Staphylococcus aureus subsp.
          aureus str. JKD6009]
 gi|302344735|ref|YP_003813104.1| hypothetical protein pSK1_p06 [Staphylococcus aureus]
 gi|281336089|gb|ADA62638.1| hypothetical protein SAP025A_019 [Staphylococcus epidermidis]
 gi|282166337|gb|ADA80353.1| hypothetical protein SAP109A_023 [Staphylococcus epidermidis]
 gi|282166672|gb|ADA80688.1| hypothetical protein SAP098A_019 [Staphylococcus aureus]
 gi|282166876|gb|ADA80892.1| hypothetical protein SAP100A_001 [Staphylococcus aureus]
 gi|300492209|gb|ADK23690.1| hypothetical protein [Staphylococcus aureus]
 gi|302751831|gb|ADL66008.1| putative XRE-family transcriptional regulator [Staphylococcus
          aureus subsp. aureus str. JKD6008]
          Length = 203

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           +I   R    ++QE L E   +T + +Q+ E G   V +  L++IS  L+  I+  F+
Sbjct: 4  SKIAKLRKDKSLTQENLAEKACVTVRTIQRIEAGE-EVSSETLKNISNALDVTINELFE 61


>gi|220930162|ref|YP_002507071.1| XRE family transcriptional regulator [Clostridium cellulolyticum
          H10]
 gi|220000490|gb|ACL77091.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
          H10]
          Length = 108

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 34/67 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +GKRIR  R   G+++E+  E L ++   V + E+G  ++    L +IS+ L   + +
Sbjct: 4  KEIGKRIRDERESFGLTRERFAEMLELSTNFVGQIERGEKKMSLETLINISDCLHISLDY 63

Query: 73 FFDVSPT 79
              +P 
Sbjct: 64 LIKGTPE 70


>gi|169349697|ref|ZP_02866635.1| hypothetical protein CLOSPI_00435 [Clostridium spiroforme DSM
          1552]
 gi|169293772|gb|EDS75905.1| hypothetical protein CLOSPI_00435 [Clostridium spiroforme DSM
          1552]
          Length = 341

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 32/53 (60%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I+ RR+ LG +QE+LG  L ++   V ++EKG      + L  ++ +L++ ++
Sbjct: 7  IKERRLELGYTQEQLGALLNLSSSAVNRWEKGNCYPDITILPILARILKTDLN 59


>gi|251798465|ref|YP_003013196.1| XRE family transcriptional regulator [Paenibacillus sp. JDR-2]
 gi|247546091|gb|ACT03110.1| transcriptional regulator, XRE family [Paenibacillus sp. JDR-2]
          Length = 112

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 38/93 (40%), Gaps = 2/93 (2%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +  N+G+ IR  R   G SQE+L     I    + + E+G        L  I+  L+ 
Sbjct: 2  NEISRNIGENIRAIRKQKGFSQEQLALRAEINGSYMGQVERGEKSPTVDVLSKIAHALQC 61

Query: 69 PISFF--FDVSPTVCSDISSEENNVMDFISTPD 99
          P+        +P   S  + +  + +  +S  +
Sbjct: 62 PLEQLVHMPGTPHEDSTYAEKIASQLQGLSVKE 94


>gi|167751804|ref|ZP_02423931.1| hypothetical protein ALIPUT_00045 [Alistipes putredinis DSM 17216]
 gi|167660045|gb|EDS04175.1| hypothetical protein ALIPUT_00045 [Alistipes putredinis DSM 17216]
          Length = 224

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 40/89 (44%), Gaps = 5/89 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R++L R  +G++QE+L + LGI    +   E G   + +     + + L     +   
Sbjct: 3   GDRLKLLRKTIGLTQEQLAQRLGIGKAALSMIETGKAALSSRNKNILVQELNVNPDWL-- 60

Query: 76  VSPTVCSDISSEENNVMDFI-STPDGLQL 103
              +   ++ + E ++  ++  T + L L
Sbjct: 61  --DSGEGEMFNAEPDLTAYMHRTDNTLPL 87


>gi|77408023|ref|ZP_00784772.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae COH1]
 gi|77413855|ref|ZP_00790033.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 515]
 gi|77160095|gb|EAO71228.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 515]
 gi|77173385|gb|EAO76505.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae COH1]
          Length = 104

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 28/54 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          K+++  R+   +SQ+++ E + I+ Q   K+E G N    + L+ ++      I
Sbjct: 4  KKLKELRINNKLSQKQIAEQMNISQQAYAKWESGKNSPSLATLEKVANFFNLSI 57


>gi|312902013|ref|ZP_07761275.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
 gi|311290949|gb|EFQ69505.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
          Length = 74

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/54 (33%), Positives = 27/54 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +N G++IR  RM   +SQ +L   L ++ Q +  +E G  R     L  IS  L
Sbjct: 18 MNTGEKIRKYRMEKNLSQVELSSILLVSRQTISNWENGRTRPEMENLVLISNFL 71


>gi|297616433|ref|YP_003701592.1| XRE family transcriptional regulator [Syntrophothermus lipocalidus
           DSM 12680]
 gi|297144270|gb|ADI01027.1| transcriptional regulator, XRE family [Syntrophothermus lipocalidus
           DSM 12680]
          Length = 128

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 22/113 (19%), Positives = 46/113 (40%), Gaps = 5/113 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR +R  LG+S+ +L E +G++   V + E+G   +  +        L     +  
Sbjct: 8   LGRRIREQRQKLGLSRSQLAEIIGVSDYYVGQLERGERVMSLAVFMRFVFCLRVSPDYLL 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
             +         +  +   F S+    +L     +    +     +EL++ IV
Sbjct: 68  TGAQNDNILSVGDPGHTHYFASSKPDPELTELLARCSSQE-----LELIKEIV 115


>gi|293364818|ref|ZP_06611535.1| XRE family transcriptional regulator [Streptococcus oralis ATCC
           35037]
 gi|291316268|gb|EFE56704.1| XRE family transcriptional regulator [Streptococcus oralis ATCC
           35037]
          Length = 115

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 20/95 (21%), Positives = 35/95 (36%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+RIR+ R    +SQ+ L E  G+    +   E   + +    L+ I   L    S 
Sbjct: 8   KYIGQRIRIIRKEKNLSQQNLSEKAGVGIDYISNLETKGSNIKIDTLEKIITALNITPSE 67

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
            F+   T  +       + +  +      QL   F
Sbjct: 68  LFESRITPKNPHLELLADQLTQLPQTSQEQLLEAF 102


>gi|302520734|ref|ZP_07273076.1| transcriptional regulator [Streptomyces sp. SPB78]
 gi|302429629|gb|EFL01445.1| transcriptional regulator [Streptomyces sp. SPB78]
          Length = 241

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 32/71 (45%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +D  V KR+R  R+  G S E+L     ++   + + E G  R+    L  ++  L++
Sbjct: 6  DDLDSLVRKRVRALRVAQGWSLEELARRANLSQSTLSRIENGQRRLALDSLVTLARALDT 65

Query: 69 PISFFFDVSPT 79
           +    + +  
Sbjct: 66 SLDQLVETTSD 76


>gi|94970073|ref|YP_592121.1| transcriptional regulator [Candidatus Koribacter versatilis
           Ellin345]
 gi|94552123|gb|ABF42047.1| transcriptional regulator, XRE family with cupin sensor domain
           [Candidatus Koribacter versatilis Ellin345]
          Length = 201

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 19/97 (19%), Positives = 40/97 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+++R  R+   +   +LG+  G++   + K E+G        L  I+ V    + +FF
Sbjct: 21  IGEKLRALRLKKKLGLVELGKHTGLSPALLSKLERGKLFPTLPTLLRIALVFSVGLDYFF 80

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                        ++  + F   P+   +  YF  +D
Sbjct: 81  ADESRRHVVSVVRKDERLRFPERPNTRDVAYYFESLD 117


>gi|108800307|ref|YP_640504.1| XRE family transcriptional regulator [Mycobacterium sp. MCS]
 gi|119869435|ref|YP_939387.1| XRE family transcriptional regulator [Mycobacterium sp. KMS]
 gi|126435930|ref|YP_001071621.1| XRE family transcriptional regulator [Mycobacterium sp. JLS]
 gi|108770726|gb|ABG09448.1| transcriptional regulator, XRE family [Mycobacterium sp. MCS]
 gi|119695524|gb|ABL92597.1| transcriptional regulator, XRE family [Mycobacterium sp. KMS]
 gi|126235730|gb|ABN99130.1| transcriptional regulator, XRE family [Mycobacterium sp. JLS]
          Length = 193

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 32/89 (35%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  N+   + VD  V KR+R  R   G + E++     I    + + E G  R+    L 
Sbjct: 1  MQANEASEDSVDQRVRKRLRELRRQRGFTLEEVAARSAIDVSTLSRLESGKRRLALDHLP 60

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEEN 89
           ++  L                 + S+ +
Sbjct: 61 RLAAALAVTTDELLRSPEAEDPRVRSDSH 89


>gi|13471465|ref|NP_103031.1| transcriptional regulator [Mesorhizobium loti MAFF303099]
 gi|14022207|dbj|BAB48817.1| probable transcriptional regulator [Mesorhizobium loti MAFF303099]
          Length = 187

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 36/94 (38%), Gaps = 2/94 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           I N +   +G+RI   R++   S  +L E  G++   +   E+G+    A+ L  I+   
Sbjct: 4   IANDISSTIGRRIHAERVMRDWSLAELAERSGVSKAMLSTIERGMTSPTATLLVRIAAAF 63

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
              +S     +      +  E +        PD 
Sbjct: 64  GMTLSTLIARAELQGGGLLREADQPA--WRDPDT 95


>gi|152974807|ref|YP_001374324.1| XRE family transcriptional regulator [Bacillus cereus subsp.
          cytotoxis NVH 391-98]
 gi|152023559|gb|ABS21329.1| transcriptional regulator, XRE family [Bacillus cytotoxicus NVH
          391-98]
          Length = 107

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ +        L+ I+ VL+ PI   
Sbjct: 2  IGERIKRLRLQRGISLTELAEKAGVAKSYISSIERNLQQNPSIQFLEKIAAVLQIPIDTL 61

Query: 74 FDVSPTVCSDISSE 87
             +  + + + SE
Sbjct: 62 LHDTTPLENQLDSE 75


>gi|323357690|ref|YP_004224086.1| transcriptional regulator [Microbacterium testaceum StLB037]
 gi|323274061|dbj|BAJ74206.1| predicted transcriptional regulator [Microbacterium testaceum
          StLB037]
          Length = 209

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 37/82 (45%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +G R+R  R   G++  +L E   ++   + + E+G+ R   + L+ ++  L +   
Sbjct: 17 DERLGARVRGLRKARGLTLTQLAEAAALSHPFLSQLERGLARPSMASLERLARALGTSRV 76

Query: 72 FFFDVSPTVCSDISSEENNVMD 93
               S    +D  +E + V+ 
Sbjct: 77 ELIAASEPRRADADAEPSFVLA 98


>gi|322391684|ref|ZP_08065152.1| transcriptional regulator [Streptococcus peroris ATCC 700780]
 gi|321145495|gb|EFX40888.1| transcriptional regulator [Streptococcus peroris ATCC 700780]
          Length = 69

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+ L M+Q  L + +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 6  KLKLARVELDMTQSDLADAVGVTRQTIGLIEAGKYNPSLSLCQSICRCLGKTLDQLF 62


>gi|312862452|ref|ZP_07722695.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
           F0396]
 gi|319945713|ref|ZP_08019964.1| cro/CI family transcriptional regulator [Streptococcus australis
           ATCC 700641]
 gi|311102095|gb|EFQ60295.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
           F0396]
 gi|319748073|gb|EFW00316.1| cro/CI family transcriptional regulator [Streptococcus australis
           ATCC 700641]
 gi|328945360|gb|EGG39513.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
           SK1087]
 gi|332364441|gb|EGJ42213.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
           SK1059]
          Length = 170

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 27/100 (27%), Positives = 44/100 (44%), Gaps = 6/100 (6%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7   NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74  FDVSPTVCSDIS-SEENNVMDFISTPDGLQLNRYFIQIDD 112
           F  S  +  + S  E N   D +S     ++ +    I+D
Sbjct: 67  FGTSKEIELEKSVLESNEYSDKVS-----EILKAVKYIED 101


>gi|310657612|ref|YP_003935333.1| transcriptional regulator [Clostridium sticklandii DSM 519]
 gi|308824390|emb|CBH20428.1| Transcriptional regulator [Clostridium sticklandii]
          Length = 144

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          GK+++  R+I  ++Q++L    GI+   ++ YE G       +L  I+  L     
Sbjct: 4  GKKLKELRLIRNLTQKELAIKSGISDAAIRNYELGNRSPTKQQLDKIASALNCDPG 59


>gi|301386540|ref|ZP_07234958.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           tomato Max13]
 gi|330879318|gb|EGH13467.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           morsprunorum str. M302280PT]
 gi|330941035|gb|EGH43955.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           pisi str. 1704B]
          Length = 127

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 23/98 (23%), Positives = 37/98 (37%), Gaps = 4/98 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG +I+  R    +SQ  L E +G     V +YE+G    G  +L  I+ V         
Sbjct: 18  VGAKIKALRKSTTLSQADLAEMIGCDAPLVSRYERGSTLPGIEQLIRIATVFNVAPGELL 77

Query: 75  DVSPTVCS----DISSEENNVMDFISTPDGLQLNRYFI 108
                V       +  E    +  + +P+ L+    FI
Sbjct: 78  PGGQDVLRTRLLSLRQEITERIAEVDSPEYLEEMLNFI 115


>gi|297204967|ref|ZP_06922364.1| conserved hypothetical protein [Streptomyces sviceus ATCC 29083]
 gi|297148807|gb|EDY60951.2| conserved hypothetical protein [Streptomyces sviceus ATCC 29083]
          Length = 419

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 14/49 (28%), Positives = 29/49 (59%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          L R   G++Q +LG  +G++ +Q+  YE+G +     RL+ ++  L++ 
Sbjct: 15 LLRRKAGLTQAQLGAAVGVSARQIASYEQGAHAPSPRRLRLMARALKTS 63


>gi|323526715|ref|YP_004228868.1| XRE family transcriptional regulator with shikimate kinase activity
           [Burkholderia sp. CCGE1001]
 gi|323383717|gb|ADX55808.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia sp. CCGE1001]
          Length = 330

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 28/132 (21%), Positives = 52/132 (39%), Gaps = 17/132 (12%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            G ++  +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ 
Sbjct: 31  TGEREERDPFLTAMGERVRLLRARRGMTRKTLAAETGLSERHLANLESGVGNASVLVLRQ 90

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRY-------FIQID 111
           I+  L  P++        V  D ++       + + +   D   L R        F Q  
Sbjct: 91  IAATLNCPLA-------EVIGDETTASAEWLLIRELLHGRDQAALQRARMALAEMFAQAP 143

Query: 112 DVKVRQKIIELV 123
               R+  I L+
Sbjct: 144 RDPHRKDRIALI 155


>gi|268610104|ref|ZP_06143831.1| hypothetical protein RflaF_11484 [Ruminococcus flavefaciens FD-1]
          Length = 119

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 35/74 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R  L +SQ +L E   I+   + K E G +  G S L  ISE L+       
Sbjct: 11 IGERIKQARKELDISQTELAERADISVPYLSKIEMGKSDFGVSVLIRISEALQISTDKLL 70

Query: 75 DVSPTVCSDISSEE 88
                 + I++++
Sbjct: 71 RPDIPETTIIAADD 84


>gi|229521883|ref|ZP_04411300.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae TM
          11079-80]
 gi|229340808|gb|EEO05813.1| transcriptional regulator YidN, Cro/CI family [Vibrio cholerae TM
          11079-80]
          Length = 181

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 34/78 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  +++  R   G+S +   +  G++   + + E+G +    + L  I+   E+  S F
Sbjct: 9  QIANQLKKLRKSRGLSLDATAQLTGVSKAMLGQIERGESSPTIATLWKIASGFEASFSAF 68

Query: 74 FDVSPTVCSDISSEENNV 91
          F   P + S   S  ++ 
Sbjct: 69 FANDPQLLSSERSFPDDP 86


>gi|227535713|ref|ZP_03965762.1| bifunctional S24 family peptidase/transcriptional regulator
          [Lactobacillus paracasei subsp. paracasei ATCC 25302]
 gi|227186680|gb|EEI66747.1| bifunctional S24 family peptidase/transcriptional regulator
          [Lactobacillus paracasei subsp. paracasei ATCC 25302]
          Length = 257

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 35/76 (46%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          +NVG+R++  R   G+S + L   +G++   V +YEKG + +V    +  ++  L+    
Sbjct: 1  MNVGERMKTIRKQKGISADSLAAKIGVSRSTVFRYEKGDIEKVPIEVVAKVANALDIKPE 60

Query: 72 FFFDVSPTVCSDISSE 87
              +      D   +
Sbjct: 61 VLMGLKADTVVDKIHD 76


>gi|167745764|ref|ZP_02417891.1| hypothetical protein ANACAC_00458 [Anaerostipes caccae DSM 14662]
 gi|167654795|gb|EDR98924.1| hypothetical protein ANACAC_00458 [Anaerostipes caccae DSM 14662]
          Length = 149

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 34/77 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  +   R   G+SQE +   LG++ Q + K+E G       + ++++ +    +  
Sbjct: 1  MNLGNSLFNARKKSGLSQEDVAGKLGVSRQTISKWETGETLPDIRQSKNLAVLYHVSLDE 60

Query: 73 FFDVSPTVCSDISSEEN 89
            +    +     + EN
Sbjct: 61 LIEFDIELKEIEQAIEN 77


>gi|326385716|ref|ZP_08207345.1| hypothetical protein Y88_2773 [Novosphingobium nitrogenifigens
          DSM 19370]
 gi|326209695|gb|EGD60483.1| hypothetical protein Y88_2773 [Novosphingobium nitrogenifigens
          DSM 19370]
          Length = 135

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 28/59 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI   R + G+SQ +L E LGI+   +  YE+G     AS +  + E       + 
Sbjct: 8  IGTRIAEVRRLKGLSQVQLAEELGISKPGLANYERGFRVPPASLVADLCEKHGVSAGWL 66


>gi|319655076|ref|ZP_08009143.1| hypothetical protein HMPREF1013_05766 [Bacillus sp. 2_A_57_CT2]
 gi|317393240|gb|EFV74011.1| hypothetical protein HMPREF1013_05766 [Bacillus sp. 2_A_57_CT2]
          Length = 65

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G  +R++R    ++QE++ + +G +   + +YE+   R     LQ +++     ++
Sbjct: 5  LGGNLRIQRFKKNLTQEEVAKAIGTSHSMIGRYERNKTRPRRGTLQKLADFYGVSVN 61


>gi|317488096|ref|ZP_07946673.1| hypothetical protein HMPREF1023_00371 [Eggerthella sp. 1_3_56FAA]
 gi|316912804|gb|EFV34336.1| hypothetical protein HMPREF1023_00371 [Eggerthella sp. 1_3_56FAA]
          Length = 71

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  IR RR    +SQ+KL   +G +   + + E G   VG   L  I++ L+  +  
Sbjct: 8  VLLGSAIRERREAQSLSQQKLALMIGSSKSHIWRIESGRVSVGLDDLGRIADALDVQVRD 67

Query: 73 FF 74
           F
Sbjct: 68 LF 69


>gi|332653120|ref|ZP_08418865.1| putative transcriptional regulator [Ruminococcaceae bacterium
          D16]
 gi|332518266|gb|EGJ47869.1| putative transcriptional regulator [Ruminococcaceae bacterium
          D16]
          Length = 71

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 29/60 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R++  R   G++Q+ LG  +G + Q +   E+G      +    I++V  + +   F
Sbjct: 3  LGNRLKELRAAKGLNQQGLGSLVGASRQTISLIERGDYNPSITLALRIAKVFGTTVDEVF 62


>gi|295135771|ref|YP_003586447.1| XRE family transcriptional regulator [Zunongwangia profunda
          SM-A87]
 gi|294983786|gb|ADF54251.1| XRE family transcriptional regulator [Zunongwangia profunda
          SM-A87]
          Length = 152

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          ++G++I   R + GM QE L   LGI+ Q V   E+  + +   +L+ +++VL   
Sbjct: 21 HIGRKISRIRELRGMKQEALAAELGISQQSVSSLEQSEH-IEDEKLEKVAKVLGVS 75


>gi|294678117|ref|YP_003578732.1| XRE family transcriptional regulator [Rhodobacter capsulatus SB
           1003]
 gi|294476937|gb|ADE86325.1| transcriptional regulator, XRE family [Rhodobacter capsulatus SB
           1003]
          Length = 451

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 23/130 (17%), Positives = 44/130 (33%), Gaps = 10/130 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RIR RR+ L + Q  L   +GI+   +   E    RV    L   ++ L        +
Sbjct: 8   GTRIRERRLTLKLRQADLARAVGISAAYLNLIEHNRRRVSEPLLDTFAKALGVAPVALSE 67

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV-------RSIVS 128
            + +   +   E    +   +           I   D    ++I E V       + + +
Sbjct: 68  GAESALFEALREAAAGVAGGAGTGTGDAVGALI---DPSELERIEEFVGRFPGWAKVLAA 124

Query: 129 SEKKYRTIEE 138
            + +   +E 
Sbjct: 125 RQSRLAALER 134


>gi|268608723|ref|ZP_06142450.1| transcriptional regulator, XRE family protein [Ruminococcus
           flavefaciens FD-1]
          Length = 238

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 40/93 (43%), Gaps = 6/93 (6%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I L+R    +SQ++    LGI+   +  YEKG+   G + L  I++       +    +P
Sbjct: 9   ITLQRKERHISQKQAATDLGISQALLSHYEKGIRECGLNFLVKIADYYNVSCDYLLGRTP 68

Query: 79  TVCS------DISSEENNVMDFISTPDGLQLNR 105
                     DI  ++ N    + +P+ +  NR
Sbjct: 69  EPEGKTITIEDIPDDDGNNTLKMPSPEIINFNR 101


>gi|163848207|ref|YP_001636251.1| helix-turn-helix domain-containing protein [Chloroflexus
          aurantiacus J-10-fl]
 gi|222526115|ref|YP_002570586.1| XRE family transcriptional regulator [Chloroflexus sp. Y-400-fl]
 gi|163669496|gb|ABY35862.1| helix-turn-helix domain protein [Chloroflexus aurantiacus
          J-10-fl]
 gi|222449994|gb|ACM54260.1| transcriptional regulator, XRE family [Chloroflexus sp. Y-400-fl]
          Length = 181

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 11/68 (16%), Positives = 34/68 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++I   R   G++ +++ E  G+T   + + E+    +  + L+ +++     ++ 
Sbjct: 1  MSLGQKIGRLRQERGLTLQEVSEGSGLTPSFLSRLERDKVNISVANLRKLAQFFSVQMTH 60

Query: 73 FFDVSPTV 80
          FF+     
Sbjct: 61 FFEGEDDQ 68


>gi|154490356|ref|ZP_02030617.1| hypothetical protein PARMER_00589 [Parabacteroides merdae ATCC
          43184]
 gi|154088967|gb|EDN88011.1| hypothetical protein PARMER_00589 [Parabacteroides merdae ATCC
          43184]
          Length = 196

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 39/82 (47%), Gaps = 7/82 (8%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          ++GN KI       +G +I+  R    +S +++ E  G++ +Q+++ E  ++    + L 
Sbjct: 2  LMGNNKI-------IGAKIKSIRESKQLSTQEVSERSGLSIEQIERIEGNIDFPSLAPLI 54

Query: 61 HISEVLESPISFFFDVSPTVCS 82
           I+ VL   +  F D    +  
Sbjct: 55 KIARVLGVRLGTFLDDQSELGP 76


>gi|62179766|ref|YP_216183.1| regulatory protein [Salmonella enterica subsp. enterica serovar
          Choleraesuis str. SC-B67]
 gi|62127399|gb|AAX65102.1| regulatory protein [Salmonella enterica subsp. enterica serovar
          Choleraesuis str. SC-B67]
          Length = 259

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 35/90 (38%), Gaps = 6/90 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M   +L E +G+    + + E G  +      L  +++ L   I+
Sbjct: 1  MNIGNRVRQLRRAKNMKIAELAEAIGVDAANISRLETGKQKQFTEQTLSRLADCLGVDIA 60

Query: 72 FFFDVSPTVC-----SDISSEENNVMDFIS 96
            F            SD+  +  NV D   
Sbjct: 61 ELFTSDSKGNTVCKHSDMRKDSANVKDLFR 90


>gi|148261636|ref|YP_001235763.1| XRE family transcriptional regulator [Acidiphilium cryptum JF-5]
 gi|326405126|ref|YP_004285208.1| Xre family transcriptional regulator [Acidiphilium multivorum
           AIU301]
 gi|146403317|gb|ABQ31844.1| transcriptional regulator, XRE family [Acidiphilium cryptum JF-5]
 gi|325051988|dbj|BAJ82326.1| Xre family transcriptional regulator [Acidiphilium multivorum
           AIU301]
          Length = 110

 Score = 53.7 bits (128), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 25/128 (19%), Positives = 49/128 (38%), Gaps = 19/128 (14%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   K+ P     +VG+RIR  R+   ++Q++    LG++   + ++E          L+
Sbjct: 1   MAPKKQTPPE---SVGQRIRALRLANNLTQDEFAAQLGVSRSAIAQWETDRAGQVRENLE 57

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            IS+VL + I++                          D L L R +      + RQ ++
Sbjct: 58  RISKVLGTSIAYLVSGETGSLQG---------------DELALMRLYRACA-AEDRQILL 101

Query: 121 ELVRSIVS 128
              + +  
Sbjct: 102 RTAKRLAR 109


>gi|299132893|ref|ZP_07026088.1| transcriptional regulator, XRE family [Afipia sp. 1NLS2]
 gi|298593030|gb|EFI53230.1| transcriptional regulator, XRE family [Afipia sp. 1NLS2]
          Length = 118

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 41/93 (44%), Gaps = 3/93 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           KR+R  R + G+SQ  L    G+    V  +E G  +     L+ +++ L+    +    
Sbjct: 12  KRLREARDLRGLSQALLAAKAGLPPASVSHFESGPRKPSFDNLKALAKALDVTTDYLLGR 71

Query: 77  S--PTVCSDISSEENNVMDFISTPDGLQLNRYF 107
           S  P   ++     +  +  +S+ D L+L + F
Sbjct: 72  SETPDASAETVGRLHRDLHKLSSQD-LELAQDF 103


>gi|257868272|ref|ZP_05647925.1| conserved hypothetical protein [Enterococcus casseliflavus EC30]
 gi|257874455|ref|ZP_05654108.1| conserved hypothetical protein [Enterococcus casseliflavus EC10]
 gi|325568146|ref|ZP_08144587.1| cro/CI family transcriptional regulator [Enterococcus
          casseliflavus ATCC 12755]
 gi|257802386|gb|EEV31258.1| conserved hypothetical protein [Enterococcus casseliflavus EC30]
 gi|257808619|gb|EEV37441.1| conserved hypothetical protein [Enterococcus casseliflavus EC10]
 gi|325158347|gb|EGC70498.1| cro/CI family transcriptional regulator [Enterococcus
          casseliflavus ATCC 12755]
          Length = 110

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 28/59 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+R+R  R+    +Q+++ + LGIT      +E   N      +  ++E+ +    F 
Sbjct: 2  LGERLRTLRLRTNQTQQQIADQLGITRAAYSHFENDRNEPDGETIVKLAEIFQVSTDFL 60


>gi|302530702|ref|ZP_07283044.1| transcriptional regulator [Streptomyces sp. AA4]
 gi|302439597|gb|EFL11413.1| transcriptional regulator [Streptomyces sp. AA4]
          Length = 187

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 24/59 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG R+R  R   G++   L    GI+   + + E G  R     L  +S   + PI   
Sbjct: 11 VGPRLRALRTRRGITLADLSAETGISESTLSRLENGQRRANLELLLPLSRAYDVPIDDL 69


>gi|238917699|ref|YP_002931216.1| hypothetical protein EUBELI_01779 [Eubacterium eligens ATCC
          27750]
 gi|238873059|gb|ACR72769.1| Hypothetical protein EUBELI_01779 [Eubacterium eligens ATCC
          27750]
          Length = 213

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 3/80 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  IR  R+   M+Q++L +  G+    ++ YE G      + L +I+  L      F+
Sbjct: 9  VGYLIRNFRIASDMTQKELADKCGLNESTIRNYELGNRYPDEATLLNIANNLGVS---FY 65

Query: 75 DVSPTVCSDISSEENNVMDF 94
           +S    ++I S  + + D 
Sbjct: 66 ALSDPDVANIFSALHVLFDI 85


>gi|229155430|ref|ZP_04283539.1| hypothetical protein bcere0010_16230 [Bacillus cereus ATCC 4342]
 gi|228627991|gb|EEK84709.1| hypothetical protein bcere0010_16230 [Bacillus cereus ATCC 4342]
          Length = 157

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G++++  R     SQE + + +G+T Q V K+E   +      L  +SE+    + 
Sbjct: 1  MSLGEQLKKLRESKEFSQEDVAKKIGVTRQAVYKWENDKSYPDIDNLILLSEMYNVTLD 59


>gi|162448594|ref|YP_001610961.1| transcriptional regulator [Sorangium cellulosum 'So ce 56']
 gi|161159176|emb|CAN90481.1| transcriptional regulator [Sorangium cellulosum 'So ce 56']
          Length = 230

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 26/60 (43%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V   ++  R   G+S E+L +  G++   + + E G +    + L  I+  L  P S   
Sbjct: 51  VASNLKRFRAERGLSLERLAKASGVSRAMLGQIELGQSTPTINVLWKIARALGVPFSALM 110


>gi|149909139|ref|ZP_01897797.1| hypothetical protein PE36_17760 [Moritella sp. PE36]
 gi|149807890|gb|EDM67835.1| hypothetical protein PE36_17760 [Moritella sp. PE36]
          Length = 68

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 21/57 (36%), Positives = 32/57 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          INVG +I++RR  + +SQ+KL     I    V + E+G   +   +L  I+EVLE  
Sbjct: 6  INVGLKIKVRRKEMRVSQDKLALLADIDRSYVGRIERGEVNITLEKLYQIAEVLECD 62


>gi|153953129|ref|YP_001393894.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|146346010|gb|EDK32546.1| Transcriptional regulator [Clostridium kluyveri DSM 555]
          Length = 65

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 21/59 (35%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I+  R      QE L   LG+T Q +   E             ++ +L + +   F+  
Sbjct: 5  IKKLRKEKNYRQEDLANALGVTRQTINAIENNKYDPTLLLAFKLANILGTTVDKLFEPD 63


>gi|124516094|gb|EAY57603.1| putative transcriptional regulator, XRE family [Leptospirillum
          rubarum]
          Length = 121

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 23/93 (24%), Positives = 39/93 (41%), Gaps = 3/93 (3%)

Query: 1  MVGNKKIPNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M+  K I N  D + +G RIR  R    MSQ    E LGI  +++ ++E G        L
Sbjct: 1  MIYQKGIDNNWDPLGLGARIRHLRG--NMSQTAFAELLGIRQEEISRFESGSRVPSVELL 58

Query: 60 QHISEVLESPISFFFDVSPTVCSDISSEENNVM 92
            +S + +  + +      +       EE+  +
Sbjct: 59 VRLSGIHKVTLDWLVMGGTSGGEGSVREEDTPL 91


>gi|49082636|gb|AAT50718.1| PA4499 [synthetic construct]
          Length = 188

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 40/99 (40%), Gaps = 2/99 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD  +G+R+R  R     +  ++    G+T   + + E+ +  V  S L +I++ L  P+
Sbjct: 3   VDR-IGERLRRYRRAAKKTLHQVASESGLTASFLSQAERNLTGVSISSLANIAKSLNIPL 61

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQ-LNRYFI 108
           +  FD       D    E         P   + L+  F 
Sbjct: 62  NALFDQPAQPQPDSHEGERVRYTIEGQPLAYERLSSSFP 100


>gi|46581469|ref|YP_012277.1| DNA-binding protein [Desulfovibrio vulgaris str. Hildenborough]
 gi|120601361|ref|YP_965761.1| cupin 2 domain-containing protein [Desulfovibrio vulgaris DP4]
 gi|46450891|gb|AAS97537.1| DNA-binding protein [Desulfovibrio vulgaris str. Hildenborough]
 gi|120561590|gb|ABM27334.1| transcriptional regulator, MerR family [Desulfovibrio vulgaris
          DP4]
 gi|311235121|gb|ADP87975.1| Cupin 2 conserved barrel domain protein [Desulfovibrio vulgaris
          RCH1]
          Length = 189

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 20/84 (23%), Positives = 34/84 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R+R  R   GMS+E+L E  G+T + +   E+         LQ ++  L   +  F 
Sbjct: 6  LGARVRKYREDRGMSREQLSEAAGLTVEFIAALEEDNLYPSIGPLQKVARALNVRLGTFM 65

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
          D   T    ++   +   D     
Sbjct: 66 DDEVTKDPIVARRGDREADLTMQK 89


>gi|45358556|ref|NP_988113.1| XRE family transcriptional regulator [Methanococcus maripaludis
          S2]
 gi|44921314|emb|CAF30549.1| conserved hypothetical helix-turn-helix protein [Methanococcus
          maripaludis S2]
          Length = 66

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R    M+QE LG+ +G+  + +   EKG           IS+ L   I   F
Sbjct: 4  RIKEYRAKYDMTQEDLGKIVGVRRETIGFLEKGKYNPSLKLAHAISKALNVKIDDLF 60


>gi|186681969|ref|YP_001865165.1| XRE family transcriptional regulator [Nostoc punctiforme PCC
          73102]
 gi|186464421|gb|ACC80222.1| transcriptional regulator, XRE family [Nostoc punctiforme PCC
          73102]
          Length = 83

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 33/66 (50%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+ +D  +G  ++ RR   G SQE L E  G+    + + E+G+       L HI++ L 
Sbjct: 3  PSKLDQILGLELQRRRTEKGWSQEYLAEVTGLHRTYISQLERGLKSPSVRVLSHITKALG 62

Query: 68 SPISFF 73
            +S F
Sbjct: 63 MTMSEF 68


>gi|330814715|ref|YP_004362890.1| hypothetical protein bgla_4p3070 [Burkholderia gladioli BSR3]
 gi|327374707|gb|AEA66058.1| hypothetical protein bgla_4p3070 [Burkholderia gladioli BSR3]
          Length = 111

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 31/78 (39%), Gaps = 4/78 (5%)

Query: 1  MVGNKKIP----NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA 56
          M  + K P    NP+   VG+R++  R+  G SQE L     ++   +   E G      
Sbjct: 5  MNASAKTPTFERNPITQAVGRRLKEVRLQAGKSQEDLAHEAAVSRVAISAVESGAANTTV 64

Query: 57 SRLQHISEVLESPISFFF 74
            L  +   L   +S  F
Sbjct: 65 LTLAALCRPLGISLSELF 82


>gi|326331894|ref|ZP_08198181.1| putative Helix-turn-helix domain protein [Nocardioidaceae bacterium
           Broad-1]
 gi|325950391|gb|EGD42444.1| putative Helix-turn-helix domain protein [Nocardioidaceae bacterium
           Broad-1]
          Length = 209

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 38/94 (40%), Gaps = 6/94 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R++  R    ++   L E  GI+   + + E G+ R    +L  ++      +    
Sbjct: 12  VGPRLKQLRQRRDITLSHLAEETGISTSTLSRLEAGLRRPTLEQLLPLARAYGVTLDDLV 71

Query: 75  DVSPTVCSDIS------SEENNVMDFISTPDGLQ 102
           D  PT    I+      ++ + ++     P G+Q
Sbjct: 72  DAPPTGNPRINLRPIPCADGSMILPLTRRPGGIQ 105


>gi|325848872|ref|ZP_08170382.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
           ACS-025-V-Sch4]
 gi|325480516|gb|EGC83578.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
           ACS-025-V-Sch4]
          Length = 168

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 23/104 (22%), Positives = 44/104 (42%), Gaps = 10/104 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +   I+ RR  L M+QE+L +  G  T   + + EKG   +  S+++  +  L +  S+ 
Sbjct: 4   LSNNIKKRRNELNMTQEELAKKTGYKTKGAISRIEKGERDLSQSQIEIFANALSTTPSYL 63

Query: 74  FDVSPTVCSD-------ISSEENNVMDF--ISTPDGLQLNRYFI 108
                   S+       +S EE  ++D      P+G +    + 
Sbjct: 64  MGWEDDKKSENIKPISPLSPEEKQILDPYKQLNPEGQEKAISYT 107


>gi|319745678|gb|EFV97977.1| DNA-binding protein [Streptococcus agalactiae ATCC 13813]
          Length = 197

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I   R    +SQE+L E + ++ Q +  +E          L  +S++ +  + 
Sbjct: 1  MEIGQQIIRYRKQQALSQEELAEKVYVSRQSISNWENDKTYPDIHSLLLLSQIFQVSLD 59


>gi|295087511|emb|CBK69034.1| Helix-turn-helix. [Bacteroides xylanisolvens XB1A]
          Length = 74

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 29/62 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I  G+R+R  R    MSQE+L +   +    +   E+    V    ++ I++ LE  I  
Sbjct: 6  IKFGERVRQLRKEKRMSQEELADKANLHRTYIGMIERAEKNVTLINIEKIAKALEVSIQD 65

Query: 73 FF 74
          FF
Sbjct: 66 FF 67


>gi|307727212|ref|YP_003910425.1| Cupin 2 conserved barrel domain-containing protein [Burkholderia
           sp. CCGE1003]
 gi|307587737|gb|ADN61134.1| Cupin 2 conserved barrel domain protein [Burkholderia sp. CCGE1003]
          Length = 190

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 21/117 (17%), Positives = 44/117 (37%), Gaps = 10/117 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG +IR  R  L  + ++     GI+   + + E+G+     + L  I+  L   + +
Sbjct: 12  LEVGSKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSITSLAGIAHALGVTVQY 71

Query: 73  FFDVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFIQIDDVKVRQKI 119
           F D      S    ++     F  +            G QL    +++   + R ++
Sbjct: 72  FVDTPSEERSVSRGDQLKFFGFADSANLFARLTNVAGGRQLEAILVKMPPGQKRSEV 128


>gi|282915477|ref|ZP_06323249.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          D139]
 gi|282320580|gb|EFB50918.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          D139]
          Length = 391

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK +   R +  +S+++L E + ++ Q + +YE        S++  ++ +     S+
Sbjct: 1  MFIGKNLEYVRKLNALSRKELSEKINVSEQAIWQYETKNMMPEISKIYDMTSIFNVKSSY 60

Query: 73 FFDVSPTV 80
          F    P  
Sbjct: 61 FISEQPEE 68


>gi|255655987|ref|ZP_05401396.1| putative phage regulatory protein [Clostridium difficile
          QCD-23m63]
 gi|296450586|ref|ZP_06892339.1| probable phage regulatory protein [Clostridium difficile NAP08]
 gi|296879295|ref|ZP_06903290.1| probable phage regulatory protein [Clostridium difficile NAP07]
 gi|296260430|gb|EFH07272.1| probable phage regulatory protein [Clostridium difficile NAP08]
 gi|296429838|gb|EFH15690.1| probable phage regulatory protein [Clostridium difficile NAP07]
          Length = 123

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 43/85 (50%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI   R  L ++Q++L   +GIT   + +YE  +    +  +  +++ LE+   +  
Sbjct: 4  LGDRIANLRKELDINQKELATKVGITEASLSRYENNLREPKSEIIVRLAKALETSTDYLL 63

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
           V+     +IS E+  +++ +S  +
Sbjct: 64 GVNDNT--NISKEDKLIIENLSVSE 86


>gi|225375203|ref|ZP_03752424.1| hypothetical protein ROSEINA2194_00828 [Roseburia inulinivorans DSM
           16841]
 gi|225212954|gb|EEG95308.1| hypothetical protein ROSEINA2194_00828 [Roseburia inulinivorans DSM
           16841]
          Length = 187

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 27/109 (24%), Positives = 49/109 (44%), Gaps = 9/109 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I   R   G++Q +L + L +T + V K+E+GV       L+ +++VL+  +    
Sbjct: 6   LGIFITELRKEKGLTQAQLAQKLNVTDKAVSKWERGVGFPDIKLLEPLADVLDISLLELM 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
             S  +     S  +    F    + + L  Y  +I+    RQ+I  LV
Sbjct: 66  K-SERLPKTTVSAPDTTDAF---QNVIDLASYERKIE----RQRI-ALV 105


>gi|226324530|ref|ZP_03800048.1| hypothetical protein COPCOM_02314 [Coprococcus comes ATCC 27758]
 gi|225206978|gb|EEG89332.1| hypothetical protein COPCOM_02314 [Coprococcus comes ATCC 27758]
          Length = 121

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/115 (19%), Positives = 43/115 (37%), Gaps = 6/115 (5%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    ++ N G R+R  R   G++Q  L E L +    + + E G      + + + SE 
Sbjct: 2   KERYSMEKNFGTRVRQARHKAGLTQAALAEKLNLDETTISRIENGSQATSFATMLNFSEA 61

Query: 66  LESPISFFF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           L+    +   D               ++D I+      L   + ++    +RQ +
Sbjct: 62  LDVKFDYLICDYLDDSIHSKDPINAEILDMIT-----PLPDNYKRLIRDNIRQLL 111


>gi|210613950|ref|ZP_03289987.1| hypothetical protein CLONEX_02200 [Clostridium nexile DSM 1787]
 gi|210150910|gb|EEA81918.1| hypothetical protein CLONEX_02200 [Clostridium nexile DSM 1787]
          Length = 108

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 33/76 (43%), Gaps = 1/76 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  +G  IR  R  LG++QE++ E L +        E+       S    I++ L   +
Sbjct: 4  IDSRLGDMIRSYREKLGLTQEEMAERLQVNLTHYGNIERAACNPSFSLFLRIAKELNLSV 63

Query: 71 -SFFFDVSPTVCSDIS 85
           ++ +       ++I+
Sbjct: 64 DAYLYSTRDDTAAEIT 79


>gi|254380659|ref|ZP_04996025.1| DNA-binding protein [Streptomyces sp. Mg1]
 gi|194339570|gb|EDX20536.1| DNA-binding protein [Streptomyces sp. Mg1]
          Length = 296

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/128 (17%), Positives = 46/128 (35%), Gaps = 22/128 (17%)

Query: 1   MVGNKKIPNPVDINV-------GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR 53
           MV ++  P P    V       G+RI  RR  LG+++E++G+  G     V   E+    
Sbjct: 1   MVVSRNKPGPASTEVPAGRTDLGRRIAARRQELGLTREQVGKRCGADATYVAYLEEHAAA 60

Query: 54  VGASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
                L  I++ L + ++        +    +         +   + + L          
Sbjct: 61  PAIGSLARIADALGTTVA-------ELTGATTGYPPGRGTALRDAELITLTDA------- 106

Query: 114 KVRQKIIE 121
             R++++ 
Sbjct: 107 -ERRRLLS 113


>gi|167834922|ref|ZP_02461805.1| hypothetical protein Bpse38_00430 [Burkholderia thailandensis
          MSMB43]
          Length = 131

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 31/67 (46%), Gaps = 1/67 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-S 71
          +N   R+ + R   G++Q++L +   +   QV +YE G +R     ++ ++  L     +
Sbjct: 1  MNFSDRLAMLRKQRGLTQQQLADRAKVHLVQVNRYEAGASRPAVDVVKRLAVALSVSADA 60

Query: 72 FFFDVSP 78
            FD   
Sbjct: 61 LLFDEDE 67


>gi|160914966|ref|ZP_02077180.1| hypothetical protein EUBDOL_00974 [Eubacterium dolichum DSM 3991]
 gi|158433506|gb|EDP11795.1| hypothetical protein EUBDOL_00974 [Eubacterium dolichum DSM 3991]
          Length = 144

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 34/80 (42%), Gaps = 2/80 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  + + R   G+SQE + E LG++ Q + K+E         + + ++ +    +  
Sbjct: 1  MNIGNHLMMARKRKGLSQESVAEKLGVSRQTISKWETCETLPDICQAKTLATIYGISLDE 60

Query: 73 F--FDVSPTVCSDISSEENN 90
             FD       DI    + 
Sbjct: 61 LITFDSDVQELQDIIERTSE 80


>gi|29337279|gb|AAD39136.2|AF123569_4 NmeSIC [Neisseria meningitidis]
          Length = 71

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 31/64 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  GKR++  R++ G SQE+L E +G+    +   E+G   +    +  +++     IS 
Sbjct: 6  VEFGKRVKHYRLLNGWSQEELAEKVGLHRTYIGSVERGERNISLLNISLLAKSFSINISE 65

Query: 73 FFDV 76
            + 
Sbjct: 66 LVEG 69


>gi|322376588|ref|ZP_08051081.1| putative transcriptional regulator [Streptococcus sp. M334]
 gi|321282395|gb|EFX59402.1| putative transcriptional regulator [Streptococcus sp. M334]
          Length = 158

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQPEFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|320326795|gb|EFW82833.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
          glycinea str. race 4]
 gi|330882738|gb|EGH16887.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
          glycinea str. race 4]
          Length = 118

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 3/75 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G R+R  R   G +Q++L + +G     + +YE+GV       L  +   L+   + 
Sbjct: 6  AFIGVRVRAFRKAHGFNQDQLAKLVGCEKMTISRYERGVGTPNLDHLVKLCVALKISPA- 64

Query: 73 FFDVSPTVCSDISSE 87
            ++ P      S E
Sbjct: 65 --ELLPADGISSSRE 77


>gi|302331894|gb|ADL22087.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus JKD6159]
          Length = 391

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK +   R +  +S+++L E + ++ Q + +YE        S++  ++ +     S+
Sbjct: 1  MFIGKNLEYVRKLNALSRKELSEKINVSEQAIWQYETKNMMPEISKIYDMTSIFNVKSSY 60

Query: 73 FFDVSPTV 80
          F    P  
Sbjct: 61 FISEQPEE 68


>gi|261820979|ref|YP_003259085.1| XRE family transcriptional regulator [Pectobacterium wasabiae
          WPP163]
 gi|261604992|gb|ACX87478.1| transcriptional regulator, XRE family [Pectobacterium wasabiae
          WPP163]
          Length = 99

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 4/72 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR+RL R+  G+ Q +LG   G+       +V +YE+ V+      +   + VL+ P 
Sbjct: 6  IGKRLRLARVNKGLKQAELGCLAGLDEETASSRVSQYEREVSAPDFGLVSRFATVLDVPE 65

Query: 71 SFFFDVSPTVCS 82
          ++F+ V   + +
Sbjct: 66 AYFYAVDDDLAT 77


>gi|225575463|ref|ZP_03784073.1| hypothetical protein RUMHYD_03553 [Blautia hydrogenotrophica DSM
           10507]
 gi|225037315|gb|EEG47561.1| hypothetical protein RUMHYD_03553 [Blautia hydrogenotrophica DSM
           10507]
          Length = 369

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 24/99 (24%), Positives = 46/99 (46%), Gaps = 3/99 (3%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR +R   G++QE++ E LG++   V K+E G      S L  ++ +L + I+       
Sbjct: 7   IRRKRRECGLTQEQVAERLGVSTPAVNKWENGTTCPDISLLAPLARLLRTDINTLLCFQE 66

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
            +  +   E    +   +  +G++    F  I + KVR+
Sbjct: 67  DLTEENVVEYTTQITKAAQSEGIE--EAFRLIQE-KVRE 102


>gi|41406396|ref|NP_959232.1| hypothetical protein MAP0298 [Mycobacterium avium subsp.
           paratuberculosis K-10]
 gi|41394745|gb|AAS02615.1| hypothetical protein MAP_0298 [Mycobacterium avium subsp.
           paratuberculosis K-10]
          Length = 502

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 44/109 (40%), Gaps = 5/109 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R   G++Q  L   LG++   V + E     +    L  ++E  + P  +F  
Sbjct: 35  GARLRRLREEQGLTQVALARALGLSTSYVNQLENDQRPITVPVLLTLTERFDLPTQYFAP 94

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL-QLNRYFIQIDD--VKVRQKIIE 121
            S      I+     + +  +TP  + +L      I    V + +++ +
Sbjct: 95  DSDARL--IADLREVLAETPATPGQVEELVARMPAIGQTLVNLHRRLHD 141


>gi|19746274|ref|NP_607410.1| hypothetical protein spyM18_1303 [Streptococcus pyogenes
          MGAS8232]
 gi|19748461|gb|AAL97909.1| hypothetical phage protein [Streptococcus pyogenes MGAS8232]
          Length = 52

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFFF 74
          MSQE+L    G++   +   E   +  V  S LQ ++  L+ PI +FF
Sbjct: 1  MSQEELANKSGVSRTTISLIETDKSTTVKLSTLQKLAVALDVPIGYFF 48


>gi|53712090|ref|YP_098082.1| putative transcriptional regulator [Bacteroides fragilis YCH46]
 gi|52214955|dbj|BAD47548.1| putative transcriptional regulator [Bacteroides fragilis YCH46]
          Length = 70

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G +IR RR +LG++Q+ L +   I+   + K E G   +   +L  I EVL   +S
Sbjct: 2  KQIGIQIRQRRKMLGINQQTLADLAQISINTITKIENGEININFQKLYAILEVLGLELS 60


>gi|15923137|ref|NP_370671.1| transcription regulator [Staphylococcus aureus subsp. aureus
          Mu50]
 gi|15925851|ref|NP_373384.1| hypothetical protein SA0142 [Staphylococcus aureus subsp. aureus
          N315]
 gi|148266573|ref|YP_001245516.1| hypothetical protein SaurJH9_0133 [Staphylococcus aureus subsp.
          aureus JH9]
 gi|150392612|ref|YP_001315287.1| hypothetical protein SaurJH1_0138 [Staphylococcus aureus subsp.
          aureus JH1]
 gi|156978477|ref|YP_001440736.1| hypothetical protein SAHV_0146 [Staphylococcus aureus subsp.
          aureus Mu3]
 gi|253316322|ref|ZP_04839535.1| hypothetical protein SauraC_09311 [Staphylococcus aureus subsp.
          aureus str. CF-Marseille]
 gi|255004944|ref|ZP_05143545.2| hypothetical protein SauraM_00705 [Staphylococcus aureus subsp.
          aureus Mu50-omega]
 gi|257794038|ref|ZP_05643017.1| conserved hypothetical protein [Staphylococcus aureus A9781]
 gi|258408554|ref|ZP_05680839.1| conserved hypothetical protein [Staphylococcus aureus A9763]
 gi|258421144|ref|ZP_05684071.1| transcription regulator [Staphylococcus aureus A9719]
 gi|258438894|ref|ZP_05689985.1| conserved hypothetical protein [Staphylococcus aureus A9299]
 gi|258444129|ref|ZP_05692463.1| conserved hypothetical protein [Staphylococcus aureus A8115]
 gi|258447008|ref|ZP_05695158.1| transcription regulator [Staphylococcus aureus A6300]
 gi|258448466|ref|ZP_05696579.1| transcription regulator [Staphylococcus aureus A6224]
 gi|258455699|ref|ZP_05703654.1| transcription regulator [Staphylococcus aureus A5937]
 gi|269201799|ref|YP_003281068.1| putative transcriptional regulator [Staphylococcus aureus subsp.
          aureus ED98]
 gi|282894370|ref|ZP_06302600.1| hypothetical protein SGAG_01720 [Staphylococcus aureus A8117]
 gi|282926254|ref|ZP_06333886.1| conserved hypothetical protein [Staphylococcus aureus A10102]
 gi|295405418|ref|ZP_06815228.1| hypothetical protein SMAG_00571 [Staphylococcus aureus A8819]
 gi|296276513|ref|ZP_06859020.1| putative transcriptional regulator [Staphylococcus aureus subsp.
          aureus MR1]
 gi|297244755|ref|ZP_06928635.1| hypothetical protein SLAG_00845 [Staphylococcus aureus A8796]
 gi|13700063|dbj|BAB41362.1| SA0142 [Staphylococcus aureus subsp. aureus N315]
 gi|14245914|dbj|BAB56309.1| similar to transcription regulator [Staphylococcus aureus subsp.
          aureus Mu50]
 gi|147739642|gb|ABQ47940.1| protein of unknown function DUF955 [Staphylococcus aureus subsp.
          aureus JH9]
 gi|149945064|gb|ABR51000.1| protein of unknown function DUF955 [Staphylococcus aureus subsp.
          aureus JH1]
 gi|156720612|dbj|BAF77029.1| hypothetical protein [Staphylococcus aureus subsp. aureus Mu3]
 gi|257788010|gb|EEV26350.1| conserved hypothetical protein [Staphylococcus aureus A9781]
 gi|257840563|gb|EEV65022.1| conserved hypothetical protein [Staphylococcus aureus A9763]
 gi|257842568|gb|EEV66990.1| transcription regulator [Staphylococcus aureus A9719]
 gi|257847770|gb|EEV71766.1| conserved hypothetical protein [Staphylococcus aureus A9299]
 gi|257850388|gb|EEV74336.1| conserved hypothetical protein [Staphylococcus aureus A8115]
 gi|257854021|gb|EEV76974.1| transcription regulator [Staphylococcus aureus A6300]
 gi|257858097|gb|EEV80985.1| transcription regulator [Staphylococcus aureus A6224]
 gi|257861911|gb|EEV84684.1| transcription regulator [Staphylococcus aureus A5937]
 gi|262074089|gb|ACY10062.1| putative transcriptional regulator [Staphylococcus aureus subsp.
          aureus ED98]
 gi|282591583|gb|EFB96654.1| conserved hypothetical protein [Staphylococcus aureus A10102]
 gi|282763415|gb|EFC03545.1| hypothetical protein SGAG_01720 [Staphylococcus aureus A8117]
 gi|285815872|gb|ADC36359.1| Putative transcription regulator [Staphylococcus aureus 04-02981]
 gi|294969493|gb|EFG45512.1| hypothetical protein SMAG_00571 [Staphylococcus aureus A8819]
 gi|297178272|gb|EFH37519.1| hypothetical protein SLAG_00845 [Staphylococcus aureus A8796]
 gi|312828665|emb|CBX33507.1| helix-turn-helix family protein [Staphylococcus aureus subsp.
          aureus ECT-R 2]
 gi|315130120|gb|EFT86108.1| hypothetical protein CGSSa03_04609 [Staphylococcus aureus subsp.
          aureus CGS03]
 gi|329725707|gb|EGG62186.1| DNA-binding helix-turn-helix protein [Staphylococcus aureus
          subsp. aureus 21172]
          Length = 391

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK +   R +  +S+++L E + ++ Q + +YE        S++  ++ +     S+
Sbjct: 1  MFIGKNLEYVRKLNALSRKELSEKINVSEQAIWQYETKNMMPEISKIYDMTSIFNVKSSY 60

Query: 73 FFDVSPTV 80
          F    P  
Sbjct: 61 FISEQPEE 68


>gi|332362028|gb|EGJ39830.1| transcriptional regulator [Streptococcus sanguinis SK49]
          Length = 158

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q+     +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQDDFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|325690230|gb|EGD32234.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK115]
          Length = 225

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 34/63 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR+ L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRLELNLTQASIYQELGISRKAYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          +  
Sbjct: 65 TSA 67


>gi|323702211|ref|ZP_08113878.1| transcriptional regulator, XRE family [Desulfotomaculum nigrificans
           DSM 574]
 gi|323532898|gb|EGB22770.1| transcriptional regulator, XRE family [Desulfotomaculum nigrificans
           DSM 574]
          Length = 255

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 37/84 (44%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +++  R   G++Q +L    G+T   + + E+G  +     L+ +SEV+     +F 
Sbjct: 139 LGYKLKHLREEYGLTQAQLANLAGVTAGLIGQIEQGKVQPSLKTLEKLSEVMGVSPCYFI 198

Query: 75  DVSPTVCSDISSEENNVMDFISTP 98
                V   +S     + + +  P
Sbjct: 199 MEPGAVDQMVSLMNPELRELLIHP 222



 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 31/55 (56%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +G++IR+ R    MS ++L + +GI+   + + E+G      + L+ ++E L  P
Sbjct: 74  LGEKIRIIRTENNMSLQELADKIGISLSYLSEIERGTVYPALNTLKRVAEGLGVP 128



 Score = 48.3 bits (114), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 16/96 (16%), Positives = 34/96 (35%), Gaps = 8/96 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G +IR  R   G + + L     ++   + + E+G  R     +  ++  L    +   +
Sbjct: 5   GDQIRALREERGYTLQDLARRAKLSLSYLSEIERGSKRPSLKTIDKLAAALNVAKTQLVE 64

Query: 76  VSPTVCS--------DISSEENNVMDFISTPDGLQL 103
              T            I +E N  +  ++   G+ L
Sbjct: 65  GEITDSGLSLGEKIRIIRTENNMSLQELADKIGISL 100


>gi|323140678|ref|ZP_08075600.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp. YIT
           12067]
 gi|322414863|gb|EFY05660.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp. YIT
           12067]
          Length = 205

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 30/62 (48%), Gaps = 3/62 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE---KGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G+SQ +L    G+  + +Q YE   K +N+  A  +  +++ L   +    
Sbjct: 144 RLKSFRSTNGLSQNELARVSGVNSRSIQMYEQRRKDINKASAETVWRLAKALNCGMEDLL 203

Query: 75  DV 76
           +V
Sbjct: 204 EV 205


>gi|322376311|ref|ZP_08050804.1| toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. M334]
 gi|321282118|gb|EFX59125.1| toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. M334]
          Length = 158

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q+     +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQDDFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|309798569|ref|ZP_07692844.1| conserved domain protein [Streptococcus infantis SK1302]
 gi|322387445|ref|ZP_08061055.1| transcriptional regulator [Streptococcus infantis ATCC 700779]
 gi|308117805|gb|EFO55206.1| conserved domain protein [Streptococcus infantis SK1302]
 gi|321141974|gb|EFX37469.1| transcriptional regulator [Streptococcus infantis ATCC 700779]
          Length = 69

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+ L M+Q  L E +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 6  KLKLARVELDMTQGDLAEAVGVTRQTIGLIEAGKYNPSLSLCQSICRCLGKTLDQLF 62


>gi|304437578|ref|ZP_07397533.1| XRE family transcriptional regulator [Selenomonas sp. oral taxon
          149 str. 67H29BP]
 gi|304369391|gb|EFM23061.1| XRE family transcriptional regulator [Selenomonas sp. oral taxon
          149 str. 67H29BP]
          Length = 104

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 30/64 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + V + I   R   G+++  L + LG++ Q  +  E G  R+   R++ I + L    S 
Sbjct: 32 VTVNQNIERVRRAKGVTKTHLAKVLGMSLQGYRYLENGSVRLDVERMKVIGDALGVDSSI 91

Query: 73 FFDV 76
          F D 
Sbjct: 92 FLDD 95


>gi|240139351|ref|YP_002963826.1| hypothetical protein MexAM1_META1p2796 [Methylobacterium
          extorquens AM1]
 gi|240009323|gb|ACS40549.1| conserved hypothetical protein [Methylobacterium extorquens AM1]
          Length = 87

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 30/59 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G  +R  R+  G+SQE+L    GI    V + E+G   V  S L+ ++  L  P++  
Sbjct: 7  IGWNLRRLRVAQGLSQERLALAAGIDRAYVGRVERGSENVTISTLEAMARALAVPVAHL 65


>gi|228924819|ref|ZP_04087976.1| transcriptional regulator [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|228834828|gb|EEM80310.1| transcriptional regulator [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
          Length = 186

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N+GK+I   R    MSQE+L   + ++ Q +  +E   N      L  +S +    + 
Sbjct: 1  MNIGKQIHYFRKRDNMSQEELAAKIHVSRQSISNWENERNYPDIHNLLMMSILFNVSLD 59


>gi|229027921|ref|ZP_04184076.1| Transcriptional regulator Xre [Bacillus cereus AH1271]
 gi|229170925|ref|ZP_04298528.1| Transcriptional regulator Xre [Bacillus cereus MM3]
 gi|228612591|gb|EEK69810.1| Transcriptional regulator Xre [Bacillus cereus MM3]
 gi|228733435|gb|EEL84262.1| Transcriptional regulator Xre [Bacillus cereus AH1271]
          Length = 67

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 28/55 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE   + LG++   + + E+G        +  +++ L+  +
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKELGVSVSVLGEVERGNRSPSQDFVVEVAKALKVSV 61


>gi|126699926|ref|YP_001088823.1| putative transcriptional regulator [Clostridium difficile 630]
 gi|254975889|ref|ZP_05272361.1| putative transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255093277|ref|ZP_05322755.1| putative transcriptional regulator [Clostridium difficile CIP
          107932]
 gi|255315019|ref|ZP_05356602.1| putative transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255517694|ref|ZP_05385370.1| putative transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255650804|ref|ZP_05397706.1| putative transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|255656283|ref|ZP_05401692.1| putative transcriptional regulator [Clostridium difficile
          QCD-23m63]
 gi|260683886|ref|YP_003215171.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260687546|ref|YP_003218680.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|296450276|ref|ZP_06892037.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296878691|ref|ZP_06902696.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP07]
 gi|306520704|ref|ZP_07407051.1| putative transcriptional regulator [Clostridium difficile
          QCD-32g58]
 gi|115251363|emb|CAJ69195.1| Transcriptional regulator, HTH-type [Clostridium difficile]
 gi|260210049|emb|CBA64125.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260213563|emb|CBE05326.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|296261039|gb|EFH07873.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296430498|gb|EFH16340.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP07]
          Length = 66

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++  R +  ++QE+L E +G+  + + + E G           IS+++++PI   F
Sbjct: 7  NLKKYRQLKELTQEQLAEKVGVRRETIMRLEAGKYNPSLKLAIDISKIVDTPIDELF 63


>gi|2498836|sp|Q47587|RDGA_PECCC RecName: Full=HTH-type transcriptional regulator rdgA
 gi|476017|gb|AAA24865.1| pectin lyase regulation DNA-binding protein [Pectobacterium
          carotovorum]
 gi|1094252|prf||2105355A rdgA gene
          Length = 244

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 32/66 (48%), Gaps = 1/66 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R   G+SQ+ LG+ +G++   +QK E G      +++  +S  L     +  + 
Sbjct: 7  ERLKTARTAQGLSQKALGDMIGVSQAAIQKIEVGKAS-QTTKIVELSNNLRVRPEWLANG 65

Query: 77 SPTVCS 82
             + S
Sbjct: 66 EGPMRS 71


>gi|323352799|ref|ZP_08087769.1| transcriptional regulator [Streptococcus sanguinis VMC66]
 gi|322121835|gb|EFX93581.1| transcriptional regulator [Streptococcus sanguinis VMC66]
 gi|325688158|gb|EGD30177.1| transcriptional regulator [Streptococcus sanguinis SK72]
 gi|325694179|gb|EGD36097.1| transcriptional regulator [Streptococcus sanguinis SK150]
 gi|327469090|gb|EGF14562.1| transcriptional regulator [Streptococcus sanguinis SK330]
 gi|328945639|gb|EGG39790.1| transcriptional regulator [Streptococcus sanguinis SK1087]
 gi|332363393|gb|EGJ41178.1| transcriptional regulator [Streptococcus sanguinis SK49]
          Length = 65

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 24/57 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R+++ R    M+Q  L + +G+T Q +   E G      S    I + L   +   F
Sbjct: 6  RLKMARAEHDMTQGDLADAIGVTRQTIGLIEAGKYNPSLSLCLAICKCLNKTLDQLF 62


>gi|322386886|ref|ZP_08060510.1| transcriptional regulator [Streptococcus cristatus ATCC 51100]
 gi|321269168|gb|EFX52104.1| transcriptional regulator [Streptococcus cristatus ATCC 51100]
          Length = 65

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 24/57 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R+++ R    M+Q  L + +G+T Q +   E G      S    I + L   +   F
Sbjct: 6  RLKMARAEHDMTQGDLADAIGVTRQTIGLIEAGKYNPSLSLCLAICKCLNKTLDQLF 62


>gi|325679879|ref|ZP_08159448.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324108317|gb|EGC02564.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 119

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 35/74 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R  L +SQ +L E   I+   + K E G +  G S L  ISE L+       
Sbjct: 11 IGERIKQARKELDISQTELAERADISVPYLSKIEMGKSDFGVSVLIRISEALQISTDKLL 70

Query: 75 DVSPTVCSDISSEE 88
                 + I++++
Sbjct: 71 RPDIPETTIIAADD 84


>gi|283469388|emb|CAQ48599.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          ST398]
          Length = 391

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK +   R +  +S+++L E + ++ Q + +YE        S++  ++ +     S+
Sbjct: 1  MFIGKNLEYVRKLNALSRKELSEKINVSEQAIWQYETKNMMPEISKIYDMTSIFNVKSSY 60

Query: 73 FFDVSPTV 80
          F    P  
Sbjct: 61 FISEQPEE 68


>gi|240143278|ref|ZP_04741879.1| toxin-antitoxin system, antitoxin component, Xre family
          [Roseburia intestinalis L1-82]
 gi|257204756|gb|EEV03041.1| toxin-antitoxin system, antitoxin component, Xre family
          [Roseburia intestinalis L1-82]
          Length = 210

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 37/79 (46%), Gaps = 3/79 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  IR  R+   ++Q++L E  G+    ++ YE G      + L +I+  L      FF
Sbjct: 9  VGVLIRNFRIAAELTQKELAERCGLNESTIRNYELGNRYPDEATLLNIANHLNVS---FF 65

Query: 75 DVSPTVCSDISSEENNVMD 93
           +S    ++I S  + + D
Sbjct: 66 ALSDPDVANIFSALHVLFD 84


>gi|225019957|ref|ZP_03709149.1| hypothetical protein CLOSTMETH_03916 [Clostridium methylpentosum
          DSM 5476]
 gi|224947321|gb|EEG28530.1| hypothetical protein CLOSTMETH_03916 [Clostridium methylpentosum
          DSM 5476]
          Length = 125

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 10/70 (14%), Positives = 30/70 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + +R++  R    ++Q+ + + + +T   +  YE GVN      +  +++       +
Sbjct: 1  MIISQRLKDLRSDADLNQQDVADAVNVTQSSISNYELGVNLPDLDVVIKLAKFFNVSSDY 60

Query: 73 FFDVSPTVCS 82
             ++    S
Sbjct: 61 LLGITDVKTS 70


>gi|210620982|ref|ZP_03292367.1| hypothetical protein CLOHIR_00310 [Clostridium hiranonis DSM
          13275]
 gi|210154966|gb|EEA85972.1| hypothetical protein CLOHIR_00310 [Clostridium hiranonis DSM
          13275]
          Length = 204

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 36/64 (56%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ N+G +I+  R    M+ + + E   ++   + + E+G+  V    L+ I++VLE  +
Sbjct: 1  MNKNIGAKIKRLRTQKQMTLKDMSEKTNLSIGFLSQLERGLTSVATDSLEKIADVLEVDL 60

Query: 71 SFFF 74
          ++FF
Sbjct: 61 TYFF 64


>gi|170737741|ref|YP_001779001.1| XRE family transcriptional regulator [Burkholderia cenocepacia
          MC0-3]
 gi|169819929|gb|ACA94511.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
          MC0-3]
          Length = 185

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 30/61 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R    ++   L E +G +   + + E+G++R   + L  I E L  P ++F+ +S 
Sbjct: 14 IRDLRKHRKITLNDLAERIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLSK 73

Query: 79 T 79
           
Sbjct: 74 P 74


>gi|152985545|ref|YP_001349953.1| transcriptional regulator [Pseudomonas aeruginosa PA7]
 gi|150960703|gb|ABR82728.1| probable transcriptional regulator [Pseudomonas aeruginosa PA7]
          Length = 237

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 29/70 (41%), Gaps = 1/70 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R    +SQ +L + +G+T   +   E+G +R   S +  I+        +  +  
Sbjct: 6  RIKAARKHANLSQVQLAQAVGMTQTSISDLERGKSR-ATSFVAQIAGACGVNPLWLAEGR 64

Query: 78 PTVCSDISSE 87
            + ++    
Sbjct: 65 GEMLAERGQA 74


>gi|89894695|ref|YP_518182.1| hypothetical protein DSY1949 [Desulfitobacterium hafniense Y51]
 gi|89334143|dbj|BAE83738.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 218

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 37/89 (41%), Gaps = 3/89 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++I   R    MSQ  L   L ++ Q V K+E   +     +L  +SEV    +  
Sbjct: 11  MTLGEKIYELRTKNAMSQGDLANTLEVSRQSVSKWENNTSVPELDKLVKMSEVFSISLD- 69

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
             ++     ++    E    D  + P GL
Sbjct: 70  --ELIRGEKTEEMQRETQSPDISAPPKGL 96


>gi|77408024|ref|ZP_00784773.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae COH1]
 gi|77413847|ref|ZP_00790025.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 515]
 gi|77160087|gb|EAO71220.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 515]
 gi|77173386|gb|EAO76506.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae COH1]
          Length = 112

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 9/57 (15%), Positives = 23/57 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R++  R    ++Q+ +    G +    Q++E G  +  A  L+  +        + 
Sbjct: 4  ERLKSLRKEAKLTQKDIASQFGFSQPAYQQWESGKKKPSAETLEKFASFFNVSTDYL 60


>gi|310764970|gb|ADP09920.1| RstR1 [Erwinia sp. Ejp617]
 gi|310764977|gb|ADP09927.1| RstR1 [Erwinia sp. Ejp617]
          Length = 122

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 28/68 (41%), Gaps = 1/68 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-FD 75
           R    R   G++Q ++ + +GI   QV++YE G  +     L+ I+        +  F+
Sbjct: 17 ARFLQLRKQHGLTQPQMADKVGIHLTQVRRYESGETQPSLDILKRIAVTFSVSADWLIFE 76

Query: 76 VSPTVCSD 83
                 D
Sbjct: 77 EGEREPQD 84


>gi|294501848|ref|YP_003565548.1| Cro/CI family transcriptional regulator [Bacillus megaterium QM
          B1551]
 gi|294351785|gb|ADE72114.1| transcriptional regulator, Cro/CI family [Bacillus megaterium QM
          B1551]
          Length = 140

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 25/63 (39%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RI+  R+  G SQE+L   L ++   + K+E             +    +  +    +
Sbjct: 5  GERIKHFRLKGGFSQEELANQLNVSRTTISKWECSKQTPSIFDFLSLCNCFQITLDQLIE 64

Query: 76 VSP 78
           S 
Sbjct: 65 PSS 67


>gi|326203161|ref|ZP_08193027.1| transcriptional regulator, XRE family [Clostridium papyrosolvens
          DSM 2782]
 gi|325986807|gb|EGD47637.1| transcriptional regulator, XRE family [Clostridium papyrosolvens
          DSM 2782]
          Length = 70

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 28/67 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI++ R     +Q  L E +GI+ Q +   EK            I+EV    I+  F+ 
Sbjct: 4  NRIKVLRAERDWTQADLAEMVGISRQAIISIEKYKYTPSLELAFKIAEVFNVLITEVFEH 63

Query: 77 SPTVCSD 83
             + +D
Sbjct: 64 KEDMNND 70


>gi|229028494|ref|ZP_04184614.1| Transcriptional regulator [Bacillus cereus AH1271]
 gi|228732807|gb|EEL83669.1| Transcriptional regulator [Bacillus cereus AH1271]
          Length = 66

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 30/58 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+ L ++Q++L E +G+T Q +   EKG           I  V++  ++  F
Sbjct: 4  SKIKVARVQLDLTQQQLAEKVGVTRQTISLIEKGKYNPSLDLCLKICYVVDKTLNDLF 61


>gi|223041672|ref|ZP_03611869.1| hypothetical protein AM202_0280 [Actinobacillus minor 202]
 gi|223017536|gb|EEF15950.1| hypothetical protein AM202_0280 [Actinobacillus minor 202]
          Length = 234

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 28/61 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  VG+ IRL R   G++     + +      + KYEKG   +    L  IS+ L+  +
Sbjct: 3  INQEVGQLIRLARKKRGLTLNDFSKLIYKNPSTISKYEKGEIIIDIPTLYAISKALDVEM 62

Query: 71 S 71
           
Sbjct: 63 D 63


>gi|218133316|ref|ZP_03462120.1| hypothetical protein BACPEC_01181 [Bacteroides pectinophilus ATCC
          43243]
 gi|217992189|gb|EEC58193.1| hypothetical protein BACPEC_01181 [Bacteroides pectinophilus ATCC
          43243]
          Length = 217

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          K IR RR+ L MSQ+ L E  G      + K EKG   +  S+++  ++ L+    
Sbjct: 12 KNIRERRIELKMSQDTLAELTGYRDRSSIAKIEKGEVDISESKIREFAKALKVSPG 67


>gi|212223696|ref|YP_002306932.1| Hypothetical transcription regulator [Thermococcus onnurineus
          NA1]
 gi|212008653|gb|ACJ16035.1| Hypothetical transcription regulator [Thermococcus onnurineus
          NA1]
          Length = 190

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 3/60 (5%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          IP P+D    K IR  R  LG++QE+L E  G+T   + K E G      S    I + L
Sbjct: 4  IPRPIDP---KEIRRIRKELGITQEELAEKAGVTQAYIAKLEAGKVDPRLSTFNRILQAL 60


>gi|169829011|ref|YP_001699169.1| hypothetical protein Bsph_3551 [Lysinibacillus sphaericus C3-41]
 gi|168993499|gb|ACA41039.1| conserved hypothetical protein [Lysinibacillus sphaericus C3-41]
          Length = 68

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 22/52 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           RIR  R    ++QE L + +G++ Q +   E G          +IS+    
Sbjct: 3  NRIRELRKSRKITQEDLSKLVGVSRQSIIAIESGKFNPSLELAYNISKAFNC 54


>gi|160932614|ref|ZP_02080004.1| hypothetical protein CLOLEP_01456 [Clostridium leptum DSM 753]
 gi|156868573|gb|EDO61945.1| hypothetical protein CLOLEP_01456 [Clostridium leptum DSM 753]
          Length = 86

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 26/56 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +RIR  R    +SQ  L + L ++     +YE G   + ++ L  ++   +  + +
Sbjct: 25 QRIRDLREDRDLSQAALAKLLNVSQSTYSRYESGYLDIPSNILIALARFYQVSVDY 80


>gi|125624656|ref|YP_001033139.1| HTH-type transcriptional regulator [Lactococcus lactis subsp.
          cremoris MG1363]
 gi|124493464|emb|CAL98438.1| HTH-type transcriptional regulator [Lactococcus lactis subsp.
          cremoris MG1363]
 gi|300071447|gb|ADJ60847.1| HTH-type transcriptional regulator [Lactococcus lactis subsp.
          cremoris NZ9000]
          Length = 85

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 26/54 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           IR  R+ +G++Q +L E L  + Q V  +EKG        L+ ++ +    + 
Sbjct: 28 NIRNERLAIGLTQNQLAEQLQFSKQAVYNWEKGKCEPNIETLKALATLFNISVD 81


>gi|21223466|ref|NP_629245.1| DNA-binding protein [Streptomyces coelicolor A3(2)]
 gi|256785428|ref|ZP_05523859.1| DNA-binding protein [Streptomyces lividans TK24]
 gi|5541920|emb|CAB51134.1| hypothetical protein [Streptomyces coelicolor A3(2)]
 gi|14717102|emb|CAC44208.1| putative DNA-binding protein [Streptomyces coelicolor A3(2)]
          Length = 190

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 25/59 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG R+R  R   G++   L    G++   + + E G  R     L  ++ + + P+   
Sbjct: 12 VGPRLRTLRRERGITLAHLSAATGVSESTLSRLESGQRRATLELLLPLARIYDVPLDDL 70


>gi|108804104|ref|YP_644041.1| XRE family transcriptional regulator [Rubrobacter xylanophilus
          DSM 9941]
 gi|108765347|gb|ABG04229.1| transcriptional regulator, XRE family with cupin sensor
          [Rubrobacter xylanophilus DSM 9941]
          Length = 203

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG+R+R+ R   G++ E L    G++   + K E+G           ++E L   +S
Sbjct: 15 RRVGERVRMLRRERGLTLEGLAGRSGVSRAMISKVERGEKVPTLVVAARLAEGLGVSLS 73


>gi|322516911|ref|ZP_08069808.1| transcriptional regulator [Streptococcus vestibularis ATCC 49124]
 gi|322124534|gb|EFX96016.1| transcriptional regulator [Streptococcus vestibularis ATCC 49124]
          Length = 158

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQPEFARIIGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|294499063|ref|YP_003562763.1| transcriptional regulator [Bacillus megaterium QM B1551]
 gi|294349000|gb|ADE69329.1| transcriptional regulator [Bacillus megaterium QM B1551]
          Length = 297

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 1/75 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            VG+ I+  R I  M+  +L + +  T +++ ++E+G     +  L H+S+ L  P+++
Sbjct: 5  KQVGQLIQDLRKIAEMTTVELSKGI-CTEEELHRFEQGEIHASSEVLYHLSKRLGVPMNY 63

Query: 73 FFDVSPTVCSDISSE 87
          FF+      +D S E
Sbjct: 64 FFEAGELTPNDYSKE 78


>gi|268611917|ref|ZP_06145644.1| transcriptional regulator, XRE family protein [Ruminococcus
           flavefaciens FD-1]
          Length = 102

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 23/99 (23%), Positives = 42/99 (42%), Gaps = 5/99 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R   G S  KL +  G++   +   EK +N+     LQ +   +   ++ FF+
Sbjct: 4   GTRLREIRKAKGFSMYKLHKESGLSQGHISDLEKCINQPTIETLQKLLTPMGVTLAEFFN 63

Query: 76  VSPTVCSDISSEENNVMDFISTPD-----GLQLNRYFIQ 109
               V     +E+  V  F + P+      LQ+ +   +
Sbjct: 64  EDGEVSILTDTEKELVAGFRTLPEDKADLALQMIKALNR 102


>gi|237751081|ref|ZP_04581561.1| predicted protein [Helicobacter bilis ATCC 43879]
 gi|229373526|gb|EEO23917.1| predicted protein [Helicobacter bilis ATCC 43879]
          Length = 222

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 1/79 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +++R  R+ LG+SQ+K  E LG+T   +  YE   N +  + L  +SE+      +F + 
Sbjct: 9  EKLRNLRLSLGLSQKKFAEKLGLTRSLIAAYETEKNPISNNVLLRVSEIFGIKNEYF-ES 67

Query: 77 SPTVCSDISSEENNVMDFI 95
            T          N  D +
Sbjct: 68 EMTPQEAFEKYSINPADIL 86


>gi|170736559|ref|YP_001777819.1| helix-turn-helix domain-containing protein [Burkholderia
           cenocepacia MC0-3]
 gi|169818747|gb|ACA93329.1| helix-turn-helix domain protein [Burkholderia cenocepacia MC0-3]
          Length = 130

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 23/109 (21%), Positives = 46/109 (42%), Gaps = 12/109 (11%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R  L M+Q + GE  G+  Q    YE+G     AS L  ++E+    + +     
Sbjct: 14  RLKQERRRLQMNQAEFGEAGGVRKQAQSNYEQGSRIPDASYLTRLAEI-GVDVQYLLTGR 72

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           P+    ++   +  +          L   F ++   + R+ ++ LV +I
Sbjct: 73  PSDPGTLALTGDEEL----------LLAGFRELK-PRERRGVLALVAAI 110


>gi|163737289|ref|ZP_02144707.1| hypothetical protein RGBS107_04063 [Phaeobacter gallaeciensis
           BS107]
 gi|161389893|gb|EDQ14244.1| hypothetical protein RGBS107_04063 [Phaeobacter gallaeciensis
           BS107]
          Length = 140

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 27/109 (24%), Positives = 49/109 (44%), Gaps = 4/109 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I +G R+ + R  +G++Q  + E +G++ +    YEKG   +    L  +S+  E   ++
Sbjct: 10  IAMGARLAIARNEVGLTQTAMAEAIGVSHRAYHSYEKGQRGLPVEALVAMSDRFEVDAAW 69

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
               + TV    +S +   +  I T     LN   I+I   K R  I+ 
Sbjct: 70  ILLGTQTVR---ASHDFEALKQIETSLDQHLNEENIKIKSEK-RGAIVA 114


>gi|118443353|ref|YP_878274.1| transcriptional regulator [Clostridium novyi NT]
 gi|118133809|gb|ABK60853.1| putative transcriptional regulator [Clostridium novyi NT]
          Length = 113

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 37/73 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++  R+   ++  +L E  GI    + K E G  ++ A  LQ +++ L   ++ FFD 
Sbjct: 5  EKLKQLRISRNITTYELSELTGIPQSTISKMENGKRKIEAESLQKLADALNISVNEFFDS 64

Query: 77 SPTVCSDISSEEN 89
          S    +  S +E+
Sbjct: 65 SFKDSTSESFDED 77


>gi|11995223|ref|NP_072081.1| PvuIIC [Proteus vulgaris]
 gi|455322|gb|AAA96335.1| PvuIIC [Proteus vulgaris]
          Length = 84

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 1/71 (1%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  N   P    + + K ++  R  LG+SQE L + +GI    +   E+    +    ++
Sbjct: 1  MSRNTN-PLSARLTLAKNVKKMRGELGLSQESLADLVGIHRTYIGSIERAERNISIDNIE 59

Query: 61 HISEVLESPIS 71
           I+  L   IS
Sbjct: 60 RIANALNVSIS 70


>gi|56962032|ref|YP_173754.1| transcriptional regulator [Bacillus clausii KSM-K16]
 gi|56908266|dbj|BAD62793.1| transcriptional regulator [Bacillus clausii KSM-K16]
          Length = 145

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 7/76 (9%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR+ R    +SQE+L E + ++ Q V K+E         + + +S++ +  I    
Sbjct: 2  IGINIRVLRKKHKLSQEQLAEKVNVSRQTVAKWESEEAFPDIFKCKMLSDIFQVTID--- 58

Query: 75 DVSPTVCSDISSEENN 90
               +  D+S EE N
Sbjct: 59 ----QLSRDMSEEEAN 70


>gi|16078316|ref|NP_389133.1| Phage PBSX transcriptional regulator [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221309100|ref|ZP_03590947.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
           168]
 gi|221313427|ref|ZP_03595232.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
           NCIB 3610]
 gi|221318350|ref|ZP_03599644.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
           JH642]
 gi|221322623|ref|ZP_03603917.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
           SMY]
 gi|321314993|ref|YP_004207280.1| Phage PBSX transcriptional regulator [Bacillus subtilis BSn5]
 gi|139821|sp|P23789|XRE_BACSU RecName: Full=HTH-type transcriptional regulator xre; AltName:
           Full=Putative pbsX repressor
 gi|143835|gb|AAA22894.1| PBSX repressor [Bacillus subtilis]
 gi|498812|emb|CAA84042.1| xre [Bacillus subtilis subsp. subtilis str. 168]
 gi|1225936|emb|CAA94052.1| PBSX repressor [Bacillus subtilis subsp. subtilis str. 168]
 gi|2633605|emb|CAB13108.1| Phage PBSX transcriptional regulator [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|291483768|dbj|BAI84843.1| transcriptional regulator [Bacillus subtilis subsp. natto BEST195]
 gi|320021267|gb|ADV96253.1| Phage PBSX transcriptional regulator [Bacillus subtilis BSn5]
          Length = 113

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 25/120 (20%), Positives = 48/120 (40%), Gaps = 16/120 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R++  R     +QE++   +G++  +   YE G +      LQ +++  +    +  
Sbjct: 2   IGGRLKSLRGKR--TQEEIASHIGVSRARYSHYENGRSEPDYDTLQKLADYFQVTTDYLL 59

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVRSIVSSEKK 132
                   D         D  S PD LQL   +  + D   + +Q+ IE +  +   EK 
Sbjct: 60  TGKDKKSDD---------DMFSDPD-LQL--AYRDMQDFSPESKQQAIEFINYLKEKEKN 107


>gi|327193279|gb|EGE60185.1| putative transcriptional regulator protein [Rhizobium etli
           CNPAF512]
          Length = 220

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 32/84 (38%), Gaps = 4/84 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G R+R  R+   +SQ +L +  G+    +   E   +      L+ I +    PI  
Sbjct: 41  VDIGSRLRHLRIAHKLSQRELAKRTGVPNSTISLIESNASNPSVGALKRILD--GIPIGL 98

Query: 73  --FFDVSPTVCSDISSEENNVMDF 94
             FF   P            +++ 
Sbjct: 99  AEFFAFEPERPKKAFYAAEELVEI 122


>gi|258513952|ref|YP_003190174.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257777657|gb|ACV61551.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
          Length = 71

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R    M+Q+ L + +G+  Q +   EKG      +    I ++L   +   F
Sbjct: 6  RIKAARAAKDMTQKDLADAVGVARQTMNAIEKGDYNPSINLCISICKILGKTLDQLF 62


>gi|229074136|ref|ZP_04207183.1| Transcriptional regulator Xre [Bacillus cereus Rock4-18]
 gi|228709030|gb|EEL61156.1| Transcriptional regulator Xre [Bacillus cereus Rock4-18]
          Length = 67

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE   + LG++   + + E+G        +  +++ L+  I
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKELGVSVSVLGEVERGNRSPSQDFVVEVAKALKVSI 61


>gi|210622958|ref|ZP_03293463.1| hypothetical protein CLOHIR_01411 [Clostridium hiranonis DSM
          13275]
 gi|210153924|gb|EEA84930.1| hypothetical protein CLOHIR_01411 [Clostridium hiranonis DSM
          13275]
          Length = 141

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/81 (14%), Positives = 36/81 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G R++  R   G++Q+++ + +G T   + +YE       A  L  ++++ +  I +
Sbjct: 2  VTLGSRLKALRQEKGLTQKEVAKLIGTTDVSIGRYEMDARVPKADILNSLAKLYDVEIDY 61

Query: 73 FFDVSPTVCSDISSEENNVMD 93
                     ++  +   ++
Sbjct: 62 LLTGKEETEQPLNDRDKKDIE 82


>gi|315230325|ref|YP_004070761.1| inosine-5'-monophosphate dehydrogenase-like protein I
          [Thermococcus barophilus MP]
 gi|315183353|gb|ADT83538.1| inosine-5'-monophosphate dehydrogenase-like protein I
          [Thermococcus barophilus MP]
          Length = 186

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 3/59 (5%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          P P+D    + IR  R  LG++QE+L +  G+T   + K E G      S    I E L
Sbjct: 5  PRPIDP---REIRRIRKELGITQEELAKRAGVTQAYIAKLESGKVDPRLSTFNRILEAL 60


>gi|62178909|ref|YP_215326.1| regulatory protein Cro (antirepressor) [Salmonella enterica
          subsp. enterica serovar Choleraesuis str. SC-B67]
 gi|168239077|ref|ZP_02664135.1| conserved domain protein [Salmonella enterica subsp. enterica
          serovar Schwarzengrund str. SL480]
 gi|194734385|ref|YP_002113584.1| hypothetical protein SeSA_A0617 [Salmonella enterica subsp.
          enterica serovar Schwarzengrund str. CVM19633]
 gi|224583087|ref|YP_002636885.1| regulatory protein cro (Antirepressor) [Salmonella enterica
          subsp. enterica serovar Paratyphi C strain RKS4594]
 gi|62126542|gb|AAX64245.1| regulatory protein cro (Antirepressor) [Salmonella enterica
          subsp. enterica serovar Choleraesuis str. SC-B67]
 gi|194709887|gb|ACF89108.1| conserved domain protein [Salmonella enterica subsp. enterica
          serovar Schwarzengrund str. CVM19633]
 gi|197288184|gb|EDY27569.1| conserved domain protein [Salmonella enterica subsp. enterica
          serovar Schwarzengrund str. SL480]
 gi|224467614|gb|ACN45444.1| regulatory protein cro (Antirepressor) [Salmonella enterica
          subsp. enterica serovar Paratyphi C strain RKS4594]
 gi|322713364|gb|EFZ04935.1| Regulatory protein cro [Salmonella enterica subsp. enterica
          serovar Choleraesuis str. A50]
          Length = 71

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++ +R  L M+Q +L E  G+  Q +Q+ E G  +     L  ++  L+   S+ 
Sbjct: 4  ISQRLKQKRTELKMTQAQLAEKAGMKQQSIQQIESGETK-RPRFLLELATALQCDPSWL 61


>gi|86134485|ref|ZP_01053067.1| DNA binding helix-turn helix protein [Polaribacter sp. MED152]
 gi|85821348|gb|EAQ42495.1| DNA binding helix-turn helix protein [Polaribacter sp. MED152]
          Length = 258

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 32/71 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K I+  R +  ++QE L E L +T  ++  YE+  +      L   S+  + PI    
Sbjct: 4  LSKNIKHLRNLKKLTQEALAEELSVTRSRISSYEENRSSPTIEFLIDFSKYFKIPIDIII 63

Query: 75 DVSPTVCSDIS 85
              T  +D+S
Sbjct: 64 KNDLTKANDVS 74


>gi|257871213|ref|ZP_05650866.1| transcriptional regulator [Enterococcus gallinarum EG2]
 gi|257805377|gb|EEV34199.1| transcriptional regulator [Enterococcus gallinarum EG2]
          Length = 67

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R  + +SQ  L + +G+  Q +   E             +++VL++ ++  F
Sbjct: 2  NRVREFRQKMNLSQNALAKEIGVARQTINLIENNKYNPSLDLCIKLAKVLQTDLNSLF 59


>gi|237711046|ref|ZP_04541527.1| conserved hypothetical protein [Bacteroides sp. 9_1_42FAA]
 gi|229454890|gb|EEO60611.1| conserved hypothetical protein [Bacteroides sp. 9_1_42FAA]
          Length = 77

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 21/55 (38%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+ I   R    M+Q +L E +G     + + E G      S    I+  L   +
Sbjct: 17 GQIIEEARKKANMTQAELAEKIGTNKSYISRVETGKTEPKVSTFYRIASALGLNV 71


>gi|226310383|ref|YP_002770277.1| DNA-binding protein [Brevibacillus brevis NBRC 100599]
 gi|226093331|dbj|BAH41773.1| putative DNA-binding protein [Brevibacillus brevis NBRC 100599]
          Length = 189

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 31/80 (38%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M      P  V + VG  ++  R    +S E L E  G++   +   E+G        L 
Sbjct: 1  MNPETDDPKQVVLQVGGVLKKIRKEKHLSLEDLSELSGVSKLTLGNIERGETNPTIGVLW 60

Query: 61 HISEVLESPISFFFDVSPTV 80
           IS+ L  P+   F    +V
Sbjct: 61 KISKCLSIPLLALFSTENSV 80


>gi|220934873|ref|YP_002513772.1| transcriptional regulator, XRE family [Thioalkalivibrio sp.
           HL-EbGR7]
 gi|219996183|gb|ACL72785.1| transcriptional regulator, XRE family [Thioalkalivibrio sp.
           HL-EbGR7]
          Length = 218

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/95 (16%), Positives = 37/95 (38%), Gaps = 8/95 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D ++G  +R +R    ++   + +  G++   + K E G        L+ +S VL   +
Sbjct: 31  LDQHIGHVLREKRQAQSLTIADVADLAGVSRGMLSKIENGQVSTSLETLRKLSGVLGMTL 90

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           +  F                    + + +GL++ R
Sbjct: 91  AQLFKNFDVPEGGAQH--------VKSGEGLEVVR 117


>gi|194016262|ref|ZP_03054876.1| transcriptional regulator, Cro/CI family [Bacillus pumilus ATCC
          7061]
 gi|194011735|gb|EDW21303.1| transcriptional regulator, Cro/CI family [Bacillus pumilus ATCC
          7061]
          Length = 79

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 28/60 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  ++   R++  MSQ++L E +G++ Q +   EKG           I+   +  ++  F
Sbjct: 9  ISNKVYEYRVLARMSQQELAEKVGVSKQTIFVMEKGNYVPTLLLAFRIANFFKVDVNDIF 68


>gi|168187847|ref|ZP_02622482.1| HTH-type transcriptional regulator SinR [Clostridium botulinum C
          str. Eklund]
 gi|169294280|gb|EDS76413.1| HTH-type transcriptional regulator SinR [Clostridium botulinum C
          str. Eklund]
          Length = 64

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 32/60 (53%), Gaps = 1/60 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFF 74
          G +++++R+  G+ Q+ L + +GI+   +   E G  N      ++ ISE+LE  +   F
Sbjct: 2  GLKLKIKRIEKGIKQKDLAKEIGISRYYLSALENGRANNPSIPVMKKISEILEVTVQELF 61


>gi|190015098|ref|YP_001966668.1| putative transcriptional regulator, helix-turn-helix domain
          containing protein [Bacillus cereus]
 gi|190015364|ref|YP_001966993.1| putative transcriptional regulator, helix-turn-helix domain
          containing protein [Bacillus cereus]
 gi|218848302|ref|YP_002455035.1| transcriptional regulator [Bacillus cereus AH820]
 gi|116584774|gb|ABK00889.1| putative transcriptional regulator, helix-turn-helix domain
          containing protein [Bacillus cereus]
 gi|116585045|gb|ABK01154.1| putative transcriptional regulator, helix-turn-helix domain
          containing protein [Bacillus cereus]
 gi|218540353|gb|ACK92749.1| transcriptional regulator [Bacillus cereus AH820]
          Length = 64

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R+  GM+Q +L +   ++ Q +   EKG           I + L   ++  F
Sbjct: 4  KVKRIRLEKGMTQGELAKITNVSRQTIGLIEKGEYNPSLKLCIEICKSLGVTLNDLF 60


>gi|116515960|ref|YP_816408.1| transcriptional regulator, putative [Streptococcus pneumoniae
          D39]
 gi|148988506|ref|ZP_01819953.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP6-BS73]
 gi|168491942|ref|ZP_02716085.1| helix-turn-helix domain protein [Streptococcus pneumoniae
          CDC0288-04]
 gi|225858871|ref|YP_002740381.1| helix-turn-helix domain protein [Streptococcus pneumoniae 70585]
 gi|289167945|ref|YP_003446214.1| transcriptional regulator [Streptococcus mitis B6]
 gi|116076536|gb|ABJ54256.1| transcriptional regulator, putative [Streptococcus pneumoniae
          D39]
 gi|147926187|gb|EDK77261.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP6-BS73]
 gi|183217352|gb|ACC59271.1| antitoxin PezA [Streptococcus pneumoniae]
 gi|183573821|gb|EDT94349.1| helix-turn-helix domain protein [Streptococcus pneumoniae
          CDC0288-04]
 gi|213031122|emb|CAR31459.1| hypothetical protein [Streptococcus pneumoniae]
 gi|225721666|gb|ACO17520.1| helix-turn-helix domain protein [Streptococcus pneumoniae 70585]
 gi|288907512|emb|CBJ22349.1| transcriptional regulator [Streptococcus mitis B6]
 gi|319412015|emb|CBY91948.1| hypothetical protein [Streptococcus pneumoniae]
          Length = 158

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQPEFARIIGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|15599695|ref|NP_253189.1| transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|107099916|ref|ZP_01363834.1| hypothetical protein PaerPA_01000937 [Pseudomonas aeruginosa PACS2]
 gi|116052530|ref|YP_792844.1| putative transcriptional regulator [Pseudomonas aeruginosa
           UCBPP-PA14]
 gi|254238841|ref|ZP_04932164.1| hypothetical protein PACG_05007 [Pseudomonas aeruginosa C3719]
 gi|254244690|ref|ZP_04938012.1| hypothetical protein PA2G_05559 [Pseudomonas aeruginosa 2192]
 gi|296391210|ref|ZP_06880685.1| putative transcriptional regulator [Pseudomonas aeruginosa PAb1]
 gi|313107088|ref|ZP_07793288.1| putative transcriptional regulator [Pseudomonas aeruginosa 39016]
 gi|9950738|gb|AAG07887.1|AE004863_7 probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|115587751|gb|ABJ13766.1| putative transcriptional regulator [Pseudomonas aeruginosa
           UCBPP-PA14]
 gi|126170772|gb|EAZ56283.1| hypothetical protein PACG_05007 [Pseudomonas aeruginosa C3719]
 gi|126198068|gb|EAZ62131.1| hypothetical protein PA2G_05559 [Pseudomonas aeruginosa 2192]
 gi|310879790|gb|EFQ38384.1| putative transcriptional regulator [Pseudomonas aeruginosa 39016]
          Length = 187

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 40/99 (40%), Gaps = 2/99 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD  +G+R+R  R     +  ++    G+T   + + E+ +  V  S L +I++ L  P+
Sbjct: 3   VDR-IGERLRRYRRAAKKTLHQVASESGLTASFLSQAERNLTGVSISSLANIAKSLNIPL 61

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQ-LNRYFI 108
           +  FD       D    E         P   + L+  F 
Sbjct: 62  NALFDQPAQPQPDSHEGERVRYTIEGQPLAYERLSSSFP 100


>gi|328955766|ref|YP_004373099.1| helix-turn-helix domain protein [Coriobacterium glomerans PW2]
 gi|328456090|gb|AEB07284.1| helix-turn-helix domain protein [Coriobacterium glomerans PW2]
          Length = 72

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 7  IPNPVDINVGKRIRLRRMIL-GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          + + VD  +G RIR  R    G+SQ      +GI        E+G +      L  IS+ 
Sbjct: 1  MSDSVDQQIGARIRCLRKKRTGLSQNGFACQIGIDRSYFATIEQGKHSATLQMLARISQG 60

Query: 66 LESPISFFFDV 76
          L   +   F+ 
Sbjct: 61 LGVSLQELFEG 71


>gi|319776281|ref|YP_004138769.1| hypothetical protein HICON_17530 [Haemophilus influenzae F3047]
 gi|329123426|ref|ZP_08251990.1| DNA-binding protein [Haemophilus aegyptius ATCC 11116]
 gi|317450872|emb|CBY87097.1| conserved hypothetical protein [Haemophilus influenzae F3047]
 gi|327471008|gb|EGF16463.1| DNA-binding protein [Haemophilus aegyptius ATCC 11116]
          Length = 127

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +IR+ R +  +SQE + E + ++     K E+G  R+   +L  I+++    +S   D  
Sbjct: 6  KIRMMRELRQLSQEDMAEKMNMSPSGYAKIERGETRLQYDKLVQIAQIFNVSLSDLVDND 65

Query: 78 PTV 80
            V
Sbjct: 66 KGV 68


>gi|302064024|ref|ZP_07255565.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           tomato K40]
          Length = 120

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 23/98 (23%), Positives = 37/98 (37%), Gaps = 4/98 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG +I+  R    +SQ  L E +G     V +YE+G    G  +L  I+ V         
Sbjct: 11  VGAKIKALRKSTTLSQADLAEMIGCDAPLVSRYERGSTLPGIEQLIRIATVFNVAPGELL 70

Query: 75  DVSPTVCS----DISSEENNVMDFISTPDGLQLNRYFI 108
                V       +  E    +  + +P+ L+    FI
Sbjct: 71  PGGQDVLRTRLLSLRQEITERIAEVDSPEYLEEMLNFI 108


>gi|256617058|ref|ZP_05473904.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
          ATCC 4200]
 gi|256596585|gb|EEU15761.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
          ATCC 4200]
          Length = 87

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G+SQ +L + + +T Q V  ++ G       +++ +SE+L  PI+  F
Sbjct: 21 SNLSRYRKEKGLSQTELAKKMNVTQQCVSSWQTGRTIPKPYQMKMLSEILSVPINELF 78


>gi|229821739|ref|YP_002883265.1| XRE family transcriptional regulator [Beutenbergia cavernae DSM
          12333]
 gi|229567652|gb|ACQ81503.1| transcriptional regulator, XRE family [Beutenbergia cavernae DSM
          12333]
          Length = 513

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G  IR  R   G++Q +L E LG +   + + E+G   +    L  I+  LE+ +
Sbjct: 14 IGALIRGARQNKGLTQAQLAERLGTSQSAIARIEQGSQNLSVELLTRINRALEADL 69


>gi|229815595|ref|ZP_04445922.1| hypothetical protein COLINT_02647 [Collinsella intestinalis DSM
          13280]
 gi|229808825|gb|EEP44600.1| hypothetical protein COLINT_02647 [Collinsella intestinalis DSM
          13280]
          Length = 312

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/51 (31%), Positives = 24/51 (47%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            R    M+QE L   LG+T Q V K+E G +     +L  + E+ E  + 
Sbjct: 9  YLRDSRNMTQEHLAMLLGVTRQAVSKWEAGASTPDMDKLVRLCEIFEVDLD 59


>gi|183600505|ref|ZP_02961998.1| hypothetical protein PROSTU_04084 [Providencia stuartii ATCC
          25827]
 gi|188019992|gb|EDU58032.1| hypothetical protein PROSTU_04084 [Providencia stuartii ATCC
          25827]
          Length = 89

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 31/60 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R    ++  +LG+ L I+ QQ+ +YE+G   +    L  + + L+   S FF
Sbjct: 12 IGDFLRAARRGKSLTGLQLGKMLHISQQQISRYERGETSISIETLDVLLKGLDMDWSDFF 71


>gi|38257088|ref|NP_940750.1| hypothetical protein pPI-1p01 [Staphylococcus warneri]
 gi|38142381|dbj|BAD00985.1| hypothetical protein [Staphylococcus warneri]
          Length = 203

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           +I   R    ++QE L E   +T + +Q+ E G   V +  L++IS VL+  I+  F+
Sbjct: 4  SKIAKLRKDKSLTQENLAEKACVTVRTIQRIEAGE-EVSSETLKNISNVLDVTINELFE 61


>gi|47568826|ref|ZP_00239520.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
 gi|228983895|ref|ZP_04144089.1| Transcriptional regulator [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
 gi|229154395|ref|ZP_04282515.1| Transcriptional regulator [Bacillus cereus ATCC 4342]
 gi|229159774|ref|ZP_04287782.1| Transcriptional regulator [Bacillus cereus R309803]
 gi|229171478|ref|ZP_04299062.1| Transcriptional regulator [Bacillus cereus MM3]
 gi|47554502|gb|EAL12859.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
 gi|228612016|gb|EEK69254.1| Transcriptional regulator [Bacillus cereus MM3]
 gi|228623711|gb|EEK80529.1| Transcriptional regulator [Bacillus cereus R309803]
 gi|228629219|gb|EEK85926.1| Transcriptional regulator [Bacillus cereus ATCC 4342]
 gi|228775874|gb|EEM24246.1| Transcriptional regulator [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
 gi|324324735|gb|ADY19995.1| transcriptional regulator [Bacillus thuringiensis serovar
          finitimus YBT-020]
          Length = 66

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+ L ++Q++L E +G+T Q +   EKG           I   ++  ++  F
Sbjct: 4  SKIKVARVQLDLTQQQLAEKVGVTRQTISLIEKGKYNPSLDLCLKICYAVDKTLNDLF 61


>gi|325971067|ref|YP_004247258.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
 gi|324026305|gb|ADY13064.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
          Length = 107

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 35/70 (50%), Gaps = 1/70 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-D 75
          + ++ RR  L ++Q +L E +G++   V + E        + ++ IS  L+ P   FF +
Sbjct: 13 RNLKERRRKLSLTQAQLAEKIGVSTSFVTEIETSRKAPSFATIEKISAALDVPCWTFFCE 72

Query: 76 VSPTVCSDIS 85
              + +D++
Sbjct: 73 DGDKLPNDVT 82


>gi|323975381|gb|EGB70482.1| helix-turn-helix protein [Escherichia coli TW10509]
          Length = 154

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 32/77 (41%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   + I  G+R++  R+  G+SQE   +  G     + + E+G +      ++ ++  L
Sbjct: 1  MKKSLRIQFGERVKELRIATGLSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLANAL 60

Query: 67 ESPISFFFDVSPTVCSD 83
                     P+  +D
Sbjct: 61 SVEPWQLLAPGPSEDND 77


>gi|315920969|ref|ZP_07917209.1| conserved hypothetical protein [Bacteroides sp. D2]
 gi|313694844|gb|EFS31679.1| conserved hypothetical protein [Bacteroides sp. D2]
          Length = 105

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G+ I+  R    ++QE+LGE +G+   Q+ K E G + +  S +    + +  
Sbjct: 37 IGEAIKRAREAKNLTQEQLGELMGVKRAQISKIESGKS-ISFSTIVRAFKAMGV 89


>gi|307710471|ref|ZP_07646908.1| helix-turn-helix family protein [Streptococcus mitis SK564]
 gi|307618734|gb|EFN97873.1| helix-turn-helix family protein [Streptococcus mitis SK564]
          Length = 158

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 26/55 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ I+  R    ++Q +  + +GI+   + +YE G++ V    +  I +     
Sbjct: 2  IGENIKTLRKTHDLTQPEFAKIIGISRNSLSRYENGISSVSTELVDRICKKFNVS 56


>gi|295096872|emb|CBK85962.1| Predicted transcriptional regulator with C-terminal CBS domains
          [Enterobacter cloacae subsp. cloacae NCTC 9394]
          Length = 70

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 32/66 (48%), Gaps = 3/66 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR-LQHISEVLESPIS 71
          + +  R++ RR  L M+Q  L E  G++ Q + + E GV  +   R L  +S  L+   +
Sbjct: 1  MTLATRLKERRKELKMTQVTLAELTGVSQQAINRIESGV--ISRPRYLLELSVALDCDPN 58

Query: 72 FFFDVS 77
          +    S
Sbjct: 59 WLLHGS 64


>gi|291513608|emb|CBK62818.1| Predicted transcriptional regulator [Alistipes shahii WAL 8301]
          Length = 223

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 37/83 (44%), Gaps = 4/83 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++L R  LGM+QE+L + LGI    +   E G   + A     + + L     +    
Sbjct: 3  ERVKLIRKQLGMTQEQLAQRLGIGKAALSMIETGKAGLSARNRNILVQELNVNPDWL--- 59

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
            T   ++ + E ++  ++   D
Sbjct: 60 -ETGKGNMFNAEPDLTAYMHRTD 81


>gi|217971592|ref|YP_002356343.1| XRE family transcriptional regulator [Shewanella baltica OS223]
 gi|217496727|gb|ACK44920.1| transcriptional regulator, XRE family [Shewanella baltica OS223]
          Length = 129

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 34/79 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +  +R   G+ Q  + +C+G++     + E G +     +L   ++ L  P +  F
Sbjct: 12 LGVVVANKRKEFGIEQSVMADCMGLSQASYSRLESGKSTFSVDQLFECAQALNIPAAELF 71

Query: 75 DVSPTVCSDISSEENNVMD 93
          +       ++ S  + V+ 
Sbjct: 72 NSVVNTVGNLQSSNDVVVQ 90


>gi|253700937|ref|YP_003022126.1| XRE family transcriptional regulator [Geobacter sp. M21]
 gi|251775787|gb|ACT18368.1| transcriptional regulator, XRE family [Geobacter sp. M21]
          Length = 188

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/89 (14%), Positives = 38/89 (42%), Gaps = 2/89 (2%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G RI+  R+   ++ + +    G +   + + E        + L  I++  +  ++ F
Sbjct: 6   NIGPRIKKLRLARKLTLQAVANETGFSPALISQIENDNVSPPIATLSKIAKFFDVKLAQF 65

Query: 74  F--DVSPTVCSDISSEENNVMDFISTPDG 100
           F  D        + +++  ++  + + +G
Sbjct: 66  FSEDEDNRKFEVVRADQRTIVPRVISKEG 94


>gi|168216107|ref|ZP_02641732.1| DNA-binding protein [Clostridium perfringens NCTC 8239]
 gi|182381810|gb|EDT79289.1| DNA-binding protein [Clostridium perfringens NCTC 8239]
          Length = 348

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 30/53 (56%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I+ +R   G++QE++   LG++   V K+EKG      + L  ++ +L+  ++
Sbjct: 7  IKEKRNAQGLTQEQVAMYLGVSTPAVNKWEKGTCYPDITLLPALARLLKIDLN 59


>gi|75910258|ref|YP_324554.1| molybdate metabolism transcriptional regulator [Anabaena
          variabilis ATCC 29413]
 gi|75703983|gb|ABA23659.1| transcriptional regulator of molybdate metabolism, XRE family
          [Anabaena variabilis ATCC 29413]
          Length = 377

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            ++  R  LGMSQ+ L     +T Q +   E G      +    I++ L   +   F
Sbjct: 9  NNLKAIRTRLGMSQQDLANIASVTRQTISGVESGQYAPSVAIALRIAKALGCQVEDLF 66


>gi|15614006|ref|NP_242309.1| transcriptional regulator [Bacillus halodurans C-125]
 gi|10174060|dbj|BAB05162.1| transcriptional regulator [Bacillus halodurans C-125]
          Length = 107

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/91 (17%), Positives = 35/91 (38%), Gaps = 2/91 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD- 75
           +R+R  R   G++ ++LG+ + +    +  YE G  +     L  ++E   S   +    
Sbjct: 4   ERLRYLRKKHGLTMKELGKKINVAESTISGYENGNRKPDMDTLVKMAEYFNSSTDYLLGR 63

Query: 76  -VSPTVCSDISSEENNVMDFISTPDGLQLNR 105
              P        E+  +     T + ++  R
Sbjct: 64  TEEPAPYQKQPPEKQFLYSETVTDEEVEFLR 94


>gi|324995252|gb|EGC27164.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK678]
          Length = 225

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 35/63 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RRM L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRMELNLTQSSIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          + T
Sbjct: 65 TST 67


>gi|324990700|gb|EGC22636.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK353]
 gi|327458798|gb|EGF05146.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1057]
          Length = 225

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 35/63 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RRM L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRMELNLTQSSIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          + T
Sbjct: 65 TST 67


>gi|323126297|gb|ADX23594.1| transcriptional regulator [Streptococcus dysgalactiae subsp.
          equisimilis ATCC 12394]
          Length = 303

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 38/65 (58%), Gaps = 1/65 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + G+++R  R+  G+S+E+L G+   ++ +Q+ + E G +    +++  I++ LE  + +
Sbjct: 4  HFGEKVRGLRLEKGISREELCGDEAELSVRQLARIELGQSIPSLAKVIFIAKALEVSVGY 63

Query: 73 FFDVS 77
            D +
Sbjct: 64 LTDGA 68


>gi|307127275|ref|YP_003879306.1| helix-turn-helix domain-containing protein [Streptococcus
          pneumoniae 670-6B]
 gi|295980949|emb|CBJ57197.1| putative transcriptional regulator [Streptococcus pneumoniae]
 gi|306484337|gb|ADM91206.1| helix-turn-helix domain protein [Streptococcus pneumoniae 670-6B]
          Length = 158

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQPEFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|262283472|ref|ZP_06061238.1| transcriptional regulator [Streptococcus sp. 2_1_36FAA]
 gi|262260963|gb|EEY79663.1| transcriptional regulator [Streptococcus sp. 2_1_36FAA]
          Length = 170

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 27/100 (27%), Positives = 44/100 (44%), Gaps = 6/100 (6%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7   NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74  FDVSPTVCSDIS-SEENNVMDFISTPDGLQLNRYFIQIDD 112
           F  S  +  + S  E N   D +S     ++ +    I+D
Sbjct: 67  FGTSKEIELEKSVLESNEYSDKVS-----EILKAVKYIED 101


>gi|225406864|ref|ZP_03761053.1| hypothetical protein CLOSTASPAR_05085 [Clostridium asparagiforme
          DSM 15981]
 gi|225042620|gb|EEG52866.1| hypothetical protein CLOSTASPAR_05085 [Clostridium asparagiforme
          DSM 15981]
          Length = 63

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR +R   G+SQE+L +  G++ Q V   E        +   H++  L++ +   F
Sbjct: 5  IRDKRKQQGLSQEELAKRCGVSRQTVNAIENDKYDPTLALAFHLARELDTRVDELF 60


>gi|218893591|ref|YP_002442460.1| putative transcriptional regulator [Pseudomonas aeruginosa LESB58]
 gi|218773819|emb|CAW29633.1| probable transcriptional regulator [Pseudomonas aeruginosa LESB58]
          Length = 187

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 40/99 (40%), Gaps = 2/99 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD  +G+R+R  R     +  ++    G+T   + + E+ +  V  S L +I++ L  P+
Sbjct: 3   VDR-IGERLRRYRRAAKKTLHQVASESGLTASFLSQAERNLTGVSISSLANIAKSLNIPL 61

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQ-LNRYFI 108
           +  FD       D    E         P   + L+  F 
Sbjct: 62  NALFDQPAQPQPDSHEGERVRYTIEGQPLAYERLSSSFP 100


>gi|210615547|ref|ZP_03290645.1| hypothetical protein CLONEX_02863 [Clostridium nexile DSM 1787]
 gi|210150214|gb|EEA81223.1| hypothetical protein CLONEX_02863 [Clostridium nexile DSM 1787]
          Length = 74

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 28/64 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I + R    MSQ++L + +G++ Q + + E+            I++V +  I   FD 
Sbjct: 10 SKIHIYRATKRMSQQELADLVGVSRQTIIQLERNRYNPSMLLAYSIAKVFDVAIEDLFDF 69

Query: 77 SPTV 80
              
Sbjct: 70 EEAE 73


>gi|154252274|ref|YP_001413098.1| XRE family transcriptional regulator [Parvibaculum lavamentivorans
           DS-1]
 gi|154156224|gb|ABS63441.1| transcriptional regulator, XRE family [Parvibaculum lavamentivorans
           DS-1]
          Length = 117

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 36/86 (41%), Gaps = 5/86 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ +  RR  LG +Q  L   +G++   V   E G   V    + +++  L+     F  
Sbjct: 11  GRAVATRRKELGFTQADLAGRVGMSRASVANIESGRQNVLLHHVYNLASALQ-----FSK 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL 101
           VS  + + +       +D I + + L
Sbjct: 66  VSDLLPTQLKPATQEDLDMILSDETL 91


>gi|154500312|ref|ZP_02038350.1| hypothetical protein BACCAP_03979 [Bacteroides capillosus ATCC
           29799]
 gi|150271044|gb|EDM98318.1| hypothetical protein BACCAP_03979 [Bacteroides capillosus ATCC
           29799]
          Length = 111

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 26/97 (26%), Positives = 47/97 (48%), Gaps = 10/97 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G+R+R RR  LG+++EK+ E   I      + E G +++    L  +S  +  P+ +
Sbjct: 7   IDIGQRLRQRRQDLGLTREKMAELADIGTGYYGQLEVGTSQMSIDTLIKLSHSMHLPMEY 66

Query: 73  --FFDVSPTVCSDISSEENNVMDFIS--TPDGLQLNR 105
             F D        I  + + V+D +   TP  L+L  
Sbjct: 67  ILFGDGY------IPGDPSAVIDLLHRCTPRELKLAE 97


>gi|104784313|ref|YP_610811.1| transcriptional regulator [Pseudomonas entomophila L48]
 gi|95113300|emb|CAK18028.1| putative transcriptional regulator [Pseudomonas entomophila L48]
          Length = 182

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 6/96 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+ +      P+S 
Sbjct: 1   MDVGERLQAIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLRKVLS--GIPMSM 58

Query: 73  --FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
             FF  +++P   + I  + + ++D       ++L 
Sbjct: 59  VEFFSVELAPESPTQIVYKAHELIDISDGAVTMKLV 94


>gi|152985673|ref|YP_001350449.1| putative transcriptional regulator [Pseudomonas aeruginosa PA7]
 gi|150960831|gb|ABR82856.1| probable transcriptional regulator [Pseudomonas aeruginosa PA7]
          Length = 187

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 40/99 (40%), Gaps = 2/99 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VD  +G+R+R  R     +  ++    G+T   + + E+ +  V  S L +I++ L  P+
Sbjct: 3   VDR-IGERLRRYRRAAKKTLHQVASESGLTASFLSQAERNLTGVSISSLANIAKSLNIPL 61

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQ-LNRYFI 108
           +  FD       D    E         P   + L+  F 
Sbjct: 62  NALFDQPAQPQPDSHEGERVRYTIEGQPLAYERLSSSFP 100


>gi|126698959|ref|YP_001087856.1| putative phage repressor [Clostridium difficile 630]
 gi|254974905|ref|ZP_05271377.1| putative phage repressor [Clostridium difficile QCD-66c26]
 gi|255314032|ref|ZP_05355615.1| putative phage repressor [Clostridium difficile QCD-76w55]
 gi|255516712|ref|ZP_05384388.1| putative phage repressor [Clostridium difficile QCD-97b34]
 gi|260682969|ref|YP_003214254.1| putative phage repressor [Clostridium difficile CD196]
 gi|260686567|ref|YP_003217700.1| putative phage repressor [Clostridium difficile R20291]
 gi|306519912|ref|ZP_07406259.1| putative phage repressor [Clostridium difficile QCD-32g58]
 gi|115250396|emb|CAJ68218.1| Transcriptional regulator, Phage-type [Clostridium difficile]
 gi|260209132|emb|CBA62325.1| putative phage repressor [Clostridium difficile CD196]
 gi|260212583|emb|CBE03577.1| putative phage repressor [Clostridium difficile R20291]
          Length = 106

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 30/58 (51%), Gaps = 2/58 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ-HISEVLESPISFF 73
          KR+R  R   G++Q +LGE +G++ + +  YE   NR     +   +++V    + + 
Sbjct: 4  KRLRELRKEFGLTQRELGEKVGVSQRVLGYYET-ENRFPDEHILNKLADVFNVSVDYL 60


>gi|75758833|ref|ZP_00738946.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
           serovar israelensis ATCC 35646]
 gi|74493674|gb|EAO56777.1| Transcriptional regulator, MerR family [Bacillus thuringiensis
           serovar israelensis ATCC 35646]
          Length = 130

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 17/99 (17%), Positives = 37/99 (37%), Gaps = 3/99 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
             G+ +R+ R + G++ ++LG+ LG+    +  +E          LQ IS          
Sbjct: 5   YFGENVRILRTLKGLNMKELGDVLGVASSTISNWENNRKEPSFETLQKISIYFNVSTDRL 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
            +        +++E+  +   I       L   +  + D
Sbjct: 65  LNHKIGDSEALTTEDRKI---IVERLAQDLYESYKNVPD 100


>gi|320334222|ref|YP_004170933.1| XRE family transcriptional regulator [Deinococcus maricopensis
          DSM 21211]
 gi|319755511|gb|ADV67268.1| transcriptional regulator, XRE family [Deinococcus maricopensis
          DSM 21211]
          Length = 64

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 21/58 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RIR+ R   G +Q  L   L ++ Q V   E G           I+     P+   F
Sbjct: 3  NRIRVLRTERGWTQADLANHLDVSRQTVNALETGRYDPSLPLAFRIARTFALPLEAIF 60


>gi|313890139|ref|ZP_07823774.1| DNA-binding helix-turn-helix protein [Streptococcus
          pseudoporcinus SPIN 20026]
 gi|313121500|gb|EFR44604.1| DNA-binding helix-turn-helix protein [Streptococcus
          pseudoporcinus SPIN 20026]
          Length = 168

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 10/57 (17%), Positives = 24/57 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  +   G++Q +L + +     Q  KYE G   +     + +S+      ++ 
Sbjct: 3  NRLKELQKEKGLTQAELAQVINTNQSQYGKYENGKTNLSLENAKILSDYFGVSPAYL 59



 Score = 34.4 bits (78), Expect = 5.1,   Method: Composition-based stats.
 Identities = 8/57 (14%), Positives = 21/57 (36%), Gaps = 2/57 (3%)

Query: 24  MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--FDVSP 78
               +S  ++ E  GI +  +  Y +G     A     +++     + +   ++  P
Sbjct: 81  KDRKLSLREISEDTGINYSTIGNYNQGTRIPNARNAAILADYFRVSVGYLLGYEKEP 137


>gi|262370916|ref|ZP_06064240.1| DNA methyltransferase [Acinetobacter johnsonii SH046]
 gi|262314278|gb|EEY95321.1| DNA methyltransferase [Acinetobacter johnsonii SH046]
          Length = 68

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 31/58 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ G ++R +R +  +SQE+L     I    + + E+G   V   ++  +++ L+ P+
Sbjct: 6  VSFGLKVREQRKLKKLSQERLALLCNIDRSYMGRIERGEVNVTIEKVYELAKALDIPV 63


>gi|237713948|ref|ZP_04544429.1| conserved hypothetical protein [Bacteroides sp. D1]
 gi|237722888|ref|ZP_04553369.1| conserved hypothetical protein [Bacteroides sp. 2_2_4]
 gi|262409143|ref|ZP_06085687.1| conserved hypothetical protein [Bacteroides sp. 2_1_22]
 gi|294647467|ref|ZP_06725050.1| DNA-binding protein [Bacteroides ovatus SD CC 2a]
 gi|294808929|ref|ZP_06767654.1| DNA-binding protein [Bacteroides xylanisolvens SD CC 1b]
 gi|229446104|gb|EEO51895.1| conserved hypothetical protein [Bacteroides sp. D1]
 gi|229447410|gb|EEO53201.1| conserved hypothetical protein [Bacteroides sp. 2_2_4]
 gi|262352890|gb|EEZ01986.1| conserved hypothetical protein [Bacteroides sp. 2_1_22]
 gi|292637177|gb|EFF55612.1| DNA-binding protein [Bacteroides ovatus SD CC 2a]
 gi|294443864|gb|EFG12606.1| DNA-binding protein [Bacteroides xylanisolvens SD CC 1b]
 gi|295085268|emb|CBK66791.1| Helix-turn-helix. [Bacteroides xylanisolvens XB1A]
          Length = 157

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 32/140 (22%), Positives = 57/140 (40%), Gaps = 14/140 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G+ IR  R+   M+QE L E + ++   V KYEK    +    LQ  +  L  P  +
Sbjct: 11  VHHGRNIRRTRIEKNMNQEGLSELVHLSQPAVSKYEKMKV-IDDEMLQRFARALNVPFDY 69

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ------IDDVKVRQ-----KIIE 121
                      +  E N V +   +  G  ++   ++      I+D +V       KI E
Sbjct: 70  L-KTLEEDAQTVVFENNTVNNSEQSAGGANISMGIVKSDTEDSINDSRVNNFNPIDKITE 128

Query: 122 LVRSIVSS-EKKYRTIEEEC 140
           L   ++   ++KY  +E   
Sbjct: 129 LYERLLKEKDEKYAALERRL 148


>gi|160942794|ref|ZP_02090035.1| hypothetical protein FAEPRAM212_00271 [Faecalibacterium prausnitzii
           M21/2]
 gi|158445959|gb|EDP22962.1| hypothetical protein FAEPRAM212_00271 [Faecalibacterium prausnitzii
           M21/2]
          Length = 134

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 27/64 (42%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           ++  R    M+QE + E +G++ Q V K+E G +    S L  ++ +   P         
Sbjct: 67  LKENRTRCKMTQEFVAETIGVSRQAVSKWENGTSEPNTSNLMALARLYGIPAEDLLKGVE 126

Query: 79  TVCS 82
           +   
Sbjct: 127 SALE 130


>gi|42779243|ref|NP_976490.1| hypothetical protein BCE_0162 [Bacillus cereus ATCC 10987]
 gi|42735158|gb|AAS39098.1| Unknown-related protein [Bacillus cereus ATCC 10987]
          Length = 64

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R+  GM+Q +L +   ++ Q +   E+G      +    I + L   ++  F
Sbjct: 4  KVKRIRLEKGMTQGELAKLTNVSRQTIGLIEQGAYNPSLNLCIKICQTLGVTLNDLF 60


>gi|78048175|ref|YP_364350.1| hypothetical protein XCV2619 [Xanthomonas campestris pv.
          vesicatoria str. 85-10]
 gi|78036605|emb|CAJ24296.1| conserved hypothetical protein [Xanthomonas campestris pv.
          vesicatoria str. 85-10]
          Length = 91

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 31/79 (39%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          ++  K +P    +  G R+   R   G+SQE+L    G+    +   E+G   +    + 
Sbjct: 7  LMPEKSMPTDPRVLFGLRLAEVRKTKGLSQERLALESGLARSYLGGVERGQRNIALLNIY 66

Query: 61 HISEVLESPISFFFDVSPT 79
           ++E L    +   +    
Sbjct: 67 RLAEALGVHPTLLLEPPSA 85


>gi|317484462|ref|ZP_07943374.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
          3_1_6]
 gi|316924286|gb|EFV45460.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
          3_1_6]
          Length = 78

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 30/69 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  ++ +R + G+SQ  L    G + + +Q  E G      S L  I+  L+  +    +
Sbjct: 8  GDMLKEKRKLRGLSQMGLAMKSGRSLRCIQYLEAGTQEPTLSTLYAIAHALDLRVMDLIE 67

Query: 76 VSPTVCSDI 84
            P   +D+
Sbjct: 68 ALPEELNDM 76


>gi|312867912|ref|ZP_07728116.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
 gi|311096316|gb|EFQ54556.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
          Length = 170

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 23/77 (29%), Positives = 36/77 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74 FDVSPTVCSDISSEENN 90
          F  S  +  + S  E+N
Sbjct: 67 FGTSKEIELEKSVLESN 83


>gi|298292090|ref|YP_003694029.1| XRE family transcriptional regulator [Starkeya novella DSM 506]
 gi|296928601|gb|ADH89410.1| transcriptional regulator, XRE family [Starkeya novella DSM 506]
          Length = 206

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 14/91 (15%), Positives = 36/91 (39%), Gaps = 9/91 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G+ I+  R    +S  +L E  G+    + + E+       + +  +S+ L+  I  F
Sbjct: 23  QLGRTIQRLRKAYNLSLSELSEQSGVAKSIISQIERNETNPTLATVWRLSQALDVSIDRF 82

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
                      ++++   ++ ++  D   L 
Sbjct: 83  M---------AATDDEPFVEHLTRADTPILL 104


>gi|322418240|ref|YP_004197463.1| Cupin 2 barrel domain-containing protein [Geobacter sp. M18]
 gi|320124627|gb|ADW12187.1| Cupin 2 conserved barrel domain protein [Geobacter sp. M18]
          Length = 206

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 32/65 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+++R  R    ++ + L +  G++   + + E        + L  I++ L+  I +
Sbjct: 19 MKLGEKVRGLRQEQRLTLQALADMTGLSKPLLSQIENDQVTPPIATLLKIAKGLKVGIHY 78

Query: 73 FFDVS 77
          FF+ +
Sbjct: 79 FFEEA 83


>gi|225389143|ref|ZP_03758867.1| hypothetical protein CLOSTASPAR_02889 [Clostridium asparagiforme
          DSM 15981]
 gi|225044801|gb|EEG55047.1| hypothetical protein CLOSTASPAR_02889 [Clostridium asparagiforme
          DSM 15981]
          Length = 73

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R  L +SQE+L E +G+T Q +   E G      +    I +VL   +   F
Sbjct: 14 KLKSARAALDLSQEELAEKVGVTRQTIGMIEAGKYNPTLNLCVAICKVLGKTLDDLF 70


>gi|254418818|ref|ZP_05032542.1| hypothetical protein BBAL3_1128 [Brevundimonas sp. BAL3]
 gi|196184995|gb|EDX79971.1| hypothetical protein BBAL3_1128 [Brevundimonas sp. BAL3]
          Length = 69

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 27/63 (42%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +G R++  R   G +Q+ L +  G++ + +   E GV          ++  L + + 
Sbjct: 3  DPRLGSRLKELRTAAGFTQQGLADKAGVSRKTINTVENGVFIPSTIVALDLARALNTTVE 62

Query: 72 FFF 74
            F
Sbjct: 63 AIF 65


>gi|169333644|ref|ZP_02860837.1| hypothetical protein ANASTE_00028 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169259638|gb|EDS73604.1| hypothetical protein ANASTE_00028 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 126

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R+   MSQE L E L ++   + K+E          ++ I+ + +  I 
Sbjct: 5  EKLKKLRIDNEMSQENLAELLNVSRSAIAKWESSKGMPDLENIKMIAPIFDVTID 59


>gi|160934669|ref|ZP_02082055.1| hypothetical protein CLOLEP_03542 [Clostridium leptum DSM 753]
 gi|156866122|gb|EDO59494.1| hypothetical protein CLOLEP_03542 [Clostridium leptum DSM 753]
          Length = 99

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 28/68 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +IR  R   G +Q+K+ E LG+       YE G        L+ ++ V      +  D+S
Sbjct: 13 KIRQLREKYGYTQKKMSELLGVERSTYTYYETGKTEPSLRVLRKMAVVFHVSTDYLVDMS 72

Query: 78 PTVCSDIS 85
           T  S   
Sbjct: 73 DTGNSTTG 80


>gi|148262951|ref|YP_001229657.1| cupin 2 domain-containing protein [Geobacter uraniireducens Rf4]
 gi|146396451|gb|ABQ25084.1| transcriptional regulator, XRE family [Geobacter uraniireducens
           Rf4]
          Length = 196

 Score = 53.7 bits (128), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 37/86 (43%), Gaps = 11/86 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++ R  R    ++ ++L E  G++   + + E        + L  I++ L+  I +FF
Sbjct: 13  LGEKARKLRQERRLTLQELAELTGLSKPLLSQIENDQVTPPIATLLKIAKGLKVGIHYFF 72

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
           +           EE +   F+ T  G
Sbjct: 73  E-----------EEGDRQKFVLTRGG 87


>gi|326797649|ref|YP_004315468.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
 gi|326548413|gb|ADZ76798.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
          Length = 193

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 32/68 (47%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + + + I +G +I+ RR   G++ ++L +   ++   + + E          L  I + L
Sbjct: 1  MKDDILIQIGNQIKERRKNKGITVQELADRASVSKGLISQIENNRVIPSLMVLIEIIKSL 60

Query: 67 ESPISFFF 74
          +  ++ FF
Sbjct: 61 DVDLNIFF 68


>gi|323934035|gb|EGB30492.1| helix-turn-helix protein [Escherichia coli E1520]
          Length = 154

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 32/77 (41%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   + I  G+R++  R+  G+SQE   +  G     + + E+G +      ++ ++  L
Sbjct: 1  MKKSLRIQFGERVKELRIATGLSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLANAL 60

Query: 67 ESPISFFFDVSPTVCSD 83
                     P+  +D
Sbjct: 61 SVEPWQLLAPGPSEDND 77


>gi|304440440|ref|ZP_07400329.1| XRE family transcriptional regulator [Peptoniphilus duerdenii ATCC
           BAA-1640]
 gi|304371192|gb|EFM24809.1| XRE family transcriptional regulator [Peptoniphilus duerdenii ATCC
           BAA-1640]
          Length = 132

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/104 (19%), Positives = 42/104 (40%), Gaps = 6/104 (5%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G  I+  R    +SQ++L + L I+   + +YE  V          I++     + + 
Sbjct: 10  NLGSNIKYLREKNNLSQKELAKILNISNSTLSQYESNVRVPSDDIKILIADYFNVSLDYL 69

Query: 74  FD--VSPTVCSDISSEENNVMDFISTPDGLQ-LNRYFIQIDDVK 114
                +P   +  +  +    DF   P+G+  L R   ++   +
Sbjct: 70  LGRSSNPHKNNKKTKVDELEEDF---PEGISVLYRANQKLTPEQ 110


>gi|295134629|ref|YP_003585305.1| lambda repressor-like DNA-binding protein [Zunongwangia profunda
          SM-A87]
 gi|294982644|gb|ADF53109.1| lambda repressor-like DNA-binding protein [Zunongwangia profunda
          SM-A87]
          Length = 144

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          ++G++I   R + GM QE L   LGI+ Q V   E+  + +   +L+ +++VL   
Sbjct: 15 HIGRKISRIRELRGMKQEALAAELGISQQSVSSLEQSEH-IEDEKLEKVAKVLGVS 69


>gi|293373775|ref|ZP_06620121.1| DNA-binding protein [Bacteroides ovatus SD CMC 3f]
 gi|298482606|ref|ZP_07000791.1| prophage L54a [Bacteroides sp. D22]
 gi|292631265|gb|EFF49897.1| DNA-binding protein [Bacteroides ovatus SD CMC 3f]
 gi|298271313|gb|EFI12889.1| prophage L54a [Bacteroides sp. D22]
          Length = 131

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 35/69 (50%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   +   VG R+++ RM   ++QE++GE L ++     K E G   +  +RL  I+EVL
Sbjct: 1  METDLKKIVGHRLQMLRMEKNLTQEQMGEKLNLSTSAYCKIEYGETDLTLTRLNKIAEVL 60

Query: 67 ESPISFFFD 75
                 F+
Sbjct: 61 NMSALELFN 69


>gi|260430343|ref|ZP_05784316.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
 gi|260418372|gb|EEX11629.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
          Length = 303

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 32/56 (57%), Gaps = 1/56 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+R+R  R+  GMS E++   +GI+   V ++EKG   V    L  ++E+L   +
Sbjct: 8  IGQRLRAFRLGSGMSAEEVANRIGISRTAVYRFEKGEV-VKIETLIGLAELLNVSL 62


>gi|254773353|ref|ZP_05214869.1| hypothetical protein MaviaA2_01546 [Mycobacterium avium subsp.
           avium ATCC 25291]
          Length = 477

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 44/109 (40%), Gaps = 5/109 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R   G++Q  L   LG++   V + E     +    L  ++E  + P  +F  
Sbjct: 10  GARLRRLREEQGLTQVALARALGLSTSYVNQLENDQRPITVPVLLTLTERFDLPTQYFAP 69

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL-QLNRYFIQIDD--VKVRQKIIE 121
            S      I+     + +  +TP  + +L      I    V + +++ +
Sbjct: 70  DSDARL--IADLREVLAETPATPGQVEELVARMPAIGQTLVNLHRRLHD 116


>gi|238917692|ref|YP_002931209.1| hypothetical protein EUBELI_01772 [Eubacterium eligens ATCC
          27750]
 gi|238873052|gb|ACR72762.1| Hypothetical protein EUBELI_01772 [Eubacterium eligens ATCC
          27750]
          Length = 98

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 4/70 (5%)

Query: 9  NPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNR-VGASRLQHISE 64
          N  D+   +G  I+  R    ++Q +L E   I+   + K E  G ++ +  S L  I+ 
Sbjct: 23 NDTDLYRVIGANIKNYREQAKLTQVQLAEQAKISISYLSKIEAAGCDKSLSISVLNQIAN 82

Query: 65 VLESPISFFF 74
          VL   IS FF
Sbjct: 83 VLGVEISEFF 92


>gi|229188198|ref|ZP_04315276.1| hypothetical protein bcere0004_57020 [Bacillus cereus BGSC 6E1]
 gi|228595274|gb|EEK53016.1| hypothetical protein bcere0004_57020 [Bacillus cereus BGSC 6E1]
          Length = 68

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+  R   G+SQ KL E   ++ Q +   E             I+ +L+S +   F
Sbjct: 3  NQIKKFREHKGISQGKLAEMCNVSRQTINAIENNKYDPSLELAFSIAFILDSTVDTLF 60


>gi|193782634|ref|NP_435827.2| hypothetical protein SMa1076 [Sinorhizobium meliloti 1021]
 gi|193073090|gb|AAK65239.2| conserved hypothetical protein [Sinorhizobium meliloti 1021]
          Length = 194

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 26/66 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R+   +   +L    G++   + K E+G        L  I+ V    +  FF
Sbjct: 15 IGPRIKALRLRKKLGLVQLAGHTGLSPAMLSKIERGQMFPTLPTLLRIAMVFGVGLDHFF 74

Query: 75 DVSPTV 80
          +     
Sbjct: 75 NADKEE 80


>gi|170782465|ref|YP_001710798.1| putative DNA-binding protein [Clavibacter michiganensis subsp.
          sepedonicus]
 gi|169157034|emb|CAQ02207.1| putative DNA-binding protein [Clavibacter michiganensis subsp.
          sepedonicus]
          Length = 107

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 33/77 (42%), Gaps = 5/77 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          G R+R +R  +G+SQE L E  GI +  + K E+G        +  I+  L+        
Sbjct: 13 GSRVREQRQRIGISQETLAELSGIHWTALGKIERGQRNPSLRNIIKIASGLDVDAGLLVT 72

Query: 75 ----DVSPTVCSDISSE 87
              D+ P    D  +E
Sbjct: 73 GLTADMLPQDDGDSPAE 89


>gi|167917954|ref|ZP_02505045.1| helix-turn-helix protein [Burkholderia pseudomallei BCC215]
          Length = 107

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 38/81 (46%), Gaps = 1/81 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
          +G ++R  R   G++ EKL E  G++   V + E +   R  A +L  +++VL    S+F
Sbjct: 5  LGAKLRELRKEKGLTLEKLAELAGMSKSYVWELENRESQRPSAEKLTKLADVLGVAASYF 64

Query: 74 FDVSPTVCSDISSEENNVMDF 94
           +       +   +E    ++
Sbjct: 65 IEEDVRKPEERHRDEAFFRNY 85


>gi|15678727|ref|NP_275843.1| hypothetical protein MTH700 [Methanothermobacter
          thermautotrophicus str. Delta H]
 gi|2621786|gb|AAB85205.1| conserved protein [Methanothermobacter thermautotrophicus str.
          Delta H]
          Length = 182

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 32/67 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G R+R  R +  +++E++ + L I  +  ++YE G + + AS L  I+  L   +  
Sbjct: 6  KEIGSRVRELRELSEITEEEMADYLKIDVETYRRYETGEDDIPASILFEIAHRLGVDMGL 65

Query: 73 FFDVSPT 79
                T
Sbjct: 66 LLTGEET 72


>gi|50121835|ref|YP_051002.1| putative DNA-binding protein [Pectobacterium atrosepticum
          SCRI1043]
 gi|49612361|emb|CAG75811.1| putative DNA-binding protein [Pectobacterium atrosepticum
          SCRI1043]
          Length = 370

 Score = 53.7 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/61 (34%), Positives = 34/61 (55%), Gaps = 2/61 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG--VNRVGASRLQHISEVLESPISFFF 74
          +R+ + R   G++Q  L E  G+T + +  YEK    + + +  ++ IS VLE PI FF 
Sbjct: 5  ERLCIARERRGLTQRALAEAAGLTSKTISNYEKAGIFDAIASDSMERISAVLEYPIEFFL 64

Query: 75 D 75
          D
Sbjct: 65 D 65


>gi|329728856|gb|EGG65277.1| DNA-binding helix-turn-helix protein [Staphylococcus aureus
          subsp. aureus 21193]
          Length = 62

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R I  ++QE+L E   ++   + + E            +I EVL +  S 
Sbjct: 1  MNIGNKIKNLRRIKNLTQEELAERTDLSKGYISQIESEHASPSMETFLNIIEVLGTTPSE 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|319757761|gb|ADV69703.1| transcriptional regulator [Streptococcus suis JS14]
          Length = 158

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGDNIKSLRRTHDLTQPEFAKMVGISRNSLSRYENGTSTVSTELIDRICQKFNVS 56


>gi|289168327|ref|YP_003446596.1| hypothetical protein smi_1494 [Streptococcus mitis B6]
 gi|288907894|emb|CBJ22734.1| conserved hypothetical protein [Streptococcus mitis B6]
          Length = 71

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+ L ++Q +L E +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 8  KLKLARVELDLTQGQLAEAVGVTRQTIGLIEAGKYNPSLSLCQSICRCLGKTLDQLF 64


>gi|229018185|ref|ZP_04175058.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          AH1273]
 gi|229024368|ref|ZP_04180821.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          AH1272]
 gi|228736935|gb|EEL87477.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          AH1272]
 gi|228743110|gb|EEL93237.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          AH1273]
          Length = 433

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 34/68 (50%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RIR  RM  G++Q +L   +  +   + + E G  +  +S L+ +S+ L+    +
Sbjct: 11 MEIGERIRQVRMHKGLTQGELVSEI-CSVTYLSRIESGKIKPSSSFLKKVSKKLDVDGDY 69

Query: 73 FFDVSPTV 80
            + +   
Sbjct: 70 LIEGNHEE 77


>gi|195937299|ref|ZP_03082681.1| putative transcription regulator [Escherichia coli O157:H7 str.
          EC4024]
          Length = 152

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 25/53 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++  L  
Sbjct: 8  GQRVKELRIATGMSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLANALSV 60


>gi|219847677|ref|YP_002462110.1| XRE family transcriptional regulator [Chloroflexus aggregans DSM
          9485]
 gi|219541936|gb|ACL23674.1| transcriptional regulator, XRE family [Chloroflexus aggregans DSM
          9485]
          Length = 181

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/66 (16%), Positives = 34/66 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++I   R   G++ +++ E  G+T   + + E+    +  + L+ +++     ++ 
Sbjct: 1  MSLGQKIGRLRQERGLTLQEVSEGSGLTPSFLSRLERDKVNISVANLRKLAQFFSVKMTH 60

Query: 73 FFDVSP 78
          FF+   
Sbjct: 61 FFEGED 66


>gi|111220424|ref|YP_711218.1| putative DNA-binding protein [Frankia alni ACN14a]
 gi|111147956|emb|CAJ59622.1| Putative DNA-binding protein (partial match) [Frankia alni
          ACN14a]
          Length = 328

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/85 (20%), Positives = 38/85 (44%), Gaps = 1/85 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G  IR +R    +S  +L +  G++   + + E+G+ R  A  LQ I++ L      
Sbjct: 7  RDLGDFIRDQRRAAQISLRQLAKQAGVSNPYLSQIERGLRRPSAEILQQIAKALRISAEV 66

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
           + V   +  +    E+ +   ++ 
Sbjct: 67 LY-VQAGILEERHGGEDVMAAILAD 90


>gi|134294052|ref|YP_001117788.1| XRE family transcriptional regulator [Burkholderia vietnamiensis
           G4]
 gi|134137209|gb|ABO58323.1| transcriptional regulator, XRE family [Burkholderia vietnamiensis
           G4]
          Length = 185

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/140 (19%), Positives = 52/140 (37%), Gaps = 26/140 (18%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR  R    ++   L E +G +   + + E+G++R   + L  I E L  P ++F+ +S 
Sbjct: 14  IRDLRKHRKVTLNDLAERIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLSK 73

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD----VKVRQKIIELVRSIV------- 127
                        + +++ PD  +   Y   I D      +R +   L   +        
Sbjct: 74  PRS----------VPWVTRPDERRTVYYAAGITDILVSPNMRSRFSVLESHLAPGANSGE 123

Query: 128 -----SSEKKYRTIEEECMV 142
                S E+    +E E  +
Sbjct: 124 RPVDDSDEQGGFVLEGELTI 143


>gi|145638927|ref|ZP_01794535.1| possible transcriptional regulator [Haemophilus influenzae
          PittII]
 gi|145271899|gb|EDK11808.1| possible transcriptional regulator [Haemophilus influenzae
          PittII]
 gi|309750896|gb|ADO80880.1| Putative DNA-binding protein [Haemophilus influenzae R2866]
          Length = 127

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +IR+ R +  +SQE + E + ++     K E+G  R+   +L  I+++    +S   D  
Sbjct: 6  KIRMMRELRQLSQEDMAEKMNMSPSGYAKIERGETRLQYDKLVQIAQIFNVSLSDLVDND 65

Query: 78 PTV 80
            V
Sbjct: 66 KGV 68


>gi|324992265|gb|EGC24187.1| cro/CI family transcriptional regulator [Streptococcus sanguinis
          SK405]
          Length = 169

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/77 (29%), Positives = 36/77 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N G  +   R+  G+SQ +L E LGI  Q +  YEK  +    + L  I+E   +  +  
Sbjct: 7  NFGPNLARLRIEKGVSQTQLAEDLGIGKQSISDYEKQKSYPTFANLDKIAEYFNATPTQL 66

Query: 74 FDVSPTVCSDISSEENN 90
          F  S  +  + S  E+N
Sbjct: 67 FGTSKEIELEKSVLESN 83


>gi|308179156|ref|YP_003918562.1| helix-turn-helix domain-containing protein [Arthrobacter
          arilaitensis Re117]
 gi|307746619|emb|CBT77591.1| helix-turn-helix domain-containing protein [Arthrobacter
          arilaitensis Re117]
          Length = 163

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI   R + G +QE+L    GIT + VQ+ E G N      +  +++ L+  +   F
Sbjct: 4  SRIAELRRVKGWTQERLATESGITVRTVQRLEAG-NDASLETISLVAKALDVQVGDLF 60


>gi|312913769|dbj|BAJ37743.1| putative transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Typhimurium str. T000240]
          Length = 104

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 38/76 (50%), Gaps = 4/76 (5%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVL 66
          + I +GKR+++ R+   ++Q +LG   G+       ++  YEK V+      +  ++  L
Sbjct: 6  IAIVIGKRLKISRVRADLTQAELGALAGLDEESASARISSYEKEVHAPDFKLVCKLAAAL 65

Query: 67 ESPISFFFDVSPTVCS 82
          + P ++F+ V   +  
Sbjct: 66 DVPEAYFYAVDDELAE 81


>gi|167746452|ref|ZP_02418579.1| hypothetical protein ANACAC_01162 [Anaerostipes caccae DSM 14662]
 gi|167653412|gb|EDR97541.1| hypothetical protein ANACAC_01162 [Anaerostipes caccae DSM 14662]
          Length = 171

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 1/82 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I L R   G++Q +LGE +G+T + V ++E G      + +  + E  E  I+   
Sbjct: 21  IGAFIALLRRERGITQAELGERIGVTNKTVSRWENGNYMPDIATMLSLCEEFEISINELL 80

Query: 75  DVSPTVCSDISSEEN-NVMDFI 95
                   +   + + NV+D +
Sbjct: 81  SGQRLGSDEFRKKADENVVDSL 102


>gi|167590249|ref|ZP_02382637.1| putative transcription regulator protein [Burkholderia ubonensis
          Bu]
          Length = 217

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 33/81 (40%), Gaps = 2/81 (2%)

Query: 4  NKKIPNPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +   P   D+N  + +R+R  R   G + + L    G++   +   E+G     A  L  
Sbjct: 6  STDAPADSDVNERIARRVRALRATRGHTLDALAARSGVSRSMISLIERGAASPTAVVLDK 65

Query: 62 ISEVLESPISFFFDVSPTVCS 82
          ++  L   ++  FD +P    
Sbjct: 66 LAAGLGVSLASLFDGAPDDAP 86


>gi|163737915|ref|ZP_02145331.1| 2-amino-3-ketobutyrate coenzyme A ligase [Phaeobacter gallaeciensis
           BS107]
 gi|161388531|gb|EDQ12884.1| 2-amino-3-ketobutyrate coenzyme A ligase [Phaeobacter gallaeciensis
           BS107]
          Length = 188

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/84 (17%), Positives = 35/84 (41%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R   G+S E +    G++   V + E+G +    + L +++  L+   +   D 
Sbjct: 14  ARLKEARRAQGLSLEAVANLSGVSRSMVSQIERGESSPTIATLWNLTRALQVDFAGLLDS 73

Query: 77  SPTVCSDISSEENNVMDFISTPDG 100
           +    S     + +V    +  +G
Sbjct: 74  NEAQDSIEILRDGDVPSIENMGEG 97


>gi|281356298|ref|ZP_06242790.1| transcriptional regulator, XRE family [Victivallis vadensis ATCC
          BAA-548]
 gi|281316990|gb|EFB01012.1| transcriptional regulator, XRE family [Victivallis vadensis ATCC
          BAA-548]
          Length = 193

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 29/62 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G RI++ R    M+ + L +  G+T   + K E          L  I+  LE+ ++ 
Sbjct: 6  IALGTRIKMARKERKMTLQTLADRTGLTAGLLSKIENFRTIPSLPVLVDIAAALETDLAE 65

Query: 73 FF 74
          FF
Sbjct: 66 FF 67


>gi|73663641|ref|YP_302422.1| transcriptional regulator [Staphylococcus saprophyticus subsp.
           saprophyticus ATCC 15305]
 gi|72496156|dbj|BAE19477.1| putative transcriptional regulator [Staphylococcus saprophyticus
           subsp. saprophyticus ATCC 15305]
          Length = 117

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/89 (16%), Positives = 34/89 (38%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G + + +R     SQ++L E L I+ Q + K+E          L  +S++ +  +  
Sbjct: 1   MEIGSKTKEKREQKHWSQDELAEILNISRQSISKWELNKVYPSIDMLIKMSDLFDISLDE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
                      I     + + +     G+
Sbjct: 61  LIKGDKQFKKTIIETYQDPVSYHHQKRGM 89


>gi|11499382|ref|NP_070621.1| repressor protein [Archaeoglobus fulgidus DSM 4304]
 gi|3219980|sp|O28481|Y1793_ARCFU RecName: Full=Uncharacterized HTH-type transcriptional regulator
          AF_1793
 gi|2648767|gb|AAB89470.1| repressor protein [Archaeoglobus fulgidus DSM 4304]
          Length = 70

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 26/63 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR  R   GM+QE+L + +G+  + +   EKG           I+ V  + I   F   
Sbjct: 4  RIREFRAKYGMTQEELAKKVGVRRETIVFLEKGKYNPSLRLAYKIARVFNARIEDLFIFD 63

Query: 78 PTV 80
             
Sbjct: 64 DEE 66


>gi|53716572|ref|YP_105616.1| DNA-binding protein [Burkholderia mallei ATCC 23344]
 gi|53722368|ref|YP_111353.1| DNA-binding protein [Burkholderia pseudomallei K96243]
 gi|67642241|ref|ZP_00441000.1| DNA-binding protein [Burkholderia mallei GB8 horse 4]
 gi|76818883|ref|YP_335523.1| transcriptional regulator [Burkholderia pseudomallei 1710b]
 gi|121597603|ref|YP_990060.1| DNA-binding protein [Burkholderia mallei SAVP1]
 gi|124381912|ref|YP_001024022.1| DNA-binding protein [Burkholderia mallei NCTC 10229]
 gi|126445750|ref|YP_001078595.1| DNA-binding protein [Burkholderia mallei NCTC 10247]
 gi|126456449|ref|YP_001075854.1| DNA-binding protein [Burkholderia pseudomallei 1106a]
 gi|166999565|ref|ZP_02265402.1| DNA-binding protein [Burkholderia mallei PRL-20]
 gi|167742899|ref|ZP_02415673.1| transcriptional regulator, XRE family protein [Burkholderia
          pseudomallei 14]
 gi|167828452|ref|ZP_02459923.1| transcriptional regulator, XRE family protein [Burkholderia
          pseudomallei 9]
 gi|167849906|ref|ZP_02475414.1| transcriptional regulator, XRE family protein [Burkholderia
          pseudomallei B7210]
 gi|167898508|ref|ZP_02485909.1| transcriptional regulator, XRE family protein [Burkholderia
          pseudomallei 7894]
 gi|167906857|ref|ZP_02494062.1| transcriptional regulator, XRE family protein [Burkholderia
          pseudomallei NCTC 13177]
 gi|167915218|ref|ZP_02502309.1| transcriptional regulator, XRE family protein [Burkholderia
          pseudomallei 112]
 gi|167923046|ref|ZP_02510137.1| transcriptional regulator, XRE family protein [Burkholderia
          pseudomallei BCC215]
 gi|217418478|ref|ZP_03449985.1| DNA-binding protein [Burkholderia pseudomallei 576]
 gi|226198499|ref|ZP_03794066.1| DNA-binding protein [Burkholderia pseudomallei Pakistan 9]
 gi|242312902|ref|ZP_04811919.1| DNA-binding protein [Burkholderia pseudomallei 1106b]
 gi|254173994|ref|ZP_04880657.1| DNA-binding protein [Burkholderia mallei ATCC 10399]
 gi|254183723|ref|ZP_04890315.1| DNA-binding protein [Burkholderia pseudomallei 1655]
 gi|254191201|ref|ZP_04897706.1| DNA-binding protein [Burkholderia pseudomallei Pasteur 52237]
 gi|254193556|ref|ZP_04899990.1| DNA-binding protein [Burkholderia pseudomallei S13]
 gi|254200408|ref|ZP_04906773.1| DNA-binding protein [Burkholderia mallei FMH]
 gi|254204434|ref|ZP_04910787.1| DNA-binding protein [Burkholderia mallei JHU]
 gi|254265606|ref|ZP_04956471.1| DNA-binding protein [Burkholderia pseudomallei 1710a]
 gi|254356660|ref|ZP_04972935.1| DNA-binding protein [Burkholderia mallei 2002721280]
 gi|52212782|emb|CAH38814.1| putative DNA-binding protein [Burkholderia pseudomallei K96243]
 gi|52422542|gb|AAU46112.1| DNA-binding protein [Burkholderia mallei ATCC 23344]
 gi|76583356|gb|ABA52830.1| possible transcriptional regulator, XRE family, CUPIN domain
          [Burkholderia pseudomallei 1710b]
 gi|121225401|gb|ABM48932.1| DNA-binding protein [Burkholderia mallei SAVP1]
 gi|124289932|gb|ABM99201.1| DNA-binding protein [Burkholderia mallei NCTC 10229]
 gi|126230217|gb|ABN93630.1| DNA-binding protein [Burkholderia pseudomallei 1106a]
 gi|126238604|gb|ABO01716.1| DNA-binding protein [Burkholderia mallei NCTC 10247]
 gi|147748020|gb|EDK55095.1| DNA-binding protein [Burkholderia mallei FMH]
 gi|147754020|gb|EDK61084.1| DNA-binding protein [Burkholderia mallei JHU]
 gi|148025687|gb|EDK83810.1| DNA-binding protein [Burkholderia mallei 2002721280]
 gi|157938874|gb|EDO94544.1| DNA-binding protein [Burkholderia pseudomallei Pasteur 52237]
 gi|160695041|gb|EDP85011.1| DNA-binding protein [Burkholderia mallei ATCC 10399]
 gi|169650309|gb|EDS83002.1| DNA-binding protein [Burkholderia pseudomallei S13]
 gi|184214256|gb|EDU11299.1| DNA-binding protein [Burkholderia pseudomallei 1655]
 gi|217397782|gb|EEC37797.1| DNA-binding protein [Burkholderia pseudomallei 576]
 gi|225929422|gb|EEH25442.1| DNA-binding protein [Burkholderia pseudomallei Pakistan 9]
 gi|238523345|gb|EEP86784.1| DNA-binding protein [Burkholderia mallei GB8 horse 4]
 gi|242136141|gb|EES22544.1| DNA-binding protein [Burkholderia pseudomallei 1106b]
 gi|243064397|gb|EES46583.1| DNA-binding protein [Burkholderia mallei PRL-20]
 gi|254216608|gb|EET05993.1| DNA-binding protein [Burkholderia pseudomallei 1710a]
          Length = 94

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 23/56 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G  IR  R     SQE+L E  G+    V + E+G        +  ++     PI+
Sbjct: 9  GAAIRQLREARAWSQEQLAEHAGLNRSYVGEIERGTAIASIVTVDKLARAFGVPIA 64


>gi|329917226|ref|ZP_08276450.1| Transcriptional regulator, MerR family [Oxalobacteraceae bacterium
           IMCC9480]
 gi|327544593|gb|EGF30073.1| Transcriptional regulator, MerR family [Oxalobacteraceae bacterium
           IMCC9480]
          Length = 198

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 39/92 (42%), Gaps = 5/92 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  R++ G++  +L +  G +   + K E+ +     + L  ++  L++ I    
Sbjct: 23  LGLRLRHARLVAGLTLLQLAQKAGCSESLISKIERSLATPSLTMLHRLAVALDTNIGILT 82

Query: 75  DVS-PTVCSDISSEENNVMDFISTPDGLQLNR 105
               P     I  +E  V+       G+ L R
Sbjct: 83  STDGPPDSPIIRHDERPVL----KAGGIALER 110


>gi|323963980|gb|EGB59472.1| helix-turn-helix protein [Escherichia coli M863]
 gi|327254078|gb|EGE65707.1| helix-turn-helix family protein [Escherichia coli STEC_7v]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|323490759|ref|ZP_08095961.1| DNA-binding protein [Planococcus donghaensis MPA1U2]
 gi|323395641|gb|EGA88485.1| DNA-binding protein [Planococcus donghaensis MPA1U2]
          Length = 172

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 29/60 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++  R    ++ ++L E   ++   + + E+G + V    L+ I++ L    S FF
Sbjct: 6  IGVTLKSLRKERKLTLKELAEQTNVSISFLSQVERGKSSVTLESLRKIADALNVDPSLFF 65


>gi|322714235|gb|EFZ05806.1| regulatory protein [Salmonella enterica subsp. enterica serovar
          Choleraesuis str. A50]
          Length = 231

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 35/90 (38%), Gaps = 6/90 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M   +L E +G+    + + E G  +      L  +++ L   I+
Sbjct: 1  MNIGNRVRQLRRAKNMKIAELAEAIGVDAANISRLETGKQKQFTEQTLSRLADCLGVDIA 60

Query: 72 FFFDVSPTVC-----SDISSEENNVMDFIS 96
            F            SD+  +  NV D   
Sbjct: 61 ELFTSDSKGNTVCKHSDMRKDSANVKDLFR 90


>gi|313677569|ref|YP_004055565.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
 gi|312944267|gb|ADR23457.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
          Length = 171

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 5/78 (6%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPIS----FFFD 75
             R+  G+SQ+KL + LGI+ QQVQ+ E   N ++ A +LQ IS+ L   I      F  
Sbjct: 81  KARIASGVSQKKLADQLGISPQQVQRNETNDNQQLSAKKLQGISDALGLEIEISKIVFLK 140

Query: 76  VSPTVCSDISSEENNVMD 93
             P+  +     E N+ +
Sbjct: 141 NQPSFLAPDELGEANIQE 158


>gi|309701701|emb|CBJ01009.1| putative transcriptional regulator [Escherichia coli ETEC H10407]
 gi|323937517|gb|EGB33787.1| helix-turn-helix protein [Escherichia coli E1520]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|306813594|ref|ZP_07447777.1| putative DNA-binding transcriptional regulator [Escherichia coli
          NC101]
 gi|305853041|gb|EFM53485.1| putative DNA-binding transcriptional regulator [Escherichia coli
          NC101]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|300939145|ref|ZP_07153832.1| helix-turn-helix protein [Escherichia coli MS 21-1]
 gi|300455960|gb|EFK19453.1| helix-turn-helix protein [Escherichia coli MS 21-1]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|301017870|ref|ZP_07182512.1| helix-turn-helix protein [Escherichia coli MS 69-1]
 gi|300399967|gb|EFJ83505.1| helix-turn-helix protein [Escherichia coli MS 69-1]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|295132275|ref|YP_003582951.1| XRE family transcriptional regulator [Zunongwangia profunda
          SM-A87]
 gi|294980290|gb|ADF50755.1| XRE family transcriptional regulator [Zunongwangia profunda
          SM-A87]
          Length = 140

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          ++G++I   R + GM QE L   LGI+ Q V   E+  + +   +L+ +++VL   
Sbjct: 15 HIGRKISRIRELRGMKQEALAAELGISRQSVSSLEQSEH-IEDEKLEKVAKVLGVS 69


>gi|293409776|ref|ZP_06653352.1| conserved hypothetical protein [Escherichia coli B354]
 gi|291470244|gb|EFF12728.1| conserved hypothetical protein [Escherichia coli B354]
 gi|323976926|gb|EGB72013.1| helix-turn-helix protein [Escherichia coli TW10509]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|284921317|emb|CBG34385.1| putative transcriptional regulator [Escherichia coli 042]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|270157680|ref|ZP_06186337.1| putative phage repressor [Legionella longbeachae D-4968]
 gi|269989705|gb|EEZ95959.1| putative phage repressor [Legionella longbeachae D-4968]
          Length = 228

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 34/76 (44%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R   G++++ L E    +   ++  YE+G    G + ++ ++E LE   +F 
Sbjct: 9  IGNRIKNERTAKGLTRKALAELTESLKVSRINNYERGERTPGPNEIKQLAEALEVSPAFL 68

Query: 74 FDVSPTVCSDISSEEN 89
            +S      +     
Sbjct: 69 MCLSDDRQGKLKQAPG 84


>gi|269838045|ref|YP_003320273.1| transcriptional regulator, XRE family [Sphaerobacter thermophilus
          DSM 20745]
 gi|269787308|gb|ACZ39451.1| transcriptional regulator, XRE family [Sphaerobacter thermophilus
          DSM 20745]
          Length = 131

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 33/90 (36%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
             +   + V   +G  IR  R   G+S   L E  GI+   + + EKG +    + L  
Sbjct: 6  SERRPTSSEVRQRIGPAIRRLRQQQGLSLSDLAERTGISVSYLSRLEKGRSVPSFTLLSR 65

Query: 62 ISEVLESPISFFFDVSPTVCSDISSEENNV 91
          +   L   I FF +          + E  +
Sbjct: 66 LGNELGVDIGFFVETEREAQDVDRALEEEL 95


>gi|227551856|ref|ZP_03981905.1| transcriptional regulator [Enterococcus faecium TX1330]
 gi|257895552|ref|ZP_05675205.1| repressor protein [Enterococcus faecium Com12]
 gi|293568950|ref|ZP_06680263.1| prophage Lp1 protein 8 [Enterococcus faecium E1071]
 gi|294619352|ref|ZP_06698816.1| prophage Lp1 protein 8 [Enterococcus faecium E1679]
 gi|227179028|gb|EEI60000.1| transcriptional regulator [Enterococcus faecium TX1330]
 gi|257832117|gb|EEV58538.1| repressor protein [Enterococcus faecium Com12]
 gi|291588383|gb|EFF20218.1| prophage Lp1 protein 8 [Enterococcus faecium E1071]
 gi|291594401|gb|EFF25814.1| prophage Lp1 protein 8 [Enterococcus faecium E1679]
          Length = 123

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 10/56 (17%), Positives = 24/56 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          RI+  R   G +Q +L + + ++ Q +  +E G     +  L  ++ +      + 
Sbjct: 5  RIKELRKQHGWTQAELAKKMSVSQQTIGSWEVGRAEPNSEALTKLAHLFNVSTDYL 60


>gi|220930159|ref|YP_002507068.1| XRE family transcriptional regulator [Clostridium cellulolyticum
          H10]
 gi|220000487|gb|ACL77088.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
          H10]
          Length = 133

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 26/56 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +RI+  R + G SQ+++ E LG + + + KYE G        +   S+       +
Sbjct: 6  ERIKSLRNVKGQSQKEVAEALGKSREAISKYELGEREPDPDVIVQFSQHFNVSSDY 61


>gi|219853774|ref|YP_002470896.1| hypothetical protein CKR_0431 [Clostridium kluyveri NBRC 12016]
 gi|219567498|dbj|BAH05482.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 69

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 21/59 (35%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I+  R      QE L   LG+T Q +   E             ++ +L + +   F+  
Sbjct: 9  IKKLRKEKNYRQEDLANALGVTRQTINAIENNKYDPTLLLAFKLANILGTTVDKLFEPD 67


>gi|218553960|ref|YP_002386873.1| putative DNA-binding transcriptional regulator [Escherichia coli
          IAI1]
 gi|256018347|ref|ZP_05432212.1| putative DNA-binding transcriptional regulator [Shigella sp. D9]
 gi|300901847|ref|ZP_07119882.1| helix-turn-helix protein [Escherichia coli MS 84-1]
 gi|301306843|ref|ZP_07212892.1| helix-turn-helix protein [Escherichia coli MS 124-1]
 gi|332279399|ref|ZP_08391812.1| conserved hypothetical protein [Shigella sp. D9]
 gi|218360728|emb|CAQ98289.1| putative DNA-binding transcriptional regulator [Escherichia coli
          IAI1]
 gi|300406059|gb|EFJ89597.1| helix-turn-helix protein [Escherichia coli MS 84-1]
 gi|300837928|gb|EFK65688.1| helix-turn-helix protein [Escherichia coli MS 124-1]
 gi|315253499|gb|EFU33467.1| helix-turn-helix protein [Escherichia coli MS 85-1]
 gi|332101751|gb|EGJ05097.1| conserved hypothetical protein [Shigella sp. D9]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|210614614|ref|ZP_03290233.1| hypothetical protein CLONEX_02447 [Clostridium nexile DSM 1787]
 gi|210150661|gb|EEA81670.1| hypothetical protein CLONEX_02447 [Clostridium nexile DSM 1787]
 gi|295108107|emb|CBL22060.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 74

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 28/64 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I + R    MSQ++L + +G++ Q + + E+            I++V +  I   FD 
Sbjct: 10 SKIHIYRATKRMSQQELADLVGVSRQTIIQLERNRYNPSMLLAYSIAKVFDVAIEDLFDF 69

Query: 77 SPTV 80
              
Sbjct: 70 EEAQ 73


>gi|209918706|ref|YP_002292790.1| hypothetical protein ECSE_1515 [Escherichia coli SE11]
 gi|209911965|dbj|BAG77039.1| conserved hypothetical protein [Escherichia coli SE11]
 gi|324021052|gb|EGB90271.1| helix-turn-helix protein [Escherichia coli MS 117-3]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|170680755|ref|YP_001743794.1| DNA-binding protein [Escherichia coli SMS-3-5]
 gi|170518473|gb|ACB16651.1| DNA-binding protein [Escherichia coli SMS-3-5]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|160944191|ref|ZP_02091420.1| hypothetical protein FAEPRAM212_01700 [Faecalibacterium prausnitzii
           M21/2]
 gi|158444373|gb|EDP21377.1| hypothetical protein FAEPRAM212_01700 [Faecalibacterium prausnitzii
           M21/2]
          Length = 219

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 30/65 (46%), Gaps = 3/65 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE---KGVNRVGASRLQHISEVLESPISFFF 74
            ++  R + G+SQ +L     ++ + +Q+YE   K +N+  A  L  ++  L   +    
Sbjct: 151 NLKAMRTLAGLSQSELAGQADVSVRTIQQYEQRQKNINKAQAETLLRLARALNCNVEDLM 210

Query: 75  DVSPT 79
           +  P 
Sbjct: 211 EKVPP 215


>gi|15804867|ref|NP_290908.1| hypothetical protein Z5888 [Escherichia coli O157:H7 EDL933]
 gi|15834506|ref|NP_313279.1| transcription regulator [Escherichia coli O157:H7 str. Sakai]
 gi|187775901|ref|ZP_02799013.2| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4196]
 gi|188024876|ref|ZP_02774577.2| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4113]
 gi|189010535|ref|ZP_02807807.2| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4076]
 gi|189402054|ref|ZP_02779862.2| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4401]
 gi|189402821|ref|ZP_02791571.2| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4486]
 gi|189403845|ref|ZP_02785537.2| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4501]
 gi|189405572|ref|ZP_02822862.2| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC508]
 gi|208808264|ref|ZP_03250601.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4206]
 gi|208813993|ref|ZP_03255322.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4045]
 gi|208819818|ref|ZP_03260138.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4042]
 gi|209396646|ref|YP_002273817.1| putative transcription regulator [Escherichia coli O157:H7 str.
          EC4115]
 gi|217326404|ref|ZP_03442488.1| putative transcription regulator [Escherichia coli O157:H7 str.
          TW14588]
 gi|254796292|ref|YP_003081129.1| hypothetical protein ECSP_5374 [Escherichia coli O157:H7 str.
          TW14359]
 gi|12519290|gb|AAG59474.1|AE005659_9 hypothetical protein Z5888 [Escherichia coli O157:H7 str. EDL933]
 gi|13364730|dbj|BAB38675.1| putative transcription regulator [Escherichia coli O157:H7 str.
          Sakai]
 gi|187770260|gb|EDU34104.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4196]
 gi|188016183|gb|EDU54305.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4113]
 gi|188999764|gb|EDU68750.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4076]
 gi|189357829|gb|EDU76248.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4401]
 gi|189364128|gb|EDU82547.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4486]
 gi|189368948|gb|EDU87364.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4501]
 gi|189379428|gb|EDU97844.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC508]
 gi|208728065|gb|EDZ77666.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4206]
 gi|208735270|gb|EDZ83957.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4045]
 gi|208739941|gb|EDZ87623.1| helix-turn-helix domain protein [Escherichia coli O157:H7 str.
          EC4042]
 gi|209158046|gb|ACI35479.1| putative transcription regulator [Escherichia coli O157:H7 str.
          EC4115]
 gi|217322625|gb|EEC31049.1| putative transcription regulator [Escherichia coli O157:H7 str.
          TW14588]
 gi|254595692|gb|ACT75053.1| predicted protein [Escherichia coli O157:H7 str. TW14359]
 gi|320190592|gb|EFW65242.1| putative transcription regulator [Escherichia coli O157:H7 str.
          EC1212]
 gi|326345394|gb|EGD69137.1| putative transcription regulator [Escherichia coli O157:H7 str.
          1125]
 gi|326346751|gb|EGD70485.1| putative transcription regulator [Escherichia coli O157:H7 str.
          1044]
          Length = 154

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 25/53 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++  L  
Sbjct: 10 GQRVKELRIATGMSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLANALSV 62


>gi|194431949|ref|ZP_03064239.1| DNA-binding protein [Shigella dysenteriae 1012]
 gi|331682878|ref|ZP_08383497.1| putative oxidoreductase/putative repressor [Escherichia coli
          H299]
 gi|194419857|gb|EDX35936.1| DNA-binding protein [Shigella dysenteriae 1012]
 gi|320182531|gb|EFW57422.1| Transcriptional regulator yidN, Cro/CI family [Shigella boydii
          ATCC 9905]
 gi|331080509|gb|EGI51688.1| putative oxidoreductase/putative repressor [Escherichia coli
          H299]
 gi|332094663|gb|EGI99708.1| helix-turn-helix family protein [Shigella dysenteriae 155-74]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|188494052|ref|ZP_03001322.1| helix-turn-helix DNA-binding/cupin domain protein [Escherichia
          coli 53638]
 gi|331652693|ref|ZP_08353704.1| putative oxidoreductase/putative repressor [Escherichia coli
          M718]
 gi|331662905|ref|ZP_08363815.1| putative oxidoreductase/putative repressor [Escherichia coli
          TA143]
 gi|188489251|gb|EDU64354.1| helix-turn-helix DNA-binding/cupin domain protein [Escherichia
          coli 53638]
 gi|331049799|gb|EGI21865.1| putative oxidoreductase/putative repressor [Escherichia coli
          M718]
 gi|331058704|gb|EGI30681.1| putative oxidoreductase/putative repressor [Escherichia coli
          TA143]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|16129393|ref|NP_415951.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          str. K-12 substr. MG1655]
 gi|89108277|ref|AP_002057.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          str. K-12 substr. W3110]
 gi|157157044|ref|YP_001462706.1| DNA-binding protein [Escherichia coli E24377A]
 gi|157160911|ref|YP_001458229.1| DNA-binding protein [Escherichia coli HS]
 gi|170020236|ref|YP_001725190.1| XRE family transcriptional regulator [Escherichia coli ATCC 8739]
 gi|170081108|ref|YP_001730428.1| DNA-binding transcriptional regulator [Escherichia coli str. K-12
          substr. DH10B]
 gi|191164983|ref|ZP_03026827.1| DNA-binding protein [Escherichia coli B7A]
 gi|193066983|ref|ZP_03047952.1| DNA-binding protein [Escherichia coli E110019]
 gi|194436585|ref|ZP_03068686.1| DNA-binding protein [Escherichia coli 101-1]
 gi|238900660|ref|YP_002926456.1| putative DNA-binding transcriptional regulator [Escherichia coli
          BW2952]
 gi|253773591|ref|YP_003036422.1| XRE family transcriptional regulator [Escherichia coli
          'BL21-Gold(DE3)pLysS AG']
 gi|254161493|ref|YP_003044601.1| putative DNA-binding transcriptional regulator [Escherichia coli
          B str. REL606]
 gi|256022888|ref|ZP_05436753.1| predicted DNA-binding transcriptional regulator [Escherichia sp.
          4_1_40B]
 gi|260855159|ref|YP_003229050.1| putative DNA-binding transcriptional regulator [Escherichia coli
          O26:H11 str. 11368]
 gi|260867878|ref|YP_003234280.1| putative DNA-binding transcriptional regulator [Escherichia coli
          O111:H- str. 11128]
 gi|293433816|ref|ZP_06662244.1| HTH-type transcriptional regulator ydcN [Escherichia coli B088]
 gi|297521909|ref|ZP_06940295.1| putative DNA-binding transcriptional regulator [Escherichia coli
          OP50]
 gi|300921799|ref|ZP_07137960.1| helix-turn-helix protein [Escherichia coli MS 182-1]
 gi|300928985|ref|ZP_07144486.1| helix-turn-helix protein [Escherichia coli MS 187-1]
 gi|300948113|ref|ZP_07162247.1| helix-turn-helix protein [Escherichia coli MS 116-1]
 gi|300958230|ref|ZP_07170381.1| helix-turn-helix protein [Escherichia coli MS 175-1]
 gi|301020147|ref|ZP_07184274.1| helix-turn-helix protein [Escherichia coli MS 196-1]
 gi|301326006|ref|ZP_07219420.1| helix-turn-helix protein [Escherichia coli MS 78-1]
 gi|301645375|ref|ZP_07245319.1| helix-turn-helix protein [Escherichia coli MS 146-1]
 gi|307138086|ref|ZP_07497442.1| putative DNA-binding transcriptional regulator [Escherichia coli
          H736]
 gi|307309783|ref|ZP_07589433.1| transcriptional regulator, XRE family [Escherichia coli W]
 gi|309794168|ref|ZP_07688592.1| helix-turn-helix protein [Escherichia coli MS 145-7]
 gi|312971601|ref|ZP_07785776.1| helix-turn-helix family protein [Escherichia coli 1827-70]
 gi|331642010|ref|ZP_08343145.1| putative oxidoreductase/putative repressor [Escherichia coli
          H736]
 gi|2829660|sp|P77626|YDCN_ECOLI RecName: Full=Uncharacterized HTH-type transcriptional regulator
          ydcN
 gi|1742340|dbj|BAA15062.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          str. K12 substr. W3110]
 gi|1787704|gb|AAC74516.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          str. K-12 substr. MG1655]
 gi|157066591|gb|ABV05846.1| DNA-binding protein [Escherichia coli HS]
 gi|157079074|gb|ABV18782.1| DNA-binding protein [Escherichia coli E24377A]
 gi|169755164|gb|ACA77863.1| transcriptional regulator, XRE family [Escherichia coli ATCC
          8739]
 gi|169888943|gb|ACB02650.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          str. K-12 substr. DH10B]
 gi|190904755|gb|EDV64460.1| DNA-binding protein [Escherichia coli B7A]
 gi|192959573|gb|EDV90007.1| DNA-binding protein [Escherichia coli E110019]
 gi|194424617|gb|EDX40603.1| DNA-binding protein [Escherichia coli 101-1]
 gi|238862307|gb|ACR64305.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          BW2952]
 gi|242377187|emb|CAQ31919.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          BL21(DE3)]
 gi|253324635|gb|ACT29237.1| transcriptional regulator, XRE family [Escherichia coli
          'BL21-Gold(DE3)pLysS AG']
 gi|253973394|gb|ACT39065.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          B str. REL606]
 gi|253977605|gb|ACT43275.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          BL21(DE3)]
 gi|257753808|dbj|BAI25310.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          O26:H11 str. 11368]
 gi|257764234|dbj|BAI35729.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          O111:H- str. 11128]
 gi|260449440|gb|ACX39862.1| transcriptional regulator, XRE family [Escherichia coli DH1]
 gi|291324635|gb|EFE64057.1| HTH-type transcriptional regulator ydcN [Escherichia coli B088]
 gi|299881904|gb|EFI90115.1| helix-turn-helix protein [Escherichia coli MS 196-1]
 gi|300315108|gb|EFJ64892.1| helix-turn-helix protein [Escherichia coli MS 175-1]
 gi|300421824|gb|EFK05135.1| helix-turn-helix protein [Escherichia coli MS 182-1]
 gi|300452356|gb|EFK15976.1| helix-turn-helix protein [Escherichia coli MS 116-1]
 gi|300463050|gb|EFK26543.1| helix-turn-helix protein [Escherichia coli MS 187-1]
 gi|300847223|gb|EFK74983.1| helix-turn-helix protein [Escherichia coli MS 78-1]
 gi|301076329|gb|EFK91135.1| helix-turn-helix protein [Escherichia coli MS 146-1]
 gi|306909501|gb|EFN39995.1| transcriptional regulator, XRE family [Escherichia coli W]
 gi|308122073|gb|EFO59335.1| helix-turn-helix protein [Escherichia coli MS 145-7]
 gi|310336198|gb|EFQ01398.1| helix-turn-helix family protein [Escherichia coli 1827-70]
 gi|315060712|gb|ADT75039.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          W]
 gi|315136074|dbj|BAJ43233.1| putative DNA-binding transcriptional regulator [Escherichia coli
          DH1]
 gi|315619613|gb|EFV00138.1| helix-turn-helix family protein [Escherichia coli 3431]
 gi|320187371|gb|EFW62064.1| Transcriptional regulator yidN, Cro/CI family [Shigella flexneri
          CDC 796-83]
 gi|320199440|gb|EFW74031.1| Transcriptional regulator yidN, Cro/CI family [Escherichia coli
          EC4100B]
 gi|323157392|gb|EFZ43506.1| helix-turn-helix family protein [Escherichia coli EPECa14]
 gi|323178085|gb|EFZ63664.1| helix-turn-helix family protein [Escherichia coli 1180]
 gi|323185431|gb|EFZ70792.1| helix-turn-helix family protein [Escherichia coli 1357]
 gi|323378722|gb|ADX50990.1| transcriptional regulator, XRE family [Escherichia coli KO11]
 gi|323942192|gb|EGB38365.1| helix-turn-helix protein [Escherichia coli E482]
 gi|323947787|gb|EGB43789.1| helix-turn-helix protein [Escherichia coli H120]
 gi|323962367|gb|EGB57953.1| helix-turn-helix protein [Escherichia coli H489]
 gi|323973651|gb|EGB68830.1| helix-turn-helix protein [Escherichia coli TA007]
 gi|324117665|gb|EGC11569.1| helix-turn-helix protein [Escherichia coli E1167]
 gi|331038808|gb|EGI11028.1| putative oxidoreductase/putative repressor [Escherichia coli
          H736]
 gi|332343099|gb|AEE56433.1| helix-turn-helix family protein YdcN [Escherichia coli UMNK88]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|317488770|ref|ZP_07947304.1| hypothetical protein HMPREF1023_01002 [Eggerthella sp. 1_3_56FAA]
 gi|316912140|gb|EFV33715.1| hypothetical protein HMPREF1023_01002 [Eggerthella sp. 1_3_56FAA]
          Length = 124

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 34/92 (36%), Gaps = 7/92 (7%)

Query: 5  KKIPNPVDINV-------GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
          K  P   D  V       G+ +R  R   G++QE+LG  +G    ++   E+G       
Sbjct: 7  KNTPAYHDPLVQQYAFILGENLRQLRKAQGLTQERLGLMIGTGHSRISNIERGRVVPSVP 66

Query: 58 RLQHISEVLESPISFFFDVSPTVCSDISSEEN 89
           +  +   LE+      D +    SD    + 
Sbjct: 67 DMIKLCRALEADPVELVDTAAFKLSDFPERQQ 98


>gi|307324538|ref|ZP_07603745.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
 gi|306889782|gb|EFN20761.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
          Length = 410

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 33/58 (56%), Gaps = 1/58 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLES 68
          D++VGKR+   R I  ++QE+L +  G++   +++ E+G  R    +  Q ++  L+ 
Sbjct: 3  DLSVGKRLARLRDIRDLTQEQLADRAGVSVDTIRRLEQGTQRGARIATYQKLAGALDI 60


>gi|291556294|emb|CBL33411.1| Predicted transcriptional regulators [Eubacterium siraeum
          V10Sc8a]
          Length = 380

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+ ++  R+   ++QE+L + L ++ Q V ++E G      + L  I+   E  + 
Sbjct: 16 LGENLKKFRLQRELTQEQLADVLSVSAQAVSRWENGTTYPDITLLPTIASYFEITLD 72


>gi|268610992|ref|ZP_06144719.1| putative transcriptional regulator [Ruminococcus flavefaciens
          FD-1]
          Length = 120

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 39/75 (52%), Gaps = 1/75 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
          +  G++++  R+   MSQE+L +  G+  + + +YE G      +++   +SE  ++ I 
Sbjct: 1  MEFGEKLKQIRIASHMSQEQLADITGLERKTIARYEMGETVPRYNKVYEKLSEFFKTSID 60

Query: 72 FFFDVSPTVCSDISS 86
          F+ + +P      ++
Sbjct: 61 FWKNDNPDDFQQTAA 75


>gi|291087267|ref|ZP_06345889.2| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
 gi|291075621|gb|EFE12985.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
          Length = 159

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 33/69 (47%), Gaps = 1/69 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPISFFFD 75
          +R++ +R    ++Q +L E  G+T + +Q YE G  +      +Q I++ L +   +   
Sbjct: 26 ERLKEKRTEANLTQVELAEKAGVTARTIQNYELGSRKPSNMVTIQKIADALNTTTEYLLG 85

Query: 76 VSPTVCSDI 84
           S T   + 
Sbjct: 86 SSGTYVVEA 94


>gi|225378523|ref|ZP_03755744.1| hypothetical protein ROSEINA2194_04191 [Roseburia inulinivorans
          DSM 16841]
 gi|257438006|ref|ZP_05613761.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
 gi|225209626|gb|EEG91980.1| hypothetical protein ROSEINA2194_04191 [Roseburia inulinivorans
          DSM 16841]
 gi|257199666|gb|EEU97950.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
          Length = 159

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 33/69 (47%), Gaps = 1/69 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPISFFFD 75
          +R++ +R    ++Q +L E  G+T + +Q YE G  +      +Q I++ L +   +   
Sbjct: 26 ERLKEKRTEANLTQVELAEKAGVTARTIQNYELGSRKPSNMVTIQKIADALNTTTEYLLG 85

Query: 76 VSPTVCSDI 84
           S T   + 
Sbjct: 86 SSGTYVVEA 94


>gi|219852278|ref|YP_002466710.1| XRE family transcriptional regulator [Methanosphaerula palustris
          E1-9c]
 gi|219546537|gb|ACL16987.1| transcriptional regulator, XRE family [Methanosphaerula palustris
          E1-9c]
          Length = 72

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/70 (20%), Positives = 27/70 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I++ R +  ++QE LG  +G+  Q +   EKG           I+      I   F  
Sbjct: 3  NKIKVFRAMNDLTQENLGVAIGVNRQTILAIEKGKYVPSLDLAFKIARYFGVNIEDMFIY 62

Query: 77 SPTVCSDISS 86
                +++ 
Sbjct: 63 EEENSINLAH 72


>gi|167747596|ref|ZP_02419723.1| hypothetical protein ANACAC_02317 [Anaerostipes caccae DSM 14662]
 gi|239625078|ref|ZP_04668109.1| predicted protein [Clostridiales bacterium 1_7_47_FAA]
 gi|167652958|gb|EDR97087.1| hypothetical protein ANACAC_02317 [Anaerostipes caccae DSM 14662]
 gi|239521464|gb|EEQ61330.1| predicted protein [Clostridiales bacterium 1_7_47FAA]
          Length = 113

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 1/66 (1%)

Query: 10 PVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           VD    G ++R +R    +S ++L E   +    +++ E G      S L  I +VL +
Sbjct: 5  DVDPKEFGAKLRGKRKECKLSYQELAERCHVNHGYIRQLEAGNKLPSVSLLFIICDVLGT 64

Query: 69 PISFFF 74
            ++ F
Sbjct: 65 SPNYLF 70


>gi|167036306|ref|YP_001671537.1| XRE family transcriptional regulator [Pseudomonas putida GB-1]
 gi|166862794|gb|ABZ01202.1| transcriptional regulator, XRE family [Pseudomonas putida GB-1]
          Length = 182

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/96 (22%), Positives = 45/96 (46%), Gaps = 6/96 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+ +      P+S 
Sbjct: 1   MDVGERLQAIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLRKVLS--GIPMSM 58

Query: 73  --FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
             FF  ++ P   + I  + + ++D       ++L 
Sbjct: 59  VEFFSVELEPESPTQIVYKAHELIDISDGAVTMKLV 94


>gi|88855827|ref|ZP_01130490.1| putative transcriptional regulator [marine actinobacterium
           PHSC20C1]
 gi|88815151|gb|EAR25010.1| putative transcriptional regulator [marine actinobacterium
           PHSC20C1]
          Length = 201

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/104 (17%), Positives = 39/104 (37%), Gaps = 13/104 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G R++  R    ++ ++L E  G++ + V   E+G        L  +SE L   +  
Sbjct: 10  RTIGARVKNERQARKLTLDQLAENAGVSRRMVINVEQGAANPSVGTLLRLSEALGVSLPA 69

Query: 73  FFDVSPTVCSDIS----------SEENNVMDFIST---PDGLQL 103
             +      + ++           E       +S+   P+ L+L
Sbjct: 70  LVEPPTAQKAKVTRAGAGAALWAGENGGRGILMSSSNIPEALEL 113


>gi|150389852|ref|YP_001319901.1| XRE family transcriptional regulator [Alkaliphilus
          metalliredigens QYMF]
 gi|149949714|gb|ABR48242.1| transcriptional regulator, XRE family [Alkaliphilus
          metalliredigens QYMF]
          Length = 64

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+++ R+    +QE L   +G+T Q +   E G           I++ L   ++  F
Sbjct: 4  SRMKVARVEKDFTQEDLANIVGVTRQTISLIEGGKYNPSIKLCIEIAKALNKTLNDLF 61


>gi|302527873|ref|ZP_07280215.1| DNA-binding protein [Streptomyces sp. AA4]
 gi|302436768|gb|EFL08584.1| DNA-binding protein [Streptomyces sp. AA4]
          Length = 226

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 32/80 (40%), Gaps = 6/80 (7%)

Query: 1   MVGNKKIPN-----PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG 55
           ++   ++PN     P+DI +   +R  R   G+S  ++    G+    + + E G     
Sbjct: 34  LMERTQMPNESTGAPLDI-IAASLRRERARAGLSLTEVARRAGLAKSTLSQLESGAGNPS 92

Query: 56  ASRLQHISEVLESPISFFFD 75
              L  +   L+ P S   +
Sbjct: 93  VETLWALGVALDVPFSRLVE 112


>gi|295107365|emb|CBL04908.1| Predicted transcriptional regulators [Gordonibacter pamelaeae
          7-10-1-b]
          Length = 289

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 30/74 (40%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           ++  R +  MSQ  L + +G++ Q V K+E   +     +L  I ++    +       
Sbjct: 22 NLQHLRDLQDMSQADLAQRIGVSRQSVAKWEAEKSYPEMDKLIKICDLFGCSLDDLVRGD 81

Query: 78 PTVCSDISSEENNV 91
                 S+E ++ 
Sbjct: 82 LAGREAASAEPSSA 95


>gi|257877340|ref|ZP_05656993.1| predicted protein [Enterococcus casseliflavus EC20]
 gi|257811506|gb|EEV40326.1| predicted protein [Enterococcus casseliflavus EC20]
          Length = 263

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 34/72 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK I+  R    ++QE+L +   +T Q + K+E G +     ++  +S   E  + +
Sbjct: 1  MDIGKIIKEERTKRNLTQEQLAQEFFVTRQLISKWENGKSYPDLDQVVKLSSYFELTLDY 60

Query: 73 FFDVSPTVCSDI 84
                 +  ++
Sbjct: 61 LLKEDQQMVQEL 72


>gi|255524793|ref|ZP_05391744.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296185021|ref|ZP_06853432.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
 gi|255511566|gb|EET87855.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296050803|gb|EFG90226.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
          Length = 158

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 32/65 (49%), Gaps = 4/65 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQ----VQKYEKGVNRVGASRLQHISEVLESPI 70
          +G++I+  R++ G SQ +L   LG++ +Q    ++ YE             ++++     
Sbjct: 33 IGEKIKYHRLLNGWSQFQLASKLGLSKKQGRYLIKDYETRRLCPPPELSLKLAKIFRIDT 92

Query: 71 SFFFD 75
           +F+D
Sbjct: 93 KYFYD 97


>gi|227509901|ref|ZP_03939950.1| transcriptional regulator [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
 gi|227512835|ref|ZP_03942884.1| transcriptional regulator [Lactobacillus buchneri ATCC 11577]
 gi|227083835|gb|EEI19147.1| transcriptional regulator [Lactobacillus buchneri ATCC 11577]
 gi|227190621|gb|EEI70688.1| transcriptional regulator [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
          Length = 78

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R    +SQ  L E +G+  Q +   E        +    I++VL + ++  F
Sbjct: 13 NRVREYRKKQKLSQFSLAEKVGVARQTINLIENDKYNPSLNLCISIAKVLGTDLNTLF 70


>gi|145594859|ref|YP_001159156.1| helix-turn-helix domain-containing protein [Salinispora tropica
           CNB-440]
 gi|145304196|gb|ABP54778.1| helix-turn-helix domain protein [Salinispora tropica CNB-440]
          Length = 203

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 2/87 (2%)

Query: 4   NKKIPN-PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           N K+ +  +   VG  +   R   GMS   L     I+   +   E+G      S L  +
Sbjct: 17  NTKVVHMDLARTVGSNVHRLRNTAGMSLADLATAGDISKTTLHGIEQGHGNPTLSTLWAL 76

Query: 63  SEVLESPISFFFDVSPTVCSDISSEEN 89
           +  L  P+    +  PT  +D+   ++
Sbjct: 77  ATALRVPLGELLET-PTPRTDVVRADD 102


>gi|83944721|ref|ZP_00957087.1| transcriptional regulator [Oceanicaulis alexandrii HTCC2633]
 gi|83851503|gb|EAP89358.1| transcriptional regulator [Oceanicaulis alexandrii HTCC2633]
          Length = 75

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 27/61 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  ++  R   G+SQ  L + +G+    +   E+G   V    L H++E L+   +   D
Sbjct: 8  GANLQYFREKAGLSQAALADRMGVDRAHISAMERGQQNVTIITLWHVAEALDVKPAELLD 67

Query: 76 V 76
           
Sbjct: 68 D 68


>gi|312864220|ref|ZP_07724454.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
          F0396]
 gi|311100221|gb|EFQ58430.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
          F0396]
          Length = 187

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 3/87 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            VG RI+  R+ LG S E+ G     +   V  +EKG N      L+ I+ +  +P+S 
Sbjct: 7  KQVGARIKDIRLSLGESMEQFGARFNTSKGTVNNWEKGRNIPNRKNLKEIALISGTPVSV 66

Query: 73 FFDVSPTVCSDISSEENNVMDFISTPD 99
              S    + +     +++D +S PD
Sbjct: 67 LLKGS---TAHMPFRFPDLVDILSNPD 90


>gi|312867547|ref|ZP_07727755.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
 gi|311096953|gb|EFQ55189.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
          Length = 73

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 3/57 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++ RR  L +SQ +L E  GI  Q Q+ + E G    GA  L  +++ L+  + +F
Sbjct: 8  RLKNRRKELKLSQRELAE--GICKQGQISRLESGEFTPGADFLHALAKKLKVSMDYF 62


>gi|300825194|ref|ZP_07105283.1| helix-turn-helix protein [Escherichia coli MS 119-7]
 gi|300522313|gb|EFK43382.1| helix-turn-helix protein [Escherichia coli MS 119-7]
          Length = 367

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/59 (38%), Positives = 32/59 (54%), Gaps = 1/59 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G +++L RM +G+S E+L E +G T Q V K EKG  R     L+ I+  L     F F
Sbjct: 13 GDKLKLARMAVGLSCEELAEKIGKTKQFVSKLEKGF-RPSEQCLELIASALMIKSDFLF 70


>gi|299144948|ref|ZP_07038016.1| putative prophage L54a, repressor protein [Bacteroides sp.
          3_1_23]
 gi|298515439|gb|EFI39320.1| putative prophage L54a, repressor protein [Bacteroides sp.
          3_1_23]
          Length = 131

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 35/69 (50%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   +   VG R+++ RM   ++QE++GE L ++     K E G   +  +RL  I+EVL
Sbjct: 1  METDLKKIVGHRLQMLRMEKNLTQEQMGEKLNLSTSAYCKIEYGETDLTLTRLNKIAEVL 60

Query: 67 ESPISFFFD 75
                 F+
Sbjct: 61 NMSALELFN 69


>gi|295103062|emb|CBL00606.1| Helix-turn-helix. [Faecalibacterium prausnitzii SL3/3]
          Length = 219

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 30/65 (46%), Gaps = 3/65 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE---KGVNRVGASRLQHISEVLESPISFFF 74
            ++  R + G+SQ +L     ++ + +Q+YE   K +N+  A  L  ++  L   +    
Sbjct: 151 NLKAMRTLAGLSQSELAGQADVSVRTIQQYEQRQKDINKAQAETLLRLARALNCNVEDLM 210

Query: 75  DVSPT 79
           +  P 
Sbjct: 211 EKVPP 215


>gi|257790696|ref|YP_003181302.1| transcriptional regulator, XRE family [Eggerthella lenta DSM 2243]
 gi|257474593|gb|ACV54913.1| transcriptional regulator, XRE family [Eggerthella lenta DSM 2243]
          Length = 141

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 41/98 (41%), Gaps = 19/98 (19%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ IR  R + G++Q +L E   +T   ++ YE G    G  +++ I+  L         
Sbjct: 4   GELIRKYRKMRGLTQSELAEKCSLTDSAIRNYELGNRTPGEDQVKGIASALHV------- 56

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
            +P   SD+           +  + L+L     +ID+ 
Sbjct: 57  -APESLSDVPVA--------TAREALELI---FRIDEE 82


>gi|239630752|ref|ZP_04673783.1| predicted protein [Lactobacillus paracasei subsp. paracasei 8700:2]
 gi|239527035|gb|EEQ66036.1| predicted protein [Lactobacillus paracasei subsp. paracasei 8700:2]
          Length = 190

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/137 (18%), Positives = 52/137 (37%), Gaps = 11/137 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RI+  R   G +  +L +  G+    +  YE+G     A  L+ ++++ E+  ++   +
Sbjct: 6   NRIKAFRYEKGWTLSQLAKKAGMPITTLSNYERGTRTPSAEVLKKLADIFETNTAYLMGL 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ-LNRYFIQI----------DDVKVRQKIIELVRS 125
           +      +++     ++F       Q L    + I          D   +   I+    S
Sbjct: 66  TDAPAETLTNSNLKNIEFEVRSGAFQRLANIVLSIGSEYGGNIDEDSENIVSHILRFYIS 125

Query: 126 IVSSEKKYRTIEEECMV 142
              SE  +  IEE  +V
Sbjct: 126 SSRSEHLHENIEELQIV 142


>gi|229095345|ref|ZP_04226337.1| Transcriptional regulator [Bacillus cereus Rock3-29]
 gi|229101455|ref|ZP_04232196.1| Transcriptional regulator [Bacillus cereus Rock3-28]
 gi|229114294|ref|ZP_04243715.1| Transcriptional regulator [Bacillus cereus Rock1-3]
 gi|228669314|gb|EEL24735.1| Transcriptional regulator [Bacillus cereus Rock1-3]
 gi|228681943|gb|EEL36079.1| Transcriptional regulator [Bacillus cereus Rock3-28]
 gi|228688204|gb|EEL42090.1| Transcriptional regulator [Bacillus cereus Rock3-29]
          Length = 66

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+ L ++Q+KL E +G+T Q +   EKG           I   ++  ++  F
Sbjct: 4  SKIKVARVQLDLTQQKLAEKVGVTRQTISLIEKGKYNPSLDLCLKICYAVDKTLNDLF 61


>gi|256825390|ref|YP_003149350.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Kytococcus
          sedentarius DSM 20547]
 gi|256688783|gb|ACV06585.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Kytococcus
          sedentarius DSM 20547]
          Length = 507

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G  IR  R+  GM+Q ++ + L  +   V + E+G   +    +  +SE L+  I
Sbjct: 9  IGNLIRDARLHRGMTQTQVADILNTSQSAVARMEQGKQNLSLETVAKVSEALDHDI 64


>gi|226952353|ref|ZP_03822817.1| possible transcriptional regulator [Acinetobacter sp. ATCC 27244]
 gi|226836905|gb|EEH69288.1| possible transcriptional regulator [Acinetobacter sp. ATCC 27244]
          Length = 72

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 32/60 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I +G+ IR +R+ L ++QE L    GI    V + E+G   +   +L  I+E+L+   
Sbjct: 4  LSIAIGQLIRNKRLELKITQESLALQCGIDRSYVGRIERGEVNITVEKLYEIAEILKINP 63


>gi|253702047|ref|YP_003023236.1| XRE family transcriptional regulator [Geobacter sp. M21]
 gi|251776897|gb|ACT19478.1| transcriptional regulator, XRE family [Geobacter sp. M21]
          Length = 199

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 32/65 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+++R  R    ++ + L +  G++   + + E        + L  I++ L+  I +
Sbjct: 12 MKLGEKVRGLRQEQRLTLQALADMTGLSKPLLSQIENDQVTPPIATLLKIAKGLKVGIHY 71

Query: 73 FFDVS 77
          FF+ +
Sbjct: 72 FFEEA 76


>gi|197118272|ref|YP_002138699.1| transcriptional regulator with cupin-like beta-barrel domain
           [Geobacter bemidjiensis Bem]
 gi|197087632|gb|ACH38903.1| transcriptional regulator with cupin-like beta-barrel domain,
           putative [Geobacter bemidjiensis Bem]
          Length = 188

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/89 (14%), Positives = 38/89 (42%), Gaps = 2/89 (2%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G RI+  R+   ++ + +    G +   + + E        + L  I++  +  ++ F
Sbjct: 6   NIGPRIKKLRLARKLTLQAVANETGFSPALISQIENDNVSPPIATLSKIAKFFDVKLAQF 65

Query: 74  F--DVSPTVCSDISSEENNVMDFISTPDG 100
           F  D        + +++  ++  + + +G
Sbjct: 66  FSEDEDNRRFEVVRADQRTIVPRVISKEG 94


>gi|134102747|ref|YP_001108408.1| XRE family transcriptional regulator [Saccharopolyspora erythraea
           NRRL 2338]
 gi|133915370|emb|CAM05483.1| transcriptional regulator, XRE family with cupin sensor
           [Saccharopolyspora erythraea NRRL 2338]
          Length = 187

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/112 (22%), Positives = 37/112 (33%), Gaps = 13/112 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G +   L +  GI    + + E G  R     L  I++  + P+    
Sbjct: 5   VGPRLRQIRRQRGCTLAALSKTTGIAVSTLSRLESGQRRPSLELLLPIAQAHQVPLDELV 64

Query: 75  DVSPTVCS-----DISSEENNVMDFISTPDGLQLNRYFIQI-----DDVKVR 116
              P          I   +  V+     P GLQ    F  I      +   R
Sbjct: 65  GAPPVGDPRVRLKPIRRGDMTVVPLTQQPGGLQ---AFKMIMGAGRSEPDPR 113


>gi|311748183|ref|ZP_07721968.1| hypothetical protein ALPR1_17828 [Algoriphagus sp. PR1]
 gi|126576672|gb|EAZ80920.1| hypothetical protein ALPR1_17828 [Algoriphagus sp. PR1]
          Length = 63

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 27/61 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R   GM+QE L E +G++ Q +   EK            +S++ E PI   F  
Sbjct: 3  NRVRDFRTAKGMTQEDLAEIIGVSRQTINAIEKEKFDPSLPTAFKMSKLFEKPIEDIFQF 62

Query: 77 S 77
           
Sbjct: 63 E 63


>gi|33152220|ref|NP_873573.1| hypothetical protein HD1096 [Haemophilus ducreyi 35000HP]
 gi|33148442|gb|AAP95962.1| hypothetical protein HD_1096 [Haemophilus ducreyi 35000HP]
          Length = 129

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 30/54 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++IR  R    +SQE++ + + ++    +K E G +R+   RL+ I+E LE   
Sbjct: 5  EKIRSLRKNHNLSQEEIADKINLSVSGYRKIENGKSRINHKRLEQIAEALEVSP 58


>gi|325688189|gb|EGD30208.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK72]
 gi|327469056|gb|EGF14528.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK330]
          Length = 225

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 35/63 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR+ L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRLELNLTQSSIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          + T
Sbjct: 65 TST 67


>gi|282883282|ref|ZP_06291880.1| transcriptional regulator [Peptoniphilus lacrimalis 315-B]
 gi|281296912|gb|EFA89410.1| transcriptional regulator [Peptoniphilus lacrimalis 315-B]
          Length = 67

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 27/63 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            I   R   G++Q+++   +G T Q + K E G++    ++   IS  LE  +   +  
Sbjct: 4  NNILEIRKKKGITQKQIANAVGTTPQFISKLELGISNPSLTKAFEISRFLECGVEELYSF 63

Query: 77 SPT 79
             
Sbjct: 64 EDD 66


>gi|257867254|ref|ZP_05646907.1| predicted protein [Enterococcus casseliflavus EC30]
 gi|257873587|ref|ZP_05653240.1| predicted protein [Enterococcus casseliflavus EC10]
 gi|257801310|gb|EEV30240.1| predicted protein [Enterococcus casseliflavus EC30]
 gi|257807751|gb|EEV36573.1| predicted protein [Enterococcus casseliflavus EC10]
          Length = 263

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 34/72 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK I+  R    ++QE+L +   +T Q + K+E G +     ++  +S   E  + +
Sbjct: 1  MDIGKIIKEERTKRNLTQEQLAQEFFVTRQLISKWENGKSYPDLDQVVKLSSYFELTLDY 60

Query: 73 FFDVSPTVCSDI 84
                 +  ++
Sbjct: 61 LLKEDQQMVQEL 72


>gi|225856822|ref|YP_002738333.1| helix-turn-helix domain protein [Streptococcus pneumoniae P1031]
 gi|225725104|gb|ACO20956.1| helix-turn-helix domain protein [Streptococcus pneumoniae P1031]
          Length = 158

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 23/55 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q      +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQHDFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|221066672|ref|ZP_03542777.1| transcriptional regulator, XRE family [Comamonas testosteroni
          KF-1]
 gi|220711695|gb|EED67063.1| transcriptional regulator, XRE family [Comamonas testosteroni
          KF-1]
          Length = 97

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 30/75 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+ +R RR   G SQE  G+  GI    +   E+G + +    +  I   L    S 
Sbjct: 16 VRFGEAVRARRKACGYSQEAFGDACGIDRSYIGGIERGEHNLALINILKIIATLNLQPSE 75

Query: 73 FFDVSPTVCSDISSE 87
          FF+          +E
Sbjct: 76 FFEALDGPTPAALAE 90


>gi|221231799|ref|YP_002510951.1| epsilon antitoxin [Streptococcus pneumoniae ATCC 700669]
 gi|220674259|emb|CAR68796.1| putative epsilon antitoxin [Streptococcus pneumoniae ATCC 700669]
          Length = 158

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQHEFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|166030732|ref|ZP_02233561.1| hypothetical protein DORFOR_00406 [Dorea formicigenerans ATCC
          27755]
 gi|166029524|gb|EDR48281.1| hypothetical protein DORFOR_00406 [Dorea formicigenerans ATCC
          27755]
          Length = 222

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 32/77 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  I   R   G++Q+ LGE L +T + V K+E G +    + L+ + + L   +S    
Sbjct: 8  GTFIAECRKEKGLTQKALGEKLNVTDRAVSKWETGRSFPDVAILEDLCQELGISVSELLA 67

Query: 76 VSPTVCSDISSEENNVM 92
                     E   ++
Sbjct: 68 GKKIEAEHYQEETEKIL 84


>gi|325277349|ref|ZP_08142974.1| XRE family transcriptional regulator [Pseudomonas sp. TJI-51]
 gi|324097539|gb|EGB95760.1| XRE family transcriptional regulator [Pseudomonas sp. TJI-51]
          Length = 184

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 32/63 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R   G++  +L + +G +   + + E+GV+R   + L  ISE L    ++F+ ++ 
Sbjct: 14 IRDLRKFKGLTLGELAQRIGRSVGFLSQVERGVSRPTVADLTAISEELGVSTAYFYKLAK 73

Query: 79 TVC 81
             
Sbjct: 74 PRE 76


>gi|313635327|gb|EFS01613.1| transcriptional regulator, putative [Listeria seeligeri FSL N1-067]
 gi|313640009|gb|EFS04664.1| transcriptional regulator, putative [Listeria seeligeri FSL S4-171]
          Length = 170

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/97 (18%), Positives = 38/97 (39%), Gaps = 4/97 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+GK ++  R+ LG +Q++  + L I  Q   K E+G+      +L  I   L    +  
Sbjct: 10  NIGKNLKAYRLELGATQKEFADELNINHQNYSKMERGIYTPSLEKLLEICNSLRITPNDL 69

Query: 74  F----DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                +            + +++D +     ++  R 
Sbjct: 70  LLDNREYDEYKQEIFRELDEDILDLMREMKVVEEIRA 106


>gi|296116502|ref|ZP_06835113.1| putative transcriptional regulator [Gluconacetobacter hansenii ATCC
           23769]
 gi|295976968|gb|EFG83735.1| putative transcriptional regulator [Gluconacetobacter hansenii ATCC
           23769]
          Length = 120

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/118 (16%), Positives = 42/118 (35%), Gaps = 14/118 (11%)

Query: 15  VGKRIRLRRMIL------GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +  R+   R  L       +S +++ + +GI+   +  YE+G +R G   L  ++     
Sbjct: 5   IASRLTALRRALAEKLGRKVSAQEVADAVGISRSTLSGYERGHDRPGRETLLALATYYSV 64

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
            + +             +   N  +         L     +  D   R+  + L+RS+
Sbjct: 65  SVDYLASGEMPAVQHPDNVAQNGEE--------ALLLALWRRMDEDQRRSWLGLLRSM 114


>gi|291531602|emb|CBK97187.1| Helix-turn-helix [Eubacterium siraeum 70/3]
          Length = 355

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/117 (20%), Positives = 48/117 (41%), Gaps = 7/117 (5%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS-PTVCSDISS 86
           M+QE+L E L I+ Q V ++E  +     S L  ++   +    F  +V   +   +I S
Sbjct: 1   MTQEQLAEVLSISAQAVSRWETNIALPDISLLPILANFFDVTTDFLLEVDASSREKEIES 60

Query: 87  EENNVMDFIST---PDGLQLNR-YFIQIDDVKVRQKIIELVRSIVSSEKKYRTIEEE 139
                 ++ +      G+++ R    +           EL  ++  S ++  TI +E
Sbjct: 61  LSEAAREYTTNGQWSKGVEILRKAIRKYPSAYKLSH--ELASALYCSPQETDTISDE 115


>gi|227511235|ref|ZP_03941284.1| XRE family transcriptional regulator [Lactobacillus buchneri ATCC
          11577]
 gi|227085530|gb|EEI20842.1| XRE family transcriptional regulator [Lactobacillus buchneri ATCC
          11577]
          Length = 244

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          ++ G+++++RR  L ++Q +L + L +T Q V ++E          L  +S+ 
Sbjct: 1  MDFGEQLQIRRKQLNLTQAQLAQKLHVTRQTVSRWETNATYPNLDILVEMSDF 53


>gi|225874194|ref|YP_002755653.1| helix-turn-helix/cupin domain protein [Acidobacterium capsulatum
          ATCC 51196]
 gi|225793366|gb|ACO33456.1| helix-turn-helix/cupin domain protein [Acidobacterium capsulatum
          ATCC 51196]
          Length = 260

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 30/66 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R+   M   +LG   G++   + + E G        L  I+ V    +S+FF
Sbjct: 28 IGERIKRLRLKKSMGLVELGRHTGLSASFLSQLETGRVVPTLRNLARIAMVFSKDLSYFF 87

Query: 75 DVSPTV 80
          +  P  
Sbjct: 88 ETEPHT 93


>gi|206973491|ref|ZP_03234411.1| conserved domain protein [Bacillus cereus AH1134]
 gi|229181778|ref|ZP_04309089.1| Transcriptional regulator [Bacillus cereus 172560W]
 gi|206731581|gb|EDZ48783.1| conserved domain protein [Bacillus cereus AH1134]
 gi|228601695|gb|EEK59205.1| Transcriptional regulator [Bacillus cereus 172560W]
          Length = 65

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+  G++Q++L + + +T Q +   E            HI++ L+  +   F
Sbjct: 4  SKIKIARVEKGLTQQELADIVNVTRQTISLIESNKYNPSLKLCIHIAKTLDKSLDKLF 61


>gi|150388588|ref|YP_001318637.1| XRE family transcriptional regulator [Alkaliphilus
          metalliredigens QYMF]
 gi|149948450|gb|ABR46978.1| transcriptional regulator, XRE family [Alkaliphilus
          metalliredigens QYMF]
          Length = 122

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 32/76 (42%), Gaps = 1/76 (1%)

Query: 10 PVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +D   +G +IR  R++L ++ E+L E L ++   +   E+G   V    L  +S  L  
Sbjct: 2  SIDLKLIGNKIRKERILLDLTLEELAEILDLSPSYMGLIERGQRGVSIETLYKLSTTLNV 61

Query: 69 PISFFFDVSPTVCSDI 84
             +    +     D 
Sbjct: 62 TTDYLLSPADEKACDT 77


>gi|315644612|ref|ZP_07897744.1| transcription regulator [Paenibacillus vortex V453]
 gi|315280119|gb|EFU43416.1| transcription regulator [Paenibacillus vortex V453]
          Length = 378

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 30/58 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          KR+R  R++ G++   L E + ++ Q + ++E G +      +  +   L  P SFF+
Sbjct: 12 KRLREARLVRGLTISDLAERISVSKQAISQFELGEHAPRPETVMLLINTLHFPKSFFY 69


>gi|266621149|ref|ZP_06114084.1| transcriptional regulator [Clostridium hathewayi DSM 13479]
 gi|288867198|gb|EFC99496.1| transcriptional regulator [Clostridium hathewayi DSM 13479]
          Length = 66

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          KR+++ R+   +SQE+LGE +G+T Q +   E G      +    I + L   +   F
Sbjct: 4  KRLKIARIEHDLSQEQLGERVGVTRQTISMIESGNYNPTLNLCIAICKELGKTLDELF 61


>gi|258543801|ref|ZP_05704035.1| XRE family transcriptional regulator [Cardiobacterium hominis
          ATCC 15826]
 gi|258520953|gb|EEV89812.1| XRE family transcriptional regulator [Cardiobacterium hominis
          ATCC 15826]
          Length = 179

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 10/52 (19%), Positives = 30/52 (57%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +++  R++  ++Q ++ E +G++    Q++E G N V  ++   ++++L  
Sbjct: 10 SKLKKYRLLARLTQTEVAEAVGVSQPTYQRWESGTNSVPKTKAAKLAKILGI 61


>gi|229827273|ref|ZP_04453342.1| hypothetical protein GCWU000182_02659 [Abiotrophia defectiva ATCC
          49176]
 gi|229788891|gb|EEP25005.1| hypothetical protein GCWU000182_02659 [Abiotrophia defectiva ATCC
          49176]
          Length = 115

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 30/61 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRIR  R    ++Q KL E L +    + K EKG   + +  ++ +S +    + +
Sbjct: 7  VEIGKRIRSLRYESKLTQTKLSEYLSLDQSMIAKIEKGERNITSDVIEKLSALFCCTVDY 66

Query: 73 F 73
           
Sbjct: 67 L 67


>gi|30263168|ref|NP_845545.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47528533|ref|YP_019882.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49186017|ref|YP_029269.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|52142313|ref|YP_084521.1| helix-turn-helix family DNA-binding protein [Bacillus cereus
          E33L]
 gi|65320496|ref|ZP_00393455.1| COG1476: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|229012438|ref|ZP_04169613.1| Transcriptional regulator, XRE [Bacillus mycoides DSM 2048]
 gi|30257802|gb|AAP27031.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47503681|gb|AAT32357.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49179944|gb|AAT55320.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|51975782|gb|AAU17332.1| DNA-binding protein, helix-turn-helix family [Bacillus cereus
          E33L]
 gi|228748797|gb|EEL98647.1| Transcriptional regulator, XRE [Bacillus mycoides DSM 2048]
          Length = 69

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 26/63 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I + R   G +QE+L   +G++ Q +   EK            I+   E P++  FD 
Sbjct: 7  NKIVVCRAEKGWTQEELATRVGVSRQTIATLEKNKYNPSLILAFKIANAFEKPLTDVFDY 66

Query: 77 SPT 79
             
Sbjct: 67 LEE 69


>gi|317473499|ref|ZP_07932791.1| hypothetical protein HMPREF1011_03141 [Anaerostipes sp.
          3_2_56FAA]
 gi|316899010|gb|EFV21032.1| hypothetical protein HMPREF1011_03141 [Anaerostipes sp.
          3_2_56FAA]
          Length = 172

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQ----VQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI   R++ G +Q+ LG+ LG +  Q    + +YEKG        L  ++++ E 
Sbjct: 3  MAIGERIHYFRLLRGFTQKYLGKLLGFSDSQADVRIAQYEKGARSPKEKYLNALAQIFEV 62

Query: 69 PI 70
            
Sbjct: 63 SP 64


>gi|299139477|ref|ZP_07032651.1| transcriptional regulator, XRE family [Acidobacterium sp. MP5ACTX8]
 gi|298598405|gb|EFI54569.1| transcriptional regulator, XRE family [Acidobacterium sp. MP5ACTX8]
          Length = 188

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 31/74 (41%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + V   +R  R +  +SQ +L   + +    + K E G      S L  ++  L+  IS 
Sbjct: 73  LQVASAVRDLRHVRNLSQRQLAARMNVPRTYISKIENGKAMPTLSSLDRLARALQVDISA 132

Query: 73  FFDVSPTVCSDISS 86
               +PT   D ++
Sbjct: 133 LLRDAPTRHQDETA 146


>gi|302388002|ref|YP_003823824.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
 gi|302198630|gb|ADL06201.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
          Length = 138

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 33/69 (47%), Gaps = 1/69 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPISFFFD 75
          +R++ +R    ++Q +L E  G+T + +Q YE G  +      +Q I++ L +   +   
Sbjct: 5  ERLKEKRTEANLTQVELAEKAGVTARTIQNYELGSRKPSNMVTIQKIADALNTTTEYLLG 64

Query: 76 VSPTVCSDI 84
           S T   + 
Sbjct: 65 SSGTYVVEA 73


>gi|283768986|ref|ZP_06341892.1| DNA-binding protein [Bulleidia extructa W1219]
 gi|283104343|gb|EFC05720.1| DNA-binding protein [Bulleidia extructa W1219]
          Length = 180

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 33/81 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+G RI+  R+   ++ E+L     +T   + + E+         L  ++E L   +S 
Sbjct: 2  INIGARIKQLRLKNDLTLEELASRTELTKGFLSQLERNRTSPSIQSLADVAEALGVNLSG 61

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF            E+  V +
Sbjct: 62 FFQEDVEEQIVFQEEDAFVDE 82


>gi|228968306|ref|ZP_04129303.1| hypothetical protein bthur0004_50850 [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|228791383|gb|EEM38988.1| hypothetical protein bthur0004_50850 [Bacillus thuringiensis
          serovar sotto str. T04001]
          Length = 218

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 40/81 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK I+  R    +SQ++LGE  G++ + V  +EKG+       +Q I++  +   S 
Sbjct: 1  MSIGKNIKKLRSKHNLSQKELGEIAGVSDKAVSTWEKGLKEPRMGAIQKIADHFKILKSD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
            +   +  + I   +  + +
Sbjct: 61 IIEDQDSKITHIRPNQPKIEN 81


>gi|227555817|ref|ZP_03985864.1| transcriptional regulator [Enterococcus faecalis HH22]
 gi|227174984|gb|EEI55956.1| transcriptional regulator [Enterococcus faecalis HH22]
 gi|315573616|gb|EFU85807.1| helix-turn-helix protein [Enterococcus faecalis TX0309B]
 gi|315582036|gb|EFU94227.1| helix-turn-helix protein [Enterococcus faecalis TX0309A]
          Length = 75

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 30/65 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR  R    +SQEKL   L I      +YE G   +  S L  ++E   + + +  +++
Sbjct: 7  RIRNLREDADLSQEKLARLLHINQATYSRYETGDLEIPVSSLIKLAEFYSTSVDYLVNLT 66

Query: 78 PTVCS 82
           ++  
Sbjct: 67 DSMEP 71


>gi|221068872|ref|ZP_03544977.1| transcriptional regulator, XRE family [Comamonas testosteroni
          KF-1]
 gi|220713895|gb|EED69263.1| transcriptional regulator, XRE family [Comamonas testosteroni
          KF-1]
          Length = 131

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 30/81 (37%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K+PN V   +G ++R  R +   SQE+L     +   ++ K E G        L  +   
Sbjct: 18 KLPNAVTKALGTKLRSYRELAQKSQEQLAHEAEVERSRISKLENGHINPSLLTLATLCHC 77

Query: 66 LESPISFFFDVSPTVCSDISS 86
          L    +  F+         S 
Sbjct: 78 LGITPAELFEGVTATLPPASQ 98


>gi|183220520|ref|YP_001838516.1| putative transcriptional regulator [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Paris)']
 gi|189910629|ref|YP_001962184.1| transcriptional regulator [Leptospira biflexa serovar Patoc strain
           'Patoc 1 (Ames)']
 gi|167775305|gb|ABZ93606.1| Transcriptional regulator [Leptospira biflexa serovar Patoc strain
           'Patoc 1 (Ames)']
 gi|167778942|gb|ABZ97240.1| Putative transcriptional regulator [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Paris)']
          Length = 207

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 35/84 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V + ++L R   G S +KL    G++   + + E+G +    S L  I+  L  P S   
Sbjct: 27  VKENLKLIRHTKGFSLDKLANRCGVSRAMLSQIEQGKSVPTISVLWKIANGLNVPFSELL 86

Query: 75  DVSPTVCSDISSEENNVMDFISTP 98
                    I   EN+ + + ++ 
Sbjct: 87  KEKNQDGIHILKAENSKVLYSNSK 110


>gi|148272464|ref|YP_001222025.1| Cro/CI family transcriptional regulator [Clavibacter
          michiganensis subsp. michiganensis NCPPB 382]
 gi|147830394|emb|CAN01329.1| putative transcriptional regulator, Cro/CI family [Clavibacter
          michiganensis subsp. michiganensis NCPPB 382]
          Length = 107

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 33/77 (42%), Gaps = 5/77 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          G R+R +R  +G+SQE L E  GI +  + K E+G        +  I+  L+        
Sbjct: 13 GSRVREQRQRIGISQETLAELSGIHWTALGKIERGQRNPSLRNIIKIASGLDVDAGLLVT 72

Query: 75 ----DVSPTVCSDISSE 87
              D+ P    D  +E
Sbjct: 73 GLTADMLPQDDGDSPAE 89


>gi|120401475|ref|YP_951304.1| XRE family transcriptional regulator [Mycobacterium vanbaalenii
          PYR-1]
 gi|119954293|gb|ABM11298.1| transcriptional regulator, XRE family [Mycobacterium vanbaalenii
          PYR-1]
          Length = 180

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 28/64 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   GM+ + L    G+T   + K E+G +    +    IS  LE  ++  F   P
Sbjct: 5  LRAVRQERGMTLDDLAADTGLTKSYLSKVERGQSVPSIAAALKISRALEVDVAQLFSDDP 64

Query: 79 TVCS 82
           V +
Sbjct: 65 EVST 68


>gi|74312212|ref|YP_310631.1| hypothetical protein SSON_1704 [Shigella sonnei Ss046]
 gi|73855689|gb|AAZ88396.1| conserved hypothetical protein [Shigella sonnei Ss046]
 gi|323169618|gb|EFZ55286.1| helix-turn-helix family protein [Shigella sonnei 53G]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SAMPSVYDPQQQAM 85


>gi|238792829|ref|ZP_04636460.1| Helix-turn-helix domain protein [Yersinia intermedia ATCC 29909]
 gi|238727937|gb|EEQ19460.1| Helix-turn-helix domain protein [Yersinia intermedia ATCC 29909]
          Length = 154

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 26/56 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          I  G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++  L  
Sbjct: 7  IQFGERVKELRIATGMSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLAGALNV 62


>gi|331702111|ref|YP_004399070.1| XRE family transcriptional regulator [Lactobacillus buchneri NRRL
          B-30929]
 gi|329129454|gb|AEB74007.1| transcriptional regulator, XRE family [Lactobacillus buchneri
          NRRL B-30929]
          Length = 66

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R  +G+SQ  L E +G+  Q +   E             ++E L + ++  F
Sbjct: 2  NRVREYRKQVGISQFALAEKVGVARQTINLIENDKYNPSLKLCISLAEELGTDLNTLF 59


>gi|260655665|ref|ZP_05861138.1| toxin-antitoxin system, antitoxin component, Xre family
          [Jonquetella anthropi E3_33 E1]
 gi|260629582|gb|EEX47776.1| toxin-antitoxin system, antitoxin component, Xre family
          [Jonquetella anthropi E3_33 E1]
          Length = 247

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 27/81 (33%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G  IR  R   G+S   L E + I+   V   E G        L  I++       +
Sbjct: 6  ITMGANIRELRKKRGISARVLAEAVNISTPFVYDIENGRTLPSVPVLNAIAQYFGVTTDY 65

Query: 73 FFDVSPTVCSDISSEENNVMD 93
             +        + ++    D
Sbjct: 66 LMGLDEPGAPSSADKQTAASD 86


>gi|322421967|ref|YP_004201190.1| helix-turn-helix domain-containing protein [Geobacter sp. M18]
 gi|320128354|gb|ADW15914.1| helix-turn-helix domain protein [Geobacter sp. M18]
          Length = 305

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 39/90 (43%), Gaps = 11/90 (12%)

Query: 4  NKKIPNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR---VGAS 57
          N+K+P P   +D   G RIR  R    ++Q  +   +G+T   + ++E   NR   +   
Sbjct: 8  NEKVPLPSVAID---GIRIRTIRETKKLTQLYVANVVGVTTDTISRWEN--NRYPSIKRD 62

Query: 58 RLQHISEVLESPISFFFDVSPTVCSDISSE 87
            Q +++ LE  +       P    + + E
Sbjct: 63 NAQKLADALEVTLEEILQPEPPETPEAAQE 92


>gi|256851112|ref|ZP_05556501.1| transcriptional regulator [Lactobacillus jensenii 27-2-CHN]
 gi|260660536|ref|ZP_05861451.1| transcriptional regulator [Lactobacillus jensenii 115-3-CHN]
 gi|282932249|ref|ZP_06337693.1| XRE family transcriptional regulator [Lactobacillus jensenii 208-1]
 gi|297205977|ref|ZP_06923372.1| XRE family transcriptional regulator [Lactobacillus jensenii
           JV-V16]
 gi|256616174|gb|EEU21362.1| transcriptional regulator [Lactobacillus jensenii 27-2-CHN]
 gi|260548258|gb|EEX24233.1| transcriptional regulator [Lactobacillus jensenii 115-3-CHN]
 gi|281303644|gb|EFA95802.1| XRE family transcriptional regulator [Lactobacillus jensenii 208-1]
 gi|297149103|gb|EFH29401.1| XRE family transcriptional regulator [Lactobacillus jensenii
           JV-V16]
          Length = 122

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 28/117 (23%), Positives = 50/117 (42%), Gaps = 3/117 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESP 69
           +D+ +G  IR RR  + ++QE L E  G++   + + E+ G   +   ++  I++ L   
Sbjct: 1   MDMCLGAVIRDRRKAMKLTQEDLAEFSGLSVNFISRIERTGDQNISIKKIDAIAQSLNMD 60

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                  +     DISS +    D        +L R        KV + I+ LV+ I
Sbjct: 61  TPSLIAAAYGKV-DISSYKLKGDDIFIQKIVTEL-RKLSTFRAEKVCKAILSLVKEI 115


>gi|148985005|ref|ZP_01818248.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP3-BS71]
 gi|147922703|gb|EDK73820.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP3-BS71]
 gi|301800013|emb|CBW32605.1| putative epsilon antitoxin [Streptococcus pneumoniae OXC141]
          Length = 158

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQHEFARIIGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|149007308|ref|ZP_01830966.1| hypothetical protein CGSSp18BS74_00606 [Streptococcus pneumoniae
          SP18-BS74]
 gi|225859187|ref|YP_002740697.1| hypothetical protein SP70585_1461 [Streptococcus pneumoniae
          70585]
 gi|307127009|ref|YP_003879040.1| hypothetical protein SP670_0875 [Streptococcus pneumoniae 670-6B]
 gi|147761112|gb|EDK68080.1| hypothetical protein CGSSp18BS74_00606 [Streptococcus pneumoniae
          SP18-BS74]
 gi|225720333|gb|ACO16187.1| conserved domain protein [Streptococcus pneumoniae 70585]
 gi|306484071|gb|ADM90940.1| conserved domain protein [Streptococcus pneumoniae 670-6B]
 gi|332074745|gb|EGI85219.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA17545]
          Length = 69

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+ L ++Q +L + +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 6  KLKLARVELDLTQGQLADAVGVTRQTIGLIEAGKYNPSLSLCQSICRCLGKTLDQLF 62


>gi|197119757|ref|YP_002140184.1| helix-turn-helix transcriptional regulator [Geobacter
          bemidjiensis Bem]
 gi|197089117|gb|ACH40388.1| helix-turn-helix transcriptional regulator with cupin domain
          [Geobacter bemidjiensis Bem]
          Length = 199

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 32/65 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+++R  R    ++ + L +  G++   + + E        + L  I++ L+  I +
Sbjct: 12 MKLGEKVRGLRQEQRLTLQALADMTGLSKPLLSQIENDQVTPPIATLLKIAKGLKVGIHY 71

Query: 73 FFDVS 77
          FF+ +
Sbjct: 72 FFEEA 76


>gi|57237282|ref|YP_178295.1| transcriptional regulator, putative [Campylobacter jejuni RM1221]
 gi|57166086|gb|AAW34865.1| transcriptional regulator, putative [Campylobacter jejuni RM1221]
          Length = 210

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 45/114 (39%), Gaps = 18/114 (15%)

Query: 20  RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE------------VLE 67
           +  R  LG++QE+LG  L +T QQ+   EKG   +      +IS+             L 
Sbjct: 7   KQIREKLGLTQEQLGNKLNLTRQQIINIEKGKTPISKKYFDNISKLSKKFYIDKEENALN 66

Query: 68  SPISF----FFDVSPTVCSDISSEENNVMDFI--STPDGLQLNRYFIQIDDVKV 115
              +     F+ +     S  +   N ++      T + L+L++ F +     V
Sbjct: 67  KDRNKQEINFYSIPKLNISASAGGGNELIGLEEYETGEMLELSKAFFKTTPKNV 120


>gi|69245870|ref|ZP_00603687.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|256853747|ref|ZP_05559112.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
          T8]
 gi|257879179|ref|ZP_05658832.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|257882002|ref|ZP_05661655.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,502]
 gi|68195572|gb|EAN10014.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|256710690|gb|EEU25733.1| helix-turn-helix domain-containing protein [Enterococcus faecalis
          T8]
 gi|257813407|gb|EEV42165.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|257817660|gb|EEV44988.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,502]
          Length = 87

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G+SQ +L + + +T Q V  ++ G       +++ +SE+L  PI+  F
Sbjct: 21 SNLSRYRKEKGLSQTELAKKMNVTQQCVSSWQTGRTIPKPYQMKMLSEILSVPINELF 78


>gi|325126457|gb|ADY85787.1| Hypothetical conserved protein [Lactobacillus delbrueckii subsp.
          bulgaricus 2038]
          Length = 119

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 34/80 (42%), Gaps = 2/80 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK +R  R   GMSQ++L   LG++ Q +  +E G        +  I+ +     +   
Sbjct: 6  IGKYLRDLRRRRGMSQQELALALGVSKQTISNWEVGRKVPRMKAVDKIANIFGVSRNSIL 65

Query: 75 DVSPTVCSDISSEENNVMDF 94
             P     +  E+  V+D 
Sbjct: 66 AGLPVEM--LEQEDRRVVDL 83


>gi|291545572|emb|CBL18680.1| Helix-turn-helix [Ruminococcus sp. SR1/5]
          Length = 97

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 36/86 (41%), Gaps = 1/86 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FF 73
          VG+RI+  R    ++QE+L   + ++   V   E+G+          I+  L+       
Sbjct: 6  VGQRIKSAREAKNLTQEELAALVNLSPTHVSVIERGLKVTKLDTFVAIANALDVSADTLL 65

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
           DV     + +++E    ++ +   +
Sbjct: 66 IDVVAHSVTGVTNELTEKIEKLPIKE 91


>gi|253751715|ref|YP_003024856.1| antidote epsilon protein [Streptococcus suis SC84]
 gi|253755571|ref|YP_003028711.1| antidote epsilon protein [Streptococcus suis BM407]
 gi|251816004|emb|CAZ51621.1| antidote epsilon protein [Streptococcus suis SC84]
 gi|251818035|emb|CAZ55824.1| antidote epsilon protein [Streptococcus suis BM407]
          Length = 158

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGDNIKSLRRTHDLTQPEFAKMVGISRNSLSRYENGTSTVSTELIDRICQKFNVS 56


>gi|241894930|ref|ZP_04782226.1| hypothetical protein HMPREF0877_0200 [Weissella paramesenteroides
          ATCC 33313]
 gi|241871938|gb|EER75689.1| hypothetical protein HMPREF0877_0200 [Weissella paramesenteroides
          ATCC 33313]
          Length = 171

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/86 (17%), Positives = 33/86 (38%), Gaps = 10/86 (11%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I+  R   G++Q +L   +G++   +   EK  N      +  I++     + +    
Sbjct: 3  NKIKELRKSNGLTQAQLASKIGVSQPTLSLLEKDGN--SLEDMLPIAQYFGVSLDYLVSG 60

Query: 77 --------SPTVCSDISSEENNVMDF 94
                       +D  S+ NN ++F
Sbjct: 61 HLKVIAKQDYKTLTDARSQANNALEF 86


>gi|229824149|ref|ZP_04450218.1| hypothetical protein GCWU000282_01453 [Catonella morbi ATCC
          51271]
 gi|229786503|gb|EEP22617.1| hypothetical protein GCWU000282_01453 [Catonella morbi ATCC
          51271]
          Length = 70

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 28/59 (47%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          D +VG  IR  R  LG+S+  L E +GI    V K E G  ++    L+  +  L   +
Sbjct: 5  DHSVGSNIRDIREQLGISKVGLAERIGIHRNAVAKIESGERKLNQKGLKVFARALGVTV 63


>gi|227889182|ref|ZP_04006987.1| transcriptional regulator [Lactobacillus johnsonii ATCC 33200]
 gi|227850411|gb|EEJ60497.1| transcriptional regulator [Lactobacillus johnsonii ATCC 33200]
          Length = 161

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++I+  R    ++QE++ + L +T Q +  +EK  N      +  I++     + 
Sbjct: 5  EQIKRLRKESNLTQEEMAKKLNVTRQAIFNWEKNRNPPDFEMIILIAKTFGVSLD 59


>gi|170770018|ref|ZP_02904471.1| helix-turn-helix domain protein [Escherichia albertii TW07627]
 gi|170770180|ref|ZP_02904633.1| helix-turn-helix domain protein [Escherichia albertii TW07627]
 gi|291283193|ref|YP_003500011.1| Helix-turn-helix domain protein [Escherichia coli O55:H7 str.
          CB9615]
 gi|301021345|ref|ZP_07185372.1| helix-turn-helix protein [Escherichia coli MS 196-1]
 gi|170120955|gb|EDS89886.1| helix-turn-helix domain protein [Escherichia albertii TW07627]
 gi|170121084|gb|EDS90015.1| helix-turn-helix domain protein [Escherichia albertii TW07627]
 gi|290763066|gb|ADD57027.1| Helix-turn-helix domain protein [Escherichia coli O55:H7 str.
          CB9615]
 gi|299881567|gb|EFI89778.1| helix-turn-helix protein [Escherichia coli MS 196-1]
 gi|320657713|gb|EFX25502.1| Helix-turn-helix domain protein [Escherichia coli O55:H7 str.
          3256-97 TW 07815]
 gi|320663395|gb|EFX30692.1| Helix-turn-helix domain protein [Escherichia coli O55:H7 str.
          USDA 5905]
 gi|323956985|gb|EGB52712.1| helix-turn-helix protein [Escherichia coli H263]
          Length = 363

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/59 (42%), Positives = 33/59 (55%), Gaps = 1/59 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G +++L RM +G+S E+L E +G T Q V K EKG  R     L+ IS  L    SF F
Sbjct: 9  GDKLKLARMAVGLSCEELAEKIGKTKQFVSKLEKG-CRPSEQCLELISSALMIKSSFLF 66


>gi|167632540|ref|ZP_02390867.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|254685775|ref|ZP_05149634.1| helix-turn-helix family DNA-binding protein [Bacillus anthracis
          str. CNEVA-9066]
 gi|254723182|ref|ZP_05184970.1| helix-turn-helix family DNA-binding protein [Bacillus anthracis
          str. A1055]
 gi|254738245|ref|ZP_05195948.1| helix-turn-helix family DNA-binding protein [Bacillus anthracis
          str. Western North America USA6153]
 gi|254742587|ref|ZP_05200272.1| helix-turn-helix family DNA-binding protein [Bacillus anthracis
          str. Kruger B]
 gi|254752560|ref|ZP_05204596.1| helix-turn-helix family DNA-binding protein [Bacillus anthracis
          str. Vollum]
 gi|254761076|ref|ZP_05213100.1| helix-turn-helix family DNA-binding protein [Bacillus anthracis
          str. Australia 94]
 gi|167532838|gb|EDR95474.1| DNA-binding protein [Bacillus anthracis str. A0442]
          Length = 66

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 26/63 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I + R   G +QE+L   +G++ Q +   EK            I+   E P++  FD 
Sbjct: 4  NKIVVCRAEKGWTQEELATRVGVSRQTIATLEKNKYNPSLILAFKIANAFEKPLTDVFDY 63

Query: 77 SPT 79
             
Sbjct: 64 LEE 66


>gi|20091735|ref|NP_617810.1| transcriptional regulator [Methanosarcina acetivorans C2A]
 gi|19916914|gb|AAM06290.1| transcriptional regulator, Hth-3 family [Methanosarcina
          acetivorans C2A]
          Length = 184

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R+R  R +  +S EK+ E L ++ +  +KYE G   + AS L  I+  L+  ++ 
Sbjct: 6  KEIAARVRELRELSEISVEKMAEYLQVSPETYEKYESGTEDIPASILFEIAHRLQVDMAT 65

Query: 73 FFDVSPTVCS 82
                   +
Sbjct: 66 LLTGEEPRMN 75


>gi|297195428|ref|ZP_06912826.1| transcriptional regulator [Streptomyces pristinaespiralis ATCC
          25486]
 gi|297152779|gb|EDY63104.2| transcriptional regulator [Streptomyces pristinaespiralis ATCC
          25486]
          Length = 206

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 32/67 (47%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  V KRIR  R+  G S E+L     ++   + + E G  R+   +L  ++  L++ +
Sbjct: 17 LDSLVRKRIRALRVAQGWSLEELAARGRLSQSTLSRIENGHRRLALDQLVTLARALDTSL 76

Query: 71 SFFFDVS 77
              + +
Sbjct: 77 DQLVETA 83


>gi|284045488|ref|YP_003395828.1| XRE family transcriptional regulator [Conexibacter woesei DSM
          14684]
 gi|283949709|gb|ADB52453.1| transcriptional regulator, XRE family [Conexibacter woesei DSM
          14684]
          Length = 84

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 26/68 (38%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R    +SQE L    G+  + + + E+G     AS +  +++ L   I   +    
Sbjct: 17 IRQLRRDRELSQEALANAAGVHPKHLSEIERGNKDPRASTVARLADALGVSIGELYGQPG 76

Query: 79 TVCSDISS 86
                S 
Sbjct: 77 GDEPGASG 84


>gi|260433144|ref|ZP_05787115.1| transcriptional regulator, XRE family [Silicibacter
          lacuscaerulensis ITI-1157]
 gi|260416972|gb|EEX10231.1| transcriptional regulator, XRE family [Silicibacter
          lacuscaerulensis ITI-1157]
          Length = 129

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 35/83 (42%), Gaps = 2/83 (2%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          G R+   R   GM+Q +L   LG+    V  +E  ++   A++L  ++ +L   I +   
Sbjct: 16 GDRLAGAREAAGMTQAQLARRLGVKKATVVGWENDMSEPRANKLSMMAGMLNVSIMWLLT 75

Query: 75 -DVSPTVCSDISSEENNVMDFIS 96
           +       D+   +  +   ++
Sbjct: 76 GEGEGAGVPDLVEGDAELAPLVA 98


>gi|302540449|ref|ZP_07292791.1| cro/CI family transcriptional regulator [Streptomyces hygroscopicus
           ATCC 53653]
 gi|302458067|gb|EFL21160.1| cro/CI family transcriptional regulator [Streptomyces
           himastatinicus ATCC 53653]
          Length = 196

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 10/84 (11%), Positives = 28/84 (33%), Gaps = 2/84 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R   G + + L    G++   + + E+            +++ L   I+   D 
Sbjct: 19  RNLKRWRNERGYTLDALAARAGVSRGMIIQIEQARTNPSVGTTVKLADALGVSITTLLDY 78

Query: 77  SPTVCSDISSEENNVMDFISTPDG 100
                  +   E  V   + + + 
Sbjct: 79  EQEARVRLVPPEQAVR--MWSTEA 100


>gi|228962123|ref|ZP_04123603.1| hypothetical protein bthur0005_54930 [Bacillus thuringiensis
          serovar pakistani str. T13001]
 gi|228797559|gb|EEM44692.1| hypothetical protein bthur0005_54930 [Bacillus thuringiensis
          serovar pakistani str. T13001]
          Length = 66

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 24/55 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R  R   G++Q +L   L +    + KYE G++      L   + +  + I  F
Sbjct: 8  LREIRKEKGLTQNQLANLLDLDKTSISKYESGIHSPSLRVLVLYANIFGTQIENF 62


>gi|228962984|ref|ZP_04124195.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|228796705|gb|EEM44103.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          pakistani str. T13001]
          Length = 136

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 27/60 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ ++  R + GMS++ L   L I +  +  +E G     + +L  I+      +S   +
Sbjct: 5  GQNLKKLRGMRGMSRKDLANELDIPYVTLTTWESGSRIPNSDKLIPIANFFGVSVSDLVE 64


>gi|196035367|ref|ZP_03102772.1| transcriptional regulator SinR [Bacillus cereus W]
 gi|195992044|gb|EDX56007.1| transcriptional regulator SinR [Bacillus cereus W]
          Length = 107

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
               T  +++ SE
Sbjct: 62 LHDETTKEANLDSE 75


>gi|165869157|ref|ZP_02213817.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167637409|ref|ZP_02395689.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170684835|ref|ZP_02876060.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|170704913|ref|ZP_02895378.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|177649881|ref|ZP_02932882.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190565074|ref|ZP_03017995.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|227813967|ref|YP_002813976.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229602589|ref|YP_002867433.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|164715883|gb|EDR21400.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167514916|gb|EDR90282.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170129768|gb|EDS98630.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|170671095|gb|EDT21833.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|172083833|gb|EDT68892.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190564391|gb|EDV18355.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|227007141|gb|ACP16884.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229266997|gb|ACQ48634.1| DNA-binding protein [Bacillus anthracis str. A0248]
          Length = 65

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 26/63 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I + R   G +QE+L   +G++ Q +   EK            I+   E P++  FD 
Sbjct: 3  NKIVVCRAEKGWTQEELATRVGVSRQTIATLEKNKYNPSLILAFKIANAFEKPLTDVFDY 62

Query: 77 SPT 79
             
Sbjct: 63 LEE 65


>gi|154504675|ref|ZP_02041413.1| hypothetical protein RUMGNA_02181 [Ruminococcus gnavus ATCC 29149]
 gi|153795157|gb|EDN77577.1| hypothetical protein RUMGNA_02181 [Ruminococcus gnavus ATCC 29149]
          Length = 130

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/123 (17%), Positives = 49/123 (39%), Gaps = 10/123 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +RI+  R  +G++Q++L + LG+    +  YE G        +  +         +    
Sbjct: 3   ERIKELRKTIGITQQELADKLGLKRNTIATYEIGKAIPSDRVISDLCNKYSVNEEWLRSG 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
           +  +    S E  + ++ +   DG+     F  I        IIE+++     ++K + +
Sbjct: 63  NGEMFKQPSDEVGHYVEDLLEYDGV--GNPFYDI--------IIEMMKKYQEMDEKSKLV 112

Query: 137 EEE 139
             E
Sbjct: 113 IRE 115


>gi|94968151|ref|YP_590199.1| XRE family transcriptional regulator [Candidatus Koribacter
           versatilis Ellin345]
 gi|94550201|gb|ABF40125.1| transcriptional regulator, XRE family [Candidatus Koribacter
           versatilis Ellin345]
          Length = 338

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/105 (23%), Positives = 46/105 (43%), Gaps = 12/105 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG---ASRLQHISEVLESPIS 71
           VG RIR  R+  G+S   L + +G+T Q +Q  E+ V+ +     + L+ I+  L++ ++
Sbjct: 222 VGSRIRELRLEAGLSLGDLAKRVGLTEQGLQNIEENVDTISNPGLTVLRWIATALKTTVA 281

Query: 72  FFFD---------VSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
              D            +  ++ +S        IS  D   L R +
Sbjct: 282 ELVDPDYAENVIAGIRSTFNERASAIAARFSGISQKDKRALLRRY 326


>gi|48697282|ref|YP_025049.1| putative repressor protein [Lactobacillus phage phiAT3]
 gi|47607173|gb|AAT36509.1| putative repressor protein [Lactobacillus phage phiAT3]
          Length = 257

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 34/76 (44%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          +NVG+R++  R   G+S + L   +G++   V +YEKG + +V    +  ++  L     
Sbjct: 1  MNVGERMKTIRKQKGISADSLAAKIGVSRSTVFRYEKGDIEKVPIEVVAKVANALNIKPE 60

Query: 72 FFFDVSPTVCSDISSE 87
              +      D   +
Sbjct: 61 VLMGLKADTVVDKIHD 76


>gi|95930238|ref|ZP_01312976.1| transcriptional regulator, XRE family with cupin sensor
           [Desulfuromonas acetoxidans DSM 684]
 gi|95133701|gb|EAT15362.1| transcriptional regulator, XRE family with cupin sensor
           [Desulfuromonas acetoxidans DSM 684]
          Length = 191

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/89 (14%), Positives = 34/89 (38%), Gaps = 2/89 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK+++  R+   M+ E L     ++   + + E+G+       L  ++      IS+F 
Sbjct: 6   IGKKLKKMRLNNDMTIEGLANKSQVSSNMISRIERGLTTPSVEILMKLAGAFGMSISYFV 65

Query: 75  DVSPTVCS--DISSEENNVMDFISTPDGL 101
           + +    +     +     + F      +
Sbjct: 66  EEAEKGSTVVHTPNGSGEPIFFFEDKHQI 94


>gi|328945610|gb|EGG39761.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1087]
          Length = 225

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 34/63 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RRM L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRMELNLTQSSIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          +  
Sbjct: 65 TSA 67


>gi|325697038|gb|EGD38925.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK160]
          Length = 225

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 34/63 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RRM L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRMELNLTQSSIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          +  
Sbjct: 65 TSA 67


>gi|312889751|ref|ZP_07749297.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
 gi|311297677|gb|EFQ74800.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
          Length = 133

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 32/60 (53%), Gaps = 1/60 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P + ++G++I   R + G+ QE L   LG++ Q V + E+    +    L+ ++++L   
Sbjct: 7  PSNNHIGRKIGRIRELRGIKQEVLAAELGVSQQTVSRMEQSET-IEDDVLEKVAKILGVS 65


>gi|301166893|emb|CBW26471.1| putative helix-turn-helix DNA-binding protein [Bacteriovorax
          marinus SJ]
          Length = 189

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 27/71 (38%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  N+   N  +  +   I+  R     +Q++L E  GI    +   E G      S + 
Sbjct: 3  MSQNELDINAFNSYISHNIKFLRAKRNYTQKQLSEVSGIPRTTLTNIESGEGNPSLSNII 62

Query: 61 HISEVLESPIS 71
           +++ L   I 
Sbjct: 63 KLAKALNVSID 73


>gi|298482236|ref|ZP_07000423.1| DNA-binding protein [Bacteroides sp. D22]
 gi|298271523|gb|EFI13097.1| DNA-binding protein [Bacteroides sp. D22]
          Length = 159

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 31/140 (22%), Positives = 56/140 (40%), Gaps = 16/140 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G+ IR  R+   M+QE L E + ++   V KYEK    +    LQ  +  L  P  +
Sbjct: 11  VHHGRNIRRTRIEKNMNQEGLSELVHLSQPAVSKYEKMKV-IDDEMLQRFARALNVPFDY 69

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN----RYFI---------QIDDVKVRQKI 119
                      +  E N V D      G ++N    + +          ++++     KI
Sbjct: 70  L-KTLEEDAQTVVFENNTVNDSEQNTGGAKINIGTVKSYTEDTDSSNDNRVNNFNPIDKI 128

Query: 120 IELVRSIVSS-EKKYRTIEE 138
            EL   ++   ++KY  +E 
Sbjct: 129 TELYERLLKEKDEKYAALER 148


>gi|297623546|ref|YP_003704980.1| XRE family transcriptional regulator [Truepera radiovictrix DSM
          17093]
 gi|297164726|gb|ADI14437.1| transcriptional regulator, XRE family [Truepera radiovictrix DSM
          17093]
          Length = 187

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 3/72 (4%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++G R+R  R+  G + +++ E  G++   +   E G   V A RLQ ++ V    +S  
Sbjct: 5  HLGHRLRALRLAHGYTLQQVAERSGLSRSFLSMLENGRTNVSAVRLQKLAGVFGLGLS-- 62

Query: 74 FDVSPTVCSDIS 85
           D+ P       
Sbjct: 63 -DLLPNEGGQSG 73


>gi|257068924|ref|YP_003155179.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Brachybacterium faecium DSM 4810]
 gi|256559742|gb|ACU85589.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Brachybacterium faecium DSM 4810]
          Length = 517

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 27/69 (39%), Gaps = 2/69 (2%)

Query: 1  MVGNKKIPNPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
          M     +    D    +G  IR  R   G++Q +L   LG +   V + EKG   +    
Sbjct: 1  MSYGHDMTENEDYLSRIGTLIRDARQHSGLTQAQLASELGTSQSAVNRIEKGQQNLTLET 60

Query: 59 LQHISEVLE 67
          L  I   L+
Sbjct: 61 LSKIGSALD 69


>gi|228910327|ref|ZP_04074143.1| Transcriptional regulator, Xre [Bacillus thuringiensis IBL 200]
 gi|228849279|gb|EEM94117.1| Transcriptional regulator, Xre [Bacillus thuringiensis IBL 200]
          Length = 194

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/117 (22%), Positives = 47/117 (40%), Gaps = 11/117 (9%)

Query: 1   MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M  N+ +    V   VG+ +R  R    +S E+L    G++   + K E+G      + +
Sbjct: 5   MKENEDMQTKEVIQQVGQLLRQIRNEQKLSLEELAHKTGVSKLTLGKIERGETNPTLAVI 64

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMD---------FISTPD-GLQLNRY 106
             I++ L  P+S    V   V      E   V +         F  T + G++++R 
Sbjct: 65  WKITKGLSIPLSRLMVVGEPVAVARCGEGFAVDEGQAWHLETMFRYTKETGMEMHRA 121


>gi|228989826|ref|ZP_04149806.1| Transcriptional regulator [Bacillus pseudomycoides DSM 12442]
 gi|228996017|ref|ZP_04155672.1| Transcriptional regulator [Bacillus mycoides Rock3-17]
 gi|229003633|ref|ZP_04161448.1| Transcriptional regulator [Bacillus mycoides Rock1-4]
 gi|228757599|gb|EEM06829.1| Transcriptional regulator [Bacillus mycoides Rock1-4]
 gi|228763713|gb|EEM12605.1| Transcriptional regulator [Bacillus mycoides Rock3-17]
 gi|228769973|gb|EEM18556.1| Transcriptional regulator [Bacillus pseudomycoides DSM 12442]
          Length = 72

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+ L ++Q++L E +G+T Q +   EKG           I   +   ++  F
Sbjct: 10 SKIKVARVQLDLTQQQLAEKVGVTRQTISLIEKGKYNPSLDLCLKICYAVNQTLNDLF 67


>gi|254557574|ref|YP_003063991.1| transcription regulator [Lactobacillus plantarum JDM1]
 gi|300767504|ref|ZP_07077415.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ATCC 14917]
 gi|308181654|ref|YP_003925782.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ST-III]
 gi|254046501|gb|ACT63294.1| transcription regulator [Lactobacillus plantarum JDM1]
 gi|300494883|gb|EFK30040.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ATCC 14917]
 gi|308047145|gb|ADN99688.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ST-III]
          Length = 273

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 2/65 (3%)

Query: 11 VDIN-VGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLES 68
          +D   VG RI   R+  G+S  KL   +G+     +  +EKG     A RL  ++   + 
Sbjct: 3  IDKQQVGNRIHQLRIAAGLSMAKLASAIGLAGKSTINDWEKGRTLANADRLAKVAAYFDV 62

Query: 69 PISFF 73
            ++ 
Sbjct: 63 STNYL 67


>gi|297204985|ref|ZP_06922381.1| helix-turn-helix domain protein [Lactobacillus jensenii JV-V16]
 gi|297149563|gb|EFH29860.1| helix-turn-helix domain protein [Lactobacillus jensenii JV-V16]
          Length = 136

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R++  R    +SQE++   L I+ Q + K+E G +     +L  +S++    + + 
Sbjct: 6  ERLKNLREANNLSQEEVASRLKISRQSISKWELGDSIPDIEKLTELSKIYGVSLDYL 62


>gi|197117030|ref|YP_002137457.1| LexA-like helix-turn-helix transcriptional regulator [Geobacter
          bemidjiensis Bem]
 gi|197086390|gb|ACH37661.1| helix-turn-helix transcriptional regulator, LexA-related protein
          [Geobacter bemidjiensis Bem]
          Length = 209

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 1/77 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RI+  R+ LG++Q++    LGI    +   E G  R   + L  +S        +  D
Sbjct: 11 GVRIKKARLALGLTQKEFAASLGIVQGFLSGIETGRKRPSDTLLIALSHTFGINAQWLSD 70

Query: 76 VSPTV-CSDISSEENNV 91
           S     +   +E+ NV
Sbjct: 71 GSGESFKNQPGAEQPNV 87


>gi|126348447|emb|CAJ90170.1| putative regulatory protein [Streptomyces ambofaciens ATCC 23877]
          Length = 191

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/109 (21%), Positives = 40/109 (36%), Gaps = 11/109 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R    ++   L E  GI+   + + E G+ R     L  I++  + P+    
Sbjct: 11  VGPRLRQVRKEREVTLAALSETTGISVSTLSRLESGLRRPSLELLLPIAQAHQVPLDELV 70

Query: 75  DVSPTVCSDISSEENNVMD-----FISTPDGLQLNRYFIQIDDVKVRQK 118
              P     + ++               P GLQ    F  ++    R+K
Sbjct: 71  GAPPVGDPRVRAKPIERHGRTHWPLTRQPGGLQ---AFKVLEP---RRK 113


>gi|86739175|ref|YP_479575.1| XRE family transcriptional regulator [Frankia sp. CcI3]
 gi|86566037|gb|ABD09846.1| transcriptional regulator, XRE family [Frankia sp. CcI3]
          Length = 325

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 39/85 (45%), Gaps = 1/85 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            ++G  IR +R    +S  +L +  G++   + + E+G+ R  A  LQ I++ L      
Sbjct: 70  RDLGDFIRDQRHSAQISLRQLAKQAGVSNPYLSQIERGLRRPSAEILQQIAKALRISAEV 129

Query: 73  FFDVSPTVCSDISSEENNVMDFIST 97
            + V   +  +   EEN +   ++ 
Sbjct: 130 LY-VQAGILEERQGEENVMAAVLAD 153


>gi|206563935|ref|YP_002234698.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
 gi|198039975|emb|CAR55953.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
          Length = 185

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 30/61 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R    ++   L E +G +   + + E+G++R   + L  I E L  P ++F+ +S 
Sbjct: 14 IRDLRKHRKVTLNDLAERIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLSK 73

Query: 79 T 79
           
Sbjct: 74 P 74


>gi|323702873|ref|ZP_08114531.1| transcriptional regulator, XRE family [Desulfotomaculum
          nigrificans DSM 574]
 gi|323532131|gb|EGB22012.1| transcriptional regulator, XRE family [Desulfotomaculum
          nigrificans DSM 574]
          Length = 132

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 37/82 (45%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  +G+RIR  R  LG+S+E+  E +G++   V + E+G  ++    L  I   L   + 
Sbjct: 9  NKTIGQRIREEREKLGLSREEFAEIIGLSNYYVGQLERGERQMSLPVLVKIVNCLHVSLD 68

Query: 72 FFFDVSPTVCSDISSEENNVMD 93
          +         +   +E   V +
Sbjct: 69 YLIFGKDYQNAGNVNESQIVYE 90


>gi|323693267|ref|ZP_08107485.1| xre family Toxin-antitoxin system [Clostridium symbiosum
          WAL-14673]
 gi|323502750|gb|EGB18594.1| xre family Toxin-antitoxin system [Clostridium symbiosum
          WAL-14673]
          Length = 115

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 35/84 (41%), Gaps = 5/84 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   KK    +D  +G R++  R    ++ E+L E  G++ + +++ E   N     +L 
Sbjct: 1  MARKKK----IDKEMGFRLKQARTEQKLTYEELAEKSGVSSRYIKEIENHGNVPSLEKLG 56

Query: 61 HISEVLESPIS-FFFDVSPTVCSD 83
           +   L      FF+   P    D
Sbjct: 57 QLIRALHISADPFFYPTVPADNLD 80


>gi|299537075|ref|ZP_07050378.1| transcriptional regulator [Lysinibacillus fusiformis ZC1]
 gi|298727316|gb|EFI67888.1| transcriptional regulator [Lysinibacillus fusiformis ZC1]
          Length = 183

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 2/62 (3%)

Query: 11 VDI--NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +D+   VG  +R  R    MS E+L +   ++   + K E+G      + L  I   L  
Sbjct: 6  IDLSGQVGGNLREIRKSKRMSLEELAKVSNVSKLTLGKIERGETNPTVNILWKICRGLNI 65

Query: 69 PI 70
          P+
Sbjct: 66 PL 67


>gi|291009445|ref|ZP_06567418.1| XRE family transcriptional regulator [Saccharopolyspora erythraea
           NRRL 2338]
          Length = 190

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/112 (22%), Positives = 37/112 (33%), Gaps = 13/112 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G +   L +  GI    + + E G  R     L  I++  + P+    
Sbjct: 8   VGPRLRQIRRQRGCTLAALSKTTGIAVSTLSRLESGQRRPSLELLLPIAQAHQVPLDELV 67

Query: 75  DVSPTVCS-----DISSEENNVMDFISTPDGLQLNRYFIQI-----DDVKVR 116
              P          I   +  V+     P GLQ    F  I      +   R
Sbjct: 68  GAPPVGDPRVRLKPIRRGDMTVVPLTQQPGGLQ---AFKMIMGAGRSEPDPR 116


>gi|261822660|ref|YP_003260766.1| XRE family transcriptional regulator [Pectobacterium wasabiae
          WPP163]
 gi|261606673|gb|ACX89159.1| transcriptional regulator, XRE family [Pectobacterium wasabiae
          WPP163]
          Length = 154

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 28/62 (45%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   + I  G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++  L
Sbjct: 1  MKKSLRIQFGERVKELRIATGMSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLANAL 60

Query: 67 ES 68
            
Sbjct: 61 SV 62


>gi|228954773|ref|ZP_04116794.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
 gi|229072008|ref|ZP_04205218.1| Transcriptional regulator, Xre [Bacillus cereus F65185]
 gi|229081756|ref|ZP_04214249.1| Transcriptional regulator, Xre [Bacillus cereus Rock4-2]
 gi|229111966|ref|ZP_04241510.1| Transcriptional regulator, Xre [Bacillus cereus Rock1-15]
 gi|229152697|ref|ZP_04280884.1| Transcriptional regulator, Xre [Bacillus cereus m1550]
 gi|229180769|ref|ZP_04308107.1| Transcriptional regulator, Xre [Bacillus cereus 172560W]
 gi|229192702|ref|ZP_04319661.1| Transcriptional regulator, Xre [Bacillus cereus ATCC 10876]
 gi|228590792|gb|EEK48652.1| Transcriptional regulator, Xre [Bacillus cereus ATCC 10876]
 gi|228602747|gb|EEK60230.1| Transcriptional regulator, Xre [Bacillus cereus 172560W]
 gi|228630760|gb|EEK87402.1| Transcriptional regulator, Xre [Bacillus cereus m1550]
 gi|228671530|gb|EEL26830.1| Transcriptional regulator, Xre [Bacillus cereus Rock1-15]
 gi|228701601|gb|EEL54094.1| Transcriptional regulator, Xre [Bacillus cereus Rock4-2]
 gi|228711167|gb|EEL63132.1| Transcriptional regulator, Xre [Bacillus cereus F65185]
 gi|228804893|gb|EEM51491.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
          Length = 194

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/117 (22%), Positives = 47/117 (40%), Gaps = 11/117 (9%)

Query: 1   MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M  N+ +    V   VG+ +R  R    +S E+L    G++   + K E+G      + +
Sbjct: 5   MKENEDMQTKEVIQQVGQLLRQIRNEQKLSLEELAHKTGVSKLTLGKIERGETNPTLAVI 64

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMD---------FISTPD-GLQLNRY 106
             I++ L  P+S    V   V      E   V +         F  T + G++++R 
Sbjct: 65  WKITKGLSIPLSRLMVVGEPVAVARCGEGFAVDEGQAWHLETMFRYTKETGMEMHRA 121


>gi|228955292|ref|ZP_04117300.1| hypothetical protein bthur0006_46500 [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
 gi|228961271|ref|ZP_04122890.1| hypothetical protein bthur0005_47190 [Bacillus thuringiensis
          serovar pakistani str. T13001]
 gi|229049716|ref|ZP_04194273.1| hypothetical protein bcere0027_46740 [Bacillus cereus AH676]
 gi|229072514|ref|ZP_04205716.1| hypothetical protein bcere0025_46750 [Bacillus cereus F65185]
 gi|229082273|ref|ZP_04214736.1| hypothetical protein bcere0023_48900 [Bacillus cereus Rock4-2]
 gi|229112472|ref|ZP_04242009.1| hypothetical protein bcere0018_47120 [Bacillus cereus Rock1-15]
 gi|229130284|ref|ZP_04259243.1| hypothetical protein bcere0015_47200 [Bacillus cereus BDRD-Cer4]
 gi|229142358|ref|ZP_04270877.1| hypothetical protein bcere0013_54400 [Bacillus cereus BDRD-ST26]
 gi|229147576|ref|ZP_04275921.1| hypothetical protein bcere0012_47030 [Bacillus cereus BDRD-ST24]
 gi|229153219|ref|ZP_04281398.1| hypothetical protein bcere0011_47490 [Bacillus cereus m1550]
 gi|229181321|ref|ZP_04308651.1| hypothetical protein bcere0005_46630 [Bacillus cereus 172560W]
 gi|229193309|ref|ZP_04320259.1| hypothetical protein bcere0002_49550 [Bacillus cereus ATCC 10876]
 gi|228590110|gb|EEK47979.1| hypothetical protein bcere0002_49550 [Bacillus cereus ATCC 10876]
 gi|228602214|gb|EEK59705.1| hypothetical protein bcere0005_46630 [Bacillus cereus 172560W]
 gi|228630318|gb|EEK86968.1| hypothetical protein bcere0011_47490 [Bacillus cereus m1550]
 gi|228635866|gb|EEK92351.1| hypothetical protein bcere0012_47030 [Bacillus cereus BDRD-ST24]
 gi|228641128|gb|EEK97440.1| hypothetical protein bcere0013_54400 [Bacillus cereus BDRD-ST26]
 gi|228653217|gb|EEL09096.1| hypothetical protein bcere0015_47200 [Bacillus cereus BDRD-Cer4]
 gi|228670852|gb|EEL26159.1| hypothetical protein bcere0018_47120 [Bacillus cereus Rock1-15]
 gi|228700705|gb|EEL53228.1| hypothetical protein bcere0023_48900 [Bacillus cereus Rock4-2]
 gi|228710490|gb|EEL62463.1| hypothetical protein bcere0025_46750 [Bacillus cereus F65185]
 gi|228722629|gb|EEL74017.1| hypothetical protein bcere0027_46740 [Bacillus cereus AH676]
 gi|228798392|gb|EEM45386.1| hypothetical protein bthur0005_47190 [Bacillus thuringiensis
          serovar pakistani str. T13001]
 gi|228804425|gb|EEM51036.1| hypothetical protein bthur0006_46500 [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
          Length = 79

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 30/72 (41%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+++   P+ 
Sbjct: 6  DMKLQNRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAQIFNVPVE 65

Query: 72 FFFDVSPTVCSD 83
            F +      D
Sbjct: 66 EIFTLVEGEEDD 77


>gi|222112401|ref|YP_002554665.1| XRE family transcriptional regulator [Acidovorax ebreus TPSY]
 gi|221731845|gb|ACM34665.1| transcriptional regulator, XRE family [Acidovorax ebreus TPSY]
          Length = 113

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 47/108 (43%), Gaps = 16/108 (14%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFFF 74
           G R+R  R    ++ +++ + +G T   + + E K   R  A R+Q I++VL   ++   
Sbjct: 6   GVRLRRLREAKKLTLQQVADAVGCTKAYIWELEMKDGQRPSAERIQAIAKVLGVTMA--- 62

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD---VKVRQKI 119
           DV      ++           ++P+ +   R +  + D    + RQ +
Sbjct: 63  DVMGEPIKEVPQ---------ASPEDVAFFREYAGMTDEEKDRYRQAL 101


>gi|194447862|ref|YP_002046706.1| XRE family transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Heidelberg str. SL476]
 gi|205359443|ref|ZP_02670069.2| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Heidelberg str. SL486]
 gi|194406166|gb|ACF66385.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Heidelberg str. SL476]
 gi|205336086|gb|EDZ22850.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Heidelberg str. SL486]
          Length = 96

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 36/72 (50%), Gaps = 4/72 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR+++ R+   ++Q +LG   G+       ++  YEK V+      +  ++  L+ P 
Sbjct: 2  IGKRLKISRVRADLTQAELGALAGLDEESASARISSYEKEVHAPDFKLVCKLAAALDVPE 61

Query: 71 SFFFDVSPTVCS 82
          ++F+ V   +  
Sbjct: 62 AYFYAVDDELAE 73


>gi|29171513|ref|NP_808697.1| PbsX family transcriptional regulator [Pseudomonas syringae pv.
           tomato str. DC3000]
 gi|28856006|gb|AAO59063.1| transcriptional regulator, PbsX family [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 111

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/98 (23%), Positives = 37/98 (37%), Gaps = 4/98 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG +I+  R    +SQ  L E +G     V +YE+G    G  +L  I+ V         
Sbjct: 2   VGAKIKALRKSTTLSQADLAEMIGCDAPLVSRYERGSTLPGIEQLIRIATVFNVAPGELL 61

Query: 75  DVSPTVCS----DISSEENNVMDFISTPDGLQLNRYFI 108
                V       +  E    +  + +P+ L+    FI
Sbjct: 62  PGGQDVLRTRLLSLRQEITERIAEVDSPEYLEEMLNFI 99


>gi|78186413|ref|YP_374456.1| XRE family transcriptional regulator [Chlorobium luteolum DSM
          273]
 gi|78166315|gb|ABB23413.1| transcriptional regulator, XRE family [Chlorobium luteolum DSM
          273]
          Length = 205

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 32/80 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G+RI+  R   G+SQE+L   + +    V K E G   V    L   +E L   +   
Sbjct: 5  NIGQRIKELRGQKGLSQEELARRIAMPRTAVTKIESGSQEVRFRELAKFAEALGISLGTL 64

Query: 74 FDVSPTVCSDISSEENNVMD 93
           +    V   +      V D
Sbjct: 65 LEERRPVRESVEDAFLRVSD 84


>gi|58337201|ref|YP_193786.1| transcriptional regulator [Lactobacillus acidophilus NCFM]
 gi|227903784|ref|ZP_04021589.1| transcriptional regulator [Lactobacillus acidophilus ATCC 4796]
 gi|58254518|gb|AAV42755.1| putative transcriptional regulator [Lactobacillus acidophilus
          NCFM]
 gi|227868671|gb|EEJ76092.1| transcriptional regulator [Lactobacillus acidophilus ATCC 4796]
          Length = 112

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 30/66 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++I   R    M+Q +L +  GI    + K EKG  +V +  L+ I+  L        D+
Sbjct: 9  QKITNYREAQDMTQAELADKSGIERTALNKIEKGTRKVSSDELKAIALALNISADTLLDL 68

Query: 77 SPTVCS 82
          + +  +
Sbjct: 69 NGSELT 74


>gi|37528296|ref|NP_931641.1| hypothetical protein plu4475 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36787734|emb|CAE16847.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 87

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+  G+SQE+LG   GI       ++ +YE+G++         ++ VL  P  +F
Sbjct: 5  RLKAARLKAGLSQERLGILAGIDEATASARMNQYERGIHTPDFELACRLASVLHVPACYF 64

Query: 74 FDVSPTVCS 82
          + V   +  
Sbjct: 65 YAVEDDLAE 73


>gi|107027170|ref|YP_624681.1| XRE family transcriptional regulator [Burkholderia cenocepacia AU
           1054]
 gi|116691438|ref|YP_836971.1| XRE family transcriptional regulator [Burkholderia cenocepacia
           HI2424]
 gi|105896544|gb|ABF79708.1| transcriptional regulator, XRE family [Burkholderia cenocepacia AU
           1054]
 gi|116649438|gb|ABK10078.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
           HI2424]
          Length = 123

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/109 (21%), Positives = 46/109 (42%), Gaps = 12/109 (11%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R  L M+Q + GE  G+  Q    YE+G     AS L  ++E+    + +     
Sbjct: 7   RLKQERRRLQMNQAEFGEAGGVRKQAQSNYEQGSRIPDASYLTRLAEI-GVDVQYLLTGR 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           P+    ++   +  +          L   F ++   + R+ ++ LV +I
Sbjct: 66  PSDPGTLALTGDEEL----------LLAGFRELK-PRERRGVLALVAAI 103


>gi|325956739|ref|YP_004292151.1| Cro/CI family transcriptional regulator [Lactobacillus acidophilus
           30SC]
 gi|325333304|gb|ADZ07212.1| Cro/CI family transcriptional regulator [Lactobacillus acidophilus
           30SC]
          Length = 187

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/105 (19%), Positives = 42/105 (40%), Gaps = 3/105 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R+    + E + E +GI   Q +KYE G  +        ++     P+++   V
Sbjct: 2   NRLKKVRLERNYTLEDIEEKIGIDRAQYEKYENGDEKPTLGMWLKLAVYFNVPVAYLQGV 61

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           S     +I  +       +  PD       FI I   +++  +++
Sbjct: 62  SKIKDINILMDSQKFAKAVGVPDVDP---RFINIPKNEMKAAVLQ 103


>gi|319938878|ref|ZP_08013242.1| transcriptional regulator [Streptococcus anginosus 1_2_62CV]
 gi|319811928|gb|EFW08194.1| transcriptional regulator [Streptococcus anginosus 1_2_62CV]
          Length = 158

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGDNIKSLRKTHDLTQPEFAKIVGISRNSLSRYENGTSSVSTELIDRICQKFNVS 56


>gi|257874864|ref|ZP_05654517.1| conserved hypothetical protein [Enterococcus casseliflavus EC20]
 gi|257809030|gb|EEV37850.1| conserved hypothetical protein [Enterococcus casseliflavus EC20]
          Length = 86

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/60 (18%), Positives = 29/60 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  ++   R++  ++Q++L + +G++ Q +   EKG           ++ V +  I+  F
Sbjct: 16 IANKVYEYRVLARLTQQELADKVGVSKQTIFVMEKGNYTPTLLLAYRLANVFQVDITDLF 75


>gi|224536634|ref|ZP_03677173.1| hypothetical protein BACCELL_01510 [Bacteroides cellulosilyticus
           DSM 14838]
 gi|224521725|gb|EEF90830.1| hypothetical protein BACCELL_01510 [Bacteroides cellulosilyticus
           DSM 14838]
          Length = 130

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/110 (24%), Positives = 52/110 (47%), Gaps = 10/110 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +   +   VG+R++L RM   ++QE++GE L ++     K E G   +  +RL  I+EV+
Sbjct: 1   METDLKKIVGQRLQLLRMEKNLTQEQMGEKLNLSTSAYCKIEYGETDLTLTRLNKIAEVM 60

Query: 67  ESP-ISFF--------FDVSPTVCSDISSEEN-NVMDFISTPDGLQLNRY 106
               I  F        F+ S T+ + I    + + +   ++ D  +L + 
Sbjct: 61  NMSAIDLFRKIDGNSYFNNSSTIGTSIGIARDCSTIKIEASEDLRELIKA 110


>gi|182418405|ref|ZP_02949699.1| helix-turn-helix domain protein [Clostridium butyricum 5521]
 gi|237666621|ref|ZP_04526606.1| helix-turn-helix domain protein [Clostridium butyricum E4 str.
          BoNT E BL5262]
 gi|182377787|gb|EDT75331.1| helix-turn-helix domain protein [Clostridium butyricum 5521]
 gi|237657820|gb|EEP55375.1| helix-turn-helix domain protein [Clostridium butyricum E4 str.
          BoNT E BL5262]
          Length = 435

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 34/71 (47%), Gaps = 1/71 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ + L +   IT  Q+   E G +      L++++  L + + +  
Sbjct: 6  LGEKIKRRRKQLNMTLKDLAKD-RITPGQISLVESGRSNPSVDLLEYLASTLNTTVEYLM 64

Query: 75 DVSPTVCSDIS 85
          +   +    IS
Sbjct: 65 ESEESQAEKIS 75


>gi|160883371|ref|ZP_02064374.1| hypothetical protein BACOVA_01340 [Bacteroides ovatus ATCC 8483]
 gi|260172676|ref|ZP_05759088.1| hypothetical protein BacD2_12486 [Bacteroides sp. D2]
 gi|156111091|gb|EDO12836.1| hypothetical protein BACOVA_01340 [Bacteroides ovatus ATCC 8483]
          Length = 116

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +G+ I+  R    ++QE+LGE +G+   Q+ K E G + +  S +    + +  
Sbjct: 48  IGEAIKRAREAKNLTQEQLGELMGVKRAQISKIESGKS-ISFSTIVRAFKAMGV 100


>gi|145641622|ref|ZP_01797199.1| possible transcriptional regulator [Haemophilus influenzae R3021]
 gi|145273669|gb|EDK13538.1| possible transcriptional regulator [Haemophilus influenzae
          22.4-21]
          Length = 127

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +IR+ R +  +SQE + E + ++     K E+G  R+   +L  I+++    +S   D  
Sbjct: 6  KIRMMRELRQLSQEDMAEKMNMSPSGYAKIERGETRLQYDKLVQIAQIFNVSLSDLVDND 65

Query: 78 PTV 80
            V
Sbjct: 66 KGV 68


>gi|327441857|dbj|BAK18222.1| predicted transcriptional regulator [Solibacillus silvestris
          StLB046]
          Length = 368

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 29/63 (46%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
           RR  L ++QE++   +G++   V K+EKG +    + L  ++      I       P +
Sbjct: 12 ERRKQLQVTQEEIARHVGVSRAAVSKWEKGQSYPDIALLPKLATFFNISIDALLGYEPQL 71

Query: 81 CSD 83
           ++
Sbjct: 72 TNE 74


>gi|323481376|gb|ADX80815.1| helix-turn-helix family protein [Enterococcus faecalis 62]
          Length = 71

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G SQ +L + + +T Q +  ++ G       +++ +SE+L  PI+  F
Sbjct: 5  SNLSRYRKEKGFSQTELAKKMNVTQQCISSWQTGRTIPKPYQMKMLSEILSVPINELF 62


>gi|319936268|ref|ZP_08010686.1| hypothetical protein HMPREF9488_01518 [Coprobacillus sp. 29_1]
 gi|319808644|gb|EFW05188.1| hypothetical protein HMPREF9488_01518 [Coprobacillus sp. 29_1]
          Length = 212

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 26/57 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          K++   R     +Q+ L + LGI+ + + ++E   +      L  I+++    I + 
Sbjct: 8  KKLISLRKKYNFTQQDLADKLGISNKTISRWETSESYPDIDLLPKIADIFHVSIDYL 64


>gi|315925034|ref|ZP_07921251.1| LexA repressor 1 [Pseudoramibacter alactolyticus ATCC 23263]
 gi|315621933|gb|EFV01897.1| LexA repressor 1 [Pseudoramibacter alactolyticus ATCC 23263]
          Length = 219

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 3/59 (5%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLES 68
          +D+   K I+ RR  L +SQ KL E +G T    + K E G   +  S++  I+E L +
Sbjct: 2  IDLY--KNIKKRRQELKISQSKLAELVGYTNRSSIAKIEAGKIDLPQSKIVEIAEALRT 58


>gi|311105237|ref|YP_003978090.1| hypothetical protein AXYL_02046 [Achromobacter xylosoxidans A8]
 gi|310759926|gb|ADP15375.1| helix-turn-helix family protein 5 [Achromobacter xylosoxidans A8]
          Length = 245

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 26/62 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  IR RR  LG +   L   +G     V + E+G        L  I+  L  P+  
Sbjct: 29 MSLGDNIRQRRKALGWTILDLANRIGSDVGNVSRLERGKQGYSDEILAKIAAALGCPVGE 88

Query: 73 FF 74
           F
Sbjct: 89 LF 90


>gi|265764159|ref|ZP_06092727.1| conserved hypothetical protein [Bacteroides sp. 2_1_16]
 gi|263256767|gb|EEZ28113.1| conserved hypothetical protein [Bacteroides sp. 2_1_16]
 gi|301163497|emb|CBW23048.1| putative DNA binding protein [Bacteroides fragilis 638R]
          Length = 103

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 26/53 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G+ +R RR  L ++Q++L E +G     + + EKG   +  S    I+  L  
Sbjct: 44 GEILRDRRKQLKITQQELAEKVGTARSYIARVEKGETDIQISSFFRIARALGI 96


>gi|226322382|ref|ZP_03797900.1| hypothetical protein COPCOM_00150 [Coprococcus comes ATCC 27758]
 gi|225209240|gb|EEG91594.1| hypothetical protein COPCOM_00150 [Coprococcus comes ATCC 27758]
 gi|295108685|emb|CBL22638.1| Helix-turn-helix. [Ruminococcus obeum A2-162]
          Length = 209

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            +G R + RR+ L ++Q  + E +G+T   + +YE G        +   +SE L   I 
Sbjct: 8  KLIGSRAKQRRLELNLTQPYVAEKMGVTASTILRYENGSIDNTKKMVLEGLSEALHVSIE 67

Query: 72 FFFDVSPTVCSDISSEEN 89
          +    +    +DI+ ++ 
Sbjct: 68 WLRGETNEYETDITDKKE 85


>gi|239626675|ref|ZP_04669706.1| transcriptional regulator [Clostridiales bacterium 1_7_47_FAA]
 gi|239516821|gb|EEQ56687.1| transcriptional regulator [Clostridiales bacterium 1_7_47FAA]
          Length = 194

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 30/59 (50%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ +GK I   R    M+Q +L   + I+ + V K+E+G+     S L  +S++    +
Sbjct: 3  NVKIGKLIYQLRKENRMTQLQLANQMNISDKAVSKWERGLGCPELSLLPELSKIFNVDL 61


>gi|94968170|ref|YP_590218.1| XRE family transcriptional regulator [Candidatus Koribacter
          versatilis Ellin345]
 gi|94550220|gb|ABF40144.1| transcriptional regulator, XRE family [Candidatus Koribacter
          versatilis Ellin345]
          Length = 74

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 31/63 (49%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + + + VGKRIR  R+  G +Q  +   L I    +   E+G    G   LQ I+  L++
Sbjct: 6  HALLLAVGKRIRALRIQKGWTQTDMAVYLDINRGHISDIERGKREAGLITLQIIARGLDT 65

Query: 69 PIS 71
           ++
Sbjct: 66 TMA 68


>gi|322385349|ref|ZP_08058994.1| transcriptional regulator [Streptococcus cristatus ATCC 51100]
 gi|321270608|gb|EFX53523.1| transcriptional regulator [Streptococcus cristatus ATCC 51100]
          Length = 158

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQPEFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|317494163|ref|ZP_07952579.1| hypothetical protein HMPREF0864_03348 [Enterobacteriaceae
          bacterium 9_2_54FAA]
 gi|316917936|gb|EFV39279.1| hypothetical protein HMPREF0864_03348 [Enterobacteriaceae
          bacterium 9_2_54FAA]
          Length = 154

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 26/56 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          I  G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++  L  
Sbjct: 7  IQFGERVKELRIATGMSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLAGALNV 62


>gi|294632875|ref|ZP_06711434.1| DNA-binding protein [Streptomyces sp. e14]
 gi|292830656|gb|EFF89006.1| DNA-binding protein [Streptomyces sp. e14]
          Length = 190

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/93 (24%), Positives = 42/93 (45%), Gaps = 3/93 (3%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+P  + VG  IR  R  LG+   +L    G++   + + E+G+     + +  I++ L 
Sbjct: 6   PSPEALAVGSVIRGHRRRLGVPMAELAARSGLSQPFLSQLERGLTTPSLASIYKIADALS 65

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
            P   F  + P+  SD  + E +    I   +G
Sbjct: 66  LPPGIF--LRPSSTSDTVAHEEDP-QVIRVTEG 95


>gi|257890009|ref|ZP_05669662.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,410]
 gi|260560174|ref|ZP_05832351.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          C68]
 gi|257826369|gb|EEV52995.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,410]
 gi|260073741|gb|EEW62066.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          C68]
          Length = 87

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G+SQ +L + + +T Q V  ++ G       +++ +SE+L  PI+  F
Sbjct: 21 SNLSRYRKEKGLSQTELAKKMNVTQQCVSSWQTGRTIPKPYQMKMLSEILSVPINELF 78


>gi|239626415|ref|ZP_04669446.1| conserved hypothetical protein [Clostridiales bacterium
          1_7_47_FAA]
 gi|239516561|gb|EEQ56427.1| conserved hypothetical protein [Clostridiales bacterium
          1_7_47FAA]
          Length = 146

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++  R+   ++Q+++ E L +T Q V ++E G +      L+ IS   +  I+
Sbjct: 7  LKNIRVKNKLTQDEMAERLSVTRQAVSRWENGDSTPNIETLKQISIAFDVSIN 59


>gi|189405314|ref|ZP_02814730.2| regulatory protein [Escherichia coli O157:H7 str. EC869]
 gi|261223695|ref|ZP_05937976.1| putative transcriptional regulator from phage origin [Escherichia
          coli O157:H7 str. FRIK2000]
 gi|261255895|ref|ZP_05948428.1| putative transcriptional regulator from phage origin [Escherichia
          coli O157:H7 str. FRIK966]
 gi|300817229|ref|ZP_07097447.1| peptidase S24-like domain protein [Escherichia coli MS 107-1]
 gi|331680492|ref|ZP_08381151.1| regulatory protein [Escherichia coli H591]
 gi|331681931|ref|ZP_08382564.1| regulatory protein [Escherichia coli H299]
 gi|189370740|gb|EDU89156.1| regulatory protein [Escherichia coli O157:H7 str. EC869]
 gi|300530205|gb|EFK51267.1| peptidase S24-like domain protein [Escherichia coli MS 107-1]
 gi|309700480|emb|CBI99774.1| putative cI regulatory protein [Escherichia coli ETEC H10407]
 gi|331071955|gb|EGI43291.1| regulatory protein [Escherichia coli H591]
 gi|331081133|gb|EGI52298.1| regulatory protein [Escherichia coli H299]
          Length = 230

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M    L E +G+    + + E G  +      L +I++ L   I+
Sbjct: 1  MNIGNRVRQLRQAKNMKIADLAEAIGVDAANISRLETGKQKQFTEQTLSNIAKSLGVDIA 60

Query: 72 FFF 74
            F
Sbjct: 61 DLF 63


>gi|163856318|ref|YP_001630616.1| transcriptional regulator [Bordetella petrii DSM 12804]
 gi|163260046|emb|CAP42347.1| predicted transcriptional regulator [Bordetella petrii]
          Length = 219

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 10/76 (13%), Positives = 32/76 (42%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  +G+++R  R   G+S  ++ +  GI+   + + E+G++      +  ++      +
Sbjct: 28  IDFWLGQQLRQLRKQHGLSLMQVAKACGISVGLLSQVERGLSSPSVKIVTLLAGQFGVSV 87

Query: 71  SFFFDVSPTVCSDISS 86
                 +     + + 
Sbjct: 88  DSLLRGTGQGGGEAAG 103


>gi|127514555|ref|YP_001095752.1| XRE family transcriptional regulator [Shewanella loihica PV-4]
 gi|126639850|gb|ABO25493.1| transcriptional regulator, XRE family [Shewanella loihica PV-4]
          Length = 65

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 23/63 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R     +Q  L   L ++ Q +   EKG           I+ + + PI   F+ 
Sbjct: 3  NRLKPLRAERNWTQADLAGLLDVSRQTINAIEKGKYDPSLPLAFKIARLFQLPIEAIFEE 62

Query: 77 SPT 79
             
Sbjct: 63 DEA 65


>gi|330890890|gb|EGH23551.1| DNA-binding protein [Pseudomonas syringae pv. mori str. 301020]
          Length = 199

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 11/101 (10%)

Query: 8   PNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  + +
Sbjct: 5   PHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRLCD 64

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           VL  P+S  F       S            +   +GL++ R
Sbjct: 65  VLGMPMSKLFSQYDQQGSSAL--------LVRADEGLEVVR 97


>gi|330467774|ref|YP_004405517.1| XRE family transcriptional regulator [Verrucosispora maris
          AB-18-032]
 gi|328810745|gb|AEB44917.1| transcriptional regulator, XRE family protein [Verrucosispora
          maris AB-18-032]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 30/71 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R+R  R    M+  +L     ++   + + E G      S L+ +++V ++ I+  F
Sbjct: 2  LGDRLRDLRQQHSMTLRQLATAADVSPALLSQIENGATDPSLSTLRKLAQVFDTSIAELF 61

Query: 75 DVSPTVCSDIS 85
                   +S
Sbjct: 62 SEPEAPAVHLS 72


>gi|313898840|ref|ZP_07832374.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956422|gb|EFR38056.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 150

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/83 (16%), Positives = 39/83 (46%), Gaps = 2/83 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  +   R   G+SQE++ E +G++ Q + K+E         + + ++++    +  
Sbjct: 1  MNLGNSLFHARKKSGLSQEEVAEKIGVSRQTISKWETNETVPDIYQSKKMAKLYRISLDE 60

Query: 73 F--FDVSPTVCSDISSEENNVMD 93
             FD+      ++  + +  ++
Sbjct: 61 LIEFDIDLQEIEEMIDKSDEKLN 83


>gi|307708405|ref|ZP_07644871.1| conserved domain protein [Streptococcus mitis NCTC 12261]
 gi|307615504|gb|EFN94711.1| conserved domain protein [Streptococcus mitis NCTC 12261]
          Length = 69

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+ L ++Q +L E +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 6  KLKLARVELDLTQGQLAEAVGVTRQTIGLIEAGKYNPSLSLCQSICRCLGKTLDQLF 62


>gi|302532682|ref|ZP_07285024.1| transcriptional regulator [Streptomyces sp. C]
 gi|302441577|gb|EFL13393.1| transcriptional regulator [Streptomyces sp. C]
          Length = 191

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 1/83 (1%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P P  I VG+ IR  R    +S   L    G++   + + E+G+     S +  I+E L+
Sbjct: 6  PTPEAIEVGRAIRECRTARRVSMAVLAARSGLSQPFLSQLERGLATPSLSSIYRIAEALD 65

Query: 68 SPISFFFDVSPTVCSDISSEENN 90
               F    P     +S E + 
Sbjct: 66 VAPGTFLR-PPGRPGVVSHESDP 87


>gi|295703244|ref|YP_003596319.1| HTH-type transcriptional regulator SinR [Bacillus megaterium DSM
          319]
 gi|294800903|gb|ADF37969.1| HTH-type transcriptional regulator sinR [Bacillus megaterium DSM
          319]
          Length = 120

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 1/83 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+RI+  R+    S  +L E   I+   + + EKG N       L  I+  L + I + 
Sbjct: 2  IGERIKEIRLRKHYSITRLAEEAQISKSYLSQIEKGANTNPSLQMLYKIAASLGTTIDYL 61

Query: 74 FDVSPTVCSDISSEENNVMDFIS 96
           D      ++  S      +++S
Sbjct: 62 IDEKTDGVTNKESAPYITEEWLS 84


>gi|260664469|ref|ZP_05865321.1| transcriptional regulator [Lactobacillus jensenii SJ-7A-US]
 gi|260561534|gb|EEX27506.1| transcriptional regulator [Lactobacillus jensenii SJ-7A-US]
          Length = 76

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 31/60 (51%), Gaps = 1/60 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESP 69
          +D+ +G  IR RR  + ++QE L E  G++   + + E+ G   +   ++  I++ L   
Sbjct: 1  MDMCLGAVIRDRRKAMKLTQEDLAEFSGLSVNFISRIERTGDQNISIKKIDAIAQSLNMD 60


>gi|291298297|ref|YP_003509575.1| XRE family transcriptional regulator [Stackebrandtia nassauensis
          DSM 44728]
 gi|290567517|gb|ADD40482.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis
          DSM 44728]
          Length = 262

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 29/55 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+ IR  R    ++Q++L    G++ + +   E G +R  AS +  + E L+ P+
Sbjct: 14 GELIRHWRGQRHLTQQQLSIRCGVSTRHLSFIETGRSRPTASMILRVCEELDVPL 68


>gi|229016024|ref|ZP_04172980.1| Transcriptional regulator [Bacillus cereus AH1273]
 gi|229022243|ref|ZP_04178788.1| Transcriptional regulator [Bacillus cereus AH1272]
 gi|228739046|gb|EEL89497.1| Transcriptional regulator [Bacillus cereus AH1272]
 gi|228745257|gb|EEL95303.1| Transcriptional regulator [Bacillus cereus AH1273]
          Length = 66

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+ L ++Q++L E +G+T Q +   EKG           I   +   ++  F
Sbjct: 4  SKIKVARVQLDLTQQQLAEKVGVTRQTISLIEKGKYNPSLDLCLKICYAVNKTLNDLF 61


>gi|296125780|ref|YP_003633032.1| XRE family transcriptional regulator [Brachyspira murdochii DSM
          12563]
 gi|296017596|gb|ADG70833.1| transcriptional regulator, XRE family [Brachyspira murdochii DSM
          12563]
          Length = 139

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 29/60 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGK IR  R     +  ++ E  GI+ + +Q  E G   +  + L  I++ L  PI+  F
Sbjct: 39 VGKNIRAIRKSQMKTISEIAEVSGISSKYLQSVEVGKRNISITNLNKIAKTLNVPIAVLF 98


>gi|183598576|ref|ZP_02960069.1| hypothetical protein PROSTU_01973 [Providencia stuartii ATCC
          25827]
 gi|188020752|gb|EDU58792.1| hypothetical protein PROSTU_01973 [Providencia stuartii ATCC
          25827]
          Length = 110

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 27/62 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  +R  R    +S  +L   + ++ QQ+ +YE GV  +    L  I    +  +  FF
Sbjct: 25 VGIELRKLRKSYSLSGRELAGIMNVSQQQISRYECGVCAIPTDVLIIILGFFKITLFEFF 84

Query: 75 DV 76
            
Sbjct: 85 KG 86


>gi|167590295|ref|ZP_02382683.1| transcriptional regulator, XRE family protein [Burkholderia
          ubonensis Bu]
          Length = 185

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 30/61 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R    ++  +L + +G +   + + E+G++R   + L  I E L  P ++F+ +  
Sbjct: 14 IRDLRKHRKVTLNELADRIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLDK 73

Query: 79 T 79
           
Sbjct: 74 P 74


>gi|149004216|ref|ZP_01829008.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP14-BS69]
 gi|149012995|ref|ZP_01833884.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP19-BS75]
 gi|149019646|ref|ZP_01834965.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP23-BS72]
 gi|225856698|ref|YP_002738209.1| helix-turn-helix domain protein [Streptococcus pneumoniae P1031]
 gi|303255604|ref|ZP_07341655.1| transcriptional regulator [Streptococcus pneumoniae BS455]
 gi|303260497|ref|ZP_07346465.1| hypothetical protein CGSSp9vBS293_00385 [Streptococcus pneumoniae
          SP-BS293]
 gi|303262854|ref|ZP_07348791.1| hypothetical protein CGSSp14BS292_00280 [Streptococcus pneumoniae
          SP14-BS292]
 gi|303265324|ref|ZP_07351234.1| hypothetical protein CGSSpBS397_00505 [Streptococcus pneumoniae
          BS397]
 gi|303266531|ref|ZP_07352418.1| hypothetical protein CGSSpBS457_06420 [Streptococcus pneumoniae
          BS457]
 gi|303268350|ref|ZP_07354146.1| hypothetical protein CGSSpBS458_03609 [Streptococcus pneumoniae
          BS458]
 gi|147757811|gb|EDK64823.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP14-BS69]
 gi|147763148|gb|EDK70089.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP19-BS75]
 gi|147931021|gb|EDK82001.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP23-BS72]
 gi|225726271|gb|ACO22123.1| helix-turn-helix domain protein [Streptococcus pneumoniae P1031]
 gi|301801880|emb|CBW34601.1| putative DNA-binding protein [Streptococcus pneumoniae INV200]
 gi|302597460|gb|EFL64555.1| transcriptional regulator [Streptococcus pneumoniae BS455]
 gi|302636052|gb|EFL66550.1| hypothetical protein CGSSp14BS292_00280 [Streptococcus pneumoniae
          SP14-BS292]
 gi|302638409|gb|EFL68876.1| hypothetical protein CGSSpBS293_00385 [Streptococcus pneumoniae
          SP-BS293]
 gi|302642071|gb|EFL72422.1| hypothetical protein CGSSpBS458_03609 [Streptococcus pneumoniae
          BS458]
 gi|302643982|gb|EFL74242.1| hypothetical protein CGSSpBS457_06420 [Streptococcus pneumoniae
          BS457]
 gi|302645189|gb|EFL75426.1| hypothetical protein CGSSpBS397_00505 [Streptococcus pneumoniae
          BS397]
          Length = 158

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQPEFARIIGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|126654396|ref|ZP_01726142.1| predicted transcription regulator, containing DNA-binding HTH
          domain [Bacillus sp. B14905]
 gi|126589164|gb|EAZ83345.1| predicted transcription regulator, containing DNA-binding HTH
          domain [Bacillus sp. B14905]
          Length = 68

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 22/52 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           RIR  R    ++QE L + +G++ Q +   E G          +IS+    
Sbjct: 3  NRIRELRKSKKITQEDLSKVVGVSRQSIIAIESGKFNPSLELAYNISKAFNC 54


>gi|186472983|ref|YP_001860325.1| XRE family transcriptional regulator [Burkholderia phymatum STM815]
 gi|184195315|gb|ACC73279.1| transcriptional regulator, XRE family [Burkholderia phymatum
           STM815]
          Length = 204

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/77 (14%), Positives = 27/77 (35%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++I+  R    M+ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 27  VGEQIQRLRNERKMTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGVSLDSLF 86

Query: 75  DVSPTVCSDISSEENNV 91
                      S  + +
Sbjct: 87  APQKAPDPIAVSGPHEI 103


>gi|28379435|ref|NP_786327.1| transcription regulator [Lactobacillus plantarum WCFS1]
 gi|28272274|emb|CAD65187.1| transcription regulator [Lactobacillus plantarum WCFS1]
          Length = 273

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 2/65 (3%)

Query: 11 VDIN-VGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLES 68
          +D   VG RI   R+  G+S  KL   +G+     +  +EKG     A RL  ++   + 
Sbjct: 3  IDKQQVGNRIHQLRIAAGLSMAKLASAIGLAGKSTINDWEKGRTLANADRLAKVAAYFDV 62

Query: 69 PISFF 73
            ++ 
Sbjct: 63 STNYL 67


>gi|327473429|gb|EGF18849.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK408]
          Length = 225

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 34/63 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR+ L ++Q  + + LG++ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRLELNLTQASIYQELGVSRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          +  
Sbjct: 65 TSA 67


>gi|312899714|ref|ZP_07759037.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX0470]
 gi|311293146|gb|EFQ71702.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX0470]
          Length = 76

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFFF 74
          RI+  R+  G++QE+    LG +  +  K+E G ++ GA  L   +E++    ++ FF
Sbjct: 6  RIKAERIASGLTQEEAANKLGWSRAKYAKFENGKSKTGADDLADFAEIVGVTDMNIFF 63


>gi|332654336|ref|ZP_08420080.1| conserved domain protein [Ruminococcaceae bacterium D16]
 gi|332517422|gb|EGJ47027.1| conserved domain protein [Ruminococcaceae bacterium D16]
          Length = 87

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/63 (34%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI+  R   G++QE+LGE +G + Q +   E             IS+V E  I   F F
Sbjct: 3  NRIKELREQRGLTQEQLGELVGASRQAINAIETEKFEPSIWLAYDISKVFECAIEEVFLF 62

Query: 75 DVS 77
          DVS
Sbjct: 63 DVS 65


>gi|302672233|ref|YP_003832193.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
 gi|302396706|gb|ADL35611.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
          Length = 364

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 24/55 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R    M+Q +L +   ++ Q + ++E G      + L  I++     I 
Sbjct: 6  ENIKRYRQQKCMTQSQLADVFNVSEQAISRWENGNTYPDITLLPAIADYFHVTID 60


>gi|290511290|ref|ZP_06550659.1| hypothetical protein HMPREF0485_03060 [Klebsiella sp. 1_1_55]
 gi|289776283|gb|EFD84282.1| hypothetical protein HMPREF0485_03060 [Klebsiella sp. 1_1_55]
          Length = 154

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 25/53 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++  L  
Sbjct: 10 GQRVKELRIATGMSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLANALSV 62


>gi|302381785|ref|YP_003817608.1| XRE family transcriptional regulator [Brevundimonas subvibrioides
          ATCC 15264]
 gi|302192413|gb|ADK99984.1| transcriptional regulator, XRE family [Brevundimonas
          subvibrioides ATCC 15264]
          Length = 67

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 24/65 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R     SQ  L   LG++ Q V   E G           I+ V E PI   F  
Sbjct: 3  NRLKVLRAERNWSQADLAAALGVSRQTVNALETGRYDPSLPLAFKIARVFEQPIESIFSD 62

Query: 77 SPTVC 81
          +    
Sbjct: 63 AGASA 67


>gi|229105641|ref|ZP_04236274.1| hypothetical protein bcere0019_47690 [Bacillus cereus Rock3-28]
 gi|229118501|ref|ZP_04247855.1| hypothetical protein bcere0017_47680 [Bacillus cereus Rock1-3]
 gi|228665071|gb|EEL20559.1| hypothetical protein bcere0017_47680 [Bacillus cereus Rock1-3]
 gi|228677777|gb|EEL32021.1| hypothetical protein bcere0019_47690 [Bacillus cereus Rock3-28]
          Length = 79

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 30/72 (41%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+++   P+ 
Sbjct: 6  DMKLQNRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAKIFNVPVE 65

Query: 72 FFFDVSPTVCSD 83
            F +      D
Sbjct: 66 EIFTLVEGEEDD 77


>gi|170699072|ref|ZP_02890128.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           IOP40-10]
 gi|170136030|gb|EDT04302.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           IOP40-10]
          Length = 185

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/129 (17%), Positives = 48/129 (37%), Gaps = 14/129 (10%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR  R    ++   L E +G +   + + E+G++R   + L  I E L  P ++F+ +S 
Sbjct: 14  IRDLRKHRKVTLNDLAERIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLSK 73

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD----VKVRQKIIELVRSIVSSEKKYR 134
                        + +++ PD  +   Y   I D      +R +   L   +        
Sbjct: 74  PRS----------VPWVTRPDERRTVYYAAGITDILVSPNMRSRFSILESHLAPGASSGE 123

Query: 135 TIEEECMVE 143
              ++   +
Sbjct: 124 RSVDDSDEQ 132


>gi|91772690|ref|YP_565382.1| MerR family transcriptional regulator [Methanococcoides burtonii
          DSM 6242]
 gi|91711705|gb|ABE51632.1| HTH-type transcriptional regulator [Methanococcoides burtonii DSM
          6242]
          Length = 192

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 2/82 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ IR  R    M+ E+L        + ++K EKG      + L  I+  L   +  F 
Sbjct: 7  VGENIRQFREDRSMTVEELANESQSNVELIEKLEKGELIPSLTPLLKIARALGVRLGTFL 66

Query: 75 DVSPTVCS--DISSEENNVMDF 94
          D +P      + S E  NV+ F
Sbjct: 67 DDTPQKGPIVNRSGEAKNVVRF 88


>gi|29377033|ref|NP_816187.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
           V583]
 gi|29344499|gb|AAO82257.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
           V583]
          Length = 126

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/84 (16%), Positives = 33/84 (39%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +++  R   G+ Q +L E L +    +  YE   +      ++ I+E      ++  D+ 
Sbjct: 6   KLKQLRTKKGIKQSELAEILHLRQSSISDYENNRSTPNPETIKKIAEYFNVSANYLLDIP 65

Query: 78  PTVCSDISSEENNVMDFISTPDGL 101
               + + S     ++ +   D L
Sbjct: 66  DKNDTKLDSTIKETIEELKNEDTL 89


>gi|148252332|ref|YP_001236917.1| anaerobic benzoate catabolism transcriptional regulator
           [Bradyrhizobium sp. BTAi1]
 gi|146404505|gb|ABQ33011.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Bradyrhizobium sp. BTAi1]
          Length = 306

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/113 (22%), Positives = 46/113 (40%), Gaps = 10/113 (8%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G+R+R  R + GMS++ L +  GI+ + + + E G   V    L+ I+  + +P+   
Sbjct: 23  QLGQRVRRMRGLAGMSRKVLAQVSGISERYIAQLESGKGNVSIVLLRRIANAINAPLDDI 82

Query: 74  FDVSPTVCS----------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
              S                  S+   V D ++      L R F  I  + +R
Sbjct: 83  IPGSEPSPDWPVIRDLLKKASPSQIAEVKDLLAGGASAPLRRSFSGIALIGLR 135


>gi|328544415|ref|YP_004304524.1| transcription regulator protein [polymorphum gilvum SL003B-26A1]
 gi|326414157|gb|ADZ71220.1| Putative transcription regulator protein [Polymorphum gilvum
          SL003B-26A1]
          Length = 131

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+RI L R   G+S  +L   LG+    +Q +E       ++RL  ++ VL    ++
Sbjct: 19 RTLGERICLARDAAGLSTAQLARRLGVRTATLQAWESDRAEPRSNRLVLLAGVLGVSPTW 78

Query: 73 F 73
           
Sbjct: 79 L 79


>gi|306823918|ref|ZP_07457292.1| conserved hypothetical protein [Bifidobacterium dentium ATCC
          27679]
 gi|309802457|ref|ZP_07696564.1| DNA-binding helix-turn-helix protein [Bifidobacterium dentium
          JCVIHMP022]
 gi|304552916|gb|EFM40829.1| conserved hypothetical protein [Bifidobacterium dentium ATCC
          27679]
 gi|308221057|gb|EFO77362.1| DNA-binding helix-turn-helix protein [Bifidobacterium dentium
          JCVIHMP022]
          Length = 408

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 25/57 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++  R    M+QE+L   LG++ Q + K+E         +L  I ++    +   
Sbjct: 5  ENLQYLRGTRNMTQEQLAMLLGVSRQAISKWESEKAYPEMDKLLMICDLFGVTLDDL 61


>gi|284921095|emb|CBG34160.1| putative phage DNA-binding protein [Escherichia coli 042]
          Length = 368

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/59 (42%), Positives = 33/59 (55%), Gaps = 1/59 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G +++L RM +G+S E+L E +G T Q V K EKG  R     L+ IS  L    SF F
Sbjct: 14 GDKLKLARMAVGLSCEELAEKIGKTKQFVSKLEKG-CRPSEQCLELISSALMIKSSFLF 71


>gi|282601374|ref|ZP_05981505.2| conserved domain protein [Subdoligranulum variabile DSM 15176]
 gi|282569350|gb|EFB74885.1| conserved domain protein [Subdoligranulum variabile DSM 15176]
          Length = 211

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/43 (37%), Positives = 24/43 (55%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          M+QE L E L +T Q V  +E   NR+ A  L  ++E L + +
Sbjct: 1  MTQEDLAERLHVTRQAVSAWETEKNRLDAETLVALAEALGADV 43


>gi|228960769|ref|ZP_04122407.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
           pakistani str. T13001]
 gi|229048209|ref|ZP_04193778.1| Transcriptional regulator, Xre [Bacillus cereus AH676]
 gi|229129788|ref|ZP_04258755.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-Cer4]
 gi|229147062|ref|ZP_04275422.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST24]
 gi|228636450|gb|EEK92920.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST24]
 gi|228653704|gb|EEL09575.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-Cer4]
 gi|228723196|gb|EEL74572.1| Transcriptional regulator, Xre [Bacillus cereus AH676]
 gi|228798904|gb|EEM45880.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
           pakistani str. T13001]
          Length = 194

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/117 (21%), Positives = 46/117 (39%), Gaps = 11/117 (9%)

Query: 1   MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M  N+ +    V   VG+ +R  R    +S E+L    G++   + K E+G      + +
Sbjct: 5   MKENEDMQTKEVIQQVGQLLRQIRNEQKLSLEELAHKTGVSKLTLGKIERGETNPTLAVI 64

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMD---------FISTPD-GLQLNRY 106
             I++ L  P+S        V      E   V +         F  T + G++++R 
Sbjct: 65  WKITKGLSIPLSRLMVAGEPVAVARCGEGFAVDEGQAWHLETMFRYTKETGMEMHRA 121


>gi|212383451|ref|YP_002302334.1| hypothetical protein pRJ6_005 [Staphylococcus aureus]
 gi|211907413|gb|AAK73548.2|AF241888_1 unknown [Staphylococcus aureus]
          Length = 82

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            I+  R  +  SQ++L   + +T Q +   E G           I++ L+  ++  F
Sbjct: 16 NNIKHYRKEMNFSQQELANKVEVTRQTISLIELGKYNPTIKLCISIAKALQVDLNKLF 73


>gi|171741654|ref|ZP_02917461.1| hypothetical protein BIFDEN_00740 [Bifidobacterium dentium ATCC
          27678]
 gi|283455032|ref|YP_003359596.1| Xre-type transcriptional regulator [Bifidobacterium dentium Bd1]
 gi|171277268|gb|EDT44929.1| hypothetical protein BIFDEN_00740 [Bifidobacterium dentium ATCC
          27678]
 gi|283101666|gb|ADB08772.1| Xre-type transcriptional regulator [Bifidobacterium dentium Bd1]
          Length = 408

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 25/57 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + ++  R    M+QE+L   LG++ Q + K+E         +L  I ++    +   
Sbjct: 5  ENLQYLRGTRNMTQEQLAMLLGVSRQAISKWESEKAYPEMDKLLMICDLFGVTLDDL 61


>gi|126700771|ref|YP_001089668.1| putative phage DNA-binding protein [Clostridium difficile 630]
 gi|115252208|emb|CAJ70047.1| Transcriptional regulator, Phage-type [Clostridium difficile]
          Length = 253

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 33/72 (45%), Gaps = 1/72 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK ++  R    ++Q +L E  GI+   +  YE          L  +++ L+   + 
Sbjct: 1  MQIGKNLKKIRKQKELTQIQLAEISGISRNALINYENDKRIPSIDTLSKLAKALKIEKTI 60

Query: 73 F-FDVSPTVCSD 83
          F FD+   V ++
Sbjct: 61 FYFDIENEVMTN 72


>gi|146302279|ref|YP_001196870.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
          UW101]
 gi|146156697|gb|ABQ07551.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
          UW101]
          Length = 76

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+G  IR  R   G+SQ+ L +  GI   Q+ + E+     G   L  I+  L+  ++ 
Sbjct: 10 INLGTHIRKLREKRGLSQQDLADDCGIPRNQIGRIERAKINTGIKTLIRIANALDIELAD 69

Query: 73 F 73
           
Sbjct: 70 L 70


>gi|94309910|ref|YP_583120.1| XRE family transcriptional regulator [Cupriavidus metallidurans
           CH34]
 gi|93353762|gb|ABF07851.1| conserved hypothetical protein with lambda repressor-like
           DNA-binding domains [Cupriavidus metallidurans CH34]
          Length = 131

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/120 (17%), Positives = 40/120 (33%), Gaps = 1/120 (0%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ +   R   G SQE L    G+    +   E+G   V    +  +++ L    S   D
Sbjct: 13  GRHLTWLRKQRGWSQEALSLESGLARSYLSGIERGTRNVALYNICTLADTLGVAPSVMLD 72

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
            S               +   +P      RY  ++ D   R  +  + R++   + +   
Sbjct: 73  FSSHCADAPVEPARAPFNPEISPAVQATLRYMTELSDTD-RDVVAGVARALARKQLRKIA 131


>gi|324009966|gb|EGB79185.1| helix-turn-helix protein [Escherichia coli MS 57-2]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQRQAM 85


>gi|317472844|ref|ZP_07932154.1| hypothetical protein HMPREF1011_02504 [Anaerostipes sp.
          3_2_56FAA]
 gi|316899686|gb|EFV21690.1| hypothetical protein HMPREF1011_02504 [Anaerostipes sp.
          3_2_56FAA]
          Length = 302

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++  R    MSQEK+ E L ++ Q V K+E G        ++ I+ + +  I    +  
Sbjct: 5  KLKDLRRQAKMSQEKMAEKLRVSRQAVTKWETGAGVPDIENVKAIASLFDISIDELLESE 64

Query: 78 PTV 80
             
Sbjct: 65 ERS 67


>gi|307610924|emb|CBX00541.1| phage repressor [Legionella pneumophila 130b]
          Length = 229

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/102 (17%), Positives = 43/102 (42%), Gaps = 3/102 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+RI   R   G++++ L E  G +   ++  YE+G    G + ++ +++ LE   S+ 
Sbjct: 9   IGQRIMNERKAKGLTRKALAELTGELKTSRINNYERGDRTPGPTEIKLLADALEVSASYL 68

Query: 74  FDVSPTVCSDISSE--ENNVMDFISTPDGLQLNRYFIQIDDV 113
             ++      ++       ++  +          Y  +I D 
Sbjct: 69  MCLTDNREGKMTKSLGMGALIPVLDYKQAADPVTYIQKIKDD 110


>gi|296875924|ref|ZP_06899984.1| transcriptional regulator [Streptococcus parasanguinis ATCC
          15912]
 gi|296433086|gb|EFH18873.1| transcriptional regulator [Streptococcus parasanguinis ATCC
          15912]
          Length = 77

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 34/75 (45%), Gaps = 2/75 (2%)

Query: 2  VGNKKIPNPVDINVGK--RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          + NK I    + +V K  ++++ R+   M+Q  L + +G+T Q +   E G      S  
Sbjct: 1  MYNKVIKTRKEKHVAKNLKLKMARVEHDMTQGDLADAIGVTRQTIGLIEAGKYNPTLSLC 60

Query: 60 QHISEVLESPISFFF 74
            I + L+  +   F
Sbjct: 61 LAICKTLDKTLDQLF 75


>gi|281178569|dbj|BAI54899.1| conserved hypothetical protein [Escherichia coli SE15]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQRQAM 85


>gi|257877872|ref|ZP_05657525.1| conserved hypothetical protein [Enterococcus casseliflavus EC20]
 gi|257812038|gb|EEV40858.1| conserved hypothetical protein [Enterococcus casseliflavus EC20]
          Length = 110

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 28/59 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+R+R  R+    +Q+++ + LGIT      +E   N      +  ++E+ +    F 
Sbjct: 2  LGERLRTLRLRTNQTQQQIADQLGITRAAYSHFENDRNEPDGETIVKLAEIFQVSTDFL 60


>gi|227888084|ref|ZP_04005889.1| helix-turn-helix domain protein [Escherichia coli 83972]
 gi|227834930|gb|EEJ45396.1| helix-turn-helix domain protein [Escherichia coli 83972]
 gi|315295536|gb|EFU54862.1| helix-turn-helix protein [Escherichia coli MS 153-1]
          Length = 367

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/59 (42%), Positives = 33/59 (55%), Gaps = 1/59 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G +++L RM +G+S E+L E +G T Q V K EKG  R     L+ IS  L    SF F
Sbjct: 13 GDKLKLARMAVGLSCEELAEKIGKTKQFVSKLEKG-CRPSEQCLELISSALMIKSSFLF 70


>gi|225619797|ref|YP_002721054.1| putative transcriptional regulator [Brachyspira hyodysenteriae
          WA1]
 gi|225214616|gb|ACN83350.1| putative transcriptional regulator [Brachyspira hyodysenteriae
          WA1]
          Length = 139

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 26/60 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  IR  R     +  ++ E  GI+ + +Q  E G   +  + L  I+  L  PI   F
Sbjct: 39 VGNNIRAIRKSQTKTISEIAEMSGISAKYLQSVEVGKRNISITNLNKIANALNVPIGILF 98


>gi|225574085|ref|ZP_03782696.1| hypothetical protein RUMHYD_02147 [Blautia hydrogenotrophica DSM
          10507]
 gi|225038685|gb|EEG48931.1| hypothetical protein RUMHYD_02147 [Blautia hydrogenotrophica DSM
          10507]
          Length = 153

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 36/83 (43%), Gaps = 2/83 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  +   R   G+SQE + E LG++ Q + K+E         + + ++ +    +  
Sbjct: 1  MNLGNSLFHARKKRGLSQEDVAEKLGVSRQTISKWETNETVPDIYQSKRMAMLYNMSLDE 60

Query: 73 F--FDVSPTVCSDISSEENNVMD 93
             FD+      ++  + N   +
Sbjct: 61 LIDFDIDIREIQEVIDKTNEKTE 83


>gi|218704902|ref|YP_002412421.1| putative DNA-binding transcriptional regulator [Escherichia coli
          UMN026]
 gi|293404913|ref|ZP_06648905.1| HTH-type transcriptional regulator ydcN [Escherichia coli
          FVEC1412]
 gi|298380556|ref|ZP_06990155.1| HTH-type transcriptional regulator ydcN [Escherichia coli
          FVEC1302]
 gi|300900069|ref|ZP_07118264.1| helix-turn-helix protein [Escherichia coli MS 198-1]
 gi|331646712|ref|ZP_08347815.1| putative oxidoreductase/putative repressor [Escherichia coli
          M605]
 gi|218431999|emb|CAR12884.1| putative DNA-binding transcriptional regulator [Escherichia coli
          UMN026]
 gi|291427121|gb|EFF00148.1| HTH-type transcriptional regulator ydcN [Escherichia coli
          FVEC1412]
 gi|298277998|gb|EFI19512.1| HTH-type transcriptional regulator ydcN [Escherichia coli
          FVEC1302]
 gi|300356415|gb|EFJ72285.1| helix-turn-helix protein [Escherichia coli MS 198-1]
 gi|323187286|gb|EFZ72597.1| helix-turn-helix family protein [Escherichia coli RN587/1]
 gi|330911245|gb|EGH39755.1| transcriptional regulator yidN, Cro/CI family [Escherichia coli
          AA86]
 gi|331045464|gb|EGI17591.1| putative oxidoreductase/putative repressor [Escherichia coli
          M605]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQRQAM 85


>gi|215486671|ref|YP_002329102.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          O127:H6 str. E2348/69]
 gi|312969257|ref|ZP_07783462.1| helix-turn-helix family protein [Escherichia coli 2362-75]
 gi|215264743|emb|CAS09124.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          O127:H6 str. E2348/69]
 gi|312286144|gb|EFR14059.1| helix-turn-helix family protein [Escherichia coli 2362-75]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQRQAM 85


>gi|206560147|ref|YP_002230911.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
 gi|198036188|emb|CAR52084.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
          Length = 240

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 33/72 (45%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V +++G +IR  R  L ++ ++     GI+   + + E+G      + L  I++ L   +
Sbjct: 60  VAVSLGNKIRALRQRLKLTLDETAGIAGISKPFLSQVERGRATPSITSLVRIAQALGVTM 119

Query: 71  SFFFDVSPTVCS 82
            +F D      S
Sbjct: 120 QYFIDTPTEARS 131


>gi|167745559|ref|ZP_02417686.1| hypothetical protein ANACAC_00250 [Anaerostipes caccae DSM 14662]
 gi|167654871|gb|EDR99000.1| hypothetical protein ANACAC_00250 [Anaerostipes caccae DSM 14662]
          Length = 323

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++  R    MSQEK+ E L ++ Q V K+E G        ++ I+ + +  I    +  
Sbjct: 26 KLKDLRRQAKMSQEKMAEKLRVSRQAVTKWETGAGVPDIENVKAIASLFDISIDELLESE 85

Query: 78 PTV 80
             
Sbjct: 86 ERS 88


>gi|164687004|ref|ZP_02211032.1| hypothetical protein CLOBAR_00630 [Clostridium bartlettii DSM
          16795]
 gi|164603889|gb|EDQ97354.1| hypothetical protein CLOBAR_00630 [Clostridium bartlettii DSM
          16795]
          Length = 71

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 31/67 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R  + ++Q ++G  +G++ Q + + E+G      +    I++VL   +   F  
Sbjct: 5  NRLKEYRAKIKVNQTEMGNLVGVSRQTISQIERGDYSPSVTLALKIAKVLNVSVEEIFSY 64

Query: 77 SPTVCSD 83
               ++
Sbjct: 65 EEGEENE 71


>gi|153954623|ref|YP_001395388.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219855101|ref|YP_002472223.1| hypothetical protein CKR_1758 [Clostridium kluyveri NBRC 12016]
 gi|146347481|gb|EDK34017.1| Predicted transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219568825|dbj|BAH06809.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 171

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 49/107 (45%), Gaps = 14/107 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I+  R   GM+Q++LG+   ++ + +   E G   +    L+ I + L++P  +F 
Sbjct: 2   IGTAIKEAREEKGMTQQELGQMSFLSDKTISAIETGRRNLTKDNLRIICKELDNPFIYF- 60

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                  S+++ +  N+       +   L+R         VR+K++E
Sbjct: 61  ----QAASEVTGDVFNIN--WLDGEAADLHRA-------AVREKVVE 94


>gi|91210676|ref|YP_540662.1| hypothetical protein UTI89_C1653 [Escherichia coli UTI89]
 gi|117623680|ref|YP_852593.1| hypothetical protein APECO1_579 [Escherichia coli APEC O1]
 gi|218558366|ref|YP_002391279.1| DNA-binding transcriptional regulator [Escherichia coli S88]
 gi|237705412|ref|ZP_04535893.1| conserved hypothetical protein [Escherichia sp. 3_2_53FAA]
 gi|91072250|gb|ABE07131.1| hypothetical protein YdcN [Escherichia coli UTI89]
 gi|115512804|gb|ABJ00879.1| conserved hypothetical protein [Escherichia coli APEC O1]
 gi|218365135|emb|CAR02845.1| putative DNA-binding transcriptional regulator [Escherichia coli
          S88]
 gi|222033183|emb|CAP75923.1| Uncharacterized HTH-type transcriptional regulator [Escherichia
          coli LF82]
 gi|226900169|gb|EEH86428.1| conserved hypothetical protein [Escherichia sp. 3_2_53FAA]
 gi|294493300|gb|ADE92056.1| DNA-binding protein [Escherichia coli IHE3034]
 gi|307627046|gb|ADN71350.1| putative DNA-binding transcriptional regulator [Escherichia coli
          UM146]
 gi|312946016|gb|ADR26843.1| putative DNA-binding transcriptional regulator [Escherichia coli
          O83:H1 str. NRG 857C]
 gi|315289769|gb|EFU49159.1| helix-turn-helix protein [Escherichia coli MS 110-3]
 gi|323952682|gb|EGB48551.1| helix-turn-helix protein [Escherichia coli H252]
 gi|323956844|gb|EGB52577.1| helix-turn-helix protein [Escherichia coli H263]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQRQAM 85


>gi|54310635|ref|YP_131655.1| putative transcriptional regulator [Photobacterium profundum SS9]
 gi|46915078|emb|CAG21853.1| Hypothetical transcriptional regulator [Photobacterium profundum
          SS9]
          Length = 121

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 36/80 (45%), Gaps = 1/80 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-FDV 76
          +IR  R    ++Q  + + LG+  Q     E G      S L  I+++   P+ +F ++ 
Sbjct: 11 KIREARERKDITQVAMAKALGLARQTYLDLESGKTEPRISTLVSIADITGRPLIWFIYED 70

Query: 77 SPTVCSDISSEENNVMDFIS 96
             + S+  ++   ++D  +
Sbjct: 71 EGLISSEDKNDIQVLLDLFA 90


>gi|83952999|ref|ZP_00961721.1| putative aldehyde dehydrogenase protein [Sulfitobacter sp.
          NAS-14.1]
 gi|83841967|gb|EAP81135.1| putative aldehyde dehydrogenase protein [Sulfitobacter sp.
          NAS-14.1]
          Length = 183

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+R+R  R   G+SQ +L    G+T   +   EK       + L+ + + +   ++ 
Sbjct: 1  MDIGQRLRSIREERGLSQRELATKAGLTNGTISLIEKNKTSPSVASLKSLLDAIPISMAE 60

Query: 73 FFDVSPTVCS 82
          FF       S
Sbjct: 61 FFSTLEDTQS 70


>gi|330810189|ref|YP_004354651.1| XRE family transcriptional regulator [Pseudomonas brassicacearum
           subsp. brassicacearum NFM421]
 gi|327378297|gb|AEA69647.1| putative Transcription factor, Xre family [Pseudomonas
           brassicacearum subsp. brassicacearum NFM421]
          Length = 187

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/93 (18%), Positives = 33/93 (35%), Gaps = 1/93 (1%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +V + +R  R    +SQ  L E  G++ + +   E G   V  + L  ++E L+   S  
Sbjct: 14  HVSQNVRRLRHAAELSQTALAELSGVSRRMLVAIEAGEKNVSLTTLDRVAEALDVAFSDL 73

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                       +E         +   + L + 
Sbjct: 74  IQAPDARDPSRINELAWAGTIAGSK-AVLLAKA 105


>gi|296877340|ref|ZP_06901380.1| XRE family transcriptional regulator [Streptococcus parasanguinis
          ATCC 15912]
 gi|296431860|gb|EFH17667.1| XRE family transcriptional regulator [Streptococcus parasanguinis
          ATCC 15912]
          Length = 113

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 31/72 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R    ++Q +L + LGI       +E+G        L  ++++L   + +    
Sbjct: 5  ERLKELRKQAHLTQVELAKQLGIGQSSYADWERGKKNPTQENLIRLAQILNVSVDYLVGN 64

Query: 77 SPTVCSDISSEE 88
          S     ++ + E
Sbjct: 65 SEAKSEELDNIE 76


>gi|227523447|ref|ZP_03953496.1| possible DNA-binding protein [Lactobacillus hilgardii ATCC 8290]
 gi|227089374|gb|EEI24686.1| possible DNA-binding protein [Lactobacillus hilgardii ATCC 8290]
          Length = 117

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 38/78 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++  R+  G SQ+K+ + L +T Q +  +E G +R     L  +S+V + P+  F   +
Sbjct: 7  QLKKARIKKGYSQQKVADELQVTRQSISSWENGHSRPDLYNLTLLSKVYDEPLDNFVKDN 66

Query: 78 PTVCSDISSEENNVMDFI 95
           +    I S+    + F 
Sbjct: 67 HSFDLQIESDREEFLRFF 84


>gi|213031130|emb|CAR31467.1| hypothetical protein [Streptococcus pneumoniae]
          Length = 158

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQPEFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|195977452|ref|YP_002122696.1| transcriptional regulator [Streptococcus equi subsp.
          zooepidemicus MGCS10565]
 gi|195974157|gb|ACG61683.1| transcriptional regulator [Streptococcus equi subsp.
          zooepidemicus MGCS10565]
          Length = 389

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 32/71 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R+    S  ++ E L ++ Q V KYEKG        L  + + L+ P  FFF 
Sbjct: 9  GERLKEARLFNKKSITQIAEFLNVSKQMVSKYEKGRATPSEESLGILEKELQFPRDFFFG 68

Query: 76 VSPTVCSDISS 86
                S   +
Sbjct: 69 NDNFSLSSTGT 79


>gi|254383920|ref|ZP_04999267.1| transcriptional regulator [Streptomyces sp. Mg1]
 gi|194342812|gb|EDX23778.1| transcriptional regulator [Streptomyces sp. Mg1]
          Length = 76

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 27/67 (40%), Gaps = 1/67 (1%)

Query: 17 KRIRLRR-MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           RIR+ R     M+Q  L E +G+T Q V   EKG           I+ V   P+   F 
Sbjct: 8  NRIRVLRFEHAEMTQADLAERIGVTRQTVIAIEKGRYSPSLETAFRIARVFAVPLEQVFQ 67

Query: 76 VSPTVCS 82
           S    +
Sbjct: 68 YSDEEGT 74


>gi|170696008|ref|ZP_02887146.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia graminis C4D1M]
 gi|170139088|gb|EDT07278.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia graminis C4D1M]
          Length = 330

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 28/131 (21%), Positives = 52/131 (39%), Gaps = 17/131 (12%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G ++  +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ I
Sbjct: 32  GEREERDPFLTAMGERVRLLRARRGMTRKTLAAETGLSERHLANLESGVGNASVLVLRQI 91

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRY-------FIQIDD 112
           +  L  P++        V  D ++       + + +   D   L R        F Q   
Sbjct: 92  AATLNCPLA-------EVIGDETTASAEWLLIRELLHGRDQAALQRARIALAEMFAQAPR 144

Query: 113 VKVRQKIIELV 123
              R+  I L+
Sbjct: 145 DPHRKDRIALI 155


>gi|110633833|ref|YP_674041.1| XRE family transcriptional regulator [Mesorhizobium sp. BNC1]
 gi|110284817|gb|ABG62876.1| transcriptional regulator, XRE family [Chelativorans sp. BNC1]
          Length = 198

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          IR  R   G++   L   LG +   + + E+G++    + L+ ++   + P+SFF
Sbjct: 24 IRRLRKARGLTLAGLASQLGRSVGWLSQVERGISLPSVADLRALANHFKVPVSFF 78


>gi|270208634|ref|YP_003329405.1| predicted transcriptional regulator [Sinorhizobium meliloti]
 gi|76880908|gb|ABA56078.1| predicted transcriptional regulator [Sinorhizobium meliloti]
          Length = 194

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 26/66 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R+   +   +L    G++   + K E+G        L  I+ V    +  FF
Sbjct: 15 IGPRIKALRLRKKLGLVQLAGHTGLSPAMLSKIERGQMFPTLPTLLRIAMVFGVGLDHFF 74

Query: 75 DVSPTV 80
          +     
Sbjct: 75 NADKEE 80


>gi|28869772|ref|NP_792391.1| DNA-binding protein [Pseudomonas syringae pv. tomato str. DC3000]
 gi|28853017|gb|AAO56086.1| DNA-binding protein [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 209

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/103 (18%), Positives = 37/103 (35%), Gaps = 11/103 (10%)

Query: 6   KIPNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
             P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  +
Sbjct: 13  NEPHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRL 72

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            +VL  P+S  F       S            +   +GL++ R
Sbjct: 73  CDVLGMPMSKLFSQYDQQGSSAL--------LVRADEGLEVVR 107


>gi|15679328|ref|NP_276445.1| hypothetical protein MTH1328 [Methanothermobacter
          thermautotrophicus str. Delta H]
 gi|3219928|sp|O27383|Y1328_METTH RecName: Full=Uncharacterized HTH-type transcriptional regulator
          MTH_1328
 gi|2622434|gb|AAB85806.1| conserved protein [Methanothermobacter thermautotrophicus str.
          Delta H]
          Length = 69

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/49 (34%), Positives = 24/49 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          IR  R  LG++QE+L E +G+T Q +   EKG           I+  L 
Sbjct: 5  IREHRKELGLTQEELAERVGVTRQTIIALEKGRYSPSLILAHRIARALG 53


>gi|86137152|ref|ZP_01055730.1| DNA-binding protein, putative [Roseobacter sp. MED193]
 gi|85826476|gb|EAQ46673.1| DNA-binding protein, putative [Roseobacter sp. MED193]
          Length = 187

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 29/71 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R   G+S  K  +  G++   + + E+G +    + L  I++    P++   
Sbjct: 6  IGANLRKIRNAAGLSLSKAADLTGVSKAMLGQIERGESSPTIATLWKIAKGFHLPLTALI 65

Query: 75 DVSPTVCSDIS 85
                  D +
Sbjct: 66 GAPDADQPDPA 76


>gi|332366115|gb|EGJ43871.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1059]
          Length = 225

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 34/63 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR+ L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRLELNLTQSSIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          +  
Sbjct: 65 TSA 67


>gi|332363975|gb|EGJ41754.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK355]
          Length = 225

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 34/63 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR+ L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRLELNLTQSSIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          +  
Sbjct: 65 TSA 67


>gi|331091802|ref|ZP_08340634.1| hypothetical protein HMPREF9477_01277 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330402701|gb|EGG82268.1| hypothetical protein HMPREF9477_01277 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 106

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 26/58 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+++R+ R+   ++QE +     +    +   E    +V  S L  I   L + + +
Sbjct: 9  IGEKLRIIRLSKNLTQEYIANVADVNTSHISNIENNRVKVSLSTLVQICNALNTTVDY 66


>gi|309779373|ref|ZP_07674135.1| DNA binding protein [Ralstonia sp. 5_7_47FAA]
 gi|308921931|gb|EFP67566.1| DNA binding protein [Ralstonia sp. 5_7_47FAA]
          Length = 198

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/73 (17%), Positives = 33/73 (45%), Gaps = 2/73 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +++  R    +S ++L    G++   + + E+ +     + L  ++  L   ++ F 
Sbjct: 17 VGAKLQTLRQARKLSLDELSRRAGVSKSMLSQVERNLANPTVAVLWRLATALGVGLADF- 75

Query: 75 DVSPTVCSDISSE 87
           +SP   +D +  
Sbjct: 76 -LSPEGAADAAPA 87


>gi|294678852|ref|YP_003579467.1| XRE family transcriptional regulator [Rhodobacter capsulatus SB
           1003]
 gi|294477672|gb|ADE87060.1| transcriptional regulator, XRE family [Rhodobacter capsulatus SB
           1003]
          Length = 478

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/109 (19%), Positives = 47/109 (43%), Gaps = 10/109 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+++ R  LG++Q ++   LG++   +   E          L  ++EV +  IS   
Sbjct: 10  IGQRLKVLRQSLGLTQAQMAAELGVSASYITLIEADQRPASVKLLMRLAEVYDLNIS--- 66

Query: 75  DVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           ++SP   + ++S+            D +   +   + +   +I    VR
Sbjct: 67  ELSPAADAQLASDFAAALKTPAAGADAVPRAEIEAVLQASPRIAAAFVR 115


>gi|262282768|ref|ZP_06060536.1| XRE family transcriptional regulator [Streptococcus sp.
          2_1_36FAA]
 gi|262262059|gb|EEY80757.1| XRE family transcriptional regulator [Streptococcus sp.
          2_1_36FAA]
          Length = 225

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 34/63 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR+ L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRLELNLTQSSIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          +  
Sbjct: 65 TSA 67


>gi|251778290|ref|ZP_04821210.1| transcriptional regulator, Cro/CI family [Clostridium botulinum
          E1 str. 'BoNT E Beluga']
 gi|243082605|gb|EES48495.1| transcriptional regulator, Cro/CI family [Clostridium botulinum
          E1 str. 'BoNT E Beluga']
          Length = 183

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 41/77 (53%), Gaps = 1/77 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          + +G RI+ RR  L ++ +++G+ +G+    +Q+YEKG + ++    ++ I++ +     
Sbjct: 13 LEIGNRIQERRKELKLTLQEVGDIVGVASSTIQRYEKGLIAKMKLPVIESIAKAINVNPV 72

Query: 72 FFFDVSPTVCSDISSEE 88
          +         ++++  E
Sbjct: 73 WLIRKDAKKETELADFE 89


>gi|229170545|ref|ZP_04298193.1| Transcriptional regulator [Bacillus cereus AH621]
 gi|228612894|gb|EEK70071.1| Transcriptional regulator [Bacillus cereus AH621]
          Length = 65

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+  G++Q++L + + +T Q +   E            HI++ L+  +   F
Sbjct: 4  SKIKIARVEKGLTQQELADIVNVTRQTISLIESNKYNPSLKLCIHIAKTLDKSLDKLF 61


>gi|282933777|ref|ZP_06339130.1| XRE family transcriptional regulator [Lactobacillus jensenii
          208-1]
 gi|313472134|ref|ZP_07812626.1| helix-turn-helix domain-containing protein [Lactobacillus
          jensenii 1153]
 gi|239529503|gb|EEQ68504.1| helix-turn-helix domain-containing protein [Lactobacillus
          jensenii 1153]
 gi|281302079|gb|EFA94328.1| XRE family transcriptional regulator [Lactobacillus jensenii
          208-1]
          Length = 122

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 31/60 (51%), Gaps = 1/60 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESP 69
          +D+ +G  IR RR  + ++QE L E  G++   + + E+ G   +   ++  I++ L   
Sbjct: 1  MDMCLGAVIRDRRKAMKLTQEDLAEFSGLSVNFISRIERTGDQNISIKKIDAIAQSLNMD 60


>gi|218694976|ref|YP_002402643.1| putative DNA-binding transcriptional regulator [Escherichia coli
          55989]
 gi|300823240|ref|ZP_07103372.1| helix-turn-helix protein [Escherichia coli MS 119-7]
 gi|331667806|ref|ZP_08368670.1| putative oxidoreductase/putative repressor [Escherichia coli
          TA271]
 gi|331677280|ref|ZP_08377962.1| putative oxidoreductase/putative repressor [Escherichia coli
          H591]
 gi|218351708|emb|CAU97423.1| putative DNA-binding transcriptional regulator [Escherichia coli
          55989]
 gi|300524204|gb|EFK45273.1| helix-turn-helix protein [Escherichia coli MS 119-7]
 gi|323170076|gb|EFZ55731.1| helix-turn-helix family protein [Escherichia coli LT-68]
 gi|331065391|gb|EGI37286.1| putative oxidoreductase/putative repressor [Escherichia coli
          TA271]
 gi|331075131|gb|EGI46444.1| putative oxidoreductase/putative repressor [Escherichia coli
          H591]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
               +   + + M
Sbjct: 72 PATPSVYDPQQHAM 85


>gi|188026565|ref|ZP_02962597.2| hypothetical protein PROSTU_04732 [Providencia stuartii ATCC
          25827]
 gi|188019447|gb|EDU57487.1| hypothetical protein PROSTU_04732 [Providencia stuartii ATCC
          25827]
          Length = 119

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 29/55 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          IR +R+ LG++   LG  L ++ QQ+ +YE+G+  +   +L+     L      F
Sbjct: 39 IRQKRIELGLNGSDLGRLLNVSQQQISRYERGITSLTLHQLEQFLRALAVSWESF 93


>gi|157149913|ref|YP_001449951.1| putative transcriptional repressor [Streptococcus gordonii str.
          Challis substr. CH1]
 gi|157074707|gb|ABV09390.1| putative transcriptional repressor [Streptococcus gordonii str.
          Challis substr. CH1]
          Length = 225

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 34/63 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR+ L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRLELNLTQSSIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          +  
Sbjct: 65 TSA 67


>gi|156936528|ref|YP_001440443.1| hypothetical protein ESA_pESA2p06574 [Cronobacter sakazakii ATCC
          BAA-894]
 gi|260585153|ref|YP_003212727.1| hypothetical protein Ctu_2p00150 [Cronobacter turicensis z3032]
 gi|156534782|gb|ABU79607.1| hypothetical protein ESA_pESA2p06574 [Cronobacter sakazakii ATCC
          BAA-894]
 gi|260219335|emb|CBA34688.1| hypothetical protein Ctu_2p00150 [Cronobacter turicensis z3032]
          Length = 118

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 4/72 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V KR++  R   G+SQEKL + + +    +  ++  YE G        +  +++ L  P 
Sbjct: 2  VPKRLKEAREAAGISQEKLAQLVDLESVNSRSKISNYEAGRFAPSFEFVCRVAKALGYPE 61

Query: 71 SFFFDVSPTVCS 82
           +F+ VS     
Sbjct: 62 YYFYTVSDATAQ 73


>gi|134045852|ref|YP_001097338.1| XRE family transcriptional regulator [Methanococcus maripaludis
          C5]
 gi|132663477|gb|ABO35123.1| transcriptional regulator, XRE family [Methanococcus maripaludis
          C5]
          Length = 66

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          RI+  R    M+QE+LG+ +G+  + +   EKG           IS+ L++ I   F F+
Sbjct: 4  RIKEYRAKYDMTQEELGKIVGVRRETISFLEKGKYNPSLKLAHSISKALDTTIDELFIFE 63

Query: 76 VSP 78
             
Sbjct: 64 DDE 66


>gi|116049312|ref|YP_791886.1| putative transcriptional regulator [Pseudomonas aeruginosa
           UCBPP-PA14]
 gi|115584533|gb|ABJ10548.1| putative transcriptional regulator [Pseudomonas aeruginosa
           UCBPP-PA14]
          Length = 216

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 30/72 (41%), Gaps = 3/72 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +V   +R  R+  G+SQE L     ++ + +   E G   V  S L  I+  L      F
Sbjct: 44  HVSGNVRRLRLQAGLSQEALARAASVSRRMLVGIESGDVNVSLSTLDRIAAALGV---LF 100

Query: 74  FDVSPTVCSDIS 85
            D+     +D S
Sbjct: 101 PDLVQAPATDRS 112


>gi|193062540|ref|ZP_03043634.1| DNA-binding protein [Escherichia coli E22]
 gi|260843745|ref|YP_003221523.1| putative DNA-binding transcriptional regulator [Escherichia coli
          O103:H2 str. 12009]
 gi|192931662|gb|EDV84262.1| DNA-binding protein [Escherichia coli E22]
 gi|257758892|dbj|BAI30389.1| predicted DNA-binding transcriptional regulator [Escherichia coli
          O103:H2 str. 12009]
 gi|323163586|gb|EFZ49411.1| helix-turn-helix family protein [Escherichia coli E128010]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 28/74 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
               +   + + M
Sbjct: 72 PATPSVYDPQQHAM 85


>gi|194336961|ref|YP_002018755.1| transcriptional regulator, XRE family [Pelodictyon
          phaeoclathratiforme BU-1]
 gi|194309438|gb|ACF44138.1| transcriptional regulator, XRE family [Pelodictyon
          phaeoclathratiforme BU-1]
          Length = 104

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 29/58 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+ I+  R    ++QE LG+ +G+   Q+ + E   + V    L  +   L++ + F
Sbjct: 34 IGQAIKQTRQERNLTQEALGKLIGVQKSQISRIESNASNVTIDTLMRVFNALQAKVKF 91


>gi|331014513|gb|EGH94569.1| DNA-binding protein [Pseudomonas syringae pv. lachrymans str.
           M302278PT]
          Length = 201

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/103 (18%), Positives = 37/103 (35%), Gaps = 11/103 (10%)

Query: 6   KIPNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
             P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  +
Sbjct: 5   NEPHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRL 64

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            +VL  P+S  F       S            +   +GL++ R
Sbjct: 65  CDVLGMPMSKLFSQYDQQGSSAL--------LVRADEGLEVVR 99


>gi|322410846|gb|EFY01754.1| Transcriptional regulator [Streptococcus dysgalactiae subsp.
          dysgalactiae ATCC 27957]
          Length = 303

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 38/65 (58%), Gaps = 1/65 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + G+++R  R+  G+S+E+L G+   ++ +Q+ + E G +    +++  I++ LE  + +
Sbjct: 4  HFGEKVRGLRLEKGISREELCGDEAELSVRQLARIELGQSIPSLAKVIFIAKALEVSVGY 63

Query: 73 FFDVS 77
            D +
Sbjct: 64 LTDGA 68


>gi|297201607|ref|ZP_06919004.1| DNA-binding protein [Streptomyces sviceus ATCC 29083]
 gi|297147931|gb|EDY55056.2| DNA-binding protein [Streptomyces sviceus ATCC 29083]
          Length = 202

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/127 (16%), Positives = 38/127 (29%), Gaps = 15/127 (11%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  +     P+D  +   +R  R   G+S  +L +  GI    + + E          L 
Sbjct: 15  MSDSPPPRLPLD-WIAASLRRERTRAGLSLSELAKRAGIAKSTLSQLEAAGGNPSVETLW 73

Query: 61  HISEVLESPISFFFDVSPTV-----CSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
            +   L  P S   +               S  +   ++++T     L            
Sbjct: 74  ALGVALGVPFSALVEPPAPSVRVIRAGQGPSVASEKAEYMAT-----LLSA----SPPGA 124

Query: 116 RQKIIEL 122
           R+ I  L
Sbjct: 125 RRDIYHL 131


>gi|262197484|ref|YP_003268693.1| XRE family transcriptional regulator [Haliangium ochraceum DSM
          14365]
 gi|262080831|gb|ACY16800.1| transcriptional regulator, XRE family [Haliangium ochraceum DSM
          14365]
          Length = 131

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 34/76 (44%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + + +   +G+ +R  R   G++QE+  E +G++ +   + E+G +       QHI+  L
Sbjct: 1  MNHELAATMGREMRRARTAQGLTQERAAEAIGVSVEFYARVERGKSHPSVETFQHIASTL 60

Query: 67 ESPISFFFDVSPTVCS 82
          E        +     +
Sbjct: 61 EVSADVLLGLDGERGA 76


>gi|227549950|ref|ZP_03979999.1| possible DNA-binding protein [Corynebacterium lipophiloflavum DSM
           44291]
 gi|227077966|gb|EEI15929.1| possible DNA-binding protein [Corynebacterium lipophiloflavum DSM
           44291]
          Length = 143

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 32/82 (39%), Gaps = 6/82 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR------VGASRLQHISEVLESPI 70
           +R+R  R + G+SQ +L E  G++   +   E+             S +  I+  L  P 
Sbjct: 19  ERLRALREMRGLSQRRLAELAGVSRSLISNLERNQYNTARSADPTLSTVYRIAHALHVPP 78

Query: 71  SFFFDVSPTVCSDISSEENNVM 92
                 S +V     +E+   +
Sbjct: 79  VALLPASDSVVKARCAEDAAAV 100


>gi|254976735|ref|ZP_05273207.1| putative phage DNA-binding protein [Clostridium difficile
          QCD-66c26]
 gi|255094119|ref|ZP_05323597.1| putative phage DNA-binding protein [Clostridium difficile CIP
          107932]
 gi|255315870|ref|ZP_05357453.1| putative phage DNA-binding protein [Clostridium difficile
          QCD-76w55]
 gi|255518531|ref|ZP_05386207.1| putative phage DNA-binding protein [Clostridium difficile
          QCD-97b34]
 gi|255651650|ref|ZP_05398552.1| putative phage DNA-binding protein [Clostridium difficile
          QCD-37x79]
          Length = 254

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 33/72 (45%), Gaps = 1/72 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK ++  R    ++Q +L E  GI+   +  YE          L  +++ L+   + 
Sbjct: 1  MQIGKNLKKIRKQKELTQIQLAEISGISRNALINYENDKRIPSIDTLSKLAKALKIEKTI 60

Query: 73 F-FDVSPTVCSD 83
          F FD+   V ++
Sbjct: 61 FYFDIENEVMTN 72


>gi|225571494|ref|ZP_03780490.1| hypothetical protein CLOHYLEM_07592 [Clostridium hylemonae DSM
          15053]
 gi|225159571|gb|EEG72190.1| hypothetical protein CLOHYLEM_07592 [Clostridium hylemonae DSM
          15053]
          Length = 73

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          K+++L R+ + MSQE L   + +T Q +   E G           I   L   ++  F
Sbjct: 4  KKMKLARINMDMSQEDLARHVDVTRQTIGMIEAGKFNPSLRLCLAICRALGVTLNDLF 61


>gi|154484823|ref|ZP_02027271.1| hypothetical protein EUBVEN_02541 [Eubacterium ventriosum ATCC
          27560]
 gi|149733776|gb|EDM49895.1| hypothetical protein EUBVEN_02541 [Eubacterium ventriosum ATCC
          27560]
          Length = 40

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/37 (37%), Positives = 25/37 (67%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV 51
          +G  I++ R  +G++QE+L   +G+T Q V ++E GV
Sbjct: 4  IGNNIKIIRKQIGLTQEELALHIGVTPQAVSRWENGV 40


>gi|116871710|ref|YP_848491.1| transcriptional repressor, putative [Listeria welshimeri serovar
          6b str. SLCC5334]
 gi|116740588|emb|CAK19708.1| transcriptional repressor, putative [Listeria welshimeri serovar
          6b str. SLCC5334]
          Length = 68

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 28/59 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          + IR  R    ++Q+++ + L ++     +YE G     A+ L  I++  +  + +  D
Sbjct: 4  RNIRSIREDNDITQQQMAKLLNVSQNTYSQYETGKIEWTATALIKIADYFDVSVDYLLD 62


>gi|52842273|ref|YP_096072.1| phage repressor [Legionella pneumophila subsp. pneumophila str.
           Philadelphia 1]
 gi|52629384|gb|AAU28125.1| hypothetical phage repressor [Legionella pneumophila subsp.
           pneumophila str. Philadelphia 1]
          Length = 207

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/93 (17%), Positives = 37/93 (39%), Gaps = 2/93 (2%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            + + +G RI+  R     +  +L E  G + Q++  +E+G         + +   L   
Sbjct: 10  DIKLKIGLRIKESRKNKKFTAVQLAEVTGFSAQRISNWERGTRTPRFKDAEILGSALGVS 69

Query: 70  ISF--FFDVSPTVCSDISSEENNVMDFISTPDG 100
            ++  F D+      D   +   +++  S  +G
Sbjct: 70  PTWLLFLDIDHKPMKDHPFQTIPIINASSKIEG 102


>gi|71281165|ref|YP_268401.1| DNA-binding protein [Colwellia psychrerythraea 34H]
 gi|71146905|gb|AAZ27378.1| DNA-binding protein [Colwellia psychrerythraea 34H]
          Length = 185

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/131 (17%), Positives = 60/131 (45%), Gaps = 14/131 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +++L R   G S +   +   ++   + + E+G +    +RL  I+     P+S+FF
Sbjct: 9   IGSQLKLARTNKGWSLDIASKNTNVSKAMLGQIERGESSPTVARLWDIATGFHLPLSYFF 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPD-GLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
                    ++ E+++V   +   + G+ ++  F    DV+ + ++  L  ++ S  ++ 
Sbjct: 69  ---------LAIEDDDVSKNMLNSEAGISISTLFP--FDVETKSEVFSL--TLASLHQQI 115

Query: 134 RTIEEECMVEQ 144
                + ++E 
Sbjct: 116 SAPHNDGVIEH 126


>gi|313905588|ref|ZP_07838950.1| transcriptional regulator, XRE family [Eubacterium cellulosolvens
          6]
 gi|313469535|gb|EFR64875.1| transcriptional regulator, XRE family [Eubacterium cellulosolvens
          6]
          Length = 58

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/45 (37%), Positives = 25/45 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          ++++L R   GM+QE L E LG++ Q V K+E G      S L  
Sbjct: 5  EKLQLIRKSKGMTQEDLAEKLGVSRQAVAKWESGQVYPDISNLIQ 49


>gi|302386036|ref|YP_003821858.1| transcriptional regulator, XRE family [Clostridium saccharolyticum
           WM1]
 gi|302196664|gb|ADL04235.1| transcriptional regulator, XRE family [Clostridium saccharolyticum
           WM1]
          Length = 204

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 38/94 (40%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++  R    ++QE+L E L ++   V K+E G        L+ IS+V    I      
Sbjct: 5   EKLQQLRKQNNLTQEQLAEQLYVSRTAVSKWESGKGYPNIESLKCISKVFAVSIDELLSG 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
           +  +    S   +N+    S   G+     F  I
Sbjct: 65  NELITLAQSENRSNISKLYSLMYGILDVMAFAFI 98


>gi|291557516|emb|CBL34633.1| Helix-turn-helix [Eubacterium siraeum V10Sc8a]
          Length = 221

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 30/71 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          + L R   G++Q+++   LGI    +  YEKG  + G   L   ++       +    SP
Sbjct: 9  LSLLRKERGLTQKQVAADLGIAQALLSHYEKGKRKCGLEFLVKAADYYNVSTDYLLGRSP 68

Query: 79 TVCSDISSEEN 89
               I +E +
Sbjct: 69 VSNGGIITESD 79


>gi|293400092|ref|ZP_06644238.1| transcriptional regulator, Cro/CI family [Erysipelotrichaceae
          bacterium 5_2_54FAA]
 gi|291306492|gb|EFE47735.1| transcriptional regulator, Cro/CI family [Erysipelotrichaceae
          bacterium 5_2_54FAA]
          Length = 247

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG  I   R    ++Q+ L + L ++ + V K+E+GV+      L  ++ + +  ++
Sbjct: 9  VGSYISELRKAKKLTQKDLADKLYVSDKTVSKWERGVSMPSIPLLMPLANLFDITVT 65


>gi|307729113|ref|YP_003906337.1| XRE family transcriptional regulator [Burkholderia sp. CCGE1003]
 gi|307583648|gb|ADN57046.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia sp. CCGE1003]
          Length = 330

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 28/131 (21%), Positives = 52/131 (39%), Gaps = 17/131 (12%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G ++  +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ I
Sbjct: 32  GEREERDPFLTAMGERVRLLRARRGMTRKTLAAETGLSERHLANLESGVGNASVLVLRQI 91

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRY-------FIQIDD 112
           +  L  P++        V  D ++       + + +   D   L R        F Q   
Sbjct: 92  AATLNCPLA-------EVIGDETTASAEWLLIRELLHGRDQAALQRARMTLAEMFAQAPR 144

Query: 113 VKVRQKIIELV 123
              R+  I L+
Sbjct: 145 DPHRKDRIALI 155


>gi|288560691|ref|YP_003424177.1| transcriptional regulator [Methanobrevibacter ruminantium M1]
 gi|288543401|gb|ADC47285.1| transcriptional regulator [Methanobrevibacter ruminantium M1]
          Length = 186

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 31/62 (50%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           V+ ++G RIR  R +  ++ E +   L +  +    YE G+  + AS L  I+ + +  
Sbjct: 6  DVNKDIGMRIRELRELSDITTEDMANELDVDEETYISYEDGIIDIPASFLYQIAHIFKVD 65

Query: 70 IS 71
          ++
Sbjct: 66 LA 67


>gi|218704103|ref|YP_002411622.1| putative transcriptional regulator from phage origin [Escherichia
          coli UMN026]
 gi|218431200|emb|CAR12076.1| putative transcriptional regulator from phage origin [Escherichia
          coli UMN026]
 gi|323976890|gb|EGB71978.1| peptidase S24 [Escherichia coli TW10509]
          Length = 230

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M    L E +G+    + + E G  +      L +I++ L   I+
Sbjct: 1  MNIGNRVRQLRQAKNMKIADLAEAIGVDAANISRLETGKQKQFTEQTLSNIAKSLGVDIA 60

Query: 72 FFF 74
            F
Sbjct: 61 DLF 63


>gi|220908355|ref|YP_002483666.1| XRE family transcriptional regulator [Cyanothece sp. PCC 7425]
 gi|219864966|gb|ACL45305.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 7425]
          Length = 224

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 21/58 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R     SQ  L   LGI+ Q V  +E G           I+ +    I   F
Sbjct: 3  NRLKELRQRRSWSQADLARSLGISRQAVNGFESGKFDPSLEMAFKIARLFNVAIEDVF 60


>gi|170017663|ref|YP_001728582.1| transcriptional regulator [Leuconostoc citreum KM20]
 gi|169804520|gb|ACA83138.1| Predicted transcriptional regulator [Leuconostoc citreum KM20]
          Length = 76

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 26/73 (35%), Gaps = 2/73 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          RI+  R    M+Q  L E L +T Q +   EKG           I+      I   F F+
Sbjct: 4  RIQELRKARQMTQADLAEALAVTRQTIISLEKGKYNASLFLAYDIAHFFGLSIEEVFIFE 63

Query: 76 VSPTVCSDISSEE 88
             T     + + 
Sbjct: 64 NGETDDKKNTHQS 76


>gi|116491838|ref|YP_803573.1| XRE family transcriptional regulator [Pediococcus pentosaceus
          ATCC 25745]
 gi|116101988|gb|ABJ67131.1| Transcriptional regulator, xre family [Pediococcus pentosaceus
          ATCC 25745]
          Length = 190

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 9/84 (10%), Positives = 40/84 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  ++  R    ++Q+++   + +T Q + ++E+G        L+ ++++    +  
Sbjct: 1  MSIGTTLQKIRQARDLTQQEVATQMYVTRQTISRWEQGKTMPNIYALKDLAQLYNVSLDQ 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
               P+   + +  +   +++++
Sbjct: 61 LVARHPSNSKEEAGHKMKKINWLA 84


>gi|325290665|ref|YP_004266846.1| helix-turn-helix domain protein [Syntrophobotulus glycolicus DSM
           8271]
 gi|324966066|gb|ADY56845.1| helix-turn-helix domain protein [Syntrophobotulus glycolicus DSM
           8271]
          Length = 213

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 31/61 (50%), Gaps = 3/61 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG---ASRLQHISEVLESPISFFF 74
            +   R   G+SQ++L +  G+  + +Q YE+  N +    AS LQ +++ L   I   F
Sbjct: 153 NLSRLRKARGLSQKELAKTSGVALRMIQLYEQKQNDINKAQASSLQSLAQALGCKIEDLF 212

Query: 75  D 75
           +
Sbjct: 213 E 213


>gi|323126868|gb|ADX24165.1| putative transcriptional regulator [Streptococcus dysgalactiae
          subsp. equisimilis ATCC 12394]
          Length = 113

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 28/55 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R++L R    ++Q ++ + LG++ Q    +E+GV +     L  +S +    + 
Sbjct: 5  ERLKLLRTQAKLTQSQIAKKLGVSQQAYGDWERGVKKPTQDNLVKLSNIFNVSVD 59


>gi|319744698|gb|EFV97043.1| transcriptional regulator [Streptococcus agalactiae ATCC 13813]
          Length = 168

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 12 IGDNIKSLRRTHDLTQPEFAKMVGISRNSLSRYENGTSTVSTELIDRICQKFNVS 66


>gi|296271002|ref|YP_003653634.1| XRE family transcriptional regulator [Thermobispora bispora DSM
          43833]
 gi|296093789|gb|ADG89741.1| transcriptional regulator, XRE family [Thermobispora bispora DSM
          43833]
          Length = 406

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 34/79 (43%), Gaps = 3/79 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFFF 74
          G ++R  R  LG SQE+L    G++   ++K E  G  R+    L+ ++  L     +F 
Sbjct: 8  GAQLRALRQQLGWSQEELANRAGLSTGVIKKIEGGGTARM--ETLRALARALGVHTVWFV 65

Query: 75 DVSPTVCSDISSEENNVMD 93
                 +  +  +  + D
Sbjct: 66 RPGSPAPTVDNGNDAVLAD 84


>gi|254444938|ref|ZP_05058414.1| Helix-turn-helix domain protein [Verrucomicrobiae bacterium
          DG1235]
 gi|198259246|gb|EDY83554.1| Helix-turn-helix domain protein [Verrucomicrobiae bacterium
          DG1235]
          Length = 369

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/73 (36%), Positives = 36/73 (49%), Gaps = 5/73 (6%)

Query: 18 RIRLRRMILGMSQEKL----GEC-LGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          R+   R +LG+S + L     E  L IT Q + KYEKG     +  L  +S+VL+ PI F
Sbjct: 12 RLNQARRLLGLSLDDLVASLAEAGLSITKQSLSKYEKGEIAPSSQSLAALSKVLKKPIDF 71

Query: 73 FFDVSPTVCSDIS 85
          FF        DI 
Sbjct: 72 FFQKGAIKLVDID 84


>gi|168178699|ref|ZP_02613363.1| transcriptional regulator, XRE family [Clostridium botulinum NCTC
          2916]
 gi|182670340|gb|EDT82314.1| transcriptional regulator, XRE family [Clostridium botulinum NCTC
          2916]
          Length = 67

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 32/63 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G++IR+ R    ++Q +L +   +T  QV K EKG  R+    L+ I++ L   I  
Sbjct: 1  MYTGEKIRILREKYKITQYELSKKTNLTQSQVSKIEKGKRRITDVDLKEIAKALHVTIQE 60

Query: 73 FFD 75
            +
Sbjct: 61 LLE 63


>gi|197120409|ref|YP_002140836.1| helix-turn-helix domain-containing protein [Geobacter bemidjiensis
           Bem]
 gi|197089769|gb|ACH41040.1| helix-turn-helix domain protein [Geobacter bemidjiensis Bem]
          Length = 307

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 32/86 (37%), Gaps = 5/86 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR---VGASRLQHISEVLESPISF 72
           G RIR  R    ++Q  +   +G+T   + ++E   NR   +     Q +++ LE P+  
Sbjct: 20  GVRIRTVREAKRLTQLYVANVVGVTTDTISRWEN--NRYPSIKRENAQKLADALEVPLGD 77

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP 98
                  V  D    E        T 
Sbjct: 78  ILRDEAPVPEDEPGTEFPPPSPRRTK 103


>gi|124008859|ref|ZP_01693546.1| repressor [Microscilla marina ATCC 23134]
 gi|123985547|gb|EAY25439.1| repressor [Microscilla marina ATCC 23134]
          Length = 120

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/114 (19%), Positives = 52/114 (45%), Gaps = 6/114 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           K+++  R    +SQ+++   +GI   Q  ++E G      + ++ I++ L   +S  F  
Sbjct: 5   KKLKDIRSKKSLSQKEVALSVGIDRGQYSRFENGKAEPSLATIKKIAQALNVKLSDLFAE 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNR---YFIQIDDVKVRQKIIE-LVRSI 126
           +  +  DI S +  +++ I   + L   +    +  ID     +++ + L  +I
Sbjct: 65  NDEL--DIDSYDKTLVEKIQLIEELDEAQKQSLYTMIDTAVAHKRLKDTLANAI 116


>gi|110802950|ref|YP_698753.1| helix-turn-helix domain-containing protein [Clostridium perfringens
           SM101]
 gi|110683451|gb|ABG86821.1| DNA-binding protein [Clostridium perfringens SM101]
          Length = 433

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/132 (18%), Positives = 51/132 (38%), Gaps = 3/132 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I+ RR  L M+ ++L     IT  Q+   E G +      L++I+  L + + +  
Sbjct: 6   LGEKIKRRRKELNMTLKELAGE-RITPGQISLVESGRSNPSMDLLEYIAITLNTSVEYLM 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYF--IQIDDVKVRQKIIELVRSIVSSEKK 132
           +   T    I      + +     D ++    F    I        I    +++    + 
Sbjct: 65  ETEKTQAEKICLYYEQIAESAILNDDIKKGEKFIEYAIYYANKYDLIYRKAKNLALKAEM 124

Query: 133 YRTIEEECMVEQ 144
           Y   EE  + +Q
Sbjct: 125 YLKSEEYLLAQQ 136


>gi|21229281|ref|NP_635203.1| transcriptional regulator [Methanosarcina mazei Go1]
 gi|20907859|gb|AAM32875.1| transcriptional regulator [Methanosarcina mazei Go1]
          Length = 186

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 5/82 (6%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M+  +KI       +  R+R  R +  +S EK+ E L ++ +  +KYE G   + AS L 
Sbjct: 1  MIMQEKI-----KEIASRVRELRELSEISVEKMAEYLQVSKEIYEKYENGTEDIPASILF 55

Query: 61 HISEVLESPISFFFDVSPTVCS 82
           I+  L+  ++          +
Sbjct: 56 EIAHRLQVDMATLLTGEEPRMN 77


>gi|152968233|ref|YP_001364017.1| XRE family transcriptional regulator [Kineococcus radiotolerans
          SRS30216]
 gi|151362750|gb|ABS05753.1| transcriptional regulator, XRE family [Kineococcus radiotolerans
          SRS30216]
          Length = 70

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RIR  R   G +Q  L + L ++ Q V   E G           ++ +LE PI   F
Sbjct: 3  NRIRALRTERGWTQAALADLLDVSRQTVNALETGRYDPSLPLAFRLARLLERPIEEIF 60


>gi|317057144|ref|YP_004105611.1| helix-turn-helix domain-containing protein [Ruminococcus albus 7]
 gi|315449413|gb|ADU22977.1| helix-turn-helix domain protein [Ruminococcus albus 7]
          Length = 258

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 25/54 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I   R   G+SQ +L E LG +       E G   +  S +  ++E  + P+
Sbjct: 12 EKIVALRTERGLSQNQLAEALGASRTHYNGIEHGKATITNSYINMLAEFYDVPV 65


>gi|281492427|ref|YP_003354407.1| phage XRE family regulator [Lactococcus lactis subsp. lactis
          KF147]
 gi|281376091|gb|ADA65582.1| Phage protein, regulator, Xre family [Lactococcus lactis subsp.
          lactis KF147]
          Length = 228

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/63 (19%), Positives = 28/63 (44%), Gaps = 1/63 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPISFFFD 75
           RI+  R+  G++Q  + + +GI+   +  YE G       ++   +++  +   S+   
Sbjct: 10 NRIKELRIEKGVTQSTVAKAIGISQGMLTNYETGKRSPRDFKVWQDLADYFDVTTSYIMG 69

Query: 76 VSP 78
           S 
Sbjct: 70 TSD 72


>gi|255009477|ref|ZP_05281603.1| hypothetical protein Bfra3_10082 [Bacteroides fragilis 3_1_12]
 gi|313147247|ref|ZP_07809440.1| conserved hypothetical protein [Bacteroides fragilis 3_1_12]
 gi|313136014|gb|EFR53374.1| conserved hypothetical protein [Bacteroides fragilis 3_1_12]
          Length = 103

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 26/53 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G+ +R RR  L ++Q++L E +G     + + EKG   +  S    I+  L  
Sbjct: 44 GEILRDRRKQLKITQQELAEKVGTARSYIARVEKGETDIQISSFFRIARALGI 96


>gi|81427908|ref|YP_394907.1| XRE family DNA-binding protein [Lactobacillus sakei subsp. sakei
           23K]
 gi|78609549|emb|CAI54595.1| Putative DNA-binding protein, XRE family [Lactobacillus sakei
           subsp. sakei 23K]
          Length = 103

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/106 (23%), Positives = 47/106 (44%), Gaps = 18/106 (16%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
           + + IR  R  LG++ E+L E  G ++  + + E+G V+ +   +L  I+E L   +  F
Sbjct: 5   ISQMIREHRKQLGLTIEELAEKSGSSYSFISRIERGEVDNLKIKKLNDIAEALGIELIDF 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           F                    +S    L+L  Y  Q+ + K R+++
Sbjct: 65  FGDP----------------ALSGAQTLKLVHYLTQLPEDK-REEV 93


>gi|328954922|ref|YP_004372255.1| helix-turn-helix domain protein [Coriobacterium glomerans PW2]
 gi|328455246|gb|AEB06440.1| helix-turn-helix domain protein [Coriobacterium glomerans PW2]
          Length = 67

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 27/52 (51%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  R   G++Q+ + + LGI+ Q    YE   +R+   + + +  +L+  I
Sbjct: 4  LKEVRKARGLTQKDVADHLGISRQTYSGYENEQDRMTIGQAKSVCAMLKCEI 55


>gi|310826476|ref|YP_003958833.1| hypothetical protein ELI_0858 [Eubacterium limosum KIST612]
 gi|308738210|gb|ADO35870.1| hypothetical protein ELI_0858 [Eubacterium limosum KIST612]
          Length = 148

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 35/80 (43%), Gaps = 2/80 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  +   R   G+SQE++ E LG++ Q + K+E         + + ++++    +  
Sbjct: 1  MTLGNSLYKARKRTGLSQEEVAEKLGVSRQTISKWETNETLPDIRQSKQMAQLYHLSLDE 60

Query: 73 F--FDVSPTVCSDISSEENN 90
             FDV      ++    N 
Sbjct: 61 LIDFDVDVKEIEEMIEHANE 80


>gi|260655689|ref|ZP_05861162.1| toxin-antitoxin system, antitoxin component, Xre family
           [Jonquetella anthropi E3_33 E1]
 gi|260629606|gb|EEX47800.1| toxin-antitoxin system, antitoxin component, Xre family
           [Jonquetella anthropi E3_33 E1]
          Length = 123

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/90 (18%), Positives = 36/90 (40%), Gaps = 4/90 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G R+R  R    ++Q++L E   ++   +Q  E          L  +++ LE   + 
Sbjct: 1   MSFGLRLRSLRKAHQLTQQQLAEVTEVSRIYIQALESNRRSPSMKLLHKLADALEVDPAD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
             +  P+  S     E    +    P+ L+
Sbjct: 61  LLEEFPSERSGRLQLE----ELFQRPEELE 86


>gi|290894051|ref|ZP_06557025.1| phage protein [Listeria monocytogenes FSL J2-071]
 gi|290556395|gb|EFD89935.1| phage protein [Listeria monocytogenes FSL J2-071]
          Length = 73

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 32/65 (49%)

Query: 20 RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPT 79
          +L+R+  G++Q++L   +G+    ++K E GV     +    I ++L + I   F     
Sbjct: 9  KLKRIENGLTQKQLANKVGLAEISIRKIENGVRNPSINTAVRICKILNTKIEVIFPDIFL 68

Query: 80 VCSDI 84
          + +D 
Sbjct: 69 LTNDT 73


>gi|251789116|ref|YP_003003837.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247537737|gb|ACT06358.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 81

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/66 (34%), Positives = 32/66 (48%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          V  K  P      +G+ IR RR +LG+SQE L    GI    + + E+G   V    L  
Sbjct: 4  VSGKNDPAHALPLLGQTIRQRRELLGLSQENLASATGIDRSHMGRIERGERNVTLLNLLR 63

Query: 62 ISEVLE 67
          I++ LE
Sbjct: 64 IADALE 69


>gi|251778963|ref|ZP_04821883.1| helix-turn-helix domain protein [Clostridium botulinum E1 str.
          'BoNT E Beluga']
 gi|243083278|gb|EES49168.1| helix-turn-helix domain protein [Clostridium botulinum E1 str.
          'BoNT E Beluga']
          Length = 148

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 29/59 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G  I+  R   G+S+++L + LG+T   + +YE          L+ IS  L+  I+  
Sbjct: 3  IGANIKRERERKGLSRKQLADSLGVTDVSISRYENEKRTPSIKILESISLRLDVSINDL 61


>gi|256827925|ref|YP_003156653.1| XRE family transcriptional regulator [Desulfomicrobium baculatum
          DSM 4028]
 gi|256577101|gb|ACU88237.1| transcriptional regulator, XRE family [Desulfomicrobium baculatum
          DSM 4028]
          Length = 186

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 30/68 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+R  R  + +S+E +   LG+T   V  YE G + +  S L ++++  +  ++      
Sbjct: 14 RLRGLRDAMDLSEEDMAAQLGVTAADVLGYESGEHEIPVSYLFNVAQAFQVDLTVLMSGK 73

Query: 78 PTVCSDIS 85
                 S
Sbjct: 74 EAHLHTAS 81


>gi|227553220|ref|ZP_03983269.1| transcriptional regulator [Enterococcus faecalis HH22]
 gi|307291409|ref|ZP_07571293.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX0411]
 gi|312904166|ref|ZP_07763334.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX0635]
 gi|227177586|gb|EEI58558.1| transcriptional regulator [Enterococcus faecalis HH22]
 gi|306497640|gb|EFM67173.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX0411]
 gi|310632642|gb|EFQ15925.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX0635]
 gi|315029956|gb|EFT41888.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX4000]
          Length = 107

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/89 (14%), Positives = 31/89 (34%), Gaps = 6/89 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
          G R+   R    ++Q  +   LG+       YE+G           I++     + +   
Sbjct: 3  GTRLTELRKQKKLTQTDVANALGVARTTYSSYEQGRRTPDIDIQNKIADYFNVSLDYLHG 62

Query: 74 ---FDVSPTVCSDISSEENNVMDFISTPD 99
             F+ +      ++   + + D +S  +
Sbjct: 63 RESFEDTSLSKKQLTVAAH-IDDDVSDTE 90


>gi|218689364|ref|YP_002397576.1| putative DNA-binding transcriptional regulator [Escherichia coli
          ED1a]
 gi|218426928|emb|CAR07787.2| putative DNA-binding transcriptional regulator [Escherichia coli
          ED1a]
 gi|315298577|gb|EFU57832.1| helix-turn-helix protein [Escherichia coli MS 16-3]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 24/55 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTF 66


>gi|190894990|ref|YP_001985283.1| putative transcriptional regulator [Rhizobium etli CIAT 652]
 gi|190700651|gb|ACE94733.1| putative transcriptional regulator protein [Rhizobium etli CIAT
           652]
          Length = 203

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 4/86 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           + +++G R+R  R+   +SQ +L +  G+    +   E   +      L+ I +    PI
Sbjct: 22  MSVDIGSRLRHLRIAHKLSQRELAKRTGVPNSTISLIESNASNPSVGALKRILD--GIPI 79

Query: 71  SF--FFDVSPTVCSDISSEENNVMDF 94
               FF   P            +++ 
Sbjct: 80  GLAEFFAFEPERPKKAFYAAEELVEI 105


>gi|163796221|ref|ZP_02190182.1| transcriptional regulator, XRE-family protein [alpha
           proteobacterium BAL199]
 gi|159178363|gb|EDP62905.1| transcriptional regulator, XRE-family protein [alpha
           proteobacterium BAL199]
          Length = 195

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/99 (21%), Positives = 37/99 (37%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  I   R   G+S ++L    G++   + + E+       + +  I   LE     FF 
Sbjct: 18  GGEILRARKDAGLSLDELARRSGVSKSILSQIERDSTNPTIATVWRICAALERTPESFFR 77

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
                 S ++   +N    I + DG    R    I+ V+
Sbjct: 78  SGDEERSGVALLSSNATPEIQSEDGRCRLRILGAIETVE 116


>gi|154500872|ref|ZP_02038910.1| hypothetical protein BACCAP_04557 [Bacteroides capillosus ATCC
           29799]
 gi|150270372|gb|EDM97698.1| hypothetical protein BACCAP_04557 [Bacteroides capillosus ATCC
           29799]
          Length = 157

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/122 (21%), Positives = 53/122 (43%), Gaps = 12/122 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV----LES 68
           +++G  +   R   G+SQE + E LG++ Q + K+E         + + ++ +    L+ 
Sbjct: 9   MSLGSSLYHARKKSGLSQENVAEKLGVSRQTISKWETNETLPDIRQSKGLAMLYNMTLDE 68

Query: 69  PISFFFDVSPTVC--SDISSEENNVMDF--ISTPDGLQLNRYFI--QIDD--VKVRQKII 120
            I + FD          +S E    +D+  + +     L  Y    +IDD    +R+ + 
Sbjct: 69  LIEYDFDEQQAQQMIESVSEEAQARIDWNKVWSKKYPVLATYHRTVRIDDYAPTLREMLT 128

Query: 121 EL 122
           +L
Sbjct: 129 QL 130


>gi|161598530|ref|YP_001573911.1| hypothetical protein pEDINA_p39 [Staphylococcus aureus]
 gi|27531763|dbj|BAC54531.1| unnamed protein product [Staphylococcus aureus]
 gi|282166102|gb|ADA80122.1| hypothetical protein SAP099B_021 [Staphylococcus aureus]
          Length = 64

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 26/55 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          I+ +R + G SQE+L   L ++ Q V K+E   N      L  +S++    +   
Sbjct: 7  IKEQRELKGWSQEELANILKVSRQSVSKWESAKNYPSLDILIAMSDLFGITLDHL 61


>gi|114770344|ref|ZP_01447882.1| transcriptional regulator, putative [alpha proteobacterium
          HTCC2255]
 gi|114549181|gb|EAU52064.1| transcriptional regulator, putative [alpha proteobacterium
          HTCC2255]
          Length = 432

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 26/69 (37%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R  L ++Q+ L +  GI+   +   E     +    L  I+  L    S   
Sbjct: 6  LGTRIRENRKALRLTQKDLAKVAGISASYLNLIEHNRRGIAGKTLNTIARALSVEPSELS 65

Query: 75 DVSPTVCSD 83
          D       D
Sbjct: 66 DGMNQALVD 74


>gi|66395676|ref|YP_240035.1| ORF020 [Staphylococcus phage 47]
 gi|209363558|ref|YP_002267976.1| probable transcriptional repressor [Staphylococcus phage
          phi2958PVL]
 gi|257428267|ref|ZP_05604665.1| transcriptional repressor [Staphylococcus aureus subsp. aureus
          65-1322]
 gi|282905891|ref|ZP_06313746.1| transcriptional repressor [Staphylococcus aureus subsp. aureus
          Btn1260]
 gi|282919258|ref|ZP_06326993.1| transcriptional repressor [Staphylococcus aureus subsp. aureus
          C427]
 gi|284024543|ref|ZP_06378941.1| transcriptional repressor [Staphylococcus aureus subsp. aureus
          132]
 gi|62636100|gb|AAX91211.1| ORF020 [Staphylococcus phage 47]
 gi|208973059|dbj|BAG74375.1| probable transcriptional repressor [Staphylococcus phage
          phi2958PVL]
 gi|257275108|gb|EEV06595.1| transcriptional repressor [Staphylococcus aureus subsp. aureus
          65-1322]
 gi|282317068|gb|EFB47442.1| transcriptional repressor [Staphylococcus aureus subsp. aureus
          C427]
 gi|282331183|gb|EFB60697.1| transcriptional repressor [Staphylococcus aureus subsp. aureus
          Btn1260]
          Length = 204

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFDVS 77
          I+ RR  L ++ E++G+ +G+    V+K+E G +  +   ++  +++ L    S+   + 
Sbjct: 5  IKSRRKELNLTLEQVGDLVGVGKSTVRKWETGDIENMKRDKIVKLAKALRVSPSYIMGIE 64

Query: 78 PT 79
            
Sbjct: 65 DE 66


>gi|77462199|ref|YP_351703.1| hypothetical protein RSP_6209 [Rhodobacter sphaeroides 2.4.1]
 gi|77386617|gb|ABA77802.1| hypothetical protein RSP_6209 [Rhodobacter sphaeroides 2.4.1]
          Length = 120

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 33/89 (37%), Gaps = 4/89 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI+  R   G +QE L    G++  Q+   E+        RL  I+  L       F+ +
Sbjct: 27  RIKQLREARGWTQEVLAARSGMSRSQLAMIERETRPANTIRLNAIAGALGVSTEDLFESN 86

Query: 78  PTVCSDIS----SEENNVMDFISTPDGLQ 102
           P   + +         +V   I   +GL 
Sbjct: 87  PRERALLELIRLLPSEDVEALIRVAEGLA 115


>gi|26247719|ref|NP_753759.1| hypothetical protein c1858 [Escherichia coli CFT073]
 gi|110641615|ref|YP_669345.1| hypothetical protein ECP_1437 [Escherichia coli 536]
 gi|191172851|ref|ZP_03034387.1| DNA-binding protein [Escherichia coli F11]
 gi|227886179|ref|ZP_04003984.1| possible transcriptional regulator [Escherichia coli 83972]
 gi|300975406|ref|ZP_07172980.1| helix-turn-helix protein [Escherichia coli MS 200-1]
 gi|300976462|ref|ZP_07173445.1| helix-turn-helix protein [Escherichia coli MS 45-1]
 gi|301046759|ref|ZP_07193881.1| helix-turn-helix protein [Escherichia coli MS 185-1]
 gi|331657437|ref|ZP_08358399.1| putative oxidoreductase/putative repressor [Escherichia coli
          TA206]
 gi|26108121|gb|AAN80321.1|AE016760_180 Hypothetical protein ydcN [Escherichia coli CFT073]
 gi|47600733|emb|CAE55854.1| hypothetical protein YdcN [Escherichia coli Nissle 1917]
 gi|110343207|gb|ABG69444.1| hypothetical protein YdcN (putative DNA-binding protein)
          [Escherichia coli 536]
 gi|190906857|gb|EDV66460.1| DNA-binding protein [Escherichia coli F11]
 gi|227836844|gb|EEJ47310.1| possible transcriptional regulator [Escherichia coli 83972]
 gi|300301320|gb|EFJ57705.1| helix-turn-helix protein [Escherichia coli MS 185-1]
 gi|300308732|gb|EFJ63252.1| helix-turn-helix protein [Escherichia coli MS 200-1]
 gi|300410034|gb|EFJ93572.1| helix-turn-helix protein [Escherichia coli MS 45-1]
 gi|307553442|gb|ADN46217.1| putative HTH-type transcriptional regulator YdcN [Escherichia
          coli ABU 83972]
 gi|315290641|gb|EFU50013.1| helix-turn-helix protein [Escherichia coli MS 153-1]
 gi|320195607|gb|EFW70232.1| Transcriptional regulator yidN, Cro/CI family [Escherichia coli
          WV_060327]
 gi|324015156|gb|EGB84375.1| helix-turn-helix protein [Escherichia coli MS 60-1]
 gi|331055685|gb|EGI27694.1| putative oxidoreductase/putative repressor [Escherichia coli
          TA206]
          Length = 178

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 24/55 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F
Sbjct: 12 LKQLRQQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTF 66


>gi|332364291|gb|EGJ42066.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1059]
          Length = 99

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/67 (19%), Positives = 29/67 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R+   ++Q+++ E L ++    Q +E G  + G   L   +      I +    
Sbjct: 4  ERLKSLRLEANLTQKQVAEKLNMSQPAYQSWESGKRKPGEETLNKFANFFSVSIDYLLGK 63

Query: 77 SPTVCSD 83
          +    SD
Sbjct: 64 TDNRKSD 70


>gi|319782930|ref|YP_004142406.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
 gi|317168818|gb|ADV12356.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
          Length = 187

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/94 (21%), Positives = 36/94 (38%), Gaps = 2/94 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           I N +   +G+RI   R++   S  +L E  G++   +   E+G     A+ L  IS   
Sbjct: 4   IANEISSTIGRRIHAERVMRDWSLAELAEHSGVSKAMLSTIERGKTSPTAALLVRISSAF 63

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
              +S     +      +  E +  +     PD 
Sbjct: 64  GMTLSTLIARAELQGGRLLREADQPV--WRDPDT 95


>gi|294615154|ref|ZP_06695038.1| transcription regulator [Enterococcus faecium E1636]
 gi|312905108|ref|ZP_07764229.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|291591974|gb|EFF23599.1| transcription regulator [Enterococcus faecium E1636]
 gi|310631498|gb|EFQ14781.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|315579064|gb|EFU91255.1| helix-turn-helix protein [Enterococcus faecalis TX0630]
          Length = 71

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G+SQ +L + + +T Q V  ++ G       +++ +SE+L  P++  F
Sbjct: 5  SNLSRYRKEKGLSQTELAKKMNVTQQCVSSWQTGRTIPKPYQMKMLSEILSVPMNELF 62


>gi|289175228|emb|CBJ82031.1| conserved hypothetical protein [Xenorhabdus bovienii SS-2004]
          Length = 401

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R+   R   G+S+  LG+ +  +   V K+E G +   A  L  +S VL  P+ +F
Sbjct: 11 ARLTQMREARGLSKISLGKLVERSPSTVTKWENGNHSPDAEILHSLSRVLNCPVGWF 67


>gi|238853357|ref|ZP_04643737.1| conserved domain protein [Lactobacillus gasseri 202-4]
 gi|282852340|ref|ZP_06261682.1| DNA-binding protein [Lactobacillus gasseri 224-1]
 gi|311111561|ref|ZP_07712958.1| transcriptional regulator, XRE family [Lactobacillus gasseri
          MV-22]
 gi|238834045|gb|EEQ26302.1| conserved domain protein [Lactobacillus gasseri 202-4]
 gi|282556082|gb|EFB61702.1| DNA-binding protein [Lactobacillus gasseri 224-1]
 gi|311066715|gb|EFQ47055.1| transcriptional regulator, XRE family [Lactobacillus gasseri
          MV-22]
          Length = 64

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G+SQ  L + + +  Q +   E             ++  L++ ++  F
Sbjct: 2  NRVKEYRKQKGLSQMALAKRIDVARQTINLIENDKYNPSLDLCLKLAHELDTDLNTLF 59


>gi|191174537|ref|ZP_03036034.1| regulatory protein [Escherichia coli F11]
 gi|300992733|ref|ZP_07180010.1| peptidase S24-like domain protein [Escherichia coli MS 200-1]
 gi|190905183|gb|EDV64825.1| regulatory protein [Escherichia coli F11]
 gi|300305229|gb|EFJ59749.1| peptidase S24-like domain protein [Escherichia coli MS 200-1]
 gi|324015072|gb|EGB84291.1| peptidase S24-like domain protein [Escherichia coli MS 60-1]
          Length = 230

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M    L E +G+    + + E G  +      L +I++ L   I+
Sbjct: 1  MNIGNRVRQLRQAKNMKIADLAEAIGVDAANISRLETGKQKQFTEQTLSNIAKSLGVDIA 60

Query: 72 FFF 74
            F
Sbjct: 61 DLF 63


>gi|52079187|ref|YP_077978.1| putative HTH-type transcriptional regulator [Bacillus
          licheniformis ATCC 14580]
 gi|52784554|ref|YP_090383.1| hypothetical protein BLi00755 [Bacillus licheniformis ATCC 14580]
 gi|319647032|ref|ZP_08001258.1| hypothetical protein HMPREF1012_02296 [Bacillus sp. BT1B_CT2]
 gi|52002398|gb|AAU22340.1| Putative HTH-type transcriptional regulator [Bacillus
          licheniformis ATCC 14580]
 gi|52347056|gb|AAU39690.1| putative protein [Bacillus licheniformis ATCC 14580]
 gi|317390856|gb|EFV71657.1| hypothetical protein HMPREF1012_02296 [Bacillus sp. BT1B_CT2]
          Length = 69

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 28/56 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I+ +R  L M+QE+L + L ++ Q V   EKG  +        ++++ E  I   F
Sbjct: 5  IKEKRTSLNMTQEELAKRLNVSRQTVISLEKGKYKPSLVLAHKLAQIFECLIEDLF 60


>gi|327401729|ref|YP_004342568.1| XRE family transcriptional regulator [Archaeoglobus veneficus
          SNP6]
 gi|327317237|gb|AEA47853.1| transcriptional regulator, XRE family [Archaeoglobus veneficus
          SNP6]
          Length = 68

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++++ R I  ++QE+L + LG+T Q +   EKG           I+   +  I   F
Sbjct: 3  NKLKVYRAIHDLTQEELAKKLGVTRQTIIAIEKGKYDPSLELAFKIARFFKVKIEDIF 60


>gi|300783917|ref|YP_003764208.1| XRE family transcriptional regulator [Amycolatopsis mediterranei
           U32]
 gi|299793431|gb|ADJ43806.1| XRE family transcriptional regulator [Amycolatopsis mediterranei
           U32]
          Length = 211

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 3/86 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG RIR  R   G++  +L    G++   + + E+G  R     L  I++ L +      
Sbjct: 29  VGTRIRELRRSRGLTLVQLAGRTGLSHPFLSQLERGHTRPSMVSLDRIAKALGTTQ---V 85

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
           ++       +   +    D +   +G
Sbjct: 86  ELIAAGAPGLPDADIGRADVLRAGEG 111


>gi|229114819|ref|ZP_04244233.1| HTH-type transcriptional regulator sinR [Bacillus cereus Rock1-3]
 gi|228668884|gb|EEL24312.1| HTH-type transcriptional regulator sinR [Bacillus cereus Rock1-3]
          Length = 107

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
                  + + SE
Sbjct: 62 LHDETEKEAHLDSE 75


>gi|227485924|ref|ZP_03916240.1| conserved hypothetical protein [Anaerococcus lactolyticus ATCC
           51172]
 gi|227236157|gb|EEI86172.1| conserved hypothetical protein [Anaerococcus lactolyticus ATCC
           51172]
          Length = 207

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/115 (18%), Positives = 48/115 (41%), Gaps = 3/115 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + I+  R  LG++ E+ G+ LG+T   +   E G   +    +  I  V      +  + 
Sbjct: 3   ENIKKLRQELGLTMEEFGKNLGVTRSAISNIENGYRNLTEQMILAICNVYNVNEQWLRNG 62

Query: 77  SPTVCSDISSE--ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           +  +  + +    E  + D+        + + +I++ D K R+    +++ I  S
Sbjct: 63  TGDMFVEDTDSLIEKIISDYPLDKLSQTILKTYIEL-DPKKREIFNYVMKQIADS 116


>gi|225377291|ref|ZP_03754512.1| hypothetical protein ROSEINA2194_02938 [Roseburia inulinivorans DSM
           16841]
 gi|225210822|gb|EEG93176.1| hypothetical protein ROSEINA2194_02938 [Roseburia inulinivorans DSM
           16841]
          Length = 118

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/106 (21%), Positives = 44/106 (41%), Gaps = 11/106 (10%)

Query: 11  VDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D + +G+ I+ +R   G +QE L + +  T + +  +E        +    I  +L+  
Sbjct: 8   LDFHALGREIKRKREAKGWTQEYLAQLVDRTPRSIMYFENRGQHPSLNTFYQIVTLLDIS 67

Query: 70  IS-FFFDVSPTVCSD---------ISSEENNVMDFISTPDGLQLNR 105
           +  FF+       SD          S +E  +    +T +GLQ  R
Sbjct: 68  VDQFFYPDRQNSESDCRQHIDRLLNSMDEKELTVMEATAEGLQKAR 113


>gi|239629817|ref|ZP_04672848.1| conserved hypothetical protein [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|301066939|ref|YP_003788962.1| putative transcriptional regulator [Lactobacillus casei str.
          Zhang]
 gi|239527429|gb|EEQ66430.1| conserved hypothetical protein [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|300439346|gb|ADK19112.1| Predicted transcriptional regulator [Lactobacillus casei str.
          Zhang]
          Length = 67

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R    MSQ  L E +G+  Q +   E G      +    ++  L++ ++  F
Sbjct: 2  NRVRDYRRAKKMSQLALAEKIGVARQTINLIENGKYNPSLALCLKLAWTLKTDLNSLF 59


>gi|209558928|ref|YP_002285400.1| Hypothetical phage associated protein SpyM3_0964 [Streptococcus
          phage NZ131.1]
 gi|209540129|gb|ACI60705.1| Hypothetical phage associated protein SpyM3_0964 [Streptococcus
          phage NZ131.1]
          Length = 222

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPISFF 73
           R++  R    ++Q++L E +G+ ++ +Q +EK    ++   + + +++  +  + + 
Sbjct: 2  NRLKELRENNSITQQELAEKIGVHYRTIQNWEKDTKTQIKPEKAKMLADYFDVSVGYL 59


>gi|162457008|ref|YP_001619375.1| transcriptional regulator [Sorangium cellulosum 'So ce 56']
 gi|161167590|emb|CAN98895.1| transcriptional regulator [Sorangium cellulosum 'So ce 56']
          Length = 476

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/132 (18%), Positives = 48/132 (36%), Gaps = 13/132 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++R  R    M+Q  L E LG++   +   E     + A  L  ++++ +  +  F 
Sbjct: 7   LGAKVRALRRREHMTQVDLAERLGVSASYLNLIENNRRPLTAPLLIRLAQIFQLDLQNFA 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL------QLNRYFIQIDDVKVRQKIIELVRSIVS 128
                  +    E     D I    GL      +L           V + ++ L R+  +
Sbjct: 67  SEEDVRLTADLHE--VFGDPIFESHGLTNADLRELVAA-----SPNVARAVLTLYRTYAT 119

Query: 129 SEKKYRTIEEEC 140
           + +   T+ E  
Sbjct: 120 TRESLDTLGERL 131


>gi|24378729|ref|NP_720684.1| putative transcriptional regulator [Streptococcus mutans UA159]
 gi|24376595|gb|AAN57990.1|AE014871_15 putative transcriptional regulator [Streptococcus mutans UA159]
          Length = 117

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 31/72 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R+  G++Q+++ E L I  Q   ++E G  +  ++ L   ++       +    
Sbjct: 4  ERLKSLRLEAGLTQKQIAEKLEIKQQSYAQWESGRTKPRSATLNKFADFFGVTTDYLLGK 63

Query: 77 SPTVCSDISSEE 88
          +         EE
Sbjct: 64 TNIKKEIPEGEE 75


>gi|24380321|ref|NP_722276.1| putative transcriptional regulator [Streptococcus mutans UA159]
 gi|24378337|gb|AAN59582.1|AE015021_3 putative transcriptional regulator [Streptococcus mutans UA159]
          Length = 81

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 26/66 (39%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R I  +SQ +L + L +T Q +   EKG           I++   + I   F   
Sbjct: 4  RIQELRKINKLSQSELADALSVTRQTIISLEKGRYNASLELAYKIAKYFGTTIEDVFIFE 63

Query: 78 PTVCSD 83
               D
Sbjct: 64 DENRGD 69


>gi|261885677|ref|ZP_06009716.1| hypothetical protein CfetvA_11379 [Campylobacter fetus subsp.
          venerealis str. Azul-94]
          Length = 242

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 31/61 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + K+I+  R+  G +Q  L +  G++   +++YE     +  + L+ I+   +  IS 
Sbjct: 9  MRLSKKIKEYRLEKGWTQYDLAKFSGVSLGSIKRYETDNGNITYANLEKIANAFQKDISN 68

Query: 73 F 73
          F
Sbjct: 69 F 69


>gi|260684687|ref|YP_003215972.1| putative phage DNA-binding protein [Clostridium difficile CD196]
 gi|260688345|ref|YP_003219479.1| putative phage DNA-binding protein [Clostridium difficile R20291]
 gi|260210850|emb|CBA65947.1| putative phage DNA-binding protein [Clostridium difficile CD196]
 gi|260214362|emb|CBE06743.1| putative phage DNA-binding protein [Clostridium difficile R20291]
          Length = 280

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 33/72 (45%), Gaps = 1/72 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK ++  R    ++Q +L E  GI+   +  YE          L  +++ L+   + 
Sbjct: 27 LQIGKNLKKIRKQKELTQIQLAEISGISRNALINYENDKRIPSIDTLSKLAKALKIEKTI 86

Query: 73 F-FDVSPTVCSD 83
          F FD+   V ++
Sbjct: 87 FYFDIENEVMTN 98


>gi|290579706|ref|YP_003484098.1| putative transcriptional regulator [Streptococcus mutans NN2025]
 gi|254996605|dbj|BAH87206.1| putative transcriptional regulator [Streptococcus mutans NN2025]
          Length = 82

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 31/77 (40%), Gaps = 4/77 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R I  +SQ +L + L +T Q +   EKG           I++   + I   F   
Sbjct: 5  RIQELRKINKLSQSELADALSVTRQTIISLEKGRYNASLELAYKIAKYFGTTIEDVFIFE 64

Query: 78 PTVCSDISSEENNVMDF 94
               D    +NNV  F
Sbjct: 65 DENRGD----DNNVSKF 77


>gi|227549722|ref|ZP_03979771.1| MerR family transcriptional regulator [Corynebacterium
          lipophiloflavum DSM 44291]
 gi|227078218|gb|EEI16181.1| MerR family transcriptional regulator [Corynebacterium
          lipophiloflavum DSM 44291]
          Length = 467

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 33/86 (38%), Gaps = 6/86 (6%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+R  R    +SQ  L   L ++   V + E  V  +    L+ I+E      +FF
Sbjct: 5  YVGSRLRQLRRERNLSQASLAATLELSASYVNQIEHDVRPLTVPVLKRITEAFGVDATFF 64

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
                   D S     + D ++  +
Sbjct: 65 ------SRDDDSRLLAELKDVVADQE 84


>gi|162457184|ref|YP_001619551.1| DNA-binding protein [Sorangium cellulosum 'So ce 56']
 gi|161167766|emb|CAN99071.1| DNA-binding protein [Sorangium cellulosum 'So ce 56']
          Length = 79

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 26/66 (39%), Gaps = 1/66 (1%)

Query: 19 IRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          IR  R   G M+Q +L E +G+T Q +   E+G           I+     P+   F   
Sbjct: 12 IRTLRFHAGEMTQAELAEKVGVTRQTIVAIEQGRYSPSLEVAFRIAAAFGVPLEHVFQWK 71

Query: 78 PTVCSD 83
            V  +
Sbjct: 72 GDVSGE 77


>gi|134298756|ref|YP_001112252.1| XRE family transcriptional regulator [Desulfotomaculum reducens
           MI-1]
 gi|134051456|gb|ABO49427.1| putative transcriptional regulator, XRE family [Desulfotomaculum
           reducens MI-1]
          Length = 106

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/119 (21%), Positives = 51/119 (42%), Gaps = 16/119 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+  +I   R  +G S+ KL +  G++   + + E G  +     L  I   L   ++ 
Sbjct: 4   MNISFKITKLRKSVGWSKNKLAKESGLSQAYISQLEAGQKQPTIDSLDRICSSLGLTLAE 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           FF           SEEN  +    +PD  QL  +  ++  ++ R+ I  ++R +    +
Sbjct: 64  FF-----------SEENKPL----SPDIAQLVNHASKLTPIQ-RELISSVMREMAKDNE 106


>gi|49081996|gb|AAT50398.1| PA0906 [synthetic construct]
          Length = 238

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 29/70 (41%), Gaps = 1/70 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R    +SQ +L + +G+T   +   E+G +R   S +  I+        +  +  
Sbjct: 6  RIKAARKHAHLSQVQLAQAVGMTQTSISDLERGKSR-ATSFVAQIAGACGVNPLWLAEGR 64

Query: 78 PTVCSDISSE 87
            + ++    
Sbjct: 65 GEMLAERGQA 74


>gi|115359028|ref|YP_776166.1| XRE family transcriptional regulator [Burkholderia ambifaria
          AMMD]
 gi|115284316|gb|ABI89832.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          AMMD]
          Length = 185

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 30/61 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R    ++   L E +G +   + + E+G++R   + L  I E L  P ++F+ +S 
Sbjct: 14 IRDLRKHRKVTLNDLAERIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLSK 73

Query: 79 T 79
           
Sbjct: 74 P 74


>gi|223932178|ref|ZP_03624182.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
 gi|223899159|gb|EEF65516.1| transcriptional regulator, XRE family [Streptococcus suis
          89/1591]
          Length = 158

 Score = 53.3 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGDNIKSLRRTHDLTQPEFAKMVGISRNSLSRYENGTSTVSTELIDRICQKFNVS 56


>gi|325660971|ref|ZP_08149598.1| hypothetical protein HMPREF0490_00330 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|325472478|gb|EGC75689.1| hypothetical protein HMPREF0490_00330 [Lachnospiraceae bacterium
           4_1_37FAA]
          Length = 181

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/111 (17%), Positives = 47/111 (42%), Gaps = 20/111 (18%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            I+  R    ++Q++L + L ++ Q V ++EKG         + ++  L+  +       
Sbjct: 37  NIKKFREEKNLTQQQLADKLYVSRQTVCRWEKGSRCPDLITAKKLALELDVSVD------ 90

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK----VRQKIIELVR 124
             + SD   ++  V   I   +         +I D K    ++++I++ ++
Sbjct: 91  -ELISDEDVKDLQVNYGIWKSE---------RIKDKKHLQVLQKRILDFIQ 131


>gi|325957661|ref|YP_004293073.1| XRE family transcriptional regulator [Lactobacillus acidophilus
           30SC]
 gi|325334226|gb|ADZ08134.1| XRE family transcriptional regulator [Lactobacillus acidophilus
           30SC]
 gi|327184304|gb|AEA32751.1| XRE family transcriptional regulator [Lactobacillus amylovorus GRL
           1118]
          Length = 272

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 30/132 (22%), Positives = 51/132 (38%), Gaps = 13/132 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+ ++  R  LG++Q ++   + IT     K E+  + + A  L  I       +  
Sbjct: 1   MTIGEALKKERKDLGLTQAEMAAGV-ITTAHYSKIERDKHDISAYDLFEILTKNNINLVD 59

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII--ELVRSIVSSE 130
           F              + N+         L+L   F Q D   VR  I+  E+  S  + E
Sbjct: 60  FIKEIEDTYQSTPENQINLN--------LRLIHAFYQSDQKSVR--ILNKEIQESAATKE 109

Query: 131 KKYRTIEEECMV 142
           +K R I  E  V
Sbjct: 110 EKLRAILIEANV 121


>gi|322804952|emb|CBZ02511.1| transcriptional regulator [Clostridium botulinum H04402 065]
          Length = 183

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 28/65 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + + ++  R    +S  +L E   I+   + + EKG      + L  I+  L+ P 
Sbjct: 3  INSIIAENLKTLRTERNLSLGQLAELSNISKVMLSQIEKGDTNPTINTLWKIANGLKVPY 62

Query: 71 SFFFD 75
          +   +
Sbjct: 63 TLLLE 67


>gi|330399475|ref|YP_004030573.1| Cro/CI family transcriptional regulator [Burkholderia rhizoxinica
          HKI 454]
 gi|312170212|emb|CBW77251.1| Transcriptional regulator, Cro/CI family [Burkholderia
          rhizoxinica HKI 454]
          Length = 130

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 35/68 (51%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M    +  + +   +G+ I  +R + G++QE+L E  G+    + + E+G    G  RL 
Sbjct: 1  MAQENESRSKLARTIGQAIARQRRLRGLTQEQLSEAAGLAQASLSQIERGRVLPGLDRLA 60

Query: 61 HISEVLES 68
           ++++L+ 
Sbjct: 61 QLAQLLDC 68


>gi|259417133|ref|ZP_05741052.1| transcriptional regulator, XRE family with cupin sensor
          [Silicibacter sp. TrichCH4B]
 gi|259346039|gb|EEW57853.1| transcriptional regulator, XRE family with cupin sensor
          [Silicibacter sp. TrichCH4B]
          Length = 188

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 30/64 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R   G+S E +    G++   V + E+G +    + L +++  L+   +   + 
Sbjct: 14 ARLKEARRAQGLSLEAVANLSGVSRSMVSQIERGESSPTIATLWNLTRALQVDFAGLLEA 73

Query: 77 SPTV 80
          S TV
Sbjct: 74 SETV 77


>gi|227522962|ref|ZP_03953011.1| transcriptional regulator [Lactobacillus hilgardii ATCC 8290]
 gi|227089780|gb|EEI25092.1| transcriptional regulator [Lactobacillus hilgardii ATCC 8290]
          Length = 67

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R    +SQ  L E +G+  Q +   E        +    I++VL + ++  F
Sbjct: 2  NRVREYRKKQKLSQFSLAEKVGVARQTINLIENDKYNPSLNLCISIAKVLGTDLNTLF 59


>gi|255652577|ref|ZP_05399479.1| putative phage DNA-binding protein [Clostridium difficile
          QCD-37x79]
          Length = 278

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 27/55 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ I+  R    M+QE+L E  GI+   +  YE+         L+ ++  L++ 
Sbjct: 3  IGENIKTFRKDRRMTQEQLAEKAGISRVALGNYEREERVPNLDILEKLATALDTS 57


>gi|255092519|ref|ZP_05321997.1| transcriptional regulator [Clostridium difficile CIP 107932]
          Length = 126

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/113 (19%), Positives = 42/113 (37%), Gaps = 16/113 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +  RIR  R    +SQ   GE LG++   +   E          + ++ +V      +  
Sbjct: 6   ISTRIRKIRKDANLSQPAFGEKLGVSKDVISNIEYNRVEPKPLFINYMCDVFNVNKEWLL 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID---DVKVRQKIIELVR 124
           +    +             +IST D + L   F  I    + K+++ +I L +
Sbjct: 66  NGVGNM-------------YISTEDDILLGEAFAYITTCENEKLKKIVINLCK 105


>gi|218709441|ref|YP_002417062.1| hypothetical protein VS_1450 [Vibrio splendidus LGP32]
 gi|218322460|emb|CAV18613.1| Conserved hypothetical protein [Vibrio splendidus LGP32]
          Length = 142

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 29/56 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G  ++  R +  +SQ ++   +G+T Q   K+E       A+++  +++VL  
Sbjct: 19 MMIGSVLKEARALKNLSQPEVARLVGVTKQTYLKWENDTTEPKATQISKLAKVLGI 74


>gi|218133013|ref|ZP_03461817.1| hypothetical protein BACPEC_00874 [Bacteroides pectinophilus ATCC
          43243]
 gi|217991886|gb|EEC57890.1| hypothetical protein BACPEC_00874 [Bacteroides pectinophilus ATCC
          43243]
          Length = 69

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 28/55 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          IR  R+   MSQ++L + +G + Q + + E  V       L +I+++ +  + + 
Sbjct: 5  IRKLRLERNMSQKQLAKVVGTSQQTISRIENDVMSSPVDLLVNIADLFDVSVDYL 59


>gi|254489092|ref|ZP_05102296.1| transcriptional regulator, XRE family with Cupin sensor domain
          [Roseobacter sp. GAI101]
 gi|214042100|gb|EEB82739.1| transcriptional regulator, XRE family with Cupin sensor domain
          [Roseobacter sp. GAI101]
          Length = 204

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/94 (21%), Positives = 35/94 (37%), Gaps = 3/94 (3%)

Query: 1  MVGNKKIPNPVDI--NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
          M    K P P D    +G+  R  R   G+S  +L E  G++   + + E+ +       
Sbjct: 1  MSDPDK-PTPEDTPGAIGETFRQMRQNQGISLRELSEKSGVSVGTISQIERDLANPSMRV 59

Query: 59 LQHISEVLESPISFFFDVSPTVCSDISSEENNVM 92
          L  I   L  P+   F       +D  ++ +   
Sbjct: 60 LTAIRRALNVPMQVMFGDDSGTTADSDADGDPPF 93


>gi|170755017|ref|YP_001780261.1| cupin domain-containing protein [Clostridium botulinum B1 str.
          Okra]
 gi|169120229|gb|ACA44065.1| cupin domain protein [Clostridium botulinum B1 str. Okra]
          Length = 183

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 28/65 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + + ++  R    +S  +L E   I+   + + EKG      + L  I+  L+ P 
Sbjct: 3  INSIIAENLKTLRTERNLSLGQLAELSNISKVMLSQIEKGDTNPTINTLWKIANGLKVPY 62

Query: 71 SFFFD 75
          +   +
Sbjct: 63 TLLLE 67


>gi|168483951|ref|ZP_02708903.1| conserved domain protein [Streptococcus pneumoniae CDC1873-00]
 gi|172042755|gb|EDT50801.1| conserved domain protein [Streptococcus pneumoniae CDC1873-00]
 gi|332201874|gb|EGJ15944.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA47368]
          Length = 69

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+ L ++Q +L E +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 6  KLKLARVELDLTQGQLAEAVGVTRQTIGLIEAGKYNPSLSLCQSICRCLGKTLDQLF 62


>gi|168183318|ref|ZP_02617982.1| cupin domain protein [Clostridium botulinum Bf]
 gi|237793956|ref|YP_002861508.1| cupin domain-containing protein [Clostridium botulinum Ba4 str.
          657]
 gi|182673516|gb|EDT85477.1| cupin domain protein [Clostridium botulinum Bf]
 gi|229263990|gb|ACQ55023.1| cupin domain protein [Clostridium botulinum Ba4 str. 657]
          Length = 183

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 28/65 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + + ++  R    +S  +L E   I+   + + EKG      + L  I+  L+ P 
Sbjct: 3  INSIIAENLKTLRTERNLSLGQLAELSNISKVMLSQIEKGDTNPTINTLWKIANGLKVPY 62

Query: 71 SFFFD 75
          +   +
Sbjct: 63 TLLLE 67


>gi|160893069|ref|ZP_02073857.1| hypothetical protein CLOL250_00614 [Clostridium sp. L2-50]
 gi|156865152|gb|EDO58583.1| hypothetical protein CLOL250_00614 [Clostridium sp. L2-50]
          Length = 222

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/88 (22%), Positives = 40/88 (45%), Gaps = 1/88 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I++G+ I   R   G +Q++L E L I+ + V K+E G      S L  + + L+  ++ 
Sbjct: 17  ISIGRFIAAERKRKGCTQKQLAEKLNISDKTVSKWECGKGFPEVSLLLPLCKELDITVNE 76

Query: 73  FFDVSPTVCSDIS-SEENNVMDFISTPD 99
               +     +     E N+++ I   +
Sbjct: 77  LLSGARVSEEEYQKKAEENMVNMIKERE 104


>gi|153940779|ref|YP_001389988.1| cupin domain-containing protein [Clostridium botulinum F str.
          Langeland]
 gi|152936675|gb|ABS42173.1| cupin domain protein [Clostridium botulinum F str. Langeland]
 gi|295318072|gb|ADF98449.1| cupin domain protein [Clostridium botulinum F str. 230613]
          Length = 183

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 28/65 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + + ++  R    +S  +L E   I+   + + EKG      + L  I+  L+ P 
Sbjct: 3  INSIIAENLKTLRTERNLSLGQLAELSNISKVMLSQIEKGDTNPTINTLWKIANGLKVPY 62

Query: 71 SFFFD 75
          +   +
Sbjct: 63 TLLLE 67


>gi|148378625|ref|YP_001253166.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|153934328|ref|YP_001383012.1| DNA-binding cupin domain-containing protein [Clostridium
          botulinum A str. ATCC 19397]
 gi|153935310|ref|YP_001386559.1| helix-turn-helix domain-containing protein [Clostridium botulinum
          A str. Hall]
 gi|168177994|ref|ZP_02612658.1| cupin domain protein [Clostridium botulinum NCTC 2916]
 gi|226947877|ref|YP_002802968.1| cupin domain protein [Clostridium botulinum A2 str. Kyoto]
 gi|148288109|emb|CAL82177.1| putative DNA-binding protein [Clostridium botulinum A str. ATCC
          3502]
 gi|152930372|gb|ABS35872.1| DNA-binding/cupin domain protein [Clostridium botulinum A str.
          ATCC 19397]
 gi|152931224|gb|ABS36723.1| helix-turn-helix domain protein [Clostridium botulinum A str.
          Hall]
 gi|182671201|gb|EDT83175.1| cupin domain protein [Clostridium botulinum NCTC 2916]
 gi|226840881|gb|ACO83547.1| cupin domain protein [Clostridium botulinum A2 str. Kyoto]
          Length = 183

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 28/65 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + + ++  R    +S  +L E   I+   + + EKG      + L  I+  L+ P 
Sbjct: 3  INSIIAENLKTLRTERNLSLGQLAELSNISKVMLSQIEKGDTNPTINTLWKIANGLKVPY 62

Query: 71 SFFFD 75
          +   +
Sbjct: 63 TLLLE 67


>gi|150398683|ref|YP_001329150.1| XRE family transcriptional regulator [Sinorhizobium medicae
          WSM419]
 gi|150030198|gb|ABR62315.1| transcriptional regulator, XRE family [Sinorhizobium medicae
          WSM419]
          Length = 263

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +  G R++  R    MSQ  L    GI+ + +   E G ++     +  ++ VL+ P
Sbjct: 1  MEFGSRLKEWRGHRRMSQLDLANAAGISARHLSFLETGRSKPTEGMILRLASVLDVP 57


>gi|89055144|ref|YP_510595.1| XRE family transcriptional regulator [Jannaschia sp. CCS1]
 gi|88864693|gb|ABD55570.1| transcriptional regulator, XRE family [Jannaschia sp. CCS1]
          Length = 133

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/122 (18%), Positives = 51/122 (41%), Gaps = 11/122 (9%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R   G+SQ +L + LG+  + ++ +E+  +   A++L  ++ +L   + +   
Sbjct: 20  GDRVTGAREAAGLSQPELAKRLGVRVKTIRAWEQDQSEPRANKLGTLAGILGVSMMWLLA 79

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                    S E ++ +D       + L          ++RQ+ + L   +   EK+ R 
Sbjct: 80  GQGEGLD--SPELSDPLDGDIEKILIDL---------RQMRQEQVSLAERMGLIEKRLRA 128

Query: 136 IE 137
             
Sbjct: 129 AL 130


>gi|315121942|ref|YP_004062431.1| hypothetical protein CKC_00960 [Candidatus Liberibacter
           solanacearum CLso-ZC1]
 gi|313495344|gb|ADR51943.1| hypothetical protein CKC_00960 [Candidatus Liberibacter
           solanacearum CLso-ZC1]
          Length = 193

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 34/76 (44%), Gaps = 2/76 (2%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KKI NP    +G R++  R+ +G++Q++ G  +G++   V   E G           I  
Sbjct: 88  KKIFNP--RAIGARLKAIRLKMGLTQKEFGLLIGLSSVGVGNIENGHRTPEIKTALKIKR 145

Query: 65  VLESPISFFFDVSPTV 80
            L  P+ + +     +
Sbjct: 146 ALGKPLDWIYFGDEPI 161


>gi|303243062|ref|ZP_07329512.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
 gi|302589397|gb|EFL59195.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
          Length = 114

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 34/63 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RIR +R+ + ++QE+L E + +++  V + E+G   +    L  ++  L   + +  
Sbjct: 6  LGERIRKQRLKVNLTQEQLAEKIDMSYSFVGQIERGDRVLSLETLVRLANELSISVDYLI 65

Query: 75 DVS 77
            S
Sbjct: 66 QDS 68


>gi|291530055|emb|CBK95640.1| Predicted transcription factor, homolog of eukaryotic MBF1
          [Eubacterium siraeum 70/3]
          Length = 115

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 32/68 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+R  R+  G+SQEKL E  G     + + E+G        ++ I+  +   ++  F+
Sbjct: 14 GQRVRNYRIDKGLSQEKLAELSGCHPTYIGQVERGEKNATLESIEKIASAMNISLAQLFE 73

Query: 76 VSPTVCSD 83
                +D
Sbjct: 74 KIGESSTD 81


>gi|288905287|ref|YP_003430509.1| transcriptional regulator [Streptococcus gallolyticus UCN34]
 gi|306831364|ref|ZP_07464524.1| transcriptional regulator [Streptococcus gallolyticus subsp.
           gallolyticus TX20005]
 gi|325978272|ref|YP_004287988.1| transcriptional regulator [Streptococcus gallolyticus subsp.
           gallolyticus ATCC BAA-2069]
 gi|288732013|emb|CBI13578.1| putative transcriptional regulator [Streptococcus gallolyticus
           UCN34]
 gi|304426600|gb|EFM29712.1| transcriptional regulator [Streptococcus gallolyticus subsp.
           gallolyticus TX20005]
 gi|325178200|emb|CBZ48244.1| transcriptional regulator [Streptococcus gallolyticus subsp.
           gallolyticus ATCC BAA-2069]
          Length = 226

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 44/101 (43%), Gaps = 8/101 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
           G++++  R   G SQ ++ + L I+      +E G  +     L  +S++L    ++F  
Sbjct: 4   GEKLKNIREEKGYSQAEVAKLLNISRVSYFNWENGKTKPNQKNLNLLSQLLGVEETYFVS 63

Query: 74  -FDVSPT----VCSDISSEENNVMDFISTPD-GLQLNRYFI 108
            +D+  T       +    EN   D +   +  +QL +Y+ 
Sbjct: 64  EYDIVDTYFKLNKDNRHKLENYADDLLKEQEKIVQLPKYYA 104


>gi|254487954|ref|ZP_05101159.1| transcriptional Regulator, XRE family with Cupin sensor domain
           [Roseobacter sp. GAI101]
 gi|214044823|gb|EEB85461.1| transcriptional Regulator, XRE family with Cupin sensor domain
           [Roseobacter sp. GAI101]
          Length = 183

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/91 (20%), Positives = 39/91 (42%), Gaps = 5/91 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS- 71
           +++G R+R  R   G+SQ +L    G+T   +   EK       + L+ + +    PIS 
Sbjct: 1   MDIGHRLRTIREERGLSQRELAAKAGLTNGTISLIEKNKTSPSVASLKSLLDA--IPISM 58

Query: 72  --FFFDVSPTVCSDISSEENNVMDFISTPDG 100
             FF  +       +   ++  ++   + +G
Sbjct: 59  AEFFSPLEDAETPKVFYRQSEFIEISPSSEG 89


>gi|212709629|ref|ZP_03317757.1| hypothetical protein PROVALCAL_00675 [Providencia alcalifaciens
          DSM 30120]
 gi|212687733|gb|EEB47261.1| hypothetical protein PROVALCAL_00675 [Providencia alcalifaciens
          DSM 30120]
          Length = 236

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 27/53 (50%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++  LG+SQE LG+ +G+    V +   GVN +       ++E LE  +  F
Sbjct: 23 AKKKELGLSQESLGDAIGMGQSAVAQLLNGVNAINVENAVKLAEALEVSVDDF 75


>gi|172063826|ref|YP_001811477.1| XRE family transcriptional regulator [Burkholderia ambifaria
           MC40-6]
 gi|171996343|gb|ACB67261.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           MC40-6]
          Length = 185

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/129 (17%), Positives = 48/129 (37%), Gaps = 14/129 (10%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR  R    ++   L E +G +   + + E+G++R   + L  I E L  P ++F+ +S 
Sbjct: 14  IRDLRKHRKVTLNDLAERIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLSK 73

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD----VKVRQKIIELVRSIVSSEKKYR 134
                        + +++ PD  +   Y   I D      +R +   L   +        
Sbjct: 74  PRS----------VPWVTRPDERRTVYYAAGITDILVSPNMRSRFSILESHLAPGASSGE 123

Query: 135 TIEEECMVE 143
              ++   +
Sbjct: 124 RSVDDSDEQ 132


>gi|160935693|ref|ZP_02083068.1| hypothetical protein CLOBOL_00583 [Clostridium bolteae ATCC
           BAA-613]
 gi|158441437|gb|EDP19147.1| hypothetical protein CLOBOL_00583 [Clostridium bolteae ATCC
           BAA-613]
          Length = 129

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/117 (14%), Positives = 44/117 (37%), Gaps = 23/117 (19%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+   R   G +Q+ L + +G++   +   EK      A  +  + ++L     +  
Sbjct: 18  LGERLNYARKQKGYTQDSLAQTIGVSRGVIFNLEKNKTEPQAIVINAVCQILNINKEWLT 77

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           D +  + S                     N+ F      K+ +++ ++ + +   E+
Sbjct: 78  DGTGDMESG--------------------NQAF---QSAKLLEELYDIAKELSEDEQ 111


>gi|160893910|ref|ZP_02074689.1| hypothetical protein CLOL250_01465 [Clostridium sp. L2-50]
 gi|156864288|gb|EDO57719.1| hypothetical protein CLOL250_01465 [Clostridium sp. L2-50]
          Length = 91

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 30/61 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG+RI+  R+   ++  +LG CLGI   QV + E GV R    +L  I +       +
Sbjct: 3  MEVGQRIQDIRIENEVTGAQLGACLGINGNQVSRIETGVARCSIYQLVLICQEFGCSADY 62

Query: 73 F 73
           
Sbjct: 63 L 63


>gi|187922166|ref|YP_001893808.1| XRE family transcriptional regulator [Burkholderia phytofirmans
           PsJN]
 gi|187713360|gb|ACD14584.1| transcriptional regulator, XRE family [Burkholderia phytofirmans
           PsJN]
          Length = 119

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/93 (19%), Positives = 40/93 (43%), Gaps = 8/93 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           KR++  R+   ++QE+LG   GI       ++ +YE+G +       Q ++  L  P SF
Sbjct: 13  KRLKEARVRSCLTQEQLGINAGIDEFSASARINQYERGKHLPHLGMGQRLARALHVPTSF 72

Query: 73  FFDVSPTVCSDISSEENNVMD----FISTPDGL 101
            ++    + + + +            ++  + L
Sbjct: 73  LYEEDDLLAALLVAAARLTRSRKKVLLANAETL 105


>gi|33326774|gb|AAQ08805.1| BzdR [Azoarcus sp. CIB]
          Length = 298

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 30/56 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G RIR  R   GM+++ L +  G++ + + + E G   +    L+ I++ L  PI
Sbjct: 26 LGDRIRDLRAQRGMTRKMLAQQSGVSERYLAQLETGHGNISIILLRQIAQGLGFPI 81


>gi|71065283|ref|YP_264010.1| bifunctional HTH-domain containing protein/aminotransferase
          [Psychrobacter arcticus 273-4]
 gi|71038268|gb|AAZ18576.1| aminotransferase [Psychrobacter arcticus 273-4]
          Length = 546

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 35/76 (46%), Gaps = 7/76 (9%)

Query: 17 KRIRLRRMILGMSQEKLGECL-----GITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R+   R   GM+ E+L + +      ++   +  +E+G N + +S+L  ++ +L     
Sbjct: 13 ERLVQLRRDKGMTAEQLAQAMTAAGAKVSRGAISNWERGTNGIVSSKLPTLARILGCSEG 72

Query: 72 FFF--DVSPTVCSDIS 85
          +    ++     SD+ 
Sbjct: 73 YLLRGELESDSKSDVD 88


>gi|320189877|gb|EFW64529.1| hypothetical protein ECoD_03358 [Escherichia coli O157:H7 str.
          EC1212]
          Length = 373

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 1/61 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  ++L R   G++ E+L   LG+T Q + K E+G     +  L  +++ L+   SFFF 
Sbjct: 12 GDCLKLARQAKGVTGEELATALGVTRQFINKLERGY-PPSSQMLTALADYLDVKESFFFT 70

Query: 76 V 76
           
Sbjct: 71 G 71


>gi|260597676|ref|YP_003210247.1| DNA-binding transcriptional repressor PuuR [Cronobacter
          turicensis z3032]
 gi|260216853|emb|CBA30375.1| HTH-type transcriptional regulator puuR [Cronobacter turicensis
          z3032]
          Length = 185

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 36/80 (45%), Gaps = 1/80 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R  LG+SQ ++ E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLAQIRQQLGLSQRRVAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFA 68

Query: 75 DVSPTVCSDISSEENNVMDF 94
          +        +   ++ +++ 
Sbjct: 69 EPEKPDEPQVVINQDELIEI 88


>gi|323342462|ref|ZP_08082694.1| cro/CI family transcriptional regulator [Erysipelothrix
          rhusiopathiae ATCC 19414]
 gi|322463574|gb|EFY08768.1| cro/CI family transcriptional regulator [Erysipelothrix
          rhusiopathiae ATCC 19414]
          Length = 177

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 36/81 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKR++  R   G++ E+L     +T   + + E  +     + L  I E L + +S 
Sbjct: 1  MEIGKRLKQLRTKNGLTLEELASRSELTKGFLSQLENDLTSPSIATLNDIVEALGTNLSV 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF          ++++  + +
Sbjct: 61 FFKEESAEQVVFTADDYFIDE 81


>gi|304316012|ref|YP_003851157.1| XRE family transcriptional regulator [Thermoanaerobacterium
          thermosaccharolyticum DSM 571]
 gi|302777514|gb|ADL68073.1| transcriptional regulator, XRE family [Thermoanaerobacterium
          thermosaccharolyticum DSM 571]
          Length = 129

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 5/72 (6%)

Query: 13 INVGKRIRLRRMILGMSQ----EKLGEC-LGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          I++G +I+  R   G+SQ    E+L E  + I+ + + K E G   V A  L  + +VL 
Sbjct: 5  ISIGLKIKAIREARGLSQIEVVERLAEKDINISRETLSKIENGNRTVSAVELNALCKVLN 64

Query: 68 SPISFFFDVSPT 79
            I+  F+    
Sbjct: 65 IDINILFEDEED 76


>gi|218234511|ref|YP_002369300.1| DNA-binding protein [Bacillus cereus B4264]
 gi|228923247|ref|ZP_04086537.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
 gi|218162468|gb|ACK62460.1| DNA-binding protein [Bacillus cereus B4264]
 gi|228836453|gb|EEM81804.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
          Length = 190

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/117 (22%), Positives = 47/117 (40%), Gaps = 11/117 (9%)

Query: 1   MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M  N+ +    V   VG+ +R  R    +S E+L    G++   + K E+G      + +
Sbjct: 1   MKENEDMQTKEVIQQVGQLLRQIRNEQKLSLEELAHKTGVSKLTLGKIERGETNPTLAVI 60

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMD---------FISTPD-GLQLNRY 106
             I++ L  P+S    V   V      E   V +         F  T + G++++R 
Sbjct: 61  WKITKGLSIPLSRLMVVGEPVAVARCGEGFAVDEGQAWHLETMFRYTKETGMEMHRA 117


>gi|167856042|ref|ZP_02478786.1| helix-turn-helix domain protein [Haemophilus parasuis 29755]
 gi|219870567|ref|YP_002474942.1| XRE family transcriptional regulator [Haemophilus parasuis SH0165]
 gi|167852837|gb|EDS24107.1| helix-turn-helix domain protein [Haemophilus parasuis 29755]
 gi|219690771|gb|ACL31994.1| XRE family transcriptional regulator [Haemophilus parasuis SH0165]
          Length = 114

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 39/90 (43%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ I   R   G++Q +L E LGI+   V + E+G       RL  +SE+    ++   
Sbjct: 12  IGQAIAKYRQASGLTQAQLAEILGISNDAVSRMERGKTIPTVLRLLELSEIFHCEVADLV 71

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
             S    +D +     ++  + +    +L 
Sbjct: 72  TESSNRSTDQAKVIEKLLQQLDSQQRSELL 101


>gi|145629763|ref|ZP_01785558.1| helix-turn-helix domain protein [Haemophilus influenzae 22.1-21]
 gi|145638505|ref|ZP_01794114.1| helix-turn-helix domain protein [Haemophilus influenzae PittII]
 gi|144978002|gb|EDJ87786.1| helix-turn-helix domain protein [Haemophilus influenzae 22.1-21]
 gi|145272100|gb|EDK12008.1| helix-turn-helix domain protein [Haemophilus influenzae PittII]
 gi|309751804|gb|ADO81788.1| Conserved hypothetical protein [Haemophilus influenzae R2866]
          Length = 113

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/123 (21%), Positives = 50/123 (40%), Gaps = 17/123 (13%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +  NVG  I   R   G+SQ K+ E L ++   + + E+G       RL   +E+ +   
Sbjct: 8   IAKNVGMMIAKYRKQAGLSQAKVAELLDLSIDSISRIERGNIVPNVPRLFEFAELFDCEP 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           S F         D S + + ++  ++T D                R K++  V +IV  +
Sbjct: 68  SDFLK-RSHRLQDQSRQFDELLAQLNTKD----------------RAKLLNFVEAIVEWK 110

Query: 131 KKY 133
           ++ 
Sbjct: 111 QEK 113


>gi|15596103|ref|NP_249597.1| transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|107100364|ref|ZP_01364282.1| hypothetical protein PaerPA_01001389 [Pseudomonas aeruginosa
          PACS2]
 gi|116048830|ref|YP_792370.1| transcriptional regulator [Pseudomonas aeruginosa UCBPP-PA14]
 gi|218893125|ref|YP_002441994.1| putative transcriptional regulator [Pseudomonas aeruginosa
          LESB58]
 gi|254239258|ref|ZP_04932581.1| hypothetical protein PACG_05450 [Pseudomonas aeruginosa C3719]
 gi|296390740|ref|ZP_06880215.1| putative transcriptional regulator [Pseudomonas aeruginosa PAb1]
 gi|313105790|ref|ZP_07792053.1| putative transcriptional regulator [Pseudomonas aeruginosa 39016]
 gi|9946808|gb|AAG04295.1|AE004525_3 probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|115584051|gb|ABJ10066.1| probable transcriptional regulator [Pseudomonas aeruginosa
          UCBPP-PA14]
 gi|126171189|gb|EAZ56700.1| hypothetical protein PACG_05450 [Pseudomonas aeruginosa C3719]
 gi|218773353|emb|CAW29165.1| probable transcriptional regulator [Pseudomonas aeruginosa
          LESB58]
 gi|310878555|gb|EFQ37149.1| putative transcriptional regulator [Pseudomonas aeruginosa 39016]
          Length = 237

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 29/70 (41%), Gaps = 1/70 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R    +SQ +L + +G+T   +   E+G +R   S +  I+        +  +  
Sbjct: 6  RIKAARKHAHLSQVQLAQAVGMTQTSISDLERGKSR-ATSFVAQIAGACGVNPLWLAEGR 64

Query: 78 PTVCSDISSE 87
            + ++    
Sbjct: 65 GEMLAERGQA 74


>gi|326385820|ref|ZP_08207449.1| hypothetical protein Y88_2877 [Novosphingobium nitrogenifigens
          DSM 19370]
 gi|326209799|gb|EGD60587.1| hypothetical protein Y88_2877 [Novosphingobium nitrogenifigens
          DSM 19370]
          Length = 129

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 3/72 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G R    R   G+ Q  + E +GI+   +  YEKG     AS +   S+V     ++
Sbjct: 1  MSIGARFLEIRKAKGLKQTDVAEAIGISHGALVNYEKGR-EPPASAILAFSQVYGVSANW 59

Query: 73 FF--DVSPTVCS 82
              +  P   S
Sbjct: 60 LLTGEGRPDAES 71


>gi|320532299|ref|ZP_08033153.1| helix-turn-helix protein [Actinomyces sp. oral taxon 171 str.
          F0337]
 gi|320135486|gb|EFW27580.1| helix-turn-helix protein [Actinomyces sp. oral taxon 171 str.
          F0337]
          Length = 62

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R   G++Q +LG  LG++ Q +   EKG           I+   E+ +   F
Sbjct: 5  VRGLREARGLTQAQLGAALGVSRQSINSIEKGKYDPSLPLAIAIARYFETTVEEIF 60


>gi|305662466|ref|YP_003858754.1| transcriptional regulator, XRE family [Ignisphaera aggregans DSM
           17230]
 gi|304377035|gb|ADM26874.1| transcriptional regulator, XRE family [Ignisphaera aggregans DSM
           17230]
          Length = 335

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 39/90 (43%), Gaps = 7/90 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+++R  R+    S  +L + +G++ + +QKYE+    +   +     E+       F D
Sbjct: 140 GEKLRKIRLERRYSLNELAKHVGVSVKALQKYEENEIDMSVEKAYRFLEI-------FGD 192

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNR 105
               V SDI    + +       +G+ L R
Sbjct: 193 DFEEVLSDIDIFSDRITKAEGHEEGIVLRR 222


>gi|294666246|ref|ZP_06731497.1| transcriptional regulator [Xanthomonas fuscans subsp. aurantifolii
           str. ICPB 10535]
 gi|292603955|gb|EFF47355.1| transcriptional regulator [Xanthomonas fuscans subsp. aurantifolii
           str. ICPB 10535]
          Length = 149

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/128 (14%), Positives = 49/128 (38%), Gaps = 17/128 (13%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+R  R   G++Q +LG    + + Q+ +YE G        L  +++       +     
Sbjct: 13  RLRNARERAGLTQRELGAEADVNYSQISRYEHGTAFPRPGVLLRLAKATGVSPEYLRSGG 72

Query: 78  PTVCSDISSEEN----------NVMDFISTPDGLQLNRYFIQIDD---VKVRQKIIELVR 124
             V  +++  E              +  +   G+ ++  F +++      VR ++    R
Sbjct: 73  VPVADEVAYYEQLRPQLPKAAVEAFEAQAVKSGMPVDALFARLEALWIKTVRDEL----R 128

Query: 125 SIVSSEKK 132
           ++ +  ++
Sbjct: 129 AMAAESER 136


>gi|315497496|ref|YP_004086300.1| transcriptional regulator, xre family [Asticcacaulis excentricus CB
           48]
 gi|315415508|gb|ADU12149.1| transcriptional regulator, XRE family [Asticcacaulis excentricus CB
           48]
          Length = 470

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/125 (17%), Positives = 53/125 (42%), Gaps = 16/125 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G R++  R  L ++Q ++ E LG++   +   E+    V A  L  ++   +  +  
Sbjct: 8   LFLGGRVKRLRHDLNLTQTRMAEDLGVSPSYLNHLERNQRPVTAQVLLKLASTYDLDMRT 67

Query: 73  F-FDVSPTVCSDISS------------EENNVMDFISTPDGL--QLNRYFIQIDDVKVRQ 117
           F  +  P+  +D++                 + D ++    +   + R +    + KVR+
Sbjct: 68  FTAEADPSGEADLAEVLSDPLFKDLHAPRREIADLVAASPTVAEAMLRLYRAYKERKVRE 127

Query: 118 KIIEL 122
            +I+L
Sbjct: 128 -VIDL 131


>gi|319650130|ref|ZP_08004279.1| hypothetical protein HMPREF1013_00884 [Bacillus sp. 2_A_57_CT2]
 gi|317398311|gb|EFV79000.1| hypothetical protein HMPREF1013_00884 [Bacillus sp. 2_A_57_CT2]
          Length = 183

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 30/72 (41%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +  ++G+ +R  R   G S +   E  G++   + + E+G +    + L  I+  L+   
Sbjct: 4  IQKSIGENLRNIRKTRGYSLDAAAEITGVSKAMLGQIERGESNPTVTTLWKIASGLQVSF 63

Query: 71 SFFFDVSPTVCS 82
          S      P+   
Sbjct: 64 SSLIHEEPSDVQ 75


>gi|312977554|ref|ZP_07789302.1| toxin-antitoxin system, antitoxin component, Xre family
          [Lactobacillus crispatus CTV-05]
 gi|310895985|gb|EFQ45051.1| toxin-antitoxin system, antitoxin component, Xre family
          [Lactobacillus crispatus CTV-05]
          Length = 76

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 33/66 (50%), Gaps = 1/66 (1%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          KI N V+   G+R++  R     +QE+LG  + ++   + +YE G++      +  +++V
Sbjct: 2  KIMNDVEKF-GRRLKRFRKNKHYTQERLGREVYVSDTTIGRYEHGISMPDKRMVYELAQV 60

Query: 66 LESPIS 71
          L     
Sbjct: 61 LGVTPD 66


>gi|283785313|ref|YP_003365178.1| transcriptional regulator [Citrobacter rodentium ICC168]
 gi|282948767|emb|CBG88362.1| putative transcriptional regulator [Citrobacter rodentium ICC168]
          Length = 178

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 34/80 (42%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  ++P
Sbjct: 12 LKTLRSQRGWSLSRLAEATGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTF--IAP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
             + + + +      + TP
Sbjct: 70 PESTRLPTFDPQQQAMVVTP 89


>gi|197302684|ref|ZP_03167738.1| hypothetical protein RUMLAC_01414 [Ruminococcus lactaris ATCC
          29176]
 gi|197298266|gb|EDY32812.1| hypothetical protein RUMLAC_01414 [Ruminococcus lactaris ATCC
          29176]
          Length = 149

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQ----VQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI   R++ G +Q+ LG+ LG +  Q    + +YEKG      + L  ++++ E 
Sbjct: 1  MAIGERIHHFRLLRGFTQKYLGQQLGFSESQADVRIAQYEKGARSPKENYLNALADIFEI 60

Query: 69 PI 70
            
Sbjct: 61 SP 62


>gi|228975724|ref|ZP_04136261.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228784000|gb|EEM32042.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
          Length = 142

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R    ++Q++L E +G++ + +  YE          L  +++       + 
Sbjct: 2  IGLRIKSLRKKENLTQKQLAEKIGVSQRMIGYYESEERFPPHDVLTKLADCFSVSADYL 60


>gi|218660254|ref|ZP_03516184.1| hypothetical protein RetlI_11854 [Rhizobium etli IE4771]
          Length = 280

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 25/66 (37%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R+   +   +L    G++   + K E+G        L  I+ V    +  FF
Sbjct: 101 IGPRIKALRLRKKLGLVQLAGHTGLSPAMLSKIERGQMFPTLPTLLRIAMVFGVGLDHFF 160

Query: 75  DVSPTV 80
                 
Sbjct: 161 KADKEE 166


>gi|146318591|ref|YP_001198303.1| transcriptional regulator [Streptococcus suis 05ZYH33]
 gi|146320791|ref|YP_001200502.1| transcriptional regulator [Streptococcus suis 98HAH33]
 gi|145689397|gb|ABP89903.1| Predicted transcriptional regulator [Streptococcus suis 05ZYH33]
 gi|145691597|gb|ABP92102.1| Predicted transcriptional regulator [Streptococcus suis 98HAH33]
          Length = 168

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 12 IGDNIKSLRRTHDLTQPEFAKMVGISRNSLSRYENGTSTVSTELIDRICQKFNVS 66


>gi|90415002|ref|ZP_01222963.1| hypothetical helix-turn-helix XRE-family like protein
           [Photobacterium profundum 3TCK]
 gi|90323872|gb|EAS40475.1| hypothetical helix-turn-helix XRE-family like protein
           [Photobacterium profundum 3TCK]
          Length = 115

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 34/87 (39%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +RIR+ R    ++Q K+ + LG+  Q     E G     A  L  I+++L++   F    
Sbjct: 24  QRIRVARECRELTQVKIAKYLGLARQTYLDIETGKTEPKAGTLLAIAQILKTDYRFLLTG 83

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQL 103
                    + ++    F      + L
Sbjct: 84  EKYNGGIPLTADDVNQYFARNCGDIHL 110


>gi|126699634|ref|YP_001088531.1| putative phage regulatory protein [Clostridium difficile 630]
 gi|254975609|ref|ZP_05272081.1| putative phage regulatory protein [Clostridium difficile
          QCD-66c26]
 gi|255092997|ref|ZP_05322475.1| putative phage regulatory protein [Clostridium difficile CIP
          107932]
 gi|255101147|ref|ZP_05330124.1| putative phage regulatory protein [Clostridium difficile
          QCD-63q42]
 gi|255307021|ref|ZP_05351192.1| putative phage regulatory protein [Clostridium difficile ATCC
          43255]
 gi|255314738|ref|ZP_05356321.1| putative phage regulatory protein [Clostridium difficile
          QCD-76w55]
 gi|255517412|ref|ZP_05385088.1| putative phage regulatory protein [Clostridium difficile
          QCD-97b34]
 gi|255650522|ref|ZP_05397424.1| putative phage regulatory protein [Clostridium difficile
          QCD-37x79]
 gi|260683623|ref|YP_003214908.1| putative phage regulatory protein [Clostridium difficile CD196]
 gi|260687283|ref|YP_003218417.1| putative phage regulatory protein [Clostridium difficile R20291]
 gi|306520479|ref|ZP_07406826.1| putative phage regulatory protein [Clostridium difficile
          QCD-32g58]
 gi|115251071|emb|CAJ68902.1| Transcriptional regulator, HTH-type [Clostridium difficile]
 gi|260209786|emb|CBA63606.1| putative phage regulatory protein [Clostridium difficile CD196]
 gi|260213300|emb|CBE04858.1| putative phage regulatory protein [Clostridium difficile R20291]
          Length = 123

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 42/85 (49%), Gaps = 2/85 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI   R  L ++Q++L   +GIT   + +YE  +    +  +  +++ LE+   +  
Sbjct: 4  LGDRIANLRKELDINQKELATKVGITEASLSRYENNLREPKSEIIVRLAKALETSTDYLL 63

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
           V+      IS E+  +++ +S  +
Sbjct: 64 GVNDNTK--ISKEDKLIIENLSVSE 86


>gi|20065987|ref|NP_612853.1| putative CI-like transcriptional repressor [Clostridium phage
           phi3626]
 gi|168211659|ref|ZP_02637284.1| helix-turn-helix domain protein [Clostridium perfringens B str.
           ATCC 3626]
 gi|19908318|gb|AAL96794.1| putative CI-like transcriptional repressor [Clostridium phage
           phi3626]
 gi|170710397|gb|EDT22579.1| helix-turn-helix domain protein [Clostridium perfringens B str.
           ATCC 3626]
          Length = 240

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 50/101 (49%), Gaps = 5/101 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPIS 71
           +N+G+RI+ +R  +G++ +++ + L      V +YE   +  +  S L+ ++E+L++  S
Sbjct: 1   MNIGQRIKEKRKSMGLTVDEVAKKLNKNRATVYRYESNDIENLPISILEPLAEILQTTPS 60

Query: 72  FFF--DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
           +    + +     +  ++   + + I +       R F +I
Sbjct: 61  YLMGWEDNELNSYENLNKSKKLKELILSR--YNSIREFSKI 99


>gi|54302995|ref|YP_132988.1| transcriptional regulator [Photobacterium profundum SS9]
 gi|46916423|emb|CAG23188.1| hypothetical transcriptional regulator [Photobacterium profundum
           SS9]
          Length = 120

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/103 (23%), Positives = 42/103 (40%), Gaps = 6/103 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +RIR+ R    ++Q  L + LG+  Q     E G     A  L  I+++L     + F +
Sbjct: 13  QRIRVARECRELTQTSLAKYLGVARQTYLDIETGKTEPKAGILLAIAQILR--ADYLFLL 70

Query: 77  SPTVCSD---ISSEENNVMDFISTPDGLQLNRYFIQ-IDDVKV 115
           + T   D     +  N +   +     +   R  +  I+D KV
Sbjct: 71  TGTAKPDQYTTDAAANKLHSLMGGKVEIDDIRMIVSFINDHKV 113


>gi|317120864|ref|YP_004100867.1| hypothetical protein Tmar_0015 [Thermaerobacter marianensis DSM
          12885]
 gi|315590844|gb|ADU50140.1| helix-turn-helix domain protein [Thermaerobacter marianensis DSM
          12885]
          Length = 73

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 26/66 (39%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            R   G +Q  +   LGI+  +  +YE G+          ++++   PI   F  S   
Sbjct: 8  QLRKARGWTQYDVARMLGISRARYSQYELGLRNPPIDVAIRLADLFGVPIQELFPTSQPG 67

Query: 81 CSDISS 86
           +  +S
Sbjct: 68 HARQAS 73


>gi|308187448|ref|YP_003931579.1| hypothetical protein Pvag_1947 [Pantoea vagans C9-1]
 gi|308057958|gb|ADO10130.1| Uncharacterized HTH-type transcriptional regulator ydcN [Pantoea
           vagans C9-1]
          Length = 185

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/111 (21%), Positives = 51/111 (45%), Gaps = 7/111 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G+R+   R  +G+SQ ++ E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9   GRRLAQIRQTMGLSQRRVAELAGLTHSAISTIEQDKVSPAVSTLQKLLKVYGLSLSEFFS 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +  P     +    +++++  S    L+L      ID+ + ++ +  L+ +
Sbjct: 69  EPKPHAEPKVIVRASDLLEIGSQGVSLKL------IDNGRAQRTLGMLLET 113


>gi|300853815|ref|YP_003778799.1| putative transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
 gi|300433930|gb|ADK13697.1| predicted transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
          Length = 435

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 36/79 (45%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ + L     IT  Q+   E G +      L++++  L + I +  
Sbjct: 7  LGEKIKRRRKELNMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLAGELNTSIEYLM 65

Query: 75 DVSPTVCSDISSEENNVMD 93
          +   T    I +   N+ +
Sbjct: 66 ESEETQAQKICTYFENIAE 84


>gi|326789828|ref|YP_004307649.1| hypothetical protein Clole_0718 [Clostridium lentocellum DSM
          5427]
 gi|326540592|gb|ADZ82451.1| helix-turn-helix domain protein [Clostridium lentocellum DSM
          5427]
          Length = 122

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 30/73 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+  R  L ++QE  GE LG+    + K E G N +     + I         +    
Sbjct: 3  ERIKSVRKALNLTQENFGEKLGVRKTAISKLENGENNLTEQMQKLICNEFNVNEEWLRTG 62

Query: 77 SPTVCSDISSEEN 89
          +  + + +  +E 
Sbjct: 63 NGEMFNQMDRDEE 75


>gi|291536229|emb|CBL09341.1| Predicted transcriptional regulators [Roseburia intestinalis M50/1]
          Length = 98

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/98 (19%), Positives = 39/98 (39%), Gaps = 11/98 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +  +I+  R    ++Q +L + L IT   V  +E G++    + L  ++ +      F  
Sbjct: 2   IADKIKRLREASHLTQTELAKKLNITRSSVNAWEMGISVPSTTYLIELALLFHVSTDFLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL---QLNRYFIQ 109
            +      DIS+        +S  + +   +L  YF  
Sbjct: 62  GLEQNNTIDIST--------LSEREAILVYELVDYFTS 91


>gi|238925877|ref|YP_002939395.1| hypothetical protein EUBREC_3535 [Eubacterium rectale ATCC 33656]
 gi|238877554|gb|ACR77261.1| Hypothetical protein EUBREC_3535 [Eubacterium rectale ATCC 33656]
          Length = 105

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 36/86 (41%), Gaps = 1/86 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FF 73
          VG+RI+  R    ++QE+L   + ++   V   E+G+          I+  L+       
Sbjct: 6  VGQRIKSAREAKNLTQEELAALVNLSPTHVSVIERGLKVTKLDTFVAIANALDVSADTLL 65

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
           DV     + +++E    ++ +   +
Sbjct: 66 IDVVAHSVTGVTNELTEKIEKLPIKE 91


>gi|282600828|ref|ZP_05979816.2| conserved domain protein [Subdoligranulum variabile DSM 15176]
 gi|282571049|gb|EFB76584.1| conserved domain protein [Subdoligranulum variabile DSM 15176]
          Length = 82

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R    M+Q  L E +G++ Q +   EKG      +  + I + L+  +   F
Sbjct: 23 KLKAARAEKDMTQGALAEAVGVSRQTINAIEKGEYNPTINLCKSICKALDKTLDDLF 79


>gi|222152419|ref|YP_002561594.1| DNA-binding phage protein [Streptococcus uberis 0140J]
 gi|222113230|emb|CAR40725.1| putative DNA-binding phage protein [Streptococcus uberis 0140J]
          Length = 204

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 29/54 (53%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +  +G RI+  R+  GM+ E+ G+    +   V  +EKG N     RL+ I+++
Sbjct: 7  NKLIGSRIKNIRLEKGMTLEEFGKLFNASKSSVYGWEKGRNLPNKERLKQIAKI 60


>gi|196251088|ref|ZP_03149768.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
 gi|196209382|gb|EDY04161.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
          Length = 46

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/45 (33%), Positives = 25/45 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
          + +G++I+  R   G+SQE+L E LG++   V K+E G       
Sbjct: 1  MTLGEKIKKARTEAGLSQEQLSEKLGVSRSAVAKWESGKGLPDID 45


>gi|160892204|ref|ZP_02073207.1| hypothetical protein BACUNI_04667 [Bacteroides uniformis ATCC
          8492]
 gi|270296185|ref|ZP_06202385.1| conserved hypothetical protein [Bacteroides sp. D20]
 gi|156858682|gb|EDO52113.1| hypothetical protein BACUNI_04667 [Bacteroides uniformis ATCC
          8492]
 gi|270273589|gb|EFA19451.1| conserved hypothetical protein [Bacteroides sp. D20]
          Length = 161

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 24/53 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G R+ + R    M+QE+L    G+    + K EKG   V    L  ++  L 
Sbjct: 19 IGNRLAILRKKRNMTQEELANLCGVNRVNIAKIEKGAYNVSIDILSKVTSALG 71


>gi|258516791|ref|YP_003193013.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257780496|gb|ACV64390.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
          Length = 109

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 34/81 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GKRI+  R    ++  +L +   I+   + + E          ++ I + LE  +  
Sbjct: 7  MDIGKRIKELRKTRKLTTRQLADLSDISQPVISRLENNERSADVELIKRICKALEITLQD 66

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF         +  E + V+D
Sbjct: 67 FFTTQEPEQEPLPPEAHRVID 87


>gi|257438000|ref|ZP_05613755.1| putative toxin-antitoxin system, toxin component
          [Faecalibacterium prausnitzii A2-165]
 gi|257199660|gb|EEU97944.1| putative toxin-antitoxin system, toxin component
          [Faecalibacterium prausnitzii A2-165]
          Length = 96

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 37/86 (43%), Gaps = 1/86 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
             GKR+   R   G++QE+L   LG+ + Q V + E G        L  +S +L     
Sbjct: 6  KEFGKRLHDVRTSRGITQEELAVRLGLASKQHVSRMENGERSCSIDLLIELSCILHVSTD 65

Query: 72 FFFDVSPTVCSDISSEENNVMDFIST 97
          +    S      + ++  +++  +ST
Sbjct: 66 YLLMGSEPSKEKVKNDLLSIISELST 91


>gi|228937919|ref|ZP_04100546.1| Transcription regulator [Bacillus thuringiensis serovar berliner
          ATCC 10792]
 gi|228962246|ref|ZP_04123679.1| Transcription regulator [Bacillus thuringiensis serovar pakistani
          str. T13001]
 gi|228970800|ref|ZP_04131440.1| Transcription regulator [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228977375|ref|ZP_04137770.1| Transcription regulator [Bacillus thuringiensis Bt407]
 gi|228782352|gb|EEM30535.1| Transcription regulator [Bacillus thuringiensis Bt407]
 gi|228788925|gb|EEM36864.1| Transcription regulator [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228797415|gb|EEM44595.1| Transcription regulator [Bacillus thuringiensis serovar pakistani
          str. T13001]
 gi|228821710|gb|EEM67711.1| Transcription regulator [Bacillus thuringiensis serovar berliner
          ATCC 10792]
 gi|326938399|gb|AEA14295.1| transcriptional regulator [Bacillus thuringiensis serovar
          chinensis CT-43]
          Length = 114

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 34/83 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R     +QE LG+ +G + + +  YE          +  +S+ LE    F  
Sbjct: 3  IGARIKKLRKQRNWTQEILGKKVGASSRVIGYYESEERFPSPDTIAKLSDTLEVTTDFLL 62

Query: 75 DVSPTVCSDISSEENNVMDFIST 97
               +     ++   +M+ + T
Sbjct: 63 GRGNELDIKKHTKFKEIMERLDT 85


>gi|228936772|ref|ZP_04099562.1| hypothetical protein bthur0009_52060 [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
 gi|229199177|ref|ZP_04325858.1| hypothetical protein bcere0001_46890 [Bacillus cereus m1293]
 gi|228584283|gb|EEK42420.1| hypothetical protein bcere0001_46890 [Bacillus cereus m1293]
 gi|228822891|gb|EEM68733.1| hypothetical protein bthur0009_52060 [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
          Length = 79

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+++   P+ 
Sbjct: 6  DMKLQNRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAQIFNVPVE 65

Query: 72 FFF 74
            F
Sbjct: 66 EIF 68


>gi|227357896|ref|ZP_03842243.1| hypothetical protein HMPREF0693_3134 [Proteus mirabilis ATCC
          29906]
 gi|227161901|gb|EEI46923.1| hypothetical protein HMPREF0693_3134 [Proteus mirabilis ATCC
          29906]
          Length = 102

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 28/59 (47%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          N ++  +G  IR  R  +GMS   LGE L ++ QQ+ + E G   +    +  +   L 
Sbjct: 6  NELNSRIGAYIRKTRKEMGMSALVLGEKLNMSQQQISRCENGKTNLTFEFINKVLVALN 64


>gi|212694682|ref|ZP_03302810.1| hypothetical protein BACDOR_04213 [Bacteroides dorei DSM 17855]
 gi|212663183|gb|EEB23757.1| hypothetical protein BACDOR_04213 [Bacteroides dorei DSM 17855]
          Length = 67

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 21/55 (38%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+ I   R    M+Q KL E +G     + + E G      S    I+  L   +
Sbjct: 7  GQIIEEARKKANMTQAKLAEKIGTNKSYISRVETGKTEPKVSTFYRIASALGLNV 61


>gi|167839985|ref|ZP_02466669.1| DNA-binding protein [Burkholderia thailandensis MSMB43]
          Length = 95

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 25/71 (35%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  IR  R     SQE+L E  G+    V + E+G        +  ++     PI+    
Sbjct: 9  GAAIRQLREARAWSQEQLAEHAGLNRSYVGEIERGTAIASIVTVDKLARAFGVPIARLLT 68

Query: 76 VSPTVCSDISS 86
           S  V      
Sbjct: 69 PSGEVSESAPH 79


>gi|167463790|ref|ZP_02328879.1| Transcriptional regulator, xre family protein [Paenibacillus larvae
           subsp. larvae BRL-230010]
          Length = 112

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 37/93 (39%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +NVG RI+  R+   ++Q  + + +G         E     +    LQ I++ L+    +
Sbjct: 1   MNVGDRIKDLRIKKKLTQSDMAKKIGTGRANYAHMENNRVEIKHEFLQAIAKELDVSTDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
               S +  SD    +  +   +   DG+ L  
Sbjct: 61  LLGNSNSTVSDAHDLKKFLDQNMILFDGIPLTE 93


>gi|124010294|ref|ZP_01694946.1| cryptic phage CTXphi transcriptional repressor RstR [Microscilla
           marina ATCC 23134]
 gi|123983628|gb|EAY24073.1| cryptic phage CTXphi transcriptional repressor RstR [Microscilla
           marina ATCC 23134]
          Length = 121

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/90 (21%), Positives = 43/90 (47%), Gaps = 1/90 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G +I+  R    +SQ+++   L +   Q  K EKG      + L+ I + L   ++ 
Sbjct: 1   MEIGDKIKKVREAKKLSQKEVALTLNMDQSQYSKIEKGKTDPTTATLEKICKALNIEVAE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            F VS  +  ++ S + ++++ +   + L 
Sbjct: 61  LF-VSDQLFKNVDSLDKSLVEKVHLLEQLD 89


>gi|118472941|ref|YP_890853.1| DNA-binding protein [Mycobacterium smegmatis str. MC2 155]
 gi|118174228|gb|ABK75124.1| DNA-binding protein [Mycobacterium smegmatis str. MC2 155]
          Length = 472

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 28/66 (42%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G R+R  R   G++Q  L   LG++   + + E     V    L  +SE  + P  +F
Sbjct: 5  FIGPRLRRLREEHGLTQVALARALGLSTSYINQLENDQRPVTVPVLLSLSERFDLPTHYF 64

Query: 74 FDVSPT 79
             S  
Sbjct: 65 TPDSDA 70


>gi|291525638|emb|CBK91225.1| Predicted transcriptional regulators [Eubacterium rectale DSM
          17629]
 gi|291540997|emb|CBL14108.1| Predicted transcriptional regulators [Roseburia intestinalis
          XB6B4]
          Length = 116

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 29/73 (39%), Gaps = 1/73 (1%)

Query: 12 DIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          DI  VG  +R  R   G +Q  + E L +++    + E+G +R+    +  I        
Sbjct: 4  DIYAVGNTLRSIRNKYGYTQNDMAESLDVSYIHYSQIEQGRHRMSLELMLKIVTKYGVDP 63

Query: 71 SFFFDVSPTVCSD 83
          +  F +      +
Sbjct: 64 NTLFGIESREKHE 76


>gi|256852137|ref|ZP_05557524.1| predicted protein [Lactobacillus jensenii 27-2-CHN]
 gi|260661294|ref|ZP_05862207.1| predicted protein [Lactobacillus jensenii 115-3-CHN]
 gi|282931547|ref|ZP_06337045.1| DNA-binding protein [Lactobacillus jensenii 208-1]
 gi|256615549|gb|EEU20739.1| predicted protein [Lactobacillus jensenii 27-2-CHN]
 gi|260547749|gb|EEX23726.1| predicted protein [Lactobacillus jensenii 115-3-CHN]
 gi|281304321|gb|EFA96425.1| DNA-binding protein [Lactobacillus jensenii 208-1]
          Length = 136

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R++  R    +SQE++   L I+ Q + K+E G +     +L  +S++    + + 
Sbjct: 6  ERLKNLREANNLSQEEVASRLKISRQSISKWELGDSIPDIEKLTELSKIYGVSLDYL 62


>gi|251788780|ref|YP_003003501.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247537401|gb|ACT06022.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 72

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 31/70 (44%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K    +    G+R++  R+  G+SQE   +  G+    +   E+GV       +  I++ 
Sbjct: 2  KNTKDITARFGQRVKTLRLQAGLSQEAFADKCGLDRTYISGIERGVRNPTLEVIGVIADG 61

Query: 66 LESPISFFFD 75
          LE  +   FD
Sbjct: 62 LEIQLQSLFD 71


>gi|239627346|ref|ZP_04670377.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239517492|gb|EEQ57358.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA]
          Length = 183

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/115 (17%), Positives = 46/115 (40%), Gaps = 17/115 (14%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + +++ V K IR  R    +S ++L +  G++   + + E+G      S L  +S  ++ 
Sbjct: 2   DSMNLIVAKNIRRLREENKLSMDELSKLSGVSKSMLAQIERGEGNPTISTLWKLSNGMKV 61

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDGLQL------NRYFIQIDDVKVRQ 117
           P    FD        ++    +  + + T +   L       + +    D + R+
Sbjct: 62  P----FDA-------LTVRPKSPYEIVDTAELQPLLEDGGKVKNYSIFPDDENRR 105


>gi|167588868|ref|ZP_02381256.1| transcriptional regulator, XRE family protein [Burkholderia
           ubonensis Bu]
          Length = 177

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 28/87 (32%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RIR  R  L ++ +      GI+   + + E+G      + L  I+  L   I  F  
Sbjct: 2   GNRIRTLRRQLKLTLDVTAASAGISKPFLSQIERGRAMPSIASLVGIARALGVTIDHFVG 61

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
                 +    E        +    L 
Sbjct: 62  APGDAPTACRCEAPPQPGAEAIAHALA 88


>gi|90581156|ref|ZP_01236955.1| Hypothetical transcriptional regulator [Vibrio angustum S14]
 gi|90437677|gb|EAS62869.1| Hypothetical transcriptional regulator [Vibrio angustum S14]
          Length = 125

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 37/85 (43%), Gaps = 3/85 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  RI+  R   G++Q  + + L +  Q     E G        L  ISE+ E P+++F 
Sbjct: 8  IAARIKEAREWKGLTQVHMAQQLKVARQTYLDLETGKTEPKVRLLSEISEITERPLTWFV 67

Query: 75 ---DVSPTVCSDISSEENNVMDFIS 96
             +    + S+   E + ++ F S
Sbjct: 68 YGDEGIEILESEYKEEIDRLLQFFS 92


>gi|23100594|ref|NP_694061.1| transcriptional regulator [Oceanobacillus iheyensis HTE831]
 gi|22778827|dbj|BAC15095.1| transcriptional regulator [Oceanobacillus iheyensis HTE831]
          Length = 66

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++L RM   ++Q++L    GIT Q V   EKG           I++ LE  ++  F
Sbjct: 3  NRVKLTRMEKNLTQQQLAARTGITRQTVGLIEKGQYNPSLQLCIKIAKELEVTLNDLF 60


>gi|320201133|gb|EFW75716.1| putative transcription regulator [Escherichia coli EC4100B]
          Length = 150

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 26/56 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          I  G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++  L  
Sbjct: 3  IQFGERVKELRIATGMSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLANALSV 58


>gi|313638392|gb|EFS03596.1| helix-turn-helix XRE-family like protein [Listeria seeligeri FSL
          S4-171]
          Length = 167

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++VG RIR  R    M+Q++LG  LG        ++ +YE G        L  ++EVL  
Sbjct: 1  MSVGSRIRRVRKFRDMTQKELGIALGYDEKSADVRITQYETGTRTPKIDVLNAMAEVLNV 60

Query: 69 PI 70
           +
Sbjct: 61 NV 62


>gi|309792250|ref|ZP_07686722.1| helix-turn-helix domain-containing protein [Oscillochloris
          trichoides DG6]
 gi|308225791|gb|EFO79547.1| helix-turn-helix domain-containing protein [Oscillochloris
          trichoides DG6]
          Length = 181

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 10/71 (14%), Positives = 36/71 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++I   R   G++ +++ +  G+T   + + E+    +  + L+ +++     ++ 
Sbjct: 1  MSLGQKIGRLRQERGLTLQEVSDGSGLTPSFLSRLERDKVNISVANLRKLAQFFSVQMTH 60

Query: 73 FFDVSPTVCSD 83
          FF+   +  + 
Sbjct: 61 FFEGEDSQQAG 71


>gi|258447185|ref|ZP_05695335.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
           A6300]
 gi|257854198|gb|EEV77151.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
           A6300]
          Length = 173

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
           KR++  R   GM+  +LG  +G T   VQ+YE G +  +    ++ I+  L    ++   
Sbjct: 74  KRMKQSREKQGMTLAELGRKIGKTEATVQRYESGNIKNLKNDTIESIATALNVNPAYLMG 133

Query: 76  VSPTVCSDISSEENNVMDFISTPD 99
                  ++     ++   ++  +
Sbjct: 134 WVEENDDEVQHRAAHLEGELTDDE 157


>gi|218752098|ref|ZP_03530894.1| transcriptional regulator [Mycobacterium tuberculosis GM 1503]
          Length = 93

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 29/66 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R+R  R   G SQ  L + L I+   + + E  V  +  + L  I+EV     +FF
Sbjct: 5  YVGSRVRQLRNERGFSQAALAQMLEISPSYLNQIEHDVRPLTVAVLLRITEVFGVDATFF 64

Query: 74 FDVSPT 79
               T
Sbjct: 65 ASQDDT 70


>gi|206969718|ref|ZP_03230672.1| DNA-binding protein [Bacillus cereus AH1134]
 gi|206735406|gb|EDZ52574.1| DNA-binding protein [Bacillus cereus AH1134]
          Length = 190

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/117 (22%), Positives = 47/117 (40%), Gaps = 11/117 (9%)

Query: 1   MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M  N+ +    V   VG+ +R  R    +S E+L    G++   + K E+G      + +
Sbjct: 1   MKENEDMQTKEVIQQVGQLLRQIRNEQKLSLEELAHKTGVSKLTLGKIERGETNPTLAVI 60

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMD---------FISTPD-GLQLNRY 106
             I++ L  P+S    V   V      E   V +         F  T + G++++R 
Sbjct: 61  WKITKGLSIPLSRLMVVGEPVAVARCGEGFAVDEGQAWHLETMFRYTKETGMEMHRA 117


>gi|152983209|ref|YP_001352574.1| Cro/CI family transcriptional regulator [Janthinobacterium sp.
          Marseille]
 gi|151283286|gb|ABR91696.1| transcriptional regulator, Cro/CI family [Janthinobacterium sp.
          Marseille]
          Length = 207

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 30/66 (45%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++I +G RI   R   G +Q+KL    G T   + K E          L  I++VL++ 
Sbjct: 14 SIEIQLGGRISKLRTSRGFTQDKLALETGFTKGYLSKIENSKVIPPIGTLVKIAQVLDTD 73

Query: 70 ISFFFD 75
          +S   +
Sbjct: 74 LSALLE 79


>gi|149202477|ref|ZP_01879449.1| DNA-binding protein, putative [Roseovarius sp. TM1035]
 gi|149143759|gb|EDM31793.1| DNA-binding protein, putative [Roseovarius sp. TM1035]
          Length = 215

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/84 (15%), Positives = 35/84 (41%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R    ++  +L     ++   + K E G      + LQ ++  L  P+
Sbjct: 27  LEVAIGREVRAYRKKQNITVAELSNMTELSIGMLSKIENGNTSPSLTTLQTLAHALSVPL 86

Query: 71  SFFFDVSPTVCSDISSEENNVMDF 94
           + FF         + ++    ++ 
Sbjct: 87  TAFFKEYEERREAVHTKAGQGVEI 110


>gi|120555195|ref|YP_959546.1| XRE family transcriptional regulator [Marinobacter aquaeolei VT8]
 gi|120325044|gb|ABM19359.1| putative transcriptional regulator, XRE family [Marinobacter
          aquaeolei VT8]
          Length = 74

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 26/59 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+ +R  R   G SQE+L    GI    V K E+G   +   ++   +E+LE       
Sbjct: 10 GRNLRAIRKSKGFSQERLAHDAGIDRSYVGKIERGEVNITLEKIYVFAELLECSPKDLM 68


>gi|325527860|gb|EGD05122.1| XRE family transcriptional regulator [Burkholderia sp. TJI49]
          Length = 185

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 30/61 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R    ++   L E +G +   + + E+G++R   + L  I E L  P ++F+ +S 
Sbjct: 14 IRDLRKHRKVTLNDLAERIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLSK 73

Query: 79 T 79
           
Sbjct: 74 P 74


>gi|323463421|gb|ADX75574.1| transcriptional regulator, putative [Staphylococcus
          pseudintermedius ED99]
          Length = 182

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 32/78 (41%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  V + ++  R    +S +K+ +  GI+   + + EKGV     + L  I+  L  P+
Sbjct: 4  INTVVAENLQYYRQAHRLSLDKIAQLTGISKTMISQIEKGVANPSINTLWKIANGLRIPL 63

Query: 71 SFFFDVSPTVCSDISSEE 88
          +            I   +
Sbjct: 64 TSLISEENEAIQKIDRSD 81


>gi|319412023|emb|CBY91956.1| putative transcriptional regulator [Streptococcus pneumoniae]
          Length = 158

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHELTQPEFARIIGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|317488433|ref|ZP_07946986.1| hypothetical protein HMPREF1023_00684 [Eggerthella sp. 1_3_56FAA]
 gi|325832081|ref|ZP_08165178.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|316912477|gb|EFV34033.1| hypothetical protein HMPREF1023_00684 [Eggerthella sp. 1_3_56FAA]
 gi|325486402|gb|EGC88854.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 254

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/114 (17%), Positives = 39/114 (34%), Gaps = 14/114 (12%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            ++  R    +SQ +L   LG++ Q V K+E   +     +L  + ++ E  +       
Sbjct: 6   NLQHLRGTRDLSQAQLATLLGVSRQSVAKWEAEKSYPEMDKLIKLCDLFECSLDDLVRGD 65

Query: 78  ----PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                T    I   E          DG           D  +R++  ++  S+ 
Sbjct: 66  LTGCATASEAIVEAEPASAAMPVDKDGY----------DEHMRRRAWDVAASVA 109


>gi|183217341|gb|ACC59260.1| antitoxin PezA [Streptococcus pneumoniae]
          Length = 158

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHELTQPEFARIIGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|296102221|ref|YP_003612367.1| XRE family transcriptional regulator [Enterobacter cloacae subsp.
          cloacae ATCC 13047]
 gi|295056680|gb|ADF61418.1| XRE family transcriptional regulator [Enterobacter cloacae subsp.
          cloacae ATCC 13047]
          Length = 191

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 31/65 (47%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + ++  +  RIRL R   G S  +L +  G++   + K E+G +   A+ L  +S   
Sbjct: 4  ITDTMNQRISARIRLERESRGWSLSELADRAGVSRAMIHKIERGDSSPTATLLARLSGAF 63

Query: 67 ESPIS 71
             +S
Sbjct: 64 GISMS 68


>gi|291618017|ref|YP_003520759.1| PuuR [Pantoea ananatis LMG 20103]
 gi|291153047|gb|ADD77631.1| PuuR [Pantoea ananatis LMG 20103]
          Length = 185

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/111 (20%), Positives = 49/111 (44%), Gaps = 7/111 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G+R+   R  +G+SQ ++ E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9   GRRLSQIRQAMGLSQRRVAELAGLTHSAISTIEQDKVSPAVSTLQKLLKVYGLSLSEFFS 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           +       ++     ++++  S    L+L      ID+   ++ +  L+ +
Sbjct: 69  EPHSQDAPNVVVRPEDLLEIGSRGVSLKL------IDNGTPKRALGMLLET 113


>gi|225352439|ref|ZP_03743462.1| hypothetical protein BIFPSEUDO_04061 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225156946|gb|EEG70315.1| hypothetical protein BIFPSEUDO_04061 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 167

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 34/86 (39%), Gaps = 2/86 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R    M+QE+L   LG++ Q + K+E         +L  + ++    +     V
Sbjct: 5   ENLQYLRGSRNMTQEQLAMLLGVSRQAISKWESEKAYPEMDKLLMLCDMFGVTLDDL--V 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ 102
              V +         +D  +  DG+ 
Sbjct: 63  MGDVRASAGCGGAGRVDLAADTDGVA 88


>gi|218290563|ref|ZP_03494672.1| transcriptional regulator, XRE family [Alicyclobacillus
           acidocaldarius LAA1]
 gi|218239466|gb|EED06662.1| transcriptional regulator, XRE family [Alicyclobacillus
           acidocaldarius LAA1]
          Length = 205

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/123 (19%), Positives = 45/123 (36%), Gaps = 5/123 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR--VGASRLQHISEVLESPISFFFD 75
           R++  R   G+SQE+L E LGI    +  YE   N       RL+ I++       +   
Sbjct: 6   RLKTLREQRGISQERLAEILGIPRSSIAHYESPENDRLPRPERLKKIADFFGVTTDYLIG 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK--IIELVRSIVSSEKKY 133
            +            +  + I T +  +L     ++   K ++     + +RS      + 
Sbjct: 66  RTNDPHGHAIVNFAD-SEPIVTAEERRLLETVRELPPEKKQELMDFADFLRSRAVENSRK 124

Query: 134 RTI 136
             I
Sbjct: 125 EQI 127


>gi|194018000|ref|ZP_03056607.1| conserved domain protein [Bacillus pumilus ATCC 7061]
 gi|194010337|gb|EDW19912.1| conserved domain protein [Bacillus pumilus ATCC 7061]
          Length = 77

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 27/55 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE   + LGI+   + + E+G        +  I++ L   +
Sbjct: 7  GRRIRAYRKLKGYTQEGFAKRLGISVSVLGEIERGNRLPTNQLVDQIADALNITV 61


>gi|196038315|ref|ZP_03105624.1| immunity repressor protein [Bacillus cereus NVH0597-99]
 gi|225865525|ref|YP_002750903.1| transcriptional regulator, XRE family [Bacillus cereus 03BB102]
 gi|228916172|ref|ZP_04079742.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
 gi|228930568|ref|ZP_04093562.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|229185777|ref|ZP_04312953.1| Transcriptional regulator, XRE [Bacillus cereus BGSC 6E1]
 gi|196030723|gb|EDX69321.1| immunity repressor protein [Bacillus cereus NVH0597-99]
 gi|225790340|gb|ACO30557.1| transcriptional regulator, XRE family [Bacillus cereus 03BB102]
 gi|228597689|gb|EEK55333.1| Transcriptional regulator, XRE [Bacillus cereus BGSC 6E1]
 gi|228829089|gb|EEM74732.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|228843370|gb|EEM88448.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
          Length = 142

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R    ++Q++L E +G++ + +  YE          L  +++       + 
Sbjct: 2  IGLRIKSLRKKENLTQKQLAEKIGVSQRMIGYYESEERFPPHDVLTKLADCFSVSADYL 60


>gi|163745989|ref|ZP_02153348.1| helix-turn-helix domain protein, putative [Oceanibulbus indolifex
           HEL-45]
 gi|161380734|gb|EDQ05144.1| helix-turn-helix domain protein, putative [Oceanibulbus indolifex
           HEL-45]
          Length = 133

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/139 (15%), Positives = 54/139 (38%), Gaps = 16/139 (11%)

Query: 7   IPNPVD------INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           + + +D         G R+   R   GM+Q  L + LG+    ++ +E+ ++   A+RL 
Sbjct: 1   MTDEIDWYGPEAATFGDRVAAAREQTGMTQAMLAKRLGVRLATLRGWEEDLSEPRANRLS 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            ++ +L   + +  +         + +       +   + L   R         +R  ++
Sbjct: 61  MLAGLLNVSMMWLINGEGEGVD--APDAGETARRVDLEEVLADMRA--------LRTDLL 110

Query: 121 ELVRSIVSSEKKYRTIEEE 139
           +   ++   EK+ R +  E
Sbjct: 111 KKAETVGKLEKRIRRLMTE 129


>gi|160902864|ref|YP_001568445.1| XRE family transcriptional regulator [Petrotoga mobilis SJ95]
 gi|160360508|gb|ABX32122.1| transcriptional regulator, XRE family [Petrotoga mobilis SJ95]
          Length = 178

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 37/79 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R++  M+QE+L     +T   + + E+ +       L+ I   L + +  
Sbjct: 1  MQIGEKIKSLRIMRNMTQEELATRSDLTRGFISQVERDLASPTVENLEMILRALGTDLKD 60

Query: 73 FFDVSPTVCSDISSEENNV 91
          FF         + ++E+ +
Sbjct: 61 FFSNLENKEKIVFTKEDRI 79


>gi|116619051|ref|YP_819422.1| XRE family transcriptional regulator [Leuconostoc mesenteroides
           subsp. mesenteroides ATCC 8293]
 gi|116097898|gb|ABJ63049.1| Transcriptional regulator, xre family [Leuconostoc mesenteroides
           subsp. mesenteroides ATCC 8293]
          Length = 183

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/92 (16%), Positives = 33/92 (35%), Gaps = 14/92 (15%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+ +R  + ++Q +L   L ++ + +  +E G        +  IS+ L   +   F    
Sbjct: 7   IKEKRQKMSLTQMELANKLLVSNKTISNWETGKTLPDIENIILISKYLNISLDDLFLGDE 66

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
           T+   +   +                R F +I
Sbjct: 67  TMVGKLRENQQE--------------RKFYRI 84


>gi|88801551|ref|ZP_01117079.1| transcriptional regulator, PBSX family protein [Polaribacter
          irgensii 23-P]
 gi|88782209|gb|EAR13386.1| transcriptional regulator, PBSX family protein [Polaribacter
          irgensii 23-P]
          Length = 64

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 24/60 (40%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR+ R    ++Q  L E +G++ Q +   E        +    ++   E  + + FD   
Sbjct: 5  IRVERARHRLTQGDLAEKVGVSRQTIYAIENNKFNPSVTLAIKMARYFEVTVEYLFDSEE 64


>gi|322411791|gb|EFY02699.1| transcriptional regulator [Streptococcus dysgalactiae subsp.
          dysgalactiae ATCC 27957]
          Length = 158

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGDNIKSLRHTHDLTQPEFAKMVGISRNSLSRYENGTSTVSTELIDRICQKFNVS 56


>gi|311894823|dbj|BAJ27231.1| putative transcriptional regulator [Kitasatospora setae KM-6054]
          Length = 191

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/75 (16%), Positives = 30/75 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + ++  R+  G + + L    G++   V + E+         +  +++ L   I+   D 
Sbjct: 13 RNLKRLRLERGHTLDALAARSGVSRGMVVQIEQARTNPSVGTVVRLADALGVSIARLLDY 72

Query: 77 SPTVCSDISSEENNV 91
            +    I+  E+ V
Sbjct: 73 DASSEVRITPVEDAV 87


>gi|302545536|ref|ZP_07297878.1| HTH_3 family transcriptional regulator [Streptomyces
          hygroscopicus ATCC 53653]
 gi|302463154|gb|EFL26247.1| HTH_3 family transcriptional regulator [Streptomyces
          himastatinicus ATCC 53653]
          Length = 81

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 29/65 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           V  R+ + R    +S++ L E +G+ +Q +   E+G           ++E  + P+   
Sbjct: 4  QVHNRLAMVRAERKVSRQALAEAVGVHYQTIGYIERGQYNPSLDLALRVAEFFDLPVEAL 63

Query: 74 FDVSP 78
          F + P
Sbjct: 64 FSLRP 68


>gi|227484868|ref|ZP_03915184.1| conserved hypothetical protein [Anaerococcus lactolyticus ATCC
           51172]
 gi|227237228|gb|EEI87243.1| conserved hypothetical protein [Anaerococcus lactolyticus ATCC
           51172]
          Length = 145

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/107 (19%), Positives = 46/107 (42%), Gaps = 5/107 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R  L +S  K  E LG++   +   E+G N +    ++ I    +   ++    
Sbjct: 32  NRLKQLRTTLKLSGAKFAEPLGVSRSAISDIERGRNNLSEQMIKLICTTYKVNENWLRLG 91

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLN--RYFIQIDDVKVRQKIIE 121
              +   I+S++  + D     D L+L   + +  + D  +R K ++
Sbjct: 92  EGDMF--IASDKIPLDDLTKDADPLELAILKAYFSL-DKDLRSKALQ 135


>gi|148994210|ref|ZP_01823503.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP9-BS68]
 gi|147927351|gb|EDK78382.1| transcriptional regulator, putative [Streptococcus pneumoniae
          SP9-BS68]
          Length = 158

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQPEFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|153955450|ref|YP_001396215.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219855863|ref|YP_002472985.1| hypothetical protein CKR_2520 [Clostridium kluyveri NBRC 12016]
 gi|146348308|gb|EDK34844.1| Predicted transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219569587|dbj|BAH07571.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 130

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/127 (20%), Positives = 50/127 (39%), Gaps = 12/127 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD-- 75
           R++  R    + Q+++ + L IT      YE+G        L  I+E     I +     
Sbjct: 5   RLKKLRNEKNLLQKEIAKKLKITTSAYGFYEQGKRTPDTEILNKIAEFYNVSIDYLLGRT 64

Query: 76  ---VSPTVCSDISSEENNVMDF---ISTPDGLQLNRYFIQIDD--VKVRQKIIELVRSIV 127
               S    ++  +    + +F   +   + LQL   F Q  D   K   +II ++++I 
Sbjct: 65  NIRDSADKITNSLNSNPELSEFWNSLRNREDLQLL--FKQTKDLSPKNINQIIRIIKAIK 122

Query: 128 SSEKKYR 134
             E + +
Sbjct: 123 DDEGRTK 129


>gi|148977326|ref|ZP_01813940.1| transcriptional regulator, XRE family protein [Vibrionales
          bacterium SWAT-3]
 gi|145963439|gb|EDK28703.1| transcriptional regulator, XRE family protein [Vibrionales
          bacterium SWAT-3]
          Length = 186

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 38/92 (41%), Gaps = 8/92 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VG  ++  R   G S +K  +  G++   + + E G +    ++L  I+   E   S 
Sbjct: 5  IKVGTNLKRLRQEKGWSLDKAAKATGVSKAMLGQIELGESSPTVAKLWQIASGFEVSFSS 64

Query: 73 FFDVSP--------TVCSDISSEENNVMDFIS 96
          F   S            +++  EE NV  F+S
Sbjct: 65 FITESSNNELTSLFRDANELRREEYNVGFFVS 96


>gi|6010627|gb|AAF01192.1|AF179401_1 putative epoxidase [Sinorhizobium meliloti]
          Length = 176

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 26/66 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R+   +   +L    G++   + K E+G        L  I+ V    +  FF
Sbjct: 15 IGPRIKALRLRKKLGLVQLAGHTGLSPAMLSKIERGQMFPTLPTLLRIAMVFGVGLDHFF 74

Query: 75 DVSPTV 80
          +     
Sbjct: 75 NADKEE 80


>gi|86134426|ref|ZP_01053008.1| DNA binding helix-turn helix protein [Polaribacter sp. MED152]
 gi|85821289|gb|EAQ42436.1| DNA binding helix-turn helix protein [Polaribacter sp. MED152]
          Length = 198

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 31/57 (54%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          NVGK I+ +R+  G S E+L    G++ + +Q+ E  +       LQ I++ L+  I
Sbjct: 4  NVGKIIKAKRISKGYSIEELSHRSGVSAKTIQRLENDLTNPRGFTLQKIADALDIDI 60


>gi|186681347|ref|YP_001864543.1| XRE family transcriptional regulator [Nostoc punctiforme PCC
          73102]
 gi|186686686|ref|YP_001869880.1| XRE family transcriptional regulator [Nostoc punctiforme PCC
          73102]
 gi|186686753|ref|YP_001869946.1| XRE family transcriptional regulator [Nostoc punctiforme PCC
          73102]
 gi|186687045|ref|YP_001870434.1| XRE family transcriptional regulator [Nostoc punctiforme PCC
          73102]
 gi|186687122|ref|YP_001870265.1| XRE family transcriptional regulator [Nostoc punctiforme PCC
          73102]
 gi|186463799|gb|ACC79600.1| transcriptional regulator, XRE family [Nostoc punctiforme PCC
          73102]
 gi|186469105|gb|ACC84905.1| transcriptional regulator, XRE family [Nostoc punctiforme PCC
          73102]
 gi|186469425|gb|ACC85224.1| transcriptional regulator, XRE family [Nostoc punctiforme PCC
          73102]
 gi|186469571|gb|ACC85369.1| transcriptional regulator, XRE family [Nostoc punctiforme PCC
          73102]
 gi|186469669|gb|ACC85466.1| transcriptional regulator, XRE family [Nostoc punctiforme PCC
          73102]
          Length = 155

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 2/73 (2%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQ 60
          +   K PN  D ++   +   R  L ++Q +L +  GI  + V K E+G+  ++    LQ
Sbjct: 1  MDTFKTPNS-DESLASYVSRVRKKLNLTQSELADAAGIHGRSVGKIERGLTLKINRRTLQ 59

Query: 61 HISEVLESPISFF 73
           ++  L  P  +F
Sbjct: 60 GLAIALGVPQEYF 72


>gi|325282101|ref|YP_004254643.1| helix-turn-helix domain-containing protein [Odoribacter
          splanchnicus DSM 20712]
 gi|324313910|gb|ADY34463.1| helix-turn-helix domain protein [Odoribacter splanchnicus DSM
          20712]
          Length = 110

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 30/55 (54%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           VG+ I+  R+   ++QE+LGE +G+   Q+ K E G   +  S ++ + + L  
Sbjct: 40 FVGEAIKNARLKQHLTQEELGERIGVKRSQICKLENGNCSITLSTMRRVFKALGI 94


>gi|288870587|ref|ZP_06114632.2| putative transcriptional regulator [Clostridium hathewayi DSM
           13479]
 gi|288866654|gb|EFC98952.1| putative transcriptional regulator [Clostridium hathewayi DSM
           13479]
          Length = 260

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 29/69 (42%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G +IR  R     +  +L   LG+    ++ YE G  +    +L+ I++ L  P+    D
Sbjct: 47  GTKIRRIRSQKDTTVVELANALGVNEAAIRNYEIGYRQASRDKLELIAQRLGVPVETLID 106

Query: 76  VSPTVCSDI 84
                 +D 
Sbjct: 107 RQIDSYNDA 115


>gi|239932677|ref|ZP_04689630.1| regulatory protein [Streptomyces ghanaensis ATCC 14672]
          Length = 181

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 40/109 (36%), Gaps = 11/109 (10%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R    ++   L E  GI+   + + E G+ R     L  I++  + P+     
Sbjct: 2   GPRLRRIRKEREVTLAALSEATGISVSTLSRLESGLRRPSLELLLPIAQAHQVPLDELVG 61

Query: 76  VSPTVCSDISSEENNVMD-----FISTPDGLQLNRYFIQIDDVKVRQKI 119
             P     + S+               P GLQ    +  ++    R+K+
Sbjct: 62  APPVGDPRVRSKPIERYGRTHWPLTRQPGGLQ---AYKVLEP---RRKL 104


>gi|229014833|ref|ZP_04171932.1| hypothetical protein bmyco0001_52230 [Bacillus mycoides DSM 2048]
 gi|228746463|gb|EEL96367.1| hypothetical protein bmyco0001_52230 [Bacillus mycoides DSM 2048]
          Length = 51

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/47 (29%), Positives = 22/47 (46%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          MSQE L   +G+  + +   E G           I++VL++PI   F
Sbjct: 1  MSQEDLANKVGVRRETIGNLENGKYNPSLKLAYDIAQVLKAPIEVLF 47


>gi|198244633|ref|YP_002215542.1| XRE family transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Dublin str. CT_02021853]
 gi|197939149|gb|ACH76482.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Dublin str. CT_02021853]
          Length = 185

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 33/80 (41%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R+ R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 19 LRMLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 76

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 77 PQAEFPPTFDPQQQAMVITP 96


>gi|170016676|ref|YP_001727595.1| transcriptional regulator [Leuconostoc citreum KM20]
 gi|169803533|gb|ACA82151.1| Transcriptional regulator [Leuconostoc citreum KM20]
          Length = 123

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 29/71 (40%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+L R    ++Q +L   +  +   +  YE   N      L  I+E L +   +    +
Sbjct: 7  RIKLLRKQKQLTQSELANIISASRMAIANYETNRNTPSLGMLSLIAEALNTTTDYLQGKT 66

Query: 78 PTVCSDISSEE 88
           +   ++S E 
Sbjct: 67 DSPVRNLSQEA 77


>gi|168819389|ref|ZP_02831389.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Weltevreden str. HI_N05-537]
 gi|205343670|gb|EDZ30434.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Weltevreden str. HI_N05-537]
 gi|320085906|emb|CBY95680.1| Uncharacterized HTH-type transcriptional regulator ydcN
          [Salmonella enterica subsp. enterica serovar
          Weltevreden str. 2007-60-3289-1]
          Length = 178

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 33/80 (41%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R+ R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRMLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|168260202|ref|ZP_02682175.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Hadar str. RI_05P066]
 gi|205350640|gb|EDZ37271.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Hadar str. RI_05P066]
 gi|326623288|gb|EGE29633.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Dublin str. 3246]
          Length = 178

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 33/80 (41%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R+ R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRMLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|151220478|ref|YP_001331300.1| hypothetical protein NWMN_0266 [Staphylococcus aureus subsp. aureus
           str. Newman]
 gi|150373278|dbj|BAF66538.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus
           str. Newman]
          Length = 173

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
           KR++  R   GM+  +LG  +G T   VQ+YE G +  +    ++ I+  L    ++   
Sbjct: 74  KRMKQSREKQGMTLAELGRKIGKTEATVQRYESGNIKNLKNDTIESIATALNVNPAYLMG 133

Query: 76  VSPTVCSDISSEENNVMDFISTPD 99
                  ++     ++   ++  +
Sbjct: 134 WVEENDDEVQHRAAHLEGELTDDE 157


>gi|83590551|ref|YP_430560.1| XRE family transcriptional regulator [Moorella thermoacetica ATCC
          39073]
 gi|83573465|gb|ABC20017.1| transcriptional regulator, XRE family [Moorella thermoacetica
          ATCC 39073]
          Length = 152

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/78 (15%), Positives = 33/78 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G+R+   R    +SQ ++ + L +    +  YEK   R     L+ +++  +  I +
Sbjct: 2  KSLGERLAFLRKERALSQAEMAKLLNMGQSTIAMYEKNKRRPDPETLERLADFFDVSIDY 61

Query: 73 FFDVSPTVCSDISSEENN 90
              + +   +    ++ 
Sbjct: 62 LLGRADSRQKETYPLQDE 79


>gi|16079688|ref|NP_390512.1| Xre family transcriptional regulator [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221310566|ref|ZP_03592413.1| hypothetical protein Bsubs1_14416 [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221314890|ref|ZP_03596695.1| hypothetical protein BsubsN3_14337 [Bacillus subtilis subsp.
           subtilis str. NCIB 3610]
 gi|221319812|ref|ZP_03601106.1| hypothetical protein BsubsJ_14253 [Bacillus subtilis subsp.
           subtilis str. JH642]
 gi|221324091|ref|ZP_03605385.1| hypothetical protein BsubsS_14387 [Bacillus subtilis subsp.
           subtilis str. SMY]
 gi|321312135|ref|YP_004204422.1| putative Xre family transcriptional regulator [Bacillus subtilis
           BSn5]
 gi|1176724|sp|P45902|YQAE_BACSU RecName: Full=Uncharacterized HTH-type transcriptional regulator
           yqaE
 gi|1217833|dbj|BAA06918.1| ORF7 [Bacillus subtilis]
 gi|1303723|dbj|BAA12379.1| YqaE [Bacillus subtilis]
 gi|2635080|emb|CAB14576.1| putative transcriptional regulator (Xre family); skin element
           [Bacillus subtilis subsp. subtilis str. 168]
 gi|320018409|gb|ADV93395.1| putative transcriptional regulator (Xre family); skin element
           [Bacillus subtilis BSn5]
          Length = 116

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/108 (16%), Positives = 45/108 (41%), Gaps = 6/108 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R    ++Q+ + + LGIT      YE G        L +IS +L+  + +    
Sbjct: 4   ENLKKCRKQKKLTQQNMADKLGITRPAYTAYELGSREPDYKTLINISNILDVSLDYLLKG 63

Query: 77  SPTV---CSDISSEENNVMDFISTPDG---LQLNRYFIQIDDVKVRQK 118
                    +     N+   F++  DG    ++ +  ++I   +++++
Sbjct: 64  ESNEKVFQDEAKKVLNDPETFLAAKDGEVTDEILQAALEIITEQLKER 111


>gi|260062047|ref|YP_003195127.1| hypothetical protein RB2501_10657 [Robiginitalea biformata
          HTCC2501]
 gi|88783609|gb|EAR14780.1| hypothetical protein RB2501_10657 [Robiginitalea biformata
          HTCC2501]
          Length = 605

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/75 (18%), Positives = 33/75 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ +  +R   G+SQE+L     +T + +Q+ EKG        ++ ++  L   +  
Sbjct: 1  MTLGENLIYQRKKQGLSQEELAGKTQVTVRTIQRIEKGDVNPHLQTVKLLAAALSVEVED 60

Query: 73 FFDVSPTVCSDISSE 87
             +       I ++
Sbjct: 61 LMPIDNPREETIQAK 75


>gi|84502833|ref|ZP_01000946.1| acetolactate synthase II large subunit [Oceanicola batsensis
           HTCC2597]
 gi|84388816|gb|EAQ01686.1| acetolactate synthase II large subunit [Oceanicola batsensis
           HTCC2597]
          Length = 129

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 45/110 (40%), Gaps = 12/110 (10%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+ + R  +G SQ  + E +G++ +    YEKG   +    L  + E  E  + +   
Sbjct: 2   GARLTIARNEIGFSQAAMAEAIGVSPRAYHSYEKGERGMPVEALVAMGERFEVDVPWLLL 61

Query: 76  VSPTVCS----DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
            + ++ +    D      + +D   T +G+       +I   K R  I+ 
Sbjct: 62  GTKSIRAGHDFDALKHIESSLDKHLTDEGI-------KIKSEK-RGAIVA 103


>gi|332361797|gb|EGJ39601.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1056]
          Length = 225

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 35/63 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR+ L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRVELNLTQSSIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          + T
Sbjct: 65 TST 67


>gi|322391296|ref|ZP_08064766.1| XRE family transcriptional regulator [Streptococcus peroris ATCC
          700780]
 gi|321145722|gb|EFX41113.1| XRE family transcriptional regulator [Streptococcus peroris ATCC
          700780]
          Length = 150

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 9/61 (14%), Positives = 25/61 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+ ++  R    ++Q +L   LGI+ +    +E          +  ++ +  +   +
Sbjct: 2  AFLGENLKKIRQEHKLTQVELANMLGISQKSYSHWETQKTEPTLENVVKLANIFNTTTDY 61

Query: 73 F 73
          F
Sbjct: 62 F 62


>gi|310780515|ref|YP_003968847.1| transcriptional regulator, XRE family [Ilyobacter polytropus DSM
          2926]
 gi|309749838|gb|ADO84499.1| transcriptional regulator, XRE family [Ilyobacter polytropus DSM
          2926]
          Length = 178

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 27/55 (49%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N+G++I+  R   G++ +KL +  G++   +   E+  N    S LQ I   L  
Sbjct: 3  NLGEKIKFCRKEKGLTLKKLSDMTGLSVGFISNIERNQNSPSVSNLQQICAALSI 57


>gi|251781503|ref|YP_002995804.1| transcriptional regulator [Streptococcus dysgalactiae subsp.
          equisimilis GGS_124]
 gi|242390131|dbj|BAH80590.1| transcriptional regulator [Streptococcus dysgalactiae subsp.
          equisimilis GGS_124]
          Length = 303

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 38/65 (58%), Gaps = 1/65 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + G+++R  R+  G+S+E+L G+   ++ +Q+ + E G +    +++  I++ LE  + +
Sbjct: 4  HFGEKVRGLRLEKGISREELCGDEAELSVRQLARIELGQSIPSLAKVIFIAKALEVSVGY 63

Query: 73 FFDVS 77
            D +
Sbjct: 64 LTDGA 68


>gi|291295432|ref|YP_003506830.1| XRE family transcriptional regulator [Meiothermus ruber DSM 1279]
 gi|290470391|gb|ADD27810.1| transcriptional regulator, XRE family [Meiothermus ruber DSM 1279]
          Length = 186

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/107 (20%), Positives = 41/107 (38%), Gaps = 10/107 (9%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+P  + +G R+R  R+  G++ E++ +  G+    + + E+       + L  +   L+
Sbjct: 6   PSP-SVPIGPRLRAARLAKGLTLEQVAQRSGLDKSFISRLERNATAASVASLLKVCAALD 64

Query: 68  SPISFFFDVSPTVCSDISSEENN------VMDFIST---PDGLQLNR 105
                 FD   T         +       V DFI +      L L R
Sbjct: 65  IQPGSLFDPPSTNLVRSGEAPSAHFGGWGVRDFILSRGLRGELMLLR 111


>gi|223983720|ref|ZP_03633892.1| hypothetical protein HOLDEFILI_01173 [Holdemania filiformis DSM
           12042]
 gi|223964312|gb|EEF68652.1| hypothetical protein HOLDEFILI_01173 [Holdemania filiformis DSM
           12042]
          Length = 119

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/100 (19%), Positives = 38/100 (38%), Gaps = 1/100 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FFF 74
           G+ I+  R   G+S+ +L + + I  + +   E             +  +L+  +  FFF
Sbjct: 14  GQAIKAARKAKGISRNQLADKMNIAPRYIASIENSGQHPSLQIFYELVTLLDVSVDQFFF 73

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
               T  S    +   ++D +   D   +      I +VK
Sbjct: 74  PDKETDKSTQRRQLETLLDSMDNKDLTVITATAKAIQEVK 113


>gi|168699329|ref|ZP_02731606.1| DNA-binding protein, putative [Gemmata obscuriglobus UQM 2246]
          Length = 89

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 30/58 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GKR+R  R+   ++Q +LGE  G+ +Q V K E+G      + +  +++ L      F
Sbjct: 16 GKRLRELRIDKNLTQSQLGERAGMMYQDVAKLERGEREPMWATVIRLADALGVRADDF 73


>gi|118471236|ref|YP_885533.1| transcription regulator [Mycobacterium smegmatis str. MC2 155]
 gi|118172523|gb|ABK73419.1| transcription regulator [Mycobacterium smegmatis str. MC2 155]
          Length = 189

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 24/60 (40%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+R  R   GMS   +     +T   +   E+G+  V    L  I + L   I   F+
Sbjct: 5  GARLRQFRRERGMSLTDVAAKAEVTKGFLSLAERGMTNVSVPVLMRICDALGIGIGDLFE 64


>gi|30022584|ref|NP_834215.1| transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|29898142|gb|AAP11416.1| Transcriptional regulator [Bacillus cereus ATCC 14579]
          Length = 190

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/117 (21%), Positives = 46/117 (39%), Gaps = 11/117 (9%)

Query: 1   MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M  N+ +    V   VG+ +R  R    +S E+L    G++   + K E+G      + +
Sbjct: 1   MKENEDMQTKEVIQQVGQLLRQIRNEQKLSLEELAHKTGVSKLTLGKIERGETNPTLAVI 60

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMD---------FISTPD-GLQLNRY 106
             I++ L  P+S        V      E   V +         F  T + G++++R 
Sbjct: 61  WKITKGLSIPLSRLMVAGEPVAVARCGEGFAVDEGQAWHLETMFRYTKETGMEMHRA 117


>gi|50123201|ref|YP_052368.1| putative phage regulatory protein [Pectobacterium atrosepticum
          SCRI1043]
 gi|50123210|ref|YP_052377.1| putative phage regulatory protein [Pectobacterium atrosepticum
          SCRI1043]
 gi|49613727|emb|CAG77178.1| putative phage regulatory protein [Pectobacterium atrosepticum
          SCRI1043]
 gi|49613736|emb|CAG77187.1| putative phage regulatory protein [Pectobacterium atrosepticum
          SCRI1043]
          Length = 132

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 32/55 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R+RL R    +SQ +L E LG+  +   ++EKGV+      + +I++VL+  + 
Sbjct: 18 ERLRLLREARNLSQVRLAELLGVDPRVYNRWEKGVSAPHLETVVNIADVLQVSMD 72


>gi|319794332|ref|YP_004155972.1| XRE family transcriptional regulator [Variovorax paradoxus EPS]
 gi|315596795|gb|ADU37861.1| helix-turn-helix domain protein [Variovorax paradoxus EPS]
          Length = 199

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/95 (15%), Positives = 34/95 (35%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           + P  +D  +  R+   R   G+S  +L E  G++   + K E+  +   A  L  ++  
Sbjct: 10  EAPGHLDALIATRLLALRQAKGLSLAELAELSGVSKAMISKVERAQSSPTAVLLGRLAAG 69

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           L   ++          +        + +    P+ 
Sbjct: 70  LGVSLAQLLTEEKEKEAPQRLRTKAMQEVWRDPEA 104


>gi|315650099|ref|ZP_07903175.1| XRE family transcriptional regulator [Eubacterium saburreum DSM
          3986]
 gi|315487591|gb|EFU77898.1| XRE family transcriptional regulator [Eubacterium saburreum DSM
          3986]
          Length = 235

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 25/56 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
            +G  IR  R    ++ E+L E +  +   + KYEKG   +    L  IS+ L  
Sbjct: 6  RKIGSLIRQFRQSKALTIEELAERINKSRATLSKYEKGDIVLDVDTLYDISDALGI 61


>gi|300857320|ref|YP_003782304.1| putative transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
 gi|300437435|gb|ADK17202.1| predicted transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
          Length = 222

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 36/57 (63%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG++I+L R  +G+SQ++L + LG++ + + + E G   V  + +  +S++L   I+
Sbjct: 4  VGQKIKLARTEMGISQKQLAKKLGVSEKFINEAESGKRIVNQNIIDKLSKILGKSIN 60


>gi|296283569|ref|ZP_06861567.1| helix-turn-helix domain protein [Citromicrobium bathyomarinum
          JL354]
          Length = 354

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+++++ R   G+S   L E +   ++ Q + KYE+     G+  L  +++ L   + +
Sbjct: 2  IGRKLKVARSAAGLSLRGLAEAIEGRVSAQAIGKYERDEAMPGSGVLIALADALGVSVDY 61


>gi|295110215|emb|CBL24168.1| Helix-turn-helix. [Ruminococcus obeum A2-162]
          Length = 372

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+G+ +   R   G++Q++L   LG++   V K+E G +      L  ++   +  I  
Sbjct: 4  INIGRVLIKNRHKRGITQDELATHLGVSKGAVSKWETGSSLPDILLLPQLASYFDISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LIGYQPQMEQE 74


>gi|283782136|ref|YP_003372891.1| XRE family transcriptional regulator [Pirellula staleyi DSM 6068]
 gi|283440589|gb|ADB19031.1| transcriptional regulator, XRE family [Pirellula staleyi DSM
          6068]
          Length = 202

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/86 (17%), Positives = 30/86 (34%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+   V  R+R  R   G + E+L    G++   + + E+G           I++     
Sbjct: 13 PLQQLVCDRVRSMRKAKGWTLEQLASLSGVSRSMLSEIERGSANPTLGVAFRIAQAFGMT 72

Query: 70 ISFFFDVSPTVCSDISSEENNVMDFI 95
          +    D        I    ++   F+
Sbjct: 73 LGDLVDSPEPPKPRIDVIRSDDRSFM 98


>gi|229170243|ref|ZP_04297926.1| Transcriptional regulator, XRE [Bacillus cereus AH621]
 gi|228613239|gb|EEK70381.1| Transcriptional regulator, XRE [Bacillus cereus AH621]
          Length = 166

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R    ++Q++L E +G++ + +  YE          L  +++       + 
Sbjct: 26 IGLRIKSLRKKENLTQKQLAEKIGVSQRMIGYYESEERFPPHDVLTKLADCFSVSADYL 84


>gi|153831210|ref|ZP_01983877.1| transcriptional regulator, HTH_3 family [Vibrio cholerae 623-39]
 gi|148873308|gb|EDL71443.1| transcriptional regulator, HTH_3 family [Vibrio cholerae 623-39]
          Length = 181

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 34/78 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  +++  R   G+S +   +  G++   + + E+G +    + L  I+   E+  S F
Sbjct: 9  QIANQLKNLRKSRGLSLDATAQLTGVSKAMLGQIERGESSPTIATLWKIASGFEASFSAF 68

Query: 74 FDVSPTVCSDISSEENNV 91
          F   P + S   S  ++ 
Sbjct: 69 FANDPQLLSSERSFPDDP 86


>gi|86361163|ref|YP_473050.1| MerR family transcriptional regulator [Rhizobium etli CFN 42]
 gi|86285265|gb|ABC94323.1| putative transcriptional regulator protein, MerR family [Rhizobium
           etli CFN 42]
          Length = 203

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 4/86 (4%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           + +++G R+R  R+   +SQ +L +  G+    +   E   +      L+ I +    PI
Sbjct: 22  MSVDIGSRLRHLRIAHKLSQRELAKRTGVPNSTISLIESNASNPSVGALKRILD--GIPI 79

Query: 71  SF--FFDVSPTVCSDISSEENNVMDF 94
               FF   P            +++ 
Sbjct: 80  GLAEFFAFEPERPKKAFYAAQELVEI 105


>gi|50084796|ref|YP_046306.1| putative transcription regulator protein [Acinetobacter sp. ADP1]
 gi|49530772|emb|CAG68484.1| putative transcription regulator protein [Acinetobacter sp. ADP1]
          Length = 190

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 10/67 (14%), Positives = 31/67 (46%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++ ++ +RI+  R+  G + ++L     ++   +   E+      A  L+ ++  L+  
Sbjct: 3  DINQHLSQRIKQLRLERGYTLDELANRSHVSRAMISMIERATTNPTAVVLEKLAVALDIT 62

Query: 70 ISFFFDV 76
          +   F++
Sbjct: 63 LVSLFNI 69


>gi|331092438|ref|ZP_08341263.1| hypothetical protein HMPREF9477_01906 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330401281|gb|EGG80870.1| hypothetical protein HMPREF9477_01906 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 190

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 31/60 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R     + + L E  G++   + + E+G+  +    L  IS+VL+  +S FF
Sbjct: 7  IGLRIKNLRTEKKYTLKYLSENTGLSIGFLSQLERGMTSIAIDSLDKISKVLDVELSSFF 66


>gi|229172431|ref|ZP_04299990.1| Transcriptional regulator, Xre [Bacillus cereus MM3]
 gi|228610902|gb|EEK68165.1| Transcriptional regulator, Xre [Bacillus cereus MM3]
          Length = 404

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 29/64 (45%), Gaps = 1/64 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I++ L   ISF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIADKLGCEISFLL 62

Query: 75 DVSP 78
          +   
Sbjct: 63 EEDD 66


>gi|212697019|ref|ZP_03305147.1| hypothetical protein ANHYDRO_01584 [Anaerococcus hydrogenalis DSM
          7454]
 gi|212675989|gb|EEB35596.1| hypothetical protein ANHYDRO_01584 [Anaerococcus hydrogenalis DSM
          7454]
          Length = 67

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 29/64 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ +  +I+  R   G+SQ KL + +G+  + +  YE             I +VL+  I
Sbjct: 1  MEVEIENKIKEFRKEKGLSQHKLAKMVGLKRRSIMAYENKTISPSLETAYKICKVLDKDI 60

Query: 71 SFFF 74
             F
Sbjct: 61 KEVF 64


>gi|183598905|ref|ZP_02960398.1| hypothetical protein PROSTU_02342 [Providencia stuartii ATCC
          25827]
 gi|188021114|gb|EDU59154.1| hypothetical protein PROSTU_02342 [Providencia stuartii ATCC
          25827]
          Length = 82

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 33/71 (46%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K PN   I +G  IR  R   G+S E +   L I+ +   +YE+G   +    L  +S +
Sbjct: 2  KQPNFRGIALGNYIRKLRTSRGISTEAMAAALKISERNYIQYEEGSVSIYVEHLMIVSSI 61

Query: 66 LESPISFFFDV 76
          L+  I    +V
Sbjct: 62 LDVDIKHLLEV 72


>gi|166032956|ref|ZP_02235785.1| hypothetical protein DORFOR_02677 [Dorea formicigenerans ATCC
           27755]
 gi|166027313|gb|EDR46070.1| hypothetical protein DORFOR_02677 [Dorea formicigenerans ATCC
           27755]
          Length = 104

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/115 (20%), Positives = 48/115 (41%), Gaps = 17/115 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FF 73
           VG+RI+  R    ++QE+L   + ++   V   E+G+          I+  L+       
Sbjct: 6   VGQRIKAAREAKNLTQEELAGLVNLSPTHVSVIERGLKVTKLDTFIAIANALDVSADTLL 65

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            DV     S +++E + +++ +                  + +Q+II  VR++V 
Sbjct: 66  IDVVTHSVSGVTNELSEMIEKL----------------PKEKQQRIINAVRALVE 104


>gi|124514630|gb|EAY56142.1| putative transcriptional regulator, XRE family [Leptospirillum
           rubarum]
          Length = 164

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 31/84 (36%), Gaps = 8/84 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLE-------SP 69
           +IR  R   G++Q  L   LG     V + E  G   +    L  ++  L+        P
Sbjct: 33  QIRELREQRGLTQTDLANLLGKRQSVVSRLESSGEKGLSLKTLLELASALDTALVLKFVP 92

Query: 70  ISFFFDVSPTVCSDISSEENNVMD 93
            S F      V  +    E+ ++D
Sbjct: 93  FSRFLREYEDVSPEAMKVESYIVD 116


>gi|148554640|ref|YP_001262222.1| XRE family transcriptional regulator [Sphingomonas wittichii RW1]
 gi|148499830|gb|ABQ68084.1| transcriptional regulator, XRE family with cupin sensor
          [Sphingomonas wittichii RW1]
          Length = 201

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 36/79 (45%), Gaps = 2/79 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G+ IR RR  L ++  ++     ++   +   E+G        L  +++ L+  IS+
Sbjct: 15 MSFGELIRDRRKRLKLTLNEVALRSDLSVSFISLAERGKATPSIVSLLRLAQALDVDISY 74

Query: 73 FFDVSPTVCSDISSEENNV 91
          F  ++P   ++I     + 
Sbjct: 75 F--LAPPQTNNILHRAADP 91


>gi|15967045|ref|NP_387398.1| putative aldehyde dehydrogenase protein [Sinorhizobium meliloti
          1021]
 gi|307302508|ref|ZP_07582265.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          BL225C]
 gi|307316162|ref|ZP_07595606.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
 gi|17646727|gb|AAL41014.1|AF448466_4 putative aldehyde dehydrogenase [Sinorhizobium meliloti]
 gi|15076318|emb|CAC47871.1| Putative aldehyde dehydrogenase [Sinorhizobium meliloti 1021]
 gi|306898002|gb|EFN28744.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
 gi|306903178|gb|EFN33768.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          BL225C]
          Length = 182

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++G R+R  R+   +SQ +L +  G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSVDIGSRLRQVRLRHKLSQRELAKRAGVTNSTISLIESNASNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF   P            +++ 
Sbjct: 59 GLAEFFSFEPEKSRRAFYAAEELVEI 84


>gi|300717478|ref|YP_003742281.1| transcriptional regulator [Erwinia billingiae Eb661]
 gi|299063314|emb|CAX60434.1| Transcriptional regulator [Erwinia billingiae Eb661]
          Length = 185

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 40/90 (44%), Gaps = 1/90 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G+R+   R  +GMSQ ++ E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9   GRRLSEIRQQMGMSQRRVAELSGLTHSAISTIEQDKVSPAVSTLQKLLKVYGLSLSEFFS 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           +        +  + + ++D  S    L+L 
Sbjct: 69  EPVKDEAPKVVIDAHELIDIGSQGVSLKLI 98


>gi|282911119|ref|ZP_06318921.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
           WBG10049]
 gi|282324814|gb|EFB55124.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
           WBG10049]
          Length = 173

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
           KR++  R   GM+  +LG  +G T   VQ+YE G +  +    ++ I+  L    ++   
Sbjct: 74  KRMKQSREKQGMTLAELGRKIGKTEATVQRYESGNIKNLKNDTIESIATALNVNPAYLMG 133

Query: 76  VSPTVCSDISSEENNVMDFISTPD 99
                  ++     ++   ++  +
Sbjct: 134 WVEENDDEVQHRAAHLEGELTDDE 157


>gi|270261258|ref|ZP_06189531.1| putative DNA-binding protein [Serratia odorifera 4Rx13]
 gi|270044742|gb|EFA17833.1| putative DNA-binding protein [Serratia odorifera 4Rx13]
          Length = 154

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/105 (24%), Positives = 43/105 (40%), Gaps = 12/105 (11%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RIR  R+  G SQE+L    G++ + VQ+ E G        L  I+  L   +S   D+S
Sbjct: 5   RIRQLRLEKGWSQEQLATIAGLSTRTVQRIENGEQ-ASLDTLTAIAAALGLLVS---DLS 60

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
                D  ++    +      +G        ++  + VR  I+ L
Sbjct: 61  QAAPPDNDNQSEQAIRRQVEAEG--------KLLSMAVRFAIVGL 97


>gi|268610943|ref|ZP_06144670.1| DNA-binding phage protein [Ruminococcus flavefaciens FD-1]
          Length = 91

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 32/74 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R  LG++Q +  + +G+T Q V  +E G  +     L  I++       +   +
Sbjct: 4  ERVKELRNSLGINQVEFSKKIGVTKQCVSNWENGYIQPSIDMLIKIAKTFSVSTDYLLGI 63

Query: 77 SPTVCSDISSEENN 90
          +     ++    N 
Sbjct: 64 NDNPNLNVEGLTNE 77


>gi|160879107|ref|YP_001558075.1| XRE family transcriptional regulator [Clostridium phytofermentans
          ISDg]
 gi|160427773|gb|ABX41336.1| transcriptional regulator, XRE family [Clostridium
          phytofermentans ISDg]
          Length = 63

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R+ + +SQ++L + +G++ Q +   EKG      +    I +VL   +   F
Sbjct: 5  KLKSARVAMDLSQQQLADLVGVSRQTISLIEKGDYNPTINLCIAICKVLHKTLDELF 61


>gi|332827339|gb|EGK00099.1| hypothetical protein HMPREF9455_03565 [Dysgonomonas gadei ATCC
           BAA-286]
          Length = 131

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/129 (20%), Positives = 54/129 (41%), Gaps = 11/129 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G   +  R ILG+ QE+L E +G++ Q V ++E    ++    L  I+  L   +    D
Sbjct: 13  GYNAKRLREILGVKQEELAERIGVSQQTVSRFES-TPQLDDETLDKIAAALNISV----D 67

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                  D +   N V +         +   + Q        K+IEL   ++ +E++   
Sbjct: 68  AIKNFSEDAA--INFVANTFHDS---TVANTYHQ-CSFNPLDKVIELYERMLKTEQEKVQ 121

Query: 136 IEEECMVEQ 144
           + +E + ++
Sbjct: 122 LLQEVLKDK 130


>gi|319946413|ref|ZP_08020650.1| transcriptional regulator [Streptococcus australis ATCC 700641]
 gi|319747381|gb|EFV99637.1| transcriptional regulator [Streptococcus australis ATCC 700641]
          Length = 88

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 35/76 (46%), Gaps = 2/76 (2%)

Query: 1  MVGNKKIPNPVDINVGK--RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
          +V N+ I    + +V K  ++++ R+   M+Q  L + +G+T Q +   E G      S 
Sbjct: 11 IVYNRVIKTRKEKHVAKNLKLKMARVEHDMTQGDLADAIGVTRQTIGLIEAGKYNPTLSL 70

Query: 59 LQHISEVLESPISFFF 74
             I + L+  +   F
Sbjct: 71 CLAICKTLDKTLDQLF 86


>gi|302562689|ref|ZP_07315031.1| xre family toxin-antitoxin system, antitoxin component
          [Streptomyces griseoflavus Tu4000]
 gi|302480307|gb|EFL43400.1| xre family toxin-antitoxin system, antitoxin component
          [Streptomyces griseoflavus Tu4000]
          Length = 277

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG+ +R  R    +SQ  L     ++ + V   E G +R  A  +  +++ L+ P+
Sbjct: 6  VGELLRQWRHRRRLSQLDLAIAADVSARHVSLVETGKSRPSADMVLRLADQLDVPL 61


>gi|229169229|ref|ZP_04296943.1| Transcriptional regulator, Xre [Bacillus cereus AH621]
 gi|228614295|gb|EEK71406.1| Transcriptional regulator, Xre [Bacillus cereus AH621]
          Length = 190

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 1/72 (1%)

Query: 1  MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M  N+ +    V   VG+ +R  R    +S E L +  G++   + K E+G      + +
Sbjct: 1  MKENEDMQTKEVIQQVGQLLRQIRNEQKLSLEDLAQKTGVSKLTLGKIERGETNPTLAVI 60

Query: 60 QHISEVLESPIS 71
            I++ L  P+S
Sbjct: 61 WKITKGLSIPLS 72


>gi|210610561|ref|ZP_03288487.1| hypothetical protein CLONEX_00677 [Clostridium nexile DSM 1787]
 gi|210152420|gb|EEA83426.1| hypothetical protein CLONEX_00677 [Clostridium nexile DSM 1787]
          Length = 101

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 32/69 (46%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K+  + V + +G+RI+  R+   ++   L   L I   Q+ + E G       +L  IS+
Sbjct: 7  KEYSSDVQLQIGQRIQKLRIDKKIAAVDLAAVLDIQSNQMSRIENGRANCTVPQLYVISQ 66

Query: 65 VLESPISFF 73
          +L   + + 
Sbjct: 67 ILGCSVDYL 75


>gi|118463045|ref|YP_882635.1| transcriptional regulator [Mycobacterium avium 104]
 gi|254775896|ref|ZP_05217412.1| transcriptional regulator [Mycobacterium avium subsp. avium ATCC
          25291]
 gi|118164332|gb|ABK65229.1| transcriptional regulator, XRE family protein with cupin sensor
          domain [Mycobacterium avium 104]
          Length = 178

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 12/63 (19%), Positives = 24/63 (38%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G++ E L    G+T   + K E+G +    +    ++  L+  +   F    
Sbjct: 5  LRPVRRQRGLTLEALAAQTGLTKSYLSKIERGQSTPSIAVALKVARALDVDVGRLFSDEA 64

Query: 79 TVC 81
             
Sbjct: 65 ARE 67


>gi|21223966|ref|NP_629745.1| transcriptional regulator [Streptomyces coelicolor A3(2)]
 gi|3192004|emb|CAA19403.1| putative transcriptional regulator [Streptomyces coelicolor
          A3(2)]
          Length = 71

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 26/55 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R  R   G++Q KL   LG+    +  YE G  R     L  I++VL + +  F
Sbjct: 11 LRQIRRQRGVTQYKLAASLGVHNTAISHYENGHRRPDVETLATIADVLGARMDDF 65


>gi|302871197|ref|YP_003839833.1| helix-turn-helix domain protein [Caldicellulosiruptor obsidiansis
           OB47]
 gi|302574056|gb|ADL41847.1| helix-turn-helix domain protein [Caldicellulosiruptor obsidiansis
           OB47]
          Length = 140

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/89 (25%), Positives = 44/89 (49%), Gaps = 2/89 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +I + R    +SQ++L + L I+ Q +  YEKG    G + L  +SE L+  I F  
Sbjct: 13  LGLKIGILREEKRISQKELAKRLEISPQALANYEKGKRMPGINILVRLSEELDVSIDFLL 72

Query: 75  DVSP--TVCSDISSEENNVMDFISTPDGL 101
            ++      S +  E+  +++ I   + +
Sbjct: 73  GLTDIRKPRSRMVKEQLEMLESIQEKEEI 101


>gi|297560527|ref|YP_003679501.1| XRE family transcriptional regulator [Nocardiopsis dassonvillei
          subsp. dassonvillei DSM 43111]
 gi|296844975|gb|ADH66995.1| transcriptional regulator, XRE family [Nocardiopsis dassonvillei
          subsp. dassonvillei DSM 43111]
          Length = 202

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 28/81 (34%), Gaps = 3/81 (3%)

Query: 7  IPNPVDIN---VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          + + +D     VG R+R  R     +   L    GI+   + + E G  R     L  ++
Sbjct: 1  MEHDLDQALDAVGPRLRALRKQKETTLTDLSAATGISVSTLSRLESGSRRPTLELLFPLA 60

Query: 64 EVLESPISFFFDVSPTVCSDI 84
                +    D  PT    I
Sbjct: 61 RAYGVTLDELVDAPPTGDPRI 81


>gi|225028236|ref|ZP_03717428.1| hypothetical protein EUBHAL_02508 [Eubacterium hallii DSM 3353]
 gi|224954415|gb|EEG35624.1| hypothetical protein EUBHAL_02508 [Eubacterium hallii DSM 3353]
          Length = 490

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 26/64 (40%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  +R    ++Q +L E  GI    + + E         +LQ I+EVL   +   F+   
Sbjct: 13 IIAKRKEQKLTQAQLAEMTGINRGMISRLESCDYTPSIDQLQSIAEVLNFEVVDLFEDDK 72

Query: 79 TVCS 82
             S
Sbjct: 73 VTSS 76


>gi|224535292|ref|ZP_03675831.1| hypothetical protein BACCELL_00153 [Bacteroides cellulosilyticus
          DSM 14838]
 gi|224523100|gb|EEF92205.1| hypothetical protein BACCELL_00153 [Bacteroides cellulosilyticus
          DSM 14838]
          Length = 103

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 26/53 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G+ +R RR  L ++Q++L E +G     + + EKG   +  S    I+  L  
Sbjct: 44 GEILRDRRKQLKITQQELAEKVGTARSYIARVEKGETDIQISSFFRIARALGI 96


>gi|221213709|ref|ZP_03586683.1| transcriptional regulator, XRE family [Burkholderia multivorans
          CGD1]
 gi|221166498|gb|EED98970.1| transcriptional regulator, XRE family [Burkholderia multivorans
          CGD1]
          Length = 81

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 25/56 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          GKR+   R   G SQEKL    G+    V   E+G   +    +  ++E L  P S
Sbjct: 10 GKRLVELRKAKGWSQEKLALESGLARSYVGGIERGQRNIALYNICVLAETLNVPPS 65


>gi|218133061|ref|ZP_03461865.1| hypothetical protein BACPEC_00923 [Bacteroides pectinophilus ATCC
          43243]
 gi|217991934|gb|EEC57938.1| hypothetical protein BACPEC_00923 [Bacteroides pectinophilus ATCC
          43243]
          Length = 225

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 39/82 (47%), Gaps = 2/82 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I   R   GM+Q++L   +GI+ + + K+E G +    + L+ + + L   ++   
Sbjct: 6  IGRFIAETRNQAGMTQKELAGKIGISDKTISKWECGKSMPDITYLETLCDSLAISMNEL- 64

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
           +S    SD +       + +S
Sbjct: 65 -ISGERLSDTAYSPKAEENIMS 85


>gi|110800265|ref|YP_696047.1| DNA-binding protein [Clostridium perfringens ATCC 13124]
 gi|110674912|gb|ABG83899.1| DNA-binding protein [Clostridium perfringens ATCC 13124]
          Length = 114

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/88 (15%), Positives = 32/88 (36%), Gaps = 1/88 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R++  R    ++Q +L   L  +   +  YE+         LQ +S      + +   
Sbjct: 3   GNRLKTLRKEKDLTQAQLANILKTSASAIGMYEQNRRTPDTETLQTLSNYFNVSVDYLIG 62

Query: 76  -VSPTVCSDISSEENNVMDFISTPDGLQ 102
                  ++   E+ +V   +   +G+ 
Sbjct: 63  KTEIRESAEQLLEDKSVTIALHNKNGID 90


>gi|66396062|ref|YP_240415.1| ORF022 [Staphylococcus phage 71]
 gi|62636481|gb|AAX91592.1| ORF022 [Staphylococcus phage 71]
          Length = 190

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
           KR++  R   GM+  +LG  +G T   VQ+YE G +  +    ++ I+  L    ++   
Sbjct: 91  KRMKQSREKQGMTLAELGRKIGKTEATVQRYESGNIKNLKNDTIESIATALNVNPAYLMG 150

Query: 76  VSPTVCSDISSEENNVMDFISTPD 99
                  ++     ++   ++  +
Sbjct: 151 WVEENDDEVQHRAAHLEGELTDDE 174


>gi|152975865|ref|YP_001375382.1| XRE family transcriptional regulator [Bacillus cereus subsp.
          cytotoxis NVH 391-98]
 gi|152024617|gb|ABS22387.1| transcriptional regulator, XRE family [Bacillus cytotoxicus NVH
          391-98]
          Length = 66

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 2/60 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  L M+QE L + +G+  + +   EKG           I++ L++ I   F FD
Sbjct: 6  KIKEARARLHMTQEDLAKRVGVRRETISHLEKGKYNPSLQLAHDIAKTLQTTIDEIFIFD 65


>gi|332519788|ref|ZP_08396252.1| helix-turn-helix domain protein [Lacinutrix algicola 5H-3-7-4]
 gi|332044347|gb|EGI80541.1| helix-turn-helix domain protein [Lacinutrix algicola 5H-3-7-4]
          Length = 258

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 30/72 (41%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + K I+  R +  +SQE L E L +T  ++  YE+  +      L   S+  + PI   
Sbjct: 3  YISKNIKHLRNLKKLSQEGLAEELNVTRSRIGSYEENRSSPTIEFLIAFSDYFKIPIDIL 62

Query: 74 FDVSPTVCSDIS 85
               T   D S
Sbjct: 63 LRNDLTKAKDFS 74


>gi|319893529|ref|YP_004150404.1| DNA-binding protein [Staphylococcus pseudintermedius HKU10-03]
 gi|317163225|gb|ADV06768.1| DNA-binding protein [Staphylococcus pseudintermedius HKU10-03]
          Length = 182

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 32/78 (41%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  V + ++  R    +S +K+ +  GI+   + + EKGV     + L  I+  L  P+
Sbjct: 4  INTVVAENLQYYRQAHRLSLDKIAQLTGISKTMISQIEKGVANPSINTLWKIANGLRIPL 63

Query: 71 SFFFDVSPTVCSDISSEE 88
          +            I   +
Sbjct: 64 TSLISEENEAIQKIDRSD 81


>gi|306833460|ref|ZP_07466587.1| transcriptional regulator [Streptococcus bovis ATCC 700338]
 gi|304424230|gb|EFM27369.1| transcriptional regulator [Streptococcus bovis ATCC 700338]
          Length = 226

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G++++  R   G SQ ++ + L I+      +E G  +     L  +S +L    ++F
Sbjct: 4  GEKLKNIREEKGYSQAEVAKLLNISRVSYFNWENGKTKPNQKNLNLLSRLLGVEETYF 61


>gi|270289916|ref|ZP_06196142.1| transcriptional regulator [Pediococcus acidilactici 7_4]
 gi|270281453|gb|EFA27285.1| transcriptional regulator [Pediococcus acidilactici 7_4]
          Length = 69

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 24/56 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I  RR  L +SQ ++ +  G+T Q +   E        S    ++ +L + +   F
Sbjct: 5  ITRRRKHLKLSQAEVAQLAGVTRQTINAIENNKYDPSLSLAFELAHILNTTVDQLF 60


>gi|257868622|ref|ZP_05648275.1| DNA binding protein [Enterococcus gallinarum EG2]
 gi|257802786|gb|EEV31608.1| DNA binding protein [Enterococcus gallinarum EG2]
          Length = 172

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 33/77 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++L R   G+SQ  + E L I+ Q + K+E G        L  +S++ +  I      
Sbjct: 5  EQLKLYREKSGLSQASVAEELKISRQSISKWENGRGYPDIDNLVLLSKLYQVSIDELLQE 64

Query: 77 SPTVCSDISSEENNVMD 93
          +  +   I      + D
Sbjct: 65 NEQLKEQIQKNNVEIED 81


>gi|300770302|ref|ZP_07080181.1| conserved hypothetical protein [Sphingobacterium spiritivorum ATCC
           33861]
 gi|300762778|gb|EFK59595.1| conserved hypothetical protein [Sphingobacterium spiritivorum ATCC
           33861]
          Length = 220

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/124 (19%), Positives = 41/124 (33%), Gaps = 29/124 (23%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G  I+  R + G+SQ+   E   +T   +  YE+            I+     P+S  
Sbjct: 3   NIGYNIKKLRNVKGLSQQAFAELFNLTRGNISSYEEMRAEPKIDIALKIANYFSIPLSNL 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF---IQIDDVK--------VRQKIIEL 122
            D                   +S  + L  N YF     I   K         R+++  L
Sbjct: 63  IDKK-----------------LSVNEILNFNDYFEANTSIAPPKNLAGIPFLSRERVF-L 104

Query: 123 VRSI 126
            + +
Sbjct: 105 AKEL 108


>gi|257062841|ref|YP_003142513.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
 gi|256790494|gb|ACV21164.1| predicted transcriptional regulator [Slackia heliotrinireducens
          DSM 20476]
          Length = 369

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 26/59 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I++G  I   R    ++Q+ L   LG+T   V K+E G +      L  I+   +  I 
Sbjct: 5  ISIGTTIYRLRKEARLTQDGLAMHLGVTKASVSKWENGQSYPDIELLPKIAAYFDITID 63


>gi|26991944|ref|NP_747369.1| Cro/CI family transcriptional regulator [Pseudomonas putida KT2440]
 gi|24987072|gb|AAN70833.1|AE016728_2 transcriptional regulator, Cro/CI family [Pseudomonas putida
           KT2440]
 gi|313501243|gb|ADR62609.1| Cro/CI family transcriptional regulator [Pseudomonas putida BIRD-1]
          Length = 182

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/96 (22%), Positives = 45/96 (46%), Gaps = 6/96 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+ +      P+S 
Sbjct: 1   MDVGERLQAIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLRKVLS--GIPMSM 58

Query: 73  --FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
             FF  ++ P   + I  + + ++D       ++L 
Sbjct: 59  VEFFSVELEPQSPTQIVYKAHELIDISDGAVTMKLV 94


>gi|15895220|ref|NP_348569.1| phage related transcriptional regulator [Clostridium
          acetobutylicum ATCC 824]
 gi|15024927|gb|AAK79909.1|AE007699_19 Phage related transcriptional regulator (Xre family) [Clostridium
          acetobutylicum ATCC 824]
 gi|325509365|gb|ADZ21001.1| Phage related transcriptional regulator [Clostridium
          acetobutylicum EA 2018]
          Length = 123

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 36/81 (44%), Gaps = 3/81 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ ++  R   G++Q +L    G++   + K E+G        LQ +S      +    
Sbjct: 2  LGENLKKLRKEKGLTQRQLAGETGLSVSIISKLEEGKKTGSIETLQTLSNYFNVTVD--- 58

Query: 75 DVSPTVCSDISSEENNVMDFI 95
          ++S    ++I  +E  V + +
Sbjct: 59 ELSENKSANIDKKEYAVDELL 79


>gi|317490340|ref|ZP_07948825.1| hypothetical protein HMPREF1023_02525 [Eggerthella sp. 1_3_56FAA]
 gi|325833363|ref|ZP_08165812.1| putative ATP synthase F0, A subunit [Eggerthella sp. HGA1]
 gi|316910554|gb|EFV32178.1| hypothetical protein HMPREF1023_02525 [Eggerthella sp. 1_3_56FAA]
 gi|325485287|gb|EGC87756.1| putative ATP synthase F0, A subunit [Eggerthella sp. HGA1]
          Length = 394

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 30/67 (44%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            R   G++QE L E L ++ Q V K++ G N     +L  + ++  + +      S  V
Sbjct: 9  YLRQHYGITQEGLAEQLSVSRQTVSKWKAGTNYPEMDKLLQLCDLFHTSLDDLMRGSVHV 68

Query: 81 CSDISSE 87
            +  +E
Sbjct: 69 VKENDTE 75


>gi|317470678|ref|ZP_07930063.1| hypothetical protein HMPREF1011_00410 [Anaerostipes sp.
          3_2_56FAA]
 gi|316901813|gb|EFV23742.1| hypothetical protein HMPREF1011_00410 [Anaerostipes sp.
          3_2_56FAA]
          Length = 191

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 31/77 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +   K+I+  R+   +SQ++L E + +T Q +  +E G N      L  +S +    +  
Sbjct: 1  MEFSKQIKKYRLDSKLSQDELAEKVYVTRQTISNWENGKNYPDVKSLLLLSTLFHISLDT 60

Query: 73 FFDVSPTVCSDISSEEN 89
                    +    E+
Sbjct: 61 LVKGDLEEMREQIKAED 77


>gi|310778575|ref|YP_003966908.1| transcriptional regulator, XRE family [Ilyobacter polytropus DSM
          2926]
 gi|309747898|gb|ADO82560.1| transcriptional regulator, XRE family [Ilyobacter polytropus DSM
          2926]
          Length = 190

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK ++  R    +S ++     G++   + + E+G +    S L  I+  L+ P S F 
Sbjct: 8  IGKNLKEIRKKQNLSLDETSRLTGVSKPMLGQIERGQSNPTVSTLWKIATGLKVPFSEFM 67


>gi|228474268|ref|ZP_04059003.1| transcriptional regulator, Cro/CI family [Staphylococcus hominis
          SK119]
 gi|314936712|ref|ZP_07844059.1| transcriptional regulator, Cro/CI family [Staphylococcus hominis
          subsp. hominis C80]
 gi|228271627|gb|EEK12974.1| transcriptional regulator, Cro/CI family [Staphylococcus hominis
          SK119]
 gi|313655331|gb|EFS19076.1| transcriptional regulator, Cro/CI family [Staphylococcus hominis
          subsp. hominis C80]
          Length = 179

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 27/62 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R    ++QE+L E   ++   + + E             I EVL +  S 
Sbjct: 1  MQIGYKLKNLRRQKNLTQEELAERTDLSKGYISQIESEYASPSMETFLSILEVLGTTPSD 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|257792471|ref|YP_003183077.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|257476368|gb|ACV56688.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
          Length = 395

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 30/67 (44%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            R   G++QE L E L ++ Q V K++ G N     +L  + ++  + +      S  V
Sbjct: 9  YLRQHYGITQEGLAEQLSVSRQTVSKWKAGTNYPEMDKLLQLCDLFHTSLDDLMRGSVHV 68

Query: 81 CSDISSE 87
            +  +E
Sbjct: 69 VKENDTE 75


>gi|261856939|ref|YP_003264222.1| XRE family transcriptional regulator [Halothiobacillus neapolitanus
           c2]
 gi|261837408|gb|ACX97175.1| transcriptional regulator, XRE family [Halothiobacillus
           neapolitanus c2]
          Length = 184

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/103 (26%), Positives = 43/103 (41%), Gaps = 10/103 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--- 71
           VG R+RL R+   +SQ  L +  G+    +   E G      S L+ I      P++   
Sbjct: 5   VGFRLRLVRLRHQLSQRALAKRTGVAHATISLIESGRTSPSVSALKRILA--GIPMTLGE 62

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           FF D  P   S+I      + + IS  +G+     + QI   +
Sbjct: 63  FFSDELPPAESEIFYRAGELTE-ISGGEGI----SYRQIGSAR 100


>gi|218463407|ref|ZP_03503498.1| MerR family transcriptional regulator [Rhizobium etli Kim 5]
 gi|218663344|ref|ZP_03519274.1| MerR family transcriptional regulator [Rhizobium etli IE4771]
          Length = 182

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++G R+R  R+   +SQ +L +  G+    +   E   +      L+ I +    PI
Sbjct: 1  MSVDIGSRLRHLRLAHKLSQRELAKRTGVPNSTISLIESNASNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF   P            +++ 
Sbjct: 59 GLAEFFAFEPERPKKAFYAAEELVEI 84


>gi|210624072|ref|ZP_03294172.1| hypothetical protein CLOHIR_02124 [Clostridium hiranonis DSM
          13275]
 gi|210153205|gb|EEA84211.1| hypothetical protein CLOHIR_02124 [Clostridium hiranonis DSM
          13275]
          Length = 189

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 39/78 (50%), Gaps = 1/78 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RIR  R    ++ ++L +  G++   + + E+ +     S L+ IS+ L+ P     
Sbjct: 2  LGERIRNFRKNKSITLQQLSDETGLSIGYISQIERNLVDPSLSSLRKISKSLDIPTYLLM 61

Query: 75 DVSPTVCSDISSEENNVM 92
          +       D++++  +V+
Sbjct: 62 ETEK-YSDDLTTKSGDVI 78


>gi|163942236|ref|YP_001647120.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|229013704|ref|ZP_04170833.1| Transcriptional regulator, Xre [Bacillus mycoides DSM 2048]
 gi|229135335|ref|ZP_04264127.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST196]
 gi|163864433|gb|ABY45492.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
 gi|228648124|gb|EEL04167.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST196]
 gi|228747626|gb|EEL97500.1| Transcriptional regulator, Xre [Bacillus mycoides DSM 2048]
          Length = 190

 Score = 52.9 bits (126), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 1  MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M  N+ +    V   VG+ +R  R    +S E+L +  G++   + K E+G      + +
Sbjct: 1  MKENEDMQTKEVIQQVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVI 60

Query: 60 QHISEVLESPIS 71
            I++ L  P+S
Sbjct: 61 WKITKGLSIPLS 72


>gi|322390117|ref|ZP_08063652.1| transcriptional regulator [Streptococcus parasanguinis ATCC 903]
 gi|321143244|gb|EFX38687.1| transcriptional regulator [Streptococcus parasanguinis ATCC 903]
          Length = 77

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 34/75 (45%), Gaps = 2/75 (2%)

Query: 2  VGNKKIPNPVDINVGK--RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          + NK I    + +V K  ++++ R+   M+Q  L + +G+T Q +   E G      S  
Sbjct: 1  MYNKAIKTRKENHVAKNLKLKMARVEHDMTQGDLADAIGVTRQTIGLIEAGKYNPTLSLC 60

Query: 60 QHISEVLESPISFFF 74
            I + L+  +   F
Sbjct: 61 LAICKTLDKTLDQLF 75


>gi|307327218|ref|ZP_07606406.1| transcriptional regulator, XRE family [Streptomyces violaceusniger
           Tu 4113]
 gi|306887109|gb|EFN18107.1| transcriptional regulator, XRE family [Streptomyces violaceusniger
           Tu 4113]
          Length = 200

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/127 (16%), Positives = 44/127 (34%), Gaps = 15/127 (11%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +  R R  R   G S   + + +GI+   + K E        + L  ++  L  P+
Sbjct: 12  LERIIAVRAREYRQAAGASVGGMAQRVGISKAMLSKIENAQTACSLTTLSRLARGLGVPV 71

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
           +  F         +         F+    G ++ R   +I           L+ ++  S 
Sbjct: 72  TALFRGMDDEREAV---------FVPAGHGARIVRRGTRIGHE------YALLGALRGSN 116

Query: 131 KKYRTIE 137
           K+   +E
Sbjct: 117 KRMEALE 123


>gi|307277180|ref|ZP_07558284.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|306506110|gb|EFM75276.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
          Length = 71

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G SQ +L + + +T Q V  ++ G       +++ +SE+L  PI+  F
Sbjct: 5  SNLSRYRKEKGFSQTELAKKMNVTQQCVSSWQTGRTIPKPYQMKMLSEILSVPINELF 62


>gi|304404381|ref|ZP_07386042.1| transcriptional regulator, XRE family [Paenibacillus
           curdlanolyticus YK9]
 gi|304346188|gb|EFM12021.1| transcriptional regulator, XRE family [Paenibacillus
           curdlanolyticus YK9]
          Length = 109

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 25/118 (21%), Positives = 52/118 (44%), Gaps = 11/118 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G R+R  R+   +SQE++ + +GIT      YE    +     L  +S   E  + +
Sbjct: 3   MTMGDRLRELRLRKNLSQEEVAKQIGITRSAYSHYEINNRQPVYDTLIKLSSYFEVSLDY 62

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
                  +  + S  E  +     +P+ +++ R    +D  K +Q I +++  I  S+
Sbjct: 63  ------IIGGEFSKSEAGL-----SPETVEIFRLLNTMDQDKRKQSITKMMDVIRQSD 109


>gi|257879403|ref|ZP_05659056.1| predicted protein [Enterococcus faecium 1,230,933]
 gi|323142551|ref|ZP_08077367.1| toxin-antitoxin system, antitoxin component, Xre domain protein
          [Phascolarctobacterium sp. YIT 12067]
 gi|257813631|gb|EEV42389.1| predicted protein [Enterococcus faecium 1,230,933]
 gi|295100959|emb|CBK98504.1| Helix-turn-helix [Faecalibacterium prausnitzii L2-6]
 gi|322412984|gb|EFY03887.1| toxin-antitoxin system, antitoxin component, Xre domain protein
          [Phascolarctobacterium sp. YIT 12067]
          Length = 130

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 34/66 (51%), Gaps = 4/66 (6%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLE 67
          D ++G+R++  R    ++Q++LG  +G + +    ++ +YEK      A     ++EVL+
Sbjct: 7  DTSIGQRLKFVRRFRRLTQKELGLLMGYSEKTADVRIAQYEKNARTPNAETTAKLAEVLK 66

Query: 68 SPISFF 73
               F
Sbjct: 67 VSPVVF 72


>gi|228935113|ref|ZP_04097940.1| hypothetical protein bthur0009_35660 [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
 gi|228824478|gb|EEM70283.1| hypothetical protein bthur0009_35660 [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
          Length = 145

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +GK+I   R    +SQ  L + LG +  ++  YE+G        L+ I++  E    + 
Sbjct: 2  LGKKIAELRKNQKLSQYDLADRLGFSRGKLANYEQGQREPDYDTLKKIADFFEVSTDYL 60


>gi|229145898|ref|ZP_04274277.1| hypothetical protein bcere0012_30470 [Bacillus cereus BDRD-ST24]
 gi|296503830|ref|YP_003665530.1| transcriptional repressor [Bacillus thuringiensis BMB171]
 gi|228637506|gb|EEK93957.1| hypothetical protein bcere0012_30470 [Bacillus cereus BDRD-ST24]
 gi|296324882|gb|ADH07810.1| transcriptional repressor [Bacillus thuringiensis BMB171]
          Length = 374

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
              +P +  +
Sbjct: 64 LISYTPQMEQE 74


>gi|218281836|ref|ZP_03488175.1| hypothetical protein EUBIFOR_00743 [Eubacterium biforme DSM 3989]
 gi|218217125|gb|EEC90663.1| hypothetical protein EUBIFOR_00743 [Eubacterium biforme DSM 3989]
          Length = 104

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/115 (20%), Positives = 48/115 (41%), Gaps = 17/115 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FF 73
           VG+RI+  R    ++QE+L   + ++   V   E+G+          I+  L+       
Sbjct: 6   VGQRIKAAREAKNLTQEELAALVNLSPTHVSVIERGLKVTKLDTFIAIANALDVSADTLL 65

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            DV     S +++E + +++ +                  + +Q+II  VR++V 
Sbjct: 66  IDVVTHSVSGVTNELSEMIEKL----------------PKEKQQRIINAVRALVE 104


>gi|169627870|ref|YP_001701519.1| putative transcriptional regulator [Mycobacterium abscessus ATCC
          19977]
 gi|169239837|emb|CAM60865.1| Hypothetical transcriptional regulator [Mycobacterium abscessus]
          Length = 185

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 29/68 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R   G+S  +L    G+    + + E G        L  +++ L +P+S   
Sbjct: 11 VGARLRRLRTEAGLSLAELATRSGVGKGSISELENGRRTARLDTLFALTKALGAPLSAAV 70

Query: 75 DVSPTVCS 82
           VSP    
Sbjct: 71 GVSPPADG 78


>gi|163119252|ref|YP_077808.2| hypothetical protein BL02691 [Bacillus licheniformis ATCC 14580]
 gi|145902758|gb|AAU22170.2| hypothetical protein BL02691 [Bacillus licheniformis ATCC 14580]
          Length = 79

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  ++   R++  MSQ++L E +G++ Q +   EKG           I+E     ++  F
Sbjct: 9  ISNKVYEYRVLARMSQQELAEKVGVSKQTIFVMEKGNYVPTLLLAFRIAEFFNVDVNEIF 68


>gi|5852826|gb|AAD54225.1|AF143443_4 MesF [Leuconostoc mesenteroides]
 gi|30909074|gb|AAP37399.1| MesF [Leuconostoc mesenteroides subsp. mesenteroides]
          Length = 87

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 27/56 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G  ++  R +  +SQ KLG+ L +    V  YE G        L  IS++L+  I
Sbjct: 26 IGPNLKKYRKLANISQFKLGQLLNVNQVTVSHYESGQRVPDIDSLIKISDILDVDI 81


>gi|86139426|ref|ZP_01057995.1| DNA binding protein, putative [Roseobacter sp. MED193]
 gi|85823929|gb|EAQ44135.1| DNA binding protein, putative [Roseobacter sp. MED193]
          Length = 188

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/74 (16%), Positives = 32/74 (43%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           + P+ +   +  R++  R   G+S E +    G++   V + E+G +    + L +++ 
Sbjct: 2  TENPDDILTLLPARLKEARRAQGLSLEAVANLSGVSRSMVSQIERGESSPTIATLWNLTR 61

Query: 65 VLESPISFFFDVSP 78
           L+   +   +   
Sbjct: 62 ALQVDFAGLLEAGD 75


>gi|323352770|ref|ZP_08087740.1| transcriptional repressor [Streptococcus sanguinis VMC66]
 gi|322121806|gb|EFX93552.1| transcriptional repressor [Streptococcus sanguinis VMC66]
          Length = 225

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 34/63 (53%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR+ L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRLELNLTQSSIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDK 64

Query: 77 SPT 79
          +  
Sbjct: 65 TSA 67


>gi|295693657|ref|YP_003602267.1| transcriptional regulator [Lactobacillus crispatus ST1]
 gi|295031763|emb|CBL51242.1| Transcriptional regulator [Lactobacillus crispatus ST1]
          Length = 65

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R+   M+QE L + + ++ Q +   EKG      +    I +VL+  +   F
Sbjct: 5  KMKAARVGKDMTQEDLAQQVDVSRQTISAIEKGNYNPSVNLCIKICQVLDKTLDDLF 61


>gi|262282933|ref|ZP_06060700.1| transcriptional regulator [Streptococcus sp. 2_1_36FAA]
 gi|262261185|gb|EEY79884.1| transcriptional regulator [Streptococcus sp. 2_1_36FAA]
          Length = 96

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 27/69 (39%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  N  I +     VG  I+  R    ++Q +    +GI+   + +YE G + +    + 
Sbjct: 1  MCYNGDIKSKERAMVGDNIKSLRKTNDLTQPEFARIVGISRNSLSRYENGTSPISTELID 60

Query: 61 HISEVLESP 69
           I +     
Sbjct: 61 TICQKFNVS 69


>gi|237795609|ref|YP_002863161.1| putative DNA-binding protein [Clostridium botulinum Ba4 str. 657]
 gi|229263162|gb|ACQ54195.1| putative DNA-binding protein [Clostridium botulinum Ba4 str. 657]
          Length = 148

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 31/61 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+++   R   G+SQE + E L ++ Q V K+E        ++ + +S++      +
Sbjct: 1  MSLGEKLLYLRKKAGLSQEDVAEKLSVSRQTVSKWETDQMVPELNKAKLLSQLYNVSYDY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|228956421|ref|ZP_04118232.1| Transcription regulator [Bacillus thuringiensis serovar kurstaki
          str. T03a001]
 gi|228803254|gb|EEM50062.1| Transcription regulator [Bacillus thuringiensis serovar kurstaki
          str. T03a001]
          Length = 114

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 34/83 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R     +QE LG+ +G + + +  YE          +  +S+ LE    F  
Sbjct: 3  IGARIKKLRKQRNWTQEILGKKVGASSRVIGYYESEERFPSPDTIAKLSDTLEVTTDFLL 62

Query: 75 DVSPTVCSDISSEENNVMDFIST 97
               +     ++   +M+ + T
Sbjct: 63 GRGNELDIKKHTKFKEIMERLDT 85


>gi|268593047|ref|ZP_06127268.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291311313|gb|EFE51766.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 79

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 33/65 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I +G+++++ R+    +  +    L  + QQV + E GVN++    +    ++L   I
Sbjct: 7  ISIYIGRQLKVLRVNENYTLSEFARLLKKSEQQVYRMESGVNKMDIDTMVMYFKLLHVDI 66

Query: 71 SFFFD 75
            FF+
Sbjct: 67 PSFFN 71


>gi|254516541|ref|ZP_05128600.1| transcriptional regulator, XRE family [gamma proteobacterium
          NOR5-3]
 gi|219674964|gb|EED31331.1| transcriptional regulator, XRE family [gamma proteobacterium
          NOR5-3]
          Length = 186

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/94 (15%), Positives = 36/94 (38%), Gaps = 1/94 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + +     +G+R+   R +  M+ E+L    G++   + + E+       +  Q I++  
Sbjct: 1  MTDSTSRLLGERVSQLRQLQSMTLEQLAAASGVSRSMLSQIERCKANPTLAVTQRIAQTF 60

Query: 67 ESPISFFFDVSPTVCS-DISSEENNVMDFISTPD 99
             I    D      S D+   ++    F +  +
Sbjct: 61 GISIGELVDDPNASASIDVVRGDDPGTVFRADSE 94


>gi|254475536|ref|ZP_05088922.1| transcriptional regulator, XRE family [Ruegeria sp. R11]
 gi|214029779|gb|EEB70614.1| transcriptional regulator, XRE family [Ruegeria sp. R11]
          Length = 131

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/73 (19%), Positives = 32/73 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+   R   GM+Q +L   LG+    +  +E+ ++   A++L  ++ +L   + +   
Sbjct: 17 GDRVAAAREAAGMTQAQLARRLGVKKTTLTGWEQDLSEPRANKLTMMAGLLNVSMGWLLT 76

Query: 76 VSPTVCSDISSEE 88
                   + E+
Sbjct: 77 GEGEGMDAPAGEQ 89


>gi|160878433|ref|YP_001557401.1| XRE family transcriptional regulator [Clostridium phytofermentans
          ISDg]
 gi|160427099|gb|ABX40662.1| transcriptional regulator, XRE family [Clostridium
          phytofermentans ISDg]
          Length = 276

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/50 (32%), Positives = 30/50 (60%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          I  +R I  ++Q++L   LG+T + V K+E+G++    S L  +S++L  
Sbjct: 10 IADQRKIKKLTQKELAAKLGVTDKAVSKWERGLSCPDISLLSTLSDILGV 59


>gi|7523594|gb|AAF63096.1|AF158601_24 putative DNA binding protein [Streptococcus phage SFi18]
          Length = 166

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R+ L R    +++ +L E +G+T   +  +E G + +  S  + ++E     + + 
Sbjct: 2  NRLYLLRESRKITRVELAEKIGVTKLTILNWEHGTHEIKGSNAKKLAEYFNVSVPYL 58


>gi|15612908|ref|NP_241211.1| transcriptional regulator (phage-related) [Bacillus halodurans
          C-125]
 gi|10172958|dbj|BAB04064.1| transcriptional regulator (phage-related) [Bacillus halodurans
          C-125]
          Length = 116

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R+R  R    ++Q+++   L IT      YE+G N     +L+ +++     I+F 
Sbjct: 7  RLRELRNAHNLTQQEVASFLNITESAYGFYEQGRNEPSIGKLKQLAQKYNVSIAFL 62


>gi|332292122|ref|YP_004430731.1| helix-turn-helix domain protein [Krokinobacter diaphorus
          4H-3-7-5]
 gi|332170208|gb|AEE19463.1| helix-turn-helix domain protein [Krokinobacter diaphorus
          4H-3-7-5]
          Length = 115

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 27/58 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +G  I+  R    +SQE+L   + ++   V   E G ++     +  I+ VLE  I+
Sbjct: 10 YLGGNIKNLRKSRKLSQEELASFISLSRSSVANIESGYHQPSIHVIYQIAVVLECKIT 67


>gi|313610053|gb|EFR85399.1| DNA-binding protein [Listeria monocytogenes FSL F2-208]
          Length = 89

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 33/55 (60%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + I+  R   G+SQE++   L +  Q + K+E+G++   +  L  ISEVLE+ +S
Sbjct: 4  ENIKAIRKSKGLSQEEIAIKLNVVRQTISKWEQGLSVPDSDMLISISEVLETSVS 58


>gi|302391440|ref|YP_003827260.1| XRE family transcriptional regulator [Acetohalobium arabaticum DSM
           5501]
 gi|302203517|gb|ADL12195.1| transcriptional regulator, XRE family [Acetohalobium arabaticum DSM
           5501]
          Length = 131

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/112 (17%), Positives = 43/112 (38%), Gaps = 7/112 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N  +R++  R   G++ EKL +    +      YE    +        ++E     I +
Sbjct: 1   MNFSQRLKQLRKEKGLTLEKLADEFDRSKTTFSNYENNHRKPDIDLTIELAEYFNVSIDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
              +  T     + E   V+      +  +L + +  I D K  Q +++ V+
Sbjct: 61  L--LGNTEEKRTADEIKEVI-----SENQELFKLWEIISDRKDLQLLLQQVK 105


>gi|296134181|ref|YP_003641428.1| transcriptional regulator, XRE family [Thermincola sp. JR]
 gi|296032759|gb|ADG83527.1| transcriptional regulator, XRE family [Thermincola potens JR]
          Length = 182

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +V  RI+  R++ G S+E++   L I+     +YE G + +  S +  I+ +    ++
Sbjct: 6  KDVANRIKGLRLLAGFSEEQMAAWLNISKDSYIRYENGEDDIPISIIYEIANIHGVDLT 64


>gi|295133194|ref|YP_003583870.1| lambda repressor-like DNA-binding protein [Zunongwangia profunda
          SM-A87]
 gi|294981209|gb|ADF51674.1| lambda repressor-like DNA-binding protein [Zunongwangia profunda
          SM-A87]
          Length = 152

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          ++G++I   R + GM QE L   LGI+ Q V   E+  + +   +L+ +++VL   
Sbjct: 21 HIGRKISRIRELRGMKQEALAAELGISQQSVSSLEQSEH-IEDEKLERVAKVLGVS 75


>gi|259501179|ref|ZP_05744081.1| xre family toxin-antitoxin system [Lactobacillus iners DSM 13335]
 gi|302190374|ref|ZP_07266628.1| toxin-antitoxin system, antitoxin component, Xre family protein
          [Lactobacillus iners AB-1]
 gi|309804322|ref|ZP_07698398.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          11V1-d]
 gi|309807442|ref|ZP_07701404.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          01V1-a]
 gi|309809814|ref|ZP_07703666.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          2503V10-D]
 gi|312870953|ref|ZP_07731056.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          3008A-a]
 gi|312875431|ref|ZP_07735435.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2053A-b]
 gi|315653780|ref|ZP_07906696.1| XRE family transcriptional regulator [Lactobacillus iners ATCC
          55195]
 gi|325911542|ref|ZP_08173951.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          143-D]
 gi|329920971|ref|ZP_08277503.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          1401G]
 gi|259167873|gb|EEW52368.1| xre family toxin-antitoxin system [Lactobacillus iners DSM 13335]
 gi|308163534|gb|EFO65805.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          11V1-d]
 gi|308169315|gb|EFO71371.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          01V1-a]
 gi|308169856|gb|EFO71897.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          2503V10-D]
 gi|311089094|gb|EFQ47534.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2053A-b]
 gi|311093448|gb|EFQ51789.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          3008A-a]
 gi|315488476|gb|EFU78122.1| XRE family transcriptional regulator [Lactobacillus iners ATCC
          55195]
 gi|325476672|gb|EGC79829.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          143-D]
 gi|328935406|gb|EGG31880.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          1401G]
          Length = 73

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 26/62 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + V  +I   R  LG+SQ KL + +G+  + +  YE             I +VL   I  
Sbjct: 4  LEVDNKICEYRKALGLSQHKLAKAVGLKRRSIMAYENKTISPTVETAYKICKVLGKDIKE 63

Query: 73 FF 74
           F
Sbjct: 64 VF 65


>gi|256832506|ref|YP_003161233.1| transcriptional regulator, XRE family [Jonesia denitrificans DSM
          20603]
 gi|256686037|gb|ACV08930.1| transcriptional regulator, XRE family [Jonesia denitrificans DSM
          20603]
          Length = 212

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 31/56 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+ +R RRM LG+SQ +L   +G T Q + ++E+  N V  +    +   L+  I
Sbjct: 9  LGRLVRARRMELGLSQSELAARVGSTRQWLSRFEQATNDVSLTHALAVLHALDLSI 64


>gi|196035713|ref|ZP_03103116.1| DNA-binding protein [Bacillus cereus W]
 gi|228913383|ref|ZP_04077016.1| Transcriptional regulator [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
 gi|228925881|ref|ZP_04088965.1| Transcriptional regulator [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|228932124|ref|ZP_04095015.1| Transcriptional regulator [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|195991680|gb|EDX55645.1| DNA-binding protein [Bacillus cereus W]
 gi|228827552|gb|EEM73295.1| Transcriptional regulator [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|228833896|gb|EEM79449.1| Transcriptional regulator [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|228846292|gb|EEM91311.1| Transcriptional regulator [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
          Length = 66

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+ L ++Q++L   +G+T Q +   EKG           I   ++  ++  F
Sbjct: 4  SKIKVARVQLDLTQQQLAAKVGVTRQTISLIEKGKYNPSLDLCLKICYAVDKTLNDLF 61


>gi|134282471|ref|ZP_01769175.1| DNA-binding protein [Burkholderia pseudomallei 305]
 gi|167723927|ref|ZP_02407163.1| DNA-binding protein [Burkholderia pseudomallei DM98]
 gi|237508582|ref|ZP_04521297.1| DNA-binding protein [Burkholderia pseudomallei MSHR346]
 gi|134246028|gb|EBA46118.1| DNA-binding protein [Burkholderia pseudomallei 305]
 gi|235000787|gb|EEP50211.1| DNA-binding protein [Burkholderia pseudomallei MSHR346]
          Length = 94

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 23/56 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G  IR  R     SQE+L E  G+    V + E+G        +  ++     PI+
Sbjct: 9  GAAIRQLREARAWSQEQLAEHAGLNRSYVGEIERGTAIASIVTVDKLARAFGVPIA 64


>gi|150389675|ref|YP_001319724.1| XRE family transcriptional regulator [Alkaliphilus
          metalliredigens QYMF]
 gi|149949537|gb|ABR48065.1| transcriptional regulator, XRE family [Alkaliphilus
          metalliredigens QYMF]
          Length = 197

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 32/79 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK I   R    ++Q+ + + LGI  + V K+E G+     S    +S + +  I  
Sbjct: 4  VKIGKLIAKLRKEKKLTQKNIADALGIQNKTVSKWECGLGCPDLSLWPELSAIFDIDIKQ 63

Query: 73 FFDVSPTVCSDISSEENNV 91
            +   T         + +
Sbjct: 64 MMEGEITPNKPDGGNIDKI 82


>gi|332981863|ref|YP_004463304.1| helix-turn-helix domain-containing protein [Mahella australiensis
           50-1 BON]
 gi|332699541|gb|AEE96482.1| helix-turn-helix domain protein [Mahella australiensis 50-1 BON]
          Length = 132

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/124 (19%), Positives = 54/124 (43%), Gaps = 4/124 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  R     +Q+      GIT   +  YE+G     A  L+ I+E+ +  I +  
Sbjct: 5   LGDRLRRLREKKEWTQKYAATVFGITSGALSNYERGERTPDAEMLKRIAEIYDVSIDYLI 64

Query: 75  DVSPTVCSDISSEENNVMDFIST---PDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
                  S     E+++ D+I      + + + +   ++ D   R+ +I  ++ + +  K
Sbjct: 65  GKRSLRESSQYLNESSLDDYIEEIIGREAVLMLQSMDRL-DEHERELLIIFLQGLKARRK 123

Query: 132 KYRT 135
            +++
Sbjct: 124 HFQS 127


>gi|296284051|ref|ZP_06862049.1| XRE family transcriptional regulator [Citromicrobium
          bathyomarinum JL354]
          Length = 65

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+++ R     SQ +L   L ++ Q V   E G +         IS V + PI   F
Sbjct: 3  NRLKVLRAERDWSQAELAGRLDVSRQAVNAIETGKHDPSLGLAFKISRVFDMPIETIF 60


>gi|259501794|ref|ZP_05744696.1| DNA-binding protein [Lactobacillus antri DSM 16041]
 gi|259170218|gb|EEW54713.1| DNA-binding protein [Lactobacillus antri DSM 16041]
          Length = 175

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%), Gaps = 1/60 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  +I+  R    +SQE+L E   ++ + +Q+ E G +    S L  ++  L+  +   F
Sbjct: 2  VNNQIKQLRTARHLSQEQLAEKAKVSVRTIQRLEAG-DDASISTLNLVAGALDVQVGDLF 60


>gi|258423476|ref|ZP_05686367.1| conserved hypothetical protein [Staphylococcus aureus A9635]
 gi|257846537|gb|EEV70560.1| conserved hypothetical protein [Staphylococcus aureus A9635]
          Length = 173

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
           KR++  R   GM+  +LG  +G T   VQ+YE G +  +    ++ I+  L    ++   
Sbjct: 74  KRMKQSREKQGMTLAELGRKIGKTEATVQRYESGNIKNLKNDTIESIATALNVNPAYLMG 133

Query: 76  VSPTVCSDISSEENNVMDFISTPD 99
                  ++     ++   ++  +
Sbjct: 134 WVEENDDEVQHRAAHLEGELTDDE 157


>gi|228915212|ref|ZP_04078807.1| transcriptional regulator [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
 gi|228844443|gb|EEM89499.1| transcriptional regulator [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
          Length = 117

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/120 (18%), Positives = 51/120 (42%), Gaps = 7/120 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++      G++Q++L + +G++   V  Y +G    G   LQ I+  L+    +    
Sbjct: 5   ERLKSLIEKKGITQQQLADVIGVSHVSVYNYVEGKKAPGTRTLQKIANYLKVTTDY---- 60

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
              +    S +     D   T +  ++ +    + + + R+K +E +   V+ EK    +
Sbjct: 61  --LLLLSDSPDLTAGQDLQLTKEAHEILQIINDLPEEQ-RKKALEQLEMFVNYEKSKGNM 117


>gi|227538776|ref|ZP_03968825.1| conserved hypothetical protein [Sphingobacterium spiritivorum ATCC
           33300]
 gi|227241285|gb|EEI91300.1| conserved hypothetical protein [Sphingobacterium spiritivorum ATCC
           33300]
          Length = 220

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/124 (19%), Positives = 41/124 (33%), Gaps = 29/124 (23%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G  I+  R + G+SQ+   E   +T   +  YE+            I+     P+S  
Sbjct: 3   NIGYNIKKLRNVKGLSQQAFAELFNLTRGNISSYEEMRAEPKIDIALKIANYFSIPLSNL 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYF---IQIDDVK--------VRQKIIEL 122
            D                   +S  + L  N YF     I   K         R+++  L
Sbjct: 63  IDKK-----------------LSVNEILNFNDYFEANTSIAPPKNLAGIPFLSRERVF-L 104

Query: 123 VRSI 126
            + +
Sbjct: 105 AKEL 108


>gi|227505364|ref|ZP_03935413.1| conserved hypothetical protein [Corynebacterium striatum ATCC 6940]
 gi|227198066|gb|EEI78114.1| conserved hypothetical protein [Corynebacterium striatum ATCC 6940]
          Length = 116

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/87 (26%), Positives = 39/87 (44%), Gaps = 8/87 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYE---KGVN---RVGASRLQHISEVLESPI 70
            R+R  R   GMSQ+ L E  G++  Q+   E   K +N       S L  ++  LE P 
Sbjct: 17  SRLRETRERRGMSQKALAEISGVSRSQISNLERTDKALNLRADPQLSTLFKLAYALEVPP 76

Query: 71  SFFFDVSPTVCSDISSEENNVMDFIST 97
           S    +   V  ++ +  ++V  F ++
Sbjct: 77  SLL--LPGGVGDEVVAALDDVAAFSAS 101


>gi|225569172|ref|ZP_03778197.1| hypothetical protein CLOHYLEM_05253 [Clostridium hylemonae DSM
          15053]
 gi|225161971|gb|EEG74590.1| hypothetical protein CLOHYLEM_05253 [Clostridium hylemonae DSM
          15053]
          Length = 79

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 4/70 (5%)

Query: 5  KKIPNPVDINV--GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV--NRVGASRLQ 60
          +   N  D  +  G  I   R + G++Q +L E + I+   +   E       V    L 
Sbjct: 2  RNNINHADDYIKLGLNIAYYRKLGGLTQLQLAEAVKISRTHLSNIEAPNMPTSVSLDTLF 61

Query: 61 HISEVLESPI 70
           I++VL+ P+
Sbjct: 62 EIAKVLDIPV 71


>gi|210630507|ref|ZP_03296490.1| hypothetical protein COLSTE_00375 [Collinsella stercoris DSM 13279]
 gi|210160441|gb|EEA91412.1| hypothetical protein COLSTE_00375 [Collinsella stercoris DSM 13279]
          Length = 234

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 33/153 (21%), Positives = 53/153 (34%), Gaps = 28/153 (18%)

Query: 1   MVGNKKIPNP--VDIN--VG---KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR 53
           M G     +   +D +  VG    RIR  R    M+Q +L   + ++ Q V  +EKG   
Sbjct: 12  MDGGSDTIHATGLDAHTSVGPLASRIRGLRENASMTQGELASRVFVSRQTVINWEKGRTL 71

Query: 54  VGASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDF------ISTPDGLQLN--- 104
             A  L+ +S VL   +    D            E  +         + + + L      
Sbjct: 72  PDAESLKRLSSVLGITLDALLDERSEERLRQIEGERKIFKLAILFECLWSLEKLIGVIVV 131

Query: 105 ---------RYFIQIDDVKVRQKIIELVRSIVS 128
                        QI DV+   +II L  S+ +
Sbjct: 132 TIAHKFLDPSAAYQIADVE---RIIGLAISLAA 161


>gi|158423451|ref|YP_001524743.1| hypothetical protein AZC_1827 [Azorhizobium caulinodans ORS 571]
 gi|158330340|dbj|BAF87825.1| hypothetical protein [Azorhizobium caulinodans ORS 571]
          Length = 231

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/62 (17%), Positives = 26/62 (41%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + +   +GK I+  R    +S   L E  G+    + + E+       + +  +S+ L+ 
Sbjct: 43  HAITGQLGKTIQRLRKAYNLSLSDLAEQSGVAKSIISQIERNETNPTLATVWRLSQALDV 102

Query: 69  PI 70
            +
Sbjct: 103 TV 104


>gi|153812213|ref|ZP_01964881.1| hypothetical protein RUMOBE_02611 [Ruminococcus obeum ATCC 29174]
 gi|149831620|gb|EDM86707.1| hypothetical protein RUMOBE_02611 [Ruminococcus obeum ATCC 29174]
          Length = 112

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/93 (19%), Positives = 40/93 (43%), Gaps = 1/93 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRI  RR  LG+ Q ++ E  G+  + +   E+ ++      +  ++ VL +    F 
Sbjct: 12  IGKRIARRRKALGLKQSEVEEKAGLGQKYLSNIERSISIPSIEVIMKLAYVLNTTPDEFL 71

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
             +     +   +   ++  +++   L L   F
Sbjct: 72  IGTLNSNDEEWKKSAELLRPLNSKQ-LNLVHNF 103


>gi|126464104|ref|YP_001045217.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
          ATCC 17029]
 gi|332557508|ref|ZP_08411830.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
          WS8N]
 gi|126105915|gb|ABN78445.1| transcriptional regulator, XRE family [Rhodobacter sphaeroides
          ATCC 17029]
 gi|332275220|gb|EGJ20535.1| XRE family transcriptional regulator [Rhodobacter sphaeroides
          WS8N]
          Length = 115

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 29/71 (40%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R    ++QE+L E +G +   + + E G        L+  +  +E P+    +  
Sbjct: 4  RLKELRKAKNLTQEQLAEMVGSSKSYISEIESGKKFPSGRLLKAFAHTMEVPVQALIEDD 63

Query: 78 PTVCSDISSEE 88
                ++  E
Sbjct: 64 QAGTDLMAHLE 74


>gi|78188883|ref|YP_379221.1| XRE family transcriptional regulator [Chlorobium chlorochromatii
          CaD3]
 gi|78171082|gb|ABB28178.1| transcriptional regulator, XRE family [Chlorobium chlorochromatii
          CaD3]
          Length = 108

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 30/58 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +GK I+  R    ++QE+LG+ +G+   Q+ K E   +      +  + + L++ I F
Sbjct: 39 LGKMIKTARQERNLTQEQLGKLVGVQKSQISKLESNTHSATIDTILKVFKALKADIHF 96


>gi|330447297|ref|ZP_08310947.1| helix-turn-helix family protein [Photobacterium leiognathi subsp.
          mandapamensis svers.1.1.]
 gi|328491488|dbj|GAA05444.1| helix-turn-helix family protein [Photobacterium leiognathi subsp.
          mandapamensis svers.1.1.]
          Length = 125

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 37/85 (43%), Gaps = 3/85 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  RI+  R   G++Q  + + L +  Q     E G        L  ISE+ E P+++F 
Sbjct: 8  IAARIKEAREWKGLTQVHMAQQLKVARQTYLDLETGKTEPKVRLLSEISEITERPLTWFV 67

Query: 75 ---DVSPTVCSDISSEENNVMDFIS 96
             +    + S+   E + ++ F S
Sbjct: 68 YGDEGIEILESEYKEEIDRLLQFFS 92


>gi|332653727|ref|ZP_08419471.1| DNA-binding protein [Ruminococcaceae bacterium D16]
 gi|332516813|gb|EGJ46418.1| DNA-binding protein [Ruminococcaceae bacterium D16]
          Length = 310

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 37/84 (44%), Gaps = 2/84 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G+ ++  R   G++QE+L E L ++ Q V K+E   +     +L  +  + ++ +  
Sbjct: 1  MSFGENLQFYRAREGLTQEELAERLEVSRQSVSKWESNTSFPEMEKLMTLCSLFQTDLDT 60

Query: 73 FF--DVSPTVCSDISSEENNVMDF 94
              D       D    + ++  F
Sbjct: 61 LVRGDAQAACQEDAVGYDRHMNAF 84


>gi|294629300|ref|ZP_06707860.1| xre family toxin-antitoxin system, antitoxin component
          [Streptomyces sp. e14]
 gi|292832633|gb|EFF90982.1| xre family toxin-antitoxin system, antitoxin component
          [Streptomyces sp. e14]
          Length = 406

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLES 68
          G+R+++ R   G++Q +L + +GI+   ++K E G  +  G   +  I+E L  
Sbjct: 7  GQRVQILRERRGLTQAQLADFVGISPHTMRKIENGQQKAPGLDMVLRIAEALRV 60


>gi|255655392|ref|ZP_05400801.1| putative phage regulatory protein [Clostridium difficile QCD-23m63]
 gi|296451380|ref|ZP_06893118.1| probable phage regulatory protein [Clostridium difficile NAP08]
 gi|296880270|ref|ZP_06904235.1| probable phage regulatory protein [Clostridium difficile NAP07]
 gi|296259796|gb|EFH06653.1| probable phage regulatory protein [Clostridium difficile NAP08]
 gi|296428713|gb|EFH14595.1| probable phage regulatory protein [Clostridium difficile NAP07]
          Length = 132

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/130 (20%), Positives = 51/130 (39%), Gaps = 19/130 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRI   R    ++Q KL + L   F+ + KYE G  +     +  I++       +  
Sbjct: 4   LGKRIAYLRNSKKLTQRKLMDIL--KFENLGKYETGDRKPNCDIVMSIADYFNVTTDWLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
                V S+ S +E          +       ++ I++ ++   I+ L R +   +K   
Sbjct: 62  YGKEKVNSNNSVKE--------DKED------YLHINNDEM--TILNLYRQLNERDKIKI 105

Query: 135 T-IEEECMVE 143
             I E  + E
Sbjct: 106 EGILELKISE 115


>gi|168210271|ref|ZP_02635896.1| cI2009 [Clostridium perfringens B str. ATCC 3626]
 gi|170711658|gb|EDT23840.1| cI2009 [Clostridium perfringens B str. ATCC 3626]
          Length = 78

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          N+G  I+ RR+I G S ++L +  G+  + +   E G+N+   + L  +S      I 
Sbjct: 15 NIGTNIKRRRLIKGWSLKQLSKKSGVGIKTINDIELGINKPSKNTLYKLSRGFGVTID 72


>gi|241113139|ref|YP_002972974.1| transcriptional regulator, XRE family [Rhizobium leguminosarum
          bv. trifolii WSM1325]
 gi|240861347|gb|ACS59013.1| transcriptional regulator, XRE family [Rhizobium leguminosarum
          bv. trifolii WSM1325]
          Length = 182

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++G R+R  R+   +SQ +L +  G+    +   E   +      L+ I +    PI
Sbjct: 1  MSVDIGNRLRHLRIAHKLSQRELAKRTGVPNSTISLIESNASNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF   P            +++ 
Sbjct: 59 GLAEFFAFEPERPRKAFYAAEELVEI 84


>gi|150398353|ref|YP_001328820.1| XRE family transcriptional regulator [Sinorhizobium medicae WSM419]
 gi|150029868|gb|ABR61985.1| transcriptional regulator, XRE family [Sinorhizobium medicae
           WSM419]
          Length = 182

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 43/108 (39%), Gaps = 16/108 (14%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           + +++G R+R  R+   +SQ +L +  G+T   +   E   +      L+ I +    PI
Sbjct: 1   MSVDIGNRLRRVRLRHNLSQRELAKRAGVTNSTISLIESNSSNPSVGALKRILD--GIPI 58

Query: 71  SF--FFDVSPTVCSDISSEENNVMDFISTPDGLQLNR---YFIQIDDV 113
               FF   P         E     F +  + +++ +    + QI D 
Sbjct: 59  GLAEFFSFEP---------EKPRKAFYAAEELVEIGKGPISYRQIGDN 97


>gi|52786374|ref|YP_092203.1| SinR [Bacillus licheniformis ATCC 14580]
 gi|319645045|ref|ZP_07999278.1| HTH-type transcriptional regulator sinR [Bacillus sp. BT1B_CT2]
 gi|52348876|gb|AAU41510.1| SinR [Bacillus licheniformis ATCC 14580]
 gi|317392854|gb|EFV73648.1| HTH-type transcriptional regulator sinR [Bacillus sp. BT1B_CT2]
          Length = 113

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/87 (22%), Positives = 36/87 (41%), Gaps = 4/87 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+RI+  R   G S  +L E  G+    +   E+ +        L+ +S VL+  +   
Sbjct: 4  IGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 63

Query: 74 FDVSPTVCSDISSE---ENNVMDFIST 97
           D       D   +   EN V D +++
Sbjct: 64 LDEKDETEYDGQLDSEWENLVRDAMAS 90


>gi|41407155|ref|NP_959991.1| hypothetical protein MAP1057c [Mycobacterium avium subsp.
          paratuberculosis K-10]
 gi|41395506|gb|AAS03374.1| hypothetical protein MAP_1057c [Mycobacterium avium subsp.
          paratuberculosis K-10]
          Length = 178

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 24/59 (40%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +R  R   G++ E L    G+T   + K E+G +    +    ++  L+  +   F   
Sbjct: 5  LRPVRRQRGLTLEALAAQTGLTKSYLSKIERGQSTPSIAVALKVARALDVDVGRLFSDE 63


>gi|49482914|ref|YP_040138.1| DNA-binding protein [Staphylococcus aureus subsp. aureus MRSA252]
 gi|258422580|ref|ZP_05685487.1| conserved hypothetical protein [Staphylococcus aureus A9635]
 gi|282903282|ref|ZP_06311173.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C160]
 gi|282905066|ref|ZP_06312924.1| DNA-binding protein [Staphylococcus aureus subsp. aureus Btn1260]
 gi|282908042|ref|ZP_06315873.1| DNA-binding protein [Staphylococcus aureus subsp. aureus
          WW2703/97]
 gi|282921517|ref|ZP_06329235.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C427]
 gi|283957486|ref|ZP_06374939.1| DNA-binding protein [Staphylococcus aureus subsp. aureus
          A017934/97]
 gi|295427234|ref|ZP_06819869.1| DNA-binding protein [Staphylococcus aureus subsp. aureus EMRSA16]
 gi|297590417|ref|ZP_06949056.1| probable DNA-binding protein [Staphylococcus aureus subsp. aureus
          MN8]
 gi|49241043|emb|CAG39718.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          MRSA252]
 gi|257847232|gb|EEV71239.1| conserved hypothetical protein [Staphylococcus aureus A9635]
 gi|270055331|gb|ACZ58824.1| hypothetical protein SAP033A_008 [Staphylococcus aureus]
 gi|270300061|gb|ACZ68867.1| hypothetical protein SAP076A_042 [Staphylococcus aureus]
 gi|270300067|gb|ACZ68873.1| hypothetical protein SAP077A_006 [Staphylococcus aureus]
 gi|270300132|gb|ACZ68938.1| hypothetical protein SAP078A_013 [Staphylococcus aureus]
 gi|270300177|gb|ACZ68983.1| hypothetical protein SAP054A_013 [Staphylococcus aureus]
 gi|270300380|gb|ACZ69186.1| hypothetical protein SAP067A_013 [Staphylococcus aureus]
 gi|270300493|gb|ACZ69299.1| hypothetical protein SAP075A_013 [Staphylococcus aureus]
 gi|281334480|gb|ADA61564.1| hypothetical protein SAP019A_018 [Staphylococcus aureus]
 gi|282166762|gb|ADA80778.1| hypothetical protein SAP102A_031 [Staphylococcus aureus]
 gi|282315932|gb|EFB46316.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C427]
 gi|282327707|gb|EFB57989.1| DNA-binding protein [Staphylococcus aureus subsp. aureus
          WW2703/97]
 gi|282331891|gb|EFB61402.1| DNA-binding protein [Staphylococcus aureus subsp. aureus Btn1260]
 gi|282596237|gb|EFC01198.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C160]
 gi|283790937|gb|EFC29752.1| DNA-binding protein [Staphylococcus aureus subsp. aureus
          A017934/97]
 gi|295128622|gb|EFG58253.1| DNA-binding protein [Staphylococcus aureus subsp. aureus EMRSA16]
 gi|297576716|gb|EFH95431.1| probable DNA-binding protein [Staphylococcus aureus subsp. aureus
          MN8]
 gi|315192996|gb|EFU23400.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          CGS00]
          Length = 113

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 25/59 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I+ +R +   SQE+L   L ++ Q V K+E   N      L  +S++    +       
Sbjct: 7  IKEQRELKRWSQEELANILKVSRQSVSKWESAKNYPSLDILIAMSDLFGISLEHLIKGD 65


>gi|125973071|ref|YP_001036981.1| transcriptional regulator [Clostridium thermocellum ATCC 27405]
 gi|256004574|ref|ZP_05429552.1| transcriptional regulator, XRE family [Clostridium thermocellum
          DSM 2360]
 gi|281417266|ref|ZP_06248286.1| transcriptional regulator, XRE family [Clostridium thermocellum
          JW20]
 gi|125713296|gb|ABN51788.1| transcriptional regulator [Clostridium thermocellum ATCC 27405]
 gi|255991446|gb|EEU01550.1| transcriptional regulator, XRE family [Clostridium thermocellum
          DSM 2360]
 gi|281408668|gb|EFB38926.1| transcriptional regulator, XRE family [Clostridium thermocellum
          JW20]
 gi|316940708|gb|ADU74742.1| Cupin 2 conserved barrel domain protein [Clostridium thermocellum
          DSM 1313]
          Length = 183

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            + KRI+  R I G+S E L   LGI  +   +YE G   +  S L  I+      +S
Sbjct: 6  KQISKRIKELREISGISAETLARELGIDSKTYTEYESGNVDIPVSLLFKIAGRFNVELS 64


>gi|324328969|gb|ADY24229.1| DNA-binding protein [Bacillus thuringiensis serovar finitimus
          YBT-020]
          Length = 69

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 27/65 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R    +SQ  LG+ +G + Q +   E+G           I+++   P+   F++
Sbjct: 5  NRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAQIFNVPVEEIFEL 64

Query: 77 SPTVC 81
               
Sbjct: 65 VEGEE 69


>gi|325971877|ref|YP_004248068.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
 gi|324027115|gb|ADY13874.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
          Length = 197

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/86 (17%), Positives = 36/86 (41%), Gaps = 4/86 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++  R   G++QE+LGE + ++   + K+E G        LQ ++ +    +    D 
Sbjct: 5   EKLKAYRSSYGLTQEQLGEKVFVSRVTISKWETGRGLPNLGSLQQLASLFGISV----DE 60

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ 102
                  ++  +  V + +     L 
Sbjct: 61  LLGSNELVALAQTEVKNTVRQSHTLM 86


>gi|308229525|gb|ADO24176.1| C.AflIIIP [Anabaena flos-aquae CCAP 1403/13F]
          Length = 78

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 28/69 (40%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+R  R  L +SQ++L E   +    +   E+G   +    +  +++ L+      FD
Sbjct: 9  GIRVRYFRKSLKLSQDELAEKSDLHRTYIGAVERGERNISLMNIFRLADALQVTAKDLFD 68

Query: 76 VSPTVCSDI 84
                 + 
Sbjct: 69 NPIENGENT 77


>gi|293402420|ref|ZP_06646556.1| putative transcriptional repressor [Erysipelotrichaceae bacterium
          5_2_54FAA]
 gi|291304083|gb|EFE45336.1| putative transcriptional repressor [Erysipelotrichaceae bacterium
          5_2_54FAA]
          Length = 72

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +I++ RM L MSQE+L + +G T Q +   E G          +I   L   +   F
Sbjct: 5  KIKMARMELDMSQEELAKKVGATRQTIGLIEAGRYNPSIKLCINICIALHKHLDDLF 61


>gi|257453048|ref|ZP_05618347.1| phage-like protein [Fusobacterium sp. 3_1_5R]
 gi|317059586|ref|ZP_07924071.1| predicted protein [Fusobacterium sp. 3_1_5R]
 gi|313685262|gb|EFS22097.1| predicted protein [Fusobacterium sp. 3_1_5R]
          Length = 135

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 38/81 (46%), Gaps = 1/81 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G R++ +R  L +SQE+L E +G  +   + K E+ +  +  S+++ +S+VL    S
Sbjct: 1  MTLGDRVKRKREELKLSQEELAEKMGYKSKTSIHKIEQNITDLPLSKVEELSKVLRVSTS 60

Query: 72 FFFDVSPTVCSDISSEENNVM 92
          +           I    +   
Sbjct: 61 YLMGWEEEPKKPIDPIIDEYH 81


>gi|254000130|ref|YP_003052193.1| XRE family transcriptional regulator [Methylovorus sp. SIP3-4]
 gi|313202093|ref|YP_004040751.1| XRE family transcriptional regulator [Methylovorus sp. MP688]
 gi|253986809|gb|ACT51666.1| transcriptional regulator, XRE family [Methylovorus sp. SIP3-4]
 gi|312441409|gb|ADQ85515.1| transcriptional regulator, XRE family [Methylovorus sp. MP688]
          Length = 215

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 27/62 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G  IR  R+  G++   + E   I+   + K E G+       L+ I+  L   +S 
Sbjct: 26 RHLGNVIRQIRLQHGLTIADISERASISRGMLSKIENGLVSTSLETLEQIANALGVTLSR 85

Query: 73 FF 74
           F
Sbjct: 86 LF 87


>gi|189353554|ref|YP_001949181.1| XRE family transcriptional regulator [Burkholderia multivorans
          ATCC 17616]
 gi|189337576|dbj|BAG46645.1| XRE family transcriptional regulator [Burkholderia multivorans
          ATCC 17616]
          Length = 185

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R    ++  +L E +G +   + + E+G++R   + L  I E L  P ++F+ +S 
Sbjct: 14 IRDLRKHRKVTLSELAERIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLSK 73

Query: 79 T 79
           
Sbjct: 74 P 74


>gi|15671987|ref|NP_266161.1| transcription regulator [Lactococcus lactis subsp. lactis Il1403]
 gi|281490504|ref|YP_003352484.1| transcriptional regulator [Lactococcus lactis subsp. lactis
          KF147]
 gi|12722841|gb|AAK04103.1|AE006240_1 transcriptional regulator [Lactococcus lactis subsp. lactis
          Il1403]
 gi|281374322|gb|ADA63855.1| Transcriptional regulator [Lactococcus lactis subsp. lactis
          KF147]
          Length = 185

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ ++  R+   ++QE++ + L  + Q + ++E          L  ++E+ ES +S F
Sbjct: 2  LGENLQKARLAQKLTQEEVAKELYFSRQAISRWESNKTEPNFETLIALAELYESDLSAF 60


>gi|83746380|ref|ZP_00943432.1| hypothetical protein RRSL_03974 [Ralstonia solanacearum UW551]
 gi|207744667|ref|YP_002261059.1| hypothetical protein RSIPO_02878 [Ralstonia solanacearum IPO1609]
 gi|83726921|gb|EAP74047.1| hypothetical protein RRSL_03974 [Ralstonia solanacearum UW551]
 gi|206596074|emb|CAQ63001.1| hypothetical protein RSIPO_02878 [Ralstonia solanacearum IPO1609]
          Length = 209

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/89 (16%), Positives = 31/89 (34%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V+  + +R+R  R   G + + L    G++   +   E+G     A+ L  ++  L   +
Sbjct: 16  VNERIARRVRELRAARGYTLDALAARCGVSRSMISLIERGAASPTAAVLDKLAAGLGVSL 75

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPD 99
           +  F       S               P+
Sbjct: 76  ASLFGGEREGVSAQPLMRRAQQTQWRDPE 104


>gi|317480761|ref|ZP_07939847.1| helix-turn-helix domain-containing protein [Bacteroides sp.
          4_1_36]
 gi|316903102|gb|EFV24970.1| helix-turn-helix domain-containing protein [Bacteroides sp.
          4_1_36]
          Length = 161

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 24/53 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G R+ + R    M+QE+L    G+    + K EKG   V    L  ++  L 
Sbjct: 19 IGSRLAILRKKRNMTQEELANLCGVNRVNIAKIEKGAYNVSIDILSKVTSALG 71


>gi|315924082|ref|ZP_07920308.1| XRE family transcriptional regulator [Pseudoramibacter
          alactolyticus ATCC 23263]
 gi|315622484|gb|EFV02439.1| XRE family transcriptional regulator [Pseudoramibacter
          alactolyticus ATCC 23263]
          Length = 67

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 24/57 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R    +SQ++L + +G++ Q +   EKG           I   L   +   F
Sbjct: 5  RMKAARAARDLSQQQLADLVGVSRQTISAVEKGNYNPTIKLCVAICRALGKTLDELF 61


>gi|313124538|ref|YP_004034797.1| transcriptional regulator (xre family) [Lactobacillus delbrueckii
           subsp. bulgaricus ND02]
 gi|312281101|gb|ADQ61820.1| Putative transcriptional regulator (Xre family) [Lactobacillus
           delbrueckii subsp. bulgaricus ND02]
          Length = 122

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 48/115 (41%), Gaps = 10/115 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK +R  R   GMSQ++L   LG++ Q +  +E G        ++ I+ +     +   
Sbjct: 6   IGKYLRDLRRRRGMSQQELALALGVSKQTISNWEVGRKVPRMKAVEKIANIFGVSRNSVL 65

Query: 75  DVSP-TVCSDISSEENNVMDFISTPDGLQLN-------RYFIQIDDVKVRQKIIE 121
              P  +      E+  V+D   T   ++L        R +I I +  +R  I E
Sbjct: 66  AGLPVEMLVQEGQEDRRVVDL--TDHDIRLTYLGQQVPREYIDIIEKLMRCDIAE 118


>gi|291544455|emb|CBL17564.1| Helix-turn-helix [Ruminococcus sp. 18P13]
          Length = 239

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 39/91 (42%), Gaps = 4/91 (4%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I L+R    +SQ++    LGI+   +  YEKG+   G   L  I++       +    +P
Sbjct: 9   ITLQRKERKISQKQAASDLGISQALLSHYEKGIRECGLGFLVKIADYYNVSCDYLLGRTP 68

Query: 79  TVCSDISSEENNVM----DFISTPDGLQLNR 105
                I + ++       + + +P+ +  NR
Sbjct: 69  EPEGKIITIDDIPDDDGNNVMPSPEVITFNR 99


>gi|260431708|ref|ZP_05785679.1| transcriptional regulator, XRE family with cupin sensor
          [Silicibacter lacuscaerulensis ITI-1157]
 gi|260415536|gb|EEX08795.1| transcriptional regulator, XRE family with cupin sensor
          [Silicibacter lacuscaerulensis ITI-1157]
          Length = 188

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 29/66 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R   G+S E +    G++   V + E+G +    S L +++  L+   +   + 
Sbjct: 14 ARLKEARRAKGLSLEAVANLSGVSRSMVSQIERGESSPTISTLWNLTRALQVDFAGLLEE 73

Query: 77 SPTVCS 82
          S T   
Sbjct: 74 SETTDQ 79


>gi|237733365|ref|ZP_04563846.1| predicted protein [Mollicutes bacterium D7]
 gi|229383577|gb|EEO33668.1| predicted protein [Coprobacillus sp. D7]
          Length = 79

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/79 (16%), Positives = 36/79 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+GKR+R  R+   ++Q ++    GI    +  YE         +L  ++ + +  + +
Sbjct: 1  MNIGKRLRKLRIEHNLTQNEVSILTGIKRSSIASYELNEQLPPVDKLIQLANLYKVSLDY 60

Query: 73 FFDVSPTVCSDISSEENNV 91
             +  +   +  +E++ +
Sbjct: 61 LCGLDNSEIRNTRNEKSKI 79


>gi|228943343|ref|ZP_04105795.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228816323|gb|EEM62496.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          berliner ATCC 10792]
          Length = 157

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R    ++Q++L E +G++ + +  YE          L  +++       + 
Sbjct: 17 IGLRIKSLRKKENLTQKQLAEKIGVSQRMIGYYESEERFPPHDVLTKLADCFSVSADYL 75


>gi|167566021|ref|ZP_02358937.1| transcriptional regulator, XRE family protein [Burkholderia
           oklahomensis EO147]
 gi|167573100|ref|ZP_02365974.1| transcriptional regulator, XRE family protein [Burkholderia
           oklahomensis C6786]
          Length = 95

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 30/87 (34%), Gaps = 6/87 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  IR  R     SQE+L E  G+    V + E+G        +  ++     PI+    
Sbjct: 9   GAAIRELREARAWSQEQLAEHAGLNRSYVGEIERGTAIASIVTVDKLARAFGVPIARLLP 68

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
            +          E     F ++P  + 
Sbjct: 69  PASD------PSEPPPPGFGASPAAIA 89


>gi|167462393|ref|ZP_02327482.1| transcriptional regulator, XRE family protein [Paenibacillus
          larvae subsp. larvae BRL-230010]
          Length = 227

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 33/78 (42%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G RI+  R   G++QE+L E L +     V  YE G +   +  L++++++      
Sbjct: 7  KQMGLRIKKLREEKGLTQEELAEILKMKNRATVSSYEAGRSTPPSDVLRNLADIFNVSAD 66

Query: 72 FFFDVSPTVCSDISSEEN 89
          +              E+N
Sbjct: 67 YLLGRGGNDEFVTPPEDN 84



 Score = 41.3 bits (96), Expect = 0.045,   Method: Composition-based stats.
 Identities = 22/97 (22%), Positives = 38/97 (39%), Gaps = 4/97 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I+L R    M+Q++LG+ +G   +Q+  YE  +  V    L  I EV       F 
Sbjct: 92  IGWAIKLERQSQDMTQKELGKQVGENQRQISSYELDLKPVPEHTLDKIMEVFGLSFPEFL 151

Query: 75  DV----SPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
                   ++      + N  + F    +   LN  +
Sbjct: 152 AKYNMWDESIHPHFDGDANKQIAFEKAQERDALNDSY 188


>gi|153812486|ref|ZP_01965154.1| hypothetical protein RUMOBE_02885 [Ruminococcus obeum ATCC 29174]
 gi|149831411|gb|EDM86499.1| hypothetical protein RUMOBE_02885 [Ruminococcus obeum ATCC 29174]
          Length = 70

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 28/64 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R   G++Q+KLGE + ++ Q +   E G           I+++    I   F+ 
Sbjct: 5  NRVKELREKEGLTQKKLGEKVNVSRQAINAIETGKYDPSLWLAYDIAQLFNMSIEEVFNF 64

Query: 77 SPTV 80
            + 
Sbjct: 65 KESE 68


>gi|307273981|ref|ZP_07555191.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX0855]
 gi|306509289|gb|EFM78349.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterococcus faecalis TX0855]
          Length = 71

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G SQ +L + + +T Q V  ++ G       +++ +SE+L  PI+  F
Sbjct: 5  SNLSRYRKEKGFSQTELAKKMNVTQQCVSSWQTGRTIPKPYQMKTLSEILSVPINELF 62


>gi|291447444|ref|ZP_06586834.1| DNA-binding protein [Streptomyces roseosporus NRRL 15998]
 gi|291350391|gb|EFE77295.1| DNA-binding protein [Streptomyces roseosporus NRRL 15998]
          Length = 386

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/95 (22%), Positives = 35/95 (36%), Gaps = 7/95 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R+ L R + G+ +  L   +  +   V  YE    R   + +  +   L    SFF  
Sbjct: 14  GRRLTLARQLAGLRKNALAAQIDKSPTAVAAYESNSKRPAPATVAQLCLTLGVDPSFFLP 73

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNR--YFI 108
            +    +      ++V  F S     QL R   F 
Sbjct: 74  GAQRPEAG-----SSVPHFRSLRSTSQLVRDQAFA 103


>gi|257875583|ref|ZP_05655236.1| predicted protein [Enterococcus casseliflavus EC20]
 gi|257809749|gb|EEV38569.1| predicted protein [Enterococcus casseliflavus EC20]
          Length = 293

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 31/56 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + K+++  R    ++Q++L   L ++ + + K+E+G        L  ++++L +P+
Sbjct: 5  LSKKLKEYRSRHNLTQKELAARLFVSDKAISKWERGNGLPDIETLVRLADLLGTPV 60


>gi|257865956|ref|ZP_05645609.1| predicted protein [Enterococcus casseliflavus EC30]
 gi|257872289|ref|ZP_05651942.1| predicted protein [Enterococcus casseliflavus EC10]
 gi|257799890|gb|EEV28942.1| predicted protein [Enterococcus casseliflavus EC30]
 gi|257806453|gb|EEV35275.1| predicted protein [Enterococcus casseliflavus EC10]
          Length = 293

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 31/56 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + K+++  R    ++Q++L   L ++ + + K+E+G        L  ++++L +P+
Sbjct: 5  LSKKLKEYRSRHNLTQKELAARLFVSDKAISKWERGNGLPDIETLVRLADLLGTPV 60


>gi|257440174|ref|ZP_05615929.1| toxin-antitoxin system, antitoxin component, Xre family
           [Faecalibacterium prausnitzii A2-165]
 gi|257197526|gb|EEU95810.1| toxin-antitoxin system, antitoxin component, Xre family
           [Faecalibacterium prausnitzii A2-165]
          Length = 220

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 25/112 (22%), Positives = 49/112 (43%), Gaps = 7/112 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  +   R   G++Q +L + L +T + V ++E+GV     + L+ +++ L   ++    
Sbjct: 7   GAFLARMRKSQGLTQAELAQQLHVTDKAVSRWERGVGLPDINTLEPLADALGLTLADLMH 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                 +DI+  E  + DF +      L R    ID   VR  +  L  ++ 
Sbjct: 67  CRDPQEADIA-PEVPLEDFFT------LLRRQQSIDWRSVRAVLFWLSAALA 111


>gi|228988281|ref|ZP_04148376.1| hypothetical protein bthur0001_49380 [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
 gi|229158633|ref|ZP_04286691.1| hypothetical protein bcere0010_48060 [Bacillus cereus ATCC 4342]
 gi|229169747|ref|ZP_04297447.1| hypothetical protein bcere0007_46910 [Bacillus cereus AH621]
 gi|229175726|ref|ZP_04303232.1| hypothetical protein bcere0006_48020 [Bacillus cereus MM3]
 gi|228607677|gb|EEK64993.1| hypothetical protein bcere0006_48020 [Bacillus cereus MM3]
 gi|228613786|gb|EEK70911.1| hypothetical protein bcere0007_46910 [Bacillus cereus AH621]
 gi|228624617|gb|EEK81386.1| hypothetical protein bcere0010_48060 [Bacillus cereus ATCC 4342]
 gi|228771453|gb|EEM19924.1| hypothetical protein bthur0001_49380 [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
          Length = 79

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 29/72 (40%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+ +   P+ 
Sbjct: 6  DMKLQNRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAHIFNVPVE 65

Query: 72 FFFDVSPTVCSD 83
            F +      D
Sbjct: 66 EIFTLVEGEEDD 77


>gi|119962079|ref|YP_946843.1| helix-turn-helix domain-containing protein [Arthrobacter
          aurescens TC1]
 gi|119948938|gb|ABM07849.1| putative Helix-turn-helix domain protein [Arthrobacter aurescens
          TC1]
          Length = 191

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 33/72 (45%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+ + + +G RIR  R    ++ E++ +  G+T   + + E+ +     + L  + +VL 
Sbjct: 8  PSNIPVAIGSRIRAARQAQRLTIEQVADATGLTKGFLSRVERDLTSPSVASLVTLCQVLS 67

Query: 68 SPISFFFDVSPT 79
            +   F    T
Sbjct: 68 VSVGDLFAAPET 79


>gi|50954710|ref|YP_061998.1| transcriptional regulator [Leifsonia xyli subsp. xyli str.
          CTCB07]
 gi|50951192|gb|AAT88893.1| transcriptional regulator [Leifsonia xyli subsp. xyli str.
          CTCB07]
          Length = 184

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 34/71 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+   R+  G S   L    G++   + + E+G++      L+ ++ V  + +S  F
Sbjct: 8  IGERLHQLRVERGRSVRALARETGVSATLLSQIERGLSDPSLRTLRALAGVFGTSVSTLF 67

Query: 75 DVSPTVCSDIS 85
          D    V + +S
Sbjct: 68 DDLVPVVAQVS 78


>gi|148550378|ref|YP_001270480.1| XRE family transcriptional regulator [Pseudomonas putida F1]
 gi|148514436|gb|ABQ81296.1| transcriptional regulator, XRE family [Pseudomonas putida F1]
          Length = 199

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/95 (25%), Positives = 45/95 (47%), Gaps = 8/95 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPISF- 72
           VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S  
Sbjct: 20  VGERLQAIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLSGIPMSMV 76

Query: 73  -FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            FF  ++ P   + I  + + ++D       ++L 
Sbjct: 77  EFFSVELEPQSPTQIVYKAHELIDISDGAVTMKLV 111


>gi|107025820|ref|YP_623331.1| XRE family transcriptional regulator [Burkholderia cenocepacia AU
          1054]
 gi|116692996|ref|YP_838529.1| XRE family transcriptional regulator [Burkholderia cenocepacia
          HI2424]
 gi|105895194|gb|ABF78358.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
          AU 1054]
 gi|116650996|gb|ABK11636.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
          HI2424]
          Length = 185

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 30/61 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R    ++   L E +G +   + + E+G++R   + L  I E L  P ++F+ +S 
Sbjct: 14 IRDLRKHRKVTLNDLAERIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLSK 73

Query: 79 T 79
           
Sbjct: 74 P 74


>gi|332882325|ref|ZP_08449953.1| DNA-binding helix-turn-helix protein [Capnocytophaga sp. oral
          taxon 329 str. F0087]
 gi|332679709|gb|EGJ52678.1| DNA-binding helix-turn-helix protein [Capnocytophaga sp. oral
          taxon 329 str. F0087]
          Length = 77

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 32/70 (45%), Gaps = 2/70 (2%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV--GASRLQHISE 64
          + + VD+ V  ++R +R  LG+SQ  L   L  +   + + E     +     ++  I++
Sbjct: 1  MKSKVDLFVINKVREKRKELGISQRGLAAILECSPSFIGQVESDKFDIKYSVHQVFLIAQ 60

Query: 65 VLESPISFFF 74
            +   + FF
Sbjct: 61 FFDCSPADFF 70


>gi|328948101|ref|YP_004365438.1| hypothetical protein Tresu_1233 [Treponema succinifaciens DSM
          2489]
 gi|328448425|gb|AEB14141.1| helix-turn-helix domain protein [Treponema succinifaciens DSM
          2489]
          Length = 114

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 1/66 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFF 73
          +G  IR  R+ L M+QE+L E  GIT   + K E G        ++   E+LE  P   F
Sbjct: 11 LGANIRCYRIKLKMTQEELAEKAGITSVGISKIETGKTWPKKETIEKFLEILEVKPFQLF 70

Query: 74 FDVSPT 79
           +    
Sbjct: 71 TETKED 76


>gi|325289439|ref|YP_004265620.1| transcriptional regulator, XRE family [Syntrophobotulus
          glycolicus DSM 8271]
 gi|324964840|gb|ADY55619.1| transcriptional regulator, XRE family [Syntrophobotulus
          glycolicus DSM 8271]
          Length = 65

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 27/62 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K++++ R+   MSQE L   +G+T Q +   E G           I + L   ++  F  
Sbjct: 4  KKLKIARIECDMSQEDLANIVGVTRQTIGLIESGNYNPTLKLCIAICKALHKNLNDLFWE 63

Query: 77 SP 78
           P
Sbjct: 64 EP 65


>gi|322383375|ref|ZP_08057160.1| transcriptional regulator-like protein [Paenibacillus larvae
          subsp. larvae B-3650]
 gi|321152334|gb|EFX45155.1| transcriptional regulator-like protein [Paenibacillus larvae
          subsp. larvae B-3650]
          Length = 230

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 33/78 (42%), Gaps = 1/78 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G RI+  R   G++QE+L E L +     V  YE G +   +  L++++++      
Sbjct: 10 KQMGLRIKKLREEKGLTQEELAEILKMKNRATVSSYEAGRSTPPSDVLRNLADIFNVSAD 69

Query: 72 FFFDVSPTVCSDISSEEN 89
          +              E+N
Sbjct: 70 YLLGRGGNDEFVTPPEDN 87



 Score = 41.3 bits (96), Expect = 0.045,   Method: Composition-based stats.
 Identities = 22/97 (22%), Positives = 38/97 (39%), Gaps = 4/97 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I+L R    M+Q++LG+ +G   +Q+  YE  +  V    L  I EV       F 
Sbjct: 95  IGWAIKLERQSQDMTQKELGKQVGENQRQISSYELDLKPVPEHTLDKIMEVFGLSFPEFL 154

Query: 75  DV----SPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
                   ++      + N  + F    +   LN  +
Sbjct: 155 AKYNMWDESIHPHFDGDANKQIAFEKAQERDALNDSY 191


>gi|296119241|ref|ZP_06837810.1| transcriptional regulator, Cro/CI family [Corynebacterium
          ammoniagenes DSM 20306]
 gi|295967762|gb|EFG81018.1| transcriptional regulator, Cro/CI family [Corynebacterium
          ammoniagenes DSM 20306]
          Length = 72

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 1/70 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-D 75
            ++  R   G+SQ+KL + LG++ Q +   EKG           ++   E  I   F  
Sbjct: 3  NNLKAFRDKAGLSQQKLADALGVSRQTIISIEKGRYDPSLPLAFQLAAKFECLIEDLFIP 62

Query: 76 VSPTVCSDIS 85
            PT   D  
Sbjct: 63 ELPTADEDGE 72


>gi|294500289|ref|YP_003563989.1| DNA-binding protein [Bacillus megaterium QM B1551]
 gi|294350226|gb|ADE70555.1| DNA-binding protein [Bacillus megaterium QM B1551]
          Length = 66

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 25/60 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  RI+  R    MSQ++L +  G++ Q +   E        +    ++  L + +   F
Sbjct: 2  VENRIKELRKSKRMSQDELAKVCGVSRQTINAIENNKYDPSLTLAFQLAAELGATVDELF 61


>gi|261820980|ref|YP_003259086.1| XRE family transcriptional regulator [Pectobacterium wasabiae
          WPP163]
 gi|261604993|gb|ACX87479.1| transcriptional regulator, XRE family [Pectobacterium wasabiae
          WPP163]
          Length = 104

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 4/72 (5%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GKR+RL R+  G+ Q +LG   G+       +V +YE+ V+      +   + VL+ P 
Sbjct: 11 IGKRLRLARVNTGLKQVELGCLAGLDEETASSRVSQYEREVSSPDFGLVCRFAAVLDVPE 70

Query: 71 SFFFDVSPTVCS 82
          ++F+ V   + +
Sbjct: 71 AYFYAVDEDLAT 82


>gi|238922270|ref|YP_002935784.1| hypothetical protein EUBELI_20505 [Eubacterium eligens ATCC
          27750]
 gi|238873942|gb|ACR73650.1| Hypothetical protein EUBELI_20505 [Eubacterium eligens ATCC
          27750]
          Length = 115

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 30/58 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          V  RIR  R    ++Q +L   LG+  + +  YE+G +    S L  +S +L++ + +
Sbjct: 4  VHNRIRELREEKHITQIRLSTELGVAQETISAYEQGRHMPSVSTLIKLSSILDASMDY 61


>gi|227878168|ref|ZP_03996142.1| transcriptional regulator [Lactobacillus crispatus JV-V01]
 gi|256850532|ref|ZP_05555959.1| transcriptional regulator [Lactobacillus crispatus MV-1A-US]
 gi|262047426|ref|ZP_06020382.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
 gi|227862199|gb|EEJ69744.1| transcriptional regulator [Lactobacillus crispatus JV-V01]
 gi|256712737|gb|EEU27731.1| transcriptional regulator [Lactobacillus crispatus MV-1A-US]
 gi|260572196|gb|EEX28760.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
          Length = 65

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R+   ++QE L + + ++ Q +   EKG      +    I + L+  +   F
Sbjct: 5  KMKAARVGKDLTQEDLAQQIDVSRQTISAIEKGNYNPSINLCIKICQALDKTLDDLF 61


>gi|221209564|ref|ZP_03582545.1| transcriptional regulator, XRE family [Burkholderia multivorans
          CGD1]
 gi|221170252|gb|EEE02718.1| transcriptional regulator, XRE family [Burkholderia multivorans
          CGD1]
          Length = 200

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R    ++  +L E +G +   + + E+G++R   + L  I E L  P ++F+ +S 
Sbjct: 29 IRDLRKHRKVTLSELAERIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLSK 88

Query: 79 T 79
           
Sbjct: 89 P 89


>gi|167772763|ref|ZP_02444816.1| hypothetical protein ANACOL_04145 [Anaerotruncus colihominis DSM
          17241]
 gi|167665241|gb|EDS09371.1| hypothetical protein ANACOL_04145 [Anaerotruncus colihominis DSM
          17241]
          Length = 149

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 27/51 (52%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            R   G+SQ++L E + +T Q V ++E G        L+ +S++ +  I+
Sbjct: 9  KLRTTNGLSQDQLAEKVHVTRQAVSRWETGETVPNTETLKLLSKLFDVSIN 59


>gi|110637230|ref|YP_677437.1| transcriptional regulator [Cytophaga hutchinsonii ATCC 33406]
 gi|110279911|gb|ABG58097.1| transcriptional regulator [Cytophaga hutchinsonii ATCC 33406]
          Length = 79

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 22/61 (36%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V   +G R+   R   G SQ  L        Q ++K E G        L  I+  L   +
Sbjct: 14 VQKRIGLRVIELREHKGWSQSDLARACNKDRQAIEKIESGKVNPTIFSLYEIAIALGVSL 73

Query: 71 S 71
          S
Sbjct: 74 S 74


>gi|322616176|gb|EFY13092.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 315996572]
 gi|322620883|gb|EFY17742.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 495297-1]
 gi|322623026|gb|EFY19868.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 495297-3]
 gi|322634721|gb|EFY31452.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 515920-1]
 gi|322638712|gb|EFY35407.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 515920-2]
 gi|322649122|gb|EFY45563.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. OH_2009072675]
 gi|322654501|gb|EFY50823.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. CASC_09SCPH15965]
 gi|322660780|gb|EFY57013.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 19N]
 gi|322665118|gb|EFY61306.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 81038-01]
 gi|322667862|gb|EFY64022.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. MD_MDA09249507]
 gi|322671726|gb|EFY67847.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 414877]
 gi|322677228|gb|EFY73292.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 366867]
 gi|322680109|gb|EFY76148.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 413180]
 gi|322685462|gb|EFY81458.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 446600]
 gi|323193671|gb|EFZ78875.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 609458-1]
 gi|323199978|gb|EFZ85066.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 556150-1]
 gi|323204709|gb|EFZ89706.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 609460]
 gi|323205725|gb|EFZ90688.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 507440-20]
 gi|323216770|gb|EGA01494.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB101509-0077]
 gi|323223035|gb|EGA07379.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB102109-0047]
 gi|323225164|gb|EGA09411.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB110209-0055]
 gi|323231914|gb|EGA16021.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB111609-0052]
 gi|323234441|gb|EGA18528.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 2009083312]
 gi|323237892|gb|EGA21951.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 2009085258]
 gi|323243507|gb|EGA27526.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. 315731156]
 gi|323249504|gb|EGA33418.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2009159199]
 gi|323254252|gb|EGA38070.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008282]
 gi|323255077|gb|EGA38863.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008283]
 gi|323261261|gb|EGA44849.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008284]
 gi|323266626|gb|EGA50113.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008285]
 gi|323271352|gb|EGA54778.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008287]
          Length = 110

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 45/96 (46%), Gaps = 11/96 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +R++  R   G+SQ  LG  +G        ++  YEKG +      L+ ++  L  P+++
Sbjct: 9   ERLKEARCRAGLSQRSLGLLVGFDPASASSRMNHYEKGRHVPDIDTLRRMAAELNVPLNY 68

Query: 73  FF-------DVSPTVCSDISSEENNVMDFISTPDGL 101
           FF       +++  +      E +N+++ + T  G+
Sbjct: 69  FFCDDQTTAELALLISRMTEEERSNLIEALKTSSGV 104


>gi|317492341|ref|ZP_07950770.1| hypothetical protein HMPREF0864_01534 [Enterobacteriaceae bacterium
           9_2_54FAA]
 gi|316919680|gb|EFV41010.1| hypothetical protein HMPREF0864_01534 [Enterobacteriaceae bacterium
           9_2_54FAA]
          Length = 186

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 38/92 (41%), Gaps = 3/92 (3%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            + +++G+ +R  R   G S +K  +  G++   + + E+G +      L  IS  L+  
Sbjct: 3   DLSLHIGQTLRDLRQQRGWSLDKTAQATGVSKAMLGQIERGESSPTVVTLWRISSGLQ-- 60

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
            + F +  P   +D      +  D   T   L
Sbjct: 61  -ASFSEFLPKQLTDAEPASLHHEDEAITAQTL 91


>gi|315648648|ref|ZP_07901744.1| transcriptional regulator, XRE family protein [Paenibacillus vortex
           V453]
 gi|315275850|gb|EFU39201.1| transcriptional regulator, XRE family protein [Paenibacillus vortex
           V453]
          Length = 189

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/91 (17%), Positives = 38/91 (41%), Gaps = 3/91 (3%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P+   VG+ ++  R   G+S + + E  G++   + + E+G +    S L  I   L   
Sbjct: 3   PIHKKVGRNLQAIRKSRGLSLDNVAELTGVSKAMLGQIERGDSNPTISVLWRIVSGLGIS 62

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
              F  +     ++++    + ++     +G
Sbjct: 63  ---FTTLIEETETEVTVVSPDDLEPFHEAEG 90


>gi|291544357|emb|CBL17466.1| Predicted transcriptional regulators [Ruminococcus sp. 18P13]
          Length = 112

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RIR  R +  M+QE+L E   ++   +   E+G        L  I+++L   +   
Sbjct: 10 IGDRIRRYRELSRMTQEQLSELCSLSTGYIGHLERGTRSPSLETLAKIAQLLRVSLDDL 68


>gi|312109227|ref|YP_003987543.1| helix-turn-helix domain protein [Geobacillus sp. Y4.1MC1]
 gi|311214328|gb|ADP72932.1| helix-turn-helix domain protein [Geobacillus sp. Y4.1MC1]
          Length = 72

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/55 (32%), Positives = 30/55 (54%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE+L + LGI+   + + E+G        +Q I+E L   +
Sbjct: 7  GRRIRAFRKLKGYTQERLAKELGISVSILGEIERGNRLPTEELVQQIAERLNISV 61


>gi|228905139|ref|ZP_04069146.1| hypothetical protein bthur0014_62300 [Bacillus thuringiensis IBL
          4222]
 gi|228854461|gb|EEM99112.1| hypothetical protein bthur0014_62300 [Bacillus thuringiensis IBL
          4222]
          Length = 145

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +GK+I   R    +SQ  L + LG +  ++  YE+G        L+ I++  E    + 
Sbjct: 2  LGKKIAELRKNQKLSQYDLADRLGFSRGKLANYEQGQREPDYDTLKKIADFFEVSTDYL 60


>gi|227539972|ref|ZP_03970021.1| conserved hypothetical protein [Sphingobacterium spiritivorum
          ATCC 33300]
 gi|227240250|gb|EEI90265.1| conserved hypothetical protein [Sphingobacterium spiritivorum
          ATCC 33300]
          Length = 195

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/53 (33%), Positives = 29/53 (54%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +  +R   G++Q+KL E  G+T + +Q+ EKG        LQ I+E L+  I
Sbjct: 9  NLSQKRSDKGLTQQKLAELAGLTTRTIQRIEKGEVIPQGYTLQRIAEALDISI 61


>gi|119503754|ref|ZP_01625836.1| transcriptional regulator, Cro/CI family protein [marine gamma
          proteobacterium HTCC2080]
 gi|119460262|gb|EAW41355.1| transcriptional regulator, Cro/CI family protein [marine gamma
          proteobacterium HTCC2080]
          Length = 66

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+++ R     +Q  L   L +T Q V   EKG           I+ V + PI   F
Sbjct: 3  NRLKVLRAEHDWTQADLAAQLNVTRQTVNAIEKGKYDPSLPLAFKIAGVFQMPIDHIF 60


>gi|150018309|ref|YP_001310563.1| XRE family transcriptional regulator [Clostridium beijerinckii
          NCIMB 8052]
 gi|149904774|gb|ABR35607.1| transcriptional regulator, XRE family [Clostridium beijerinckii
          NCIMB 8052]
          Length = 78

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 29/64 (45%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +++  R  +G++QE+LG  +G++ Q +   E             IS++    I   F F
Sbjct: 3  NKLKEFREAVGLTQEQLGALVGVSRQAINSIETEKYEPSIWLAYDISQIFHCAIEEVFLF 62

Query: 75 DVSP 78
          + S 
Sbjct: 63 EQSE 66


>gi|323356598|ref|YP_004222994.1| transcriptional regulator [Microbacterium testaceum StLB037]
 gi|323272969|dbj|BAJ73114.1| predicted transcriptional regulator [Microbacterium testaceum
          StLB037]
          Length = 197

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 31/63 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R  LG+S + L E  G++F  V + E+G+       LQ ++  L  P++   
Sbjct: 16 LGAAVRDARKRLGLSVQALSEKAGVSFGLVSQLERGLGNPSLQSLQRLAGALGIPVAQLL 75

Query: 75 DVS 77
          D  
Sbjct: 76 DEP 78


>gi|319893630|ref|YP_004150505.1| Zn peptidase with DNA binding domain [Staphylococcus
          pseudintermedius HKU10-03]
 gi|317163326|gb|ADV06869.1| Zn peptidase with DNA binding domain [Staphylococcus
          pseudintermedius HKU10-03]
          Length = 395

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 38/77 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ ++  RMI G S++ L + L ++ Q V +YE+       +++  +++       FFF 
Sbjct: 4  GENLKALRMIEGYSRKSLADVLQVSEQAVWQYEEQNMMPEINKIYTLAQKFNVKTKFFFS 63

Query: 76 VSPTVCSDISSEENNVM 92
              + S  + + +++ 
Sbjct: 64 PKQELFSITAVDTHSIA 80


>gi|315446756|ref|YP_004079635.1| Helix-turn-helix protein [Mycobacterium sp. Spyr1]
 gi|315265059|gb|ADU01801.1| Helix-turn-helix protein [Mycobacterium sp. Spyr1]
          Length = 83

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG  IR  R+   M+QE L    G+T   +   E G   +   RL  I++ L+  ++
Sbjct: 21 RLVGAMIRELRIARNMTQEALALRSGVTRNVLIDVEHGRRGLLYERLFDIADALDVNVA 79


>gi|308270112|emb|CBX26724.1| hypothetical protein N47_A07530 [uncultured Desulfobacterium sp.]
          Length = 510

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G  I+  R    MSQ+KL E + I+ +++Q +E   +R     L  +SE    P+
Sbjct: 20 LGHTIKEYRQWRKMSQQKLSESIQISVRELQNWEADRHRARIENLHDLSEFTGIPM 75


>gi|300692596|ref|YP_003753591.1| hypothetical protein RPSI07_2974 [Ralstonia solanacearum PSI07]
 gi|299079656|emb|CBJ52333.1| conserved hypothethical protein, DNA binding protein domain,
          putative regulator [Ralstonia solanacearum PSI07]
          Length = 75

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/55 (32%), Positives = 27/55 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +R RR+ LG+SQE L E  G+    V   E+    V    +Q I++ L+   S
Sbjct: 16 ANVRRRRLELGLSQEDLAEKAGVHRTYVGMLERAEKNVTIYNIQRIADALDVEPS 70


>gi|261823778|ref|YP_003261884.1| XRE family transcriptional regulator [Pectobacterium wasabiae
           WPP163]
 gi|261607791|gb|ACX90277.1| transcriptional regulator, XRE family [Pectobacterium wasabiae
           WPP163]
          Length = 188

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/140 (17%), Positives = 53/140 (37%), Gaps = 9/140 (6%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + +   +G  ++  R   G S  +  E  G++   + + E+G +    + L  I+  L
Sbjct: 1   MSDELTRRIGDTLKTLRQEKGWSLTRAAEETGVSKAMLGQIERGESSPTVATLWKIATGL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID-DVKVRQKIIE-LVR 124
               S F +  PT+  +  +  +      S  + +   R       D K+R    + LV 
Sbjct: 61  NVAFSTFIE--PTLADEGVTYRSGAGSTFS--ESVAGMRAVPLFPYDEKLR---FDMLVI 113

Query: 125 SIVSSEKKYRTIEEECMVEQ 144
            + +      +  E  ++E 
Sbjct: 114 ELAAGAGSTSSPHENGVIEH 133


>gi|291298169|ref|YP_003509447.1| XRE family transcriptional regulator [Stackebrandtia nassauensis
          DSM 44728]
 gi|290567389|gb|ADD40354.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis
          DSM 44728]
          Length = 806

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 39/78 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ +R  R+  G+SQE+L +   ++ + +++ E G ++  AS L+ ++E L    + +  
Sbjct: 12 GRLLRAHRLQAGLSQERLAQKAALSPRTIRQIESGRSQPRASTLKLLAEALGLSEADWTA 71

Query: 76 VSPTVCSDISSEENNVMD 93
          +  T   D       V +
Sbjct: 72 LLETALPDSQPSTPVVDE 89


>gi|229062186|ref|ZP_04199510.1| Transcriptional regulator, Xre [Bacillus cereus AH603]
 gi|228717169|gb|EEL68845.1| Transcriptional regulator, Xre [Bacillus cereus AH603]
          Length = 190

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 1  MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M  N+ +    V   VG+ +R  R    +S E+L +  G++   + K E+G      + +
Sbjct: 1  MKENEDMQTKEVIQQVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVI 60

Query: 60 QHISEVLESPIS 71
            I++ L  P+S
Sbjct: 61 WKITKGLSIPLS 72


>gi|228924686|ref|ZP_04087872.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|229180805|ref|ZP_04308142.1| Transcriptional regulator, XRE [Bacillus cereus 172560W]
 gi|229191815|ref|ZP_04318789.1| Transcriptional regulator, XRE [Bacillus cereus ATCC 10876]
 gi|228591689|gb|EEK49534.1| Transcriptional regulator, XRE [Bacillus cereus ATCC 10876]
 gi|228602642|gb|EEK60126.1| Transcriptional regulator, XRE [Bacillus cereus 172560W]
 gi|228834985|gb|EEM80438.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
          Length = 157

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R    ++Q++L E +G++ + +  YE          L  +++       + 
Sbjct: 17 IGLRIKSLRKKENLTQKQLAEKIGVSQRMIGYYESEERFPPHDVLTKLADCFSVSADYL 75


>gi|167746263|ref|ZP_02418390.1| hypothetical protein ANACAC_00968 [Anaerostipes caccae DSM 14662]
 gi|167654256|gb|EDR98385.1| hypothetical protein ANACAC_00968 [Anaerostipes caccae DSM 14662]
          Length = 191

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 31/77 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +   K+I+  R+   +SQ++L E + +T Q +  +E G N      L  +S +    +  
Sbjct: 1  MEFSKQIKKYRLDSKLSQDELAEKVYVTRQTISNWENGKNYPDVKSLLLLSTLFHISLDT 60

Query: 73 FFDVSPTVCSDISSEEN 89
                    +    E+
Sbjct: 61 LVKGDLEEMREQIKAED 77


>gi|196032329|ref|ZP_03099743.1| DNA-binding protein [Bacillus cereus W]
 gi|218904481|ref|YP_002452315.1| DNA-binding protein [Bacillus cereus AH820]
 gi|195995080|gb|EDX59034.1| DNA-binding protein [Bacillus cereus W]
 gi|218535775|gb|ACK88173.1| DNA-binding protein [Bacillus cereus AH820]
          Length = 67

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 2/62 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R+ L M+QE L + + +  + +   EKG           I+  L S I   F F+
Sbjct: 6  KIKEYRIKLNMTQEDLAKQVSVRRETISHLEKGKYNPSLQLAHDIARALHSTIDEVFIFE 65

Query: 76 VS 77
            
Sbjct: 66 DE 67


>gi|164516364|emb|CAP48298.1| putative integron gene cassette protein [uncultured bacterium]
          Length = 101

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 40/87 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G+ I+ RR+ LG S   + + LGIT Q V  +E+       + L  I+++L   +  
Sbjct: 2  KDIGELIKARRLELGYSSATVAKHLGITAQAVSNWERQGKSPAKALLPKIADLLGIRVEE 61

Query: 73 FFDVSPTVCSDISSEENNVMDFISTPD 99
              +    S   ++  N    +S P+
Sbjct: 62 LLGSTEVRLSIEETQLLNSFRSLSAPE 88


>gi|163732391|ref|ZP_02139837.1| DNA-binding protein [Roseobacter litoralis Och 149]
 gi|161394689|gb|EDQ19012.1| DNA-binding protein [Roseobacter litoralis Och 149]
          Length = 71

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/65 (30%), Positives = 30/65 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ ++  R   G SQE L    G+    V   E+GV       L+ I+E L+ P +   
Sbjct: 7  VGRNLKKYRKQAGFSQEGLALECGLHRTYVSGVERGVRNPTVVVLERIAEALKVPAARLL 66

Query: 75 DVSPT 79
          D S +
Sbjct: 67 DDSES 71


>gi|153005820|ref|YP_001380145.1| hypothetical protein Anae109_2962 [Anaeromyxobacter sp. Fw109-5]
 gi|152029393|gb|ABS27161.1| protein of unknown function DUF955 [Anaeromyxobacter sp. Fw109-5]
          Length = 476

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           ++G ++R  R   G++Q  L E LGI+   +   E     + A  L  ++++L+
Sbjct: 5  AHLGAKVRSLRRQRGLTQAHLAERLGISASYLNLIEHNRRSLSAPLLIKLADILD 59


>gi|148266749|ref|YP_001245692.1| XRE family transcriptional regulator [Staphylococcus aureus
          subsp. aureus JH9]
 gi|150392790|ref|YP_001315465.1| hypothetical protein SaurJH1_0316 [Staphylococcus aureus subsp.
          aureus JH1]
 gi|258419674|ref|ZP_05682641.1| transcriptional regulator [Staphylococcus aureus A9719]
 gi|258448642|ref|ZP_05696755.1| transcriptional regulator [Staphylococcus aureus A6224]
 gi|269203649|ref|YP_003282918.1| putative transcriptional regulator [Staphylococcus aureus subsp.
          aureus ED98]
 gi|282925315|ref|ZP_06332972.1| XRE family transcriptional regulator [Staphylococcus aureus
          A9765]
 gi|283771021|ref|ZP_06343912.1| XRE family transcriptional regulator [Staphylococcus aureus
          subsp. aureus H19]
 gi|284024165|ref|ZP_06378563.1| putative transcriptional regulator [Staphylococcus aureus subsp.
          aureus 132]
 gi|295407180|ref|ZP_06816981.1| XRE family transcriptional regulator [Staphylococcus aureus
          A8819]
 gi|297245933|ref|ZP_06929792.1| XRE family transcriptional regulator [Staphylococcus aureus
          A8796]
 gi|147739818|gb|ABQ48116.1| transcriptional regulator, XRE family [Staphylococcus aureus
          subsp. aureus JH9]
 gi|149945242|gb|ABR51178.1| helix-turn-helix domain protein [Staphylococcus aureus subsp.
          aureus JH1]
 gi|257844259|gb|EEV68641.1| transcriptional regulator [Staphylococcus aureus A9719]
 gi|257858273|gb|EEV81161.1| transcriptional regulator [Staphylococcus aureus A6224]
 gi|262075939|gb|ACY11912.1| putative transcriptional regulator [Staphylococcus aureus subsp.
          aureus ED98]
 gi|282592591|gb|EFB97601.1| XRE family transcriptional regulator [Staphylococcus aureus
          A9765]
 gi|283459615|gb|EFC06706.1| XRE family transcriptional regulator [Staphylococcus aureus
          subsp. aureus H19]
 gi|294968033|gb|EFG44061.1| XRE family transcriptional regulator [Staphylococcus aureus
          A8819]
 gi|297177097|gb|EFH36351.1| XRE family transcriptional regulator [Staphylococcus aureus
          A8796]
 gi|315130281|gb|EFT86268.1| helix-turn-helix domain protein [Staphylococcus aureus subsp.
          aureus CGS03]
          Length = 107

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 10/85 (11%), Positives = 33/85 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I+  R    ++       +G+    + +YE G  ++    +  I+  L+    +  
Sbjct: 7  IGKLIKQLRKENNVNLTDFATKIGVNKSTLSRYENGSRKIPMEDIAEIANALKVTPEYLL 66

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            +    +++     ++   ++  +
Sbjct: 67 LKNRQTENEVQHRAAHLEGELTDDE 91


>gi|78063471|ref|YP_373379.1| XRE family transcriptional regulator [Burkholderia sp. 383]
 gi|77971356|gb|ABB12735.1| transcriptional regulator, XRE family [Burkholderia sp. 383]
          Length = 73

 Score = 52.9 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 23/58 (39%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + G  +R  R     SQE+L E  G+    V + E+G           I+   +  IS
Sbjct: 7  HFGANVRKLREARTWSQEQLAEHAGLNRSYVGEIERGEAIASIVTADKIARAFDVSIS 64


>gi|326692276|ref|ZP_08229281.1| Cro/CI family transcriptional regulator [Leuconostoc argentinum
           KCTC 3773]
          Length = 122

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/125 (16%), Positives = 47/125 (37%), Gaps = 18/125 (14%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RI+  R    ++Q+ L + +  +   V KYE        + L  I++ L++ + +    
Sbjct: 6   NRIKELRTQKKLTQQGLADIINSSRGTVAKYEGDERNPSYAMLSLIADALDTTVDYLQGK 65

Query: 77  SPTV------CSDISSEENNV----MDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +          SD    + +V     + I + +G +L+  +           I+  V+ +
Sbjct: 66  TDNALKTSHNGSDDGDHKKHVDLADDELIMSFEGKELSEDYK--------NSILAFVKML 117

Query: 127 VSSEK 131
               K
Sbjct: 118 REERK 122


>gi|323488389|ref|ZP_08093636.1| DNA-binding protein [Planococcus donghaensis MPA1U2]
 gi|323397896|gb|EGA90695.1| DNA-binding protein [Planococcus donghaensis MPA1U2]
          Length = 67

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R   G +QE+L E LG++ Q +   E G  +        I+ + +  I   F
Sbjct: 4  RIKELRTSFGYTQEQLSEKLGVSRQTIISIENGRYKPSLELAYKIATLFQLRIEDVF 60


>gi|320108135|ref|YP_004183725.1| helix-turn-helix domain-containing protein [Terriglobus saanensis
           SP1PR4]
 gi|319926656|gb|ADV83731.1| helix-turn-helix domain protein [Terriglobus saanensis SP1PR4]
          Length = 178

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/116 (18%), Positives = 45/116 (38%), Gaps = 7/116 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + V   +R  R++  +SQ +L   +G+    + K E G        L+ ++  L+  IS 
Sbjct: 64  LQVASAVRDLRLVRNLSQRQLAGRMGVPRTYISKIENGKAMPTIGSLERLARALQVDISD 123

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
               +       S  +       + P   ++ ++  Q+ D   R   +  VR + +
Sbjct: 124 LLRDAK------SRHQGETAVLTADPFLAEIAQFVGQL-DPVQRSIFLNQVRELAA 172


>gi|319936560|ref|ZP_08010974.1| XRE family Transcriptional regulator [Coprobacillus sp. 29_1]
 gi|319808358|gb|EFW04918.1| XRE family Transcriptional regulator [Coprobacillus sp. 29_1]
          Length = 110

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +++   R   G+SQ++L E L ++ Q V K+E   +      +  +SE+      + 
Sbjct: 5  EKLLQLRKERGLSQQQLAEQLDVSRQSVSKWELNESIPDIQNIVAMSELFHVSTDYL 61


>gi|307566125|ref|ZP_07628583.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella amnii CRIS 21A-A]
 gi|307345313|gb|EFN90692.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella amnii CRIS 21A-A]
          Length = 101

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +G+ I+  R+   ++QE+LGE +G+   Q+ + EKG + +    +  + + L   
Sbjct: 32 QIGEIIKKARIEQNLTQEELGERIGVKRAQISRLEKGYS-ISIPTMSRVFKALGVS 86


>gi|239943979|ref|ZP_04695916.1| hypothetical protein SrosN15_23471 [Streptomyces roseosporus NRRL
           15998]
 gi|239990435|ref|ZP_04711099.1| hypothetical protein SrosN1_24213 [Streptomyces roseosporus NRRL
           11379]
          Length = 392

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/95 (22%), Positives = 35/95 (36%), Gaps = 7/95 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R+ L R + G+ +  L   +  +   V  YE    R   + +  +   L    SFF  
Sbjct: 20  GRRLTLARQLAGLRKNALAAQIDKSPTAVAAYESNSKRPAPATVAQLCLTLGVDPSFFLP 79

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNR--YFI 108
            +    +      ++V  F S     QL R   F 
Sbjct: 80  GAQRPEAG-----SSVPHFRSLRSTSQLVRDQAFA 109


>gi|160883666|ref|ZP_02064669.1| hypothetical protein BACOVA_01638 [Bacteroides ovatus ATCC 8483]
 gi|293373412|ref|ZP_06619767.1| DNA-binding protein [Bacteroides ovatus SD CMC 3f]
 gi|299147543|ref|ZP_07040607.1| putative DNA-binding protein [Bacteroides sp. 3_1_23]
 gi|156111079|gb|EDO12824.1| hypothetical protein BACOVA_01638 [Bacteroides ovatus ATCC 8483]
 gi|292631550|gb|EFF50173.1| DNA-binding protein [Bacteroides ovatus SD CMC 3f]
 gi|298514330|gb|EFI38215.1| putative DNA-binding protein [Bacteroides sp. 3_1_23]
          Length = 157

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 32/140 (22%), Positives = 57/140 (40%), Gaps = 14/140 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G+ IR  R+   M+QE L E + ++   V KYEK    +    LQ  +  L  P  +
Sbjct: 11  VHHGRNIRRTRIEKDMNQEGLSELVHLSQPAVSKYEKMKV-IDDEMLQRFARALNVPFDY 69

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ------IDDVKVRQ-----KIIE 121
                      +  E N V +   +  G  ++   ++      I+D +V       KI E
Sbjct: 70  L-KTLEEDAQTVVFENNTVNNSEQSAGGANISMGIVKSDTEDSINDSRVNNFNPIDKITE 128

Query: 122 LVRSIVSS-EKKYRTIEEEC 140
           L   ++   ++KY  +E   
Sbjct: 129 LYERLLKEKDEKYAALERRL 148


>gi|54026486|ref|YP_120728.1| hypothetical protein nfa45130 [Nocardia farcinica IFM 10152]
 gi|54017994|dbj|BAD59364.1| hypothetical protein [Nocardia farcinica IFM 10152]
          Length = 201

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/108 (18%), Positives = 36/108 (33%), Gaps = 8/108 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R     +  +L    GI+   + + E G  R     L  ++      +    
Sbjct: 8   VGPRLRALRKQRETTLGELSAATGISVSTLSRLESGARRPTLELLLPLARAHGVTLDELV 67

Query: 75  DVSPTVCS-----DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           D  PT         ++     ++     P G+Q    +  I     R+
Sbjct: 68  DAPPTGDPRVHLRPVTRNGMTMLPLTRRPGGIQ---AYKLIIPPDTRR 112


>gi|163941382|ref|YP_001646266.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|163863579|gb|ABY44638.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
          Length = 142

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R    ++Q++L E +G++ + +  YE          L  +++       + 
Sbjct: 2  IGLRIKSLRKKENLTQKQLAEKIGVSQRMIGYYESEERFPPHDVLSKLADCFSVSADYL 60


>gi|117924665|ref|YP_865282.1| helix-turn-helix domain-containing protein [Magnetococcus sp. MC-1]
 gi|117608421|gb|ABK43876.1| helix-turn-helix domain protein [Magnetococcus sp. MC-1]
          Length = 352

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 25/107 (23%), Positives = 46/107 (42%), Gaps = 16/107 (14%)

Query: 17  KRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +R++L R   G+S   L   +   ++ Q + KYE+G     ++    +S+ L   +S+  
Sbjct: 4   ERLKLARKREGLSLRDLASRIDGTVSAQAIGKYERGEMMPSSTVSIALSKALGVSVSYLL 63

Query: 75  DVSPTVCSDISSEENNVMDFISTP-------DGLQL--NRYFIQIDD 112
                  SDIS E+       ST        +G  L     ++QI++
Sbjct: 64  -----SPSDISLEKVEFRKLASTKARERAMVEGAVLDHVDRYLQIEE 105


>gi|323487530|ref|ZP_08092823.1| hypothetical protein HMPREF9474_04574 [Clostridium symbiosum
           WAL-14163]
 gi|323399131|gb|EGA91536.1| hypothetical protein HMPREF9474_04574 [Clostridium symbiosum
           WAL-14163]
          Length = 375

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/92 (17%), Positives = 38/92 (41%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+ ++I  +R   G++Q  L   +G++   V K+E G +    + L  ++      I  
Sbjct: 4   LNIARQIIRKRRERGITQAALAAHMGVSKASVSKWETGQSYPDITLLPGLASYFNMSIDE 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
               S  +  +   E  + +    + +  +L 
Sbjct: 64  LMGCSMQMTEEEIQELFSRLAREFSQENAELL 95


>gi|306833652|ref|ZP_07466779.1| transcriptional regulator [Streptococcus bovis ATCC 700338]
 gi|304424422|gb|EFM27561.1| transcriptional regulator [Streptococcus bovis ATCC 700338]
          Length = 168

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 12 IGDNIKSLRRTHDLTQPEFAKMVGISRNSLSRYENGTSTVSTELIDRICQKFNVS 66


>gi|302537873|ref|ZP_07290215.1| DNA-binding protein [Streptomyces sp. C]
 gi|302446768|gb|EFL18584.1| DNA-binding protein [Streptomyces sp. C]
          Length = 282

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 26/56 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG  +R  R   G+SQ +L      + + +   E G +R     +  +++ L+ P+
Sbjct: 26 VGALLRTWRERRGISQLELAGRADSSSRHISFIETGRSRPSEEMVLRLADRLDVPV 81


>gi|302869035|ref|YP_003837672.1| helix-turn-helix domain-containing protein [Micromonospora
           aurantiaca ATCC 27029]
 gi|315504494|ref|YP_004083381.1| helix-turn-helix domain protein [Micromonospora sp. L5]
 gi|302571894|gb|ADL48096.1| helix-turn-helix domain protein [Micromonospora aurantiaca ATCC
           27029]
 gi|315411113|gb|ADU09230.1| helix-turn-helix domain protein [Micromonospora sp. L5]
          Length = 186

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/113 (15%), Positives = 32/113 (28%), Gaps = 4/113 (3%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P P    +   +R  R   G+S  +L    GI    + + E G        L  +   L+
Sbjct: 5   PAPPLATIAAALRRERERAGLSLTELARRAGIAKSTLSQLESGSGNPSVETLWALGVALD 64

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            P S   +        + + +   +          L            R+ + 
Sbjct: 65  VPFSRLVEPPTAAVRVVRAGQGPRIRSEHADFSATLLAA----GAPHARRDVY 113


>gi|270299969|gb|ACZ68775.1| hypothetical protein SAP073A_008 [Staphylococcus aureus]
          Length = 72

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 26/59 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I+ +R + G SQE+L   L ++ Q V K+E   N      L  +S++    +       
Sbjct: 7  IKEQRELKGWSQEELANILKVSRQSVSKWESAKNYPSLDILIAMSDLFGISLEHLIKGD 65


>gi|257877770|ref|ZP_05657423.1| transcriptional regulator [Enterococcus casseliflavus EC20]
 gi|257811936|gb|EEV40756.1| transcriptional regulator [Enterococcus casseliflavus EC20]
          Length = 72

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 29/63 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR  R    ++QE+L + L I+     +YE G   +    L  +++   + + +  +++
Sbjct: 4  RIRDLREDKDLNQEQLAKLLNISQTTYSRYESGKLDIPTQSLIKLADFYSTSVDYLLNLT 63

Query: 78 PTV 80
             
Sbjct: 64 DHQ 66


>gi|224541898|ref|ZP_03682437.1| hypothetical protein CATMIT_01071 [Catenibacterium mitsuokai DSM
          15897]
 gi|224525132|gb|EEF94237.1| hypothetical protein CATMIT_01071 [Catenibacterium mitsuokai DSM
          15897]
          Length = 212

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 35/83 (42%), Gaps = 4/83 (4%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  ++  R   G+ Q++LGE +G++ + V  +E          +Q +++       +   
Sbjct: 6  GTNVKQLREKRGIDQKELGEIVGVSDKTVSSWEINRTEPKMGIVQQLADYFGVSTDYLIK 65

Query: 76 VSPTVCSDISSEENNVMDFISTP 98
           +     D +  EN  +D+   P
Sbjct: 66 GN----HDDAIYENVNIDYTRVP 84


>gi|218132385|ref|ZP_03461189.1| hypothetical protein BACPEC_00244 [Bacteroides pectinophilus ATCC
           43243]
 gi|217992723|gb|EEC58725.1| hypothetical protein BACPEC_00244 [Bacteroides pectinophilus ATCC
           43243]
          Length = 121

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 36/83 (43%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GKR+   R + G++Q+++ + LGI    V+K E+G   +        +E   S I +   
Sbjct: 25  GKRLSELRKMKGLTQQQVADELGIDVDTVRKNEQGRRGLSIDTASMYAEYYHSTIDYITH 84

Query: 76  VSPTVCSDISSEENNVMDFISTP 98
              +   ++++      + +   
Sbjct: 85  GKESSNDEVTAMLAEYPEEVRNK 107


>gi|217960732|ref|YP_002339296.1| DNA-binding protein [Bacillus cereus AH187]
 gi|229139935|ref|ZP_04268500.1| hypothetical protein bcere0013_30420 [Bacillus cereus BDRD-ST26]
 gi|217067257|gb|ACJ81507.1| DNA-binding protein [Bacillus cereus AH187]
 gi|228643600|gb|EEK99866.1| hypothetical protein bcere0013_30420 [Bacillus cereus BDRD-ST26]
          Length = 374

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKVIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
              +P +  +
Sbjct: 64 LISYTPQMEQE 74


>gi|89095877|ref|ZP_01168771.1| DNA-binding protein [Bacillus sp. NRRL B-14911]
 gi|89089623|gb|EAR68730.1| DNA-binding protein [Bacillus sp. NRRL B-14911]
          Length = 68

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 28/59 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           +I + R    M+Q++L + +G++ Q +   EK            I++ ++ PI   FD
Sbjct: 6  NKISVYRAEKKMTQQELADAVGVSRQTILSIEKNRYNPSLILAIKIAKAVDKPIMDVFD 64


>gi|85707731|ref|ZP_01038797.1| putative DNA binding protein [Erythrobacter sp. NAP1]
 gi|85689265|gb|EAQ29268.1| putative DNA binding protein [Erythrobacter sp. NAP1]
          Length = 68

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 22/58 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G SQ +L   LG++ Q +   E             ++++    +   F
Sbjct: 3  NRLKYHREAEGWSQGELARRLGVSRQTINAVETDKYDPSLPLALRMAKLFGVSVPDLF 60


>gi|75764075|ref|ZP_00743675.1| Transcriptional regulator, Xre family [Bacillus thuringiensis
           serovar israelensis ATCC 35646]
 gi|228903022|ref|ZP_04067161.1| Transcriptional regulator, Xre [Bacillus thuringiensis IBL 4222]
 gi|74488436|gb|EAO52052.1| Transcriptional regulator, Xre family [Bacillus thuringiensis
           serovar israelensis ATCC 35646]
 gi|228856615|gb|EEN01136.1| Transcriptional regulator, Xre [Bacillus thuringiensis IBL 4222]
          Length = 194

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/103 (22%), Positives = 42/103 (40%), Gaps = 10/103 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG+ +R  R    +S E+L    G++   + K E+G      + +  I++ L  P+S  
Sbjct: 19  QVGQLLRQIRNEQKLSLEELAHKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLSRL 78

Query: 74  FDVSPTVCSDISSEENNVMD---------FISTPD-GLQLNRY 106
             V   V      E   V +         F  T + G++++R 
Sbjct: 79  MVVGEPVAVARCGEGFAVDEGQAWHLETMFRYTKETGMEMHRA 121


>gi|327466843|gb|EGF12361.1| transcriptional regulator [Streptococcus sanguinis SK330]
          Length = 131

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 37/71 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  ++  R++ GM++++L   L IT Q V ++EK      AS  Q ++ +      +FF 
Sbjct: 4  GDILKQLRLLYGMTRKELATKLDITEQAVWQFEKNETSPKASVKQKMTNLFGVRSDYFFQ 63

Query: 76 VSPTVCSDISS 86
          ++     D++S
Sbjct: 64 MNSISNFDMTS 74


>gi|323700205|ref|ZP_08112117.1| helix-turn-helix domain protein [Desulfovibrio sp. ND132]
 gi|323460137|gb|EGB16002.1| helix-turn-helix domain protein [Desulfovibrio desulfuricans ND132]
          Length = 294

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 39/89 (43%), Gaps = 1/89 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            ++G+R+R  R+   ++ E + +  GI+   + +YE G   +    L  I+++L+  +  
Sbjct: 9   AHLGERLRAYRIGKNLTPENVAQRTGISRAAIYRYESG-QPIRVDVLGKIADLLQVSLES 67

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
              V    CS   +    +     T + L
Sbjct: 68  LLGVGVEYCSSALAFFERMRQLEETAEQL 96


>gi|322375562|ref|ZP_08050074.1| putative transcriptional repressor [Streptococcus sp. C300]
 gi|321279270|gb|EFX56311.1| putative transcriptional repressor [Streptococcus sp. C300]
          Length = 69

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+ L ++Q  L E +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 6  KLKLARVELDLTQGDLAEAVGVTRQTIGLIEAGKYNPSLSLCQSICRCLGKTLDQLF 62


>gi|313900623|ref|ZP_07834116.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312954685|gb|EFR36360.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 367

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/104 (16%), Positives = 38/104 (36%), Gaps = 7/104 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I +GK++   R    M+QE+L   +G++   V K+E          L  ++ +    +  
Sbjct: 4   IRLGKKLIALRRDANMTQEELAAYMGVSKSSVSKWETETTLPDILLLPQLATLFNVSVDE 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL-------QLNRYFIQ 109
                P +  +  ++    +    + D         +L R +  
Sbjct: 64  LIGYEPQLSMEAVNKLYLQLSAEWSRDSANAYAHSEELIRKYYS 107


>gi|229099483|ref|ZP_04230412.1| hypothetical protein bcere0020_47010 [Bacillus cereus Rock3-29]
 gi|228683979|gb|EEL37928.1| hypothetical protein bcere0020_47010 [Bacillus cereus Rock3-29]
          Length = 79

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+++   P+ 
Sbjct: 6  DMKLQNRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAKIFNVPVE 65

Query: 72 FFF 74
            F
Sbjct: 66 EIF 68


>gi|255103138|ref|ZP_05332115.1| XRE family transcriptional regulator [Clostridium difficile
           QCD-63q42]
 gi|255308330|ref|ZP_05352501.1| XRE family transcriptional regulator [Clostridium difficile ATCC
           43255]
          Length = 121

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/119 (16%), Positives = 45/119 (37%), Gaps = 7/119 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R    ++Q++L   LG+T + +  YEK         +  +S+       +  
Sbjct: 2   IGYRIKELRKEKDITQKELATFLGLTPKMISFYEKEERFPPHDIILKLSDFFNVSTDYLL 61

Query: 75  DVSPTVCSDISSEENNVMDFIST---PDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
                   D  SE   + +   +    + L+L            ++K+ ++ +  +  E
Sbjct: 62  GKVNVKNIDNLSELELIENLNFSDDIKEALKLISEL----SPSSQEKMFKIAKVFLEEE 116


>gi|157150600|ref|YP_001449787.1| DNA-binding protein [Streptococcus gordonii str. Challis substr.
          CH1]
 gi|157075394|gb|ABV10077.1| DNA-binding protein [Streptococcus gordonii str. Challis substr.
          CH1]
          Length = 70

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++++ R+   M+Q  L + +G+T Q +   E G      S    I + L   +   F
Sbjct: 12 KLKMARVEHDMTQGDLADAIGVTRQTIGLIEAGKYNPSLSLCLAICKCLNKTLDQLF 68


>gi|160934259|ref|ZP_02081646.1| hypothetical protein CLOLEP_03130 [Clostridium leptum DSM 753]
 gi|156866932|gb|EDO60304.1| hypothetical protein CLOLEP_03130 [Clostridium leptum DSM 753]
          Length = 162

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 2/70 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
          + + + + R I   SQE++ E +G++ Q V K+E G           ++E+    +    
Sbjct: 11 ISRNLTVLRQIHKYSQEEVAEKIGVSRQAVAKWESGETAPDLINCDALAELYNVSVDDLI 70

Query: 74 -FDVSPTVCS 82
           FD S     
Sbjct: 71 HFDQSKEKIE 80


>gi|323693104|ref|ZP_08107323.1| hypothetical protein HMPREF9475_02186 [Clostridium symbiosum
          WAL-14673]
 gi|323502858|gb|EGB18701.1| hypothetical protein HMPREF9475_02186 [Clostridium symbiosum
          WAL-14673]
          Length = 225

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 1/72 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
            VG+RIR RR  L +S  +LG+ LG+    +Q+YE        + +   ++  L +   
Sbjct: 10 KQVGERIRERRTELKLSMPELGKRLGVNKSTIQRYEADGVDPKRTMIIDGLAHALLTTPE 69

Query: 72 FFFDVSPTVCSD 83
          +   +S     +
Sbjct: 70 WLTGLSEDKEYN 81


>gi|315221518|ref|ZP_07863438.1| conserved hypothetical protein [Streptococcus anginosus F0211]
 gi|315189352|gb|EFU23047.1| conserved hypothetical protein [Streptococcus anginosus F0211]
          Length = 66

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/41 (41%), Positives = 24/41 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           +I+  R +LG+SQE+LG+ LGI+ Q     E G N    S
Sbjct: 3  NKIKGYRNMLGLSQEQLGKQLGISKQAYYNKESGKNSFSDS 43


>gi|312865953|ref|ZP_07726174.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
 gi|311098357|gb|EFQ56580.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
          Length = 158

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 23/55 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  ++  R    ++Q +    +GI+   + +YE G + V    L  I +     
Sbjct: 2  IGDNLKALRKSHHLTQPEFAAMIGISRNSLSRYENGTSSVSTELLDRICQKFNVS 56


>gi|311279701|ref|YP_003941932.1| helix-turn-helix domain-containing protein [Enterobacter cloacae
          SCF1]
 gi|308748896|gb|ADO48648.1| helix-turn-helix domain protein [Enterobacter cloacae SCF1]
          Length = 180

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/82 (15%), Positives = 33/82 (40%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +  ++   ++  R   G S  +L E  G++   + + E+  +    + L  I+  L  P 
Sbjct: 3  IAQHLAVTLKTLRQQRGWSLSRLAEETGVSKAMLGQIERNESSPTVATLWKIATGLNVPF 62

Query: 71 SFFFDVSPTVCSDISSEENNVM 92
          S F     +  +    ++  ++
Sbjct: 63 SLFITPPESEAAAYDPQQQAMV 84


>gi|309811507|ref|ZP_07705289.1| DNA-binding helix-turn-helix protein [Dermacoccus sp. Ellin185]
 gi|308434558|gb|EFP58408.1| DNA-binding helix-turn-helix protein [Dermacoccus sp. Ellin185]
          Length = 512

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/129 (14%), Positives = 45/129 (34%), Gaps = 3/129 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+R  R     +   +   +G++   +   E G      S L  ++EVL+ P++   
Sbjct: 43  IGRRLRHVRQGAERTLGDVAAAVGMSPSALSLIENGKREPRLSVLTSLAEVLDVPLADLL 102

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL--NRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
             +P                      L L   R   ++    + + ++ +  ++ S + +
Sbjct: 103 ATAPPSRRAALEIRLERAQRAEQYSALGLPTVRVGPRLPTEAL-EALVGMHEALASMQSE 161

Query: 133 YRTIEEECM 141
                E   
Sbjct: 162 RAATPEHAR 170


>gi|309803453|ref|ZP_07697547.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          11V1-d]
 gi|309805571|ref|ZP_07699615.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          09V1-c]
 gi|312870937|ref|ZP_07731042.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          3008A-a]
 gi|312872150|ref|ZP_07732223.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2062A-h1]
 gi|325913375|ref|ZP_08175742.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          60-B]
 gi|308164462|gb|EFO66715.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          11V1-d]
 gi|308165110|gb|EFO67349.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          09V1-c]
 gi|311092234|gb|EFQ50605.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2062A-h1]
 gi|311093627|gb|EFQ51966.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          3008A-a]
 gi|325477301|gb|EGC80446.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          60-B]
          Length = 105

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 29/79 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R    ++Q +L    G     +  +E G   +    +   ++ L      FF
Sbjct: 5  LGSVIKEIRKDKKITQSELARLTGFKQNTISNHENGKRSLDECDIYTYAKALNVSPQTFF 64

Query: 75 DVSPTVCSDISSEENNVMD 93
          D       DI S  N + D
Sbjct: 65 DKYTNQDKDILSIYNQLHD 83


>gi|260072652|gb|ACX30550.1| hypothetical protein SUP05_FGYC49P140033 [uncultured SUP05
          cluster bacterium]
          Length = 131

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 3/59 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV---NRVGASRLQHISEVLESPISFF 73
          RI+  R   G SQ++L E +G++   + +YE      +      L  +++VL+    + 
Sbjct: 7  RIKQSRQAKGFSQKQLAEEIGVSSSAISQYESTSYFHSEPSIKNLTKLTKVLDVSFEWL 65


>gi|226322725|ref|ZP_03798243.1| hypothetical protein COPCOM_00497 [Coprococcus comes ATCC 27758]
 gi|225208886|gb|EEG91240.1| hypothetical protein COPCOM_00497 [Coprococcus comes ATCC 27758]
          Length = 194

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 31/76 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G+RIR  R    M+   LGE  G++   +   E+         L  I E L+  I +
Sbjct: 5  AHIGERIRECRKKKMMTIRVLGEYTGLSAGYLSMLEQNKTSPNVDSLARICEALDIDIQY 64

Query: 73 FFDVSPTVCSDISSEE 88
            +      + I  EE
Sbjct: 65 ALEGEMPGKTVIHREE 80


>gi|209546895|ref|YP_002278813.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
          trifolii WSM2304]
 gi|209538139|gb|ACI58073.1| transcriptional regulator, XRE family [Rhizobium leguminosarum
          bv. trifolii WSM2304]
          Length = 182

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++G R+R  R+   +SQ +L +  G+    +   E   +      L+ I +    PI
Sbjct: 1  MSVDIGSRLRHLRIAHKLSQRELAKRTGVPNSTISLIESNASNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF   P            +++ 
Sbjct: 59 GLAEFFAFEPERPRKAFYAAEELVEI 84


>gi|126699832|ref|YP_001088729.1| putative regulatory protein [Clostridium difficile 630]
 gi|254975815|ref|ZP_05272287.1| putative regulatory protein [Clostridium difficile QCD-66c26]
 gi|255101355|ref|ZP_05330332.1| putative regulatory protein [Clostridium difficile QCD-63q42]
 gi|255307231|ref|ZP_05351402.1| putative regulatory protein [Clostridium difficile ATCC 43255]
 gi|255314944|ref|ZP_05356527.1| putative regulatory protein [Clostridium difficile QCD-76w55]
 gi|255517618|ref|ZP_05385294.1| putative regulatory protein [Clostridium difficile QCD-97b34]
 gi|255650729|ref|ZP_05397631.1| putative regulatory protein [Clostridium difficile QCD-37x79]
 gi|260683815|ref|YP_003215100.1| putative regulatory protein [Clostridium difficile CD196]
 gi|260687475|ref|YP_003218609.1| putative regulatory protein [Clostridium difficile R20291]
 gi|306520644|ref|ZP_07406991.1| putative regulatory protein [Clostridium difficile QCD-32g58]
 gi|115251269|emb|CAJ69100.1| Transcriptional regulator, HTH-type [Clostridium difficile]
 gi|260209978|emb|CBA63987.1| putative regulatory protein [Clostridium difficile CD196]
 gi|260213492|emb|CBE05196.1| putative regulatory protein [Clostridium difficile R20291]
          Length = 105

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/87 (12%), Positives = 35/87 (40%), Gaps = 1/87 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +GKR++  R    ++ ++    +G++   + + E G              +L       
Sbjct: 3  YIGKRLKEERKKANLTSKEFANMVGVSPWYITQIESGKKNPSLKTFIKFVNILNISADVL 62

Query: 74 F-DVSPTVCSDISSEENNVMDFISTPD 99
            D++ T  + + ++ N  +  +++ +
Sbjct: 63 IKDITSTGKTYLENDINEELKDLNSRE 89


>gi|66391801|ref|YP_238525.1| DNA binding protein [Streptococcus phage 2972]
 gi|168229317|ref|YP_001686838.1| orf44 [Streptococcus phage 858]
 gi|56718458|gb|AAW27964.1| DNA binding protein [Streptococcus phage 2972]
 gi|155241712|gb|ABT18032.1| orf44 [Streptococcus phage 858]
          Length = 170

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 25/57 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R    ++  +L E +G+T   +  +E G   +  S  + ++E     I + 
Sbjct: 2  NRLKELRKQKKLTIVELAEKIGVTKLTILNWEHGTREIKGSNAKKLAEYFNVSIPYL 58


>gi|49482390|ref|YP_039614.1| DNA-binding protein [Staphylococcus aureus subsp. aureus MRSA252]
 gi|221140693|ref|ZP_03565186.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          str. JKD6009]
 gi|257424286|ref|ZP_05600715.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          55/2053]
 gi|257426962|ref|ZP_05603364.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          65-1322]
 gi|257429600|ref|ZP_05605987.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          68-397]
 gi|257432247|ref|ZP_05608610.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          E1410]
 gi|257435206|ref|ZP_05611257.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          M876]
 gi|282902738|ref|ZP_06310631.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          C160]
 gi|282907140|ref|ZP_06314988.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          Btn1260]
 gi|282907482|ref|ZP_06315324.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          WW2703/97]
 gi|282912385|ref|ZP_06320181.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          WBG10049]
 gi|282913004|ref|ZP_06320796.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          M899]
 gi|282921420|ref|ZP_06329138.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C427]
 gi|282922631|ref|ZP_06330321.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C101]
 gi|283959595|ref|ZP_06377036.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          A017934/97]
 gi|293498058|ref|ZP_06665912.1| DNA-binding protein [Staphylococcus aureus subsp. aureus 58-424]
 gi|293511647|ref|ZP_06670341.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          M809]
 gi|293550257|ref|ZP_06672929.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          M1015]
 gi|295426693|ref|ZP_06819332.1| DNA-binding protein [Staphylococcus aureus subsp. aureus EMRSA16]
 gi|297589106|ref|ZP_06947747.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          MN8]
 gi|304380109|ref|ZP_07362829.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          ATCC BAA-39]
 gi|49240519|emb|CAG39176.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          MRSA252]
 gi|257273304|gb|EEV05406.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          55/2053]
 gi|257276593|gb|EEV08044.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          65-1322]
 gi|257280081|gb|EEV10668.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          68-397]
 gi|257283126|gb|EEV13258.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          E1410]
 gi|257285802|gb|EEV15918.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          M876]
 gi|269939674|emb|CBI48042.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          TW20]
 gi|282314852|gb|EFB45238.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C101]
 gi|282315835|gb|EFB46219.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C427]
 gi|282323104|gb|EFB53423.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          M899]
 gi|282324081|gb|EFB54397.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          WBG10049]
 gi|282328387|gb|EFB58658.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          WW2703/97]
 gi|282330039|gb|EFB59560.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          Btn1260]
 gi|282597197|gb|EFC02156.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          C160]
 gi|283789187|gb|EFC28014.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          A017934/97]
 gi|290919304|gb|EFD96380.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          M1015]
 gi|291096989|gb|EFE27247.1| DNA-binding protein [Staphylococcus aureus subsp. aureus 58-424]
 gi|291465605|gb|EFF08137.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          M809]
 gi|295129145|gb|EFG58772.1| DNA-binding protein [Staphylococcus aureus subsp. aureus EMRSA16]
 gi|297577617|gb|EFH96330.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          MN8]
 gi|302750028|gb|ADL64205.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus str. JKD6008]
 gi|304341090|gb|EFM07009.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          ATCC BAA-39]
 gi|312436742|gb|ADQ75813.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          TCH60]
 gi|315194604|gb|EFU24993.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus
          CGS00]
          Length = 391

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/68 (17%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK +   R +  +S+++L E + ++ Q + +YE        +++  ++ +     S+
Sbjct: 1  MFIGKNLEYVRKLNALSRKELSEKINVSEQAIWQYETKNMMPEINKIYDMTSIFNVKSSY 60

Query: 73 FFDVSPTV 80
          F    P  
Sbjct: 61 FISEQPEE 68


>gi|114567544|ref|YP_754698.1| hypothetical protein Swol_2033 [Syntrophomonas wolfei subsp.
          wolfei str. Goettingen]
 gi|114338479|gb|ABI69327.1| conserved hypothetical protein [Syntrophomonas wolfei subsp.
          wolfei str. Goettingen]
          Length = 64

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            I+  R  LG  QE L  CLG+T Q +   E             ++++L + +   F
Sbjct: 3  NNIKELRKALGYRQEDLAACLGVTRQTINAIENQKYNPTLELAMKLAKLLGTNVEELF 60


>gi|126442387|ref|YP_001062902.1| XRE family transcriptional regulator [Burkholderia pseudomallei
          668]
 gi|126221878|gb|ABN85383.1| transcriptional regulator, XRE family [Burkholderia pseudomallei
          668]
          Length = 94

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 23/56 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G  IR  R     SQE+L E  G+    V + E+G        +  ++     PI+
Sbjct: 9  GAAIRQLREARAWSQEQLAEHPGLNRSYVGEIERGTAIASIVTVDKLARAFGVPIA 64


>gi|325265475|ref|ZP_08132198.1| putative helix-turn-helix protein [Clostridium sp. D5]
 gi|324029333|gb|EGB90625.1| putative helix-turn-helix protein [Clostridium sp. D5]
          Length = 206

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 28/55 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R    ++QE+L E L ++   V K+E G        L+ IS++ E  I 
Sbjct: 5  EKLQQLRKKKNLTQEQLAEQLYVSRTAVSKWESGRGYPNIESLKCISKLFEVTID 59


>gi|325970254|ref|YP_004246445.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
 gi|324025492|gb|ADY12251.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
          Length = 95

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G  +R  R +  M+Q +LG  LGI+ Q V   E G+  +  +    +  + + P   F
Sbjct: 37 GGNLRFYRRLAHMNQTELGSKLGISKQFVSNMENGIKPISRAMALKLGSLFDVPAGRF 94


>gi|323439707|gb|EGA97425.1| putative transcriptional regulator [Staphylococcus aureus O11]
 gi|323443280|gb|EGB00897.1| putative transcriptional regulator [Staphylococcus aureus O46]
          Length = 189

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 30/72 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ K+I+  R   G SQE L E L ++ Q +  +E   +      L  + E+    +  
Sbjct: 1  MNLSKQIKKYRERDGYSQEYLAEKLYVSRQSISNWENDKSLPDIHNLLMMCELFNVTLDD 60

Query: 73 FFDVSPTVCSDI 84
              +     DI
Sbjct: 61 LVKGTIPFVPDI 72


>gi|319651012|ref|ZP_08005147.1| hypothetical protein HMPREF1013_01756 [Bacillus sp. 2_A_57_CT2]
 gi|317397368|gb|EFV78071.1| hypothetical protein HMPREF1013_01756 [Bacillus sp. 2_A_57_CT2]
          Length = 149

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/45 (33%), Positives = 22/45 (48%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G SQE L E L ++ Q V K+E G N      +  +S++    I 
Sbjct: 15 GWSQEDLAEKLFVSRQSVSKWENGQNYPSIEIIIKLSDLFGVTID 59


>gi|302334320|gb|ADL24513.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus JKD6159]
          Length = 189

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 30/72 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ K+I+  R   G SQE L E L ++ Q +  +E   +      L  + E+    +  
Sbjct: 1  MNLSKQIKKYRERDGYSQEYLAEKLYVSRQSISNWENDKSLPDIHNLLMMCELFNVTLDD 60

Query: 73 FFDVSPTVCSDI 84
              +     DI
Sbjct: 61 LVKGTIPFVPDI 72


>gi|283471920|emb|CAQ51131.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus ST398]
          Length = 189

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 30/72 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ K+I+  R   G SQE L E L ++ Q +  +E   +      L  + E+    +  
Sbjct: 1  MNLSKQIKKYRERDGYSQEYLAEKLYVSRQSISNWENDKSLPDIHNLLMMCELFNVTLDD 60

Query: 73 FFDVSPTVCSDI 84
              +     DI
Sbjct: 61 LVKGTIPFVPDI 72


>gi|282902623|ref|ZP_06310516.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus C160]
 gi|282918060|ref|ZP_06325810.1| hypothetical protein SATG_00962 [Staphylococcus aureus subsp.
          aureus D139]
 gi|282921282|ref|ZP_06329000.1| hypothetical protein SASG_01463 [Staphylococcus aureus subsp.
          aureus C427]
 gi|283767782|ref|ZP_06340697.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          H19]
 gi|282315697|gb|EFB46081.1| hypothetical protein SASG_01463 [Staphylococcus aureus subsp.
          aureus C427]
 gi|282318345|gb|EFB48705.1| hypothetical protein SATG_00962 [Staphylococcus aureus subsp.
          aureus D139]
 gi|282597082|gb|EFC02041.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus C160]
 gi|283461661|gb|EFC08745.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          H19]
          Length = 189

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 30/72 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ K+I+  R   G SQE L E L ++ Q +  +E   +      L  + E+    +  
Sbjct: 1  MNLSKQIKKYRERDGYSQEYLAEKLYVSRQSISNWENDKSLPDIHNLLMMCELFNVTLDD 60

Query: 73 FFDVSPTVCSDI 84
              +     DI
Sbjct: 61 LVKGTIPFVPDI 72


>gi|254292729|ref|YP_003058752.1| XRE family transcriptional regulator [Hirschia baltica ATCC
          49814]
 gi|254041260|gb|ACT58055.1| transcriptional regulator, XRE family [Hirschia baltica ATCC
          49814]
          Length = 72

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 24/57 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          I++ R    +SQ  L + L ++ Q +   E G           I+ + E PI   F+
Sbjct: 5  IKVFRAHRKISQAALADLLDVSRQSINAIETGKYDPSLPLAFKIARLFEVPIEEIFE 61


>gi|253730391|ref|ZP_04864556.1| Cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus USA300_TCH959]
 gi|253733848|ref|ZP_04868013.1| Cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus TCH130]
 gi|253725871|gb|EES94600.1| Cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus USA300_TCH959]
 gi|253728151|gb|EES96880.1| Cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus TCH130]
 gi|329732444|gb|EGG68794.1| DNA-binding helix-turn-helix protein [Staphylococcus aureus
          subsp. aureus 21193]
          Length = 189

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 30/72 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ K+I+  R   G SQE L E L ++ Q +  +E   +      L  + E+    +  
Sbjct: 1  MNLSKQIKKYRERDGYSQEYLAEKLYVSRQSISNWENDKSLPDIHNLLMMCELFNVTLDD 60

Query: 73 FFDVSPTVCSDI 84
              +     DI
Sbjct: 61 LVKGTIPFVPDI 72


>gi|238917513|ref|YP_002931030.1| hypothetical protein EUBELI_01592 [Eubacterium eligens ATCC
          27750]
 gi|238872873|gb|ACR72583.1| Hypothetical protein EUBELI_01592 [Eubacterium eligens ATCC
          27750]
          Length = 107

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 32/63 (50%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D ++G +++  R+  G++QE + + L +T   +   E G N +    L + +E+    +
Sbjct: 1  MDSDLGAKVKKLRIAHGLTQEDVAKALEVTPGYISNVENGRNLMTLRMLSYYAELTGVSL 60

Query: 71 SFF 73
           + 
Sbjct: 61 DYL 63


>gi|268593024|ref|ZP_06127245.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
 gi|291311288|gb|EFE51741.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
          Length = 93

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GK++R  R+    +  +     GI + QQ+ +YE+G+N++    L      L+  I  FF
Sbjct: 12 GKKLRELRLEQKYTAAEFARLAGIKSEQQLYRYERGMNKITIDTLIFALSCLQVDIPQFF 71

Query: 75 D 75
          +
Sbjct: 72 E 72


>gi|197103228|ref|YP_002128606.1| transcriptional regulator, XRE family [Phenylobacterium zucineum
          HLK1]
 gi|196480504|gb|ACG80031.1| transcriptional regulator, XRE family [Phenylobacterium zucineum
          HLK1]
          Length = 73

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 25/63 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  +R  R   G+SQE L E +G+    V   E G        L H +  L+   S   
Sbjct: 7  VGTNVRRYRGEAGLSQEGLAELMGVDRAYVSGLELGRRNPTILTLWHTAMALKIRPSELL 66

Query: 75 DVS 77
          +  
Sbjct: 67 EFE 69


>gi|187932677|ref|YP_001886786.1| hypothetical protein CLL_A2598 [Clostridium botulinum B str.
          Eklund 17B]
 gi|187720830|gb|ACD22051.1| conserved domain protein [Clostridium botulinum B str. Eklund
          17B]
          Length = 66

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 28/57 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++  R +  ++QE+L E +G+  + + + E G           IS V+E+PI   F
Sbjct: 7  NLKKYRQMKELTQEQLAEKVGVRRETIMRLEAGKYNPSLKLAVDISRVVETPIEKLF 63


>gi|182435435|ref|YP_001823154.1| putative DNA-binding protein [Streptomyces griseus subsp. griseus
          NBRC 13350]
 gi|178463951|dbj|BAG18471.1| putative DNA-binding protein [Streptomyces griseus subsp. griseus
          NBRC 13350]
          Length = 468

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 24/58 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R+R  R   GMSQ +L   L I+   + + E     +    L  ++E       FF
Sbjct: 7  GARLRRLREDRGMSQAELARTLAISPSYLNQMEHDARPLTVPVLLRLTEAFGVDPGFF 64


>gi|163854504|ref|YP_001628802.1| putative DNA-binding protein [Bordetella petrii DSM 12804]
 gi|163258232|emb|CAP40531.1| putative DNA-binding protein [Bordetella petrii]
          Length = 136

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 29/59 (49%), Gaps = 1/59 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          G+R+R  R+  G +Q++L    G+T   +  YE G      ++ L  +++ L+    + 
Sbjct: 11 GQRVRGARLRFGWTQKELASVSGLTQSAIGNYESGQRTEPTSAALIKLAQALDVTPEWL 69


>gi|39995190|ref|NP_951141.1| Cro/CI family transcriptional regulator [Geobacter sulfurreducens
          PCA]
 gi|39981952|gb|AAR33414.1| transcriptional regulator, Cro/CI family [Geobacter
          sulfurreducens PCA]
 gi|298504194|gb|ADI82917.1| helix-turn-helix transcriptional regulator with cupin domain
          [Geobacter sulfurreducens KN400]
          Length = 196

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 30/66 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R    ++ ++L E  G++   + + E        + L  IS+ L+  I +FF
Sbjct: 13 LGAKIRKLRQDRRLTLQELSELSGLSKPLLSQIENDQVTPPIATLLKISKGLKVGIHYFF 72

Query: 75 DVSPTV 80
          +     
Sbjct: 73 EEEEDQ 78


>gi|82752284|ref|YP_418025.1| hypothetical protein SAB2582c [Staphylococcus aureus RF122]
 gi|82657815|emb|CAI82270.1| probable membrane protein [Staphylococcus aureus RF122]
          Length = 189

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 30/72 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ K+I+  R   G SQE L E L ++ Q +  +E   +      L  + E+    +  
Sbjct: 1  MNLSKQIKKYRERDGYSQEYLAEKLYVSRQSISNWENDKSLPDIHNLLMMCELFNVTLDD 60

Query: 73 FFDVSPTVCSDI 84
              +     DI
Sbjct: 61 LVKGTIPFVPDI 72


>gi|21284353|ref|NP_647441.1| hypothetical protein MW2624 [Staphylococcus aureus subsp. aureus
          MW2]
 gi|49487483|ref|YP_044704.1| hypothetical protein SAS2588 [Staphylococcus aureus subsp. aureus
          MSSA476]
 gi|57651100|ref|YP_187518.1| transcriptional regulator, putative [Staphylococcus aureus subsp.
          aureus COL]
 gi|87161562|ref|YP_495274.1| putative transcriptional regulator [Staphylococcus aureus subsp.
          aureus USA300_FPR3757]
 gi|88196661|ref|YP_501492.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus NCTC 8325]
 gi|151222818|ref|YP_001333640.1| hypothetical protein NWMN_2606 [Staphylococcus aureus subsp.
          aureus str. Newman]
 gi|258451376|ref|ZP_05699407.1| conserved hypothetical protein [Staphylococcus aureus A5948]
 gi|262050429|ref|ZP_06023259.1| hypothetical protein SAD30_1606 [Staphylococcus aureus D30]
 gi|262053275|ref|ZP_06025407.1| hypothetical protein SA930_0618 [Staphylococcus aureus 930918-3]
 gi|282920710|ref|ZP_06328429.1| conserved hypothetical protein [Staphylococcus aureus A9765]
 gi|284023029|ref|ZP_06377427.1| putative transcriptional regulator [Staphylococcus aureus subsp.
          aureus 132]
 gi|294849819|ref|ZP_06790559.1| hypothetical protein SKAG_01908 [Staphylococcus aureus A9754]
 gi|297209460|ref|ZP_06925858.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus ATCC 51811]
 gi|300911484|ref|ZP_07128933.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus TCH70]
 gi|21205797|dbj|BAB96489.1| MW2624 [Staphylococcus aureus subsp. aureus MW2]
 gi|49245926|emb|CAG44407.1| putative membrane protein [Staphylococcus aureus subsp. aureus
          MSSA476]
 gi|57285286|gb|AAW37380.1| transcriptional regulator, putative [Staphylococcus aureus subsp.
          aureus COL]
 gi|87127536|gb|ABD22050.1| putative transcriptional regulator [Staphylococcus aureus subsp.
          aureus USA300_FPR3757]
 gi|87204219|gb|ABD32029.1| Helix-turn-helix domain protein [Staphylococcus aureus subsp.
          aureus NCTC 8325]
 gi|150375618|dbj|BAF68878.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus str. Newman]
 gi|257860906|gb|EEV83723.1| conserved hypothetical protein [Staphylococcus aureus A5948]
 gi|259158829|gb|EEW43941.1| hypothetical protein SA930_0618 [Staphylococcus aureus 930918-3]
 gi|259161476|gb|EEW46088.1| hypothetical protein SAD30_1606 [Staphylococcus aureus D30]
 gi|282594118|gb|EFB99106.1| conserved hypothetical protein [Staphylococcus aureus A9765]
 gi|294823367|gb|EFG39796.1| hypothetical protein SKAG_01908 [Staphylococcus aureus A9754]
 gi|296885921|gb|EFH24856.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus ATCC 51811]
 gi|300887663|gb|EFK82859.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus TCH70]
 gi|315197909|gb|EFU28242.1| hypothetical protein CGSSa01_15080 [Staphylococcus aureus subsp.
          aureus CGS01]
 gi|320141409|gb|EFW33252.1| helix-turn-helix protein [Staphylococcus aureus subsp. aureus
          MRSA131]
 gi|320144391|gb|EFW36156.1| helix-turn-helix protein [Staphylococcus aureus subsp. aureus
          MRSA177]
 gi|329731810|gb|EGG68170.1| DNA-binding helix-turn-helix protein [Staphylococcus aureus
          subsp. aureus 21189]
          Length = 189

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 30/72 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ K+I+  R   G SQE L E L ++ Q +  +E   +      L  + E+    +  
Sbjct: 1  MNLSKQIKKYRERDGYSQEYLAEKLYVSRQSISNWENDKSLPDIHNLLMMCELFNVTLDD 60

Query: 73 FFDVSPTVCSDI 84
              +     DI
Sbjct: 61 LVKGTIPFVPDI 72


>gi|116514765|ref|YP_813671.1| XRE family transcriptional regulator [Lactobacillus delbrueckii
          subsp. bulgaricus ATCC BAA-365]
 gi|116094080|gb|ABJ59233.1| Transcriptional regulator, xre family [Lactobacillus delbrueckii
          subsp. bulgaricus ATCC BAA-365]
          Length = 119

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 26/55 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK +R  R   GMSQ++L   LG++ Q +  +E G        +  I+ +    
Sbjct: 6  IGKYLRDLRRRRGMSQQELALALGVSKQTISNWEVGRKVPRMKAVDKIANIFGVS 60


>gi|15925695|ref|NP_373229.1| hypothetical protein SAV2705 [Staphylococcus aureus subsp. aureus
          Mu50]
 gi|15928290|ref|NP_375823.1| hypothetical protein SA2495 [Staphylococcus aureus subsp. aureus
          N315]
 gi|148269137|ref|YP_001248080.1| XRE family transcriptional regulator [Staphylococcus aureus
          subsp. aureus JH9]
 gi|150395219|ref|YP_001317894.1| hypothetical protein SaurJH1_2785 [Staphylococcus aureus subsp.
          aureus JH1]
 gi|156981020|ref|YP_001443279.1| hypothetical protein SAHV_2689 [Staphylococcus aureus subsp.
          aureus Mu3]
 gi|253316707|ref|ZP_04839920.1| hypothetical protein SauraC_11280 [Staphylococcus aureus subsp.
          aureus str. CF-Marseille]
 gi|255007477|ref|ZP_05146078.2| hypothetical protein SauraM_13430 [Staphylococcus aureus subsp.
          aureus Mu50-omega]
 gi|257793530|ref|ZP_05642509.1| transcriptional regulator [Staphylococcus aureus A9781]
 gi|258411164|ref|ZP_05681443.1| transcriptional regulator [Staphylococcus aureus A9763]
 gi|258420931|ref|ZP_05683865.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          A9719]
 gi|258438571|ref|ZP_05689794.1| transcriptional regulator [Staphylococcus aureus A9299]
 gi|258443973|ref|ZP_05692311.1| transcriptional regulator [Staphylococcus aureus A8115]
 gi|258446210|ref|ZP_05694370.1| transcriptional regulator [Staphylococcus aureus A6300]
 gi|258449131|ref|ZP_05697237.1| transcriptional regulator [Staphylococcus aureus A6224]
 gi|258454391|ref|ZP_05702359.1| transcriptional regulator [Staphylococcus aureus A5937]
 gi|269204343|ref|YP_003283612.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus ED98]
 gi|282894270|ref|ZP_06302500.1| hypothetical protein SGAG_01620 [Staphylococcus aureus A8117]
 gi|282927741|ref|ZP_06335355.1| conserved hypothetical protein [Staphylococcus aureus A10102]
 gi|295406854|ref|ZP_06816658.1| hypothetical protein SMAG_02027 [Staphylococcus aureus A8819]
 gi|297245889|ref|ZP_06929751.1| hypothetical protein SLAG_01983 [Staphylococcus aureus A8796]
 gi|13702662|dbj|BAB43802.1| SA2495 [Staphylococcus aureus subsp. aureus N315]
 gi|14248480|dbj|BAB58867.1| hypothetical protein [Staphylococcus aureus subsp. aureus Mu50]
 gi|147742206|gb|ABQ50504.1| transcriptional regulator, XRE family [Staphylococcus aureus
          subsp. aureus JH9]
 gi|149947671|gb|ABR53607.1| helix-turn-helix domain protein [Staphylococcus aureus subsp.
          aureus JH1]
 gi|156723155|dbj|BAF79572.1| hypothetical protein [Staphylococcus aureus subsp. aureus Mu3]
 gi|257787502|gb|EEV25842.1| transcriptional regulator [Staphylococcus aureus A9781]
 gi|257840049|gb|EEV64514.1| transcriptional regulator [Staphylococcus aureus A9763]
 gi|257843121|gb|EEV67536.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          A9719]
 gi|257848130|gb|EEV72122.1| transcriptional regulator [Staphylococcus aureus A9299]
 gi|257850857|gb|EEV74801.1| transcriptional regulator [Staphylococcus aureus A8115]
 gi|257855036|gb|EEV77979.1| transcriptional regulator [Staphylococcus aureus A6300]
 gi|257857564|gb|EEV80459.1| transcriptional regulator [Staphylococcus aureus A6224]
 gi|257863485|gb|EEV86245.1| transcriptional regulator [Staphylococcus aureus A5937]
 gi|262076633|gb|ACY12606.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus ED98]
 gi|282590501|gb|EFB95579.1| conserved hypothetical protein [Staphylococcus aureus A10102]
 gi|282763315|gb|EFC03445.1| hypothetical protein SGAG_01620 [Staphylococcus aureus A8117]
 gi|285818368|gb|ADC38855.1| Transcriptional regulator [Staphylococcus aureus 04-02981]
 gi|294968319|gb|EFG44344.1| hypothetical protein SMAG_02027 [Staphylococcus aureus A8819]
 gi|297177254|gb|EFH36507.1| hypothetical protein SLAG_01983 [Staphylococcus aureus A8796]
 gi|312831044|emb|CBX35886.1| helix-turn-helix family protein [Staphylococcus aureus subsp.
          aureus ECT-R 2]
 gi|315129534|gb|EFT85526.1| hypothetical protein CGSSa03_11146 [Staphylococcus aureus subsp.
          aureus CGS03]
 gi|329725645|gb|EGG62124.1| DNA-binding helix-turn-helix protein [Staphylococcus aureus
          subsp. aureus 21172]
          Length = 189

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 30/72 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ K+I+  R   G SQE L E L ++ Q +  +E   +      L  + E+    +  
Sbjct: 1  MNLSKQIKKYRERDGYSQEYLAEKLYVSRQSISNWENDKSLPDIHNLLMMCELFNVTLDD 60

Query: 73 FFDVSPTVCSDI 84
              +     DI
Sbjct: 61 LVKGTIPFVPDI 72


>gi|313499638|gb|ADR61004.1| XRE family transcriptional regulator [Pseudomonas putida BIRD-1]
          Length = 185

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 30/70 (42%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+R  R    M+ ++L E  G+    + K E     V   +L   +  L   I+  F 
Sbjct: 2  GQRLRQVRKARQMTLKQLSEASGVPLSTLSKMELAQVSVSYEKLAAAARALNVDIAQLFR 61

Query: 76 VSPTVCSDIS 85
           S TV + + 
Sbjct: 62 ASGTVSAPVP 71


>gi|207722560|ref|YP_002252996.1| phage regulatory protein [Ralstonia solanacearum MolK2]
 gi|206587742|emb|CAQ18324.1| putative phage regulatory protein [Ralstonia solanacearum MolK2]
          Length = 136

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/45 (37%), Positives = 26/45 (57%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
            +G+R+   R   G++Q++L E LGI  Q +  YE G  R+ AS
Sbjct: 28 KELGERVAEARKAHGLTQQQLAEALGIAQQTLAHYEVGRARLPAS 72


>gi|167759110|ref|ZP_02431237.1| hypothetical protein CLOSCI_01457 [Clostridium scindens ATCC
          35704]
 gi|167663228|gb|EDS07358.1| hypothetical protein CLOSCI_01457 [Clostridium scindens ATCC
          35704]
          Length = 126

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 35/83 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R  LG++ EK G+ LGI    V K EKG N +  + ++ I         +    
Sbjct: 5  ERVKEVRKTLGLTLEKFGDRLGIKKAAVSKIEKGENSLTDANIKSICREFSVDYMWLTTG 64

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
             +  +   +    +D I   +
Sbjct: 65 EGEMFVETDDDFFERIDRIMAGE 87


>gi|153955322|ref|YP_001396087.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|146348180|gb|EDK34716.1| Predicted transcriptional regulator [Clostridium kluyveri DSM
          555]
          Length = 434

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 37/79 (46%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ + L     IT  Q+   E G +      L++++  L++ I +  
Sbjct: 6  LGEKIKRRRKELNMTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLAFELKTSIEYLM 64

Query: 75 DVSPTVCSDISSEENNVMD 93
          +   T    I +   N+ +
Sbjct: 65 ESEETQAEKICTYFENIAE 83


>gi|47570199|ref|ZP_00240853.1| cI-like repressor [Bacillus cereus G9241]
 gi|228983330|ref|ZP_04143544.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
 gi|229153853|ref|ZP_04281984.1| Transcriptional regulator Xre [Bacillus cereus ATCC 4342]
 gi|47553143|gb|EAL11540.1| cI-like repressor [Bacillus cereus G9241]
 gi|228629657|gb|EEK86353.1| Transcriptional regulator Xre [Bacillus cereus ATCC 4342]
 gi|228776444|gb|EEM24796.1| Transcriptional regulator Xre [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
          Length = 67

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 28/56 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+RIR  R + G +QE   + LG++   + + E+G        +  +++ L+  I 
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKELGVSVSVLGEVERGNRSPSQDFVVEVAKALKISID 62


>gi|30263299|ref|NP_845676.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47528673|ref|YP_020022.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49186148|ref|YP_029400.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|52142204|ref|YP_084624.1| transcriptional regulator [Bacillus cereus E33L]
 gi|65320628|ref|ZP_00393587.1| COG1476: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|167632351|ref|ZP_02390678.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|167637490|ref|ZP_02395770.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170684933|ref|ZP_02876158.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|170705136|ref|ZP_02895601.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|177650155|ref|ZP_02933156.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190564790|ref|ZP_03017711.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|227813831|ref|YP_002813840.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229602863|ref|YP_002867558.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|254685913|ref|ZP_05149772.1| DNA-binding protein [Bacillus anthracis str. CNEVA-9066]
 gi|254723316|ref|ZP_05185104.1| DNA-binding protein [Bacillus anthracis str. A1055]
 gi|254738383|ref|ZP_05196086.1| DNA-binding protein [Bacillus anthracis str. Western North
          America USA6153]
 gi|254742450|ref|ZP_05200135.1| DNA-binding protein [Bacillus anthracis str. Kruger B]
 gi|254752699|ref|ZP_05204735.1| DNA-binding protein [Bacillus anthracis str. Vollum]
 gi|254761214|ref|ZP_05213238.1| DNA-binding protein [Bacillus anthracis str. Australia 94]
 gi|30257933|gb|AAP27162.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47503821|gb|AAT32497.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49180075|gb|AAT55451.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|51975673|gb|AAU17223.1| transcriptional regulator [Bacillus cereus E33L]
 gi|167514997|gb|EDR90363.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|167532649|gb|EDR95285.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|170129991|gb|EDS98853.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|170671193|gb|EDT21931.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|172084107|gb|EDT69166.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190564107|gb|EDV18071.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|227004328|gb|ACP14071.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229267271|gb|ACQ48908.1| DNA-binding protein [Bacillus anthracis str. A0248]
          Length = 67

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 2/62 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  L M+QE L + + +  + +   EKG           I+  L S I   F F+
Sbjct: 6  KIKEYRTKLNMTQEDLAKQVSVRRETISHLEKGKYNPSLQLAHDIARALHSTIDEVFIFE 65

Query: 76 VS 77
            
Sbjct: 66 DE 67


>gi|329312845|gb|AEB87258.1| Transcriptional regulator [Staphylococcus aureus subsp. aureus
          T0131]
          Length = 381

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/68 (17%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK +   R +  +S+++L E + ++ Q + +YE        +++  ++ +     S+
Sbjct: 1  MFIGKNLEYVRKLNALSRKELSEKINVSEQAIWQYETKNMMPEINKIYDMTSIFNVKSSY 60

Query: 73 FFDVSPTV 80
          F    P  
Sbjct: 61 FISEQPEE 68


>gi|325066629|ref|ZP_08125302.1| transcriptional regulator [Actinomyces oris K20]
          Length = 62

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 25/56 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R   G++Q +LG  LG++ Q V   EKG           I+   E+ +   F
Sbjct: 5  VRGLREARGLTQAQLGAALGVSRQSVNSIEKGKYDPSLPLAIAIARYFETTVEEIF 60


>gi|285018010|ref|YP_003375721.1| hypothetical protein XALc_1223 [Xanthomonas albilineans GPE PC73]
 gi|283473228|emb|CBA15733.1| hypothetical protein XALc_1223 [Xanthomonas albilineans]
          Length = 125

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
           + +RIRL R   G+SQ +L   LG+    V  +E G +       L  +S VLE  I 
Sbjct: 68  IAERIRLARNDRGLSQTELSRLLGVNRATVGHWESGESFAPNLQHLHSLSLVLEVTID 125


>gi|270262620|ref|ZP_06190891.1| transcriptional regulatory protein [Serratia odorifera 4Rx13]
 gi|270043304|gb|EFA16397.1| transcriptional regulatory protein [Serratia odorifera 4Rx13]
          Length = 462

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 28/128 (21%), Positives = 48/128 (37%), Gaps = 22/128 (17%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           N K+ N ++  +G RIR+ R     S   L E  G++   V K E+G +   A  L  +S
Sbjct: 275 NNKLDN-INQRIGARIRIEREARHWSLSDLAERAGVSRAMVHKIERGDSSPTAMLLARLS 333

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI---- 119
                 +S     + T    +   E+  +     P+               VR+ +    
Sbjct: 334 GAFGLSMSKLIARAETQEGRLLRREDQPV--WVDPE------------SGYVRRHVSPRS 379

Query: 120 ---IELVR 124
              ++LVR
Sbjct: 380 DIPLDLVR 387


>gi|253699290|ref|YP_003020479.1| XRE family transcriptional regulator [Geobacter sp. M21]
 gi|251774140|gb|ACT16721.1| transcriptional regulator, XRE family [Geobacter sp. M21]
          Length = 209

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RI+  R+ LG++Q++    LGI    +   E G  R   + L  +S        +  D
Sbjct: 11 GVRIKKARLALGLTQKEFAASLGIVQGFLSGIETGRKRPSDTLLIALSHTFGINAQWLHD 70

Query: 76 VSPTV-CSDISSEENNV 91
           S     +++++++  V
Sbjct: 71 GSGESFKNELAADQPKV 87


>gi|239623815|ref|ZP_04666846.1| transcriptional regulator [Clostridiales bacterium 1_7_47_FAA]
 gi|239521846|gb|EEQ61712.1| transcriptional regulator [Clostridiales bacterium 1_7_47FAA]
          Length = 186

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 27/67 (40%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ VG+ IR  R    ++ +      G++   + + EKG      S L  I+   +   
Sbjct: 5  INLEVGRNIRRLREAKKLTLDGAAAATGVSRSMLAQIEKGDVNPTISVLWKIANGYKVSF 64

Query: 71 SFFFDVS 77
          +   +  
Sbjct: 65 TSLVETG 71


>gi|197121330|ref|YP_002133281.1| XRE family transcriptional regulator [Anaeromyxobacter sp. K]
 gi|196171179|gb|ACG72152.1| transcriptional regulator, XRE family [Anaeromyxobacter sp. K]
          Length = 192

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/108 (25%), Positives = 44/108 (40%), Gaps = 3/108 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  +R  R    +S EKL +  G++   + + E G +    + L  IS  L  P S   
Sbjct: 12  VGGNLRRLRTQRDLSLEKLSKLSGVSRAMLGQIELGQSAPTINVLWKISSALSVPFSALI 71

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
               T    +   E+     +S+ DG   +R     D+ + R +  EL
Sbjct: 72  TARSTGGLHVLRAEH--AKVLSSHDGSYSSRALFPFDEPR-RVEFYEL 116


>gi|121609687|ref|YP_997494.1| XRE family transcriptional regulator [Verminephrobacter eiseniae
          EF01-2]
 gi|121554327|gb|ABM58476.1| transcriptional regulator [Verminephrobacter eiseniae EF01-2]
          Length = 178

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKR+   R+  GMS   L +  G++   + + E+GV     S L+ +S V    ++  F
Sbjct: 2  LGKRLHELRLTRGMSLRALAQAAGVSPTLLSQIERGVTEPSLSTLRALSAVFGESMAALF 61


>gi|91780911|ref|YP_556118.1| anaerobic benzoate catabolism transcriptional regulator
           [Burkholderia xenovorans LB400]
 gi|91693571|gb|ABE36768.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia xenovorans LB400]
          Length = 315

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/131 (20%), Positives = 50/131 (38%), Gaps = 17/131 (12%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
             +   +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ I
Sbjct: 17  ATRAERDPFLTAMGERVRLLRARRGMTRKTLATETGLSERHLANLESGVGNASVLVLRQI 76

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRY-------FIQIDD 112
           +  L  P++        V  D ++       + + +   D   L R        F Q   
Sbjct: 77  ASTLNCPLA-------EVIGDETTASAEWLLIRELLHGRDQAALQRARVALAEMFAQAPR 129

Query: 113 VKVRQKIIELV 123
              R+  I L+
Sbjct: 130 DPHRKDRIALI 140


>gi|82749860|ref|YP_415601.1| transcriptional regulator [Staphylococcus aureus RF122]
 gi|82655391|emb|CAI79776.1| probable transcriptional regulator [Staphylococcus aureus RF122]
          Length = 391

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/68 (17%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK +   R +  +S+++L E + ++ Q + +YE        +++  ++ +     S+
Sbjct: 1  MFIGKNLEYVRKLNALSRKELSEKINVSEQAIWQYETKNMMPEINKIYDMTSIFNVKSSY 60

Query: 73 FFDVSPTV 80
          F    P  
Sbjct: 61 FISEQPEE 68


>gi|311031695|ref|ZP_07709785.1| Predicted transcriptional regulator, xre family protein [Bacillus
          sp. m3-13]
          Length = 120

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 32/76 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           N+G+ IR  R    M+  +L   + +    ++KYE G+       +  IS VL+ P S 
Sbjct: 2  RNIGENIRFYRERAKMTAAELALKIRVGTGTIEKYEAGLQTPDMQTILKISTVLDVPASE 61

Query: 73 FFDVSPTVCSDISSEE 88
            +   +  S     E
Sbjct: 62 LLESFTSKNSTGLDPE 77


>gi|289522774|ref|ZP_06439628.1| toxin-antitoxin system, antitoxin component, Xre family
          [Anaerobaculum hydrogeniformans ATCC BAA-1850]
 gi|289504610|gb|EFD25774.1| toxin-antitoxin system, antitoxin component, Xre family
          [Anaerobaculum hydrogeniformans ATCC BAA-1850]
          Length = 137

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/70 (20%), Positives = 30/70 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +I+  R   G++Q +L   +G++   +Q  E          L+ I+E L    S 
Sbjct: 25 MSLGLKIKRIRQQRGLTQGELASIVGVSSGYIQALESNRRNGSLKILKKIAEALAVDTSE 84

Query: 73 FFDVSPTVCS 82
            +      +
Sbjct: 85 LLEEMQEKAN 94


>gi|297560986|ref|YP_003679960.1| XRE family transcriptional regulator [Nocardiopsis dassonvillei
          subsp. dassonvillei DSM 43111]
 gi|296845434|gb|ADH67454.1| transcriptional regulator, XRE family [Nocardiopsis dassonvillei
          subsp. dassonvillei DSM 43111]
          Length = 194

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 25/57 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG R+R  R   G++   L E  GI    + + E G  R G   L  +++    P+ 
Sbjct: 12 VGPRLRALRHRHGITLTALSETTGIAVSTLSRLESGQRRPGLELLLPLAKAYNVPLD 68


>gi|254486796|ref|ZP_05100001.1| transcriptional regulator, XRE family [Roseobacter sp. GAI101]
 gi|214043665|gb|EEB84303.1| transcriptional regulator, XRE family [Roseobacter sp. GAI101]
          Length = 132

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/112 (18%), Positives = 41/112 (36%), Gaps = 6/112 (5%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  N+    P     G R+   R    M+Q  L + LG+    ++ +E  ++   A+RL 
Sbjct: 1   MAENEDWYGPDVATFGDRVAAAREHAQMTQAALAKRLGVKQATLRAWEDDLSEPRANRLS 60

Query: 61  HISEVLESPISFFFDVS------PTVCSDISSEENNVMDFISTPDGLQLNRY 106
            ++ +L   + +  +        P      S    +V+  +       L R 
Sbjct: 61  MLAGILGVSMMWLINGEGEGLDAPDDGQSSSETAMDVLTELRDLRADMLKRA 112


>gi|297544917|ref|YP_003677219.1| XRE family transcriptional regulator [Thermoanaerobacter
          mathranii subsp. mathranii str. A3]
 gi|296842692|gb|ADH61208.1| transcriptional regulator, XRE family [Thermoanaerobacter
          mathranii subsp. mathranii str. A3]
          Length = 65

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+++ R +  ++QE+L   LG+T   +   E G           I+   +  I   F
Sbjct: 3  NRLKVYRAMHDLTQEELATKLGVTRATINAIENGRYDPSLKLAFQIARFFKISIEDVF 60


>gi|257481782|ref|ZP_05635823.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. tabaci ATCC 11528]
          Length = 199

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/99 (23%), Positives = 47/99 (47%), Gaps = 8/99 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESP 69
           + ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P
Sbjct: 16  IALDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIP 72

Query: 70  ISF--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           +S   FF  +  P   + +  + + ++D       ++L 
Sbjct: 73  MSMVEFFSEETVPENAAQVVYKASELIDISDGAVTMKLV 111


>gi|254823297|ref|ZP_05228298.1| transcriptional regulator [Mycobacterium intracellulare ATCC 13950]
          Length = 174

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/82 (17%), Positives = 36/82 (43%), Gaps = 7/82 (8%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +R  R   G++ E L +  G+T   + K E+  +    +    +++ L+  +   F    
Sbjct: 5   LRAVRKQRGLTLEALAQQTGLTKSYLSKIERRRSTPSIAVALKVAKALDVDVGRLF---- 60

Query: 79  TVCSDISSEENNVMDFISTPDG 100
              S+ ++ E   ++  ++ +G
Sbjct: 61  ---SEEAAHEKITVERAASAEG 79


>gi|228957650|ref|ZP_04119398.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar pakistani str. T13001]
 gi|228802035|gb|EEM48904.1| HTH-type transcriptional regulator sinR [Bacillus thuringiensis
          serovar pakistani str. T13001]
          Length = 107

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
               T   ++ SE
Sbjct: 62 LHDETTKEINLDSE 75


>gi|224148667|ref|XP_002336695.1| predicted protein [Populus trichocarpa]
 gi|222836536|gb|EEE74943.1| predicted protein [Populus trichocarpa]
          Length = 63

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 23/56 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR  R   G SQ  L + LG++ Q V   E G           I+ V E+ I   F
Sbjct: 5  IRELRAERGWSQAALADLLGVSRQTVNAIETGRYDPSLPLAFAIARVFETRIEAIF 60


>gi|149203444|ref|ZP_01880414.1| DNA-binding protein, putative [Roseovarius sp. TM1035]
 gi|149143277|gb|EDM31316.1| DNA-binding protein, putative [Roseovarius sp. TM1035]
          Length = 465

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/142 (13%), Positives = 55/142 (38%), Gaps = 25/142 (17%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R  LG++Q+     LG++   + + E     V  + +  +++        
Sbjct: 6   LYAGAKLRETRQRLGLTQKDFAGKLGVSLPYLNQMENNNRPVSTTVVLALAQEFG----- 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP-----------------DGLQLNRYFIQIDDV-- 113
            FDV+     D     +++ + ++ P                 +   L R F+++     
Sbjct: 61  -FDVTELSTGDAERMVSDMREALADPVFGDDPPPLADLRLTASNAPALARAFLELHSAYR 119

Query: 114 KVRQKIIELVRSIVSSEKKYRT 135
           +  +++  L  ++   + + ++
Sbjct: 120 QTHERLASLDEALGREDARNQS 141


>gi|148998521|ref|ZP_01825962.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP11-BS70]
 gi|168576609|ref|ZP_02722475.1| transcriptional activator [Streptococcus pneumoniae MLV-016]
 gi|307068599|ref|YP_003877565.1| transposase-like protein, IS1515 [Streptococcus pneumoniae AP200]
 gi|147755714|gb|EDK62760.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP11-BS70]
 gi|183577671|gb|EDT98199.1| transcriptional activator [Streptococcus pneumoniae MLV-016]
 gi|306410136|gb|ADM85563.1| Transposase-like protein, IS1515 [Streptococcus pneumoniae AP200]
          Length = 415

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLAYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|153816198|ref|ZP_01968866.1| hypothetical protein RUMTOR_02446 [Ruminococcus torques ATCC
          27756]
 gi|317500518|ref|ZP_07958741.1| hypothetical protein HMPREF1026_00684 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|331089382|ref|ZP_08338281.1| hypothetical protein HMPREF1025_01864 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|145846533|gb|EDK23451.1| hypothetical protein RUMTOR_02446 [Ruminococcus torques ATCC
          27756]
 gi|316898107|gb|EFV20155.1| hypothetical protein HMPREF1026_00684 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|330404750|gb|EGG84288.1| hypothetical protein HMPREF1025_01864 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 95

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG+ IR  RM   + Q  L + L I+ Q +  YE+G+       L  I++     + 
Sbjct: 30 VGENIRRLRMRNQLKQADLAQKLNISRQSLSAYERGITLPDIYLLIEIADFFRISLD 86


>gi|116251937|ref|YP_767775.1| helix-turn-helix transcriptional regulatory protein [Rhizobium
           leguminosarum bv. viciae 3841]
 gi|115256585|emb|CAK07672.1| putative helix-turn-helix transcriptional regulatory protein
           [Rhizobium leguminosarum bv. viciae 3841]
          Length = 108

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/118 (22%), Positives = 45/118 (38%), Gaps = 17/118 (14%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFFF 74
           GKRI+  R   GM+ + L    G +   + + E K   R  A +L  I+ VLE    +  
Sbjct: 7   GKRIKELRTKKGMTLDDLAGATGSSKSYIWELENKNPPRPSAEKLSEIAAVLEVTTDYL- 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
                +  + + E      F          R +  +     R+KI  + R + S  K+
Sbjct: 66  -----IGRETTLETAEDKAFF---------REYSNMPQAT-REKIRAMARLLGSDAKE 108


>gi|293399884|ref|ZP_06644030.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291306284|gb|EFE47527.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 168

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/82 (19%), Positives = 35/82 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ ++  R   G++QE+  E + ++ + V ++E G N      L  IS+  E  +    
Sbjct: 6  IGEFLKELRKQKGLTQEQFAEIVNVSNRTVSRWENGNNLPDLDILIEISDYYEIDLRELL 65

Query: 75 DVSPTVCSDISSEENNVMDFIS 96
          +            E  V+  ++
Sbjct: 66 NGEKKGEKMHKEVEETVLKAVA 87


>gi|237739262|ref|ZP_04569743.1| transcriptional regulator [Fusobacterium sp. 2_1_31]
 gi|229422870|gb|EEO37917.1| transcriptional regulator [Fusobacterium sp. 2_1_31]
          Length = 106

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 1/65 (1%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N K P  + + + K IR RR  L ++QE+  +  G++F  ++++E     +    L  I+
Sbjct: 19 NMKTPKEIQLEIAKNIRKRRKELKLTQEEFSKKSGVSFGSIKRFEN-TGEISLFSLIKIA 77

Query: 64 EVLES 68
           VL  
Sbjct: 78 IVLGC 82


>gi|225571452|ref|ZP_03780448.1| hypothetical protein CLOHYLEM_07550 [Clostridium hylemonae DSM
          15053]
 gi|225159928|gb|EEG72547.1| hypothetical protein CLOHYLEM_07550 [Clostridium hylemonae DSM
          15053]
          Length = 377

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 27/79 (34%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R   GMSQE L   + I+ + +   E        S    I   L   +   F  
Sbjct: 2  NRVKEIRKERGMSQETLARYIEISRKYLSMIECQNATPSISIAMRIGGALGVSVDKIFLD 61

Query: 77 SPTVCSDISSEENNVMDFI 95
            +V +    +    +D  
Sbjct: 62 LSSVETIAYPKPIRYIDLF 80


>gi|218677789|ref|ZP_03525686.1| transcriptional regulator, XRE family protein [Rhizobium etli
          CIAT 894]
          Length = 182

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++G R+R  R+   +SQ +L +  G+    +   E   +      L+ I +    PI
Sbjct: 1  MSVDIGSRLRHLRIAHKLSQRELAKRTGVPNSTISLIESNASNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF   P            +++ 
Sbjct: 59 GLAEFFAFEPERPRKAFYAAEELVEI 84


>gi|167749863|ref|ZP_02421990.1| hypothetical protein EUBSIR_00831 [Eubacterium siraeum DSM 15702]
 gi|167657175|gb|EDS01305.1| hypothetical protein EUBSIR_00831 [Eubacterium siraeum DSM 15702]
 gi|291531021|emb|CBK96606.1| Helix-turn-helix [Eubacterium siraeum 70/3]
          Length = 221

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 29/71 (40%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          + L R   G++Q+++   LGI    +  YEKG    G   L   ++       +    SP
Sbjct: 9  LSLLRKERGLTQKQVAADLGIAQALLSHYEKGKRECGLEFLVKAADYYNVSTDYLLGRSP 68

Query: 79 TVCSDISSEEN 89
               I +E +
Sbjct: 69 VSNGGIITESD 79


>gi|152966423|ref|YP_001362207.1| XRE family transcriptional regulator [Kineococcus radiotolerans
          SRS30216]
 gi|151360940|gb|ABS03943.1| transcriptional regulator, XRE family [Kineococcus radiotolerans
          SRS30216]
          Length = 109

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/66 (18%), Positives = 29/66 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++  R+ + R   G+++ +L E +G+  Q +   E+G           ++     P+  
Sbjct: 11 KHLHNRLAVLRAERGITRRQLAEAVGVNVQTIGFLERGDYGPSVELALRLAGHFGLPVEA 70

Query: 73 FFDVSP 78
           F ++P
Sbjct: 71 LFSLTP 76


>gi|325068074|ref|ZP_08126747.1| Cro/CI family transcriptional regulator putative [Actinomyces
          oris K20]
          Length = 146

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/63 (17%), Positives = 23/63 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +   I   R     +QE L   +G++ Q + K+E        S    +++  +  I    
Sbjct: 2  ISSNIAALRKKHRWTQEALANKVGVSRQTIAKWEAPGGNPDISSCIRLAQAFDVAIDDLV 61

Query: 75 DVS 77
          +  
Sbjct: 62 NGD 64


>gi|313633852|gb|EFS00575.1| putative transcriptional regulator [Listeria seeligeri FSL
          N1-067]
          Length = 167

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++VG RIR  R    M+Q++LG  LG        ++ +YE G        L  ++EVL  
Sbjct: 1  MSVGSRIRRVRKFRDMTQKELGIALGYDEKSADVRITQYETGTRTPKIDVLNAMAEVLNV 60

Query: 69 PI 70
           +
Sbjct: 61 NV 62


>gi|291530187|emb|CBK95772.1| transcriptional regulator, XRE family [Eubacterium siraeum 70/3]
          Length = 72

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 28/56 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           RIR  R    ++Q  + + LG++     KYE G N V  + L  ++E  ++ + +
Sbjct: 3  SRIRNLREDSDLNQTTVAKMLGMSQTGYSKYETGENDVPTAILIKLAEYYKTNVDY 58


>gi|293399779|ref|ZP_06643925.1| putative transcriptional repressor [Erysipelotrichaceae bacterium
          5_2_54FAA]
 gi|291306179|gb|EFE47422.1| putative transcriptional repressor [Erysipelotrichaceae bacterium
          5_2_54FAA]
          Length = 65

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 28/57 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R    M+Q++L EC+G+T Q +   EKG           I + L+  ++  F
Sbjct: 6  RIKAARAAKDMTQKELAECVGVTRQTMNAIEKGDYNSSIRLCIAICKALDKTLNDLF 62


>gi|225405316|ref|ZP_03760505.1| hypothetical protein CLOSTASPAR_04536 [Clostridium asparagiforme
           DSM 15981]
 gi|225043159|gb|EEG53405.1| hypothetical protein CLOSTASPAR_04536 [Clostridium asparagiforme
           DSM 15981]
          Length = 130

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 40/93 (43%), Gaps = 1/93 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +G  I   R   GM+Q +L E + +T + V K+E+ ++      L +++ +L   I
Sbjct: 1   MEKTLGMIIAEHRKEKGMTQLELAEKMRVTDKAVSKWERDLSCPDIHSLPNLAAILGISI 60

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQL 103
                +   V    S     VMD +     L +
Sbjct: 61  DDLMQIKREVPVS-SKNPKEVMDILFKAVALAM 92


>gi|225017295|ref|ZP_03706487.1| hypothetical protein CLOSTMETH_01221 [Clostridium methylpentosum
          DSM 5476]
 gi|224949912|gb|EEG31121.1| hypothetical protein CLOSTMETH_01221 [Clostridium methylpentosum
          DSM 5476]
          Length = 81

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/73 (32%), Positives = 36/73 (49%), Gaps = 5/73 (6%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECL-----GITFQQVQKYEKGVNRVGASRLQHISEVL 66
          DI +GK IR  R    ++Q  +   L     G T     K E G+  + AS L  I+E+L
Sbjct: 8  DIPLGKNIRSIRKQKKLTQMDVVRELELAGLGTTRSSYAKIEAGIQHIYASELIAIAEIL 67

Query: 67 ESPISFFFDVSPT 79
          + P++  F  +PT
Sbjct: 68 DVPLTELFRSNPT 80


>gi|163743903|ref|ZP_02151274.1| DNA binding protein, putative [Phaeobacter gallaeciensis 2.10]
 gi|161382844|gb|EDQ07242.1| DNA binding protein, putative [Phaeobacter gallaeciensis 2.10]
          Length = 188

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 29/66 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R   G+S E +    G++   V + E+G +    + L +++  L+   +   D 
Sbjct: 14 ARLKEARRAQGLSLEAVANLSGVSRSMVSQIERGESSPTIATLWNLTRALQVDFAGLLDS 73

Query: 77 SPTVCS 82
          +    S
Sbjct: 74 NEAQDS 79


>gi|75762636|ref|ZP_00742481.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|218895748|ref|YP_002444159.1| DNA-binding protein [Bacillus cereus G9842]
 gi|228899378|ref|ZP_04063640.1| Transcriptional regulator [Bacillus thuringiensis IBL 4222]
 gi|228963794|ref|ZP_04124935.1| Transcriptional regulator [Bacillus thuringiensis serovar sotto
          str. T04001]
 gi|74489883|gb|EAO53254.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|218542527|gb|ACK94921.1| DNA-binding protein [Bacillus cereus G9842]
 gi|228795939|gb|EEM43406.1| Transcriptional regulator [Bacillus thuringiensis serovar sotto
          str. T04001]
 gi|228860284|gb|EEN04682.1| Transcriptional regulator [Bacillus thuringiensis IBL 4222]
          Length = 66

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+ L ++Q++L E +G+T Q +   EKG           I   ++  ++  F
Sbjct: 4  SKIKVARVQLDLTQQQLAEKVGVTRQTISLIEKGKYNPSLDLCLKICYAVDKTLNELF 61


>gi|89893443|ref|YP_516930.1| hypothetical protein DSY0697 [Desulfitobacterium hafniense Y51]
 gi|219666722|ref|YP_002457157.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|89332891|dbj|BAE82486.1| hypothetical protein [Desulfitobacterium hafniense Y51]
 gi|219536982|gb|ACL18721.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 71

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 10/57 (17%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R+R  R    ++Q+ L + L ++     +YE G   + ++ L  ++   ++ + + 
Sbjct: 4  QRLRDLREDRDLTQQDLADLLKVSQATYSRYESGALDIPSTSLIKLARFYKTSVDYL 60


>gi|327393585|dbj|BAK11007.1| putative transcriptional regulator [Pantoea ananatis AJ13355]
          Length = 194

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/64 (18%), Positives = 30/64 (46%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VD ++ + +   R    ++  +L +  G++   + K E+G +   A+ L  ++  +   +
Sbjct: 10 VDSDIARLLLKHRKARNLTVTELAQRSGVSQAMISKVERGTSSPSATILSRLANAMNITL 69

Query: 71 SFFF 74
          S  F
Sbjct: 70 SKLF 73


>gi|309804463|ref|ZP_07698530.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          09V1-c]
 gi|312873160|ref|ZP_07733219.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2062A-h1]
 gi|312873421|ref|ZP_07733472.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2052A-d]
 gi|325913317|ref|ZP_08175685.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          60-B]
 gi|308166216|gb|EFO68432.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          09V1-c]
 gi|311091105|gb|EFQ49498.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2052A-d]
 gi|311091393|gb|EFQ49778.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2062A-h1]
 gi|325477420|gb|EGC80564.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          60-B]
          Length = 74

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 26/62 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + V  +I   R  LG+SQ KL + +G+  + +  YE             I +VL   I  
Sbjct: 4  LEVDNKICEYRKALGLSQHKLAKAVGLKRRSIMAYENKTISPTVETAYKICKVLGKDIKE 63

Query: 73 FF 74
           F
Sbjct: 64 VF 65


>gi|297539577|ref|YP_003675346.1| XRE family transcriptional regulator [Methylotenera sp. 301]
 gi|297258924|gb|ADI30769.1| transcriptional regulator, XRE family [Methylotenera sp. 301]
          Length = 536

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 38/77 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  IR RR  L ++ + L   +G     + + E+G   +  + L+ ++E L    ++
Sbjct: 1  MSIGHSIRFRRKSLNITLQSLANQVGADAGNLSRIERGELGINENTLRKVAEALNCTPAY 60

Query: 73 FFDVSPTVCSDISSEEN 89
           +  S    + +S +E+
Sbjct: 61 LYAQSDMPKTALSVQEH 77


>gi|293400017|ref|ZP_06644163.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291306417|gb|EFE47660.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 183

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 35/65 (53%), Gaps = 1/65 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFDVS 77
          ++ RR+ LG++ E++G  +G++   VQ++E G +  V   ++  ++  L++  ++     
Sbjct: 7  VKSRRVQLGLTMEQVGRKVGVSKATVQRWESGEICNVRRDKIAKLANALQTTPAYLMGWD 66

Query: 78 PTVCS 82
              S
Sbjct: 67 ENEIS 71


>gi|218132726|ref|ZP_03461530.1| hypothetical protein BACPEC_00587 [Bacteroides pectinophilus ATCC
           43243]
 gi|217992452|gb|EEC58455.1| hypothetical protein BACPEC_00587 [Bacteroides pectinophilus ATCC
           43243]
          Length = 123

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/116 (18%), Positives = 50/116 (43%), Gaps = 5/116 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            RIR  R    ++Q +L   L +T + +  YE  V+    + L  +S++  + + +    
Sbjct: 11  NRIRELRQEKKITQLQLSSQLEVTQETISAYENNVHMPSLAALMKMSKIFNASMDYIM-G 69

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
              V +    EE +  D +       L   + ++  +  R +++   + +V +E++
Sbjct: 70  QSNVRNIPKEEEPSAADIVQRN---SLMTCYQKLGAMN-RARLLSYAQGLVDAERR 121


>gi|149185124|ref|ZP_01863441.1| transcriptional regulator, XRE family protein [Erythrobacter sp.
          SD-21]
 gi|148831235|gb|EDL49669.1| transcriptional regulator, XRE family protein [Erythrobacter sp.
          SD-21]
          Length = 67

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 29/61 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  R+++ R +   SQ++L + L ++ Q V   E G           I++V E PI   F
Sbjct: 5  VKNRLKVLRAMRDWSQQELADRLEVSRQSVNAIETGRYDPSLPLAFKIADVFEMPIEDIF 64

Query: 75 D 75
          +
Sbjct: 65 E 65


>gi|328885617|emb|CCA58856.1| DNA-binding protein [Streptomyces venezuelae ATCC 10712]
          Length = 468

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 24/58 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R+R  R   GMSQ +L   L I+   + + E     +    L  ++E       FF
Sbjct: 7  GARLRRLREDRGMSQAELARTLAISPSYLNQMEHDARPLTVPVLLRLTEAFGVDPGFF 64


>gi|325685380|gb|EGD27486.1| XRE family transcriptional regulator [Lactobacillus delbrueckii
          subsp. lactis DSM 20072]
          Length = 122

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 35/81 (43%), Gaps = 1/81 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK +R  R   GMSQ++L   LG++ Q +  +E G        ++ I+ +     +   
Sbjct: 6  IGKYLRDLRRRRGMSQQELALALGVSKQTISNWEVGRKVPRMKAVEKIANIFGVSRNSIL 65

Query: 75 DVSP-TVCSDISSEENNVMDF 94
             P  +      E+  V+D 
Sbjct: 66 AGLPVEMLVQEGQEDRGVVDL 86


>gi|322378129|ref|ZP_08052615.1| DNA-binding protein [Streptococcus sp. M334]
 gi|321280966|gb|EFX57980.1| DNA-binding protein [Streptococcus sp. M334]
          Length = 307

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/69 (31%), Positives = 39/69 (56%), Gaps = 1/69 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGE-CLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + I VGKRIR+ R +  +++E L +    IT +Q+ + E G +    S++++I+  L  
Sbjct: 2  DIKIEVGKRIRMLREMKHITRETLCDDETEITVRQLARIESGQSSPSLSKVEYIAYKLGC 61

Query: 69 PISFFFDVS 77
          PIS   D+ 
Sbjct: 62 PISHIVDMD 70


>gi|255280876|ref|ZP_05345431.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
 gi|255268813|gb|EET62018.1| DNA-binding protein [Bryantella formatexigens DSM 14469]
          Length = 359

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 32/56 (57%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR RR  LG++QE++ E LG++   V K+EKG      +    ++ +L+  ++  F
Sbjct: 7  IRERRKALGLTQEQVAERLGVSAPAVNKWEKGNTYPDITLAAALARLLKVDLNTLF 62


>gi|205352715|ref|YP_002226516.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Gallinarum str. 287/91]
 gi|207856901|ref|YP_002243552.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Enteritidis str. P125109]
 gi|205272496|emb|CAR37385.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Gallinarum str. 287/91]
 gi|206708704|emb|CAR33030.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Enteritidis str. P125109]
 gi|326627783|gb|EGE34126.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Gallinarum str. 9]
          Length = 178

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 33/80 (41%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R+ R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRMLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSVF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|200390330|ref|ZP_03216941.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Virchow str. SL491]
 gi|199602775|gb|EDZ01321.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Virchow str. SL491]
          Length = 178

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 33/80 (41%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R+ R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRMLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSVF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|157690862|ref|YP_001485324.1| transcriptional regulator [Bacillus pumilus SAFR-032]
 gi|157679620|gb|ABV60764.1| transcriptional regulator [Bacillus pumilus SAFR-032]
          Length = 77

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 3/68 (4%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR  R + G +QE   + LGI+   + + E+G        +  I++ L   +    +
Sbjct: 7  GRRIRAYRKLKGYTQEGFAKRLGISVSVLGEIERGNRLPTNQLVGQIADALNITVE---E 63

Query: 76 VSPTVCSD 83
          +SP +  +
Sbjct: 64 LSPNLEEE 71


>gi|89897034|ref|YP_520521.1| hypothetical protein DSY4288 [Desulfitobacterium hafniense Y51]
 gi|89336482|dbj|BAE86077.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 215

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 33/82 (40%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            N+G  IR  R    +S + + E   +T   + + E+ +       L+ I+  L  PIS 
Sbjct: 38  ANLGSAIRFMRKNQKLSLKDVAEKTELTISHLSQIERNLASPSLITLEKIASALGYPISS 97

Query: 73  FFDVSPTVCSDISSEENNVMDF 94
           FF       + I +E    +  
Sbjct: 98  FFVNPQFTSTHIPAEAQRTIQI 119


>gi|325473869|gb|EGC77057.1| helix-turn-helix domain-containing protein [Treponema denticola
           F0402]
          Length = 120

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 24/55 (43%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +R  R +  ++Q +L E LG+T Q +   E G   +       +S++       F
Sbjct: 65  LRFYRTLNKLTQLQLAEKLGVTKQFISNMETGQKPISRKTAYLLSDIFGIDAGRF 119


>gi|315656316|ref|ZP_07909207.1| conserved hypothetical protein [Mobiluncus curtisii subsp.
          holmesii ATCC 35242]
 gi|315493318|gb|EFU82918.1| conserved hypothetical protein [Mobiluncus curtisii subsp.
          holmesii ATCC 35242]
          Length = 185

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 33/76 (43%), Gaps = 4/76 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + VG +I+  R   GM+Q++LG  +G        ++ +YE          L  ++E L  
Sbjct: 1  MTVGDKIKKIRTFRGMTQKELGLAIGFEEKGADNRIAQYETNYRVPKRELLDKMAEALRV 60

Query: 69 PISFFFDVSPTVCSDI 84
              F+ ++P    D 
Sbjct: 61 DRQNFYTIAPGSAEDF 76


>gi|291616463|ref|YP_003519205.1| RstR1 [Pantoea ananatis LMG 20103]
 gi|291151493|gb|ADD76077.1| RstR1 [Pantoea ananatis LMG 20103]
          Length = 122

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 27/63 (42%), Gaps = 1/63 (1%)

Query: 22 RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-FDVSPTV 80
           R   G++Q ++ + +GI   QV++YE    +     L+HI+        +  F+     
Sbjct: 24 LRKEHGLTQPQMADKVGIHLTQVRRYESREAQPSLDILKHIAVTFNVSADWLIFEGGERE 83

Query: 81 CSD 83
            D
Sbjct: 84 PQD 86


>gi|284097787|ref|ZP_06385776.1| prophage repressor [Candidatus Poribacteria sp. WGA-A3]
 gi|283830687|gb|EFC34808.1| prophage repressor [Candidatus Poribacteria sp. WGA-A3]
          Length = 130

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/116 (16%), Positives = 50/116 (43%), Gaps = 5/116 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
           +RIR  R   G+SQ  + + L I+   V ++E+G    +  +    ++ +L     +   
Sbjct: 6   ERIRSAREEAGLSQADVAKALRISASAVNQWEQGLTKNMKLNNFFALANLLGQDPRWLAT 65

Query: 76  V--SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
                 V         +    +++ +   L  ++++   VK+R+ +++ +R +  +
Sbjct: 66  GKMLSRVQEPAVISPKSEYSTLTSEEKALL--HYVRRLPVKLRKTLLKFIRGLGDA 119


>gi|225575186|ref|ZP_03783796.1| hypothetical protein RUMHYD_03275 [Blautia hydrogenotrophica DSM
          10507]
 gi|225037594|gb|EEG47840.1| hypothetical protein RUMHYD_03275 [Blautia hydrogenotrophica DSM
          10507]
          Length = 89

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 23/56 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G  +   R + GM+QE LG  +G+    +   E G        +  ++  L+  + 
Sbjct: 17 GNNLSHYRRLCGMTQEALGRAVGMNRTYISALEHGRANPTLKLMSTLAIALKVDVG 72


>gi|211907951|gb|ACJ12471.1| DNA binding regulatory protein [Rhodococcus sp. T104]
          Length = 197

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 25/55 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          V + +R  R   G+S  +L    G++ Q + K E+GV       L  +   L+ P
Sbjct: 12 VARNVRRYRQERGLSLAELARRSGLSKQTLSKVEQGVGNPTVETLALLGAALDMP 66


>gi|170016495|ref|YP_001727414.1| transcriptional regulator [Leuconostoc citreum KM20]
 gi|169803352|gb|ACA81970.1| Predicted transcriptional regulator [Leuconostoc citreum KM20]
          Length = 131

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/82 (18%), Positives = 38/82 (46%), Gaps = 1/82 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-FDV 76
          +++  R   G+SQE +   L ++ Q + ++E G      + L  ++E+LE+ +       
Sbjct: 8  QLKRMRTERGLSQEDIANQLFVSRQAISRWESGDATPDLTNLVKLAEILETSLDSLVLGT 67

Query: 77 SPTVCSDISSEENNVMDFISTP 98
               + +  ++ +  +F+  P
Sbjct: 68 VQQEETAVDVDKIDKHEFMFDP 89


>gi|161520269|ref|YP_001583696.1| XRE family transcriptional regulator [Burkholderia multivorans
          ATCC 17616]
 gi|160344319|gb|ABX17404.1| transcriptional regulator, XRE family [Burkholderia multivorans
          ATCC 17616]
          Length = 200

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R    ++  +L E +G +   + + E+G++R   + L  I E L  P ++F+ +S 
Sbjct: 29 IRDLRKHRKVTLSELAERIGRSVGFLSQVERGLSRPTVADLTAIGEALGVPTTYFYSLSK 88

Query: 79 T 79
           
Sbjct: 89 P 89


>gi|153955364|ref|YP_001396129.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219855783|ref|YP_002472905.1| hypothetical protein CKR_2440 [Clostridium kluyveri NBRC 12016]
 gi|146348222|gb|EDK34758.1| Transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219569507|dbj|BAH07491.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 78

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 24/52 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           R++  R  LG++QE+LG+ +G++ Q +   E             IS +   
Sbjct: 3  NRLKELRESLGLTQEQLGKLVGVSRQAINAIETEKFEPSIWLAYDISNIFNC 54


>gi|118588465|ref|ZP_01545874.1| hypothetical protein SIAM614_24327 [Stappia aggregata IAM 12614]
 gi|118439171|gb|EAV45803.1| hypothetical protein SIAM614_24327 [Stappia aggregata IAM 12614]
          Length = 479

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/116 (19%), Positives = 46/116 (39%), Gaps = 11/116 (9%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
           G  +R  R   G+SQ +  + +G++   V + E     V AS L  I+ +    +S F  
Sbjct: 8   GHTLRQIRSDFGLSQVEFAKKIGLSTAYVNQIENNNRPVTASVLLTINRIFGVDLSAFEQ 67

Query: 74  --FDVSPTVCSDISSEENNVMDFISTPDGLQLN-RYFIQIDDVKVRQKIIELVRSI 126
              D       +I ++   +   +   +  +L  R         V + I++L  ++
Sbjct: 68  NDLDRVVQDLQEIFADTQFLTASVGRQEVHELVSRA------PGVTKAIMDLYGAL 117


>gi|147921238|ref|YP_684949.1| putative transcription regulator [uncultured methanogenic
          archaeon RC-I]
 gi|110620345|emb|CAJ35623.1| putative transcription regulator [uncultured methanogenic
          archaeon RC-I]
          Length = 68

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 25/64 (39%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R    M+QE L + +G++ Q +   EK       S    ++      I   F+   
Sbjct: 5  LKELRARHNMTQEDLAQKVGVSRQTIVAIEKQKYDPSLSLAFRLARCFGVKIEDIFEEDT 64

Query: 79 TVCS 82
           V +
Sbjct: 65 DVQN 68


>gi|52141788|ref|YP_085042.1| transcriptional regulator [Bacillus cereus E33L]
 gi|51975257|gb|AAU16807.1| conserved hypothetical protein; possible transcriptional
          regulator [Bacillus cereus E33L]
          Length = 145

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R    ++Q++L E +G++ + +  YE          L  +++       + 
Sbjct: 5  IGLRIKSLRKKENLTQKQLAEKIGVSQRMIGYYESEERFPPHDVLSKLADCFSVSADYL 63


>gi|49484901|ref|YP_042125.1| hypothetical protein SAR2791 [Staphylococcus aureus subsp. aureus
          MRSA252]
 gi|221142464|ref|ZP_03566957.1| hypothetical protein SauraJ_12647 [Staphylococcus aureus subsp.
          aureus str. JKD6009]
 gi|257424188|ref|ZP_05600617.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus 55/2053]
 gi|257426865|ref|ZP_05603267.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus 65-1322]
 gi|257429501|ref|ZP_05605888.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus 68-397]
 gi|257432148|ref|ZP_05608511.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus E1410]
 gi|257435109|ref|ZP_05611160.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus M876]
 gi|282907039|ref|ZP_06314887.1| hypothetical protein SDAG_00526 [Staphylococcus aureus subsp.
          aureus Btn1260]
 gi|282910017|ref|ZP_06317825.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus WW2703/97]
 gi|282912265|ref|ZP_06320061.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus WBG10049]
 gi|282912905|ref|ZP_06320697.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus M899]
 gi|282922533|ref|ZP_06330223.1| hypothetical protein SARG_00185 [Staphylococcus aureus subsp.
          aureus C101]
 gi|283959476|ref|ZP_06376917.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus A017934/97]
 gi|293497958|ref|ZP_06665812.1| hypothetical protein SCAG_00531 [Staphylococcus aureus subsp.
          aureus 58-424]
 gi|293511548|ref|ZP_06670242.1| hypothetical protein SAZG_00185 [Staphylococcus aureus subsp.
          aureus M809]
 gi|293550157|ref|ZP_06672829.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus M1015]
 gi|295429288|ref|ZP_06821910.1| hypothetical protein SIAG_01497 [Staphylococcus aureus subsp.
          aureus EMRSA16]
 gi|297589210|ref|ZP_06947851.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus MN8]
 gi|304379939|ref|ZP_07362668.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus ATCC BAA-39]
 gi|49243030|emb|CAG41764.1| putative membrane protein [Staphylococcus aureus subsp. aureus
          MRSA252]
 gi|257273206|gb|EEV05308.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus 55/2053]
 gi|257276496|gb|EEV07947.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus 65-1322]
 gi|257279982|gb|EEV10569.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus 68-397]
 gi|257283027|gb|EEV13159.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus E1410]
 gi|257285705|gb|EEV15821.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus M876]
 gi|269942291|emb|CBI50706.1| putative membrane protein [Staphylococcus aureus subsp. aureus
          TW20]
 gi|282314754|gb|EFB45140.1| hypothetical protein SARG_00185 [Staphylococcus aureus subsp.
          aureus C101]
 gi|282323005|gb|EFB53324.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus M899]
 gi|282323961|gb|EFB54277.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus WBG10049]
 gi|282326083|gb|EFB56388.1| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus WW2703/97]
 gi|282329938|gb|EFB59459.1| hypothetical protein SDAG_00526 [Staphylococcus aureus subsp.
          aureus Btn1260]
 gi|283789068|gb|EFC27895.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus A017934/97]
 gi|290919204|gb|EFD96280.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus M1015]
 gi|291096889|gb|EFE27147.1| hypothetical protein SCAG_00531 [Staphylococcus aureus subsp.
          aureus 58-424]
 gi|291465506|gb|EFF08038.1| hypothetical protein SAZG_00185 [Staphylococcus aureus subsp.
          aureus M809]
 gi|295127047|gb|EFG56691.1| hypothetical protein SIAG_01497 [Staphylococcus aureus subsp.
          aureus EMRSA16]
 gi|297577721|gb|EFH96434.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus MN8]
 gi|302752583|gb|ADL66760.1| transcriptional regulator, Cro/CI family [Staphylococcus aureus
          subsp. aureus str. JKD6008]
 gi|304341519|gb|EFM07429.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus ATCC BAA-39]
 gi|312436868|gb|ADQ75939.1| cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus TCH60]
 gi|315195216|gb|EFU25604.1| hypothetical protein CGSSa00_04112 [Staphylococcus aureus subsp.
          aureus CGS00]
 gi|329315426|gb|AEB89839.1| Cro/CI family transcriptional regulator [Staphylococcus aureus
          subsp. aureus T0131]
          Length = 189

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 30/72 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+ K+I+  R   G SQE L E L ++ Q +  +E   +      L  + ++    +  
Sbjct: 1  MNLSKQIKKYRERDGYSQEYLAEKLYVSRQSISNWENDKSLPDIHNLLMMCDLFNVTLDD 60

Query: 73 FFDVSPTVCSDI 84
              +     DI
Sbjct: 61 LVKGTIPFAPDI 72


>gi|322382691|ref|ZP_08056546.1| transcriptional regulator-like protein [Paenibacillus larvae
          subsp. larvae B-3650]
 gi|321153337|gb|EFX45770.1| transcriptional regulator-like protein [Paenibacillus larvae
          subsp. larvae B-3650]
          Length = 110

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G RI+  R   G++Q++L E LG+    +  YE G      + L+ ++++      +
Sbjct: 7  KQMGLRIKKLREEKGLTQDELAEMLGMKRTNIANYEAGRVIPPGNVLRDLADIFAVSTDY 66

Query: 73 F 73
           
Sbjct: 67 L 67


>gi|293371781|ref|ZP_06618191.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides ovatus SD CMC 3f]
 gi|292633233|gb|EFF51804.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides ovatus SD CMC 3f]
          Length = 70

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 31/66 (46%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++   G R+R +R+ L +SQEKL     I    +   E G   V  +  + I++ L  P+
Sbjct: 3  INELFGIRVREQRIALNLSQEKLANIADIDRTYLPDIENGKRNVSLAVAEKIAKALNVPL 62

Query: 71 SFFFDV 76
          +   + 
Sbjct: 63 TKLLET 68


>gi|255037817|ref|YP_003088438.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
          18053]
 gi|254950573|gb|ACT95273.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
          18053]
          Length = 109

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G   R  R   G+SQE LG  L ++   + + E    R+    LQ+++  L+  ++
Sbjct: 28 GSNFRKLREWAGLSQEALGASLNVSASVINRIENNKRRLDIQILQNLANALQLDVA 83


>gi|147920208|ref|YP_686025.1| transcription regulator [uncultured methanogenic archaeon RC-I]
 gi|121683053|sp|Q0W4J4|Y1526_UNCMA RecName: Full=Putative HTH-type transcriptional regulatory protein
           UNCMA_15260
 gi|110621421|emb|CAJ36699.1| predicted transcription regulator [uncultured methanogenic archaeon
           RC-I]
          Length = 324

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           G+ +R  R    +S  +L   LG++ + + KYE G+N         + E+L++PI+
Sbjct: 129 GETLRSLREAKNISLGELAMALGVSRRTISKYESGMN-ATIEAALKLEEILDAPIA 183


>gi|313899270|ref|ZP_07832786.1| cupin domain protein [Clostridium sp. HGF2]
 gi|312955950|gb|EFR37602.1| cupin domain protein [Clostridium sp. HGF2]
          Length = 195

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/75 (17%), Positives = 37/75 (49%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++ N+G+ I+ RR    M+ + + E   ++   + + E+G+  +    L+ +++ L   
Sbjct: 4  YMNKNIGELIKQRRTENKMTLKDISEATELSIGYLSQLERGLTSIAHDTLKKVAKALGVE 63

Query: 70 ISFFFDVSPTVCSDI 84
          +++F +   T    +
Sbjct: 64 MTYFMEQPKTKEKAV 78


>gi|313207294|ref|YP_004046471.1| helix-turn-helix domain protein [Riemerella anatipestifer DSM
          15868]
 gi|312446610|gb|ADQ82965.1| helix-turn-helix domain protein [Riemerella anatipestifer DSM
          15868]
 gi|315023411|gb|EFT36420.1| XRE family transcriptional regulator [Riemerella anatipestifer
          RA-YM]
 gi|325335232|gb|ADZ11506.1| transcriptional regulator, XRE family [Riemerella anatipestifer
          RA-GD]
          Length = 108

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 31/58 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +GK I+  R    ++QE+LG+ +G+   Q+ K E   N      +  + + L++ I+F
Sbjct: 39 LGKMIKTARQERNLTQEQLGQIVGVQKSQISKLESSANSATIDTIIKVFKALKAEINF 96


>gi|291550352|emb|CBL26614.1| Predicted transcription factor, homolog of eukaryotic MBF1
          [Ruminococcus torques L2-14]
          Length = 119

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 35/85 (41%), Gaps = 1/85 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FFF 74
          G+ I+  R   G+S+ +L + L I  + +   E          L  +  +L+  +  FFF
Sbjct: 14 GQAIKAARKAKGISRNQLADKLNIAPRYIASIENSGQHPSLQILYELVTLLDVSVDQFFF 73

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
                 S    + + ++D +S  D
Sbjct: 74 PEREQEKSTRRRQLDTMLDGMSEKD 98


>gi|300774128|ref|ZP_07083997.1| helix-turn-helix domain protein [Sphingobacterium spiritivorum
          ATCC 33861]
 gi|300760299|gb|EFK57126.1| helix-turn-helix domain protein [Sphingobacterium spiritivorum
          ATCC 33861]
          Length = 195

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 30/56 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   +  +R   G++Q+KL E  G+T + +Q+ EKG        LQ I+E L+  I
Sbjct: 6  ISFNLSQKRSDKGLTQQKLAEIAGLTTRTIQRIEKGEVIPQGYTLQRIAEALDISI 61


>gi|256397793|ref|YP_003119357.1| XRE family transcriptional regulator [Catenulispora acidiphila DSM
           44928]
 gi|256364019|gb|ACU77516.1| transcriptional regulator, XRE family [Catenulispora acidiphila DSM
           44928]
          Length = 200

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/100 (22%), Positives = 37/100 (37%), Gaps = 5/100 (5%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
             + +D  VG R+R  R   G++   L E  GI    + + E G  +     L  ++EV 
Sbjct: 15  RRHVLDA-VGPRLRELRHRRGLTLADLAERTGINESTLSRLEGGARKPTLELLLPLAEVY 73

Query: 67  ESPISFFFD----VSPTVCSDISSEENNVMDFISTPDGLQ 102
             P+           P +     +        +S P G+Q
Sbjct: 74  AVPLDDLVGAPRTGDPRIHLRPVNRHGMTHIPLSQPGGVQ 113


>gi|268590685|ref|ZP_06124906.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291314079|gb|EFE54532.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 84

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++  R   G+++ +L   L I+ QQV +YE G  ++   R+    E+     ++F
Sbjct: 16 LKKLRKQNGITEGELAILLKISQQQVSRYENGKTQLTIGRVNQYLEIFGLDWNYF 70


>gi|254455584|ref|ZP_05069013.1| transcriptional regulator, XRE family [Candidatus Pelagibacter sp.
           HTCC7211]
 gi|207082586|gb|EDZ60012.1| transcriptional regulator, XRE family [Candidatus Pelagibacter sp.
           HTCC7211]
          Length = 477

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 25/111 (22%), Positives = 43/111 (38%), Gaps = 6/111 (5%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ +G +I+  R  LG+   KL E L I+   +   E G  ++    L  + E L   +
Sbjct: 4   LDLKIGPKIKAFRRQLGLQANKLAEDLSISPSYLNLIESGKRKIDGDLLLKVCEKLNIEL 63

Query: 71  SFFFDVSPTVCSDISSEE-----NNVMDFISTPDGLQLNRYFIQIDDVKVR 116
           S     +     +  SE         +D +  P+   L     +I    VR
Sbjct: 64  SHLTSKTDINLQNTISEILDDKLFEDLDILG-PEVKDLVSTNPKIGKAIVR 113


>gi|172064645|ref|YP_001812295.1| XRE family transcriptional regulator [Burkholderia ambifaria
          MC40-6]
 gi|171998130|gb|ACB69046.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          MC40-6]
          Length = 140

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/49 (32%), Positives = 26/49 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          + +G+R+   R   G++Q +L   LG++ Q  Q YE G  R+  S L  
Sbjct: 15 VALGERMAQFRKARGITQVQLATTLGVSQQTYQSYEVGRRRIQVSALAD 63


>gi|66396007|ref|YP_240340.1| ORF046 [Staphylococcus phage ROSA]
 gi|62636427|gb|AAX91538.1| ORF046 [Staphylococcus phage ROSA]
          Length = 107

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 10/85 (11%), Positives = 33/85 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I+  R    ++       +G+    + +YE G  ++    +  I+  L+    +  
Sbjct: 7  IGKLIKQLRKENNVNLTDFATKIGVNKSTLSRYENGSGKIPMEDIAEIANALKVTPEYLL 66

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            +    +++     ++   ++  +
Sbjct: 67 LKNRQTENEVQHRAAHLEGELTDDE 91


>gi|54023278|ref|YP_117520.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
 gi|54014786|dbj|BAD56156.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
          Length = 187

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/106 (16%), Positives = 32/106 (30%), Gaps = 4/106 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +   +R  R   G+S  ++    GI    + + E G        L  +   L+ P S   
Sbjct: 13  IAASLRRERTRAGLSLSEVAARAGIAKSTLSQLESGSGNPSLETLWALCVALDMPFSRLL 72

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           D    V   I + E   +    +     L            R+ + 
Sbjct: 73  DPPRPVVHVIRAGEGPAVAAERSDYHATLLAA----GPSNTRRDLF 114


>gi|296277306|ref|ZP_06859813.1| phage repressor [Staphylococcus aureus subsp. aureus MR1]
          Length = 107

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 10/85 (11%), Positives = 33/85 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I+  R    ++       +G+    + +YE G  ++    +  I+  L+    +  
Sbjct: 7  IGKLIKQLRKENNVNLTDFATKIGVNKSTLSRYENGSRKIPMEDIAEIANALKVTPEYLL 66

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            +    +++     ++   ++  +
Sbjct: 67 LKNRQPENEVQHRAAHLEGELTDDE 91


>gi|255658093|ref|ZP_05403502.1| toxin-antitoxin system, antitoxin component, Xre family
          [Mitsuokella multacida DSM 20544]
 gi|260849858|gb|EEX69865.1| toxin-antitoxin system, antitoxin component, Xre family
          [Mitsuokella multacida DSM 20544]
          Length = 143

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/80 (18%), Positives = 32/80 (40%), Gaps = 1/80 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R  R   G+SQ ++   LGIT     KYE G +     +L+ ++++      +    
Sbjct: 6  QRLRALRKREGLSQTEVARILGITRTAYNKYESGASAPS-RKLRELAQLYHVSTDYILGE 64

Query: 77 SPTVCSDISSEENNVMDFIS 96
             +   +   +      + 
Sbjct: 65 EDALAEKLREADARTSSHLR 84


>gi|255655401|ref|ZP_05400810.1| MerR family transcriptional regulator [Clostridium difficile
          QCD-23m63]
 gi|296451389|ref|ZP_06893127.1| MerR family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296880261|ref|ZP_06904226.1| MerR family transcriptional regulator [Clostridium difficile
          NAP07]
 gi|296259805|gb|EFH06662.1| MerR family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296428704|gb|EFH14586.1| MerR family transcriptional regulator [Clostridium difficile
          NAP07]
          Length = 188

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 38/80 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+++R  R     +   + +   ++   + + E+       S L+ I+EVL++P+  F 
Sbjct: 2  LGEKMRNIRKSKKKTLSDVSKLTDLSISYISQIERDAIEPSLSSLRKIAEVLDTPLYMFM 61

Query: 75 DVSPTVCSDISSEENNVMDF 94
          D + T    I  E+  +M F
Sbjct: 62 DDNNTDDLVIRKEDRVMMKF 81


>gi|255519172|ref|ZP_05386848.1| hypothetical protein CdifQCD-_18829 [Clostridium difficile
           QCD-97b34]
          Length = 124

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/112 (12%), Positives = 42/112 (37%), Gaps = 13/112 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R+   + Q+  G+ LG++  Q+  YE G  ++    +  I         +    
Sbjct: 13  QRLKDIRLSKKLKQKDFGKKLGLSLSQISSYETGHRKIPQRTINDICREFNVNEQWLLHG 72

Query: 77  SPTVCSDISSEENNVMDFIS-----------TPDGLQLN--RYFIQIDDVKV 115
              +  DI+ +     +  +             + ++      +++I + ++
Sbjct: 73  EGEMFVDITEDLETSEEIKTMIKKIFALEDEDREAIEKIIDNAYLKIKNEEL 124


>gi|254418301|ref|ZP_05032025.1| hypothetical protein BBAL3_611 [Brevundimonas sp. BAL3]
 gi|196184478|gb|EDX79454.1| hypothetical protein BBAL3_611 [Brevundimonas sp. BAL3]
          Length = 67

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 24/65 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R     SQ  L E LG++ Q V   E G           I+ + + PI   F  
Sbjct: 3  NRLKVLRAERDWSQAHLAELLGVSRQTVNALETGRYDPSLPLAFKIARIFDQPIESIFSE 62

Query: 77 SPTVC 81
               
Sbjct: 63 EENNG 67


>gi|187777637|ref|ZP_02994110.1| hypothetical protein CLOSPO_01229 [Clostridium sporogenes ATCC
          15579]
 gi|187774565|gb|EDU38367.1| hypothetical protein CLOSPO_01229 [Clostridium sporogenes ATCC
          15579]
          Length = 78

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI+  R + G++QE+LG+ +G++ Q +   E             I ++    I   F F
Sbjct: 3  NRIKEFREVFGLTQEQLGKLVGVSRQAINAIETEKFEPSIWLAYDICKIFHRSIEEVFLF 62

Query: 75 DVSP 78
          + S 
Sbjct: 63 EESE 66


>gi|146298229|ref|YP_001192820.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
          UW101]
 gi|146152647|gb|ABQ03501.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
          UW101]
          Length = 138

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           ++G+ I   R +  M QE L + LG + Q +   E     +  ++L+ +++ L  
Sbjct: 8  KHIGRNISRIRELRDMKQEALAQALGTSQQTISAIENSET-IDDAKLEEVAKALGV 62


>gi|52080997|ref|YP_079788.1| transcriptional regulator [Bacillus licheniformis ATCC 14580]
 gi|52004208|gb|AAU24150.1| transcriptional regulator [Bacillus licheniformis ATCC 14580]
          Length = 111

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/87 (22%), Positives = 36/87 (41%), Gaps = 4/87 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+RI+  R   G S  +L E  G+    +   E+ +        L+ +S VL+  +   
Sbjct: 2  IGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 61

Query: 74 FDVSPTVCSDISSE---ENNVMDFIST 97
           D       D   +   EN V D +++
Sbjct: 62 LDEKDETEYDGQLDSEWENLVRDAMAS 88


>gi|60682937|ref|YP_213081.1| putative DNA-binding protein [Bacteroides fragilis NCTC 9343]
 gi|60494371|emb|CAH09167.1| putative DNa-binding protein [Bacteroides fragilis NCTC 9343]
          Length = 140

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 34/74 (45%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V+  +G+ ++  R + G +QE++ + + I       YE G   +  + L+ IS +     
Sbjct: 27  VNQIIGENLKKIRELSGFTQEQVAQSIKIERSTYSNYEGGTREIPYTILEDISNLFGCEP 86

Query: 71  SFFFDVSPTVCSDI 84
              F+ +    ++I
Sbjct: 87  FILFEDNIQTNNEI 100


>gi|315268235|gb|ADT95088.1| transcriptional regulator, XRE family [Shewanella baltica OS678]
          Length = 204

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 42/85 (49%), Gaps = 2/85 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ +R++  R  LGM+Q +L + +      +QK E+G  +     ++ +++ L++   F
Sbjct: 1  MDIAERVKRLRKALGMTQYELADLVSTAQTSIQKLERGDTK-NPRNIEALAKALQTTPEF 59

Query: 73 F-FDVSPTVCSDISSEENNVMDFIS 96
            F V     + + +   N +  IS
Sbjct: 60 LRFGVGELDNATVVASAGNYLPLIS 84


>gi|294664260|ref|ZP_06729632.1| transcriptional regulator [Xanthomonas fuscans subsp.
          aurantifolii str. ICPB 10535]
 gi|292605970|gb|EFF49249.1| transcriptional regulator [Xanthomonas fuscans subsp.
          aurantifolii str. ICPB 10535]
          Length = 113

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 4/74 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R+R  R    ++QE LG   G    +   ++ +YEKGVN       + +++ L  P++ 
Sbjct: 12 NRLRHARQKAELTQEALGVAAGLAPEVARTRINRYEKGVNECDLRTAKRLADALGMPLAA 71

Query: 73 FFDVSPTVCSDISS 86
          FF  +  V   I +
Sbjct: 72 FFAETDEVADAIQA 85


>gi|282880753|ref|ZP_06289450.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella timonensis CRIS 5C-B1]
 gi|281305374|gb|EFA97437.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella timonensis CRIS 5C-B1]
          Length = 112

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 30/55 (54%), Gaps = 1/55 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ I+  R+   ++QE+LGE +G+   Q+ + EKG + +    +  + + L   
Sbjct: 44 IGEAIKKARVEQNLTQEELGERIGVKRAQISRLEKGYS-ISIPTMSKVFKALGVS 97


>gi|226325982|ref|ZP_03801500.1| hypothetical protein COPCOM_03796 [Coprococcus comes ATCC 27758]
 gi|225205524|gb|EEG87878.1| hypothetical protein COPCOM_03796 [Coprococcus comes ATCC 27758]
          Length = 219

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 25/108 (23%), Positives = 44/108 (40%), Gaps = 13/108 (12%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   KK        VG+R++ RR  L ++  +LG+ +G+    +Q+YE   + V   R  
Sbjct: 1   MKTLKKEITFTAKQVGERVKERRTELNLTMPELGKRIGVNKSTIQRYE--ADGVDPKRTM 58

Query: 61  HI---SEVLESPISFF--------FDVSPTVCSDISSEENNVMDFIST 97
            I   +E L +   +         +D       D+       +D +ST
Sbjct: 59  IINGLAEALLTTPEWLTGLSEDKEYDSRTLCEKDLEEHIKKYIDIVST 106


>gi|255601036|ref|XP_002537591.1| conserved hypothetical protein [Ricinus communis]
 gi|223515814|gb|EEF24793.1| conserved hypothetical protein [Ricinus communis]
          Length = 109

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 28/69 (40%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          + P P+ + +GKR++  R     SQE L    G+    +   E+G+       L  I   
Sbjct: 11 RSPTPISVALGKRLKECRHAAEKSQETLAFEAGVDRVYISSIERGLANPSVETLATICYS 70

Query: 66 LESPISFFF 74
          L   +   F
Sbjct: 71 LGVTLGELF 79


>gi|254420279|ref|ZP_05034003.1| conserved domain protein [Brevundimonas sp. BAL3]
 gi|196186456|gb|EDX81432.1| conserved domain protein [Brevundimonas sp. BAL3]
          Length = 371

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 32/68 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             G+++RL R+  G S E +GE +  T Q + + E G        ++ +++VL    +F
Sbjct: 6  RFAGEQLRLARLAHGYSLEDVGERISATRQFIHQLETGSRSPSDEVMEALADVLGVTPAF 65

Query: 73 FFDVSPTV 80
               P+ 
Sbjct: 66 LAAAIPST 73


>gi|118479657|ref|YP_896808.1| DNA-binding protein [Bacillus thuringiensis str. Al Hakam]
 gi|118418882|gb|ABK87301.1| DNA-binding protein [Bacillus thuringiensis str. Al Hakam]
          Length = 190

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/103 (22%), Positives = 42/103 (40%), Gaps = 10/103 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S  
Sbjct: 15  QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLSRL 74

Query: 74  FDVSPTVCSDISSEENNVMD---------FISTPD-GLQLNRY 106
             V   V      E   V           F  T + G++++R 
Sbjct: 75  MVVGEPVAVARCGEGFAVDAGQAWHLETMFRYTKETGMEMHRA 117


>gi|325068599|ref|ZP_08127272.1| transcriptional regulator, XRE family protein [Actinomyces oris
          K20]
          Length = 76

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 28/67 (41%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  V  RI + R    +S+ +L E LG+ +Q V   E+G           I+   + P+ 
Sbjct: 5  DDFVHNRIAVLRADRRVSRRELAEALGVHYQTVGYLERGEYAPSLHLALRIARYFDVPVE 64

Query: 72 FFFDVSP 78
            F +  
Sbjct: 65 SVFSLEE 71


>gi|300857155|ref|YP_003782139.1| transcriptional regulator [Clostridium ljungdahlii DSM 13528]
 gi|300437270|gb|ADK17037.1| transcriptional regulator [Clostridium ljungdahlii DSM 13528]
          Length = 371

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K +  +R    ++Q+KL E +G++   V K+E G +    + L  ++      I  
Sbjct: 4  INIAKTLVAKRKEKAITQDKLAEYIGVSKASVSKWETGQSYPDITFLPQLAAYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  D
Sbjct: 64 LIGYEPQMTKD 74


>gi|212703137|ref|ZP_03311265.1| hypothetical protein DESPIG_01176 [Desulfovibrio piger ATCC 29098]
 gi|212673403|gb|EEB33886.1| hypothetical protein DESPIG_01176 [Desulfovibrio piger ATCC 29098]
          Length = 117

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/96 (23%), Positives = 44/96 (45%), Gaps = 3/96 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG  I  RR +LG +Q    E LG+    + + E+G+      RL+ I+E+LE  ++ 
Sbjct: 15  VIVGANITARRKLLGWNQAAFAERLGMGADSLSRIERGLVAPRFQRLEEIAEILECSVAE 74

Query: 73  FF---DVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            F   +       + SS +   +  ++  + + L  
Sbjct: 75  LFMTQEDLEKYRINFSSPKQEELPTVTRSEIIFLAE 110


>gi|210610920|ref|ZP_03288645.1| hypothetical protein CLONEX_00835 [Clostridium nexile DSM 1787]
 gi|210152220|gb|EEA83227.1| hypothetical protein CLONEX_00835 [Clostridium nexile DSM 1787]
          Length = 192

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 4/76 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI+  R   G++Q +LG  LG        ++ +YE          L  I+++L  
Sbjct: 1  MVLGERIKRIRTFRGLTQRELGLKLGYEERNADVRIAQYESSYRVPKKDTLMEIAKILNI 60

Query: 69 PISFFFDVSPTVCSDI 84
              F   +P    DI
Sbjct: 61 NYINFVTEAPGCAEDI 76


>gi|188590232|ref|YP_001921142.1| transcriptional regulator [Clostridium botulinum E3 str. Alaska
          E43]
 gi|188500513|gb|ACD53649.1| transcriptional regulator [Clostridium botulinum E3 str. Alaska
          E43]
          Length = 134

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 24/66 (36%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R    ++Q  LG  LG+    +  YE G +         I+   +  + +    S
Sbjct: 7  RIKDLRKSKKLTQTDLGRILGVGKTTISMYENGNSTPNDEIKFKIAAFFDVTLDYLLGKS 66

Query: 78 PTVCSD 83
               D
Sbjct: 67 DIKKYD 72


>gi|196048466|ref|ZP_03115641.1| prophage LambdaBa04, DNA-binding protein [Bacillus cereus
          03BB108]
 gi|196020723|gb|EDX59455.1| prophage LambdaBa04, DNA-binding protein [Bacillus cereus
          03BB108]
          Length = 114

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 26/59 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I  G+ ++  R    ++Q +L E L ++  Q++ +E G  +     L  I+      + 
Sbjct: 2  IIFGQTLKQLRKSRDLTQAELAEALNLSQSQIKNWETGRFQPDIETLASIASFFNVSLD 60


>gi|146339002|ref|YP_001204050.1| XRE family transcriptional regulator [Bradyrhizobium sp. ORS278]
 gi|146191808|emb|CAL75813.1| putative transcriptional regulator, XRE family [Bradyrhizobium sp.
           ORS278]
          Length = 481

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 31/112 (27%), Positives = 47/112 (41%), Gaps = 15/112 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG R R  R  LG+SQ +L E LGI+   V   E+    V A  L  ++EV +     
Sbjct: 9   LFVGPRFRRIRQQLGLSQTQLAEGLGISPSYVNLIERNQRPVSAQILLRLAEVYD----- 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
             D+     +D       + +  S P        F QI+  K  Q++ +L  
Sbjct: 64  -LDLRDLATADEDRFFAELNEIFSDP-------LFRQIELPK--QELRDLAE 105


>gi|332828460|gb|EGK01165.1| hypothetical protein HMPREF9455_00205 [Dysgonomonas gadei ATCC
          BAA-286]
          Length = 184

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 35/74 (47%), Gaps = 2/74 (2%)

Query: 11 VDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +DI  +G+R++  R  L M+QE+      I  ++  KYE G   +  S L+ I+      
Sbjct: 3  IDIKEIGQRLKGLREALDMTQEQFAASCNIPLEEYVKYESGEKDLTISVLKGIASAHNVD 62

Query: 70 ISFF-FDVSPTVCS 82
          +S   F   P + S
Sbjct: 63 VSVLMFADEPRMSS 76


>gi|319789030|ref|YP_004150663.1| transcriptional regulator, XRE family [Thermovibrio ammonificans
          HB-1]
 gi|317113532|gb|ADU96022.1| transcriptional regulator, XRE family [Thermovibrio ammonificans
          HB-1]
          Length = 222

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 39/87 (44%), Gaps = 5/87 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++V +R+R  R  LG+SQ K+ + LG++ +  Q+YE+    +    L+ I         +
Sbjct: 1  MSVNERLRKLREHLGLSQSKMAKELGVSLKTYQRYEQVGYDIPERALRQIEATFNVNPEW 60

Query: 73 FFDVSPTVCSDISSEENNVMDFISTPD 99
                 +    +  +      I+TP+
Sbjct: 61 LRQGKGEMFRPKTEAQ-----IIATPE 82


>gi|253566069|ref|ZP_04843523.1| conserved hypothetical protein [Bacteroides sp. 3_2_5]
 gi|251945173|gb|EES85611.1| conserved hypothetical protein [Bacteroides sp. 3_2_5]
          Length = 117

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 34/74 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+  +G+ ++  R + G +QE++ + + I       YE G   +  + L+ IS +     
Sbjct: 4  VNQIIGENLKKIRELSGFTQEQVAQSIKIERSTYSNYEGGTREIPYTILEDISNLFGCEP 63

Query: 71 SFFFDVSPTVCSDI 84
             F+ +    ++I
Sbjct: 64 FILFEDNIQTNNEI 77


>gi|227432664|ref|ZP_03914637.1| transcriptional regulator [Leuconostoc mesenteroides subsp.
          cremoris ATCC 19254]
 gi|227351546|gb|EEJ41799.1| transcriptional regulator [Leuconostoc mesenteroides subsp.
          cremoris ATCC 19254]
          Length = 68

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI+  R    ++Q +L   L +T Q V   EKG           I+E  + PI   F F
Sbjct: 3  NRIQELRKSRKLTQAELAAELEVTRQTVLSLEKGKYNASLFLAHRIAEFFDLPIEDVFIF 62

Query: 75 DVSP 78
          +   
Sbjct: 63 EGGK 66


>gi|218899660|ref|YP_002448071.1| DNA-binding protein [Bacillus cereus G9842]
 gi|218541106|gb|ACK93500.1| DNA-binding protein [Bacillus cereus G9842]
          Length = 190

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/103 (22%), Positives = 42/103 (40%), Gaps = 10/103 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG+ +R  R    +S E+L    G++   + K E+G      + +  I++ L  P+S  
Sbjct: 15  QVGQLLRQIRNEQKLSLEELAHKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLSRL 74

Query: 74  FDVSPTVCSDISSEENNVMD---------FISTPD-GLQLNRY 106
             V   V      E   V +         F  T + G++++R 
Sbjct: 75  MVVGEPVAVARCGEGFAVDEGQAWHLETMFRYTKETGMEMHRA 117


>gi|196032247|ref|ZP_03099661.1| DNA-binding protein [Bacillus cereus W]
 gi|228915928|ref|ZP_04079503.1| hypothetical protein bthur0012_31460 [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
 gi|195994998|gb|EDX58952.1| DNA-binding protein [Bacillus cereus W]
 gi|228843746|gb|EEM88820.1| hypothetical protein bthur0012_31460 [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
          Length = 374

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKVIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LISYKPQMEQE 74


>gi|160916078|ref|ZP_02078285.1| hypothetical protein EUBDOL_02105 [Eubacterium dolichum DSM 3991]
 gi|158431802|gb|EDP10091.1| hypothetical protein EUBDOL_02105 [Eubacterium dolichum DSM 3991]
          Length = 129

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/96 (25%), Positives = 45/96 (46%), Gaps = 12/96 (12%)

Query: 23  RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
           R   G +QE+L   L +  Q V K+EKG++   A  L  I+++L++ +S     + +   
Sbjct: 2   RKAKGYTQEELAIKLNVVRQTVSKWEKGLSVPDAHILSKIADILDTKVSILLGSTISDEI 61

Query: 83  DISSEENNVMDFIST-PDGLQLNRYFIQIDDVKVRQ 117
           D    EN V + ++   + L        I + + R+
Sbjct: 62  D----ENAVAEQLAKISEQL-------AIKNRRNRK 86


>gi|149915319|ref|ZP_01903846.1| transcriptional regulator, XRE family protein [Roseobacter sp.
           AzwK-3b]
 gi|149810608|gb|EDM70449.1| transcriptional regulator, XRE family protein [Roseobacter sp.
           AzwK-3b]
          Length = 466

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/141 (13%), Positives = 54/141 (38%), Gaps = 25/141 (17%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R  LG++Q+     LG++   + + E     V  + +  +++        
Sbjct: 6   LYAGAKLRETRQRLGLTQKDFATKLGVSLPYLNQMENNNRPVSTTVVLALAQEFG----- 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP-----------------DGLQLNRYFIQIDDV-- 113
            FDV+     D     +++ + ++ P                 +   L R F+++     
Sbjct: 61  -FDVTELSTGDAERMVSDMREALADPVFADDPPPLADLRLTASNAPALARAFLELHRAYR 119

Query: 114 KVRQKIIELVRSIVSSEKKYR 134
           +  +++  L  ++   + + +
Sbjct: 120 QTHERLASLDEALGREDSRTQ 140


>gi|118593092|ref|ZP_01550479.1| Transcriptional repressor [Stappia aggregata IAM 12614]
 gi|118434399|gb|EAV41053.1| Transcriptional repressor [Stappia aggregata IAM 12614]
          Length = 313

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 33/79 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I+  R  +  SQ +L + L  T Q V ++E G    G   L+ ++ +    +     + 
Sbjct: 2  KIKELREKMNWSQGELAKLLSRTQQTVSRWESGATEPGIEALRDMAMIFGCSVDDILGLE 61

Query: 78 PTVCSDISSEENNVMDFIS 96
              S+  +   +  D ++
Sbjct: 62 GISPSNKLTVSISHADALA 80


>gi|104781316|ref|YP_607814.1| transcriptional regulator [Pseudomonas entomophila L48]
 gi|95110303|emb|CAK15010.1| putative transcriptional regulator [Pseudomonas entomophila L48]
          Length = 186

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 31/65 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G + + L   +  +   + + E+G++R   + L  ISE L+ P ++F+   P
Sbjct: 15 VRDLRKHRGFTLDDLATRMNRSVGFLSQVERGLSRPTVADLTAISEALQVPTTYFYQAVP 74

Query: 79 TVCSD 83
              D
Sbjct: 75 PREID 79


>gi|94967258|ref|YP_589306.1| XRE family transcriptional regulator [Candidatus Koribacter
           versatilis Ellin345]
 gi|94549308|gb|ABF39232.1| transcriptional regulator, XRE family [Candidatus Koribacter
           versatilis Ellin345]
          Length = 119

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/90 (20%), Positives = 39/90 (43%), Gaps = 4/90 (4%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P  V+   G R+   R    +SQ +LG  +G++   +   E+G   V  ++   +++ L+
Sbjct: 19  PAIVNTLFGHRLGSARRARRISQTELGRRIGVSRVTIANIERGGQNVQIAQAFVLAKALD 78

Query: 68  SPISFFFDVSPTVCS-DISSEENNVMDFIS 96
                  ++ PT    + + +  N   F+ 
Sbjct: 79  IHP---MELIPTEHDVEEAHQPTNEDRFVR 105


>gi|20092778|ref|NP_618853.1| helix-turn-helix family protein [Methanosarcina acetivorans C2A]
 gi|19918074|gb|AAM07333.1| helix-turn-helix family protein [Methanosarcina acetivorans C2A]
          Length = 67

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            I++ R I  ++QE L E +G+T Q +   EKG           +S + ++ +   F
Sbjct: 3  NNIKVYRAIHDLTQENLAEKVGVTRQTINAIEKGKYDPSLDLAFKLSRLFKASVEDIF 60


>gi|148259560|ref|YP_001233687.1| XRE family transcriptional regulator [Acidiphilium cryptum JF-5]
 gi|326402766|ref|YP_004282847.1| Xre family transcriptional regulator [Acidiphilium multivorum
           AIU301]
 gi|146401241|gb|ABQ29768.1| putative transcriptional regulator, XRE family [Acidiphilium
           cryptum JF-5]
 gi|325049627|dbj|BAJ79965.1| Xre family transcriptional regulator [Acidiphilium multivorum
           AIU301]
          Length = 203

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 38/83 (45%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D  VG R+R  R I G++Q +L    G+T   +   E+G      S L+ I + +   ++
Sbjct: 22  DAGVGARLRRMRQIFGLTQRELARRAGVTNGAISLIEQGRVSPSISSLKKILDGIPMSLA 81

Query: 72  FFFDVSPTVCSDISSEENNVMDF 94
            FF +  T   D+     ++ + 
Sbjct: 82  EFFTLDLTAPEDVFFTAADLTEI 104


>gi|329948033|ref|ZP_08294934.1| DNA-binding helix-turn-helix protein [Actinomyces sp. oral taxon
          170 str. F0386]
 gi|328523172|gb|EGF50273.1| DNA-binding helix-turn-helix protein [Actinomyces sp. oral taxon
          170 str. F0386]
          Length = 62

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R   G++Q +LG  LG++ Q +   EKG           I+   E+ +   F
Sbjct: 5  VRSLREARGLTQAQLGAALGVSRQSINSIEKGKYDPSLPLAIAIARYFETAVEEIF 60


>gi|319785314|ref|YP_004144790.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
 gi|317171202|gb|ADV14740.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
          Length = 132

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 38/80 (47%), Gaps = 3/80 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK IRL RM   ++ ++L E +G++   +Q+ EKG  +V    +   + ++       FD
Sbjct: 41  GKTIRLGRMQHRLTGQELAERIGVSRSTLQRIEKGDPKVEIGLMFEAAAIVGV---KLFD 97

Query: 76  VSPTVCSDISSEENNVMDFI 95
                 + ++   ++ +  +
Sbjct: 98  ADGKAITALTGRMDDRIALL 117


>gi|302872695|ref|YP_003841331.1| helix-turn-helix domain protein [Caldicellulosiruptor obsidiansis
          OB47]
 gi|302575554|gb|ADL43345.1| helix-turn-helix domain protein [Caldicellulosiruptor obsidiansis
          OB47]
          Length = 100

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 12 DINVGK--RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          DI VG   +I   R+   +SQ++L   LGI+   V K E G        L  I++ L 
Sbjct: 30 DILVGIAVKIIQYRIKNNLSQKELAAKLGISQAMVSKLESGDYNPTVKMLYEIAQNLG 87


>gi|300811797|ref|ZP_07092268.1| helix-turn-helix protein [Lactobacillus delbrueckii subsp.
          bulgaricus PB2003/044-T3-4]
 gi|300497213|gb|EFK32264.1| helix-turn-helix protein [Lactobacillus delbrueckii subsp.
          bulgaricus PB2003/044-T3-4]
          Length = 136

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/73 (19%), Positives = 30/73 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++R  R   G+SQ++L E L  T  +V  +E G +    S +  ++ + +    +    
Sbjct: 5  SKLRDLRKKNGLSQKELAEKLMTTQAKVASWENGDSVPNISYIAKLAVLYDVSADYLLKD 64

Query: 77 SPTVCSDISSEEN 89
                +   E +
Sbjct: 65 DKQEGHEPGEEMD 77


>gi|239820585|ref|YP_002947770.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
 gi|239805438|gb|ACS22504.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 190

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 28/60 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++R  RM   +S   L +  GI+   + + E+G+       L+ +S+ L      FF
Sbjct: 9  IGAQVRALRMAADVSGGALAKASGISASMLSRIERGLVSPSVETLERLSKGLGVSAPRFF 68


>gi|229056560|ref|ZP_04195967.1| Transcriptional regulator [Bacillus cereus AH603]
 gi|228720773|gb|EEL72330.1| Transcriptional regulator [Bacillus cereus AH603]
          Length = 134

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 34/68 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +  R++  R+   +SQE+ G+ +G+T   V K+E G    G   L+ +S+     I +
Sbjct: 18 VEIKDRLKQIRIDSKLSQEQFGKEVGLTKGTVSKFENGKAFPGRETLEKVSKKFNVTIDY 77

Query: 73 FFDVSPTV 80
           +  S  +
Sbjct: 78 LYGKSKEI 85


>gi|288869818|ref|ZP_05976459.2| transcriptional regulator [Methanobrevibacter smithii DSM 2374]
 gi|288860382|gb|EFC92680.1| transcriptional regulator [Methanobrevibacter smithii DSM 2374]
          Length = 186

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 31/74 (41%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N  + N+G R++  R +  ++ +   E L I     ++YE G   + AS L  I+   + 
Sbjct: 5  NEYNKNIGNRVKELRELSDITIQDFAEELDIDETMYKQYENGEVDIPASFLCEIANKFQV 64

Query: 69 PISFFFDVSPTVCS 82
           +        T  +
Sbjct: 65 DLGLLLTGEETRMN 78


>gi|254510250|ref|ZP_05122317.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
           KLH11]
 gi|221533961|gb|EEE36949.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
           KLH11]
          Length = 155

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/82 (19%), Positives = 39/82 (47%), Gaps = 2/82 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G R+   R   GM+Q +L   LG+    +  +E  ++   A++L  ++ +L   I +   
Sbjct: 41  GDRVAGAREAAGMTQTQLARRLGVKKATIVAWEDDLSEPRANKLSMMAGMLNVSIMWLLT 100

Query: 75  -DVSPTVCSDISSEENNVMDFI 95
            +   TV + ++ + +  ++ +
Sbjct: 101 GEGDGTVATALAGDTDVELNQL 122


>gi|254381609|ref|ZP_04996973.1| DNA-binding protein [Streptomyces sp. Mg1]
 gi|194340518|gb|EDX21484.1| DNA-binding protein [Streptomyces sp. Mg1]
          Length = 231

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/99 (23%), Positives = 38/99 (38%), Gaps = 9/99 (9%)

Query: 1  MVGNKKIP--NPVDI-------NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV 51
          M   K  P  NP D+       ++G+RI  RR  LG+S+E+LG   G     +   E+  
Sbjct: 1  MSAMKSTPSTNPQDVSETAGRTDLGRRIAARRTALGLSREELGRKCGADGNYIAYLEEHA 60

Query: 52 NRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEENN 90
                 L  +++ L   +      S       S+   +
Sbjct: 61 ASPAIGTLVRMADALGVTVDDLTGASAGRVRGRSTARRD 99


>gi|190894243|ref|YP_001984537.1| hypothetical protein RHECIAT_PB0000280 [Rhizobium etli CIAT 652]
 gi|190699904|gb|ACE93987.1| hypothetical conserved protein [Rhizobium etli CIAT 652]
          Length = 259

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/49 (42%), Positives = 29/49 (59%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           +R  R    + + KL   LGIT Q   +YE GV+R+  SRL H+ EVL+
Sbjct: 136 LREARDKRKLPRSKLAPLLGITKQVYGRYENGVSRLTVSRLIHLCEVLD 184


>gi|206974503|ref|ZP_03235419.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|206747146|gb|EDZ58537.1| DNA-binding protein [Bacillus cereus H3081.97]
          Length = 374

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKVIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LISYKPQMEQE 74


>gi|113460765|ref|YP_718832.1| transcriptional regulator [Haemophilus somnus 129PT]
 gi|112822808|gb|ABI24897.1| conserved hypothetical protein [Haemophilus somnus 129PT]
          Length = 128

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 32/75 (42%), Gaps = 9/75 (12%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI------- 70
          +IR+ R I   SQE + E L ++     K E G   +   +L+ I+++    +       
Sbjct: 12 KIRVMREINQWSQEDMAEKLDMSPTGYAKIEHGKTNLTIEKLKQIAQIFNIDVVELIASQ 71

Query: 71 --SFFFDVSPTVCSD 83
            SFFF +     + 
Sbjct: 72 DKSFFFSIGDNTNNH 86


>gi|254974937|ref|ZP_05271409.1| MerR family transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255092326|ref|ZP_05321804.1| MerR family transcriptional regulator [Clostridium difficile CIP
          107932]
 gi|255100407|ref|ZP_05329384.1| MerR family transcriptional regulator [Clostridium difficile
          QCD-63q42]
 gi|255306352|ref|ZP_05350523.1| MerR family transcriptional regulator [Clostridium difficile ATCC
          43255]
 gi|255314064|ref|ZP_05355647.1| MerR family transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255516744|ref|ZP_05384420.1| MerR family transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255649843|ref|ZP_05396745.1| MerR family transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|260683001|ref|YP_003214286.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260686599|ref|YP_003217732.1| hypothetical protein CDR20291_1234 [Clostridium difficile R20291]
 gi|306519941|ref|ZP_07406288.1| hypothetical protein CdifQ_07697 [Clostridium difficile
          QCD-32g58]
 gi|260209164|emb|CBA62385.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260212615|emb|CBE03634.1| putative transcriptional regulator [Clostridium difficile R20291]
          Length = 188

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 38/80 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+++R  R     +   + +   ++   + + E+       S L+ I+EVL++P+  F 
Sbjct: 2  LGEKMRNIRKSKKKTLSDVSKLTDLSISYISQIERDAIEPSLSSLRKIAEVLDTPLYMFM 61

Query: 75 DVSPTVCSDISSEENNVMDF 94
          D + T    I  E+  +M F
Sbjct: 62 DDNNTDDLVIRKEDRVMMKF 81


>gi|62180230|ref|YP_216647.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Choleraesuis str. SC-B67]
 gi|62127863|gb|AAX65566.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Choleraesuis str. SC-B67]
 gi|322714702|gb|EFZ06273.1| putative transcriptional regulator [Salmonella enterica subsp.
           enterica serovar Choleraesuis str. A50]
          Length = 200

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/90 (15%), Positives = 35/90 (38%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  V +RI+  R    MS ++L    G++   + + E        + L  I+  +   +
Sbjct: 18  INEAVSQRIKQFRSQKKMSLDELARRSGVSKGMLVEIEGCKANPSIALLCKIAAAMGVSV 77

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           + F +V+      +   +   + +     G
Sbjct: 78  ADFVNVASEPMVHLIDRDATPVLWRGEKGG 107


>gi|86141620|ref|ZP_01060166.1| hypothetical protein MED217_06362 [Leeuwenhoekiella blandensis
          MED217]
 gi|85832179|gb|EAQ50634.1| hypothetical protein MED217_06362 [Leeuwenhoekiella blandensis
          MED217]
          Length = 193

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 29/67 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRIR  R   G++   +     ++   + + E G        L +I   L++ ++ FF
Sbjct: 8  IGKRIREIRKEKGLTINTVASSAEVSNGLISRVENGRTIPSLPVLLNIIAALDTEVASFF 67

Query: 75 DVSPTVC 81
          +  P   
Sbjct: 68 NSLPQGG 74


>gi|269122272|ref|YP_003310449.1| XRE family transcriptional regulator [Sebaldella termitidis ATCC
          33386]
 gi|268616150|gb|ACZ10518.1| transcriptional regulator, XRE family [Sebaldella termitidis ATCC
          33386]
          Length = 180

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 33/63 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R    ++Q +L +   ++   + + E+ +     S L+ I EVL + I  
Sbjct: 1  MKIGEKLKSLRQEKLLTQNELADRCELSKGFISQLERDLTSPSLSTLEDILEVLGTNIRD 60

Query: 73 FFD 75
          FF+
Sbjct: 61 FFN 63


>gi|225866477|ref|YP_002751855.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|225788695|gb|ACO28912.1| DNA-binding protein [Bacillus cereus 03BB102]
          Length = 190

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/103 (22%), Positives = 42/103 (40%), Gaps = 10/103 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S  
Sbjct: 15  QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLSRL 74

Query: 74  FDVSPTVCSDISSEENNVMD---------FISTPD-GLQLNRY 106
             V   V      E   V           F  T + G++++R 
Sbjct: 75  MVVGEPVAVARCGEGFAVDAGQAWHLETMFRYTKETGMEMHRA 117


>gi|118480114|ref|YP_897265.1| DNA-binding protein [Bacillus thuringiensis str. Al Hakam]
 gi|228917662|ref|ZP_04081203.1| hypothetical protein bthur0012_48660 [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
 gi|229094144|ref|ZP_04225224.1| hypothetical protein bcere0021_48550 [Bacillus cereus Rock3-42]
 gi|229187275|ref|ZP_04314420.1| hypothetical protein bcere0004_48110 [Bacillus cereus BGSC 6E1]
 gi|118419339|gb|ABK87758.1| DNA-binding protein [Bacillus thuringiensis str. Al Hakam]
 gi|228596285|gb|EEK53960.1| hypothetical protein bcere0004_48110 [Bacillus cereus BGSC 6E1]
 gi|228689247|gb|EEL43068.1| hypothetical protein bcere0021_48550 [Bacillus cereus Rock3-42]
 gi|228841899|gb|EEM87005.1| hypothetical protein bthur0012_48660 [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
          Length = 79

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+++   P+ 
Sbjct: 6  DMKLQNRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAQIFNVPVE 65

Query: 72 FFF 74
            F
Sbjct: 66 EIF 68


>gi|329769730|ref|ZP_08261131.1| hypothetical protein HMPREF0433_00895 [Gemella sanguinis M325]
 gi|328838092|gb|EGF87710.1| hypothetical protein HMPREF0433_00895 [Gemella sanguinis M325]
          Length = 218

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    +SQ  + E LG+T      +EKG        L+ +++      S+F
Sbjct: 6  RLQALRKKHNISQTAIAEHLGVTRSAYNGWEKGKFIPNKKNLEELADYFNVETSYF 61


>gi|319787830|ref|YP_004147305.1| XRE family transcriptional regulator [Pseudoxanthomonas
          suwonensis 11-1]
 gi|317466342|gb|ADV28074.1| transcriptional regulator, XRE family [Pseudoxanthomonas
          suwonensis 11-1]
          Length = 73

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 22/61 (36%), Gaps = 1/61 (1%)

Query: 15 VGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          V   IR  R   G M+Q+ L +  G+T Q +   E G           I+      +   
Sbjct: 8  VANEIRRLRFERGEMTQQALADACGVTRQTIIALEAGRYAPSLELAFRIARAFGVGVEDV 67

Query: 74 F 74
          F
Sbjct: 68 F 68


>gi|291279358|ref|YP_003496193.1| transcriptional regulator [Deferribacter desulfuricans SSM1]
 gi|290754060|dbj|BAI80437.1| transcriptional regulator [Deferribacter desulfuricans SSM1]
          Length = 186

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 27/64 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+++R  R   G S  +L + +G T   +   E G      + L+ I+      IS   
Sbjct: 8  LGEKLRNLRKSQGYSLNQLAKAVGKTKSYISMIENGKAVPSMATLKSITNFFNVTISDLL 67

Query: 75 DVSP 78
          + + 
Sbjct: 68 EENE 71


>gi|302866395|ref|YP_003835032.1| helix-turn-helix domain-containing protein [Micromonospora
          aurantiaca ATCC 27029]
 gi|302569254|gb|ADL45456.1| helix-turn-helix domain protein [Micromonospora aurantiaca ATCC
          27029]
          Length = 255

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 27/56 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG+ +R  R   G+SQ  L     ++ + V   E G ++  +  +  +++ L  P+
Sbjct: 6  VGELLRQWRQHRGLSQLDLAIAADVSARHVSLVETGKSKPSSDMILRLADQLHVPL 61


>gi|260461769|ref|ZP_05810015.1| transcriptional regulator, XRE family [Mesorhizobium opportunistum
           WSM2075]
 gi|259032410|gb|EEW33675.1| transcriptional regulator, XRE family [Mesorhizobium opportunistum
           WSM2075]
          Length = 138

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 38/80 (47%), Gaps = 3/80 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK IRL RM   ++ ++L E +G++   +Q+ EKG  +V    +   + ++       FD
Sbjct: 47  GKTIRLGRMQHRLTGQELAERIGVSRSTLQRIEKGDPKVEIGLMFEAAAIVGV---KLFD 103

Query: 76  VSPTVCSDISSEENNVMDFI 95
                 + ++   ++ +  +
Sbjct: 104 ADGKAITALTGRMDDRIALL 123


>gi|227535738|ref|ZP_03965787.1| transcription regulator [Lactobacillus paracasei subsp. paracasei
          ATCC 25302]
 gi|227186627|gb|EEI66694.1| transcription regulator [Lactobacillus paracasei subsp. paracasei
          ATCC 25302]
          Length = 389

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 33/66 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ ++  RM+ G+S+++L   L +T Q +  YE        + +  +S++ +   +FFF 
Sbjct: 4  GENLKNLRMLYGVSRKELANKLKLTEQSIGNYENESFSPEINTVIEMSKIFDVKSTFFFK 63

Query: 76 VSPTVC 81
            P   
Sbjct: 64 KFPRNG 69


>gi|99082865|ref|YP_615019.1| XRE family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99039145|gb|ABF65757.1| transcriptional regulator, XRE family with cupin sensor [Ruegeria
          sp. TM1040]
          Length = 188

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/64 (17%), Positives = 27/64 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R   G+S E +    G++   V + E+G +    + L +++  L+   +   + 
Sbjct: 14 ARLKEARRAQGLSLEAVANLSGVSRSMVSQIERGESSPTIATLWNLTRALQVDFAGLLEA 73

Query: 77 SPTV 80
              
Sbjct: 74 GEAA 77


>gi|6249458|emb|CAB60047.1| hypothetical protein [Legionella pneumophila]
          Length = 244

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 31/74 (41%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  RM   ++ + L E    +   ++  YE+G    G   ++ ++  LE   SF 
Sbjct: 25 IGLRIKQERMSKKLTMKALAELTDNLNISRINNYERGERTPGPEEIKQLARALEVSPSFL 84

Query: 74 FDVSPTVCSDISSE 87
            +S        + 
Sbjct: 85 MCLSDDRQGSFKTP 98


>gi|52784388|ref|YP_090217.1| hypothetical protein BLi00575 [Bacillus licheniformis ATCC 14580]
 gi|319648680|ref|ZP_08002891.1| hypothetical protein HMPREF1012_03930 [Bacillus sp. BT1B_CT2]
 gi|52346890|gb|AAU39524.1| putative protein [Bacillus licheniformis ATCC 14580]
 gi|317389099|gb|EFV69915.1| hypothetical protein HMPREF1012_03930 [Bacillus sp. BT1B_CT2]
          Length = 86

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  ++   R++  MSQ++L E +G++ Q +   EKG           I+E     ++  F
Sbjct: 16 ISNKVYEYRVLARMSQQELAEKVGVSKQTIFVMEKGNYVPTLLLAFRIAEFFNVDVNEIF 75


>gi|329577865|gb|EGG59286.1| DNA-binding helix-turn-helix protein [Enterococcus faecalis
          TX1467]
          Length = 131

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 6  KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 65

Query: 72 FF 73
          + 
Sbjct: 66 WL 67


>gi|310642951|ref|YP_003947709.1| transcriptional regulator [Paenibacillus polymyxa SC2]
 gi|309247901|gb|ADO57468.1| Predicted transcriptional regulator [Paenibacillus polymyxa SC2]
          Length = 112

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 30/70 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R++  ++ E +   LGIT Q    YE G   V +  L  ++++LE    +    S
Sbjct: 6  RLKKERILKKLTHEDMATKLGITRQAYGNYESGKRDVDSQTLSKLADILEVSGDYLLGRS 65

Query: 78 PTVCSDISSE 87
           +        
Sbjct: 66 ISKGPSEGHA 75


>gi|307354949|ref|YP_003896000.1| XRE family transcriptional regulator [Methanoplanus petrolearius
          DSM 11571]
 gi|307158182|gb|ADN37562.1| transcriptional regulator, XRE family [Methanoplanus petrolearius
          DSM 11571]
          Length = 64

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RIR  R    M+Q +L E +G+  + +   EKG           +++ L++ I   F
Sbjct: 4  RIREFRAKKDMTQAQLAEAVGVRRETIVFLEKGKYNPSLKLAHDVAKALDTTIEELF 60


>gi|304407873|ref|ZP_07389524.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
 gi|304343356|gb|EFM09199.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
          Length = 95

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 32/70 (45%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
          +G RI   R   G++Q++L + LGI    + + E       A  ++ +S+  + PI   F
Sbjct: 8  IGNRISRIRKHRGITQQQLADALGIDRASLSQIETCRYSPRAETIRKLSDFFQLPIGDIF 67

Query: 74 FDVSPTVCSD 83
          F+       D
Sbjct: 68 FNPLLEADRD 77


>gi|289178728|gb|ADC85974.1| Transcriptional regulator [Bifidobacterium animalis subsp. lactis
          BB-12]
          Length = 348

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 38/86 (44%), Gaps = 4/86 (4%)

Query: 12 DINVGKR--IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          D  +G +  ++  R    M+QE+L   +G++ Q V K+E         +L  + ++    
Sbjct: 11 DRTMGFKDNLQYLRGSHNMTQEQLAMLIGVSRQSVSKWESEKAYPEMDKLLMLCDMFGVS 70

Query: 70 ISFFFDVSPTVCSDISSEENNVMDFI 95
          +     V   V + I+   N+V D +
Sbjct: 71 LDDL--VMGDVRNGIAMSANHVEDGL 94


>gi|228944445|ref|ZP_04106818.1| Transcriptional regulator [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|228815347|gb|EEM61595.1| Transcriptional regulator [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
          Length = 66

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++++ R+ L ++Q++L E +G+T Q +   EKG           I   ++  ++  F
Sbjct: 4  SKVKVARVQLDLTQQQLAEKVGVTRQTISLIEKGKYNPSLDLCLKICYAVDKTLNDLF 61


>gi|220916034|ref|YP_002491338.1| transcriptional regulator, XRE family [Anaeromyxobacter
           dehalogenans 2CP-1]
 gi|219953888|gb|ACL64272.1| transcriptional regulator, XRE family [Anaeromyxobacter
           dehalogenans 2CP-1]
          Length = 260

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/108 (25%), Positives = 44/108 (40%), Gaps = 3/108 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  +R  R    +S EKL +  G++   + + E G +    + L  IS  L  P S   
Sbjct: 80  VGTNLRRLRTQRDLSLEKLSKLSGVSRAMLGQIELGQSAPTINVLWKISSALSVPFSALI 139

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
               T    +   E+     +S+ DG   +R     D+ + R +  EL
Sbjct: 140 TARSTGGLHVLRAEH--AKVLSSHDGSYSSRALFPFDEPR-RVEFYEL 184


>gi|146341324|ref|YP_001206372.1| putative HTH-type transcriptional regulator [Bradyrhizobium sp.
          ORS278]
 gi|146194130|emb|CAL78149.1| putative HTH-type transcriptional regulator [Bradyrhizobium sp.
          ORS278]
          Length = 184

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 32/79 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G R+R  R+  GM    L + +G     + K E G        L  +   L+  ++ 
Sbjct: 1  MNIGPRLRRARLSKGMRMRDLAQIVGCDESMISKIEAGKVMPSLPMLDKMVHALDRDMAS 60

Query: 73 FFDVSPTVCSDISSEENNV 91
          FF +       +   E+ +
Sbjct: 61 FFGLRVDDYKQVQKPEDRM 79


>gi|111222160|ref|YP_712954.1| putative transcriptional regulator [Frankia alni ACN14a]
 gi|111149692|emb|CAJ61384.1| Putative transcriptional regulator [Frankia alni ACN14a]
          Length = 100

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 1/63 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFFFD 75
          +R+R  R + G++Q+++ +  G+T   V   E G  R +   +   I+  L+  +    D
Sbjct: 29 ERLRAIRQLRGLTQQQVADRCGLTRTAVTDLESGRRRDISLGQALIIASALDVDLGRLLD 88

Query: 76 VSP 78
            P
Sbjct: 89 PEP 91


>gi|83956173|ref|ZP_00964626.1| subunit S of type I restriction-modification system
          [Sulfitobacter sp. NAS-14.1]
 gi|83839559|gb|EAP78739.1| subunit S of type I restriction-modification system
          [Sulfitobacter sp. NAS-14.1]
          Length = 164

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 23/60 (38%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG  I+  R   G+SQE L     +    + K E   N      ++ I+  L    S+ 
Sbjct: 6  QVGLNIQKLRRERGISQEDLALMAKVNRGYMGKLENAKNSASLDMVERIATALNVVPSWL 65


>gi|34763122|ref|ZP_00144092.1| Transcriptional regulator [Fusobacterium nucleatum subsp.
          vincentii ATCC 49256]
 gi|27887220|gb|EAA24321.1| Transcriptional regulator [Fusobacterium nucleatum subsp.
          vincentii ATCC 49256]
          Length = 94

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 1/65 (1%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N K P  + + + K IR RR  L ++QE+  +  G++F  ++++E     +    L  I+
Sbjct: 7  NIKTPKEIQLEIAKNIRKRRKELKLTQEEFSKKSGVSFGSIKRFEN-TGEISLFSLIKIA 65

Query: 64 EVLES 68
           +L+ 
Sbjct: 66 IILDC 70


>gi|300788896|ref|YP_003769187.1| XRE family transcriptional regulator [Amycolatopsis mediterranei
          U32]
 gi|299798410|gb|ADJ48785.1| XRE family transcriptional regulator [Amycolatopsis mediterranei
          U32]
          Length = 77

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 26/62 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI + R    +S+ +L E LG+ +Q +   E+G           I+E  E  +   F  
Sbjct: 7  NRIAMLRAERSISRRQLAEALGVHYQTIGYLERGEYSPSLFLALRIAEFFEVSVEVLFST 66

Query: 77 SP 78
           P
Sbjct: 67 KP 68


>gi|323343170|ref|ZP_08083401.1| XRE family transcriptional regulator [Erysipelothrix
          rhusiopathiae ATCC 19414]
 gi|322463234|gb|EFY08429.1| XRE family transcriptional regulator [Erysipelothrix
          rhusiopathiae ATCC 19414]
          Length = 127

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 3/70 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K+IRL+R    ++Q +L + +  + Q V K+E G++    S L  I E L   +      
Sbjct: 7  KKIRLKRK---LTQRELAKRVNYSQQAVAKWEVGISNPDISNLVKICEELNISVECLLCQ 63

Query: 77 SPTVCSDISS 86
           P    +   
Sbjct: 64 KPKHMQEFDE 73


>gi|256111164|ref|ZP_05452200.1| hypothetical protein Bmelb3E_01001 [Brucella melitensis bv. 3
          str. Ether]
 gi|265992675|ref|ZP_06105232.1| transcriptional regulator [Brucella melitensis bv. 3 str. Ether]
 gi|262763545|gb|EEZ09577.1| transcriptional regulator [Brucella melitensis bv. 3 str. Ether]
          Length = 182

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 37/86 (43%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I++G R+R  RM   +SQ +L +  G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSIDIGGRLRYVRMRQNLSQRELAKRAGVTNSTISLIEANQSNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF + P     +  E   +++ 
Sbjct: 59 GMAEFFALEPDAPHRVFYEAEELVEI 84


>gi|238063738|ref|ZP_04608447.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
           39149]
 gi|237885549|gb|EEP74377.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
           39149]
          Length = 403

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 45/107 (42%), Gaps = 6/107 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLESPISFF 73
           VG+R+   R+   M+Q++  + LG +   V K E+GV R+   S L+ ++E L   +   
Sbjct: 17  VGRRVAHWRVRRNMTQQQFADRLGKSKSWVDKVERGVRRLERVSNLREVAEALRIDLEML 76

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-VKVRQKI 119
               P      S+    +   ++            +  D  +VR ++
Sbjct: 77  LADRPGPADPASAGVEGIRAALARYH----VVAPARPPDVAQVRARL 119


>gi|168206352|ref|ZP_02632357.1| DNA-binding protein [Clostridium perfringens E str. JGS1987]
 gi|168210038|ref|ZP_02635663.1| DNA-binding protein [Clostridium perfringens B str. ATCC 3626]
 gi|168214461|ref|ZP_02640086.1| DNA-binding protein [Clostridium perfringens CPE str. F4969]
 gi|168216835|ref|ZP_02642460.1| DNA-binding protein [Clostridium perfringens NCTC 8239]
 gi|182627149|ref|ZP_02954863.1| DNA-binding protein [Clostridium perfringens D str. JGS1721]
 gi|170662199|gb|EDT14882.1| DNA-binding protein [Clostridium perfringens E str. JGS1987]
 gi|170711833|gb|EDT24015.1| DNA-binding protein [Clostridium perfringens B str. ATCC 3626]
 gi|170714083|gb|EDT26265.1| DNA-binding protein [Clostridium perfringens CPE str. F4969]
 gi|177907467|gb|EDT70136.1| DNA-binding protein [Clostridium perfringens D str. JGS1721]
 gi|182381078|gb|EDT78557.1| DNA-binding protein [Clostridium perfringens NCTC 8239]
          Length = 433

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 33/70 (47%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ ++L     IT  Q+   E G +      L++I+  L + + +  
Sbjct: 6  LGEKIKRRRKELNMTLKELAGE-RITPGQISLVESGRSNPSMDLLEYIAITLNTSVEYLM 64

Query: 75 DVSPTVCSDI 84
          +   T    I
Sbjct: 65 ETEKTQAEKI 74


>gi|169347272|ref|ZP_02866211.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
 gi|169296668|gb|EDS78799.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
          Length = 433

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 33/70 (47%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ ++L     IT  Q+   E G +      L++I+  L + + +  
Sbjct: 6  LGEKIKRRRKELNMTLKELAGE-RITPGQISLVESGRSNPSMDLLEYIAITLNTSVEYLM 64

Query: 75 DVSPTVCSDI 84
          +   T    I
Sbjct: 65 ETEKTQAEKI 74


>gi|170289284|ref|YP_001739522.1| XRE family transcriptional regulator [Thermotoga sp. RQ2]
 gi|170176787|gb|ACB09839.1| transcriptional regulator, XRE family [Thermotoga sp. RQ2]
          Length = 110

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 24/54 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           +G ++   R +  ++Q+ L + LG++   V K E G   +    L  I   L 
Sbjct: 34 QIGGQLLAYRKMHNLTQKDLAKKLGVSQSMVSKIETGEKNISIRVLAKIVAALG 87


>gi|94990537|ref|YP_598637.1| phage transcriptional repressor [Streptococcus pyogenes
          MGAS10270]
 gi|94544045|gb|ABF34093.1| phage transcriptional repressor [Streptococcus pyogenes
          MGAS10270]
          Length = 232

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G +++  R+  G++Q +LG  L +    +  +EKG N      L  +  +      +F
Sbjct: 4  GHQLKTARLSRGITQSELGRLLHVNKMTISNWEKGKNIPNEKHLNALLHLFNVTSDYF 61


>gi|329119145|ref|ZP_08247836.1| helix-turn-helix domain protein [Neisseria bacilliformis ATCC
          BAA-1200]
 gi|327464776|gb|EGF11070.1| helix-turn-helix domain protein [Neisseria bacilliformis ATCC
          BAA-1200]
          Length = 119

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 42/89 (47%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +GK I   R   G++QE++ E L I  + V + E+G+      RL  ++E+ +   
Sbjct: 8  INKRIGKAIAKYRQERGLTQEQVAEILQIGNEAVSRMERGLIMPNVVRLVELAEIFQCTA 67

Query: 71 SFFFDVSPTVCSDISSEENNVMDFISTPD 99
          +     S     D + + + ++  ++  D
Sbjct: 68 ADLLAESSPRLFDKTHKIHLLISDLAKTD 96


>gi|319760985|ref|YP_004124922.1| helix-turn-helix domain protein [Alicycliphilus denitrificans BC]
 gi|317115546|gb|ADU98034.1| helix-turn-helix domain protein [Alicycliphilus denitrificans BC]
          Length = 102

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G+ I+L R    +SQ  L +  GI+   +   E+G      S LQ I+  L  P+  
Sbjct: 1  MNIGQAIQLARSKRKLSQAALAKRAGISVSYLSLLERGRRDPPLSTLQRIAAALVMPVEI 60

Query: 73 FF 74
           F
Sbjct: 61 LF 62


>gi|307276550|ref|ZP_07557668.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|306506660|gb|EFM75812.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
          Length = 418

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 36/67 (53%), Gaps = 4/67 (5%)

Query: 9  NPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          N V+ + +G+ IR+ R   G +Q  L E +GI+   + K EKG  ++   +L  I + L+
Sbjct: 2  NQVNQHDLGESIRVSREERGWTQRYLAEKVGISRSLLSKVEKGTRQLSEEKLNLILDSLQ 61

Query: 68 ---SPIS 71
              P++
Sbjct: 62 EAVIPVN 68


>gi|257437945|ref|ZP_05613700.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
 gi|257199605|gb|EEU97889.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
          Length = 231

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 27/55 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          I+L R   G++Q++  E LG++   +  YEKG+   G   +  +++       + 
Sbjct: 7  IKLLRKERGITQKQAAEDLGVSQALLSHYEKGIRECGLDFVVRVADYYNVSCDYL 61


>gi|255523840|ref|ZP_05390804.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|255512402|gb|EET88678.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
          Length = 190

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 32/59 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VGK+I+  R    ++ ++L     ++   + + E+G+  V    L +I++ L+  +S+F
Sbjct: 5  VGKKIKELRTNKNLTLKELSTKTNLSIGFLSQLERGLTAVAIDSLNNIAKALDVNLSYF 63


>gi|227484864|ref|ZP_03915180.1| helix-turn-helix domain protein [Anaerococcus lactolyticus ATCC
           51172]
 gi|227237224|gb|EEI87239.1| helix-turn-helix domain protein [Anaerococcus lactolyticus ATCC
           51172]
          Length = 115

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/111 (19%), Positives = 45/111 (40%), Gaps = 3/111 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI+  R  LG+S EK GE +G+    + + E G N      ++ I        ++    +
Sbjct: 4   RIKKIRKTLGLSGEKFGENIGLKRSSISQLETGTNNPTDQVIKSICLAYNVNENWLRTGN 63

Query: 78  PTVCSDISSEENNVMDFISTPDGLQ--LNRYFIQIDDVKVRQKIIELVRSI 126
             +  +      + +      + L   +   +I +   K RQ I + ++S+
Sbjct: 64  GEMFIETKDSFLDSISKQFNLEELDVKILESYIDLPPEK-RQVIKDYLKSL 113


>gi|255693490|ref|ZP_05417165.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides finegoldii DSM 17565]
 gi|260620682|gb|EEX43553.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides finegoldii DSM 17565]
          Length = 181

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 28/54 (51%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           N+G  +R +R + G SQE +   +G++   + K E G  +     + +I + L+
Sbjct: 76  NIGTMLRKQRELKGFSQEYVAGLVGVSTSVISKIETGKTKARFDVISNICKALD 129


>gi|255305198|ref|ZP_05349370.1| putative phage repressor [Clostridium difficile ATCC 43255]
          Length = 121

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/119 (17%), Positives = 53/119 (44%), Gaps = 1/119 (0%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GKR++L R  L  +Q++LGE L I+ + +  YE          L  ++++    + +   
Sbjct: 3   GKRLKLLRKELNYTQKELGEKLNISGRIIGYYESEERFPDKEILSKLADLFNVSVDYLLG 62

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            +    ++ S+E   +     + D  +  R   ++     ++K++++ +  +  E   +
Sbjct: 63  RTNIRNAEHSAELELIEKLNFSDDIKEALRMISEL-SPASQEKMMKIAKVFLEEEMDKK 120


>gi|218290714|ref|ZP_03494796.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
 gi|218239252|gb|EED06451.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
          Length = 72

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 27/68 (39%), Gaps = 1/68 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +   R+  G++QE++    G+      K E G   +     Q IS V+  P   FF+   
Sbjct: 6  LAKWRIEHGLTQEEMAARCGLKRVTYAKVEYGKT-ISVETAQKISRVVGVPWPQFFEDDC 64

Query: 79 TVCSDISS 86
           +     +
Sbjct: 65 PLGGQEGA 72


>gi|254476881|ref|ZP_05090267.1| transcriptional regulator, XRE family with cupin sensor [Ruegeria
           sp. R11]
 gi|214031124|gb|EEB71959.1| transcriptional regulator, XRE family with cupin sensor [Ruegeria
           sp. R11]
          Length = 188

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/84 (16%), Positives = 35/84 (41%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R   G+S E +    G++   V + E+G +    + L +++  L+   +   D 
Sbjct: 14  ARLKEARRAQGLSLEAVANLSGVSRSMVSQIERGESSPTIATLWNLTRALQVDFAGLLDS 73

Query: 77  SPTVCSDISSEENNVMDFISTPDG 100
           +          +++V    +  +G
Sbjct: 74  NEAQDRIEVLRDSDVPSIENMGEG 97


>gi|169344519|ref|ZP_02865488.1| transcriptional regulator [Clostridium perfringens C str.
          JGS1495]
 gi|169297439|gb|EDS79548.1| transcriptional regulator [Clostridium perfringens C str.
          JGS1495]
          Length = 141

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +++  R    +SQE+L + L I+ Q + K E G        L  + ++    + 
Sbjct: 5  NKLKELRKEKNISQEQLAKELNISRQAISKLESGKAYPDIDNLILLRKIFGVSLD 59


>gi|149276668|ref|ZP_01882811.1| hypothetical protein PBAL39_14849 [Pedobacter sp. BAL39]
 gi|149232337|gb|EDM37713.1| hypothetical protein PBAL39_14849 [Pedobacter sp. BAL39]
          Length = 105

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 28/65 (43%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K+ P      V   IR  R     +QE +   L I+     K E G +++   RL  I+E
Sbjct: 12 KQNPERRPKIVADNIRKIREFRNYTQEYIAMKLNISQNAYSKLELGYSKISIDRLFQIAE 71

Query: 65 VLESP 69
          +LE  
Sbjct: 72 LLEVD 76


>gi|119871924|ref|YP_929931.1| XRE family transcriptional regulator [Pyrobaculum islandicum DSM
          4184]
 gi|119673332|gb|ABL87588.1| transcriptional regulator, XRE family [Pyrobaculum islandicum DSM
          4184]
          Length = 516

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 22/55 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G R+   R   G+S  +L    G++   + + E        + L  I+  L  P
Sbjct: 5  LGNRLSELRRRKGLSLSRLARLAGVSKSTLWEIENDKISPSINTLWAIANALGVP 59


>gi|118464968|ref|YP_879634.1| XRE family transcriptional regulator [Mycobacterium avium 104]
 gi|118166255|gb|ABK67152.1| transcriptional regulator, XRE family protein [Mycobacterium avium
           104]
          Length = 474

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 44/109 (40%), Gaps = 5/109 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R   G++Q  L   LG++   V + E     +    L  ++E  + P  +F  
Sbjct: 7   GARLRRLREEQGLTQVALARVLGLSTSYVNQLENDQRPITVPVLLTLTERFDLPTQYFAP 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL-QLNRYFIQIDD--VKVRQKIIE 121
            S      I+     + +  +TP  + +L      I    V + +++ +
Sbjct: 67  DSDARL--IADLREVLAETPATPGQVEELVARMPAIGQTLVNLHRRLHD 113


>gi|301382068|ref|ZP_07230486.1| RstR1 [Pseudomonas syringae pv. tomato Max13]
 gi|302058949|ref|ZP_07250490.1| RstR1 [Pseudomonas syringae pv. tomato K40]
 gi|302130444|ref|ZP_07256434.1| RstR1 [Pseudomonas syringae pv. tomato NCPPB 1108]
          Length = 203

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/99 (19%), Positives = 43/99 (43%), Gaps = 4/99 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           ++   R    ++Q++L + +GIT  Q+ +YE G  +     L  +++ L    +   ++ 
Sbjct: 42  KLISLRSAQNLTQQQLADAVGITPSQISRYESGQAKPRKIILLRLADALGVSST---ELL 98

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
            +    +   E   +D  S      L + F  +D  ++R
Sbjct: 99  QSPVQRVVVGERRSIDPPSQLRERML-KEFSSMDSEEIR 136


>gi|300115617|ref|YP_003762191.1| XRE family transcriptional regulator [Nitrosococcus watsoni
          C-113]
 gi|299541559|gb|ADJ29870.1| transcriptional regulator, XRE family [Nitrosococcus watsonii
          C-113]
          Length = 76

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 1/65 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          VGK I+  R+  G++Q +L +   I    + K E+G N  V    L+ I++ L+  +   
Sbjct: 3  VGKNIKGLRIAAGLTQTQLAKKAHIDQSGLSKIERGENESVTLPMLRKIAKALDCSVVAL 62

Query: 74 FDVSP 78
           +   
Sbjct: 63 LEDED 67


>gi|296533794|ref|ZP_06896337.1| cro/CI family transcriptional regulator [Roseomonas cervicalis ATCC
           49957]
 gi|296265880|gb|EFH11962.1| cro/CI family transcriptional regulator [Roseomonas cervicalis ATCC
           49957]
          Length = 468

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/130 (16%), Positives = 49/130 (37%), Gaps = 15/130 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ IR  R   G++Q+ L   LGI+   +   E     V A+ L  +   L+       
Sbjct: 6   IGRTIRRLRQEQGLTQQALASRLGISASYLNLIEHDQRGVTAALLIKLGHTLQV------ 59

Query: 75  DVSPTVCSDISSEENNVMDFISTP-----DGL-QLNRYFIQIDDVKVRQKIIELVRSI-- 126
           D++     +    E+++ + ++ P     +   +  R          R  ++ L R++  
Sbjct: 60  DLAALSGREEQQLESSLREVLADPLLGLDETPEEEIRALAGSAPNAAR-AMLALYRALRV 118

Query: 127 VSSEKKYRTI 136
              +     +
Sbjct: 119 AREDASGIAL 128


>gi|253580260|ref|ZP_04857526.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251848353|gb|EES76317.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 70

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 27/64 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I++ R    M+Q+ L E +G++ Q +   EKG         + I  VL+  +   F    
Sbjct: 7  IKVARAEKDMTQKVLAEAVGVSRQTINAIEKGEYNPTIKLCRKICRVLDKSLDDLFWEDE 66

Query: 79 TVCS 82
             +
Sbjct: 67 EDEN 70


>gi|255280060|ref|ZP_05344615.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
 gi|255269151|gb|EET62356.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
          Length = 74

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          KRIR  R    ++Q K+ E L I+ +   +YE   + +    L  I+++    I +  +
Sbjct: 5  KRIRDLREDSDITQTKMAEKLNISQRTYSRYENADSLMPLDILVQIADIHGVSIDYLLE 63


>gi|209883861|ref|YP_002287718.1| DNA-binding protein [Oligotropha carboxidovorans OM5]
 gi|209872057|gb|ACI91853.1| DNA-binding protein [Oligotropha carboxidovorans OM5]
          Length = 208

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 38/92 (41%), Gaps = 12/92 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R +   + + L   +G+T   + K E G        L  +++ L + ++   
Sbjct: 20  LGRRIRQLRKMQERTLDSLATEIGLTKGYLSKVETGRQTPPLGTLSKLAKALGTDLAGLV 79

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           +  P   ++         DF    +G+ + R 
Sbjct: 80  EHGPVEPAE--------QDF----EGVSVVRA 99


>gi|150402162|ref|YP_001329456.1| XRE family transcriptional regulator [Methanococcus maripaludis
          C7]
 gi|150033192|gb|ABR65305.1| transcriptional regulator, XRE family [Methanococcus maripaludis
          C7]
          Length = 66

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R    M+QE+LG+ +G+  + +   EKG           IS+ L + I   F
Sbjct: 4  RIKEYRAKYDMTQEELGKLVGVRRETISFLEKGKYNPSLKLAHLISKALNATIDELF 60


>gi|126011086|ref|YP_001039911.1| putative immunity repressor protein [Streptococcus phage phi3396]
 gi|124389355|gb|ABN10797.1| putative immunity repressor protein [Streptococcus phage phi3396]
          Length = 112

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 9/56 (16%), Positives = 21/56 (37%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          RI+  R  LG++Q        +    +  YE   +     +++ I+       ++ 
Sbjct: 4  RIKYLRQALGLTQSAFAAKAHVNKNMIANYESQNSNPSLKQIEKIALAFNVEPAWL 59


>gi|119484521|ref|ZP_01619138.1| hypothetical protein L8106_02347 [Lyngbya sp. PCC 8106]
 gi|119457995|gb|EAW39118.1| hypothetical protein L8106_02347 [Lyngbya sp. PCC 8106]
          Length = 92

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/48 (41%), Positives = 28/48 (58%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I   R  LG+SQEKL   LG++FQ V ++E+G  +     LQ I + L
Sbjct: 16 ILTLRKRLGLSQEKLATQLGVSFQTVNRWERGRTQPSHLALQAIKQKL 63


>gi|157370471|ref|YP_001478460.1| XRE family transcriptional regulator [Serratia proteamaculans
          568]
 gi|157322235|gb|ABV41332.1| transcriptional regulator, XRE family [Serratia proteamaculans
          568]
          Length = 187

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/73 (19%), Positives = 29/73 (39%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++ + +R  R   G S  +  E  G++   + + E+G +    + L  I+       S F
Sbjct: 7  HLAQTLRSLRSQRGWSLAQAAENTGVSKAMLGQIERGESSPTVATLWKIATGFNVAFSAF 66

Query: 74 FDVSPTVCSDISS 86
           ++SP        
Sbjct: 67 LEISPLQQQATLH 79


>gi|256544578|ref|ZP_05471950.1| Xre family toxin-antitoxin system, antitoxin component
          [Anaerococcus vaginalis ATCC 51170]
 gi|256399467|gb|EEU13072.1| Xre family toxin-antitoxin system, antitoxin component
          [Anaerococcus vaginalis ATCC 51170]
          Length = 132

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 36/72 (50%), Gaps = 1/72 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPISFFFD 75
           ++R  R    ++QE+L + +G++ + + +YE G ++    ++   ++EVL++   +   
Sbjct: 5  SKLRKLRENKNLTQEELAKLVGVSLKTISRYEMGESKPRYRKIYDKLAEVLDTSHDYLVT 64

Query: 76 VSPTVCSDISSE 87
                 D+  +
Sbjct: 65 DEENFILDVREK 76


>gi|228950524|ref|ZP_04112674.1| Prophage LambdaBa04, DNA-binding protein [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
 gi|228809160|gb|EEM55631.1| Prophage LambdaBa04, DNA-binding protein [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
          Length = 114

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 26/59 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I  G+ ++  R    ++Q +L E L ++  Q++ +E G  +     L  I+      + 
Sbjct: 2  IIFGQTLKQLRKSRDLTQAELAEALNLSQSQIKNWETGRFQPDIETLASIASFFNVSLD 60


>gi|229003088|ref|ZP_04160940.1| Transcriptional regulator Xre [Bacillus mycoides Rock1-4]
 gi|228758171|gb|EEM07364.1| Transcriptional regulator Xre [Bacillus mycoides Rock1-4]
          Length = 67

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+RIR  R + G +QE   + LG++   + + E+G        +  +++ L   I 
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKELGVSVSVLGEVERGNRTPSQDFVVEVAKTLNISID 62


>gi|225378702|ref|ZP_03755923.1| hypothetical protein ROSEINA2194_04372 [Roseburia inulinivorans
          DSM 16841]
 gi|225209539|gb|EEG91893.1| hypothetical protein ROSEINA2194_04372 [Roseburia inulinivorans
          DSM 16841]
          Length = 69

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 24/67 (35%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R    +SQ +L + +G T Q +   E G           I+      I   FD 
Sbjct: 3  NRIKELRKANKLSQGELADIVGTTRQTITSIEVGKYTASLGLAYKIAHYFNLTIEEVFDF 62

Query: 77 SPTVCSD 83
          S     +
Sbjct: 63 SDLESEE 69


>gi|222100228|ref|YP_002534796.1| Helix-turn-helix domain protein [Thermotoga neapolitana DSM 4359]
 gi|221572618|gb|ACM23430.1| Helix-turn-helix domain protein [Thermotoga neapolitana DSM 4359]
          Length = 113

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 24/54 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           +G ++   R +  ++Q+ L + LG++   V K E G   +    L  I   L 
Sbjct: 37 QIGGQLLAYRKMHNLTQKDLAKKLGVSQSMVSKIETGEKNISIRVLAKIVAALG 90


>gi|222096786|ref|YP_002530843.1| transcriptional regulator [Bacillus cereus Q1]
 gi|221240844|gb|ACM13554.1| transcriptional regulator [Bacillus cereus Q1]
          Length = 374

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKVIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LISYKPQMEQE 74


>gi|218235252|ref|YP_002368031.1| DNA-binding protein [Bacillus cereus B4264]
 gi|218163209|gb|ACK63201.1| DNA-binding protein [Bacillus cereus B4264]
          Length = 374

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I 
Sbjct: 4  INIHKIIADKRKEKGITQEELAMYIGITKASVSKWETGQSYPDITFLPLLASYFNVSID 62


>gi|148642389|ref|YP_001272902.1| xenobiotic response element family DNA binding protein
          [Methanobrevibacter smithii ATCC 35061]
 gi|222444408|ref|ZP_03606923.1| hypothetical protein METSMIALI_00019 [Methanobrevibacter smithii
          DSM 2375]
 gi|148551406|gb|ABQ86534.1| DNA binding protein (regulator), xenobiotic response element
          family [Methanobrevibacter smithii ATCC 35061]
 gi|222433973|gb|EEE41138.1| hypothetical protein METSMIALI_00019 [Methanobrevibacter smithii
          DSM 2375]
          Length = 186

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 31/74 (41%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N  + N+G R++  R +  ++ +   E L I     ++YE G   + AS L  I+   + 
Sbjct: 5  NEYNKNIGNRVKELRELSDITIQDFAEELDIDETMYKQYENGEVDIPASFLCEIANKFQV 64

Query: 69 PISFFFDVSPTVCS 82
           +        T  +
Sbjct: 65 DLGLLLTGEETRMN 78


>gi|39998387|ref|NP_954338.1| Cro/CI family transcriptional regulator [Geobacter sulfurreducens
          PCA]
 gi|39985333|gb|AAR36688.1| transcriptional regulator, Cro/CI family [Geobacter
          sulfurreducens PCA]
 gi|298507328|gb|ADI86051.1| transcriptional regulator with cupin-like beta-barrel domain,
          putative [Geobacter sulfurreducens KN400]
          Length = 187

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 27/67 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G +I+  R+   ++ + +    G +   + + E        + L  I++  +  IS F
Sbjct: 5  NIGAKIKKLRLAKKLTLQAVARETGFSPALISQIENNNVSPPIATLSKIAKFFDVKISLF 64

Query: 74 FDVSPTV 80
          F      
Sbjct: 65 FSEDEEE 71


>gi|15789706|ref|NP_279530.1| hypothetical protein VNG0471C [Halobacterium sp. NRC-1]
 gi|169235420|ref|YP_001688620.1| transcription regulator-like protein [Halobacterium salinarum R1]
 gi|10580078|gb|AAG19010.1| conserved hypothetical protein [Halobacterium sp. NRC-1]
 gi|167726486|emb|CAP13271.1| transcription regulator homolog [Halobacterium salinarum R1]
          Length = 66

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 23/57 (40%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +R RR    +SQ  L   +G+T Q +   E+            +++  +  I   FD
Sbjct: 5  VRERRGEADLSQADLAAAVGVTRQTINAIERDRYDPSIELAFKLADFFDCRIEDLFD 61


>gi|229170554|ref|ZP_04298202.1| hypothetical protein bcere0007_54700 [Bacillus cereus AH621]
 gi|228612903|gb|EEK70080.1| hypothetical protein bcere0007_54700 [Bacillus cereus AH621]
          Length = 69

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 27/63 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I + R   G +QE+L + +G++ Q +   EK            I+ + E  I+  FD 
Sbjct: 7  NKIVVCRAEKGWTQEELAKRVGVSRQTIATLEKNKYNPSLILAFKIANIFEKSITDVFDY 66

Query: 77 SPT 79
             
Sbjct: 67 QEE 69


>gi|300768444|ref|ZP_07078344.1| HicB family toxin-antitoxin system [Lactobacillus plantarum
          subsp. plantarum ATCC 14917]
 gi|300493962|gb|EFK29130.1| HicB family toxin-antitoxin system [Lactobacillus plantarum
          subsp. plantarum ATCC 14917]
          Length = 68

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 25/61 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R  LG +Q KL +  G++   V   E       A  L  +++ +   +    
Sbjct: 2  IGSEIKKIRSKLGWTQAKLADAAGVSQSTVNTLENRTKHPDAVTLNLLAKAMGVTVDDLL 61

Query: 75 D 75
          +
Sbjct: 62 E 62


>gi|167761064|ref|ZP_02433191.1| hypothetical protein CLOSCI_03462 [Clostridium scindens ATCC
          35704]
 gi|167661298|gb|EDS05428.1| hypothetical protein CLOSCI_03462 [Clostridium scindens ATCC
          35704]
          Length = 71

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          K++++ R+ L MSQE L   + +T Q +   E G           I +VL   +   F
Sbjct: 4  KKMKMARLSLDMSQEMLAAKVDVTRQTIGMIEAGKFNPSLKLCIAICKVLHVTLDDLF 61


>gi|94990047|ref|YP_598147.1| phage transcriptional repressor [Streptococcus pyogenes MGAS10270]
 gi|94543555|gb|ABF33603.1| phage transcriptional repressor [Streptococcus pyogenes MGAS10270]
          Length = 249

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/122 (19%), Positives = 53/122 (43%), Gaps = 12/122 (9%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFFFDVS 77
           ++  R+   ++ E+L E LG T   + K+EKG        ++ I++     P    F  +
Sbjct: 11  VKELRLGKNLTMEQLAEELGKTKSTISKWEKGTRSPKIYEIEEIAKFFGVEPKKMMFGDN 70

Query: 78  PTVCS-DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
           PT  +  +    + +    ST   L+ +R   QI        +++   +++  +K+ +  
Sbjct: 71  PTSINPQVELIPSTLQKINSTSSQLEHSR---QI-------IVLDTAETLLEQQKEIKNN 120

Query: 137 EE 138
           E+
Sbjct: 121 ED 122


>gi|94988166|ref|YP_596267.1| phage transcriptional repressor [Streptococcus pyogenes MGAS9429]
 gi|94993958|ref|YP_602056.1| phage transcriptional repressor [Streptococcus pyogenes MGAS10750]
 gi|94541674|gb|ABF31723.1| phage transcriptional repressor [Streptococcus pyogenes MGAS9429]
 gi|94547466|gb|ABF37512.1| phage transcriptional repressor [Streptococcus pyogenes MGAS10750]
          Length = 249

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/122 (19%), Positives = 53/122 (43%), Gaps = 12/122 (9%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFFFDVS 77
           ++  R+   ++ E+L E LG T   + K+EKG        ++ I++     P    F  +
Sbjct: 11  VKELRLGKNLTMEQLAEELGKTKSTISKWEKGTRSPKIYEIEEIAKFFGVEPKKMMFGDN 70

Query: 78  PTVCS-DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTI 136
           PT  +  +    + +    ST   L+ +R   QI        +++   +++  +K+ +  
Sbjct: 71  PTSINPQVELIPSTLQKINSTSSQLEHSR---QI-------IVLDTAETLLEQQKEIKNN 120

Query: 137 EE 138
           E+
Sbjct: 121 ED 122


>gi|194467588|ref|ZP_03073575.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
 gi|194454624|gb|EDX43521.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
          Length = 122

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 36/66 (54%), Gaps = 3/66 (4%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEV 65
          + N VD  +G+ IR  R + G++QEKL E   ++ + +   E K    +   RL+ I++ 
Sbjct: 1  MANNVD--IGENIRRYRKLRGLTQEKLAEFSDLSVKFISMVESKKSQNISIQRLEKIADA 58

Query: 66 LESPIS 71
          L+  ++
Sbjct: 59 LDISLA 64


>gi|77462165|ref|YP_351669.1| putative DNA-binding protein [Rhodobacter sphaeroides 2.4.1]
 gi|77386583|gb|ABA77768.1| Putative DNA-binding protein [Rhodobacter sphaeroides 2.4.1]
          Length = 352

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 25/55 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RL R + G++Q+K  E LG+      + E  +  V    ++  S     P  FF
Sbjct: 2  LRLARHLRGLTQKKTAEQLGVAQAVYSRMENDLVEVDDECIRVASRAFNLPPGFF 56


>gi|67459679|ref|YP_247303.1| Phage-related transcriptional regulator [Rickettsia felis
           URRWXCal2]
 gi|67005212|gb|AAY62138.1| Phage-related transcriptional regulator [Rickettsia felis
           URRWXCal2]
          Length = 119

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 28/53 (52%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           I++ R   G+SQE+L   +G T Q +   EKG+ +     L+ +S VL   + 
Sbjct: 65  IKVYREYRGLSQEQLAIKIGKTKQYISFIEKGLRKGTIDTLKKLSTVLNVDLD 117


>gi|78224628|ref|YP_386375.1| XRE family transcriptional regulator [Geobacter metallireducens
          GS-15]
 gi|78195883|gb|ABB33650.1| transcriptional regulator, XRE family [Geobacter metallireducens
          GS-15]
          Length = 198

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 31/66 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+++R  R    ++ ++L E  G++   + + E        + L  IS+ L+  I +FF
Sbjct: 15 LGEKVRKLRQEQRLTLQELSELSGLSKPLLSQIENDQVTPPIATLLKISKGLKVGIHYFF 74

Query: 75 DVSPTV 80
          +     
Sbjct: 75 EEEEDQ 80


>gi|70727667|ref|YP_254583.1| hypothetical protein SH2668 [Staphylococcus haemolyticus
          JCSC1435]
 gi|68448393|dbj|BAE05977.1| unnamed protein product [Staphylococcus haemolyticus JCSC1435]
          Length = 190

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 25/65 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R     SQE L E L ++ Q +  +E   +      L  +  +    +  
Sbjct: 1  MEIGQQIRKYREKEKYSQEYLAEKLYVSRQTISNWENERSYPDIHNLLMMCTLFNVSLDD 60

Query: 73 FFDVS 77
               
Sbjct: 61 LVKGD 65


>gi|73748675|ref|YP_307914.1| putative DNA-binding protein [Dehalococcoides sp. CBDB1]
 gi|147669434|ref|YP_001214252.1| XRE family transcriptional regulator [Dehalococcoides sp. BAV1]
 gi|289432701|ref|YP_003462574.1| XRE family transcriptional regulator [Dehalococcoides sp. GT]
 gi|73660391|emb|CAI82998.1| putative DNA-binding protein [Dehalococcoides sp. CBDB1]
 gi|146270382|gb|ABQ17374.1| transcriptional regulator, XRE family [Dehalococcoides sp. BAV1]
 gi|288946421|gb|ADC74118.1| transcriptional regulator, XRE family [Dehalococcoides sp. GT]
          Length = 214

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 42/92 (45%), Gaps = 5/92 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +++G++IR  R   G + E LG   G++ Q ++K EKG  + +  +    +S       +
Sbjct: 2  MSIGEKIREFRKARGWTPEYLGTRSGLSGQYIRKLEKGERQSITLATANKLSNAFGIEPA 61

Query: 72 FFF----DVSPTVCSDISSEENNVMDFISTPD 99
                 + SP    DI +E  ++   + T +
Sbjct: 62 KLISENDNSSPRQIEDILAEVRSIFKRLETVE 93


>gi|332653867|ref|ZP_08419611.1| toxin-antitoxin system, antitoxin component, Xre family
           [Ruminococcaceae bacterium D16]
 gi|332516953|gb|EGJ46558.1| toxin-antitoxin system, antitoxin component, Xre family
           [Ruminococcaceae bacterium D16]
          Length = 87

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 37/92 (40%), Gaps = 24/92 (26%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR---LQHISEVLESPISFFFD 75
           ++  R   G+SQ +L +  GI  Q +Q+YE+G   +  ++   L  I   LE        
Sbjct: 14  LQKLRKAAGLSQSQLADLAGIKVQVLQQYERGARDINGAKLPTLLKICNALEC------- 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
                          + D I+  + L+L + +
Sbjct: 67  --------------RLADIITDEETLELLKKY 84


>gi|317054764|ref|YP_004103231.1| helix-turn-helix domain-containing protein [Ruminococcus albus 7]
 gi|315447033|gb|ADU20597.1| helix-turn-helix domain protein [Ruminococcus albus 7]
          Length = 198

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/94 (19%), Positives = 30/94 (31%), Gaps = 10/94 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + K I+  R   G SQE L E   ++ Q +  +E   N      L  +S++    +  
Sbjct: 1   MELSKTIKRLRTEKGWSQETLAEKSYVSRQTISNWENEKNYPDVHSLLILSDLFGVSLDE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                     +           I   D   L R 
Sbjct: 61  LIKGDVETMKNT----------IHNKDAYALKRA 84


>gi|301164403|emb|CBW23961.1| putative DNa-binding protein [Bacteroides fragilis 638R]
          Length = 140

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 34/74 (45%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V+  +G+ ++  R + G +QE++ + + I       YE G   +  + L+ IS +     
Sbjct: 27  VNQIIGENLKKIRELSGFTQEQVAQSIKIERSTYSNYEGGTREIPYTILEDISNLFGCEP 86

Query: 71  SFFFDVSPTVCSDI 84
              F+ +    ++I
Sbjct: 87  FILFEDNIQTNNEI 100


>gi|325680396|ref|ZP_08159949.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324107919|gb|EGC02182.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 76

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNR-VGASRLQHISEVLES 68
           ++G +I   R + G++QE+L E +      +   E   VNR V    L  I++ L  
Sbjct: 10 KHIGLKISYYRKLRGLTQEQLAEMIDKNLAFIGAVEAPNVNRTVSLDTLFDIADALNV 67


>gi|269838163|ref|YP_003320391.1| transcriptional regulator, XRE family [Sphaerobacter thermophilus
          DSM 20745]
 gi|269787426|gb|ACZ39569.1| transcriptional regulator, XRE family [Sphaerobacter thermophilus
          DSM 20745]
          Length = 367

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G  IR  R   GM+ + L    GI+   + + E+       + L  I+EVL   I  F
Sbjct: 9  IGPAIRRLRQERGMTLDALAAQAGISASHLSRLERSQTLPSFTVLAKIAEVLGVGIDEF 67


>gi|258515643|ref|YP_003191865.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257779348|gb|ACV63242.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
          Length = 73

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 31/59 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G RIR  R   G++   + + LG++       E+G  ++ A R++ I+++LE  I   F
Sbjct: 8  GNRIRKIRKAKGITSCYVAKKLGMSPGGYSDIERGRRKLSAERVEKIAKILEIDIGEIF 66


>gi|228959512|ref|ZP_04121199.1| hypothetical protein bthur0005_29960 [Bacillus thuringiensis
          serovar pakistani str. T13001]
 gi|228800192|gb|EEM47122.1| hypothetical protein bthur0005_29960 [Bacillus thuringiensis
          serovar pakistani str. T13001]
          Length = 373

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I 
Sbjct: 4  INIHKTIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISID 62


>gi|229117990|ref|ZP_04247350.1| Transcriptional regulator, Xre [Bacillus cereus Rock1-3]
 gi|228665439|gb|EEL20921.1| Transcriptional regulator, Xre [Bacillus cereus Rock1-3]
          Length = 190

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|73663694|ref|YP_302475.1| transcriptional regulator [Staphylococcus saprophyticus subsp.
           saprophyticus ATCC 15305]
 gi|72496209|dbj|BAE19530.1| putative truncated transcriptional regulator [Staphylococcus
           saprophyticus subsp. saprophyticus ATCC 15305]
          Length = 187

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/100 (22%), Positives = 44/100 (44%), Gaps = 4/100 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I + K I+  R+ LGM+QE L E L  T   + K+E  +     + L  ++++    +  
Sbjct: 2   IQISKTIKKERLRLGMTQEALSEYLNTTKTTISKWESEILYPDITMLPKLAKLFNISVDD 61

Query: 73  FFDVSPTVCSD----ISSEENNVMDFISTPDGLQLNRYFI 108
             + S  +  +    IS   + +++  S  + L   R + 
Sbjct: 62  LLNYSIAMTDEEIKKISISLSKMVNHTSYSEYLFSVRDYY 101


>gi|284097788|ref|ZP_06385777.1| lambda repressor [Candidatus Poribacteria sp. WGA-A3]
 gi|283830688|gb|EFC34809.1| lambda repressor [Candidatus Poribacteria sp. WGA-A3]
          Length = 128

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/114 (15%), Positives = 46/114 (40%), Gaps = 3/114 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFFFD 75
           +RI+  R   G+SQ  + + L I+   V ++E+G ++ +       ++ +L     +   
Sbjct: 6   ERIQTARKQAGLSQADVAKALRISASAVNQWEQGFSKNIKLEHFFALASLLRQDPQWLAT 65

Query: 76  VSP-TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
            +         +    + D   T +   L     Q+   ++R+ ++  +R +  
Sbjct: 66  GTVFPYVRHTQATPPKLDDPPLTSEEKALLHQVRQMPS-RLRKVLLRFLRGLSD 118


>gi|169349492|ref|ZP_02866430.1| hypothetical protein CLOSPI_00210 [Clostridium spiroforme DSM
          1552]
 gi|169293567|gb|EDS75700.1| hypothetical protein CLOSPI_00210 [Clostridium spiroforme DSM
          1552]
          Length = 77

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 30/66 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KRIR  R    ++Q+ L   L ++ +   +YE+G   +    L  I+   ++ + +  + 
Sbjct: 5  KRIRDLREDKDLTQKDLANYLNVSQKSYSRYERGERTIAPEILSKIATFHDTTVDYLLNR 64

Query: 77 SPTVCS 82
          +    +
Sbjct: 65 TDDKTN 70


>gi|167621833|ref|YP_001676618.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167351574|gb|ABZ74304.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 1330

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 29/126 (23%), Positives = 45/126 (35%), Gaps = 26/126 (20%)

Query: 7   IPNPVDINVGKRIRLRRMILGM-SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
            P P    +G  I  +R    M  Q  L + LG+  Q V ++E G +R G  +L  ++ V
Sbjct: 2   KPIPTYRELGLLIAQQRFKQKMPKQADLADRLGVKQQSVSRWEAGTHRPGVDQLPALATV 61

Query: 66  L--------------ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
           L              + P+S   +  P    D  + E  V  F          +      
Sbjct: 62  LGEDLSELRRLARYDDLPVSPILEPFPIDRLDPVTFEAFVAYF---------AKALY--P 110

Query: 112 DVKVRQ 117
           D  VR+
Sbjct: 111 DDDVRR 116


>gi|160914483|ref|ZP_02076698.1| hypothetical protein EUBDOL_00488 [Eubacterium dolichum DSM 3991]
 gi|158433641|gb|EDP11930.1| hypothetical protein EUBDOL_00488 [Eubacterium dolichum DSM 3991]
          Length = 251

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/78 (17%), Positives = 34/78 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I   R    M Q++LG+ L ++ + + K+E G++      L  ++E+L+  ++   
Sbjct: 9  IGHFISEMRKAKNMKQKELGDQLFVSDKTISKWENGISMPNIVLLAPLAELLDISVNELL 68

Query: 75 DVSPTVCSDISSEENNVM 92
                   ++      +
Sbjct: 69 KGEKLTQESVAKTREEAL 86


>gi|52142223|ref|YP_084606.1| DNA-binding protein; transcriptional regulator [Bacillus cereus
          E33L]
 gi|51975692|gb|AAU17242.1| DNA-binding protein; possible transcriptional regulator [Bacillus
          cereus E33L]
          Length = 374

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKVIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LISYKPQMEQE 74


>gi|10957144|ref|NP_047318.1| hypothetical protein pMRC01_034 [Lactococcus lactis]
 gi|3582214|gb|AAC56010.1| conserved hypothetical protein [Lactococcus lactis]
          Length = 79

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 27/65 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +   +   R++  +SQ+ L + +G++ Q +   EKG           I+   +  I+  F
Sbjct: 9  ISNSVYKYRVLSRLSQQDLADKVGVSKQTIFVMEKGNYTPSLLLALRIANFFDVEITKIF 68

Query: 75 DVSPT 79
             P 
Sbjct: 69 TYEPG 73


>gi|17545878|ref|NP_519280.1| transcription regulator protein [Ralstonia solanacearum GMI1000]
 gi|17428173|emb|CAD14861.1| putative transcription regulator protein [Ralstonia solanacearum
          GMI1000]
          Length = 182

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 1/68 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R   G + E L E  G+T   + K E+G++    +    ++  L  P    F   
Sbjct: 4  RLKPLRKDRGWTLEVLAERTGLTKSYLSKVERGLSVPSIAVAMKLAGALGVPAETLF-GE 62

Query: 78 PTVCSDIS 85
          P   S I+
Sbjct: 63 PAAASAIT 70


>gi|329577286|gb|EGG58747.1| DNA-binding helix-turn-helix protein [Enterococcus faecalis
          TX1467]
          Length = 377

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          K++   R+  G++ ++L E  G++ Q +  YE G     A  L  +  VL  P SFF
Sbjct: 10 KQLTSARISRGLTMKELAEKSGLSRQMISNYESGKTIQKAESLLKLLSVLNFPRSFF 66


>gi|320638697|gb|EFX08362.1| putative transcriptional regulator from phage origin [Escherichia
          coli O157:H7 str. G5101]
          Length = 230

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M    L E +G+    + + E G  +      L +I+  L   I+
Sbjct: 1  MNIGNRVRQLRQAKNMKIADLAEAIGVDAANISRLETGKQKQFTEQALSNIARSLGVDIA 60

Query: 72 FFF 74
            F
Sbjct: 61 DLF 63


>gi|310659749|ref|YP_003937470.1| hypothetical protein CLOST_2450 [Clostridium sticklandii DSM 519]
 gi|308826527|emb|CBH22565.1| conserved protein of unknown function [Clostridium sticklandii]
          Length = 199

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 32/63 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ I   R   G++Q+++ + L I+ + V K+E G+     +    +SEVL + I    
Sbjct: 6  VGQLILKLRNEKGLTQKQVADSLNISNKTVSKWECGMGCPDVTLWTELSEVLGADILKLL 65

Query: 75 DVS 77
          +  
Sbjct: 66 EGE 68


>gi|307131678|ref|YP_003883694.1| hypothetical protein Dda3937_02768 [Dickeya dadantii 3937]
 gi|306529207|gb|ADM99137.1| hypothetical protein Dda3937_02768 [Dickeya dadantii 3937]
          Length = 81

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/66 (34%), Positives = 31/66 (46%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          V  K  P      +G+ IR RR  LG+SQE L    GI    + + E+G   V    L  
Sbjct: 4  VSGKNDPAHALPLLGQTIRQRREFLGLSQENLASATGIDRSHMGRIERGERNVTLLNLLR 63

Query: 62 ISEVLE 67
          I++ LE
Sbjct: 64 IADALE 69


>gi|303246535|ref|ZP_07332814.1| transcriptional regulator, XRE family [Desulfovibrio
          fructosovorans JJ]
 gi|302492245|gb|EFL52120.1| transcriptional regulator, XRE family [Desulfovibrio
          fructosovorans JJ]
          Length = 186

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 28/67 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R+R  R + G + E+L E  G++  QV  YE G   +  S L  +++     ++ 
Sbjct: 9  REIAMRLRGIREVTGFTMEQLAEATGVSADQVLLYETGEEEIPVSYLYEVAKAAGVDLTA 68

Query: 73 FFDVSPT 79
                 
Sbjct: 69 LLTGGEA 75


>gi|292486897|ref|YP_003529767.1| putative transcriptional regulator [Erwinia amylovora CFBP1430]
 gi|292900708|ref|YP_003540077.1| DNA-binding protein [Erwinia amylovora ATCC 49946]
 gi|291200556|emb|CBJ47685.1| putative DNA-binding protein [Erwinia amylovora ATCC 49946]
 gi|291552314|emb|CBA19353.1| putative transcriptional regulator [Erwinia amylovora CFBP1430]
 gi|312170967|emb|CBX79226.1| putative transcriptional regulator [Erwinia amylovora ATCC
          BAA-2158]
          Length = 85

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 36/69 (52%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+  G+SQ+KLG   GI       ++ +YE+G++      +  ++ VL+ P  + 
Sbjct: 5  RLKEARLKKGLSQQKLGVLAGIDEATASARMNQYERGIHVPDFELVCRLAAVLDVPSCYL 64

Query: 74 FDVSPTVCS 82
          + +   + +
Sbjct: 65 YTLEDDLAA 73


>gi|229137167|ref|ZP_04265786.1| Helix-turn-helix domain protein [Bacillus cereus BDRD-ST26]
 gi|228646339|gb|EEL02554.1| Helix-turn-helix domain protein [Bacillus cereus BDRD-ST26]
          Length = 70

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RIR  R    ++QE+L + LG +    +   E G  ++ A ++  ++E L   I   F
Sbjct: 2  RIRHIRKAKKITQEELAKNLGFSGSSAISYIENGQRKLNADKIPKLAECLGVTIEEIF 59


>gi|226308038|ref|YP_002767998.1| Xre family DNA-binding protein [Rhodococcus erythropolis PR4]
 gi|226187155|dbj|BAH35259.1| putative Xre family DNA-binding protein [Rhodococcus erythropolis
           PR4]
          Length = 195

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 38/107 (35%), Gaps = 9/107 (8%)

Query: 4   NKKIPNPVDI---NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           N   P+ +D     +G R++  R    ++   L E  GI+   + + E G  R     L 
Sbjct: 2   NVNGPH-IDAAISQIGARLKRIRTQRNVTLTALSESTGISKSTLSRLEAGERRPSLELLL 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENN-----VMDFISTPDGLQ 102
            I+   + P+             I S   +     V+     P GLQ
Sbjct: 61  PIALAHQVPLDQLVAAPQVADPRIQSAPRSVSGRTVLPLTRQPGGLQ 107


>gi|168487127|ref|ZP_02711635.1| transcriptional activator [Streptococcus pneumoniae CDC1087-00]
 gi|183569965|gb|EDT90493.1| transcriptional activator [Streptococcus pneumoniae CDC1087-00]
          Length = 303

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|156934250|ref|YP_001438166.1| DNA-binding transcriptional repressor PuuR [Cronobacter sakazakii
          ATCC BAA-894]
 gi|156532504|gb|ABU77330.1| hypothetical protein ESA_02080 [Cronobacter sakazakii ATCC
          BAA-894]
          Length = 185

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 29/59 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GKR+   R  LG+SQ ++ E  G+T   +   E+       S LQ + +V    +S FF
Sbjct: 9  GKRLAQIRQQLGLSQRRVAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFF 67


>gi|148557504|ref|YP_001265086.1| XRE family transcriptional regulator [Sphingomonas wittichii RW1]
 gi|148502694|gb|ABQ70948.1| transcriptional regulator, XRE family [Sphingomonas wittichii RW1]
          Length = 252

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 28/71 (39%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  +R  R+  G+S  +L    G+ F  + K E G   +   RL  +++ L   I   F 
Sbjct: 40  GPALRAARLDKGLSLRELAARTGLPFSTLSKLENGKMGMTYDRLVLLAQALGVEIGKLFS 99

Query: 76  VSPTVCSDISS 86
            +        +
Sbjct: 100 TAAPDEPARGA 110


>gi|146313164|ref|YP_001178238.1| XRE family transcriptional regulator [Enterobacter sp. 638]
 gi|145320040|gb|ABP62187.1| transcriptional regulator, XRE family [Enterobacter sp. 638]
          Length = 200

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 33/87 (37%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +      V + V  RIR  R    +S ++L     ++   + + EKG      + L 
Sbjct: 8  MTESGADIAQVSLAVASRIRSWRKDKKLSLDELSRRASVSKGMLVEIEKGAANPSIAILC 67

Query: 61 HISEVLESPISFFFDVSPTVCSDISSE 87
           ++  L   ++   +VS      +  E
Sbjct: 68 KLAAALGVSVADIVNVSSEPLVHVIEE 94


>gi|110800946|ref|YP_695377.1| Cro/CI family transcriptional regulator [Clostridium perfringens
          ATCC 13124]
 gi|110675593|gb|ABG84580.1| transcriptional regulator, Cro/CI family [Clostridium perfringens
          ATCC 13124]
          Length = 167

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/75 (18%), Positives = 33/75 (44%), Gaps = 1/75 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
           RI+ RR+ L +S + L     ++   +Q+YE G +  +   +L  I+  L+    +   
Sbjct: 15 NRIQSRRLELKLSYQDLASKTNMSKSTLQRYETGSIKNMPVDKLGVIAAALDVSPIWLLG 74

Query: 76 VSPTVCSDISSEENN 90
          +     +  +  ++ 
Sbjct: 75 LDEVGENSNNLSKDE 89


>gi|153822286|ref|ZP_01974953.1| membrane associated protein containing xre-family DNA-binding HTH
          domain [Vibrio cholerae B33]
 gi|16197752|gb|AAK95990.1| unknown [Vibrio cholerae O1 biovar El Tor]
 gi|126520182|gb|EAZ77405.1| membrane associated protein containing xre-family DNA-binding HTH
          domain [Vibrio cholerae B33]
 gi|223972392|dbj|BAH23423.1| membrane associated protein containing xre-family DNA-binding HTH
          domain [Vibrio cholerae O1 biovar El tor]
 gi|259156102|gb|ACV96050.1| membrane associated protein containing xre-family DNA-binding HTH
          domain [Providencia alcalifaciens Ban1]
 gi|259156265|gb|ACV96212.1| membrane associated protein containing xre-family DNA-binding HTH
          domain [Vibrio cholerae Ban5]
 gi|259156445|gb|ACV96390.1| membrane associated protein containing xre-family DNA-binding HTH
          domain [Vibrio cholerae Ind5]
          Length = 136

 Score = 52.5 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 1/65 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+  R     SQE+L    G++ + +Q+ E G N+     L+ ++ V E  IS   +   
Sbjct: 2  IKKLRERKNWSQEQLATMSGLSVRTIQRIESG-NKASIESLKSLASVFEVDISKLLEEIT 60

Query: 79 TVCSD 83
           +  D
Sbjct: 61 VIDKD 65


>gi|329116195|ref|ZP_08244912.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis NCFD
           2020]
 gi|326906600|gb|EGE53514.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis NCFD
           2020]
          Length = 128

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/104 (23%), Positives = 43/104 (41%), Gaps = 12/104 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--- 73
           +++   R     SQ++L E L I+ Q + K+E+G      ++++ I EV      F    
Sbjct: 7   QQLVKLRKEKHFSQDELAEKLFISRQAISKWERGEVTPDLAKIEQIGEVFGVTTEFLLFG 66

Query: 74  --FDVSPTVCSDISSEENNVMDFISTPDG-----LQLNRYFIQI 110
             F+ +  V S    E  N+ D     +      L L R +  +
Sbjct: 67  KNFEDTWGVESFKYEEFQNIAD--EKKEERFDKLLDLFRSYWWL 108


>gi|332161374|ref|YP_004297951.1| putative DNA-binding protein [Yersinia enterocolitica subsp.
           palearctica 105.5R(r)]
 gi|325665604|gb|ADZ42248.1| putative DNA-binding protein [Yersinia enterocolitica subsp.
           palearctica 105.5R(r)]
 gi|330859495|emb|CBX69838.1| hypothetical protein YEW_DX16660 [Yersinia enterocolitica W22703]
          Length = 160

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/103 (20%), Positives = 43/103 (41%), Gaps = 6/103 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RIR  R     SQE+L E   +  + +Q+ E G        L  I+ V+E  +S  +   
Sbjct: 5   RIRELRQARAWSQEQLAELCSLNVRTIQRIENGEQ-ASLETLSAIAAVMELKVSELYSPD 63

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            +   + S E  +    +   + ++    F++    ++ + +I
Sbjct: 64  SSQPPETSGEAVD-QRVVDAREAVENEMSFLR----RLLRAVI 101


>gi|314938405|ref|ZP_07845696.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
 gi|314942330|ref|ZP_07849178.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|314951464|ref|ZP_07854514.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|314993125|ref|ZP_07858511.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|314996008|ref|ZP_07861086.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313589762|gb|EFR68607.1| helix-turn-helix protein [Enterococcus faecium TX0133a01]
 gi|313592365|gb|EFR71210.1| helix-turn-helix protein [Enterococcus faecium TX0133B]
 gi|313596421|gb|EFR75266.1| helix-turn-helix protein [Enterococcus faecium TX0133A]
 gi|313598947|gb|EFR77792.1| helix-turn-helix protein [Enterococcus faecium TX0133C]
 gi|313642303|gb|EFS06883.1| helix-turn-helix protein [Enterococcus faecium TX0133a04]
          Length = 95

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G+SQ +L + + +T Q V  ++ G       +++ +SE+L  P++  F
Sbjct: 29 SNLSRYRKEKGLSQTELAKKMNVTQQCVSSWQTGRTIPKPYQMKMLSEILSVPMNELF 86


>gi|302129811|ref|ZP_07255801.1| putative phage repressor [Pseudomonas syringae pv. tomato NCPPB
           1108]
          Length = 259

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/115 (19%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+ +RI+L R    ++Q +L E +GI    + + E G   + +S L  I++       +
Sbjct: 1   MNLSERIKLARKEAHLTQSELAEKVGIAQTAISQLESGKT-LRSSYLLQIAQECGVNSLW 59

Query: 73  F--FDVSPTVCSDISSEENNVMDFISTPD---GLQLNRYFIQIDDVKVRQKIIEL 122
               +       D        ++ + + +      LN          VR++I  L
Sbjct: 60  LQTGEGDIHTLEDPKDLWAAALEELVSGEHEDDAPLNNA--------VRKRIEAL 106


>gi|284036062|ref|YP_003385992.1| XRE family transcriptional regulator [Spirosoma linguale DSM 74]
 gi|283815355|gb|ADB37193.1| transcriptional regulator, XRE family [Spirosoma linguale DSM 74]
          Length = 141

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 28/130 (21%), Positives = 54/130 (41%), Gaps = 14/130 (10%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++IRL+R+  G+SQE + + L ++       E+G   +  SRL  I+ VL          
Sbjct: 11  EKIRLQRLQRGLSQENMADLLNLSTTAYGDIERGKTDLTLSRLSQIANVLAISPLALLTD 70

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR------------QKIIELVR 124
                  +  +   V       + L+L     Q++  K+R            +  +E++R
Sbjct: 71  EAIPAQVVEEKSEEVAS--HELETLRLVVEKQQLELDKLRLEADYWKRKYDDRIAMEVLR 128

Query: 125 SIVSSEKKYR 134
           S+   +K+ R
Sbjct: 129 SMGVEQKRER 138


>gi|220905587|ref|YP_002480899.1| XRE family transcriptional regulator [Desulfovibrio desulfuricans
          subsp. desulfuricans str. ATCC 27774]
 gi|219869886|gb|ACL50221.1| transcriptional regulator, XRE family [Desulfovibrio
          desulfuricans subsp. desulfuricans str. ATCC 27774]
          Length = 189

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 25/67 (37%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P    +G RIR  R    +  E L +  G+    +QK E          LQ ++  L   
Sbjct: 2  PAARTIGSRIRAFREEREVDLETLAQNTGLDQCYLQKLESDTIYPSIGPLQKVARALGVR 61

Query: 70 ISFFFDV 76
          +  F D 
Sbjct: 62 LGTFLDD 68


>gi|154504949|ref|ZP_02041687.1| hypothetical protein RUMGNA_02459 [Ruminococcus gnavus ATCC
          29149]
 gi|153794832|gb|EDN77252.1| hypothetical protein RUMGNA_02459 [Ruminococcus gnavus ATCC
          29149]
          Length = 248

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/81 (16%), Positives = 39/81 (48%), Gaps = 3/81 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +   R   G +Q++L E L ++ + + K+E+G++    + L+ ++++L   ++   +
Sbjct: 13 GGFVAALRKEKGYTQKELAEKLFLSNKAISKWERGLSLPDIALLEPLADILGVTVA---E 69

Query: 76 VSPTVCSDISSEENNVMDFIS 96
          +        + E   + + + 
Sbjct: 70 LLKGERIHAALEPQEMDELLG 90


>gi|66043508|ref|YP_233349.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. syringae B728a]
 gi|63254215|gb|AAY35311.1| Helix-turn-helix motif [Pseudomonas syringae pv. syringae B728a]
          Length = 199

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 25/113 (22%), Positives = 50/113 (44%), Gaps = 12/113 (10%)

Query: 1   MVGNKKIPNP----VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA 56
           M      P+     + ++VG+R++  R + G+SQ +L +  G+T   +   EK       
Sbjct: 2   MAFTSTRPDKTWGNIALDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSI 61

Query: 57  SRLQHISEVL-ESPISF--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           S L+   +VL   P+S   FF  +  P   + +  + + ++D       ++L 
Sbjct: 62  SSLR---KVLGGIPMSMVEFFSEESVPENAAQVVYKASELIDISDGAVTMKLV 111


>gi|313667112|gb|ADR73004.1| C.BspHIP [Bacillus sp. H(2010)]
          Length = 71

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 28/56 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G +I++ R   G+SQE L +   IT   + + E G       +++ ISE L   +
Sbjct: 9  LGSKIKILRKSRGVSQEDLAKQSEITRTYLTQIENGKVNPSIGKIKKISENLNISL 64


>gi|313887816|ref|ZP_07821496.1| DNA-binding helix-turn-helix protein [Peptoniphilus harei
          ACS-146-V-Sch2b]
 gi|312846159|gb|EFR33540.1| DNA-binding helix-turn-helix protein [Peptoniphilus harei
          ACS-146-V-Sch2b]
          Length = 70

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 27/63 (42%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++ +  +I   R  LG+SQ KL + +G+  + +  YE             I +VL   I 
Sbjct: 5  NVVIENKIAEYRKELGLSQHKLAKAVGLKRRSIMAYENNTISPTLETAYKICKVLGKDIK 64

Query: 72 FFF 74
            F
Sbjct: 65 EVF 67


>gi|261820696|ref|YP_003258802.1| XRE family transcriptional regulator [Pectobacterium wasabiae
           WPP163]
 gi|261604709|gb|ACX87195.1| transcriptional regulator, XRE family [Pectobacterium wasabiae
           WPP163]
          Length = 96

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 36/92 (39%), Gaps = 2/92 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G+ I+L R   G+SQ  L      +   +   E        S L  I+  L+ P+S 
Sbjct: 1   MNIGQAIKLCRTRRGISQTDLANKAECSVSYLSMLENNKRDPTLSTLTKIATALKLPVSI 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            F ++         ++    +   T   L+L 
Sbjct: 61  IFFIAAETGDLNGMDKGLQGELART--ALELL 90


>gi|256397327|ref|YP_003118891.1| XRE family transcriptional regulator [Catenulispora acidiphila DSM
           44928]
 gi|256363553|gb|ACU77050.1| transcriptional regulator, XRE family [Catenulispora acidiphila DSM
           44928]
          Length = 165

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/129 (16%), Positives = 53/129 (41%), Gaps = 20/129 (15%)

Query: 8   PNPVDIN----VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           PNP+       +G+ IR +R     S  +L +  G++   + + E+G+ +  A  LQ ++
Sbjct: 3   PNPLGALPIGPLGEYIREQRRNAEYSVRQLAQAAGVSNPYLSQIERGLRKPSAEILQQLA 62

Query: 64  EVLESPISFFF------DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           + L       +      D    V  D +++ + V   ++    L          + + ++
Sbjct: 63  KALRISAETLYVRAGLLDGGADVDEDAATDGHGVRSAVADDPWL----------NARQKR 112

Query: 118 KIIELVRSI 126
            ++++  + 
Sbjct: 113 ALLDIYEAF 121


>gi|255533832|ref|YP_003094204.1| helix-turn-helix domain-containing protein [Pedobacter heparinus
           DSM 2366]
 gi|255346816|gb|ACU06142.1| helix-turn-helix domain protein [Pedobacter heparinus DSM 2366]
          Length = 113

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 44/113 (38%), Gaps = 15/113 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + K I+  R   G SQ ++ E L I+     K E G+  +   RL  I+ +LE+ I    
Sbjct: 4   ISKNIKRFRQKKGWSQREVAEQLNISIPAFSKIENGITDINLKRLGQIATLLEASIMDLM 63

Query: 75  DVSPTVCSDISSEENNVMDF-ISTP--DGLQLNRYFIQIDDVKVRQKIIELVR 124
                      S   N++   ++    + + L            ++++IEL  
Sbjct: 64  ATDGENPQSKHSMHVNMLKIKLAKKEEEVIDL------------QRRVIELYE 104


>gi|256823032|ref|YP_003146995.1| XRE family transcriptional regulator [Kangiella koreensis DSM
          16069]
 gi|256796571|gb|ACV27227.1| transcriptional regulator, XRE family [Kangiella koreensis DSM
          16069]
          Length = 70

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RIR+ R    MSQ +L E +G++ + +   E G           I+E  + P+   F
Sbjct: 7  NRIRVFRAEHRMSQGELAEAIGVSRKTISTIEVGKFVPSTIIALKIAEYFKVPVEEVF 64


>gi|261368648|ref|ZP_05981531.1| toxin-antitoxin system, antitoxin component, Xre family
           [Subdoligranulum variabile DSM 15176]
 gi|282569235|gb|EFB74770.1| toxin-antitoxin system, antitoxin component, Xre family
           [Subdoligranulum variabile DSM 15176]
          Length = 232

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 34/83 (40%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           + L R   G++Q++  + LGI+  Q+  YEKG+   G + +  +++       +    S 
Sbjct: 9   LTLLRKERGITQKQAAQDLGISQAQLSHYEKGIRECGLAFVVQVADYYGVSCDYLLGRSA 68

Query: 79  TVCSDISSEENNVMDFISTPDGL 101
                    E+      +T   +
Sbjct: 69  ERSGQTIRVEDLPDANAATSGSV 91


>gi|222109211|ref|YP_002551476.1| hypothetical protein Avi_9645 [Agrobacterium vitis S4]
 gi|221738485|gb|ACM39350.1| conserved hypothetical protein [Agrobacterium vitis S4]
          Length = 163

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 39/79 (49%), Gaps = 1/79 (1%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFFDVS 77
           +R  R   G+++ +    LG++     +YE+  +++  +RL H+ E+L  SP+   ++ +
Sbjct: 52  LRKMREQAGLTRAEFAPLLGLSVPVYSRYERAFSKIHVTRLLHVCELLGLSPVEMLYEAA 111

Query: 78  PTVCSDISSEENNVMDFIS 96
           P +      E  +    ++
Sbjct: 112 PHLWGSTDEEAEDRFRLVA 130


>gi|182684266|ref|YP_001836013.1| transcriptional regulator, putative [Streptococcus pneumoniae
          CGSP14]
 gi|221232045|ref|YP_002511197.1| epsilon antitoxin [Streptococcus pneumoniae ATCC 700669]
 gi|182629600|gb|ACB90548.1| transcriptional regulator, putative [Streptococcus pneumoniae
          CGSP14]
 gi|220674505|emb|CAR69066.1| putative epsilon antitoxin [Streptococcus pneumoniae ATCC 700669]
          Length = 158

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQLEFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|104774634|ref|YP_619614.1| XRE family transcriptional regulator [Lactobacillus delbrueckii
          subsp. bulgaricus ATCC 11842]
 gi|103423715|emb|CAI98696.1| Putative transcriptional regulator (Xre family) [Lactobacillus
          delbrueckii subsp. bulgaricus ATCC 11842]
          Length = 119

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 26/55 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK +R  R   GMSQ++L   LG++ Q +  +E G        +  I+ +    
Sbjct: 6  IGKYLRDLRRRRGMSQQELALALGVSKQTISNWEVGRKVPRMKAVDKIANIFGVS 60


>gi|52841492|ref|YP_095291.1| phage repressor [Legionella pneumophila subsp. pneumophila str.
           Philadelphia 1]
 gi|52628603|gb|AAU27344.1| phage repressor [Legionella pneumophila subsp. pneumophila str.
           Philadelphia 1]
          Length = 246

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 31/74 (41%), Gaps = 1/74 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G RI+  RM   ++ + L E    +   ++  YE+G    G   ++ ++  LE   SF 
Sbjct: 27  IGLRIKQERMSKKLTMKALAELTDNLNISRINNYERGERTPGPEEIKQLARALEVSPSFL 86

Query: 74  FDVSPTVCSDISSE 87
             +S        + 
Sbjct: 87  MCLSDDRQGSFKTP 100


>gi|28210370|ref|NP_781314.1| transcriptional regulatory protein [Clostridium tetani E88]
 gi|28202807|gb|AAO35251.1| transcriptional regulatory protein [Clostridium tetani E88]
          Length = 343

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/98 (19%), Positives = 46/98 (46%), Gaps = 10/98 (10%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF---- 74
           IR  R    ++QE++   L I+   V K+E G++    + L  ++ VL+  ++       
Sbjct: 7   IRNYRKKENLTQEQVANYLNISAPAVNKWENGISYPDITLLAPLARVLKIDVNTLLAFNE 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
           +++    ++ + E + ++    + DG +  + F +  D
Sbjct: 67  ELTDAEVNNFTKEISEII----SKDGYE--KAFKKGSD 98


>gi|150018771|ref|YP_001311025.1| XRE family transcriptional regulator [Clostridium beijerinckii
          NCIMB 8052]
 gi|149905236|gb|ABR36069.1| transcriptional regulator, XRE family [Clostridium beijerinckii
          NCIMB 8052]
          Length = 117

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/68 (16%), Positives = 28/68 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +++L R    ++Q+KL E +G++   +   E          L  ++  L + + +  
Sbjct: 2  LGDKVKLLRKERKITQQKLAEAIGVSQSTIGMIEGNRQGASNDTLIKLANTLNTTVDYLL 61

Query: 75 DVSPTVCS 82
            +     
Sbjct: 62 SDNIEELD 69


>gi|269976760|ref|ZP_06183735.1| transcriptional regulator [Mobiluncus mulieris 28-1]
 gi|306818115|ref|ZP_07451846.1| XRE family transcriptional regulator [Mobiluncus mulieris ATCC
          35239]
 gi|269934957|gb|EEZ91516.1| transcriptional regulator [Mobiluncus mulieris 28-1]
 gi|304649079|gb|EFM46373.1| XRE family transcriptional regulator [Mobiluncus mulieris ATCC
          35239]
          Length = 65

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 22/58 (37%)

Query: 22 RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPT 79
           R   G SQEKL E LG++ Q V   EKG           I++     I   F     
Sbjct: 8  LRKQAGWSQEKLAELLGVSRQTVISIEKGRFDPSLPLAFTIAKTFNCKIEDIFTPDDA 65


>gi|317048764|ref|YP_004116412.1| XRE family transcriptional regulator [Pantoea sp. At-9b]
 gi|316950381|gb|ADU69856.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
          Length = 185

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 29/59 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+R+   R  LG+SQ ++ E  G+T   +   E+       S LQ + +V    +S FF
Sbjct: 9  GRRLSQIRQELGLSQRRVAELSGLTHSAISTIEQDKVSPAVSTLQKLLKVYGLSLSEFF 67


>gi|225867621|ref|YP_002743569.1| DNA-binding protein [Streptococcus equi subsp. zooepidemicus]
 gi|225700897|emb|CAW97557.1| putative DNA-binding protein [Streptococcus equi subsp.
          zooepidemicus]
          Length = 120

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 36/82 (43%), Gaps = 2/82 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++  R+   +SQ+ L E L I+ Q + K+E G        L  ++ VLE  +      
Sbjct: 6  EQLKKYRLEKQLSQDALAEKLFISRQAISKWENGDATPDLENLVTLAAVLEVTLDELVTG 65

Query: 77 SPTVCSDISSEEN--NVMDFIS 96
                 I   E   NV +F++
Sbjct: 66 KEPAIKVIKKTEKPMNVWEFLT 87


>gi|225375839|ref|ZP_03753060.1| hypothetical protein ROSEINA2194_01471 [Roseburia inulinivorans DSM
           16841]
 gi|225212274|gb|EEG94628.1| hypothetical protein ROSEINA2194_01471 [Roseburia inulinivorans DSM
           16841]
          Length = 142

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/129 (16%), Positives = 48/129 (37%), Gaps = 22/129 (17%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++  R +   +Q+ + E LG+  Q    YE G     A     ++ +    +     +
Sbjct: 8   QKLKELRKVNNYTQDYVAEVLGVVRQTYSHYETGKRTPDAEAFYKLAGLYNISVDDLLHL 67

Query: 77  ----------SPTVCSDISSEENNVMDFISTPD-----------GLQLNRYFIQIDDVKV 115
                          +  S++ +  ++F + P              +L  YF +I D   
Sbjct: 68  TIDIDREESYDAPAPTQASTDLSEFLEFFNDPSNKKKYMFNTNLERELLFYFDKISDED- 126

Query: 116 RQKIIELVR 124
           +++IIE  +
Sbjct: 127 KKEIIEFTK 135


>gi|149007465|ref|ZP_01831108.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP18-BS74]
 gi|168484288|ref|ZP_02709240.1| transcriptional activator [Streptococcus pneumoniae CDC1873-00]
 gi|168492034|ref|ZP_02716177.1| transcriptional activator [Streptococcus pneumoniae CDC0288-04]
 gi|147761037|gb|EDK68006.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP18-BS74]
 gi|172042463|gb|EDT50509.1| transcriptional activator [Streptococcus pneumoniae CDC1873-00]
 gi|183573657|gb|EDT94185.1| transcriptional activator [Streptococcus pneumoniae CDC0288-04]
 gi|332071967|gb|EGI82455.1| transcriptional activator [Streptococcus pneumoniae GA17545]
 gi|332199415|gb|EGJ13492.1| transcriptional activator [Streptococcus pneumoniae GA47368]
          Length = 303

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|42784215|ref|NP_981462.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|42740146|gb|AAS44070.1| DNA-binding protein [Bacillus cereus ATCC 10987]
          Length = 79

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+++   P+ 
Sbjct: 6  DMKLQNRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAQIFNVPVE 65

Query: 72 FFF 74
            F
Sbjct: 66 EIF 68


>gi|25011386|ref|NP_735781.1| hypothetical protein gbs1344 [Streptococcus agalactiae NEM316]
 gi|24412924|emb|CAD47003.1| unknown [Streptococcus agalactiae NEM316]
          Length = 158

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  I+  R    ++Q +  + +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGDNIKSLRRTHDLTQPEFAKIIGISRNSLSRYENGTSSVSTELIDRICQKFNVS 56


>gi|125972885|ref|YP_001036795.1| XRE family transcriptional regulator [Clostridium thermocellum
          ATCC 27405]
 gi|256006006|ref|ZP_05430945.1| transcriptional regulator, XRE family [Clostridium thermocellum
          DSM 2360]
 gi|281417085|ref|ZP_06248105.1| transcriptional regulator, XRE family [Clostridium thermocellum
          JW20]
 gi|125713110|gb|ABN51602.1| transcriptional regulator, XRE family [Clostridium thermocellum
          ATCC 27405]
 gi|255990029|gb|EEU00172.1| transcriptional regulator, XRE family [Clostridium thermocellum
          DSM 2360]
 gi|281408487|gb|EFB38745.1| transcriptional regulator, XRE family [Clostridium thermocellum
          JW20]
 gi|316940876|gb|ADU74910.1| helix-turn-helix domain protein [Clostridium thermocellum DSM
          1313]
          Length = 231

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 25/55 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++  R    +SQ+ + + LGIT Q V  YE          L+ +++  +  I + 
Sbjct: 7  LKQLREEKRLSQKDIADYLGITRQAVASYELAKREPDYEVLKKLADYFDVSIDYL 61


>gi|326331111|ref|ZP_08197409.1| putative Helix-turn-helix domain protein [Nocardioidaceae
          bacterium Broad-1]
 gi|325951152|gb|EGD43194.1| putative Helix-turn-helix domain protein [Nocardioidaceae
          bacterium Broad-1]
          Length = 181

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 28/54 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G R+R  R   GM+  +L E   ++   + + E+G+ R   S L  I++ L +
Sbjct: 4  LGSRVRELRKAQGMTLVQLAEATDLSHPFLSQIERGMARPSMSSLFRIAQTLGT 57


>gi|323481312|gb|ADX80751.1| helix-turn-helix family protein [Enterococcus faecalis 62]
          Length = 306

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 25/54 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          G  ++  R    ++Q+KL E  GI+   + KYE G   +  +    +S+ L   
Sbjct: 10 GNILKSLRKEQKLTQKKLSELTGISQSALVKYENGTRGISKNVDIALSKALNVD 63



 Score = 37.9 bits (87), Expect = 0.43,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 3/57 (5%)

Query: 10  PVDINV-GKRIRLRRMILGMSQEKLGECLGI--TFQQVQKYEKGVNRVGASRLQHIS 63
            +D N+ G RI+  R   G S EK G+          + ++E GVN     RL +++
Sbjct: 149 SIDKNLMGNRIKTIRKNRGESLEKFGQNFTCPARKNVINRWENGVNIPDVERLMNVA 205



 Score = 34.8 bits (79), Expect = 4.1,   Method: Composition-based stats.
 Identities = 10/50 (20%), Positives = 20/50 (40%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            RI   R +  +S + L   +GI+   +     G  ++     + I+  L
Sbjct: 78  NRIIEYRDLNNLSNKNLANKIGISEALLSYILNGRRKLSKEIQRKIALFL 127



 Score = 33.6 bits (76), Expect = 9.1,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 24/61 (39%), Gaps = 2/61 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +G R R  R    + +   G+     IT   + KYE G +     R+   + + +  + F
Sbjct: 242 LGVRFRKIRSDYRLERINFGKLFSPSITKWSIDKYENGKDVPNTERIIQYAYIGKVSLEF 301

Query: 73  F 73
            
Sbjct: 302 L 302


>gi|315645386|ref|ZP_07898510.1| XRE family transcriptional regulator [Paenibacillus vortex V453]
 gi|315278864|gb|EFU42174.1| XRE family transcriptional regulator [Paenibacillus vortex V453]
          Length = 106

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 32/74 (43%), Gaps = 3/74 (4%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           V I +G  IR  R    ++QE+L E +G +F  + + E+G        L+ I+  L   
Sbjct: 4  SVAITLGIAIREIRKNQNLTQEELAEKIGSSFSYIGRLERGEGNFTVQTLEKITTALNID 63

Query: 70 ISFFFDVSPTVCSD 83
             FFD       D
Sbjct: 64 ---FFDFMSLGKKD 74


>gi|326774009|ref|ZP_08233291.1| transcriptional regulator [Actinomyces viscosus C505]
 gi|326636148|gb|EGE37052.1| transcriptional regulator [Actinomyces viscosus C505]
          Length = 146

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/63 (19%), Positives = 23/63 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +   I   R     +QE L   +G++ Q + K+E        S    ++ V +  I    
Sbjct: 2  INSNIATLRKKHRWTQEALANKVGVSRQTIAKWEAPGGNPDISSCVRLAHVFDVSIDDLV 61

Query: 75 DVS 77
          +  
Sbjct: 62 NGD 64


>gi|295106009|emb|CBL03552.1| Predicted transcriptional regulators [Gordonibacter pamelaeae
          7-10-1-b]
          Length = 153

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 29/66 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ +   R    ++QE +   L +T Q V ++E G    G    + I+   + P+  
Sbjct: 1  MAIGESLARMRRERNLTQEDVARRLYVTRQAVSRWETGETEPGVDMCKLIAATFDMPLME 60

Query: 73 FFDVSP 78
            ++  
Sbjct: 61 LLEMPD 66


>gi|288905901|ref|YP_003431123.1| transcriptional regulator, Cro/CI family [Streptococcus
           gallolyticus UCN34]
 gi|288732627|emb|CBI14199.1| putative transcriptional regulator, Cro/CI family [Streptococcus
           gallolyticus UCN34]
          Length = 117

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/88 (17%), Positives = 39/88 (44%), Gaps = 2/88 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           KR++  R    ++Q++L + L ++ Q +  +E+G  +     + +I++       +    
Sbjct: 4   KRLKKLRKEANLTQQELAKNLNVSQQIIGLWERGERKPKIEAINNIAKYFNVSTEYL--Q 61

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLN 104
             T   +I  +E  + + +      +LN
Sbjct: 62  GKTDNKEIEEDELELANTLFRTTVKELN 89


>gi|288947755|ref|YP_003445138.1| transcriptional regulator, XRE family [Allochromatium vinosum DSM
          180]
 gi|288898271|gb|ADC64106.1| transcriptional regulator, XRE family [Allochromatium vinosum DSM
          180]
          Length = 79

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 33/59 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +G R+++RR  LG++Q +L E +G+T   + ++E G   +   +   +++ L + + 
Sbjct: 8  KELGHRLKVRRTELGLNQTELAERIGLTQAYISQWELGTRAMRIEQAVVLTQALNTTLG 66


>gi|237732671|ref|ZP_04563152.1| DNA-binding protein [Mollicutes bacterium D7]
 gi|229384247|gb|EEO34338.1| DNA-binding protein [Coprobacillus sp. D7]
          Length = 344

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 34/53 (64%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I+ +R+ LG +QE+L + L +T   V K+E+G++    + L  ++ +L++ ++
Sbjct: 7  IKEKRLALGYTQEQLAKFLNLTTPAVNKWERGISYPDITILPALARILKTDLN 59


>gi|237735295|ref|ZP_04565776.1| predicted protein [Mollicutes bacterium D7]
 gi|229381040|gb|EEO31131.1| predicted protein [Coprobacillus sp. D7]
          Length = 70

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 31/67 (46%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +++  G RI+  R+   +SQE+L    G++   +   E+G   V    ++ I+     
Sbjct: 2  DKIEVKFGHRIKELRLKQNISQEELAFRCGLSKNYISDVERGTRNVSLKSIEKIANGFAV 61

Query: 69 PISFFFD 75
           +   FD
Sbjct: 62 NLKELFD 68


>gi|226322523|ref|ZP_03798041.1| hypothetical protein COPCOM_00295 [Coprococcus comes ATCC 27758]
 gi|225209017|gb|EEG91371.1| hypothetical protein COPCOM_00295 [Coprococcus comes ATCC 27758]
          Length = 197

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/101 (17%), Positives = 41/101 (40%), Gaps = 5/101 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RIR  R   G++ +++ E  G T   + + E+ +       L+ I+  L+    +   
Sbjct: 3   GSRIREMRKKRGLTLKEVAEATGYTIGHISQIERDLKSPSLVALRKIAVCLDCSEVWLIM 62

Query: 76  VSPTVCSDISSEENNVMD-FISTPDGLQLNRYFIQIDDVKV 115
               + +    E     + ++   +    NR  ++I ++ V
Sbjct: 63  GDSELSAKSPEEGKKSKESYLVRKE----NRIPMKIPEIDV 99


>gi|160939992|ref|ZP_02087337.1| hypothetical protein CLOBOL_04881 [Clostridium bolteae ATCC
          BAA-613]
 gi|158436572|gb|EDP14339.1| hypothetical protein CLOBOL_04881 [Clostridium bolteae ATCC
          BAA-613]
          Length = 74

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 30/67 (44%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           + I VG RIR  R  L +SQE L    G+    +   E G   +    L+ I   L+  
Sbjct: 6  DIRIKVGNRIRQLRKELLLSQESLAFKAGLDRTYIASVENGKRNLSIMSLEKIIVALDCS 65

Query: 70 ISFFFDV 76
          ++ FF+ 
Sbjct: 66 MAEFFET 72


>gi|114769621|ref|ZP_01447231.1| DNA-binding protein, putative [alpha proteobacterium HTCC2255]
 gi|114549326|gb|EAU52208.1| DNA-binding protein, putative [alpha proteobacterium HTCC2255]
          Length = 190

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 36/71 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R   G++  +L E +G +   + + E+ ++    + L+ +++  + P+S FF
Sbjct: 12 LGVDLRALRKSRGITLTELSEKMGRSVGWLSQVERDISSPTINELRQLAKEFQVPLSLFF 71

Query: 75 DVSPTVCSDIS 85
            +    +++ 
Sbjct: 72 GSTEAKANEVG 82


>gi|297581782|ref|ZP_06943703.1| DNA methyltransferase [Vibrio cholerae RC385]
 gi|297533876|gb|EFH72716.1| DNA methyltransferase [Vibrio cholerae RC385]
          Length = 69

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + VGKRI   R   G+SQ+KL     I    V + E+G   +   +L  +++ L   
Sbjct: 7  VIVGKRIAKIRKSKGLSQDKLALLSEIDRSYVGRIERGEVNITLEKLYELADTLGCD 63


>gi|47567072|ref|ZP_00237789.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
 gi|206970262|ref|ZP_03231215.1| DNA-binding protein [Bacillus cereus AH1134]
 gi|206978226|ref|ZP_03239106.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|217962506|ref|YP_002341078.1| DNA-binding protein [Bacillus cereus AH187]
 gi|218234825|ref|YP_002369834.1| DNA-binding protein [Bacillus cereus B4264]
 gi|222098481|ref|YP_002532539.1| DNA-binding protein [Bacillus cereus Q1]
 gi|296505465|ref|YP_003667165.1| PbsX family transcriptional regulator [Bacillus thuringiensis
          BMB171]
 gi|47556390|gb|EAL14724.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
 gi|206734839|gb|EDZ52008.1| DNA-binding protein [Bacillus cereus AH1134]
 gi|206743585|gb|EDZ55012.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|217065545|gb|ACJ79795.1| DNA-binding protein [Bacillus cereus AH187]
 gi|218162782|gb|ACK62774.1| DNA-binding protein [Bacillus cereus B4264]
 gi|221242540|gb|ACM15250.1| DNA-binding protein [Bacillus cereus Q1]
 gi|296326517|gb|ADH09445.1| PbsX family transcriptional regulator [Bacillus thuringiensis
          BMB171]
          Length = 73

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 27/67 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R    +SQ  LG+ +G + Q +   E+G           I+++   P+   F +
Sbjct: 5  NRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAQIFNVPVEEIFTL 64

Query: 77 SPTVCSD 83
                D
Sbjct: 65 VEGEEDD 71


>gi|15900920|ref|NP_345524.1| transcriptional regulator, putative [Streptococcus pneumoniae
          TIGR4]
 gi|111657887|ref|ZP_01408599.1| hypothetical protein SpneT_02000929 [Streptococcus pneumoniae
          TIGR4]
 gi|149242896|pdb|2P5T|A Chain A, Molecular And Structural Characterization Of The Pezat
          Chromosomal Toxin-Antitoxin System Of The Human
          Pathogen Streptococcus Pneumoniae
 gi|149242898|pdb|2P5T|C Chain C, Molecular And Structural Characterization Of The Pezat
          Chromosomal Toxin-Antitoxin System Of The Human
          Pathogen Streptococcus Pneumoniae
 gi|149242900|pdb|2P5T|E Chain E, Molecular And Structural Characterization Of The Pezat
          Chromosomal Toxin-Antitoxin System Of The Human
          Pathogen Streptococcus Pneumoniae
 gi|149242902|pdb|2P5T|G Chain G, Molecular And Structural Characterization Of The Pezat
          Chromosomal Toxin-Antitoxin System Of The Human
          Pathogen Streptococcus Pneumoniae
 gi|14972524|gb|AAK75164.1| putative transcriptional regulator [Streptococcus pneumoniae
          TIGR4]
          Length = 158

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK I+  R    ++Q +    +GI+   + +YE G + V    +  I +     
Sbjct: 2  IGKNIKSLRKTHDLTQLEFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVS 56


>gi|330821963|ref|YP_004350825.1| DNA-binding protein [Burkholderia gladioli BSR3]
 gi|327373958|gb|AEA65313.1| DNA-binding protein [Burkholderia gladioli BSR3]
          Length = 193

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/124 (17%), Positives = 48/124 (38%), Gaps = 8/124 (6%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
             N +  N   + +G +IR  R  L  + ++     GI+   + + E+G+     + L  
Sbjct: 5   TENTQAQNAA-VELGGKIRALRQRLKRTLDETAGAAGISKPFLSQVERGLASPSITSLAG 63

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           I+  L   + +F +      S    ++     F  +         F ++ +V   +++  
Sbjct: 64  IAHALGVNVQYFVETPSEERSVCRGDQLRFFSFADS------ANLFARLTNVSAGRQLEA 117

Query: 122 -LVR 124
            LVR
Sbjct: 118 ILVR 121


>gi|325840355|ref|ZP_08167002.1| transcriptional regulator, AbrB family [Turicibacter sp. HGF1]
 gi|325490340|gb|EGC92667.1| transcriptional regulator, AbrB family [Turicibacter sp. HGF1]
          Length = 143

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 24/57 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +   +R  R I   +QE + E L ++ Q + K+E G        L   S++    + 
Sbjct: 2  ISMNLRRLRKIHQYTQENVAEKLNVSRQSIAKWESGETTPDLEHLLKFSKLYNVSLD 58


>gi|307244718|ref|ZP_07526820.1| DNA-binding helix-turn-helix protein [Peptostreptococcus stomatis
          DSM 17678]
 gi|306491895|gb|EFM63946.1| DNA-binding helix-turn-helix protein [Peptostreptococcus stomatis
          DSM 17678]
          Length = 71

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 10/67 (14%), Positives = 31/67 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++  R   G++Q++LG+ + ++ Q +   E+G      +    ++++ +  +   F  
Sbjct: 5  NKLKEYRAQKGINQQELGKLVDVSRQTISLIERGDYNPSITLCLKLAKLFDVNVEDIFIY 64

Query: 77 SPTVCSD 83
               +D
Sbjct: 65 EEDEEND 71


>gi|306833435|ref|ZP_07466562.1| XRE family transcriptional regulator [Streptococcus bovis ATCC
          700338]
 gi|304424205|gb|EFM27344.1| XRE family transcriptional regulator [Streptococcus bovis ATCC
          700338]
          Length = 202

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 38/86 (44%), Gaps = 2/86 (2%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++ +G+RI++ R  + MSQ++    L I    +  YE   N      L +I++     + 
Sbjct: 3  NVTLGERIQVLRKNMKMSQKEFAVFLEIPQPSLSAYENNRNSPTIEVLINIAKKCHISLD 62

Query: 72 FFFDVSPTVCSDISSEENNVMDFIST 97
          +      +      S  ++V DF+ +
Sbjct: 63 WL--CGISTYQHQLSSLSDVGDFLYS 86


>gi|302188150|ref|ZP_07264823.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. syringae 642]
          Length = 201

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 11/101 (10%)

Query: 8   PNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  + +
Sbjct: 7   PHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRLCD 66

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           VL  P+S  F       S            +   +GL++ R
Sbjct: 67  VLGMPMSKLFSQYDQQGSSAL--------LVKADEGLEVVR 99


>gi|289825657|ref|ZP_06544828.1| transcriptional regulator, XRE family protein [Salmonella
          enterica subsp. enterica serovar Typhi str. E98-3139]
          Length = 185

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 19 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 76

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 77 PQAEFPPTFDPQQQAMVITP 96


>gi|256377105|ref|YP_003100765.1| XRE family transcriptional regulator [Actinosynnema mirum DSM
          43827]
 gi|255921408|gb|ACU36919.1| transcriptional regulator, XRE family [Actinosynnema mirum DSM
          43827]
          Length = 200

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 25/59 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG R+R  R   G++  +L    G++   + + E G  R     L  ++   + P+   
Sbjct: 12 VGPRLRALRRDRGVTLAELSLRTGVSESTLSRLESGQRRATLEFLLLLARAYDVPLDDL 70


>gi|322614855|gb|EFY11780.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 315996572]
 gi|322619297|gb|EFY16177.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 495297-1]
 gi|322623108|gb|EFY19950.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 495297-3]
 gi|322628399|gb|EFY25187.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 495297-4]
 gi|322638630|gb|EFY35325.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 515920-2]
 gi|322640981|gb|EFY37628.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 531954]
 gi|322645436|gb|EFY41964.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. NC_MB110209-0054]
 gi|322651679|gb|EFY48051.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. OH_2009072675]
 gi|322654419|gb|EFY50741.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. CASC_09SCPH15965]
 gi|322661261|gb|EFY57487.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 19N]
 gi|322665035|gb|EFY61223.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 81038-01]
 gi|322667779|gb|EFY63939.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. MD_MDA09249507]
 gi|322671809|gb|EFY67930.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 414877]
 gi|322677145|gb|EFY73209.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 366867]
 gi|322680191|gb|EFY76230.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 413180]
 gi|322685379|gb|EFY81375.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 446600]
 gi|323194734|gb|EFZ79923.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 609458-1]
 gi|323199893|gb|EFZ84981.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 556150-1]
 gi|323204415|gb|EFZ89423.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 609460]
 gi|323205808|gb|EFZ90771.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 507440-20]
 gi|323213863|gb|EFZ98638.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 556152]
 gi|323218217|gb|EGA02928.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. MB101509-0077]
 gi|323219101|gb|EGA03605.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. MB102109-0047]
 gi|323223909|gb|EGA08207.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. MB110209-0055]
 gi|323231997|gb|EGA16104.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. MB111609-0052]
 gi|323234524|gb|EGA18611.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 2009083312]
 gi|323237976|gb|EGA22035.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 2009085258]
 gi|323246445|gb|EGA30427.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. IA_2009159199]
 gi|323253730|gb|EGA37557.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. IA_2010008282]
 gi|323259005|gb|EGA42655.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. IA_2010008283]
 gi|323260789|gb|EGA44393.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. IA_2010008284]
 gi|323266543|gb|EGA50030.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. IA_2010008285]
 gi|323271267|gb|EGA54694.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. IA_2010008287]
          Length = 178

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|213857689|ref|ZP_03384660.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Typhi str. M223]
          Length = 178

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|204927953|ref|ZP_03219154.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Javiana str. GA_MM04042433]
 gi|204323295|gb|EDZ08491.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Javiana str. GA_MM04042433]
 gi|322634804|gb|EFY31535.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 515920-1]
 gi|323243422|gb|EGA27441.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Montevideo str. 315731156]
          Length = 185

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 19 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 76

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 77 PQAEFPPTFDPQQQAMVITP 96


>gi|195873244|ref|ZP_02696881.2| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Newport str. SL317]
 gi|197264542|ref|ZP_03164616.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Saintpaul str. SARA23]
 gi|195634360|gb|EDX52712.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Newport str. SL317]
 gi|197242797|gb|EDY25417.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Saintpaul str. SARA23]
          Length = 185

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 19 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 76

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 77 PQAEFPPTFDPQQQAMVITP 96


>gi|194735253|ref|YP_002114629.1| transcriptional regulator, XRE family protein [Salmonella
          enterica subsp. enterica serovar Schwarzengrund str.
          CVM19633]
 gi|197300747|ref|ZP_02660781.2| transcriptional regulator, XRE family protein [Salmonella
          enterica subsp. enterica serovar Schwarzengrund str.
          SL480]
 gi|194710755|gb|ACF89976.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Schwarzengrund str. CVM19633]
 gi|197291093|gb|EDY30446.1| transcriptional regulator, XRE family protein [Salmonella
          enterica subsp. enterica serovar Schwarzengrund str.
          SL480]
          Length = 185

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 19 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 76

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 77 PQAEFPPTFDPQQQAMVITP 96


>gi|194471472|ref|ZP_03077456.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Kentucky str. CVM29188]
 gi|205358313|ref|ZP_02655078.2| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Kentucky str. CDC 191]
 gi|194457836|gb|EDX46675.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Kentucky str. CVM29188]
 gi|205335557|gb|EDZ22321.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Kentucky str. CDC 191]
          Length = 185

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 19 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 76

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 77 PQAEFPPTFDPQQQAMVITP 96


>gi|194445981|ref|YP_002040851.1| XRE family transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Newport str. SL254]
 gi|194404644|gb|ACF64866.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Newport str. SL254]
          Length = 178

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|197251173|ref|YP_002146431.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Agona str. SL483]
 gi|238911841|ref|ZP_04655678.1| transcriptional regulator, XRE family protein [Salmonella
          enterica subsp. enterica serovar Tennessee str.
          CDC07-0191]
 gi|197214876|gb|ACH52273.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Agona str. SL483]
          Length = 178

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|167549918|ref|ZP_02343676.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Saintpaul str. SARA29]
 gi|205325107|gb|EDZ12946.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Saintpaul str. SARA29]
          Length = 178

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|161613938|ref|YP_001587903.1| hypothetical protein SPAB_01676 [Salmonella enterica subsp.
          enterica serovar Paratyphi B str. SPB7]
 gi|161363302|gb|ABX67070.1| hypothetical protein SPAB_01676 [Salmonella enterica subsp.
          enterica serovar Paratyphi B str. SPB7]
          Length = 178

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|160934341|ref|ZP_02081728.1| hypothetical protein CLOLEP_03212 [Clostridium leptum DSM 753]
 gi|156867014|gb|EDO60386.1| hypothetical protein CLOLEP_03212 [Clostridium leptum DSM 753]
          Length = 177

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 33/62 (53%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI   R++ GM+Q+ LG  +G   +    ++ +YE G  +  A     +++VL+ 
Sbjct: 1  MAIGERIHFFRLLRGMTQKYLGTAVGFPERSADVRLAQYETGSRKPKADLTAALAQVLDV 60

Query: 69 PI 70
            
Sbjct: 61 SP 62


>gi|16760275|ref|NP_455892.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Typhi str. CT18]
 gi|29141958|ref|NP_805300.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Typhi str. Ty2]
 gi|213021706|ref|ZP_03336153.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Typhi str. 404ty]
 gi|213052213|ref|ZP_03345091.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Typhi str. E00-7866]
 gi|213416599|ref|ZP_03349743.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Typhi str. E01-6750]
 gi|213426252|ref|ZP_03359002.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Typhi str. E02-1180]
 gi|213582138|ref|ZP_03363964.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Typhi str. E98-0664]
 gi|25512933|pir||AG0668 probable DNA-binding protein STY1459 [imported] - Salmonella
          enterica subsp. enterica serovar Typhi (strain CT18)
 gi|16502570|emb|CAD01720.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Typhi]
 gi|29137587|gb|AAO69149.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Typhi str. Ty2]
          Length = 178

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSMF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|89896019|ref|YP_519506.1| hypothetical protein DSY3273 [Desulfitobacterium hafniense Y51]
 gi|219670447|ref|YP_002460882.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|89335467|dbj|BAE85062.1| hypothetical protein [Desulfitobacterium hafniense Y51]
 gi|219540707|gb|ACL22446.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 123

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/88 (14%), Positives = 36/88 (40%), Gaps = 1/88 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          + +GK++R  R    +S  +L +  G+    + + E G  +      +  +++ L   ++
Sbjct: 2  LELGKQLRKIRKDKKLSAAELSQISGVARSLISQLESGKRQSTSIDTVYRLAKALNVSVA 61

Query: 72 FFFDVSPTVCSDISSEENNVMDFISTPD 99
                P     I+ ++N+    +   +
Sbjct: 62 SLLIEEPGTPPAIAYKQNDKKSPLYLKE 89


>gi|319764265|ref|YP_004128202.1| helix-turn-helix domain protein [Alicycliphilus denitrificans BC]
 gi|317118826|gb|ADV01315.1| helix-turn-helix domain protein [Alicycliphilus denitrificans BC]
          Length = 118

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 29/54 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G  I+ +R   G SQ+ + E LGIT +   +YE+G  +    +L  I+E  + 
Sbjct: 11 IGASIKRKREESGYSQKLVAEHLGITEKTCSEYERGKTQPPLLKLIAIAEFFQC 64


>gi|269794969|ref|YP_003314424.1| transcriptional regulator [Sanguibacter keddieii DSM 10542]
 gi|269097154|gb|ACZ21590.1| predicted transcriptional regulator [Sanguibacter keddieii DSM
           10542]
          Length = 204

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/120 (15%), Positives = 40/120 (33%), Gaps = 21/120 (17%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  +R  R  L +S + L +  G++   V + E+G+       +Q ++  L   ++   
Sbjct: 23  LGATVRAARKQLDLSVQALAQRAGVSLGLVSQLERGLGNPSLHSIQRLASALGVSVTRLL 82

Query: 75  DVSPTV--------------CSDISSEENNVMDFISTPD--GLQLNR-----YFIQIDDV 113
           +                         +   V + +S      +QL R      F  ++  
Sbjct: 83  EPPAEELVVVRAGRPHVLPLAPGTPDDGQAVRELLSPRGETAIQLIRTTLPPAFTNVERP 142


>gi|222528145|ref|YP_002572027.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
          DSM 6725]
 gi|222454992|gb|ACM59254.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          bescii DSM 6725]
          Length = 81

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 30/61 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I        +  ++L + +G+T Q + KY +G   + + +L  I+E    P+ +F 
Sbjct: 7  IGNNIHALMKKQNVKIKQLADLIGVTRQTMTKYLEGEVIIDSEKLFKIAEFFGKPLDYFL 66

Query: 75 D 75
          +
Sbjct: 67 E 67


>gi|212633085|ref|YP_002309610.1| Cro/CI family transcriptional regulator [Shewanella piezotolerans
          WP3]
 gi|212554569|gb|ACJ27023.1| Transcriptional regulator, Cro/CI family [Shewanella
          piezotolerans WP3]
          Length = 69

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 26/65 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R     +Q  L + L ++ Q +   EKG           ++ + + PI   F+ 
Sbjct: 3  NRLKILRAERDWTQADLADKLEVSRQTINAIEKGKYDPSLPLAFKVARLFQIPIEAIFED 62

Query: 77 SPTVC 81
             V 
Sbjct: 63 EAEVE 67


>gi|209547110|ref|YP_002279028.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
          trifolii WSM2304]
 gi|209538354|gb|ACI58288.1| transcriptional regulator, XRE family [Rhizobium leguminosarum
          bv. trifolii WSM2304]
          Length = 207

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 34/79 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V   V + +++ R   G S ++L    G++   + + EKG      + L   +  L   +
Sbjct: 18 VSATVSQNLKIFRRDSGFSLDELSRRSGVSKGMLVEIEKGTANPSIATLCRAATALGVSV 77

Query: 71 SFFFDVSPTVCSDISSEEN 89
          + F  V+ +V   I   E+
Sbjct: 78 ADFVGVASSVPVRIVPPED 96


>gi|21910272|ref|NP_664540.1| hypothetical protein SpyM3_0736 [Streptococcus pyogenes MGAS315]
 gi|28876201|ref|NP_795428.1| hypothetical protein SpyM3_0736 [Streptococcus pyogenes phage
          315.1]
 gi|28895849|ref|NP_802199.1| repressor C1 [Streptococcus pyogenes SSI-1]
 gi|21904467|gb|AAM79343.1| conserved hypothetical protein - phage-associated [Streptococcus
          pyogenes phage 315.1]
 gi|28811098|dbj|BAC64032.1| putative repressor C1 [Streptococcus pyogenes SSI-1]
          Length = 69

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 27/60 (45%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG++IR +R +  ++Q +L E L    Q +   E G  R     L  + ++    +  F
Sbjct: 6  FVGEQIRHQRKLAKLNQSQLAELLDTNQQTIGMMENGKRRATLQDLVKLRKIFNVSVDDF 65


>gi|148543259|ref|YP_001270629.1| XRE family transcriptional regulator [Lactobacillus reuteri DSM
          20016]
 gi|184152670|ref|YP_001841011.1| hypothetical protein LAR_0015 [Lactobacillus reuteri JCM 1112]
 gi|227364322|ref|ZP_03848415.1| XRE family transcriptional regulator [Lactobacillus reuteri
          MM2-3]
 gi|325683521|ref|ZP_08163037.1| XRE family transcriptional regulator [Lactobacillus reuteri
          MM4-1A]
 gi|148530293|gb|ABQ82292.1| transcriptional regulator, XRE family [Lactobacillus reuteri DSM
          20016]
 gi|183224014|dbj|BAG24531.1| conserved hypothetical protein [Lactobacillus reuteri JCM 1112]
 gi|227070635|gb|EEI08965.1| XRE family transcriptional regulator [Lactobacillus reuteri
          MM2-3]
 gi|324977871|gb|EGC14822.1| XRE family transcriptional regulator [Lactobacillus reuteri
          MM4-1A]
          Length = 185

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++ G++I  R   LG++Q+ + + L IT Q + K+E   +      L  +SE+    + 
Sbjct: 1  MSFGEQILSRCKELGLTQQNVADELHITRQTLSKWENNKSYPDLKLLLALSEIYHVSVD 59


>gi|326330980|ref|ZP_08197279.1| toxin-antitoxin system, antitoxin component, Xre family
          [Nocardioidaceae bacterium Broad-1]
 gi|325951191|gb|EGD43232.1| toxin-antitoxin system, antitoxin component, Xre family
          [Nocardioidaceae bacterium Broad-1]
          Length = 268

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG  +R  R +  +SQ  L     ++ + V   E G  R     +  ++EVL  P++
Sbjct: 18 VGSELRRWRELRSLSQLALATQAEVSTRHVSYVENGRARPTPEMIVRLAEVLRVPMA 74


>gi|282165400|ref|YP_003357785.1| putative HTH-type transcriptional regulator [Methanocella
          paludicola SANAE]
 gi|282157714|dbj|BAI62802.1| putative HTH-type transcriptional regulator [Methanocella
          paludicola SANAE]
          Length = 63

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R    M+QE L   +G++ Q +   E G           ++   E+ I   F
Sbjct: 3  NRLKELRARFNMTQEDLAVKVGVSRQTINAIETGKYDPSLPLAFKLARCFETNIEHLF 60


>gi|259047642|ref|ZP_05738043.1| transcriptional regulator [Granulicatella adiacens ATCC 49175]
 gi|259035833|gb|EEW37088.1| transcriptional regulator [Granulicatella adiacens ATCC 49175]
          Length = 70

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 23/67 (34%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+   R   G++QE+L   L ++ Q V   E G           I+   E  I   F  
Sbjct: 3  NRLEEIRKAKGITQEELANALEVSRQTVGSLENGRYNPSIILAFKIARFFEVSIEEVFIY 62

Query: 77 SPTVCSD 83
                D
Sbjct: 63 EEDQNED 69


>gi|255280255|ref|ZP_05344810.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
 gi|255269346|gb|EET62551.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
          Length = 106

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 28/62 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R    ++Q +L   L ++ + +  YEKG     A  L  ++++    I +   +
Sbjct: 2  NRIKELREEKHITQIRLSIDLEVSQETISAYEKGKYYPSAKSLIKLADIFGVSIDYLLGI 61

Query: 77 SP 78
          S 
Sbjct: 62 SD 63


>gi|167756456|ref|ZP_02428583.1| hypothetical protein CLORAM_01989 [Clostridium ramosum DSM 1402]
 gi|167703864|gb|EDS18443.1| hypothetical protein CLORAM_01989 [Clostridium ramosum DSM 1402]
          Length = 344

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 34/53 (64%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I+ +R+ LG +QE+L + L +T   V K+E+G++    + L  ++ +L++ ++
Sbjct: 7  IKEKRLALGYTQEQLAKFLNLTTPAVNKWERGISYPDITILPALARILKTDLN 59


>gi|162447309|ref|YP_001620441.1| membrane-anchored DNA-binding protein [Acholeplasma laidlawii
          PG-8A]
 gi|161985416|gb|ABX81065.1| membrane-anchored DNA-binding protein, putative [Acholeplasma
          laidlawii PG-8A]
          Length = 269

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 30/53 (56%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I  RR  L ++Q++L + L ++ + + K+E G +    + +  ++E+L   +S
Sbjct: 8  ILERRKTLRLTQKELAQKLNVSDKVISKWETGSSLPDITLINPLAELLGITVS 60


>gi|159038038|ref|YP_001537291.1| XRE family transcriptional regulator [Salinispora arenicola
          CNS-205]
 gi|157916873|gb|ABV98300.1| transcriptional regulator, XRE family [Salinispora arenicola
          CNS-205]
          Length = 175

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/74 (17%), Positives = 28/74 (37%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +   R   G+S   L    GI+   +   E+G      S L  ++  L  P+    +
Sbjct: 2  GSHVHRLRTAAGISLADLAAAGGISRTTLHGIEQGHGNPTLSTLWALATALRVPLGELLE 61

Query: 76 VSPTVCSDISSEEN 89
             +    + ++++
Sbjct: 62 TPNSTTDVVRADDD 75


>gi|148360856|ref|YP_001252063.1| hypothetical protein LPC_2816 [Legionella pneumophila str. Corby]
 gi|296106080|ref|YP_003617780.1| hypothetical protein lpa_00792 [Legionella pneumophila 2300/99
           Alcoy]
 gi|148282629|gb|ABQ56717.1| hypothetical protein LPC_2816 [Legionella pneumophila str. Corby]
 gi|295647981|gb|ADG23828.1| hypothetical protein lpa_00792 [Legionella pneumophila 2300/99
           Alcoy]
          Length = 224

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/111 (20%), Positives = 49/111 (44%), Gaps = 12/111 (10%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-----SPI 70
           G+RI+  RM+ G+S++ L E  GI+   +Q +E G N +  ++   +  +L        I
Sbjct: 15  GQRIKRARMLAGLSRKDLEEKHGISIHTLQSWELGRNPLNKAKAASLVGILNQYDVSCSI 74

Query: 71  SFFFDVSPTVCSDISSE-------ENNVMDFISTPDGLQLNRYFIQIDDVK 114
            +  +      S I +E        + V + +++   +Q    F + ++  
Sbjct: 75  DWLLEGIGKGPSVIENEFQNYPFLADTVGNLLASEQAIQKEIDFFKTNNPN 125


>gi|111657106|ref|ZP_01407894.1| hypothetical protein SpneT_02001666 [Streptococcus pneumoniae
          TIGR4]
 gi|116517019|ref|YP_816720.1| transcriptional repressor, putative [Streptococcus pneumoniae
          D39]
 gi|148985331|ref|ZP_01818554.1| hypothetical protein CGSSp3BS71_08986 [Streptococcus pneumoniae
          SP3-BS71]
 gi|148989546|ref|ZP_01820905.1| hypothetical protein CGSSp6BS73_05195 [Streptococcus pneumoniae
          SP6-BS73]
 gi|148990563|ref|ZP_01821689.1| hypothetical protein CGSSp6BS73_01218 [Streptococcus pneumoniae
          SP6-BS73]
 gi|148993017|ref|ZP_01822611.1| hypothetical protein CGSSp9BS68_10015 [Streptococcus pneumoniae
          SP9-BS68]
 gi|148997524|ref|ZP_01825129.1| hypothetical protein CGSSp11BS70_01512 [Streptococcus pneumoniae
          SP11-BS70]
 gi|149002814|ref|ZP_01827740.1| hypothetical protein CGSSp14BS69_03738 [Streptococcus pneumoniae
          SP14-BS69]
 gi|149011664|ref|ZP_01832860.1| hypothetical protein CGSSp19BS75_06847 [Streptococcus pneumoniae
          SP19-BS75]
 gi|168486119|ref|ZP_02710627.1| conserved domain protein [Streptococcus pneumoniae CDC1087-00]
 gi|168489588|ref|ZP_02713787.1| conserved domain protein [Streptococcus pneumoniae SP195]
 gi|168491326|ref|ZP_02715469.1| conserved domain protein [Streptococcus pneumoniae CDC0288-04]
 gi|168493326|ref|ZP_02717469.1| conserved domain protein [Streptococcus pneumoniae CDC3059-06]
 gi|168575882|ref|ZP_02721797.1| conserved domain protein [Streptococcus pneumoniae MLV-016]
 gi|169834092|ref|YP_001694857.1| hypothetical protein SPH_1553 [Streptococcus pneumoniae
          Hungary19A-6]
 gi|194398183|ref|YP_002038070.1| hypothetical protein SPG_1363 [Streptococcus pneumoniae G54]
 gi|221232161|ref|YP_002511314.1| DNA-binding protein [Streptococcus pneumoniae ATCC 700669]
 gi|225854869|ref|YP_002736381.1| hypothetical protein SPJ_1321 [Streptococcus pneumoniae JJA]
 gi|225857057|ref|YP_002738568.1| hypothetical protein SPP_1441 [Streptococcus pneumoniae P1031]
 gi|225860797|ref|YP_002742306.1| hypothetical protein SPT_0851 [Streptococcus pneumoniae
          Taiwan19F-14]
 gi|237650477|ref|ZP_04524729.1| transcriptional repressor, putative [Streptococcus pneumoniae
          CCRI 1974]
 gi|237821792|ref|ZP_04597637.1| transcriptional repressor, putative [Streptococcus pneumoniae
          CCRI 1974M2]
 gi|298229247|ref|ZP_06962928.1| transcriptional repressor, putative [Streptococcus pneumoniae
          str. Canada MDR_19F]
 gi|298255692|ref|ZP_06979278.1| transcriptional repressor, putative [Streptococcus pneumoniae
          str. Canada MDR_19A]
 gi|303254577|ref|ZP_07340681.1| transcriptional repressor, putative [Streptococcus pneumoniae
          BS455]
 gi|303259019|ref|ZP_07344998.1| hypothetical protein CGSSp9vBS293_11153 [Streptococcus pneumoniae
          SP-BS293]
 gi|303261703|ref|ZP_07347650.1| hypothetical protein CGSSp14BS292_04840 [Streptococcus pneumoniae
          SP14-BS292]
 gi|303264372|ref|ZP_07350292.1| hypothetical protein CGSSpBS397_10715 [Streptococcus pneumoniae
          BS397]
 gi|303265829|ref|ZP_07351726.1| hypothetical protein CGSSpBS457_02492 [Streptococcus pneumoniae
          BS457]
 gi|303268162|ref|ZP_07353961.1| hypothetical protein CGSSpBS458_11388 [Streptococcus pneumoniae
          BS458]
 gi|307068076|ref|YP_003877042.1| putative transcriptional regulator [Streptococcus pneumoniae
          AP200]
 gi|116077595|gb|ABJ55315.1| transcriptional repressor, putative [Streptococcus pneumoniae
          D39]
 gi|147756579|gb|EDK63620.1| hypothetical protein CGSSp11BS70_01512 [Streptococcus pneumoniae
          SP11-BS70]
 gi|147759108|gb|EDK66102.1| hypothetical protein CGSSp14BS69_03738 [Streptococcus pneumoniae
          SP14-BS69]
 gi|147764095|gb|EDK71027.1| hypothetical protein CGSSp19BS75_06847 [Streptococcus pneumoniae
          SP19-BS75]
 gi|147922529|gb|EDK73648.1| hypothetical protein CGSSp3BS71_08986 [Streptococcus pneumoniae
          SP3-BS71]
 gi|147924201|gb|EDK75301.1| hypothetical protein CGSSp6BS73_01218 [Streptococcus pneumoniae
          SP6-BS73]
 gi|147925089|gb|EDK76170.1| hypothetical protein CGSSp6BS73_05195 [Streptococcus pneumoniae
          SP6-BS73]
 gi|147928218|gb|EDK79235.1| hypothetical protein CGSSp9BS68_10015 [Streptococcus pneumoniae
          SP9-BS68]
 gi|168996594|gb|ACA37206.1| conserved domain protein [Streptococcus pneumoniae Hungary19A-6]
 gi|183570815|gb|EDT91343.1| conserved domain protein [Streptococcus pneumoniae CDC1087-00]
 gi|183571900|gb|EDT92428.1| conserved domain protein [Streptococcus pneumoniae SP195]
 gi|183574439|gb|EDT94967.1| conserved domain protein [Streptococcus pneumoniae CDC0288-04]
 gi|183576644|gb|EDT97172.1| conserved domain protein [Streptococcus pneumoniae CDC3059-06]
 gi|183578217|gb|EDT98745.1| conserved domain protein [Streptococcus pneumoniae MLV-016]
 gi|194357850|gb|ACF56298.1| conserved domain protein [Streptococcus pneumoniae G54]
 gi|220674622|emb|CAR69186.1| putative DNA-binding protein [Streptococcus pneumoniae ATCC
          700669]
 gi|225723584|gb|ACO19437.1| conserved domain protein [Streptococcus pneumoniae JJA]
 gi|225724319|gb|ACO20171.1| conserved domain protein [Streptococcus pneumoniae P1031]
 gi|225727030|gb|ACO22881.1| conserved domain protein [Streptococcus pneumoniae Taiwan19F-14]
 gi|301794461|emb|CBW36896.1| putative DNA-binding protein [Streptococcus pneumoniae INV104]
 gi|301800287|emb|CBW32907.1| putative DNA-binding protein [Streptococcus pneumoniae OXC141]
 gi|301802162|emb|CBW34900.1| putative DNA-binding protein [Streptococcus pneumoniae INV200]
 gi|302598545|gb|EFL65587.1| transcriptional repressor, putative [Streptococcus pneumoniae
          BS455]
 gi|302637283|gb|EFL67771.1| hypothetical protein CGSSp14BS292_04840 [Streptococcus pneumoniae
          SP14-BS292]
 gi|302639962|gb|EFL70418.1| hypothetical protein CGSSpBS293_11153 [Streptococcus pneumoniae
          SP-BS293]
 gi|302642241|gb|EFL72589.1| hypothetical protein CGSSpBS458_11388 [Streptococcus pneumoniae
          BS458]
 gi|302644564|gb|EFL74814.1| hypothetical protein CGSSpBS457_02492 [Streptococcus pneumoniae
          BS457]
 gi|302646184|gb|EFL76411.1| hypothetical protein CGSSpBS397_10715 [Streptococcus pneumoniae
          BS397]
 gi|306409613|gb|ADM85040.1| Predicted transcriptional regulator [Streptococcus pneumoniae
          AP200]
 gi|327389609|gb|EGE87954.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA04375]
 gi|332073729|gb|EGI84208.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA17570]
 gi|332075003|gb|EGI85475.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA41301]
 gi|332200864|gb|EGJ14936.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA41317]
 gi|332203252|gb|EGJ17320.1| helix-turn-helix family protein [Streptococcus pneumoniae
          GA47901]
          Length = 69

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+   ++Q +L E +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 6  KLKLARVERDLTQGQLAEAVGVTRQTIGLIEAGKYNPSLSLCQSICRCLGKTLDQLF 62


>gi|110638280|ref|YP_678489.1| transcriptional regulator [Cytophaga hutchinsonii ATCC 33406]
 gi|110280961|gb|ABG59147.1| transcriptional regulator [Cytophaga hutchinsonii ATCC 33406]
          Length = 259

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + + ++  R  LG +QE+L + +GI    +  YE+G    G   L  ++ + E+ + 
Sbjct: 4  ISENVKYFRKQLGFTQEQLAQRIGIKRSLLGAYEEGRAEPGLETLTILARLFETTVD 60


>gi|330987826|gb|EGH85929.1| repressor protein cI [Pseudomonas syringae pv. lachrymans str.
          M301315]
          Length = 250

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 25/53 (47%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +R  LG++QEK  E LG+       Y  G N +       ++ +L+ P+  F
Sbjct: 23 EKRKALGLTQEKAAEALGMNQGSFSHYLNGRNALNTPFAVQVAHLLQVPVEAF 75


>gi|319947513|ref|ZP_08021745.1| XRE family transcriptional regulator [Streptococcus australis
          ATCC 700641]
 gi|319746453|gb|EFV98714.1| XRE family transcriptional regulator [Streptococcus australis
          ATCC 700641]
          Length = 227

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 42/83 (50%), Gaps = 2/83 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K+++ RR+ LG++Q ++ E L I+ +    +E G+       L+ +++ L     +F D 
Sbjct: 7  KKLKDRRLELGLTQAQVYESLEISRKTYSSWENGLAEPHDKNLRRLAKHLSVKEDYFVDK 66

Query: 77 SPTVCSD--ISSEENNVMDFIST 97
          S  + +   ++      +D +++
Sbjct: 67 SSALFTYPLLTPPHQKKVDLLAS 89


>gi|297184311|gb|ADI20428.1| predicted transcriptional regulators [uncultured alpha
          proteobacterium EB080_L43F08]
          Length = 190

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 36/71 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R   G++  +L E +G +   + + E+ ++    + L+ +++  + P+S FF
Sbjct: 12 LGVDLRALRKSRGITLTELSEKMGRSVGWLSQVERDISSPTINELRQLAKEFQVPLSLFF 71

Query: 75 DVSPTVCSDIS 85
            +    +++ 
Sbjct: 72 GSTEAKANEVG 82


>gi|291521015|emb|CBK79308.1| Predicted transcriptional regulators [Coprococcus catus GD/7]
          Length = 253

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +   R    ++Q+ L E L ++ + V K+E+G++      L  I+++L+  ++
Sbjct: 13 VTELRKEKNLTQKDLAEKLYVSDKTVSKWERGLSMPNVVLLIPIADILDVSVT 65


>gi|261209042|ref|ZP_05923446.1| predicted protein [Enterococcus faecium TC 6]
 gi|289566563|ref|ZP_06446985.1| predicted protein [Enterococcus faecium D344SRF]
 gi|294615927|ref|ZP_06695763.1| repressor [Enterococcus faecium E1636]
 gi|260076954|gb|EEW64677.1| predicted protein [Enterococcus faecium TC 6]
 gi|289161662|gb|EFD09540.1| predicted protein [Enterococcus faecium D344SRF]
 gi|291591214|gb|EFF22887.1| repressor [Enterococcus faecium E1636]
          Length = 250

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R++  R   G++ E+L + +G T   + +YE G        +  ++   +  +S+ 
Sbjct: 8  QRLKELRAEKGITLEELAKKIGTTKTTLSRYENGERSPKLQLVGLLANYFQVEMSWL 64


>gi|262198330|ref|YP_003269539.1| XRE family transcriptional regulator [Haliangium ochraceum DSM
           14365]
 gi|262081677|gb|ACY17646.1| transcriptional regulator, XRE family [Haliangium ochraceum DSM
           14365]
          Length = 198

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 29/60 (48%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ IR  R   G++ ++L     ++   + + E+  +    S L  ++  L+ PI+  F
Sbjct: 136 IGRNIRELRKTRGLTLKQLSRRTNLSVSLLSQIERAESSASVSSLFKVATALDVPITELF 195


>gi|226325766|ref|ZP_03801284.1| hypothetical protein COPCOM_03579 [Coprococcus comes ATCC 27758]
 gi|225205890|gb|EEG88244.1| hypothetical protein COPCOM_03579 [Coprococcus comes ATCC 27758]
          Length = 177

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +GKRIR  R   GM+Q++LGE LG     +  ++ +YE          ++ ++ + + 
Sbjct: 1  MAIGKRIRFFRNRKGMTQKQLGEILGFLGKTSDVRMAQYESEARTPKQDLVKEMAHIFDV 60

Query: 69 PI 70
            
Sbjct: 61 SP 62


>gi|222097971|ref|YP_002532028.1| DNA-binding protein [Bacillus cereus Q1]
 gi|221242029|gb|ACM14739.1| DNA-binding protein [Bacillus cereus Q1]
          Length = 190

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|170697248|ref|ZP_02888342.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          IOP40-10]
 gi|170137868|gb|EDT06102.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          IOP40-10]
          Length = 73

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 23/58 (39%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + G  +R  R     SQE+L E  G+    V + E+G           I+   +  IS
Sbjct: 7  HFGANVRKLREARTWSQEQLAEHAGLNRSYVGEIERGEAIASIVTADKIARAFDVSIS 64


>gi|34558590|gb|AAQ75063.1| putative CI-like repressor [Lactobacillus phage JCL1032]
          Length = 120

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/112 (16%), Positives = 42/112 (37%), Gaps = 10/112 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+   R  LG+S+ ++   L +       +E G+       +  +++  +    +  
Sbjct: 5   LGSRLTQLRESLGLSKAEVARRLHVGNTSYSNWEYGLREPNVDMIVTLADFFDVSTDYLL 64

Query: 75  D--------VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
                      P V  D+  +E      +  PD   L  Y+  + +  +R++
Sbjct: 65  GRDSGIWEVKEPAVHYDLGEDEPLSYRGVELPD--DLKSYYRSMAETYIRKR 114


>gi|220930677|ref|YP_002507586.1| XRE family transcriptional regulator [Clostridium cellulolyticum
          H10]
 gi|220001005|gb|ACL77606.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
          H10]
          Length = 281

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 32/86 (37%), Gaps = 3/86 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ IR  R   G++ E L + L  ++  +  YE    +     L   +E     + +
Sbjct: 1  MTLGENIRELRKKKGLTIEALADELNSSYSTIGMYELDKRKPDYDMLCKFAEYFNVTVDY 60

Query: 73 FFDVSPTVCSDISSEENNVMDFISTP 98
             V       I S  +   +FI   
Sbjct: 61 LLGVKKKS---ILSASDLYKEFIEQK 83


>gi|186471664|ref|YP_001862982.1| XRE family transcriptional regulator [Burkholderia phymatum
          STM815]
 gi|184197973|gb|ACC75936.1| transcriptional regulator, XRE family [Burkholderia phymatum
          STM815]
          Length = 110

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 7/74 (9%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQ 60
          KK P  V    G+R+R  R+   + Q+KLG  +G+       +V +YE GV+        
Sbjct: 3  KKEPATV---FGRRLRAARLQADIPQDKLGVKIGLDEGTASVRVSRYETGVHEPPFGIAV 59

Query: 61 HISEVLESPISFFF 74
           ++  L  P ++F+
Sbjct: 60 KLAAALRIPAAYFY 73


>gi|110681030|ref|YP_684037.1| helix-turn-helix domain-containing protein [Roseobacter
           denitrificans OCh 114]
 gi|109457146|gb|ABG33351.1| helix-turn-helix domain protein, putative [Roseobacter
           denitrificans OCh 114]
          Length = 135

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/124 (19%), Positives = 46/124 (37%), Gaps = 11/124 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R    M+Q +L   LG+    ++ +E  ++   A+RL  ++ +L   + +  +
Sbjct: 16  GDRLAAARETSEMTQAELARRLGVRVATLRSWENDLSEPRANRLSMMAGLLNVSMMWLIN 75

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                      E        S  + L   R        ++R  +I  V  +   EKK R 
Sbjct: 76  GQGEGLDAPMEERALPA---SASEVLNEMR--------ELRTDMIARVEQMGRLEKKLRV 124

Query: 136 IEEE 139
              +
Sbjct: 125 ALRD 128


>gi|86143509|ref|ZP_01061894.1| hypothetical protein MED217_12959 [Leeuwenhoekiella blandensis
          MED217]
 gi|85829956|gb|EAQ48417.1| hypothetical protein MED217_12959 [Leeuwenhoekiella blandensis
          MED217]
          Length = 71

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 23/54 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G RI   R   G +Q  L    G   Q ++K E G     A  L  IS+ L+ 
Sbjct: 10 IGNRIVKLREQKGWTQSDLARECGKDRQAIEKLENGKVNPTAYSLFEISKALKI 63


>gi|330880055|gb|EGH14204.1| RtrR protein [Pseudomonas syringae pv. morsprunorum str.
          M302280PT]
          Length = 76

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+RIR +R    +SQ+ L     I    V + E+G   +   +L  I+ VL    S
Sbjct: 8  LGRRIRTQRKACQISQDALALACNIDRSYVGRIERGEVNITVEKLYRIAGVLACDPS 64


>gi|329298836|ref|ZP_08256172.1| DNA-binding transcriptional repressor PuuR [Plautia stali
          symbiont]
          Length = 186

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 30/67 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+   R  LG+SQ ++ E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GRRLSQIRQELGLSQRRVAELSGLTHSAISTIEQDKVSPAVSTLQKLLKVYGLSLSEFFS 68

Query: 76 VSPTVCS 82
                +
Sbjct: 69 EPKVNAT 75


>gi|262283318|ref|ZP_06061084.1| cro/CI family transcriptional regulator [Streptococcus sp.
           2_1_36FAA]
 gi|262260809|gb|EEY79509.1| cro/CI family transcriptional regulator [Streptococcus sp.
           2_1_36FAA]
          Length = 120

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/118 (14%), Positives = 50/118 (42%), Gaps = 2/118 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R+   ++Q  + + L I+     ++E G  +  +  L+  ++       +    
Sbjct: 4   ERLKALRLEANLTQNDIAKSLNISQPSYAQWENGRRKPSSETLEKFAQFYNVSTDYLLGK 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
           S    SD    + +  + +       L+    +I +  +R+ ++E  ++I +  K+ +
Sbjct: 64  SDYKNSD--EIDLSTFEVLYRKTSKNLSDEEKKILEEDLREFLLEREKAIKAMNKEKK 119


>gi|237742940|ref|ZP_04573421.1| transcriptional regulator [Fusobacterium sp. 4_1_13]
 gi|229430588|gb|EEO40800.1| transcriptional regulator [Fusobacterium sp. 4_1_13]
          Length = 94

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 1/65 (1%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N K P  + + + K IR RR  L ++QE+  +  G++F  ++++E     +    L  I+
Sbjct: 7  NIKTPKEIQLEIAKNIRKRRKELKLTQEEFSKKSGVSFGSIKRFEN-TGEISLFSLIKIA 65

Query: 64 EVLES 68
           +L+ 
Sbjct: 66 IILDC 70


>gi|228964769|ref|ZP_04125876.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228795019|gb|EEM42518.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          sotto str. T04001]
          Length = 167

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 27/63 (42%), Gaps = 1/63 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R    ++Q  L   + +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGAKIKTLRKEKKLTQTDLAGSV-LTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVS 77
          +  
Sbjct: 63 EED 65


>gi|227509610|ref|ZP_03939659.1| helix-turn-helix XRE-family transcriptional regulator
          [Lactobacillus brevis subsp. gravesensis ATCC 27305]
 gi|227190972|gb|EEI71039.1| helix-turn-helix XRE-family transcriptional regulator
          [Lactobacillus brevis subsp. gravesensis ATCC 27305]
          Length = 125

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 32/72 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K+++  R    +SQ+ L + L ++ Q + K+E+G      + L  ++E+    +      
Sbjct: 8  KQLKKYRAANNLSQDDLAKKLFVSRQAISKWEQGDATPDLNNLVKLAEIFNISLDTLVLG 67

Query: 77 SPTVCSDISSEE 88
          +    S +   +
Sbjct: 68 ASETKSTVDQNQ 79


>gi|218557450|ref|YP_002390363.1| repressor protein CI [Escherichia coli S88]
 gi|218364219|emb|CAR01884.1| putative repressor protein CI [Escherichia coli S88]
          Length = 230

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M    L E +G+    + + E G  +      L +I+  L   I+
Sbjct: 1  MNIGNRVRQLRQAKNMKIADLAEAIGVDAANISRLETGKQKQFTEQALSNIARSLGVDIA 60

Query: 72 FFF 74
            F
Sbjct: 61 DLF 63


>gi|218781551|ref|YP_002432869.1| helix-turn-helix domain protein [Desulfatibacillum alkenivorans
          AK-01]
 gi|218762935|gb|ACL05401.1| helix-turn-helix domain protein [Desulfatibacillum alkenivorans
          AK-01]
          Length = 376

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/85 (24%), Positives = 37/85 (43%), Gaps = 4/85 (4%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRL 59
          M  ++KI   +  ++G R++  R   G +Q+ L   LG+   Q V   E G   +    L
Sbjct: 1  MASSEKI---LQKSIGCRVKSARDAKGWTQDDLARGLGLKDRQSVSDIENGKRALKPEEL 57

Query: 60 QHISEVLESPISFFFDVSPTVCSDI 84
            +S++L+  + FF D         
Sbjct: 58 VALSDILDREVEFFIDPFSVAGEAA 82


>gi|157159776|ref|YP_001457094.1| helix-turn-helix/peptidase S24-like domain-containing protein
          [Escherichia coli HS]
 gi|157065456|gb|ABV04711.1| helix-turn-helix/peptidase S24-like domain protein [Escherichia
          coli HS]
          Length = 213

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R+ L R   GM+Q +L +  G+  +Q+  YE G  +     LQ ++  L +   + 
Sbjct: 9  SRVSLARQSRGMTQAQLSKLAGVVQRQIAAYEGGEAKPRLRVLQALANALGTTAEWL 65


>gi|150396246|ref|YP_001326713.1| helix-turn-helix domain-containing protein [Sinorhizobium medicae
          WSM419]
 gi|150027761|gb|ABR59878.1| helix-turn-helix domain protein [Sinorhizobium medicae WSM419]
          Length = 130

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 30/72 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI   R   G+S ++L   LG+    +  +E+      A+RL  ++ VL    ++  
Sbjct: 21 LGGRIWRARDATGLSTKELASKLGVRNDTIASWERDRAEPRANRLFMLAGVLGVSPAWLM 80

Query: 75 DVSPTVCSDISS 86
                  D + 
Sbjct: 81 AGIGRAPDDTAG 92


>gi|91214040|ref|YP_544026.1| putative regulatory protein [Escherichia coli UTI89]
 gi|117626694|ref|YP_860017.1| putative regulatory protein [Escherichia coli APEC O1]
 gi|218561557|ref|YP_002394470.1| transcriptional regulator from phage origin [Escherichia coli
          S88]
 gi|300925249|ref|ZP_07141146.1| peptidase S24-like domain protein [Escherichia coli MS 182-1]
 gi|307139345|ref|ZP_07498701.1| putative transcriptional regulator from phage origin [Escherichia
          coli H736]
 gi|331643341|ref|ZP_08344472.1| regulatory protein [Escherichia coli H736]
 gi|91075614|gb|ABE10495.1| putative regulatory protein [Escherichia coli UTI89]
 gi|115515818|gb|ABJ03893.1| putative regulatory protein [Escherichia coli APEC O1]
 gi|218368326|emb|CAR06145.1| putative transcriptional regulator from phage origin [Escherichia
          coli S88]
 gi|300418618|gb|EFK01929.1| peptidase S24-like domain protein [Escherichia coli MS 182-1]
 gi|331036812|gb|EGI09036.1| regulatory protein [Escherichia coli H736]
          Length = 230

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M    L E +G+    + + E G  +      L +I+  L   I+
Sbjct: 1  MNIGNRVRQLRQAKNMKIADLAEAIGVDAANISRLETGKQKQFTEQALSNIARSLGVDIA 60

Query: 72 FFF 74
            F
Sbjct: 61 DLF 63


>gi|28867345|ref|NP_789964.1| DNA-binding protein [Pseudomonas syringae pv. tomato str. DC3000]
 gi|302133575|ref|ZP_07259565.1| DNA-binding protein [Pseudomonas syringae pv. tomato NCPPB 1108]
 gi|28850579|gb|AAO53659.1| DNA-binding protein [Pseudomonas syringae pv. tomato str. DC3000]
 gi|331018535|gb|EGH98591.1| DNA-binding protein [Pseudomonas syringae pv. lachrymans str.
           M302278PT]
          Length = 199

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/99 (23%), Positives = 47/99 (47%), Gaps = 8/99 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESP 69
           + ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P
Sbjct: 16  IALDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIP 72

Query: 70  ISF--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           +S   FF  +  P   + +  + + ++D       ++L 
Sbjct: 73  MSMVEFFSEETVPENSAQVVYKASELIDISDGAVTMKLV 111


>gi|328886831|emb|CCA60070.1| transcription regulator [Streptomyces venezuelae ATCC 10712]
          Length = 202

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 36/89 (40%), Gaps = 4/89 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R+  G+S  ++     +T   + + E+G+  V    L  + EVL   +   F 
Sbjct: 24  GARLRKFRLDRGLSLTEVAHRAEVTKGFLSQLERGLTSVSVPTLLRVCEVLRIGVGELFA 83

Query: 76  VSPTVCSDISSEENN----VMDFISTPDG 100
                  D  S        V +++ TP G
Sbjct: 84  YPDEHVVDGGSRIGMGGEGVAEYLLTPAG 112


>gi|228918433|ref|ZP_04081881.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
 gi|228841238|gb|EEM86432.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
          Length = 142

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R    ++Q++L E +G++ + +  YE          L  +++       + 
Sbjct: 2  IGVRIKSLRKKENLTQKQLAEKIGVSQRMIGYYESEERFPPHDVLTKLADCFSVSADYL 60


>gi|229098961|ref|ZP_04229896.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-29]
 gi|229105128|ref|ZP_04235779.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-28]
 gi|228678309|gb|EEL32535.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-28]
 gi|228684459|gb|EEL38402.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-29]
          Length = 190

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|227894126|ref|ZP_04011931.1| transcription regulator [Lactobacillus ultunensis DSM 16047]
 gi|227864071|gb|EEJ71492.1| transcription regulator [Lactobacillus ultunensis DSM 16047]
          Length = 393

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 29/58 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+++R  R + G S+ +L + L ++ Q + +YE          ++ + E+    + FF
Sbjct: 4  GEKLRQLRELHGFSRNELAQKLNVSEQTIGQYENNQITPRLDIMRKLPEMFSVNMHFF 61


>gi|213970668|ref|ZP_03398793.1| DNA-binding protein [Pseudomonas syringae pv. tomato T1]
 gi|213924502|gb|EEB58072.1| DNA-binding protein [Pseudomonas syringae pv. tomato T1]
          Length = 198

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/99 (23%), Positives = 47/99 (47%), Gaps = 8/99 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESP 69
           + ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P
Sbjct: 15  IALDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIP 71

Query: 70  ISF--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           +S   FF  +  P   + +  + + ++D       ++L 
Sbjct: 72  MSMVEFFSEETVPENSAQVVYKASELIDISDGAVTMKLV 110


>gi|163791646|ref|ZP_02186042.1| hypothetical protein CAT7_03489 [Carnobacterium sp. AT7]
 gi|159873068|gb|EDP67176.1| hypothetical protein CAT7_03489 [Carnobacterium sp. AT7]
          Length = 66

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 29/66 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+++  R+    SQ  + E L I+ Q + K+E  ++      L  +S   +  I  
Sbjct: 1  MLLGKKLKSSRVKKKYSQNDVAEQLHISRQSISKWENDISYPELDNLVKLSTYYQVSIDH 60

Query: 73 FFDVSP 78
               P
Sbjct: 61 LLKEKP 66


>gi|158339379|ref|YP_001520556.1| transcriptional regulator with ATPase activity [Acaryochloris
          marina MBIC11017]
 gi|158309620|gb|ABW31237.1| transcriptional regulator with ATPase activity [Acaryochloris
          marina MBIC11017]
          Length = 216

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R +   SQ  L   LG++ Q V  +E G           ++++ +  I   F
Sbjct: 3  NRLKELRKLHHKSQAALARDLGVSRQAVNGFESGKFDPSLEMAFKLAKLFKVSIEDVF 60


>gi|154496755|ref|ZP_02035451.1| hypothetical protein BACCAP_01048 [Bacteroides capillosus ATCC
          29799]
 gi|150274007|gb|EDN01107.1| hypothetical protein BACCAP_01048 [Bacteroides capillosus ATCC
          29799]
          Length = 82

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 24/57 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            ++  R   G++Q ++ + LG+T    QK E G   +    L  +++       + 
Sbjct: 15 ANLKYLRQKKGLTQGEMAKLLGVTTNHYQKIEYGKVNIPVLTLCFLADYFGVTTDYL 71


>gi|124267559|ref|YP_001021563.1| XRE family transcriptional regulator [Methylibium petroleiphilum
           PM1]
 gi|124260334|gb|ABM95328.1| transcriptional regulator, XRE family [Methylibium petroleiphilum
           PM1]
          Length = 107

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/96 (17%), Positives = 39/96 (40%), Gaps = 18/96 (18%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
           +G+++R  R    ++ EKL +  G++   + + E +   R  A +L  +++ L    S+F
Sbjct: 5   LGEKLRELRKERKLTLEKLADAAGLSKSYLWELENRESQRPSAEKLTALADALGVAASYF 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
            +                   +  P+   L+  F +
Sbjct: 65  IEED-----------------VRAPEERHLDEAFFR 83


>gi|332668877|ref|YP_004451885.1| XRE family transcriptional regulator [Cellulomonas fimi ATCC 484]
 gi|332337915|gb|AEE44498.1| transcriptional regulator, XRE family [Cellulomonas fimi ATCC
          484]
          Length = 74

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 26/68 (38%), Gaps = 1/68 (1%)

Query: 15 VGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          V  RIR  R     M+Q +L   +G+T Q V   E+G           I+ VL  P+   
Sbjct: 7  VTNRIRALRFAADEMTQAELARRIGVTRQTVIAIEQGRYSPTLEMAFQIARVLGVPLDEV 66

Query: 74 FDVSPTVC 81
          F       
Sbjct: 67 FQYPDDDG 74


>gi|332523977|ref|ZP_08400229.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
          Jelinkova 176]
 gi|332315241|gb|EGJ28226.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
          Jelinkova 176]
          Length = 194

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/77 (15%), Positives = 30/77 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK++   R   G SQE L E + ++ Q +  +E   +      L  ++ +    +  
Sbjct: 1  MELGKKLSSCRKKAGFSQEDLAEKIYVSRQTISNWENDKSYPDIHSLIALANLFNLSLDQ 60

Query: 73 FFDVSPTVCSDISSEEN 89
            +        +   ++
Sbjct: 61 LVEGDIDEMKKLVQSDD 77


>gi|323463315|gb|ADX75468.1| conserved hypothetical protein [Staphylococcus pseudintermedius
          ED99]
          Length = 395

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 31/59 (52%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+ ++  RMI G S++ L + L ++ Q V +YE+       +++  +++       FFF
Sbjct: 4  GENLKALRMIEGYSRKSLADVLQVSEQAVWQYEEQNMMPEINKIYTLAQKFNVKTKFFF 62


>gi|325104086|ref|YP_004273740.1| helix-turn-helix domain protein [Pedobacter saltans DSM 12145]
 gi|324972934|gb|ADY51918.1| helix-turn-helix domain protein [Pedobacter saltans DSM 12145]
          Length = 113

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/58 (36%), Positives = 31/58 (53%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            +GK+IRL R   G SQE + + L I+     K E G+  V  SRL+ IS + +  +
Sbjct: 2  KLLGKKIRLLRHQRGWSQEDVSKQLDISIPAFSKIETGITDVNLSRLEQISALFDMSV 59


>gi|300902558|ref|ZP_07120535.1| peptidase S24-like domain protein [Escherichia coli MS 84-1]
 gi|301301996|ref|ZP_07208129.1| peptidase S24-like domain protein [Escherichia coli MS 124-1]
 gi|300405371|gb|EFJ88909.1| peptidase S24-like domain protein [Escherichia coli MS 84-1]
 gi|300842548|gb|EFK70308.1| peptidase S24-like domain protein [Escherichia coli MS 124-1]
 gi|315253734|gb|EFU33702.1| peptidase S24-like domain protein [Escherichia coli MS 85-1]
          Length = 230

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M    L E +G+    + + E G  +      L +I+  L   I+
Sbjct: 1  MNIGNRVRQLRQAKNMKIADLAEAIGVDAANISRLETGKQKQFTEQALSNIARSLGVDIA 60

Query: 72 FFF 74
            F
Sbjct: 61 DLF 63


>gi|298717602|ref|YP_003730244.1| HTH-type transcriptional regulator [Pantoea vagans C9-1]
 gi|298361791|gb|ADI78572.1| Uncharacterized HTH-type transcriptional regulator ydcN [Pantoea
          vagans C9-1]
          Length = 200

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 26/61 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V   V  RI+  R    +S ++L    G++   + + EKG      + L  I+  L   +
Sbjct: 18 VSQAVSDRIKSWRKSQKLSLDELSRRAGVSKGMLVEIEKGAANPSIAILCKIAAALGVSV 77

Query: 71 S 71
          +
Sbjct: 78 A 78


>gi|291526790|emb|CBK92376.1| Helix-turn-helix [Eubacterium rectale M104/1]
          Length = 109

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/97 (21%), Positives = 40/97 (41%), Gaps = 7/97 (7%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            VG  I+  R+   +++E L   LGI+   ++KYE G   +  + L  I +  +   +  
Sbjct: 7   QVGIVIKSLRIQRNLTKEALAAELGISVSTIKKYENGERALSITNLFKIIDYFKVDANTI 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
            +V+     +       +MD+           YF +I
Sbjct: 67  LNVAEGKKENSIDSRLELMDYSRKA-------YFQKI 96


>gi|228935813|ref|ZP_04098625.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|228823870|gb|EEM69690.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
          Length = 190

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|229197431|ref|ZP_04324158.1| hypothetical protein bcere0001_29760 [Bacillus cereus m1293]
 gi|228586055|gb|EEK44146.1| hypothetical protein bcere0001_29760 [Bacillus cereus m1293]
          Length = 374

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I 
Sbjct: 4  INIHKVIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISID 62


>gi|225569026|ref|ZP_03778051.1| hypothetical protein CLOHYLEM_05105 [Clostridium hylemonae DSM
          15053]
 gi|225161825|gb|EEG74444.1| hypothetical protein CLOHYLEM_05105 [Clostridium hylemonae DSM
          15053]
          Length = 323

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 31/72 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + ++  R   G +QE++ E L ++ Q V K+E G +     +L  +SE+ +  +      
Sbjct: 11 ENLQFLRQKKGYTQEQIAEQLQVSRQSVSKWESGGSFPEMDKLLQLSEMFQCGMDVLVQG 70

Query: 77 SPTVCSDISSEE 88
                    +E
Sbjct: 71 DARNSYVEEHDE 82


>gi|224542577|ref|ZP_03683116.1| hypothetical protein CATMIT_01761 [Catenibacterium mitsuokai DSM
           15897]
 gi|224524502|gb|EEF93607.1| hypothetical protein CATMIT_01761 [Catenibacterium mitsuokai DSM
           15897]
          Length = 119

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/113 (15%), Positives = 47/113 (41%), Gaps = 4/113 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R+   +SQ++L   +G+    V ++EK G N    + L  I+      + +    
Sbjct: 4   RMRRARLHAKLSQQELATKIGVQRSAVAQWEKTGGNLPSMNHLIDIALATGVTLEWLGTG 63

Query: 77  SPTVCSDIS--SEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
              + +D    +     +D+       Q  +   ++   ++R+ ++ ++  + 
Sbjct: 64  RGPIKADEETWTPAVESLDYAQDETEYQCLQDLRRLP-HQLRENLVGIIAQLA 115


>gi|251794117|ref|YP_003008848.1| XRE family transcriptional regulator [Paenibacillus sp. JDR-2]
 gi|247541743|gb|ACS98761.1| transcriptional regulator, XRE family [Paenibacillus sp. JDR-2]
          Length = 69

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 29/62 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R  R + G +Q++L + LG++   +   E+G  +  A  + +I+  L        D 
Sbjct: 8  QRVRAFRKLKGYTQQELAKVLGVSVAVLGSLERGTRKPDARLMMNIANTLGISYEELMDT 67

Query: 77 SP 78
            
Sbjct: 68 ES 69


>gi|196034409|ref|ZP_03101818.1| DNA-binding protein [Bacillus cereus W]
 gi|195992951|gb|EDX56910.1| DNA-binding protein [Bacillus cereus W]
          Length = 190

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|49478671|ref|YP_038556.1| DNA-binding protein [Bacillus thuringiensis serovar konkukian
          str. 97-27]
 gi|52140999|ref|YP_085831.1| DNA-binding protein [Bacillus cereus E33L]
 gi|229093600|ref|ZP_04224701.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-42]
 gi|49330227|gb|AAT60873.1| DNA-binding protein [Bacillus thuringiensis serovar konkukian
          str. 97-27]
 gi|51974468|gb|AAU16018.1| DNA-binding protein [Bacillus cereus E33L]
 gi|228689809|gb|EEL43615.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-42]
          Length = 190

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|47091893|ref|ZP_00229687.1| Helix-turn-helix domain protein [Listeria monocytogenes str. 4b
          H7858]
 gi|47019609|gb|EAL10348.1| Helix-turn-helix domain protein [Listeria monocytogenes str. 4b
          H7858]
 gi|328466754|gb|EGF37875.1| helix-turn-helix domain protein [Listeria monocytogenes 1816]
          Length = 159

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 31/60 (51%), Gaps = 4/60 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G  IR  R + GM+Q++LG  LG   +    ++ +YE G  +     +  +S++ + 
Sbjct: 1  MAIGDNIRKFRKLKGMTQKELGLALGFDKKTADIRIAQYESGTRKPKEDMINDLSKIFDI 60


>gi|30264572|ref|NP_846949.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47530039|ref|YP_021388.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49187395|ref|YP_030647.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|65321870|ref|ZP_00394829.1| COG1396: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|165871491|ref|ZP_02216138.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167635596|ref|ZP_02393908.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|167641686|ref|ZP_02399931.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170688288|ref|ZP_02879498.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|170708374|ref|ZP_02898818.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|177653168|ref|ZP_02935455.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190567021|ref|ZP_03019937.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|196039163|ref|ZP_03106469.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|218905729|ref|YP_002453563.1| DNA-binding protein [Bacillus cereus AH820]
 gi|227817285|ref|YP_002817294.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|228929551|ref|ZP_04092570.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|228948227|ref|ZP_04110511.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|229124068|ref|ZP_04253260.1| Transcriptional regulator, Xre [Bacillus cereus 95/8201]
 gi|229600477|ref|YP_002868785.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|254687007|ref|ZP_05150865.1| DNA-binding protein [Bacillus anthracis str. CNEVA-9066]
 gi|254724570|ref|ZP_05186353.1| DNA-binding protein [Bacillus anthracis str. A1055]
 gi|254736607|ref|ZP_05194313.1| DNA-binding protein [Bacillus anthracis str. Western North
          America USA6153]
 gi|254741645|ref|ZP_05199332.1| DNA-binding protein [Bacillus anthracis str. Kruger B]
 gi|254754757|ref|ZP_05206792.1| DNA-binding protein [Bacillus anthracis str. Vollum]
 gi|254757589|ref|ZP_05209616.1| DNA-binding protein [Bacillus anthracis str. Australia 94]
 gi|301056014|ref|YP_003794225.1| DNA-binding protein [Bacillus anthracis CI]
 gi|30259230|gb|AAP28435.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47505187|gb|AAT33863.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49181322|gb|AAT56698.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|164712788|gb|EDR18318.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167510393|gb|EDR85794.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|167529016|gb|EDR91771.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|170126749|gb|EDS95632.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|170667794|gb|EDT18547.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|172081692|gb|EDT66763.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190562012|gb|EDV15981.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|196029790|gb|EDX68391.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|218537131|gb|ACK89529.1| DNA-binding protein [Bacillus cereus AH820]
 gi|227005980|gb|ACP15723.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|228659370|gb|EEL15018.1| Transcriptional regulator, Xre [Bacillus cereus 95/8201]
 gi|228811585|gb|EEM57922.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|228830130|gb|EEM75748.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|229264885|gb|ACQ46522.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|300378183|gb|ADK07087.1| DNA-binding protein [Bacillus cereus biovar anthracis str. CI]
          Length = 190

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|329120702|ref|ZP_08249364.1| transcriptional regulator [Neisseria bacilliformis ATCC BAA-1200]
 gi|327460499|gb|EGF06835.1| transcriptional regulator [Neisseria bacilliformis ATCC BAA-1200]
          Length = 82

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 32/71 (45%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   +  P+   +   + IR  R +  +SQE+L     I+   + + E+G   V    + 
Sbjct: 1  MDETQNSPHAYRMIFAQNIRQIRRMKEISQEELAFAANISRVYIGEVERGSRNVTIDVMG 60

Query: 61 HISEVLESPIS 71
           IS+ LE P+ 
Sbjct: 61 RISDALEVPLD 71


>gi|326943618|gb|AEA19511.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          chinensis CT-43]
          Length = 131

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 27/60 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ +R  R + G+S  KLG  LG+T   +  +E G        ++ I+        + F+
Sbjct: 7  GQNLRNLRTLKGISLHKLGIELGVTGSAISSWELGNKEPNFDMVKKIAIYFLVSTDYLFN 66


>gi|270264896|ref|ZP_06193160.1| transcriptional regulatory protein [Serratia odorifera 4Rx13]
 gi|270041194|gb|EFA14294.1| transcriptional regulatory protein [Serratia odorifera 4Rx13]
          Length = 152

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 25/53 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++  L  
Sbjct: 8  GQRVKELRVATGMSQEAFADRCGFACSYMSRIERGGSNASLDAIEVLANALSV 60


>gi|262282100|ref|ZP_06059869.1| DNA-binding protein [Streptococcus sp. 2_1_36FAA]
 gi|262262554|gb|EEY81251.1| DNA-binding protein [Streptococcus sp. 2_1_36FAA]
          Length = 70

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++++ R+   M+Q  L + +G+T Q +   E G      S    I + L   +   F
Sbjct: 12 KLKMARVEHDMTQGDLADAIGVTRQTIGLIEAGKYNPSLSLCIAICKCLNKTLDQLF 68


>gi|228924835|ref|ZP_04087992.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|228834844|gb|EEM80326.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
          Length = 131

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 27/60 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ +R  R + G+S  KLG  LG+T   +  +E G        ++ I+        + F+
Sbjct: 7  GQNLRNLRTLKGISLHKLGIELGVTGSAISSWELGNKEPNFDMVKKIAIYFLVSTDYLFN 66


>gi|228941681|ref|ZP_04104228.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228974608|ref|ZP_04135174.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228981203|ref|ZP_04141503.1| Transcriptional regulator, Xre [Bacillus thuringiensis Bt407]
 gi|228778403|gb|EEM26670.1| Transcriptional regulator, Xre [Bacillus thuringiensis Bt407]
 gi|228785011|gb|EEM33024.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228817893|gb|EEM63971.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          berliner ATCC 10792]
          Length = 194

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 1/72 (1%)

Query: 1  MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M  N+ +    V   VG+ +R  R    +S E+L    G++   + K E+G      + +
Sbjct: 5  MKENEDMQTKEVIQQVGQLLRQIRNEQKLSLEELAHKTGVSKLTLGKIERGETNPTLAVI 64

Query: 60 QHISEVLESPIS 71
            I++ L  P+S
Sbjct: 65 WKITKGLSIPLS 76


>gi|197301908|ref|ZP_03166972.1| hypothetical protein RUMLAC_00630 [Ruminococcus lactaris ATCC
           29176]
 gi|197298976|gb|EDY33512.1| hypothetical protein RUMLAC_00630 [Ruminococcus lactaris ATCC
           29176]
          Length = 111

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/105 (17%), Positives = 42/105 (40%), Gaps = 13/105 (12%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            ++G+ ++ RR+ LG +QE   E  GI++    K E+G           +++     + +
Sbjct: 7   KSIGRTLKERRLQLGYTQELAAEKSGISYSYYTKIERGEQLPSIEICVQLAQTFHLSLDY 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           +   + +             D   + + + L     +ID   +R+
Sbjct: 67  WLLGTSS-------------DAEISSELIDLAYSLREIDLNSLRK 98


>gi|169333754|ref|ZP_02860947.1| hypothetical protein ANASTE_00138 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169259603|gb|EDS73569.1| hypothetical protein ANASTE_00138 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 118

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +GKR++ +R   G++QEKL E + ++   +   E G  +     + +++ +L   
Sbjct: 6  RKLGKRLKEQRKKQGLTQEKLAEYVNLSVSHLSHIENGNEKTSLQTIVNLANILNIS 62


>gi|241554132|ref|YP_002979345.1| transcriptional regulator, XRE family [Rhizobium leguminosarum
          bv. trifolii WSM1325]
 gi|240863438|gb|ACS61100.1| transcriptional regulator, XRE family [Rhizobium leguminosarum
          bv. trifolii WSM1325]
          Length = 283

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 32/70 (45%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M       + V   +G ++R  R   G SQ  L    GI+ +Q+   E G +  G   L 
Sbjct: 1  MSSTHSPSSAVPNELGIQLRAWRDTRGKSQLDLSLDTGISQRQISFIESGRSTPGRHNLL 60

Query: 61 HISEVLESPI 70
          H+++ L+ P+
Sbjct: 61 HLADALDVPL 70


>gi|42783677|ref|NP_980924.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|206975999|ref|ZP_03236909.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|217961988|ref|YP_002340558.1| DNA-binding protein [Bacillus cereus AH187]
 gi|228987754|ref|ZP_04147865.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
 gi|229141235|ref|ZP_04269774.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST26]
 gi|229158112|ref|ZP_04286181.1| Transcriptional regulator, Xre [Bacillus cereus ATCC 4342]
 gi|229198653|ref|ZP_04325354.1| Transcriptional regulator, Xre [Bacillus cereus m1293]
 gi|42739606|gb|AAS43532.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|206745751|gb|EDZ57148.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|217066549|gb|ACJ80799.1| DNA-binding protein [Bacillus cereus AH187]
 gi|228584812|gb|EEK42929.1| Transcriptional regulator, Xre [Bacillus cereus m1293]
 gi|228625341|gb|EEK82099.1| Transcriptional regulator, Xre [Bacillus cereus ATCC 4342]
 gi|228642276|gb|EEK98568.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST26]
 gi|228772028|gb|EEM20483.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
 gi|324328397|gb|ADY23657.1| DNA-binding protein [Bacillus thuringiensis serovar finitimus
          YBT-020]
          Length = 190

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|21223122|ref|NP_628901.1| hypothetical protein SCO4743 [Streptomyces coelicolor A3(2)]
 gi|3449255|emb|CAA20399.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]
          Length = 201

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 24/57 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G R+R  R   G++  +L    GI+   + + E G    G   L  ++     P+ 
Sbjct: 14 LGARLRAIRQARGLTLAQLAAATGISVSTLSRLESGQREPGLRHLLPLARAHRLPLD 70


>gi|15600494|ref|NP_253988.1| transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|116053448|ref|YP_793775.1| putative transcriptional regulator [Pseudomonas aeruginosa
           UCBPP-PA14]
 gi|218894404|ref|YP_002443274.1| putative transcriptional regulator [Pseudomonas aeruginosa LESB58]
 gi|254238004|ref|ZP_04931327.1| hypothetical protein PACG_04117 [Pseudomonas aeruginosa C3719]
 gi|254243812|ref|ZP_04937134.1| hypothetical protein PA2G_04640 [Pseudomonas aeruginosa 2192]
 gi|296392160|ref|ZP_06881635.1| putative transcriptional regulator [Pseudomonas aeruginosa PAb1]
 gi|313106725|ref|ZP_07792942.1| putative transcriptional regulator [Pseudomonas aeruginosa 39016]
 gi|9951617|gb|AAG08686.1|AE004943_2 probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|115588669|gb|ABJ14684.1| putative transcriptional regulator [Pseudomonas aeruginosa
           UCBPP-PA14]
 gi|126169935|gb|EAZ55446.1| hypothetical protein PACG_04117 [Pseudomonas aeruginosa C3719]
 gi|126197190|gb|EAZ61253.1| hypothetical protein PA2G_04640 [Pseudomonas aeruginosa 2192]
 gi|218774633|emb|CAW30450.1| probable transcriptional regulator [Pseudomonas aeruginosa LESB58]
 gi|310879444|gb|EFQ38038.1| putative transcriptional regulator [Pseudomonas aeruginosa 39016]
          Length = 182

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/97 (24%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGARLQTIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLK---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  D+     + +  + + ++D  S    ++L 
Sbjct: 58  LVEFFSLDLEQDSHTQVVYKADELIDISSGAVSMRLV 94


>gi|326383144|ref|ZP_08204833.1| hypothetical protein SCNU_09406 [Gordonia neofelifaecis NRRL
           B-59395]
 gi|326198280|gb|EGD55465.1| hypothetical protein SCNU_09406 [Gordonia neofelifaecis NRRL
           B-59395]
          Length = 469

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 25/129 (19%), Positives = 47/129 (36%), Gaps = 12/129 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG RIR  R    +SQ+ L   LGI+   + + E     +    L  I+E+    I F
Sbjct: 1   MFVGGRIRGLRADRALSQQALAAMLGISASYLNQIEHDNRPLTGPVLAKITEMFGLDIDF 60

Query: 73  FFDVSP----TVCSDISSEENNVMDFISTP--DGLQLNRYFIQIDDVKV----RQKII-- 120
           F             +   +E+   D  ++   +   +      I +  V    R +++  
Sbjct: 61  FDPQDDVRLVAELREALLDEDLDFDPAASDAGEVASMVGSHRAIAEALVGMYQRYRVVSE 120

Query: 121 ELVRSIVSS 129
           +L  +    
Sbjct: 121 QLAAATAGR 129


>gi|325919786|ref|ZP_08181781.1| Helix-turn-helix protein [Xanthomonas gardneri ATCC 19865]
 gi|325549742|gb|EGD20601.1| Helix-turn-helix protein [Xanthomonas gardneri ATCC 19865]
          Length = 113

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 4/74 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R+R  R    ++QE LG   G    +   ++ +YEKGVN       + +++ L  P++ 
Sbjct: 12 NRLRHARQKAELTQEALGVAAGLATEVARTRINRYEKGVNECDLRTAKRLADALGMPLAA 71

Query: 73 FFDVSPTVCSDISS 86
          FF  +  V   I +
Sbjct: 72 FFAETDEVADAIQA 85


>gi|315651586|ref|ZP_07904603.1| transcriptional regulator [Eubacterium saburreum DSM 3986]
 gi|315486145|gb|EFU76510.1| transcriptional regulator [Eubacterium saburreum DSM 3986]
          Length = 75

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R    +SQ++L + +G++ Q +   EKG           I   L+  +   F
Sbjct: 7  RLKSARAAKDLSQQQLADMVGVSRQTINAIEKGDYNPTIRLCLSICYALDKSLDELF 63


>gi|312131969|ref|YP_003999309.1| helix-turN-helix domain protein [Leadbetterella byssophila DSM
          17132]
 gi|311908515|gb|ADQ18956.1| helix-turn-helix domain protein [Leadbetterella byssophila DSM
          17132]
          Length = 109

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 31/75 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G  +   R   G+SQ  L   LGI    + +YE+          + I+++LE  + +
Sbjct: 1  MDFGTTVADLRKEKGISQTDLAAQLGIHKNVLGRYERNEVFPSIDIARKIADILEVSLDY 60

Query: 73 FFDVSPTVCSDISSE 87
                     I+S+
Sbjct: 61 LTGKEDVQIDKITSQ 75


>gi|312868590|ref|ZP_07728785.1| DNA-binding helix-turn-helix protein [Lactobacillus oris
          PB013-T2-3]
 gi|311095887|gb|EFQ54136.1| DNA-binding helix-turn-helix protein [Lactobacillus oris
          PB013-T2-3]
          Length = 238

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 25/57 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           RI+  RM    +Q  L + + +T + +  +EKG         + +++     +S+ 
Sbjct: 23 NRIKELRMAQHKTQLDLAKKMNVTDRTISNWEKGKREPKIEAWKKMAQYFGVSVSYL 79


>gi|288956863|ref|YP_003447204.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288909171|dbj|BAI70660.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 221

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 32/70 (45%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          +   N +D  +  R+R  R   G++ + L E  G++   +   E+G +   AS L  ++ 
Sbjct: 22 ENAANDIDSRLATRLRALRADRGLTLDSLSERSGVSRSMISLVERGESSPTASVLDRLAA 81

Query: 65 VLESPISFFF 74
           L   ++  F
Sbjct: 82 GLGVTLATLF 91


>gi|322419229|ref|YP_004198452.1| Cupin 2 barrel domain-containing protein [Geobacter sp. M18]
 gi|320125616|gb|ADW13176.1| Cupin 2 conserved barrel domain protein [Geobacter sp. M18]
          Length = 187

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/89 (14%), Positives = 38/89 (42%), Gaps = 2/89 (2%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G R++  R+   ++ + +    G +   + + E        + L  I++  +  ++ F
Sbjct: 5   NIGPRLKKLRLARKLTLQAVATETGFSPALISQIENDNVSPPIATLSKIAKFFDVKLAQF 64

Query: 74  F--DVSPTVCSDISSEENNVMDFISTPDG 100
           F  D        + + E +++  + + +G
Sbjct: 65  FSEDEDDRKFEVVRAGERHIVPRVISKEG 93


>gi|239905667|ref|YP_002952406.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
 gi|239795531|dbj|BAH74520.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
          Length = 108

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 28/111 (25%), Positives = 49/111 (44%), Gaps = 14/111 (12%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GKR+R  R    M+QE+L E  G++ Q V + E+G        ++ +S  LE  ++  FD
Sbjct: 9   GKRVRSLRRAKDMTQEQLAERAGLSLQSVGEIERGRGNPTLVNIERLSAALEEDLASLFD 68

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           +      D+      V       + L+L        + +VR  I+ + R +
Sbjct: 69  L-----GDVGMTREQVQ-----KELLELL---AGASEEQVR-AILTMARVL 105


>gi|228995250|ref|ZP_04154964.1| Transcriptional regulator, Cro/CI [Bacillus pseudomycoides DSM
          12442]
 gi|229085911|ref|ZP_04218136.1| Transcriptional regulator, Cro/CI [Bacillus cereus Rock3-44]
 gi|228697435|gb|EEL50195.1| Transcriptional regulator, Cro/CI [Bacillus cereus Rock3-44]
 gi|228764488|gb|EEM13323.1| Transcriptional regulator, Cro/CI [Bacillus pseudomycoides DSM
          12442]
          Length = 78

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++   R++  MSQ+ L + +G++ Q +   EK            I+   E  I+  F
Sbjct: 11 NKVYEYRVLKRMSQKDLADAVGVSKQTIFVMEKNNYSPSLVLAYRIANYFEVDINEIF 68


>gi|167754979|ref|ZP_02427106.1| hypothetical protein CLORAM_00483 [Clostridium ramosum DSM 1402]
 gi|167705029|gb|EDS19608.1| hypothetical protein CLORAM_00483 [Clostridium ramosum DSM 1402]
          Length = 73

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 31/67 (46%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +++  G RI+  R+   +SQE+L    G++   +   E+G   V    ++ I+     
Sbjct: 5  DKIEVKFGHRIKELRLKQNISQEELAFRCGLSKNYISDVERGTRNVSLKSIEKIANGFAV 64

Query: 69 PISFFFD 75
           +   FD
Sbjct: 65 NLKELFD 71


>gi|166032267|ref|ZP_02235096.1| hypothetical protein DORFOR_01970 [Dorea formicigenerans ATCC
          27755]
 gi|166027990|gb|EDR46747.1| hypothetical protein DORFOR_01970 [Dorea formicigenerans ATCC
          27755]
          Length = 80

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 33/70 (47%), Gaps = 4/70 (5%)

Query: 9  NPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNR-VGASRLQHISE 64
          N  D+   +G  I+  R    ++Q +L E   I+   + K E  G ++ +  S L  I+ 
Sbjct: 5  NDTDLYRVIGANIKHYREQAKLTQVQLAERAKISISYLSKIEAAGCDKSLSISVLNQIAN 64

Query: 65 VLESPISFFF 74
          VL   I+ FF
Sbjct: 65 VLSVDINEFF 74


>gi|81330301|ref|YP_398693.1| hypothetical protein pHTbeta_51 [Enterococcus faecium]
 gi|80751063|dbj|BAE48135.1| hypothetical protein [Enterococcus faecium]
          Length = 135

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 3/67 (4%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEV 65
           PNP     GKRI+  R+  G + E+LG  +  +    +  +E+G N     +L+ +S +
Sbjct: 2  KPNP--SEAGKRIKQLRLSCGFTMEELGRKIDNSPRATISNWERGTNLPNPQKLKLLSTI 59

Query: 66 LESPISF 72
            S I +
Sbjct: 60 TNSTIDW 66


>gi|15964249|ref|NP_384602.1| putative transcription regulator protein [Sinorhizobium meliloti
          1021]
 gi|15073425|emb|CAC41933.1| Putative HTH-type transcriptional regulator [Sinorhizobium
          meliloti 1021]
          Length = 89

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 33/68 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +RL R+  G+SQE+L     I    V + E+G+  V  S ++ ++  LE P++  F 
Sbjct: 8  GWNLRLLRVERGLSQERLAFEARIDRAYVGRVERGMENVTISTIEALARALEVPVAALFS 67

Query: 76 VSPTVCSD 83
                S 
Sbjct: 68 QPDRNASQ 75


>gi|134295270|ref|YP_001119005.1| putative phage repressor [Burkholderia vietnamiensis G4]
 gi|134138427|gb|ABO54170.1| putative phage repressor [Burkholderia vietnamiensis G4]
          Length = 238

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/76 (26%), Positives = 38/76 (50%), Gaps = 7/76 (9%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQ-VQKYEK----GVNRVGASRLQHISEVL 66
          DI+  KRI+ +R+  G+S ++L   +G+   Q VQ++EK    G       +LQ +++ L
Sbjct: 11 DIH--KRIKAKRLEKGLSMQQLATAVGLKGWQSVQQWEKPDDEGGTAPRRDKLQKVADAL 68

Query: 67 ESPISFFFDVSPTVCS 82
               +    +P   +
Sbjct: 69 GVTAEWLQFGAPAPEN 84


>gi|261208044|ref|ZP_05922719.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289565525|ref|ZP_06445973.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
 gi|260077628|gb|EEW65344.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          TC 6]
 gi|289162723|gb|EFD10575.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          D344SRF]
          Length = 87

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G+SQ +L + + +T Q V  ++ G       +++ +SE+L  P++  F
Sbjct: 21 SNLSRYRKEKGLSQTELAKKMNVTQQCVSSWQTGRTIPKPYQMKMLSEILSVPMNELF 78


>gi|315498461|ref|YP_004087265.1| transcriptional regulator, xre family [Asticcacaulis excentricus
          CB 48]
 gi|315416473|gb|ADU13114.1| transcriptional regulator, XRE family [Asticcacaulis excentricus
          CB 48]
          Length = 70

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 23/59 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           R++  R   G++Q  L   L ++ Q V   E   +         I+ + +  +   F+
Sbjct: 3  NRLKDLRTEAGLTQADLAARLNVSRQAVIAIESDKHDPSLDLAYRIAAIFDLAVEAIFE 61


>gi|255281979|ref|ZP_05346534.1| putative helix-turn-helix protein [Bryantella formatexigens DSM
           14469]
 gi|255267652|gb|EET60857.1| putative helix-turn-helix protein [Bryantella formatexigens DSM
           14469]
          Length = 215

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 3/65 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE---KGVNRVGASRLQHISEVLESPISFFF 74
            ++L R   G++Q +L E  GI  + +Q+YE   K +NR  A  L  +++VL   +    
Sbjct: 151 NLKLLRKRAGLTQRELAEYAGIPLRTIQQYEQRQKNINRAQAEYLVKLAKVLCCSVENLI 210

Query: 75  DVSPT 79
           +  P 
Sbjct: 211 EYVPE 215


>gi|298530359|ref|ZP_07017761.1| diguanylate cyclase with PAS/PAC sensor [Desulfonatronospira
          thiodismutans ASO3-1]
 gi|298509733|gb|EFI33637.1| diguanylate cyclase with PAS/PAC sensor [Desulfonatronospira
          thiodismutans ASO3-1]
          Length = 915

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 34/74 (45%), Gaps = 1/74 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+RL R +  ++Q +L + L I+   +   E+G +      ++ +  +L+   +  F 
Sbjct: 7  GERVRLFRALKNLTQGQLADMLDISRHHMGCLERGESGPSFGLIRKLCTLLQVHPASLF- 65

Query: 76 VSPTVCSDISSEEN 89
          +S     +   E  
Sbjct: 66 LSSDQEPEYPEESQ 79


>gi|171056856|ref|YP_001789205.1| XRE family transcriptional regulator [Leptothrix cholodnii SP-6]
 gi|170774301|gb|ACB32440.1| transcriptional regulator, XRE family [Leptothrix cholodnii SP-6]
          Length = 200

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 27/72 (37%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  I+ +R   G++  ++ E   I+   + K E G    G   L  I+  L   +S  F
Sbjct: 16 VGAAIKEQRQRHGLTIAQVSEQASISRGMLSKIENGQTSAGMDTLARIARALGVSMSMLF 75

Query: 75 DVSPTVCSDISS 86
                 S    
Sbjct: 76 SKYDVTASSAQH 87


>gi|89255371|ref|NP_659804.2| hypothetical protein RHE_PD00235 [Rhizobium etli CFN 42]
 gi|89213325|gb|AAM54817.2| hypothetical protein RHE_PD00235 [Rhizobium etli CFN 42]
          Length = 259

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/49 (42%), Positives = 29/49 (59%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           +R  R    + + KL   LGIT Q   +YE GV+R+  SRL H+ EVL+
Sbjct: 136 LREARDKRKLPRSKLAPLLGITKQVYGRYENGVSRLTVSRLIHLCEVLD 184


>gi|71737818|ref|YP_272531.1| DNA-binding protein [Pseudomonas syringae pv. phaseolicola 1448A]
 gi|71558371|gb|AAZ37582.1| DNA-binding protein [Pseudomonas syringae pv. phaseolicola 1448A]
 gi|330873076|gb|EGH07225.1| DNA-binding protein [Pseudomonas syringae pv. glycinea str. race 4]
 gi|330986843|gb|EGH84946.1| DNA-binding protein [Pseudomonas syringae pv. lachrymans str.
           M301315]
 gi|331009416|gb|EGH89472.1| DNA-binding protein [Pseudomonas syringae pv. tabaci ATCC 11528]
          Length = 182

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  +  P   + +  + + ++D       ++L 
Sbjct: 58  MVEFFSEETVPENAAQVVYKASELIDISDGAVTMKLV 94


>gi|28377509|ref|NP_784401.1| prophage Lp1 protein 12 [Lactobacillus plantarum WCFS1]
 gi|308181218|ref|YP_003925346.1| prophage Lp1 protein 12 [Lactobacillus plantarum subsp. plantarum
          ST-III]
 gi|28270341|emb|CAD63242.1| prophage Lp1 protein 12 [Lactobacillus plantarum WCFS1]
 gi|308046709|gb|ADN99252.1| prophage Lp1 protein 12 [Lactobacillus plantarum subsp. plantarum
          ST-III]
          Length = 66

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 1/52 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          RIR  R  LG+SQ  L +  G+    +   E G N +     + ++  L   
Sbjct: 6  RIRELRQKLGLSQSALADKSGVPQTTISAIESGTN-LTYETAKKLARALGVS 56


>gi|23014107|ref|ZP_00053943.1| COG3800: Predicted transcriptional regulator [Magnetospirillum
           magnetotacticum MS-1]
          Length = 480

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 26/138 (18%), Positives = 57/138 (41%), Gaps = 7/138 (5%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           MV NKK      + +G ++R  R    +SQ  L   L ++   + + E     +    L 
Sbjct: 1   MVMNKK------LFLGYKLRRLREGKKLSQAALAALLEVSPSYLNQIENNQRPLTVPVLL 54

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            I++VL+  ++   +   +       E  N   F S   GL   R        ++ ++++
Sbjct: 55  RIAKVLDVDLATLVEDEESRLVADLREALNDPVFGSGSIGLSELRNAAS-ASPELAKRVL 113

Query: 121 ELVRSIVSSEKKYRTIEE 138
            L ++    +++ +++ E
Sbjct: 114 TLYQTFRQLDERMQSLTE 131


>gi|330951980|gb|EGH52240.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae Cit 7]
          Length = 199

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 11/101 (10%)

Query: 8   PNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  + +
Sbjct: 5   PHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRLCD 64

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           VL  P+S  F       S            +   +GL++ R
Sbjct: 65  VLGMPMSKLFSQYDQQGSSAL--------LVKADEGLEVVR 97


>gi|326791869|ref|YP_004309690.1| hypothetical protein Clole_2793 [Clostridium lentocellum DSM
          5427]
 gi|326542633|gb|ADZ84492.1| helix-turn-helix domain protein [Clostridium lentocellum DSM
          5427]
          Length = 73

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 30/66 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           I   R   G++Q+KL E +G T   ++KYE G+     S +  I + L   ++  ++  
Sbjct: 7  NINAFRKARGITQKKLAEMIGRTESSIRKYENGMVEPPISVVIDIYKALGIKLTLTYEAI 66

Query: 78 PTVCSD 83
               D
Sbjct: 67 SEDGDD 72


>gi|238764873|ref|ZP_04625813.1| hypothetical protein ykris0001_37880 [Yersinia kristensenii ATCC
          33638]
 gi|238696892|gb|EEP89669.1| hypothetical protein ykris0001_37880 [Yersinia kristensenii ATCC
          33638]
          Length = 187

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 1/71 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR  R     SQE+L E   ++ + +Q+ E G        L  I+ V+E  +S  + + 
Sbjct: 5  RIRELRQARAWSQEQLAELCSLSVRTIQRIENGEQ-ASLETLSAIAAVMELKVSELYSLD 63

Query: 78 PTVCSDISSEE 88
               D   E 
Sbjct: 64 ANQPQDGPGEA 74


>gi|169628144|ref|YP_001701793.1| putative transcription regulator protein [Mycobacterium abscessus
          ATCC 19977]
 gi|169240111|emb|CAM61139.1| Putative transcription regulator protein [Mycobacterium
          abscessus]
          Length = 173

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 26/56 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R   G++ E+LG   G+T   + K E+  +    S    I+  L+  +S  F
Sbjct: 5  VRALRRERGLTLEELGSRTGLTKSYLSKVEREHSTPSVSVAMRIAGALDVDVSRLF 60


>gi|150009363|ref|YP_001304106.1| transcriptional regulator [Parabacteroides distasonis ATCC 8503]
 gi|255016216|ref|ZP_05288342.1| transcriptional regulator [Bacteroides sp. 2_1_7]
 gi|256842368|ref|ZP_05547871.1| transcriptional regulator [Parabacteroides sp. D13]
 gi|262384722|ref|ZP_06077855.1| transcriptional regulator [Bacteroides sp. 2_1_33B]
 gi|298377851|ref|ZP_06987801.1| DNA-binding protein [Bacteroides sp. 3_1_19]
 gi|301312270|ref|ZP_07218187.1| DNA-binding protein [Bacteroides sp. 20_3]
 gi|149937787|gb|ABR44484.1| transcriptional regulator [Parabacteroides distasonis ATCC 8503]
 gi|256735975|gb|EEU49306.1| transcriptional regulator [Parabacteroides sp. D13]
 gi|262293703|gb|EEY81638.1| transcriptional regulator [Bacteroides sp. 2_1_33B]
 gi|298265297|gb|EFI06960.1| DNA-binding protein [Bacteroides sp. 3_1_19]
 gi|300829692|gb|EFK60345.1| DNA-binding protein [Bacteroides sp. 20_3]
          Length = 193

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/82 (19%), Positives = 39/82 (47%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  +G +I+  R    +S E++ E  G+  +Q+++ E  ++    + L  I+ VL   + 
Sbjct: 4  NKIIGAKIKNIRESKQLSIEEVAERSGLGIEQIERIEGNLDFPSLAPLIKIARVLGVRLG 63

Query: 72 FFFDVSPTVCSDISSEENNVMD 93
           F D    +   +  ++++  D
Sbjct: 64 TFLDDQAELGPVVCRKKDSEAD 85


>gi|86360646|ref|YP_472534.1| hypothetical protein RHE_PE00372 [Rhizobium etli CFN 42]
 gi|86284748|gb|ABC93807.1| hypothetical conserved protein [Rhizobium etli CFN 42]
          Length = 194

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 25/66 (37%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R+   +   +L    G++   + K E+G        L  I+ V    +  FF
Sbjct: 15 IGPRIKALRLRKKLGLVQLAGHTGLSPAMLSKIERGQMFPTLPTLLRIAMVFGVGLDHFF 74

Query: 75 DVSPTV 80
                
Sbjct: 75 KADKEE 80


>gi|15672114|ref|NP_266288.1| transcription regulator [Lactococcus lactis subsp. lactis Il1403]
 gi|12722980|gb|AAK04230.1|AE006251_6 transcriptional regulator [Lactococcus lactis subsp. lactis Il1403]
          Length = 106

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 29/62 (46%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
             +R +R I G++Q++LG+ L  + Q V  +E G        +Q ++ V +  I      
Sbjct: 42  SNLRQKRAIAGLTQKELGKLLYSSKQAVCNWEHGRREPSLEVVQEMANVFKCSIDDLLKD 101

Query: 77  SP 78
           S 
Sbjct: 102 SE 103


>gi|21283165|ref|NP_646253.1| phage repressor [Staphylococcus aureus subsp. aureus MW2]
 gi|300911879|ref|ZP_07129322.1| XRE family transcriptional regulator [Staphylococcus aureus
          subsp. aureus TCH70]
 gi|21204605|dbj|BAB95301.1| phage repressor [Staphylococcus aureus subsp. aureus MW2]
 gi|300886125|gb|EFK81327.1| XRE family transcriptional regulator [Staphylococcus aureus
          subsp. aureus TCH70]
          Length = 107

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 10/85 (11%), Positives = 33/85 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I+  R    ++       +G+    + +YE G  ++    +  I+  L+    +  
Sbjct: 7  IGKLIKQLRKENNVNLTDFAIKIGVNKSTLSRYENGSRKIPMEDIAEIANALKVTPEYLL 66

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            +    +++     ++   ++  +
Sbjct: 67 LKNRQPENEVQHRAAHLEGELTDDE 91


>gi|12719398|ref|NP_075469.1| repressor [Staphylococcus phage phiSLT]
 gi|148267459|ref|YP_001246402.1| XRE family transcriptional regulator [Staphylococcus aureus
          subsp. aureus JH9]
 gi|150393512|ref|YP_001316187.1| hypothetical protein SaurJH1_1044 [Staphylococcus aureus subsp.
          aureus JH1]
 gi|162290111|ref|YP_001604094.1| putative repressor protein [Staphylococcus phage phiMR11]
 gi|12697828|dbj|BAB21700.1| repressor [Staphylococcus phage phiSLT]
 gi|104641922|gb|ABF73230.1| repressor [Staphylococcus aureus phage phiNM4]
 gi|147740528|gb|ABQ48826.1| transcriptional regulator, XRE family [Staphylococcus aureus
          subsp. aureus JH9]
 gi|149945964|gb|ABR51900.1| helix-turn-helix domain protein [Staphylococcus aureus subsp.
          aureus JH1]
 gi|161958541|dbj|BAF95096.1| putative repressor protein [Staphylococcus phage phiMR11]
 gi|283469566|emb|CAQ48777.1| repressor [Staphylococcus aureus subsp. aureus ST398]
 gi|312438049|gb|ADQ77120.1| XRE family transcriptional regulator [Staphylococcus aureus
          subsp. aureus TCH60]
          Length = 104

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
          KR++  R   GM+  +LG  +G T   VQ+YE G +  +    ++ I+  L    ++   
Sbjct: 5  KRMKQSREKQGMTLAELGRKIGKTEATVQRYESGNIKNLKNDTIESIATALNVNPAYLMG 64

Query: 76 VSPTVCSDISSEENNVMDFISTPD 99
                 ++     ++   ++  +
Sbjct: 65 WVEENDDEVQHRAAHLEGELTDDE 88


>gi|317491564|ref|ZP_07950000.1| peptidase S24 [Enterobacteriaceae bacterium 9_2_54FAA]
 gi|316921111|gb|EFV42434.1| peptidase S24 [Enterobacteriaceae bacterium 9_2_54FAA]
          Length = 230

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 29/68 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R    M+  +L   +G     + + E+G+     + L+ I++ L   IS  F
Sbjct: 4  IGNKIRQIRKAKKMTILELANAVGSDVGNISRLERGIQGYSDAMLRKIADGLSVHISELF 63

Query: 75 DVSPTVCS 82
                 +
Sbjct: 64 STEDDGGT 71


>gi|311107907|ref|YP_003980760.1| hypothetical protein AXYL_04732 [Achromobacter xylosoxidans A8]
 gi|310762596|gb|ADP18045.1| helix-turn-helix family protein 10 [Achromobacter xylosoxidans A8]
          Length = 184

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 37/85 (43%), Gaps = 5/85 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+R  R    +S E+L +  G+T   + K E+G++    S +  ++E     +S      
Sbjct: 7   RLRALRRQQTLSLEQLAQRTGLTKSYLSKLERGLSEPSISTVLRLAEAYGLGVSELVGTD 66

Query: 78  PTVCSDISSEENNVMDFISTPDGLQ 102
                D + EE   +  ++  + LQ
Sbjct: 67  -----DAAQEEVVSVVRVADREALQ 86


>gi|300855029|ref|YP_003780013.1| putative transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
 gi|300435144|gb|ADK14911.1| putative transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
          Length = 71

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +IR  R    ++QE+L +   +T Q +   E G           I+++    I   F F
Sbjct: 8  NKIRELRKERKITQEELADFCNVTRQTIISLENGKYNPSIFLAYKIAKIFNMTIEQVFIF 67

Query: 75 DVSP 78
          +   
Sbjct: 68 EEEE 71


>gi|295102943|emb|CBL00487.1| Helix-turn-helix. [Faecalibacterium prausnitzii SL3/3]
          Length = 273

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/93 (19%), Positives = 37/93 (39%), Gaps = 7/93 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR---VGASRLQHISEVLESPISFF 73
           +R++  R+  G+  E+L E  GI+   +  YE   NR   +    L  +++  E  I + 
Sbjct: 9   ERLKDLRVEKGLKLEELAEKTGISKSALASYENEENRNKEINHGNLIALADFYEVSIDYL 68

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           F        +       + +   T + + L + 
Sbjct: 69  F----CRTENREQINTPLSELHLTDEAVALLKS 97


>gi|237738629|ref|ZP_04569110.1| predicted protein [Fusobacterium sp. 2_1_31]
 gi|229424112|gb|EEO39159.1| predicted protein [Fusobacterium sp. 2_1_31]
          Length = 213

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/125 (18%), Positives = 55/125 (44%), Gaps = 5/125 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV---GASRLQHIS--EVLE 67
           +++G++I+  R+   +SQ++  E +G+T   +   E G   +      +   I+  E  +
Sbjct: 2   LHIGRKIKKFRIENNLSQKEFAEKIGVTQGFLSYVENGRLNIESPSLEKKILIAIGEAPD 61

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
             +   F+ +  + SD      + M      +   L+   ++     +  +I  +V+ +V
Sbjct: 62  EDLRKDFEKNVELASDNVHSPKHYMIPGCNFECKDLSDAIVRNMPNPLGTRIWNVVKYLV 121

Query: 128 SSEKK 132
            +EKK
Sbjct: 122 RAEKK 126


>gi|297565166|ref|YP_003684138.1| XRE family transcriptional regulator [Meiothermus silvanus DSM
          9946]
 gi|296849615|gb|ADH62630.1| transcriptional regulator, XRE family [Meiothermus silvanus DSM
          9946]
          Length = 187

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 34/80 (42%), Gaps = 2/80 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+R  R+  G + E++ +  G+    + + E+       + L  +   L       F
Sbjct: 13 IGQRLRATRLAKGFTLEQVAKRSGLDKSFISRLERDATAASVASLLKVCGALGIQPGSLF 72

Query: 75 DVSPTVCSDISSEENNVMDF 94
          D  P   + + +EE    +F
Sbjct: 73 D--PPKTNLVRAEEAPSANF 90


>gi|91217921|ref|ZP_01254874.1| hypothetical protein P700755_01267 [Psychroflexus torquis ATCC
          700755]
 gi|91183898|gb|EAS70288.1| hypothetical protein P700755_01267 [Psychroflexus torquis ATCC
          700755]
          Length = 247

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 24/60 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            GK I+  R I G+SQ+   E   +    +  YE+G +      +  ++      I  F
Sbjct: 3  FFGKNIKKIRAIKGLSQQAFAELFSLKRATLGAYEEGRSEPKIDTIIKVANYFSISIDDF 62


>gi|49478178|ref|YP_037436.1| transcriptional regulator [Bacillus thuringiensis serovar
          konkukian str. 97-27]
 gi|49329734|gb|AAT60380.1| transcriptional regulator [Bacillus thuringiensis serovar
          konkukian str. 97-27]
          Length = 374

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LISYKPQMEQE 74


>gi|229606284|ref|YP_002876932.1| hypothetical protein VCD_001187 [Vibrio cholerae MJ-1236]
 gi|229607600|ref|YP_002878248.1| hypothetical protein VCD_002512 [Vibrio cholerae MJ-1236]
 gi|229607707|ref|YP_002878355.1| hypothetical protein VCD_002619 [Vibrio cholerae MJ-1236]
 gi|229608129|ref|YP_002878777.1| hypothetical protein VCD_003047 [Vibrio cholerae MJ-1236]
 gi|229368939|gb|ACQ59362.1| hypothetical protein VCD_001187 [Vibrio cholerae MJ-1236]
 gi|229370255|gb|ACQ60678.1| hypothetical protein VCD_002512 [Vibrio cholerae MJ-1236]
 gi|229370362|gb|ACQ60785.1| hypothetical protein VCD_002619 [Vibrio cholerae MJ-1236]
 gi|229370784|gb|ACQ61207.1| hypothetical protein VCD_003047 [Vibrio cholerae MJ-1236]
          Length = 69

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/55 (32%), Positives = 26/55 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VGKRI   R   G++Q+KL     I    V + E+G   +   +L  I+E L   
Sbjct: 9  VGKRIAKMRKSKGLTQDKLALFAEIDRSYVGRIERGEVNITIEKLYEIAETLGCD 63


>gi|167772023|ref|ZP_02444076.1| hypothetical protein ANACOL_03397 [Anaerotruncus colihominis DSM
          17241]
 gi|167665821|gb|EDS09951.1| hypothetical protein ANACOL_03397 [Anaerotruncus colihominis DSM
          17241]
          Length = 75

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R+R  R     SQ  +G+ LG++ QQ   YEKG   +    L  ++++  + + + 
Sbjct: 7  RRLRELREDHDYSQADIGKRLGMSKQQYFLYEKGYRDIPTPVLIALADLYGTSVDYL 63


>gi|17228887|ref|NP_485435.1| hypothetical protein alr1392 [Nostoc sp. PCC 7120]
 gi|17130739|dbj|BAB73349.1| alr1392 [Nostoc sp. PCC 7120]
          Length = 290

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/125 (16%), Positives = 44/125 (35%), Gaps = 15/125 (12%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D + G  ++  R     SQ  L     ++ + +   E G  +     +  ++ VL+ P+ 
Sbjct: 8   DTSFGNLLKHWRNQRSFSQLDLAVASEVSQRHISFLESGRAKPSRDMILQLATVLDVPLR 67

Query: 72  F------------FFDVSPTVCSDISSEENNVMDFISTPD---GLQLNRYFIQIDDVKVR 116
           +             +  S    S+I      +   +   +    L ++RY+  I      
Sbjct: 68  YQNMMLTSAGFAPIYSESDLSASEIEPIRKALDFILRQQEPYPALVMDRYWNLIQSNTAA 127

Query: 117 QKIIE 121
           Q++I 
Sbjct: 128 QRLIN 132


>gi|110634674|ref|YP_674882.1| XRE family transcriptional regulator [Mesorhizobium sp. BNC1]
 gi|110285658|gb|ABG63717.1| transcriptional regulator, XRE family [Chelativorans sp. BNC1]
          Length = 100

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 31/75 (41%), Gaps = 1/75 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFFF 74
          G  +R  R+  G+SQE + E +G     V   E+GV  V    L H ++ +   P     
Sbjct: 8  GSNLRRYRLAAGLSQEAVAERIGADRAHVSAMERGVQNVTLLTLWHTAQAVGVKPADLLA 67

Query: 75 DVSPTVCSDISSEEN 89
          +   T  +   +  +
Sbjct: 68 ETDSTERASGIAAPS 82


>gi|330718310|ref|ZP_08312910.1| XRE-family DNA-binding domain-containing protein [Leuconostoc
          fallax KCTC 3537]
          Length = 302

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +++   R    +SQ  L + + +T Q V K+E G       +L  ++E+L   ++  
Sbjct: 7  EQLITLRQKKKLSQHALAQKIFVTRQSVSKWENGDAEPSIDKLISLAEILNVDLNHL 63


>gi|317470458|ref|ZP_07929846.1| hypothetical protein HMPREF1011_00193 [Anaerostipes sp.
          3_2_56FAA]
 gi|316901973|gb|EFV23899.1| hypothetical protein HMPREF1011_00193 [Anaerostipes sp.
          3_2_56FAA]
          Length = 216

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/82 (25%), Positives = 37/82 (45%), Gaps = 5/82 (6%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI-- 62
          KK        VG+R++ RR  L ++  +LG+ +G+    +Q+YE   + V   R   I  
Sbjct: 2  KKEITFTAKQVGERVKERRTELNLTMPELGKRIGVNKSTIQRYE--ADGVDPKRTMIING 59

Query: 63 -SEVLESPISFFFDVSPTVCSD 83
           +E L +   +   +S     D
Sbjct: 60 LAEALLTTPEWLTGLSEDKEYD 81


>gi|307243566|ref|ZP_07525713.1| DNA-binding helix-turn-helix protein [Peptostreptococcus stomatis
          DSM 17678]
 gi|306493066|gb|EFM65072.1| DNA-binding helix-turn-helix protein [Peptostreptococcus stomatis
          DSM 17678]
          Length = 67

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I+ RR  LG++ +++ + LG         YE G   + A+ +  ++++L+  I  FF
Sbjct: 9  IKTRRKELGLTLQQMSDSLGFKKATTYSNYENGDRIMKANMMPTLAQILQCDIMDFF 65


>gi|300723214|ref|YP_003712514.1| DNA-binding protein [Xenorhabdus nematophila ATCC 19061]
 gi|297629731|emb|CBJ90337.1| DNA-binding protein [Xenorhabdus nematophila ATCC 19061]
          Length = 180

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/81 (18%), Positives = 35/81 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +++ R  LG++ + L E  G+T   + K E+G+++   +    +S  L   +   F V  
Sbjct: 5  LKILRKKLGLTLDSLAEKTGMTKSYLSKVERGLSKPSIATALKLSIALNVSVEELFSVDN 64

Query: 79 TVCSDISSEENNVMDFISTPD 99
                S   ++    ++  +
Sbjct: 65 IRQGSYSLVRSDERQMLAGSE 85


>gi|293395281|ref|ZP_06639566.1| cro/CI family transcriptional regulator [Serratia odorifera DSM
          4582]
 gi|291422238|gb|EFE95482.1| cro/CI family transcriptional regulator [Serratia odorifera DSM
          4582]
          Length = 185

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 29/59 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GKR+   R  LG+SQ ++ E  G+T   +   E+       S LQ + +V    +S FF
Sbjct: 9  GKRLSQIRQQLGLSQRRVAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFF 67


>gi|257454464|ref|ZP_05619724.1| bifunctional HTH-domain containing protein/aminotransferase
          [Enhydrobacter aerosaccus SK60]
 gi|257448122|gb|EEV23105.1| bifunctional HTH-domain containing protein/aminotransferase
          [Enhydrobacter aerosaccus SK60]
          Length = 557

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/78 (14%), Positives = 37/78 (47%), Gaps = 5/78 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECL-----GITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+R+   R   G++  +L + +      ++   +  +E+G N + +++L  ++ +L    
Sbjct: 10 GQRLTQLRKSKGLTTAELADLMTQAGAKVSRAAISNWERGSNGIVSNKLPVLASLLGCSE 69

Query: 71 SFFFDVSPTVCSDISSEE 88
          S+    +     +++++ 
Sbjct: 70 SYLLSGTGVESHNVNTQA 87


>gi|229488922|ref|ZP_04382788.1| regulatory protein [Rhodococcus erythropolis SK121]
 gi|229324426|gb|EEN90181.1| regulatory protein [Rhodococcus erythropolis SK121]
          Length = 208

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/109 (21%), Positives = 38/109 (34%), Gaps = 9/109 (8%)

Query: 2   VGNKKIPNPVDI---NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
             N   P+ +D     +G R++  R    ++   L E  GI+   + + E G  R     
Sbjct: 13  TMNVNGPH-IDAAISQIGARLKRIRTQRNVTLTALSESTGISKSTLSRLEAGERRPSLEL 71

Query: 59  LQHISEVLESPISFFFDVSPTVCSDISSEENN-----VMDFISTPDGLQ 102
           L  I+   + P+             I S   +     V+     P GLQ
Sbjct: 72  LLPIALAHQVPLDQLVAAPQVADPRIQSAPRSVSGRTVLPLTRQPGGLQ 120


>gi|229019722|ref|ZP_04176528.1| Transcriptional regulator, Xre [Bacillus cereus AH1273]
 gi|229025948|ref|ZP_04182338.1| Transcriptional regulator, Xre [Bacillus cereus AH1272]
 gi|228735349|gb|EEL85954.1| Transcriptional regulator, Xre [Bacillus cereus AH1272]
 gi|228741567|gb|EEL91761.1| Transcriptional regulator, Xre [Bacillus cereus AH1273]
          Length = 190

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|229173997|ref|ZP_04301534.1| hypothetical protein bcere0006_30920 [Bacillus cereus MM3]
 gi|228609506|gb|EEK66791.1| hypothetical protein bcere0006_30920 [Bacillus cereus MM3]
          Length = 374

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 34/75 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDK 63

Query: 73 FFDVSPTVCSDISSE 87
              +P +  +   E
Sbjct: 64 LICYTPQMEQEAIRE 78


>gi|225869491|ref|YP_002745438.1| DNA-binding protein [Streptococcus equi subsp. equi 4047]
 gi|225698895|emb|CAW91878.1| putative DNA-binding protein [Streptococcus equi subsp. equi
          4047]
          Length = 120

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 36/82 (43%), Gaps = 2/82 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++  R+   +SQ+ L E L I+ Q + K+E G        L  ++ VLE  +      
Sbjct: 6  EQLKKYRLEKQLSQDALAEKLFISRQAISKWENGDATPDLENLVTLAAVLEVTLDELVTG 65

Query: 77 SPTVCSDISSEEN--NVMDFIS 96
                 I   E   NV +F++
Sbjct: 66 KEPAIKVIKKTEKPMNVWEFLT 87


>gi|225568758|ref|ZP_03777783.1| hypothetical protein CLOHYLEM_04837 [Clostridium hylemonae DSM
          15053]
 gi|225162257|gb|EEG74876.1| hypothetical protein CLOHYLEM_04837 [Clostridium hylemonae DSM
          15053]
          Length = 205

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/82 (18%), Positives = 32/82 (39%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K+  N +    G  I+  R   G +Q +L E + ++ + V K+E G        +  ++ 
Sbjct: 7  KERGNIMSYVTGSIIKELRERKGYTQRQLAESVCVSDKTVSKWETGKGLPDVGIITELAS 66

Query: 65 VLESPISFFFDVSPTVCSDISS 86
           L   ++   +       + S 
Sbjct: 67 ALGVSLAELLNGEYAENRNRSG 88


>gi|218689855|ref|YP_002398067.1| putative repressor protein CI [Escherichia coli ED1a]
 gi|260870771|ref|YP_003237173.1| putative repressor protein CI [Escherichia coli O111:H- str.
          11128]
 gi|218427419|emb|CAR08317.2| putative repressor protein CI [Escherichia coli ED1a]
 gi|257767127|dbj|BAI38622.1| putative repressor protein CI [Escherichia coli O111:H- str.
          11128]
 gi|323177632|gb|EFZ63217.1| helix-turn-helix family protein [Escherichia coli 1180]
          Length = 230

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          +N+G R+R  R    M    L E +G+    + + E G  +      L +I+  L   I+
Sbjct: 1  MNIGNRVRQLRQAKNMKIADLAEAIGVDAANISRLETGKQKQFTEQALSNIARSLGVDIA 60

Query: 72 FFF 74
            F
Sbjct: 61 DLF 63


>gi|149178990|ref|ZP_01857565.1| DNA-binding protein [Planctomyces maris DSM 8797]
 gi|148842189|gb|EDL56577.1| DNA-binding protein [Planctomyces maris DSM 8797]
          Length = 205

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/99 (16%), Positives = 38/99 (38%), Gaps = 1/99 (1%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            G++  P+ +   + +R+R  R   G S + L    G++   + + E+G      +    
Sbjct: 14  TGSELSPDEISGQLSQRVRELRKERGWSLDSLSAACGVSRSMLSQIERGEANPTLAVTVR 73

Query: 62  ISEVLESPISFFFDVS-PTVCSDISSEENNVMDFISTPD 99
           IS+     +    +    T   ++   E+    + S  +
Sbjct: 74  ISQAFGIALGELVEAPVSTSAIEVIRAEDRTFHYRSDDE 112


>gi|116617966|ref|YP_818337.1| XRE family transcriptional regulator [Leuconostoc mesenteroides
          subsp. mesenteroides ATCC 8293]
 gi|116096813|gb|ABJ61964.1| Transcriptional regulator, xre family [Leuconostoc mesenteroides
          subsp. mesenteroides ATCC 8293]
          Length = 275

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 31/68 (45%), Gaps = 2/68 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFFFDVS 77
          I+ +R +  MSQ +LG+ +G +   V + E G     A  +  +   LE  +  +F+ + 
Sbjct: 9  IKEKRKLRNMSQAQLGDIVG-SQAMVSRIENGQILPNAQTIFILCNKLEITVEEYFYSIF 67

Query: 78 PTVCSDIS 85
              +  +
Sbjct: 68 GPDQNTTT 75


>gi|260461784|ref|ZP_05810030.1| transcriptional regulator, XRE family [Mesorhizobium
          opportunistum WSM2075]
 gi|319785325|ref|YP_004144801.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
          biserrulae WSM1271]
 gi|259032425|gb|EEW33690.1| transcriptional regulator, XRE family [Mesorhizobium
          opportunistum WSM2075]
 gi|317171213|gb|ADV14751.1| helix-turn-helix domain protein [Mesorhizobium ciceri biovar
          biserrulae WSM1271]
          Length = 72

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 24/57 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +G+ ++  R    ++QE+L +  G + Q +   EKG        +  ++  L   
Sbjct: 5  KLIGRNVQRIRQRKRLTQEQLADISGFSQQYISGLEKGRRNPTIITIYELALALGVS 61


>gi|229163492|ref|ZP_04291443.1| Transcriptional regulator, Xre [Bacillus cereus R309803]
 gi|228620061|gb|EEK76936.1| Transcriptional regulator, Xre [Bacillus cereus R309803]
          Length = 190

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|255093201|ref|ZP_05322679.1| putative regulatory protein [Clostridium difficile CIP 107932]
          Length = 103

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/87 (12%), Positives = 35/87 (40%), Gaps = 1/87 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +GKR++  R    ++ ++    +G++   + + E G              +L       
Sbjct: 3  YIGKRLKEERKKANLTSKEFANMVGVSPWYITQIESGKKNPSLKTFIKFVNILNISADVL 62

Query: 74 F-DVSPTVCSDISSEENNVMDFISTPD 99
            D++ T  + + ++ N  +  +++ +
Sbjct: 63 IKDITSTGKTYLENDINEELKDLNSRE 89


>gi|254410170|ref|ZP_05023950.1| hypothetical protein MC7420_7928 [Microcoleus chthonoplastes PCC
          7420]
 gi|196183206|gb|EDX78190.1| hypothetical protein MC7420_7928 [Microcoleus chthonoplastes PCC
          7420]
          Length = 75

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 27/67 (40%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +R RR  LG SQE+L E  G+    V   E+G   +    +  + E L+   S    
Sbjct: 8  GADVRARREELGFSQEQLAELAGMHRTYVGSIERGERNISLENIVKLCEALQIKPSSLMG 67

Query: 76 VSPTVCS 82
                +
Sbjct: 68 SLDEFVN 74


>gi|182625365|ref|ZP_02953138.1| putative helix-turn-helix domain protein [Clostridium perfringens
          D str. JGS1721]
 gi|177909362|gb|EDT71814.1| putative helix-turn-helix domain protein [Clostridium perfringens
          D str. JGS1721]
          Length = 224

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 30/64 (46%), Gaps = 1/64 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
          ++I   R   G+S+ +L   +G++   + K E G            I+  LE P++ F +
Sbjct: 5  EKITFYREKKGISKSQLAREIGVSPAYITKLENGEKTNPSLELKVKIANALEQPLTVFLE 64

Query: 76 VSPT 79
           +PT
Sbjct: 65 NNPT 68



 Score = 41.0 bits (95), Expect = 0.061,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 40/81 (49%), Gaps = 1/81 (1%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           NP + N+G +I+  +++  +   +L E  GI   Q++  + G        L+ IS+ L+ 
Sbjct: 66  NPTN-NIGSKIKSAKILNNLDDNQLSEITGIDKLQLRSIQDGQVNPTKMELEIISKALKL 124

Query: 69  PISFFFDVSPTVCSDISSEEN 89
           P ++F   S    ++  + E+
Sbjct: 125 PTNYFTKDSTININETGNIED 145


>gi|162148576|ref|YP_001603037.1| XRE family transcriptional regulator [Gluconacetobacter
          diazotrophicus PAl 5]
 gi|161787153|emb|CAP56745.1| putative transcriptional regulator, XRE family [Gluconacetobacter
          diazotrophicus PAl 5]
          Length = 77

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 26/68 (38%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +R  R   G+SQE L E +G+    +   E G        L H S+ L    +   D
Sbjct: 8  GANVRRLRRAAGLSQEVLAERMGVDRAYISWIETGRQNATLLSLWHASQALNVRPAALLD 67

Query: 76 VSPTVCSD 83
           +     D
Sbjct: 68 ENQVPADD 75


>gi|148380241|ref|YP_001254782.1| putative DNA-binding protein [Clostridium botulinum A str. ATCC
          3502]
 gi|148289725|emb|CAL83830.1| putative DNA-binding protein [Clostridium botulinum A str. ATCC
          3502]
          Length = 79

 Score = 52.1 bits (124), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 30/64 (46%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +++  R  LG++QE+LGE +G++ Q +   E             I++V    I   F F
Sbjct: 4  NKLKQFRENLGLTQEQLGELVGVSRQAINAIETEKFEPSIWLAYDIAKVFHDTIEEVFLF 63

Query: 75 DVSP 78
          + S 
Sbjct: 64 EESE 67


>gi|313585026|gb|ADR70745.1| hypothetical transcriptional repressor [Xanthomonas citri subsp.
          citri]
          Length = 108

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 33/62 (53%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R+  G+SQ++LG   G    +   +V +YE+G +       + +++ L  P +F
Sbjct: 13 RRLQQARLHTGLSQKELGIRAGLDPYVASPRVNQYERGKHEPKLETAERLAQALGIPAAF 72

Query: 73 FF 74
           +
Sbjct: 73 LY 74


>gi|254293850|ref|YP_003059873.1| XRE family transcriptional regulator [Hirschia baltica ATCC 49814]
 gi|254042381|gb|ACT59176.1| transcriptional regulator, XRE family [Hirschia baltica ATCC 49814]
          Length = 474

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/109 (15%), Positives = 39/109 (35%), Gaps = 11/109 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-- 70
           + +G +IR  R+   M+Q+   E L ++   + + E     V A  L  +++     +  
Sbjct: 11  LFIGHKIREARLKNQMTQKAFAEALNVSTSYLNQLENNQRHVTAGILLALAQTFGLDLKT 70

Query: 71  ------SFFFDVSPTVCSDISSEENNVMD---FISTPDGLQLNRYFIQI 110
                    F+       D  S  + + +    ++     Q    + Q+
Sbjct: 71  LGGRESDILFNELKEASKDELSHLSEITERELALAVKHAPQFAAAYSQL 119


>gi|160875086|ref|YP_001554402.1| XRE family transcriptional regulator [Shewanella baltica OS195]
 gi|160860608|gb|ABX49142.1| transcriptional regulator, XRE family [Shewanella baltica OS195]
          Length = 105

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 34/79 (43%), Gaps = 2/79 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES--PISFFF 74
           +++  R  +  +Q+ +G+ +G++   + +YE G+ ++  S+   +   L        F 
Sbjct: 11 NKLKHYRNAINATQKDVGDIVGVSQSSIDRYESGIRKLNTSKAWEMVNALNRLGSSCSFT 70

Query: 75 DVSPTVCSDISSEENNVMD 93
          DV P     +    N   D
Sbjct: 71 DVFPDPLECVPHAVNQSND 89


>gi|149203901|ref|ZP_01880869.1| transcriptional regulator, XRE family protein [Roseovarius sp.
           TM1035]
 gi|149142343|gb|EDM30388.1| transcriptional regulator, XRE family protein [Roseovarius sp.
           TM1035]
          Length = 133

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 39/83 (46%), Gaps = 2/83 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G R+   R   GMSQ  L + LG+  + ++ +E  ++   A++L  ++ +L   + +   
Sbjct: 18  GDRVTGARERSGMSQSDLAKRLGVKLKTLKAWENDLSEPRANKLSMMAGMLNVSLLWLLS 77

Query: 75  -DVSPTVCSDISSEENNVMDFIS 96
            +       ++     +VMD ++
Sbjct: 78  GEGEGPGAPEMGELSRDVMDMLT 100


>gi|91783413|ref|YP_558619.1| XRE family transcriptional regulator [Burkholderia xenovorans
           LB400]
 gi|91687367|gb|ABE30567.1| Predicted transcriptional regulator, XRE family [Burkholderia
           xenovorans LB400]
          Length = 152

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 40/84 (47%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            ++G  I  RR  LGM+QE+L E + I    + + E+G       RL  I+E LE  ++ 
Sbjct: 31  RSIGAAIAARRKALGMTQERLSELIQIEQSSLSRIERGTLIPSLERLASIAEELECGLAD 90

Query: 73  FFDVSPTVCSDISSEENNVMDFIS 96
            F V      D ++  +  +  ++
Sbjct: 91  LFYVGGVNSHDRAARVHEKLSHLT 114


>gi|332199304|gb|EGJ13382.1| transcriptional activator [Streptococcus pneumoniae GA41317]
          Length = 303

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLAYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|330964277|gb|EGH64537.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. actinidiae str. M302091]
          Length = 182

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  +  P   + +  + + ++D       ++L 
Sbjct: 58  MVEFFSEETVPENSAQVVYKASELIDISDGAMTMKLV 94


>gi|325917947|ref|ZP_08180117.1| Helix-turn-helix protein [Xanthomonas vesicatoria ATCC 35937]
 gi|325535849|gb|EGD07675.1| Helix-turn-helix protein [Xanthomonas vesicatoria ATCC 35937]
          Length = 113

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 4/74 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R+R  R    ++QE LG   G    +   ++ +YEKGVN       + +++ L  P++ 
Sbjct: 12 NRLRHARQKAELTQEALGVAAGLATEVARTRINRYEKGVNECDLRTAKRLADALGMPLAA 71

Query: 73 FFDVSPTVCSDISS 86
          FF  +  V   I +
Sbjct: 72 FFAETDEVADAIQA 85


>gi|325264311|ref|ZP_08131042.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
 gi|324030382|gb|EGB91666.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
          Length = 139

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++VG  I+  R   G++Q++L E  G     +++YE         +L  I+ +L  
Sbjct: 1  MSVGDNIKKARKNAGLTQKELAEKCGAAEITIRQYESSKREPRNEQLMKIARLLNV 56


>gi|258591600|emb|CBE67901.1| conserved protein of unknown function [NC10 bacterium 'Dutch
          sediment']
          Length = 352

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          R   G++Q +L   +G +  ++ K E G+  +    L+ +S  L+ P  FFF    
Sbjct: 14 RESRGLTQSELATKVGASQARISKIEAGLLPLSDEMLKTLSSALDYPEHFFFQDED 69


>gi|284920570|emb|CBG33632.1| regulatory protein cro (antirepressor) [Escherichia coli 042]
          Length = 71

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++ RR+ L M+Q +L    G+  Q +Q  E GV +     L  I+  L     + 
Sbjct: 4  LSERLKKRRIALKMTQTELATKAGVKQQSIQLIEAGVTK-RPRFLFEIAMALNCDPVWL 61


>gi|257888764|ref|ZP_05668417.1| transcriptional regulator [Enterococcus faecium 1,141,733]
 gi|257824818|gb|EEV51750.1| transcriptional regulator [Enterococcus faecium 1,141,733]
          Length = 72

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 9/57 (15%), Positives = 26/57 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RIR  R    ++Q+++ + L ++     +YE G   +    +  ++    + + + 
Sbjct: 3  QRIRDLREDNDLTQQQIAKLLNVSQSTYSRYENGELDIPMKTVIKLAHYYNTSVDYL 59


>gi|239943369|ref|ZP_04695306.1| putative transcriptional regulator [Streptomyces roseosporus NRRL
           15998]
 gi|239989822|ref|ZP_04710486.1| putative transcriptional regulator [Streptomyces roseosporus NRRL
           11379]
 gi|291446837|ref|ZP_06586227.1| conserved hypothetical protein [Streptomyces roseosporus NRRL
           15998]
 gi|291349784|gb|EFE76688.1| conserved hypothetical protein [Streptomyces roseosporus NRRL
           15998]
          Length = 213

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/110 (22%), Positives = 41/110 (37%), Gaps = 8/110 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   GM+  +L E  GI    + + E G  +     L  ++EV   P+    
Sbjct: 24  VGPRLRELRRRHGMTLAELAERTGINESTLSRLEGGTRKPTLELLLPLAEVHAVPLDELV 83

Query: 75  D----VSPTVCSDISSEENNVMDFISTPDGLQ----LNRYFIQIDDVKVR 116
                  P +     + +      +S P G+Q    L R      +  +R
Sbjct: 84  GAPRTGDPRIHLRPVTRDGLTYVPLSRPGGVQAHKLLIRPSPAGTEPTLR 133


>gi|226310396|ref|YP_002770290.1| DNA-binding protein [Brevibacillus brevis NBRC 100599]
 gi|226093344|dbj|BAH41786.1| putative DNA-binding protein [Brevibacillus brevis NBRC 100599]
          Length = 419

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 38/93 (40%), Gaps = 7/93 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
           + VG  +   R    +S  +L E + I+   + K E G   R G S+ + I+  L  P  
Sbjct: 3   MEVGDLLHAYRQRRNISLSELAERIDISKAALSKIESGETKRPGFSQWKKIASALNIP-- 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
                   + + + + E  V   +   + L+LN
Sbjct: 61  ----HVDVITAYLDTTERPVTLQLLLKEALELN 89


>gi|222101967|ref|YP_002546557.1| transcriptional regulator, HTH_3 family [Agrobacterium
          radiobacter K84]
 gi|221728084|gb|ACM31093.1| transcriptional regulator, HTH_3 family [Agrobacterium
          radiobacter K84]
          Length = 359

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+ + R   G++ ++L   +GI  + V  YE G         + +S +L+ P+SFF 
Sbjct: 5  SRLTVARQRAGLTMKELASKVGIEPRAVTGYEAGEYLPSEETARKLSRILQFPLSFFM 62


>gi|209808838|ref|YP_002274409.1| Cro/CI family transcriptional regulator [Enterococcus faecium]
 gi|257880761|ref|ZP_05660414.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|257892131|ref|ZP_05671784.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,410]
 gi|257895013|ref|ZP_05674666.1| transcriptional regulator [Enterococcus faecium 1,231,408]
 gi|260562585|ref|ZP_05833093.1| CRO/CI family transcriptional regulator [Enterococcus faecium
          C68]
 gi|209528675|dbj|BAG74976.1| Cro/CI family transcriptional regulator [Enterococcus faecium]
 gi|257814989|gb|EEV43747.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,230,933]
 gi|257828491|gb|EEV55117.1| helix-turn-helix domain-containing protein [Enterococcus faecium
          1,231,410]
 gi|257831392|gb|EEV57999.1| transcriptional regulator [Enterococcus faecium 1,231,408]
 gi|260073095|gb|EEW61442.1| CRO/CI family transcriptional regulator [Enterococcus faecium
          C68]
          Length = 260

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 3/67 (4%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEV 65
           PNP     GKRI+  R+  G + E+LG  +  +    +  +E+G N     +L+ +S +
Sbjct: 2  KPNP--SEAGKRIKQLRLSCGFTMEELGRKIDNSPRATISNWERGTNLPNPQKLKLLSTI 59

Query: 66 LESPISF 72
            S I +
Sbjct: 60 TNSTIDW 66



 Score = 47.5 bits (112), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 35/71 (49%), Gaps = 4/71 (5%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEV 65
            P+P    VG++IR  R  LG++ ++ G  +  +    V  +E G N    ++L+ I+++
Sbjct: 145 KPDP--KKVGRKIRSIRKKLGLTMQEFGYEVSNSPRSTVSTWEHGGNLPNKAKLKKIADI 202

Query: 66  LESPI-SFFFD 75
               +    FD
Sbjct: 203 ANCSVEDLLFD 213


>gi|170017857|ref|YP_001728776.1| Cro/CI family transcriptional regulator [Leuconostoc citreum
          KM20]
 gi|169804714|gb|ACA83332.1| Transcriptional regulator, Cro/CI family [Leuconostoc citreum
          KM20]
          Length = 84

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 25/62 (40%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR RR    +SQ+ L +   +T Q +   E        +    ++ +LE+ +   F  S 
Sbjct: 21 IRKRRKERHLSQDMLAQKANVTRQTINAIENAKYDPSLALAFKLATILETTVDQLFTKSE 80

Query: 79 TV 80
            
Sbjct: 81 DE 82


>gi|149019378|ref|ZP_01834740.1| hypothetical protein CGSSp23BS72_05475 [Streptococcus pneumoniae
          SP23-BS72]
 gi|147931248|gb|EDK82227.1| hypothetical protein CGSSp23BS72_05475 [Streptococcus pneumoniae
          SP23-BS72]
          Length = 69

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+   ++Q +L E +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 6  KLKLARVERDLTQGQLAEAVGVTRQTIGLIEAGKYNPSLSLCQSICRYLGKTLDQLF 62


>gi|124008127|ref|ZP_01692825.1| transcriptional regulator, Cro/CI family [Microscilla marina ATCC
           23134]
 gi|123986375|gb|EAY26188.1| transcriptional regulator, Cro/CI family [Microscilla marina ATCC
           23134]
          Length = 269

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/128 (19%), Positives = 49/128 (38%), Gaps = 7/128 (5%)

Query: 13  INVGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           + + K ++  R   G  +QE L   LGIT   +  YE G        +  I++     + 
Sbjct: 1   MFLSKNLKHLRERNGKQTQENLANALGITRSAISSYEDGRAEPKLVVMNRIAQYFNITLD 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV--RSIVSS 129
              +V      D+  ++   +   ++ + L++      I   +   + IELV  ++    
Sbjct: 61  QLLNVELATLGDVDLQQQKEVKKYASAENLRIL----TITTDRENNENIELVPEKAAAGY 116

Query: 130 EKKYRTIE 137
            K Y   E
Sbjct: 117 TKGYADAE 124


>gi|117623603|ref|YP_852516.1| putative regulator [Escherichia coli APEC O1]
 gi|115512727|gb|ABJ00802.1| putative regulator [Escherichia coli APEC O1]
          Length = 139

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 1/82 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFF 73
          +  R++ RR  LG+SQ KL E  G T  ++  YE G   VG      + + L   P    
Sbjct: 17 IAMRLKERRQKLGLSQGKLAEICGWTQSRIGNYEAGSRNVGVHDAVVLGKALGISPPELL 76

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
          F    +    ++  +  +++  
Sbjct: 77 FGEKDSSELWLNESQRKLLELF 98


>gi|66045512|ref|YP_235353.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. syringae B728a]
 gi|63256219|gb|AAY37315.1| Helix-turn-helix motif [Pseudomonas syringae pv. syringae B728a]
 gi|330943855|gb|EGH46095.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. pisi str. 1704B]
          Length = 201

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 11/101 (10%)

Query: 8   PNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  + +
Sbjct: 7   PHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRLCD 66

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           VL  P+S  F       S            +   +GL++ R
Sbjct: 67  VLGMPMSKLFSQYDQQGSSAL--------LVKADEGLEVVR 99


>gi|56478434|ref|YP_160023.1| anaerobic benzoate catabolism transcriptional regulator
          [Aromatoleum aromaticum EbN1]
 gi|56314477|emb|CAI09122.1| Putaive regulator of anaerobic benzoate metabolic operon
          consisting of shikimate kinase-like domain and a
          Helix-turn-helix domain [Aromatoleum aromaticum EbN1]
          Length = 285

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 36/80 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RIR  R   GM+++ L +  G++ + + + E G   +    L+ I+  +  P+    
Sbjct: 12 LGERIRELRARRGMTRKALAQQSGVSERYLAQLETGHGNISIILLRQIALGMGLPLVDLV 71

Query: 75 DVSPTVCSDISSEENNVMDF 94
             P    +++     +  F
Sbjct: 72 REEPEQPPELTLLMQYLSRF 91


>gi|330947178|gb|EGH47918.1| helix-hairpin-helix DNA-binding motif-containing protein
          [Pseudomonas syringae pv. pisi str. 1704B]
          Length = 75

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 3  GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           N + P PV  +V + +R  R    +SQ  L E  G++ + +   E G   V  + L  +
Sbjct: 8  ENSQRP-PVLQHVSQNVRRLRNSADLSQTALAEKSGVSRRMLVAIEAGEKNVSLATLDRV 66

Query: 63 SEVLES 68
          +E LE 
Sbjct: 67 AEALEV 72


>gi|312864376|ref|ZP_07724609.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
 gi|311100097|gb|EFQ58308.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
          Length = 135

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 36/79 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG++++  R++  ++QE++ + LG++ Q V  +E+G        L  +S +    +  
Sbjct: 2  MAVGQQLQSARLLSDLTQEEVADSLGVSRQTVSNWERGKTYPDIVSLIALSNLYHLSLDQ 61

Query: 73 FFDVSPTVCSDISSEENNV 91
                 +   +    + V
Sbjct: 62 LVKGDEAMVKHLEKTTDLV 80


>gi|296110909|ref|YP_003621290.1| transcriptional regulator, Cro/CI family [Leuconostoc kimchii IMSNU
           11154]
 gi|295832440|gb|ADG40321.1| transcriptional regulator, Cro/CI family [Leuconostoc kimchii IMSNU
           11154]
          Length = 192

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/113 (22%), Positives = 47/113 (41%), Gaps = 10/113 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYE----KGVNRVGASRLQHISEVLESPISF 72
            RI   R     SQ +L E LG+T Q +  YE    KG         + +++     I +
Sbjct: 2   NRISELRKETNTSQTELAELLGVTRQAISLYEKWPDKGGREPKLETWKKLADHFGVYIGY 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
              VS    +D +   ++  D +     L +     + +D +  +K++E ++S
Sbjct: 62  IQGVSDIRKNDYTGLASSDNDVL-----LNIIDELYK-NDNRADKKLVEYIKS 108


>gi|294086041|ref|YP_003552801.1| putative XRE family transcriptional regulator [Candidatus
           Puniceispirillum marinum IMCC1322]
 gi|292665616|gb|ADE40717.1| putative transcriptional regulator, XRE family [Candidatus
           Puniceispirillum marinum IMCC1322]
          Length = 486

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 31/160 (19%), Positives = 55/160 (34%), Gaps = 29/160 (18%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I VG ++R  R  +G+SQ  + E L I+   +   E     +  + L  +    +  +  
Sbjct: 5   ILVGHKLRRFRQSIGLSQTAMSEALDISPSYLNLLEHNQRPLTVTLLLKLGNSFDIDLKS 64

Query: 73  FFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV---------KVRQKI 119
           F +          S+I ++     + +S  +   L                   KVR ++
Sbjct: 65  FAEDDSQSLIADMSEIFTDPLFTGEAVSRRELQDLISAAPGAARSVIKLFHAYRKVRDEL 124

Query: 120 ----------------IELVRSIVSSEKKYRTIEEECMVE 143
                           IELVR ++ SE  Y    E+   E
Sbjct: 125 QSSDHVAGREARLSSPIELVRDVLQSENNYFASVEQAATE 164


>gi|291561595|emb|CBL40394.1| Predicted transcriptional regulators [butyrate-producing bacterium
           SS3/4]
          Length = 157

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/111 (15%), Positives = 45/111 (40%), Gaps = 6/111 (5%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +R  R   G SQ +L + + ++   V  +E   ++ G + L  ++ + E    +  ++  
Sbjct: 6   LRTLRAEKGFSQGQLAKAINVSPGNVSDWETDKSKPGYNALAALARIFEVSADYLLELDV 65

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNR------YFIQIDDVKVRQKIIELV 123
           +         +   +   + DG  LN          ++   + +++I +L+
Sbjct: 66  SPEKKGVDLSDYKNEQGLSCDGSPLNAMEADVVAMFRLLPERHQEEIFDLI 116


>gi|229826250|ref|ZP_04452319.1| hypothetical protein GCWU000182_01622 [Abiotrophia defectiva ATCC
          49176]
 gi|229789120|gb|EEP25234.1| hypothetical protein GCWU000182_01622 [Abiotrophia defectiva ATCC
          49176]
          Length = 220

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + K I   R  +G++Q++L + +G++ + + K+E G +    S  + +   L   ++
Sbjct: 6  ISKFIATTRTKIGLTQKELADKIGVSDKTISKWETGKSLPDISYYESLCNALNIKVN 62


>gi|152995548|ref|YP_001340383.1| XRE family transcriptional regulator [Marinomonas sp. MWYL1]
 gi|150836472|gb|ABR70448.1| transcriptional regulator, XRE family [Marinomonas sp. MWYL1]
          Length = 176

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 34/77 (44%), Gaps = 3/77 (3%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+  ++G+ I+  RM  G+S  +L    G+    + + E+G        +  ++  L  P
Sbjct: 4  PILGSLGRNIQKMRMAKGLSLSQLALDAGLAKSNLSRIEQGEGNPTLETIWRLAVQLNVP 63

Query: 70 ISFFFDVSPTVCSDISS 86
             F D+  TV S +  
Sbjct: 64 ---FGDLVATVESTLGE 77


>gi|78224438|ref|YP_386185.1| XRE family transcriptional regulator [Geobacter metallireducens
          GS-15]
 gi|78195693|gb|ABB33460.1| transcriptional regulator, XRE family [Geobacter metallireducens
          GS-15]
          Length = 187

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 27/67 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G +I+  R+   ++ + +    G +   + + E        + L  I++  +  IS F
Sbjct: 5  NIGAKIKKLRLAKKLTLQAVARETGFSPALISQIENNNVSPPIATLSKIAKFFDVKISLF 64

Query: 74 FDVSPTV 80
          F      
Sbjct: 65 FSEDEEE 71


>gi|73661492|ref|YP_300273.1| transcriptional regulator [Staphylococcus saprophyticus subsp.
           saprophyticus ATCC 15305]
 gi|72494007|dbj|BAE17328.1| putative transcriptional regulator [Staphylococcus saprophyticus
           subsp. saprophyticus ATCC 15305]
          Length = 181

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 37/90 (41%), Gaps = 11/90 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V K I   R    +S +K+    G++   + + EKG +    + L  I+  L   +S   
Sbjct: 8   VAKNIADYRKKHQLSLDKVANATGVSKNMLSQIEKGQSNPTITTLWKIANGLHISLS--- 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
                    ++S  N+ +DFI   D + L 
Sbjct: 65  --------QLTSTSNDTIDFIDESDIIPLI 86


>gi|325000344|ref|ZP_08121456.1| XRE family transcriptional regulator [Pseudonocardia sp. P1]
          Length = 196

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/101 (22%), Positives = 34/101 (33%), Gaps = 8/101 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+   R   GM+   L E  GI+   + + E G  R     L  ++   + P+    
Sbjct: 12  VGPRLAGLRSERGMTLADLSEATGISVSTLSRLESGGRRPTLELLLPLATAHQVPLDELV 71

Query: 75  DVSP-----TVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
              P               + V+     P GLQ    F  I
Sbjct: 72  AAPPVGDPRVRLRPRRVHGSTVVPLTERPGGLQ---AFKMI 109


>gi|317500517|ref|ZP_07958740.1| transcriptional regulator [Lachnospiraceae bacterium 8_1_57FAA]
 gi|331089383|ref|ZP_08338282.1| hypothetical protein HMPREF1025_01865 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|316898106|gb|EFV20154.1| transcriptional regulator [Lachnospiraceae bacterium 8_1_57FAA]
 gi|330404751|gb|EGG84289.1| hypothetical protein HMPREF1025_01865 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 118

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 26/56 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           R++  R   G+ Q  L E + ++ Q + + E G N + +  L H+S+       +
Sbjct: 4  NRVKELRTERGLRQGDLAEKMNVSQQTISRIENGENVLPSDILIHLSKYFHVSTDY 59


>gi|312130063|ref|YP_003997403.1| helix-turN-helix domain protein [Leadbetterella byssophila DSM
           17132]
 gi|311906609|gb|ADQ17050.1| helix-turn-helix domain protein [Leadbetterella byssophila DSM
           17132]
          Length = 255

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/91 (19%), Positives = 36/91 (39%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            V + I++ R  +G++QEKL   LGI  + V  YE+        +L  ++ +    +   
Sbjct: 3   YVNENIKVLRNRMGLTQEKLAALLGINRKAVGSYEENRATPPLDKLNRLASLFGVSMDQL 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
                +  S +  E+   +      +   L 
Sbjct: 63  IHHRFSTESPLFEEQAPEVPTEVVKEAPALI 93


>gi|312881391|ref|ZP_07741188.1| transcriptional regulator, Cro/CI family protein [Vibrio
          caribbenthicus ATCC BAA-2122]
 gi|309371031|gb|EFP98486.1| transcriptional regulator, Cro/CI family protein [Vibrio
          caribbenthicus ATCC BAA-2122]
          Length = 176

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 29/76 (38%), Gaps = 1/76 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +DI +G+ ++  R+  G+S  +L    GI    + + E+G        L  ++  L+ P
Sbjct: 5  SLDI-LGRNLQSIRVSKGLSLSQLAHDAGIAKSNLSRIEQGSGNPTLDTLWRLAIQLDVP 63

Query: 70 ISFFFDVSPTVCSDIS 85
                   T      
Sbjct: 64 FGCLVASMNTAIGHDG 79


>gi|307709978|ref|ZP_07646425.1| helix-turn-helix family protein [Streptococcus mitis SK564]
 gi|307619349|gb|EFN98478.1| helix-turn-helix family protein [Streptococcus mitis SK564]
          Length = 114

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 31/59 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VGKRI+  R+   ++Q+K+ E L +    + K EKG   + +  ++ +S +    + + 
Sbjct: 9  VGKRIKELRISSNLTQDKIAEYLSLNQSMIAKMEKGERNITSDVIEKLSALFCCTVEYL 67


>gi|326793247|ref|YP_004311068.1| hypothetical protein Clole_4198 [Clostridium lentocellum DSM
          5427]
 gi|326544011|gb|ADZ85870.1| helix-turn-helix domain protein [Clostridium lentocellum DSM
          5427]
          Length = 143

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 29/55 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + ++  R   G +QE++   L +  Q + K+EKG++   A  L  I+ + +  +S
Sbjct: 4  ENLKALRKTKGFTQEEIAIRLNVVRQTISKWEKGLSIPDADILIKIAALFDVSVS 58


>gi|289624831|ref|ZP_06457785.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aesculi str. NCPPB3681]
 gi|289647732|ref|ZP_06479075.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aesculi str. 2250]
          Length = 199

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/99 (23%), Positives = 47/99 (47%), Gaps = 8/99 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESP 69
           + ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P
Sbjct: 16  IALDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIP 72

Query: 70  ISF--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           +S   FF  +  P   + +  + + ++D       ++L 
Sbjct: 73  MSMVEFFSEESVPENAAQVVYKASELIDISDGAVTMKLV 111


>gi|261208780|ref|ZP_05923217.1| replication initiation factor [Enterococcus faecium TC 6]
 gi|289565535|ref|ZP_06445982.1| replication initiation factor [Enterococcus faecium D344SRF]
 gi|294614440|ref|ZP_06694356.1| replication initiation factor family [Enterococcus faecium E1636]
 gi|294617958|ref|ZP_06697563.1| putative phage replication protein [Enterococcus faecium E1679]
 gi|260077282|gb|EEW65002.1| replication initiation factor [Enterococcus faecium TC 6]
 gi|289162617|gb|EFD10470.1| replication initiation factor [Enterococcus faecium D344SRF]
 gi|291592748|gb|EFF24341.1| replication initiation factor family [Enterococcus faecium E1636]
 gi|291595767|gb|EFF27055.1| putative phage replication protein [Enterococcus faecium E1679]
          Length = 410

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 4/67 (5%)

Query: 9  NPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          N V+ + +G+ IR+ R   G +Q  L E +GI+   + K EKG  ++   +L  + + L+
Sbjct: 2  NQVNQHDLGEAIRVSREERGWTQRYLAEKVGISRSLLSKVEKGTRQLSEEKLNLVLDSLQ 61

Query: 68 ---SPIS 71
              P++
Sbjct: 62 EEVVPVN 68


>gi|254723300|ref|ZP_05185088.1| DNA-binding protein [Bacillus anthracis str. A1055]
          Length = 374

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LISYKPQMEQE 74


>gi|229199676|ref|ZP_04326321.1| hypothetical protein bcere0001_51590 [Bacillus cereus m1293]
 gi|228583822|gb|EEK41995.1| hypothetical protein bcere0001_51590 [Bacillus cereus m1293]
          Length = 61

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I   R    ++QE+L   +GIT   +   E G ++        ISEVL S +   F
Sbjct: 2  NQITKLRKQKAITQEELAVKVGITRAYLSNLENGKHKPSLDVALKISEVLGSSVEKIF 59


>gi|227879298|ref|ZP_03997165.1| transcriptional regulator [Lactobacillus crispatus JV-V01]
 gi|256844478|ref|ZP_05549964.1| predicted protein [Lactobacillus crispatus 125-2-CHN]
 gi|262047150|ref|ZP_06020108.1| predicted protein [Lactobacillus crispatus MV-3A-US]
 gi|227861093|gb|EEJ68745.1| transcriptional regulator [Lactobacillus crispatus JV-V01]
 gi|256613556|gb|EEU18759.1| predicted protein [Lactobacillus crispatus 125-2-CHN]
 gi|260572395|gb|EEX28957.1| predicted protein [Lactobacillus crispatus MV-3A-US]
          Length = 96

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 37/85 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +  +I+  R    ++Q +L E +G+T + +   EKG  +        + +  E+ I  
Sbjct: 2  MIINNKIKEYRKKHQLTQRELAEKVGVTERTIISLEKGRYKPSIVLAYKLVQFFETDIET 61

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
           F ++  V ++ +   N    F  +
Sbjct: 62 LFCLNEYVKNEQAKGRNAYNSFCDS 86


>gi|227508605|ref|ZP_03938654.1| conserved hypothetical protein [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
 gi|227191937|gb|EEI72004.1| conserved hypothetical protein [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
          Length = 184

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 35/73 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK ++++R     SQ +L E L I+ Q + K+E+ V     + +  IS++ +  +  
Sbjct: 1  MKIGKVLQVQREKRHWSQAELAEKLSISRQSISKWEQEVALPSFANVVAISDLFKISLDD 60

Query: 73 FFDVSPTVCSDIS 85
                 +   +S
Sbjct: 61 LIKGDDKLMDKLS 73


>gi|149203921|ref|ZP_01880889.1| DNA-binding protein, putative [Roseovarius sp. TM1035]
 gi|149142363|gb|EDM30408.1| DNA-binding protein, putative [Roseovarius sp. TM1035]
          Length = 207

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 31/73 (42%), Gaps = 2/73 (2%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           G    P P+D  +G R+R  R   G + E+  +  G+    + K E G        L+ 
Sbjct: 16 TGGAAAPEPLD--LGARVRSLRKARGWTLEQAAKQAGLARSTLSKIENGQMSPTYDALKK 73

Query: 62 ISEVLESPISFFF 74
          +++ LE  +   F
Sbjct: 74 LAQGLEISVPQLF 86


>gi|89212744|gb|ABD63852.1| putative repressor [Lactococcus phage phismq86]
 gi|326407702|gb|ADZ64773.1| phage repressor [Lactococcus lactis subsp. lactis CV56]
          Length = 136

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/99 (17%), Positives = 39/99 (39%), Gaps = 16/99 (16%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF----- 73
           ++  R   G++ ++L E +G T   + ++E G N      +  +++     ++       
Sbjct: 12  VKTLRQQAGLTMKQLAEKMGKTESAISRWESGDNSPKLEDINALADFFNVDMNTLVYGAG 71

Query: 74  -------FDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
                  FD+S    +D    ++ V D + +  G  L  
Sbjct: 72  VVPKNEPFDISKLANTD----DDAVWDKLVSSGGRPLTE 106


>gi|119967867|ref|YP_950697.1| putative cI-like repressor [Staphylococcus phage PH15]
 gi|112790031|gb|ABI21751.1| putative cI-like repressor [Staphylococcus phage PH15]
 gi|329736005|gb|EGG72280.1| putative HTH-type transcriptional regulator AnsR [Staphylococcus
          epidermidis VCU045]
          Length = 107

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/85 (12%), Positives = 31/85 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I+  R    ++       +G+    + +YE G  ++    +  I+  L        
Sbjct: 7  IGKLIKQLRKENNINLTDFATKIGVNKSTLSRYENGSRKIPMEDIAEIANALNVTPESLL 66

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
            +    ++I     ++   ++  +
Sbjct: 67 LKNKQPETEIQHRAAHLEAELTDDE 91


>gi|110799647|ref|YP_695478.1| DNA-binding protein [Clostridium perfringens ATCC 13124]
 gi|110803761|ref|YP_698224.1| transcriptional regulator [Clostridium perfringens SM101]
 gi|169346849|ref|ZP_02865797.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
 gi|110674294|gb|ABG83281.1| DNA-binding protein [Clostridium perfringens ATCC 13124]
 gi|110684262|gb|ABG87632.1| transcriptional regulator [Clostridium perfringens SM101]
 gi|169296908|gb|EDS79032.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
          Length = 69

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 28/67 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I+  R +  MSQ +L + +G+  Q +   E             I++ L + ++  F V
Sbjct: 2  NKIKEYRSLANMSQLELSKKVGVARQTINLIENQKYNPSLDLCIRIAKALGTDLNTLFWV 61

Query: 77 SPTVCSD 83
          +     D
Sbjct: 62 NEEERED 68


>gi|42780878|ref|NP_978125.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|42736799|gb|AAS40733.1| DNA-binding protein [Bacillus cereus ATCC 10987]
          Length = 403

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECEPSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDEGEVVEL 72


>gi|322375869|ref|ZP_08050380.1| putative toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. C300]
 gi|321279137|gb|EFX56179.1| putative toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. C300]
          Length = 111

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 37/71 (52%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +GKRIRL R+   ++Q++L E   +  +   K E     +    LQ I + L++ I  F
Sbjct: 9  YLGKRIRLLRLQKNLTQQQLEELADLPLKYTYKLENLEPNIKIKTLQKIMDALDTDIETF 68

Query: 74 FDVSPTVCSDI 84
          FD+S T  + +
Sbjct: 69 FDISVTESNPL 79


>gi|300853248|ref|YP_003778232.1| putative DNA-binding protein [Clostridium ljungdahlii DSM 13528]
 gi|300433363|gb|ADK13130.1| putative DNA binding protein [Clostridium ljungdahlii DSM 13528]
          Length = 67

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 35/66 (53%), Gaps = 2/66 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPI-SFF 73
          G +I+L+R+  G+ Q +L   +GI+   +Q  EKG       + ++ IS+ L+ P+   F
Sbjct: 2  GLKIKLKRIERGIKQYELANKVGISRYYMQLLEKGKAKNPSIAVMKAISKELDMPVQDLF 61

Query: 74 FDVSPT 79
          F+    
Sbjct: 62 FNDEEE 67


>gi|228934608|ref|ZP_04097442.1| hypothetical protein bthur0009_30630 [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
 gi|228825001|gb|EEM70799.1| hypothetical protein bthur0009_30630 [Bacillus thuringiensis
          serovar andalousiensis BGSC 4AW1]
          Length = 374

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 28/65 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I       P
Sbjct: 10 IADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDELISYKP 69

Query: 79 TVCSD 83
           +  +
Sbjct: 70 QMEQE 74


>gi|229092281|ref|ZP_04223456.1| hypothetical protein bcere0021_30650 [Bacillus cereus Rock3-42]
 gi|228691098|gb|EEL44864.1| hypothetical protein bcere0021_30650 [Bacillus cereus Rock3-42]
          Length = 374

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LISYKPQMEQE 74


>gi|300774465|ref|ZP_07084328.1| conserved hypothetical protein [Chryseobacterium gleum ATCC 35910]
 gi|300506280|gb|EFK37415.1| conserved hypothetical protein [Chryseobacterium gleum ATCC 35910]
          Length = 189

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/99 (18%), Positives = 38/99 (38%), Gaps = 4/99 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKR++  R    ++  +L     ++   V + E G        L  + + LE   S+FF
Sbjct: 8   IGKRLKDIRKKNNLTINELAFKANVSNGLVSRIENGRTIPSLPVLLDLIQSLEIDASYFF 67

Query: 75  DVSPTVCSD----ISSEENNVMDFISTPDGLQLNRYFIQ 109
           +      +     +  E   V++     +G +    F +
Sbjct: 68  EGVEKKSNAKFIYVPKESQQVIEKEVEAEGFRYMHIFSK 106


>gi|224583844|ref|YP_002637642.1| hypothetical protein SPC_2069 [Salmonella enterica subsp.
          enterica serovar Paratyphi C strain RKS4594]
 gi|224468371|gb|ACN46201.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Paratyphi C strain RKS4594]
          Length = 200

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 30/69 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  V +RI+  R    MS ++L    G++   + + E        + L  I+  +   +
Sbjct: 18 INEAVSQRIKQFRSQKKMSLDELARRSGVSKGMLVEIEGCKANPSIALLCKIAAAMGVSV 77

Query: 71 SFFFDVSPT 79
          + F +V+  
Sbjct: 78 ADFVNVASE 86


>gi|206601889|gb|EDZ38371.1| Putative transcriptional regulator, XRE family [Leptospirillum
          sp. Group II '5-way CG']
          Length = 121

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/93 (24%), Positives = 39/93 (41%), Gaps = 3/93 (3%)

Query: 1  MVGNKKIPNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M+  K I N  D + +G RIR  R    MSQ    E LGI  +++ ++E G        L
Sbjct: 1  MIYQKGIDNNWDPLGLGARIRHLRG--NMSQTAFAELLGIRQEEISRFESGSRVPSVELL 58

Query: 60 QHISEVLESPISFFFDVSPTVCSDISSEENNVM 92
            +S + +  + +      +       EE+  +
Sbjct: 59 VRLSGIHKVTLDWLVMGGTSGGEGSVREEDTPL 91


>gi|153933321|ref|YP_001384546.1| putative DNA-binding protein [Clostridium botulinum A str. ATCC
          19397]
 gi|153935529|ref|YP_001388062.1| putative DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|152929365|gb|ABS34865.1| putative DNA-binding protein [Clostridium botulinum A str. ATCC
          19397]
 gi|152931443|gb|ABS36942.1| putative DNA-binding protein [Clostridium botulinum A str. Hall]
          Length = 78

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 30/64 (46%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +++  R  LG++QE+LGE +G++ Q +   E             I++V    I   F F
Sbjct: 3  NKLKQFRENLGLTQEQLGELVGVSRQAINAIETEKFEPSIWLAYDIAKVFHDTIEEVFLF 62

Query: 75 DVSP 78
          + S 
Sbjct: 63 EESE 66


>gi|126698979|ref|YP_001087876.1| putative phage regulatory protein [Clostridium difficile 630]
 gi|254974925|ref|ZP_05271397.1| putative phage regulatory protein [Clostridium difficile QCD-66c26]
 gi|255092314|ref|ZP_05321792.1| putative phage regulatory protein [Clostridium difficile CIP
           107932]
 gi|255100395|ref|ZP_05329372.1| putative phage regulatory protein [Clostridium difficile QCD-63q42]
 gi|255306340|ref|ZP_05350511.1| putative phage regulatory protein [Clostridium difficile ATCC
           43255]
 gi|255314052|ref|ZP_05355635.1| putative phage regulatory protein [Clostridium difficile QCD-76w55]
 gi|255516732|ref|ZP_05384408.1| putative phage regulatory protein [Clostridium difficile QCD-97b34]
 gi|255649831|ref|ZP_05396733.1| putative phage regulatory protein [Clostridium difficile QCD-37x79]
 gi|260682989|ref|YP_003214274.1| putative phage regulatory protein [Clostridium difficile CD196]
 gi|260686587|ref|YP_003217720.1| putative phage regulatory protein [Clostridium difficile R20291]
 gi|306519931|ref|ZP_07406278.1| putative phage regulatory protein [Clostridium difficile QCD-32g58]
 gi|115250416|emb|CAJ68238.1| Transcriptional regulator, Phage-type [Clostridium difficile]
 gi|260209152|emb|CBA62363.1| putative phage regulatory protein [Clostridium difficile CD196]
 gi|260212603|emb|CBE03613.1| putative phage regulatory protein [Clostridium difficile R20291]
          Length = 139

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/101 (19%), Positives = 45/101 (44%), Gaps = 6/101 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI   R    + Q +L E LG     + K+E+ + +     L+ I+E+    + +  
Sbjct: 4   LGERIVYLRKAKNLKQYELEEMLGCDN--LSKFERNIRKPNYEILKSIAEIFNVSVDWLL 61

Query: 75  DVSPTVCSDI---SSEENNVMDFISTPDGLQLNRYFIQIDD 112
           +             S  N  ++ I++ + ++L   F +++D
Sbjct: 62  NGDNLSHKSDLICDSSSNYPLNSINSNE-IKLLNNFRKLND 101


>gi|56413411|ref|YP_150486.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Paratyphi A str. ATCC 9150]
 gi|197362334|ref|YP_002141971.1| hypothetical protein SSPA1132 [Salmonella enterica subsp.
          enterica serovar Paratyphi A str. AKU_12601]
 gi|56127668|gb|AAV77174.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Paratyphi A str. ATCC 9150]
 gi|197093811|emb|CAR59293.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Paratyphi A str. AKU_12601]
          Length = 200

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 30/69 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  V +RI+  R    MS ++L    G++   + + E        + L  I+  +   +
Sbjct: 18 INEAVSQRIKQFRSQKKMSLDELARRSGVSKGMLVEIEGCKANPSIALLCKIAAAMGVSV 77

Query: 71 SFFFDVSPT 79
          + F +V+  
Sbjct: 78 ADFVNVASE 86


>gi|16760810|ref|NP_456427.1| regulator [Salmonella enterica subsp. enterica serovar Typhi str.
           CT18]
 gi|25512966|pir||AG0738 probable regulator STY2066 [imported] - Salmonella enterica subsp.
           enterica serovar Typhi (strain CT18)
 gi|16503107|emb|CAD05610.1| putative regulator [Salmonella enterica subsp. enterica serovar
           Typhi]
 gi|323977012|gb|EGB72099.1| helix-turn-helix protein [Escherichia coli TW10509]
 gi|324012832|gb|EGB82051.1| helix-turn-helix protein [Escherichia coli MS 60-1]
          Length = 139

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/106 (23%), Positives = 39/106 (36%), Gaps = 13/106 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFF 73
           +  R++ RR  LG+SQ KL E  G T  ++  YE G   VG      + + L   P    
Sbjct: 17  IAMRLKERRQKLGLSQGKLAEICGWTQSRIGNYEAGSRNVGVHDAVVLGKALGISPPELL 76

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           F             E    +        +L   F Q+   + ++ I
Sbjct: 77  FG------------EQESSELWLNESQRKLLELFNQLPGSEQQRMI 110


>gi|331271170|ref|YP_004385879.1| hypothetical protein CbC4_6088 [Clostridium botulinum BKT015925]
 gi|329127665|gb|AEB77607.1| hypothetical protein CbC4_6088 [Clostridium botulinum BKT015925]
          Length = 121

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 30/67 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++I+  R    +SQ++ G+ LGI  + + ++E G +    + L  IS+V           
Sbjct: 5  QKIQKLRKAKKLSQKEFGKKLGIHDEIILQWESGTSYPSINELIKISDVFNITTDSLLKD 64

Query: 77 SPTVCSD 83
          +     D
Sbjct: 65 NINEYED 71


>gi|326942288|gb|AEA18184.1| transcriptional regulator [Bacillus thuringiensis serovar
          chinensis CT-43]
          Length = 190

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 1/72 (1%)

Query: 1  MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          M  N+ +    V   VG+ +R  R    +S E+L    G++   + K E+G      + +
Sbjct: 1  MKENEDMQTKEVIQQVGQLLRQIRNEQKLSLEELAHKTGVSKLTLGKIERGETNPTLAVI 60

Query: 60 QHISEVLESPIS 71
            I++ L  P+S
Sbjct: 61 WKITKGLSIPLS 72


>gi|313899139|ref|ZP_07832664.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956079|gb|EFR37722.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 65

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R  + ++QE+L E + +T Q +   EKG      +    I  VL   ++  F
Sbjct: 6  KLKAARAAMDLTQEQLAEKVSVTRQTINAIEKGDYNPSINLCITICRVLGKTLNDLF 62


>gi|296504980|ref|YP_003666680.1| transcriptional regulator [Bacillus thuringiensis BMB171]
 gi|296326032|gb|ADH08960.1| transcriptional regulator [Bacillus thuringiensis BMB171]
          Length = 190

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/117 (21%), Positives = 46/117 (39%), Gaps = 11/117 (9%)

Query: 1   MVGNKKI-PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M  N+ +    V   VG+ +R  R    +S E+L    G++   + K E+G      + +
Sbjct: 1   MKENEDMQTKEVIQQVGQLLRQIRNEQKLSLEELAHKTGVSKLTLGKIERGEANPTLAVI 60

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMD---------FISTPD-GLQLNRY 106
             I++ L  P+S        V      E   V +         F  T + G++++R 
Sbjct: 61  WKITKGLSIPLSRLMVAGEPVAVARCGEGFAVDEGQAWHLETMFRYTKETGMEMHRA 117


>gi|260886811|ref|ZP_05898074.1| toxin-antitoxin system, antitoxin component, Xre family
          [Selenomonas sputigena ATCC 35185]
 gi|330839382|ref|YP_004413962.1| helix-turn-helix domain protein [Selenomonas sputigena ATCC
          35185]
 gi|260863410|gb|EEX77910.1| toxin-antitoxin system, antitoxin component, Xre family
          [Selenomonas sputigena ATCC 35185]
 gi|329747146|gb|AEC00503.1| helix-turn-helix domain protein [Selenomonas sputigena ATCC
          35185]
          Length = 82

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 34/68 (50%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
            +G+RI   R + G+SQE+  + +GI+   + K E+G +  +    +  I+  LE+ ++
Sbjct: 15 RILGQRIAYYRKLQGLSQEEFSKDVGISKSYLSKIERGDIQGISFVTVMEIARSLEAKVT 74

Query: 72 FFFDVSPT 79
             D    
Sbjct: 75 KLLDFDEA 82


>gi|302562106|ref|ZP_07314448.1| xre family toxin-antitoxin system, antitoxin component
          [Streptomyces griseoflavus Tu4000]
 gi|302479724|gb|EFL42817.1| xre family toxin-antitoxin system, antitoxin component
          [Streptomyces griseoflavus Tu4000]
          Length = 194

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 31/65 (47%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           P+PVD+ +G R+   R+  G S  +L E  GI+   + + E+      AS L  +  V 
Sbjct: 9  APDPVDVRLGGRLAELRIEHGWSLGELAERSGISRSTLSRAERAETSPTASLLNRLCAVY 68

Query: 67 ESPIS 71
             +S
Sbjct: 69 GRTMS 73


>gi|238911950|ref|ZP_04655787.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Tennessee str. CDC07-0191]
          Length = 200

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 30/69 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  V +RI+  R    MS ++L    G++   + + E        + L  I+  +   +
Sbjct: 18 INEAVSQRIKQFRSQKKMSLDELARRSGVSKGMLVEIEGCKANPSIALLCKIAAAMGVSV 77

Query: 71 SFFFDVSPT 79
          + F +V+  
Sbjct: 78 ADFVNVASE 86


>gi|229829910|ref|ZP_04455979.1| hypothetical protein GCWU000342_02016 [Shuttleworthia satelles DSM
           14600]
 gi|229791208|gb|EEP27322.1| hypothetical protein GCWU000342_02016 [Shuttleworthia satelles DSM
           14600]
          Length = 367

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/101 (17%), Positives = 38/101 (37%), Gaps = 5/101 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + + I  RR    ++QE+L + + +T   V K+E G +      L  ++      +    
Sbjct: 4   IAENIYQRRKEKNITQEELADFMMVTKASVSKWETGQSYPDILLLPKLATFFNVTVDELI 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
              P +  +   +         T +G+        I D+K+
Sbjct: 64  GYEPQLSLEQIKKIYEDFSKDITKNGIDEV-----IRDIKL 99


>gi|228911728|ref|ZP_04075501.1| hypothetical protein bthur0013_58480 [Bacillus thuringiensis IBL
          200]
 gi|228847886|gb|EEM92767.1| hypothetical protein bthur0013_58480 [Bacillus thuringiensis IBL
          200]
          Length = 374

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 29/65 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I      +P
Sbjct: 10 IADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDELISYTP 69

Query: 79 TVCSD 83
           +  +
Sbjct: 70 QMKQE 74


>gi|229083181|ref|ZP_04215564.1| Helix-turn-helix domain protein [Bacillus cereus Rock4-2]
 gi|228700099|gb|EEL52702.1| Helix-turn-helix domain protein [Bacillus cereus Rock4-2]
          Length = 214

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 32/68 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G ++        M+ E+L E L ++   V ++  G      S++  I+++L    ++F D
Sbjct: 5  GLKLSQLMKKNNMTDEQLAELLSVSRTTVLRWRNGERSPKMSKISQIAKILNVSATYFID 64

Query: 76 VSPTVCSD 83
           + + C +
Sbjct: 65 ENESYCPE 72


>gi|229162203|ref|ZP_04290172.1| hypothetical protein bcere0009_29800 [Bacillus cereus R309803]
 gi|228621253|gb|EEK78110.1| hypothetical protein bcere0009_29800 [Bacillus cereus R309803]
          Length = 374

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 30/65 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  +R   G++QE+LG  +GIT   V K+E G +    + L  ++      I      +P
Sbjct: 10 IADKRKEKGITQEELGAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDELISYTP 69

Query: 79 TVCSD 83
           +  +
Sbjct: 70 QMEQE 74


>gi|217966210|ref|YP_002351888.1| gp33 [Listeria monocytogenes HCC23]
 gi|217335480|gb|ACK41274.1| gp33 [Listeria monocytogenes HCC23]
 gi|307572181|emb|CAR85360.1| HTH-type transcriptional regulator, putative [Listeria
          monocytogenes L99]
          Length = 158

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/88 (15%), Positives = 32/88 (36%), Gaps = 7/88 (7%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
          G R++  R     +QE + + LGI+       E G N      +  ++ +      +   
Sbjct: 3  GNRLKQLRKNNNKTQEDISKILGISRGAYSHIENGRNEPDMETIVKLANIFGVSTDYLLG 62

Query: 74 -----FDVSPTVCSDISSEENNVMDFIS 96
               F  +     D ++ E  + + ++
Sbjct: 63 RSNNGFIDTIAAHIDSNATEEEMEEILA 90


>gi|213616057|ref|ZP_03371883.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Typhi str. E98-2068]
          Length = 156

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 30/69 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  V +RI+  R    MS ++L    G++   + + E        + L  I+  +   +
Sbjct: 18 INEAVSQRIKQFRSQKKMSLDELARRSGVSKGMLVEIEGCKANPSIALLCKIAAAMGVSV 77

Query: 71 SFFFDVSPT 79
          + F +V+  
Sbjct: 78 ADFVNVASE 86


>gi|207856821|ref|YP_002243472.1| hypothetical protein SEN1367 [Salmonella enterica subsp. enterica
          serovar Enteritidis str. P125109]
 gi|206708624|emb|CAR32946.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Enteritidis str. P125109]
          Length = 200

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 30/69 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  V +RI+  R    MS ++L    G++   + + E        + L  I+  +   +
Sbjct: 18 INEAVSQRIKQFRSQKKMSLDELARRSGVSKGMLVEIEGCKANPSIALLCKIAAAMGVSV 77

Query: 71 SFFFDVSPT 79
          + F +V+  
Sbjct: 78 ADFVNVASE 86


>gi|167549848|ref|ZP_02343606.1| transcriptional regulator, Cro/CI family [Salmonella enterica
          subsp. enterica serovar Saintpaul str. SARA29]
 gi|168235794|ref|ZP_02660852.1| transcriptional regulator, Cro/CI family protein [Salmonella
          enterica subsp. enterica serovar Schwarzengrund str.
          SL480]
 gi|168819468|ref|ZP_02831468.1| transcriptional regulator, Cro/CI family [Salmonella enterica
          subsp. enterica serovar Weltevreden str. HI_N05-537]
 gi|194734886|ref|YP_002114693.1| transcriptional regulator, Cro/CI family protein [Salmonella
          enterica subsp. enterica serovar Schwarzengrund str.
          CVM19633]
 gi|198246100|ref|YP_002215480.1| Cro/CI family transcriptional regulator [Salmonella enterica
          subsp. enterica serovar Dublin str. CT_02021853]
 gi|205352653|ref|YP_002226454.1| hypothetical protein SG1453 [Salmonella enterica subsp. enterica
          serovar Gallinarum str. 287/91]
 gi|194710388|gb|ACF89609.1| transcriptional regulator, Cro/CI family [Salmonella enterica
          subsp. enterica serovar Schwarzengrund str. CVM19633]
 gi|197291185|gb|EDY30538.1| transcriptional regulator, Cro/CI family protein [Salmonella
          enterica subsp. enterica serovar Schwarzengrund str.
          SL480]
 gi|197940616|gb|ACH77949.1| transcriptional regulator, Cro/CI family [Salmonella enterica
          subsp. enterica serovar Dublin str. CT_02021853]
 gi|205272434|emb|CAR37321.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Gallinarum str. 287/91]
 gi|205324984|gb|EDZ12823.1| transcriptional regulator, Cro/CI family [Salmonella enterica
          subsp. enterica serovar Saintpaul str. SARA29]
 gi|205343756|gb|EDZ30520.1| transcriptional regulator, Cro/CI family [Salmonella enterica
          subsp. enterica serovar Weltevreden str. HI_N05-537]
 gi|320085841|emb|CBY95617.1| Uncharacterized HTH-type transcriptional regulator ydcN
          [Salmonella enterica subsp. enterica serovar
          Weltevreden str. 2007-60-3289-1]
 gi|322614917|gb|EFY11842.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 315996572]
 gi|322619357|gb|EFY16237.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 495297-1]
 gi|322623169|gb|EFY20011.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 495297-3]
 gi|322628458|gb|EFY25246.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 495297-4]
 gi|322634866|gb|EFY31597.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 515920-1]
 gi|322638569|gb|EFY35264.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 515920-2]
 gi|322640896|gb|EFY37544.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 531954]
 gi|322645375|gb|EFY41903.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str.
          NC_MB110209-0054]
 gi|322651740|gb|EFY48112.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. OH_2009072675]
 gi|322654360|gb|EFY50682.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str.
          CASC_09SCPH15965]
 gi|322661201|gb|EFY57427.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 19N]
 gi|322662671|gb|EFY58878.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 81038-01]
 gi|322671870|gb|EFY67991.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 414877]
 gi|322677085|gb|EFY73149.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 366867]
 gi|322680253|gb|EFY76292.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 413180]
 gi|322685318|gb|EFY81314.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 446600]
 gi|323194137|gb|EFZ79335.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 609458-1]
 gi|323199377|gb|EFZ84471.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 556150-1]
 gi|323203486|gb|EFZ88510.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 609460]
 gi|323205869|gb|EFZ90832.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 507440-20]
 gi|323217196|gb|EGA01917.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. MB101509-0077]
 gi|323219108|gb|EGA03611.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. MB102109-0047]
 gi|323227274|gb|EGA11444.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. MB110209-0055]
 gi|323232058|gb|EGA16165.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. MB111609-0052]
 gi|323234585|gb|EGA18672.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 2009083312]
 gi|323238038|gb|EGA22097.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 2009085258]
 gi|323243361|gb|EGA27380.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Montevideo str. 315731156]
 gi|323246168|gb|EGA30153.1| hypothetical protein SEEM9199_07956 [Salmonella enterica subsp.
          enterica serovar Montevideo str. IA_2009159199]
 gi|323259102|gb|EGA42748.1| hypothetical protein SEEM8283_04720 [Salmonella enterica subsp.
          enterica serovar Montevideo str. IA_2010008283]
 gi|323260430|gb|EGA44043.1| hypothetical protein SEEM8284_18305 [Salmonella enterica subsp.
          enterica serovar Montevideo str. IA_2010008284]
 gi|323266482|gb|EGA49969.1| hypothetical protein SEEM8285_00870 [Salmonella enterica subsp.
          enterica serovar Montevideo str. IA_2010008285]
 gi|323271206|gb|EGA54633.1| hypothetical protein SEEM8287_05157 [Salmonella enterica subsp.
          enterica serovar Montevideo str. IA_2010008287]
 gi|326627719|gb|EGE34062.1| transcriptional regulator, Cro/CI family [Salmonella enterica
          subsp. enterica serovar Gallinarum str. 9]
          Length = 200

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 30/69 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  V +RI+  R    MS ++L    G++   + + E        + L  I+  +   +
Sbjct: 18 INEAVSQRIKQFRSQKKMSLDELARRSGVSKGMLVEIEGCKANPSIALLCKIAAAMGVSV 77

Query: 71 SFFFDVSPT 79
          + F +V+  
Sbjct: 78 ADFVNVASE 86


>gi|218904463|ref|YP_002452297.1| DNA-binding protein [Bacillus cereus AH820]
 gi|229122857|ref|ZP_04252066.1| hypothetical protein bcere0016_31490 [Bacillus cereus 95/8201]
 gi|218535175|gb|ACK87573.1| DNA-binding protein [Bacillus cereus AH820]
 gi|228660721|gb|EEL16352.1| hypothetical protein bcere0016_31490 [Bacillus cereus 95/8201]
          Length = 374

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 28/65 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I       P
Sbjct: 10 IADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDELISYKP 69

Query: 79 TVCSD 83
           +  +
Sbjct: 70 QMEQE 74


>gi|150402446|ref|YP_001329740.1| cupin 2 domain-containing protein [Methanococcus maripaludis C7]
 gi|150033476|gb|ABR65589.1| Cupin 2 conserved barrel domain protein [Methanococcus
          maripaludis C7]
          Length = 184

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 30/67 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R+R  R +  +S E++ + L ++ +  Q YE+G   + AS L  I+   E  +  
Sbjct: 6  KEIASRVRELRELSEISIEEMADHLNVSPEIYQHYEEGTCDIPASVLYEIAHKFEVDMGL 65

Query: 73 FFDVSPT 79
                T
Sbjct: 66 LLTGEET 72


>gi|119488949|ref|ZP_01621884.1| hypothetical protein L8106_19346 [Lyngbya sp. PCC 8106]
 gi|119454905|gb|EAW36048.1| hypothetical protein L8106_19346 [Lyngbya sp. PCC 8106]
          Length = 79

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/48 (39%), Positives = 28/48 (58%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +R  R  LG+SQEKL   LG++FQ V ++E+G  +     L  I + L
Sbjct: 14 VRTLRERLGLSQEKLAASLGVSFQTVNRWERGRAKPSQLALNAIEQKL 61


>gi|42782397|ref|NP_979644.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|42738322|gb|AAS42252.1| DNA-binding protein [Bacillus cereus ATCC 10987]
          Length = 374

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I 
Sbjct: 4  INIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISID 62


>gi|16077148|ref|NP_387961.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
          168]
 gi|221307890|ref|ZP_03589737.1| hypothetical protein Bsubs1_00405 [Bacillus subtilis subsp.
          subtilis str. 168]
 gi|221312212|ref|ZP_03594017.1| hypothetical protein BsubsN3_00405 [Bacillus subtilis subsp.
          subtilis str. NCIB 3610]
 gi|221317145|ref|ZP_03598439.1| hypothetical protein BsubsJ_00405 [Bacillus subtilis subsp.
          subtilis str. JH642]
 gi|221321408|ref|ZP_03602702.1| hypothetical protein BsubsS_00405 [Bacillus subtilis subsp.
          subtilis str. SMY]
 gi|321313750|ref|YP_004206037.1| putative transcriptional regulator [Bacillus subtilis BSn5]
 gi|90101610|sp|O31417|YAZB_BACSU RecName: Full=Uncharacterized HTH-type transcriptional regulator
          yazB
 gi|2632347|emb|CAB11856.1| putative transcriptional regulator [Bacillus subtilis subsp.
          subtilis str. 168]
 gi|291482452|dbj|BAI83527.1| hypothetical protein BSNT_00137 [Bacillus subtilis subsp. natto
          BEST195]
 gi|320020024|gb|ADV95010.1| putative transcriptional regulator [Bacillus subtilis BSn5]
          Length = 69

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 29/56 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+RIR  R + G +QE   + LGI+   + + E+G     A+ +Q  ++VL     
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKALGISVSILGEIERGNRLPSAAIIQDAADVLNISAD 62


>gi|15965148|ref|NP_385501.1| putative transcription regulator protein [Sinorhizobium meliloti
          1021]
 gi|307309160|ref|ZP_07588831.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          BL225C]
 gi|307322243|ref|ZP_07601610.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
 gi|15074328|emb|CAC45974.1| Transcription regulator [Sinorhizobium meliloti 1021]
 gi|306892094|gb|EFN22913.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
 gi|306900306|gb|EFN30922.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          BL225C]
          Length = 132

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 32/75 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI   R   G+S ++L   LG+    +  +E+      A+RL  ++ VL    ++  
Sbjct: 21 LGGRIWRARDATGLSTKELASKLGVRNDTISSWERDRAEPRANRLFMLAGVLGVTPAWLM 80

Query: 75 DVSPTVCSDISSEEN 89
                  D + + +
Sbjct: 81 AGIGRAPDDSTGDAS 95


>gi|16760223|ref|NP_455840.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Typhi str. CT18]
 gi|29142008|ref|NP_805350.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Typhi str. Ty2]
 gi|213161903|ref|ZP_03347613.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Typhi str. E00-7866]
 gi|213426582|ref|ZP_03359332.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Typhi str. E02-1180]
 gi|213586064|ref|ZP_03367890.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Typhi str. E98-0664]
 gi|213645936|ref|ZP_03375989.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Typhi str. J185]
 gi|213864716|ref|ZP_03386835.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Typhi str. M223]
 gi|25513334|pir||AI0661 conserved hypothetical DNA-binding protein STY1400 [imported] -
          Salmonella enterica subsp. enterica serovar Typhi
          (strain CT18)
 gi|16502518|emb|CAD01666.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Typhi]
 gi|29137637|gb|AAO69199.1| conserved hypothetical DNA-binding protein [Salmonella enterica
          subsp. enterica serovar Typhi str. Ty2]
          Length = 200

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 30/69 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  V +RI+  R    MS ++L    G++   + + E        + L  I+  +   +
Sbjct: 18 INEAVSQRIKQFRSQKKMSLDELARRSGVSKGMLVEIEGCKANPSIALLCKIAAAMGVSV 77

Query: 71 SFFFDVSPT 79
          + F +V+  
Sbjct: 78 ADFVNVASE 86


>gi|186685942|ref|YP_001869138.1| XRE family transcriptional regulator [Nostoc punctiforme PCC
          73102]
 gi|186468394|gb|ACC84195.1| transcriptional regulator, XRE family [Nostoc punctiforme PCC
          73102]
          Length = 377

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 27/63 (42%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D ++   ++  R  LGMSQ+ L     +T Q +   E G+     +    +++ L   + 
Sbjct: 4  DSDLRNNLKSIRTRLGMSQQDLANIASVTRQTISGVESGLYAPSVAITLRLAKALGCQVE 63

Query: 72 FFF 74
            F
Sbjct: 64 DLF 66


>gi|30263282|ref|NP_845659.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47528657|ref|YP_020006.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49186132|ref|YP_029384.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|65320613|ref|ZP_00393572.1| COG1396: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|165869231|ref|ZP_02213891.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167631940|ref|ZP_02390267.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|167637201|ref|ZP_02395481.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170685020|ref|ZP_02876245.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|170705153|ref|ZP_02895618.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|177650111|ref|ZP_02933112.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190564884|ref|ZP_03017805.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|227813847|ref|YP_002813856.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229602441|ref|YP_002867542.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|254685897|ref|ZP_05149756.1| DNA-binding protein [Bacillus anthracis str. CNEVA-9066]
 gi|254738367|ref|ZP_05196070.1| DNA-binding protein [Bacillus anthracis str. Western North
          America USA6153]
 gi|254742466|ref|ZP_05200151.1| DNA-binding protein [Bacillus anthracis str. Kruger B]
 gi|254752683|ref|ZP_05204719.1| DNA-binding protein [Bacillus anthracis str. Vollum]
 gi|254761198|ref|ZP_05213222.1| DNA-binding protein [Bacillus anthracis str. Australia 94]
 gi|30257916|gb|AAP27145.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47503805|gb|AAT32481.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49180059|gb|AAT55435.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|164715957|gb|EDR21474.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167514708|gb|EDR90074.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|167532238|gb|EDR94874.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|170130008|gb|EDS98870.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|170671280|gb|EDT22018.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|172084063|gb|EDT69122.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190564201|gb|EDV18165.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|227004554|gb|ACP14297.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229266849|gb|ACQ48486.1| DNA-binding protein [Bacillus anthracis str. A0248]
          Length = 374

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LISYKPQMEQE 74


>gi|328545630|ref|YP_004305739.1| transcriptional regulator [polymorphum gilvum SL003B-26A1]
 gi|326415700|gb|ADZ72763.1| Transcriptional regulator [Polymorphum gilvum SL003B-26A1]
          Length = 174

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/115 (20%), Positives = 42/115 (36%), Gaps = 17/115 (14%)

Query: 17  KRIRLRRMILGMSQE-KLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           +R+R  R   G  Q  +L   LGI+   V  YE+G     AS L   ++V    +++   
Sbjct: 14  QRLRELRRQHGDPQRGELAGKLGISVTAVATYERGEREPAASVLAAYADVFGVNLNWLLT 73

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
               + +D +                   R    I D  + +++  LV  +   E
Sbjct: 74  GEGEMFADPAKAP---------------ARAMPSI-DPALFRQVGRLVTRVHKEE 112


>gi|304411730|ref|ZP_07393342.1| helix-turn-helix domain protein [Shewanella baltica OS183]
 gi|307306218|ref|ZP_07585963.1| helix-turn-helix domain protein [Shewanella baltica BA175]
 gi|304349918|gb|EFM14324.1| helix-turn-helix domain protein [Shewanella baltica OS183]
 gi|306911091|gb|EFN41518.1| helix-turn-helix domain protein [Shewanella baltica BA175]
          Length = 191

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/91 (15%), Positives = 37/91 (40%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +   ++  R   G S +K  +  G++   + + E+G +    + L  I+      +
Sbjct: 4   INSYLATTLKALRNQKGWSLDKAAQETGVSKAMIGQIERGESSPTIATLWKIASGFNISL 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
           S F + +P     +  + + +    +T   L
Sbjct: 64  STFLEPTPQSQGAVFRKPDELRQQPATDGML 94


>gi|296451497|ref|ZP_06893233.1| MerR family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296880153|ref|ZP_06904120.1| MerR family transcriptional regulator [Clostridium difficile
          NAP07]
 gi|296259672|gb|EFH06531.1| MerR family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296428878|gb|EFH14758.1| MerR family transcriptional regulator [Clostridium difficile
          NAP07]
          Length = 196

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 34/64 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ ++G +I+  R    M+ + + E   ++   + + E+G+  V    L  I+ VL+  +
Sbjct: 3  LNKDIGAKIKQLRTQKQMTLKDMSEKTNLSIGFLSQLERGLTSVATDSLGKIASVLDVEL 62

Query: 71 SFFF 74
          ++FF
Sbjct: 63 TYFF 66


>gi|268610925|ref|ZP_06144652.1| XRE family transcriptional regulator [Ruminococcus flavefaciens
          FD-1]
          Length = 68

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 26/58 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          R++  R    M+Q++L   L ++   + +YE G        L  I++  +  I +  +
Sbjct: 2  RLKELRKKKHMTQQRLAIELNMSQNTISRYETGEREADYKTLILIADYFQVSIDYLLE 59


>gi|326201176|ref|ZP_08191048.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
          2782]
 gi|325988744|gb|EGD49568.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
          2782]
          Length = 183

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/60 (18%), Positives = 27/60 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+ + R    ++   +G+ +G++     KYEK       + L   +E+    + +  
Sbjct: 2  IGERLAMLRNEKKLTMRAIGKLVGVSDAAWVKYEKNRAEPSIATLCKAAELFNVSLDYLM 61


>gi|229136572|ref|ZP_04265260.1| Transcriptional regulator [Bacillus cereus BDRD-ST196]
 gi|228646884|gb|EEL03031.1| Transcriptional regulator [Bacillus cereus BDRD-ST196]
          Length = 65

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R+  G++Q++L + + +T Q +   E            HI++ L+  +   F
Sbjct: 4  SKIKIARVEKGLTQQELADIVNVTRQTISLIESNKYNPSLKLCIHIAKTLDESLDKLF 61


>gi|222152359|ref|YP_002561534.1| DNA-binding protein [Streptococcus uberis 0140J]
 gi|222113170|emb|CAR40616.1| DNA-binding protein [Streptococcus uberis 0140J]
          Length = 112

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 35/74 (47%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + KRIRL R+  G++QE+L E   +    V K E     +  + L+ +   L+     F
Sbjct: 9  YISKRIRLLRLEKGLTQEQLEEKADLGTNYVYKLENQSTNIKVNTLEKVMTALDVDFEEF 68

Query: 74 FDVSPTVCSDISSE 87
          FD+S    +   S+
Sbjct: 69 FDISLVEQNSDLSD 82


>gi|221195127|ref|ZP_03568183.1| putative prophage L54a, repressor protein [Atopobium rimae ATCC
          49626]
 gi|221185030|gb|EEE17421.1| putative prophage L54a, repressor protein [Atopobium rimae ATCC
          49626]
          Length = 217

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 30/61 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++   I+  R    ++QE+L E + +    V ++E G ++     +Q I+ VL   +S 
Sbjct: 1  MSLASNIKYYRQRENLTQEELAEKVDVARSTVTQWETGWSQPRMGAIQRIASVLNVSVSD 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|206889754|ref|YP_002249639.1| helix-turn-helix domain protein [Thermodesulfovibrio yellowstonii
           DSM 11347]
 gi|206741692|gb|ACI20749.1| helix-turn-helix domain protein [Thermodesulfovibrio yellowstonii
           DSM 11347]
          Length = 419

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/54 (20%), Positives = 23/54 (42%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +G ++R  R+   +SQ++L E + +T   + + E             I + L  
Sbjct: 247 IGNKLREIRISRNISQKELAEKVNLTPGFISQMENNQIAPSIVSFMQICDALGV 300


>gi|168211093|ref|ZP_02636718.1| DNA-binding protein [Clostridium perfringens B str. ATCC 3626]
 gi|168216129|ref|ZP_02641754.1| DNA-binding protein [Clostridium perfringens NCTC 8239]
 gi|170710849|gb|EDT23031.1| DNA-binding protein [Clostridium perfringens B str. ATCC 3626]
 gi|182381582|gb|EDT79061.1| DNA-binding protein [Clostridium perfringens NCTC 8239]
          Length = 65

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+  R +  MSQ +L + +G+  Q +   E             I++ L + ++  F
Sbjct: 2  NKIKEYRSLANMSQLELSKKVGVARQTINLIENQKYNPSLDLCIRIAKALGTDLNTLF 59


>gi|134288575|ref|YP_001110814.1| hypothetical protein SPSV3_gp14 [Salmonella phage SETP3]
 gi|125631940|gb|ABN47343.1| hypothetical protein [Salmonella phage SETP3]
 gi|126015308|gb|ABN70685.1| hypothetical protein [Salmonella phage SETP5]
 gi|126015310|gb|ABN70686.1| hypothetical protein [Salmonella phage SETP12]
          Length = 72

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 1/60 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G RI  RR  +GM Q +L    G++   +     G V +V   ++ HI++ L     + 
Sbjct: 6  LGARIERRRKEIGMGQTELAFKAGVSQSLITHLATGRVCKVDCFKIFHIADALGVDPRWL 65


>gi|126700569|ref|YP_001089466.1| putative phage repressor [Clostridium difficile 630]
 gi|209901281|ref|YP_002290920.1| putative phage repressor [Clostridium phage phiCD27]
 gi|115252006|emb|CAJ69842.1| Transcriptional regulator, HTH-type [Clostridium difficile]
 gi|199612162|gb|ACH91335.1| putative phage repressor [Clostridium phage phiCD27]
          Length = 151

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 33/61 (54%), Gaps = 1/61 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          + +  RI+ +R+ L MS + L    G++   +Q+YE G  + +   +L+ ++  L+   +
Sbjct: 10 LEITNRIKNKRLELNMSYQDLANKTGLSKSTLQRYETGAIKNIPLDKLEILAHALDESPA 69

Query: 72 F 72
          F
Sbjct: 70 F 70


>gi|126699098|ref|YP_001087995.1| putative transcriptional regulator [Clostridium difficile 630]
          Length = 197

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 34/64 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ ++G +I+  R    M+ + + E   ++   + + E+G+  V    L  I+ VL+  +
Sbjct: 4  LNKDIGAKIKQLRTQKQMTLKDMSEKTNLSIGFLSQLERGLTSVATDSLGKIASVLDVEL 63

Query: 71 SFFF 74
          ++FF
Sbjct: 64 TYFF 67


>gi|114765017|ref|ZP_01444164.1| DNA binding protein, putative [Pelagibaca bermudensis HTCC2601]
 gi|114542564|gb|EAU45589.1| DNA binding protein, putative [Roseovarius sp. HTCC2601]
          Length = 189

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/77 (14%), Positives = 34/77 (44%), Gaps = 3/77 (3%)

Query: 9  NPVDINVGK---RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +  +  +G+   R++  R   G+S + + +  G++   V + E+G +    + L +++  
Sbjct: 4  HDAEAVLGRIPGRLKEARQARGLSLDAVAKLSGVSRSMVSQIERGESNPTVATLWNLTRA 63

Query: 66 LESPISFFFDVSPTVCS 82
          L+   +   ++      
Sbjct: 64 LQVDFAGLLELGQPERG 80


>gi|260683110|ref|YP_003214395.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260686708|ref|YP_003217841.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|260209273|emb|CBA62609.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260212724|emb|CBE03830.1| putative transcriptional regulator [Clostridium difficile R20291]
          Length = 196

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 34/64 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ ++G +I+  R    M+ + + E   ++   + + E+G+  V    L  I+ VL+  +
Sbjct: 3  LNKDIGAKIKQLRTQKQMTLKDMSEKTNLSIGFLSQLERGLTSVATDSLGKIASVLDVEL 62

Query: 71 SFFF 74
          ++FF
Sbjct: 63 TYFF 66


>gi|326405603|gb|ADZ62674.1| transcriptional regulator [Lactococcus lactis subsp. lactis CV56]
          Length = 185

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 31/59 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ ++  R+   ++QE++ + L  + Q + ++E          L  ++E+ ES +S F
Sbjct: 2  LGENLQKARLAQKLTQEEVAKELYFSRQAISRWESNKAEPNFETLIALAELYESDLSAF 60


>gi|302385264|ref|YP_003821086.1| transcriptional regulator, XRE family [Clostridium saccharolyticum
           WM1]
 gi|302195892|gb|ADL03463.1| transcriptional regulator, XRE family [Clostridium saccharolyticum
           WM1]
          Length = 160

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/108 (17%), Positives = 46/108 (42%), Gaps = 6/108 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           + +G+ I+ RR  LG+SQE+L    G  +   + K E     +  S++  I+  L++  +
Sbjct: 1   MEIGQIIKRRREELGISQEELALKAGYKSRSSINKIEVDGRGLPQSKIIAIASALKTTPA 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           +         S  S       ++       ++   F ++++   ++ +
Sbjct: 61  YLMGWESDNASAFSYVSGCFGEYAG-----EMLENFQRLNEKGQKEAL 103


>gi|258516790|ref|YP_003193012.1| helix-turn-helix domain-containing protein [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257780495|gb|ACV64389.1| helix-turn-helix domain protein [Desulfotomaculum acetoxidans DSM
          771]
          Length = 66

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 28/61 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR+ R    M+Q++LG   G    Q+ K E G   V +  L   +  L   I+   
Sbjct: 2  IGNKIRIIRESKHMTQDELGNLTGYKQSQISKIESGSREVKSRELGKFAAALGVKITELL 61

Query: 75 D 75
          +
Sbjct: 62 E 62


>gi|228907416|ref|ZP_04071274.1| Transcriptional regulator, Xre [Bacillus thuringiensis IBL 200]
 gi|228852277|gb|EEM97073.1| Transcriptional regulator, Xre [Bacillus thuringiensis IBL 200]
          Length = 404

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 1/64 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R    ++Q  L   + +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGAKIKTLRKEKKLTQTDLAGSV-LTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSP 78
          +   
Sbjct: 63 EEDD 66


>gi|195977160|ref|YP_002122404.1| hypothetical protein Sez_0004 [Streptococcus equi subsp.
          zooepidemicus MGCS10565]
 gi|195973865|gb|ACG61391.1| hypothetical protein Sez_0004 [Streptococcus equi subsp.
          zooepidemicus MGCS10565]
          Length = 121

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 37/82 (45%), Gaps = 2/82 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++  R+   +SQ+ L E L I+ Q + K+E G   +    L  ++ VLE  +      
Sbjct: 7  EQLKKYRLEKQLSQDALAEKLFISRQAISKWENGDATLDLENLVTLAAVLEVTLDELVTG 66

Query: 77 SPTVCSDISSEEN--NVMDFIS 96
            +        E   NV +F++
Sbjct: 67 KESAIKVTKKTEKPMNVWEFLT 88


>gi|160932465|ref|ZP_02079855.1| hypothetical protein CLOLEP_01303 [Clostridium leptum DSM 753]
 gi|156868424|gb|EDO61796.1| hypothetical protein CLOLEP_01303 [Clostridium leptum DSM 753]
          Length = 100

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 26/60 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++  R   G SQ +L + LGI      +YE G        L+ +S +      F  D+
Sbjct: 12 QKLKAFRESRGYSQNQLADYLGIERSSYTRYETGETEPSLFALKKLSILYGVSADFLLDI 71


>gi|94994459|ref|YP_602557.1| phage transcriptional repressor [Streptococcus pyogenes
          MGAS10750]
 gi|94547967|gb|ABF38013.1| phage transcriptional repressor [Streptococcus pyogenes
          MGAS10750]
          Length = 232

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G +++  R+  G++Q +LG  L +    +  +EKG N      L  +  +      +F
Sbjct: 4  GHQLKTARLSKGITQSELGRLLHVNKMTISNWEKGKNIPNEKHLNALLHLFNVTSDYF 61


>gi|22124180|ref|NP_667603.1| transcriptional repressor [Yersinia pestis KIM 10]
 gi|45443665|ref|NP_995204.1| putative transcriptional regulator [Yersinia pestis biovar Microtus
           str. 91001]
 gi|21956939|gb|AAM83854.1|AE013626_1 transcriptional repressor [Yersinia pestis KIM 10]
 gi|45438535|gb|AAS64081.1| putative transcriptional regulatory protein [Yersinia pestis biovar
           Microtus str. 91001]
          Length = 162

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 34/69 (49%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R++  R     +Q+++   +G+   Q  KYE G++   A +L  ++E+L + I +   
Sbjct: 46  GLRLKELRKQQHKTQKEVATRIGLQLSQYNKYESGMHIPPADKLITLAELLVTSIDYLLL 105

Query: 76  VSPTVCSDI 84
            S    S I
Sbjct: 106 GSSNETSSI 114


>gi|15675164|ref|NP_269338.1| putative repressor protein [Streptococcus pyogenes M1 GAS]
 gi|21910376|ref|NP_664644.1| putative repressor protein [Streptococcus pyogenes MGAS315]
 gi|28895952|ref|NP_802302.1| repressor protein [Streptococcus pyogenes SSI-1]
 gi|71903551|ref|YP_280354.1| phage transcriptional repressor [Streptococcus pyogenes MGAS6180]
 gi|139473727|ref|YP_001128443.1| phage repressor-like protein [Streptococcus pyogenes str.
          Manfredo]
 gi|209559469|ref|YP_002285941.1| Putative repressor protein [Streptococcus pyogenes NZ131]
 gi|13622327|gb|AAK34059.1| putative repressor protein [Streptococcus pyogenes M1 GAS]
 gi|21904573|gb|AAM79447.1| putative repressor protein [Streptococcus pyogenes MGAS315]
 gi|28811202|dbj|BAC64135.1| putative repressor protein [Streptococcus pyogenes SSI-1]
 gi|71802646|gb|AAX71999.1| phage transcriptional repressor [Streptococcus pyogenes MGAS6180]
 gi|134271974|emb|CAM30212.1| putative phage repressor-like protein [Streptococcus pyogenes
          str. Manfredo]
 gi|209540670|gb|ACI61246.1| Putative repressor protein [Streptococcus pyogenes NZ131]
          Length = 232

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G +++  R+  G++Q +LG  L +    +  +EKG N      L  +  +      +F
Sbjct: 4  GHQLKTARLSKGITQSELGRLLHVNKMTISNWEKGKNIPNEKHLNALLHLFNVTSDYF 61


>gi|88855996|ref|ZP_01130658.1| Transcription regulator [marine actinobacterium PHSC20C1]
 gi|88814863|gb|EAR24723.1| Transcription regulator [marine actinobacterium PHSC20C1]
          Length = 193

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 31/75 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R   G + E++    G+T   + + E+       + L  + +VL   I   F
Sbjct: 15 IGARIRSARKAQGFTLEQVAVSAGLTKGFLSRLERDETSPSVATLVQLCQVLSLEIGSLF 74

Query: 75 DVSPTVCSDISSEEN 89
               V   +++  +
Sbjct: 75 AEPEAVKISLANAPH 89


>gi|330974504|gb|EGH74570.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aceris str. M302273PT]
          Length = 199

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 11/101 (10%)

Query: 8   PNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  + +
Sbjct: 5   PHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRLCD 64

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           VL  P+S  F       S            +   +GL++ R
Sbjct: 65  VLGMPMSKLFSQYDQQGSSAL--------LVKADEGLEVVR 97


>gi|311069952|ref|YP_003974875.1| transcriptional regulator [Bacillus atrophaeus 1942]
 gi|310870469|gb|ADP33944.1| transcriptional regulator [Bacillus atrophaeus 1942]
          Length = 151

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/76 (28%), Positives = 35/76 (46%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+ IRL R   G S  +L    G++   + K E+GV+       L+ +SE LE  ++  
Sbjct: 2  IGRIIRLYRKRKGYSINQLAVEAGVSKSYLSKIERGVHTNPSIQFLKKVSETLEVELTEL 61

Query: 74 FDVSPTVCSDISSEEN 89
          FD    +      EE 
Sbjct: 62 FDAETILHQKTGGEEE 77


>gi|307828919|gb|ADN95141.1| Str [Staphylococcus aureus]
          Length = 67

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 31/56 (55%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R+  GMSQ+K    LG+ +Q +  +EK  + +  S++  + ++   P+ + F
Sbjct: 9  LRAARINNGMSQKKAASLLGVHYQTLASWEKDSSDLSRSKMLLMEKIYSIPLEYIF 64


>gi|261819794|ref|YP_003257900.1| XRE family transcriptional regulator [Pectobacterium wasabiae
          WPP163]
 gi|261603807|gb|ACX86293.1| transcriptional regulator, XRE family [Pectobacterium wasabiae
          WPP163]
          Length = 78

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 28/77 (36%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +  K  P+   +     I+  R   G+SQE L +  G+    +   E+    +    +  
Sbjct: 1  MERKINPSRARVIFSHNIKKLRERQGLSQEALADLAGLHRTYIGSVERCERNISIDNIDR 60

Query: 62 ISEVLESPISFFFDVSP 78
          I+  L    S+  +   
Sbjct: 61 IASALCVSPSYLLESDD 77


>gi|260654737|ref|ZP_05860225.1| toxin-antitoxin system, antitoxin component, Xre family
          [Jonquetella anthropi E3_33 E1]
 gi|260630452|gb|EEX48646.1| toxin-antitoxin system, antitoxin component, Xre family
          [Jonquetella anthropi E3_33 E1]
          Length = 240

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 39/79 (49%), Gaps = 3/79 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEK--GVNRVGASRLQHISEVLESPISFF- 73
          KR+R  R   G++Q+ + E LGI+   + ++E     N   AS+L  ++ +  + ++   
Sbjct: 8  KRLRAAREAAGVTQKTVSETLGISKMTIVRWESLDAPNEPTASQLVQLASLYGTSVAALT 67

Query: 74 FDVSPTVCSDISSEENNVM 92
           + +P    + + ++   +
Sbjct: 68 AEATPADKKEAAPDDGTAL 86


>gi|260555242|ref|ZP_05827463.1| transcriptional regulator [Acinetobacter baumannii ATCC 19606]
 gi|260411784|gb|EEX05081.1| transcriptional regulator [Acinetobacter baumannii ATCC 19606]
          Length = 197

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 35/92 (38%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + ++I +  RIR  R+  G + + L     ++   +   E+G     A  L+ ++  LE 
Sbjct: 2   DDINIRIAHRIRELRLARGYTLDVLAARCQVSRSAISLIERGETSPTAVVLEKLANGLEV 61

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           P++  F       S       N       P+ 
Sbjct: 62  PLTQIFTNEAGNSSSQPLIRRNEQAEWRDPET 93


>gi|255036105|ref|YP_003086726.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
           18053]
 gi|254948861|gb|ACT93561.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
           18053]
          Length = 279

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 30/89 (33%), Gaps = 1/89 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
           +  G  IR  R    ++QE   E LG+T  ++   E G      A  L  IS+     I 
Sbjct: 6   LFFGSNIRFLRERRRLTQEDFAEQLGVTRVKLAAIEAGRTENPSAVDLIKISDFFGLSID 65

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDG 100
             F +      ++   E      +     
Sbjct: 66  NLFRIDLRGVGELPLRELEAGSPLYMKGT 94


>gi|255655505|ref|ZP_05400914.1| putative transcriptional regulator [Clostridium difficile
          QCD-23m63]
          Length = 194

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 34/64 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ ++G +I+  R    M+ + + E   ++   + + E+G+  V    L  I+ VL+  +
Sbjct: 1  MNKDIGAKIKQLRTQKQMTLKDMSEKTNLSIGFLSQLERGLTSVATDSLGKIASVLDVEL 60

Query: 71 SFFF 74
          ++FF
Sbjct: 61 TYFF 64


>gi|254975050|ref|ZP_05271522.1| putative transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255092439|ref|ZP_05321917.1| putative transcriptional regulator [Clostridium difficile CIP
          107932]
 gi|255100520|ref|ZP_05329497.1| putative transcriptional regulator [Clostridium difficile
          QCD-63q42]
 gi|255306462|ref|ZP_05350633.1| putative transcriptional regulator [Clostridium difficile ATCC
          43255]
 gi|255314177|ref|ZP_05355760.1| putative transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255516856|ref|ZP_05384532.1| putative transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255649957|ref|ZP_05396859.1| putative transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|306520039|ref|ZP_07406386.1| putative transcriptional regulator [Clostridium difficile
          QCD-32g58]
 gi|328887610|emb|CAJ68359.2| Transcriptional regulator, HTH-type [Clostridium difficile]
          Length = 194

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 34/64 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ ++G +I+  R    M+ + + E   ++   + + E+G+  V    L  I+ VL+  +
Sbjct: 1  MNKDIGAKIKQLRTQKQMTLKDMSEKTNLSIGFLSQLERGLTSVATDSLGKIASVLDVEL 60

Query: 71 SFFF 74
          ++FF
Sbjct: 61 TYFF 64


>gi|217971536|ref|YP_002356287.1| XRE family transcriptional regulator [Shewanella baltica OS223]
 gi|217496671|gb|ACK44864.1| transcriptional regulator, XRE family [Shewanella baltica OS223]
          Length = 191

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/91 (15%), Positives = 37/91 (40%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +   ++  R   G S +K  +  G++   + + E+G +    + L  I+      +
Sbjct: 4   INSYLATTLKALRNQKGWSLDKAAQETGVSKAMIGQIERGESSPTIATLWKIASGFNISL 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
           S F + +P     +  + + +    +T   L
Sbjct: 64  STFLEPTPQSQGAVFRKPDELRQQPATDGML 94


>gi|209885534|ref|YP_002289391.1| helix-turn-helix domain protein [Oligotropha carboxidovorans OM5]
 gi|209873730|gb|ACI93526.1| helix-turn-helix domain protein [Oligotropha carboxidovorans OM5]
          Length = 354

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/104 (12%), Positives = 40/104 (38%), Gaps = 6/104 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +G ++++ R   G+S   L + +   ++ Q + KYE+  +   +  L  ++  L     +
Sbjct: 2   IGHKLKVARSASGLSLRGLADAMDGIVSAQAIGKYERNEDMPSSRVLIALAAALHVTEDY 61

Query: 73  FFDVSPTVCSDIS----SEENNVMDFISTPDGLQLNRYFIQIDD 112
                      +     +  ++  +       + +   ++ I+D
Sbjct: 62  LLSEDELALEGVEFRKKAGTSSREEAALEARAIHMLERYLAIED 105


>gi|169796192|ref|YP_001713985.1| putative transcriptional regulator [Acinetobacter baumannii AYE]
 gi|213157074|ref|YP_002319119.1| transcriptional regulator, XRE family [Acinetobacter baumannii
           AB0057]
 gi|215483646|ref|YP_002325867.1| Helix-turn-helix family protein [Acinetobacter baumannii
           AB307-0294]
 gi|301347624|ref|ZP_07228365.1| Helix-turn-helix family protein [Acinetobacter baumannii AB056]
 gi|301510309|ref|ZP_07235546.1| Helix-turn-helix family protein [Acinetobacter baumannii AB058]
 gi|301596869|ref|ZP_07241877.1| Helix-turn-helix family protein [Acinetobacter baumannii AB059]
 gi|332850551|ref|ZP_08432827.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
           6013150]
 gi|332865761|ref|ZP_08436556.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
           6013113]
 gi|169149119|emb|CAM86996.1| putative transcriptional regulator [Acinetobacter baumannii AYE]
 gi|213056234|gb|ACJ41136.1| transcriptional regulator, XRE family [Acinetobacter baumannii
           AB0057]
 gi|213985862|gb|ACJ56161.1| Helix-turn-helix family protein [Acinetobacter baumannii
           AB307-0294]
 gi|332730613|gb|EGJ61927.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
           6013150]
 gi|332735102|gb|EGJ66186.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
           6013113]
          Length = 197

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 35/92 (38%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + ++I +  RIR  R+  G + + L     ++   +   E+G     A  L+ ++  LE 
Sbjct: 2   DDINIRIAHRIRELRLARGYTLDVLAARCQVSRSAISLIERGETSPTAVVLEKLANGLEV 61

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           P++  F       S       N       P+ 
Sbjct: 62  PLTQIFTNEAGNSSSQPLIRRNEQAEWRDPET 93


>gi|15644083|ref|NP_229132.1| LacI family transcriptional regulator [Thermotoga maritima MSB8]
 gi|4981889|gb|AAD36402.1|AE001787_7 lacI family transcriptional regulator, putative [Thermotoga
          maritima MSB8]
          Length = 111

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 24/54 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           +G ++   R +  ++Q+ L + LG++   V K E G   +    L  I   L 
Sbjct: 18 QIGGQLLAYRKMHNLTQKDLAKKLGVSQSMVSKIETGEKNISIRVLAKIVAALG 71


>gi|116628702|ref|YP_813874.1| transcriptional regulator [Lactobacillus gasseri ATCC 33323]
 gi|300362660|ref|ZP_07058836.1| transcriptional regulator [Lactobacillus gasseri JV-V03]
 gi|116094284|gb|ABJ59436.1| Predicted transcriptional regulator [Lactobacillus gasseri ATCC
          33323]
 gi|300353651|gb|EFJ69523.1| transcriptional regulator [Lactobacillus gasseri JV-V03]
          Length = 70

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G+SQ  L + + +  Q +   E             ++  L++ ++  F
Sbjct: 8  NRVKEYRKQKGLSQMALAKRIDVARQTINLIENDKYNPSLDLCLKLAHELDTDLNTLF 65


>gi|331085319|ref|ZP_08334405.1| hypothetical protein HMPREF0987_00708 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330408102|gb|EGG87592.1| hypothetical protein HMPREF0987_00708 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 150

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/111 (17%), Positives = 47/111 (42%), Gaps = 20/111 (18%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            I+  R    ++Q++L + L ++ Q V ++EKG         + ++  L+  +       
Sbjct: 6   NIKKFREEKNLTQQQLADKLYVSRQTVCRWEKGSRCPDLITAKKLALELDVSVD------ 59

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK----VRQKIIELVR 124
             + SD   ++  V   I   +         +I D K    ++++I++ ++
Sbjct: 60  -ELISDEDVKDLQVNYGIWKSE---------RIKDKKHLQVLQKRILDFIQ 100


>gi|310765756|gb|ADP10706.1| hypothetical protein EJP617_10250 [Erwinia sp. Ejp617]
 gi|310766559|gb|ADP11509.1| hypothetical protein EJP617_18280 [Erwinia sp. Ejp617]
 gi|310766566|gb|ADP11516.1| hypothetical protein EJP617_18350 [Erwinia sp. Ejp617]
          Length = 112

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/83 (13%), Positives = 31/83 (37%), Gaps = 1/83 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-FFDV 76
          R+   R     +Q+++ + +G+   Q ++YE G ++      + I+  L        F+ 
Sbjct: 6  RLTAFRKEQAFTQQQMADKIGMHVSQYKRYEAGASQPTIDVFRRIALALNVSADMLLFEP 65

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
                +    +   +  +   +
Sbjct: 66 DERGPDERLKLQFEAVSNLDEKE 88


>gi|309774543|ref|ZP_07669569.1| putative transcriptional repressor [Erysipelotrichaceae bacterium
          3_1_53]
 gi|308917658|gb|EFP63372.1| putative transcriptional repressor [Erysipelotrichaceae bacterium
          3_1_53]
          Length = 71

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 24/57 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +I++ RM L MSQE+L   +G T Q +   E G           I   L   +   F
Sbjct: 5  KIKMARMELDMSQEELANKVGATRQTIGLIEAGRYNPSIKLCIKICIALHKHLDDLF 61


>gi|302184902|ref|ZP_07261575.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. syringae 642]
          Length = 182

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  +  P   + +  + + ++D       ++L 
Sbjct: 58  MVEFFSEETVPENAAQVVYKASELIDISDGAVTMKLV 94


>gi|297580368|ref|ZP_06942295.1| transcriptional regulator [Vibrio cholerae RC385]
 gi|297536014|gb|EFH74848.1| transcriptional regulator [Vibrio cholerae RC385]
          Length = 133

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/132 (17%), Positives = 57/132 (43%), Gaps = 21/132 (15%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ ++  R    +SQ  + + L IT Q   K+E G+    AS++  ++++L        
Sbjct: 2   IGETLKEARAKTKLSQYDMADKLKITKQTYMKWENGITEPKASQISELAKILNI------ 55

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ--KIIELVRSIVSSEKK 132
                +C    ++  ++ DFI             ++   +  +  ++++L   I   E+ 
Sbjct: 56  -TEAEICRGKLNKRYSLEDFI------------YRLSCQRPSREMQVLKLWEMISDHEEF 102

Query: 133 YRTIEEECMVEQ 144
           ++++  E + E 
Sbjct: 103 FKSLSPESIEEH 114


>gi|326317279|ref|YP_004234951.1| XRE family transcriptional regulator [Acidovorax avenae subsp.
          avenae ATCC 19860]
 gi|323374115|gb|ADX46384.1| transcriptional regulator, XRE family [Acidovorax avenae subsp.
          avenae ATCC 19860]
          Length = 469

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 37/87 (42%), Gaps = 1/87 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G ++R  R   G+SQ  L + LG++   + + E+    +  S L  I  VL   +  F
Sbjct: 5  FMGVKLRKLRAERGLSQIALAQALGLSPSYLNQIEQNQRPLTVSVLLKIHRVLGVDVQEF 64

Query: 74 FDVSPT-VCSDISSEENNVMDFISTPD 99
           +     + + +        + ++ P+
Sbjct: 65 SEDEEARLVAGLRQALAGAAEPVALPE 91


>gi|255012031|ref|ZP_05284157.1| DNA-binding protein [Bacteroides fragilis 3_1_12]
 gi|313149871|ref|ZP_07812064.1| predicted protein [Bacteroides fragilis 3_1_12]
 gi|313138638|gb|EFR55998.1| predicted protein [Bacteroides fragilis 3_1_12]
          Length = 72

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R+R  R   G+SQEKL E  G+    +   E+         +  I+  L   ++  F
Sbjct: 15 QRVRTLREAQGISQEKLAERAGLHRTYIGMVERLERNPSLVCIHKIANGLGVHVTELF 72


>gi|152985210|ref|YP_001351391.1| putative transcriptional regulator [Pseudomonas aeruginosa PA7]
 gi|150960368|gb|ABR82393.1| probable transcriptional regulator [Pseudomonas aeruginosa PA7]
          Length = 182

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/97 (24%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGARLQTIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLK---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  D+     + +  + + ++D  S    ++L 
Sbjct: 58  LVEFFSLDLEQDSHTQVVYKADELIDISSGAVSMRLV 94


>gi|152971476|ref|YP_001336585.1| putative transcriptional regulator [Klebsiella pneumoniae subsp.
          pneumoniae MGH 78578]
 gi|150956325|gb|ABR78355.1| putative transcriptional regulator [Klebsiella pneumoniae subsp.
          pneumoniae MGH 78578]
          Length = 99

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 37/74 (50%), Gaps = 4/74 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLES 68
          I +GKR+++ R+   ++Q +LG   G+       ++  YEK V+      +  ++  L+ 
Sbjct: 3  IVIGKRLKISRVRADLTQAELGVLAGLDEESASARISSYEKEVHAPDFKLVCKLAAALDV 62

Query: 69 PISFFFDVSPTVCS 82
          P ++F+ V   +  
Sbjct: 63 PEAYFYAVDDDLAE 76


>gi|149012422|ref|ZP_01833453.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP19-BS75]
 gi|147763478|gb|EDK70414.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP19-BS75]
          Length = 299

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|159898574|ref|YP_001544821.1| XRE family transcriptional regulator [Herpetosiphon aurantiacus
          ATCC 23779]
 gi|159891613|gb|ABX04693.1| transcriptional regulator, XRE family [Herpetosiphon aurantiacus
          ATCC 23779]
          Length = 84

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 17 KRIRLRRMIL-GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           RIR  R+   GM+Q+ L + +GIT Q V   E+G           I+ +  +P+   F 
Sbjct: 8  NRIRHLRVEAHGMTQQALADHVGITRQTVIALEQGRYYPSLELAFRIALLFGTPLEQVFQ 67

Query: 76 VSPTVC 81
          V  T+ 
Sbjct: 68 VDRTIE 73


>gi|27376226|ref|NP_767755.1| transcriptional regulator [Bradyrhizobium japonicum USDA 110]
 gi|27349366|dbj|BAC46380.1| blr1115 [Bradyrhizobium japonicum USDA 110]
          Length = 196

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 30/61 (49%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  +G+R++  R   GM+  +L    G++   + + E+  +   A+ L  +   L+  +
Sbjct: 9  LDRAIGRRLKTLRTQAGMTLNELAGRSGVSRAMIGRVERAQSSATAALLNKLCAALDVTL 68

Query: 71 S 71
          S
Sbjct: 69 S 69


>gi|89069298|ref|ZP_01156661.1| probable transcriptional regulator [Oceanicola granulosus HTCC2516]
 gi|89045174|gb|EAR51242.1| probable transcriptional regulator [Oceanicola granulosus HTCC2516]
          Length = 202

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/102 (18%), Positives = 39/102 (38%), Gaps = 3/102 (2%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
             D  +G  +R  R   GM+   + E  G++   + + E+ +     S L+ I++VL   
Sbjct: 11  STDSKIGAALRRYRKSQGMTLRDVAEGAGLSTGFISQAERDIAVPSLSSLRKIAQVLGVS 70

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
           +    D+ P     + +   +     S   G      + +I 
Sbjct: 71  LQ---DILPETVPAMEASRRSERRVYSAHPGSSAAMAYERIS 109


>gi|315650040|ref|ZP_07903120.1| LexA repressor [Eubacterium saburreum DSM 3986]
 gi|315487810|gb|EFU78113.1| LexA repressor [Eubacterium saburreum DSM 3986]
          Length = 213

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 34/60 (56%), Gaps = 1/60 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPIS 71
          + +G+RI+ RR  LG+S +++ + LG     V +YE   +       L+ I+++LE+  +
Sbjct: 1  MTIGERIKQRRRELGLSVDEVADRLGKNRATVYRYESNDIENFPVGTLEPIAKILETTPA 60


>gi|307137999|ref|ZP_07497355.1| putative regulator [Escherichia coli H736]
 gi|331641924|ref|ZP_08343059.1| putative regulator [Escherichia coli H736]
 gi|331038722|gb|EGI10942.1| putative regulator [Escherichia coli H736]
          Length = 140

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 1/82 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFF 73
          +  R++ RR  LG+SQ KL E  G T  ++  YE G   VG      + + L   P    
Sbjct: 17 IAMRLKERRQKLGLSQGKLAEICGWTQSRIGNYEAGSRNVGVHDAVVLGKALGISPPELL 76

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
          F    +    ++  +  +++  
Sbjct: 77 FGEKDSSELWLNESQRKLLELF 98


>gi|296158619|ref|ZP_06841449.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
 gi|295891187|gb|EFG70975.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
          Length = 212

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/77 (15%), Positives = 29/77 (37%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++I+  R    M+ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 35  VGEQIQRLRAERRMTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGVSLDSLF 94

Query: 75  DVSPTVCSDISSEENNV 91
               T  +   S  + +
Sbjct: 95  APQKTPEAIAVSGPHEI 111


>gi|257888763|ref|ZP_05668416.1| transcriptional regulator [Enterococcus faecium 1,141,733]
 gi|257824817|gb|EEV51749.1| transcriptional regulator [Enterococcus faecium 1,141,733]
          Length = 72

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 29/61 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR  R    ++QE+L + L I+     +YE G   +    L  +++   + I +  +++
Sbjct: 4  RIRDLREDKDLNQEQLAKLLNISQTTYSRYESGKLDIPTQSLIKLADFYSTSIDYLLNLT 63

Query: 78 P 78
           
Sbjct: 64 D 64


>gi|228993234|ref|ZP_04153155.1| Transcriptional regulator, Xre [Bacillus pseudomycoides DSM
          12442]
 gi|228766560|gb|EEM15202.1| Transcriptional regulator, Xre [Bacillus pseudomycoides DSM
          12442]
          Length = 190

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|255656204|ref|ZP_05401613.1| putative regulatory protein [Clostridium difficile QCD-23m63]
 gi|296450362|ref|ZP_06892119.1| probable regulatory protein [Clostridium difficile NAP08]
 gi|296878774|ref|ZP_06902775.1| probable regulatory protein [Clostridium difficile NAP07]
 gi|296260772|gb|EFH07610.1| probable regulatory protein [Clostridium difficile NAP08]
 gi|296430202|gb|EFH16048.1| probable regulatory protein [Clostridium difficile NAP07]
          Length = 105

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/87 (12%), Positives = 35/87 (40%), Gaps = 1/87 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +GKR++  R    ++ ++    +G++   + + E G              +L       
Sbjct: 3  YIGKRLKEERKKANLTSKEFANMVGVSPWYITQIESGKKNPSLKTFIKFVSILNISADVL 62

Query: 74 F-DVSPTVCSDISSEENNVMDFISTPD 99
            D++ T  + + ++ N  +  +++ +
Sbjct: 63 IKDITSTGKTYLENDINEELKDLNSRE 89


>gi|196044906|ref|ZP_03112140.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|229032148|ref|ZP_04188124.1| Transcriptional regulator, Xre [Bacillus cereus AH1271]
 gi|229186737|ref|ZP_04313895.1| Transcriptional regulator, Xre [Bacillus cereus BGSC 6E1]
 gi|196024394|gb|EDX63067.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|228596750|gb|EEK54412.1| Transcriptional regulator, Xre [Bacillus cereus BGSC 6E1]
 gi|228729154|gb|EEL80154.1| Transcriptional regulator, Xre [Bacillus cereus AH1271]
          Length = 190

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|91710591|gb|ABE50519.1| N-acetylglutamate synthase / N-acetylglutamate kinase
          [Methylobacillus flagellatus KT]
          Length = 521

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/73 (19%), Positives = 31/73 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G  IR RR  L M+ ++L   +      + + E+G   V  + L+ +   L+   ++
Sbjct: 1  MALGNAIRKRRKALNMTLQELARKVNANSGNLSRIERGAQGVSETMLRKLCTALDCTAAY 60

Query: 73 FFDVSPTVCSDIS 85
           +  S       +
Sbjct: 61 LYAQSDAESGHST 73


>gi|330900500|gb|EGH31919.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. japonica str. M301072PT]
          Length = 201

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 11/101 (10%)

Query: 8   PNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  + +
Sbjct: 7   PHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRLCD 66

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           VL  P+S  F       S            +   +GL++ R
Sbjct: 67  VLGMPMSKLFSQYDQQGSSAL--------LVKADEGLEVVR 99


>gi|329117294|ref|ZP_08246011.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
 gi|326907699|gb|EGE54613.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
          Length = 112

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/74 (31%), Positives = 35/74 (47%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + KRIRL R+  GM+QE+L E   +    V K E     +    L+ + + LE     F
Sbjct: 9  YISKRIRLLRLERGMTQEQLEEKADLGTNYVYKLENQSTNIKVKTLEKVMKALEVDFEGF 68

Query: 74 FDVSPTVCSDISSE 87
          FD+S    +   S+
Sbjct: 69 FDISLIEENSDLSD 82


>gi|295110625|emb|CBL24578.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 74

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 24/56 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           RIR  R     SQE +   L I  +    YE+G  R+    +  ++E     +++
Sbjct: 5  NRIRSLREDNDYSQEDIASYLHIGQRTYSDYERGKTRIPLDSMIMLAEFYNVDMNY 60


>gi|255262954|ref|ZP_05342296.1| DNA-binding protein [Thalassiobium sp. R2A62]
 gi|255105289|gb|EET47963.1| DNA-binding protein [Thalassiobium sp. R2A62]
          Length = 190

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G  +R  R   G++   L E L  +   + + E+G++    + L+H++  L+  +S 
Sbjct: 10 RTLGADLRALRKARGLTLVDLAETLDRSVGWLSQVERGMSEPSVTDLRHLAAALDVSVSS 69

Query: 73 FF 74
           F
Sbjct: 70 LF 71


>gi|254497907|ref|ZP_05110672.1| conserved hypothetical protein [Legionella drancourtii LLAP12]
 gi|254352905|gb|EET11675.1| conserved hypothetical protein [Legionella drancourtii LLAP12]
          Length = 78

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 28/68 (41%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            +P  + +G +IR  R   G SQE      G+    +   E+G   + A  L  I++ L
Sbjct: 2  KKDPQLLKLGNKIREMRKAHGFSQEAFASESGVDRSYMGSVERGERNIAALNLIKIAQAL 61

Query: 67 ESPISFFF 74
             +   F
Sbjct: 62 NVEVGELF 69


>gi|225376643|ref|ZP_03753864.1| hypothetical protein ROSEINA2194_02285 [Roseburia inulinivorans
          DSM 16841]
 gi|225211526|gb|EEG93880.1| hypothetical protein ROSEINA2194_02285 [Roseburia inulinivorans
          DSM 16841]
          Length = 101

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 26/62 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++I   R     S  KL    GI+   ++  E G        L +I E L   +  
Sbjct: 1  MNIGEKITYYRKKKNYSVNKLANLAGISQSYLRDIELGNKNPTIEFLSYICEALNISLKD 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|254490244|ref|ZP_05103434.1| Peptidase S24-like domain protein [Methylophaga thiooxidans
          DMS010]
 gi|254490560|ref|ZP_05103746.1| Peptidase S24-like domain protein [Methylophaga thiooxidans
          DMS010]
 gi|254490688|ref|ZP_05103873.1| Peptidase S24-like domain protein [Methylophaga thiooxidans
          DMS010]
 gi|254490854|ref|ZP_05104037.1| Peptidase S24-like domain protein [Methylophaga thiooxidans
          DMS010]
 gi|254490891|ref|ZP_05104074.1| Peptidase S24-like domain protein [Methylophaga thiooxidans
          DMS010]
 gi|254490935|ref|ZP_05104117.1| Peptidase S24-like domain protein [Methylophaga thiooxidans
          DMS010]
 gi|254491345|ref|ZP_05104525.1| Peptidase S24-like domain protein [Methylophaga thiooxidans
          DMS010]
 gi|254491994|ref|ZP_05105172.1| Peptidase S24-like domain protein [Methylophaga thiooxidans
          DMS010]
 gi|254492163|ref|ZP_05105338.1| Peptidase S24-like domain protein [Methylophaga thiooxidans
          DMS010]
 gi|254492671|ref|ZP_05105842.1| Peptidase S24-like domain protein [Methylophaga thiooxidans
          DMS010]
 gi|224462192|gb|EEF78470.1| Peptidase S24-like domain protein [Methylophaga thiooxydans
          DMS010]
 gi|224462715|gb|EEF78989.1| Peptidase S24-like domain protein [Methylophaga thiooxydans
          DMS010]
 gi|224462809|gb|EEF79080.1| Peptidase S24-like domain protein [Methylophaga thiooxydans
          DMS010]
 gi|224463474|gb|EEF79743.1| Peptidase S24-like domain protein [Methylophaga thiooxydans
          DMS010]
 gi|224463844|gb|EEF80111.1| Peptidase S24-like domain protein [Methylophaga thiooxydans
          DMS010]
 gi|224464026|gb|EEF80292.1| Peptidase S24-like domain protein [Methylophaga thiooxydans
          DMS010]
 gi|224464063|gb|EEF80329.1| Peptidase S24-like domain protein [Methylophaga thiooxydans
          DMS010]
 gi|224464144|gb|EEF80408.1| Peptidase S24-like domain protein [Methylophaga thiooxydans
          DMS010]
 gi|224464304|gb|EEF80567.1| Peptidase S24-like domain protein [Methylophaga thiooxydans
          DMS010]
 gi|224464591|gb|EEF80850.1| Peptidase S24-like domain protein [Methylophaga thiooxydans
          DMS010]
          Length = 272

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/50 (36%), Positives = 27/50 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          + +G RI   R  L ++Q+ + + +GIT Q   KYEKG     A  L+ I
Sbjct: 5  VYIGGRILEERKRLRLTQQDVADFVGITRQSQAKYEKGERSPDAIYLEKI 54


>gi|212709275|ref|ZP_03317403.1| hypothetical protein PROVALCAL_00310 [Providencia alcalifaciens
          DSM 30120]
 gi|212688187|gb|EEB47715.1| hypothetical protein PROVALCAL_00310 [Providencia alcalifaciens
          DSM 30120]
          Length = 377

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 32/68 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +RL R+   +S E++ E +G T Q +Q+ E G           ++ VL     FF++
Sbjct: 4  GSNLRLARLYHELSLEQVAERVGKTRQYIQRLESGYALPTKELTNELACVLFVLPDFFYN 63

Query: 76 VSPTVCSD 83
             +  ++
Sbjct: 64 NEQSPVNE 71


>gi|187921632|ref|YP_001890664.1| XRE family transcriptional regulator [Burkholderia phytofirmans
           PsJN]
 gi|187720070|gb|ACD21293.1| transcriptional regulator, XRE family [Burkholderia phytofirmans
           PsJN]
          Length = 212

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/77 (15%), Positives = 29/77 (37%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++I+  R    M+ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 35  VGEQIQRLRAERRMTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGVSLDSLF 94

Query: 75  DVSPTVCSDISSEENNV 91
               T  +   S  + +
Sbjct: 95  APQKTPEAIAVSGPHEI 111


>gi|110834231|ref|YP_693090.1| transcriptional regulator [Alcanivorax borkumensis SK2]
 gi|110647342|emb|CAL16818.1| transcriptional regulator, putative [Alcanivorax borkumensis SK2]
          Length = 71

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G ++R  R   G+SQE+L    G+    +   E+G   +   ++  IS+ L  P + F
Sbjct: 10 GAKVRAMRKQKGLSQEELASLAGLDRSYMGHIERGEKNITLLKIYQISDALSLPAAIF 67


>gi|322378078|ref|ZP_08052565.1| transcriptional regulator, Cro/CI family [Streptococcus sp. M334]
 gi|321281060|gb|EFX58073.1| transcriptional regulator, Cro/CI family [Streptococcus sp. M334]
          Length = 108

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 29/66 (43%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +  N+  +IR  R    ++Q++L E   ++   + + E     +       I + LE 
Sbjct: 2  DDILENISNQIRDLRASKKITQQELAERTNLSVPYISQIENNHRNISLETFVKIVDALEV 61

Query: 69 PISFFF 74
           +S FF
Sbjct: 62 TLSDFF 67


>gi|319945801|ref|ZP_08020052.1| XRE family transcriptional regulator [Streptococcus australis ATCC
           700641]
 gi|322387055|ref|ZP_08060666.1| XRE family transcriptional regulator [Streptococcus infantis ATCC
           700779]
 gi|319748161|gb|EFW00404.1| XRE family transcriptional regulator [Streptococcus australis ATCC
           700641]
 gi|321142042|gb|EFX37536.1| XRE family transcriptional regulator [Streptococcus infantis ATCC
           700779]
          Length = 148

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/121 (13%), Positives = 47/121 (38%), Gaps = 13/121 (10%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D    +R++  R    ++Q ++ E +G+      ++E G    G   +  ++ +  +   
Sbjct: 5   DYKFSERLKTLRKSKKLTQVQISELIGVQQGTYSRWENGTLEPGLEFVVKLANIFGTTTD 64

Query: 72  FFFDVSP-----------TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
           +     P              ++I++   +  D +     + + R   +I   +++ ++I
Sbjct: 65  YLLGQKPYSIISSLPLEQLDLTNIANFSKDEFDILKHSIAVSVARN--KIKATELKDRVI 122

Query: 121 E 121
           E
Sbjct: 123 E 123


>gi|300856445|ref|YP_003781429.1| putative transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
 gi|300436560|gb|ADK16327.1| predicted transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
          Length = 71

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 26/67 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+   R   G++QE+L + L ++ Q +   E G           IS+     I   F  
Sbjct: 3  NRLEKIRKQHGITQEELAQKLEVSRQTIGSLENGRYNPSILLAFKISKFFNVSIEEIFIY 62

Query: 77 SPTVCSD 83
            +  ++
Sbjct: 63 EESSENE 69


>gi|256849134|ref|ZP_05554567.1| conserved hypothetical protein [Lactobacillus crispatus MV-1A-US]
 gi|312977969|ref|ZP_07789715.1| probable transcriptional regulator [Lactobacillus crispatus
          CTV-05]
 gi|256713910|gb|EEU28898.1| conserved hypothetical protein [Lactobacillus crispatus MV-1A-US]
 gi|310895276|gb|EFQ44344.1| probable transcriptional regulator [Lactobacillus crispatus
          CTV-05]
          Length = 95

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 37/85 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +  +I+  R    ++Q +L E +G+T + +   EKG  +        + +  E+ I  
Sbjct: 1  MIINNKIKEYRKKHQLTQRELAEKVGVTERTIISLEKGRYKPSIVLAYKLVQFFETDIET 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
           F ++  V ++ +   N    F  +
Sbjct: 61 LFCLNEYVKNEQAKGRNAYNSFCDS 85


>gi|255524012|ref|ZP_05390974.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296186870|ref|ZP_06855271.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
 gi|255512299|gb|EET88577.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296048584|gb|EFG88017.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
          Length = 222

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/87 (25%), Positives = 41/87 (47%), Gaps = 8/87 (9%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
          VG++I+  R  +GM+Q++LG+ LG+    V + E G   +  + +  IS+VL   I+   
Sbjct: 4  VGEKIKNIRNSIGMTQKQLGKKLGVNESFVNEVENGRKIINQNLIDRISKVLGKDINDIT 63

Query: 74 -------FDVSPTVCSDISSEENNVMD 93
                 F+         + ++  V D
Sbjct: 64 MSFEEQVFEEEKDKKYSAAPKKEAVKD 90


>gi|228917142|ref|ZP_04080700.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
 gi|228842560|gb|EEM87650.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
          Length = 190

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|228999282|ref|ZP_04158862.1| Transcriptional regulator, Xre [Bacillus mycoides Rock3-17]
 gi|229006837|ref|ZP_04164470.1| Transcriptional regulator, Xre [Bacillus mycoides Rock1-4]
 gi|228754459|gb|EEM03871.1| Transcriptional regulator, Xre [Bacillus mycoides Rock1-4]
 gi|228760479|gb|EEM09445.1| Transcriptional regulator, Xre [Bacillus mycoides Rock3-17]
          Length = 190

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|229074639|ref|ZP_04207662.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          Rock4-18]
 gi|228708521|gb|EEL60671.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          Rock4-18]
          Length = 107

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
                  + + SE
Sbjct: 62 LHDETEKEARLDSE 75


>gi|284032140|ref|YP_003382071.1| XRE family transcriptional regulator [Kribbella flavida DSM
          17836]
 gi|283811433|gb|ADB33272.1| transcriptional regulator, XRE family [Kribbella flavida DSM
          17836]
          Length = 73

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 1/61 (1%)

Query: 15 VGKRIRLRRM-ILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          V  RIR  R     ++Q +L   LG+T Q V   E+G           I+ V   P++  
Sbjct: 6  VTNRIRALRTDHAELTQAELARRLGVTRQTVIAIEQGRYSPSLELAFQIAHVFGVPLADV 65

Query: 74 F 74
          F
Sbjct: 66 F 66


>gi|217958091|ref|YP_002336635.1| hypothetical protein BCAH187_A0631 [Bacillus cereus AH187]
 gi|217068076|gb|ACJ82326.1| conserved domain protein [Bacillus cereus AH187]
          Length = 73

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 30/71 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I   R    ++QE+L   +GIT   +   E G ++        ISEVL S +   F  
Sbjct: 2  NQITKLRKQKAITQEELAVKVGITRAYLSNLENGKHKPSLDVALKISEVLGSSVEKIFKT 61

Query: 77 SPTVCSDISSE 87
               +  ++E
Sbjct: 62 KVRKTNSDNAE 72


>gi|160934569|ref|ZP_02081955.1| hypothetical protein CLOLEP_03442 [Clostridium leptum DSM 753]
 gi|156866022|gb|EDO59394.1| hypothetical protein CLOLEP_03442 [Clostridium leptum DSM 753]
          Length = 121

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 35/85 (41%), Gaps = 1/85 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FFF 74
           G+ I+  R   G+S+ +L + L I  + +   E          L  +  +L+  +  FFF
Sbjct: 16  GQAIKAARKAKGISRNQLADTLNIAPRYIASIENSGQHPSLQILYELVTLLDVSVDQFFF 75

Query: 75  DVSPTVCSDISSEENNVMDFISTPD 99
                  S    + + ++D +S  D
Sbjct: 76  PEREQEKSTRRRQLDTMLDGMSEKD 100


>gi|160899167|ref|YP_001564749.1| XRE family transcriptional regulator [Delftia acidovorans SPH-1]
 gi|160364751|gb|ABX36364.1| transcriptional regulator, XRE family [Delftia acidovorans SPH-1]
          Length = 63

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 23/56 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR  R   G SQ  L + LG++ Q V   E G           I+ V E+ I   F
Sbjct: 5  IRELRAQRGWSQAALADLLGVSRQTVNAIETGRYDPSLPLAFAIARVFETRIEAIF 60


>gi|54027463|ref|YP_121705.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
 gi|54018971|dbj|BAD60341.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
          Length = 396

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 2/63 (3%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPI 70
          D ++G RIR  R    ++Q +L +  G++   V+K E+ G      + LQ I+  L+  I
Sbjct: 3  DSSIGVRIRRFRGKA-LTQRQLADLAGVSVDLVRKLEQGGRQTASIASLQKIARALDVDI 61

Query: 71 SFF 73
          +  
Sbjct: 62 ADL 64


>gi|89074742|ref|ZP_01161200.1| Hypothetical transcriptional regulator [Photobacterium sp. SKA34]
 gi|89049506|gb|EAR55067.1| Hypothetical transcriptional regulator [Photobacterium sp. SKA34]
          Length = 125

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 37/85 (43%), Gaps = 3/85 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  RI+  R   G++Q  + + L +  Q     E G        L  ISE+ E P+++F 
Sbjct: 8  IAARIKDAREWKGLTQVHMAQQLKVARQTYLDLETGKTEPKVRLLSEISEITERPLTWFV 67

Query: 75 ---DVSPTVCSDISSEENNVMDFIS 96
             +    + S+   E + ++ F S
Sbjct: 68 YGDEGIEILESEYKEEIDRLLQFFS 92


>gi|83749268|ref|ZP_00946267.1| Hypothetical Protein RRSL_00891 [Ralstonia solanacearum UW551]
 gi|207725182|ref|YP_002255578.1| hypothetical protein RSMK00071 [Ralstonia solanacearum MolK2]
 gi|207743555|ref|YP_002259947.1| hypothetical protein RSIPO_01735 [Ralstonia solanacearum IPO1609]
 gi|83724049|gb|EAP71228.1| Hypothetical Protein RRSL_00891 [Ralstonia solanacearum UW551]
 gi|206590416|emb|CAQ37378.1| hypothetical protein RSMK00071 [Ralstonia solanacearum MolK2]
 gi|206594954|emb|CAQ61881.1| hypothetical protein RSIPO_01735 [Ralstonia solanacearum IPO1609]
          Length = 113

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 36/92 (39%), Gaps = 2/92 (2%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P P+ + +GKR++  R     SQE L     +    +   E+G+       L +I   L 
Sbjct: 17  PAPISVALGKRVKQCRHAADKSQETLAFEALVDRTYISSIERGIANPSVETLANICHCLG 76

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
             +S  F  +P     ++       +  S P+
Sbjct: 77  VTLSELF--APLDGVSLAPTGKRRANAASPPE 106


>gi|219668525|ref|YP_002458960.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|219538785|gb|ACL20524.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 69

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R  L MSQE+L   +G+T Q +   E G           I + L   ++  F
Sbjct: 5  RLKAARAGLDMSQEQLAIAVGVTRQTIGMIEAGKFNPSLQLCIAICKALGKTLNDLF 61


>gi|302037010|ref|YP_003797332.1| hypothetical protein NIDE1672 [Candidatus Nitrospira defluvii]
 gi|300605074|emb|CBK41407.1| protein of unknown function, contains DNA binding
          helix-turn-helix motif [Candidatus Nitrospira defluvii]
          Length = 156

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/91 (26%), Positives = 41/91 (45%), Gaps = 6/91 (6%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +PN     VG  IR  R+    S++ L E  GI    ++  E       AS L+ ++  L
Sbjct: 1  MPN-----VGTFIRAWRISQKCSEQALAERAGIAASALEALESEQADPQASTLEALAGAL 55

Query: 67 ESPISFFFDVSPTVCSDISSEENNVMDFIST 97
          + P+ + F + PT    +  E++     +ST
Sbjct: 56 KIPLPWLF-IHPTDLDLLCKEDDEEPAPLST 85


>gi|291544080|emb|CBL17189.1| hypothetical protein RUM_10270 [Ruminococcus sp. 18P13]
          Length = 176

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 38/88 (43%), Gaps = 10/88 (11%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RIR  R + GM+Q+ LG  +G   +    ++ +YE G     A     ++ VL+ 
Sbjct: 1  MAIGERIRFIRNLKGMTQKWLGIAVGFPEKTADIRMAQYESGSRTPKAVLTGALANVLDV 60

Query: 69 PISFFFDVSPTVCSDISSEENNVMDFIS 96
                        DI SE   +  F +
Sbjct: 61 SP------LALSVPDIDSELGLMHTFFA 82


>gi|307726765|ref|YP_003909978.1| helix-turn-helix domain-containing protein [Burkholderia sp.
           CCGE1003]
 gi|307587290|gb|ADN60687.1| helix-turn-helix domain protein [Burkholderia sp. CCGE1003]
          Length = 212

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/77 (14%), Positives = 29/77 (37%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++I+  R    M+ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 35  VGEQIQRLRAERRMTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGVSLDSLF 94

Query: 75  DVSPTVCSDISSEENNV 91
               T  +   +  + +
Sbjct: 95  AAQKTPEAIAVAGPHEI 111


>gi|257792397|ref|YP_003183003.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|317490265|ref|ZP_07948753.1| hypothetical protein HMPREF1023_02453 [Eggerthella sp. 1_3_56FAA]
 gi|325833618|ref|ZP_08166067.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|257476294|gb|ACV56614.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|316910759|gb|EFV32380.1| hypothetical protein HMPREF1023_02453 [Eggerthella sp. 1_3_56FAA]
 gi|325485542|gb|EGC88011.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 83

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 28/66 (42%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N  ++ +  R++  R   G+SQ +L   +G++ Q +   E G+    A     +   L+ 
Sbjct: 15 NDGELELCNRLKAARAEAGLSQAELAGLVGVSRQTISSIETGLFNPTAKLALVLCIALDK 74

Query: 69 PISFFF 74
               F
Sbjct: 75 KFEDLF 80


>gi|154498504|ref|ZP_02036882.1| hypothetical protein BACCAP_02493 [Bacteroides capillosus ATCC
          29799]
 gi|150272572|gb|EDM99757.1| hypothetical protein BACCAP_02493 [Bacteroides capillosus ATCC
          29799]
          Length = 76

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/67 (31%), Positives = 32/67 (47%), Gaps = 2/67 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNR-VGASRLQHISEVLESPI 70
          I +G +I   R   G++QE L E +G +   V + E  G  R V    L  I++VL+ P 
Sbjct: 10 ITLGLKIAYYRKKAGLTQEVLAERIGKSVNFVGQVEGTGTIRGVSLETLFKIAQVLKIPP 69

Query: 71 SFFFDVS 77
          S   +  
Sbjct: 70 SKLLEDD 76


>gi|149021940|ref|ZP_01835927.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP23-BS72]
 gi|147929978|gb|EDK80966.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP23-BS72]
          Length = 299

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|42526813|ref|NP_971911.1| DNA-binding protein [Treponema denticola ATCC 35405]
 gi|41817128|gb|AAS11822.1| DNA-binding protein [Treponema denticola ATCC 35405]
          Length = 72

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 24/55 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R  R +  ++Q +L E LG+T Q +   E G   +       +SE+       F
Sbjct: 17 LRFYRTLNKLTQVQLAEKLGVTKQFISNMETGQKPISRKTAYLLSEIFGIDAGRF 71


>gi|325262886|ref|ZP_08129622.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
 gi|324031980|gb|EGB93259.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
          Length = 81

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G +IR  R +  ++QE++ + L +T Q +  YE G        L  I+++ +  + 
Sbjct: 6  IGCKIRALRKMNYLTQEQMAKKLNMTRQTLSNYELGKRIPDIFELIRIADLFQISLD 62


>gi|323691130|ref|ZP_08105410.1| hypothetical protein HMPREF9475_00271 [Clostridium symbiosum
          WAL-14673]
 gi|323504827|gb|EGB20609.1| hypothetical protein HMPREF9475_00271 [Clostridium symbiosum
          WAL-14673]
          Length = 130

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+R+RL R   G +QE + + +G T Q   +YE     +    L ++S        + 
Sbjct: 4  LGERLRLLREKNGKTQEDISKVIGTTQQIYSRYETNKTELPVRHLLNLSSYYNVSTDYL 62


>gi|307128188|ref|YP_003880219.1| transcriptional activator [Streptococcus pneumoniae 670-6B]
 gi|306485250|gb|ADM92119.1| transcriptional activator [Streptococcus pneumoniae 670-6B]
          Length = 299

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|307126394|ref|YP_003878425.1| XRE family transcriptional regulator [Streptococcus pneumoniae
           670-6B]
 gi|306483456|gb|ADM90325.1| transcriptional regulator, xre family [Streptococcus pneumoniae
           670-6B]
          Length = 271

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 3/88 (3%)

Query: 28  MSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISS 86
           MSQ +L E  GI  Q Q+ + E G    GA  L  +++ L+  + +FFD       +  S
Sbjct: 1   MSQRELAE--GICKQGQISRLESGEFTPGADFLHALAKKLKVSMDYFFDEQVVEKVEELS 58

Query: 87  EENNVMDFISTPDGLQLNRYFIQIDDVK 114
           E   +     T    +  +Y  ++++VK
Sbjct: 59  EFKKLAQTFITNRNYESLKYIYELENVK 86


>gi|295100758|emb|CBK98303.1| SOS-response transcriptional repressors (RecA-mediated
          autopeptidases) [Faecalibacterium prausnitzii L2-6]
          Length = 208

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 31/68 (45%), Gaps = 1/68 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFFF 74
          G  +  RR  LG++Q+++ E + ++   V ++E G    +   R+   ++ L++  SF  
Sbjct: 2  GNYLADRRKALGLTQKEIAELVDVSEATVSRWESGEIANMRRDRIAAYAKALKTTPSFIM 61

Query: 75 DVSPTVCS 82
                  
Sbjct: 62 TGDSADKE 69


>gi|257464929|ref|ZP_05629300.1| transcriptional regulator/helix-turn-helix domain-containing
          protein [Actinobacillus minor 202]
 gi|257450589|gb|EEV24632.1| transcriptional regulator/helix-turn-helix domain-containing
          protein [Actinobacillus minor 202]
          Length = 129

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 33/58 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +NV ++I+  R     SQE++ E + ++     + E+G  ++   +L+ I+++L+  I
Sbjct: 1  MNVNEKIKKLREAKEWSQEQMAEKMNMSLNGYARIERGETKLHLDKLEQIAQILDVDI 58


>gi|227540362|ref|ZP_03970411.1| XRE family transcriptional regulator [Sphingobacterium
          spiritivorum ATCC 33300]
 gi|227239686|gb|EEI89701.1| XRE family transcriptional regulator [Sphingobacterium
          spiritivorum ATCC 33300]
          Length = 138

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 1/58 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++G++I   R I G+ Q+ L   LG++ Q + K E+    V    L+ I+ VL   +
Sbjct: 10 AHLGRKISRIREIRGIKQDYLAIELGVSQQTISKIEQSE-EVEDLTLEKIAAVLGVTV 66


>gi|191638074|ref|YP_001987240.1| Repressor (Gp132 protein) [Lactobacillus casei BL23]
 gi|190712376|emb|CAQ66382.1| Repressor (Gp132 protein) [Lactobacillus casei BL23]
 gi|327385302|gb|AEA56776.1| Transcriptional regulator, XRE family [Lactobacillus casei BD-II]
          Length = 112

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/102 (22%), Positives = 44/102 (43%), Gaps = 9/102 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N G+RI L R     SQ +L + LGI    V  +E    +  +  L+ +S + +  I +
Sbjct: 1   MNTGQRISLLREKKHQSQAELAKTLGIAASTVGMWETNKRKPSSKMLKKLSVLYDVSIDY 60

Query: 73  FF------DVSPTVCSDISSEENNVMDFIST---PDGLQLNR 105
                   D +P+       + + +M F      P+ L++ +
Sbjct: 61  LLGNDSTTDKTPSEVDIADPKNDTIMTFEGRPIPPEDLEIIK 102


>gi|319424700|gb|ADV52774.1| helix-turn-helix domain protein [Shewanella putrefaciens 200]
          Length = 188

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/91 (15%), Positives = 37/91 (40%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +   ++  R   G S +K  +  G++   + + E+G +    + L  I+      +
Sbjct: 4   INSYLATTLKALRNQKGWSLDKAAQETGVSKAMIGQIERGESSPTIATLWKIASGFNISL 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
           S F + +P     +  + + +    +T   L
Sbjct: 64  STFLEPTPQSQGAVFRKPDELRQQPATDGML 94


>gi|189426312|ref|YP_001953489.1| XRE family transcriptional regulator [Geobacter lovleyi SZ]
 gi|189422571|gb|ACD96969.1| transcriptional regulator, XRE family [Geobacter lovleyi SZ]
          Length = 188

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 25/61 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G +I+  R+   ++ + +    G +   + + E        + L  I+   +  I  F
Sbjct: 6  NIGAKIKKLRLAKKLTLQAVARETGFSPALISQIENNNVSPPIATLSKIARFFDVKIGHF 65

Query: 74 F 74
          F
Sbjct: 66 F 66


>gi|86136966|ref|ZP_01055544.1| hypothetical protein MED193_14867 [Roseobacter sp. MED193]
 gi|85826290|gb|EAQ46487.1| hypothetical protein MED193_14867 [Roseobacter sp. MED193]
          Length = 140

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/106 (20%), Positives = 42/106 (39%), Gaps = 4/106 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+ + R  +G SQ  + E +G++ +    YEKG   +    L  + E  E  + +   
Sbjct: 13  GARLTIARNEIGFSQAAMAEAIGVSPRAYHSYEKGQRGMPVEALVAMGERFEVDVPWLLL 72

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
            + ++ +    E    ++         L    I+I   K R  I+ 
Sbjct: 73  GTKSIRAGHDFEALKHIESSLDKH---LTDEGIKIKSEK-RGAIVA 114


>gi|291530080|emb|CBK95665.1| Helix-turn-helix [Eubacterium siraeum 70/3]
          Length = 134

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/72 (16%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPISFFFD 75
          ++++  R   G+ Q++  + +G++ + V  YE G            ++EVL+  +++   
Sbjct: 5  EKVKEARTKAGLKQDEFAKAIGVSLRTVSNYEAGTRYPKKRETYYKMAEVLKVDVNYLLT 64

Query: 76 VSPTVCSDISSE 87
                 +  S+
Sbjct: 65 DDEEFLLNAESK 76


>gi|258538334|ref|YP_003172833.1| transcriptional regulator xre family [Lactobacillus rhamnosus Lc
          705]
 gi|257150010|emb|CAR88982.1| Transcriptional regulator, xre family [Lactobacillus rhamnosus Lc
          705]
          Length = 202

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 25/59 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N  K+++  R+   M+Q  L + L ++   V  +E   N      +  I+ +    + 
Sbjct: 1  MNFSKQLQQIRIAHSMTQADLAQQLHVSRHTVSNWENERNLPDLETVTQIARIFSVSLD 59


>gi|237797760|ref|ZP_04586221.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. oryzae str. 1_6]
 gi|331020610|gb|EGI00667.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. oryzae str. 1_6]
          Length = 182

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  +  P   + +  + + ++D       ++L 
Sbjct: 58  MVEFFSEETVPENAAQVVYKASELIDISDGAVTMKLV 94


>gi|149925664|ref|ZP_01913928.1| transcriptional regulator, XRE family protein [Limnobacter sp.
          MED105]
 gi|149825781|gb|EDM84989.1| transcriptional regulator, XRE family protein [Limnobacter sp.
          MED105]
          Length = 93

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/52 (36%), Positives = 30/52 (57%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          IR RR  LG++Q++LGE LGI  + V   EK    +  +RL  + + L+  +
Sbjct: 15 IRTRRRELGLTQKQLGERLGIDQRTVSSLEKNPGSISVNRLFAVLDALQVSL 66


>gi|148544879|ref|YP_001272249.1| ABC transporter related [Lactobacillus reuteri DSM 20016]
 gi|184154216|ref|YP_001842557.1| ABC transporter ATP-binding component [Lactobacillus reuteri JCM
          1112]
 gi|227364019|ref|ZP_03848119.1| ABC superfamily ATP binding cassette transporter ATPase
          [Lactobacillus reuteri MM2-3]
 gi|325683224|ref|ZP_08162740.1| ABC superfamily ATP binding cassette transporter ABC protein
          [Lactobacillus reuteri MM4-1A]
 gi|148531913|gb|ABQ83912.1| ABC transporter related [Lactobacillus reuteri DSM 20016]
 gi|183225560|dbj|BAG26077.1| ABC transporter ATP-binding component [Lactobacillus reuteri JCM
          1112]
 gi|227070941|gb|EEI09264.1| ABC superfamily ATP binding cassette transporter ATPase
          [Lactobacillus reuteri MM2-3]
 gi|324977574|gb|EGC14525.1| ABC superfamily ATP binding cassette transporter ABC protein
          [Lactobacillus reuteri MM4-1A]
          Length = 293

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 24/54 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++   R    +SQ +L   L ++ Q V K+E G       +L  +++V    + 
Sbjct: 8  QLLKLRTEKQLSQAELATRLFVSRQAVSKWENGDAEPSIDKLILLAKVFNVSLD 61


>gi|138895235|ref|YP_001125688.1| PbsX family transcriptional regulator [Geobacillus
          thermodenitrificans NG80-2]
 gi|196248177|ref|ZP_03146878.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
 gi|134266748|gb|ABO66943.1| Transcriptional regulator PBSX family [Geobacillus
          thermodenitrificans NG80-2]
 gi|196211902|gb|EDY06660.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
          Length = 67

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +++ R+   ++Q++L E +G+T Q +   EKG           I   L   +   F
Sbjct: 3  NNLKVARIQANLTQQQLAEKVGVTRQTISLIEKGKYNPTLKLCLEICYALNKTLDEIF 60


>gi|126641560|ref|YP_001084544.1| hypothetical protein A1S_1515 [Acinetobacter baumannii ATCC 17978]
 gi|184157878|ref|YP_001846217.1| transcriptional regulator [Acinetobacter baumannii ACICU]
 gi|239502244|ref|ZP_04661554.1| transcriptional regulator [Acinetobacter baumannii AB900]
 gi|332872520|ref|ZP_08440490.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
           6014059]
 gi|126387444|gb|ABO11942.1| hypothetical protein A1S_1515 [Acinetobacter baumannii ATCC 17978]
 gi|183209472|gb|ACC56870.1| predicted transcriptional regulator [Acinetobacter baumannii ACICU]
 gi|238685471|gb|ACR54771.1| predicted transcriptional regulator [Acinetobacter genomosp. 13TU]
 gi|255076973|gb|ACU00285.1| transcriptional regulator [Acinetobacter baumannii]
 gi|322508196|gb|ADX03650.1| Putative uncharacterized protein [Acinetobacter baumannii 1656-2]
 gi|323517283|gb|ADX91664.1| transcriptional regulator [Acinetobacter baumannii TCDC-AB0715]
 gi|323517795|gb|ADX92176.1| transcriptional regulator [Acinetobacter baumannii TCDC-AB0715]
 gi|332739326|gb|EGJ70183.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
           6014059]
          Length = 197

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 35/92 (38%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + ++I +  RIR  R+  G + + L     ++   +   E+G     A  L+ ++  LE 
Sbjct: 2   DDINIRIAHRIRELRLARGYTLDVLAARCQVSRSAISLIERGETSPTAVVLEKLANGLEV 61

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           P++  F       S       N       P+ 
Sbjct: 62  PLTQIFTNEAGNSSSQPLIRRNEQAEWRDPET 93


>gi|159036046|ref|YP_001535299.1| XRE family transcriptional regulator [Salinispora arenicola
          CNS-205]
 gi|157914881|gb|ABV96308.1| transcriptional regulator, XRE family [Salinispora arenicola
          CNS-205]
          Length = 191

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 5/69 (7%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   K +PN     +G  IR  R    +S  +L E  G++   + + E+G+ +  A  LQ
Sbjct: 1  MATGKDLPN-----IGGFIRDLRRNAKISLRQLSEQAGVSNPYLSQIERGLRKPSAEVLQ 55

Query: 61 HISEVLESP 69
           ++  L   
Sbjct: 56 QLASALRVS 64


>gi|78067667|ref|YP_370436.1| XRE family transcriptional regulator [Burkholderia sp. 383]
 gi|77968412|gb|ABB09792.1| transcriptional regulator, XRE family [Burkholderia sp. 383]
          Length = 104

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/59 (35%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VGK IR+RR+ L +SQE L     I    + K E+G   V    L  I+  L    S
Sbjct: 38 KEVGKAIRVRRLELDISQETLAHLANIDRSHMGKIERGERNVTLLNLLKIARALSCRPS 96


>gi|327402685|ref|YP_004343523.1| helix-turn-helix domain-containing protein [Fluviicola taffensis
          DSM 16823]
 gi|327318193|gb|AEA42685.1| helix-turn-helix domain protein [Fluviicola taffensis DSM 16823]
          Length = 86

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 29/76 (38%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N  D   G+ I+ +R  L  +Q  L E +   FQ + + E+G        +  +++    
Sbjct: 4  NEFDSLFGEFIKQKRKSLNWTQNDLAEKINNDFQNISRLERGEVSPSIFWISELAKGFGC 63

Query: 69 PISFFFDVSPTVCSDI 84
           +           S+I
Sbjct: 64 SLGELMTEFDAFVSNI 79


>gi|325527286|gb|EGD04653.1| helix-turn-helix domain-containing protein [Burkholderia sp.
          TJI49]
          Length = 84

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/61 (32%), Positives = 29/61 (47%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+   +  RIR+ R   G+SQE   E  GI    V   E+G   V  S L+  + V+  P
Sbjct: 13 PLKAILATRIRVYRQEHGLSQEDFAELCGIHRTYVGSVERGERNVTLSTLEVFASVMGIP 72

Query: 70 I 70
          +
Sbjct: 73 V 73


>gi|322412543|gb|EFY03451.1| prophage Sa05, DNA-binding protein [Streptococcus dysgalactiae
          subsp. dysgalactiae ATCC 27957]
          Length = 109

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 10/57 (17%), Positives = 30/57 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R    +SQ+++   L +  +  Q++E G +++   + Q +++  E  +++ 
Sbjct: 2  NRLKELRQEKKLSQKEIALELQVPPRTYQRWENGESQIKPDKAQDLADYFEVTVAYL 58


>gi|295110793|emb|CBL24746.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 104

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 31/60 (51%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + N+ K +   R    +SQE+  E +G+T Q V ++E GV+    + L  ISE    P+ 
Sbjct: 8  NQNIAKAVLKIRQDNKLSQEQFAEMVGVTRQAVSRWEMGVSVPNINTLILISEKFAIPVD 67


>gi|262273102|ref|ZP_06050919.1| hypothetical transcriptional regulator [Grimontia hollisae CIP
           101886]
 gi|262222858|gb|EEY74166.1| hypothetical transcriptional regulator [Grimontia hollisae CIP
           101886]
          Length = 123

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 42/109 (38%), Gaps = 10/109 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             V KRI+  R   G++Q K+ + L +  Q     E G        L  I+E+ E P+ +
Sbjct: 6   AQVAKRIKEAREWKGITQVKMAKLLQVARQTYLDIETGKTEPRVRMLSEIAEITERPLVW 65

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           F              +  + D     D  +L  +F ++   + R  I+ 
Sbjct: 66  FV---------YGDADVELHDVQYKQDVNRLLEHFSKLP-HEARTAILN 104


>gi|257486009|ref|ZP_05640050.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. tabaci ATCC 11528]
 gi|289625938|ref|ZP_06458892.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aesculi str. NCPPB3681]
 gi|289646848|ref|ZP_06478191.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aesculi str. 2250]
 gi|320323588|gb|EFW79672.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. glycinea str. B076]
 gi|320328221|gb|EFW84225.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. glycinea str. race 4]
 gi|330868810|gb|EGH03519.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aesculi str. 0893_23]
 gi|330986067|gb|EGH84170.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. lachrymans str. M301315]
 gi|331010372|gb|EGH90428.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. tabaci ATCC 11528]
          Length = 201

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 11/101 (10%)

Query: 8   PNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  + +
Sbjct: 7   PHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRLCD 66

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           VL  P+S  F       S            +   +GL++ R
Sbjct: 67  VLGMPMSKLFSQYDQQGSSAL--------LVKADEGLEVVR 99


>gi|213971279|ref|ZP_03399395.1| DNA-binding protein [Pseudomonas syringae pv. tomato T1]
 gi|301385049|ref|ZP_07233467.1| DNA-binding protein [Pseudomonas syringae pv. tomato Max13]
 gi|302059128|ref|ZP_07250669.1| DNA-binding protein [Pseudomonas syringae pv. tomato K40]
 gi|302131456|ref|ZP_07257446.1| DNA-binding protein [Pseudomonas syringae pv. tomato NCPPB 1108]
 gi|213923924|gb|EEB57503.1| DNA-binding protein [Pseudomonas syringae pv. tomato T1]
 gi|330876283|gb|EGH10432.1| DNA-binding protein [Pseudomonas syringae pv. morsprunorum str.
           M302280PT]
 gi|330958714|gb|EGH58974.1| DNA-binding protein [Pseudomonas syringae pv. maculicola str.
           ES4326]
 gi|330966976|gb|EGH67236.1| DNA-binding protein [Pseudomonas syringae pv. actinidiae str.
           M302091]
          Length = 201

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/103 (18%), Positives = 37/103 (35%), Gaps = 11/103 (10%)

Query: 6   KIPNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
             P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  +
Sbjct: 5   NEPHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRL 64

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            +VL  P+S  F       S            +   +GL++ R
Sbjct: 65  CDVLGMPMSKLFSQYDQQGSSAL--------LVKADEGLEVVR 99


>gi|54308516|ref|YP_129536.1| hypothetical protein PBPRA1323 [Photobacterium profundum SS9]
 gi|46912945|emb|CAG19734.1| hypothetical protein PBPRA1323 [Photobacterium profundum SS9]
          Length = 401

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R+   R  LG+++  L   + ++   V  +E G       +LQ +S  L  P+ +F
Sbjct: 11 NRLTQARESLGLTKVALATLVNVSGATVTNWENGKQNPQGDKLQALSIALGQPVHWF 67


>gi|41057317|ref|NP_958215.1| gene 40 protein [Enterobacteria phage Sf6]
 gi|191165481|ref|ZP_03027322.1| conserved domain protein [Escherichia coli B7A]
 gi|194429702|ref|ZP_03062219.1| conserved domain protein [Escherichia coli B171]
 gi|291281105|ref|YP_003497923.1| gene 40 protein [Escherichia coli O55:H7 str. CB9615]
 gi|300898213|ref|ZP_07116569.1| helix-turn-helix protein [Escherichia coli MS 198-1]
 gi|331678335|ref|ZP_08379010.1| repressor protein CI [Escherichia coli H591]
 gi|132193|sp|P03036|RCRO_BP434 RecName: Full=Regulatory protein cro; AltName: Full=Antirepressor
 gi|230833|pdb|3CRO|L Chain L, The Phage 434 CroOR1 COMPLEX AT 2.5 ANGSTROMS RESOLUTION
 gi|230834|pdb|3CRO|R Chain R, The Phage 434 CroOR1 COMPLEX AT 2.5 ANGSTROMS RESOLUTION
 gi|157834420|pdb|1ZUG|A Chain A, Structure Of Phage 434 Cro Protein, Nmr, 20 Structures
 gi|157834766|pdb|2CRO|A Chain A, Structure Of Phage 434 Cro Protein At 2.35 Angstroms
          Resolution
 gi|14989|emb|CAA23908.1| unnamed protein product [Phage 434]
 gi|215174|gb|AAA32245.1| cro [Enterobacteria phage lambda]
 gi|33334196|gb|AAQ12229.1| gene 40 protein [Shigella phage Sf6]
 gi|190904404|gb|EDV64112.1| conserved domain protein [Escherichia coli B7A]
 gi|194412261|gb|EDX28566.1| conserved domain protein [Escherichia coli B171]
 gi|290760978|gb|ADD54939.1| gene 40 protein [Escherichia coli O55:H7 str. CB9615]
 gi|300358090|gb|EFJ73960.1| helix-turn-helix protein [Escherichia coli MS 198-1]
 gi|324019901|gb|EGB89120.1| helix-turn-helix protein [Escherichia coli MS 117-3]
 gi|325497800|gb|EGC95659.1| gene 40 protein [Escherichia fergusonii ECD227]
 gi|331074795|gb|EGI46115.1| repressor protein CI [Escherichia coli H591]
          Length = 71

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++ RR+ L M+Q +L    G+  Q +Q  E GV +     L  I+  L     + 
Sbjct: 4  LSERLKKRRIALKMTQTELATKAGVKQQSIQLIEAGVTK-RPRFLFEIAMALNCDPVWL 61


>gi|322372760|ref|ZP_08047296.1| toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. C150]
 gi|321277802|gb|EFX54871.1| toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. C150]
          Length = 113

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/82 (17%), Positives = 36/82 (43%), Gaps = 4/82 (4%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           I+  R+  G++Q ++ E LG+   Q  ++E G        ++ ++E+L +     F++ 
Sbjct: 5  NIKKARLDAGLTQLEVAEKLGVAQAQYARWENGGRNPKDDTVEKLAEILNTS----FEIL 60

Query: 78 PTVCSDISSEENNVMDFISTPD 99
                +    + + +   T +
Sbjct: 61 KGRDDGLEEIVSLLREHELTEE 82


>gi|291525427|emb|CBK91014.1| Helix-turn-helix [Eubacterium rectale DSM 17629]
          Length = 112

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 38/80 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++GK IR  R+   ++QE+L E    +   + + E+G +++  S L  I   L+   + 
Sbjct: 8  KHIGKIIRFYRLKNNLTQEQLSEYADCSCGFIGQIERGESKISLSVLSKIINTLKIDANE 67

Query: 73 FFDVSPTVCSDISSEENNVM 92
           F  + T  S+    +N + 
Sbjct: 68 LFWGTDTHTSESQQLDNQIA 87


>gi|302524912|ref|ZP_07277254.1| DNA-binding protein [Streptomyces sp. AA4]
 gi|302433807|gb|EFL05623.1| DNA-binding protein [Streptomyces sp. AA4]
          Length = 474

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 36/109 (33%), Gaps = 15/109 (13%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R    MSQ  L   L I+   + + E     +    L  I++       FF  
Sbjct: 7   GARLRHLRESRSMSQADLARVLEISPSYLNQIEHNSRPLTVPVLLRITQAFGVDTEFF-- 64

Query: 76  VSPTVCSDISSEENNVMDFI---------STPDGLQLNRYFIQIDDVKV 115
                 +D S    +V + +         +T +  +L      I    V
Sbjct: 65  ----ANNDTSQLVADVKEALLDEAVGVEATTSELNELASNLPSIAQALV 109


>gi|229008865|ref|ZP_04166231.1| Transcriptional regulator, Cro/CI [Bacillus mycoides Rock1-4]
 gi|228752405|gb|EEM02067.1| Transcriptional regulator, Cro/CI [Bacillus mycoides Rock1-4]
          Length = 78

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++   R++  MSQ+ L + +G++ Q +   EK            I+   E  I+  F
Sbjct: 11 NKVYEHRVLRRMSQKDLADAVGVSKQTIFVMEKNNYSPSLVLAYRIANYFEVDINEIF 68


>gi|224583902|ref|YP_002637700.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Paratyphi C strain RKS4594]
 gi|224468429|gb|ACN46259.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Paratyphi C strain RKS4594]
          Length = 185

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 19 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSVF--ISP 76

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 77 PQAEFPPTFDPQQQAMVITP 96


>gi|188492926|ref|ZP_03000196.1| conserved hypothetical protein [Escherichia coli 53638]
 gi|188488125|gb|EDU63228.1| conserved hypothetical protein [Escherichia coli 53638]
          Length = 110

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 45/96 (46%), Gaps = 11/96 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +R++  R   G+SQ  LG  +G        ++  YEKG +      L+ ++  L  P+++
Sbjct: 9   ERLKEARCRAGLSQRSLGLLVGFDPASASSRMNHYEKGRHVPDIDTLRRMAAELNVPLNY 68

Query: 73  FF-------DVSPTVCSDISSEENNVMDFISTPDGL 101
           FF       +++  +      E +N+++ + T  G+
Sbjct: 69  FFCDDQTTAELALLISRMTEEERSNLIEALKTSSGV 104


>gi|168241154|ref|ZP_02666086.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Heidelberg str. SL486]
 gi|194450448|ref|YP_002045645.1| XRE family transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Heidelberg str. SL476]
 gi|194408752|gb|ACF68971.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Heidelberg str. SL476]
 gi|205339362|gb|EDZ26126.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar Heidelberg str. SL486]
          Length = 178

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSVF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|206974896|ref|ZP_03235811.1| DNA-binding protein [Bacillus cereus H3081.97]
 gi|206746915|gb|EDZ58307.1| DNA-binding protein [Bacillus cereus H3081.97]
          Length = 403

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECEPSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDEGKIVEL 72


>gi|116695851|ref|YP_841427.1| anaerobic benzoate catabolism transcriptional regulator
          [Ralstonia eutropha H16]
 gi|113530350|emb|CAJ96697.1| Transcriptional Regulator [Ralstonia eutropha H16]
          Length = 320

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 34/70 (48%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            N    NP  + +G+R+R  R   G++++   +  G++ + +   E G        LQH
Sbjct: 25 AANGTDKNPFLVALGERVRELRACRGLTRKAAAQAAGVSERHLANLEYGSGNASILVLQH 84

Query: 62 ISEVLESPIS 71
          I++ L+  ++
Sbjct: 85 IADALQCSLA 94


>gi|87199050|ref|YP_496307.1| XRE family transcriptional regulator [Novosphingobium
           aromaticivorans DSM 12444]
 gi|87134731|gb|ABD25473.1| transcriptional regulator, XRE family [Novosphingobium
           aromaticivorans DSM 12444]
          Length = 464

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/114 (15%), Positives = 43/114 (37%), Gaps = 16/114 (14%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G R++  R  LG++Q+ + E LGI+   +   E+    + A  L  ++   +     
Sbjct: 6   LYLGPRLKRIRRELGLTQQAMAEELGISPSYIALIERNQRPLTADLLLRLARAYK----- 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP----------DGLQLNRYFIQIDDVKVR 116
             D++     +       + D +  P          +   +   F  + +  +R
Sbjct: 61  -LDMADLAADERDDYARRLSDALRDPIFSDIDLPALEVADVAASFPGVTEAMLR 113


>gi|62180172|ref|YP_216589.1| putative oxidoreductase [Salmonella enterica subsp. enterica
          serovar Choleraesuis str. SC-B67]
 gi|62127805|gb|AAX65508.1| putative oxidoreductase/putative repressor [Salmonella enterica
          subsp. enterica serovar Choleraesuis str. SC-B67]
 gi|322714645|gb|EFZ06216.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Choleraesuis str. A50]
          Length = 178

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSVF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|16764949|ref|NP_460564.1| repressor [Salmonella enterica subsp. enterica serovar
          Typhimurium str. LT2]
 gi|167992775|ref|ZP_02573871.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar 4,[5],12:i:- str. CVM23701]
 gi|16420129|gb|AAL20523.1| putative oxidoreductase [Salmonella enterica subsp. enterica
          serovar Typhimurium str. LT2]
 gi|205329040|gb|EDZ15804.1| transcriptional regulator, XRE family [Salmonella enterica subsp.
          enterica serovar 4,[5],12:i:- str. CVM23701]
 gi|261246798|emb|CBG24612.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Typhimurium str. D23580]
 gi|267993529|gb|ACY88414.1| putative repressor [Salmonella enterica subsp. enterica serovar
          Typhimurium str. 14028S]
 gi|301158133|emb|CBW17630.1| putative DNA-binding protein [Salmonella enterica subsp. enterica
          serovar Typhimurium str. SL1344]
 gi|312912593|dbj|BAJ36567.1| putative repressor protein [Salmonella enterica subsp. enterica
          serovar Typhimurium str. T000240]
 gi|321224229|gb|EFX49292.1| Transcriptional regulator yidN, Cro/CI family [Salmonella
          enterica subsp. enterica serovar Typhimurium str.
          TN061786]
 gi|323129874|gb|ADX17304.1| putative repressor [Salmonella enterica subsp. enterica serovar
          Typhimurium str. 4/74]
 gi|332988492|gb|AEF07475.1| putative repressor [Salmonella enterica subsp. enterica serovar
          Typhimurium str. UK-1]
          Length = 178

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRTLRHQRGWSLSRLAEISGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSVF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PQAEFPPTFDPQQQAMVITP 89


>gi|54024251|ref|YP_118493.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
 gi|54015759|dbj|BAD57129.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
          Length = 287

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 27/70 (38%), Gaps = 1/70 (1%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M    K P   D  VG  +R  R    +SQ  L      + + +   E G +R   + + 
Sbjct: 1  MAATSKRP-VTDSRVGALLREWRQRRRLSQLDLALLADTSARHLSYVETGRSRPSRAMVL 59

Query: 61 HISEVLESPI 70
           +   L+ P+
Sbjct: 60 RLCAALDVPL 69


>gi|300312210|ref|YP_003776302.1| XRE family transcription regulator protein [Herbaspirillum
          seropedicae SmR1]
 gi|300074995|gb|ADJ64394.1| XRE family transcription regulator protein [Herbaspirillum
          seropedicae SmR1]
          Length = 96

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 32/77 (41%), Gaps = 2/77 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS- 71
          +N+G  I+L R+  G+SQ  L E    +   +   E        S ++ I+  L  PI  
Sbjct: 1  MNLGSAIQLCRVKQGLSQSALAEKANCSVSYLSMLENSKRDPTLSTIKSIAGALGVPIEI 60

Query: 72 -FFFDVSPTVCSDISSE 87
           FF        + I+ +
Sbjct: 61 LFFLGADEGELAGINKD 77


>gi|299534219|ref|ZP_07047570.1| transcriptional regulator, XRE family protein [Comamonas
           testosteroni S44]
 gi|298717866|gb|EFI58872.1| transcriptional regulator, XRE family protein [Comamonas
           testosteroni S44]
          Length = 490

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/123 (17%), Positives = 53/123 (43%), Gaps = 14/123 (11%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R   G++Q  L + L ++   + + E+    +  + L  I  VL   I  F  
Sbjct: 2   GVRLRSLRAERGLTQAALAQALELSPSYLNQIEQDQRPLTVAVLLKIHRVLGVDIQQF-- 59

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ---KIIELVRSIVSSEKK 132
            S    + + ++  + +  +  P+G         +   ++R+   K+ +L + +++  ++
Sbjct: 60  -SEDEEARLLAQLRDAVAAMPQPEG--------SVPLPELREVAAKLPQLAQMLLAMHQR 110

Query: 133 YRT 135
           +  
Sbjct: 111 HLA 113


>gi|295697360|ref|YP_003590598.1| transcriptional regulator, XRE family [Bacillus tusciae DSM 2912]
 gi|295412962|gb|ADG07454.1| transcriptional regulator, XRE family [Bacillus tusciae DSM 2912]
          Length = 70

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R   GM+  +L E  G++   +   E G       +L  I+  LE  ++   +
Sbjct: 8  GERLKELRRERGMTVRELAEKAGVSQSYIYAVEAGTRGSRVGKLIKIARALEVDLAALVE 67

Query: 76 VSP 78
            P
Sbjct: 68 DEP 70


>gi|300774987|ref|ZP_07084850.1| XRE family transcriptional regulator [Chryseobacterium gleum ATCC
          35910]
 gi|300506802|gb|EFK37937.1| XRE family transcriptional regulator [Chryseobacterium gleum ATCC
          35910]
          Length = 123

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 35/78 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +++  R     SQ ++   L I+     K+E    +    +L  I+EV E  I  
Sbjct: 1  MSLGTKLKQLRQRNNWSQAEVAYKLDISQPAYNKWESDQGKPSLDKLGKIAEVFEIEIQD 60

Query: 73 FFDVSPTVCSDISSEENN 90
           F+    V    ++ EN+
Sbjct: 61 LFESEGNVIISNNTFENS 78


>gi|164686153|ref|ZP_02210183.1| hypothetical protein CLOBAR_02591 [Clostridium bartlettii DSM
          16795]
 gi|164601755|gb|EDQ95220.1| hypothetical protein CLOBAR_02591 [Clostridium bartlettii DSM
          16795]
          Length = 183

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ +R  R  LG+S ++  +  G++   + + E+G +    S L  IS  L+   +   
Sbjct: 8  VGQNLRRLRNSLGLSLDEASKLTGVSKAMLGQIERGESSPTISTLWKISSGLKVNFTSLL 67

Query: 75 DVS 77
          D  
Sbjct: 68 DDE 70


>gi|160934666|ref|ZP_02082052.1| hypothetical protein CLOLEP_03539 [Clostridium leptum DSM 753]
 gi|156866119|gb|EDO59491.1| hypothetical protein CLOLEP_03539 [Clostridium leptum DSM 753]
          Length = 124

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 26/58 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G  ++  R    ++Q+ L + LG+T + +  YE G        +  ++E  +  + + 
Sbjct: 6  GAILQELRKDHKITQKDLADILGVTSKTISNYETGSQFPDLLIIIKLAEYFDVNMDYL 63


>gi|323483371|ref|ZP_08088759.1| hypothetical protein HMPREF9474_00508 [Clostridium symbiosum
          WAL-14163]
 gi|323403225|gb|EGA95535.1| hypothetical protein HMPREF9474_00508 [Clostridium symbiosum
          WAL-14163]
          Length = 130

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+R+RL R   G +QE + + +G T Q   +YE     +    L ++S        + 
Sbjct: 4  LGERLRLLREKNGKTQEDISKVIGTTQQIYSRYETNKTELPVRHLLNLSSYYNVSTDYL 62


>gi|331647421|ref|ZP_08348513.1| putative regulator [Escherichia coli M605]
 gi|331043145|gb|EGI15283.1| putative regulator [Escherichia coli M605]
          Length = 139

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/106 (23%), Positives = 39/106 (36%), Gaps = 13/106 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFF 73
           +  R++ RR  LG+SQ KL E  G T  ++  YE G   VG      + + L   P    
Sbjct: 17  IAMRLKERRQKLGLSQGKLAEICGWTQSRIGNYEAGSRNVGVHDAVVLGKALGISPPELL 76

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
           F             E    +        +L   F Q+   + ++ I
Sbjct: 77  FG------------EQESSELWLNESQRKLLELFNQLPGSEQQRMI 110


>gi|269976764|ref|ZP_06183739.1| putative transcriptional regulator [Mobiluncus mulieris 28-1]
 gi|269934961|gb|EEZ91520.1| putative transcriptional regulator [Mobiluncus mulieris 28-1]
          Length = 69

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 26/65 (40%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I   R    +SQE+LG  +G+T Q +   E G           I+   +  I   FD +
Sbjct: 4  KIPQLRKERKLSQEELGTAVGVTRQTITSIETGKYVASLPLAYKIAHYFDRTIEDVFDFT 63

Query: 78 PTVCS 82
              S
Sbjct: 64 NLEES 68


>gi|182440037|ref|YP_001827756.1| putative transcriptional regulator [Streptomyces griseus subsp.
           griseus NBRC 13350]
 gi|326780706|ref|ZP_08239971.1| Cupin 2 conserved barrel domain protein [Streptomyces cf. griseus
           XylebKG-1]
 gi|178468553|dbj|BAG23073.1| putative transcriptional regulator [Streptomyces griseus subsp.
           griseus NBRC 13350]
 gi|326661039|gb|EGE45885.1| Cupin 2 conserved barrel domain protein [Streptomyces cf. griseus
           XylebKG-1]
          Length = 190

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 10/84 (11%), Positives = 28/84 (33%), Gaps = 2/84 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R   G + + L    G++   + + E+            +++ L   I+   D 
Sbjct: 13  RNLKRWRGERGFTLDALAARAGVSRGMIIQIEQARTNPSVGTTVKLADALGVSITTLLDH 72

Query: 77  SPTVCSDISSEENNVMDFISTPDG 100
                  +  E   V   + + + 
Sbjct: 73  EEGAQVRLVPESRAVR--MWSTEA 94


>gi|164688731|ref|ZP_02212759.1| hypothetical protein CLOBAR_02378 [Clostridium bartlettii DSM
           16795]
 gi|164602207|gb|EDQ95672.1| hypothetical protein CLOBAR_02378 [Clostridium bartlettii DSM
           16795]
          Length = 115

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 32/59 (54%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +  ++G+ ++  R+   M+QE + E +G++ Q V K+E G +    S L  ++++    
Sbjct: 48  IRKSLGEVLKENRIRCKMTQEFVSESIGVSRQAVSKWENGASDPSTSNLLALAKLYGIS 106


>gi|306821502|ref|ZP_07455104.1| cro/CI family transcriptional regulator [Eubacterium yurii subsp.
          margaretiae ATCC 43715]
 gi|304550460|gb|EFM38449.1| cro/CI family transcriptional regulator [Eubacterium yurii subsp.
          margaretiae ATCC 43715]
          Length = 73

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/62 (17%), Positives = 25/62 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  ++   R + G++QE+  + L ++ Q +   E G           I+      I  
Sbjct: 1  MHLKNKLDELRKLKGLTQEEFAKKLRVSRQTISAIENGKYNPSLDLAFEIAIYFNKTIEE 60

Query: 73 FF 74
           F
Sbjct: 61 IF 62


>gi|300690029|ref|YP_003751024.1| transcription regulator protein [Ralstonia solanacearum PSI07]
 gi|299077089|emb|CBJ49709.1| putative transcription regulator protein [Ralstonia solanacearum
          PSI07]
          Length = 113

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 29/78 (37%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +   P P+   +G+RI+  R     SQE L     +    +   E+G+       L +I 
Sbjct: 13 STSRPAPILTALGERIKQCRHAADKSQETLAFEAHVDRTYISSIERGIANPSVETLANIC 72

Query: 64 EVLESPISFFFDVSPTVC 81
            L   ++  F     V 
Sbjct: 73 YALNVTLAELFGPMDGVS 90


>gi|300118308|ref|ZP_07056055.1| transcriptional regulator [Bacillus cereus SJ1]
 gi|298724277|gb|EFI64972.1| transcriptional regulator [Bacillus cereus SJ1]
          Length = 373

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 25/53 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I 
Sbjct: 10 IADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISID 62


>gi|297198022|ref|ZP_06915419.1| regulatory protein [Streptomyces sviceus ATCC 29083]
 gi|297146969|gb|EFH28433.1| regulatory protein [Streptomyces sviceus ATCC 29083]
          Length = 190

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 31/81 (38%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           + V   VG R+R  R    ++   L E  GI+   + + E G+ +     L  I++  +
Sbjct: 3  TDDVLAEVGPRLRRLRKDREVTLAALSETTGISVSTLSRLESGLRKPSLELLLPIAQAHQ 62

Query: 68 SPISFFFDVSPTVCSDISSEE 88
           P+       P     + S  
Sbjct: 63 VPLDELVGAPPVGDPRVRSAP 83


>gi|291544231|emb|CBL17340.1| Helix-turn-helix [Ruminococcus sp. 18P13]
          Length = 162

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 34/61 (55%), Gaps = 4/61 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RIR  R + GM+Q+ LG  +G + +    ++ +YE G     A  ++ +++ L+ 
Sbjct: 1  MAIGERIRFIRNLRGMTQKFLGLQVGFSERTADIRMAQYESGSRTPKADLVELLADALDV 60

Query: 69 P 69
           
Sbjct: 61 S 61


>gi|238894650|ref|YP_002919384.1| hypothetical protein KP1_2654 [Klebsiella pneumoniae NTUH-K2044]
 gi|238546966|dbj|BAH63317.1| conserved hypothetical protein [Klebsiella pneumoniae subsp.
           pneumoniae NTUH-K2044]
          Length = 190

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/100 (19%), Positives = 42/100 (42%), Gaps = 18/100 (18%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +++  R+    SQE+L E  G++ + +Q+ E G  R G   L  ++ V E  ++   ++
Sbjct: 35  NQVKQLRLQRAWSQEQLAEMAGLSVRTIQRIENGE-RPGLETLSALAAVFEVTVA---EI 90

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
                 + +  +   +D               +I++ K R
Sbjct: 91  GGEARREDAPGQEASLDL--------------RIEEAKAR 116


>gi|207743919|ref|YP_002260311.1| helix-turn-helix domain transcription regulator protein [Ralstonia
           solanacearum IPO1609]
 gi|206595321|emb|CAQ62248.1| probable helix-turn-helix domain transcription regulator protein
           [Ralstonia solanacearum IPO1609]
          Length = 118

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/118 (20%), Positives = 50/118 (42%), Gaps = 18/118 (15%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            ++G+ +  RR   G++Q+++ E L I  + V + E+G+      RL  ++EV E  I  
Sbjct: 13  KSIGRTLAQRREAKGLTQDQVAEALHIGTEAVSRMERGITMPTVQRLAELAEVYECGID- 71

Query: 73  FFDVSPTVCSDISSEENNVMDFIST-PDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
             ++     +    +   +   + T P+                R  I+E+V+ I + 
Sbjct: 72  --ELLIASSTRTGDQAELISQILHTLPEA--------------DRAMIVEVVQRIAAR 113


>gi|168204638|ref|ZP_02630643.1| cI2009 [Clostridium perfringens E str. JGS1987]
 gi|170663751|gb|EDT16434.1| cI2009 [Clostridium perfringens E str. JGS1987]
          Length = 78

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          NVG  I+ RR+  G S ++L +  G+  + +   E G+N+   + L  +S      I 
Sbjct: 15 NVGTNIKRRRLKKGWSLKQLSKKSGVGIKTINDIELGINKPSKNTLYKLSRTFGITID 72


>gi|188991259|ref|YP_001903269.1| putative regulatory protein. [Xanthomonas campestris pv.
          campestris str. B100]
 gi|167733019|emb|CAP51217.1| putative regulatory protein [Xanthomonas campestris pv.
          campestris]
          Length = 91

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 29/79 (36%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K +P    +  G R+   R   G+SQE+L    G+    +   E+G   +    +  ++E
Sbjct: 11 KAMPTDPRVLFGLRLAEVRKAKGLSQERLALESGLARSYLGGVERGQRNIALLNIYRLAE 70

Query: 65 VLESPISFFFDVSPTVCSD 83
           L    +   +        
Sbjct: 71 ALGVRPTSLLEPPSASSPG 89


>gi|123442216|ref|YP_001006197.1| putative DNA-binding protein [Yersinia enterocolitica subsp.
           enterocolitica 8081]
 gi|122089177|emb|CAL12021.1| putative DNA-binding protein [Yersinia enterocolitica subsp.
           enterocolitica 8081]
          Length = 160

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/103 (20%), Positives = 43/103 (41%), Gaps = 6/103 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RIR  R     SQE+L E   +  + +Q+ E G        L  I+ V+E  +S  +   
Sbjct: 5   RIRELRQARAWSQEQLAELCSLNVRTIQRIENGEQ-ASLETLSAIAAVMELKVSELYSPD 63

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            +   + S E  +    +   + ++    F++    ++ + +I
Sbjct: 64  TSQPPETSGEAVD-QRVVDAREAVENEMSFLR----QLLRAVI 101


>gi|148270580|ref|YP_001245040.1| helix-turn-helix domain-containing protein [Thermotoga petrophila
          RKU-1]
 gi|281412888|ref|YP_003346967.1| XRE family transcriptional regulator [Thermotoga naphthophila
          RKU-10]
 gi|147736124|gb|ABQ47464.1| helix-turn-helix domain protein [Thermotoga petrophila RKU-1]
 gi|281373991|gb|ADA67553.1| transcriptional regulator, XRE family [Thermotoga naphthophila
          RKU-10]
          Length = 127

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 24/54 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           +G ++   R +  ++Q+ L + LG++   V K E G   +    L  I   L 
Sbjct: 34 QIGGQLLAYRKMHNLTQKDLAKKLGVSQSMVSKIETGEKNISIRVLAKIVAALG 87


>gi|42779445|ref|NP_976692.1| phage repressor [Bacillus cereus ATCC 10987]
 gi|42735361|gb|AAS39300.1| phage repressor [Bacillus cereus ATCC 10987]
          Length = 117

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 1/57 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPI 70
          +G+ I+ RR  +G+S +KL    G +  ++ K E G  +    + L  I+  L    
Sbjct: 4  IGQMIKSRREAMGLSLKKLAIACGSSDSEIMKIENGTRKNPNWATLCEIARALNFHP 60


>gi|116073|sp|P23939|CEBA_BACAM RecName: Full=BamHI control element
 gi|1333709|emb|CAA39000.1| BamH I control element [Bacillus amyloliquefaciens]
          Length = 102

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 7  IPNPVDINVGKRIRLRRMIL-GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          + N + +  G+++R  R+    MSQEKL     +    +   E+G   V    ++ IS+ 
Sbjct: 22 MTNNIRLLFGQKVRQIRLSKSNMSQEKLAFECDLHRTYISDIERGTRNVSLDNIEKISKA 81

Query: 66 LESPISFFFD 75
          L        D
Sbjct: 82 LGVQPKDLLD 91


>gi|146291531|ref|YP_001181955.1| XRE family transcriptional regulator [Shewanella putrefaciens
           CN-32]
 gi|145563221|gb|ABP74156.1| transcriptional regulator, XRE family [Shewanella putrefaciens
           CN-32]
          Length = 188

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/91 (15%), Positives = 37/91 (40%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +   ++  R   G S +K  +  G++   + + E+G +    + L  I+      +
Sbjct: 4   INSYLATTLKALRNQKGWSLDKAAQETGVSKAMIGQIERGESSPTIATLWKIASGFNISL 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
           S F + +P     +  + + +    +T   L
Sbjct: 64  STFLEPTPQSQGAVFRKPDELRQQPATDGML 94


>gi|258593067|emb|CBE69378.1| N-6 DNA methylase [NC10 bacterium 'Dutch sediment']
          Length = 640

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/56 (39%), Positives = 31/56 (55%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          DIN+ K I   R  LG+SQEKL   L ++   + ++EKG  R  A  L  I + L+
Sbjct: 8  DINISKLISDLRRRLGISQEKLAAQLRVSLPTINRWEKGKTRPDAMALHVIEQYLQ 63


>gi|269217813|ref|ZP_06161667.1| conserved domain protein [Actinomyces sp. oral taxon 848 str.
           F0332]
 gi|269212748|gb|EEZ79088.1| conserved domain protein [Actinomyces sp. oral taxon 848 str.
           F0332]
          Length = 122

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 28/67 (41%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D  V  R+ + R   G+++ KL E LGI +Q +   E+G           I+     P+ 
Sbjct: 51  DERVHNRLAVLRAARGVTRRKLAEELGIHYQTMGYLERGEYAPSLHLALRIARWFGVPVE 110

Query: 72  FFFDVSP 78
             F +  
Sbjct: 111 SVFSLDE 117


>gi|262066507|ref|ZP_06026119.1| toxin-antitoxin system, antitoxin component, Xre family
          [Fusobacterium periodonticum ATCC 33693]
 gi|291379782|gb|EFE87300.1| toxin-antitoxin system, antitoxin component, Xre family
          [Fusobacterium periodonticum ATCC 33693]
          Length = 94

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 1/65 (1%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N K P  + + + K IR RR  L ++QE+  +  G++F  ++++E     +    L  I+
Sbjct: 7  NMKTPKEIQLEIAKNIRKRRKELKLTQEEFSKKSGVSFGSIKRFEN-TGEISLFSLIKIA 65

Query: 64 EVLES 68
           VL  
Sbjct: 66 IVLGC 70


>gi|253577419|ref|ZP_04854735.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
          D14]
 gi|251843219|gb|EES71251.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
          D14]
          Length = 76

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+  R  LG++Q +L    G+T Q +   E             ++++L++ +   F
Sbjct: 16 NKIKQFRKRLGLTQNELAAECGVTRQTINCVENNRYDPTLELAFKLAKILQTKVDELF 73


>gi|225378006|ref|ZP_03755227.1| hypothetical protein ROSEINA2194_03666 [Roseburia inulinivorans
          DSM 16841]
 gi|225210159|gb|EEG92513.1| hypothetical protein ROSEINA2194_03666 [Roseburia inulinivorans
          DSM 16841]
          Length = 120

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 2/84 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-- 72
          VG RIR +R+ LG SQ+++ E +    +     E+G   +    +  ISE L+  + +  
Sbjct: 13 VGDRIRKKRVQLGFSQDEVAERIDRAPKYCSDIERGTCGMSTETMLAISECLDMSLDYMM 72

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
          F + +        ++E  V+  +S
Sbjct: 73 FGEQTDEEARRQENDELAVIHILS 96


>gi|225387793|ref|ZP_03757557.1| hypothetical protein CLOSTASPAR_01563 [Clostridium asparagiforme
           DSM 15981]
 gi|225046079|gb|EEG56325.1| hypothetical protein CLOSTASPAR_01563 [Clostridium asparagiforme
           DSM 15981]
          Length = 176

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/102 (24%), Positives = 48/102 (47%), Gaps = 2/102 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I +GK+I++ R    +SQE+LG  +  T   + +YEKG+  + A  +  +    +  +  
Sbjct: 2   IELGKKIKMVREYNDLSQEELGAVVQKTKSTIGRYEKGLMEIPAKVIIDLCNYYQLSLDA 61

Query: 73  FFDVSPTVCSDISSEENNVM--DFISTPDGLQLNRYFIQIDD 112
           F + +       + E+N  +    ++  D  QL  YF  + D
Sbjct: 62  FVESAYYASHQQNLEKNVSLRKGMLAALDPQQLVNYFNLLPD 103


>gi|224825971|ref|ZP_03699074.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
 gi|224601608|gb|EEG07788.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
          Length = 188

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 35/85 (41%), Gaps = 3/85 (3%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           P  V ++V   +R  R  LG SQ+KL    G++ + +   E G + V  + L  ++  L
Sbjct: 4  TPPQVLLDVSANLRQARQALGWSQDKLATAAGVSRRMLVNIEAGDSNVSLATLDRLAAAL 63

Query: 67 ESPISFFFDVSPTVCSDISSEENNV 91
                F ++     ++       V
Sbjct: 64 GLS---FAELVRPPAANPRQPAAPV 85


>gi|182684924|ref|YP_001836671.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae CGSP14]
 gi|303254087|ref|ZP_07340202.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS455]
 gi|303260363|ref|ZP_07346333.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP-BS293]
 gi|303262511|ref|ZP_07348453.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP14-BS292]
 gi|303265142|ref|ZP_07351055.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS397]
 gi|303265996|ref|ZP_07351891.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS457]
 gi|303268072|ref|ZP_07353873.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS458]
 gi|182630258|gb|ACB91206.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae CGSP14]
 gi|301802667|emb|CBW35433.1| putative DNA-binding protein [Streptococcus pneumoniae INV200]
 gi|302598920|gb|EFL65951.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS455]
 gi|302636411|gb|EFL66904.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP14-BS292]
 gi|302638529|gb|EFL68994.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP-BS293]
 gi|302642432|gb|EFL72778.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS458]
 gi|302644437|gb|EFL74689.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS457]
 gi|302645359|gb|EFL75593.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae BS397]
          Length = 299

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|182436872|ref|YP_001824591.1| putative transcriptional regulator [Streptomyces griseus subsp.
          griseus NBRC 13350]
 gi|326777467|ref|ZP_08236732.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
 gi|178465388|dbj|BAG19908.1| putative transcriptional regulator [Streptomyces griseus subsp.
          griseus NBRC 13350]
 gi|326657800|gb|EGE42646.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
          Length = 210

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG R+R  R   GM+  +L E  GI+   + + E G  +     L  ++EV   P+ 
Sbjct: 26 VGPRLRELRRRHGMTLAELAERTGISESTLSRLEGGTRKPTLELLLPLAEVHAVPLD 82


>gi|154496666|ref|ZP_02035362.1| hypothetical protein BACCAP_00958 [Bacteroides capillosus ATCC
          29799]
 gi|150273918|gb|EDN01018.1| hypothetical protein BACCAP_00958 [Bacteroides capillosus ATCC
          29799]
          Length = 162

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + VG+RI   R++ GM+Q+ LG  LG   +    ++ +YE G     A     +++VL+ 
Sbjct: 1  MAVGERIHFFRLLRGMTQKYLGMALGFPEKSADVRLAQYETGSRTPKADLTAALAQVLDV 60

Query: 69 PI 70
            
Sbjct: 61 SP 62


>gi|119026373|ref|YP_910218.1| transcriptional regulator [Bifidobacterium adolescentis ATCC 15703]
 gi|118765957|dbj|BAF40136.1| transcriptional regulator [Bifidobacterium adolescentis ATCC 15703]
          Length = 105

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 9/62 (14%), Positives = 26/62 (41%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           ++ +RM  G+ Q  L + + +  + + + E+G           +++ L++ +   F    
Sbjct: 44  LKFKRMERGLKQSDLADLVNVRRETIGRLEQGQYCPSLRLAMDLAKALDTTVEDLFSFDD 103

Query: 79  TV 80
             
Sbjct: 104 EE 105


>gi|91224300|ref|ZP_01259562.1| prophage LambdaSo, transcriptional regulator, Cro/CI family protein
           [Vibrio alginolyticus 12G01]
 gi|91190642|gb|EAS76909.1| prophage LambdaSo, transcriptional regulator, Cro/CI family protein
           [Vibrio alginolyticus 12G01]
          Length = 88

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/86 (26%), Positives = 35/86 (40%), Gaps = 2/86 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF--FF 74
             ++  R  LG++Q+ L + +G++   V  YE G   V       I   L S  +   F 
Sbjct: 2   SNLKAIRGELGVTQQALAKKVGVSQSAVNHYENGNRTVDTVLGWRIVNALNSLGADCKFE 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
           DV P    D  +E   V   I   +G
Sbjct: 62  DVFPDPQEDCGTEGQEVKPPIRGANG 87


>gi|264677406|ref|YP_003277312.1| XRE family transcriptional regulator [Comamonas testosteroni CNB-2]
 gi|262207918|gb|ACY32016.1| transcriptional regulator, XRE family [Comamonas testosteroni
           CNB-2]
          Length = 490

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/123 (17%), Positives = 53/123 (43%), Gaps = 14/123 (11%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R   G++Q  L + L ++   + + E+    +  + L  I  VL   I  F  
Sbjct: 2   GVRLRSLRAERGLTQAALAQALELSPSYLNQIEQDQRPLTVAVLLKIHRVLGVDIQQF-- 59

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ---KIIELVRSIVSSEKK 132
            S    + + ++  + +  +  P+G         +   ++R+   K+ +L + +++  ++
Sbjct: 60  -SEDEEARLLAQLRDAVAAMPQPEG--------SVPLPELREVAAKLPQLAQMLLAMHQR 110

Query: 133 YRT 135
           +  
Sbjct: 111 HLA 113


>gi|228969508|ref|ZP_04130319.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228790210|gb|EEM37981.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          sotto str. T04001]
          Length = 112

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 1/55 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          K ++  R   G++QE+L   L ++  Q++ YE G        L  I+     P+ 
Sbjct: 6  KMLKKLRNSYGLTQEELASKLNLSRGQIKNYENGF-EPDLETLDRIASYFNVPVD 59


>gi|255654357|ref|ZP_05399766.1| DNA-binding protein [Clostridium difficile QCD-23m63]
          Length = 364

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/134 (17%), Positives = 54/134 (40%), Gaps = 25/134 (18%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+ K + L+R   G++Q++L   +G++   V K+E G +    + L  ++      +  
Sbjct: 4   LNIAKTLILKRKEKGITQDELANYIGVSKASVSKWETGQSYPDITFLPQLATYFNITVDE 63

Query: 73  FFDVSPTVCSDISSEENNVM--DFISTP------DGLQLNRYFIQ--------------- 109
                P +  +  ++  N +  DF + P      +  ++ + +                 
Sbjct: 64  LICYEPQMMKEDINKLYNKLCKDFTAKPFDEVMIEIREIIKRYYSCFPLIFRMGLLIVNH 123

Query: 110 --IDDVKVRQKIIE 121
             I D K R+ +I+
Sbjct: 124 YDIVDEKKRELLID 137


>gi|225571094|ref|ZP_03780111.1| hypothetical protein CLOHYLEM_07194 [Clostridium hylemonae DSM
          15053]
 gi|225160175|gb|EEG72794.1| hypothetical protein CLOHYLEM_07194 [Clostridium hylemonae DSM
          15053]
          Length = 158

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++I   R    ++QE+L E L ++ Q V K+E G       ++  +S V      + 
Sbjct: 10 EKILTLRKSNDLTQEELAEKLNVSRQSVSKWESGQAVPELEKIVALSSVFNVTTDYL 66


>gi|223983971|ref|ZP_03634129.1| hypothetical protein HOLDEFILI_01410 [Holdemania filiformis DSM
          12042]
 gi|223964047|gb|EEF68401.1| hypothetical protein HOLDEFILI_01410 [Holdemania filiformis DSM
          12042]
          Length = 179

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 36/81 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G RI+  R    ++ E+L     +T   + + E+ +     + LQ I E L + ++ 
Sbjct: 1  MDIGYRIKQLRTKNNLTLEELASRCELTKGFLSQLERNLTSPSIATLQDIVEALGTTLAK 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF          + ++  V +
Sbjct: 61 FFQEETEEKLVFTDDDYFVDE 81


>gi|170016442|ref|YP_001727361.1| transcriptional regulator [Leuconostoc citreum KM20]
 gi|169803299|gb|ACA81917.1| Predicted transcriptional regulator [Leuconostoc citreum KM20]
          Length = 122

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/115 (14%), Positives = 46/115 (40%), Gaps = 15/115 (13%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF--- 74
           RI+  R    ++Q+ L + +  +   + KYE G      + +  I++VL++ + +     
Sbjct: 7   RIKELRKQKQLTQQGLADKIEASRDTITKYENGRRIPKLAMISLIADVLDTTVDYLQGKT 66

Query: 75  ------------DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
                       +      +D   +    +D  +T + ++  +  ++I  +  R+
Sbjct: 67  DNALKTSHNGSNNGDEQPLTDAQKQVAYFIDPSATQEDIEQIKKLVEIAKLSKRR 121


>gi|169350310|ref|ZP_02867248.1| hypothetical protein CLOSPI_01071 [Clostridium spiroforme DSM
          1552]
 gi|169293093|gb|EDS75226.1| hypothetical protein CLOSPI_01071 [Clostridium spiroforme DSM
          1552]
          Length = 185

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 33/68 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +I++ R   G++ E+L     +T   + + E+ +     + L+ I E L + +  
Sbjct: 9  MDIGGKIKMLRQANGLTLEELANRSELTKGFLSQLERDLTSPSITTLEDILEALGTNLQE 68

Query: 73 FFDVSPTV 80
          FF   P  
Sbjct: 69 FFSEKPAE 76


>gi|121730295|ref|ZP_01682667.1| fumarate reductase flavoprotein subunit [Vibrio cholerae V52]
 gi|121627957|gb|EAX60522.1| fumarate reductase flavoprotein subunit [Vibrio cholerae V52]
          Length = 176

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 28/51 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +R  R  LG+ Q ++ + +G+T Q   K+E G +    S+   ++++L+  
Sbjct: 10 LREARTKLGLKQNEVAKLVGVTAQTYLKWENGKSEPKISQAGKLAKILKIS 60


>gi|1174332|emb|CAA64677.1| aldehyde dehydrogenase-like protein [Agrobacterium tumefaciens]
          Length = 182

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++G R+R  R+   +SQ +L    G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSVDIGGRLRHLRLRHNISQRELARRAGVTNSTISLIESNTSNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF   P          + +++ 
Sbjct: 59 GLAEFFAFEPETSRKAFYRADELVEI 84


>gi|91780190|ref|YP_555397.1| XRE family transcriptional regulator [Burkholderia xenovorans
          LB400]
 gi|91692850|gb|ABE36047.1| transcriptional regulator, XRE family [Burkholderia xenovorans
          LB400]
          Length = 91

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 30/81 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           N G  +R  R + G SQE+L E  G+    V + E+G        +  ++      I  
Sbjct: 6  RNFGAAVRRLRELQGWSQEQLAEYAGLNRSYVGEIERGSAIASIVTVDKLARAFGVSIEC 65

Query: 73 FFDVSPTVCSDISSEENNVMD 93
              S      I  E +  ++
Sbjct: 66 LLRSSSDQAGVILPEASAPIN 86


>gi|295704614|ref|YP_003597689.1| helix-turn-helix DNA-binding protein [Bacillus megaterium DSM 319]
 gi|294802273|gb|ADF39339.1| Helix-turn-helix DNA-binding protein [Bacillus megaterium DSM 319]
          Length = 185

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/106 (19%), Positives = 42/106 (39%), Gaps = 11/106 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  +R  R     + ++L +  G++   + K E+G        +  I+  L  P++   
Sbjct: 10  VGNELRKIRTQREFTLDELADRTGVSKLTLGKIERGETNPTLGVMWKITTGLNIPLTKLV 69

Query: 75  DVSPTVC--------SDISSEENNVMDFISTPD---GLQLNRYFIQ 109
            V P+V         S    +E   ++FI        +++ R F+ 
Sbjct: 70  SVEPSVAVSKCGEGFSLKGPDEAWKVEFIFQNQIDSTIEMYRAFLS 115


>gi|218507568|ref|ZP_03505446.1| putative transcriptional regulator protein [Rhizobium etli Brasil
          5]
          Length = 167

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++G R+R  R+   +SQ +L +  G+    +   E   +      L+ I +    PI
Sbjct: 1  MSVDIGSRLRHLRIAHKLSQRELAKRTGVPNSTISLIESNASNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF   P            +++ 
Sbjct: 59 GLAEFFAFEPERPKKAFYAAEELVEI 84


>gi|217959269|ref|YP_002337817.1| DNA-binding protein [Bacillus cereus AH187]
 gi|217068137|gb|ACJ82387.1| DNA-binding protein [Bacillus cereus AH187]
          Length = 403

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECEPSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDEGKIVEL 72


>gi|21909567|ref|NP_663835.1| hypothetical protein SpyM3_0031 [Streptococcus pyogenes MGAS315]
 gi|28894944|ref|NP_801294.1| hypothetical protein SPs0032 [Streptococcus pyogenes SSI-1]
 gi|21903748|gb|AAM78638.1| conserved hypothetical protein [Streptococcus pyogenes MGAS315]
 gi|28810189|dbj|BAC63127.1| hypothetical protein [Streptococcus pyogenes SSI-1]
          Length = 303

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 35/66 (53%), Gaps = 1/66 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + G ++++ R+   +S+E L G+   ++ +Q+ + E G +    S++  I++ L   + +
Sbjct: 4  HFGGKVKVLRLEKRISREDLCGDESELSVRQLARIELGQSIPSLSKVIFIAKALNVSVGY 63

Query: 73 FFDVSP 78
            D + 
Sbjct: 64 LTDGAD 69


>gi|297162496|gb|ADI12208.1| hypothetical protein SBI_09090 [Streptomyces bingchenggensis
          BCW-1]
          Length = 199

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG R+R  R   G +  +L E  GI+   + + E G  +     L  +++  + P+ 
Sbjct: 13 VGPRLRSLRQARGATLSQLSETTGISVSTLSRLESGQRKPTLELLLPLAKAYQVPLD 69


>gi|296118143|ref|ZP_06836724.1| putative Helix-turn-helix domain protein [Corynebacterium
          ammoniagenes DSM 20306]
 gi|295968701|gb|EFG81945.1| putative Helix-turn-helix domain protein [Corynebacterium
          ammoniagenes DSM 20306]
          Length = 192

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 29/75 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RIR  R+    S + L     I+   + + E G  R+    L  I++ L + +    + 
Sbjct: 12 QRIRGLRLARNWSLDTLARRCEISTSTLSRIETGRQRISLDLLVTIAQALGTSLDQLVEP 71

Query: 77 SPTVCSDISSEENNV 91
                 I  E  ++
Sbjct: 72 EGNDDVVIRPEPESL 86


>gi|293608302|ref|ZP_06690605.1| conserved hypothetical protein [Acinetobacter sp. SH024]
 gi|292828875|gb|EFF87237.1| conserved hypothetical protein [Acinetobacter sp. SH024]
          Length = 197

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/91 (17%), Positives = 35/91 (38%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            ++I + +++R  R+  G + + L     ++   +   E+G     A  L+ ++  L  P
Sbjct: 3   DINIRIAQQVREIRLARGYTLDILASRCQVSRSAISLIERGEASPTAVVLEKLANGLGVP 62

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           ++  FD  P   S               P+ 
Sbjct: 63  LTQLFDSPPNTQSPQPMVRRTQQAEWKDPET 93


>gi|269964620|ref|ZP_06178858.1| hypothetical protein VMC_02880 [Vibrio alginolyticus 40B]
 gi|269830519|gb|EEZ84740.1| hypothetical protein VMC_02880 [Vibrio alginolyticus 40B]
          Length = 374

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 39/88 (44%), Gaps = 2/88 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQ-HISEVLESPISFFFD 75
           R+++ R   G +++ L E  GIT + +  YE KG+     S L   I+++L  P+ FF+ 
Sbjct: 6   RLKIARERRGYTKKALAELTGITTRTLSTYENKGLLDTTDSTLVSRIADILNYPVEFFYA 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQL 103
            +P            +    ++     L
Sbjct: 66  DNPEQIVKEGVSFRAMTKLSASKRDAAL 93


>gi|261251082|ref|ZP_05943656.1| transcriptional regulator YidN, Cro/CI family [Vibrio orientalis
          CIP 102891]
 gi|260937955|gb|EEX93943.1| transcriptional regulator YidN, Cro/CI family [Vibrio orientalis
          CIP 102891]
          Length = 188

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 28/61 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VG  ++  R   G S +K  +  G++   + + E+G +    ++L  I+   E   S 
Sbjct: 5  IKVGDNLKRLRSDKGWSLDKAAKETGVSKAMLGQIERGESSPTVAKLWQIASGFEVSFSS 64

Query: 73 F 73
          F
Sbjct: 65 F 65


>gi|255973945|ref|ZP_05424531.1| predicted protein [Enterococcus faecalis T2]
 gi|255966817|gb|EET97439.1| predicted protein [Enterococcus faecalis T2]
          Length = 250

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 24 KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 83

Query: 72 FF 73
          + 
Sbjct: 84 WL 85


>gi|288947745|ref|YP_003445128.1| transcriptional regulator, XRE family [Allochromatium vinosum DSM
          180]
 gi|288898261|gb|ADC64096.1| transcriptional regulator, XRE family [Allochromatium vinosum DSM
          180]
          Length = 143

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 32/80 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R+   +SQ ++   L ++   V K E G        LQ ++++ E   S     
Sbjct: 4  ARLKSARIARDLSQAQVATALDLSQGFVSKLESGDKTPSVELLQKLAKLYEVTESHLLGS 63

Query: 77 SPTVCSDISSEENNVMDFIS 96
          +     D SS      + I+
Sbjct: 64 TIEGSGDESSGSKTPAEIIA 83


>gi|229818666|ref|YP_002880192.1| XRE family transcriptional regulator [Beutenbergia cavernae DSM
           12333]
 gi|229564579|gb|ACQ78430.1| transcriptional regulator, XRE family [Beutenbergia cavernae DSM
           12333]
          Length = 201

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/131 (18%), Positives = 51/131 (38%), Gaps = 11/131 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  R   G++   +    G++   + + E G      + L+ ++   ++ ++  F
Sbjct: 25  LGDRLRDLRRQHGLTLRDVAGQTGLSVALLSQIENGRTDPSITSLRKLARAFDAEVATLF 84

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID----DVKVRQKIIELVRSIVSSE 130
                    IS         +S P GL     + ++     D++V + +  L    VS+E
Sbjct: 85  HEPDAPSVHISRPGERF--LLSAPAGLI---AYERVTPGRGDLEVLRSV--LAPGDVSAE 137

Query: 131 KKYRTIEEECM 141
                   EC+
Sbjct: 138 GPRGHASTECV 148


>gi|228942395|ref|ZP_04104933.1| Transcription regulator, probable-related protein [Bacillus
          thuringiensis serovar berliner ATCC 10792]
 gi|228981964|ref|ZP_04142258.1| Transcription regulator, probable-related protein [Bacillus
          thuringiensis Bt407]
 gi|228777725|gb|EEM25998.1| Transcription regulator, probable-related protein [Bacillus
          thuringiensis Bt407]
 gi|228817236|gb|EEM63323.1| Transcription regulator, probable-related protein [Bacillus
          thuringiensis serovar berliner ATCC 10792]
          Length = 68

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            ++  R   G+SQ +L + + +  Q +   E        +    +++ L++ ++  F
Sbjct: 7  NNVKQYRKSEGLSQLELAKKINVARQTINLIENNKYNPSLALCIELAKALKTDLNSLF 64


>gi|225859745|ref|YP_002741255.1| transcriptional activator [Streptococcus pneumoniae 70585]
 gi|225721901|gb|ACO17755.1| transcriptional activator [Streptococcus pneumoniae 70585]
          Length = 299

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 33/68 (48%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVPVY 60

Query: 72 FFFDVSPT 79
                  
Sbjct: 61 SLMPDFSA 68


>gi|169627539|ref|YP_001701188.1| putative transcriptional regulator [Mycobacterium abscessus ATCC
          19977]
 gi|169239506|emb|CAM60534.1| Putative transcriptional regulator [Mycobacterium abscessus]
          Length = 85

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/63 (31%), Positives = 28/63 (44%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +   VG RIR  R    M+QE+L    G+T   +   E G   +   RL  I+  LE 
Sbjct: 17 NRIRQTVGARIRQIRTSQDMTQEQLALRSGVTRNVLIDVEHGRRGLLYERLFDIAAALEV 76

Query: 69 PIS 71
           + 
Sbjct: 77 TVG 79


>gi|152998873|ref|YP_001364554.1| XRE family transcriptional regulator [Shewanella baltica OS185]
 gi|151363491|gb|ABS06491.1| transcriptional regulator, XRE family [Shewanella baltica OS185]
          Length = 191

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/91 (15%), Positives = 37/91 (40%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +   ++  R   G S +K  +  G++   + + E+G +    + L  I+      +
Sbjct: 4   INSYLATTLKALRNQKGWSLDKAAQETGVSKAMIGQIERGESSPTIATLWKIASGFNISL 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
           S F + +P     +  + + +    +T   L
Sbjct: 64  STFLEPTPQSQGTVFRKPDELRQQPATDGML 94


>gi|126700770|ref|YP_001089667.1| putative phage transcriptional regulator [Clostridium difficile
          630]
 gi|115252207|emb|CAJ70046.1| Transcriptional regulator, Phage-type [Clostridium difficile]
          Length = 66

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 29/60 (48%), Gaps = 1/60 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPISFFF 74
          G  +++ R+  G+ Q++L + +GI+   +   E G  N      +  +S  L++ +   F
Sbjct: 2  GINLKIFRIKKGLKQQELADRVGISRYYLSNLETGKANNPSNDLMIKLSRALDTTVEELF 61


>gi|160873452|ref|YP_001552768.1| XRE family transcriptional regulator [Shewanella baltica OS195]
 gi|160858974|gb|ABX47508.1| transcriptional regulator, XRE family [Shewanella baltica OS195]
 gi|315265681|gb|ADT92534.1| helix-turn-helix domain protein [Shewanella baltica OS678]
          Length = 191

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/91 (15%), Positives = 37/91 (40%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +   ++  R   G S +K  +  G++   + + E+G +    + L  I+      +
Sbjct: 4   INSYLATTLKALRNQKGWSLDKAAQETGVSKAMIGQIERGESSPTIATLWKIASGFNISL 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
           S F + +P     +  + + +    +T   L
Sbjct: 64  STFLEPTPQSQGAVFRKPDELRQQPATDGML 94


>gi|328954674|ref|YP_004372007.1| helix-turn-helix domain protein [Coriobacterium glomerans PW2]
 gi|328454998|gb|AEB06192.1| helix-turn-helix domain protein [Coriobacterium glomerans PW2]
          Length = 204

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 29/77 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG  IR  R  L +SQ+ L   + ++ Q +  +E          L  +S V ++ +  
Sbjct: 1  MQVGAHIREHRARLALSQDDLAARIYVSRQTISNWENDKTYPDVQSLLLLSAVFDATVDE 60

Query: 73 FFDVSPTVCSDISSEEN 89
                       +E+ 
Sbjct: 61 LIKGDVDAMDKTVNEDA 77


>gi|300704586|ref|YP_003746189.1| transcriptional regulator protein [Ralstonia solanacearum
          CFBP2957]
 gi|299072250|emb|CBJ43582.1| putative transcription regulator protein [Ralstonia solanacearum
          CFBP2957]
          Length = 113

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 29/71 (40%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +   P P+ + +GKR++  R     SQE L     +    +   E+G+       L +I 
Sbjct: 13 SPSRPAPISVALGKRVKQCRHAADKSQETLAFEALVDRTYISSIERGIANPSVETLANIC 72

Query: 64 EVLESPISFFF 74
            L   +S  F
Sbjct: 73 HCLGVTLSELF 83


>gi|298487379|ref|ZP_07005426.1| Transcriptional regulator, MerR family [Pseudomonas savastanoi pv.
           savastanoi NCPPB 3335]
 gi|298158064|gb|EFH99137.1| Transcriptional regulator, MerR family [Pseudomonas savastanoi pv.
           savastanoi NCPPB 3335]
          Length = 201

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 11/101 (10%)

Query: 8   PNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  + +
Sbjct: 7   PHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRLCD 66

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           VL  P+S  F       S            +   +GL++ R
Sbjct: 67  VLGMPMSKLFSQYDQQGSSAL--------LVKADEGLEVVR 99


>gi|296330586|ref|ZP_06873064.1| transcriptional regulator [Bacillus subtilis subsp. spizizenii
          ATCC 6633]
 gi|305674634|ref|YP_003866306.1| putative transcriptional regulator [Bacillus subtilis subsp.
          spizizenii str. W23]
 gi|296152268|gb|EFG93139.1| transcriptional regulator [Bacillus subtilis subsp. spizizenii
          ATCC 6633]
 gi|305412878|gb|ADM37997.1| putative transcriptional regulator [Bacillus subtilis subsp.
          spizizenii str. W23]
          Length = 132

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 34/68 (50%), Gaps = 1/68 (1%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++ +G+ IR  R     + +++ E +GIT   + + E+ + +     ++ I++ L    S
Sbjct: 3  NMKMGEAIRRIRKEKKKTLDEVAEAVGITHSYLSRIERNLQQPSIQVIEKIADYLGVHKS 62

Query: 72 F-FFDVSP 78
          + FFD   
Sbjct: 63 YLFFDEES 70


>gi|295105756|emb|CBL03299.1| Predicted transcriptional regulators [Gordonibacter pamelaeae
          7-10-1-b]
          Length = 154

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            R   G++Q ++ E L +T Q V ++E G  + G   L+ I+     PI    D+ 
Sbjct: 9  EIRERNGLTQAEMAERLFVTRQAVSRWECGDTQPGIDALKLIAAEFHVPIEKLLDMP 65


>gi|295094924|emb|CBK84015.1| Predicted transcriptional regulators [Coprococcus sp. ART55/1]
          Length = 133

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/121 (18%), Positives = 44/121 (36%), Gaps = 8/121 (6%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-------SPIS 71
           +R  R   G++Q+ +   L I+      YE+G N     +   +SE+L        +  S
Sbjct: 13  LRYFRQKAGLTQQDVAAALSISRSGYANYEEGRNIPNIEQAIKLSELLNHDFLYAYTLSS 72

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
            +    P     +  + + +    S      +   +  + D   RQ I   V ++ S   
Sbjct: 73  RYMQGHPKPLQIVMEDNSYMTAIESNQSTADMLGNYRSLSDSD-RQLIDTFVANLASKNS 131

Query: 132 K 132
           +
Sbjct: 132 R 132


>gi|293365795|ref|ZP_06612501.1| conserved hypothetical protein [Streptococcus oralis ATCC 35037]
 gi|306824899|ref|ZP_07458243.1| transcriptional regulator [Streptococcus sp. oral taxon 071 str.
          73H25AP]
 gi|306829820|ref|ZP_07463007.1| transcriptional regulator [Streptococcus mitis ATCC 6249]
 gi|307703337|ref|ZP_07640281.1| helix-turn-helix family protein [Streptococcus oralis ATCC 35037]
 gi|315613479|ref|ZP_07888387.1| transcriptional regulator [Streptococcus sanguinis ATCC 49296]
 gi|291315728|gb|EFE56175.1| conserved hypothetical protein [Streptococcus oralis ATCC 35037]
 gi|304427831|gb|EFM30924.1| transcriptional regulator [Streptococcus mitis ATCC 6249]
 gi|304433110|gb|EFM36082.1| transcriptional regulator [Streptococcus sp. oral taxon 071 str.
          73H25AP]
 gi|307623113|gb|EFO02106.1| helix-turn-helix family protein [Streptococcus oralis ATCC 35037]
 gi|315314475|gb|EFU62519.1| transcriptional regulator [Streptococcus sanguinis ATCC 49296]
          Length = 69

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+   ++Q  L E +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 6  KLKLARVERDLTQGDLAEAVGVTRQTIGLIEAGKYNPSLSLCQSICRCLGKTLDQLF 62


>gi|284048461|ref|YP_003398800.1| transcriptional regulator, XRE family [Acidaminococcus fermentans
          DSM 20731]
 gi|283952682|gb|ADB47485.1| transcriptional regulator, XRE family [Acidaminococcus fermentans
          DSM 20731]
          Length = 80

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 24/72 (33%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +IR  R I  M Q  L + + +  + +   E G           I+ V   P+   F+  
Sbjct: 7  KIRDLRRIHKMQQSDLAKLVHVRRETISNIENGKYNPSLKLALDIAHVFGKPVEDIFEYI 66

Query: 78 PTVCSDISSEEN 89
                +   E 
Sbjct: 67 EEDDLHLPDSEK 78


>gi|237746706|ref|ZP_04577186.1| predicted protein [Oxalobacter formigenes HOxBLS]
 gi|229378057|gb|EEO28148.1| predicted protein [Oxalobacter formigenes HOxBLS]
          Length = 99

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 37/94 (39%), Gaps = 6/94 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS- 71
           +++G  I+  R+  G+SQ KL E    +   +   E     +  S LQ I   L  P+  
Sbjct: 1   MDIGNAIKTCRIRRGLSQTKLAELSECSVSYLSLIEHNQRDITVSTLQRICHALHVPMGI 60

Query: 72  -FFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
             F   S     +IS E    ++     + L L 
Sbjct: 61  LLFLGSSQDEFGNISKE----LEAELAKNTLVLL 90


>gi|254512810|ref|ZP_05124876.1| regulator of the anaerobic catobolism of benzoate BzdR
           [Rhodobacteraceae bacterium KLH11]
 gi|221532809|gb|EEE35804.1| regulator of the anaerobic catobolism of benzoate BzdR
           [Rhodobacteraceae bacterium KLH11]
          Length = 306

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 39/92 (42%), Gaps = 2/92 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I VG R+R  R   G+S+  L E  G++ + + + E G   +    L+ ++  L+  I +
Sbjct: 29  IQVGTRVRNARERKGISRRILSESSGVSQRYLAQLEAGTGNISIGLLKRVAHSLDHKIEW 88

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           F        +  S     +   ++  +  ++ 
Sbjct: 89  FV-GEEDPWNSTSLRVAELFS-MADSETREVV 118


>gi|205375367|ref|ZP_03228157.1| XRE family transcriptional regulator [Bacillus coahuilensis m4-4]
          Length = 111

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 34/78 (43%), Gaps = 1/78 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          VG RIR+ R    ++ ++L     ++   +   E+G+ +      L  I++ L   +   
Sbjct: 2  VGNRIRMLREERKLTMQELAVRSKVSKSYISSIERGLQKNPSIRILLRIADTLHVELEDL 61

Query: 74 FDVSPTVCSDISSEENNV 91
          FD + +   D   ++  V
Sbjct: 62 FDSTASRFEDTILDQEWV 79


>gi|297203581|ref|ZP_06920978.1| DNA-binding protein [Streptomyces sviceus ATCC 29083]
 gi|197716044|gb|EDY60078.1| DNA-binding protein [Streptomyces sviceus ATCC 29083]
          Length = 274

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 28/64 (43%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            +P D  VG  +R  R    +SQ +L      + + +   E G +R     +  ++E L
Sbjct: 8  AASPADQGVGPLLRAWREQRRLSQLELALRADSSARHISFVETGRSRPSEEMVLRLAEHL 67

Query: 67 ESPI 70
          + P+
Sbjct: 68 DVPV 71


>gi|148358351|ref|YP_001249558.1| hypothetical protein LPC_0214 [Legionella pneumophila str. Corby]
 gi|148280124|gb|ABQ54212.1| hypothetical protein LPC_0214 [Legionella pneumophila str. Corby]
          Length = 86

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 28/66 (42%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K  +P  I +GK IR  R   G SQE       +    + + E+G   +    L  I+ +
Sbjct: 7  KEKHPNLIKIGKLIRDTRKEKGYSQEDFASQAQLGRTYMGRIERGEQNMTIQTLIQIALI 66

Query: 66 LESPIS 71
          L   ++
Sbjct: 67 LGVEVA 72


>gi|91209339|ref|YP_539325.1| putative transcription regulator [Escherichia coli UTI89]
 gi|91070913|gb|ABE05794.1| putative transcription regulator [Escherichia coli UTI89]
          Length = 154

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 28/62 (45%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   + I  G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++  L
Sbjct: 1  MKKSLRIQFGERVKELRVATGMSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLASAL 60

Query: 67 ES 68
            
Sbjct: 61 SV 62


>gi|40063589|gb|AAR38378.1| helix-turn-helix domain protein [uncultured marine bacterium 582]
          Length = 121

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/90 (21%), Positives = 36/90 (40%), Gaps = 3/90 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R    MSQ  + + LG+    ++K+E+ ++   A+RL  ++ +L   I +  +
Sbjct: 5   GDRLAAAREHAAMSQSDMAKRLGVKVSTLRKWEQDLSEPRANRLSMMAGLLNVSIMWLLN 64

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNR 105
                 S          D     + L   R
Sbjct: 65  AEGEGISGPDDGSYIAPDI---QETLNEIR 91


>gi|52079718|ref|YP_078509.1| transcriptional regulator [Bacillus licheniformis ATCC 14580]
 gi|52785086|ref|YP_090915.1| Xre [Bacillus licheniformis ATCC 14580]
 gi|52002929|gb|AAU22871.1| transcriptional regulator [Bacillus licheniformis ATCC 14580]
 gi|52347588|gb|AAU40222.1| Xre [Bacillus licheniformis ATCC 14580]
          Length = 117

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 54/120 (45%), Gaps = 15/120 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R++  R     +QE++ + +G++  +   YE G +      L+ +++  +  I +  
Sbjct: 2   LGGRLKSLRGKR--TQEEVAKQIGVSRARYSHYENGRSEPDYETLKKLADYYKVTIDYLL 59

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVRSIVSSEKK 132
                     + ++ N+ D I+ P    L   +  + +   + RQ+ IE ++ +   EKK
Sbjct: 60  TG--------TEKKKNIEDEIADP---DLQIAYRDMQEFSPESRQQAIEFIQYLKEKEKK 108


>gi|27375181|ref|NP_766710.1| hypothetical protein bll0070 [Bradyrhizobium japonicum USDA 110]
 gi|27348317|dbj|BAC45335.1| bll0070 [Bradyrhizobium japonicum USDA 110]
          Length = 131

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 26/59 (44%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          NPV I  G  +  RR  L ++Q +L   + ++   +   E G   +    +  ++  L+
Sbjct: 13 NPVYIAFGNAVSTRRKALSLTQAQLASKVKMSRASIANIESGRQNILLHHVYALATALD 71


>gi|330881957|gb|EGH16106.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. glycinea str. race 4]
          Length = 187

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 11/101 (10%)

Query: 8   PNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  + +
Sbjct: 7   PHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRLCD 66

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           VL  P+S  F       S            +   +GL++ R
Sbjct: 67  VLGMPMSKLFSQYDQQGSSAL--------LVKADEGLEVVR 99


>gi|329768028|ref|ZP_08259539.1| hypothetical protein HMPREF0428_01236 [Gemella haemolysans M341]
 gi|328838513|gb|EGF88121.1| hypothetical protein HMPREF0428_01236 [Gemella haemolysans M341]
          Length = 361

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I VG+RIR  R+  G + EK G+  G +   +Q +E G       RL +IS++    ++
Sbjct: 8  IAVGQRIRQIRINGGYTYEKFGDFFGASRGNIQAWEYGKALPNKERLVNISKIAGITVN 66


>gi|326564808|gb|EGE15019.1| putative phage represso [Moraxella catarrhalis 103P14B1]
          Length = 109

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 9/64 (14%), Positives = 28/64 (43%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           R++  R   G++Q+++ E + G++     + E G ++   +R   ++ +    + +   
Sbjct: 5  NRLKHARKAKGLTQKQVTEQIKGLSQSAYSQLESGKSK-STTRAVELAHLFGVDVHWLIS 63

Query: 76 VSPT 79
              
Sbjct: 64 GEGE 67


>gi|325564166|gb|ADZ31423.1| C.PsuNIP [Pseudomonas stutzeri]
          Length = 78

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             G+ +R  R +L +SQE+L +  GI    +   E+GV       +Q I+  L S +  
Sbjct: 5  AYFGQAVRRHRELLRLSQEELADRAGIDRTYISGVERGVRNPSLLVMQRIATALGSDLDV 64

Query: 73 FFDVSPTVCS 82
           F  +  + S
Sbjct: 65 LFATARELAS 74


>gi|322383792|ref|ZP_08057543.1| transcriptional regulator-like protein [Paenibacillus larvae subsp.
           larvae B-3650]
 gi|321152004|gb|EFX44947.1| transcriptional regulator-like protein [Paenibacillus larvae subsp.
           larvae B-3650]
          Length = 137

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 55/120 (45%), Gaps = 13/120 (10%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+R  R+  G SQE+  + +G+    +  YE G N   +  L  I+E   +   +    +
Sbjct: 26  RLREMRLKNGYSQEEFAKKVGLKRTNIANYESGRNTPPSQILGKIAEGFNTSTDYLLGKT 85

Query: 78  PTVCS-----DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
               S       +   +++ +F     G++L       +D K  +++I+L+RS++  +K+
Sbjct: 86  DNPESLKVRDLDAISIDDLQNFKIEYRGVELT------EDEK--RQVIKLLRSVLELKKE 137


>gi|296139160|ref|YP_003646403.1| XRE family transcriptional regulator [Tsukamurella paurometabola
          DSM 20162]
 gi|296027294|gb|ADG78064.1| transcriptional regulator, XRE family [Tsukamurella paurometabola
          DSM 20162]
          Length = 83

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 29/63 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+R RR  LG+SQE     +G+ +  + + E+G        +  ++  L +      D
Sbjct: 17 GRRVRARREELGLSQEAAAIQIGVHWTYLGQVERGQRSARVENILKLAHGLNTTPGALLD 76

Query: 76 VSP 78
            P
Sbjct: 77 GVP 79


>gi|229175212|ref|ZP_04302728.1| Transcriptional regulator, Xre [Bacillus cereus MM3]
 gi|228608348|gb|EEK65654.1| Transcriptional regulator, Xre [Bacillus cereus MM3]
          Length = 190

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG+ +R  R    +S E+L +  G++   + K E+G      + +  I++ L  P+S
Sbjct: 15 QVGQLLRQIRNEQKLSLEELAQKTGVSKLTLGKIERGETNPTLAVIWKITKGLSIPLS 72


>gi|225575217|ref|ZP_03783827.1| hypothetical protein RUMHYD_03306 [Blautia hydrogenotrophica DSM
          10507]
 gi|225037510|gb|EEG47756.1| hypothetical protein RUMHYD_03306 [Blautia hydrogenotrophica DSM
          10507]
          Length = 71

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 27/56 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I   R+  G+SQ +  E +G++   +  +E G      S L+ IS +   P+ F F
Sbjct: 11 IAACRVNAGLSQREFAEKIGVSLATITNWESGKTEPDLSELRAISNLSGIPMDFIF 66


>gi|209694526|ref|YP_002262454.1| DNA methyltransferase [Aliivibrio salmonicida LFI1238]
 gi|208008477|emb|CAQ78645.1| DNA methyltransferase [Aliivibrio salmonicida LFI1238]
          Length = 70

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 31/59 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           N GK++R  R + G+SQ+KL     I    V + E+G   +   ++  +++ LE  ++
Sbjct: 6  ANFGKKLREIRKVKGVSQDKLALIADIDRSYVGRIERGEVNITLEKVYKLADALECDVT 64


>gi|309776164|ref|ZP_07671155.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 3_1_53]
 gi|308916115|gb|EFP61864.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 3_1_53]
          Length = 90

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/86 (26%), Positives = 34/86 (39%), Gaps = 10/86 (11%)

Query: 1  MVGNKKI---PNPVDIN-------VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
          M  NK     P P D         +GK+I   R+   ++Q +L    G+    +   E G
Sbjct: 1  MESNKSTRIRPIPYDKEDKELLKEMGKKINRLRVEKNLTQNELANMAGVHKNFICIIENG 60

Query: 51 VNRVGASRLQHISEVLESPISFFFDV 76
          V       L HI  VL++ +  FF  
Sbjct: 61 VQNPSLLSLYHIIRVLDTSLYEFFGG 86


>gi|300710183|ref|YP_003735997.1| hypothetical protein HacjB3_04070 [Halalkalicoccus jeotgali B3]
 gi|299123866|gb|ADJ14205.1| hypothetical protein HacjB3_04070 [Halalkalicoccus jeotgali B3]
          Length = 71

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 25/57 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +++RR    ++Q  L E + ++ Q +   E G          H++E  +  I   F+
Sbjct: 5  LKVRRARHELTQSDLAEAVDVSRQTISAIEAGRYNPSLELAFHLAEYFDCSIEDIFE 61


>gi|298492312|ref|YP_003722489.1| XRE family molybdate metabolism transcriptional regulator
          ['Nostoc azollae' 0708]
 gi|298234230|gb|ADI65366.1| transcriptional regulator of molybdate metabolism, XRE family
          ['Nostoc azollae' 0708]
          Length = 377

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 27/61 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++   ++  R  LGMSQ++L     +T Q +   E G+     +    +++ L   +   
Sbjct: 6  HLRNNLKSIRTRLGMSQQELANLAAVTRQTISGVESGLYAPSVAISLRLAKALGCQVEEL 65

Query: 74 F 74
          F
Sbjct: 66 F 66


>gi|257877769|ref|ZP_05657422.1| transcriptional regulator [Enterococcus casseliflavus EC20]
 gi|257811935|gb|EEV40755.1| transcriptional regulator [Enterococcus casseliflavus EC20]
          Length = 74

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 31/71 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RIR  R    ++Q ++   L I+     +YE G   +    L  ++    + I +  ++
Sbjct: 3  QRIRDLREDNDLTQHQIATLLNISQSTYSRYENGELEIPIQTLIKLANYYNTSIDYLVNM 62

Query: 77 SPTVCSDISSE 87
          +    S  ++E
Sbjct: 63 TDVRTSYKANE 73


>gi|218185799|gb|EEC68226.1| hypothetical protein OsI_36225 [Oryza sativa Indica Group]
          Length = 200

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/100 (17%), Positives = 36/100 (36%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M         V + V  RIR  R    +S ++L     ++   + + EKG      + L 
Sbjct: 8   MTEQGADVAQVSLAVANRIRSWRKDKKLSLDELSRRASVSKGMLVEIEKGAANPSIAILC 67

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
            ++  L   ++   +VS      +  ++   + +     G
Sbjct: 68  KLAAALGVSVADIVNVSSEPVVHVIEKQAIPVLWQGAKGG 107


>gi|182625324|ref|ZP_02953098.1| phage transcriptional regulator [Clostridium perfringens D str.
           JGS1721]
 gi|177909482|gb|EDT71929.1| phage transcriptional regulator [Clostridium perfringens D str.
           JGS1721]
          Length = 123

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 40/85 (47%), Gaps = 1/85 (1%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLESPISFFFDV 76
           +I+  R  + ++Q++  + LGI+   +   E G N+ G  S ++ +SEV    IS+F D 
Sbjct: 5   KIKQSRKEMNLTQQEFAKLLGISRGNLGDLENGKNKGGNLSLIRKLSEVTGKEISYFLDS 64

Query: 77  SPTVCSDISSEENNVMDFISTPDGL 101
                       +N ++ + T   +
Sbjct: 65  DSEFAVKQYEVLDNAINMLITKGAI 89


>gi|29826758|ref|NP_821392.1| transcriptional regulator [Streptomyces avermitilis MA-4680]
 gi|29603854|dbj|BAC67927.1| putative transcriptional regulatory protein [Streptomyces
           avermitilis MA-4680]
          Length = 135

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 27/137 (19%), Positives = 60/137 (43%), Gaps = 17/137 (12%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + +  +P  + +G+R++  R  L MSQ+ + +  GI    +   E+G  RV +  L+ ++
Sbjct: 7   DNRDRDPELVRLGERLKKTRDYLNMSQQFVSDSTGIPRSAISDIERGERRVDSLELKKLA 66

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            +   P+++F         D  + E ++           L R   Q+ D   R  ++E  
Sbjct: 67  RLYRQPVAYFL----AEEKDADASEYSLAG---------LPRALAQLTDGDART-VLEFA 112

Query: 124 RSIV---SSEKKYRTIE 137
             +    ++E++ +  E
Sbjct: 113 EYLTLRRAAEREDQNAE 129


>gi|331086036|ref|ZP_08335119.1| hypothetical protein HMPREF0987_01422 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|330406959|gb|EGG86464.1| hypothetical protein HMPREF0987_01422 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 72

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 29/60 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  +R    MSQ +L E L IT + + K+E+G++    + L  +SE+L   +        
Sbjct: 10 IARKRKERNMSQRELAEYLHITDKAISKWERGLSFPDITILIPLSEILGVSLYDLLTGGS 69


>gi|324325802|gb|ADY21062.1| DNA-binding protein [Bacillus thuringiensis serovar finitimus
          YBT-020]
          Length = 403

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECEPSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDEGKIVEL 72


>gi|322412918|gb|EFY03825.1| hypothetical protein SDD27957_00030 [Streptococcus dysgalactiae
          subsp. dysgalactiae ATCC 27957]
          Length = 121

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 35/80 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V ++++  R+   +SQ+ L E L I+ Q + K+E G        L  ++E+ +  +   F
Sbjct: 4  VAEQLKQLRVKHQLSQDALAEQLFISRQAISKWENGDTTSDLENLVRLTEIFDVNLDELF 63

Query: 75 DVSPTVCSDISSEENNVMDF 94
             P         EN  +D 
Sbjct: 64 LAKPNEVKVERIYENKPLDL 83


>gi|319787703|ref|YP_004147178.1| XRE family transcriptional regulator [Pseudoxanthomonas
          suwonensis 11-1]
 gi|317466215|gb|ADV27947.1| transcriptional regulator, XRE family [Pseudoxanthomonas
          suwonensis 11-1]
          Length = 182

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 37/83 (44%), Gaps = 2/83 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G R++  R   G+SQ +L   +G+T   +   E+       S L+ + + +   ++ 
Sbjct: 1  MDIGARLQRVRTARGLSQRELARRVGVTNSTISLIEQNKVSPSVSSLKKVLDGIPISLAD 60

Query: 73 FF--DVSPTVCSDISSEENNVMD 93
          FF  D+ P          + + D
Sbjct: 61 FFTQDLDPGQPEQPFYTADELPD 83


>gi|315034706|gb|EFT46638.1| helix-turn-helix protein [Enterococcus faecalis TX0027]
 gi|315578681|gb|EFU90872.1| helix-turn-helix protein [Enterococcus faecalis TX0630]
          Length = 83

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%)

Query: 20 RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++ R  L ++Q++L E L ++   V+K E G +     +   I+E    P+ + F
Sbjct: 14 KMEREKLKLTQKELAEKLDLSEVYVRKLESGASSPSTKKAVIIAEFFGKPLDYLF 68


>gi|301382555|ref|ZP_07230973.1| DNA-binding protein [Pseudomonas syringae pv. tomato Max13]
 gi|302063078|ref|ZP_07254619.1| DNA-binding protein [Pseudomonas syringae pv. tomato K40]
          Length = 182

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  +  P   + +  + + ++D       ++L 
Sbjct: 58  MVEFFSEETVPENSAQVVYKASELIDISDGAVTMKLV 94


>gi|294617990|ref|ZP_06697595.1| helix-turn-helix domain protein [Enterococcus faecium E1679]
 gi|291595799|gb|EFF27087.1| helix-turn-helix domain protein [Enterococcus faecium E1679]
          Length = 190

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 24/66 (36%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ I++ R    M+Q  L     I+   +   E          L  I+  L+  I  
Sbjct: 1  MDIGRNIKIARKQKKMTQNDLAIKASISRSYLADVEGNRYNPSIETLDSIARALDVQIGT 60

Query: 73 FFDVSP 78
              S 
Sbjct: 61 LLSDSS 66


>gi|257868168|ref|ZP_05647821.1| transcriptional regulator [Enterococcus casseliflavus EC30]
 gi|257874559|ref|ZP_05654212.1| transcriptional regulator [Enterococcus casseliflavus EC10]
 gi|257802282|gb|EEV31154.1| transcriptional regulator [Enterococcus casseliflavus EC30]
 gi|257808723|gb|EEV37545.1| transcriptional regulator [Enterococcus casseliflavus EC10]
          Length = 72

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 29/61 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RIR  R    ++QE+L + L I+     +YE G   +    L  +++   + + +  +++
Sbjct: 4  RIRDLREDKDLNQEQLSKLLNISQTTYSRYESGKIDIPTQSLIKLADFYSTSVDYLLNLT 63

Query: 78 P 78
           
Sbjct: 64 D 64


>gi|255971326|ref|ZP_05421912.1| predicted protein [Enterococcus faecalis T1]
 gi|256617744|ref|ZP_05474590.1| predicted protein [Enterococcus faecalis ATCC 4200]
 gi|256959999|ref|ZP_05564170.1| predicted protein [Enterococcus faecalis Merz96]
 gi|257083788|ref|ZP_05578149.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          Fly1]
 gi|257089285|ref|ZP_05583646.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          CH188]
 gi|255962344|gb|EET94820.1| predicted protein [Enterococcus faecalis T1]
 gi|256597271|gb|EEU16447.1| predicted protein [Enterococcus faecalis ATCC 4200]
 gi|256950495|gb|EEU67127.1| predicted protein [Enterococcus faecalis Merz96]
 gi|256991818|gb|EEU79120.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          Fly1]
 gi|256998097|gb|EEU84617.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          CH188]
          Length = 250

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 24 KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 83

Query: 72 FF 73
          + 
Sbjct: 84 WL 85


>gi|229490099|ref|ZP_04383947.1| regulatory protein [Rhodococcus erythropolis SK121]
 gi|229322975|gb|EEN88748.1| regulatory protein [Rhodococcus erythropolis SK121]
          Length = 203

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 23/51 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +G R+R  R   G++ E L E  G++   + + E G  R     L  ++  
Sbjct: 15 IGPRLRTLRRDRGLTLEGLSEATGVSVSALSRLESGKRRPTLDLLLPLARA 65


>gi|228976066|ref|ZP_04136581.1| hypothetical protein bthur0003_57900 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|229035173|ref|ZP_04189113.1| hypothetical protein bcere0028_51940 [Bacillus cereus AH1271]
 gi|228728143|gb|EEL79179.1| hypothetical protein bcere0028_51940 [Bacillus cereus AH1271]
 gi|228783665|gb|EEM31729.1| hypothetical protein bthur0003_57900 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|326943930|gb|AEA19818.1| transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar chinensis CT-43]
          Length = 51

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/47 (27%), Positives = 21/47 (44%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          MSQ  L   +G+  + +   E G           I++VL++PI   F
Sbjct: 1  MSQGDLANKVGVRRETIGNLENGKYNPSLKLAYDIAKVLKAPIEVLF 47


>gi|209559928|ref|YP_002286400.1| Transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          NZ131]
 gi|209541129|gb|ACI61705.1| Transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          NZ131]
          Length = 195

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I   R    +SQE+L E + ++ Q +  +E        + L  +S++ +  ++
Sbjct: 1  MEIGQQIIRYRKQQALSQEELAEKVYVSRQSISHWENDKTYPVLASLLLLSQIFQVSLN 59


>gi|182417831|ref|ZP_02949145.1| HTH-type transcriptional regulator xre [Clostridium butyricum
          5521]
 gi|237668782|ref|ZP_04528766.1| transcriptional regulator, XRE family [Clostridium butyricum E4
          str. BoNT E BL5262]
 gi|182378294|gb|EDT75826.1| HTH-type transcriptional regulator xre [Clostridium butyricum
          5521]
 gi|237657130|gb|EEP54686.1| transcriptional regulator, XRE family [Clostridium butyricum E4
          str. BoNT E BL5262]
          Length = 111

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 26/58 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+R+R  R+   ++QE+L    G+   ++ +YE    +      + ++      + + 
Sbjct: 5  GERLRQLRIEKNLTQEELANYFGLHKTRISQYELNKRQADDEMKKKLALYFNVSLDWL 62


>gi|194467173|ref|ZP_03073160.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
 gi|194454209|gb|EDX43106.1| transcriptional regulator, XRE family [Lactobacillus reuteri
          100-23]
          Length = 293

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 24/54 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++   R    +SQ +L   L ++ Q V K+E G       +L  +++V    + 
Sbjct: 8  QLLKLRTEKQLSQAELATRLFVSRQAVSKWENGDAEPSIDKLILLAKVFNVSLD 61


>gi|332200001|gb|EGJ14075.1| transcriptional activator [Streptococcus pneumoniae GA47901]
          Length = 299

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLAYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|330469393|ref|YP_004407136.1| helix-turn-helix domain-containing protein [Verrucosispora maris
          AB-18-032]
 gi|328812364|gb|AEB46536.1| helix-turn-helix domain protein [Verrucosispora maris AB-18-032]
          Length = 186

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/95 (20%), Positives = 32/95 (33%), Gaps = 5/95 (5%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+P    +   +R  R  +G+S  +L    GI    + + E G+       L  +   L+
Sbjct: 5  PSPPLATIAAALRQERQRVGISLTELARRAGIAKSTLSQLEAGLGNPSMETLWALCVALD 64

Query: 68 SPISFFFDVSPTV-----CSDISSEENNVMDFIST 97
           P S   +            D     +   DF  T
Sbjct: 65 IPFSRLVEPPANSVRVIRAGDGPRVRSEHADFTGT 99


>gi|326385277|ref|ZP_08206940.1| putative DNA-binding protein [Gordonia neofelifaecis NRRL B-59395]
 gi|326196020|gb|EGD53231.1| putative DNA-binding protein [Gordonia neofelifaecis NRRL B-59395]
          Length = 108

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 31/83 (37%), Gaps = 1/83 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R+ + R  +G+SQ +    LG++   VQ+ E GV R   +     S      + +  + 
Sbjct: 24  QRLTVARQYVGLSQTEFATMLGVSTATVQRAESGVTRPRRTTFMAWSMATGVDLHWL-ET 82

Query: 77  SPTVCSDISSEENNVMDFISTPD 99
                 D            S P+
Sbjct: 83  GEAPSPDGDGASQGCAIRDSNPE 105


>gi|294499262|ref|YP_003562962.1| Helix-turn-helix DNA-binding protein [Bacillus megaterium QM B1551]
 gi|294349199|gb|ADE69528.1| Helix-turn-helix DNA-binding protein [Bacillus megaterium QM B1551]
          Length = 185

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/106 (19%), Positives = 42/106 (39%), Gaps = 11/106 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  +R  R     + ++L +  G++   + K E+G        +  I+  L  P++   
Sbjct: 10  VGNELRKIRTQREFTLDELADRTGVSKLTLGKIERGETNPTLGVMWKITTGLNIPLTKLV 69

Query: 75  DVSPTVC--------SDISSEENNVMDFISTPD---GLQLNRYFIQ 109
            V P+V         S    +E   ++FI        +++ R F+ 
Sbjct: 70  SVEPSVAVSKCGEGFSLKGPDEAWKVEFIFQNQIDSTIEMYRAFLS 115


>gi|222095409|ref|YP_002529469.1| DNA-binding protein [Bacillus cereus Q1]
 gi|221239467|gb|ACM12177.1| DNA-binding protein [Bacillus cereus Q1]
          Length = 403

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECEPSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDEGKIVEL 72


>gi|221232714|ref|YP_002511868.1| DNA-binding protein [Streptococcus pneumoniae ATCC 700669]
 gi|225855479|ref|YP_002736991.1| transcriptional activator [Streptococcus pneumoniae JJA]
 gi|220675176|emb|CAR69760.1| putative DNA-binding protein [Streptococcus pneumoniae ATCC
          700669]
 gi|225723991|gb|ACO19844.1| transcriptional activator [Streptococcus pneumoniae JJA]
          Length = 299

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLAYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|194292664|ref|YP_002008571.1| phage related repressor gp68 [Cupriavidus taiwanensis LMG 19424]
 gi|193226568|emb|CAQ72519.1| putative Gp68, phage related putative repressor, similar to
           bacteriophage phi Gp68 [Cupriavidus taiwanensis LMG
           19424]
          Length = 132

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 25/52 (48%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +R  R   G+  ++L + +G+T   +   E G  R  A  L  ++  LE P+
Sbjct: 71  LRAWRRFRGLPSDQLAKRVGVTRAYISMIETGRRRPAADLLHRLARELEIPV 122


>gi|126179356|ref|YP_001047321.1| XRE family transcriptional regulator [Methanoculleus marisnigri
          JR1]
 gi|125862150|gb|ABN57339.1| transcriptional regulator, XRE family [Methanoculleus marisnigri
          JR1]
          Length = 72

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 28/68 (41%), Gaps = 2/68 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI++ R +  M+QE+L + + +T + +   E+G           I++     I   F F
Sbjct: 3  NRIKVFRAMHDMTQEELADAIRVTRRTINSIERGKYNPSIEVAYRIAKTFGVTIEEVFCF 62

Query: 75 DVSPTVCS 82
          +       
Sbjct: 63 EDGEDTED 70


>gi|75910930|ref|YP_325226.1| XRE family transcriptional regulator [Anabaena variabilis ATCC
          29413]
 gi|75704655|gb|ABA24331.1| transcriptional regulator, XRE family [Anabaena variabilis ATCC
          29413]
          Length = 82

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 32/53 (60%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G+ I+  R+++G++QE+    LG+TF  V ++E G  +     +Q I  +L+
Sbjct: 14 IGQFIQEIRLVMGLTQEEFAVILGVTFPTVNRWENGHTKPSKLAIQQIEALLD 66


>gi|15674958|ref|NP_269132.1| putative repressor protein [Streptococcus pyogenes M1 GAS]
 gi|13622103|gb|AAK33853.1| putative repressor protein - phage associated [Streptococcus
          pyogenes M1 GAS]
          Length = 248

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 30/65 (46%), Gaps = 1/65 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFFFDVS 77
          ++  R+   ++ E+L E +G T   + K+EKG        ++ I++     P    F  +
Sbjct: 11 VKELRLSKNLTMEQLAEEVGKTKSTISKWEKGTRSPKIYEIEEIAKFFGVEPKKMMFGDN 70

Query: 78 PTVCS 82
          PT  +
Sbjct: 71 PTPTA 75


>gi|163938818|ref|YP_001643702.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
           KBAB4]
 gi|163861015|gb|ABY42074.1| transcriptional regulator, XRE family [Bacillus weihenstephanensis
           KBAB4]
          Length = 112

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/92 (26%), Positives = 41/92 (44%), Gaps = 4/92 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIR  R    +SQE+LGE  GI    +   E+G   V    L  +++ L+  +   F
Sbjct: 7   LGERIRFLRKEKNLSQERLGELSGIHTNHIGAIERGEKNVTLESLAKVTKGLDITLEELF 66

Query: 75  DVSPTVCSDISSEENNVMDFI--STPDGLQLN 104
                +  D   + N +M+ +   T +   L 
Sbjct: 67  RYLQPM--DKLDDLNTIMELLLSRTSEDHALV 96


>gi|330876473|gb|EGH10622.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. morsprunorum str. M302280PT]
          Length = 182

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  +  P   + +  + + ++D       ++L 
Sbjct: 58  MVEFFSEETVPENSAQVVYKASELIDISDGAVTMKLV 94


>gi|327396677|dbj|BAK14098.1| HTH-type transcriptional regulator PuuR [Pantoea ananatis
          AJ13355]
          Length = 203

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 34/65 (52%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+IN+G R++L R    M+ ++L +   ++   + + E+ +       L+ +  VL  P+
Sbjct: 16 VEINIGVRLKLIRKSRNMTIKELAQQANVSAGAISQIERNLANPTVRVLEQLRVVLNVPL 75

Query: 71 SFFFD 75
          + F +
Sbjct: 76 TAFLE 80


>gi|319780300|ref|YP_004139776.1| cupin [Mesorhizobium ciceri biovar biserrulae WSM1271]
 gi|317166188|gb|ADV09726.1| Cupin 2 conserved barrel domain protein [Mesorhizobium ciceri
          biovar biserrulae WSM1271]
          Length = 193

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 33/70 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++R  R +LG+S E+LG  +G+T   + K E        + L  + + L   ++  F
Sbjct: 10 IGVKLRHARQVLGLSLEELGARIGLTEGYLSKIENDRATPSMAALHRLVQALGINMNAMF 69

Query: 75 DVSPTVCSDI 84
                 S++
Sbjct: 70 GTLQHNASEV 79


>gi|317487075|ref|ZP_07945882.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
          3_1_6]
 gi|316921647|gb|EFV42926.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
          3_1_6]
          Length = 116

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 34/73 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  I  RR + G +Q +  E +G+    + + E+G       RL+ ++ +LE   +  F
Sbjct: 13 VGANITARRKLKGWTQAEFAEKMGMGPDSLSRIERGTVAPRFPRLEEMARLLECSPADLF 72

Query: 75 DVSPTVCSDISSE 87
               +  +IS +
Sbjct: 73 RSPDEILQEISGK 85


>gi|315655012|ref|ZP_07907916.1| conserved hypothetical protein [Mobiluncus curtisii ATCC 51333]
 gi|315490668|gb|EFU80289.1| conserved hypothetical protein [Mobiluncus curtisii ATCC 51333]
          Length = 326

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 27/54 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          G  +RLRR +LG++Q +L    G+    +  +E    R+  +    +++ +  P
Sbjct: 14 GAFLRLRRNVLGLTQAELAGMSGVPQSHISAFENHKRRISEAEETALAKAVSVP 67


>gi|303241851|ref|ZP_07328346.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
 gi|302590626|gb|EFL60379.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
          Length = 223

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 24/54 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++  R    +SQ+ + + LGIT Q V  YE          L+ +++     I +
Sbjct: 7  LKQLREQSRLSQKDIADYLGITRQAVASYELAKREPDYEILKKLADYFGVSIDY 60


>gi|289642165|ref|ZP_06474316.1| transcriptional regulator, XRE family [Frankia symbiont of
          Datisca glomerata]
 gi|289508011|gb|EFD28959.1| transcriptional regulator, XRE family [Frankia symbiont of
          Datisca glomerata]
          Length = 286

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 38/86 (44%), Gaps = 1/86 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G  IR +R    +S  +L    G++   + + E+G+ +  A  LQ I++ L      
Sbjct: 7  RDLGDFIRDQRKAAHISVRQLARQAGVSNPYLSQIERGLRKPSAEILQQIAKALRISAEV 66

Query: 73 FFDVSPTVCSDISSEENNVMDFISTP 98
           + V   +  + +S+ +     ++  
Sbjct: 67 LY-VQAGILDERASDSDVTAAVLADS 91


>gi|260575913|ref|ZP_05843908.1| transcriptional regulator, XRE family [Rhodobacter sp. SW2]
 gi|259021839|gb|EEW25140.1| transcriptional regulator, XRE family [Rhodobacter sp. SW2]
          Length = 465

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/138 (14%), Positives = 56/138 (40%), Gaps = 25/138 (18%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R  LG++Q+   + LG++   + + E     V AS +  +++   + ++ 
Sbjct: 6   LYAGVKLREIRARLGLTQKAFADKLGVSLPYLNQMENNHRPVSASVVLALAQEFGTDVT- 64

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV--KVR----------QKII 120
                    +D     +++ + ++ P        F  +      +R          +  +
Sbjct: 65  -----ELTTNDAERIVSDMREALADP-------VFAAVPPPLADLRLAASNAPALARAFL 112

Query: 121 ELVRSIVSSEKKYRTIEE 138
           +L R+   S ++  +++E
Sbjct: 113 DLHRAYRQSHERLASLDE 130


>gi|189423556|ref|YP_001950733.1| XRE family transcriptional regulator [Geobacter lovleyi SZ]
 gi|189419815|gb|ACD94213.1| transcriptional regulator, XRE family [Geobacter lovleyi SZ]
          Length = 197

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++IR +R    ++ ++L E  G++   + + E        + L  IS  L+  I FFF
Sbjct: 13 IGEKIRGQRQQRRLTLQELSELTGLSKPLLSQIENEQVVPPLATLLKISRGLKVDIHFFF 72

Query: 75 DVS 77
          +  
Sbjct: 73 EDE 75


>gi|150015818|ref|YP_001308072.1| XRE family transcriptional regulator [Clostridium beijerinckii
          NCIMB 8052]
 gi|149902283|gb|ABR33116.1| transcriptional regulator, XRE family [Clostridium beijerinckii
          NCIMB 8052]
          Length = 120

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          IRL R +  ++Q++L   +GI+   + KYE+G       +   ++        +F+D
Sbjct: 2  IRL-RKLNNLTQKELSLTIGISKSSISKYERGELFPTKEQSIKLASYFNINSKYFYD 57


>gi|90413759|ref|ZP_01221747.1| Hypothetical transcriptional regulator [Photobacterium profundum
           3TCK]
 gi|90325228|gb|EAS41725.1| Hypothetical transcriptional regulator [Photobacterium profundum
           3TCK]
          Length = 125

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/97 (19%), Positives = 39/97 (40%), Gaps = 9/97 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +  RI+  R   G++Q  + + L +  Q     E G        L  ISE+ E P+++F 
Sbjct: 8   IAARIKEAREWKGLTQVHMAQQLQVARQTYLDLETGKTEPKVRLLSEISEITERPLTWFV 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                +          +++     +  +L +YF ++ 
Sbjct: 68  YGDEGI---------EILESEYKEEIDRLLQYFSRLP 95


>gi|150390025|ref|YP_001320074.1| XRE family transcriptional regulator [Alkaliphilus
          metalliredigens QYMF]
 gi|149949887|gb|ABR48415.1| transcriptional regulator, XRE family [Alkaliphilus
          metalliredigens QYMF]
          Length = 64

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 25/61 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++  R  LG+ QE +   LG+T Q +   E             ++  L++ +   F +
Sbjct: 3  NKLKTLRKELGLRQEDVANQLGVTRQTIIAIENDKYNPTLELAMKLARFLDTTVEELFQL 62

Query: 77 S 77
           
Sbjct: 63 E 63


>gi|30265072|ref|NP_847449.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47778382|ref|YP_021927.2| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|65317017|ref|ZP_00389976.1| COG1476: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|165870871|ref|ZP_02215523.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|228930058|ref|ZP_04093068.1| hypothetical protein bthur0010_47400 [Bacillus thuringiensis
          serovar pondicheriensis BGSC 4BA1]
 gi|228948759|ref|ZP_04111036.1| hypothetical protein bthur0007_48830 [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
 gi|229124568|ref|ZP_04253753.1| hypothetical protein bcere0016_48520 [Bacillus cereus 95/8201]
 gi|30259749|gb|AAP28935.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47552087|gb|AAT34402.2| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|164713380|gb|EDR18905.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|228658908|gb|EEL14563.1| hypothetical protein bcere0016_48520 [Bacillus cereus 95/8201]
 gi|228810891|gb|EEM57235.1| hypothetical protein bthur0007_48830 [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
 gi|228829557|gb|EEM75184.1| hypothetical protein bthur0010_47400 [Bacillus thuringiensis
          serovar pondicheriensis BGSC 4BA1]
          Length = 79

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 27/63 (42%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+ +   P+ 
Sbjct: 6  DMKLQNRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAHIFNVPVE 65

Query: 72 FFF 74
            F
Sbjct: 66 EIF 68


>gi|332716117|ref|YP_004443583.1| aldehyde dehydrogenase-like protein [Agrobacterium sp. H13-3]
 gi|325062802|gb|ADY66492.1| aldehyde dehydrogenase-like protein [Agrobacterium sp. H13-3]
          Length = 182

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++G R+R  R+   +SQ +L    G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSVDIGGRLRHLRLRHNISQRELARRAGVTNSTISLIESNTSNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF   P          + +++ 
Sbjct: 59 GLAEFFAYEPETSRKAFYRADELVEI 84


>gi|322374196|ref|ZP_08048729.1| putative transcriptional repressor [Streptococcus sp. C150]
 gi|321276901|gb|EFX53973.1| putative transcriptional repressor [Streptococcus sp. C150]
          Length = 66

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R+   ++Q+ L + +G++ Q +   EKG      +    I + L+  +   F
Sbjct: 5  KLKSARVAKDLTQQGLADAIGVSRQTISAIEKGDYNPTINLCIAICKTLDKTLDQLF 61


>gi|257086213|ref|ZP_05580574.1| predicted protein [Enterococcus faecalis D6]
 gi|256994243|gb|EEU81545.1| predicted protein [Enterococcus faecalis D6]
          Length = 250

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 24 KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 83

Query: 72 FF 73
          + 
Sbjct: 84 WL 85


>gi|256761630|ref|ZP_05502210.1| predicted protein [Enterococcus faecalis T3]
 gi|256682881|gb|EEU22576.1| predicted protein [Enterococcus faecalis T3]
          Length = 250

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 24 KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 83

Query: 72 FF 73
          + 
Sbjct: 84 WL 85


>gi|240142150|ref|YP_002966660.1| putative transcriptional regulator [Methylobacterium extorquens
           AM1]
 gi|240012094|gb|ACS43319.1| Putative transcriptional regulator [Methylobacterium extorquens
           AM1]
          Length = 106

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/117 (17%), Positives = 41/117 (35%), Gaps = 16/117 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPIS 71
           ++ G RI+  R    M+ ++L    G +   V + E K   R  A +L  I+  L   + 
Sbjct: 1   MSFGPRIKELRTAKRMTLDQLAAATGSSKSYVWELENKNPPRPSAEKLSAIAAALGVTVD 60

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
           +          D   +      F     GL              ++++ E+ +++  
Sbjct: 61  YLLGSDSQSLGDAQDQA-----FFREYSGLH----------PDTKRQLREIAKTLGG 102


>gi|228994694|ref|ZP_04154506.1| hypothetical protein bpmyx0001_53640 [Bacillus pseudomycoides DSM
          12442]
 gi|229008870|ref|ZP_04166235.1| hypothetical protein bmyco0002_56090 [Bacillus mycoides Rock1-4]
 gi|228752393|gb|EEM02056.1| hypothetical protein bmyco0002_56090 [Bacillus mycoides Rock1-4]
 gi|228765003|gb|EEM13745.1| hypothetical protein bpmyx0001_53640 [Bacillus pseudomycoides DSM
          12442]
          Length = 51

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/47 (29%), Positives = 22/47 (46%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          MSQE L   +G+  + +   E G           I++VL++PI   F
Sbjct: 1  MSQEDLANKVGVRRETIGNLENGKYNPSFKLTYDIAKVLKAPIEVLF 47


>gi|229197048|ref|ZP_04323786.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          m1293]
 gi|228586468|gb|EEK44548.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          m1293]
          Length = 440

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 34/65 (52%), Gaps = 1/65 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RIR  RM  G++Q +L   +  +   + + E G  +  +S ++ +S+ L+    +
Sbjct: 18 MEIGERIRYVRMHKGLTQGELVSGI-CSITYLSRIESGKIKPSSSFIKKVSKKLDVDSDY 76

Query: 73 FFDVS 77
            + +
Sbjct: 77 LINGN 81


>gi|298346441|ref|YP_003719128.1| hypothetical protein HMPREF0573_11315 [Mobiluncus curtisii ATCC
          43063]
 gi|304389820|ref|ZP_07371779.1| conserved hypothetical protein [Mobiluncus curtisii subsp.
          curtisii ATCC 35241]
 gi|298236502|gb|ADI67634.1| hypothetical protein HMPREF0573_11315 [Mobiluncus curtisii ATCC
          43063]
 gi|304326996|gb|EFL94235.1| conserved hypothetical protein [Mobiluncus curtisii subsp.
          curtisii ATCC 35241]
          Length = 326

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 27/54 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          G  +RLRR +LG++Q +L    G+    +  +E    R+  +    +++ +  P
Sbjct: 14 GAFLRLRRNVLGLTQAELAGMSGVPQSHISAFENHKRRISEAEETALAKAVSVP 67


>gi|256376030|ref|YP_003099690.1| XRE family transcriptional regulator [Actinosynnema mirum DSM
          43827]
 gi|255920333|gb|ACU35844.1| transcriptional regulator, XRE family [Actinosynnema mirum DSM
          43827]
          Length = 512

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 26/56 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG  IR  R   G SQ +L   +  +   + + E+G   +    L  ISE L+S I
Sbjct: 13 VGGLIRASRRQRGWSQAQLATAVSTSQSAINRIEQGGQNLSLEMLSRISEALDSGI 68


>gi|261368490|ref|ZP_05981373.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
 gi|282569479|gb|EFB75014.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
          Length = 153

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 3/60 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF---QQVQKYEKGVNRVGASRLQHISEVLESP 69
          + +G +IR  R    M+Q +LGE +G+      ++ +YE G       +L  I+  L  P
Sbjct: 1  MKIGVKIRQIRQHRHMTQRELGEKIGLGKNGANRIAQYEMGYRTPKRDQLNKIAHALNVP 60


>gi|209546650|ref|YP_002278568.1| XRE family transcriptional regulator [Rhizobium leguminosarum bv.
          trifolii WSM2304]
 gi|209537894|gb|ACI57828.1| transcriptional regulator, XRE family [Rhizobium leguminosarum
          bv. trifolii WSM2304]
          Length = 276

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G ++R  R   G SQ  L    GI+ +Q+   E G +  G   L H+++ L+ P+
Sbjct: 14 LGAQLRAWRGARGKSQLDLSLDTGISQRQISFIESGRSTPGRHNLLHLADALDVPL 69


>gi|116249086|ref|YP_764927.1| putative aldehyde dehydrogenase-like protein [Rhizobium
          leguminosarum bv. viciae 3841]
 gi|115253736|emb|CAK12129.1| putative aldehyde dehydrogenase-like protein [Rhizobium
          leguminosarum bv. viciae 3841]
          Length = 182

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++G R+R  R+   +SQ +L +  G+    +   E   +      L+ I +    PI
Sbjct: 1  MSVDIGSRLRYLRIANKLSQRELAKRTGVPNSTISLIESNASNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF   P            +++ 
Sbjct: 59 GLAEFFAFEPERPRKAFYAAEELVEI 84


>gi|50914249|ref|YP_060221.1| Phage transcriptional repressor [Streptococcus pyogenes
          MGAS10394]
 gi|50903323|gb|AAT87038.1| Phage transcriptional repressor [Streptococcus pyogenes
          MGAS10394]
          Length = 232

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G +++  R+  G++Q +LG  L +    +  +EKG N      L  +  +      +F
Sbjct: 4  GHQLKTARLSKGITQSELGGLLHVNKMTISNWEKGKNIPNEKHLNALLHLFNVTSDYF 61


>gi|19705293|ref|NP_602788.1| transcriptional regulator [Fusobacterium nucleatum subsp.
          nucleatum ATCC 25586]
 gi|19713260|gb|AAL94087.1| Transcriptional regulator [Fusobacterium nucleatum subsp.
          nucleatum ATCC 25586]
          Length = 106

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 1/65 (1%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N K P  + + + K IR RR  L ++QE+     G++F  ++++E     +    L  I+
Sbjct: 19 NIKTPKEIQLEIAKNIRKRRKELKLTQEEFSRKSGVSFGSIKRFEN-TGEISLFSLIKIA 77

Query: 64 EVLES 68
           +LE 
Sbjct: 78 IILEC 82


>gi|86143064|ref|ZP_01061486.1| regulatory protein [Leeuwenhoekiella blandensis MED217]
 gi|85830509|gb|EAQ48968.1| regulatory protein [Leeuwenhoekiella blandensis MED217]
          Length = 244

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 29/57 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +++ K+++  R    +SQ+K+ E LGIT       E G N +    L  +S++   P
Sbjct: 1  MSISKQLKTLRESSSLSQKKVAEELGITQGAYSLIENGQNSITTEHLLTLSKLYSVP 57


>gi|332072175|gb|EGI82661.1| transcriptional activator [Streptococcus pneumoniae GA41301]
          Length = 299

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLAYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|317495916|ref|ZP_07954279.1| hypothetical protein HMPREF0432_00882 [Gemella moribillum M424]
 gi|316914093|gb|EFV35576.1| hypothetical protein HMPREF0432_00882 [Gemella moribillum M424]
          Length = 214

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 31/57 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG RI+  R+  G + E  G+  G++   V K+E+G +     RL  IS++ +  ++
Sbjct: 18 VGSRIKQIRLNKGYTLEAFGKLFGVSKSNVLKWEQGQSLPNKERLASISKIADMSVN 74


>gi|304315449|ref|YP_003850596.1| transcriptional regulator [Methanothermobacter marburgensis str.
          Marburg]
 gi|302588908|gb|ADL59283.1| predicted transcriptional regulator [Methanothermobacter
          marburgensis str. Marburg]
          Length = 67

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/49 (32%), Positives = 24/49 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          IR  R  LG++QE+L E +G+T Q +   E+G           I+  L 
Sbjct: 5  IREYRNKLGLTQEELAEMVGVTRQTIITLERGRYNPSLILAHRITRALG 53


>gi|260583645|ref|ZP_05851393.1| prophage Sa05, DNA-binding protein [Granulicatella elegans ATCC
          700633]
 gi|260158271|gb|EEW93339.1| prophage Sa05, DNA-binding protein [Granulicatella elegans ATCC
          700633]
          Length = 133

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 27/61 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +   R    +SQE+L + +G +   V  +E G   +   +L  +S+     I +   +S 
Sbjct: 7  LSELRREKRLSQEELAKIIGTSQSSVGHWESGRRNIPQDKLLQLSKYFNVSIDYLLGISK 66

Query: 79 T 79
          +
Sbjct: 67 S 67


>gi|257884151|ref|ZP_05663804.1| transcriptional regulator [Enterococcus faecium 1,231,501]
 gi|257819989|gb|EEV47137.1| transcriptional regulator [Enterococcus faecium 1,231,501]
          Length = 370

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 29/69 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K +   R   G++QE L E +G+T   V K+E G +      L  ++   +  +    
Sbjct: 6  LSKNVANLRKEKGVTQETLAEFIGVTKASVSKWETGQSMPDVLILPKLASFFDVSVDELL 65

Query: 75 DVSPTVCSD 83
             P +  +
Sbjct: 66 GYHPQLTKE 74


>gi|257066681|ref|YP_003152937.1| transcriptional regulator, XRE family [Anaerococcus prevotii DSM
          20548]
 gi|256798561|gb|ACV29216.1| transcriptional regulator, XRE family [Anaerococcus prevotii DSM
          20548]
          Length = 134

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/79 (15%), Positives = 33/79 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R+   M+QE++ E + ++ Q +  +E          +  +S++ E  +  
Sbjct: 1  MKIGDKLKEARLKKNMTQEEVAEKIFVSRQSISNWENNKTYPDIGNVIALSDLYEISLDE 60

Query: 73 FFDVSPTVCSDISSEENNV 91
              S      +    + V
Sbjct: 61 LLKGSDNFMKHLEESTDLV 79


>gi|169334129|ref|ZP_02861322.1| hypothetical protein ANASTE_00522 [Anaerofustis stercorihominis DSM
           17244]
 gi|169258846|gb|EDS72812.1| hypothetical protein ANASTE_00522 [Anaerofustis stercorihominis DSM
           17244]
          Length = 294

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 36/84 (42%), Gaps = 8/84 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++  R  L +SQE+  E +G++ Q + K+E          +  I +  +  I    ++
Sbjct: 5   QKLKQIRKKLNLSQEQFAEKIGVSRQAITKWETEGGIADIDNIIRIPKEFDISID---EL 61

Query: 77  SPTVCSDISSEENNVMDFISTPDG 100
                +      NN  DF+ + + 
Sbjct: 62  LKEEKN-----INNKKDFLYSSET 80


>gi|167770470|ref|ZP_02442523.1| hypothetical protein ANACOL_01815 [Anaerotruncus colihominis DSM
          17241]
 gi|167667065|gb|EDS11195.1| hypothetical protein ANACOL_01815 [Anaerotruncus colihominis DSM
          17241]
          Length = 71

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 28/57 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          KR++  R   G SQ  +   LGIT +  +KYE G +    S +  +++  +  + + 
Sbjct: 5  KRLKELRNAKGTSQIAIAAALGITDRGYRKYEAGDSEPTLSVIIALADYFDVSLDYL 61


>gi|99078239|ref|YP_611497.1| XRE family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99035377|gb|ABF62235.1| transcriptional regulator, XRE family with cupin sensor [Ruegeria
          sp. TM1040]
          Length = 190

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 31/83 (37%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D ++G R+R  R    +SQ  L +  G+    +   E G        L+ I + +   +S
Sbjct: 10 DEDLGPRLRSVREKANLSQRALAKKTGVPNSTISLIESGKMNPSVGALRRILDGIPISLS 69

Query: 72 FFFDVSPTVCSDISSEENNVMDF 94
           FF   P           ++ + 
Sbjct: 70 DFFAFEPETEKASFYAAEDLTEI 92


>gi|69245848|ref|ZP_00603665.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|258615560|ref|ZP_05713330.1| Cro/CI family transcriptional regulator [Enterococcus faecium DO]
 gi|293563472|ref|ZP_06677920.1| helix-turn-helix domain protein [Enterococcus faecium E1162]
 gi|294620815|ref|ZP_06700019.1| protein with helix-turn-helix motif [Enterococcus faecium U0317]
 gi|314947741|ref|ZP_07851148.1| helix-turn-helix protein [Enterococcus faecium TX0082]
 gi|68195550|gb|EAN09992.1| Helix-turn-helix motif [Enterococcus faecium DO]
 gi|291599600|gb|EFF30613.1| protein with helix-turn-helix motif [Enterococcus faecium U0317]
 gi|291604474|gb|EFF33960.1| helix-turn-helix domain protein [Enterococcus faecium E1162]
 gi|313645721|gb|EFS10301.1| helix-turn-helix protein [Enterococcus faecium TX0082]
          Length = 265

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 3/67 (4%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEV 65
           PNP     GKRI+  R+  G + E+LG  +  +    +  +E+G N     +L+ +S +
Sbjct: 2  KPNP--SEAGKRIKQLRLSCGFTMEELGRKIDNSPRATISNWERGTNLPNPQKLKLLSTI 59

Query: 66 LESPISF 72
            S I +
Sbjct: 60 TNSTIDW 66


>gi|313680009|ref|YP_004057748.1| XRE family transcriptional regulator [Oceanithermus profundus DSM
          14977]
 gi|313152724|gb|ADR36575.1| transcriptional regulator, XRE family [Oceanithermus profundus
          DSM 14977]
          Length = 71

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 25/65 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+ + R   G SQ  L E LG++ Q V   EKG           I+ V    I   F+ 
Sbjct: 3  NRLPVLRAERGWSQAALAERLGVSRQTVNAIEKGRYDPSLPLAFKIAAVFGLAIEDVFEP 62

Query: 77 SPTVC 81
            +  
Sbjct: 63 EESEA 67


>gi|291543704|emb|CBL16813.1| Predicted transcriptional regulators [Ruminococcus sp. 18P13]
          Length = 75

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          KR+++ R+   M+QE+L + +G+T Q +   E+G           I + L+  +   F
Sbjct: 4  KRMKIARIAHDMNQEELAKRVGVTRQTIGMIEQGNYNPTLKLCMAICDALDCTLDTLF 61


>gi|256844059|ref|ZP_05549546.1| conserved hypothetical protein [Lactobacillus crispatus
          125-2-CHN]
 gi|256613964|gb|EEU19166.1| conserved hypothetical protein [Lactobacillus crispatus
          125-2-CHN]
          Length = 68

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R    ++QE L + + ++ Q +   EKG      +    I + L+  +   F
Sbjct: 5  RMKAARAGKDLTQEDLAQKVDVSRQTISAIEKGNYNPSVNLCIRICQALDKTLDDLF 61


>gi|229017069|ref|ZP_04173988.1| Transcriptional regulator, Xre [Bacillus cereus AH1273]
 gi|229023250|ref|ZP_04179760.1| Transcriptional regulator, Xre [Bacillus cereus AH1272]
 gi|228738044|gb|EEL88530.1| Transcriptional regulator, Xre [Bacillus cereus AH1272]
 gi|228744242|gb|EEL94325.1| Transcriptional regulator, Xre [Bacillus cereus AH1273]
          Length = 404

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 35/78 (44%), Gaps = 1/78 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-KLTKSMLSQIENGKATPSMKTLQYIAEKLECEASFLL 62

Query: 75 DVSPTVCSDISSEENNVM 92
          +       ++ ++   ++
Sbjct: 63 EDDDGEIVELITKMEQLI 80


>gi|222530395|ref|YP_002574277.1| XRE family transcriptional regulator [Caldicellulosiruptor bescii
          DSM 6725]
 gi|222457242|gb|ACM61504.1| transcriptional regulator, XRE family [Caldicellulosiruptor
          bescii DSM 6725]
          Length = 104

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/90 (21%), Positives = 42/90 (46%), Gaps = 3/90 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G  ++  RM   MS+++L + L ++   + KYE+G      + L  I++  +    +
Sbjct: 1  MNFGGILKDLRMQKKMSRQELAKMLELSESAIAKYEEGQRSPDLNTLIKIAKFFDVSTDY 60

Query: 73 FFDVS--PTVCSDISSEENNVMDF-ISTPD 99
             ++  P    D+S E   ++   +  P+
Sbjct: 61 LLGLTNIPKPEMDLSPELKQLLAIALRMPE 90


>gi|194397247|ref|YP_002038409.1| transcriptional regulator [Streptococcus pneumoniae G54]
 gi|194356914|gb|ACF55362.1| transcriptional regulator [Streptococcus pneumoniae G54]
          Length = 383

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ ++  R++ G+S+ +L + + +T Q + ++E    +   S   H++      +++F  
Sbjct: 4   GRVLKELRLLNGLSRAELAQRINLTEQAIWQFESNETKPKLSTKMHLANQFHVDLTYFEQ 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
              ++  D S       D ++T   + 
Sbjct: 64  EEESIRFDXSVIAFRNAD-LATRKTID 89


>gi|168494769|ref|ZP_02718912.1| transcriptional activator [Streptococcus pneumoniae CDC3059-06]
 gi|183575326|gb|EDT95854.1| transcriptional activator [Streptococcus pneumoniae CDC3059-06]
          Length = 273

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLAYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|114569540|ref|YP_756220.1| XRE family transcriptional regulator [Maricaulis maris MCS10]
 gi|114340002|gb|ABI65282.1| transcriptional regulator, XRE family [Maricaulis maris MCS10]
          Length = 67

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 28/64 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R+ R     SQ +LGE +G++ Q +   E G +    +    ++   E  I   FD 
Sbjct: 3  NRLRVLRAERRWSQAELGERVGVSRQAINAVETGKHDPSLTLAFALAGAFELAIEAVFDP 62

Query: 77 SPTV 80
          +   
Sbjct: 63 NGEA 66


>gi|89097987|ref|ZP_01170873.1| hypothetical protein B14911_20703 [Bacillus sp. NRRL B-14911]
 gi|89087150|gb|EAR66265.1| hypothetical protein B14911_20703 [Bacillus sp. NRRL B-14911]
          Length = 187

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 35/78 (44%), Gaps = 1/78 (1%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          +K+ N +  N+G+ +R  R   G+S +   E  G++   + + E+G +    + L  I+ 
Sbjct: 3  EKMEN-IHKNIGENLRNIRRSRGLSLDMAAEATGVSKAMLGQIERGESNPTVTTLWKIAS 61

Query: 65 VLESPISFFFDVSPTVCS 82
           L+   S       +  S
Sbjct: 62 GLQISFSSLMAEKSSEVS 79


>gi|317471258|ref|ZP_07930622.1| hypothetical protein HMPREF1011_00970 [Anaerostipes sp.
          3_2_56FAA]
 gi|316901266|gb|EFV23216.1| hypothetical protein HMPREF1011_00970 [Anaerostipes sp.
          3_2_56FAA]
          Length = 155

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 33/76 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I L R   G++Q +LGE +G+T + V ++E G      + +  + E  E  I+   
Sbjct: 21 IGIFIALLRRERGITQAELGEKIGVTNKTVSRWENGNYMPDIATMLSLCEEFEISINELL 80

Query: 75 DVSPTVCSDISSEENN 90
                  +   + + 
Sbjct: 81 SGQRLGSDEFRKKADE 96


>gi|303239263|ref|ZP_07325792.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
           CD2]
 gi|302593308|gb|EFL63027.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
           CD2]
          Length = 138

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 39/94 (41%), Gaps = 5/94 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESPIS 71
           +  G +I+  R I GMSQ++L    G++ + +Q YE         S L  + +VL + I 
Sbjct: 1   MLFGDKIKELRTIAGMSQQELANNAGLSLRSIQNYESNKRYPKDVSILNRLCKVLNTTI- 59

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
              +   T  ++   E +         D  +L  
Sbjct: 60  ---EELMTEKANFIQEASEKYGSSRKKDAKKLVE 90


>gi|225570756|ref|ZP_03779779.1| hypothetical protein CLOHYLEM_06859 [Clostridium hylemonae DSM
           15053]
 gi|225160218|gb|EEG72837.1| hypothetical protein CLOHYLEM_06859 [Clostridium hylemonae DSM
           15053]
          Length = 199

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 32/78 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  IR +R   GM+ ++L E  G++   +   E+  N      +Q I E   + +    
Sbjct: 24  IGYSIRSQRRKKGMTLQQLSEATGLSIGYLSNLERNANSPTLVNIQKICEAFGTSLFSLL 83

Query: 75  DVSPTVCSDISSEENNVM 92
           +++      +   E   +
Sbjct: 84  EMNKEEDIIVRHNEREPI 101


>gi|160221335|gb|ABX11276.1| XRE-like transcriptional regulator [Burkholderia sp. MBA4]
          Length = 189

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/115 (18%), Positives = 43/115 (37%), Gaps = 10/115 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +IR  R  L  + ++     GI+   + + E+G+     + L  I+  L   + +F 
Sbjct: 13  LGSKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSITSLAGIANALGVKVQYFV 72

Query: 75  DVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFIQIDDVKVRQKI 119
           D      S   + E     F  +            G QL    +++   + R ++
Sbjct: 73  DTPSEERSVCRANELKFFGFADSANLFARMTNLSGGRQLEAILVRMPPGQKRSEV 127


>gi|170758899|ref|YP_001786628.1| putative transcriptional regulator [Clostridium botulinum A3 str.
          Loch Maree]
 gi|169405888|gb|ACA54299.1| putative transcriptional regulator [Clostridium botulinum A3 str.
          Loch Maree]
          Length = 177

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 29/56 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G++I+  R   G++ ++L E   ++   +   E+ +N    S LQ I EVL  
Sbjct: 1  MQLGEKIKYYRKKKGLTIKELSELTNLSIGFISNLERDLNSPSVSNLQQICEVLGI 56


>gi|168183094|ref|ZP_02617758.1| DNA-binding protein [Clostridium botulinum Bf]
 gi|182673878|gb|EDT85839.1| DNA-binding protein [Clostridium botulinum Bf]
          Length = 177

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 29/56 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G++I+  R   G++ ++L E   ++   +   E+ +N    S LQ I EVL  
Sbjct: 1  MQLGEKIKYYRKKKGLTIKELSELTNLSIGFISNLERDLNSPSVSNLQQICEVLGI 56


>gi|160887304|ref|ZP_02068307.1| hypothetical protein BACOVA_05322 [Bacteroides ovatus ATCC 8483]
 gi|255690853|ref|ZP_05414528.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides finegoldii DSM 17565]
 gi|156107715|gb|EDO09460.1| hypothetical protein BACOVA_05322 [Bacteroides ovatus ATCC 8483]
 gi|260623485|gb|EEX46356.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides finegoldii DSM 17565]
 gi|295087085|emb|CBK68608.1| Helix-turn-helix. [Bacteroides xylanisolvens XB1A]
          Length = 135

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 34/133 (25%), Positives = 62/133 (46%), Gaps = 14/133 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP--I 70
            +VG+ ++  R+ LGM QE L   LG+  Q + K EK    +    L+ I+EVL     +
Sbjct: 12  RHVGRNLQRIRVYLGMKQEALAADLGVNQQVISKIEK-QEEIEEGFLKRIAEVLGISEEV 70

Query: 71  SFFFDVSPTVCSDISS--EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
              FDV  T+ +      ++ N+ +  +T         +  +  +   +KI+EL   ++ 
Sbjct: 71  IKDFDVEKTIFNINHHNYKDANISEGATT---------YAIVQQINPLEKIVELYERLLK 121

Query: 129 SEKKYRTIEEECM 141
           SE+    I ++ M
Sbjct: 122 SEQDKIEILKKYM 134


>gi|148379223|ref|YP_001253764.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|153934065|ref|YP_001383597.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|153937268|ref|YP_001387146.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|153941321|ref|YP_001390589.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|168178665|ref|ZP_02613329.1| DNA-binding protein [Clostridium botulinum NCTC 2916]
 gi|170754457|ref|YP_001780864.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
 gi|226948506|ref|YP_002803597.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
 gi|237794524|ref|YP_002862076.1| DNA-binding protein [Clostridium botulinum Ba4 str. 657]
 gi|148288707|emb|CAL82789.1| putative transcriptional regulator [Clostridium botulinum A str.
          ATCC 3502]
 gi|152930109|gb|ABS35609.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|152933182|gb|ABS38681.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|152937217|gb|ABS42715.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|169119669|gb|ACA43505.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
 gi|182671253|gb|EDT83227.1| DNA-binding protein [Clostridium botulinum NCTC 2916]
 gi|226842469|gb|ACO85135.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
 gi|229263464|gb|ACQ54497.1| DNA-binding protein [Clostridium botulinum Ba4 str. 657]
 gi|295318667|gb|ADF99044.1| DNA-binding protein [Clostridium botulinum F str. 230613]
 gi|322805558|emb|CBZ03123.1| transcriptional regulator, MerR family, near polyamine
          transporter [Clostridium botulinum H04402 065]
          Length = 177

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 29/56 (51%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G++I+  R   G++ ++L E   ++   +   E+ +N    S LQ I EVL  
Sbjct: 1  MQLGEKIKYYRKKKGLTIKELSELTNLSIGFISNLERDLNSPSVSNLQQICEVLGI 56


>gi|83942889|ref|ZP_00955349.1| DNA-binding protein, putative [Sulfitobacter sp. EE-36]
 gi|83954060|ref|ZP_00962780.1| DNA-binding protein, putative [Sulfitobacter sp. NAS-14.1]
 gi|83841097|gb|EAP80267.1| DNA-binding protein, putative [Sulfitobacter sp. NAS-14.1]
 gi|83845897|gb|EAP83774.1| DNA-binding protein, putative [Sulfitobacter sp. EE-36]
          Length = 132

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/121 (19%), Positives = 45/121 (37%), Gaps = 11/121 (9%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R    M+Q  L + LGI    ++ +E  ++   A+RL  ++ VL   + +  +
Sbjct: 16  GDRVAAARENADMTQAALAKRLGIKQSTLRGWEDDLSEPRANRLSTLAGVLGVSMMWLIN 75

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                            +     + L        I+   +R  +++    +   EKK R 
Sbjct: 76  GEGEGIDAPDDTAATDANI---KEAL--------IELRDMRADLLKRAEQMGRLEKKLRR 124

Query: 136 I 136
           I
Sbjct: 125 I 125


>gi|332968908|gb|EGK07955.1| DNA-binding protein [Kingella kingae ATCC 23330]
          Length = 123

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/122 (18%), Positives = 54/122 (44%), Gaps = 12/122 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-- 70
           + V  +IR+ R I   SQE++ E L ++     K E+G   +   +L+ I+++    +  
Sbjct: 1   MEVHDKIRVMREINQWSQEEMAEKLAMSANGYAKIERGQTNINIEKLKQIAQIFNIDMVD 60

Query: 71  -------SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
                  +FFF +     +  +    +    +      +L +   +  +++  ++II L+
Sbjct: 61  LIANQDKTFFFSIGDNNVNGHNLNSMDKFQLLLDAKD-ELLK--QKDKEIEALKEIIALL 117

Query: 124 RS 125
           ++
Sbjct: 118 KA 119


>gi|325000733|ref|ZP_08121845.1| transcriptional regulator, XRE family protein [Pseudonocardia sp.
          P1]
          Length = 84

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 41/79 (51%), Gaps = 2/79 (2%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D++    +   R   G++Q++LGE +G++ Q V + E G      +    ++ VLE+P+ 
Sbjct: 7  DVH--SDVAAARRRAGLTQKRLGELVGVSRQTVVEIEAGGYNPSTAVALRMAVVLETPVG 64

Query: 72 FFFDVSPTVCSDISSEENN 90
            F ++    +D+ +  ++
Sbjct: 65 ELFALADGEVADLRARRDD 83


>gi|304387680|ref|ZP_07369865.1| phage repressor [Neisseria meningitidis ATCC 13091]
 gi|304338290|gb|EFM04415.1| phage repressor [Neisseria meningitidis ATCC 13091]
          Length = 125

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 9/98 (9%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R++ +R  LG++Q +  E  GI  +   KYE+GV       L      +   +S  F 
Sbjct: 8   GNRLKEKRKFLGLTQAQAAEKAGIERETWGKYERGVFMPSGDVLLSFLN-MGIDVSSLF- 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
                   I   EN+ +    + +  +L  Y+ Q  D 
Sbjct: 66  ---AAEQGIRPSENSEI----SKEESELLGYYRQASDN 96


>gi|296330344|ref|ZP_06872825.1| transcriptional regulator [Bacillus subtilis subsp. spizizenii
          ATCC 6633]
 gi|305676051|ref|YP_003867723.1| transcriptional regulator [Bacillus subtilis subsp. spizizenii
          str. W23]
 gi|296152612|gb|EFG93480.1| transcriptional regulator [Bacillus subtilis subsp. spizizenii
          ATCC 6633]
 gi|305414295|gb|ADM39414.1| transcriptional regulator [Bacillus subtilis subsp. spizizenii
          str. W23]
          Length = 152

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+ IRL R   G S  +L    G++   + K E+GV+       L+ IS  LE  ++  
Sbjct: 2  IGRIIRLYRKRKGYSINQLAVESGVSKSYLSKIERGVHTNPSVQFLKKISATLEVELTEL 61

Query: 74 FDVSPTVCSDISSEENN 90
          FD    +   IS  E  
Sbjct: 62 FDAETMMYEKISGGEEE 78


>gi|291560882|emb|CBL39682.1| Predicted transcriptional regulators [butyrate-producing
          bacterium SSC/2]
          Length = 253

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +   R    ++Q+ L E L ++ + V K+E+G++      L  I+++L+  ++
Sbjct: 13 VTELRKEKNLTQKDLAEKLYVSDKTVSKWERGLSMPNVVLLIPIADILDVTVT 65


>gi|291549688|emb|CBL25950.1| Predicted transcriptional regulators [Ruminococcus torques L2-14]
          Length = 253

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +   R    ++Q+ L E L ++ + V K+E+G++      L  I+++L+  ++
Sbjct: 13 VTELRKEKNLTQKDLAEKLYVSDKTVSKWERGLSMPNVVLLIPIADILDVTVT 65


>gi|257081119|ref|ZP_05575480.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          E1Sol]
 gi|256989149|gb|EEU76451.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          E1Sol]
          Length = 250

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 24 KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 83

Query: 72 FF 73
          + 
Sbjct: 84 WL 85


>gi|228942196|ref|ZP_04104736.1| hypothetical protein bthur0008_48270 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|228975125|ref|ZP_04135684.1| hypothetical protein bthur0003_48730 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228981764|ref|ZP_04142059.1| hypothetical protein bthur0002_49230 [Bacillus thuringiensis
          Bt407]
 gi|228777876|gb|EEM26148.1| hypothetical protein bthur0002_49230 [Bacillus thuringiensis
          Bt407]
 gi|228784646|gb|EEM32666.1| hypothetical protein bthur0003_48730 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228817530|gb|EEM63615.1| hypothetical protein bthur0008_48270 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
          Length = 79

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+++   P+ 
Sbjct: 6  DMKLQNRVRELRAKHRLSQGDLGKVIGSSRQTISLIERGDYAPSIVLSLKIAQIFNVPVE 65

Query: 72 FFF 74
            F
Sbjct: 66 EIF 68


>gi|229029469|ref|ZP_04185551.1| Transcriptional regulator, Xre [Bacillus cereus AH1271]
 gi|228731822|gb|EEL82722.1| Transcriptional regulator, Xre [Bacillus cereus AH1271]
          Length = 404

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 35/78 (44%), Gaps = 1/78 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-KLTKSMLSQIENGKATPSMKTLQYIAEKLECEASFLL 62

Query: 75 DVSPTVCSDISSEENNVM 92
          +       ++ ++   ++
Sbjct: 63 EDDDGEIVELITKMEQLI 80


>gi|311741369|ref|ZP_07715193.1| XRE family transcriptional regulator [Corynebacterium
          pseudogenitalium ATCC 33035]
 gi|311303539|gb|EFQ79618.1| XRE family transcriptional regulator [Corynebacterium
          pseudogenitalium ATCC 33035]
          Length = 64

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G+SQ+ L   LG++ Q V   EKG           I+      I   F
Sbjct: 3  NRLKEIRESKGLSQQGLATELGVSRQTVISIEKGRYDPSLPLAFQIARHFSCRIEDIF 60


>gi|171779391|ref|ZP_02920355.1| hypothetical protein STRINF_01236 [Streptococcus infantarius
          subsp. infantarius ATCC BAA-102]
 gi|171282008|gb|EDT47439.1| hypothetical protein STRINF_01236 [Streptococcus infantarius
          subsp. infantarius ATCC BAA-102]
          Length = 298

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 34/60 (56%), Gaps = 1/60 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+GK  +L R   G+SQ+++   + I+  Q+ ++E+GV+ + A  L    E +   I+ F
Sbjct: 4  NLGKCFKLLRESKGLSQKEIAGEV-ISIAQLSRFERGVSNINADTLYQCLENMNVSIAEF 62


>gi|167766444|ref|ZP_02438497.1| hypothetical protein CLOSS21_00950 [Clostridium sp. SS2/1]
 gi|167711853|gb|EDS22432.1| hypothetical protein CLOSS21_00950 [Clostridium sp. SS2/1]
          Length = 260

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +   R    ++Q+ L E L ++ + V K+E+G++      L  I+++L+  ++
Sbjct: 20 VTELRKEKNLTQKDLAEKLYVSDKTVSKWERGLSMPNVVLLIPIADILDVTVT 72


>gi|167756113|ref|ZP_02428240.1| hypothetical protein CLORAM_01633 [Clostridium ramosum DSM 1402]
 gi|237734098|ref|ZP_04564579.1| conserved hypothetical protein [Mollicutes bacterium D7]
 gi|167704105|gb|EDS18684.1| hypothetical protein CLORAM_01633 [Clostridium ramosum DSM 1402]
 gi|229382924|gb|EEO33015.1| conserved hypothetical protein [Coprobacillus sp. D7]
          Length = 76

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 30/59 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          KRIR  R    ++Q++L E L ++ +   +YE+G   +    L  ++   E+ + +  +
Sbjct: 4  KRIRDLREDKDLTQKQLAEYLNVSQKSYSRYERGERTIDPEILSKLATFHETTVDYLIE 62


>gi|167756112|ref|ZP_02428239.1| hypothetical protein CLORAM_01632 [Clostridium ramosum DSM 1402]
 gi|237734097|ref|ZP_04564578.1| predicted protein [Mollicutes bacterium D7]
 gi|167704104|gb|EDS18683.1| hypothetical protein CLORAM_01632 [Clostridium ramosum DSM 1402]
 gi|229382923|gb|EEO33014.1| predicted protein [Coprobacillus sp. D7]
          Length = 73

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 33/66 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KR++  R   G +QEK+ + L +  +   +YE G + +    L  ++ + ++ + +  + 
Sbjct: 5  KRLKELRTKYGYTQEKVAKYLHVDQKTYSRYELGQHEMTPDTLGKLATLYDTSVDYLIER 64

Query: 77 SPTVCS 82
          +  + S
Sbjct: 65 TDNIKS 70


>gi|218781485|ref|YP_002432803.1| XRE family transcriptional regulator [Desulfatibacillum
          alkenivorans AK-01]
 gi|218762869|gb|ACL05335.1| transcriptional regulator of molybdate metabolism, XRE family
          [Desulfatibacillum alkenivorans AK-01]
          Length = 372

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 10/56 (17%), Positives = 24/56 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +  +++  R   G+SQ +L + +G+  Q +   E G           ++  L + +
Sbjct: 8  ISCKVKQYRQEAGVSQAQLADLVGVKRQAIYDIESGKYLPNTGVALKLARHLGATV 63


>gi|163754238|ref|ZP_02161361.1| transcriptional regulator [Kordia algicida OT-1]
 gi|161326452|gb|EDP97778.1| transcriptional regulator [Kordia algicida OT-1]
          Length = 255

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/73 (30%), Positives = 32/73 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           N+ K I+  R +   SQE+  E LG +   V  YE+G +     RL  +S+  + PI  
Sbjct: 2  RNIQKNIKHLRSLKSFSQERFAETLGWSRSMVGSYEEGRSEPPIDRLIDLSDHFKLPIDI 61

Query: 73 FFDVSPTVCSDIS 85
                T   D S
Sbjct: 62 LVKNDLTQAKDTS 74


>gi|163745028|ref|ZP_02152388.1| DNA-binding protein [Oceanibulbus indolifex HEL-45]
 gi|161381846|gb|EDQ06255.1| DNA-binding protein [Oceanibulbus indolifex HEL-45]
          Length = 227

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 31/66 (46%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R   G+S + + +  G++   V + E+G +    + L +++  L+   +   D 
Sbjct: 53  ARLKEARQGQGLSLDAVAKLSGVSRSMVSQIERGESSPTIATLWNLTRALQVDFAGLLDG 112

Query: 77  SPTVCS 82
           +PT   
Sbjct: 113 APTEAQ 118


>gi|18978166|ref|NP_579523.1| inosine-5'-monophosphate dehydrogenase related protein I
          [Pyrococcus furiosus DSM 3638]
 gi|18893973|gb|AAL81918.1| inosine-5'-monophosphate dehydrogenase related protein I
          [Pyrococcus furiosus DSM 3638]
          Length = 187

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/60 (33%), Positives = 27/60 (45%), Gaps = 3/60 (5%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          IP P+D    + IR  R  LG++QE+L    G+T   + K E G      S    I   L
Sbjct: 4  IPRPIDP---RDIRRIRKELGITQEELARKAGVTQAYIAKLEAGKVDPRLSTFNKILRAL 60


>gi|54310636|ref|YP_131656.1| putative transcriptional regulator [Photobacterium profundum SS9]
 gi|46915079|emb|CAG21854.1| Hypothetical transcriptional regulator [Photobacterium profundum
           SS9]
          Length = 125

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/97 (19%), Positives = 39/97 (40%), Gaps = 9/97 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +  RI+  R   G++Q  + + L +  Q     E G        L  ISE+ E P+++F 
Sbjct: 8   IAARIKEAREWKGLTQVHMAQQLQVARQTYLDLETGKTEPKVRLLSEISEITERPLTWFV 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                +          +++     +  +L +YF ++ 
Sbjct: 68  YGDEGI---------EILESEYKEEIDRLLQYFSRLP 95


>gi|315038300|ref|YP_004031868.1| transcriptional regulator [Lactobacillus amylovorus GRL 1112]
 gi|312276433|gb|ADQ59073.1| putative transcriptional regulator [Lactobacillus amylovorus GRL
          1112]
          Length = 112

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 30/66 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++I   R    M+Q +L +  GI    + K EKG  +V +  L+ I+  L        D+
Sbjct: 9  QKIINYREAQDMTQAELADKSGIERTALNKIEKGTRKVSSDELKAIALALNISADTLLDL 68

Query: 77 SPTVCS 82
          + +  +
Sbjct: 69 NGSELT 74


>gi|300702647|ref|YP_003744247.1| transcriptional regulator protein [Ralstonia solanacearum
          CFBP2957]
 gi|299070308|emb|CBJ41600.1| putative transcription regulator protein [Ralstonia solanacearum
          CFBP2957]
          Length = 113

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 31/83 (37%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +   P P+   +G+RI+  R     SQE L     +    +   E+G+       L ++ 
Sbjct: 13 STSRPAPILTALGERIKQCRHAADKSQETLAFEAHVDRTYISSIERGIANPSIETLANLC 72

Query: 64 EVLESPISFFFDVSPTVCSDISS 86
            L   ++  F     V  + + 
Sbjct: 73 YALNVTLAELFGPLDGVSLEPTG 95


>gi|257870000|ref|ZP_05649653.1| transcriptional regulator [Enterococcus gallinarum EG2]
 gi|257804164|gb|EEV32986.1| transcriptional regulator [Enterococcus gallinarum EG2]
          Length = 112

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 26/55 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          I+  R+   ++Q+++ + +GIT      YE G      S LQ ++++      + 
Sbjct: 6  IKKLRLEKKLTQQEVADKIGITRPAYTAYESGKREPDFSMLQVLADLFGVSTDYL 60


>gi|229084977|ref|ZP_04217229.1| hypothetical protein bcere0022_16010 [Bacillus cereus Rock3-44]
 gi|228698293|gb|EEL51026.1| hypothetical protein bcere0022_16010 [Bacillus cereus Rock3-44]
          Length = 193

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 35/63 (55%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  I+  R   G++ ++L E   ++   + + E+G+  +    L+ +++V E  ++ 
Sbjct: 1  MNIGMEIKKLRAEKGITLKELSEKSELSVGFLSQLERGLTTIAVDSLEKLADVFEVHLTH 60

Query: 73 FFD 75
          FFD
Sbjct: 61 FFD 63


>gi|284029517|ref|YP_003379448.1| XRE family transcriptional regulator [Kribbella flavida DSM 17836]
 gi|283808810|gb|ADB30649.1| transcriptional regulator, XRE family [Kribbella flavida DSM 17836]
          Length = 184

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/114 (16%), Positives = 36/114 (31%), Gaps = 5/114 (4%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P+D+  G  +R  R   G+S  ++ +  G+    + + E G        L  +   LE  
Sbjct: 6   PLDVIAGS-LRRERARAGLSLSEVAKRAGVAKSTLSQLESGTGNPSVETLWALCVALEIQ 64

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            +   D        I ++E   +          L            R+ I  + 
Sbjct: 65  FADLIDPPRPRVQVIRADEGPAIYSEQADYSATLVAS----CPPNARRDIYRIA 114


>gi|126700757|ref|YP_001089654.1| putative transcriptional regulator [Clostridium difficile 630]
 gi|115252194|emb|CAJ70032.1| Transcriptional regulator, Phage-type [Clostridium difficile]
          Length = 66

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 12/63 (19%), Positives = 27/63 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I+  R  L M+Q +L + +G+  + +   E G           I++V ++ +   F+  
Sbjct: 4  KIKEYREKLLMTQNELAKLVGVRRETIVHLENGKYNPSLKLAMDIAKVFDTTVENLFEFI 63

Query: 78 PTV 80
             
Sbjct: 64 EEE 66


>gi|111657893|ref|ZP_01408605.1| hypothetical protein SpneT_02000935 [Streptococcus pneumoniae
           TIGR4]
 gi|332076303|gb|EGI86769.1| putative transcriptional regulator PlcR [Streptococcus pneumoniae
           GA41301]
          Length = 271

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 3/88 (3%)

Query: 28  MSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISS 86
           MSQ +L E  GI  Q Q+ + E G    GA  L  +++ L+  + +FFD       +  S
Sbjct: 1   MSQRELAE--GICKQGQISRLESGEFTPGADFLHALAKKLKVSMDYFFDEQVVEEVNELS 58

Query: 87  EENNVMDFISTPDGLQLNRYFIQIDDVK 114
           E   +     T    +  +Y  ++++VK
Sbjct: 59  EFKKLAQTFITNRNYESLKYIYELENVK 86


>gi|59801268|ref|YP_207980.1| hypothetical protein NGO0867 [Neisseria gonorrhoeae FA 1090]
 gi|194098501|ref|YP_002001563.1| hypothetical protein NGK_0938 [Neisseria gonorrhoeae NCCP11945]
 gi|254493679|ref|ZP_05106850.1| conserved hypothetical protein [Neisseria gonorrhoeae 1291]
 gi|268594735|ref|ZP_06128902.1| transcriptional regulator [Neisseria gonorrhoeae 35/02]
 gi|268596937|ref|ZP_06131104.1| transcriptional regulator [Neisseria gonorrhoeae FA19]
 gi|268598888|ref|ZP_06133055.1| conserved hypothetical protein [Neisseria gonorrhoeae MS11]
 gi|268601243|ref|ZP_06135410.1| conserved hypothetical protein [Neisseria gonorrhoeae PID18]
 gi|268603564|ref|ZP_06137731.1| conserved hypothetical protein [Neisseria gonorrhoeae PID1]
 gi|268682044|ref|ZP_06148906.1| conserved hypothetical protein [Neisseria gonorrhoeae PID332]
 gi|268684254|ref|ZP_06151116.1| conserved hypothetical protein [Neisseria gonorrhoeae SK-92-679]
 gi|268686512|ref|ZP_06153374.1| conserved hypothetical protein [Neisseria gonorrhoeae SK-93-1035]
 gi|291043928|ref|ZP_06569644.1| transcriptional regulator [Neisseria gonorrhoeae DGI2]
 gi|293399131|ref|ZP_06643296.1| hypothetical protein NGNG_00329 [Neisseria gonorrhoeae F62]
 gi|59718163|gb|AAW89568.1| conserved hypothetical protein [Neisseria gonorrhoeae FA 1090]
 gi|193933791|gb|ACF29615.1| Conserved hypothetical protein [Neisseria gonorrhoeae NCCP11945]
 gi|226512719|gb|EEH62064.1| conserved hypothetical protein [Neisseria gonorrhoeae 1291]
 gi|268548124|gb|EEZ43542.1| transcriptional regulator [Neisseria gonorrhoeae 35/02]
 gi|268550725|gb|EEZ45744.1| transcriptional regulator [Neisseria gonorrhoeae FA19]
 gi|268583019|gb|EEZ47695.1| conserved hypothetical protein [Neisseria gonorrhoeae MS11]
 gi|268585374|gb|EEZ50050.1| conserved hypothetical protein [Neisseria gonorrhoeae PID18]
 gi|268587695|gb|EEZ52371.1| conserved hypothetical protein [Neisseria gonorrhoeae PID1]
 gi|268622328|gb|EEZ54728.1| conserved hypothetical protein [Neisseria gonorrhoeae PID332]
 gi|268624538|gb|EEZ56938.1| conserved hypothetical protein [Neisseria gonorrhoeae SK-92-679]
 gi|268626796|gb|EEZ59196.1| conserved hypothetical protein [Neisseria gonorrhoeae SK-93-1035]
 gi|291012391|gb|EFE04380.1| transcriptional regulator [Neisseria gonorrhoeae DGI2]
 gi|291610545|gb|EFF39655.1| hypothetical protein NGNG_00329 [Neisseria gonorrhoeae F62]
          Length = 129

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 36/80 (45%), Gaps = 9/80 (11%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-- 70
          + V  +IR  R +   +QE++ E L ++     K E+G + +   +L+ I+++    +  
Sbjct: 1  MEVHDKIRTLREVNQWTQEEMAEKLEMSVNGYSKIERGKSGINLDKLRQIAQIFNIDVVE 60

Query: 71 -------SFFFDVSPTVCSD 83
                 SFFF +     + 
Sbjct: 61 LLAEQNRSFFFSIGDNTNNH 80


>gi|83955982|ref|ZP_00964493.1| transcriptional regulator, XRE family protein [Sulfitobacter sp.
          NAS-14.1]
 gi|83839746|gb|EAP78924.1| transcriptional regulator, XRE family protein [Sulfitobacter sp.
          NAS-14.1]
          Length = 94

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 32/83 (38%), Gaps = 3/83 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  IR  R+   M+ ++L E  G++   + + EKG   V    +  I+ +L  P    F+
Sbjct: 2  GLMIRAARLERNMTAQELAERAGVSRPLLSRVEKGDMTVSLGAVFEIATILGVP---LFE 58

Query: 76 VSPTVCSDISSEENNVMDFISTP 98
                +   + E      +   
Sbjct: 59 EDDERLTARLATERRANALLRQR 81


>gi|116617488|ref|YP_817859.1| transcriptional regulator [Leuconostoc mesenteroides subsp.
          mesenteroides ATCC 8293]
 gi|116096335|gb|ABJ61486.1| Predicted transcriptional regulator [Leuconostoc mesenteroides
          subsp. mesenteroides ATCC 8293]
          Length = 68

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI+  R    ++Q +L   L +T Q V   EKG           I+E  + PI   F F
Sbjct: 3  NRIQELRKSRKLTQAELAAELEVTRQTVISLEKGKYNASLFLAHRIAEFFDLPIEDVFIF 62

Query: 75 DVSP 78
          +   
Sbjct: 63 EGGK 66


>gi|332686792|ref|YP_004456566.1| XRE family transcriptional regulator [Melissococcus plutonius
          ATCC 35311]
 gi|332370801|dbj|BAK21757.1| transcriptional regulator, XRE family [Melissococcus plutonius
          ATCC 35311]
          Length = 219

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/70 (20%), Positives = 30/70 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++  R   G +Q+ L E L ++ + +  +E G      S L ++SE+    +  F    
Sbjct: 6  QLKSWRNKNGWTQKDLAEKLNVSDKTISSWETGRTYPDISMLLNLSELFNISLDEFMRGD 65

Query: 78 PTVCSDISSE 87
            +   I  +
Sbjct: 66 SKMIKKIDKD 75


>gi|330957317|gb|EGH57577.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. maculicola str. ES4326]
          Length = 182

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 44/96 (45%), Gaps = 6/96 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+ +      P+S 
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLRKVLS--GIPMSM 58

Query: 73  --FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
             FF  +  P   + +  + + ++D       ++L 
Sbjct: 59  VEFFSEETVPENSAQVVYKASELIDISDGAVTMKLV 94


>gi|307628247|gb|ADN72551.1| transcriptional regulator, XRE family protein [Escherichia coli
          UM146]
          Length = 154

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 28/62 (45%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   + I  G+R++  R+  GMSQE   +  G     + + E+G +      ++ ++  L
Sbjct: 1  MKKSLRIQFGERVKELRVATGMSQEAFADRCGFARSYMSRIERGGSNASLDAIEVLASAL 60

Query: 67 ES 68
            
Sbjct: 61 SV 62


>gi|292657070|ref|YP_003536967.1| transcriptional regulator [Haloferax volcanii DS2]
 gi|291370611|gb|ADE02838.1| transcriptional regulator [Haloferax volcanii DS2]
          Length = 70

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 31/68 (45%), Gaps = 2/68 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R RR    +SQ +L E +G+T Q +   E+            ++   +  +   FD  P
Sbjct: 5  LRTRREAADLSQGELAEAVGVTRQTINAIERERYDPSLELAFKLAAYFDCRVEDLFD--P 62

Query: 79 TVCSDISS 86
           + +D+++
Sbjct: 63 ELDADLTA 70


>gi|302554055|ref|ZP_07306397.1| helix-turn-helix domain-containing protein [Streptomyces
          viridochromogenes DSM 40736]
 gi|302471673|gb|EFL34766.1| helix-turn-helix domain-containing protein [Streptomyces
          viridochromogenes DSM 40736]
          Length = 82

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 27/65 (41%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           V  R+ + R    +S++ L E +G  +Q +   E+G           IS+    P+   
Sbjct: 4  QVHNRLAMVRAERKVSRQSLAEAVGAHYQTIGYIERGQYNPSLDLALKISKFFGLPVEAL 63

Query: 74 FDVSP 78
          F + P
Sbjct: 64 FSLEP 68


>gi|255974138|ref|ZP_05424724.1| transcriptional regulator [Enterococcus faecalis T2]
 gi|256854921|ref|ZP_05560285.1| zinc-binding transcriptional regulator [Enterococcus faecalis T8]
 gi|255967010|gb|EET97632.1| transcriptional regulator [Enterococcus faecalis T2]
 gi|256710481|gb|EEU25525.1| zinc-binding transcriptional regulator [Enterococcus faecalis T8]
          Length = 375

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          K++   R+  G++ ++L E   ++ Q +  YE G     A  +  +  VL+ P SFF
Sbjct: 6  KQLTSARIARGLTMKELAEKAELSRQMISNYESGKTIPKADSILKLISVLQFPRSFF 62


>gi|227327673|ref|ZP_03831697.1| putative regulatory protein [Pectobacterium carotovorum subsp.
          carotovorum WPP14]
          Length = 97

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 18/53 (33%), Positives = 24/53 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R  R+  GM+QE L   LG     V K E G  R+      HI+ +L    S
Sbjct: 29 LREARIEKGMTQENLANALGRPQSFVAKIENGERRLDVVEFVHIAHLLSVDAS 81


>gi|257791668|ref|YP_003182274.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|317487866|ref|ZP_07946458.1| hypothetical protein HMPREF1023_00156 [Eggerthella sp. 1_3_56FAA]
 gi|325830662|ref|ZP_08164083.1| putative restriction-modification system control element Bcll
          [Eggerthella sp. HGA1]
 gi|257475565|gb|ACV55885.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|316912992|gb|EFV34509.1| hypothetical protein HMPREF1023_00156 [Eggerthella sp. 1_3_56FAA]
 gi|325487408|gb|EGC89850.1| putative restriction-modification system control element Bcll
          [Eggerthella sp. HGA1]
          Length = 78

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 35/78 (44%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N + I VG RI+  R +  +SQE+    +G+    +   E G   V    L  I+   
Sbjct: 1  MRNILQIKVGLRIKDLRAVHDVSQERFANKIGMDRTYLASIEVGQRNVTLQNLAKIANGF 60

Query: 67 ESPISFFFDVSPTVCSDI 84
          +  +S FF+  P V  + 
Sbjct: 61 DMTLSEFFEGIPRVDPNT 78


>gi|259907093|ref|YP_002647449.1| transcriptional regulator [Erwinia pyrifoliae Ep1/96]
 gi|224962715|emb|CAX54170.1| transcriptional regulator [Erwinia pyrifoliae Ep1/96]
 gi|283476894|emb|CAY72745.1| putative transcriptional regulator [Erwinia pyrifoliae DSM 12163]
          Length = 85

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 36/69 (52%), Gaps = 4/69 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+  G+SQ+KLG   GI       ++ +YE+G++      +  ++ VL+ P  + 
Sbjct: 5  RLKEARLKKGLSQQKLGVLAGIDEATASARMNQYERGIHVPDFELVCRLAAVLDVPSCYL 64

Query: 74 FDVSPTVCS 82
          + +   + +
Sbjct: 65 YTLEDELAA 73


>gi|157693836|ref|YP_001488298.1| transcriptional regulator [Bacillus pumilus SAFR-032]
 gi|157682594|gb|ABV63738.1| transcriptional regulator [Bacillus pumilus SAFR-032]
          Length = 156

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 1/77 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +GK IR+ R   G S ++L E   ++   + K E+GV+R      L+ +S  LE  +   
Sbjct: 2  IGKVIRIYRKRKGYSIQQLAEDAHVSKSYLSKIERGVHRNPSVQFLKKVSSSLEIDLQEL 61

Query: 74 FDVSPTVCSDISSEENN 90
          FD    +  D  S E+ 
Sbjct: 62 FDAETMMFHDAESGEHE 78


>gi|159905781|ref|YP_001549443.1| XRE family transcriptional regulator [Methanococcus maripaludis
          C6]
 gi|159887274|gb|ABX02211.1| transcriptional regulator, XRE family [Methanococcus maripaludis
          C6]
          Length = 184

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 30/67 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R+R  R +  +S E++ + L I+ +  Q YE+G   + AS L  I+   E  +  
Sbjct: 6  KEIASRVRELRELSDISIEEMADHLKISPEIYQHYEEGTCDIPASVLYEIAHKFEVDMGL 65

Query: 73 FFDVSPT 79
                T
Sbjct: 66 LLTGEET 72


>gi|121634808|ref|YP_975053.1| putative phage repressor [Neisseria meningitidis FAM18]
 gi|218768099|ref|YP_002342611.1| putative phage repressor [Neisseria meningitidis Z2491]
 gi|120866514|emb|CAM10264.1| putative phage repressor [Neisseria meningitidis FAM18]
 gi|121052107|emb|CAM08421.1| putative phage repressor [Neisseria meningitidis Z2491]
 gi|254672493|emb|CBA05983.1| transcriptional regulator, Cro/CI family [Neisseria meningitidis
           alpha275]
 gi|261392641|emb|CAX50205.1| putative DNA-binding phage protein [Neisseria meningitidis 8013]
 gi|308389194|gb|ADO31514.1| putative phage repressor [Neisseria meningitidis alpha710]
 gi|319410341|emb|CBY90689.1| putative DNA-binding phage protein [Neisseria meningitidis WUE
           2594]
 gi|325132108|gb|EGC54804.1| phage repressor [Neisseria meningitidis M6190]
 gi|325136414|gb|EGC59022.1| phage repressor [Neisseria meningitidis M0579]
 gi|325138041|gb|EGC60614.1| hypothetical protein NMBES14902_1229 [Neisseria meningitidis
           ES14902]
 gi|325142304|gb|EGC64718.1| hypothetical protein NMB9615945_1127 [Neisseria meningitidis
           961-5945]
 gi|325198242|gb|ADY93698.1| hypothetical protein NMBG2136_0985 [Neisseria meningitidis G2136]
 gi|325204082|gb|ADY99535.1| hypothetical protein NMBM01240355_1010 [Neisseria meningitidis
           M01-240355]
          Length = 125

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 9/98 (9%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R++ +R  LG++Q +  E  GI  +   KYE+GV       L      +   +S  F 
Sbjct: 8   GNRLKEKRKFLGLTQAQAAEKAGIERETWGKYERGVFMPSGDVLLSFLN-MGIDVSSLF- 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
                   I   EN+ +    + +  +L  Y+ Q  D 
Sbjct: 66  ---AAEQGIRPSENSEI----SKEESELLGYYRQASDN 96


>gi|148544031|ref|YP_001271401.1| XRE family transcriptional regulator [Lactobacillus reuteri DSM
           20016]
 gi|148531065|gb|ABQ83064.1| transcriptional regulator, XRE family [Lactobacillus reuteri DSM
           20016]
          Length = 111

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/88 (19%), Positives = 34/88 (38%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G RI   R    MSQ +L + LGI    +  YE    +     L  I++  +    +
Sbjct: 1   MSIGNRIADLRTNNHMSQFQLAKVLGIGTSTLGMYETNKRKPSPKVLNKIADYFDVSTDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDG 100
                       ++  +  +  I + +G
Sbjct: 61  LLGRKSKADQVHNATVDEALGTIMSFEG 88


>gi|84496251|ref|ZP_00995105.1| putative UDP-N-acetylglucosamine transferase [Janibacter sp.
          HTCC2649]
 gi|84383019|gb|EAP98900.1| putative UDP-N-acetylglucosamine transferase [Janibacter sp.
          HTCC2649]
          Length = 511

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 25/53 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G  IR  R   G++Q +L + LG +   V + E+G   +    L  + E L 
Sbjct: 10 IGTLIRDARRHQGLTQNELADKLGTSQSAVARIEQGRQNLSLEMLARVGETLG 62


>gi|324327242|gb|ADY22502.1| DNA-binding protein [Bacillus thuringiensis serovar finitimus
          YBT-020]
          Length = 374

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKIIADKRKEKGITQEELAMYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
              +P +  +
Sbjct: 64 LISYTPQMEQE 74


>gi|228943045|ref|ZP_04105546.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228955927|ref|ZP_04117864.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|228968662|ref|ZP_04129641.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228976622|ref|ZP_04137065.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228783091|gb|EEM31227.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228791025|gb|EEM38647.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228803754|gb|EEM50436.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|228816630|gb|EEM62754.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          berliner ATCC 10792]
          Length = 133

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 5/87 (5%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G+ +R  R + G+S   LG+ LG+T   +  +E G        L+ +S   +    
Sbjct: 6  DNIFGRNLRNLRNLQGLSLNALGKELGVTGSAISSWELGNKEPNFDMLKKVSGFFQVSTD 65

Query: 72 F-----FFDVSPTVCSDISSEENNVMD 93
          +      FD        +S   N + +
Sbjct: 66 YMLNYQVFDDEAQRKEVVSQLANEIYE 92


>gi|284989965|ref|YP_003408519.1| XRE family transcriptional regulator [Geodermatophilus obscurus
          DSM 43160]
 gi|284063210|gb|ADB74148.1| transcriptional regulator, XRE family [Geodermatophilus obscurus
          DSM 43160]
          Length = 77

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 26/56 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R RR    ++Q +L E +G++ Q +   E+G           I+ VL   +  FF
Sbjct: 14 VRERRKERRITQAELAEQVGVSRQTIIAVEQGDYAPSVYLALRIARVLGGTVEEFF 69


>gi|161510949|ref|YP_001569072.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          USA300_TCH1516]
 gi|221142637|ref|ZP_03567130.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          str. JKD6009]
 gi|294850703|ref|ZP_06791424.1| transcriptional regulator [Staphylococcus aureus A9754]
 gi|302344736|ref|YP_003813121.1| hypothetical protein pSK1_p26 [Staphylococcus aureus]
 gi|160369758|gb|ABX30728.1| possible transcriptional regulator [Staphylococcus aureus subsp.
          aureus USA300_TCH1516]
 gi|270299795|gb|ACZ68601.1| hypothetical protein SAP064A_010 [Staphylococcus aureus]
 gi|270300347|gb|ACZ69153.1| hypothetical protein SAP066A_022 [Staphylococcus aureus]
 gi|270300431|gb|ACZ69237.1| hypothetical protein SAP070B_021 [Staphylococcus aureus]
 gi|270300546|gb|ACZ69352.1| hypothetical protein SAP062B_011 [Staphylococcus aureus]
 gi|281334293|gb|ADA61377.1| hypothetical protein SAP015A_013 [Staphylococcus aureus]
 gi|281334660|gb|ADA61744.1| hypothetical protein SAP045A_012 [Staphylococcus epidermidis]
 gi|281334719|gb|ADA61803.1| hypothetical protein SAP046A_025 [Staphylococcus aureus]
 gi|281334822|gb|ADA61906.1| hypothetical protein SAP049A_017 [Staphylococcus aureus]
 gi|281334879|gb|ADA61963.1| hypothetical protein SAP050A_035 [Staphylococcus aureus]
 gi|281334891|gb|ADA61975.1| hypothetical protein SAP051A_010 [Staphylococcus aureus]
 gi|281334948|gb|ADA62032.1| hypothetical protein SAP052A_032 [Staphylococcus aureus]
 gi|282166272|gb|ADA80289.1| hypothetical protein SAP107B_015 [Staphylococcus epidermidis]
 gi|282166632|gb|ADA80648.1| hypothetical protein SAP094B_021 [Staphylococcus aureus]
 gi|282166656|gb|ADA80672.1| hypothetical protein SAP098A_003 [Staphylococcus aureus]
 gi|282166710|gb|ADA80726.1| hypothetical protein SAP101A_022 [Staphylococcus aureus]
 gi|282166826|gb|ADA80842.1| hypothetical protein SAP104C_023 [Staphylococcus aureus SK6575]
 gi|282166894|gb|ADA80910.1| hypothetical protein SAP100B_006 [Staphylococcus aureus]
 gi|294822453|gb|EFG38901.1| transcriptional regulator [Staphylococcus aureus A9754]
 gi|300492210|gb|ADK23691.1| hypothetical protein [Staphylococcus aureus]
 gi|302751843|gb|ADL66020.1| putative transcriptional regulator [Staphylococcus aureus subsp.
          aureus str. JKD6008]
 gi|304380376|gb|ADM28820.1| Transcriptional regulator, Cro/CI family [Staphylococcus aureus]
 gi|304381944|gb|ADM28861.1| Transcriptional regulator, Cro/CI family [Staphylococcus aureus]
 gi|304381983|gb|ADM28899.1| Transcriptional regulator, Cro/CI family [Staphylococcus aureus]
 gi|304382081|gb|ADM28943.1| Transcriptional regulator, Cro/CI family [Staphylococcus aureus]
 gi|304384184|gb|ADM28984.1| Transcriptional regulator, Cro/CI family [Staphylococcus aureus]
 gi|304384532|gb|ADM29026.1| Transcriptional regulator, Cro/CI family [Staphylococcus aureus]
 gi|304386475|gb|ADM29070.1| Transcriptional regulator, Cro/CI family [Staphylococcus aureus]
 gi|304389248|gb|ADM29232.1| Transcriptional regulator, Cro/CI family [Staphylococcus aureus]
 gi|315195841|gb|EFU26210.1| possible transcriptional regulator [Staphylococcus aureus subsp.
          aureus CGS01]
          Length = 61

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RIR  R   G+SQE L + L ++ Q +   E        +    ++ + ++ +   F
Sbjct: 3  NRIREYRKQKGISQETLSKELKVSRQTINAIENNKYDPTLTLAFKLARLFDTTVDELF 60


>gi|123441160|ref|YP_001005148.1| putative transcriptional regulatory protein [Yersinia
           enterocolitica subsp. enterocolitica 8081]
 gi|122088121|emb|CAL10909.1| putative transcriptional regulatory protein [Yersinia
           enterocolitica subsp. enterocolitica 8081]
          Length = 196

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/106 (21%), Positives = 42/106 (39%), Gaps = 3/106 (2%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  N      V  ++G R+R  R+   ++ ++L   +G +   + K E  V     + L 
Sbjct: 1   MKKNGDNSGFVLSDLGMRLRHARVAQDITLKQLALKVGCSESLLSKLENEVASPSLAMLH 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMD-FIS--TPDGLQL 103
            ++  LE+ IS     S    S +   E  +   F+      G+ L
Sbjct: 61  RLASALETNISDLMAESWVADSPVLKPEQRIRKRFMHRNKKGGIAL 106


>gi|332995751|gb|AEF05806.1| putative transcriptional regulator [Alteromonas sp. SN2]
          Length = 109

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R+R  R    +SQ+ LG  +G+       ++  YEKG +      L+H++E L+ P+++
Sbjct: 9  QRLREARQRADISQKNLGIRIGMEPSSASGRMNHYEKGRHIPDLQTLKHLAEELDVPLNY 68

Query: 73 FF 74
          FF
Sbjct: 69 FF 70


>gi|315657125|ref|ZP_07910009.1| conserved hypothetical protein [Mobiluncus curtisii subsp.
          holmesii ATCC 35242]
 gi|315492228|gb|EFU81835.1| conserved hypothetical protein [Mobiluncus curtisii subsp.
          holmesii ATCC 35242]
          Length = 326

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 27/54 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          G  +RLRR +LG++Q +L    G+    +  +E    R+  +    +++ +  P
Sbjct: 14 GAFLRLRRNVLGLTQAELAGMSGVPQSHISAFENHKRRISEAEETALAKAVSVP 67


>gi|310825707|ref|YP_003958064.1| transcriptional repressor [Eubacterium limosum KIST612]
 gi|308737441|gb|ADO35101.1| transcriptional repressor [Eubacterium limosum KIST612]
          Length = 116

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/111 (19%), Positives = 48/111 (43%), Gaps = 9/111 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RIRL   I  M Q  L +  GI+   + +Y  G      + +  +++ L    ++  
Sbjct: 5   IGQRIRLALEINHMRQSDLSKKTGISPSAINQYISGNFEPKQNNIYLLAKALNVNEAWLM 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD---VKVRQKIIEL 122
                   D+S E ++    + T   + L + F ++ +    +  +++ EL
Sbjct: 65  ------GYDVSIERSDNSAPLITEQEVALLKLFRKLSETGQDEALKRVEEL 109


>gi|295104565|emb|CBL02109.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii SL3/3]
          Length = 106

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%), Gaps = 1/63 (1%)

Query: 12 DIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          D +  GKRI+  R   G++QE+    L I+ + + + E+G        L  ++  L++ +
Sbjct: 4  DAHATGKRIQKARKAHGLTQEQFAIKLNISDRHLGRIERGECAASIDLLVEVAVSLKTTL 63

Query: 71 SFF 73
           F 
Sbjct: 64 DFL 66


>gi|229101980|ref|ZP_04232694.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          Rock3-28]
 gi|228681563|gb|EEL35726.1| HTH-type transcriptional regulator sinR [Bacillus cereus
          Rock3-28]
          Length = 107

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +      L+ I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
                  + + SE
Sbjct: 62 LHDETEKEARLDSE 75


>gi|229151508|ref|ZP_04279711.1| hypothetical protein bcere0011_30530 [Bacillus cereus m1550]
 gi|228632051|gb|EEK88677.1| hypothetical protein bcere0011_30530 [Bacillus cereus m1550]
          Length = 374

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKIIADKRKEKGITQEELAMYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
              +P +  +
Sbjct: 64 LISYTPQMEQE 74


>gi|227874818|ref|ZP_03992971.1| transcriptional regulator [Mobiluncus mulieris ATCC 35243]
 gi|306818111|ref|ZP_07451842.1| transcriptional regulator [Mobiluncus mulieris ATCC 35239]
 gi|227844593|gb|EEJ54749.1| transcriptional regulator [Mobiluncus mulieris ATCC 35243]
 gi|304649075|gb|EFM46369.1| transcriptional regulator [Mobiluncus mulieris ATCC 35239]
          Length = 69

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 25/65 (38%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I   R    +SQE+LG  +G+T Q +   E G           I+      I   FD +
Sbjct: 4  KIPQLRKERKLSQEELGTAVGVTRQTITSIETGKYVASLPLAYKIAHYFGRTIEDVFDFT 63

Query: 78 PTVCS 82
              S
Sbjct: 64 NLEES 68


>gi|164517198|emb|CAP48673.1| putative integron gene cassette protein [uncultured bacterium]
          Length = 115

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 34/71 (47%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   ++    +++ VG+ +R+ R +  +SQ +L E  GI    +   E+    +G  R +
Sbjct: 30  MSDYRRARKRIEVTVGESVRIFRELQELSQNQLSEITGIPQSTISAIERDRVNLGVERAK 89

Query: 61  HISEVLESPIS 71
            ++  L+   +
Sbjct: 90  VLARALKVHPA 100


>gi|109289970|ref|YP_655502.1| CI repressor [Mannheimia phage phiMHaA1]
 gi|254360842|ref|ZP_04976989.1| bacteriophage repressor [Mannheimia haemolytica PHL213]
 gi|90110576|gb|ABD90586.1| CI repressor [Mannheimia phage phiMhaA1-PHL101]
 gi|90110627|gb|ABD90636.1| CI repressor [Mannheimia phage phiMhaA1-BAA410]
 gi|153092316|gb|EDN73385.1| bacteriophage repressor [Mannheimia haemolytica PHL213]
          Length = 228

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 37/87 (42%), Gaps = 2/87 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R+++     G++QEK  E +G++   V K   G  R   +R+  I+ VL+  +++    
Sbjct: 6   SRLKIVLDQKGLTQEKFAEQIGVSQPSVFKILNGQTR-NPTRIYEIANVLDVDVNWL-KT 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQL 103
                 D +    N   +      L+L
Sbjct: 64  GKGEAPDFAKIGKNPTAYEEESSMLRL 90


>gi|108762155|ref|YP_628901.1| DNA-binding protein [Myxococcus xanthus DK 1622]
 gi|108466035|gb|ABF91220.1| DNA-binding protein [Myxococcus xanthus DK 1622]
          Length = 134

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/102 (18%), Positives = 43/102 (42%), Gaps = 2/102 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  +R  R  L ++Q  + E +GI  +   + E+G        L+ +  VL        
Sbjct: 24  IGNAVRAARQRLELTQADVAERVGIATEVYGRLERGHMLPSVRTLRKLCLVLNCSSDVLL 83

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
            ++    +   +E+    ++   P+  +L R   ++D  ++R
Sbjct: 84  GMAGVEGAPTLAEDPP--EYRERPEVRRLLRTVRKLDAPRLR 123


>gi|89896340|ref|YP_519827.1| hypothetical protein DSY3594 [Desulfitobacterium hafniense Y51]
 gi|89335788|dbj|BAE85383.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 201

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 31/56 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG+ I   R   G++Q+++ + L I+ + + K+E+G+     +    +S VL + I
Sbjct: 9  VGRLILQLRKEKGLTQQQVADMLNISNKTISKWERGLGCPDVTLWSGLSAVLGADI 64


>gi|53714971|ref|YP_100963.1| putative transcriptional regulator [Bacteroides fragilis YCH46]
 gi|265766818|ref|ZP_06094647.1| conserved hypothetical protein [Bacteroides sp. 2_1_16]
 gi|52217836|dbj|BAD50429.1| putative transcriptional regulator [Bacteroides fragilis YCH46]
 gi|263253195|gb|EEZ24671.1| conserved hypothetical protein [Bacteroides sp. 2_1_16]
          Length = 117

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 34/74 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+  +G+ ++  R + G +QE++ + + I       YE G   +  + L+ IS +     
Sbjct: 4  VNQIIGENLKKIRELSGFTQEQVAQSIKIERSTYSNYEGGTREIPYTILEDISNLFGCEP 63

Query: 71 SFFFDVSPTVCSDI 84
             F+ +    ++I
Sbjct: 64 FILFEDNVQTNNEI 77


>gi|260060996|ref|YP_003194076.1| DNA-binding protein [Robiginitalea biformata HTCC2501]
 gi|88785128|gb|EAR16297.1| DNA-binding protein [Robiginitalea biformata HTCC2501]
          Length = 64

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 24/56 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR+ R     +QE+L   +G++ Q +   EK            I+ + E PI   F
Sbjct: 5  IRVLRAEKNWTQEQLASAIGVSRQTINAIEKEKFDPSLPTAFRIARLFEKPIEAIF 60


>gi|219667836|ref|YP_002458271.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|219538096|gb|ACL19835.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 198

 Score = 51.7 bits (123), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 31/56 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG+ I   R   G++Q+++ + L I+ + + K+E+G+     +    +S VL + I
Sbjct: 6  VGRLILQLRKEKGLTQQQVADMLNISNKTISKWERGLGCPDVTLWSGLSAVLGADI 61


>gi|320527629|ref|ZP_08028803.1| helix-turn-helix protein [Solobacterium moorei F0204]
 gi|320131950|gb|EFW24506.1| helix-turn-helix protein [Solobacterium moorei F0204]
          Length = 691

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 27/59 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +++ L R   G+SQ  +   + + F     +E G +    S ++ +S +   P+  F D
Sbjct: 7  EKLTLLRKHYGLSQGDVATKINVKFTDYMNWENGNSIPSISNIRKLSVLFGVPVESFID 65


>gi|317056800|ref|YP_004105267.1| helix-turn-helix domain-containing protein [Ruminococcus albus 7]
 gi|315449069|gb|ADU22633.1| helix-turn-helix domain protein [Ruminococcus albus 7]
          Length = 296

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 23/53 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++R  R    +SQE L   +G++ Q V K+E          +  +S +    +
Sbjct: 6  KLRELRKQEKLSQEALAAKIGVSRQAVTKWETERGLPDIGNIMELSALFGVTV 58


>gi|300855490|ref|YP_003780474.1| hypothetical protein CLJU_c23140 [Clostridium ljungdahlii DSM
          13528]
 gi|300435605|gb|ADK15372.1| conserved hypothetical protein with a HTH motif [Clostridium
          ljungdahlii DSM 13528]
          Length = 184

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/78 (17%), Positives = 37/78 (47%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ +G +++  R+   +S + + +  G++   + + E+G++    S L  IS  L+   
Sbjct: 4  LNLIIGTKLKNIRLRRNLSLDDVSKLTGVSKGMLGQIERGLSNPTVSTLWKISTGLKVSF 63

Query: 71 SFFFDVSPTVCSDISSEE 88
          S F +        I  ++
Sbjct: 64 SSFINEKEDDLKVIHQDD 81


>gi|295092432|emb|CBK78539.1| Helix-turn-helix. [Clostridium cf. saccharolyticum K10]
          Length = 176

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI   R++ GM+Q+ LG  +G   +    ++ +YE G  +  A     +++ L+ 
Sbjct: 1  MAIGERIHFFRLLRGMTQKYLGTIVGFPERSADVRLAQYETGTRKPKAELTAALAQALDV 60

Query: 69 PI 70
            
Sbjct: 61 SP 62


>gi|295700669|ref|YP_003608562.1| XRE family transcriptional regulator [Burkholderia sp. CCGE1002]
 gi|295439882|gb|ADG19051.1| transcriptional regulator, XRE family [Burkholderia sp. CCGE1002]
          Length = 215

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/77 (14%), Positives = 30/77 (38%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++I+  R    M+ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 38  VGEQIQRLRAERRMTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGVSLDSLF 97

Query: 75  DVSPTVCSDISSEENNV 91
               +  +   S  +++
Sbjct: 98  APPKSPEAIAVSGPHDI 114


>gi|255970555|ref|ZP_05421141.1| transcriptional regulator [Enterococcus faecalis T1]
 gi|256760919|ref|ZP_05501499.1| transcriptional regulator [Enterococcus faecalis T3]
 gi|255961573|gb|EET94049.1| transcriptional regulator [Enterococcus faecalis T1]
 gi|256682170|gb|EEU21865.1| transcriptional regulator [Enterococcus faecalis T3]
          Length = 375

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          K++   R+  G++ ++L E   ++ Q +  YE G     A  +  +  VL+ P SFF
Sbjct: 6  KQLTSARIARGLTMKELAEKAELSRQMISNYESGKTIPKADSILKLISVLQFPRSFF 62


>gi|255292223|dbj|BAH89347.1| XRE family transcriptional regulator [uncultured bacterium]
 gi|255292806|dbj|BAH89908.1| XRE family transcriptional regulators [uncultured bacterium]
          Length = 156

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 35/71 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++R  R++LG+S  ++GE +G+T   + K E   ++   + L  +   L   +S  F
Sbjct: 13 IGAKLRHARLMLGLSLCEVGERIGVTEGYLSKLENNRSQASMATLHRLVGALGMNMSELF 72

Query: 75 DVSPTVCSDIS 85
            S      I+
Sbjct: 73 ATSSDDGLPIT 83


>gi|229170494|ref|ZP_04298145.1| hypothetical protein bcere0007_54110 [Bacillus cereus AH621]
 gi|228612964|gb|EEK70138.1| hypothetical protein bcere0007_54110 [Bacillus cereus AH621]
          Length = 163

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 38/92 (41%), Gaps = 5/92 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GKRI+  R I   +Q++L + + +T Q V  +E+         L  +S++ +    +   
Sbjct: 9   GKRIKELRNIKNWTQKELAKNIDVTSQVVSNWEREYTSPNHEDLLKMSKLFQVTTDY--- 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYF 107
               + ++   + N   DF S  +       F
Sbjct: 66  --ILLGNNNIKKINLNYDFESLNETFGNTLAF 95


>gi|186476299|ref|YP_001857769.1| anaerobic benzoate catabolism transcriptional regulator
           [Burkholderia phymatum STM815]
 gi|184192758|gb|ACC70723.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia phymatum STM815]
          Length = 317

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 27/131 (20%), Positives = 51/131 (38%), Gaps = 17/131 (12%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
             ++  +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ I
Sbjct: 22  AEREERDPFLTAMGERVRLLRARRGMTRKTLASETGLSERHLANLESGVGNASVLVLRQI 81

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRY-------FIQIDD 112
           +  L  P++        V  D ++       + + +   D   L R        F Q   
Sbjct: 82  AATLNCPLA-------EVIGDETTSSAEWLLIRELLHGRDQAALQRARVALSEMFAQAPR 134

Query: 113 VKVRQKIIELV 123
              R+  I L+
Sbjct: 135 DPHRKDRIALI 145


>gi|15901812|ref|NP_346416.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae TIGR4]
 gi|111658875|ref|ZP_01409496.1| hypothetical protein SpneT_02000046 [Streptococcus pneumoniae
          TIGR4]
 gi|14973497|gb|AAK76056.1| putative transcriptional regulator PlcR [Streptococcus pneumoniae
          TIGR4]
          Length = 299

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|16800304|ref|NP_470572.1| hypothetical protein lin1235 [Listeria innocua Clip11262]
 gi|16413709|emb|CAC96466.1| lin1235 [Listeria innocua Clip11262]
          Length = 61

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          ++  R+   M+Q+++ E  GI        E+G  R    R + I+  L    + FF+
Sbjct: 4  LKKYRLEKDMTQQEVAEQCGIPKTTYASIEQGKRRPSPERAKLIASKLGFDWTIFFN 60


>gi|15964050|ref|NP_384403.1| hypothetical protein SMc00377 [Sinorhizobium meliloti 1021]
 gi|15073226|emb|CAC41734.1| Conserved hypothetical protein [Sinorhizobium meliloti 1021]
          Length = 263

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 25/57 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +  G R++  R    MSQ  L    GI+ + +   E G +      +  ++ VL+ P
Sbjct: 1  MEFGSRLKEWRGHRRMSQLDLAMAAGISARHLSFLETGRSTPSEGMILRLASVLDVP 57


>gi|147669788|ref|YP_001214606.1| XRE family transcriptional regulator [Dehalococcoides sp. BAV1]
 gi|146270736|gb|ABQ17728.1| transcriptional regulator, XRE family [Dehalococcoides sp. BAV1]
          Length = 69

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 30/58 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++++ R I  ++QE+L + LGIT Q V   E+G           I+ + ++PI   F
Sbjct: 3  NKLKVLRAINSLTQEELADKLGITRQTVISIERGKYSPSLELAFKIASLFKTPIEEIF 60


>gi|148260500|ref|YP_001234627.1| hypothetical protein Acry_1500 [Acidiphilium cryptum JF-5]
 gi|146402181|gb|ABQ30708.1| protein of unknown function DUF955 [Acidiphilium cryptum JF-5]
          Length = 469

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 38/84 (45%), Gaps = 6/84 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ +R  R   G++Q+KL   LGI+   +   E     V A+ L  ++E L+       
Sbjct: 6  IGRIVRRLRQEQGLTQQKLASRLGISTSYLNLIEHDQRGVTAALLIKLTETLKV------ 59

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
          D++    SD    E  + +  + P
Sbjct: 60 DLAALSGSDERQVEQALREAFADP 83


>gi|323483037|ref|ZP_08088431.1| hypothetical protein HMPREF9474_00180 [Clostridium symbiosum
          WAL-14163]
 gi|323403666|gb|EGA95970.1| hypothetical protein HMPREF9474_00180 [Clostridium symbiosum
          WAL-14163]
          Length = 129

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I   R   GM+Q +L E +G+T + V K+E+ ++    + L  ++ +    + 
Sbjct: 3  IAEYRKEKGMTQLELAEKMGVTDKAVSKWERDLSYPDVNSLPKLAGIFGISVD 55


>gi|302545983|ref|ZP_07298325.1| XRE family transcriptional regulator [Streptomyces hygroscopicus
           ATCC 53653]
 gi|302463601|gb|EFL26694.1| XRE family transcriptional regulator [Streptomyces himastatinicus
           ATCC 53653]
          Length = 524

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 39/87 (44%), Gaps = 4/87 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLESPISFF 73
           +G+RI   R   G +QE L   +G +   + K E+G  +     +L  ++ VL  P+   
Sbjct: 123 IGERIAFYRNRRGYTQEVLAGLVGHSTDWLAKVERGRRKPPRIDKLGELARVLRVPLGDL 182

Query: 74  FDVSPTVCSDISSEEN--NVMDFISTP 98
               P +  D   +++   V D + +P
Sbjct: 183 I-GQPALLEDEKQQDDVPAVRDALMSP 208


>gi|294790069|ref|ZP_06755253.1| toxin-antitoxin system, antitoxin component, Xre family
          [Simonsiella muelleri ATCC 29453]
 gi|294481992|gb|EFG29735.1| toxin-antitoxin system, antitoxin component, Xre family
          [Simonsiella muelleri ATCC 29453]
          Length = 88

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 2/63 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV--LESPI 70
          IN+G+ ++  R    M+QE LG  LG+T   V   EKG        +  I+++  +E P+
Sbjct: 2  INLGEWVKEARTSAKMTQESLGFELGMTKANVSNMEKGRTNPSFEHILKIAQITNMELPL 61

Query: 71 SFF 73
            F
Sbjct: 62 HDF 64


>gi|294495804|ref|YP_003542297.1| MerR family transcriptional regulator [Methanohalophilus mahii
          DSM 5219]
 gi|292666803|gb|ADE36652.1| transcriptional regulator, MerR family [Methanohalophilus mahii
          DSM 5219]
          Length = 190

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 29/68 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I   R    MSQE+L +      + + K E G      + L +I+  L   +  F 
Sbjct: 7  LGEKISQLRQSREMSQEELAKASNNDVELIDKLENGALVPSLTPLFNIARALGVRLGTFL 66

Query: 75 DVSPTVCS 82
          D +P    
Sbjct: 67 DDAPQNGP 74


>gi|262377235|ref|ZP_06070460.1| helix-turn-helix domain-containing protein [Acinetobacter lwoffii
          SH145]
 gi|262307973|gb|EEY89111.1| helix-turn-helix domain-containing protein [Acinetobacter lwoffii
          SH145]
          Length = 76

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 35/71 (49%), Gaps = 3/71 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G ++R +R +  ++QEKL     I    + + E+G   +   ++  I++ LE  I  
Sbjct: 6  VSFGLKVREQRKLKKLTQEKLALLCNIDRSYMGRIERGEVNITLEKIYEIAQALEIDI-- 63

Query: 73 FFDVSPTVCSD 83
            D+ P +  D
Sbjct: 64 -LDLMPLIARD 73


>gi|260574980|ref|ZP_05842982.1| transcriptional regulator, XRE family [Rhodobacter sp. SW2]
 gi|259022985|gb|EEW26279.1| transcriptional regulator, XRE family [Rhodobacter sp. SW2]
          Length = 446

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 27/68 (39%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RIR +R+   M Q +L E  GI+   +   E+    +G   L  I+  L        +
Sbjct: 20 GSRIRDKRLQRAMRQSELAELAGISATYLSLIERNRRSIGGKLLNQIARALAVEPVSLTE 79

Query: 76 VSPTVCSD 83
           +     D
Sbjct: 80 GAEGALID 87


>gi|229590309|ref|YP_002872428.1| e14 prophage; putative phage repressor [Pseudomonas fluorescens
           SBW25]
 gi|229362175|emb|CAY49077.1| e14 prophage; putative phage repressor [Pseudomonas fluorescens
           SBW25]
          Length = 235

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 30/83 (36%), Gaps = 2/83 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPIS 71
             +G RI   R   G+SQ  L +  G   Q ++  YEK         +  I+  L+   +
Sbjct: 23  KTLGSRIAHYREKAGLSQAALAKACGWKSQSRIGNYEKDAREPNLDDISKIAHELKIDPA 82

Query: 72  FFFDVSPTVCSDISSEENNVMDF 94
               +     S+IS        F
Sbjct: 83  ALL-LPGESPSNISIAAQPTKSF 104


>gi|227878075|ref|ZP_03996063.1| transcriptional regulator [Lactobacillus crispatus JV-V01]
 gi|256843789|ref|ZP_05549276.1| transcriptional regulator [Lactobacillus crispatus 125-2-CHN]
 gi|256849653|ref|ZP_05555085.1| transcriptional regulator [Lactobacillus crispatus MV-1A-US]
 gi|262047762|ref|ZP_06020714.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
 gi|293381795|ref|ZP_06627770.1| helix-turn-helix protein [Lactobacillus crispatus 214-1]
 gi|312977080|ref|ZP_07788829.1| transcriptional regulator [Lactobacillus crispatus CTV-05]
 gi|227862335|gb|EEJ69866.1| transcriptional regulator [Lactobacillus crispatus JV-V01]
 gi|256613694|gb|EEU18896.1| transcriptional regulator [Lactobacillus crispatus 125-2-CHN]
 gi|256713769|gb|EEU28758.1| transcriptional regulator [Lactobacillus crispatus MV-1A-US]
 gi|260571967|gb|EEX28535.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
 gi|290921665|gb|EFD98692.1| helix-turn-helix protein [Lactobacillus crispatus 214-1]
 gi|310896408|gb|EFQ45473.1| transcriptional regulator [Lactobacillus crispatus CTV-05]
          Length = 66

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R    +SQ +L   +G+  Q +   E            +++  L + ++  F
Sbjct: 2  NRVREYRKQKQISQMELARRIGVARQTINLIENDKYNPSLELCLNLAHALGTDLNTLF 59


>gi|210621012|ref|ZP_03292397.1| hypothetical protein CLOHIR_00340 [Clostridium hiranonis DSM
          13275]
 gi|210154996|gb|EEA86002.1| hypothetical protein CLOHIR_00340 [Clostridium hiranonis DSM
          13275]
          Length = 60

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 26/52 (50%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R    +SQ++L + LGIT Q   + E G  +   S+ + I++   S I   F
Sbjct: 2  REEKKLSQKELAKILGITQQAYSRIELGKAKPSLSKAKEIADFFNSTIEEIF 53


>gi|84686278|ref|ZP_01014173.1| DNA-binding protein, putative [Maritimibacter alkaliphilus
           HTCC2654]
 gi|84665805|gb|EAQ12280.1| DNA-binding protein, putative [Rhodobacterales bacterium HTCC2654]
          Length = 463

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/115 (17%), Positives = 43/115 (37%), Gaps = 23/115 (20%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R  LG++Q+   E LG++   + + E     V    +  +++        
Sbjct: 6   LYAGVKLRETRTRLGLTQKAFAEKLGVSLPYLNQMENNNRPVSTGVVLALAQEFG----- 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP-----------------DGLQLNRYFIQI 110
            FDV+     D      ++ + ++ P                 +   L R F++I
Sbjct: 61  -FDVAELSTGDAERLVTDMREALADPVFADAAPPIADLRLVASNAPALARAFLEI 114


>gi|332297377|ref|YP_004439299.1| helix-turn-helix domain protein [Treponema brennaborense DSM
          12168]
 gi|332180480|gb|AEE16168.1| helix-turn-helix domain protein [Treponema brennaborense DSM
          12168]
          Length = 195

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 34/74 (45%), Gaps = 4/74 (5%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            NK++P       G+++R  R   G + + + +  G++   V + E+         L  
Sbjct: 4  TQNKRVPY----RFGEKLRAVRERKGYTLKVVAQRAGVSESLVSQIERNKVSPAIDTLLM 59

Query: 62 ISEVLESPISFFFD 75
          +++VL+  + F F+
Sbjct: 60 LADVLDINLEFLFE 73


>gi|330866552|gb|EGH01261.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aesculi str. 0893_23]
 gi|330895723|gb|EGH28013.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. japonica str. M301072PT]
 gi|330943309|gb|EGH45692.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. pisi str. 1704B]
 gi|330952098|gb|EGH52358.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae Cit 7]
 gi|330972181|gb|EGH72247.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aceris str. M302273PT]
          Length = 182

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  +  P   + +  + + ++D       ++L 
Sbjct: 58  MVEFFSEESVPENAAQVVYKASELIDISDGAVTMKLV 94


>gi|325479131|gb|EGC82228.1| DNA-binding helix-turn-helix protein [Anaerococcus prevotii
          ACS-065-V-Col13]
          Length = 91

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 27/62 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +   R   GM+Q +LGE +G++ Q +   E+G           ++ V E  +   F++
Sbjct: 27 NNLSSLRKEKGMNQTELGEKVGVSRQTISLIERGDYNPSVLVALSLARVFEVKVEDIFNL 86

Query: 77 SP 78
            
Sbjct: 87 EE 88


>gi|294339778|emb|CAZ88140.1| putative lambda repressor [Thiomonas sp. 3As]
          Length = 159

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +   R+  G+SQ +LGE  G     V +YE G +    +    ++  L   +  F + 
Sbjct: 88  LASLRLAAGLSQRQLGEKCGWEQPHVSRYESGKHEPTLTVAMTLAAALGVGLDRFAEA 145


>gi|228920493|ref|ZP_04083838.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|228839123|gb|EEM84419.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
          Length = 404

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q  L     +T   + + E G        LQ+I+E LE  +SF  
Sbjct: 4  LGEKIKALRKEKKLTQTALAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECEMSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDEGEIVEL 72


>gi|268592014|ref|ZP_06126235.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291312406|gb|EFE52859.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 93

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 34/71 (47%), Gaps = 3/71 (4%)

Query: 6  KIPNPVDINVG--KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             N +DI +   K ++  R+   ++  +LG+ L ++ QQ+ +YE G + +    L    
Sbjct: 10 NKSNDLDIVMATAKYLKSARIEKSLTGTELGKLLNLSQQQISRYENGQSAISIDSLHIYL 69

Query: 64 EVLESP-ISFF 73
          + L    + +F
Sbjct: 70 KALGKDWLDYF 80


>gi|148993148|ref|ZP_01822714.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP9-BS68]
 gi|168489995|ref|ZP_02714194.1| transcriptional activator [Streptococcus pneumoniae SP195]
 gi|147928122|gb|EDK79140.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP9-BS68]
 gi|183571596|gb|EDT92124.1| transcriptional activator [Streptococcus pneumoniae SP195]
 gi|332072071|gb|EGI82558.1| transcriptional activator [Streptococcus pneumoniae GA17570]
          Length = 299

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLAYIARRLGVPVY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|325290127|ref|YP_004266308.1| helix-turn-helix domain protein [Syntrophobotulus glycolicus DSM
          8271]
 gi|324965528|gb|ADY56307.1| helix-turn-helix domain protein [Syntrophobotulus glycolicus DSM
          8271]
          Length = 80

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 32/74 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G +I+  R  L M+Q++L E + +    + K E G +      L  I+  L+  I+   D
Sbjct: 5  GIQIKALRKSLNMTQKQLAELVKLDESMINKIENGHSVGSVQTLSKIAAALKVSITELLD 64

Query: 76 VSPTVCSDISSEEN 89
                 +   E++
Sbjct: 65 DPCFPLENKKPEDD 78


>gi|324014359|gb|EGB83578.1| helix-turn-helix protein [Escherichia coli MS 60-1]
          Length = 70

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +  R++ RR  L M+Q  L E  G++ Q + + E GV       L  +S  L+   ++
Sbjct: 1  MTLATRVKERRKELKMTQVTLAELTGVSQQAINRIESGVI-ARPRYLLEMSIALDCDPNW 59

Query: 73 F 73
           
Sbjct: 60 L 60


>gi|315163418|gb|EFU07435.1| helix-turn-helix protein [Enterococcus faecalis TX0645]
          Length = 78

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G SQ +L + + +T Q V  ++ G       +++ +SE+L  PI+  F
Sbjct: 12 SNLSRYRKEKGFSQTELAKKMNVTQQCVSSWQTGRTIPKPYQMKMLSEILSVPINELF 69


>gi|295108150|emb|CBL22103.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 110

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/87 (14%), Positives = 36/87 (41%), Gaps = 2/87 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G R+R  R   G+SQ+++   + ++   + +YE          L  + +  +    +
Sbjct: 1  MEFGNRLRKLRNQNGLSQKEVAIAISVSVNAISQYETNKRFPEPDVLVRLCKYYKISADY 60

Query: 73 FFDVSPTVCSDISSEENNVMDFISTPD 99
             ++    S  ++ E  V++   + +
Sbjct: 61 LLGLTEQQRSPQTTGE--VLENTLSRE 85


>gi|291279452|ref|YP_003496287.1| transcriptional regulator [Deferribacter desulfuricans SSM1]
 gi|290754154|dbj|BAI80531.1| transcriptional regulator [Deferribacter desulfuricans SSM1]
          Length = 193

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/94 (21%), Positives = 41/94 (43%), Gaps = 1/94 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GK+++  R    ++  +L +  G +   + + E+ +     S L+ I++ LE  I  
Sbjct: 13  MTIGKKVQELRQKKQLTLRQLSKLSGCSLGFLSQVERDLVSPTVSSLKKIADALEVNIMH 72

Query: 73  FFDVSPTVCSDIS-SEENNVMDFISTPDGLQLNR 105
           FFD        +   EE N +    +    +L R
Sbjct: 73  FFDHPSRYQRVVVKKEERNKLVNPKSKVTYELLR 106


>gi|291299563|ref|YP_003510841.1| XRE family transcriptional regulator [Stackebrandtia nassauensis
           DSM 44728]
 gi|290568783|gb|ADD41748.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis
           DSM 44728]
          Length = 186

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/113 (15%), Positives = 38/113 (33%), Gaps = 4/113 (3%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P P+   +   +R  R   G+S  ++ +  GI    + + E G    G   L  +S  L 
Sbjct: 5   PRPLIEVIAHALRRERDRAGLSLSEVAKRAGIAKSTLSQLEAGSGNPGVETLWALSVALN 64

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
            P +   + S +    I + +          +        +     + R+ + 
Sbjct: 65  VPFATLVEPSTSRVQVIRAGQGPTFA----AEHADYVATVLSASPPRARRDLY 113


>gi|227886016|ref|ZP_04003821.1| XRE family transcriptional regulator [Escherichia coli 83972]
 gi|227836945|gb|EEJ47411.1| XRE family transcriptional regulator [Escherichia coli 83972]
          Length = 138

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/110 (19%), Positives = 46/110 (41%), Gaps = 11/110 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R  L ++Q+ L + +G+  +    +EK      A +L  +SE+    I +  
Sbjct: 28  IGLRIKEERERLSLTQQGLADAIGVAKRTFIDWEKDRTSPTAVQLSALSEI-GVDILYVV 86

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                           V+    + +  +L   F ++   + R+ I+E+ +
Sbjct: 87  ---------TGVRSQPVVAPYVSQEKKELMDAFDEM-SPEQRRAILEVGK 126


>gi|139472918|ref|YP_001127633.1| DNA-binding protein [Streptococcus pyogenes str. Manfredo]
 gi|134271164|emb|CAM29376.1| putative DNA-binding protein [Streptococcus pyogenes str.
          Manfredo]
          Length = 303

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 35/66 (53%), Gaps = 1/66 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + G ++++ R+   +S+E L G+   ++ +Q+ + E G +    S++  I++ L   + +
Sbjct: 4  HFGGKVKVLRLEKRISREDLCGDESELSVRQLARIELGQSIPSLSKVIFIAKALNVSVGY 63

Query: 73 FFDVSP 78
            D + 
Sbjct: 64 LTDGAD 69


>gi|307278430|ref|ZP_07559505.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
 gi|306504936|gb|EFM74131.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
          Length = 232

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 6  KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 65

Query: 72 FF 73
          + 
Sbjct: 66 WL 67


>gi|307244410|ref|ZP_07526521.1| DNA-binding helix-turn-helix protein [Peptostreptococcus stomatis
          DSM 17678]
 gi|306492229|gb|EFM64271.1| DNA-binding helix-turn-helix protein [Peptostreptococcus stomatis
          DSM 17678]
          Length = 63

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 23/59 (38%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G  +R  R   G +Q +L   +GI+ Q +   E    +         + VL+  I   F
Sbjct: 2  GNNLRQFREKRGFTQTELSTAVGISRQYLSDIETLKKQPTIKIAFDCARVLKVSIEELF 60


>gi|291619608|ref|YP_003522350.1| PuuR [Pantoea ananatis LMG 20103]
 gi|291154638|gb|ADD79222.1| PuuR [Pantoea ananatis LMG 20103]
          Length = 203

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 34/65 (52%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+IN+G R++L R    M+ ++L +   ++   + + E+ +       L+ +  VL  P+
Sbjct: 16 VEINIGVRLKLIRKSRNMTIKELAQQANVSAGAISQIERNLANPTVRVLEQLRVVLNVPL 75

Query: 71 SFFFD 75
          + F +
Sbjct: 76 TAFLE 80


>gi|289674441|ref|ZP_06495331.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. syringae FF5]
          Length = 182

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  +  P   + +  + + ++D       ++L 
Sbjct: 58  MVEFFSEESVPENAAQVVYKASELIDISDGAVTMKLV 94


>gi|265750635|ref|ZP_06086698.1| conserved hypothetical protein [Bacteroides sp. 3_1_33FAA]
 gi|263237531|gb|EEZ22981.1| conserved hypothetical protein [Bacteroides sp. 3_1_33FAA]
          Length = 77

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 19/52 (36%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          I   R    M+Q KL E +G     + + E G      S    I+  L   +
Sbjct: 20 IEEARKKANMTQAKLAEKIGTNKSYISRVETGKTEPKVSTFYRIASALGLNV 71


>gi|237713190|ref|ZP_04543671.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262409417|ref|ZP_06085959.1| conserved hypothetical protein [Bacteroides sp. 2_1_22]
 gi|294647376|ref|ZP_06724969.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides ovatus SD CC 2a]
 gi|294809002|ref|ZP_06767724.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides xylanisolvens SD CC 1b]
 gi|229446848|gb|EEO52639.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262352629|gb|EEZ01727.1| conserved hypothetical protein [Bacteroides sp. 2_1_22]
 gi|292637335|gb|EFF55760.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides ovatus SD CC 2a]
 gi|294443727|gb|EFG12472.1| toxin-antitoxin system, antitoxin component, Xre family
           [Bacteroides xylanisolvens SD CC 1b]
          Length = 135

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 33/131 (25%), Positives = 61/131 (46%), Gaps = 14/131 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP--I 70
            +VG+ ++  R+ LGM QE L   LG+  Q + K EK    +    L+ I+EVL     +
Sbjct: 12  RHVGRNLQRIRVYLGMKQEALAADLGVNQQVISKIEK-QEEIEEGFLKRIAEVLGISEEV 70

Query: 71  SFFFDVSPTVCSDISS--EENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
              FDV  T+ +      ++ N+ +  +T         +  +  +   +KI+EL   ++ 
Sbjct: 71  IKDFDVEKTIFNINHHNYKDANISEGATT---------YAIVQQINPLEKIVELYERLLK 121

Query: 129 SEKKYRTIEEE 139
           SE+    I ++
Sbjct: 122 SEQDKIEILKK 132


>gi|229090748|ref|ZP_04221981.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-42]
 gi|228692690|gb|EEL46416.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-42]
          Length = 403

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDDEIVEL 72


>gi|227555210|ref|ZP_03985257.1| zinc-binding Cro/CI family transcriptional regulator
          [Enterococcus faecalis HH22]
 gi|256958526|ref|ZP_05562697.1| transcriptional regulator [Enterococcus faecalis DS5]
 gi|257078158|ref|ZP_05572519.1| transcriptional regulator [Enterococcus faecalis JH1]
 gi|257088416|ref|ZP_05582777.1| transcriptional regulator [Enterococcus faecalis D6]
 gi|257418088|ref|ZP_05595082.1| transcriptional regulator [Enterococcus faecalis T11]
 gi|294780734|ref|ZP_06746094.1| DNA-binding protein [Enterococcus faecalis PC1.1]
 gi|307270000|ref|ZP_07551325.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|307283890|ref|ZP_07564063.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
 gi|307288073|ref|ZP_07568089.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|307290765|ref|ZP_07570663.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|227175668|gb|EEI56640.1| zinc-binding Cro/CI family transcriptional regulator
          [Enterococcus faecalis HH22]
 gi|256949022|gb|EEU65654.1| transcriptional regulator [Enterococcus faecalis DS5]
 gi|256986188|gb|EEU73490.1| transcriptional regulator [Enterococcus faecalis JH1]
 gi|256996446|gb|EEU83748.1| transcriptional regulator [Enterococcus faecalis D6]
 gi|257159916|gb|EEU89876.1| transcriptional regulator [Enterococcus faecalis T11]
 gi|294452174|gb|EFG20616.1| DNA-binding protein [Enterococcus faecalis PC1.1]
 gi|306498185|gb|EFM67704.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|306500951|gb|EFM70266.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|306503540|gb|EFM72787.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
 gi|306513665|gb|EFM82272.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|315026105|gb|EFT38037.1| helix-turn-helix protein [Enterococcus faecalis TX2137]
 gi|315028652|gb|EFT40584.1| helix-turn-helix protein [Enterococcus faecalis TX4000]
 gi|315033008|gb|EFT44940.1| helix-turn-helix protein [Enterococcus faecalis TX0017]
 gi|315035227|gb|EFT47159.1| helix-turn-helix protein [Enterococcus faecalis TX0027]
 gi|315147020|gb|EFT91036.1| helix-turn-helix protein [Enterococcus faecalis TX4244]
 gi|315163543|gb|EFU07560.1| helix-turn-helix protein [Enterococcus faecalis TX1302]
 gi|315574630|gb|EFU86821.1| helix-turn-helix protein [Enterococcus faecalis TX0309B]
 gi|315580864|gb|EFU93055.1| helix-turn-helix protein [Enterococcus faecalis TX0309A]
 gi|327536374|gb|AEA95208.1| cro/CI family zinc-binding transcriptional regulator
          [Enterococcus faecalis OG1RF]
 gi|329577544|gb|EGG58980.1| DNA-binding helix-turn-helix protein [Enterococcus faecalis
          TX1467]
          Length = 379

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          K++   R+  G++ ++L E   ++ Q +  YE G     A  +  +  VL+ P SFF
Sbjct: 10 KQLTSARIARGLTMKELAEKAELSRQMISNYESGKTIPKADSILKLISVLQFPRSFF 66


>gi|223937259|ref|ZP_03629165.1| transcriptional regulator, XRE family [bacterium Ellin514]
 gi|223894044|gb|EEF60499.1| transcriptional regulator, XRE family [bacterium Ellin514]
          Length = 73

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 4/70 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M+ N+K        +G+ +R +R   G SQEKL E   ++   V + E+G        L 
Sbjct: 1  MLANQKHR----RLLGEAVRAKRKEAGFSQEKLAEKADLSAVFVSRIERGKESPTLDNLV 56

Query: 61 HISEVLESPI 70
           I++ L + +
Sbjct: 57 KIAKALGTHV 66


>gi|157324992|ref|YP_001468418.1| gp33 [Listeria phage A500]
 gi|66733000|gb|AAY52819.1| gp33 [Listeria phage A500]
          Length = 142

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/93 (17%), Positives = 35/93 (37%), Gaps = 3/93 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R++  R     +QE + + LGI+       E G N      +  ++ + E    +   
Sbjct: 3   GNRLKQLRKNTNKTQEDISKILGISRGAYSHIENGRNEPDMETIVKLANIFEVSTDYLLG 62

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
            S     D  +     +D  ++ + ++    +I
Sbjct: 63  KSNNGLVDTIAAH---IDADASEEDIKEILAYI 92


>gi|73663748|ref|YP_302529.1| transcriptional regulator [Staphylococcus saprophyticus subsp.
          saprophyticus ATCC 15305]
 gi|72496263|dbj|BAE19584.1| putative transcriptional regulator [Staphylococcus saprophyticus
          subsp. saprophyticus ATCC 15305]
          Length = 187

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 30/77 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R    +SQE L E L ++ Q +  +E   +      L  +S + +  +  
Sbjct: 1  MNLGHQIKYYRQRGYLSQESLAEKLYVSRQTISNWENDKSYPDIHNLLMLSSLFDVSLDD 60

Query: 73 FFDVSPTVCSDISSEEN 89
                 +      E  
Sbjct: 61 LVKGDVEIMERKLKESR 77


>gi|13471336|ref|NP_102905.1| transcriptional regulator [Mesorhizobium loti MAFF303099]
 gi|14022081|dbj|BAB48691.1| probable transcriptional regulator [Mesorhizobium loti
          MAFF303099]
          Length = 180

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 31/65 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R   G++  ++   L  +   V + E+G++    S L+  +E+   PIS FF    
Sbjct: 6  IRALRRARGLTLAEIALKLDRSVGWVSQVERGLSTPSLSDLRAFAELFGVPISLFFSHDV 65

Query: 79 TVCSD 83
           V S+
Sbjct: 66 PVESE 70


>gi|77462735|ref|YP_352239.1| MerR family transcriptional regulator [Rhodobacter sphaeroides
           2.4.1]
 gi|126461627|ref|YP_001042741.1| hypothetical protein Rsph17029_0858 [Rhodobacter sphaeroides ATCC
           17029]
 gi|221638596|ref|YP_002524858.1| MerR family transcriptional regulator [Rhodobacter sphaeroides
           KD131]
 gi|332557618|ref|ZP_08411940.1| Transcriptional regulator, MerR family protein [Rhodobacter
           sphaeroides WS8N]
 gi|77387153|gb|ABA78338.1| transcriptional regulator, MerR family [Rhodobacter sphaeroides
           2.4.1]
 gi|126103291|gb|ABN75969.1| protein of unknown function DUF955 [Rhodobacter sphaeroides ATCC
           17029]
 gi|221159377|gb|ACM00357.1| Transcriptional regulator, MerR family [Rhodobacter sphaeroides
           KD131]
 gi|332275330|gb|EGJ20645.1| Transcriptional regulator, MerR family protein [Rhodobacter
           sphaeroides WS8N]
          Length = 461

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/130 (13%), Positives = 51/130 (39%), Gaps = 12/130 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R+ LG++Q+   E LG +   + + E     V A+ +  +++     ++ 
Sbjct: 5   LYAGAKLRELRVKLGLTQKVFAERLGASLPYLNQMENNHRPVSATVVLALAQEFGVDVTK 64

Query: 73  F---------FDVSPTVCSDISSEENNVMDF-ISTPDGLQLNRYFIQIDDV--KVRQKII 120
                      D+   +   + ++   + D  +   +     R F+ +     +  +++ 
Sbjct: 65  LTTSEAERIVTDMREALADPVFTDSPPLADLRLVASNAPAFARAFLDLHRAYRQTHERLA 124

Query: 121 ELVRSIVSSE 130
            L  ++   E
Sbjct: 125 SLDEALGRDE 134


>gi|313676267|ref|YP_004054263.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
 gi|312942965|gb|ADR22155.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
          Length = 178

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 25/56 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +   I+  R   G+SQ  + E +G+    +  YEK + +     L +I++     I
Sbjct: 4  ISNNIKYLRTEKGLSQTAMAEAVGLKRGNIASYEKELAQPSIENLVNIADYFGIDI 59


>gi|313247825|ref|YP_004032987.1| DNA-binding protein [Enterococcus faecalis]
 gi|312836992|dbj|BAJ34878.1| DNA-binding protein [Enterococcus faecalis]
          Length = 204

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R    ++QE+L E L ++   + K+E G        L+ IS+     I 
Sbjct: 5  EKLQQLRTGKNLTQEQLAEQLYVSRTAISKWESGKGYPNIESLKCISKFFSVTID 59


>gi|227518256|ref|ZP_03948305.1| transcriptional regulator [Enterococcus faecalis TX0104]
 gi|227554727|ref|ZP_03984774.1| transcriptional regulator [Enterococcus faecalis HH22]
 gi|256963254|ref|ZP_05567425.1| conserved hypothetical protein [Enterococcus faecalis HIP11704]
 gi|257088722|ref|ZP_05583083.1| conserved hypothetical protein [Enterococcus faecalis CH188]
 gi|307270406|ref|ZP_07551709.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|307287459|ref|ZP_07567511.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|312905012|ref|ZP_07764144.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|227074295|gb|EEI12258.1| transcriptional regulator [Enterococcus faecalis TX0104]
 gi|227176142|gb|EEI57114.1| transcriptional regulator [Enterococcus faecalis HH22]
 gi|256953750|gb|EEU70382.1| conserved hypothetical protein [Enterococcus faecalis HIP11704]
 gi|256997534|gb|EEU84054.1| conserved hypothetical protein [Enterococcus faecalis CH188]
 gi|306501505|gb|EFM70804.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|306513253|gb|EFM81882.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|310631673|gb|EFQ14956.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
          Length = 204

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R    ++QE+L E L ++   + K+E G        L+ IS+     I 
Sbjct: 5  EKLQQLRTGKNLTQEQLAEQLYVSRTAISKWESGKGYPNIESLKCISKFFSVTID 59


>gi|218887444|ref|YP_002436765.1| XRE family transcriptional regulator [Desulfovibrio vulgaris str.
          'Miyazaki F']
 gi|218758398|gb|ACL09297.1| transcriptional regulator, XRE family [Desulfovibrio vulgaris
          str. 'Miyazaki F']
          Length = 188

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 33/84 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R+R  R    +S+E+L +  G+  + +   E          LQ ++  L   +  F 
Sbjct: 6  LGARVRKYREDRSLSREELADAAGLKTEFIAALEDDNLYPSIGPLQKLARALNVRLGTFM 65

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
          D + +    +S + +   D     
Sbjct: 66 DDAVSRDPIVSRQGDREADLTMQK 89


>gi|167854546|ref|ZP_02477327.1| ribonuclease T [Haemophilus parasuis 29755]
 gi|167854301|gb|EDS25534.1| ribonuclease T [Haemophilus parasuis 29755]
          Length = 129

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/89 (17%), Positives = 42/89 (47%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++V ++IR+ R +   SQE++   + ++     K E+G  ++   +L+ I+++    +  
Sbjct: 1   MSVNEKIRMVREMNQWSQEEMAAKMNMSTNGYAKIERGETKLNLHKLEQIAQIFNIDVLE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
             +        + +E  N  ++   P+ L
Sbjct: 61  LMNCEGKGVFLLMNENGNNTNYCGNPENL 89


>gi|160915619|ref|ZP_02077827.1| hypothetical protein EUBDOL_01626 [Eubacterium dolichum DSM 3991]
 gi|331082745|ref|ZP_08331868.1| hypothetical protein HMPREF0992_00792 [Lachnospiraceae bacterium
          6_1_63FAA]
 gi|158432095|gb|EDP10384.1| hypothetical protein EUBDOL_01626 [Eubacterium dolichum DSM 3991]
 gi|330400364|gb|EGG80006.1| hypothetical protein HMPREF0992_00792 [Lachnospiraceae bacterium
          6_1_63FAA]
          Length = 204

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R    ++QE+L E L ++   + K+E G        L+ IS+     I 
Sbjct: 5  EKLQQLRTGKNLTQEQLAEQLYVSRTAISKWESGKGYPNIESLKCISKFFSVTID 59


>gi|126736502|ref|ZP_01752243.1| putative transcriptional regulator [Roseobacter sp. CCS2]
 gi|126714040|gb|EBA10910.1| putative transcriptional regulator [Roseobacter sp. CCS2]
          Length = 143

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 43/87 (49%), Gaps = 1/87 (1%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P  + +GKR++  R  +G++QE+    L +    + + E G   VGA  ++ ++ + E 
Sbjct: 32  DPEALQLGKRLKQAREYIGVTQEEAATHLKVRRSAISEMEAGKRGVGALEMKSLASLYER 91

Query: 69  PISFFF-DVSPTVCSDISSEENNVMDF 94
           P ++F  +    V  D++     V D 
Sbjct: 92  PTAWFTGETDTPVPEDVTFLARTVSDL 118


>gi|170725490|ref|YP_001759516.1| XRE family transcriptional regulator [Shewanella woodyi ATCC
          51908]
 gi|169810837|gb|ACA85421.1| transcriptional regulator, XRE family [Shewanella woodyi ATCC
          51908]
          Length = 182

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 33/72 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  ++  R I G+SQ +L +  G+T   +   EK       S L+ +   L   +  
Sbjct: 1  MDIGASLKAVRKIKGLSQRELAKRAGVTNSTISMIEKNSVSPSVSSLKKVLSGLPMSLVD 60

Query: 73 FFDVSPTVCSDI 84
          FF +  T  S+ 
Sbjct: 61 FFSMEDTAASEA 72


>gi|117928830|ref|YP_873381.1| XRE family transcriptional regulator [Acidothermus cellulolyticus
          11B]
 gi|117649293|gb|ABK53395.1| transcriptional regulator, XRE family [Acidothermus
          cellulolyticus 11B]
          Length = 88

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+R+   R   G++Q +L +   +T+Q++   E G  +    R   I+E+L   +
Sbjct: 22 GRRLAQARQAAGLTQAQLADLASVTYQEISHDEAGRRQRPIDRAIQIAEILGWDV 76


>gi|94989544|ref|YP_597644.1| transcriptional regulator [Streptococcus pyogenes MGAS10270]
 gi|94543052|gb|ABF33100.1| Transcriptional regulator [Streptococcus pyogenes MGAS10270]
          Length = 303

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 35/66 (53%), Gaps = 1/66 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + G ++++ R+   +S+E L G+   ++ +Q+ + E G +    S++  I++ L   + +
Sbjct: 4  HFGGKVKVLRLEKRISREDLCGDESELSVRQLARIELGQSIPSLSKVIFIAKALNVSVGY 63

Query: 73 FFDVSP 78
            D + 
Sbjct: 64 LTDGAD 69


>gi|30020685|ref|NP_832316.1| transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|31415823|ref|NP_852563.1| Transcriptional regulator [Bacillus phage phBC6A52]
 gi|29896237|gb|AAP09517.1| Transcriptional regulator [Bacillus cereus ATCC 14579]
          Length = 116

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R+   M+QE+ G+ + +T     K+E G        ++ I++    P+++ +
Sbjct: 6  RIKQIRIDNKMNQEQFGKEVDLTKGTGSKFENGKAFPSRETIEKIAKRFNVPVNYLY 62


>gi|329734872|gb|EGG71175.1| DNA-binding helix-turn-helix protein [Staphylococcus epidermidis
          VCU028]
          Length = 104

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 34/84 (40%), Gaps = 1/84 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
          KR++  R   GM+  +LG  +G T   VQ+YE G +  +    ++ I+  L    +F   
Sbjct: 5  KRMKQSREKQGMTLAELGRKIGKTEATVQRYESGNIKNLKNDTIESIATALNVNPAFLMG 64

Query: 76 VSPTVCSDISSEENNVMDFISTPD 99
                        ++   ++  +
Sbjct: 65 WIDESDEQPQHRAAHLEGELTDEE 88


>gi|325144416|gb|EGC66718.1| DNA-binding protein [Neisseria meningitidis M01-240013]
          Length = 168

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 27/124 (21%), Positives = 51/124 (41%), Gaps = 12/124 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
             G R++  R  L M+Q ++ E  G++ +    YE+G+++  A       +V    + + 
Sbjct: 51  FFGNRLKEERKKLKMTQAEIAEKCGVSGRMWGDYERGISQPKAELFFQFEKV-GIDVQYV 109

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
                   + + SE  N  +     + L L R     D    R+ I+ + R    +EKK 
Sbjct: 110 MHGRRGETAVMPSETLNAEE----QELLVLFREAAAAD----REMILMVAR---RAEKKA 158

Query: 134 RTIE 137
           +T  
Sbjct: 159 QTAL 162


>gi|319399924|gb|EFV88170.1| helix-turn-helix family protein [Staphylococcus epidermidis
          FRI909]
          Length = 189

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 28/65 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NV  +I+  R   G SQE L E + ++ Q +  +E   +      L  + ++ +  +  
Sbjct: 1  MNVSNQIKKFRERDGYSQEFLAEKMFVSRQTISNWENDKSYPDIHNLLIMCQLFKVSLDE 60

Query: 73 FFDVS 77
            +  
Sbjct: 61 LVEDD 65


>gi|311069063|ref|YP_003973986.1| transcriptional regulator SinR [Bacillus atrophaeus 1942]
 gi|310869580|gb|ADP33055.1| transcriptional regulator SinR [Bacillus atrophaeus 1942]
          Length = 111

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+RI+  R   G S  +L E  G+    +   E+ +        L+ +S VL+  +   
Sbjct: 2  IGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLKKVSAVLDVSVHTL 61

Query: 74 FDVSPTVCSDISSEEN 89
           D       D   +  
Sbjct: 62 LDEKHETEYDGQLDSE 77


>gi|310766294|gb|ADP11244.1| transcriptional regulator [Erwinia sp. Ejp617]
          Length = 85

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 35/68 (51%), Gaps = 4/68 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+  G+SQ+KLG   GI       ++ +YE+G++      +  ++ VL+ P  + 
Sbjct: 5  RLKEARLKKGLSQQKLGVLAGIDEATASARMNQYERGIHVPDFELVCRLAAVLDVPSCYL 64

Query: 74 FDVSPTVC 81
          + +   + 
Sbjct: 65 YTLEDELA 72


>gi|301054831|ref|YP_003793042.1| DNA-binding protein [Bacillus anthracis CI]
 gi|300377000|gb|ADK05904.1| hypothetical DNA-binding protein [Bacillus cereus biovar
          anthracis str. CI]
          Length = 67

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 2/62 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R  L M+QE L + + +  + +   EKG           I+  L S I   F F+
Sbjct: 6  KIKEYRAKLNMTQEDLAKQVSVRRETISHLEKGKYNPSLQLAHDIARALHSTIDEVFIFE 65

Query: 76 VS 77
            
Sbjct: 66 DE 67


>gi|299536569|ref|ZP_07049881.1| hypothetical protein BFZC1_11132 [Lysinibacillus fusiformis ZC1]
 gi|298728053|gb|EFI68616.1| hypothetical protein BFZC1_11132 [Lysinibacillus fusiformis ZC1]
          Length = 68

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 24/51 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           RIR  R +  ++QE+L + +G++ Q +   E G          +IS+   
Sbjct: 3  NRIRELRKLKKITQEELSKQVGVSRQSIIAIESGKFNPSLELAYNISKAFN 53


>gi|296270462|ref|YP_003653094.1| XRE family transcriptional regulator [Thermobispora bispora DSM
           43833]
 gi|296093249|gb|ADG89201.1| transcriptional regulator, XRE family [Thermobispora bispora DSM
           43833]
          Length = 474

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/113 (22%), Positives = 50/113 (44%), Gaps = 9/113 (7%)

Query: 17  KRIR--LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI---- 70
           KR+R   RR  LG++QE L + L +    V ++E+            ++ +L+       
Sbjct: 7   KRVRFIQRRKALGLTQENLADALHVERSTVARWERAETEPQPWLRPRLAALLKVSAAELE 66

Query: 71  SFFFDVSPTVC-SDISSEENNVMDFISTPD-GLQLNRYFIQIDDVKVRQKIIE 121
           S   DV+P    +D  +  +   DF  T +  +++   F    D+  R++++ 
Sbjct: 67  SLLADVAPVPGRADRLAHSSAPFDFSLTEEQAVRMLEGFSAY-DIVSRRQVVA 118


>gi|295692649|ref|YP_003601259.1| transcriptional regulator [Lactobacillus crispatus ST1]
 gi|295030755|emb|CBL50234.1| Transcriptional regulator [Lactobacillus crispatus ST1]
          Length = 269

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 37/87 (42%), Gaps = 1/87 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R++LG+SQ  +   + +T     K E+  + +   +L  I       ++ 
Sbjct: 1  MTIGQQLKKFRLLLGLSQADMAAGI-VTASFYSKVERDQSEIIIDKLVEILNAHNISLNE 59

Query: 73 FFDVSPTVCSDISSEENNVMDFISTPD 99
          FF+          + E  V  +    D
Sbjct: 60 FFEAFDKENLPNLNLEKKVYSYFDNRD 86


>gi|326204530|ref|ZP_08194387.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
 gi|325985323|gb|EGD46162.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
          Length = 111

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 41/89 (46%), Gaps = 2/89 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RIR  R  +G+++E+  E +GI+   V + E+G   +       I++ L +   F  
Sbjct: 10  IGLRIRSEREKIGLTREQFAEQVGISPLYVGQIERGQRAMSLKTFVKIADSLHANTDFLI 69

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL 103
                  S   ++++ V++ +      +L
Sbjct: 70  YGIEERAS--GTDKDGVLNLLEKCSVREL 96


>gi|242243266|ref|ZP_04797711.1| Cro/CI family transcriptional regulator [Staphylococcus
          epidermidis W23144]
 gi|242233215|gb|EES35527.1| Cro/CI family transcriptional regulator [Staphylococcus
          epidermidis W23144]
          Length = 189

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 28/65 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NV  +I+  R   G SQE L E + ++ Q +  +E   +      L  + ++ +  +  
Sbjct: 1  MNVSNQIKKFRERDGYSQEFLAEKMFVSRQTISNWENDKSYPDIHNLLIMCQLFKVSLDE 60

Query: 73 FFDVS 77
            +  
Sbjct: 61 LVEDD 65


>gi|228965452|ref|ZP_04126539.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228794283|gb|EEM41800.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          sotto str. T04001]
          Length = 126

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|308535325|ref|YP_002139718.2| helix-turn-helix transcriptional regulator PuuR [Geobacter
          bemidjiensis Bem]
 gi|308052670|gb|ACH39922.2| helix-turn-helix transcriptional regulator PuuR, cupin
          domain-containing protein [Geobacter bemidjiensis Bem]
          Length = 181

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R++  RM+  ++QE+L     +T   + + E        + L+ I +V    +  
Sbjct: 1  MKIGERLKRLRMVNSLTQEELASRADLTKGFISQLENDATSPSIATLKDIVDVFGISMQE 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|160932466|ref|ZP_02079856.1| hypothetical protein CLOLEP_01304 [Clostridium leptum DSM 753]
 gi|156868425|gb|EDO61797.1| hypothetical protein CLOLEP_01304 [Clostridium leptum DSM 753]
          Length = 114

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/48 (33%), Positives = 25/48 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          VG R +  R   G++QE L E +G++   +   E+GVN     +L  I
Sbjct: 10 VGSRFKQYREQSGLTQETLAEKVGLSPNYISAIERGVNFPSLEKLILI 57


>gi|57865959|ref|YP_187612.1| Cro/CI family transcriptional regulator [Staphylococcus
          epidermidis RP62A]
 gi|293367592|ref|ZP_06614245.1| cro/CI family transcriptional regulator [Staphylococcus
          epidermidis M23864:W2(grey)]
 gi|57636617|gb|AAW53405.1| transcriptional regulator, Cro/CI family [Staphylococcus
          epidermidis RP62A]
 gi|291318305|gb|EFE58698.1| cro/CI family transcriptional regulator [Staphylococcus
          epidermidis M23864:W2(grey)]
 gi|329736040|gb|EGG72313.1| DNA-binding helix-turn-helix protein [Staphylococcus epidermidis
          VCU045]
          Length = 189

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 28/65 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NV  +I+  R   G SQE L E + ++ Q +  +E   +      L  + ++ +  +  
Sbjct: 1  MNVSNQIKKFRERDGYSQEFLAEKMFVSRQTISNWENDKSYPDIHNLLIMCQLFKVSLDE 60

Query: 73 FFDVS 77
            +  
Sbjct: 61 LVEDD 65


>gi|27469327|ref|NP_765964.1| hypothetical protein SE2409 [Staphylococcus epidermidis ATCC
          12228]
 gi|282874710|ref|ZP_06283589.1| DNA-binding protein [Staphylococcus epidermidis SK135]
 gi|27316877|gb|AAO06052.1|AE016752_85 conserved hypothetical protein [Staphylococcus epidermidis ATCC
          12228]
 gi|281296426|gb|EFA88941.1| DNA-binding protein [Staphylococcus epidermidis SK135]
 gi|329724169|gb|EGG60687.1| DNA-binding helix-turn-helix protein [Staphylococcus epidermidis
          VCU144]
          Length = 189

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 28/65 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NV  +I+  R   G SQE L E + ++ Q +  +E   +      L  + ++ +  +  
Sbjct: 1  MNVSNQIKKFRERDGYSQEFLAEKMFVSRQTISNWENDKSYPDIHNLLIMCQLFKVSLDE 60

Query: 73 FFDVS 77
            +  
Sbjct: 61 LVEDD 65


>gi|158317899|ref|YP_001510407.1| XRE family transcriptional regulator [Frankia sp. EAN1pec]
 gi|158113304|gb|ABW15501.1| transcriptional regulator, XRE family [Frankia sp. EAN1pec]
          Length = 277

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 38/89 (42%), Gaps = 2/89 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +VG  IR +R    +S  +L    G++   + + E+G+ R  A  LQ I++ L      
Sbjct: 7   RDVGDFIREQRRGAQISLRQLARQAGVSNPYLSQIERGLRRPSAEILQQIAKALRISAEV 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
            +  +  +      E+  ++  +   + L
Sbjct: 67  LYVQAGILEEREGGED--LLAAVHADETL 93


>gi|325262284|ref|ZP_08129021.1| conserved domain protein [Clostridium sp. D5]
 gi|324032116|gb|EGB93394.1| conserved domain protein [Clostridium sp. D5]
          Length = 124

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/102 (24%), Positives = 42/102 (41%), Gaps = 5/102 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R  LG SQE+L + +G      + K E G   +  S++   S  L +  S+  D 
Sbjct: 27  RIKKSRNKLGWSQEELAKKVGYADKTSIAKIEAGKVDLPQSKIVAFSRALSTTTSYLMDG 86

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
                    +   +  D   T D L     +  I+ ++ R+K
Sbjct: 87  ESEYQPVTIAAHLDTDDL--TQDELDDVATY--IEFLRNRRK 124


>gi|300856338|ref|YP_003781322.1| putative transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
 gi|300436453|gb|ADK16220.1| predicted transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
          Length = 128

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/74 (14%), Positives = 27/74 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R    ++ E L + L  T   + +YE  +       +  +++     + +    
Sbjct: 6  QRMKELRREKNITLENLAKALNTTKSTLSRYENNLRTPNVDFINQLAKYFNVSVDYLLGN 65

Query: 77 SPTVCSDISSEENN 90
          S       S E+  
Sbjct: 66 SDDKTFPDSKEDTP 79


>gi|268608518|ref|ZP_06142245.1| DNA-binding protein [Ruminococcus flavefaciens FD-1]
          Length = 190

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 31/82 (37%), Gaps = 1/82 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG +I+  R   G SQE L E   ++ Q V  +E   +      L  +  +    +  
Sbjct: 1  MEVGNQIKKHRTKNGWSQEVLAEKAFVSRQTVSNWENNKSYPDIHSLVLLGNIFNISLDE 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
                 V  +    +N V +F
Sbjct: 61 LIKGDVEVMKN-EINKNEVKEF 81


>gi|297590076|ref|ZP_06948716.1| XRE family transcriptional regulator [Staphylococcus aureus subsp.
           aureus MN8]
 gi|297577204|gb|EFH95918.1| XRE family transcriptional regulator [Staphylococcus aureus subsp.
           aureus MN8]
          Length = 141

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
           KR++  R   GM+  +LG  +G T   VQ+YE G +  +    ++ I+  L    ++   
Sbjct: 42  KRMKQSREKQGMTLAELGRKIGKTEATVQRYESGNIKNLKNDTIESIATALNVNPAYLMG 101

Query: 76  VSPTVCSDISSEENNVMDFISTPD 99
                  ++     ++   ++  +
Sbjct: 102 WVEENDDEVQHRAAHLEGELTDDE 125


>gi|227549953|ref|ZP_03980002.1| XRE family transcriptional regulator [Corynebacterium
          lipophiloflavum DSM 44291]
 gi|227077969|gb|EEI15932.1| XRE family transcriptional regulator [Corynebacterium
          lipophiloflavum DSM 44291]
          Length = 436

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 26/61 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G RIR  R    ++Q  + + LGI+   + + E     +  S L  +S       ++
Sbjct: 7  LYAGGRIRTVRRDNDLTQMDMAQRLGISTSYLNQLENNQRPLTVSVLVELSRAFGLDPAY 66

Query: 73 F 73
          F
Sbjct: 67 F 67


>gi|270284174|ref|ZP_05965683.2| putative helix-turn-helix protein [Bifidobacterium gallicum DSM
          20093]
 gi|270277253|gb|EFA23107.1| putative helix-turn-helix protein [Bifidobacterium gallicum DSM
          20093]
          Length = 365

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 23/52 (44%)

Query: 22 RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R    M+QE+L   +G++ Q + K+E G       +L  I ++    +   
Sbjct: 26 LRANRHMTQEQLAMLVGVSRQAISKWESGKAYPEMDKLLIICDLFTVSLDDL 77


>gi|255102265|ref|ZP_05331242.1| putative transcriptional regulator [Clostridium difficile
          QCD-63q42]
 gi|255308125|ref|ZP_05352296.1| putative transcriptional regulator [Clostridium difficile ATCC
          43255]
          Length = 70

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/63 (19%), Positives = 27/63 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I+  R  L M+Q +L + +G+  + +   E G           I++V ++ +   F+  
Sbjct: 8  KIKEYREKLLMTQNELAKLVGVRRETIVHLENGKYNPSLKLAMDIAKVFDTTVENLFEFI 67

Query: 78 PTV 80
             
Sbjct: 68 EEE 70


>gi|225019956|ref|ZP_03709148.1| hypothetical protein CLOSTMETH_03915 [Clostridium methylpentosum
          DSM 5476]
 gi|224947320|gb|EEG28529.1| hypothetical protein CLOSTMETH_03915 [Clostridium methylpentosum
          DSM 5476]
          Length = 122

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/76 (15%), Positives = 32/76 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G +I+  R    + Q+++ E L ++   +  YE+  N+     +  ++++      +
Sbjct: 1  MRFGDKIKNLRTDADLKQKEVAEILKVSRSSISSYEQNKNQPDLHAVIELAKLFNVSTDY 60

Query: 73 FFDVSPTVCSDISSEE 88
             +S    S +   E
Sbjct: 61 LLGLSEYKTSWVDETE 76


>gi|239817492|ref|YP_002946402.1| XRE family transcriptional regulator [Variovorax paradoxus S110]
 gi|239804069|gb|ACS21136.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 120

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 31/75 (41%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          PN V + +G+ +R  R   G++Q +L     +   ++ K E+G        L  +   L+
Sbjct: 19 PNAVTLALGRNLRYFREQAGLTQVELAFDAEVERSRISKIERGHVNPSLLTLATLCYCLK 78

Query: 68 SPISFFFDVSPTVCS 82
            +   F+      +
Sbjct: 79 ITLPTLFEGMKETLA 93


>gi|149011333|ref|ZP_01832580.1| transcriptional regulator [Streptococcus pneumoniae SP19-BS75]
 gi|168494277|ref|ZP_02718420.1| transcriptional regulator [Streptococcus pneumoniae CDC3059-06]
 gi|147764323|gb|EDK71254.1| transcriptional regulator [Streptococcus pneumoniae SP19-BS75]
 gi|183575731|gb|EDT96259.1| transcriptional regulator [Streptococcus pneumoniae CDC3059-06]
          Length = 383

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ ++  R++ G+S+ +L + + +T Q + ++E    +   S   H++      +++F  
Sbjct: 4   GRVLKELRLLNGLSRAELAQRINLTEQAIWQFESNETKPKLSTKMHLANQFHVDLTYFEQ 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
              ++  D S       D ++T   + 
Sbjct: 64  EEESIRFDSSVIAFRNAD-LATRKTID 89


>gi|15901276|ref|NP_345880.1| transcriptional repressor, putative [Streptococcus pneumoniae
          TIGR4]
 gi|15903322|ref|NP_358872.1| transcriptional repressor, putative [Streptococcus pneumoniae R6]
 gi|298502624|ref|YP_003724564.1| transcriptional regulator [Streptococcus pneumoniae TCH8431/19A]
 gi|14972912|gb|AAK75520.1| putative transcriptional repressor [Streptococcus pneumoniae
          TIGR4]
 gi|15458920|gb|AAL00083.1| Conserved hypothetical protein [Streptococcus pneumoniae R6]
 gi|298238219|gb|ADI69350.1| transcriptional regulator [Streptococcus pneumoniae TCH8431/19A]
          Length = 79

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+   ++Q +L E +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 16 KLKLARVERDLTQGQLAEAVGVTRQTIGLIEAGKYNPSLSLCQSICRCLGKTLDQLF 72


>gi|120597109|ref|YP_961683.1| XRE family transcriptional regulator [Shewanella sp. W3-18-1]
 gi|120557202|gb|ABM23129.1| transcriptional regulator, XRE family [Shewanella sp. W3-18-1]
          Length = 188

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/91 (15%), Positives = 37/91 (40%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +   ++  R   G S +K  +  G++   + + E+G +    + L  I+      +
Sbjct: 4   INSYLATTLKALRNQKGWSLDKAAQETGVSKAMIGQIERGESSPTIATLWKIASGFNISL 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
           S F + +P     +  + + +    +T   L
Sbjct: 64  STFLEPTPQSQGTVFRKPDELRQQPATDGML 94


>gi|319761195|ref|YP_004125132.1| helix-turn-helix domain protein [Alicycliphilus denitrificans BC]
 gi|317115756|gb|ADU98244.1| helix-turn-helix domain protein [Alicycliphilus denitrificans BC]
          Length = 109

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 31/74 (41%), Gaps = 1/74 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFFF 74
          G R+R  R    ++ +++ + +G T   + + E K   R  A R+Q ++ VL   +    
Sbjct: 6  GARLRRLREAKKLTLQQVADEVGCTKAYIWELEMKDGQRPSAERVQALARVLGVTMEDIM 65

Query: 75 DVSPTVCSDISSEE 88
                    S E+
Sbjct: 66 GEPIEQVPQASPED 79


>gi|295105951|emb|CBL03494.1| Helix-turn-helix. [Gordonibacter pamelaeae 7-10-1-b]
          Length = 71

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 29/60 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR RR   G+SQ KL   +G +   + + E G   VG   L  I++ L+  +   F
Sbjct: 10 LGAAIRDRREAQGLSQHKLALMVGSSKSHIWRIESGRVSVGLDDLGRIADALDIEVRQLF 69


>gi|257080321|ref|ZP_05574682.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          E1Sol]
 gi|256988351|gb|EEU75653.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          E1Sol]
          Length = 379

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          K++   R+  G++ ++L E   ++ Q +  YE G     A  +  +  VL+ P SFF
Sbjct: 10 KQLTSARIARGLTMKELAEKAELSRQMISNYESGKTIPKADSILKLISVLQFPRSFF 66


>gi|229547318|ref|ZP_04436043.1| zinc-binding Cro/CI family transcriptional regulator
          [Enterococcus faecalis TX1322]
 gi|256963086|ref|ZP_05567257.1| transcriptional regulator [Enterococcus faecalis HIP11704]
 gi|257420304|ref|ZP_05597294.1| zinc-binding transcriptional regulator [Enterococcus faecalis
          X98]
 gi|307272606|ref|ZP_07553857.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|307274524|ref|ZP_07555705.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|312899748|ref|ZP_07759068.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
 gi|312953750|ref|ZP_07772582.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|229307557|gb|EEN73544.1| zinc-binding Cro/CI family transcriptional regulator
          [Enterococcus faecalis TX1322]
 gi|256953582|gb|EEU70214.1| transcriptional regulator [Enterococcus faecalis HIP11704]
 gi|257162128|gb|EEU92088.1| zinc-binding transcriptional regulator [Enterococcus faecalis
          X98]
 gi|306508796|gb|EFM77885.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|306510708|gb|EFM79727.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|310628336|gb|EFQ11619.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|311293100|gb|EFQ71656.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
 gi|315152739|gb|EFT96755.1| helix-turn-helix protein [Enterococcus faecalis TX0031]
 gi|315154567|gb|EFT98583.1| helix-turn-helix protein [Enterococcus faecalis TX0043]
 gi|315158937|gb|EFU02954.1| helix-turn-helix protein [Enterococcus faecalis TX0312]
 gi|315167131|gb|EFU11148.1| helix-turn-helix protein [Enterococcus faecalis TX1341]
 gi|315171237|gb|EFU15254.1| helix-turn-helix protein [Enterococcus faecalis TX1342]
 gi|323479183|gb|ADX78622.1| helix-turn-helix family protein [Enterococcus faecalis 62]
          Length = 379

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          K++   R+  G++ ++L E   ++ Q +  YE G     A  +  +  VL+ P SFF
Sbjct: 10 KQLTSARIARGLTMKELAEKAELSRQMISNYESGKTIPKADSILKLISVLQFPRSFF 66


>gi|148253753|ref|YP_001238338.1| XRE family transcriptional regulator [Bradyrhizobium sp. BTAi1]
 gi|146405926|gb|ABQ34432.1| transcriptional regulator, XRE family [Bradyrhizobium sp. BTAi1]
          Length = 482

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 30/112 (26%), Positives = 47/112 (41%), Gaps = 15/112 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG R R  R  LG+SQ +L E LGI+   V   E+    V A  L  ++E      ++
Sbjct: 9   LFVGPRFRRIRQQLGLSQTQLAEGLGISPSYVNLIERNQRPVSAQILLRLAE------TY 62

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
             D+     +D       + +  S P        F QI+  K  Q++ +L  
Sbjct: 63  DLDLRDLATADEDRFFAELNEIFSDP-------LFRQIELPK--QELRDLAE 105


>gi|325570037|ref|ZP_08145962.1| hypothetical protein HMPREF9087_2251 [Enterococcus casseliflavus
          ATCC 12755]
 gi|325156865|gb|EGC69036.1| hypothetical protein HMPREF9087_2251 [Enterococcus casseliflavus
          ATCC 12755]
          Length = 293

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 31/56 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + K+++  R    ++Q++L   L ++ + + K+E+G        L  ++++L +P+
Sbjct: 5  LSKKLKDYRSRHNLTQKELAARLFVSDKAISKWERGNGLPDIETLVRLADLLGTPV 60


>gi|317125042|ref|YP_004099154.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Intrasporangium calvum DSM 43043]
 gi|315589130|gb|ADU48427.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Intrasporangium calvum DSM 43043]
          Length = 509

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 24/53 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G  IR  R    M+Q +L E LG +   V + E G   +    L  I + L+
Sbjct: 9  IGGLIRDARRHKAMTQAELAELLGTSQGAVTRIEAGKQNLSLDMLAKIGDALD 61


>gi|291301709|ref|YP_003512987.1| XRE family transcriptional regulator [Stackebrandtia nassauensis
           DSM 44728]
 gi|290570929|gb|ADD43894.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis
           DSM 44728]
          Length = 397

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 27/102 (26%), Positives = 38/102 (37%), Gaps = 12/102 (11%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPI 70
           D   GK IR  R    M+Q  L E  G++   V+K E+G  N      L  I+  L+ P+
Sbjct: 3   DTTPGKVIRGGRQRRRMTQAALAESAGVSIDLVRKLEQGQRNSARIDSLMAIANALDMPV 62

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
               D+           EN         + L L R  + I  
Sbjct: 63  G---DLIGKPRGLTVGAENG--------EVLHLRRAILGITP 93


>gi|255292272|dbj|BAH89394.1| XRE family transcriptional regulator [uncultured bacterium]
          Length = 172

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 35/71 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++R  R++LG+S  ++GE +G+T   + K E   ++   + L  +   L   +S  F
Sbjct: 25 IGAKLRHARLMLGLSLCEVGERIGVTEGYLSKLENNRSQASMATLHRLVGALGMNMSELF 84

Query: 75 DVSPTVCSDIS 85
            S      I+
Sbjct: 85 ATSSDDGLPIT 95


>gi|239631283|ref|ZP_04674314.1| transcriptional regulator [Lactobacillus paracasei subsp. paracasei
           8700:2]
 gi|239525748|gb|EEQ64749.1| transcriptional regulator [Lactobacillus paracasei subsp. paracasei
           8700:2]
          Length = 112

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/101 (17%), Positives = 41/101 (40%), Gaps = 8/101 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G+R++  R    M+Q  +G+ + ++   V  YEK         ++ ++        F
Sbjct: 2   MSFGERLKELRNEKKMTQSDVGKIINVSKASVSLYEKNERTPDQDSIKKLARYFNVSTDF 61

Query: 73  FFDVS-----PTVCSDISSEENNVMDFIST---PDGLQLNR 105
              V+     P       S+ + +M F      P+ L++ +
Sbjct: 62  LLGVTDIRSKPEQIDISDSKNDTIMTFEGRPIPPEDLEIIK 102


>gi|228933066|ref|ZP_04095929.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|228826667|gb|EEM72438.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
          Length = 403

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDDEIVEL 72


>gi|228945385|ref|ZP_04107740.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|228814357|gb|EEM60623.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
          Length = 403

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDDEIVEL 72


>gi|227534195|ref|ZP_03964244.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei ATCC 25302]
 gi|227188165|gb|EEI68232.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei ATCC 25302]
          Length = 73

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 28/74 (37%), Gaps = 9/74 (12%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          MVG K +          R+R  R    MSQ  L E +G+  Q +   E            
Sbjct: 1  MVGGKLM---------NRVRDYRRAQKMSQLALAEKIGVARQTINLIENSKYNPSLDLCL 51

Query: 61 HISEVLESPISFFF 74
           ++  L++ ++  F
Sbjct: 52 KLAWTLKTDLNTLF 65


>gi|157959968|ref|YP_001500002.1| XRE family transcriptional regulator [Shewanella pealeana ATCC
          700345]
 gi|157844968|gb|ABV85467.1| transcriptional regulator, XRE family [Shewanella pealeana ATCC
          700345]
          Length = 69

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 26/65 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R     +Q  L E L ++ Q +   EKG           ++ + E PI   F+ 
Sbjct: 3  NRLKVLRAERDWTQADLAEKLEVSRQTINAIEKGKYDPSLPLAFKVARLFEMPIEAIFED 62

Query: 77 SPTVC 81
             V 
Sbjct: 63 ETEVA 67


>gi|108805301|ref|YP_645238.1| XRE family transcriptional regulator [Rubrobacter xylanophilus
          DSM 9941]
 gi|108766544|gb|ABG05426.1| transcriptional regulator, XRE family with cupin sensor
          [Rubrobacter xylanophilus DSM 9941]
          Length = 220

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 1/66 (1%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          NP D  +G  IR  R+  G++   +     I+   + K E G        +  +++ L  
Sbjct: 23 NP-DQYLGNFIRKYRLEKGLTLSDISARASISKSMLSKIENGQASPSLHTIARLAQALGV 81

Query: 69 PISFFF 74
           +S  F
Sbjct: 82 TLSTMF 87


>gi|29377715|ref|NP_816869.1| zinc-binding Cro/CI family transcriptional regulator
          [Enterococcus faecalis V583]
 gi|29345183|gb|AAO82939.1| zinc-binding transcriptional regulator, Cro/CI family
          [Enterococcus faecalis V583]
          Length = 379

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          K++   R+  G++ ++L E   ++ Q +  YE G     A  +  +  VL+ P SFF
Sbjct: 10 KQLTSARIARGLTMKELAEKAELSRQMISNYESGKTIPKADSILKLISVLQFPRSFF 66


>gi|89893376|ref|YP_516863.1| hypothetical protein DSY0630 [Desulfitobacterium hafniense Y51]
 gi|219666666|ref|YP_002457101.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|89332824|dbj|BAE82419.1| hypothetical protein [Desulfitobacterium hafniense Y51]
 gi|219536926|gb|ACL18665.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 73

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 26/57 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RIR  R  + M+Q ++ E L I       YE G   +    L  I+++  + I + 
Sbjct: 3  ERIRNMREDMDMTQSQIAEHLNIHQTTYSDYEIGKLNIPVQVLGKIADLFGTSIDYL 59


>gi|322420304|ref|YP_004199527.1| Cupin 2 barrel domain-containing protein [Geobacter sp. M18]
 gi|320126691|gb|ADW14251.1| Cupin 2 conserved barrel domain protein [Geobacter sp. M18]
          Length = 181

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R++  RM+  ++QE+L     +T   + + E        + L+ I +V    +  
Sbjct: 1  MKIGERLKRLRMVNSLTQEELASRADLTKGFISQLENDATSPSIATLKDIVDVFGISMQE 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|302531776|ref|ZP_07284118.1| hypothetical protein SSMG_08157 [Streptomyces sp. AA4]
 gi|302440671|gb|EFL12487.1| hypothetical protein SSMG_08157 [Streptomyces sp. AA4]
          Length = 505

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 1/58 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPIS 71
           +G R+R  R   G+SQ+ L +  GI+   + + E G   +    L    +E L   ++
Sbjct: 114 IGARLRQAREARGISQQALADESGISQSFLSRLESGARLLTGRGLLETFAEALGCSVA 171


>gi|257865636|ref|ZP_05645289.1| conserved hypothetical protein [Enterococcus casseliflavus EC30]
 gi|257871972|ref|ZP_05651625.1| conserved hypothetical protein [Enterococcus casseliflavus EC10]
 gi|257799570|gb|EEV28622.1| conserved hypothetical protein [Enterococcus casseliflavus EC30]
 gi|257806136|gb|EEV34958.1| conserved hypothetical protein [Enterococcus casseliflavus EC10]
          Length = 204

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/82 (15%), Positives = 34/82 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I+  R+ LG++Q+++ E L +T Q +  +E   +      L  +S++ +  +  
Sbjct: 1  MTIAEKIKESRLKLGLTQQEVSEKLFVTRQTISNWENNRSTPDIDTLIKLSDLYQIDLES 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
                         +     F
Sbjct: 61 LLKPEQAADEPERMSDEKKPTF 82


>gi|229119044|ref|ZP_04248386.1| hypothetical protein bcere0017_53050 [Bacillus cereus Rock1-3]
 gi|228664435|gb|EEL19934.1| hypothetical protein bcere0017_53050 [Bacillus cereus Rock1-3]
          Length = 51

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/47 (31%), Positives = 22/47 (46%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          MSQE L   +G+  + +   E G           I++VLE+PI   F
Sbjct: 1  MSQEDLANKVGVRRETIGNLENGKYNPSFKLTYDIAKVLEAPIETLF 47


>gi|220910125|ref|YP_002485436.1| hypothetical protein Cyan7425_4770 [Cyanothece sp. PCC 7425]
 gi|219866736|gb|ACL47075.1| protein of unknown function DUF955 [Cyanothece sp. PCC 7425]
          Length = 399

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 1/76 (1%)

Query: 4  NKKIPNPVDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
             I + VD+  +G+R++  R   GM+Q    E +      +   EKG  R+    L  +
Sbjct: 2  TTNILDHVDLSQLGERLQQARKQCGMTQADAAEIINAARTTLVAIEKGERRLKPGELIKL 61

Query: 63 SEVLESPISFFFDVSP 78
          +      +S F  + P
Sbjct: 62 ARAYGRSVSDFLALQP 77


>gi|196033371|ref|ZP_03100783.1| DNA-binding protein [Bacillus cereus W]
 gi|195993805|gb|EDX57761.1| DNA-binding protein [Bacillus cereus W]
          Length = 403

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDDEIVEL 72


>gi|218902898|ref|YP_002450732.1| DNA-binding protein [Bacillus cereus AH820]
 gi|228914360|ref|ZP_04077975.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
 gi|218536358|gb|ACK88756.1| DNA-binding protein [Bacillus cereus AH820]
 gi|228845354|gb|EEM90390.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          pulsiensis BGSC 4CC1]
          Length = 403

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDDEIVEL 72


>gi|154504585|ref|ZP_02041323.1| hypothetical protein RUMGNA_02090 [Ruminococcus gnavus ATCC
          29149]
 gi|260590057|ref|ZP_05855970.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
          hansenii DSM 20583]
 gi|153795067|gb|EDN77487.1| hypothetical protein RUMGNA_02090 [Ruminococcus gnavus ATCC
          29149]
 gi|260539569|gb|EEX20138.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
          hansenii DSM 20583]
          Length = 65

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 26/55 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +N+G+ IR  R   G+SQ +L E L +  + + ++E G +         I   L 
Sbjct: 1  MNLGENIRKARKAAGVSQSELAERLQVHQKDISRWENGAHAPTIEMFAKICRELN 55


>gi|91777117|ref|YP_552325.1| XRE family transcriptional regulator [Burkholderia xenovorans
           LB400]
 gi|91689777|gb|ABE32975.1| transcriptional regulator, XRE family [Burkholderia xenovorans
           LB400]
          Length = 208

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/77 (15%), Positives = 29/77 (37%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++I+  R    M+ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 31  VGEQIQRLRAERRMTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGVSLDSLF 90

Query: 75  DVSPTVCSDISSEENNV 91
               T  +   S  + +
Sbjct: 91  APQKTPEAIAVSGPHEI 107


>gi|238784124|ref|ZP_04628138.1| Transcriptional regulator, XRE family with cupin sensor domain
          [Yersinia bercovieri ATCC 43970]
 gi|238714970|gb|EEQ06968.1| Transcriptional regulator, XRE family with cupin sensor domain
          [Yersinia bercovieri ATCC 43970]
          Length = 196

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 38/91 (41%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  N      V  ++G R+R  R+   ++ ++L + +G +   + K E  V     + L 
Sbjct: 1  MKKNGDNGGFVLSDLGMRLRHARLAQEITLKQLAQKVGCSESLLSKLENEVASPSLAMLH 60

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEENNV 91
           ++  LE+ IS     S    S +   E  +
Sbjct: 61 RLASALETNISDLMAESWVADSPVLKPEQRI 91


>gi|289551596|ref|YP_003472500.1| CI-like repressor, phage associated [Staphylococcus lugdunensis
          HKU09-01]
 gi|289181127|gb|ADC88372.1| CI-like repressor, phage associated [Staphylococcus lugdunensis
          HKU09-01]
          Length = 104

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 34/84 (40%), Gaps = 1/84 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
          KR++  R   GM+  +LG  +G T   VQ+YE G +  +    ++ I+  L    +F   
Sbjct: 5  KRMKQSREKQGMTLAELGRKIGKTEATVQRYESGNIKNLKNDTIESIATALNVNPAFLMG 64

Query: 76 VSPTVCSDISSEENNVMDFISTPD 99
                        ++   ++  +
Sbjct: 65 WIEETDEQPQHRAAHLEGELTDEE 88


>gi|257868167|ref|ZP_05647820.1| transcriptional regulator [Enterococcus casseliflavus EC30]
 gi|257874560|ref|ZP_05654213.1| transcriptional regulator [Enterococcus casseliflavus EC10]
 gi|257802281|gb|EEV31153.1| transcriptional regulator [Enterococcus casseliflavus EC30]
 gi|257808724|gb|EEV37546.1| transcriptional regulator [Enterococcus casseliflavus EC10]
          Length = 77

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 32/71 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RIR  R    ++Q ++   L ++     +YE G   +    L  ++   ++ I +  ++
Sbjct: 6  QRIRDLREDNDLTQRQIATLLNVSQSTYSRYENGALDIPIQTLIKLASHYDTSIDYLVNM 65

Query: 77 SPTVCSDISSE 87
          +    S  +SE
Sbjct: 66 TDVRTSYKASE 76


>gi|300860062|ref|ZP_07106150.1| helix-turn-helix protein [Enterococcus faecalis TUSoD Ef11]
 gi|300850880|gb|EFK78629.1| helix-turn-helix protein [Enterococcus faecalis TUSoD Ef11]
 gi|315145159|gb|EFT89175.1| helix-turn-helix protein [Enterococcus faecalis TX2141]
 gi|315163067|gb|EFU07084.1| helix-turn-helix protein [Enterococcus faecalis TX0645]
 gi|327534455|gb|AEA93289.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          OG1RF]
          Length = 232

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 6  KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 65

Query: 72 FF 73
          + 
Sbjct: 66 WL 67


>gi|258653034|ref|YP_003202190.1| XRE family transcriptional regulator [Nakamurella multipartita DSM
           44233]
 gi|258556259|gb|ACV79201.1| transcriptional regulator, XRE family [Nakamurella multipartita DSM
           44233]
          Length = 215

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/128 (14%), Positives = 47/128 (36%), Gaps = 15/128 (11%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            ++  +  ++R  R   G++   + E +GI+   + K E        + L  ++  L+ P
Sbjct: 29  DLERAIAAQVRSYRQAAGVTLADMAERVGISKAMLSKIENAQTSCSLTTLARLAAGLDIP 88

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
           ++  F         +         F+    G Q+ R   +      +  + EL+ ++   
Sbjct: 89  VTALFRGVDVEREAV---------FVPAGHGAQIVRRGSR------QGHLYELLGALRGP 133

Query: 130 EKKYRTIE 137
            K+   + 
Sbjct: 134 HKRMEAVL 141


>gi|229148196|ref|ZP_04276499.1| Transcriptional regulator [Bacillus cereus BDRD-ST24]
 gi|228635208|gb|EEK91735.1| Transcriptional regulator [Bacillus cereus BDRD-ST24]
          Length = 115

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 27/55 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VG+ I+  R    ++QE+L E  G++  Q++ +E   +      L+ ++    + 
Sbjct: 5  VGQNIKQLRKSFDLTQEQLSERTGLSRGQIKNWETDRHEPDLESLKVLASFFNTS 59


>gi|225859579|ref|YP_002741089.1| transcriptional regulator [Streptococcus pneumoniae 70585]
 gi|225721280|gb|ACO17134.1| transcriptional regulator [Streptococcus pneumoniae 70585]
          Length = 383

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ ++  R++ G+S+ +L + + +T Q + ++E    +   S   H++      +++F  
Sbjct: 4   GRVLKELRLLNGLSRAELAQRINLTEQAIWQFESNETKPKLSTKMHLANQFHVDLTYFEQ 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
              ++  D S       D ++T   + 
Sbjct: 64  EEESIRFDSSVIAFRNAD-LATRKAID 89


>gi|255655389|ref|ZP_05400798.1| putative phage regulatory protein [Clostridium difficile QCD-23m63]
 gi|296451377|ref|ZP_06893115.1| probable phage regulatory protein [Clostridium difficile NAP08]
 gi|296880273|ref|ZP_06904238.1| probable phage regulatory protein [Clostridium difficile NAP07]
 gi|296259793|gb|EFH06650.1| probable phage regulatory protein [Clostridium difficile NAP08]
 gi|296428716|gb|EFH14598.1| probable phage regulatory protein [Clostridium difficile NAP07]
          Length = 139

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 45/101 (44%), Gaps = 6/101 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI   R    + Q +L E LG     + K+E+ + +     L+ ISE+    + +  
Sbjct: 4   LGERIVYLRKAKNLKQYELEEMLGCDN--LSKFERNIRKPNYEILKSISEIFNVSVDWLL 61

Query: 75  DVSPTVCSDI---SSEENNVMDFISTPDGLQLNRYFIQIDD 112
           +             S  N  ++ I++ + ++L   F +++D
Sbjct: 62  NGDNLSHKSDLICDSSSNYPLNSINSNE-IKLLNNFRKLND 101


>gi|194292356|ref|YP_002008263.1| anaerobic benzoate catabolism transcriptional regulator
          [Cupriavidus taiwanensis LMG 19424]
 gi|193226260|emb|CAQ72209.1| putative transcriptional regulator, ATP-binding kinase,
          Helix-turn-helix motif, Shikimate kinase motif
          [Cupriavidus taiwanensis LMG 19424]
          Length = 320

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 36/70 (51%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            N    NP  +++G+R+R +R   G++++   +  G++ + +   E G        LQH
Sbjct: 25 AANGAQKNPFLVSLGERVRQQRACRGLTRKAAAQAAGVSERHLANLEYGSGNASILVLQH 84

Query: 62 ISEVLESPIS 71
          ++E L+  ++
Sbjct: 85 VAEALQCSLA 94


>gi|168704437|ref|ZP_02736714.1| hypothetical protein GobsU_33184 [Gemmata obscuriglobus UQM 2246]
          Length = 239

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 25/60 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  IR RR  L ++   + +  G++   + + E G N      L  I   L   +S  F
Sbjct: 174 LGAAIRERRKALSLTLSNMSDRTGVSLGYLSQIELGKNSASIETLYRICLALGMKMSELF 233


>gi|134103762|ref|YP_001109423.1| XRE family transcriptional regulator [Saccharopolyspora erythraea
           NRRL 2338]
 gi|133916385|emb|CAM06498.1| transcriptional regulator, XRE family with cupin sensor
           [Saccharopolyspora erythraea NRRL 2338]
          Length = 194

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 24/102 (23%), Positives = 35/102 (34%), Gaps = 10/102 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G +   L E  GI    + + E G  + G   L  ++   + P+    
Sbjct: 12  VGPRLRALRRRSGATLTALSETTGIPVSTLSRLESGHRKPGLELLLPLANAYQVPLDELV 71

Query: 75  DVSPTVCSDISSEEN------NVMDFISTPDGLQLNRYFIQI 110
             +P                  V+     P GLQ    F QI
Sbjct: 72  -GAPASGDPRVHPRPITRNGMTVIPLTRKPGGLQ---AFKQI 109


>gi|254976734|ref|ZP_05273206.1| putative phage transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255094118|ref|ZP_05323596.1| putative phage transcriptional regulator [Clostridium difficile
          CIP 107932]
 gi|255315869|ref|ZP_05357452.1| putative phage transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255518530|ref|ZP_05386206.1| putative phage transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255651649|ref|ZP_05398551.1| putative phage transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|260684686|ref|YP_003215971.1| putative phage transcriptional regulator [Clostridium difficile
          CD196]
 gi|260688344|ref|YP_003219478.1| putative phage transcriptional regulator [Clostridium difficile
          R20291]
 gi|306521450|ref|ZP_07407797.1| putative phage transcriptional regulator [Clostridium difficile
          QCD-32g58]
 gi|260210849|emb|CBA65944.1| putative phage transcriptional regulator [Clostridium difficile
          CD196]
 gi|260214361|emb|CBE06742.1| putative phage transcriptional regulator [Clostridium difficile
          R20291]
          Length = 66

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 29/60 (48%), Gaps = 1/60 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPISFFF 74
          G  +++ R+  G+ Q++L + +GI+   +   E G  N      +  +S  L++ +   F
Sbjct: 2  GINLKIFRIKKGLKQQELADRVGISRYYLSNLETGKANNPSNDLMIKLSRALDTTVEELF 61


>gi|127511903|ref|YP_001093100.1| XRE family transcriptional regulator [Shewanella loihica PV-4]
 gi|126637198|gb|ABO22841.1| transcriptional regulator, XRE family with cupin sensor
          [Shewanella loihica PV-4]
          Length = 182

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 34/71 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  ++  R + G+SQ +L +  G+T   +   EK       S L+ +   L   +  
Sbjct: 1  MDIGANLKAVRKMKGLSQRELAKRAGVTNSTISMIEKNSVSPSVSSLKKVLSGLPMSLVD 60

Query: 73 FFDVSPTVCSD 83
          FF +  ++ ++
Sbjct: 61 FFSIEESMPTE 71


>gi|116326508|ref|YP_794188.1| XRE family transcriptional regulator [Leuconostoc mesenteroides
          subsp. mesenteroides ATCC 8293]
 gi|116098007|gb|ABJ63157.1| Transcriptional regulator, xre family [Leuconostoc mesenteroides
          subsp. mesenteroides ATCC 8293]
          Length = 204

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/80 (16%), Positives = 35/80 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +   K ++  R++  +SQ +L   L ++ + +  +E   N      +  IS+VL+  +  
Sbjct: 1  MTFSKSLKELRLLHELSQTQLARKLNVSPKTISNWENERNLPDIELIIKISKVLDVTLDE 60

Query: 73 FFDVSPTVCSDISSEENNVM 92
              +  + + +  + + V 
Sbjct: 61 LITGNIQLENKLIKDSHKVF 80


>gi|103487689|ref|YP_617250.1| XRE family transcriptional regulator [Sphingopyxis alaskensis
          RB2256]
 gi|98977766|gb|ABF53917.1| transcriptional regulator, XRE family [Sphingopyxis alaskensis
          RB2256]
          Length = 73

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 1/57 (1%)

Query: 19 IRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR  R + G M+Q +LGE +G+T Q +   E+G           I+ V   P+   F
Sbjct: 10 IRTLRFLAGEMTQAELGERVGVTRQTIAAIEQGKYSPSLEVAFRIAHVFGKPLEAVF 66


>gi|322832298|ref|YP_004212325.1| Cupin 2 conserved barrel domain protein [Rahnella sp. Y9602]
 gi|321167499|gb|ADW73198.1| Cupin 2 conserved barrel domain protein [Rahnella sp. Y9602]
          Length = 185

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/59 (33%), Positives = 27/59 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+R+   R  LGMSQ K  E  G+T   +   E+       S LQ +  V    +S FF
Sbjct: 9  GRRLSEIRQQLGMSQRKAAELSGLTHSAISTIEQDKVSPAVSTLQKLLRVYGLSLSEFF 67


>gi|300702662|ref|YP_003744262.1| transcriptional regulator protein [Ralstonia solanacearum
          CFBP2957]
 gi|299070323|emb|CBJ41615.1| putative transcription regulator protein [Ralstonia solanacearum
          CFBP2957]
          Length = 209

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/67 (19%), Positives = 28/67 (41%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+  + +R+R  R   G + + L    G++   +   E+G     A+ L  ++  L   +
Sbjct: 16 VNERIARRVRELRATRGYTLDALAARCGVSRSMISLIERGAASPTAAVLDKLAAGLGVSL 75

Query: 71 SFFFDVS 77
          +  F   
Sbjct: 76 ASLFGGE 82


>gi|262174076|ref|ZP_06041752.1| hypothetical protein VII_003787 [Vibrio mimicus MB-451]
 gi|261890256|gb|EEY36244.1| hypothetical protein VII_003787 [Vibrio mimicus MB-451]
          Length = 226

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/91 (17%), Positives = 34/91 (37%), Gaps = 9/91 (9%)

Query: 12 DINVGKRIRLRRMILGM------SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          D  V  R+R  R    +      + +++G+ +GI       YE  + +    R++ ++  
Sbjct: 5  DAIVASRLRELRKQKEIDDGRPWTADQVGKAIGIGQSTYSNYENEIRKPSLDRIEELAAF 64

Query: 66 LESPISF---FFDVSPTVCSDISSEENNVMD 93
           +   S+   F D   +   D       + D
Sbjct: 65 YKVTPSYLAAFTDHKGSGGGDALHVTPMLTD 95


>gi|251781701|ref|YP_002996003.1| Cro/CI family transcriptional regulator [Streptococcus
          dysgalactiae subsp. equisimilis GGS_124]
 gi|242390330|dbj|BAH80789.1| transcriptional regulator, Cro/CI family [Streptococcus
          dysgalactiae subsp. equisimilis GGS_124]
 gi|322411061|gb|EFY01969.1| Cro/CI family transcriptional regulator [Streptococcus
          dysgalactiae subsp. dysgalactiae ATCC 27957]
 gi|323126498|gb|ADX23795.1| Cro/CI family transcriptional regulator [Streptococcus
          dysgalactiae subsp. equisimilis ATCC 12394]
          Length = 68

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R    +SQ+ L + +G++ Q +   EKG      +    I  VL+  +   F
Sbjct: 5  KLKAARAGKDLSQQALADLVGVSRQTIAAVEKGDYNPTINLCIAICRVLDKTLDDLF 61


>gi|227357992|ref|ZP_03842334.1| conserved hypothetical protein [Proteus mirabilis ATCC 29906]
 gi|227161727|gb|EEI46759.1| conserved hypothetical protein [Proteus mirabilis ATCC 29906]
          Length = 100

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 38/77 (49%), Gaps = 3/77 (3%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ VG  IR  R +LG+S + LG+ L ++ Q + + E+G        + ++   L+  I
Sbjct: 8  INVRVGSFIRRHRTLLGISGKSLGKKLNLSQQHISRLERGQTNFTIEIILYLLNELDKTI 67

Query: 71 SFFFDVSPTVCSDISSE 87
             FD+   V  +   E
Sbjct: 68 ---FDLVAEVFYEDPGE 81


>gi|95928831|ref|ZP_01311577.1| transcriptional regulator of molybdate metabolism, XRE family
          [Desulfuromonas acetoxidans DSM 684]
 gi|95135176|gb|EAT16829.1| transcriptional regulator of molybdate metabolism, XRE family
          [Desulfuromonas acetoxidans DSM 684]
          Length = 372

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 26/68 (38%), Gaps = 1/68 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DVS 77
          +R  R   G SQ++L E +GI  Q +   E G           ++ +    +   F D +
Sbjct: 12 VRDYRQKQGWSQKELAERIGIKRQAIYDIETGRYLPNTGISLRLARLFGCRVEDLFVDDT 71

Query: 78 PTVCSDIS 85
          P     + 
Sbjct: 72 PEQQQGVD 79


>gi|29375459|ref|NP_814613.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          V583]
 gi|227554984|ref|ZP_03985031.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          HH22]
 gi|229548810|ref|ZP_04437535.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          ATCC 29200]
 gi|257421120|ref|ZP_05598110.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          X98]
 gi|293383752|ref|ZP_06629659.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          R712]
 gi|293388772|ref|ZP_06633265.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          S613]
 gi|294781285|ref|ZP_06746631.1| DNA-binding protein [Enterococcus faecalis PC1.1]
 gi|307267950|ref|ZP_07549338.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|312901584|ref|ZP_07760857.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
 gi|312904434|ref|ZP_07763593.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|312907032|ref|ZP_07766028.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|312952858|ref|ZP_07771720.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|312978710|ref|ZP_07790437.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
 gi|29342919|gb|AAO80683.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          V583]
 gi|227175893|gb|EEI56865.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          HH22]
 gi|229306039|gb|EEN72035.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          ATCC 29200]
 gi|257162944|gb|EEU92904.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          X98]
 gi|291078828|gb|EFE16192.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          R712]
 gi|291081929|gb|EFE18892.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          S613]
 gi|294451621|gb|EFG20077.1| DNA-binding protein [Enterococcus faecalis PC1.1]
 gi|306515591|gb|EFM84118.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|310627017|gb|EFQ10300.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|310629374|gb|EFQ12657.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|310632132|gb|EFQ15415.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|311288417|gb|EFQ66973.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
 gi|311291379|gb|EFQ69935.1| helix-turn-helix protein [Enterococcus faecalis TX0470]
 gi|315032497|gb|EFT44429.1| helix-turn-helix protein [Enterococcus faecalis TX0017]
 gi|315034269|gb|EFT46201.1| helix-turn-helix protein [Enterococcus faecalis TX0027]
 gi|315148032|gb|EFT92048.1| helix-turn-helix protein [Enterococcus faecalis TX4244]
 gi|315152946|gb|EFT96962.1| helix-turn-helix protein [Enterococcus faecalis TX0031]
 gi|315155177|gb|EFT99193.1| helix-turn-helix protein [Enterococcus faecalis TX0043]
 gi|315157505|gb|EFU01522.1| helix-turn-helix protein [Enterococcus faecalis TX0312]
 gi|315167991|gb|EFU12008.1| helix-turn-helix protein [Enterococcus faecalis TX1341]
 gi|315574213|gb|EFU86404.1| helix-turn-helix protein [Enterococcus faecalis TX0309B]
 gi|315577343|gb|EFU89534.1| helix-turn-helix protein [Enterococcus faecalis TX0630]
 gi|315581644|gb|EFU93835.1| helix-turn-helix protein [Enterococcus faecalis TX0309A]
 gi|323480055|gb|ADX79494.1| helix-turn-helix family protein [Enterococcus faecalis 62]
          Length = 232

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 6  KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 65

Query: 72 FF 73
          + 
Sbjct: 66 WL 67


>gi|28377773|ref|NP_784665.1| transcription regulator [Lactobacillus plantarum WCFS1]
 gi|28270606|emb|CAD63512.1| transcription regulator [Lactobacillus plantarum WCFS1]
          Length = 183

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          I +G +I+ +R     SQ+ + E L ++ Q + K+E G +      L  +S++    
Sbjct: 3  IVIGTKIKEQRQQHEWSQQTVAERLHVSRQTISKWELGKSYPDLELLVALSKLFSVS 59


>gi|30261788|ref|NP_844165.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47527021|ref|YP_018370.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49184620|ref|YP_027872.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|65319065|ref|ZP_00392024.1| COG1396: Predicted transcriptional regulators [Bacillus anthracis
          str. A2012]
 gi|165869450|ref|ZP_02214109.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167633384|ref|ZP_02391709.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|167638745|ref|ZP_02397020.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170686089|ref|ZP_02877311.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|170706409|ref|ZP_02896869.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|177650447|ref|ZP_02933414.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190566266|ref|ZP_03019184.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|227815444|ref|YP_002815453.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229604650|ref|YP_002866175.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|254683285|ref|ZP_05147146.1| DNA-binding protein [Bacillus anthracis str. CNEVA-9066]
 gi|254723868|ref|ZP_05185654.1| DNA-binding protein [Bacillus anthracis str. A1055]
 gi|254734638|ref|ZP_05192350.1| DNA-binding protein [Bacillus anthracis str. Western North
          America USA6153]
 gi|254741048|ref|ZP_05198736.1| DNA-binding protein [Bacillus anthracis str. Kruger B]
 gi|254755290|ref|ZP_05207324.1| DNA-binding protein [Bacillus anthracis str. Vollum]
 gi|254759827|ref|ZP_05211851.1| DNA-binding protein [Bacillus anthracis str. Australia 94]
 gi|30256016|gb|AAP25651.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47502169|gb|AAT30845.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49178547|gb|AAT53923.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|164714890|gb|EDR20408.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167513209|gb|EDR88580.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|167531422|gb|EDR94100.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|170128507|gb|EDS97374.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|170669786|gb|EDT20527.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|172083591|gb|EDT68651.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190562401|gb|EDV16368.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|227006595|gb|ACP16338.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229269058|gb|ACQ50695.1| DNA-binding protein [Bacillus anthracis str. A0248]
          Length = 403

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDDEIVEL 72


>gi|325291275|ref|YP_004267456.1| transcriptional regulator, XRE family [Syntrophobotulus
          glycolicus DSM 8271]
 gi|324966676|gb|ADY57455.1| transcriptional regulator, XRE family [Syntrophobotulus
          glycolicus DSM 8271]
          Length = 66

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          KR+++ RM   M QE L + +G+T Q +   E G      +    I + L   +   F
Sbjct: 4  KRMKIARMECDMKQEDLAKAVGVTRQTIGMIESGNYNPTLNLCIAICKALGKTLDGLF 61


>gi|310644825|ref|YP_003949584.1| transcription factor,eukaryotic mbf1-like protein [Paenibacillus
          polymyxa SC2]
 gi|309249776|gb|ADO59343.1| Predicted transcription factor,eukaryotic MBF1-like protein
          [Paenibacillus polymyxa SC2]
          Length = 114

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 36/84 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G RIR  R   G++Q+KL +   + ++ +   E+G        L+ +   L   IS 
Sbjct: 6  KQIGTRIRAIRNAKGLTQQKLADIASLDYRYIGALERGERNFSIDTLEKVLTALNVSISE 65

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
                 + +D    +  + +F++
Sbjct: 66 LMFSEEHMTTDEMIRQEAIDEFVA 89


>gi|303254672|ref|ZP_07340774.1| transcriptional regulator [Streptococcus pneumoniae BS455]
 gi|303258758|ref|ZP_07344738.1| transcriptional regulator [Streptococcus pneumoniae SP-BS293]
 gi|303261922|ref|ZP_07347868.1| transcriptional regulator [Streptococcus pneumoniae SP14-BS292]
 gi|303263784|ref|ZP_07349706.1| transcriptional regulator [Streptococcus pneumoniae BS397]
 gi|303265681|ref|ZP_07351580.1| transcriptional regulator [Streptococcus pneumoniae BS457]
 gi|303268616|ref|ZP_07354408.1| transcriptional regulator [Streptococcus pneumoniae BS458]
 gi|301802510|emb|CBW35269.1| putative DNA-binding protein [Streptococcus pneumoniae INV200]
 gi|302598384|gb|EFL65428.1| transcriptional regulator [Streptococcus pneumoniae BS455]
 gi|302637005|gb|EFL67494.1| transcriptional regulator [Streptococcus pneumoniae SP14-BS292]
 gi|302640259|gb|EFL70714.1| transcriptional regulator [Streptococcus pneumoniae SP-BS293]
 gi|302641895|gb|EFL72250.1| transcriptional regulator [Streptococcus pneumoniae BS458]
 gi|302644808|gb|EFL75056.1| transcriptional regulator [Streptococcus pneumoniae BS457]
 gi|302646822|gb|EFL77047.1| transcriptional regulator [Streptococcus pneumoniae BS397]
          Length = 383

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ ++  R++ G+S+ +L + + +T Q + ++E    +   S   H++      +++F  
Sbjct: 4   GRVLKELRLLNGLSRAELAQRINLTEQAIWQFESNETKPKLSTKMHLANQFHVDLTYFEQ 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
              ++  D S       D ++T   + 
Sbjct: 64  EEESIRFDSSVIAFRNAD-LATRKTID 89


>gi|300871532|ref|YP_003786405.1| MerR family transcriptional regulator [Brachyspira pilosicoli
          95/1000]
 gi|300689233|gb|ADK31904.1| transcriptional regulator, MerR family [Brachyspira pilosicoli
          95/1000]
          Length = 121

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/55 (32%), Positives = 28/55 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N+G  IRL R    M+ + L E  G++ + +Q  E G   +   RL  I+  LE+
Sbjct: 9  NLGYNIRLLRKSKKMTIDALAEHAGVSSKYLQGIEVGNRNISVKRLNKIARALET 63


>gi|295106118|emb|CBL03661.1| Predicted transcriptional regulators [Gordonibacter pamelaeae
          7-10-1-b]
          Length = 83

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G+SQ  L   +G++ Q +   E G+    A     +   L+      F
Sbjct: 23 NRLKAARAEQGLSQTDLARLVGVSRQTISAIETGLFNPTAKLALVLCIALDKKFEDLF 80


>gi|288959830|ref|YP_003450170.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288912138|dbj|BAI73626.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 210

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 28/57 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+ +R  R   G+S E+L    G++   + + E G +    + L  I+  L+  ++
Sbjct: 30 LGRHLRRLRTRQGLSLERLARLSGVSRAMLGQIELGRSAPTITVLWKIARALDVTLA 86


>gi|255103257|ref|ZP_05332234.1| hypothetical protein CdifQCD-6_20765 [Clostridium difficile
           QCD-63q42]
          Length = 112

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/117 (17%), Positives = 47/117 (40%), Gaps = 7/117 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           KR++  R  LG++Q ++G  L ++   +   E G   +    +  I +      ++    
Sbjct: 3   KRLKTLRKELGLNQTQMGNKLFLSQDHISSLETGRRDLTDRIINDICKEFNVNENWL--- 59

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
             T   DI  +    MDF    D  ++ R   ++   + ++++  +    +  E K 
Sbjct: 60  -RTGEGDIFQDPTLDMDF--DDDIKEMLRMISKL-SPEAQKRLYNVAEVFLEEENKK 112


>gi|222152254|ref|YP_002561429.1| DNA-binding protein [Streptococcus uberis 0140J]
 gi|222113065|emb|CAR40420.1| putative DNA-binding protein [Streptococcus uberis 0140J]
          Length = 311

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 32/60 (53%), Gaps = 1/60 (1%)

Query: 15 VGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G +++  R    M++E L G+   ++ +Q+ + E G +    ++   I++ L  P+S F
Sbjct: 4  LGLKMKELRKKKQMTREALCGDESELSVRQLARIESGQSNPSLAKALFIAKKLGVPLSDF 63


>gi|254388135|ref|ZP_05003371.1| hypothetical protein SSCG_00698 [Streptomyces clavuligerus ATCC
          27064]
 gi|294817387|ref|ZP_06776029.1| Putative Xre family DNA-binding protein [Streptomyces
          clavuligerus ATCC 27064]
 gi|197701858|gb|EDY47670.1| hypothetical protein SSCG_00698 [Streptomyces clavuligerus ATCC
          27064]
 gi|294322202|gb|EFG04337.1| Putative Xre family DNA-binding protein [Streptomyces
          clavuligerus ATCC 27064]
          Length = 349

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 33/73 (45%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            ++  P P  I  G ++R  R+I  MSQ  L   L I    V ++E G+      RL  
Sbjct: 12 AHSRSNPMPDRIFDGNKLRDYRVIRRMSQSDLAAALDIRTNAVYRWENGLATPPQERLPG 71

Query: 62 ISEVLESPISFFF 74
          I+ +L + +   F
Sbjct: 72 IAAMLGADLDELF 84


>gi|295835325|ref|ZP_06822258.1| helix-turn-helix domain-containing protein [Streptomyces sp. SPB74]
 gi|197696396|gb|EDY43329.1| helix-turn-helix domain-containing protein [Streptomyces sp. SPB74]
          Length = 187

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/108 (18%), Positives = 38/108 (35%), Gaps = 8/108 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+R+R  R   GM+   L    GI+   + + E G+ R     L  ++      +    
Sbjct: 4   VGERLRGLRKERGMTLAALSTSTGISVSTLSRLESGLRRPTLELLLPLARAHRVALDELV 63

Query: 75  DVSPTVCSDISSE-----ENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
              P     + +E     +  +      P G    + +  I +   R+
Sbjct: 64  GTRPVADPRVRAEPIVRHQRRMYPLSRHPGG---VQAYRMIIEGGSRE 108


>gi|196038875|ref|ZP_03106182.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|228926817|ref|ZP_04089885.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|301053321|ref|YP_003791532.1| transcriptional regulator [Bacillus anthracis CI]
 gi|196030020|gb|EDX68620.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|228832930|gb|EEM78499.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|300375490|gb|ADK04394.1| transcriptional regulator [Bacillus cereus biovar anthracis str.
          CI]
          Length = 403

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDDEIVEL 72


>gi|148997860|ref|ZP_01825424.1| transcriptional regulator [Streptococcus pneumoniae SP11-BS70]
 gi|168575004|ref|ZP_02720967.1| transcriptional regulator [Streptococcus pneumoniae MLV-016]
 gi|221232553|ref|YP_002511707.1| DNA-binding protein [Streptococcus pneumoniae ATCC 700669]
 gi|225855248|ref|YP_002736760.1| transcriptional regulator [Streptococcus pneumoniae JJA]
 gi|307068427|ref|YP_003877393.1| putative Zn peptidase [Streptococcus pneumoniae AP200]
 gi|147756359|gb|EDK63401.1| transcriptional regulator [Streptococcus pneumoniae SP11-BS70]
 gi|183578938|gb|EDT99466.1| transcriptional regulator [Streptococcus pneumoniae MLV-016]
 gi|220675015|emb|CAR69593.1| putative DNA-binding protein [Streptococcus pneumoniae ATCC 700669]
 gi|225724225|gb|ACO20078.1| transcriptional regulator [Streptococcus pneumoniae JJA]
 gi|306409964|gb|ADM85391.1| Predicted Zn peptidase [Streptococcus pneumoniae AP200]
 gi|332199828|gb|EGJ13903.1| helix-turn-helix family protein [Streptococcus pneumoniae GA41317]
          Length = 383

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ ++  R++ G+S+ +L + + +T Q + ++E    +   S   H++      +++F  
Sbjct: 4   GRVLKELRLLNGLSRAELAQRINLTEQAIWQFESNETKPKLSTKMHLANQFHVDLTYFEQ 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
              ++  D S       D ++T   + 
Sbjct: 64  EEESIRFDSSVIAFRNAD-LATRKTID 89


>gi|29828402|ref|NP_823036.1| DNA-binding protein [Streptomyces avermitilis MA-4680]
 gi|29605505|dbj|BAC69571.1| putative DNA-binding protein [Streptomyces avermitilis MA-4680]
          Length = 285

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 30/67 (44%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           +K   P D  VG  +R  R    +SQ +L    G + + +   E G +R     +  ++
Sbjct: 16 TEKGTGPTDRGVGPLLRGWRERRRVSQLELALRAGSSARHISFVETGRSRPSEEMVLRLA 75

Query: 64 EVLESPI 70
          E LE P+
Sbjct: 76 EHLEIPV 82


>gi|52143677|ref|YP_083152.1| transcriptional regulator [Bacillus cereus E33L]
 gi|51977146|gb|AAU18696.1| transcriptional regulator [Bacillus cereus E33L]
          Length = 403

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDDEIVEL 72


>gi|85715936|ref|ZP_01046913.1| transcriptional regulatory protein [Nitrobacter sp. Nb-311A]
 gi|85697134|gb|EAQ35015.1| transcriptional regulatory protein [Nitrobacter sp. Nb-311A]
          Length = 77

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VG+ +   R+  G++QE+  +  G + Q +   E+G        L  +++ LE  
Sbjct: 5  RLVGQNVMRIRLEKGLTQEQFSDISGFSQQYLSGLERGKRNPTIVTLYELAKALEVS 61


>gi|315174882|gb|EFU18899.1| helix-turn-helix protein [Enterococcus faecalis TX1346]
          Length = 232

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 6  KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 65

Query: 72 FF 73
          + 
Sbjct: 66 WL 67


>gi|315027060|gb|EFT38992.1| helix-turn-helix protein [Enterococcus faecalis TX2137]
          Length = 232

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 6  KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 65

Query: 72 FF 73
          + 
Sbjct: 66 WL 67


>gi|296156274|ref|ZP_06839113.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
 gi|295893780|gb|EFG73559.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
          Length = 91

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/84 (21%), Positives = 28/84 (33%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             G  +R  R   G SQE+L E  G+    V + E+G        +  ++   + PI  
Sbjct: 6  REFGAAVRRLREARGWSQEQLAEYAGLNRSYVGEVERGSAIASIVTVDKLARAFQVPIEH 65

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
              S              +D  S
Sbjct: 66 LLTPSSNASGIAVLAHAAFVDPPS 89


>gi|284991527|ref|YP_003410081.1| XRE family transcriptional regulator [Geodermatophilus obscurus
          DSM 43160]
 gi|284064772|gb|ADB75710.1| transcriptional regulator, XRE family [Geodermatophilus obscurus
          DSM 43160]
          Length = 503

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 28/53 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G  +R  R   G++Q++L E LG +   V + E+G   +    L  +SE LE
Sbjct: 4  IGMLVRDARRHRGLTQQQLAERLGTSQSAVARIEQGGQNLTLELLGRLSEALE 56


>gi|224824162|ref|ZP_03697270.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
 gi|224603581|gb|EEG09756.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
          Length = 180

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 47/109 (43%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G R+R+ R   G+SQ +L +  G+T   +   E+       S L+ + E L   +S 
Sbjct: 1   MDIGARLRMVRARFGLSQRELAKRAGVTNGTISLIEQNRVSPSVSSLKKVLEGLPMTLSD 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           FF         +    + + +  +    L L     +  D+++ ++  E
Sbjct: 61  FFTFDAEPEHKVFYNADELPNLGNEKVQLFLVGASHERRDLQILREFYE 109


>gi|222102390|ref|YP_002546531.1| hypothetical protein Avi_9872 [Agrobacterium vitis S4]
 gi|221739634|gb|ACM40336.1| conserved hypothetical protein [Agrobacterium vitis S4]
          Length = 158

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 30/117 (25%), Positives = 54/117 (46%), Gaps = 11/117 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SP 69
           +D  +   IR  R    +S+ K+   LG++     +YE  V+R+  SRL H+ EVL+ +P
Sbjct: 42  LDDKISTSIREARDKRSLSRSKIAPLLGLSNAVYHRYETSVSRLTVSRLIHLCEVLDATP 101

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                  +P +  +       + + IS  +  QL        D +  ++I +LV S+
Sbjct: 102 EEILAPAAPHLWGENQEHSRLLQNTIS--EIRQL--------DTEGLERIFKLVVSM 148


>gi|223939954|ref|ZP_03631821.1| transcriptional regulator, XRE family [bacterium Ellin514]
 gi|223891368|gb|EEF57862.1| transcriptional regulator, XRE family [bacterium Ellin514]
          Length = 203

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/81 (13%), Positives = 29/81 (35%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          VG  +  +    +  +R++  R   G S + L    G++   + + E+       +    
Sbjct: 13 VGTTRPADSTSNHFCRRLKQLRAERGWSLDSLANASGVSRSMISQVERNQANPTLAVAFR 72

Query: 62 ISEVLESPISFFFDVSPTVCS 82
          I+      ++   +    + S
Sbjct: 73 IARAFGMSLAELVETPEAMSS 93


>gi|148989598|ref|ZP_01820930.1| transcriptional regulator [Streptococcus pneumoniae SP6-BS73]
 gi|147924915|gb|EDK75997.1| transcriptional regulator [Streptococcus pneumoniae SP6-BS73]
 gi|301794784|emb|CBW37238.1| putative DNA-binding protein [Streptococcus pneumoniae INV104]
 gi|332201226|gb|EGJ15297.1| helix-turn-helix family protein [Streptococcus pneumoniae GA47901]
          Length = 383

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ ++  R++ G+S+ +L + + +T Q + ++E    +   S   H++      +++F  
Sbjct: 4   GRVLKELRLLNGLSRAELAQRINLTEQAIWQFESNETKPKLSTKMHLANQFHVDLTYFEQ 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
              ++  D S       D ++T   + 
Sbjct: 64  EEESIRFDSSVIAFRNAD-LATRKTID 89


>gi|148984258|ref|ZP_01817553.1| transcriptional regulator [Streptococcus pneumoniae SP3-BS71]
 gi|147923547|gb|EDK74660.1| transcriptional regulator [Streptococcus pneumoniae SP3-BS71]
 gi|301800603|emb|CBW33244.1| putative DNA-binding protein [Streptococcus pneumoniae OXC141]
          Length = 383

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ ++  R++ G+S+ +L + + +T Q + ++E    +   S   H++      +++F  
Sbjct: 4   GRVLKELRLLNGLSRAELAQRINLTEQAIWQFESNETKPKLSTKMHLANQFHVDLTYFEQ 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
              ++  D S       D ++T   + 
Sbjct: 64  EEESIRFDSSVIAFRNAD-LATRKTID 89


>gi|219667096|ref|YP_002457531.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|219537356|gb|ACL19095.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 179

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 32/80 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R    +S + + E   +T   + + E+ +       L+ I+  L  PIS FF
Sbjct: 4  LGSAIRFMRKNQKLSLKDVAEKTELTISHLSQIERNLASPSLITLEKIASALGYPISSFF 63

Query: 75 DVSPTVCSDISSEENNVMDF 94
                 + I +E    +  
Sbjct: 64 VNPQFTSTHIPAEAQRTIQI 83


>gi|94991134|ref|YP_599234.1| transcriptional regulator [Streptococcus pyogenes MGAS10270]
 gi|94544642|gb|ABF34690.1| Transcriptional regulator [Streptococcus pyogenes MGAS10270]
          Length = 195

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+++   R    +SQE+L E + ++ Q +  +E          L  +S++ +  + 
Sbjct: 1  MEIGQQMIRYRKQQALSQEELAEKVYVSRQSISNWENDKTYPDIHSLLLLSQIFQVSLD 59


>gi|20808514|ref|NP_623685.1| helix-turn-helix [Thermoanaerobacter tengcongensis MB4]
 gi|20517136|gb|AAM25289.1| Helix-turn-helix [Thermoanaerobacter tengcongensis MB4]
          Length = 77

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 34/68 (50%), Gaps = 2/68 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKY-EKGVNRVGASRLQHISEVLESPIS-FFF 74
          +++++ R   G++QE++ + LG   +    Y E G   +   +   IS++L   ++  FF
Sbjct: 4  EKLKILRKARGLTQEQMAKALGYKDRSGYWYLENGRVSITIDKAMEISKILGVNVNEIFF 63

Query: 75 DVSPTVCS 82
          + +    S
Sbjct: 64 ENNIEQNS 71


>gi|332292914|ref|YP_004431523.1| transcriptional regulator, XRE family [Krokinobacter diaphorus
          4H-3-7-5]
 gi|332171000|gb|AEE20255.1| transcriptional regulator, XRE family [Krokinobacter diaphorus
          4H-3-7-5]
          Length = 66

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 32/60 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +++ R IL ++Q+ L + +G++ Q +   EK            +SE+ E P++ FF +S 
Sbjct: 5  LKVERAILNLTQDDLAKKIGVSRQTINSIEKNRYVPSTVLALKLSELFEKPVNEFFSLSE 64


>gi|304385876|ref|ZP_07368220.1| XRE family transcriptional regulator [Pediococcus acidilactici
          DSM 20284]
 gi|304328380|gb|EFL95602.1| XRE family transcriptional regulator [Pediococcus acidilactici
          DSM 20284]
          Length = 196

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 41/87 (47%), Gaps = 4/87 (4%)

Query: 7  IPNPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           P  VD +++G  ++  R    ++Q ++   L +T Q + ++E+G        L+ ++E+
Sbjct: 2  KPEGVDQMSIGPALQKVRQDRHLTQAEVASQLYVTRQTISRWEQGKTIPNIYALKDLAEL 61

Query: 66 LESPISFFFDVSPTVCSDISSEENNVM 92
              I    +++ T   +   EE + M
Sbjct: 62 YGVSID---ELTNTSLLNPVQEEGDPM 85


>gi|257868500|ref|ZP_05648153.1| DNA binding protein [Enterococcus gallinarum EG2]
 gi|257802664|gb|EEV31486.1| DNA binding protein [Enterococcus gallinarum EG2]
          Length = 70

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/66 (18%), Positives = 24/66 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R   G+SQ +L   +G++ Q +   E             I+   +  +   F +
Sbjct: 5  NRLRSIREEQGLSQGELAAIMGVSRQTINAIETHKYNPSLELALRIAHYFKLSVEELFKL 64

Query: 77 SPTVCS 82
          +     
Sbjct: 65 TGGTNE 70


>gi|238761698|ref|ZP_04622673.1| Transcriptional regulator, XRE family [Yersinia kristensenii ATCC
           33638]
 gi|238700212|gb|EEP92954.1| Transcriptional regulator, XRE family [Yersinia kristensenii ATCC
           33638]
          Length = 196

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/106 (21%), Positives = 42/106 (39%), Gaps = 3/106 (2%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  N      V  ++G R+R  R+   ++ ++L   +G +   + K E  V     + L 
Sbjct: 1   MKKNGDNSGFVLSDLGMRLRHARLAQDITLKQLALKVGCSESLLSKLENEVASPSLAMLH 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMD-FIS--TPDGLQL 103
            ++  LE+ IS     S    S +   E  +   F+      G+ L
Sbjct: 61  RLASALETNISDLMAESWVADSPVLKPEQRIRKRFVHRNKKGGIAL 106


>gi|229030998|ref|ZP_04187014.1| hypothetical protein bcere0028_30570 [Bacillus cereus AH1271]
 gi|228730345|gb|EEL81309.1| hypothetical protein bcere0028_30570 [Bacillus cereus AH1271]
          Length = 374

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 25/53 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I 
Sbjct: 10 IADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISID 62


>gi|225019904|ref|ZP_03709096.1| hypothetical protein CLOSTMETH_03858 [Clostridium methylpentosum
          DSM 5476]
 gi|224947268|gb|EEG28477.1| hypothetical protein CLOSTMETH_03858 [Clostridium methylpentosum
          DSM 5476]
          Length = 149

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 27/62 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  I   R     +Q+ L   LG++   + K+E+G+     S ++ ++  L   I+  F 
Sbjct: 10 GSLIATVRKEQNRTQQDLANELGVSSAAISKWERGIGFPDVSLIEPLAISLGITIAELFK 69

Query: 76 VS 77
            
Sbjct: 70 GE 71


>gi|242309806|ref|ZP_04808961.1| predicted protein [Helicobacter pullorum MIT 98-5489]
 gi|239523807|gb|EEQ63673.1| predicted protein [Helicobacter pullorum MIT 98-5489]
          Length = 186

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)

Query: 6   KIPNPVD----INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           K+   +D    + +G RIR  R  LG++QE+  +   I  + +  YE G  R+  + +  
Sbjct: 38  KMKGDIDYEEMLKIGSRIREAREFLGLTQEEFAKNFHIDTRLLSFYETGERRIPVTFIIK 97

Query: 62  ISEVLES-PISFFFDVSPTVCSDIS 85
           + E L+  PI   F V  ++  +I 
Sbjct: 98  MYECLKVNPIFVLFGVGSSIIKEID 122


>gi|219852085|ref|YP_002466517.1| XRE family transcriptional regulator [Methanosphaerula palustris
          E1-9c]
 gi|219546344|gb|ACL16794.1| transcriptional regulator, XRE family [Methanosphaerula palustris
          E1-9c]
          Length = 69

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI++ R +  ++QE LG  +G+  Q +   EKG           I+      I   F
Sbjct: 3  NRIKVFRAMNDLTQENLGRAIGVNRQTILAIEKGQYVPSLDLAFRIARYFSVNIEEMF 60


>gi|199597287|ref|ZP_03210718.1| Predicted transcriptional regulator [Lactobacillus rhamnosus
          HN001]
 gi|229551796|ref|ZP_04440521.1| transcriptional regulator [Lactobacillus rhamnosus LMS2-1]
 gi|258507943|ref|YP_003170694.1| transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|258539196|ref|YP_003173695.1| transcriptional regulator [Lactobacillus rhamnosus Lc 705]
 gi|199591803|gb|EDY99878.1| Predicted transcriptional regulator [Lactobacillus rhamnosus
          HN001]
 gi|229314850|gb|EEN80823.1| transcriptional regulator [Lactobacillus rhamnosus LMS2-1]
 gi|257147870|emb|CAR86843.1| Transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|257150872|emb|CAR89844.1| Transcriptional regulator [Lactobacillus rhamnosus Lc 705]
 gi|259649270|dbj|BAI41432.1| putative transcriptional regulator [Lactobacillus rhamnosus GG]
          Length = 62

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +IR  R    ++Q++L + + +T Q +   E        S    ++  L++ +   F
Sbjct: 3  NKIRTLRTQQHLTQQELADAVNVTRQTINAIENNKYDPTLSLAFALARQLQTTVDHLF 60


>gi|49477327|ref|YP_035899.1| transcriptional regulator [Bacillus thuringiensis serovar
          konkukian str. 97-27]
 gi|118477214|ref|YP_894365.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|229183977|ref|ZP_04311192.1| Transcriptional regulator, Xre [Bacillus cereus BGSC 6E1]
 gi|49328883|gb|AAT59529.1| transcriptional regulator [Bacillus thuringiensis serovar
          konkukian str. 97-27]
 gi|118416439|gb|ABK84858.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|228599502|gb|EEK57107.1| Transcriptional regulator, Xre [Bacillus cereus BGSC 6E1]
          Length = 403

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDDEIVEL 72


>gi|15903671|ref|NP_359221.1| transcriptional regulator [Streptococcus pneumoniae R6]
 gi|116516126|ref|YP_817046.1| transcriptional regulator [Streptococcus pneumoniae D39]
 gi|15459299|gb|AAL00432.1| Conserved hypothetical protein [Streptococcus pneumoniae R6]
 gi|116076702|gb|ABJ54422.1| transcriptional regulator [Streptococcus pneumoniae D39]
          Length = 383

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ ++  R++ G+S+ +L + + +T Q + ++E    +   S   H++      +++F  
Sbjct: 4   GRVLKELRLLNGLSRAELAQRINLTEQAIWQFESNETKPKLSTKMHLANQFHVDLTYFEQ 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
              ++  D S       D ++T   + 
Sbjct: 64  EEESIRFDSSVIAFRNAD-LATRKTID 89


>gi|238784700|ref|ZP_04628704.1| hypothetical protein yberc0001_18610 [Yersinia bercovieri ATCC
           43970]
 gi|238714379|gb|EEQ06387.1| hypothetical protein yberc0001_18610 [Yersinia bercovieri ATCC
           43970]
          Length = 160

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/103 (20%), Positives = 39/103 (37%), Gaps = 6/103 (5%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RIR  R     SQE+L E   +  + +Q+ E G        L  I+ VLE  +S  +   
Sbjct: 5   RIRELRQARAWSQEQLAELCSLNVRTIQRVESGEQ-ASLETLSAIAAVLELKVSELY-TP 62

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
                  +  +      +   D +     F++    ++ + +I
Sbjct: 63  GASQQQAAPADAVDQRVLDARDAVDNEMAFLR----QLLRAVI 101


>gi|116691614|ref|YP_837147.1| XRE family transcriptional regulator [Burkholderia cenocepacia
          HI2424]
 gi|170736384|ref|YP_001777644.1| XRE family transcriptional regulator [Burkholderia cenocepacia
          MC0-3]
 gi|206562401|ref|YP_002233164.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
 gi|116649614|gb|ABK10254.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
          HI2424]
 gi|169818572|gb|ACA93154.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
          MC0-3]
 gi|198038441|emb|CAR54399.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
          Length = 73

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 23/58 (39%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + G  +R  R     SQE+L E  G+    V + E+G           I+   +  IS
Sbjct: 7  HFGATVRKLREARTWSQEQLAEHAGLNRSYVGEIERGEAIASIVTADKIARAFDVSIS 64


>gi|319939541|ref|ZP_08013901.1| prophage [Streptococcus anginosus 1_2_62CV]
 gi|319811527|gb|EFW07822.1| prophage [Streptococcus anginosus 1_2_62CV]
          Length = 159

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R    +SQ+++   L +  +  Q++E G +++   + Q +++  E  I + 
Sbjct: 2  NRLKELRQDKKLSQKEIALELQVPLRTYQRWENGESQIKQEKAQQLADYFEVSIGYL 58


>gi|314935191|ref|ZP_07842544.1| transcriptional regulator, Cro/CI family [Staphylococcus hominis
          subsp. hominis C80]
 gi|313656526|gb|EFS20265.1| transcriptional regulator, Cro/CI family [Staphylococcus hominis
          subsp. hominis C80]
          Length = 191

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 28/61 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R     SQE L E L ++ Q +  +E   +      L  + E+ +  +  
Sbjct: 1  MNIGQQIRKYRERDEYSQEYLAEKLYVSRQTISNWENEKSYPDIHNLLVMCELFDISLDD 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|313669507|ref|YP_004049933.1| hypothetical protein Sulku_2730 [Sulfuricurvum kujiense DSM
          16994]
 gi|313156704|gb|ADR35380.1| hypothetical protein Sulku_2730 [Sulfuricurvum kujiense DSM
          16994]
          Length = 90

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 6/72 (8%)

Query: 9  NPVD---INVGKRIRLRRMILGMSQEKLGECLG---ITFQQVQKYEKGVNRVGASRLQHI 62
          + +D   I +G+ ++  RM  G+SQ KL + +G   ++   + +            L  I
Sbjct: 11 DYIDKIYIEIGENVKKIRMEKGISQLKLAQAIGHKSLSIVSLAEIYHNKQHFNIEHLVKI 70

Query: 63 SEVLESPISFFF 74
          + VL+  I  FF
Sbjct: 71 AYVLDVNICNFF 82


>gi|306826725|ref|ZP_07460027.1| DNA-binding protein [Streptococcus pyogenes ATCC 10782]
 gi|304431014|gb|EFM34021.1| DNA-binding protein [Streptococcus pyogenes ATCC 10782]
          Length = 195

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+++   R    +SQE+L E + ++ Q +  +E          L  +S++ +  + 
Sbjct: 1  MEIGQQMIRYRKQQALSQEELAEKVYVSRQSISNWENDKTYPDIHSLLLLSQIFQVSLD 59


>gi|298372553|ref|ZP_06982543.1| transcriptional regulator, Cro/CI family [Bacteroidetes oral
          taxon 274 str. F0058]
 gi|298275457|gb|EFI17008.1| transcriptional regulator, Cro/CI family [Bacteroidetes oral
          taxon 274 str. F0058]
          Length = 117

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N+ + I+  R   G+SQE +   L I+     K E G   +   RLQ I  +LE  +S
Sbjct: 1  MNIIENIKKMRKHKGISQEYIASHLNISQSAYHKIEVGETELTTDRLQQILNILEIDLS 59


>gi|295107832|emb|CBL21785.1| Helix-turn-helix. [Ruminococcus obeum A2-162]
          Length = 178

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI   R++ GM+Q+ LG  +G   +    ++ +YE G  +  A     +++ L+ 
Sbjct: 1  MAIGERIHFFRILRGMTQKYLGTIVGFPERSADVRLAQYETGTRKPKAELTAALAQALDV 60

Query: 69 PI 70
            
Sbjct: 61 SP 62


>gi|229553254|ref|ZP_04441979.1| transcriptional regulator [Lactobacillus rhamnosus LMS2-1]
 gi|258540134|ref|YP_003174633.1| transcription regulator [Lactobacillus rhamnosus Lc 705]
 gi|229313340|gb|EEN79313.1| transcriptional regulator [Lactobacillus rhamnosus LMS2-1]
 gi|257151810|emb|CAR90782.1| Transcription regulator [Lactobacillus rhamnosus Lc 705]
          Length = 67

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R    +SQ  L E +G+  Q +   E G           +S  L + ++  F
Sbjct: 2  NRVREFRREKKLSQLALAEKIGVARQTINLIENGKYNPSLELCLKLSWTLGTDLNTLF 59


>gi|229121334|ref|ZP_04250565.1| Transcriptional regulator, Xre [Bacillus cereus 95/8201]
 gi|228662179|gb|EEL17788.1| Transcriptional regulator, Xre [Bacillus cereus 95/8201]
          Length = 403

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDDEIVEL 72


>gi|228474153|ref|ZP_04058890.1| transcriptional regulator, Cro/CI family [Staphylococcus hominis
          SK119]
 gi|228271848|gb|EEK13185.1| transcriptional regulator, Cro/CI family [Staphylococcus hominis
          SK119]
          Length = 191

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 28/61 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G++IR  R     SQE L E L ++ Q +  +E   +      L  + E+ +  +  
Sbjct: 1  MNIGQQIRKYRERDEYSQEYLAEKLYVSRQTISNWENEKSYPDIHNLLVMCELFDISLDD 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|186704310|dbj|BAG30963.1| unnamed protein product [Comamonas testosteroni]
          Length = 495

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/125 (16%), Positives = 54/125 (43%), Gaps = 14/125 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G R+R  R   G++Q  L + L ++   + + E+    +  + L  I  VL   I  F
Sbjct: 5   FMGVRLRSLRAERGLTQAALAQALELSPSYLNQIEQDQRPLTVAVLLKIHRVLGVDIQQF 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ---KIIELVRSIVSSE 130
              S    + + ++  + +  +  P+G         +   ++R+   K+ +L + +++  
Sbjct: 65  ---SEDEEARLLAQLRDAVAAMPQPEG--------AVPLPELREVAAKLPQLAQMLLAMH 113

Query: 131 KKYRT 135
           +++  
Sbjct: 114 QRHLA 118


>gi|114569063|ref|YP_755743.1| XRE family transcriptional regulator [Maricaulis maris MCS10]
 gi|114339525|gb|ABI64805.1| transcriptional regulator, XRE family [Maricaulis maris MCS10]
          Length = 72

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 1/62 (1%)

Query: 19 IRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          IR  R   G M+Q  L   +G+T Q +   E+G           I+ V +  +   F   
Sbjct: 11 IRTLRFHAGEMTQADLARQVGVTRQTIIAIEQGKYSPSLEVAFKIARVFKVGLDAVFQYP 70

Query: 78 PT 79
          P 
Sbjct: 71 PE 72


>gi|330816861|ref|YP_004360566.1| XRE family transcriptional regulator [Burkholderia gladioli BSR3]
 gi|327369254|gb|AEA60610.1| XRE family transcriptional regulator [Burkholderia gladioli BSR3]
          Length = 207

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G R+R  R   GM+ E+L E  G++   + K E+G           I++ L + ++
Sbjct: 29 GARVRKLRAAAGMTLEQLSERSGVSRAMLSKVERGEKSPTIGIATRIAQSLRTSLT 84


>gi|323126263|gb|ADX23560.1| DNA-binding protein [Streptococcus dysgalactiae subsp.
          equisimilis ATCC 12394]
          Length = 124

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 34/80 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V ++++  R+   +SQ+ L E L I+ Q + K+E G        L  ++E+ +  +    
Sbjct: 4  VAEQLKQLRVKHQLSQDALAEQLFISRQAISKWENGDTIPDLDNLVRLTEIFDVSLDELV 63

Query: 75 DVSPTVCSDISSEENNVMDF 94
             P         EN  +D 
Sbjct: 64 LAKPHEVKVERIYENKPLDL 83


>gi|317470497|ref|ZP_07929885.1| hypothetical protein HMPREF1011_00232 [Anaerostipes sp.
          3_2_56FAA]
 gi|316902012|gb|EFV23938.1| hypothetical protein HMPREF1011_00232 [Anaerostipes sp.
          3_2_56FAA]
          Length = 149

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 33/77 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G  +   R    +SQE +   LG++ Q + K+E G       + ++++ +    +  
Sbjct: 1  MNLGNSLFNARKKSNLSQEDVAGKLGVSRQTISKWETGETLPDIRQSKNLAVLYHVSLDE 60

Query: 73 FFDVSPTVCSDISSEEN 89
            +    +     + EN
Sbjct: 61 LIEFDIELKEIEQAIEN 77


>gi|308175926|ref|YP_003915332.1| transcriptional regulator [Arthrobacter arilaitensis Re117]
 gi|307743389|emb|CBT74361.1| putative transcriptional regulator [Arthrobacter arilaitensis
          Re117]
          Length = 65

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 22/58 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G SQ+ L + LG++ Q +   EKG           +S V    I   F
Sbjct: 3  NNLSEYRKEHGFSQQALADLLGVSRQTIISLEKGRYDPSLPLAFKLSAVFGCKIEDLF 60


>gi|295104999|emb|CBL02543.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii SL3/3]
          Length = 100

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 35/75 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+   R     +Q+ L + LG+T   V  +E+G N   +  L  I ++  +   +  
Sbjct: 2  LGERLAEIRKNYHDTQKSLADKLGLTVWAVSAWEQGRNSPPSDVLLAICKLYGTSADYLL 61

Query: 75 DVSPTVCSDISSEEN 89
           ++    SD + ++ 
Sbjct: 62 GLTDIDPSDEARKQR 76


>gi|229605809|ref|YP_002876513.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae MJ-1236]
 gi|229372295|gb|ACQ62717.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae MJ-1236]
          Length = 114

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/83 (18%), Positives = 36/83 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +IR  R+   ++QE++   +G+       YEKG        ++ +++    PI+     
Sbjct: 7  SKIRDLRVERDLNQEEVANGIGVGKNTYLAYEKGTQSPKLETVEKLAKFYGVPIAELVSD 66

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
          S T   +    +  +++ +  P+
Sbjct: 67 SETNIDEKLKSKIRMIESLDEPE 89


>gi|229550955|ref|ZP_04439680.1| xre family transcriptional regulator [Lactobacillus rhamnosus
           LMS2-1]
 gi|229315670|gb|EEN81643.1| xre family transcriptional regulator [Lactobacillus rhamnosus
           LMS2-1]
          Length = 290

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 10/55 (18%), Positives = 23/55 (41%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           K+++  R+   M+Q  L + L ++   V  +E   N      +  I+ +    + 
Sbjct: 93  KQLQQIRIAHSMTQADLAQQLHVSRHTVSNWENERNLPDLETVTQIARIFSVSLD 147


>gi|258651682|ref|YP_003200838.1| XRE family transcriptional regulator [Nakamurella multipartita
          DSM 44233]
 gi|258554907|gb|ACV77849.1| transcriptional regulator, XRE family [Nakamurella multipartita
          DSM 44233]
          Length = 117

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 42/92 (45%), Gaps = 8/92 (8%)

Query: 10 PVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+D+    G  ++ +R +  +SQ +L +  G++   + + E+G  +  A  L+ I+  L 
Sbjct: 4  PIDMAEAFGAFVKAQRQLANISQRQLAKASGMSDSYLSQIERGQYKPSAEVLRGIAGALH 63

Query: 68 SPISFFF------DVSPTVCSDISSEENNVMD 93
           P +  F      D +      +S EE   +D
Sbjct: 64 IPPAVLFAQFGLLDTNDEQAPRVSVEEAIRLD 95


>gi|210632226|ref|ZP_03297243.1| hypothetical protein COLSTE_01137 [Collinsella stercoris DSM
          13279]
 gi|210159684|gb|EEA90655.1| hypothetical protein COLSTE_01137 [Collinsella stercoris DSM
          13279]
          Length = 222

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 25/54 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + + I+  R   GM+Q +L E L +    + ++E G +      +Q ++ V   
Sbjct: 13 ISQNIKRLRKQAGMTQVELAEKLDVARSTITQWETGWSSPRMGMVQKLAGVFGV 66


>gi|205374685|ref|ZP_03227479.1| putative phage repressor [Bacillus coahuilensis m4-4]
          Length = 115

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 37/80 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            G+ ++++R + G+SQE+L     +  + ++KYE G        +  +S VL+ P S  
Sbjct: 3  YFGEHLKMQRELHGLSQEELAFKARLGKRTIEKYENGEQIPDTQTILKLSTVLDIPASEL 62

Query: 74 FDVSPTVCSDISSEENNVMD 93
           +        I SE   ++ 
Sbjct: 63 MEREIHQTGGIDSEIEQLVQ 82


>gi|168213146|ref|ZP_02638771.1| immunity repressor protein [Clostridium perfringens CPE str.
          F4969]
 gi|170715320|gb|EDT27502.1| immunity repressor protein [Clostridium perfringens CPE str.
          F4969]
          Length = 117

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/84 (17%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KR++  R   G++ ++L + LG T   + +YE G+           +      + +   V
Sbjct: 6  KRLKQLRNEKGLTLDELKDALGTTKATLSRYENGLREPKIDFANKAANYFNVSLDYILGV 65

Query: 77 SP-TVCSDISSEENNVMDFISTPD 99
          S     +++S+ E+     ++  +
Sbjct: 66 SDVREVNELSTNESLAQKLLAELE 89


>gi|167626085|ref|YP_001676379.1| XRE family transcriptional regulator [Shewanella halifaxensis
          HAW-EB4]
 gi|167356107|gb|ABZ78720.1| transcriptional regulator, XRE family [Shewanella halifaxensis
          HAW-EB4]
          Length = 69

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 25/61 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R     +Q  L E L ++ Q +   EKG           ++ + E PI   F+ 
Sbjct: 3  NRLKVLRAERDWTQADLAEKLEVSRQTINAIEKGKYDPSLPLAFKVARLFEMPIEAIFED 62

Query: 77 S 77
           
Sbjct: 63 E 63


>gi|329891038|ref|ZP_08269381.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
 gi|328846339|gb|EGF95903.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
          Length = 72

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 24/59 (40%), Gaps = 1/59 (1%)

Query: 17 KRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RIR  R   G M+Q  L   +G+T Q +   E+G           I++V    I   F
Sbjct: 10 NRIRELRFHAGEMTQADLAARIGMTRQTIVAMEQGKYSPSLEAAFRIAQVFGVEIGEVF 68


>gi|313903103|ref|ZP_07836497.1| helix-turn-helix domain protein [Thermaerobacter subterraneus DSM
          13965]
 gi|313466605|gb|EFR62125.1| helix-turn-helix domain protein [Thermaerobacter subterraneus DSM
          13965]
          Length = 218

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G R+R  R    +S  ++    G+ F  + KYE+   +     L+ ++ + E P+S F
Sbjct: 4  LGGRLRRIRESRNLSIYEVERRTGMHFSTISKYERNERQPSLDVLRELAALYEVPVSVF 62


>gi|310779002|ref|YP_003967335.1| transcriptional regulator, XRE family [Ilyobacter polytropus DSM
          2926]
 gi|309748325|gb|ADO82987.1| transcriptional regulator, XRE family [Ilyobacter polytropus DSM
          2926]
          Length = 179

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 37/81 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+  R    ++QE+L +   ++   + + E+ +     + L  I E L + +  
Sbjct: 1  MIIGEKIKRLRQGKLLTQEELADRCELSKGFISQLERDLTSPSIATLVDILESLGTNLKE 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF+         S+++    +
Sbjct: 61 FFNEEEDEKIVFSNDDFFEFE 81


>gi|307128006|ref|YP_003880037.1| transcriptional regulator [Streptococcus pneumoniae 670-6B]
 gi|306485068|gb|ADM91937.1| transcriptional regulator [Streptococcus pneumoniae 670-6B]
          Length = 383

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ ++  R++ G+S+ +L + + +T Q + ++E    +   S   H++      +++F  
Sbjct: 4   GRVLKELRLLNGLSRAELAQRINLTEQAIWQFESNETKPKLSTKMHLANQFHVDLTYFEQ 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
              ++  D S       D ++T   + 
Sbjct: 64  EEESIRFDSSVIAFRNAD-LATRKTID 89


>gi|326773541|ref|ZP_08232824.1| transcriptional regulator, HTH_3 family [Actinomyces viscosus
          C505]
 gi|326636771|gb|EGE37674.1| transcriptional regulator, HTH_3 family [Actinomyces viscosus
          C505]
          Length = 76

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 28/67 (41%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  V  RI + R    +S+ +L E LG+ +Q V   E+G           I+   + P+ 
Sbjct: 5  DDVVHNRIAVLRADRRVSRRELAEALGVHYQTVGYLERGEYAPSLHLALRIARYFDVPVE 64

Query: 72 FFFDVSP 78
            F +  
Sbjct: 65 SVFSLEE 71


>gi|257889196|ref|ZP_05668849.1| predicted protein [Enterococcus faecium 1,141,733]
 gi|257825268|gb|EEV52182.1| predicted protein [Enterococcus faecium 1,141,733]
          Length = 58

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 30/56 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++  R+  G + ++  +   + FQ + KYE   + +  S L+ +S + + PI+ FF
Sbjct: 3  LKAARVNAGFTSKEAAKAADVHFQTLSKYEIDSSDIPFSLLKELSNLYQVPINNFF 58


>gi|229072719|ref|ZP_04205921.1| Transcription regulator, probable-related protein [Bacillus
          cereus F65185]
 gi|229193504|ref|ZP_04320451.1| Transcription regulator, probable-related protein [Bacillus
          cereus ATCC 10876]
 gi|228590036|gb|EEK47908.1| Transcription regulator, probable-related protein [Bacillus
          cereus ATCC 10876]
 gi|228710695|gb|EEL62668.1| Transcription regulator, probable-related protein [Bacillus
          cereus F65185]
          Length = 68

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            ++  R   G+SQ +L + + +  Q +   E        +    +++ L++ ++  F
Sbjct: 7  NNVKQYRKSEGLSQLELAKKVNVARQTINLIENNKYNPSLALCIELAKALKTDLNSLF 64


>gi|227824109|ref|YP_002828082.1| putative transcriptional regulator with cupin 2 conserved barrel
          [Sinorhizobium fredii NGR234]
 gi|227343111|gb|ACP27329.1| putative transcriptional regulator with cupin 2 conserved barrel
          [Sinorhizobium fredii NGR234]
          Length = 197

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 35/76 (46%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  +G+R+R  R +  ++ ++L    G++   + + E+G     A  L  +   L + 
Sbjct: 12 SLEQTIGERVREMRTVQALTLDELAIRSGVSRAMISRIERGEASPTAQLLAKLCSALGTT 71

Query: 70 ISFFFDVSPTVCSDIS 85
          +S  F  +    S ++
Sbjct: 72 LSALFASAAENASPVA 87


>gi|225861611|ref|YP_002743120.1| transcriptional regulator [Streptococcus pneumoniae Taiwan19F-14]
 gi|298230403|ref|ZP_06964084.1| transcriptional regulator [Streptococcus pneumoniae str. Canada
           MDR_19F]
 gi|298255524|ref|ZP_06979110.1| transcriptional regulator [Streptococcus pneumoniae str. Canada
           MDR_19A]
 gi|298503538|ref|YP_003725478.1| transcriptional regulator [Streptococcus pneumoniae TCH8431/19A]
 gi|225727248|gb|ACO23099.1| transcriptional regulator [Streptococcus pneumoniae Taiwan19F-14]
 gi|298239133|gb|ADI70264.1| transcriptional regulator [Streptococcus pneumoniae TCH8431/19A]
 gi|327389977|gb|EGE88322.1| helix-turn-helix family protein [Streptococcus pneumoniae GA04375]
          Length = 383

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ ++  R++ G+S+ +L + + +T Q + ++E    +   S   H++      +++F  
Sbjct: 4   GRVLKELRLLNGLSRAELAQRINLTEQAIWQFESNETKPKLSTKMHLANQFHVDLTYFEQ 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
              ++  D S       D ++T   + 
Sbjct: 64  EEESIRFDSSVIAFRNAD-LATRKTID 89


>gi|222084616|ref|YP_002543145.1| transcriptional regulator [Agrobacterium radiobacter K84]
 gi|221722064|gb|ACM25220.1| transcriptional regulator [Agrobacterium radiobacter K84]
          Length = 265

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/64 (32%), Positives = 33/64 (51%), Gaps = 4/64 (6%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +PN     +G ++R  R   G SQ  L    GI+ +Q+   E G +  G   L H++EVL
Sbjct: 1  MPNE----LGPQLRAWRGTRGKSQLDLSLDTGISQRQISFIESGRSTPGRHNLLHLAEVL 56

Query: 67 ESPI 70
          + P+
Sbjct: 57 DVPL 60


>gi|149185489|ref|ZP_01863805.1| DNA-binding protein, putative [Erythrobacter sp. SD-21]
 gi|148830709|gb|EDL49144.1| DNA-binding protein, putative [Erythrobacter sp. SD-21]
          Length = 242

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/105 (19%), Positives = 40/105 (38%), Gaps = 11/105 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R   G +   L E +G++   + K+E    R     +Q +++ L+       
Sbjct: 129 LGTRIKRLRTTRGFTMCGLAESVGVSKPTLWKWEGDQVRPRHETMQRLAKQLDVSELELV 188

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
             +P +   ++  E  +    S      L R          R++I
Sbjct: 189 YGAPGLGKAVALAEGGLDSGASLA---DLIRA--------SRRRI 222


>gi|15901638|ref|NP_346242.1| transcriptional regulator [Streptococcus pneumoniae TIGR4]
 gi|111657394|ref|ZP_01408149.1| hypothetical protein SpneT_02001403 [Streptococcus pneumoniae
           TIGR4]
 gi|148993267|ref|ZP_01822807.1| transcriptional regulator [Streptococcus pneumoniae SP9-BS68]
 gi|149006536|ref|ZP_01830235.1| transcriptional regulator [Streptococcus pneumoniae SP18-BS74]
 gi|168488478|ref|ZP_02712677.1| transcriptional regulator [Streptococcus pneumoniae SP195]
 gi|168491876|ref|ZP_02716019.1| transcriptional regulator [Streptococcus pneumoniae CDC0288-04]
 gi|225857406|ref|YP_002738917.1| transcriptional regulator [Streptococcus pneumoniae P1031]
 gi|14973308|gb|AAK75882.1| transcriptional regulator [Streptococcus pneumoniae TIGR4]
 gi|147761834|gb|EDK68797.1| transcriptional regulator [Streptococcus pneumoniae SP18-BS74]
 gi|147928034|gb|EDK79053.1| transcriptional regulator [Streptococcus pneumoniae SP9-BS68]
 gi|183572846|gb|EDT93374.1| transcriptional regulator [Streptococcus pneumoniae SP195]
 gi|183573895|gb|EDT94423.1| transcriptional regulator [Streptococcus pneumoniae CDC0288-04]
 gi|225725090|gb|ACO20942.1| transcriptional regulator [Streptococcus pneumoniae P1031]
 gi|332072635|gb|EGI83118.1| helix-turn-helix family protein [Streptococcus pneumoniae GA17570]
 gi|332072966|gb|EGI83447.1| helix-turn-helix family protein [Streptococcus pneumoniae GA17545]
          Length = 383

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ ++  R++ G+S+ +L + + +T Q + ++E    +   S   H++      +++F  
Sbjct: 4   GRVLKELRLLNGLSRAELAQRINLTEQAIWQFESNETKPKLSTKMHLANQFHVDLTYFEQ 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
              ++  D S       D ++T   + 
Sbjct: 64  EEESIRFDSSVIAFRNAD-LATRKTID 89


>gi|153950714|ref|YP_001399331.1| DNA-binding protein [Yersinia pseudotuberculosis IP 31758]
 gi|152962209|gb|ABS49670.1| DNA-binding protein [Yersinia pseudotuberculosis IP 31758]
          Length = 135

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 34/69 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R++  R     +Q+++   +G+   Q  KYE G++   A +L  ++E+L + I +   
Sbjct: 19 GLRLKELRKQQHKTQKEVATRIGLQLSQYNKYESGMHIPPADKLITLAELLVTSIDYLLL 78

Query: 76 VSPTVCSDI 84
           S    S I
Sbjct: 79 GSSNETSSI 87


>gi|332529565|ref|ZP_08405521.1| helix-turn-helix domain-containing protein [Hylemonella gracilis
          ATCC 19624]
 gi|332040915|gb|EGI77285.1| helix-turn-helix domain-containing protein [Hylemonella gracilis
          ATCC 19624]
          Length = 279

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/56 (33%), Positives = 27/56 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G  IR  R    +SQ  L   +GI+ + +   E G  R GA  L  I+E L  P+
Sbjct: 20 IGDLIREWRQQRRLSQMDLALDVGISPRHLSFVETGRARPGAEVLLAIAERLALPL 75


>gi|289550066|ref|YP_003470970.1| hypothetical protein SLGD_00695 [Staphylococcus lugdunensis
          HKU09-01]
 gi|315659305|ref|ZP_07912169.1| cro/CI family transcriptional regulator [Staphylococcus
          lugdunensis M23590]
 gi|289179598|gb|ADC86843.1| hypothetical protein SLGD_00695 [Staphylococcus lugdunensis
          HKU09-01]
 gi|315495730|gb|EFU84061.1| cro/CI family transcriptional regulator [Staphylococcus
          lugdunensis M23590]
          Length = 71

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++++ R    +SQ +L   +G++ Q +   E G          +I++ L + +   F
Sbjct: 9  NKVKVYRGYSKISQLELARAVGVSRQTINMIENGKYNPSLKLCVNIAKTLGTTLDTLF 66


>gi|254712684|ref|ZP_05174495.1| hypothetical protein BcetM6_04806 [Brucella ceti M644/93/1]
 gi|254715754|ref|ZP_05177565.1| hypothetical protein BcetM_04816 [Brucella ceti M13/05/1]
 gi|256015686|ref|YP_003105695.1| transcriptional regulator, putative [Brucella microti CCM 4915]
 gi|261217515|ref|ZP_05931796.1| transcriptional regulator [Brucella ceti M13/05/1]
 gi|261320390|ref|ZP_05959587.1| transcriptional regulator [Brucella ceti M644/93/1]
 gi|255998346|gb|ACU50033.1| transcriptional regulator, putative [Brucella microti CCM 4915]
 gi|260922604|gb|EEX89172.1| transcriptional regulator [Brucella ceti M13/05/1]
 gi|261293080|gb|EEX96576.1| transcriptional regulator [Brucella ceti M644/93/1]
          Length = 182

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 37/86 (43%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I++G R+R  RM   +SQ +L +  G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSIDIGGRLRYVRMRQNLSQRELAKRAGVTNSTISLIEANQSNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF + P     +  +   +++ 
Sbjct: 59 GMAEFFALEPDAPHRVFYQAEELVEI 84


>gi|227892048|ref|ZP_04009853.1| bifunctional S24 family peptidase/transcriptional regulator
          [Lactobacillus salivarius ATCC 11741]
 gi|227866158|gb|EEJ73579.1| bifunctional S24 family peptidase/transcriptional regulator
          [Lactobacillus salivarius ATCC 11741]
          Length = 183

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/78 (16%), Positives = 30/78 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KR++     +G++Q +L    GI+   +  Y KG       ++  ++  L    ++    
Sbjct: 6  KRLKEAIENMGITQAELARRSGISRASITDYLKGKYEAKQDKIYPLARALNVSEAWLMGY 65

Query: 77 SPTVCSDISSEENNVMDF 94
          S    + +       + F
Sbjct: 66 SDDASNSVDKSFTFTLTF 83


>gi|168207127|ref|ZP_02633132.1| transcriptional regulator, XRE family [Clostridium perfringens E
           str. JGS1987]
 gi|170661532|gb|EDT14215.1| transcriptional regulator, XRE family [Clostridium perfringens E
           str. JGS1987]
          Length = 134

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/90 (20%), Positives = 39/90 (43%), Gaps = 2/90 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF--FF 74
             ++  R +  +SQ +L + LGI+   +  YE G +    + L  IS+     + +  F 
Sbjct: 12  NNLKTLRKLNLLSQSELSKLLGISRSSLSFYESGESEPTLNVLIKISKFFNVSLDYLIFK 71

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            +     +++ S ++     + T + L L 
Sbjct: 72  KIDSKFLANLISYDSLKKQNLDTLEKLDLL 101


>gi|160935566|ref|ZP_02082941.1| hypothetical protein CLOBOL_00456 [Clostridium bolteae ATCC
           BAA-613]
 gi|158441310|gb|EDP19020.1| hypothetical protein CLOBOL_00456 [Clostridium bolteae ATCC
           BAA-613]
          Length = 115

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 31/92 (33%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G  IR  R   GMSQ  L E LGI  + +   E          L  +   L  P   
Sbjct: 6   KTLGTVIRKAREEQGMSQASLAEKLGIDVRTIINIENFRGNPKFEVLYPLVTTLRIPADR 65

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            F        D   +    +  +S  + L+L 
Sbjct: 66  IFYPETESMGDSKQQLFWELHSLSEKEALELL 97


>gi|329847523|ref|ZP_08262551.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
 gi|328842586|gb|EGF92155.1| helix-turn-helix family protein [Asticcacaulis biprosthecum C19]
          Length = 469

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 50/115 (43%), Gaps = 19/115 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G R++  R  L +SQ ++ E LG++   +   E+    V A  L  ++   +  +  
Sbjct: 8   LFLGGRLKRLRYDLNLSQTQMAEDLGVSPSYLNHLERNQRPVTAQVLLKLAATYDLDLRT 67

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP--DGLQLNRYFIQIDDVKVRQKIIELVRS 125
           F D S        S E ++++  + P    L+L            R++I ELV S
Sbjct: 68  FTDDSE------PSGEADLVEIFADPLFKDLRL-----------PRREISELVAS 105


>gi|327405551|ref|YP_004346389.1| helix-turn-helix domain-containing protein [Fluviicola taffensis
          DSM 16823]
 gi|327321059|gb|AEA45551.1| helix-turn-helix domain protein [Fluviicola taffensis DSM 16823]
          Length = 273

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 25/59 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G  ++L R     SQE++   LG+T      YE  +   G   L  +S     PI 
Sbjct: 1  MKLGNNLKLVRKSKKKSQEEVAADLGLTRSSYSGYENQIAEPGIDTLIALSSYYGVPID 59


>gi|318605304|emb|CBY26802.1| hypothetical protein Y11_13791 [Yersinia enterocolitica subsp.
           palearctica Y11]
          Length = 160

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 35/85 (41%), Gaps = 2/85 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RIR  R     SQE+L E   +  + +Q+ E G        L  I+ V+E  +S  +   
Sbjct: 5   RIRELRQARAWSQEQLAELCSLNVRTIQRIENGEQ-ASLETLSAIAAVMELKVSELYSPD 63

Query: 78  PTVCSDISSEENNVMDFISTPDGLQ 102
            +   + S E  +    +   + ++
Sbjct: 64  SSQPPETSGEAVD-QRVVDAREAVE 87


>gi|312978143|ref|ZP_07789887.1| toxin-antitoxin system, antitoxin component, Xre family
          [Lactobacillus crispatus CTV-05]
 gi|310894861|gb|EFQ43931.1| toxin-antitoxin system, antitoxin component, Xre family
          [Lactobacillus crispatus CTV-05]
          Length = 122

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 35/76 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+  R   G S+ K  + LG++ Q+   +E  ++      L  I+ + E+   +    
Sbjct: 6  QRIKNLRDSKGWSKSKTAQMLGVSAQRYSNWEYDLHEPDYEMLNQIAALFETTTDYLTGK 65

Query: 77 SPTVCSDISSEENNVM 92
          S    S+ ++++   +
Sbjct: 66 SDNPSSESTAKDGTAL 81


>gi|291458800|ref|ZP_06598190.1| toxin-antitoxin system, antitoxin component, Xre family
          [Oribacterium sp. oral taxon 078 str. F0262]
 gi|291418596|gb|EFE92315.1| toxin-antitoxin system, antitoxin component, Xre family
          [Oribacterium sp. oral taxon 078 str. F0262]
          Length = 75

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 5/66 (7%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVL-E 67
          + +G+RI+  RM  GM+Q++LG  LG        ++ +YE G        ++ I+ +L  
Sbjct: 1  MTIGERIKRVRMKRGMTQKELGIALGFPDRSADVRIAQYESGSRTPKEDLVRQIAAILHG 60

Query: 68 SPISFF 73
           P  F 
Sbjct: 61 IPTPFL 66


>gi|289165190|ref|YP_003455328.1| phage repressor [Legionella longbeachae NSW150]
 gi|288858363|emb|CBJ12231.1| phage repressor [Legionella longbeachae NSW150]
          Length = 223

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G++ + L E    +   ++  +E+G    G   ++ +++ L+   ++ 
Sbjct: 7  IGQRIKEERVARGLTLKTLEELTDDLKQTRISNWERGYRTPGPEEIKQLAQALDVSPAYL 66

Query: 74 F 74
           
Sbjct: 67 M 67


>gi|262046896|ref|ZP_06019856.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
 gi|260572878|gb|EEX29438.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
          Length = 123

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 35/76 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+  R   G S+ K  + LG++ Q+   +E  ++      L  I+ + E+   +    
Sbjct: 6  QRIKNLRDSKGWSKSKTAQMLGVSAQRYSNWEYDLHEPDYEMLNQIAALFETTTDYLTGK 65

Query: 77 SPTVCSDISSEENNVM 92
          S    S+ ++++   +
Sbjct: 66 SDNPSSESTAKDGTAL 81


>gi|225857563|ref|YP_002739074.1| transcriptional activator [Streptococcus pneumoniae P1031]
 gi|225725042|gb|ACO20894.1| transcriptional activator [Streptococcus pneumoniae P1031]
          Length = 299

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 33/68 (48%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVPVY 60

Query: 72 FFFDVSPT 79
                  
Sbjct: 61 SLMPDFSA 68


>gi|167569121|ref|ZP_02361995.1| DNA-binding protein [Burkholderia oklahomensis C6786]
          Length = 186

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++L R   G + + L E  G+T   + K E+G++    +    +S+ L+  +   F  S
Sbjct: 4  RLKLLRKQKGWTLDVLAEATGLTKSYLSKVERGISVPSIAVALKLSKALQVDVERLFSDS 63


>gi|148927479|ref|ZP_01810979.1| transcriptional regulator, XRE family [candidate division TM7
          genomosp. GTL1]
 gi|147887175|gb|EDK72643.1| transcriptional regulator, XRE family [candidate division TM7
          genomosp. GTL1]
          Length = 528

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK I+  R+  G +Q ++ + LG +   + + E G   +    L  IS+VL S I
Sbjct: 29 IGKLIQQNRLGRGFTQAEMAKALGTSQSAINRIENGGQNLSMEMLARISDVLNSEI 84


>gi|134046073|ref|YP_001097559.1| MerR family transcriptional regulator [Methanococcus maripaludis
          C5]
 gi|132663698|gb|ABO35344.1| transcriptional regulator, MerR family [Methanococcus maripaludis
          C5]
          Length = 192

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 28/69 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG +I+  R    MS E+L +    +   ++  E G      + +  I+  L   +  F
Sbjct: 6  HVGIKIKQTRERQNMSIEELAKASNSSVNLIESLENGDLVPSLTPIFKIARALGVRLGTF 65

Query: 74 FDVSPTVCS 82
           D +P    
Sbjct: 66 LDDAPQSGP 74


>gi|116753476|ref|YP_842594.1| XRE family transcriptional regulator [Methanosaeta thermophila
          PT]
 gi|116664927|gb|ABK13954.1| transcriptional regulator [Methanosaeta thermophila PT]
          Length = 182

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 30/68 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R +  +S E++   L +  +    YE G   + AS L  I++ L+  +S   
Sbjct: 8  IGSRIRELRELSKISPEEMAGYLKVPLETYCGYESGHLDIPASLLFKIAQRLDVDMSLLL 67

Query: 75 DVSPTVCS 82
                 S
Sbjct: 68 TGQEPKMS 75


>gi|121607724|ref|YP_995531.1| anaerobic benzoate catabolism transcriptional regulator
           [Verminephrobacter eiseniae EF01-2]
 gi|121552364|gb|ABM56513.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Verminephrobacter eiseniae EF01-2]
          Length = 315

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/119 (15%), Positives = 49/119 (41%), Gaps = 16/119 (13%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
             +  NP+ + +G+R+R  R   G++++ +    GI+ + +   E G        LQ ++
Sbjct: 23  TDEAKNPLLVALGERVRKLRAQRGLTRKAVALAAGISERHLANLEYGTGNASILVLQQVA 82

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
             L   ++        +  D ++      +++   + L+         + ++R+  + L
Sbjct: 83  GALHCSLA-------ELQGDFTTRSP---EWLLIRELLE------HRSEPQLRRARLAL 125


>gi|108757722|ref|YP_635287.1| DNA-binding protein [Myxococcus xanthus DK 1622]
 gi|108461602|gb|ABF86787.1| DNA-binding protein [Myxococcus xanthus DK 1622]
          Length = 117

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/99 (20%), Positives = 40/99 (40%), Gaps = 3/99 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
              G  +R  R    ++QE L E   ++   +++ E+G        L  +S+ L+  +  
Sbjct: 16  RRFGDHVRKLRTARELTQEALAERSDLSVDAIRRIERGSFSPSLDTLGKLSKGLDVSLKT 75

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
            F       S+  +E   + DF+S   G ++   +  I 
Sbjct: 76  LFQGFERERSNAVAE---ICDFLSLRSGREVELAWRVIQ 111


>gi|66394931|ref|YP_239763.1| ORF079 [Staphylococcus phage 85]
 gi|62635860|gb|AAX90971.1| ORF079 [Staphylococcus phage 85]
          Length = 69

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/54 (20%), Positives = 30/54 (55%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ R    M+Q+ + + LG+T Q V ++EK    +   +L  ++++  + + +
Sbjct: 10 VKVWRTNSNMTQQDVADKLGVTKQSVIRWEKDSTELKGLQLYALAKLFNTEVDY 63


>gi|50955531|ref|YP_062819.1| hypothetical protein Lxx19990 [Leifsonia xyli subsp. xyli str.
           CTCB07]
 gi|50952013|gb|AAT89714.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str.
           CTCB07]
          Length = 116

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/88 (19%), Positives = 32/88 (36%), Gaps = 1/88 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+RIR  R+ +GMSQE +     +      + E+G        +  ++  L+   +    
Sbjct: 13  GQRIRQARLAIGMSQEDIANLAAMHVTNYGRVERGEANSELHTIVRLATALDVDPAGLVQ 72

Query: 76  VSPTVCSDISSEENN-VMDFISTPDGLQ 102
                      E    V DF+   +  +
Sbjct: 73  GLYGDGMLPDREHAYSVTDFLEAREAAE 100


>gi|49481669|ref|YP_039048.1| DNA-binding protein [Bacillus thuringiensis serovar konkukian
          str. 97-27]
 gi|52140498|ref|YP_086329.1| DNA-binding protein [Bacillus cereus E33L]
 gi|196040491|ref|ZP_03107791.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|196047511|ref|ZP_03114721.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|225867013|ref|YP_002752391.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|301056519|ref|YP_003794730.1| DNA-binding helix-turn helix protein [Bacillus anthracis CI]
 gi|49333225|gb|AAT63871.1| DNA-binding protein [Bacillus thuringiensis serovar konkukian
          str. 97-27]
 gi|51973967|gb|AAU15517.1| DNA-binding protein [Bacillus cereus E33L]
 gi|196021625|gb|EDX60322.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|196028623|gb|EDX67230.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|225787723|gb|ACO27940.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|300378688|gb|ADK07592.1| DNA-binding helix-turn helix protein [Bacillus cereus biovar
          anthracis str. CI]
          Length = 73

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R    +SQ  LG+ +G + Q +   E+G           I+++   P+   F
Sbjct: 5  NRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAQIFNVPVEEIF 62


>gi|332157993|ref|YP_004423272.1| hypothetical protein PNA2_0351 [Pyrococcus sp. NA2]
 gi|331033456|gb|AEC51268.1| hypothetical protein PNA2_0351 [Pyrococcus sp. NA2]
          Length = 192

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 3/60 (5%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          IP P+D    + I+  R  LG++QE+L    G+T   + K E G      S    I   L
Sbjct: 4  IPKPIDP---RDIKKIRKALGITQEELARKAGVTQAYIAKLEAGKVDPRLSTFNRILRAL 60


>gi|330830146|ref|YP_004393098.1| phage transcriptional protein [Aeromonas veronii B565]
 gi|328805282|gb|AEB50481.1| Phage transcriptional protein [Aeromonas veronii B565]
          Length = 86

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 2/75 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M       N ++ +  KR+R  R  L +S+ K  + LGI    ++ YE G   +G     
Sbjct: 1  MTAQPTQINLLNHHAAKRLRQLREQLKLSRPKFADLLGIPPTTLKNYELGYREIGGGLFL 60

Query: 61 HISEV--LESPISFF 73
           I+    L+  I + 
Sbjct: 61 LIANHPELKRHIDWL 75


>gi|326384142|ref|ZP_08205824.1| helix-turn-helix domain-containing protein [Gordonia
          neofelifaecis NRRL B-59395]
 gi|326197007|gb|EGD54199.1| helix-turn-helix domain-containing protein [Gordonia
          neofelifaecis NRRL B-59395]
          Length = 90

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI + R    MS+ +L + + +  Q V   E+G N         I +V   P+   F
Sbjct: 14 NRISVLRAERKMSRAQLADLVDVNVQSVGALERGDNYPSLDLAFRICDVFGLPVEAVF 71


>gi|325679705|ref|ZP_08159279.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324108520|gb|EGC02762.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 73

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RIR  R    +SQ+K+ +   +T QQ Q YE G   +       +++  +  + + 
Sbjct: 5  QRIRDLREDNDLSQQKVADYPEVTRQQYQLYECGKREMPMHLFIKLADFYKVSLDYL 61


>gi|312197902|ref|YP_004017963.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
 gi|311229238|gb|ADP82093.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
          Length = 197

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 25/55 (45%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +  V + +R  R    +S  +L    G++ Q + K E+G        ++ I++ L
Sbjct: 5  NKLVARNVRRFREERKLSLGELARRSGLSKQTLSKIEQGTGNPTIDSIEAIADAL 59


>gi|260551353|ref|ZP_05825553.1| DNA-binding helix-turn-helix protein [Acinetobacter sp. RUH2624]
 gi|332852788|ref|ZP_08434380.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
           6013150]
 gi|332871017|ref|ZP_08439630.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
           6013113]
 gi|260405516|gb|EEW99008.1| DNA-binding helix-turn-helix protein [Acinetobacter sp. RUH2624]
 gi|332728999|gb|EGJ60349.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
           6013150]
 gi|332731777|gb|EGJ63057.1| DNA-binding helix-turn-helix protein [Acinetobacter baumannii
           6013113]
          Length = 359

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/116 (16%), Positives = 43/116 (37%), Gaps = 10/116 (8%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +R+ R   G  Q  L +   ++   + K E G+       + ++++VL  P+S F++   
Sbjct: 11  LRIVRQFRGFGQTALAKMASLSQGTLSKIEAGLLEPNEEMVSNLAKVLNFPVSIFYETYK 70

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE---LVRSIVSSEK 131
                +S       +       ++     + I       ++     LV++I   E 
Sbjct: 71  PFGLPLSVHPMYRKNSSIGKRAIEQLEAELNI-------RLFNSMKLVKAIEFEED 119


>gi|302523303|ref|ZP_07275645.1| regulatory protein [Streptomyces sp. SPB78]
 gi|318062276|ref|ZP_07980997.1| regulatory protein [Streptomyces sp. SA3_actG]
 gi|318080822|ref|ZP_07988154.1| regulatory protein [Streptomyces sp. SA3_actF]
 gi|302432198|gb|EFL04014.1| regulatory protein [Streptomyces sp. SPB78]
          Length = 219

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 28/74 (37%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+R+R  R   GM+   L    GI+   + + E G+ R     L  ++      +    
Sbjct: 36  VGERLRGLRKERGMTLAALSTSTGISVSTLSRLESGLRRPTLELLLPLARAHRVALDELV 95

Query: 75  DVSPTVCSDISSEE 88
              P     + +E 
Sbjct: 96  GTRPVADPRVRAEP 109


>gi|237748951|ref|ZP_04579431.1| helix-turn-helix domain-containing protein [Oxalobacter
          formigenes OXCC13]
 gi|229380313|gb|EEO30404.1| helix-turn-helix domain-containing protein [Oxalobacter
          formigenes OXCC13]
          Length = 121

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 30/65 (46%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           K     +   +G+ I  +R   G++QE + E L I  + V + E+G       RL  ++
Sbjct: 2  QKNKEKAIAKAIGRAIAKKRTEKGLTQEDVAEKLNIGNEAVSRIERGTVIPNVVRLVELA 61

Query: 64 EVLES 68
          E+ E 
Sbjct: 62 EIFEC 66


>gi|210612353|ref|ZP_03289278.1| hypothetical protein CLONEX_01479 [Clostridium nexile DSM 1787]
 gi|210151613|gb|EEA82620.1| hypothetical protein CLONEX_01479 [Clostridium nexile DSM 1787]
          Length = 231

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 5/86 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   KK        VG+R++ RR  L ++  +LG+ +G+    +Q+YE   + V   R  
Sbjct: 1  MKTLKKEITFTAKQVGERVKERRTELNLTMPELGKRVGVNKSTIQRYE--ADGVDPKRTM 58

Query: 61 HI---SEVLESPISFFFDVSPTVCSD 83
           I   +E L +   +   +S     D
Sbjct: 59 IINGLAEALLTTPEWLTGLSEDKEYD 84


>gi|18071275|ref|NP_542320.1| hypothetical protein PBC5p60 [Sinorhizobium phage PBC5]
 gi|17940381|gb|AAL49625.1|AF448724_62 unknown [Sinorhizobium phage PBC5]
          Length = 170

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/97 (19%), Positives = 33/97 (34%), Gaps = 3/97 (3%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+  R    M+QE+L   +G     V + E G      + L+ ++ VL+   +    V+P
Sbjct: 51  IKEWRKHRRMTQEQLASAVGSAVSSVSQLESGKQGYSQATLEALAVVLQCSPADLLSVNP 110

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                           +S    L   R        +V
Sbjct: 111 IEGLPDEQPREEARSLLSL---LDNLRNLANAHPERV 144


>gi|15675874|ref|NP_270048.1| hypothetical protein SPy_2126 [Streptococcus phage 370.4]
 gi|71904454|ref|YP_281257.1| Cro/CI family phage transcriptional regulator [Streptococcus
          pyogenes phage 6180.3]
 gi|94991386|ref|YP_599486.1| Cro/CI family phage transcriptional regulator [Streptococcus
          phage 10270.4]
 gi|13623109|gb|AAK34769.1| conserved hypothetical protein - phage associated [Streptococcus
          phage 370.4]
 gi|71803549|gb|AAX72902.1| phage transcriptional regulator, Cro/CI family [Streptococcus
          pyogenes phage 6180.3]
 gi|94544894|gb|ABF34942.1| phage transcriptional regulator, Cro/CI family [Streptococcus
          phage 10270.4]
          Length = 68

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 26/56 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++  R+  G + +++   +G   Q + KYEK  + +    LQ +S +    I   F
Sbjct: 6  LKAARINAGYTLKQVAGAVGKNPQTISKYEKDSSDISLGLLQKLSSLYGVTIDNLF 61


>gi|85704680|ref|ZP_01035782.1| DNA-binding protein, putative [Roseovarius sp. 217]
 gi|85671088|gb|EAQ25947.1| DNA-binding protein, putative [Roseovarius sp. 217]
          Length = 465

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/142 (12%), Positives = 55/142 (38%), Gaps = 25/142 (17%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R  LG++Q+     LG++   + + E     +  + +  +++        
Sbjct: 6   LYAGAKLRETRQRLGLTQKDFAGKLGVSLPYLNQMENNNRPLSTTVVLALAQEFG----- 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP-----------------DGLQLNRYFIQIDDV-- 113
            FDV+     D     +++ + ++ P                 +   L R F+++     
Sbjct: 61  -FDVTELSTGDAERMVSDMREALADPVFGDDPPPLADLRLTASNAPALARAFLELHSAYR 119

Query: 114 KVRQKIIELVRSIVSSEKKYRT 135
           +  +++  L  ++   + + ++
Sbjct: 120 QTHERLASLDEALGREDARSQS 141


>gi|326574451|gb|EGE24393.1| peptidase S24-like protein [Moraxella catarrhalis 101P30B1]
          Length = 233

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 9/64 (14%), Positives = 28/64 (43%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           R++  R   G++Q+++ E + G++     + E G ++   +R   ++ +    + +   
Sbjct: 5  NRLKHARKAKGLTQKQVTEQIKGLSQSAYSQLESGKSK-STTRAVELAHLFGVDVHWLIS 63

Query: 76 VSPT 79
              
Sbjct: 64 GEGE 67


>gi|258545393|ref|ZP_05705627.1| S24 (LexA) family peptidase [Cardiobacterium hominis ATCC 15826]
 gi|258519362|gb|EEV88221.1| S24 (LexA) family peptidase [Cardiobacterium hominis ATCC 15826]
          Length = 284

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/48 (33%), Positives = 33/48 (68%), Gaps = 1/48 (2%)

Query: 13 INVGKRIRLRRMILGMS-QEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          +++GKR+  +R + G S QE+LG+ LG++F  + ++EK  + + + +L
Sbjct: 1  MSIGKRLLEQRKLAGYSSQEQLGDALGVSFTTIARWEKDQSPIPSDKL 48


>gi|258406011|ref|YP_003198753.1| transcriptional regulator, XRE family [Desulfohalobium retbaense
           DSM 5692]
 gi|257798238|gb|ACV69175.1| transcriptional regulator, XRE family [Desulfohalobium retbaense
           DSM 5692]
          Length = 117

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 25/55 (45%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +R  R   G++Q +L E  GI    +   E G   +G  R + ++EVL      F
Sbjct: 62  LRGARNKEGLTQVELAEKTGIPQSHISSMENGKKEIGKERAKRLAEVLNIDYRVF 116


>gi|225863642|ref|YP_002749020.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|225789107|gb|ACO29324.1| DNA-binding protein [Bacillus cereus 03BB102]
          Length = 403

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDDEMVEL 72


>gi|283798851|ref|ZP_06348004.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
 gi|291073389|gb|EFE10753.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
          Length = 176

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI   R++ GM+Q+ LG  +G   +    ++ +YE G  +  A     +++ L+ 
Sbjct: 1  MAIGERIHFFRLLRGMTQKYLGTIVGFPERSADVRLAQYETGTRKPKAELTAALAQALDV 60

Query: 69 PI 70
            
Sbjct: 61 SP 62


>gi|224823540|ref|ZP_03696649.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
 gi|224603995|gb|EEG10169.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
          Length = 205

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/81 (16%), Positives = 34/81 (41%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + V   V  +++  R    +S ++L    G++   + + EK +     + L  I+  L  
Sbjct: 16 HSVSQAVAAKLKQHRKKQKLSLDELSRRAGVSKGMLVEIEKCIANPSIAILCKIAAALGV 75

Query: 69 PISFFFDVSPTVCSDISSEEN 89
           ++   DV+    + +   ++
Sbjct: 76 SVADIVDVASAPAARLIEGQD 96


>gi|186473323|ref|YP_001860665.1| XRE family transcriptional regulator [Burkholderia phymatum STM815]
 gi|184195655|gb|ACC73619.1| transcriptional regulator, XRE family [Burkholderia phymatum
           STM815]
          Length = 189

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/115 (17%), Positives = 43/115 (37%), Gaps = 10/115 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G +IR  R  L  + ++     GI+   + + E+G+     + L  I+  L   + +F 
Sbjct: 13  LGSKIRALRQRLKRTLDETATAAGISKPFLSQVERGLASPSITSLAGIANALGVKVQYFV 72

Query: 75  DVSPTVCSDISSEENNVMDFIST----------PDGLQLNRYFIQIDDVKVRQKI 119
           D      +   + E     F  +            G QL    +++   + R ++
Sbjct: 73  DTPSEERTVCRANELKFFGFADSANLFARMTNLSGGRQLEAILVRMPPGQKRSEV 127


>gi|190015751|ref|YP_001967756.1| probable transcriptional regulator [Clostridium perfringens]
 gi|86450173|gb|ABC96282.1| probable transcriptional regulator [Clostridium perfringens]
          Length = 344

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/109 (19%), Positives = 44/109 (40%), Gaps = 4/109 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV- 76
            I+  R    +SQ +L E LG+    +  YE+         L  +S+++   I     + 
Sbjct: 12  NIKEFRKKNKLSQAELAEKLGVARTTIGYYERAEVEPNIYTLVQLSKLMNRSIDSLLGLN 71

Query: 77  -SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR--QKIIEL 122
                 +D+++ + +   FI      +  + F  ++  K+R  +   EL
Sbjct: 72  HPNETTNDLNNSDLSKKIFILNKLIEKNTQSFNDLETSKLRTERMFNEL 120


>gi|319651076|ref|ZP_08005210.1| hypothetical protein HMPREF1013_01821 [Bacillus sp. 2_A_57_CT2]
 gi|317397246|gb|EFV77950.1| hypothetical protein HMPREF1013_01821 [Bacillus sp. 2_A_57_CT2]
          Length = 117

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/102 (22%), Positives = 46/102 (45%), Gaps = 2/102 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             VG  IR  R    ++QE+L E  G+ +  +   E+G   +    L+ I   L+   S 
Sbjct: 9   KLVGSNIRELRKQKKLTQEELAELSGLQYSFLAGVERGERNITLQTLEKIIVGLKETPSR 68

Query: 73  FFDVSPTVCSDISSEEN--NVMDFISTPDGLQLNRYFIQIDD 112
            FD S    ++ S +E   ++++ +   +  ++  ++  I D
Sbjct: 69  LFDFSKLDDNNFSKQEVLISIVNILEKHEDKEVKLFYRMIKD 110


>gi|312868344|ref|ZP_07728544.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
 gi|311096089|gb|EFQ54333.1| DNA-binding helix-turn-helix protein [Streptococcus parasanguinis
          F0405]
          Length = 64

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++++ R+   M+Q  L + +G+T Q +   E G      S    I + L+  +   F
Sbjct: 6  KLKMARVEHDMTQGDLADAIGVTRQTIGLIEAGKYNPTLSLCLAICKTLDKTLDQLF 62


>gi|307689851|ref|ZP_07632297.1| transcriptional regulator, XRE family protein [Clostridium
          cellulovorans 743B]
          Length = 63

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +++  R  L ++Q++L + LG+T Q +   E             +S  L       F
Sbjct: 3  NKVKEFRKQLKLTQDELAQELGVTRQTINAIENNKYNPTLELALKMSRFLGVSTESLF 60


>gi|296328537|ref|ZP_06871056.1| XRE family transcriptional regulator [Fusobacterium nucleatum
          subsp. nucleatum ATCC 23726]
 gi|296154346|gb|EFG95145.1| XRE family transcriptional regulator [Fusobacterium nucleatum
          subsp. nucleatum ATCC 23726]
          Length = 94

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 1/65 (1%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N K P  + + + K IR RR  L ++QE+  +  G++F  ++++E     +    L  I+
Sbjct: 7  NIKTPKEIQLEIAKNIRKRRKELKLTQEEFSKKSGVSFGSIKRFEN-TGEISLFSLIKIA 65

Query: 64 EVLES 68
           +LE 
Sbjct: 66 IILEC 70


>gi|295102584|emb|CBL00129.1| Helix-turn-helix [Faecalibacterium prausnitzii L2-6]
          Length = 305

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/120 (17%), Positives = 55/120 (45%), Gaps = 12/120 (10%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++ +G+ I+ RR+ LG++QE+L + +      + + E G      +R+  + + L  P  
Sbjct: 3   NVFLGEYIKQRRLDLGLTQEQLCDGI-CEPMTLSRLENGKQTPSRNRINALLQRLGLPDD 61

Query: 72  FFFDVSPTVCSDISSEENNVMDFIST---PDGLQLNRYFIQIDDV--------KVRQKII 120
            +F +      ++ + +  ++   +T   P+G +    F ++ D          +R +++
Sbjct: 62  RYFALLSKNELEMEALQKEIVACNATEKVPEGFEKLAQFEKLADPDDQIAQQFALRSRVL 121


>gi|271966081|ref|YP_003340277.1| hypothetical protein Sros_4684 [Streptosporangium roseum DSM 43021]
 gi|270509256|gb|ACZ87534.1| hypothetical protein Sros_4684 [Streptosporangium roseum DSM 43021]
          Length = 224

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/105 (17%), Positives = 40/105 (38%), Gaps = 5/105 (4%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M      P      +G+RI  RR  LG+ +E+L    GI    +   E+         + 
Sbjct: 1   MAERLNAPGD----LGRRITRRRESLGLDREQLANRAGIAPAYLAYVEQRAAAPAIETIN 56

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEE-NNVMDFISTPDGLQLN 104
            ++  L++  +     +  +     +   +  ++ + T + L+L 
Sbjct: 57  RLACALDTSTAELLGGTIDLPPGRGTAARHPELEKLDTKECLRLI 101


>gi|255282865|ref|ZP_05347420.1| putative helix-turn-helix protein [Bryantella formatexigens DSM
           14469]
 gi|255266639|gb|EET59844.1| putative helix-turn-helix protein [Bryantella formatexigens DSM
           14469]
          Length = 212

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 28/61 (45%), Gaps = 3/61 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE---KGVNRVGASRLQHISEVLESPISFFF 74
            ++  R   G +Q +L E  G++ + +Q YE   K +N+  A  +  ++  L   +    
Sbjct: 151 NLKRIRTAYGFTQAELAERSGVSLRSIQMYEQRNKNINKASADSMYSLARALGCTMEDLI 210

Query: 75  D 75
           +
Sbjct: 211 E 211


>gi|219855694|ref|YP_002472816.1| hypothetical protein CKR_2351 [Clostridium kluyveri NBRC 12016]
 gi|219569418|dbj|BAH07402.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 66

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+  R  LG++QE+L +  G+  Q +   E             +S+ L+  +   F
Sbjct: 6  NKIKTIRNKLGITQEQLAKKCGVVRQTINCIENDKYDPTLELAFKLSKTLKVKVDELF 63


>gi|206578107|ref|YP_002238269.1| DNA-binding protein [Klebsiella pneumoniae 342]
 gi|288935257|ref|YP_003439316.1| XRE family transcriptional regulator [Klebsiella variicola At-22]
 gi|290509310|ref|ZP_06548681.1| DNA-binding protein [Klebsiella sp. 1_1_55]
 gi|206567165|gb|ACI08941.1| DNA-binding protein [Klebsiella pneumoniae 342]
 gi|288889966|gb|ADC58284.1| transcriptional regulator, XRE family [Klebsiella variicola
          At-22]
 gi|289778704|gb|EFD86701.1| DNA-binding protein [Klebsiella sp. 1_1_55]
          Length = 193

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 29/65 (44%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + ++  +  RIR+ R   G S   L E  G +   + K E+G +   AS L  +S   
Sbjct: 4  IEDNLNQRISARIRIERESRGWSLNDLAERAGASRAMIHKIERGESSPTASMLGRLSGAF 63

Query: 67 ESPIS 71
             +S
Sbjct: 64 GISMS 68


>gi|188591670|ref|YP_001796269.1| hypothetical protein pRALTA_0436 [Cupriavidus taiwanensis]
 gi|170939065|emb|CAP64081.1| Conserved hypothetical protein [Cupriavidus taiwanensis LMG 19424]
          Length = 195

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 39/101 (38%), Gaps = 4/101 (3%)

Query: 2   VGNKKIPNPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
             +    +PVD    +  R+R+ R   G S  +L E  G++   + K E+G     A+ L
Sbjct: 4   TSSSSTRSPVDPTGAISARVRIERESRGWSMGELAERAGVSKAMISKIERGEASPTATVL 63

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
             +S      +S    ++    + +    +      + P+ 
Sbjct: 64  GRLSGAFGLQLSMLLALAEQFGNRLCRAAD--QQVWTDPET 102


>gi|90410131|ref|ZP_01218148.1| Hypothetical transcriptional regulator [Photobacterium profundum
          3TCK]
 gi|90329484|gb|EAS45741.1| Hypothetical transcriptional regulator [Photobacterium profundum
          3TCK]
          Length = 99

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 26/62 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I+  R    ++Q  + + L ++ Q     E G        L  I+ V    I F
Sbjct: 3  LLISEKIKTARTSRDITQVDMAKKLNLSRQTYLNLETGKTSPRCDMLLDIANVTGYEIGF 62

Query: 73 FF 74
          F+
Sbjct: 63 FY 64


>gi|322390898|ref|ZP_08064406.1| hypothetical protein HMPREF8577_1876 [Streptococcus parasanguinis
          ATCC 903]
 gi|321142411|gb|EFX37881.1| hypothetical protein HMPREF8577_1876 [Streptococcus parasanguinis
          ATCC 903]
          Length = 108

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/64 (32%), Positives = 30/64 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            + KRIR+ R   GM+QE+L E   +      K E     +  S L+ I E L   +  
Sbjct: 6  KYISKRIRILRTQSGMTQEQLEEKADLGTNYAYKLENLEPNIKISTLEKIIEALNVDLQT 65

Query: 73 FFDV 76
          FFD+
Sbjct: 66 FFDL 69


>gi|295677026|ref|YP_003605550.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia sp. CCGE1002]
 gi|295436869|gb|ADG16039.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia sp. CCGE1002]
          Length = 332

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 34/162 (20%), Positives = 66/162 (40%), Gaps = 27/162 (16%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G ++  +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ +
Sbjct: 34  GEREERDPFLTAMGERVRLLRARRGMTRKTLAAETGLSERHLANLESGVGNASVLVLRQL 93

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRY-------FIQIDD 112
           +  L  P++        V  D ++       + + +   D   L R        F Q   
Sbjct: 94  AATLNCPLA-------EVIGDETTASAEWLLIRELLQGRDQAALQRARIALAEMFAQAPR 146

Query: 113 VKVRQKIIELV------RS----IVSSEKKYRTIEEECMVEQ 144
              R+  I L+      +S    +++ E+K   IE   ++EQ
Sbjct: 147 DPHRKDRIALIGLRGAGKSTLGRMLAQERKVPFIELTRVIEQ 188


>gi|257868230|ref|ZP_05647883.1| conserved hypothetical protein [Enterococcus casseliflavus EC30]
 gi|257874497|ref|ZP_05654150.1| conserved hypothetical protein [Enterococcus casseliflavus EC10]
 gi|257802344|gb|EEV31216.1| conserved hypothetical protein [Enterococcus casseliflavus EC30]
 gi|257808661|gb|EEV37483.1| conserved hypothetical protein [Enterococcus casseliflavus EC10]
          Length = 176

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 26/59 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  G++I+  R    ++QE+    L +T Q V  +E   N      L  I+ + +  + 
Sbjct: 20 MEFGEKIKEVRTRNNLTQEQFATQLHVTRQAVSNWENNRNLPDLEMLIAIATIFQLSLD 78


>gi|225861807|ref|YP_002743316.1| transcriptional activator [Streptococcus pneumoniae Taiwan19F-14]
 gi|298230083|ref|ZP_06963764.1| transcriptional activator [Streptococcus pneumoniae str. Canada
          MDR_19F]
 gi|298255252|ref|ZP_06978838.1| transcriptional activator [Streptococcus pneumoniae str. Canada
          MDR_19A]
 gi|298503760|ref|YP_003725700.1| transcriptional regulator PlcR [Streptococcus pneumoniae
          TCH8431/19A]
 gi|225726713|gb|ACO22564.1| transcriptional activator [Streptococcus pneumoniae Taiwan19F-14]
 gi|298239355|gb|ADI70486.1| transcriptional regulator PlcR [Streptococcus pneumoniae
          TCH8431/19A]
 gi|327389153|gb|EGE87499.1| transcriptional activator [Streptococcus pneumoniae GA04375]
          Length = 299

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 33/68 (48%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVPVY 60

Query: 72 FFFDVSPT 79
                  
Sbjct: 61 SLMPDFSA 68


>gi|167582978|ref|ZP_02375852.1| possible transcriptional regulator, XRE family protein
          [Burkholderia thailandensis TXDOH]
          Length = 115

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 32/86 (37%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
            +   P P+ I +GKRI+  R     SQE L     +    +   E+G+       L +
Sbjct: 13 TSSAARPAPISIALGKRIKQCRHEADKSQETLAFEAHVDRTYISAIERGIANPSVETLAN 72

Query: 62 ISEVLESPISFFFDVSPTVCSDISSE 87
          I   L   ++  F     V    + E
Sbjct: 73 ICYSLNVTLAELFAPLDGVSLKPTGE 98


>gi|329888684|ref|ZP_08267282.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
 gi|328847240|gb|EGF96802.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
          Length = 65

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+++ R     SQ  L + LG++ Q V   E G           I+ + + PI   F
Sbjct: 3  NRLKVLRAERDWSQAHLADELGVSRQTVNALETGRYDPSLPLAFKIARLFQMPIESIF 60


>gi|327439443|dbj|BAK15808.1| hypothetical protein SSIL_1385 [Solibacillus silvestris StLB046]
          Length = 71

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/49 (32%), Positives = 27/49 (55%)

Query: 27 GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GMSQ++L   LG+T QQ+ KY K    +      ++S +L   +S  ++
Sbjct: 18 GMSQQELALRLGVTRQQINKYNKNRAVMSYQVAYNVSVILGCSMSELYE 66


>gi|315149635|gb|EFT93651.1| helix-turn-helix protein [Enterococcus faecalis TX0012]
 gi|315171777|gb|EFU15794.1| helix-turn-helix protein [Enterococcus faecalis TX1342]
          Length = 232

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 6  KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 65

Query: 72 FF 73
          + 
Sbjct: 66 WL 67


>gi|300936711|ref|ZP_07151612.1| helix-turn-helix protein [Escherichia coli MS 21-1]
 gi|300458170|gb|EFK21663.1| helix-turn-helix protein [Escherichia coli MS 21-1]
          Length = 133

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/105 (23%), Positives = 43/105 (40%), Gaps = 5/105 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI       G SQ +L   +G+T Q VQ++  G     AS L  + EV   P+ +F  + 
Sbjct: 11  RISKLLQETGWSQAELARRIGVTQQTVQQWVSGKATPKASSLDKLVEVTGHPLHWFL-LP 69

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           P     I + +   +     P   +L + F    +    + + E+
Sbjct: 70  PEEGEQIFTPDTMKIG----PRQRELLQAFSAFPEEDQEKMLQEI 110


>gi|300694677|ref|YP_003750650.1| phage regulatory protein [Ralstonia solanacearum PSI07]
 gi|299076714|emb|CBJ36054.1| putative phage regulatory protein [Ralstonia solanacearum PSI07]
          Length = 118

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/45 (37%), Positives = 26/45 (57%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
            +G+R+   R   G++Q++L E LGI  Q +  YE G  R+ AS
Sbjct: 10 KELGERVAEARKAHGLTQQQLAEALGIAQQTLAHYEVGRARLPAS 54


>gi|296452644|ref|ZP_06894337.1| DNA-binding protein [Clostridium difficile NAP08]
 gi|296880944|ref|ZP_06904891.1| DNA-binding protein [Clostridium difficile NAP07]
 gi|296258525|gb|EFH05427.1| DNA-binding protein [Clostridium difficile NAP08]
 gi|296428057|gb|EFH13957.1| DNA-binding protein [Clostridium difficile NAP07]
          Length = 364

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/134 (17%), Positives = 55/134 (41%), Gaps = 25/134 (18%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+ K + L+R   G++Q++L   +G++   V K+E G + +  + L  ++      +  
Sbjct: 4   LNIAKTLILKRKEKGITQDELANYIGVSKASVSKWETGQSYLDITFLPQLATYFNITVDE 63

Query: 73  FFDVSPTVCSDISSEENNVM--DFISTP------DGLQLNRYFIQ--------------- 109
                P +  +  ++  N +  DF + P      +  ++ + +                 
Sbjct: 64  LICYEPQMMKEDINKLYNKLCKDFTAKPFDEVMIEIREIIKRYYSCFPLIFRMGLLIVNH 123

Query: 110 --IDDVKVRQKIIE 121
             I D K R+ +I+
Sbjct: 124 YDIVDEKKRELLID 137


>gi|296393236|ref|YP_003658120.1| XRE family transcriptional regulator [Segniliparus rotundus DSM
          44985]
 gi|296180383|gb|ADG97289.1| transcriptional regulator, XRE family [Segniliparus rotundus DSM
          44985]
          Length = 258

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 30/75 (40%), Gaps = 6/75 (8%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D+ +GKRI+  R   G++Q +L          I  Q + K E G   +       I++ L
Sbjct: 8  DLAIGKRIQALRNERGLTQGQLAAEASKHGDLIYQQTIAKIETGNRGLKFEEGIAIAKAL 67

Query: 67 ES-PISFFFDVSPTV 80
             P+    + S   
Sbjct: 68 NVDPVDLLSEESIEE 82


>gi|296104791|ref|YP_003614937.1| hypothetical protein ECL_04459 [Enterobacter cloacae subsp. cloacae
           ATCC 13047]
 gi|295059250|gb|ADF63988.1| hypothetical protein ECL_04459 [Enterobacter cloacae subsp. cloacae
           ATCC 13047]
          Length = 200

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/102 (17%), Positives = 35/102 (34%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M         V + V  RIR  R    +S ++L     ++   + + EKG      + L 
Sbjct: 8   MTEQGADIAQVSLAVANRIRNWRKEKKLSLDELSRRASVSKGMLVEIEKGAANPSIAILC 67

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            ++  L   ++   +VS      +  E    + +     G  
Sbjct: 68  KLAAALGISVADIVNVSSEPLVHVIEEAAIPVLWQGEKGGRA 109


>gi|317127466|ref|YP_004093748.1| helix-turn-helix domain protein [Bacillus cellulosilyticus DSM
           2522]
 gi|315472414|gb|ADU29017.1| helix-turn-helix domain protein [Bacillus cellulosilyticus DSM
           2522]
          Length = 429

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/102 (20%), Positives = 40/102 (39%), Gaps = 14/102 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G+R++  R    +SQ  + E +  +       E G        L  +SE L  P ++
Sbjct: 1   MHIGERLKRLRNNNNISQISVCEGI-TSPSHYSNIESGRYEPSEDILVQLSERLHVPAAY 59

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDG-----LQLNRYFIQ 109
                     ++  E   +   +ST DG     L L   F++
Sbjct: 60  LL--------NVYDESQKIKKLLSTMDGLLEKDLSLVENFLK 93


>gi|269793680|ref|YP_003313135.1| transcriptional regulator [Sanguibacter keddieii DSM 10542]
 gi|269095865|gb|ACZ20301.1| predicted transcriptional regulator [Sanguibacter keddieii DSM
          10542]
          Length = 190

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 33/81 (40%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  V +RIR  R+  G + + L     ++   + + E G  R+   +L  I++ L + +
Sbjct: 6  LDDIVRQRIRGLRLARGWTLDALASRCFLSASTLSRIETGHRRIALDQLVPIAQALGTTL 65

Query: 71 SFFFDVSPTVCSDISSEENNV 91
              +        I  E   +
Sbjct: 66 DQLVEPEDDEDVVIRPEPETM 86


>gi|256027821|ref|ZP_05441655.1| phage-like protein [Fusobacterium sp. D11]
 gi|289765774|ref|ZP_06525152.1| conserved hypothetical protein [Fusobacterium sp. D11]
 gi|289717329|gb|EFD81341.1| conserved hypothetical protein [Fusobacterium sp. D11]
          Length = 118

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 42/76 (55%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++++L+R  L +SQE+L E +   +   + K E G+  +  S+++ ++ VL++  +
Sbjct: 1  MTLGEKVKLKREELNLSQEELAEKMNYKSKTSIHKIEVGITDLPLSKVKELAAVLKTTPA 60

Query: 72 FFFDVSPTVCSDISSE 87
          +          + +++
Sbjct: 61 YLMGWEEKPNEEETTK 76


>gi|227356056|ref|ZP_03840447.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
 gi|227163833|gb|EEI48741.1| transcriptional regulator [Proteus mirabilis ATCC 29906]
          Length = 187

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 25/71 (35%), Gaps = 3/71 (4%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M+ +   P  +   + + I   R   G+S  ++    GI    + + E G        L 
Sbjct: 1  MMSSPSAPIEI---ISQSIARERKKAGLSLAEIARRAGIAKSTLSQLEAGQGNPSIETLW 57

Query: 61 HISEVLESPIS 71
           I   L  P S
Sbjct: 58 AICVALNIPFS 68


>gi|167464988|ref|ZP_02330077.1| transcriptional regulator, XRE family protein [Paenibacillus larvae
           subsp. larvae BRL-230010]
          Length = 136

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 22/119 (18%), Positives = 50/119 (42%), Gaps = 9/119 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ GK +   R   G+SQ ++ E LGI   +   +E  + +     L  ++E       +
Sbjct: 1   MSFGKTLIQLRESKGLSQYEVAEKLGIKRARYNSWENEIAKPRHDMLHKLAEFYNVSPDY 60

Query: 73  F--FDVSPTVCS--DISSEENNVMDFISTPDGLQLNRYFIQID-DVKVRQKIIELVRSI 126
              ++           + ++ ++   +  PD L    Y+  I+   + R K+I +V ++
Sbjct: 61  LLGYEKEKEAVPSWATTKDKRDLKKMLEDPDVL----YYDGIEFSPEDRAKMIGIVEAV 115


>gi|170743046|ref|YP_001771701.1| XRE family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168197320|gb|ACA19267.1| transcriptional regulator, XRE family [Methylobacterium sp. 4-46]
          Length = 206

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/113 (18%), Positives = 43/113 (38%), Gaps = 14/113 (12%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +GK I+  R    +S  +L E  G+    + + E+       + +  +S+ L+  I   
Sbjct: 23  QLGKTIQRLRKAYNLSLSELAEQSGVAKSIISQIERNETNPTLATIWRLSQALDVSI--- 79

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                      + +E   ++  S  D   L       +D KVR  I   ++++
Sbjct: 80  ------ERVLATGDEEPFIEKSSRADTPILVS-----EDGKVRLAITGWIKTV 121


>gi|254976707|ref|ZP_05273179.1| putative transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255094090|ref|ZP_05323568.1| putative transcriptional regulator [Clostridium difficile CIP
          107932]
 gi|255315841|ref|ZP_05357424.1| putative transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255518503|ref|ZP_05386179.1| putative transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255651622|ref|ZP_05398524.1| putative transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|306521425|ref|ZP_07407772.1| putative transcriptional regulator [Clostridium difficile
          QCD-32g58]
          Length = 70

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 26/62 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I+  R  L M+Q +L + +G+  + +   E G           I++V  + +   F+  
Sbjct: 8  KIKEYREKLLMTQNELAKSVGVRRETIVHLENGKYNPSLKLAMDIAKVFGTTVENLFEFI 67

Query: 78 PT 79
            
Sbjct: 68 EE 69


>gi|332523396|ref|ZP_08399648.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
          Jelinkova 176]
 gi|332314660|gb|EGJ27645.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
          Jelinkova 176]
          Length = 113

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 24/74 (32%), Positives = 36/74 (48%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + KRIRL R+  G++QE+L E   +    V K E     V    L+ + + LE     F
Sbjct: 9  YISKRIRLLRLNKGLTQEQLEEKADLGTNYVYKLENQSTNVKVKTLEKVMKALEVDFEEF 68

Query: 74 FDVSPTVCSDISSE 87
          FD+S    ++  SE
Sbjct: 69 FDISLVEKNEDLSE 82


>gi|332297016|ref|YP_004438938.1| helix-turn-helix domain protein [Treponema brennaborense DSM 12168]
 gi|332180119|gb|AEE15807.1| helix-turn-helix domain protein [Treponema brennaborense DSM 12168]
          Length = 100

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/95 (17%), Positives = 38/95 (40%), Gaps = 10/95 (10%)

Query: 12  DINVG--KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           D ++   + ++  R   G SQ +  E   ++   +   E G  +     +  ++ VLE P
Sbjct: 3   DYHIQFIRNLKFFRKQKGFSQSEFAERCDVSNGTIGNIECGAAKPSFDLILVMAAVLEIP 62

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            +  F       +D ++E+    + +S  +   L 
Sbjct: 63  PARLF-------ADPAAEKEPAAEILS-HEAKALV 89


>gi|330890951|gb|EGH23612.1| DNA-binding protein [Pseudomonas syringae pv. mori str. 301020]
          Length = 182

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 45/97 (46%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGGRLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  +  P   + +  + + ++D       ++L 
Sbjct: 58  MVEFFSEETVPENAAQVVYKASELIDISDGAVTMKLV 94


>gi|325960175|ref|YP_004291641.1| cupin 2 barrel domain-containing protein [Methanobacterium sp.
          AL-21]
 gi|325331607|gb|ADZ10669.1| Cupin 2 conserved barrel domain protein [Methanobacterium sp.
          AL-21]
          Length = 184

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 32/67 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I + +R++  R +  +  E +   LG+  +  + YE+G   + AS L  I+++L+  +  
Sbjct: 6  IEIAQRVKELRELSDIETEDIAASLGVPIETYRNYEEGKLDIPASVLYEIAQILKVDMGL 65

Query: 73 FFDVSPT 79
                T
Sbjct: 66 LLTGEET 72


>gi|302037924|ref|YP_003798246.1| hTh-type transcriptional regulator [Candidatus Nitrospira
          defluvii]
 gi|300605988|emb|CBK42321.1| HTH-type transcriptional regulator [Candidatus Nitrospira
          defluvii]
          Length = 89

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++VG+ +R+ R + G++Q +L     I+   +   E     +G  R + ++ VL+   +
Sbjct: 16 VSVGESVRIVRELQGLTQSELARRTKISQSTISAIENDTINLGVERAKTLARVLQCHPA 74


>gi|302384441|ref|YP_003820264.1| XRE family transcriptional regulator [Brevundimonas subvibrioides
          ATCC 15264]
 gi|302195069|gb|ADL02641.1| transcriptional regulator, XRE family [Brevundimonas
          subvibrioides ATCC 15264]
          Length = 72

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 24/59 (40%), Gaps = 1/59 (1%)

Query: 17 KRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RIR  R   G M+Q  L   +G+T Q +   E+G           I+ V    I+  F
Sbjct: 10 NRIRELRFHAGEMTQADLAARIGMTRQTIVAMEQGKYSPSLEAAFRIAAVFGVEITAVF 68


>gi|266620403|ref|ZP_06113338.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium hathewayi DSM 13479]
 gi|288867980|gb|EFD00279.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium hathewayi DSM 13479]
          Length = 115

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 27/67 (40%), Gaps = 1/67 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
           RI   R    + Q  LG+ LG++ Q V K E   +  + +  L  I++       +  +
Sbjct: 4  NRIYSLRRQKKIPQALLGDLLGVSQQTVSKIESQPIPDISSELLCRIADYFGVTADYLME 63

Query: 76 VSPTVCS 82
           S   C 
Sbjct: 64 RSEQSCD 70


>gi|257077759|ref|ZP_05572120.1| predicted protein [Enterococcus faecalis JH1]
 gi|256985789|gb|EEU73091.1| predicted protein [Enterococcus faecalis JH1]
          Length = 268

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
             VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 42  KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 101

Query: 72  FF 73
           + 
Sbjct: 102 WL 103


>gi|239504169|ref|ZP_04663479.1| putative repressor protein from bacteriophage [Acinetobacter
          baumannii AB900]
          Length = 254

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 27/64 (42%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR  R    ++Q +L +  G++   V  +EK      A  L  ++       S+  +
Sbjct: 8  GQRIRALRREKKLTQGELAKIAGVSAPNVTGWEKDAYAPKADPLSKMAAYFGVSTSYITN 67

Query: 76 VSPT 79
             +
Sbjct: 68 GDES 71


>gi|238923145|ref|YP_002936658.1| hypothetical protein EUBREC_0738 [Eubacterium rectale ATCC 33656]
 gi|238874817|gb|ACR74524.1| Hypothetical protein EUBREC_0738 [Eubacterium rectale ATCC 33656]
          Length = 80

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 25/56 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R+R  R     +Q+++ + LG +     +YE+G N +    L  + +       +
Sbjct: 13 QRMRNLREDNDKTQQQIADYLGTSQTMYARYERGANELPIHHLLALCKYYNVSADY 68


>gi|307154063|ref|YP_003889447.1| XRE family transcriptional regulator [Cyanothece sp. PCC 7822]
 gi|306984291|gb|ADN16172.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 7822]
          Length = 82

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          VG+ IR  R  + ++QE+    +G+ F  V ++EKG        L+ I+  L+
Sbjct: 15 VGQLIRALRQEMQLTQEQFAGMVGVVFTTVNRWEKGHANPSPMALKIIAMKLD 67


>gi|153870922|ref|ZP_02000218.1| transcriptional regulator, XRE family protein [Beggiatoa sp. PS]
 gi|152072613|gb|EDN69783.1| transcriptional regulator, XRE family protein [Beggiatoa sp. PS]
          Length = 114

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/85 (17%), Positives = 34/85 (40%), Gaps = 3/85 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  ++  R+   +SQ  L E +G++   +   EKG   V    +   + ++  P     
Sbjct: 22  LGAMLKAARIECHISQADLAERVGVSRYTIGLLEKGNPNVAIGTVFEAATIVGIP---LM 78

Query: 75  DVSPTVCSDISSEENNVMDFISTPD 99
              P   + +S    N++  + +  
Sbjct: 79  GNDPRQLTKLSQAIANLVQILPSKG 103


>gi|152988136|ref|YP_001347819.1| hypothetical protein PSPA7_2452 [Pseudomonas aeruginosa PA7]
 gi|150963294|gb|ABR85319.1| hypothetical protein PSPA7_2452 [Pseudomonas aeruginosa PA7]
          Length = 126

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 40/84 (47%), Gaps = 4/84 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G R++  R+  G SQ++LG  +G+       ++ +YE+  +       Q ++ VL+ P+
Sbjct: 14 LGTRLKAARIRAGYSQKQLGMLVGMDEFSASARMNQYERERHSPNMRTSQQLAMVLQVPM 73

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          ++ +     +   I    +   +F
Sbjct: 74 AYLYCPEDELAELILKVSSLTPEF 97


>gi|134093774|ref|YP_001098849.1| putative transcriptional regulator [Herminiimonas arsenicoxydans]
 gi|133737677|emb|CAL60722.1| putative transcriptional regulator [Herminiimonas arsenicoxydans]
          Length = 78

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 4/68 (5%)

Query: 4  NKKIPNPVDINV----GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           K   +  D+++    G R+R  R  LG+SQE L E  G+    + + E+G   +    L
Sbjct: 2  TKDSKHSDDVSLRQKYGSRLRFAREALGISQEALAEKAGLHRTYIGQVERGERNISIDNL 61

Query: 60 QHISEVLE 67
          + +++ + 
Sbjct: 62 ERLADAVG 69


>gi|325104005|ref|YP_004273659.1| helix-turn-helix domain protein [Pedobacter saltans DSM 12145]
 gi|324972853|gb|ADY51837.1| helix-turn-helix domain protein [Pedobacter saltans DSM 12145]
          Length = 75

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 22/64 (34%), Positives = 36/64 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          INVGKR+   R    ++QEKL E  G+  +Q+ + E+    V  S ++ I++ L+  +S 
Sbjct: 12 INVGKRLMEIREAKNITQEKLQELTGLDIRQIGRIERAETNVSISSIKLIADCLKISVSE 71

Query: 73 FFDV 76
            DV
Sbjct: 72 LLDV 75


>gi|320105393|ref|YP_004180983.1| Cupin 2 barrel domain-containing protein [Terriglobus saanensis
          SP1PR4]
 gi|319923914|gb|ADV80989.1| Cupin 2 conserved barrel domain protein [Terriglobus saanensis
          SP1PR4]
          Length = 233

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 30/66 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R+   M   +LG   G++   + + E G        L  I+ V    +++FF
Sbjct: 28 IGERIKALRLKKSMGLVELGRHTGLSASFLSQLETGRVVPTLRNLARIAMVFSKDLNYFF 87

Query: 75 DVSPTV 80
          +  P  
Sbjct: 88 EPEPRT 93


>gi|304407914|ref|ZP_07389564.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
 gi|304342933|gb|EFM08777.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
          Length = 72

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 1/62 (1%)

Query: 14 NVGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++   IR  R   G M+Q++L + +G+T Q +   EKG           I+ V +  +  
Sbjct: 5  HITSNIRSLRFNHGEMTQQQLADLVGVTRQTIVAIEKGKYSPSLELAFRIARVFKLSLEE 64

Query: 73 FF 74
           F
Sbjct: 65 VF 66


>gi|298292822|ref|YP_003694761.1| XRE family transcriptional regulator [Starkeya novella DSM 506]
 gi|296929333|gb|ADH90142.1| transcriptional regulator, XRE family [Starkeya novella DSM 506]
          Length = 72

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 24/57 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VG+     R    ++QE++ E  G++ Q +   E+G        L  ++  L+  
Sbjct: 5  KLVGRNFARLRQAKDLTQEQVAERSGLSQQYLSGLERGRRNPTIITLYELARALDVS 61


>gi|308071686|ref|YP_003858295.1| hypothetical protein pCB42_p1 [Leuconostoc citreum]
 gi|295913739|dbj|BAJ07252.1| hypothetical protein [Leuconostoc citreum]
          Length = 163

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 6/77 (7%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +   R   G++Q++L +   +T + VQ+ E G + V  S L  I+  L  PIS  FD  
Sbjct: 5  NVSQLRKQHGLTQQELADKSYVTIRTVQRLEAGED-VSLSSLSAIANALSVPISGLFDDI 63

Query: 78 PTVCSDISSEENNVMDF 94
                   +E  ++D+
Sbjct: 64 EQK-----EKEQEILDY 75


>gi|296105700|ref|YP_003617400.1| hypothetical protein lpa_00283 [Legionella pneumophila 2300/99
          Alcoy]
 gi|295647601|gb|ADG23448.1| hypothetical protein lpa_00283 [Legionella pneumophila 2300/99
          Alcoy]
          Length = 81

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 28/66 (42%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K  +P  I +GK IR  R   G SQE       +    + + E+G   +    L  I+ +
Sbjct: 2  KEKHPNLIKIGKLIRDTRKEKGYSQEDFASQAQLGRTYMGRIERGEQNMTIQTLIQIALI 61

Query: 66 LESPIS 71
          L   ++
Sbjct: 62 LGVEVA 67


>gi|294492433|gb|ADE91189.1| putative transcriptional regulator DicA [Escherichia coli IHE3034]
          Length = 125

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/105 (23%), Positives = 43/105 (40%), Gaps = 5/105 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI       G SQ +L   +G+T Q VQ++  G     AS L  + EV   P+ +F  + 
Sbjct: 3   RISKLLQETGWSQAELARRIGVTQQTVQQWVSGKATPKASSLDKLVEVTGHPLHWFL-LP 61

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           P     I + +   +     P   +L + F    +    + + E+
Sbjct: 62  PEEGEQIFTPDTMKIG----PRQRELLQAFSAFPEEDQEKMLQEI 102


>gi|189462857|ref|ZP_03011642.1| hypothetical protein BACCOP_03556 [Bacteroides coprocola DSM
          17136]
 gi|189430473|gb|EDU99457.1| hypothetical protein BACCOP_03556 [Bacteroides coprocola DSM
          17136]
          Length = 105

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G+ I+  R    ++QE+LGE +G+   Q+ K E G + +  S +    + +  
Sbjct: 37 IGEAIKQTREAKNLTQEELGELMGVKRAQISKIESGKS-ITFSTIIRAFKAMGV 89


>gi|163789136|ref|ZP_02183579.1| helix-turn-helix family protein [Flavobacteriales bacterium
          ALC-1]
 gi|159875549|gb|EDP69610.1| helix-turn-helix family protein [Flavobacteriales bacterium
          ALC-1]
          Length = 66

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 30/59 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I++ R IL ++Q+ L + +G++ Q +   E             +SEV   P++ FF +S
Sbjct: 5  IKVERAILSLTQDDLAKKIGVSRQTINSIEANRYVPSTVLALKLSEVFNKPVNEFFKLS 63


>gi|90412517|ref|ZP_01220520.1| hypothetical transcriptional regulator [Photobacterium profundum
          3TCK]
 gi|90326554|gb|EAS42960.1| hypothetical transcriptional regulator [Photobacterium profundum
          3TCK]
          Length = 212

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 33/71 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+    I G+SQ++LGE LG+    + +   G   +    L+ I+E L + I +    
Sbjct: 5  ERIKQLAKIQGISQKQLGESLGLQQGTMSRKLSGKYGIEVRELERIAETLNTSIGYLLTG 64

Query: 77 SPTVCSDISSE 87
               +  ++ 
Sbjct: 65 QIDTGTQATTA 75


>gi|18310430|ref|NP_562364.1| transcriptional regulator [Clostridium perfringens str. 13]
 gi|18145110|dbj|BAB81154.1| probable transcriptional regulator [Clostridium perfringens str.
          13]
          Length = 175

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 32/70 (45%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ ++L     IT  Q+   E G +      L++I+  L + + +  
Sbjct: 6  LGEKIKRRRKELNMTLKELAGE-RITPGQISLVESGRSNPSMDLLEYIAITLNTSVEYLM 64

Query: 75 DVSPTVCSDI 84
          +        I
Sbjct: 65 ETEKIQAEKI 74


>gi|51597909|ref|YP_072100.1| transcriptional regulatory protein [Yersinia pseudotuberculosis
          IP 32953]
 gi|108809407|ref|YP_653323.1| putative transcriptional regulator [Yersinia pestis Antiqua]
 gi|108813719|ref|YP_649486.1| transcriptional regulatory protein [Yersinia pestis Nepal516]
 gi|145597534|ref|YP_001161610.1| transcriptional regulatory protein [Yersinia pestis Pestoides F]
 gi|153997450|ref|ZP_02022550.1| putative transcriptional regulatory protein [Yersinia pestis
          CA88-4125]
 gi|165927582|ref|ZP_02223414.1| DNA-binding protein [Yersinia pestis biovar Orientalis str.
          F1991016]
 gi|165937413|ref|ZP_02225976.1| DNA-binding protein [Yersinia pestis biovar Orientalis str.
          IP275]
 gi|166012119|ref|ZP_02233017.1| DNA-binding protein [Yersinia pestis biovar Antiqua str.
          E1979001]
 gi|166214594|ref|ZP_02240629.1| DNA-binding protein [Yersinia pestis biovar Antiqua str.
          B42003004]
 gi|167420515|ref|ZP_02312268.1| DNA-binding protein [Yersinia pestis biovar Orientalis str.
          MG05-1020]
 gi|167425474|ref|ZP_02317227.1| DNA-binding protein [Yersinia pestis biovar Mediaevalis str.
          K1973002]
 gi|167466471|ref|ZP_02331175.1| putative transcriptional regulatory protein [Yersinia pestis
          FV-1]
 gi|218930622|ref|YP_002348497.1| putative transcriptional regulator [Yersinia pestis CO92]
 gi|229836747|ref|ZP_04456912.1| putative transcriptional regulatory protein [Yersinia pestis
          Pestoides A]
 gi|229839352|ref|ZP_04459511.1| putative transcriptional regulatory protein [Yersinia pestis
          biovar Orientalis str. PEXU2]
 gi|229899916|ref|ZP_04515057.1| putative transcriptional regulatory protein [Yersinia pestis
          biovar Orientalis str. India 195]
 gi|229904228|ref|ZP_04519339.1| putative transcriptional regulatory protein [Yersinia pestis
          Nepal516]
 gi|270488666|ref|ZP_06205740.1| helix-turn-helix containing protein [Yersinia pestis KIM D27]
 gi|294505211|ref|YP_003569273.1| putative transcriptional regulatory protein [Yersinia pestis
          Z176003]
 gi|51591191|emb|CAH22856.1| putative transcriptional regulatory protein [Yersinia
          pseudotuberculosis IP 32953]
 gi|108777367|gb|ABG19886.1| transcriptional regulatory protein [Yersinia pestis Nepal516]
 gi|108781320|gb|ABG15378.1| putative transcriptional regulatory protein [Yersinia pestis
          Antiqua]
 gi|115349233|emb|CAL22200.1| putative transcriptional regulatory protein [Yersinia pestis
          CO92]
 gi|145209230|gb|ABP38637.1| transcriptional regulatory protein [Yersinia pestis Pestoides F]
 gi|149289087|gb|EDM39167.1| putative transcriptional regulatory protein [Yersinia pestis
          CA88-4125]
 gi|165914518|gb|EDR33132.1| DNA-binding protein [Yersinia pestis biovar Orientalis str.
          IP275]
 gi|165920476|gb|EDR37753.1| DNA-binding protein [Yersinia pestis biovar Orientalis str.
          F1991016]
 gi|165988959|gb|EDR41260.1| DNA-binding protein [Yersinia pestis biovar Antiqua str.
          E1979001]
 gi|166204216|gb|EDR48696.1| DNA-binding protein [Yersinia pestis biovar Antiqua str.
          B42003004]
 gi|166961321|gb|EDR57342.1| DNA-binding protein [Yersinia pestis biovar Orientalis str.
          MG05-1020]
 gi|167055488|gb|EDR65281.1| DNA-binding protein [Yersinia pestis biovar Mediaevalis str.
          K1973002]
 gi|229678346|gb|EEO74451.1| putative transcriptional regulatory protein [Yersinia pestis
          Nepal516]
 gi|229687408|gb|EEO79483.1| putative transcriptional regulatory protein [Yersinia pestis
          biovar Orientalis str. India 195]
 gi|229695718|gb|EEO85765.1| putative transcriptional regulatory protein [Yersinia pestis
          biovar Orientalis str. PEXU2]
 gi|229705690|gb|EEO91699.1| putative transcriptional regulatory protein [Yersinia pestis
          Pestoides A]
 gi|262363273|gb|ACY59994.1| putative transcriptional regulatory protein [Yersinia pestis
          D106004]
 gi|262367348|gb|ACY63905.1| putative transcriptional regulatory protein [Yersinia pestis
          D182038]
 gi|270337170|gb|EFA47947.1| helix-turn-helix containing protein [Yersinia pestis KIM D27]
 gi|294355670|gb|ADE66011.1| putative transcriptional regulatory protein [Yersinia pestis
          Z176003]
 gi|320017231|gb|ADW00803.1| putative transcriptional regulatory protein [Yersinia pestis
          biovar Medievalis str. Harbin 35]
          Length = 135

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 34/69 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R++  R     +Q+++   +G+   Q  KYE G++   A +L  ++E+L + I +   
Sbjct: 19 GLRLKELRKQQHKTQKEVATRIGLQLSQYNKYESGMHIPPADKLITLAELLVTSIDYLLL 78

Query: 76 VSPTVCSDI 84
           S    S I
Sbjct: 79 GSSNETSSI 87


>gi|256957267|ref|ZP_05561438.1| predicted protein [Enterococcus faecalis DS5]
 gi|256947763|gb|EEU64395.1| predicted protein [Enterococcus faecalis DS5]
          Length = 269

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
             VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 43  KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 102

Query: 72  FF 73
           + 
Sbjct: 103 WL 104


>gi|255281217|ref|ZP_05345772.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
 gi|255268174|gb|EET61379.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
          Length = 177

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI   R++ GM+Q+ LG  +G   +    ++ +YE G  +  A     +++VLE 
Sbjct: 1  MAIGERIHFFRLLRGMTQKYLGTAVGFPERSADVRLAQYETGSRKPKADLTAALAQVLEV 60

Query: 69 PI 70
            
Sbjct: 61 SP 62


>gi|239630947|ref|ZP_04673978.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|301065269|ref|YP_003787292.1| XRE family transcriptional regulator [Lactobacillus casei str.
          Zhang]
 gi|239527230|gb|EEQ66231.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|300437676|gb|ADK17442.1| Transcriptional regulator, xre family [Lactobacillus casei str.
          Zhang]
          Length = 202

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 29/77 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N  K++   RM   M+Q  L E L ++   V  +E   N      +  I+ + E  +  
Sbjct: 1  MNFSKQLHQIRMAHQMTQANLAEQLHVSRHTVSNWENDRNLPDLEMVTRIARIFEVSLDT 60

Query: 73 FFDVSPTVCSDISSEEN 89
               P +   +  +  
Sbjct: 61 LILDDPKLNEKLIHDSK 77


>gi|218290222|ref|ZP_03494376.1| transcriptional regulator of molybdate metabolism, XRE family
           [Alicyclobacillus acidocaldarius LAA1]
 gi|218239697|gb|EED06888.1| transcriptional regulator of molybdate metabolism, XRE family
           [Alicyclobacillus acidocaldarius LAA1]
          Length = 382

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/67 (19%), Positives = 29/67 (43%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           ++  R + G+++ +L   +GIT Q +   E+G           +++ L + +   FD   
Sbjct: 35  VKPLRELAGLTKSELARRVGITPQALGLIEQGKVSPSTHVALRLAKALGTTVESLFDPEQ 94

Query: 79  TVCSDIS 85
               D+ 
Sbjct: 95  GAAHDLG 101


>gi|254973959|ref|ZP_05270431.1| DNA-binding protein [Clostridium difficile QCD-66c26]
 gi|255091345|ref|ZP_05320823.1| DNA-binding protein [Clostridium difficile CIP 107932]
 gi|255313003|ref|ZP_05354586.1| DNA-binding protein [Clostridium difficile QCD-76w55]
 gi|255515762|ref|ZP_05383438.1| DNA-binding protein [Clostridium difficile QCD-97b34]
 gi|255648855|ref|ZP_05395757.1| DNA-binding protein [Clostridium difficile QCD-37x79]
 gi|260682072|ref|YP_003213357.1| DNA-binding protein [Clostridium difficile CD196]
 gi|260685670|ref|YP_003216803.1| DNA-binding protein [Clostridium difficile R20291]
 gi|306518972|ref|ZP_07405319.1| DNA-binding protein [Clostridium difficile QCD-32g58]
 gi|260208235|emb|CBA60614.1| DNA-binding protein [Clostridium difficile CD196]
 gi|260211686|emb|CBE01972.1| DNA-binding protein [Clostridium difficile R20291]
          Length = 364

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N+ K + L+R   G++Q++L   +G++   V K+E G +    + L  ++      + 
Sbjct: 4  LNIAKTLILKRKEKGITQDELANYIGVSKASVSKWETGQSYPDITFLPQLATYFNITVD 62


>gi|38049246|gb|AAR10417.1| putative repressor protein [Enterococcus faecium]
          Length = 63

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+  R  LG++QE+L +  G+  Q +   E             +S++L+  +   F
Sbjct: 3  NKIKAIRKKLGITQEQLAKECGVVRQTINCIENDKYDPTLELAFKLSKMLKVKVDELF 60


>gi|71904298|ref|YP_281101.1| Cro/CI family transcriptional regulator [Streptococcus pyogenes
          MGAS6180]
 gi|71803393|gb|AAX72746.1| transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          MGAS6180]
          Length = 68

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R    +SQ+ L + +G++ Q +   EKG      +    I  VL+  +   F
Sbjct: 5  KLKAARAGKDLSQQALADLVGVSRQTIAAVEKGDYNPTINLCIAICRVLDKTLDDLF 61


>gi|27375149|ref|NP_766678.1| transcriptional regulator [Bradyrhizobium japonicum USDA 110]
 gi|27348285|dbj|BAC45303.1| bsr0038 [Bradyrhizobium japonicum USDA 110]
          Length = 93

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 28/64 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +R  R+  G+SQE+L    GI    +   E+         L  I+E L+  +S FF + 
Sbjct: 10 NVRRIRVNRGISQEQLAWKAGIDRSYMSSLERQSKNPTIDLLDRIAETLDVQLSEFFVLP 69

Query: 78 PTVC 81
          P   
Sbjct: 70 PKGA 73


>gi|27377584|ref|NP_769113.1| transcriptional regulator [Bradyrhizobium japonicum USDA 110]
 gi|27380303|ref|NP_771832.1| hypothetical protein blr5192 [Bradyrhizobium japonicum USDA 110]
 gi|27350728|dbj|BAC47738.1| bll2473 [Bradyrhizobium japonicum USDA 110]
 gi|27353467|dbj|BAC50457.1| blr5192 [Bradyrhizobium japonicum USDA 110]
          Length = 199

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 26/65 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +IR  R+   +   +L E  G++   + K E+G        L  I+ V    +  FF
Sbjct: 15 IGPKIRRLRLRKKLGLVQLSEHTGLSPAMLSKIERGHLFPTLPTLLRIALVFGVGLDHFF 74

Query: 75 DVSPT 79
               
Sbjct: 75 REDSD 79


>gi|326797597|ref|YP_004315416.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
 gi|326548361|gb|ADZ76746.1| helix-turn-helix domain protein [Sphingobacterium sp. 21]
          Length = 122

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 13 INVGKRIRLRR-MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+ I+  R    G+ +E + + LGIT +     E  +  V  SRL  +SE+      
Sbjct: 1  MKIGENIKEIREKEKGLHKEDVAKALGITVKAYSNIENNIADVTVSRLYELSEIFGVAPE 60

Query: 72 F 72
          +
Sbjct: 61 Y 61


>gi|323126423|gb|ADX23720.1| DNA-binding protein [Streptococcus dysgalactiae subsp.
          equisimilis ATCC 12394]
          Length = 110

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 30/64 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + KRIR  R+  GM+QE+L E   +      K E     +  + L+ +   L+  I+ F
Sbjct: 9  FIAKRIRKIRLQRGMTQEQLEEKADLGVNYAYKLENLATNIKINTLEKVLNALDITITDF 68

Query: 74 FDVS 77
          FD  
Sbjct: 69 FDTP 72


>gi|302336013|ref|YP_003801220.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
 gi|301319853|gb|ADK68340.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
          Length = 109

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/114 (16%), Positives = 44/114 (38%), Gaps = 14/114 (12%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +++  R   GM+  ++   LG+      K+E GVN +    +  +++VL+  +       
Sbjct: 3   QLKRLRKERGMTAREMAAKLGMKADTYGKWEYGVNGMSIENVCAVADVLDVTLDELV-GR 61

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
           P   S ++  +              L   + + +D + R  +I+   S    + 
Sbjct: 62  PVSVSALAERKTY------------LTNLYERCEDGR-RDTLIKTAESFAELDS 102


>gi|300949501|ref|ZP_07163497.1| peptidase S24-like domain protein [Escherichia coli MS 116-1]
 gi|300451077|gb|EFK14697.1| peptidase S24-like domain protein [Escherichia coli MS 116-1]
          Length = 231

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 27/63 (42%), Gaps = 1/63 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          + +G RIR  R+   +   +L E +G+    + + E G  +      L  +++ L   + 
Sbjct: 1  MKIGSRIRQLRLAKNIKIAELAEAVGVDAANISRLETGKQKQFSEQTLNRLAQALSVSVP 60

Query: 72 FFF 74
            F
Sbjct: 61 DLF 63


>gi|294789222|ref|ZP_06754461.1| DNA-binding protein [Simonsiella muelleri ATCC 29453]
 gi|294482963|gb|EFG30651.1| DNA-binding protein [Simonsiella muelleri ATCC 29453]
          Length = 120

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 21/98 (21%), Positives = 43/98 (43%), Gaps = 9/98 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-- 70
           + V  +IR+ R I   SQE++ E L ++     K E+G + +   +L+ I+++    +  
Sbjct: 1   MEVHDKIRVMREINQWSQEEMAEKLAMSANGYAKIERGQSSLSIDKLKQIAQIFNIDMVD 60

Query: 71  -------SFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
                  +FFF +     S   ++ +     +   D L
Sbjct: 61  LLANQDKTFFFSIGDHTNSHNVNQADKFQMLLEAKDEL 98


>gi|227520119|ref|ZP_03950168.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          TX0104]
 gi|227072463|gb|EEI10426.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          TX0104]
          Length = 232

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 6  KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 65

Query: 72 FF 73
          + 
Sbjct: 66 WL 67


>gi|224824341|ref|ZP_03697449.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
 gi|224603760|gb|EEG09935.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
          Length = 194

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/84 (23%), Positives = 35/84 (41%), Gaps = 2/84 (2%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  + KRI   R     S EKL E  G++   +   E+      A+ L  +++ L   +
Sbjct: 3  LDTRLAKRIHSLRKSRAYSLEKLAELSGVSRSMISLIERAETSATAAVLNKLADALGVSL 62

Query: 71 SFFF--DVSPTVCSDISSEENNVM 92
          +  F  +    V S +S  E   +
Sbjct: 63 ASLFSEEAEELVASPLSRAEEQPV 86


>gi|169832055|ref|YP_001718037.1| putative prophage repressor [Candidatus Desulforudis audaxviator
          MP104C]
 gi|169638899|gb|ACA60405.1| putative prophage repressor [Candidatus Desulforudis audaxviator
          MP104C]
          Length = 196

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 24/54 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          VG+ IR  R   G+SQ  L    G++ Q +   E G        L+ ++  L+ 
Sbjct: 4  VGETIRRLREESGLSQRALARKAGLSSQYLSDIEVGRTSPSLKSLEKLAGALQV 57


>gi|167747456|ref|ZP_02419583.1| hypothetical protein ANACAC_02177 [Anaerostipes caccae DSM 14662]
 gi|317471184|ref|ZP_07930554.1| hypothetical protein HMPREF1011_00902 [Anaerostipes sp.
          3_2_56FAA]
 gi|167652818|gb|EDR96947.1| hypothetical protein ANACAC_02177 [Anaerostipes caccae DSM 14662]
 gi|316901331|gb|EFV23275.1| hypothetical protein HMPREF1011_00902 [Anaerostipes sp.
          3_2_56FAA]
          Length = 69

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 25/65 (38%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R    ++Q +L E +G+T Q +   E G  +        I++     I   F   
Sbjct: 4  RIQELRKDQKVTQMELAESVGVTRQTIISLENGRYKASLVLAHKIAQFFGVTIEDIFIFD 63

Query: 78 PTVCS 82
              +
Sbjct: 64 QEEEN 68


>gi|160934353|ref|ZP_02081740.1| hypothetical protein CLOLEP_03224 [Clostridium leptum DSM 753]
 gi|156867026|gb|EDO60398.1| hypothetical protein CLOLEP_03224 [Clostridium leptum DSM 753]
          Length = 176

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 31/62 (50%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RIR  R + GM+Q+ LG  +G        ++ +YE G     A   ++++ VL  
Sbjct: 1  MAIGERIRFFRNLRGMTQKYLGTVVGFPENTADIRMAQYESGSRTPKADLTENLAGVLGV 60

Query: 69 PI 70
            
Sbjct: 61 SP 62


>gi|94968567|ref|YP_590615.1| MerR family transcriptional regulator [Candidatus Koribacter
           versatilis Ellin345]
 gi|94550617|gb|ABF40541.1| transcriptional regulator, MerR family [Candidatus Koribacter
           versatilis Ellin345]
          Length = 292

 Score = 51.4 bits (122), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 36/80 (45%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           NVG R+RL R   G+S  ++ E +GI+   +   E+       + L+ +++  +  I   
Sbjct: 117 NVGLRLRLVRTSRGLSLAQVAEAVGISVGFLSAIERSAMSASVATLRKLAKFYKLNILDL 176

Query: 74  FDVSPTVCSDISSEENNVMD 93
           FD S      +   E   +D
Sbjct: 177 FDQSGGRQYLVRPAERRQLD 196


>gi|322391527|ref|ZP_08064996.1| XRE family transcriptional regulator [Streptococcus peroris ATCC
          700780]
 gi|321145610|gb|EFX41002.1| XRE family transcriptional regulator [Streptococcus peroris ATCC
          700780]
          Length = 64

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R  LG SQ +L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 2  NRVKEFRKELGKSQLELAKDIGVSRQTINMIENDKYNPTLELCLNLARSLQTDLNNLF 59


>gi|311070727|ref|YP_003975650.1| putative transcriptional regulator [Bacillus atrophaeus 1942]
 gi|310871244|gb|ADP34719.1| putative transcriptional regulator [Bacillus atrophaeus 1942]
          Length = 72

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 28/54 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          G+RIR  R + G +QE   + LGI+   + + E+G      + ++ +++ L   
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKALGISVSILGEIERGNRLPSPAIIKDVADALNIS 60


>gi|322434064|ref|YP_004216276.1| Cupin 2 conserved barrel domain protein [Acidobacterium sp.
           MP5ACTX9]
 gi|321161791|gb|ADW67496.1| Cupin 2 conserved barrel domain protein [Acidobacterium sp.
           MP5ACTX9]
          Length = 267

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 30/66 (45%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI+  R+   M   +LG   G++   + + E G        L  I+ V    ++FFF
Sbjct: 45  IGERIKYLRLKKSMGLVELGRHTGLSASFLSQLETGRVVPTLRNLARIAMVFSKDLNFFF 104

Query: 75  DVSPTV 80
           +  P  
Sbjct: 105 EPEPQT 110


>gi|294499973|ref|YP_003563673.1| DNA-binding protein [Bacillus megaterium QM B1551]
 gi|295705350|ref|YP_003598425.1| DNA-binding protein [Bacillus megaterium DSM 319]
 gi|294349910|gb|ADE70239.1| DNA-binding protein [Bacillus megaterium QM B1551]
 gi|294803009|gb|ADF40075.1| DNA-binding protein [Bacillus megaterium DSM 319]
          Length = 183

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/94 (19%), Positives = 38/94 (40%), Gaps = 3/94 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + K +   R    ++ +++ E  G++   + + EKG +    + L  I+  L+   S F 
Sbjct: 8   IAKNLVKLRKNRNLTLDQVSELTGVSKAMLAQIEKGKSSPTVTTLWKIANGLQVSFSVFM 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                    +S ++   +D I+   G  L   F 
Sbjct: 68  KEDTPDVQKVSIKQ---LDPITDNKGDYLVYSFF 98


>gi|289549615|ref|YP_003470519.1| putativetranscriptional regulator [Staphylococcus lugdunensis
          HKU09-01]
 gi|289179147|gb|ADC86392.1| putativetranscriptional regulator [Staphylococcus lugdunensis
          HKU09-01]
          Length = 368

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 34/75 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I + K I+ +R  LG++Q+KL   L IT   + K+E G        L  ++++    +  
Sbjct: 2  IKINKVIKAQRTKLGLTQDKLAAYLDITKPTISKWENGSLMPDIQLLPKLAKLFNMSVDE 61

Query: 73 FFDVSPTVCSDISSE 87
            D    +  + ++ 
Sbjct: 62 LLDYQDVLTKEDATH 76


>gi|262201756|ref|YP_003272964.1| hypothetical protein Gbro_1813 [Gordonia bronchialis DSM 43247]
 gi|262085103|gb|ACY21071.1| Protein of unknown function DUF2083,transcriptional regulator
           [Gordonia bronchialis DSM 43247]
          Length = 474

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 20/128 (15%), Positives = 55/128 (42%), Gaps = 12/128 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G R+R  R   G+SQ  L   + ++   V + E     +    L  ++   +    +
Sbjct: 1   MFIGARLRRLRDERGLSQAGLARRVELSTSYVNQLENDQRPITVPVLLTLTREFDLDADY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKIIELVRSIV 127
           F   +P   + + ++  +V    + PD  ++ R   +I +       V + ++ + R ++
Sbjct: 61  F---APDGDARLVADLADV--LTAQPDSGEVTRA--EITELVARMPAVGRTLVGMHRRLI 113

Query: 128 SSEKKYRT 135
           +++ +  +
Sbjct: 114 AADTELES 121


>gi|223983799|ref|ZP_03633967.1| hypothetical protein HOLDEFILI_01248 [Holdemania filiformis DSM
          12042]
 gi|223964238|gb|EEF68582.1| hypothetical protein HOLDEFILI_01248 [Holdemania filiformis DSM
          12042]
          Length = 83

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 21/58 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+   R   G+ QE+L   L ++ Q +   E G           I+   +  I   F
Sbjct: 19 NRLEALRKARGIKQEELAAALEVSRQTIGSLENGRYNPSILLAFKIARYFDVSIEEVF 76


>gi|254441331|ref|ZP_05054824.1| Helix-turn-helix domain protein [Octadecabacter antarcticus 307]
 gi|198251409|gb|EDY75724.1| Helix-turn-helix domain protein [Octadecabacter antarcticus 307]
          Length = 131

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/106 (16%), Positives = 43/106 (40%), Gaps = 2/106 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R +  ++Q++L + +GI    ++ +E+ ++   A+RL  +  +L   + +   
Sbjct: 19  GDRLAAARDVAQLTQKELAQRVGIKTSTLRNWEEDLSEPRANRLSILCGILGVSLRWLLT 78

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                      +     D  +    L+  R   Q+     R  ++E
Sbjct: 79  AEGEGLLAPDEDAPIAPDVSAMLTELRAVRA--QMKQSTERLALLE 122


>gi|170690931|ref|ZP_02882097.1| transcriptional regulator, XRE family [Burkholderia graminis C4D1M]
 gi|170144180|gb|EDT12342.1| transcriptional regulator, XRE family [Burkholderia graminis C4D1M]
          Length = 207

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 11/77 (14%), Positives = 29/77 (37%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++I+  R    M+ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 30  VGEQIQRLRAERRMTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGVSLDSLF 89

Query: 75  DVSPTVCSDISSEENNV 91
               T  +   +  + +
Sbjct: 90  APQKTPEAIAVAGPHEI 106


>gi|149919002|ref|ZP_01907487.1| DNA-binding protein [Plesiocystis pacifica SIR-1]
 gi|149820155|gb|EDM79574.1| DNA-binding protein [Plesiocystis pacifica SIR-1]
          Length = 108

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 26/55 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+R+R  R   G++QE L E   ++   V++ E          L  +++ L  P
Sbjct: 9  LGERLRTLRKRRGLTQEALAEAAEVSVDSVRRLENAAFSPSFDTLTKLAKGLNVP 63


>gi|159900256|ref|YP_001546503.1| XRE family transcriptional regulator [Herpetosiphon aurantiacus
          ATCC 23779]
 gi|159893295|gb|ABX06375.1| transcriptional regulator, XRE family [Herpetosiphon aurantiacus
          ATCC 23779]
          Length = 910

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 27/59 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D + G  ++ RR  L ++Q++L   +G     ++K E    +      Q +++    P
Sbjct: 4  LDASFGMWLKQRRKTLDLTQDELAHLVGCATVTIRKIEANTLKPSTQIAQRLAQCCNVP 62


>gi|111025296|ref|YP_707716.1| transcriptional regulator [Rhodococcus jostii RHA1]
 gi|110824275|gb|ABG99558.1| transcriptional regulator [Rhodococcus jostii RHA1]
          Length = 254

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/89 (15%), Positives = 36/89 (40%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V+  +G  ++  R+   +S  ++ + LGI+   + + E G  +     L  ++ VLE  +
Sbjct: 33  VEEEIGVALKRARLDKKLSLRQVADQLGISTSLLSQVENGKTQPSVKTLFGLATVLEVSL 92

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPD 99
                    +  ++ ++ +         D
Sbjct: 93  DKILSGRSGLDIELPADRDAAAGIQRAAD 121


>gi|75676148|ref|YP_318569.1| XRE family transcriptional regulator [Nitrobacter winogradskyi
           Nb-255]
 gi|74421018|gb|ABA05217.1| transcriptional regulator, XRE family [Nitrobacter winogradskyi
           Nb-255]
          Length = 410

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 24/115 (20%), Positives = 45/115 (39%), Gaps = 13/115 (11%)

Query: 11  VDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D   +G R+R  R   G+SQ+ + E LG+    V   E G   V    L  ++++    
Sbjct: 2   IDAAQLGDRLRAARERRGLSQQAVAEALGLPRTAVTNMESGTRSVSTLELTRLADLYGQQ 61

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
            +FF  +              + +   +P             D +VR+ I++L +
Sbjct: 62  ATFFLSMHEEAEDLSIVLHRALPEMAGSPH-----------LDGEVRR-ILDLYQ 104


>gi|325961967|ref|YP_004239873.1| transcriptional regulator [Arthrobacter phenanthrenivorans Sphe3]
 gi|323468054|gb|ADX71739.1| putative transcriptional regulator [Arthrobacter phenanthrenivorans
           Sphe3]
          Length = 191

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 23/114 (20%), Positives = 39/114 (34%), Gaps = 16/114 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R+    +   L E  GI+   + + E G  R     L  +++  + P+    
Sbjct: 12  VGPRLRALRLSRETTLSALAEATGISVSTLSRLESGQRRPNLELLLPLAKAHQVPLDELV 71

Query: 75  DVSPTVCS-----DISSEENNVMDFISTPDGLQLNRYFIQI--------DDVKV 115
               T         I +    ++     P G+Q    +  I         D KV
Sbjct: 72  GAPATGDPRVHLRPIEAHGMTIVPLTRKPGGIQ---AYKHILPAGPLEEPDPKV 122


>gi|323490470|ref|ZP_08095677.1| putative HTH-type transcriptional regulator [Planococcus
           donghaensis MPA1U2]
 gi|323395874|gb|EGA88713.1| putative HTH-type transcriptional regulator [Planococcus
           donghaensis MPA1U2]
          Length = 145

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 28/58 (48%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R++  R   G +Q  LG+ + +T Q +   EKG      +    +++ L++ ++  F
Sbjct: 78  NRVKELRARYGFTQSDLGKQVDVTRQTIAFIEKGEFSPSITLSLKLAKALQTNVNDLF 135


>gi|317484077|ref|ZP_07943008.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
          3_1_6]
 gi|316924665|gb|EFV45820.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
          3_1_6]
          Length = 97

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 5/64 (7%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK P+      G  IR  R   G+SQ+ L + + ++   +   E G        L  I+ 
Sbjct: 20 KKSPDA-----GTAIRHFRHEAGLSQDGLADRMDVSPSYISMLESGKRYPSIEMLIRIAL 74

Query: 65 VLES 68
           L  
Sbjct: 75 ALNI 78


>gi|309789599|ref|ZP_07684180.1| BsaWI endonuclease [Oscillochloris trichoides DG6]
 gi|308228335|gb|EFO81982.1| BsaWI endonuclease [Oscillochloris trichoides DG6]
          Length = 366

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 21/106 (19%), Positives = 45/106 (42%), Gaps = 4/106 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           GK ++ +R  +  +QE L E +G+  + + + E G      + ++ I+  L       F 
Sbjct: 8   GKNVQFKRRQINWTQEDLAEAVGVDTRTISRIETGETATEFTTIEKIASALNIDAYQLFI 67

Query: 75  --DVSPTVCSDISSEENNVMDFISTPDGLQLN-RYFIQIDDVKVRQ 117
             D    + SD+  + +     + + + + L  +  I I   K R+
Sbjct: 68  HPDTPEHINSDLIQKISLRAQELYSENIMLLAKKSGIDIPTTKSRK 113


>gi|300172366|ref|YP_003771531.1| Cro/CI family transcriptional regulator [Leuconostoc
          gasicomitatum LMG 18811]
 gi|299886744|emb|CBL90712.1| transcriptional regulator, Cro/CI family [Leuconostoc
          gasicomitatum LMG 18811]
          Length = 196

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 27/59 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +GK+I+  R     SQE+L E   ++ Q +  +E   +      L  +S V  + + 
Sbjct: 1  MELGKQIKNYRTTFNYSQEQLAEKTFVSRQTISNWETNKSYPDIQSLLLLSSVFGTSLD 59


>gi|269123234|ref|YP_003305811.1| transcriptional regulator, XRE family [Streptobacillus
          moniliformis DSM 12112]
 gi|268314560|gb|ACZ00934.1| transcriptional regulator, XRE family [Streptobacillus
          moniliformis DSM 12112]
          Length = 77

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 29/63 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R +  ++Q+KL E + IT Q +   E G           I+  L++ I   FD+
Sbjct: 3  NRIKEVRKVKNITQQKLVENISITRQYISLIELGNETPSLKVANEIAMSLDTCIYSIFDL 62

Query: 77 SPT 79
            T
Sbjct: 63 DGT 65


>gi|239907891|ref|YP_002954632.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
 gi|239797757|dbj|BAH76746.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
          Length = 107

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 37/74 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI+  R   G++Q +L E   ++ + + + E+G        L ++S  L+  +   F
Sbjct: 8  LGKRIQSLRKKAGLTQLELAEKANLSLKHLGEIERGRGNPTLESLHNLSVALDISLMKLF 67

Query: 75 DVSPTVCSDISSEE 88
          D+   + +   +EE
Sbjct: 68 DLEVDLLTTKVTEE 81


>gi|167618929|ref|ZP_02387560.1| DNA-binding protein [Burkholderia thailandensis Bt4]
          Length = 192

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/82 (18%), Positives = 33/82 (40%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           V+  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   
Sbjct: 2  DVNQLIARRVRALRDLRGYSLDALAERSKVSRSNISLIERAQSSPTAVVLERLANALGVS 61

Query: 70 ISFFFDVSPTVCSDISSEENNV 91
          ++  F+          + E  V
Sbjct: 62 LASLFEGDRAASPLSRAAEQPV 83


>gi|187923161|ref|YP_001894803.1| XRE family transcriptional regulator [Burkholderia phytofirmans
          PsJN]
 gi|187714355|gb|ACD15579.1| transcriptional regulator, XRE family [Burkholderia phytofirmans
          PsJN]
          Length = 129

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 30/60 (50%), Gaps = 1/60 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +G RI+ RR  L +S  +L   +GI+   V K EK  ++   A  L  ++  L++   + 
Sbjct: 4  IGTRIQRRREDLNLSTRQLAGAVGISNAAVTKLEKDQSKSPSAENLFRLAIALKTDPQYL 63


>gi|145592882|ref|YP_001157179.1| XRE family transcriptional regulator [Salinispora tropica
          CNB-440]
 gi|145302219|gb|ABP52801.1| transcriptional regulator, XRE family [Salinispora tropica
          CNB-440]
          Length = 191

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 5/69 (7%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   K +PN     +G  IR  R    +S  +L E  G++   + + E+G+ +  A  LQ
Sbjct: 1  MASGKDLPN-----IGGFIRDLRRSAKISLRQLSEQAGVSNPYLSQIERGLRKPSAEVLQ 55

Query: 61 HISEVLESP 69
           ++  L   
Sbjct: 56 QLASALRVS 64


>gi|325261432|ref|ZP_08128170.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
 gi|324032886|gb|EGB94163.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
          Length = 68

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 33/56 (58%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR+   R+   ++Q+++ + LGI  +  ++YEKG + +    L  ++++ ++ + +
Sbjct: 4  KRLEDLRVDHDLTQKQIADHLGIQREVYRRYEKGTHTIPIDYLIKLADLYKTSVDY 59


>gi|306827322|ref|ZP_07460609.1| phage transcriptional repressor [Streptococcus pyogenes ATCC
          10782]
 gi|304430469|gb|EFM33491.1| phage transcriptional repressor [Streptococcus pyogenes ATCC
          10782]
          Length = 232

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G +++  R+  G++Q +LG  L +    +  +EKG N      L  +  +      +F
Sbjct: 4  GHQLKTVRLSKGITQSELGRLLHVNKMTISNWEKGKNIPNEKHLNALLHLFNVTSDYF 61


>gi|297660613|ref|YP_003710324.1| putative transcriptional regulator [Waddlia chondrophila WSU
          86-1044]
 gi|297377489|gb|ADI39318.1| putative transcriptional regulator [Waddlia chondrophila WSU
          86-1044]
          Length = 78

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           +   P+    G ++R+RR  +G++QE+L E   +    V   E+G   +    +  I++
Sbjct: 7  NRKKTPIRKAFGLKVRMRRFEIGITQEELAEKADLHPTYVGSVERGERNIALENIVAIAK 66

Query: 65 VLESPISFFF 74
           L        
Sbjct: 67 GLGCSPKDLM 76


>gi|292490738|ref|YP_003526177.1| hypothetical protein Nhal_0606 [Nitrosococcus halophilus Nc4]
 gi|291579333|gb|ADE13790.1| helix-turn-helix domain protein [Nitrosococcus halophilus Nc4]
          Length = 127

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 30/64 (46%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +++ R   G++Q +L E +G++   +   EKG  +     L+ I++ L   I   + +S 
Sbjct: 64  LKVWRTYRGLTQAQLAEQVGLSQSHLVTMEKGERKGTIKVLKRIAQTLRVDIDDLYPLSE 123

Query: 79  TVCS 82
               
Sbjct: 124 GGGE 127


>gi|302870146|ref|YP_003838783.1| helix-turn-helix domain-containing protein [Micromonospora
          aurantiaca ATCC 27029]
 gi|315503577|ref|YP_004082464.1| helix-turn-helix domain protein [Micromonospora sp. L5]
 gi|302573005|gb|ADL49207.1| helix-turn-helix domain protein [Micromonospora aurantiaca ATCC
          27029]
 gi|315410196|gb|ADU08313.1| helix-turn-helix domain protein [Micromonospora sp. L5]
          Length = 216

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 5/69 (7%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +K +P+     VG  IR  R    +S  +L E  G++   + + E+G+ +  A  LQ
Sbjct: 1  MATSKDLPD-----VGGFIRDLRRNAKISLRQLAEQAGVSNPYLSQIERGLRKPSAEVLQ 55

Query: 61 HISEVLESP 69
           ++  L   
Sbjct: 56 QLASALRVS 64


>gi|238059739|ref|ZP_04604448.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
           39149]
 gi|237881550|gb|EEP70378.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
           39149]
          Length = 206

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/94 (18%), Positives = 36/94 (38%), Gaps = 6/94 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R++  R    ++   L +  GI+   + + E G+ R    +L  ++      +    
Sbjct: 20  VGPRLKQLRQRREITLADLADETGISTSTLSRLEAGLRRPTLEQLLPLARAYGVSLDELV 79

Query: 75  DVSPTVCSDIS------SEENNVMDFISTPDGLQ 102
           D   T    I+       + + ++     P G+Q
Sbjct: 80  DAPATGNPRINLRPIACGDGSTILPLTRRPGGIQ 113


>gi|255035160|ref|YP_003085781.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
          18053]
 gi|254947916|gb|ACT92616.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
          18053]
          Length = 189

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 35/71 (49%), Gaps = 3/71 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + ++I+  R   G+SQE L E   I  + +Q+ E G        L+ +++VL+  +    
Sbjct: 6  ISEQIKTLRRAKGLSQENLAESARINLRTLQRIEAGDTIPRGETLRLLAQVLDVRVESL- 64

Query: 75 DVSPTVCSDIS 85
            +PT+  D +
Sbjct: 65 --TPTLAEDTA 73


>gi|255305199|ref|ZP_05349371.1| putative phage regulatory protein [Clostridium difficile ATCC
          43255]
          Length = 67

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            ++  R +  ++Q++L   + ++ + + + E+G+   G    Q I+++L   I   F
Sbjct: 4  SNLKYYRELNKLTQKQLALEVNVSKEYISQIERGIKNPGFFTAQKIAKILGITIDELF 61


>gi|160933365|ref|ZP_02080753.1| hypothetical protein CLOLEP_02210 [Clostridium leptum DSM 753]
 gi|156867242|gb|EDO60614.1| hypothetical protein CLOLEP_02210 [Clostridium leptum DSM 753]
          Length = 194

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 27/55 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G  I+  R    ++Q +L E L ++ + + K+E G      S L+ ++  L+  I
Sbjct: 7  GSTIKSLREKQRLTQSQLAEKLCVSDKTISKWETGRGFPDISLLKPLACALQVSI 61


>gi|153009649|ref|YP_001370864.1| putative phage repressor [Ochrobactrum anthropi ATCC 49188]
 gi|151561537|gb|ABS15035.1| putative phage repressor [Ochrobactrum anthropi ATCC 49188]
          Length = 243

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 38/89 (42%), Gaps = 8/89 (8%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP- 69
           + + +G  +R  R   G+    + +  G++   V  +E+G N +    LQ ++  LE   
Sbjct: 18  IALKIGTALRTARKQRGLVMRDIAQAAGVSTGAVGNWERGANVMSMENLQAVASYLEIDP 77

Query: 70  -------ISFFFDVSPTVCSDISSEENNV 91
                  + F  +  P   ++I S+  ++
Sbjct: 78  IALSKGNVKFLSETQPVSDAEIISDAGHI 106


>gi|126697864|ref|YP_001086761.1| DNA-binding protein [Clostridium difficile 630]
 gi|255099463|ref|ZP_05328440.1| DNA-binding protein [Clostridium difficile QCD-63q42]
 gi|255305320|ref|ZP_05349492.1| DNA-binding protein [Clostridium difficile ATCC 43255]
 gi|115249301|emb|CAJ67114.1| Transcriptional regulator, HTH-type [Clostridium difficile]
          Length = 364

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N+ K + L+R   G++Q++L   +G++   V K+E G +    + L  ++      + 
Sbjct: 4  LNIAKTLILKRKEKGITQDELANYIGVSKASVSKWETGQSYPDITFLPQLATYFNITVD 62


>gi|94992470|ref|YP_600569.1| phage transcriptional repressor [Streptococcus pyogenes MGAS2096]
 gi|94545978|gb|ABF36025.1| phage transcriptional repressor [Streptococcus pyogenes MGAS2096]
          Length = 157

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G +++  R+  G++Q +LG  L +    +  +EKG N      L  +  +      +F
Sbjct: 4  GHQLKTVRLSKGITQSELGRLLHVNKMTISNWEKGKNIPNEKHLNALLHLFNVTSDYF 61


>gi|94988646|ref|YP_596747.1| phage transcriptional repressor [Streptococcus pyogenes MGAS9429]
 gi|94542154|gb|ABF32203.1| phage transcriptional repressor [Streptococcus pyogenes MGAS9429]
          Length = 232

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G +++  R+  G++Q +LG  L +    +  +EKG N      L  +  +      +F
Sbjct: 4  GHQLKTVRLSKGITQSELGRLLHVNKMTISNWEKGKNIPNEKHLNALLHLFNVTSDYF 61


>gi|14591561|ref|NP_143643.1| hypothetical protein PH1808 [Pyrococcus horikoshii OT3]
 gi|3258244|dbj|BAA30927.1| 380aa long hypothetical protein [Pyrococcus horikoshii OT3]
          Length = 380

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 25/92 (27%), Positives = 45/92 (48%), Gaps = 6/92 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK+++  R   G S  +L   LGI+ + +Q+YEKG + V       + EV + P+    D
Sbjct: 193 GKKLKALREEHGYSITELAGILGISRKSLQRYEKGESVVSLEVALRLEEVFDEPLVKPID 252

Query: 76  VSPTVCSDI--SSEENNVMDFISTPDGLQLNR 105
           V      D+  +SE +N+++     +  +  R
Sbjct: 253 VLRARLKDVTLTSEPDNILE----KEVFEKLR 280


>gi|83945188|ref|ZP_00957537.1| transcriptional regulator, XRE family protein [Oceanicaulis
           alexandrii HTCC2633]
 gi|83851358|gb|EAP89214.1| transcriptional regulator, XRE family protein [Oceanicaulis
           alexandrii HTCC2633]
          Length = 467

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 41/120 (34%), Gaps = 8/120 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R  LG +Q +  E L ++   +   E+    V A  L  ++E  +  +  F  
Sbjct: 11  GARLRRLRKELGQTQAQFAESLNVSPSYLNLLERNQRPVTARVLLSLAEAFDVDVRAFAA 70

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
            S         E     D +     L   R   ++ D   R        ++    + YR 
Sbjct: 71  ESDRQLLADLKEAA--ADPVLKSTDLD-ARDVQELADAHPRA-----AEALAKLHQAYRE 122


>gi|296393324|ref|YP_003658208.1| XRE family transcriptional regulator [Segniliparus rotundus DSM
          44985]
 gi|296180471|gb|ADG97377.1| transcriptional regulator, XRE family [Segniliparus rotundus DSM
          44985]
          Length = 88

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 1/74 (1%)

Query: 11 VDINV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D+ V G  ++  R+  G S   L    GI    + +YE          L  I+  L+ P
Sbjct: 10 IDLRVLGHELQRARVAKGYSLTDLVSHTGIAKATLHRYEMAQTNHTIRHLVKIARALDVP 69

Query: 70 ISFFFDVSPTVCSD 83
          +S    V      D
Sbjct: 70 LSRLVSVLDEPPQD 83


>gi|256964305|ref|ZP_05568476.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          HIP11704]
 gi|307271874|ref|ZP_07553142.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|256954801|gb|EEU71433.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          HIP11704]
 gi|306511380|gb|EFM80382.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
          Length = 156

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 6  KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 65

Query: 72 FF 73
          + 
Sbjct: 66 WL 67


>gi|251790395|ref|YP_003005116.1| XRE family transcriptional regulator [Dickeya zeae Ech1591]
 gi|247539016|gb|ACT07637.1| transcriptional regulator, XRE family [Dickeya zeae Ech1591]
          Length = 128

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 33/70 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R     +Q+ +   +G+   Q  KYE G++   A +L  +SE+  + I     
Sbjct: 11 GQRLKALRNQQRRTQKDIAARIGVQLSQYNKYESGMHIPPADKLIQLSELFSTTIDHLLR 70

Query: 76 VSPTVCSDIS 85
           S    + IS
Sbjct: 71 GSHDELAPIS 80


>gi|225569157|ref|ZP_03778182.1| hypothetical protein CLOHYLEM_05237 [Clostridium hylemonae DSM
          15053]
 gi|225571912|ref|ZP_03780782.1| hypothetical protein CLOHYLEM_07886 [Clostridium hylemonae DSM
          15053]
 gi|225159432|gb|EEG72051.1| hypothetical protein CLOHYLEM_07886 [Clostridium hylemonae DSM
          15053]
 gi|225161956|gb|EEG74575.1| hypothetical protein CLOHYLEM_05237 [Clostridium hylemonae DSM
          15053]
          Length = 68

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 24/61 (39%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R    +SQE+L   +G+T Q +   E+            I+      I   FD S
Sbjct: 4  RIQELRKAHKLSQEELAMAVGVTRQTIISLEREKYTASLVLAYKIARFFGVMIEDVFDFS 63

Query: 78 P 78
           
Sbjct: 64 D 64


>gi|239820608|ref|YP_002947793.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
 gi|239805461|gb|ACS22527.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 81

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 30/71 (42%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          +   K   +P  + +G  I+  R   G+SQE+L     +    +   E+G+   G   + 
Sbjct: 3  IASPKHALDPALLALGTAIKALRKTHGISQEELAHRSHVDRSYMSSIERGMQNPGVMTVV 62

Query: 61 HISEVLESPIS 71
           I+  L   ++
Sbjct: 63 QIAAGLGVSVA 73


>gi|148807441|gb|ABR13513.1| predicted transcriptional regulator [Pseudomonas aeruginosa]
          Length = 73

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 27/56 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+RIR++R    +SQ+ L     I    V + E+G   +   +L  I+ VL    
Sbjct: 8  LGERIRVQRKACRISQDALALACNIDRSYVGRIERGEVNITVEKLYRIASVLACDP 63


>gi|134097736|ref|YP_001103397.1| XRE family transcriptional regulator [Saccharopolyspora erythraea
           NRRL 2338]
 gi|291006304|ref|ZP_06564277.1| XRE family transcriptional regulator [Saccharopolyspora erythraea
           NRRL 2338]
 gi|133910359|emb|CAM00472.1| transcriptional regulator, XRE family [Saccharopolyspora erythraea
           NRRL 2338]
          Length = 399

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 24/96 (25%), Positives = 49/96 (51%), Gaps = 6/96 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLESPI--- 70
           +G+RIR+ R   G+SQ++L   +G +   + + E+G+  V   S L  ++ VL++ +   
Sbjct: 7   IGERIRIYRQRRGLSQKELAHLVGRSESWLSQVERGIRSVDRLSVLVDVARVLKTDVETL 66

Query: 71  -SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
             +    +P    ++   E+ +   +S   GL L+R
Sbjct: 67  AGYRMAYAPNGQPELEGLED-IRQAMSAYAGLGLSR 101


>gi|332799793|ref|YP_004461292.1| helix-turn-helix domain-containing protein [Tepidanaerobacter sp.
           Re1]
 gi|332697528|gb|AEE91985.1| helix-turn-helix domain protein [Tepidanaerobacter sp. Re1]
          Length = 127

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 41/101 (40%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+RI+  R + G++Q  + +  GI+   +   E       A+ L  +   L   I +
Sbjct: 5   KTIGERIKYARKLKGLTQNDIYKLTGISSGNLSDIENNKVLPSANALISLKRELGVSIDW 64

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
                  V  D    ++       +P+ + +   + ++DDV
Sbjct: 65  ILTGEADVAFDKKQNKSPSDIGKLSPNEIDILLKYRKLDDV 105


>gi|312977307|ref|ZP_07789055.1| putative Ans operon transcriptional repressor [Lactobacillus
           crispatus CTV-05]
 gi|310895738|gb|EFQ44804.1| putative Ans operon transcriptional repressor [Lactobacillus
           crispatus CTV-05]
          Length = 111

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/96 (19%), Positives = 41/96 (42%), Gaps = 7/96 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +++  R  +G S+ KL + +G+       +E G+     + ++ I E L        D+
Sbjct: 6   SKLKYERERMGWSKTKLAKYVGVGLSTYANWEYGIAEPDIATIKKICEALGISSDVLLDL 65

Query: 77  SPTVCSDISSEENNVMDFISTPDG-------LQLNR 105
           S    +  +S+ + ++D   + DG        +L R
Sbjct: 66  SVQNAASSTSDLDEMLDDARSFDGKLLDEHDRELVR 101


>gi|294992409|gb|ADF57341.1| transcriptional regulator [Roseburia inulinivorans DSM 16841]
          Length = 142

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 21/129 (16%), Positives = 48/129 (37%), Gaps = 22/129 (17%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++  R +   +Q+ + E LG+  Q    YE G     A     ++ +    +     +
Sbjct: 8   QKLKELRKVNNYTQDYVAEVLGVVRQTYSHYETGKRTPDAEAFYKLAGLYNISVDDLLHL 67

Query: 77  ----------SPTVCSDISSEENNVMDFISTPD-----------GLQLNRYFIQIDDVKV 115
                          +  S++ +  ++F + P              +L  YF +I D   
Sbjct: 68  TIDIDREESYDAPAPTQASTDLSEFLEFFNDPSNKKKYMFNTNLERELLFYFDKIYDED- 126

Query: 116 RQKIIELVR 124
           +++IIE  +
Sbjct: 127 KKEIIEFTK 135


>gi|296393462|ref|YP_003658346.1| hypothetical protein Srot_1042 [Segniliparus rotundus DSM 44985]
 gi|296180609|gb|ADG97515.1| helix-turn-helix domain protein [Segniliparus rotundus DSM 44985]
          Length = 188

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 29/67 (43%), Gaps = 5/67 (7%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGEC-----LGITFQQVQKYEKGVNRVGASRLQHIS 63
          +  D  VG+RI+  R   GMSQ  L +      L +  Q + + E+G   +  S     +
Sbjct: 12 DDFDALVGRRIKALRTACGMSQTALVDELAQRGLNLPQQTIVRIEQGARSLKFSEATAFA 71

Query: 64 EVLESPI 70
            L  P+
Sbjct: 72 SALRVPL 78


>gi|295101547|emb|CBK99092.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii L2-6]
          Length = 102

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 33/78 (42%), Gaps = 1/78 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + + + R     +Q+++ + LGI+ Q    YE G        L  + E     I +    
Sbjct: 2  ENLTIIRKESHATQQEVADYLGISRQAYGNYESGKREPDYETLLKLGEYFNCSIDYLLGS 61

Query: 77 SPTVCSDISSE-ENNVMD 93
          S  V   + SE E N+++
Sbjct: 62 SRGVRYPLLSEFERNLLE 79


>gi|291541572|emb|CBL14682.1| Predicted transcriptional regulators [Ruminococcus bromii L2-63]
          Length = 229

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 29/59 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+++R  R  L ++ ++  E LGI++     YEK      +  L  +++  +  + + 
Sbjct: 2  LGEKLRELRTELNLNMKQASEKLGISYTTYVGYEKNEREPNSETLIKLADFYKCSVDYL 60


>gi|302873056|ref|YP_003841689.1| transcriptional regulator, XRE family [Clostridium cellulovorans
          743B]
 gi|307688788|ref|ZP_07631234.1| transcriptional regulator, XRE family protein [Clostridium
          cellulovorans 743B]
 gi|302575913|gb|ADL49925.1| transcriptional regulator, XRE family [Clostridium cellulovorans
          743B]
          Length = 67

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+  R+  G++QE+L + + +T Q +   E G           I   L   ++  F
Sbjct: 4  NKIKTARVEKGITQEELADMIKVTRQTISLIESGKYNPTLKLCISICLALGKTLNDLF 61


>gi|254502300|ref|ZP_05114451.1| Helix-turn-helix domain protein [Labrenzia alexandrii DFL-11]
 gi|222438371|gb|EEE45050.1| Helix-turn-helix domain protein [Labrenzia alexandrii DFL-11]
          Length = 100

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 32/59 (54%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           N+G  +R  R   G++  +L E LG +   + + E+G++++ +  +  ++ V + P S
Sbjct: 2  ANLGADLRALRKTKGLTLTELAERLGKSVGWLSQIERGISKLSSEDIDRMAGVFDVPPS 60


>gi|295836564|ref|ZP_06823497.1| conserved hypothetical protein [Streptomyces sp. SPB74]
 gi|197697308|gb|EDY44241.1| conserved hypothetical protein [Streptomyces sp. SPB74]
          Length = 156

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 26/81 (32%), Positives = 37/81 (45%), Gaps = 14/81 (17%)

Query: 13 INVGKRIRLRRMILGMSQEKLG-----------ECLGITFQQVQKYEKGVNRVGASRLQH 61
          +N+G+RIR RR+ LG SQE+L            E LG   Q++ +YE G  R     L  
Sbjct: 1  MNIGERIRDRRLQLGWSQERLAREACRVAGAGPEKLG--RQEIYRYETGR-RTPRDWLAP 57

Query: 62 ISEVLESPISFFFDVSPTVCS 82
          I++ L   +       P   S
Sbjct: 58 IAQALGLSVQALSGGQPDADS 78


>gi|152987569|ref|YP_001349079.1| DNA-binding protein [Pseudomonas aeruginosa PA7]
 gi|150962727|gb|ABR84752.1| DNA-binding protein [Pseudomonas aeruginosa PA7]
          Length = 258

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/105 (18%), Positives = 38/105 (36%), Gaps = 4/105 (3%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+  R  LG+S  +L +  GI    + + E GV       L  ++  L+  ++       
Sbjct: 88  IKRERERLGLSISELAKRAGIAKSTLSQLEAGVGNPSLETLWALAMALDVQVTRLIAQPR 147

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           +    I ++E   +          L      +    V++ +  LV
Sbjct: 148 SRVQVIRADEGATVASEQAHYAATLL----AVCPAGVQRDLYRLV 188


>gi|116617253|ref|YP_817624.1| XRE-family DNA-binding domain-containing protein [Leuconostoc
          mesenteroides subsp. mesenteroides ATCC 8293]
 gi|116096100|gb|ABJ61251.1| XRE-family DNA-binding domain and ATPase component of ABC
          transporter [Leuconostoc mesenteroides subsp.
          mesenteroides ATCC 8293]
          Length = 296

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 11/65 (16%), Positives = 30/65 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          ++ + R    +SQE + + L ++ Q V K+E+G       +L  ++++    +++     
Sbjct: 8  QLNMLRQKKSLSQEIIAQKLYVSRQSVSKWERGDAEPDIDKLIALADIFGVDLNYLLAGQ 67

Query: 78 PTVCS 82
           +   
Sbjct: 68 QSPEE 72


>gi|186685408|ref|YP_001868604.1| XRE family transcriptional regulator [Nostoc punctiforme PCC
          73102]
 gi|186467860|gb|ACC83661.1| putative transcriptional regulator, XRE family [Nostoc
          punctiforme PCC 73102]
          Length = 87

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 30/71 (42%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          ++K    +    GK +R RR  L +SQE+L E   +    +   E+G        ++ ++
Sbjct: 2  SEKNELSIKQRFGKAVRRRRRELDLSQEQLAERAELHRTYISNLERGELNPSLETMEKLA 61

Query: 64 EVLESPISFFF 74
            L   I   F
Sbjct: 62 NALNISIPAMF 72


>gi|330961956|gb|EGH62216.1| DNA-binding protein [Pseudomonas syringae pv. maculicola str.
          ES4326]
          Length = 180

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 32/66 (48%), Gaps = 1/66 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-DV 76
          R+++ R  LGM+ E L E  GIT   + K E+G+N    +    ++      +   F + 
Sbjct: 4  RLKILRKRLGMTLEVLAEKTGITKSYLSKVERGLNTPSIAAALKLAAAFNVSVEELFTEG 63

Query: 77 SPTVCS 82
          +P+  S
Sbjct: 64 TPSQAS 69


>gi|326403693|ref|YP_004283775.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
 gi|325050555|dbj|BAJ80893.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
          Length = 469

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 38/84 (45%), Gaps = 6/84 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ +R  R   G++Q+KL   LGI+   +   E     V A+ L  ++E L+       
Sbjct: 6  IGRIVRRLRQEHGLTQQKLASRLGISTSYLNLIEHDQRGVTAALLIKLTETLKV------ 59

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
          D++    SD    E  + +  + P
Sbjct: 60 DLAALSGSDERQVEQALREAFADP 83


>gi|325264752|ref|ZP_08131481.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
 gi|324030044|gb|EGB91330.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
          Length = 130

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 22/55 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +   R    M+Q++L + L I+ Q    YE G        L  IS++    + 
Sbjct: 8  ANLARYRKARHMTQKELAKMLNISRQAYSNYETGKRTPDIDLLLKISQIYNITLD 62


>gi|311894148|dbj|BAJ26556.1| putative transcriptional regulator [Kitasatospora setae KM-6054]
          Length = 407

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLESPISFF 73
          +GKR++ +R+ LGM Q  L   +G T   V K E G   +  AS +  ++  L    +  
Sbjct: 8  IGKRVKRQRLRLGMPQADLAAAIGRTQGWVSKVENGKVELDRASIINQLAAALHCHPNDL 67

Query: 74 FD 75
           +
Sbjct: 68 IE 69


>gi|291549648|emb|CBL25910.1| Predicted transcriptional regulators [Ruminococcus torques L2-14]
          Length = 118

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 22/91 (24%), Positives = 44/91 (48%), Gaps = 4/91 (4%)

Query: 10 PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+D    +G+++R  R    ++Q++L +   ++ +Q+   EKG        L+ +++VL 
Sbjct: 2  PIDDLTALGQKMRESRKKKDLTQQELADLSHVSVKQIASIEKGQINPSYLILKALAKVL- 60

Query: 68 SPISFFFDVSPTVCSDISSEENNVMDFISTP 98
           PIS    ++P V  +        M + S P
Sbjct: 61 -PISLDTLINPDVSPEDDGANQMKMLYCSCP 90


>gi|260662347|ref|ZP_05863242.1| transcriptional regulator [Lactobacillus fermentum 28-3-CHN]
 gi|260553038|gb|EEX25981.1| transcriptional regulator [Lactobacillus fermentum 28-3-CHN]
          Length = 378

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 30/59 (50%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISS 86
          ++   L E +G++ Q + +YE+G  + G    Q I + L+ P++FF   +     D  +
Sbjct: 19 LTITSLSEEIGVSKQMISRYERGTAQPGLDVFQQIVKSLQFPVAFFTGENKFDYEDEGT 77


>gi|260844263|ref|YP_003222041.1| putative transcriptional regulator [Escherichia coli O103:H2 str.
           12009]
 gi|257759410|dbj|BAI30907.1| predicted transcriptional regulator [Escherichia coli O103:H2 str.
           12009]
          Length = 230

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 27/69 (39%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G RI+  R  LG+++  L   +      +  +E G   V A ++  ++  L   + + 
Sbjct: 162 NIGARIKSARKKLGLTEADLARMIHTYSDPINDWECGTCEVPADQIVPLASALNCDLMWL 221

Query: 74  FDVSPTVCS 82
                    
Sbjct: 222 LTGKSEAKE 230



 Score = 40.6 bits (94), Expect = 0.075,   Method: Composition-based stats.
 Identities = 21/114 (18%), Positives = 46/114 (40%), Gaps = 19/114 (16%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFFFDV 76
            +R +R   G++  +L   L +  + + ++E G      S L  ++ VL   P+S   + 
Sbjct: 86  NLRTQREACGLTTAELARLLDLDEEIIIQWESGEYEPTISMLTPLANVLGCDPLSLLSEK 145

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI----IELVRSI 126
           +      +++ E +V +  +            +I     R+K+     +L R I
Sbjct: 146 NSESVIRVNAPEVHVENIGA------------RIKSA--RKKLGLTEADLARMI 185


>gi|302528605|ref|ZP_07280947.1| predicted protein [Streptomyces sp. AA4]
 gi|302437500|gb|EFL09316.1| predicted protein [Streptomyces sp. AA4]
          Length = 197

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 29/57 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + VG  I+  R  LGM+  +L E  G++   +   E+GVN +  + L  I+  LE  
Sbjct: 8  VRVGAEIKRVRSSLGMTLRELAERCGLSPGFLSLAERGVNSISLTSLFAIAGALEVD 64


>gi|254822427|ref|ZP_05227428.1| transcriptional regulator, XRE family protein [Mycobacterium
           intracellulare ATCC 13950]
          Length = 477

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 47/110 (42%), Gaps = 7/110 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R   G++Q  L   LG++   V + E     +    L  ++E  + P  +F  
Sbjct: 10  GARLRRLREEQGLTQVALARVLGLSTSYVNQLENDQRPITVPVLLTLTERFDLPSQYF-- 67

Query: 76  VSPTVCSDISSEENNVM-DFISTPDGL-QLNRYFIQIDD--VKVRQKIIE 121
            +P   + + S+   V+ +  +T   + +L      I    V + +++ +
Sbjct: 68  -APESDARLISDLREVLAEAPATAGQVEELVARMPAIGQTLVNLHRRLHD 116


>gi|300361873|ref|ZP_07058050.1| XRE family transcriptional regulator [Lactobacillus gasseri
          JV-V03]
 gi|300354492|gb|EFJ70363.1| XRE family transcriptional regulator [Lactobacillus gasseri
          JV-V03]
          Length = 129

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 1/70 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPISF 72
          N+G  I+ RR  L M+QE L E   ++   + K E+ G   +   +L  I++ L++ +  
Sbjct: 11 NLGAAIKKRRRSLRMTQEDLAEFSSLSVNFISKIERTGNQNISIQKLDAIAKALQTSVIT 70

Query: 73 FFDVSPTVCS 82
            D S     
Sbjct: 71 LIDESSKTPE 80


>gi|268591811|ref|ZP_06126032.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291312779|gb|EFE53232.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 84

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 30/59 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G +IR +R    +S E++   +G+T +++ ++E G + +    L   + +     + F
Sbjct: 10 LGIKIRKQRENHKISIERMASLIGVTEEEMSRFETGESCIDVDSLFQFAYLFNVDPASF 68


>gi|183598790|ref|ZP_02960283.1| hypothetical protein PROSTU_02220 [Providencia stuartii ATCC 25827]
 gi|188020996|gb|EDU59036.1| hypothetical protein PROSTU_02220 [Providencia stuartii ATCC 25827]
          Length = 186

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 21/119 (17%), Positives = 38/119 (31%), Gaps = 17/119 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + K +   R   G+S  +L    GI    + + E G        L  I   L+ P S   
Sbjct: 11  IAKALVRERQKSGLSLSELSRQAGIAKSTLSQLEAGNGNPSIETLWAICVALDVPFSRLI 70

Query: 75  DVSPTVCS--------DISSEENNVMDFISTPDGLQLNRYFI---------QIDDVKVR 116
           +      +         +S+E  N + F+ +       R            +I +  +R
Sbjct: 71  EDRHEPVTVIRHGDGIQVSAEHANYLAFLLSAAPANSQRDIYTVVAEPGRDRISEPHMR 129


>gi|88604264|ref|YP_504442.1| XRE family transcriptional regulator [Methanospirillum hungatei
          JF-1]
 gi|88189726|gb|ABD42723.1| transcriptional regulator, XRE family [Methanospirillum hungatei
          JF-1]
          Length = 67

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 2/65 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +I++ R +  M+QE L   +G+T Q +   EKG           ++      I   F F
Sbjct: 3  NKIKVFRAMHDMTQEDLAREVGVTRQTILAIEKGKYDPSLELAFKMARRFHVTIEEIFVF 62

Query: 75 DVSPT 79
          + S  
Sbjct: 63 EESSP 67


>gi|88706084|ref|ZP_01103792.1| DNA-binding protein [Congregibacter litoralis KT71]
 gi|88699798|gb|EAQ96909.1| DNA-binding protein [Congregibacter litoralis KT71]
          Length = 361

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 30/61 (49%), Gaps = 2/61 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+R+RL R   G+S   L + +   ++ Q + KYE+      +  L  +S  L+  + +
Sbjct: 2  IGERLRLARKKAGLSLRALSDAIDRKVSAQSIGKYERDEVMPPSDVLTAMSGALDVSLEY 61

Query: 73 F 73
           
Sbjct: 62 L 62


>gi|146277511|ref|YP_001167670.1| helix-turn-helix domain-containing protein [Rhodobacter
          sphaeroides ATCC 17025]
 gi|145555752|gb|ABP70365.1| helix-turn-helix domain protein [Rhodobacter sphaeroides ATCC
          17025]
          Length = 428

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 27/59 (45%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          P+    G R+R RR+ LG+ Q  L    GI+   +   E    R+G   L  ++  L+ 
Sbjct: 2  PMTALTGSRVRERRLQLGLRQADLARSAGISASYLNLIEHNRRRIGDEVLGRLARALKI 60


>gi|118579884|ref|YP_901134.1| molybdate metabolism transcriptional regulator [Pelobacter
          propionicus DSM 2379]
 gi|118502594|gb|ABK99076.1| transcriptional regulator of molybdate metabolism, XRE family
          [Pelobacter propionicus DSM 2379]
          Length = 368

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 24/63 (38%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+  R   G SQ++L E  G++   V   E G           +++V   P+   F V  
Sbjct: 30 IKKFREERGWSQQELAERAGLSRAGVSAIETGKLVPSTVAALALAKVFACPVEELFQVGG 89

Query: 79 TVC 81
             
Sbjct: 90 QAE 92


>gi|331091961|ref|ZP_08340793.1| hypothetical protein HMPREF9477_01436 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330402860|gb|EGG82427.1| hypothetical protein HMPREF9477_01436 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 133

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 25/57 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          I +G RIR  R     SQE L E  G++   + + E G   +    LQ I + L   
Sbjct: 11 IILGNRIRECRKEREFSQEILAEKSGVSTNTISRIEGGQMAMSVGILQKIVKALGVD 67


>gi|295099191|emb|CBK88280.1| Predicted transcriptional regulator with C-terminal CBS domains
           [Eubacterium cylindroides T2-87]
          Length = 464

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/88 (21%), Positives = 34/88 (38%), Gaps = 3/88 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            ++   R+  G+SQ +L   LGI    + + E G        +  I+  L   +S   + 
Sbjct: 12  SQLVEARLEQGISQAELARRLGIQRSGINRLESGTQNPTLDMILKIASALGKDVSLELND 71

Query: 77  SPTVCSDISS---EENNVMDFISTPDGL 101
                S++ S    +  +M F     GL
Sbjct: 72  KEEPMSNVYSLRIYDTELMRFSMEKQGL 99


>gi|255103226|ref|ZP_05332203.1| hypothetical protein CdifQCD-6_20608 [Clostridium difficile
          QCD-63q42]
          Length = 149

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 25/58 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+R++  R+  G+ Q +L E L ++   +  YE       A  +  ++E       + 
Sbjct: 3  GERLKKLRIKFGLKQHELAEILNVSQSTIGMYENDQRTPPAESIVKLAEYFNVTTDYL 60


>gi|226328473|ref|ZP_03803991.1| hypothetical protein PROPEN_02367 [Proteus penneri ATCC 35198]
 gi|225203206|gb|EEG85560.1| hypothetical protein PROPEN_02367 [Proteus penneri ATCC 35198]
          Length = 109

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 31/58 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++  VG RI++ R  L +++ ++ E LGIT     + E G  ++   +L  IS +L  
Sbjct: 2  INTRVGNRIKMLRRQLKITENEMSERLGITMLHYSQLEDGHIKITVDQLITISYILGV 59


>gi|168185962|ref|ZP_02620597.1| HTH-type transcriptional regulator SinR [Clostridium botulinum C
           str. Eklund]
 gi|169295926|gb|EDS78059.1| HTH-type transcriptional regulator SinR [Clostridium botulinum C
           str. Eklund]
          Length = 107

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 21/113 (18%), Positives = 43/113 (38%), Gaps = 18/113 (15%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
           +G  I+  R   GMS  KL +  G++   +   E   +      +L  ++E+LE  I  F
Sbjct: 2   LGDNIKAFRKEKGMSLNKLAKSAGMSPSYLSDLENNKSVNPSMEKLNKLAEILEVRIEDF 61

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVR 124
           +         +  E   +               + +I +     R+KI++++ 
Sbjct: 62  YKEDSDEIDKLEEEMKLL---------------YSKIKNLSKNDRKKILDIIE 99


>gi|168179867|ref|ZP_02614531.1| putative DNA-binding protein [Clostridium botulinum NCTC 2916]
 gi|182669352|gb|EDT81328.1| putative DNA-binding protein [Clostridium botulinum NCTC 2916]
          Length = 148

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 30/61 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+++   R    +SQE + E L ++ Q V K+E        ++ + +SE+      +
Sbjct: 1  MSLGEKLLYLRKKASLSQEDVAEKLSVSRQTVSKWETDQTVPELNKAKLLSELYNVSYDY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|94995138|ref|YP_603236.1| Cro/CI family transcriptional regulator [Streptococcus pyogenes
          MGAS10750]
 gi|94548646|gb|ABF38692.1| Transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          MGAS10750]
          Length = 68

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R    +SQ+ L + +G++ Q +   EKG      +    I  VL+  +   F
Sbjct: 5  KLKAARAGKDLSQQALADLVGVSRQTIAAVEKGDYNPTINLCIAICRVLDKTLDDLF 61


>gi|73749022|ref|YP_308261.1| DNA-binding protein [Dehalococcoides sp. CBDB1]
 gi|289433017|ref|YP_003462890.1| XRE family transcriptional regulator [Dehalococcoides sp. GT]
 gi|73660738|emb|CAI83345.1| DNA-binding protein [Dehalococcoides sp. CBDB1]
 gi|288946737|gb|ADC74434.1| transcriptional regulator, XRE family [Dehalococcoides sp. GT]
          Length = 69

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 30/58 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++++ R I  ++QE+L + LGIT Q V   E+G           I+ + E+PI   F
Sbjct: 3  NKLKVLRAINSLTQEELADKLGITRQTVISIERGKYSPSLELAFKIASLFETPIEEIF 60


>gi|73661421|ref|YP_300202.1| transcriptional regulator [Staphylococcus saprophyticus subsp.
          saprophyticus ATCC 15305]
 gi|72493936|dbj|BAE17257.1| putative transcriptional regulator [Staphylococcus saprophyticus
          subsp. saprophyticus ATCC 15305]
          Length = 155

 Score = 51.4 bits (122), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 32/79 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G +I++ R    ++QE+ G  L I+ Q V  +E          L  I++     +  
Sbjct: 1  MNFGTQIKMIRKENQLTQEQFGNQLNISRQTVSTWENNRYLPDIEMLVEIAKTFNLSLDD 60

Query: 73 FFDVSPTVCSDISSEENNV 91
              +  V   + ++   V
Sbjct: 61 LILGNSVVKDKLVNDTKFV 79


>gi|315037251|ref|YP_004030819.1| transcriptional regulator, XRE family protein [Lactobacillus
           amylovorus GRL 1112]
 gi|312275384|gb|ADQ58024.1| Transcriptional regulator, XRE family protein [Lactobacillus
           amylovorus GRL 1112]
          Length = 276

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 24/103 (23%), Positives = 45/103 (43%), Gaps = 6/103 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+ +R  R+ LG++Q ++   + ++     K E G N++ A RL  I  +    IS 
Sbjct: 1   MQIGEALRTERIKLGLTQNEMSSDI-VSRSFYAKVEAGKNKIAADRLFRILFLHNIDISE 59

Query: 73  FFDVSPTVCSDISSE-----ENNVMDFISTPDGLQLNRYFIQI 110
           F D+     +   +      E  + +  S  D   L  Y  +I
Sbjct: 60  FNDLIQKTYNSDENNLRNDLEEKMAEAFSNKDVDSLTEYCQKI 102


>gi|288560390|ref|YP_003423876.1| transcriptional regulator [Methanobrevibacter ruminantium M1]
 gi|288543100|gb|ADC46984.1| transcriptional regulator [Methanobrevibacter ruminantium M1]
          Length = 113

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 27/58 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+R++  R   G+SQ  L   LGI+   + + E G   +  S L  +  +     S+
Sbjct: 4  IGQRLQGLRESKGLSQSDLANYLGISQPLLSQIEAGNRNLNLSLLDKLCALYGCTDSY 61


>gi|284802769|ref|YP_003414634.1| transcriptional regulator [Listeria monocytogenes 08-5578]
 gi|284995911|ref|YP_003417679.1| transcriptional regulator [Listeria monocytogenes 08-5923]
 gi|284058331|gb|ADB69272.1| transcriptional regulator [Listeria monocytogenes 08-5578]
 gi|284061378|gb|ADB72317.1| transcriptional regulator [Listeria monocytogenes 08-5923]
          Length = 101

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/99 (16%), Positives = 38/99 (38%), Gaps = 2/99 (2%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G ++++ R     +QE +   LG++       E G N      +  ++   E    +   
Sbjct: 3   GDKLKMLRSKTNKTQEDIANILGVSRAAYSHIENGRNEPDMETIVKLANYFEVSTDYLLG 62

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
                 SD+ +    + D ++  + +++ +Y   I   K
Sbjct: 63  RDEIDNSDLLAAH--IDDDLTEDERIEIEKYLKFIRSQK 99


>gi|260887021|ref|ZP_05898284.1| immunity repressor protein [Selenomonas sputigena ATCC 35185]
 gi|330839199|ref|YP_004413779.1| helix-turn-helix domain protein [Selenomonas sputigena ATCC
          35185]
 gi|260863083|gb|EEX77583.1| immunity repressor protein [Selenomonas sputigena ATCC 35185]
 gi|329746963|gb|AEC00320.1| helix-turn-helix domain protein [Selenomonas sputigena ATCC
          35185]
          Length = 135

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++G++I+  R   G++Q +L +   ++   +   EK       S L+ I++   + +S
Sbjct: 1  MSIGEKIKEARKAAGLTQMELAKKTRLSRSYIGDIEKDRYNPSLSTLELIAKATGTSLS 59


>gi|257057003|ref|YP_003134835.1| putative transcriptional regulator [Saccharomonospora viridis DSM
           43017]
 gi|256586875|gb|ACU98008.1| predicted transcriptional regulator [Saccharomonospora viridis DSM
           43017]
          Length = 411

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 24/92 (26%), Positives = 41/92 (44%), Gaps = 8/92 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG---VNRVGASRLQHISEVLESPIS 71
           +G+R+   R   G+SQ  L   +G +   V K E+G   VNR+    L  ++  L   ++
Sbjct: 10  IGERVAFYRRRRGLSQAVLAGLMGKSEDWVSKIERGERQVNRIDV--LVELARQLRVTLN 67

Query: 72  FFFDVSPTVCSDISSEEN--NVMDFISTPDGL 101
                 P +  D    ++   V D + +P GL
Sbjct: 68  DLL-GEPVLFEDEDDNDDVPAVRDALMSPQGL 98


>gi|254885026|ref|ZP_05257736.1| conserved hypothetical protein [Bacteroides sp. 4_3_47FAA]
 gi|319642730|ref|ZP_07997374.1| hypothetical protein HMPREF9011_02974 [Bacteroides sp. 3_1_40A]
 gi|254837819|gb|EET18128.1| conserved hypothetical protein [Bacteroides sp. 4_3_47FAA]
 gi|317385665|gb|EFV66600.1| hypothetical protein HMPREF9011_02974 [Bacteroides sp. 3_1_40A]
          Length = 100

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 21/55 (38%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+ I   R    M+Q +L E +G     + + E G      S    I+  L   +
Sbjct: 40 GQIIEEARKKANMTQAELAEKIGTNKSYISRVETGKTEPKVSTFYRIASALGLNV 94


>gi|238923321|ref|YP_002936836.1| hypothetical protein EUBREC_0938 [Eubacterium rectale ATCC 33656]
 gi|238874995|gb|ACR74702.1| Hypothetical protein EUBREC_0938 [Eubacterium rectale ATCC 33656]
          Length = 112

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 38/80 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++GK IR  R+   ++QE+L E    +   + + E+G +++  S L  I   L+   + 
Sbjct: 8  KHIGKIIRFYRLKNNLTQEQLSEYADCSCGFIGQIERGESKISLSVLSKIINTLKIDANE 67

Query: 73 FFDVSPTVCSDISSEENNVM 92
           F  + T  S+    +N + 
Sbjct: 68 LFWDTDTHTSESQQLDNQIA 87


>gi|218896313|ref|YP_002444724.1| transcriptional regulator SinR [Bacillus cereus G9842]
 gi|218541453|gb|ACK93847.1| transcriptional regulator SinR [Bacillus cereus G9842]
          Length = 107

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 35/74 (47%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPISFF 73
          +G+RI+  R+  G+S  +L E  G+    +   E+ + +    +    I+ VL+ P+   
Sbjct: 2  IGERIKRLRLQKGISLTELAEKAGVAKSYISSIERNLQKNPFIQFLEKIAAVLQIPVDTL 61

Query: 74 FDVSPTVCSDISSE 87
               T  +++ SE
Sbjct: 62 LHDETTKATNLDSE 75


>gi|154498983|ref|ZP_02037361.1| hypothetical protein BACCAP_02975 [Bacteroides capillosus ATCC
          29799]
 gi|257440105|ref|ZP_05615860.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
 gi|261366750|ref|ZP_05979633.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
 gi|332655489|ref|ZP_08421223.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
 gi|150271823|gb|EDM99049.1| hypothetical protein BACCAP_02975 [Bacteroides capillosus ATCC
          29799]
 gi|257197457|gb|EEU95741.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
 gi|282571577|gb|EFB77112.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
 gi|295101293|emb|CBK98838.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii L2-6]
 gi|332515590|gb|EGJ45205.1| toxin-antitoxin system, antitoxin component, Xre family
          [Ruminococcaceae bacterium D16]
          Length = 142

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/76 (15%), Positives = 33/76 (43%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ-HISEVLESPIS 71
          +  G++ +  R    ++Q+++ + LGI  + + +YE G++          I+E  +  ++
Sbjct: 1  MTFGEKFKAEREKRKLTQQEVADALGINRRMITRYENGISFPRTKDAYRKIAEYFKVDVN 60

Query: 72 FFFDVSPTVCSDISSE 87
          +            S +
Sbjct: 61 YLLTEDEEFVVQASEQ 76


>gi|186475018|ref|YP_001856488.1| XRE family transcriptional regulator [Burkholderia phymatum
          STM815]
 gi|184191477|gb|ACC69442.1| transcriptional regulator, XRE family [Burkholderia phymatum
          STM815]
          Length = 135

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 28/61 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +   R   GM Q  L E +G+      + EKG + +   +L+  ++ L+ P S   
Sbjct: 14 LGAVLGQIRSAAGMKQSDLAEAVGVGPSTWSRIEKGESSLSTDQLKLAADALKVPPSRIL 73

Query: 75 D 75
          +
Sbjct: 74 E 74


>gi|304439386|ref|ZP_07399298.1| XRE family transcriptional regulator [Peptoniphilus duerdenii
          ATCC BAA-1640]
 gi|304372168|gb|EFM25762.1| XRE family transcriptional regulator [Peptoniphilus duerdenii
          ATCC BAA-1640]
          Length = 67

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I   R   G+SQ KL E +G+  + +  YE             I +VL   ++  F
Sbjct: 7  NKIAQFRKEKGLSQHKLAEAVGLKRRSIMAYESNTISPTLETAYKICKVLGKDMTEVF 64


>gi|289673453|ref|ZP_06494343.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. syringae FF5]
          Length = 149

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 11/101 (10%)

Query: 8   PNP---VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           P+P   ++  +G +I+ +R    +    +    GI+   + K E          L  + +
Sbjct: 7   PHPKLKLEQYLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRLCD 66

Query: 65  VLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           VL  P+S  F       S            +   +GL++ R
Sbjct: 67  VLGMPMSKLFSQYDQQGSSAL--------LVKADEGLEVVR 99


>gi|283479863|emb|CAY75779.1| HTH-type transcriptional regulator immR [Erwinia pyrifoliae DSM
           12163]
 gi|283479872|emb|CAY75788.1| HTH-type transcriptional regulator immR [Erwinia pyrifoliae DSM
           12163]
          Length = 167

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 23/112 (20%), Positives = 44/112 (39%), Gaps = 8/112 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-FF 74
           GKR+   R    ++Q +L   L I  + + ++E+G  +     +  +++ LE    +   
Sbjct: 52  GKRLAALRKERQLTQIELANLLDIQPRMLGRWEQGQVKPQFDYIIKLAQFLEVSTDYMLL 111

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL-----QLNRYF--IQIDDVKVRQKI 119
               T       +   + +     DGL      +  +F  + I   KVRQ I
Sbjct: 112 GEEDTAAPVFDIKNKRLKELCKQVDGLKTEDQDMICHFLDMAITQEKVRQAI 163


>gi|254555955|ref|YP_003062372.1| transcription regulator [Lactobacillus plantarum JDM1]
 gi|308179947|ref|YP_003924075.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ST-III]
 gi|254044882|gb|ACT61675.1| transcription regulator [Lactobacillus plantarum JDM1]
 gi|308045438|gb|ADN97981.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ST-III]
          Length = 183

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          I +G +I+ +R     SQ+ + E L ++ Q + K+E G +      L  +S++    
Sbjct: 3  IVIGSKIKEQRQQHEWSQQTVAERLHVSRQTISKWELGKSYPDLELLVALSKLFAVS 59


>gi|315499432|ref|YP_004088235.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
 gi|315417444|gb|ADU14084.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
          Length = 93

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 29/79 (36%), Gaps = 3/79 (3%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQ-VQKYEKGVNRVGASRLQHISEVLES 68
           V   +G  +   R    +SQE+L   + +  Q  +   E G     A  L  I+  L  
Sbjct: 2  DVQALIGWNVSRLRKKAELSQEELALRVEVVAQTYISNLEAGKCNPTAVTLYLIARALSV 61

Query: 69 PISFFF--DVSPTVCSDIS 85
           +S  F  D  P   ++  
Sbjct: 62 NVSELFATDGVPLTLTEGP 80


>gi|229546719|ref|ZP_04435444.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          TX1322]
 gi|256854280|ref|ZP_05559644.1| transcriptional regulator [Enterococcus faecalis T8]
 gi|307275291|ref|ZP_07556434.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|307290889|ref|ZP_07570779.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|229308068|gb|EEN74055.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          TX1322]
 gi|256709840|gb|EEU24884.1| transcriptional regulator [Enterococcus faecalis T8]
 gi|306497959|gb|EFM67486.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|306507925|gb|EFM77052.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|315029743|gb|EFT41675.1| helix-turn-helix protein [Enterococcus faecalis TX4000]
          Length = 232

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 6  KQVGARMREARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 65

Query: 72 FF 73
          + 
Sbjct: 66 WL 67


>gi|229153416|ref|ZP_04281594.1| Transcription regulator, probable-related protein [Bacillus
          cereus m1550]
 gi|228630020|gb|EEK86671.1| Transcription regulator, probable-related protein [Bacillus
          cereus m1550]
          Length = 68

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            ++  R   G+SQ +L + + +  Q +   E        +    +++ LE+ ++  F
Sbjct: 7  NNVKQYRKSEGLSQLELAKKVNVARQTINLIENNKYNPSLALCIELAKALETDLNSLF 64


>gi|297195701|ref|ZP_06913099.1| transcriptional regulatory protein [Streptomyces
          pristinaespiralis ATCC 25486]
 gi|197718957|gb|EDY62865.1| transcriptional regulatory protein [Streptomyces
          pristinaespiralis ATCC 25486]
          Length = 201

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 11/75 (14%), Positives = 25/75 (33%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + ++  R   G + + L    G++   + + E+            +++ L   I+   D 
Sbjct: 24 RNLKHWRGERGFTLDALAARSGVSRGMIIQIEQARTNPSVGTTVKLADALGVSITTLLDY 83

Query: 77 SPTVCSDISSEENNV 91
                 I   E  V
Sbjct: 84 EQGAQVRIVPPEQAV 98


>gi|110803374|ref|YP_699815.1| LacI family transcription regulator [Clostridium perfringens
          SM101]
 gi|110683875|gb|ABG87245.1| DNA-binding protein [Clostridium perfringens SM101]
          Length = 223

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 33/57 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG+RI+  R   GM+Q+ L + LG+  + V + E G   +  S +  +S+VL + ++
Sbjct: 4  VGERIKEAREKSGMTQKALAKKLGVAEKFVNEVETGRKIINESLISKVSKVLNTDLN 60


>gi|42519281|ref|NP_965211.1| hypothetical protein LJ1411 [Lactobacillus johnsonii NCC 533]
 gi|41583569|gb|AAS09177.1| hypothetical protein LJ_1411 [Lactobacillus johnsonii NCC 533]
          Length = 129

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 1/70 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPISF 72
          N+G  I+ RR  L M+QE L E   ++   + K E+ G   +   +L  I++ L++ +  
Sbjct: 11 NLGAAIKKRRRSLRMTQEDLAEFSSLSVNFISKIERTGNQNISIQKLDAIAKALQTSVIT 70

Query: 73 FFDVSPTVCS 82
            D S     
Sbjct: 71 LIDESSKTPE 80


>gi|54308498|ref|YP_129518.1| hypothetical protein PBPRA1305 [Photobacterium profundum SS9]
 gi|46912927|emb|CAG19716.1| hypothetical helix-turn-helix XRE-family like proteins
          [Photobacterium profundum SS9]
          Length = 104

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 28/62 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RIR+ R    ++Q ++ + LG+  Q     E G     A  L  I+++L++   F    
Sbjct: 13 QRIRVARECRELTQVRMAKYLGLARQTYLDIETGKTEPKAGTLLAIAQILKTDYRFLLTG 72

Query: 77 SP 78
            
Sbjct: 73 EK 74


>gi|146280227|ref|YP_001170384.1| hypothetical protein Rsph17025_4229 [Rhodobacter sphaeroides ATCC
          17025]
 gi|145558468|gb|ABP73079.1| hypothetical protein Rsph17025_4229 [Rhodobacter sphaeroides ATCC
          17025]
          Length = 652

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 31/79 (39%), Gaps = 4/79 (5%)

Query: 7  IPNPVDIN----VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          +P+ V+++    +G  I   R   G++ + L E   ++   +   E+G    G   L  +
Sbjct: 1  MPHSVEVDRAARIGANIARARQRRGLTLDGLAELSCVSRATISALERGHGNPGVQTLWSL 60

Query: 63 SEVLESPISFFFDVSPTVC 81
          ++ L    +      P   
Sbjct: 61 ADALGLNFAALLGDEPASA 79


>gi|332976056|gb|EGK12926.1| DNA-binding protein [Desmospora sp. 8437]
          Length = 179

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 32/84 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V   IR  R   G + + L E   ++   + + E+G + +  + L+ I++    PI  FF
Sbjct: 4  VCNEIRRLRQSRGYTLKDLSERTELSVSFLSQVERGTSSLAITSLKKIADAFGVPIRQFF 63

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
                   +  EE        + 
Sbjct: 64 LAENNFNYMLKKEEQKPFRLEGSS 87


>gi|317475652|ref|ZP_07934913.1| helix-turn-helix domain-containing protein [Bacteroides eggerthii
          1_2_48FAA]
 gi|316908222|gb|EFV29915.1| helix-turn-helix domain-containing protein [Bacteroides eggerthii
          1_2_48FAA]
          Length = 104

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 25/53 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G  +R RR  L ++Q++L + +G     + + EKG   +  S    I+  L  
Sbjct: 44 GDILRERRKELKLTQKQLAQKIGKEQSYIARVEKGEADIQLSSFFRIARALGI 96


>gi|317473295|ref|ZP_07932590.1| hypothetical protein HMPREF1011_02940 [Anaerostipes sp.
          3_2_56FAA]
 gi|316899131|gb|EFV21150.1| hypothetical protein HMPREF1011_02940 [Anaerostipes sp.
          3_2_56FAA]
          Length = 180

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +++ V K I+  R    +S E L +  G++   + + E+G      S L  IS  ++ P
Sbjct: 1  MNLIVAKNIKRLREKQKLSMEALSKLSGVSKSMLAQIERGDGNPTISTLWKISNGMKVP 59


>gi|315645456|ref|ZP_07898580.1| transcriptional regulator, XRE family protein [Paenibacillus
          vortex V453]
 gi|315278934|gb|EFU42244.1| transcriptional regulator, XRE family protein [Paenibacillus
          vortex V453]
          Length = 65

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 28/57 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++++ R+   +SQE+L + +G++ Q +   E G      S    I + L   ++  F
Sbjct: 5  KLKMARVEKDLSQEELAQIVGVSRQTIGLIELGKYNPSLSLCVAICKALSRTLNDLF 61


>gi|307130384|ref|YP_003882400.1| transcriptional regulator [Dickeya dadantii 3937]
 gi|306527913|gb|ADM97843.1| Transcriptional regulator [Dickeya dadantii 3937]
          Length = 188

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 26/61 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  +  RIR  R   G S   L E   ++   + K E+G +   A+ L  +S      +
Sbjct: 7  MDKRIAARIRSERENRGWSLSDLAEKASVSRAMIHKIERGESSPTANLLGKLSGAFGLSM 66

Query: 71 S 71
          S
Sbjct: 67 S 67


>gi|293401078|ref|ZP_06645223.1| transcriptional regulator, Cro/CI family [Erysipelotrichaceae
          bacterium 5_2_54FAA]
 gi|291306104|gb|EFE47348.1| transcriptional regulator, Cro/CI family [Erysipelotrichaceae
          bacterium 5_2_54FAA]
          Length = 177

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 39/81 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +I+  R+   ++ E+L     +T   + + E+ +     S L+ I E L + ++ 
Sbjct: 1  MDIGAKIKALRIQNDLTLEELASRSELTKGFLSQVERNLTSPSVSTLEDILEALGTDLAS 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  S       S +++ + +
Sbjct: 61 FFKESKQTKVVFSKQDHFIDE 81


>gi|289422564|ref|ZP_06424407.1| conserved domain protein [Peptostreptococcus anaerobius 653-L]
 gi|289157136|gb|EFD05758.1| conserved domain protein [Peptostreptococcus anaerobius 653-L]
          Length = 69

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 3/60 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES---PISFF 73
           R++  R  LG+SQ  L   +G++   +   E G     A     ++  LE     I +F
Sbjct: 9  NRLKDIRKELGLSQTDLANMVGVSRNTISSIETGQFNPTAKLALILAIALEKKFEDIFYF 68


>gi|212712022|ref|ZP_03320150.1| hypothetical protein PROVALCAL_03098 [Providencia alcalifaciens
          DSM 30120]
 gi|212685544|gb|EEB45072.1| hypothetical protein PROVALCAL_03098 [Providencia alcalifaciens
          DSM 30120]
          Length = 78

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 39/73 (53%), Gaps = 2/73 (2%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N++ PN  ++++GK I+  R+   M+  ++ + + ++ +    YE+G   +    L  +S
Sbjct: 2  NERKPN--NLSLGKFIQKERLARQMTTTEIAQAISVSERVYSHYEEGSVSIYIEHLVALS 59

Query: 64 EVLESPISFFFDV 76
           +L+  +  FFD 
Sbjct: 60 SILKIDLQLFFDA 72


>gi|170747509|ref|YP_001753769.1| XRE family transcriptional regulator [Methylobacterium
          radiotolerans JCM 2831]
 gi|170654031|gb|ACB23086.1| transcriptional regulator, XRE family [Methylobacterium
          radiotolerans JCM 2831]
          Length = 186

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 20/84 (23%), Positives = 31/84 (36%), Gaps = 4/84 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I+VG R+R  R   G+SQ  L +  G+T   +   E          L+ I +    PI  
Sbjct: 3  IDVGARLRFVRARHGLSQRTLAKRAGVTNSAISLIEANRVNPSVGALKRILD--GVPIGM 60

Query: 73 --FFDVSPTVCSDISSEENNVMDF 94
            FF + P            + + 
Sbjct: 61 AEFFALEPEPERKAFFAAEELTEI 84


>gi|167746155|ref|ZP_02418282.1| hypothetical protein ANACAC_00851 [Anaerostipes caccae DSM 14662]
 gi|167654670|gb|EDR98799.1| hypothetical protein ANACAC_00851 [Anaerostipes caccae DSM 14662]
          Length = 180

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +++ V K I+  R    +S E L +  G++   + + E+G      S L  IS  ++ P
Sbjct: 1  MNLIVAKNIKRLREKQKLSMEALSKLSGVSKSMLAQIERGDGNPTISTLWKISNGMKVP 59


>gi|167463777|ref|ZP_02328866.1| prophage Lp1 protein 8 [Paenibacillus larvae subsp. larvae
           BRL-230010]
          Length = 123

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 55/120 (45%), Gaps = 13/120 (10%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+R  R+  G SQE+  + +G+    +  YE G N   +  L  I+E   +   +    +
Sbjct: 12  RLREMRLKNGYSQEEFAKKVGLKRTNIANYESGRNTPPSQILGKIAEGFNTSTDYLLGKT 71

Query: 78  PTVCS-----DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
               S       +   +++ +F     G++L       +D K  +++I+L+RS++  +K+
Sbjct: 72  DNPESLKVRDLDAISIDDLQNFKIEYRGVELT------EDEK--RQVIKLLRSVLELKKE 123


>gi|162450781|ref|YP_001613148.1| nitrogen regulatory IIA protein [Sorangium cellulosum 'So ce 56']
 gi|161161363|emb|CAN92668.1| nitrogen regulatory IIA protein [Sorangium cellulosum 'So ce 56']
          Length = 289

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 1/63 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESPISFFF 74
          G  +RL R+  G+S   L   +G++   + + E G + +    RL  I+  L+ P +   
Sbjct: 20 GATLRLLRVEAGLSLRALAHRIGVSSAYLSRVEHGHDAIPTPDRLTAIAGALDLPPAVLL 79

Query: 75 DVS 77
          ++ 
Sbjct: 80 ELG 82


>gi|150403502|ref|YP_001330796.1| helix-turn-helix domain-containing protein [Methanococcus
          maripaludis C7]
 gi|150034532|gb|ABR66645.1| helix-turn-helix domain protein [Methanococcus maripaludis C7]
          Length = 192

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 28/69 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG +I+  R    MS E+L +    +   ++  E G      + L  I+  L   +  F
Sbjct: 6  HVGIKIKQTRERQNMSIEELAKASNSSVNLIESLENGDLVPSLTPLFKIARALGVRLGTF 65

Query: 74 FDVSPTVCS 82
           D +P    
Sbjct: 66 LDDAPQSGP 74


>gi|160895525|ref|YP_001561107.1| anaerobic benzoate catabolism transcriptional regulator [Delftia
          acidovorans SPH-1]
 gi|160361109|gb|ABX32722.1| transcriptional regulator, XRE family with shikimate kinase
          activity [Delftia acidovorans SPH-1]
          Length = 304

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N V   +G+R+R  R   GM++  L     ++ + +   E G   V    L HI++ L+ 
Sbjct: 23 NQVLQALGERVRSLRSRRGMTRRALAAAADVSERHLANLEYGTGNVSVLVLHHIAQALQC 82

Query: 69 PIS 71
           ++
Sbjct: 83 SMA 85


>gi|157370308|ref|YP_001478297.1| DNA-binding transcriptional repressor PuuR [Serratia
          proteamaculans 568]
 gi|157322072|gb|ABV41169.1| transcriptional regulator, XRE family [Serratia proteamaculans
          568]
          Length = 185

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 23/78 (29%), Positives = 33/78 (42%), Gaps = 5/78 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GKR+   R  LG+SQ +  E  G+T   +   E+       S LQ +  V    +S FF 
Sbjct: 9  GKRLSQIRQQLGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLTVYGLSLSAFF- 67

Query: 76 VSPTVCSDISSEENNVMD 93
                 +I  E   V+D
Sbjct: 68 ----AEPEIPDEPQIVID 81


>gi|91778552|ref|YP_553760.1| XRE family transcriptional regulator [Burkholderia xenovorans
          LB400]
 gi|91691212|gb|ABE34410.1| transcriptional regulator, XRE family [Burkholderia xenovorans
          LB400]
          Length = 91

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 28/86 (32%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             G  +R  R   G SQE+L E  G+    V + E+G        +  ++   + PI  
Sbjct: 6  REFGATVRRLREARGWSQEQLAEYAGLNRSYVGEVERGSAIASIVTVDKLARAFQVPIEH 65

Query: 73 FFDVSPTVCSDISSEENNVMDFISTP 98
              S              +D  S  
Sbjct: 66 LLTPSSDASGIAVLARAAFVDPPSAS 91


>gi|28377157|ref|NP_784049.1| transcription regulator [Lactobacillus plantarum WCFS1]
 gi|300766897|ref|ZP_07076810.1| transcriptional regulator [Lactobacillus plantarum subsp.
          plantarum ATCC 14917]
 gi|28269988|emb|CAD62888.1| transcription regulator [Lactobacillus plantarum WCFS1]
 gi|300495435|gb|EFK30590.1| transcriptional regulator [Lactobacillus plantarum subsp.
          plantarum ATCC 14917]
          Length = 67

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 27/61 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R++ G SQ++L    GIT Q +   EKG          ++   L   +   F V P
Sbjct: 7  VKQYRLMAGFSQKELASKTGITRQTLSLIEKGTYNPSLKLCLNLCHALNQTLDTVFWVEP 66

Query: 79 T 79
          +
Sbjct: 67 S 67


>gi|326693523|ref|ZP_08230528.1| XRE family transcriptional regulator [Leuconostoc argentinum KCTC
          3773]
          Length = 183

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/72 (16%), Positives = 28/72 (38%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+ +R  + ++Q  L   L ++ + +  +E G        +  IS+ L   +   F    
Sbjct: 7  IKEKRKKMSLTQMDLANKLLVSNKTISNWETGKTLPDIENIILISKYLNLSLDDLFLGDE 66

Query: 79 TVCSDISSEENN 90
          T+   +   +  
Sbjct: 67 TMVEKLRENQQE 78


>gi|293607057|ref|ZP_06689400.1| DNA-binding/shikimate kinase domain protein [Achromobacter
           piechaudii ATCC 43553]
 gi|292814547|gb|EFF73685.1| DNA-binding/shikimate kinase domain protein [Achromobacter
           piechaudii ATCC 43553]
          Length = 302

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/97 (19%), Positives = 40/97 (41%), Gaps = 10/97 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+R+R  R I GM+++ L +  G++ + +   E GV       L  I+         
Sbjct: 19  VALGERVRRLRAIRGMTRKSLSQVTGVSERHLANLEHGVGNASILVLLQIARAFNC---- 74

Query: 73  FFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRY 106
                  +  D+++E  +   + + +S      L R 
Sbjct: 75  ---ALAELVGDVTTESPDWLLIRELLSGRTESDLQRA 108


>gi|290962183|ref|YP_003493365.1| regulatory protein [Streptomyces scabiei 87.22]
 gi|260651709|emb|CBG74834.1| putative regulatory protein [Streptomyces scabiei 87.22]
          Length = 198

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 28/74 (37%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R     +   L E  GI+   + + E G+ +     L  I+   + P+    
Sbjct: 18 VGPRLRRIRKEREATLAGLSEATGISVSTLSRLESGLRKPSLELLLPIARAHQVPLDELI 77

Query: 75 DVSPTVCSDISSEE 88
             P     + S+ 
Sbjct: 78 GEPPVGDPRVRSKP 91


>gi|253575334|ref|ZP_04852672.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
          D14]
 gi|251845331|gb|EES73341.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
          D14]
          Length = 111

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 33/81 (40%), Gaps = 1/81 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPISF 72
          ++G+RI+  R   G S  +L E   +    +   E+ + +    S ++ I++ L   I+ 
Sbjct: 4  HIGERIQKLRQDRGYSLSELAEKADVAKSYLSNVERNIQSNPSISFIEKIADALNVSINL 63

Query: 73 FFDVSPTVCSDISSEENNVMD 93
                     +  E + ++ 
Sbjct: 64 LLYGDRPAPELLDPEWSELVQ 84


>gi|237746811|ref|ZP_04577291.1| helix-turn-helix domain-containing protein [Oxalobacter
          formigenes HOxBLS]
 gi|229378162|gb|EEO28253.1| helix-turn-helix domain-containing protein [Oxalobacter
          formigenes HOxBLS]
          Length = 118

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 33/68 (48%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           K     +   +GK I  +RM  G++QE + E L I ++ V + E+G       RL  ++
Sbjct: 2  QKNKEKTIAQAMGKAIAQKRMEKGLTQENVAEKLNIGYEAVSRIERGTVIPNIVRLVELA 61

Query: 64 EVLESPIS 71
          ++ E  I 
Sbjct: 62 DIFECGID 69


>gi|225017527|ref|ZP_03706719.1| hypothetical protein CLOSTMETH_01454 [Clostridium methylpentosum
          DSM 5476]
 gi|224949677|gb|EEG30886.1| hypothetical protein CLOSTMETH_01454 [Clostridium methylpentosum
          DSM 5476]
          Length = 83

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 24/57 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           RIR  R    ++Q +L   L ++ Q    YE+GV  +    L   +    + + + 
Sbjct: 4  NRIRDLREDHDLTQAELARMLSVSRQAYSGYERGVRSIPFEILCQFALFYGTSLDYL 60


>gi|188579020|ref|YP_001915949.1| helix-turn-helix, putative [Xanthomonas oryzae pv. oryzae PXO99A]
 gi|188523472|gb|ACD61417.1| helix-turn-helix, putative [Xanthomonas oryzae pv. oryzae PXO99A]
          Length = 62

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 23/56 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R   G SQ +LGE LG++ Q +   E G           I+ +    I   F
Sbjct: 1  MRELREASGWSQGELGERLGVSRQTINALETGKYDPSLPLAFRIARLFGESIEHVF 56


>gi|311110859|ref|ZP_07712256.1| helix-turn-helix domain-containing protein [Lactobacillus gasseri
          MV-22]
 gi|311066013|gb|EFQ46353.1| helix-turn-helix domain-containing protein [Lactobacillus gasseri
          MV-22]
          Length = 112

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 1/70 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPISF 72
          N+G  I+ RR  L M+QE L E   ++   + K E+ G   +   +L  I++ L++ +  
Sbjct: 11 NLGAAIKKRRRSLRMTQEDLAEFSSLSVNFISKIERTGNQNISIQKLDTIAKALQTSVIT 70

Query: 73 FFDVSPTVCS 82
            D S     
Sbjct: 71 LIDESSKTPE 80


>gi|256849634|ref|ZP_05555066.1| conserved hypothetical protein [Lactobacillus crispatus MV-1A-US]
 gi|262046302|ref|ZP_06019265.1| conserved hypothetical protein [Lactobacillus crispatus MV-3A-US]
 gi|256713750|gb|EEU28739.1| conserved hypothetical protein [Lactobacillus crispatus MV-1A-US]
 gi|260573632|gb|EEX30189.1| conserved hypothetical protein [Lactobacillus crispatus MV-3A-US]
          Length = 254

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 25/62 (40%), Gaps = 6/62 (9%)

Query: 18 RIRLRRMILGMSQEKLGECL------GITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          RI+  R  +  +Q +L + L       I+   + KYE GVN      +  ++  L     
Sbjct: 5  RIKEIREKMDKTQAQLSDYLSNEKGLNISRGTIAKYESGVNYPSPQTMSKLAHALNVSEY 64

Query: 72 FF 73
          + 
Sbjct: 65 YL 66


>gi|258653000|ref|YP_003202156.1| XRE family transcriptional regulator [Nakamurella multipartita
          DSM 44233]
 gi|258556225|gb|ACV79167.1| transcriptional regulator, XRE family [Nakamurella multipartita
          DSM 44233]
          Length = 73

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 29/81 (35%), Gaps = 9/81 (11%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          MV   ++ N         IR  R   G M+Q  L + +G+T Q V   E+G         
Sbjct: 1  MVKPTRVTNS--------IRALRFAAGEMTQADLADRIGVTRQTVIAIEQGRYSPSLEMA 52

Query: 60 QHISEVLESPISFFFDVSPTV 80
            I+ V    +   F   P  
Sbjct: 53 FRIAHVFGVGLDAVFQYQPDS 73


>gi|221201483|ref|ZP_03574522.1| repressor protein CI [Burkholderia multivorans CGD2M]
 gi|221207961|ref|ZP_03580967.1| repressor protein CI [Burkholderia multivorans CGD2]
 gi|221172146|gb|EEE04587.1| repressor protein CI [Burkholderia multivorans CGD2]
 gi|221178751|gb|EEE11159.1| repressor protein CI [Burkholderia multivorans CGD2M]
          Length = 132

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 27/66 (40%), Gaps = 1/66 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GKR+R  R    ++Q++L + +G+    + + E       A     I++VL     +  +
Sbjct: 7  GKRLRAARKGARLTQKQLADKVGLKQATISELENDEYDGSAKTA-AIADVLGVNALWLAE 65

Query: 76 VSPTVC 81
                
Sbjct: 66 GKGEAE 71


>gi|209808836|ref|YP_002274407.1| Cro/CI family transcriptional regulator [Enterococcus faecium]
 gi|257883427|ref|ZP_05663080.1| transcriptional regulator [Enterococcus faecium 1,231,502]
 gi|257892129|ref|ZP_05671782.1| transcriptional regulator [Enterococcus faecium 1,231,410]
 gi|257895015|ref|ZP_05674668.1| transcriptional regulator [Enterococcus faecium 1,231,408]
 gi|209528673|dbj|BAG74974.1| Cro/CI family transcriptional regulator [Enterococcus faecium]
 gi|257819085|gb|EEV46413.1| transcriptional regulator [Enterococcus faecium 1,231,502]
 gi|257828489|gb|EEV55115.1| transcriptional regulator [Enterococcus faecium 1,231,410]
 gi|257831394|gb|EEV58001.1| transcriptional regulator [Enterococcus faecium 1,231,408]
          Length = 298

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 21/116 (18%), Positives = 48/116 (41%), Gaps = 13/116 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGIT--FQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +G+RIR  R    ++ E+ G+    T     +  +E G N   + R++ I+E+      +
Sbjct: 167 IGQRIRKIRKKENITLEEFGKLFSPTADKAVISNWENGKNLPNSERIKKIAEIGGVSELY 226

Query: 73  FFDVSPTVCSD----ISSEENNVMDFISTPDGLQLNRYFI-------QIDDVKVRQ 117
                 +  ++    +S    + ++ +S  +  ++   F        +IDD   R+
Sbjct: 227 LMTGVDSSVAESMYFLSEVALDALERLSIEEVNRIIESFAGYLNVISKIDDPDKRE 282



 Score = 42.5 bits (99), Expect = 0.019,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 27/58 (46%), Gaps = 1/58 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          G RI+  R   G +   LG+ +   +   +  +EKG N     RL+ I+ +  + + +
Sbjct: 9  GNRIKQIREKHGYTMADLGKLVDANSPSTINNWEKGNNLPNRKRLEKIALLGGTSVEW 66


>gi|188588525|ref|YP_001920110.1| helix-turn-helix domain protein [Clostridium botulinum E3 str.
           Alaska E43]
 gi|188498806|gb|ACD51942.1| helix-turn-helix domain protein [Clostridium botulinum E3 str.
           Alaska E43]
          Length = 432

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 39/94 (41%), Gaps = 1/94 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G++I+ RR  L M+ + L +   IT  Q+   E G +      L++++  L   I    
Sbjct: 6   LGEKIKTRRKELNMTLKDLAKN-RITPGQISLIESGRSNPSMDLLEYLAATLNISIEHLM 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
           +   +    IS     V +     +   + + +I
Sbjct: 65  ESEESQAEKISIYYEQVAESYILLESYDIAQKYI 98


>gi|167567607|ref|ZP_02360523.1| DNA-binding protein [Burkholderia oklahomensis EO147]
          Length = 188

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++L R   G + + L E  G+T   + K E+G++    +    +S+ L+  +   F  S
Sbjct: 4  RLKLLRKQKGWTLDVLAEATGLTKSYLSKVERGISVPSIAVALKLSKALQVDVERLFSDS 63


>gi|220924825|ref|YP_002500127.1| XRE family transcriptional regulator [Methylobacterium nodulans
          ORS 2060]
 gi|219949432|gb|ACL59824.1| transcriptional regulator, XRE family [Methylobacterium nodulans
          ORS 2060]
          Length = 218

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 25/57 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +GK I+  R    +S  +L E  G+    + + E+       + +  +S+ L+  I
Sbjct: 35 QLGKTIQRLRKAYNLSLSELAEQSGVAKSIISQIERNETNPTLATIWRLSQALDVSI 91


>gi|170736645|ref|YP_001777905.1| XRE family transcriptional regulator [Burkholderia cenocepacia
          MC0-3]
 gi|169818833|gb|ACA93415.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
          MC0-3]
          Length = 108

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 4/70 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+   ++QE+LG   GI       +V +YEKG +       Q ++  L  P SF
Sbjct: 13 KRLKQARLRTDLTQEQLGILAGIDEFSASARVNQYEKGKHAPTVQTSQRLARALLIPTSF 72

Query: 73 FFDVSPTVCS 82
           ++    + +
Sbjct: 73 LYEEDDLLAN 82


>gi|15891606|ref|NP_357278.1| aldehyde dehydrogenase-like protein [Agrobacterium tumefaciens
          str. C58]
 gi|15160044|gb|AAK90063.1| aldehyde dehydrogenase-like protein [Agrobacterium tumefaciens
          str. C58]
          Length = 182

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++G R+R  R+   +SQ +L    G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSVDLGGRLRHLRLRHNISQRELARRAGVTNSTISLIESNTSNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF   P          + +++ 
Sbjct: 59 GLAEFFAFEPETSRKAFYRADELVEI 84


>gi|325453355|gb|ADZ13636.1| putative transcriptional regulator [Cronobacter phage ENT47670]
          Length = 229

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/70 (20%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R    M+  +L   +      + + E+G+     + +Q I+E L  P++ 
Sbjct: 1  MKIGEKIRQIRKANQMTLSELALRVESDVGNLSRLERGMQGYSDTLIQKIAEALGVPVAE 60

Query: 73 FFDVSPTVCS 82
           F  +    +
Sbjct: 61 LFSSNEASDT 70


>gi|315222118|ref|ZP_07864027.1| helix-turn-helix protein [Streptococcus anginosus F0211]
 gi|315188744|gb|EFU22450.1| helix-turn-helix protein [Streptococcus anginosus F0211]
          Length = 62

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 26/56 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R  LG+SQ +L +  G++ Q +   E            +++  L++ ++  F
Sbjct: 4  VREFRNSLGLSQLELAKKTGVSRQTINMIENNKYNPTLELCINLALALKTDLNTLF 59


>gi|302520593|ref|ZP_07272935.1| predicted protein [Streptomyces sp. SPB78]
 gi|302429488|gb|EFL01304.1| predicted protein [Streptomyces sp. SPB78]
          Length = 211

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 21/57 (36%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           VG RIR  R    +S   L    G+    +   E G        L  ++  L  P++
Sbjct: 45  VGARIRELREARALSLSALARRSGLGKATLSGLEAGTRNPTLETLYAVTTALGVPLT 101


>gi|300717762|ref|YP_003742565.1| transcriptional regulator, XRE family [Erwinia billingiae Eb661]
 gi|299063598|emb|CAX60718.1| transcriptional regulator, XRE family [Erwinia billingiae Eb661]
          Length = 69

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 25/62 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  GKR+ L R    ++QE L E   +    +   E G      S +  +++ L   +  
Sbjct: 7  VYFGKRVALLRKDKHLTQEALAEACDLNRTYLSGLETGKRNPSLSTISKLAKALGIQMKE 66

Query: 73 FF 74
           F
Sbjct: 67 IF 68


>gi|241759132|ref|ZP_04757240.1| Helix-turn-helix [Neisseria flavescens SK114]
 gi|241320551|gb|EER56828.1| Helix-turn-helix [Neisseria flavescens SK114]
          Length = 76

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 26/60 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + + +G +IR  R    ++QE L     I    + + E+G   +   +L  +S  L   +
Sbjct: 4  ISVLIGIKIREIRKQSNINQESLALLADIDRSYMGRIERGEVNITIDKLYQLSSALNCSV 63


>gi|268592649|ref|ZP_06126870.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291311788|gb|EFE52241.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 80

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 30/62 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I+ +R+   ++ +K+ E + I+ +   KYE G   +    L  IS  L   +   F
Sbjct: 11 LGKFIKQKRIEHQITTKKMAELISISEKSYIKYEDGSLSIFIEHLMVISNTLNVDVKTLF 70

Query: 75 DV 76
          D 
Sbjct: 71 DT 72


>gi|255652581|ref|ZP_05399483.1| hypothetical protein CdifQCD_20531 [Clostridium difficile
          QCD-37x79]
          Length = 149

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 25/58 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+R++  R+  G+ Q +L E L ++   +  YE       A  +  ++E       + 
Sbjct: 3  GERLKKLRIKFGLKQHELAEILNVSQSTIGMYENDQRTPPAESIVKLAEYFNVTTDYL 60


>gi|225181085|ref|ZP_03734532.1| transcriptional regulator, XRE family [Dethiobacter alkaliphilus
          AHT 1]
 gi|225168282|gb|EEG77086.1| transcriptional regulator, XRE family [Dethiobacter alkaliphilus
          AHT 1]
          Length = 64

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 26/62 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I+  R    + QE L   LG+T Q +   E             ++++LE+P+   F +
Sbjct: 3  NKIKDLRKQKNLRQEDLALKLGVTRQTINAVENNKYNPTLELAMKLAKLLETPVEDIFQL 62

Query: 77 SP 78
            
Sbjct: 63 ED 64


>gi|229815890|ref|ZP_04446214.1| hypothetical protein COLINT_02946 [Collinsella intestinalis DSM
           13280]
 gi|229808585|gb|EEP44363.1| hypothetical protein COLINT_02946 [Collinsella intestinalis DSM
           13280]
          Length = 238

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 28/64 (43%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           KRIR  R   G+SQ +L + + ++ Q V  +EKG     A  L+ +S      +    D 
Sbjct: 39  KRIRGLREGAGISQARLAKLVFVSRQTVINWEKGRTLPDAESLKRLSAAFGITLDALLDE 98

Query: 77  SPTV 80
               
Sbjct: 99  RSEE 102


>gi|168205827|ref|ZP_02631832.1| DNA-binding protein [Clostridium perfringens E str. JGS1987]
 gi|168213491|ref|ZP_02639116.1| DNA-binding protein [Clostridium perfringens CPE str. F4969]
 gi|169343302|ref|ZP_02864312.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
 gi|169298600|gb|EDS80681.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
 gi|170662662|gb|EDT15345.1| DNA-binding protein [Clostridium perfringens E str. JGS1987]
 gi|170715060|gb|EDT27242.1| DNA-binding protein [Clostridium perfringens CPE str. F4969]
          Length = 223

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 33/57 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG+RI+  R   GM+Q+ L + LG+  + V + E G   +  S +  +S+VL + ++
Sbjct: 4  VGERIKEAREKSGMTQKALAKKLGVAEKFVNEVETGRKIINESLISKVSKVLNTDLN 60


>gi|220928392|ref|YP_002505301.1| XRE family transcriptional regulator [Clostridium cellulolyticum
          H10]
 gi|219998720|gb|ACL75321.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
          H10]
          Length = 133

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 32/75 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+  R +   SQ+++ + LG + + + KYE G        +   S+       +   +
Sbjct: 6  ERIKSLRNVKRQSQKEVAKALGKSREAISKYELGEREPDPDVIVQFSKHFNVSSDYMLGI 65

Query: 77 SPTVCSDISSEENNV 91
          +  + +  SSE    
Sbjct: 66 TDHIENIPSSERKPY 80


>gi|116510849|ref|YP_808065.1| XRE family transcriptional regulator [Lactococcus lactis subsp.
          cremoris SK11]
 gi|116106503|gb|ABJ71643.1| Transcriptional regulator, xre family [Lactococcus lactis subsp.
          cremoris SK11]
          Length = 185

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 30/59 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ ++  R+   ++QE++ + L  + Q + ++E          L  ++E+ +S +  F
Sbjct: 2  LGENLQKARLSKNLTQEEVAKELYFSRQAISRWESNKTEPNLETLIALAELYDSDLLAF 60


>gi|148261249|ref|YP_001235376.1| helix-turn-helix domain-containing protein [Acidiphilium cryptum
          JF-5]
 gi|146402930|gb|ABQ31457.1| helix-turn-helix domain protein [Acidiphilium cryptum JF-5]
          Length = 293

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 32/56 (57%), Gaps = 1/56 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+++R  RM  G+  E++   LG++   + +YEKG   +    ++ ++E+L+   
Sbjct: 7  IGQQLRAYRMESGLKAEEIAARLGVSRAALYRYEKGEV-IKLDTVKRLAELLKISP 61


>gi|86144188|ref|ZP_01062525.1| DNA-binding helix-turn-helix protein [Leeuwenhoekiella blandensis
          MED217]
 gi|85829450|gb|EAQ47915.1| DNA-binding helix-turn-helix protein [Leeuwenhoekiella blandensis
          MED217]
          Length = 350

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 1/52 (1%)

Query: 23 RMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R   G SQ +L + + G++   + K+EKG+N +    L  I + L+ P+ FF
Sbjct: 10 REYRGYSQTELAKNIDGLSQSNLSKFEKGINVLSDDILMKIIKFLDFPLGFF 61


>gi|85711642|ref|ZP_01042699.1| DNA-binding protein [Idiomarina baltica OS145]
 gi|85694502|gb|EAQ32443.1| DNA-binding protein [Idiomarina baltica OS145]
          Length = 63

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 23/61 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R     +Q  L + L ++ Q +   E G           I++V +  I   F  
Sbjct: 3  NRLKVLRAERNWTQNDLAQALSVSRQTINAIETGKFDPSLPLAFKIAKVFQCTIEDVFSD 62

Query: 77 S 77
           
Sbjct: 63 D 63


>gi|319744194|gb|EFV96561.1| XRE family transcriptional regulator [Streptococcus agalactiae
          ATCC 13813]
          Length = 59

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 29/56 (51%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +++  R   GM+QE+L + + +  + V ++EKG + +   +   I+   E  +  F
Sbjct: 2  KLKELRQAKGMTQEELAKVIDVNVRSVNRWEKGQSDIYLQKAIKIARFFEVSLDEF 57


>gi|311279673|ref|YP_003941904.1| helix-turn-helix domain-containing protein [Enterobacter cloacae
          SCF1]
 gi|308748868|gb|ADO48620.1| helix-turn-helix domain protein [Enterobacter cloacae SCF1]
          Length = 191

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 31/65 (47%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + ++  +G RIR+ R     S  +L +  G++   + K E+G +   A+ L  +S   
Sbjct: 4  IEDTLNARIGARIRIERESRSWSLSELADRAGVSRTMIHKIERGDSSPTATMLGRLSGAF 63

Query: 67 ESPIS 71
             +S
Sbjct: 64 GISMS 68


>gi|289549623|ref|YP_003470527.1| Transcriptional regulator, PBSX family [Staphylococcus
          lugdunensis HKU09-01]
 gi|315659741|ref|ZP_07912600.1| cro/CI family transcriptional regulator [Staphylococcus
          lugdunensis M23590]
 gi|289179155|gb|ADC86400.1| Transcriptional regulator, PBSX family [Staphylococcus
          lugdunensis HKU09-01]
 gi|315495029|gb|EFU83365.1| cro/CI family transcriptional regulator [Staphylococcus
          lugdunensis M23590]
          Length = 63

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+  R  +GMSQE L + + ++ Q +   E             +++  ++ +   F
Sbjct: 3  NKIKAYRKKIGMSQETLSKNVNVSRQTINAIENNKYDPTLMLAFKLAKQFDTTVDDLF 60


>gi|171322013|ref|ZP_02910893.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          MEX-5]
 gi|171092688|gb|EDT37979.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          MEX-5]
          Length = 73

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 23/58 (39%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + G  +R  R     SQE+L E  G+    V + E+G           I+   E  IS
Sbjct: 7  HFGANVRKLREARTWSQEQLAEHAGLNRSYVGEIERGEAIASIVTADKIARAFEVSIS 64


>gi|124486442|ref|YP_001031058.1| XRE family transcriptional regulator [Methanocorpusculum
          labreanum Z]
 gi|124363983|gb|ABN07791.1| transcriptional regulator, XRE family [Methanocorpusculum
          labreanum Z]
          Length = 63

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R +  ++Q+ L + LG+T Q +   EKG           IS   ++ I   F
Sbjct: 3  NKIKVYRAMHDLTQDALAKELGVTRQTILAIEKGKYDPSLELAFRISRYFQTTIEEIF 60


>gi|50914083|ref|YP_060055.1| Phage transcriptional repressor [Streptococcus pyogenes MGAS10394]
 gi|50903157|gb|AAT86872.1| Phage transcriptional repressor [Streptococcus pyogenes MGAS10394]
          Length = 281

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 22/145 (15%), Positives = 59/145 (40%), Gaps = 18/145 (12%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           +V  +K+ N  D      I+  R    ++Q++L + L I    +  +E G N+     ++
Sbjct: 29  IVKEQKMANLSD-----NIKYFRKQNKLTQKELAKKLKIAPTAISAWEVGRNKPLMDNIE 83

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEE---NNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
            ++ +   P S           + +S E   + +    +T   L+ +R          + 
Sbjct: 84  QMTSIFGIPKSKLLGDEIYKIQETASPELIPSTLQKITATSSQLEHSR----------QL 133

Query: 118 KIIELVRSIVSSEKKYRTIEEECMV 142
            +++   ++++ +K+ +  E+  + 
Sbjct: 134 IVLDTAETLLNQQKEIKNNEDTVVE 158


>gi|321159775|pdb|3LFP|A Chain A, Crystal Structure Of The Restriction-Modification
          Controller Protein C.Csp231i
 gi|321159777|pdb|3LIS|A Chain A, Crystal Structure Of The Restriction-Modification
          Controller Protein C.Csp231i (Monoclinic Form)
 gi|321159778|pdb|3LIS|B Chain B, Crystal Structure Of The Restriction-Modification
          Controller Protein C.Csp231i (Monoclinic Form)
 gi|60418612|gb|AAX19732.1| Csp231I C protein [Citrobacter sp. RFL231]
          Length = 98

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 36/70 (51%), Gaps = 4/70 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R+  G+SQEKLG   GI       ++ +YEKG +         +++VL+ P+S+
Sbjct: 4  RRLKDARLRAGISQEKLGVLAGIDEASASARMNQYEKGKHAPDFEMANRLAKVLKIPVSY 63

Query: 73 FFDVSPTVCS 82
           +     +  
Sbjct: 64 LYTPEDDLAQ 73


>gi|134503|sp|P22753|SINR_BACLI RecName: Full=HTH-type transcriptional regulator sinR
 gi|551703|gb|AAA22439.1| flaD (sin) homologue; putative [Bacillus licheniformis]
          Length = 111

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 36/87 (41%), Gaps = 4/87 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+RI+  R   G S  +L E  G+    +   E+ +        L+ +S VL+  +   
Sbjct: 2  IGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 61

Query: 74 FDVSPTVCSDISSE---ENNVMDFIST 97
           +       D   +   EN V D +++
Sbjct: 62 LNEKDETEYDGQLDSEWENLVRDAMAS 88


>gi|326404663|ref|YP_004284745.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
 gi|325051525|dbj|BAJ81863.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
          Length = 292

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 32/56 (57%), Gaps = 1/56 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+++R  RM  G+  E++   LG++   + +YEKG   +    ++ ++E+L+   
Sbjct: 6  IGQQLRAYRMESGLKAEEIAARLGVSRAALYRYEKGEV-IKLDTVKRLAELLKISP 60


>gi|317500679|ref|ZP_07958897.1| xre family Toxin-antitoxin system [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|331089845|ref|ZP_08338738.1| hypothetical protein HMPREF1025_02321 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|316897873|gb|EFV19926.1| xre family Toxin-antitoxin system [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|330403542|gb|EGG83100.1| hypothetical protein HMPREF1025_02321 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 178

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI   R++ GM+Q+ LG  +G   +    ++ +YE G  +  A     +++ L+ 
Sbjct: 2  MAIGERIHFFRILRGMTQKYLGTIVGFPERSADVRLAQYETGTRKPKAELTAALAQALDV 61

Query: 69 PI 70
            
Sbjct: 62 SP 63


>gi|310827449|ref|YP_003959806.1| hypothetical protein ELI_1860 [Eubacterium limosum KIST612]
 gi|308739183|gb|ADO36843.1| hypothetical protein ELI_1860 [Eubacterium limosum KIST612]
          Length = 67

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 29/65 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ IR  R    ++Q +L    GI+   V   E G    G + +  I++VL+  +  
Sbjct: 2  MTIGEIIRTAREEKNLNQSQLAAKAGISQATVNYLETGKRNPGFTTIVKIAKVLDLNLED 61

Query: 73 FFDVS 77
            +  
Sbjct: 62 LTESM 66


>gi|255306539|ref|ZP_05350710.1| putative phage repressor [Clostridium difficile ATCC 43255]
          Length = 187

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 24/57 (42%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           KR++  R    M+QE +   L +T      YE+G     A  L  ++E+      + 
Sbjct: 86  KRLKELRAEKNMTQEDVANKLNLTKSAYGYYEQGKTVPDAYMLSSLAEIFNVTTDYL 142



 Score = 47.1 bits (111), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 30/70 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R   G+ Q+++   L IT      YE+G        L  ++E   + + +     
Sbjct: 7  RLKFLRKEKGVMQKEIANYLNITTSAYGFYEQGKRTPTPEMLSSLAEYFGTTVDYLIGRY 66

Query: 78 PTVCSDISSE 87
              S+ISS+
Sbjct: 67 DNKASNISSK 76


>gi|196045124|ref|ZP_03112357.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|196024126|gb|EDX62800.1| DNA-binding protein [Bacillus cereus 03BB108]
          Length = 403

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKSLRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDDEMVEL 72


>gi|153815913|ref|ZP_01968581.1| hypothetical protein RUMTOR_02158 [Ruminococcus torques ATCC
          27756]
 gi|145846732|gb|EDK23650.1| hypothetical protein RUMTOR_02158 [Ruminococcus torques ATCC
          27756]
          Length = 179

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI   R++ GM+Q+ LG  +G   +    ++ +YE G  +  A     +++ L+ 
Sbjct: 3  MAIGERIHFFRILRGMTQKYLGTIVGFPERSADVRLAQYETGTRKPKAELTAALAQALDV 62

Query: 69 PI 70
            
Sbjct: 63 SP 64


>gi|91783258|ref|YP_558464.1| XRE family transcriptional regulator [Burkholderia xenovorans
           LB400]
 gi|91687212|gb|ABE30412.1| Putative transcriptional regulator, XRE family [Burkholderia
           xenovorans LB400]
          Length = 106

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 53/120 (44%), Gaps = 14/120 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++ +R++  R I G+SQ ++ + LG+    + + E G  +V A  L   +E+ +  + +
Sbjct: 1   MSIAERLKEAREIAGLSQGQVAKRLGMHRPTISEIEAGRRKVAADELDLFAELYDVSVEW 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
             + S             V D  +    L   R   ++ D  +  +++ ++R +   E K
Sbjct: 61  IVNGS-------------VKDEAADARMLMAARELSKMSDQDL-DRLMNMLRMLRKGEDK 106


>gi|37676450|ref|NP_936846.1| hypothetical protein VVA0790 [Vibrio vulnificus YJ016]
 gi|37676458|ref|NP_936854.1| hypothetical protein VVA0798 [Vibrio vulnificus YJ016]
 gi|37200992|dbj|BAC96816.1| hypothetical protein [Vibrio vulnificus YJ016]
 gi|37201000|dbj|BAC96824.1| hypothetical protein [Vibrio vulnificus YJ016]
          Length = 170

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++  R   G+ Q ++ + +G+T Q   K+E G N   AS ++ ++E+L    S
Sbjct: 9  LKEMRERKGLKQSEVADYVGVTAQTYMKWENGKNEPKASDIKKLAEILSVSES 61


>gi|163943351|ref|YP_001642581.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|163865548|gb|ABY46606.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
          Length = 64

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 22/56 (39%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR+ R    +SQE L +   ++ Q +   E            ++++ L   +   F
Sbjct: 5  IRILRKEKKLSQEDLAKLCHVSRQTINAIENNKYDPTLELAFNLAKSLGVTVDQLF 60


>gi|93005522|ref|YP_579959.1| bifunctional HTH-domain-containing protein/aminotransferase
          [Psychrobacter cryohalolentis K5]
 gi|92393200|gb|ABE74475.1| transcriptional regulator, XRE family [Psychrobacter
          cryohalolentis K5]
          Length = 545

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 30/62 (48%), Gaps = 5/62 (8%)

Query: 17 KRIRLRRMILGMSQEKLGECL-----GITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R+   R   GM+ E+L + +      ++   +  +E+G N + +S+L  ++ +L     
Sbjct: 13 ERLVQLRRDKGMTAEQLAQAMTAAGAKVSRGAISNWERGTNGIVSSKLPTLARLLGCSEG 72

Query: 72 FF 73
          + 
Sbjct: 73 YL 74


>gi|332074168|gb|EGI84646.1| helix-turn-helix family protein [Streptococcus pneumoniae GA41301]
          Length = 383

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ ++  R++ G+S+ +L + + +T Q + ++E    +   S   H++      +++F  
Sbjct: 4   GRVLKELRLLNGLSRAELAQRINLTEQAIWQFESNETKPKLSTKIHLANQFHVDLTYFEQ 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
              ++  D S       D ++T   + 
Sbjct: 64  EEESIRFDSSVIAFRNAD-LATRKTID 89


>gi|303238242|ref|ZP_07324778.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
 gi|302594288|gb|EFL64000.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
          Length = 67

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+  R   G +Q+ L + + ++ Q +   E G           I++V +  I   F
Sbjct: 3  NKIKDLREQSGFTQQYLADKVNVSRQTIISLENGKYNPSIFLAYKIAKVFKMTIEDIF 60


>gi|300787181|ref|YP_003767472.1| XRE family transcriptional regulator [Amycolatopsis mediterranei
          U32]
 gi|299796695|gb|ADJ47070.1| XRE family transcriptional regulator [Amycolatopsis mediterranei
          U32]
          Length = 201

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 11/63 (17%), Positives = 22/63 (34%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +   +R  R   G+S  ++    G+    + + E G        L  +   L+ P S   
Sbjct: 27 IAASLRRERTRAGLSLTEVARRAGLAKSTLSQLESGTGNPSVETLWALGVALDVPFSRLV 86

Query: 75 DVS 77
          +  
Sbjct: 87 EPD 89


>gi|297162225|gb|ADI11937.1| putative transcriptional regulator [Streptomyces bingchenggensis
          BCW-1]
          Length = 190

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 9/75 (12%), Positives = 24/75 (32%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + ++  R   G + + L    G++   + + E+            +++ L   I+   D 
Sbjct: 13 RNLKRWRNERGFTLDALAARSGVSRGMIIQIEQARTNPSVGTTVKLADALGVSITTLLDY 72

Query: 77 SPTVCSDISSEENNV 91
                 +      V
Sbjct: 73 ESGPKVQLVPAAQAV 87


>gi|254555377|ref|YP_003061794.1| transcription regulator [Lactobacillus plantarum JDM1]
 gi|308179374|ref|YP_003923502.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ST-III]
 gi|254044304|gb|ACT61097.1| transcription regulator [Lactobacillus plantarum JDM1]
 gi|308044865|gb|ADN97408.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ST-III]
          Length = 67

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 28/61 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R++ G SQ++L    GIT Q +   EKG          ++  VL   +   F V P
Sbjct: 7  VKQYRLMAGFSQKELASKTGITRQTLSLIEKGTYNPSLKLCLNLCHVLNQTLDTVFWVEP 66

Query: 79 T 79
          +
Sbjct: 67 S 67


>gi|302873902|ref|YP_003842535.1| transcriptional regulator, XRE family [Clostridium cellulovorans
          743B]
 gi|302576759|gb|ADL50771.1| transcriptional regulator, XRE family [Clostridium cellulovorans
          743B]
          Length = 66

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +++  R  L ++Q++L + LG+T Q +   E             +S  L       F
Sbjct: 6  NKVKEFRKQLKLTQDELAQELGVTRQTINAIENNKYNPTLELALKMSRFLGVSTESLF 63


>gi|218297117|ref|ZP_03497788.1| transcriptional regulator, XRE family [Thermus aquaticus Y51MC23]
 gi|218242531|gb|EED09069.1| transcriptional regulator, XRE family [Thermus aquaticus Y51MC23]
          Length = 214

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 23/115 (20%), Positives = 45/115 (39%), Gaps = 20/115 (17%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR---VGASRLQHISEVLESPISFF 73
            R+  RR  LG++QE L    G +   + K E+G      + A  +  +++ L  P++  
Sbjct: 14  ARLVERRKALGLTQEGLARLAGFSTSLMAKIERGAVDLRSLSAQHVVGLAKALGLPLNAL 73

Query: 74  FDVS------------PTVCSDISSEENNVMDFISTPD----GLQLNR-YFIQID 111
            D              P   +       +V  F  TP+    G +++R  ++ + 
Sbjct: 74  LDEDLPGGEVAKPLLLPVYRAPEDLAREDVERFAITPEQVPPGAEVSRLAYLTLP 128


>gi|194016129|ref|ZP_03054744.1| transcriptional regulator [Bacillus pumilus ATCC 7061]
 gi|194012484|gb|EDW22051.1| transcriptional regulator [Bacillus pumilus ATCC 7061]
          Length = 187

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 37/86 (43%), Gaps = 3/86 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + K +RL R    +S EK+ E  G++   + + E+G +    + L  I+  L+     F 
Sbjct: 8   ISKNVRLLRDQKKLSLEKMAELTGVSKTMIGQIERGESTPTITTLWKIANGLKVS---FS 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
           ++      +I    N     ++  DG
Sbjct: 65  ELIHAPQPEIKVVRNEDAQILTEDDG 90


>gi|153008774|ref|YP_001369989.1| XRE family transcriptional regulator [Ochrobactrum anthropi ATCC
          49188]
 gi|151560662|gb|ABS14160.1| transcriptional regulator, XRE family [Ochrobactrum anthropi ATCC
          49188]
          Length = 182

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 37/86 (43%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I++G R+R  RM   +SQ +L +  G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSIDIGGRLRYVRMRQNLSQRELAKRAGVTNSTISLIEANQSNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF + P     +  +   +++ 
Sbjct: 59 GMAEFFALEPDAPHKVFYQAEELVEI 84


>gi|150399074|ref|YP_001322841.1| XRE family transcriptional regulator [Methanococcus vannielii SB]
 gi|150011777|gb|ABR54229.1| transcriptional regulator, XRE family [Methanococcus vannielii
          SB]
          Length = 66

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R    ++QE+LG+ +G+  + +   EKG           I++ L S I   F
Sbjct: 4  RIKEFRAKYNITQEELGKKVGVRRETINFLEKGKYNPSLKLAYLIAKTLNSTIDELF 60


>gi|110798931|ref|YP_697253.1| DNA-binding protein [Clostridium perfringens ATCC 13124]
 gi|110673578|gb|ABG82565.1| DNA-binding protein [Clostridium perfringens ATCC 13124]
          Length = 223

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 33/57 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG+RI+  R   GM+Q+ L + LG+  + V + E G   +  S +  +S+VL + ++
Sbjct: 4  VGERIKEARQKSGMTQKALAKKLGVAEKFVNEVETGRKIINESLISKVSKVLNTDLN 60


>gi|71903695|ref|YP_280498.1| phage transcriptional repressor [Streptococcus phage 6180.1]
 gi|71802790|gb|AAX72143.1| phage transcriptional repressor [Streptococcus phage 6180.1]
          Length = 247

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 21/125 (16%), Positives = 53/125 (42%), Gaps = 11/125 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I+  R    M+Q++L +  G     +  +E G  ++    ++  ++ L+      F
Sbjct: 4   LGNSIKEIRKSKKMTQKELAKLTGFKQNTISNHENGNRQLDEVDIRKYAKALKIEPQQLF 63

Query: 75  DVSPTVCS-DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           D S +  +  +    + +    ST   L+ +R   QI        +++   +++  +K+ 
Sbjct: 64  DYSSSPTNPQVELIPSTLQKINSTSSQLEHSR---QI-------IVLDTAETLLEQQKEI 113

Query: 134 RTIEE 138
           +  E+
Sbjct: 114 KNNED 118


>gi|114567062|ref|YP_754216.1| hypothetical protein Swol_1542 [Syntrophomonas wolfei subsp.
          wolfei str. Goettingen]
 gi|114337997|gb|ABI68845.1| hypothetical protein Swol_1542 [Syntrophomonas wolfei subsp.
          wolfei str. Goettingen]
          Length = 102

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/46 (34%), Positives = 23/46 (50%)

Query: 22 RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           R+  G+SQ+KL + LG+T   V K E G       +L  I+  L 
Sbjct: 45 YRLKHGLSQKKLADKLGVTQAMVAKMESGDYNYTIEQLWKIANKLG 90


>gi|46206109|ref|ZP_00210190.1| COG1396: Predicted transcriptional regulators [Magnetospirillum
          magnetotacticum MS-1]
          Length = 191

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 31/80 (38%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  V +RIR  R+  G + + L     ++   + + E G  R+   +L  I+  L + 
Sbjct: 6  DLDAVVRQRIRGLRLARGWTLDALAARCFLSPSTLSRIETGHRRIALDQLVPIARALGTT 65

Query: 70 ISFFFDVSPTVCSDISSEEN 89
          +    +        I  E  
Sbjct: 66 LDQLVEPVDDEDVVIRPEPQ 85


>gi|325962304|ref|YP_004240210.1| transcriptional regulator [Arthrobacter phenanthrenivorans Sphe3]
 gi|323468391|gb|ADX72076.1| putative transcriptional regulator [Arthrobacter
          phenanthrenivorans Sphe3]
          Length = 191

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 33/72 (45%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+ V + +G RIR  R    ++ E++ +  G+T   + + E+ +     + L  + +VL 
Sbjct: 8  PSNVPVAIGSRIRAARQSQRLTIEQVADATGLTKGFLSRVERDLTSPSVASLVTLCQVLS 67

Query: 68 SPISFFFDVSPT 79
            I   F    T
Sbjct: 68 ISIGDLFAAPET 79


>gi|291540748|emb|CBL13859.1| Predicted transcriptional regulators [Roseburia intestinalis
          XB6B4]
          Length = 121

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 31/72 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GKRIR  R    ++Q++L +  G+  + +Q  EKG        L  + + L    + 
Sbjct: 7  IFLGKRIRSARKECQLTQQELADQSGLAVKTIQDIEKGRKNPTYETLCLLVDRLGISGNT 66

Query: 73 FFDVSPTVCSDI 84
           F     V  + 
Sbjct: 67 IFPSKAPVDEEA 78


>gi|260910939|ref|ZP_05917580.1| conserved hypothetical protein [Prevotella sp. oral taxon 472
          str. F0295]
 gi|260634930|gb|EEX52979.1| conserved hypothetical protein [Prevotella sp. oral taxon 472
          str. F0295]
          Length = 110

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 28/56 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           VG+ IR  R    ++Q++LG+ +G+   Q+ K E G + +    +  + + L   
Sbjct: 40 YVGEAIRKARTAQHLTQDELGKLIGVQRSQICKLESGKSVITLPTMSRVFQALGIS 95


>gi|229021255|ref|ZP_04177890.1| hypothetical protein bcere0030_56710 [Bacillus cereus AH1273]
 gi|229027524|ref|ZP_04183752.1| hypothetical protein bcere0029_57360 [Bacillus cereus AH1272]
 gi|228733770|gb|EEL84536.1| hypothetical protein bcere0029_57360 [Bacillus cereus AH1272]
 gi|228739988|gb|EEL90350.1| hypothetical protein bcere0030_56710 [Bacillus cereus AH1273]
          Length = 51

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/47 (29%), Positives = 21/47 (44%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          MSQE L   +G+  + +   E G           I++VL +PI   F
Sbjct: 1  MSQEDLANEVGVRRETIGNLENGKYNPSFKLTYDIAKVLNAPIEVLF 47


>gi|224825808|ref|ZP_03698912.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
 gi|224602032|gb|EEG08211.1| transcriptional regulator, XRE family [Lutiella nitroferrum 2002]
          Length = 65

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 11/52 (21%), Positives = 24/52 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  R  LG++Q  L + +G +   + K E G  +V     + ++  L   +
Sbjct: 4  MKEARKRLGLTQNDLAKAVGASQAHISKLENGTEQVSPDLAKRLAVELGLDV 55


>gi|332527576|ref|ZP_08403623.1| helix-turn-helix domain-containing protein [Rubrivivax
           benzoatilyticus JA2]
 gi|332111979|gb|EGJ11956.1| helix-turn-helix domain-containing protein [Rubrivivax
           benzoatilyticus JA2]
          Length = 277

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 25/122 (20%), Positives = 49/122 (40%), Gaps = 18/122 (14%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           G+R+   R   G+SQ +    LG + Q Q+   E G        L   +++  + + F  
Sbjct: 52  GRRLAEAREDAGLSQTEAAHRLGYSQQVQLSLMESGQRMPPLDVLLACTQLYGTTMDFLC 111

Query: 75  DVSPTVCSD------------ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR-QKIIE 121
            ++P    D            +S+E   V++ +S+   + + R    I     R +++  
Sbjct: 112 GLAPDSDRDPALGIQRQLAAGLSAELRRVVEAMSSA-SVNVARA---IGPNAARLRRLAS 167

Query: 122 LV 123
           LV
Sbjct: 168 LV 169


>gi|291450131|ref|ZP_06589521.1| transcriptional regulatory protein [Streptomyces albus J1074]
 gi|291353080|gb|EFE79982.1| transcriptional regulatory protein [Streptomyces albus J1074]
          Length = 201

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/92 (16%), Positives = 31/92 (33%), Gaps = 2/92 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + +R  R   G + + L    G++   + + E+       + +  I + L   ++   D 
Sbjct: 24  RNVRHWRAERGFTLDALATRSGVSRNMLIQIEQARTNPSIATVVKIGDALGVSVTSLLDY 83

Query: 77  S--PTVCSDISSEENNVMDFISTPDGLQLNRY 106
           +  P V          V D  +   G  L   
Sbjct: 84  ARGPRVRVVPPEATATVWDTTAGSHGRLLAGA 115


>gi|262040838|ref|ZP_06014065.1| repressor protein cI [Klebsiella pneumoniae subsp. rhinoscleromatis
           ATCC 13884]
 gi|259041821|gb|EEW42865.1| repressor protein cI [Klebsiella pneumoniae subsp. rhinoscleromatis
           ATCC 13884]
          Length = 327

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 1/57 (1%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
           R+  RR +LG++QE L +  G+T   + K E G      ++ L  IS  L     + 
Sbjct: 101 RLISRRELLGLTQEALAKRAGVTRVAISKAELGLTKNFNSNTLFKISSALGCEPEWL 157


>gi|256378649|ref|YP_003102309.1| XRE family transcriptional regulator [Actinosynnema mirum DSM
          43827]
 gi|255922952|gb|ACU38463.1| transcriptional regulator, XRE family [Actinosynnema mirum DSM
          43827]
          Length = 271

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 28/59 (47%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VD  VG  +R  R    +SQ+ L E   ++ + V + E G+       +  ++E L+ P
Sbjct: 13 VDEPVGVLLRAWRRRKSLSQQGLAEAAAVSARHVSRVETGLAHPTPEMILRLAEHLDVP 71


>gi|239978241|ref|ZP_04700765.1| transcriptional regulatory protein [Streptomyces albus J1074]
          Length = 190

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/92 (16%), Positives = 31/92 (33%), Gaps = 2/92 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + +R  R   G + + L    G++   + + E+       + +  I + L   ++   D 
Sbjct: 13  RNVRHWRAERGFTLDALATRSGVSRNMLIQIEQARTNPSIATVVKIGDALGVSVTSLLDY 72

Query: 77  S--PTVCSDISSEENNVMDFISTPDGLQLNRY 106
           +  P V          V D  +   G  L   
Sbjct: 73  ARGPRVRVVPPEATATVWDTTAGSHGRLLAGA 104


>gi|255505869|ref|ZP_05348580.3| toxin-antitoxin system, antitoxin component, Xre family [Bryantella
           formatexigens DSM 14469]
 gi|255265478|gb|EET58683.1| toxin-antitoxin system, antitoxin component, Xre family [Bryantella
           formatexigens DSM 14469]
          Length = 137

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/95 (20%), Positives = 43/95 (45%), Gaps = 5/95 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+RI  RR  LG+ Q ++ E   ++++ +   E+ ++      +  ++  L++    F 
Sbjct: 37  IGRRIARRRKQLGLKQAEVEEKADLSYKYLSNIERSISIPSIEVIMRLAVALDTTPDEFL 96

Query: 75  DVSPTVCSDISSEENNVMDFIS--TPDGLQLNRYF 107
             +    ++   E  NV + +    P  L L + F
Sbjct: 97  VGTLQTENE---EWKNVAEILRNFDPKKLSLAKNF 128


>gi|187935844|ref|YP_001893672.1| putative LexA repressor [Clostridium botulinum B str. Eklund 17B]
 gi|187723996|gb|ACD14202.1| putative LexA repressor [Clostridium botulinum B str. Eklund 17B]
          Length = 235

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/85 (16%), Positives = 37/85 (43%), Gaps = 2/85 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--F 74
          K ++  R    M QE L   +G+    +  YE   +    + L +I+ +    I+     
Sbjct: 10 KNLKKLRTFNKMKQEDLAVKIGVARSNISYYETQKSEPTLTPLINIANIFNVTINELVTV 69

Query: 75 DVSPTVCSDISSEENNVMDFISTPD 99
          +++  +  + + +++N+    S+ +
Sbjct: 70 ELTDDIIQEKNQQQDNITKVFSSSE 94



 Score = 39.0 bits (90), Expect = 0.21,   Method: Composition-based stats.
 Identities = 14/86 (16%), Positives = 30/86 (34%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           K ++  R+   M Q +L + +  +   +  YE G +      L  I +     +S     
Sbjct: 98  KNLKELRIGKNMYQIELAKEVKTSKSNISFYESGRSEPTLGVLMRICDFFNIKLSELVSK 157

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ 102
                  I SE + +       + ++
Sbjct: 158 DLKPTEWIKSESDFIKKISYDLESVE 183


>gi|172057379|ref|YP_001813839.1| XRE family transcriptional regulator [Exiguobacterium sibiricum
          255-15]
 gi|171989900|gb|ACB60822.1| transcriptional regulator, XRE family [Exiguobacterium sibiricum
          255-15]
          Length = 71

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R     SQ +L E LG++ Q V   EK            I+ + + PI   F
Sbjct: 3  NRMKGLREARQWSQGQLAEALGVSRQTVISIEKERYNPSLELAFSIAALFDCPIEEIF 60


>gi|170783251|ref|YP_001711585.1| putative DNA-binding protein [Clavibacter michiganensis subsp.
          sepedonicus]
 gi|169157821|emb|CAQ03026.1| putative DNA-binding protein [Clavibacter michiganensis subsp.
          sepedonicus]
          Length = 152

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/50 (24%), Positives = 24/50 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +R  R    +SQE+LG  +G++   V  +E G +    + ++  +  L  
Sbjct: 50 LRRVREHRSLSQEQLGALMGVSQATVSSFESGASEPKLATIRRYAHALNV 99


>gi|86608150|ref|YP_476912.1| hypothetical protein CYB_0663 [Synechococcus sp. JA-2-3B'a(2-13)]
 gi|86556692|gb|ABD01649.1| conserved domain protein [Synechococcus sp. JA-2-3B'a(2-13)]
          Length = 132

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 38/83 (45%), Gaps = 5/83 (6%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECL---GIT--FQQVQKYEKGVNRVGA 56
           + +    +P    +G+R+R  R  L ++Q++L   L   G+   + ++ + EKG  RV  
Sbjct: 48  MESNDRHHPSANLIGERVRWVREKLQLTQDQLAGRLAKYGVQLDYVKIGQVEKGKRRVID 107

Query: 57  SRLQHISEVLESPISFFFDVSPT 79
             L   ++ L   +++      +
Sbjct: 108 KELVAFAKALGVSVTWLLSGDES 130


>gi|33591919|ref|NP_879563.1| putative transcriptional regulator [Bordetella pertussis Tohama
          I]
 gi|33571563|emb|CAE41048.1| putative transcriptional regulator [Bordetella pertussis Tohama
          I]
 gi|332381336|gb|AEE66183.1| putative transcriptional regulator [Bordetella pertussis CS]
          Length = 142

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R +  +SQE L    G++   V  YE G+ R  +  ++ ++  L+  + +F
Sbjct: 7  RLKHARRLRQLSQENLAHISGLSQSAVASYENGL-RQSSRSIRKLAIALQVNLDWF 61


>gi|332362850|gb|EGJ40643.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK49]
          Length = 225

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 35/63 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR+ L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRLELNLAQASIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          + T
Sbjct: 65 TST 67


>gi|326943047|gb|AEA18943.1| PbsX family transcriptional regulator [Bacillus thuringiensis
          serovar chinensis CT-43]
          Length = 63

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            ++  R   G+SQ +L + + +  Q +   E        +    +++ L++ ++  F
Sbjct: 2  NNVKQYRKSEGLSQLELAKKINVARQTINLIENNKYNPSLALCIELAKALKTDLNSLF 59


>gi|324993435|gb|EGC25355.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK405]
 gi|325694151|gb|EGD36069.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK150]
 gi|327461709|gb|EGF08040.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1]
 gi|327489562|gb|EGF21355.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1058]
          Length = 225

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 35/63 (55%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++++ RR+ L ++Q  + + LGI+ +    +E G+    A  L+ ++  L+   ++F D 
Sbjct: 5  EKLKKRRLELNLAQASIYQELGISRKTYSAWENGLAEPHAKNLRRLATCLKVQENYFVDE 64

Query: 77 SPT 79
          + T
Sbjct: 65 TST 67


>gi|302335525|ref|YP_003800732.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
 gi|301319365|gb|ADK67852.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
          Length = 398

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  I   R + G +Q++L E LG++   V K+E G +    + L  I+      +  
Sbjct: 5  VSIGSVIARERRLRGDTQQELAERLGVSKAAVSKWEVGQSIPDVTLLPRIAAYFSLTLDE 64

Query: 73 FFDVSPTVCSD 83
           F     + ++
Sbjct: 65 LFGYRSVLSNE 75


>gi|298385377|ref|ZP_06994935.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides sp. 1_1_14]
 gi|298261518|gb|EFI04384.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides sp. 1_1_14]
          Length = 103

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/38 (36%), Positives = 22/38 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN 52
          +G+ I+  R    M+QE+L + +G+   QV K E G N
Sbjct: 37 IGEAIKKARKSQNMTQEELAQKIGVQRAQVSKIESGRN 74


>gi|300088555|ref|YP_003759077.1| XRE family transcriptional regulator [Dehalogenimonas
           lykanthroporepellens BL-DC-9]
 gi|299528288|gb|ADJ26756.1| transcriptional regulator, XRE family [Dehalogenimonas
           lykanthroporepellens BL-DC-9]
          Length = 145

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 20/114 (17%), Positives = 48/114 (42%), Gaps = 10/114 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  +R RR+ + ++ ++L +  GI+   + + E+G     A  L  ++  L+   +  F
Sbjct: 16  LGAVLRRRRLEIPLTLQELADRSGISVSHIGRIERGERFPSAKVLLRLACHLQYEENELF 75

Query: 75  DV-----SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            +      P     I +   +    +       L R     + V+V++ ++ L+
Sbjct: 76  ALAGYLTPPESPGSIDASPADRTPRLDPQVARILAR-----EPVEVQRSVVSLL 124


>gi|323341937|ref|ZP_08082170.1| XRE family transcriptional regulator [Erysipelothrix
          rhusiopathiae ATCC 19414]
 gi|322464362|gb|EFY09555.1| XRE family transcriptional regulator [Erysipelothrix
          rhusiopathiae ATCC 19414]
          Length = 63

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 27/56 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I+ +R  L ++Q++L +  G+T Q +   E            +I++ L++ +   F
Sbjct: 5  IKEKRKALKLTQQELADQTGVTRQTILAVEHNKYVPSLQLAFNIAKALKTDLQDVF 60


>gi|256846912|ref|ZP_05552366.1| transcriptional regulator [Fusobacterium sp. 3_1_36A2]
 gi|294784253|ref|ZP_06749548.1| toxin-antitoxin system, antitoxin component, Xre family
          [Fusobacterium sp. 3_1_27]
 gi|256717710|gb|EEU31269.1| transcriptional regulator [Fusobacterium sp. 3_1_36A2]
 gi|294488119|gb|EFG35470.1| toxin-antitoxin system, antitoxin component, Xre family
          [Fusobacterium sp. 3_1_27]
          Length = 94

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 34/65 (52%), Gaps = 1/65 (1%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N K P  + + + K +R RR  L ++QE+  +  G++F  ++++E     +    L  I+
Sbjct: 7  NIKTPKEIQLEIAKNVRKRRKELKLTQEEFSKKSGVSFGSIKRFEN-TGEISLFSLIKIA 65

Query: 64 EVLES 68
           +L+ 
Sbjct: 66 IILDC 70


>gi|254555930|ref|YP_003062347.1| transcription regulator [Lactobacillus plantarum JDM1]
 gi|254044857|gb|ACT61650.1| transcription regulator [Lactobacillus plantarum JDM1]
          Length = 122

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 35/81 (43%), Gaps = 1/81 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +R+   R     S+ ++   LG++  Q+   YE G N    + L+ I+++ +    +   
Sbjct: 11 RRLINLRDSRNWSKTEVARKLGLSSMQRYANYEYGTNEPDLNMLKQIADLYDVTTDYLLG 70

Query: 76 VSPTVCSDISSEENNVMDFIS 96
                  +  +  ++ DF++
Sbjct: 71 EDSASKWIVRKDTTDLKDFLT 91


>gi|226334782|ref|YP_002784454.1| putative Xre family DNA-binding protein [Rhodococcus opacus B4]
 gi|226246002|dbj|BAH56102.1| putative Xre family DNA-binding protein [Rhodococcus opacus B4]
          Length = 164

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 30/56 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G ++R +R+   ++ + L   +G T Q V  +E G +R     L  ++E L++ I+
Sbjct: 25 GDKLREQRVKARLTPDDLAARIGTTRQAVSTWETGRSRPAPEMLGLLAEALDTSIA 80


>gi|167465091|ref|ZP_02330180.1| transcriptional regulator [Paenibacillus larvae subsp. larvae
          BRL-230010]
          Length = 87

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 35/81 (43%), Gaps = 6/81 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG------ITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +GK I+  R+   +SQE+L E L       I    + K+E  +       ++H+S + + 
Sbjct: 5  IGKTIKELRIKHKLSQEELAEKLNKNFGTSINKGMISKWENDLGDPRLETVRHLSMLFDV 64

Query: 69 PISFFFDVSPTVCSDISSEEN 89
           + F   +       I++  +
Sbjct: 65 SLDFLLGLEKKEPETIAAHHD 85


>gi|83952252|ref|ZP_00960984.1| DNA-binding protein, putative [Roseovarius nubinhibens ISM]
 gi|83837258|gb|EAP76555.1| DNA-binding protein, putative [Roseovarius nubinhibens ISM]
          Length = 477

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 20/143 (13%), Positives = 55/143 (38%), Gaps = 24/143 (16%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P  +  G ++R  R  LG++Q+     LG++   + + E     V  + +  +++     
Sbjct: 15  PRKLYAGAKLRETRSRLGLTQKDFAARLGVSLPYLNQMENNNRPVSTTVVLALAQEFG-- 72

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTP----------------DGLQLNRYFIQIDDV 113
               FDV+     D     +++ + ++ P                +   L R F+++   
Sbjct: 73  ----FDVTELGSGDAERMVSDMREALADPVFSDPPPLSDLRLAAGNAPALARAFLELHAA 128

Query: 114 --KVRQKIIELVRSIVSSEKKYR 134
             +  +++  L  ++   + + +
Sbjct: 129 YRQTHERLASLDEALGRDDAQTQ 151


>gi|332158049|ref|YP_004423328.1| hypothetical protein PNA2_0406 [Pyrococcus sp. NA2]
 gi|331033512|gb|AEC51324.1| hypothetical protein PNA2_0406 [Pyrococcus sp. NA2]
          Length = 316

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 36/70 (51%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+++++ R   G +  +L   LGI+ + +Q+YEKG + V       + E+ + P+    D
Sbjct: 128 GRKLKMLREEHGYTLAELARILGISRKSLQRYEKGESVVSVEVALRLEEIFDEPLVKPID 187

Query: 76  VSPTVCSDIS 85
           V      D+S
Sbjct: 188 VLKARLEDVS 197


>gi|313114371|ref|ZP_07799903.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii KLE1255]
 gi|310623326|gb|EFQ06749.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii KLE1255]
          Length = 219

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 29/65 (44%), Gaps = 3/65 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE---KGVNRVGASRLQHISEVLESPISFFF 74
            ++  R + G+SQ +L     +  + +Q+YE   K +N+  A  L  ++  L   +    
Sbjct: 151 NLKAMRTLAGLSQSELAGQADVPVRTIQQYEQRQKDINKAQAETLLRLARALNCNVEDLM 210

Query: 75  DVSPT 79
           +  P 
Sbjct: 211 EKVPP 215


>gi|302379982|ref|ZP_07268461.1| helix-turn-helix protein [Finegoldia magna ACS-171-V-Col3]
 gi|302312208|gb|EFK94210.1| helix-turn-helix protein [Finegoldia magna ACS-171-V-Col3]
          Length = 67

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI   R  LG+SQ +L + +G+  + +  YE             I +VL   I   F
Sbjct: 7  NRIAEFRKELGLSQHRLAKAVGMKRRSIMAYENNTISPTLETAYKICKVLNKDIKEVF 64


>gi|300309752|ref|YP_003773844.1| transcription regulator protein [Herbaspirillum seropedicae SmR1]
 gi|300072537|gb|ADJ61936.1| transcription regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 89

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/50 (26%), Positives = 26/50 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++  R   G++Q ++   LG+T Q +   E+  ++V A RL  +  +L  
Sbjct: 16 LQAYRKQSGLTQSEVARRLGVTQQNLSSLERNADKVSAERLIELLNILGV 65


>gi|294678447|ref|YP_003579062.1| XRE family transcriptional regulator [Rhodobacter capsulatus SB
          1003]
 gi|294477267|gb|ADE86655.1| transcriptional regulator, XRE family [Rhodobacter capsulatus SB
          1003]
          Length = 249

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 24/57 (42%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          G R+   R    +SQ  LG  LG++   +   E G +    + LQ ++E       +
Sbjct: 6  GLRLSSWRKEQKLSQRALGSVLGVSQGYISDIESGRSEPSRNFLQALTERFGVSADW 62


>gi|291532702|emb|CBL05815.1| Helix-turn-helix [Megamonas hypermegale ART12/1]
          Length = 76

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 2/65 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV--NRVGASRLQHISEVLESPI 70
            +G RI   R +   +QE+L     I+   + + E+G+    V  S L  IS+ L+  I
Sbjct: 9  RLIGARIAYFRKLKRYTQEELAFRASISTSYLSRIERGIYSKGVPISTLMQISKALDIDI 68

Query: 71 SFFFD 75
             F+
Sbjct: 69 KLLFE 73


>gi|260427243|ref|ZP_05781222.1| helix-turn-helix domain protein [Citreicella sp. SE45]
 gi|260421735|gb|EEX14986.1| helix-turn-helix domain protein [Citreicella sp. SE45]
          Length = 228

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 35/76 (46%), Gaps = 2/76 (2%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +  + +  R +  ++QE L +  G+T + +QK E G +      L+ ++  L   I+ F
Sbjct: 10 YIATQCKYIRKMFSLTQENLADASGLTVRTIQKVESGRHVPEVQTLRSLARGLGFDITVF 69

Query: 74 FDVSPTVCSDISSEEN 89
              PT   +I  +E 
Sbjct: 70 --SKPTPEQEIRQQEE 83


>gi|258514722|ref|YP_003190944.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257778427|gb|ACV62321.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
          Length = 116

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 29/54 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G RIR  R   G +QE++ E +  T Q+  + EKG+     + +  I+++L  
Sbjct: 5  LGARIRALRESKGFTQEQVAEKMSCTRQKYARIEKGLIDTSYASITAIAQILGI 58


>gi|255292250|dbj|BAH89373.1| XRE family transcriptional regulator [uncultured bacterium]
 gi|255292348|dbj|BAH89468.1| XRE family transcriptional regulator [uncultured bacterium]
 gi|255292589|dbj|BAH89700.1| XRE family transcriptional regulator [uncultured bacterium]
 gi|255293091|dbj|BAH90185.1| XRE family transcriptional regulator [uncultured bacterium]
          Length = 168

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 35/71 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++R  R++LG+S  ++GE +G+T   + K E   ++   + L  +   L   +S  F
Sbjct: 25 IGAKLRHARLMLGLSLCEVGERIGVTEGYLSKLENNRSQASMATLHRLVGALGMNMSELF 84

Query: 75 DVSPTVCSDIS 85
            S      I+
Sbjct: 85 ATSSDDGLPIT 95


>gi|290580743|ref|YP_003485135.1| hypothetical protein SmuNN2025_1217 [Streptococcus mutans NN2025]
 gi|254997642|dbj|BAH88243.1| hypothetical protein [Streptococcus mutans NN2025]
          Length = 79

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 32/71 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I   R   GM+Q +L E + +T + V K+E+ ++    + +  ++E+ E  +    
Sbjct: 6  LGMMISSLRKEKGMTQLELAEKMRVTDKAVSKWERDLSFPDINSIPKLAEIFEVSVDDLM 65

Query: 75 DVSPTVCSDIS 85
           V       I 
Sbjct: 66 QVKTNTKETIG 76


>gi|222150597|ref|YP_002559750.1| hypothetical protein MCCL_0347 [Macrococcus caseolyticus
          JCSC5402]
 gi|222119719|dbj|BAH17054.1| conserved hypothetical protein [Macrococcus caseolyticus
          JCSC5402]
          Length = 167

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 31/62 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ IR  R    ++ +++ E   ++   + + E   +    + ++ I++ LE   S 
Sbjct: 1  MSIGENIRKIRKERELTLKQVAELTDLSIPFLSQLETNKSDATMATIRLIADALEVHPSQ 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|254382154|ref|ZP_04997515.1| DNA-binding protein [Streptomyces sp. Mg1]
 gi|194341060|gb|EDX22026.1| DNA-binding protein [Streptomyces sp. Mg1]
          Length = 269

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 26/56 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG  +R  R   G+SQ +L    G + + +   E G  R     L  +++ L+ P+
Sbjct: 9  VGALLRTWRGRRGISQLELAGRAGSSSRHISFVETGRARPSEELLLRLADQLDVPV 64


>gi|171916012|ref|ZP_02931482.1| transcriptional regulator, XRE family protein [Verrucomicrobium
          spinosum DSM 4136]
          Length = 70

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 30/67 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R    ++Q++LG+ LG++ Q V   E   +         IS V + P+   F  
Sbjct: 3  NRLKVLRAEHNLTQDELGKILGVSRQAVNALETEKHSPSLDLAYRISTVFKQPVEQIFQN 62

Query: 77 SPTVCSD 83
            T   +
Sbjct: 63 PHTGEGE 69


>gi|119433803|gb|ABL74963.1| TlmR2 [Streptoalloteichus hindustanus]
          Length = 399

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 28/64 (43%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P   D ++G+ I   R   G++Q +L     I+   +QK E G      S +  ++  L
Sbjct: 1  MPLDDDTHIGRTIARFRKAAGLNQHQLAARANISLSLLQKVEIGDRAANHSTIAGVARAL 60

Query: 67 ESPI 70
            P 
Sbjct: 61 HLPP 64


>gi|56695066|ref|YP_165413.1| DNA binding protein, putative [Ruegeria pomeroyi DSS-3]
 gi|56676803|gb|AAV93469.1| DNA binding protein, putative [Ruegeria pomeroyi DSS-3]
          Length = 189

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 25/53 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           R++  R   G+S E +    G++   V + E+G +    + L +++  L+  
Sbjct: 14 ARLKEARRAQGLSLEAVANLSGVSRSMVSQIERGESSPTIATLWNLTRALQVD 66


>gi|327398850|ref|YP_004339719.1| helix-turn-helix domain-containing protein [Hippea maritima DSM
           10411]
 gi|327181479|gb|AEA33660.1| helix-turn-helix domain protein [Hippea maritima DSM 10411]
          Length = 191

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 26/139 (18%), Positives = 57/139 (41%), Gaps = 18/139 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPISFF 73
           +G+R++  R   G+SQ+++ E + +T +  Q+YEK   +    +L  I   L +   ++ 
Sbjct: 5   LGERLKAIRQAKGLSQKEMAEIMDVTLRAYQRYEKDEQKASYEKLARIVYELKDINSNWL 64

Query: 74  F--------------DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI 119
                          +    +  D+S      ++ +S  D L      +   +   R ++
Sbjct: 65  LTGEGDMFIKNGMPEEFLERLKEDLSKASAESVNSLSFKDRLD---AVLSGREKLERVEV 121

Query: 120 IELVRSIVSSEKKYRTIEE 138
           IEL R +    ++Y  +  
Sbjct: 122 IELARVLKQPAEEYLKLAN 140


>gi|291536934|emb|CBL10046.1| Helix-turn-helix [Roseburia intestinalis M50/1]
          Length = 191

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 32/60 (53%), Gaps = 4/60 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI+  R   GM+Q++LGE LG     +  ++ +YE          ++ +S++ + 
Sbjct: 1  MAIGQRIKFFRNRKGMTQKQLGEQLGFKGKTSDVRMAQYESEARVPKIDLVKQMSQIFDV 60


>gi|317132647|ref|YP_004091961.1| helix-turn-helix domain protein [Ethanoligenens harbinense
          YUAN-3]
 gi|315470626|gb|ADU27230.1| helix-turn-helix domain protein [Ethanoligenens harbinense
          YUAN-3]
          Length = 169

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 32/60 (53%), Gaps = 4/60 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RIR  R + GM+Q+ LG  +G   +    +V +YE G      + ++ I+  L+ 
Sbjct: 1  MAIGERIRFIRNLRGMTQKWLGMAIGFDKRTADVRVAQYEAGTRTPKGNLVESIARALDI 60


>gi|262204600|ref|YP_003275808.1| XRE family transcriptional regulator [Gordonia bronchialis DSM
           43247]
 gi|262087947|gb|ACY23915.1| helix-turn-helix domain protein [Gordonia bronchialis DSM 43247]
          Length = 233

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/90 (15%), Positives = 33/90 (36%), Gaps = 2/90 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + + +R  R+  G+S   +   +GI+   + K E        S L  ++   +   +  F
Sbjct: 50  IARNVRRLRLQEGLSVGDMAARVGISKAMLSKIENAQTSCSLSTLARLATAFDVSPTSLF 109

Query: 75  DVSPTVCSDISSEENNVMDFIS--TPDGLQ 102
             +    S +  +       I   + +G +
Sbjct: 110 RGADIERSAVFVKNGEGSQIIREGSREGHE 139


>gi|257418469|ref|ZP_05595463.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          T11]
 gi|257160297|gb|EEU90257.1| cro/CI family transcriptional regulator [Enterococcus faecalis
          T11]
          Length = 250

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 24 KQVGARMRETRKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 83

Query: 72 FF 73
          + 
Sbjct: 84 WL 85


>gi|255005001|ref|ZP_05143602.2| helix-turn-helix domain-containing protein [Staphylococcus aureus
          subsp. aureus Mu50-omega]
          Length = 52

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/51 (31%), Positives = 26/51 (50%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          M+Q++L   +G+T Q +   EKGV+    S  ++I  VL   +   F   P
Sbjct: 1  MTQKELANKVGVTRQTISLIEKGVHNPSLSLCKNICSVLNKNLDEIFGEKP 51


>gi|239832573|ref|ZP_04680902.1| XRE family transcriptional regulator [Ochrobactrum intermedium
          LMG 3301]
 gi|239824840|gb|EEQ96408.1| XRE family transcriptional regulator [Ochrobactrum intermedium
          LMG 3301]
          Length = 182

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 37/86 (43%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I++G R+R  RM   +SQ +L +  G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSIDIGGRLRYVRMRQNLSQRELAKRAGVTNSTISLIEANQSNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF + P     +  +   +++ 
Sbjct: 59 GMAEFFALEPDAPHKVFYQAEELVEI 84


>gi|238922230|ref|YP_002935744.1| hypothetical protein EUBELI_20465 [Eubacterium eligens ATCC 27750]
 gi|238873902|gb|ACR73610.1| Hypothetical protein EUBELI_20465 [Eubacterium eligens ATCC 27750]
          Length = 110

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 20/112 (17%), Positives = 44/112 (39%), Gaps = 15/112 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GK+++  R+  G+ Q+ +     +    +   E    +V    L +I   L   + +  
Sbjct: 13  IGKKLKEIRLSKGLPQDAVASVAEVNTSHISNIENNRVKVSLPTLIYICNALGVTVDY-- 70

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                    + S E    D     + ++  + F   DD K R  ++ +VR++
Sbjct: 71  ---------VLSGEYASDDSAIDREIMKELQSFS--DDEKER--VLRVVRAL 109


>gi|228918935|ref|ZP_04082320.1| hypothetical protein bthur0012_60380 [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
 gi|228840737|gb|EEM85994.1| hypothetical protein bthur0012_60380 [Bacillus thuringiensis
          serovar pulsiensis BGSC 4CC1]
          Length = 51

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/47 (29%), Positives = 22/47 (46%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          MSQE L   +G+  + +   E G           I++VL++PI   F
Sbjct: 1  MSQEDLANEVGVRRETIGNLENGKYNPSFKLTYDIAKVLKAPIEVLF 47


>gi|207721971|ref|YP_002252409.1| hypothetical protein RSMK02286 [Ralstonia solanacearum MolK2]
 gi|207744683|ref|YP_002261075.1| hypothetical protein RSIPO_02894 [Ralstonia solanacearum IPO1609]
 gi|206587144|emb|CAQ17728.1| hypothetical protein RSMK02286 [Ralstonia solanacearum MolK2]
 gi|206596090|emb|CAQ63017.1| hypothetical protein RSIPO_02894 [Ralstonia solanacearum IPO1609]
          Length = 113

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 28/71 (39%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +   P P+   +G+RI+  R     SQE L     +    +   E+G+       L ++ 
Sbjct: 13 STSRPAPILTALGERIKQCRHAADKSQETLAFEAHVDRTYISSIERGIANPSVETLANLC 72

Query: 64 EVLESPISFFF 74
            L   ++  F
Sbjct: 73 YALNVTLAELF 83


>gi|188532563|ref|YP_001906360.1| Putative transcriptional regulator [Erwinia tasmaniensis Et1/99]
 gi|188027605|emb|CAO95455.1| Putative transcriptional regulator [Erwinia tasmaniensis Et1/99]
          Length = 87

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 35/71 (49%), Gaps = 4/71 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+  G SQ+KLG   GI       ++ +YE+G++      +  ++ VL+ P  + 
Sbjct: 5  RLKEARLKKGFSQQKLGVLAGIDEATASARMNQYERGIHVPDFELVCRLAAVLDVPACYL 64

Query: 74 FDVSPTVCSDI 84
          + +   +   I
Sbjct: 65 YTLEDDLAGQI 75


>gi|149920439|ref|ZP_01908908.1| DNA-binding response regulator [Plesiocystis pacifica SIR-1]
 gi|149818754|gb|EDM78197.1| DNA-binding response regulator [Plesiocystis pacifica SIR-1]
          Length = 199

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 30/62 (48%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I +GKRIR  R    ++ +++G    ++   + + E+  +    S L  I+  L+  IS 
Sbjct: 135 ITIGKRIREVRRQRSLTLKQMGRRTNLSVSLLSQIERAESSASVSSLFKIANALDVRISE 194

Query: 73  FF 74
            F
Sbjct: 195 LF 196


>gi|126738636|ref|ZP_01754341.1| DNA binding protein, putative [Roseobacter sp. SK209-2-6]
 gi|126720435|gb|EBA17141.1| DNA binding protein, putative [Roseobacter sp. SK209-2-6]
          Length = 188

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 27/61 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R   G+S E +    G++   V + E+G +    + L +++  L+   +   + 
Sbjct: 14 ARLKEARRAQGLSLEAVANLSGVSRSMVSQIERGESSPTIATLWNLTRALQVDFAGLLED 73

Query: 77 S 77
           
Sbjct: 74 G 74


>gi|116695951|ref|YP_841527.1| XRE family transcriptional regulator [Ralstonia eutropha H16]
 gi|113530450|emb|CAJ96797.1| transcriptional regulator, XRE-family [Ralstonia eutropha H16]
          Length = 196

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 38/92 (41%), Gaps = 5/92 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++R  R++ G +  +L    G +   + K E+G+     + L  ++  L++ I    
Sbjct: 21  LGVKLRHARLVAGYTLLQLAGKAGCSESLISKIERGLATPSFTTLHRLAVALDTNIGALT 80

Query: 75  -DVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            D  P     +   E  V+       G+ L R
Sbjct: 81  SDEEPNQSPILRHGERPVI----RAGGVALER 108


>gi|124268515|ref|YP_001022519.1| putative transcription regulator protein [Methylibium
          petroleiphilum PM1]
 gi|124261290|gb|ABM96284.1| putative transcription regulator protein [Methylibium
          petroleiphilum PM1]
          Length = 94

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/50 (28%), Positives = 25/50 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++  R   G++Q  L   LG+T Q +   E+    V A+RL  +  +L+ 
Sbjct: 16 LQSFRKAAGLTQADLAARLGVTQQTLSALERNAGTVSAARLMKLLSILDV 65


>gi|310826136|ref|YP_003958493.1| hypothetical protein ELI_0514 [Eubacterium limosum KIST612]
 gi|308737870|gb|ADO35530.1| hypothetical protein ELI_0514 [Eubacterium limosum KIST612]
          Length = 220

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 5/75 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI---SEVLESP 69
            VG+RI+ RR+ L +S  +LG+ + +    +Q+YE   + V   R   I   +E L + 
Sbjct: 10 KQVGERIKERRIELKLSMPELGKRISVNKSTIQRYE--ADGVDPKRTMIINGLAEALLTT 67

Query: 70 ISFFFDVSPTVCSDI 84
            +   +S     D 
Sbjct: 68 PEWLTGLSEEKEYDA 82


>gi|228911093|ref|ZP_04074900.1| Transcription regulator, probable-related protein [Bacillus
          thuringiensis IBL 200]
 gi|228848597|gb|EEM93444.1| Transcription regulator, probable-related protein [Bacillus
          thuringiensis IBL 200]
          Length = 68

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            ++  R   G+SQ +L + + +  Q +   E        +    +++ L++ ++  F
Sbjct: 7  NNVKKYRKSEGLSQLELAKKVNVARQTINLIENNKYNPSLALCIELAKALKTDLNSLF 64


>gi|227486708|ref|ZP_03917024.1| transcriptional regulator [Anaerococcus lactolyticus ATCC 51172]
 gi|227235296|gb|EEI85311.1| transcriptional regulator [Anaerococcus lactolyticus ATCC 51172]
          Length = 134

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 11/79 (13%), Positives = 33/79 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R+   ++QE++ E L ++ Q +  +E          +  +S++ +  +  
Sbjct: 1  MKIGDKLKNARLHKKLTQEEVAEKLFVSRQSISNWENNKTYPDIGNVIALSDLYQISLDE 60

Query: 73 FFDVSPTVCSDISSEENNV 91
              S      +    + V
Sbjct: 61 LLKGSDNFMKHLEESTDIV 79


>gi|253702724|ref|YP_003023913.1| XRE family transcriptional regulator [Geobacter sp. M21]
 gi|251777574|gb|ACT20155.1| transcriptional regulator, XRE family [Geobacter sp. M21]
          Length = 307

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 33/76 (43%), Gaps = 5/76 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR---VGASRLQHISEVLESPISF 72
          G RIR  R    ++Q  +   +G+T   + ++E   NR   +     Q +++ LE P+  
Sbjct: 20 GTRIRTVREAKRLTQLYVANVVGVTTDTISRWEN--NRYPSIKRENAQKLADALEVPLVD 77

Query: 73 FFDVSPTVCSDISSEE 88
                TV  D +  +
Sbjct: 78 ILREETTVPEDEAGAD 93


>gi|157961107|ref|YP_001501141.1| XRE family transcriptional regulator [Shewanella pealeana ATCC
           700345]
 gi|157846107|gb|ABV86606.1| transcriptional regulator, XRE family [Shewanella pealeana ATCC
           700345]
          Length = 118

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 32/86 (37%), Gaps = 2/86 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  +   R  LGM Q ++    GI+   + + EKG   +   +L  I   L        
Sbjct: 11  VGFELEKIRKELGMEQSEVSVATGISQPVLSRLEKGKAMITIDQLFVICGALGVKPEDII 70

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
             +       S+EE   +   +T + 
Sbjct: 71  SKTSKGVEAFSTEEA--VKVTTTKEA 94


>gi|221068405|ref|ZP_03544510.1| transcriptional regulator, XRE family [Comamonas testosteroni KF-1]
 gi|220713428|gb|EED68796.1| transcriptional regulator, XRE family [Comamonas testosteroni KF-1]
          Length = 491

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 20/125 (16%), Positives = 54/125 (43%), Gaps = 14/125 (11%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G R+R  R   G++Q  L + L ++   + + E+    +  S L  I  VL   I  F
Sbjct: 5   FMGVRLRSLRAERGLTQVALAQALELSPSYLNQIEQDQRPLTVSVLLRIHRVLGVDIQQF 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ---KIIELVRSIVSSE 130
              S    + + ++  + +  +  P+          +   ++R+   ++ +L +++++  
Sbjct: 65  ---SEDEEARLLAQLRDAVAAMPLPEA--------AVPLPELREVAARLPQLAQALLAIH 113

Query: 131 KKYRT 135
           +++  
Sbjct: 114 QRHLA 118


>gi|18311546|ref|NP_563480.1| hypothetical protein CPE2564 [Clostridium perfringens str. 13]
 gi|18146230|dbj|BAB82270.1| conserved hypothetical protein [Clostridium perfringens str. 13]
          Length = 223

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 33/57 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG+RI+  R   GM+Q+ L + LG+  + V + E G   +  S +  +S+VL + ++
Sbjct: 4  VGERIKEAREKSGMTQKALAKKLGVAEKFVNEVETGRKIINESLISKVSKVLNTDLN 60


>gi|146297530|ref|YP_001181301.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
          saccharolyticus DSM 8903]
 gi|145411106|gb|ABP68110.1| helix-turn-helix domain protein [Caldicellulosiruptor
          saccharolyticus DSM 8903]
          Length = 373

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 30/61 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I        +  ++L + +G+T Q + KY +G   + + +L  I+E    P+ +F 
Sbjct: 7  IGNNIHALMKKQNVKIKQLADLIGVTRQTMTKYLEGEVIIDSEKLFKIAEFFGKPLDYFL 66

Query: 75 D 75
          +
Sbjct: 67 E 67


>gi|77412917|ref|ZP_00789121.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 515]
 gi|77161057|gb|EAO72164.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 515]
          Length = 76

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/63 (19%), Positives = 28/63 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KR++  R   G+ Q+++   LGI       +E G +      +  ++++ ++   F   V
Sbjct: 14 KRLKSLRQESGLKQQEIAPLLGIKQNTYSDWETGKSEPNLENVVKLAKLFKTTTDFLLGV 73

Query: 77 SPT 79
          +  
Sbjct: 74 TDD 76


>gi|119714341|ref|YP_921306.1| helix-turn-helix domain-containing protein [Nocardioides sp.
          JS614]
 gi|119535002|gb|ABL79619.1| helix-turn-helix domain protein [Nocardioides sp. JS614]
          Length = 210

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 29/89 (32%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G     + V   + + I   R   G+S   L +  G+    +   E+GV       + 
Sbjct: 1  MNGRTPAQSFVSGPLSRAILRLRTQRGLSLSALADQSGVAKGTLSNLERGVGNPTLETIF 60

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEEN 89
           +S  L  PI           S     ++
Sbjct: 61 ALSRGLGVPIGELVSSEEEAASTFVGRDD 89


>gi|332826638|gb|EGJ99467.1| hypothetical protein HMPREF9455_00500 [Dysgonomonas gadei ATCC
          BAA-286]
          Length = 72

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 23/54 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          VG +IR  R    +S   L + L I +  + + EKG        L  I + L+ 
Sbjct: 10 VGLKIREIRESRDLSMMDLADKLDIEYNNLIRIEKGRTNPTLGTLYKICQALDV 63


>gi|302058988|ref|ZP_07250529.1| peptidase [Pseudomonas syringae pv. tomato K40]
          Length = 81

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 34/85 (40%), Gaps = 10/85 (11%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G K         +G R++L R   G++Q +L E +G++   + + E+G     A    
Sbjct: 1  MSGAKNSST-----LGGRVKLARDATGLTQLELAELVGVSQAAISEIERGE---SARTAY 52

Query: 61 --HISEVLESPISFFFDVSPTVCSD 83
             IS    + I +         S+
Sbjct: 53 LPEISRACGADIQWLAFGGERPASE 77


>gi|298240985|ref|ZP_06964792.1| transcriptional regulator, XRE family [Ktedonobacter racemifer
          DSM 44963]
 gi|297554039|gb|EFH87903.1| transcriptional regulator, XRE family [Ktedonobacter racemifer
          DSM 44963]
          Length = 1237

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 22/89 (24%), Positives = 37/89 (41%), Gaps = 12/89 (13%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESP 69
          +D   G+R+   R  +G++QE L   LGIT + + ++E G     A+ LQ  ++  L+  
Sbjct: 9  LDYVFGQRMLALRTSIGLTQEGLAAALGITRKTIGRWEAGEMYPKAAHLQALLAFALQ-- 66

Query: 70 ISFFFDVSPTVCSDISSEENNVMDFISTP 98
                           EE  +  F S  
Sbjct: 67 ---------QGAFAAGQEEEEIRAFWSAA 86


>gi|293570317|ref|ZP_06681377.1| DNA-binding protein [Enterococcus faecium E980]
 gi|291609596|gb|EFF38858.1| DNA-binding protein [Enterococcus faecium E980]
          Length = 370

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + K +   R   G++QE L E +G+T   V K+E G +      L  ++   +  + 
Sbjct: 6  LSKNVANLRKKKGVTQETLAEFIGVTKASVSKWETGQSMPDVLILPKLASFFDVSVD 62


>gi|288870629|ref|ZP_06114758.2| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium hathewayi DSM 13479]
 gi|288866515|gb|EFC98813.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium hathewayi DSM 13479]
          Length = 127

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/73 (17%), Positives = 29/73 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R++  R   G +Q  L + +G++   +   E   +      ++ I   L    S+  
Sbjct: 7  IGARLKQARSSKGYTQNSLADAIGVSRGVITNIEHEKSEPQMLVIRGICYELGINSSWLL 66

Query: 75 DVSPTVCSDISSE 87
               + S+  +E
Sbjct: 67 QGEGPMESEKDAE 79


>gi|251778460|ref|ZP_04821380.1| helix-turn-helix domain protein [Clostridium botulinum E1 str.
          'BoNT E Beluga']
 gi|243082775|gb|EES48665.1| helix-turn-helix domain protein [Clostridium botulinum E1 str.
          'BoNT E Beluga']
          Length = 432

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 34/79 (43%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ RR  L M+ + L +   IT  Q+   E G +      L++++  L   I    
Sbjct: 6  LGEKIKTRRKELNMTLKDLAKN-RITPGQISLIESGRSNPSMDLLEYLAATLNISIEHLM 64

Query: 75 DVSPTVCSDISSEENNVMD 93
          +   +    IS     V +
Sbjct: 65 ESEESQAEKISIYYEQVAE 83


>gi|206579409|ref|YP_002238593.1| DNA-binding protein [Klebsiella pneumoniae 342]
 gi|288935580|ref|YP_003439639.1| XRE family transcriptional regulator [Klebsiella variicola At-22]
 gi|206568467|gb|ACI10243.1| DNA-binding protein [Klebsiella pneumoniae 342]
 gi|288890289|gb|ADC58607.1| transcriptional regulator, XRE family [Klebsiella variicola At-22]
          Length = 160

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/100 (19%), Positives = 41/100 (41%), Gaps = 18/100 (18%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +++  R+    SQE+L E  G++ + +Q+ E G  R G   L  ++ V E  ++   ++
Sbjct: 5   NQVKQLRLQRAWSQEQLAEMAGLSVRTIQRIENGE-RPGLETLSALAAVFEVTVA---EI 60

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
                 + +      +D               +I++ K R
Sbjct: 61  GGEASREGAPGPEASLDL--------------RIEEAKAR 86


>gi|182680496|ref|YP_001834642.1| XRE family transcriptional regulator [Beijerinckia indica subsp.
           indica ATCC 9039]
 gi|182636379|gb|ACB97153.1| transcriptional regulator, XRE family [Beijerinckia indica subsp.
           indica ATCC 9039]
          Length = 477

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 37/89 (41%), Gaps = 1/89 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G +IR  R    ++Q    E LGI+   + + E     + AS L  +++     +S F  
Sbjct: 8   GTQIRRLREAHALTQGAFAERLGISPSYLNQIENNQRPLSASVLLSLAQSFSVDLSEFAQ 67

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL 103
           + +  +  D+     + +    TP G  L
Sbjct: 68  EDTDRLIGDLKEALADPLFSGLTPSGQDL 96


>gi|154506244|ref|ZP_02042982.1| hypothetical protein RUMGNA_03786 [Ruminococcus gnavus ATCC
          29149]
 gi|153793743|gb|EDN76163.1| hypothetical protein RUMGNA_03786 [Ruminococcus gnavus ATCC
          29149]
          Length = 162

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 30/55 (54%), Gaps = 3/55 (5%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKG---VNRVGASRLQHISEVLESPI 70
          ++  R  + M+Q++L E  GI  +Q+QKYE G    +++       +++ LE  +
Sbjct: 19 LKELRKFMNMTQKELAEKSGINLRQIQKYEYGEYDTSKMMLRNAIALADALECDV 73


>gi|16798819|ref|NP_463497.1| putative repressor protein [Listeria phage A118]
 gi|254825098|ref|ZP_05230099.1| phage protein [Listeria monocytogenes FSL J1-194]
 gi|254901046|ref|ZP_05260970.1| hypothetical protein LmonJ_14568 [Listeria monocytogenes J0161]
 gi|254914004|ref|ZP_05264016.1| conserved hypothetical protein [Listeria monocytogenes J2818]
 gi|254933700|ref|ZP_05267059.1| phage protein [Listeria monocytogenes HPB2262]
 gi|5823634|emb|CAB53822.1| putative repressor protein [Listeria phage A118]
 gi|293585264|gb|EFF97296.1| phage protein [Listeria monocytogenes HPB2262]
 gi|293592021|gb|EFG00356.1| conserved hypothetical protein [Listeria monocytogenes J2818]
 gi|293594341|gb|EFG02102.1| phage protein [Listeria monocytogenes FSL J1-194]
 gi|332310432|gb|EGJ23527.1| Cro/CI family transcriptional regulator [Listeria monocytogenes
           str. Scott A]
          Length = 101

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/102 (14%), Positives = 42/102 (41%), Gaps = 2/102 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +GK+I   R   G+SQ +L + L ++   +  +E     +    +  +++       +
Sbjct: 1   MTIGKKISELRNKRGISQIQLAKDLNVSTSTIGMWETDKRAIKDELIVQLADYFNVTTDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
                    SD+ +    + + ++  + +++ +Y   I   K
Sbjct: 61  LLGREKFDNSDLLAAH--IDNDLTEEERIEIEKYLKFIRSQK 100


>gi|325568103|ref|ZP_08144544.1| hypothetical protein HMPREF9087_0833 [Enterococcus casseliflavus
           ATCC 12755]
 gi|325158304|gb|EGC70455.1| hypothetical protein HMPREF9087_0833 [Enterococcus casseliflavus
           ATCC 12755]
          Length = 206

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 26/59 (44%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +  G++I+  R    ++QE+    L +T Q V  +E   N      L  I+ + +  + 
Sbjct: 50  MEFGEKIKEVRTRNNLTQEQFATQLHVTRQAVSNWENNRNLPDLEMLIAIATIFQLSLD 108


>gi|312888142|ref|ZP_07747725.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
 gi|311299409|gb|EFQ76495.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
          Length = 69

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 27/62 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG RIR  R   G+SQ+ L     +    +   E G   +    L+ I++ L+  +S  F
Sbjct: 7  VGSRIREIREKNGISQKDLSYTADLDRSYIASVENGQRNISIVNLEKIAKALKVNLSELF 66

Query: 75 DV 76
            
Sbjct: 67 QG 68


>gi|227329661|ref|ZP_03833685.1| putative DNA-binding protein [Pectobacterium carotovorum subsp.
           carotovorum WPP14]
          Length = 188

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 14/94 (14%), Positives = 36/94 (38%), Gaps = 2/94 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + +   +G  ++  R   G S  +  E  G++   + + E+G +    + L  I+  +
Sbjct: 1   MSDELTRRIGNTLKTLRQEKGWSLTRAAEETGVSKAMLGQIERGESSPTVATLWKIATGM 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
               S F +  PT+  +  +  +         + 
Sbjct: 61  NVAFSSFIE--PTLADEDVTYRSGTGSSFRENEA 92


>gi|221316986|ref|YP_002533130.1| prophage LambdaBa02, repressor protein [Bacillus cereus Q1]
 gi|221243318|gb|ACM16026.1| prophage LambdaBa02, repressor protein [Bacillus cereus Q1]
          Length = 112

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 28/79 (35%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RI+  R   G +Q+ LGE +G     +   E          +   ++VL+    +   
Sbjct: 3  GERIKQLRKARGWTQDDLGEAVGFKKATISLIENNKRNREERSVTKFADVLDCTTDYLLG 62

Query: 76 VSPTVCSDISSEENNVMDF 94
          +S               DF
Sbjct: 63 LSDDPKLSGEQNTRLKKDF 81


>gi|91780477|ref|YP_555684.1| XRE family transcriptional regulator [Burkholderia xenovorans
          LB400]
 gi|91693137|gb|ABE36334.1| transcriptional regulator, XRE family [Burkholderia xenovorans
          LB400]
          Length = 119

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 4/66 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+   ++QE+LG   GI       ++ +YE+G +       Q ++  L  P SF
Sbjct: 13 KRLKEARVRARLTQEQLGINAGIDEFSASARINQYERGKHLPHLLMGQRLARALHVPTSF 72

Query: 73 FFDVSP 78
           ++   
Sbjct: 73 LYEEDD 78


>gi|126452632|ref|YP_001067412.1| DNA-binding protein [Burkholderia pseudomallei 1106a]
 gi|242317409|ref|ZP_04816425.1| DNA-binding protein [Burkholderia pseudomallei 1106b]
 gi|126226274|gb|ABN89814.1| DNA-binding protein [Burkholderia pseudomallei 1106a]
 gi|242140648|gb|EES27050.1| DNA-binding protein [Burkholderia pseudomallei 1106b]
          Length = 195

 Score = 51.0 bits (121), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 12/71 (16%), Positives = 30/71 (42%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   
Sbjct: 2  DINQLIARRVRALRDLRGYSLDALAERSKVSRSNISLIERAQSNPTAVVLERLANALGVS 61

Query: 70 ISFFFDVSPTV 80
          ++  F+     
Sbjct: 62 LASLFEDDRAA 72


>gi|332534116|ref|ZP_08409964.1| hypothetical protein PH505_bb00220 [Pseudoalteromonas
          haloplanktis ANT/505]
 gi|332036405|gb|EGI72874.1| hypothetical protein PH505_bb00220 [Pseudoalteromonas
          haloplanktis ANT/505]
          Length = 208

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 32/68 (47%), Gaps = 1/68 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFFFD 75
          +R+R  R+  G+SQ +  E +G+   +V  YE  +N+ V    L+  ++     + + + 
Sbjct: 18 ERMRKARINAGLSQREAAEKIGVGQSRVSNYENEINKNVPPEFLKLCAKAYNCSLEYLYG 77

Query: 76 VSPTVCSD 83
           +  +   
Sbjct: 78 FTDEIEGG 85


>gi|317486514|ref|ZP_07945338.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
           3_1_6]
 gi|316922243|gb|EFV43505.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
           3_1_6]
          Length = 114

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 44/99 (44%), Gaps = 3/99 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I  RR ILGM+Q +L   L +    + + E G      +R++ +++VLE  ++  F
Sbjct: 13  LGNSIVERRKILGMTQIELANRLDMAPDALSRIENGYVAPRFNRIEEMAKVLECSVAELF 72

Query: 75  DVSPTVCSDISSEENNVMDFIST---PDGLQLNRYFIQI 110
                     S    +++  +      + + L  +F+ I
Sbjct: 73  REKNDSLKTRSDCIADIISPLPAEKQEEVISLVSHFVSI 111


>gi|310657705|ref|YP_003935426.1| DNA-binding protein [Clostridium sticklandii DSM 519]
 gi|308824483|emb|CBH20521.1| DNA-binding protein [Clostridium sticklandii]
          Length = 183

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/93 (16%), Positives = 38/93 (40%), Gaps = 6/93 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +  +I+  R   G + + L +   ++   + + E G + +  + L+ + +    P+++FF
Sbjct: 7   IADKIKELRKEKGYTLKDLADKTELSVSFLSQVENGSSSLAITSLKKLVDAFSVPMTYFF 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL--QLNR 105
               T    +  +E          +GL  +  R
Sbjct: 67  YSMETHNYHVKIDEQKSFKM----EGLPSEFVR 95


>gi|302521866|ref|ZP_07274208.1| conserved hypothetical protein [Streptomyces sp. SPB78]
 gi|302430761|gb|EFL02577.1| conserved hypothetical protein [Streptomyces sp. SPB78]
          Length = 214

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 14/69 (20%)

Query: 13 INVGKRIRLRRMILGMSQEKLG-----------ECLGITFQQVQKYEKGVNRVGASRLQH 61
          +N+G+RIR RR+ LG SQE+L            E LG   Q++ +YE G  R     L  
Sbjct: 4  MNIGERIRDRRLQLGWSQERLAREACRVAGVGPEKLG--RQEIYRYETGR-RTPRDWLAP 60

Query: 62 ISEVLESPI 70
          I++ L   +
Sbjct: 61 IAQALGLSV 69


>gi|283833052|ref|ZP_06352793.1| DNA-binding protein [Citrobacter youngae ATCC 29220]
 gi|291070671|gb|EFE08780.1| DNA-binding protein [Citrobacter youngae ATCC 29220]
          Length = 178

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 31/80 (38%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R     S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LRTLRHQREWSLSRLAEETGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PESDGTPTFDPQQQAMVVTP 89


>gi|283768120|ref|ZP_06341035.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          H19]
 gi|283461999|gb|EFC09083.1| transcriptional regulator [Staphylococcus aureus subsp. aureus
          H19]
          Length = 79

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 31/56 (55%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R+  GMSQ+K    LG+ +Q +  +EK  + +  S++  + ++   P+ + F
Sbjct: 9  LRAARINNGMSQKKAASLLGVHYQTLASWEKDSSDLSRSKMLLMEKIYSIPLEYIF 64


>gi|270261649|ref|ZP_06189922.1| XRE family transcriptional regulator [Serratia odorifera 4Rx13]
 gi|270045133|gb|EFA18224.1| XRE family transcriptional regulator [Serratia odorifera 4Rx13]
          Length = 187

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/73 (17%), Positives = 29/73 (39%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++ + ++  R   G S  +  E  G++   + + E+G +    + L  I+       S F
Sbjct: 7  HLAQTLKSLRAQRGWSLAQAAENTGVSKAMLGQIERGESSPTVATLWKIATGFNVAFSAF 66

Query: 74 FDVSPTVCSDISS 86
           ++SP        
Sbjct: 67 LEISPLQEQATLH 79


>gi|257875245|ref|ZP_05654898.1| conserved hypothetical protein [Enterococcus casseliflavus EC20]
 gi|257809411|gb|EEV38231.1| conserved hypothetical protein [Enterococcus casseliflavus EC20]
          Length = 204

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 39/79 (49%), Gaps = 6/79 (7%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I+  R+ LG++Q+++ E L +T Q +  +E   +      L  +S++ +     
Sbjct: 1  MTIAEKIKESRLKLGLTQQEVSEKLFVTRQTISNWENNRSTPDIDTLIKLSDLYQI---- 56

Query: 73 FFDVSPTVCSDISSEENNV 91
            D+   +  +  +EE  +
Sbjct: 57 --DLESLLKPEQLAEEPEI 73


>gi|238894952|ref|YP_002919686.1| putative regulator [Klebsiella pneumoniae NTUH-K2044]
 gi|238547268|dbj|BAH63619.1| putative regulator [Klebsiella pneumoniae subsp. pneumoniae
          NTUH-K2044]
          Length = 193

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 29/65 (44%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + ++  +  RIR+ R   G S   L E  G +   + K E+G +   AS L  +S   
Sbjct: 4  IEDNLNQRISARIRIERESRGWSLNDLAERAGASRAMIHKIERGESSPTASMLGRLSGAF 63

Query: 67 ESPIS 71
             +S
Sbjct: 64 GISMS 68


>gi|225873562|ref|YP_002755021.1| DNA-binding protein [Acidobacterium capsulatum ATCC 51196]
 gi|225793885|gb|ACO33975.1| DNA-binding protein [Acidobacterium capsulatum ATCC 51196]
          Length = 63

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G SQ  L + LG++ Q V   E G           ++ +   PI   F
Sbjct: 3  NRLRDLRAERGWSQADLAQELGVSRQSVNAIETGRFDPSLPLAFKLARLFGEPIEKIF 60


>gi|209519410|ref|ZP_03268207.1| transcriptional regulator, XRE family [Burkholderia sp. H160]
 gi|209500149|gb|EEA00208.1| transcriptional regulator, XRE family [Burkholderia sp. H160]
          Length = 212

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 11/77 (14%), Positives = 28/77 (36%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++I+  R    M+ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 35  VGEQIQRLRAERRMTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGVSLDSLF 94

Query: 75  DVSPTVCSDISSEENNV 91
                      S  +++
Sbjct: 95  AQPKPPEVIAVSGPHDI 111


>gi|167912242|ref|ZP_02499333.1| DNA-binding protein [Burkholderia pseudomallei 112]
          Length = 195

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/71 (16%), Positives = 30/71 (42%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   
Sbjct: 2  DINQLIARRVRALRDLRGYSLDALAERSKVSRSNISLIERAQSNPTAVVLERLANALGVS 61

Query: 70 ISFFFDVSPTV 80
          ++  F+     
Sbjct: 62 LASLFEDDRAA 72


>gi|152970466|ref|YP_001335575.1| putative regulator [Klebsiella pneumoniae subsp. pneumoniae MGH
          78578]
 gi|330003695|ref|ZP_08304714.1| DNA-binding helix-turn-helix protein [Klebsiella sp. MS 92-3]
 gi|150955315|gb|ABR77345.1| putative regulator [Klebsiella pneumoniae subsp. pneumoniae MGH
          78578]
 gi|328536870|gb|EGF63173.1| DNA-binding helix-turn-helix protein [Klebsiella sp. MS 92-3]
          Length = 193

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 29/65 (44%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + ++  +  RIR+ R   G S   L E  G +   + K E+G +   AS L  +S   
Sbjct: 4  IEDNLNQRISARIRIERESRGWSLNDLAERAGASRAMIHKIERGESSPTASMLGRLSGAF 63

Query: 67 ESPIS 71
             +S
Sbjct: 64 GISMS 68


>gi|153816351|ref|ZP_01969019.1| hypothetical protein RUMTOR_02603 [Ruminococcus torques ATCC
          27756]
 gi|317501012|ref|ZP_07959220.1| hypothetical protein HMPREF1026_01163 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|331089033|ref|ZP_08337939.1| hypothetical protein HMPREF1025_01522 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|145846312|gb|EDK23230.1| hypothetical protein RUMTOR_02603 [Ruminococcus torques ATCC
          27756]
 gi|316897590|gb|EFV19653.1| hypothetical protein HMPREF1026_01163 [Lachnospiraceae bacterium
          8_1_57FAA]
 gi|330406233|gb|EGG85752.1| hypothetical protein HMPREF1025_01522 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 255

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 26/59 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+ I   R    MSQE+  +   +T Q +  +EK  N      L  IS+    P+ 
Sbjct: 1  MKIGETILKLREEKKMSQEEFAQYYHVTRQTISNWEKEKNYPDLQTLVKISDESGVPLD 59


>gi|15612927|ref|NP_241230.1| transcriptional regulator [Bacillus halodurans C-125]
 gi|10172977|dbj|BAB04083.1| transcriptional regulator [Bacillus halodurans C-125]
          Length = 66

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            ++  RM + M+QE+L   +G+T Q +   EKG           I++ L   +   F
Sbjct: 3  NNVKQTRMNMSMTQEQLARKVGVTRQTIGLIEKGEYNPSLQLCVAIAKNLHKTLDDLF 60


>gi|83944600|ref|ZP_00957050.1| transcriptional regulator, XRE family protein [Sulfitobacter sp.
          EE-36]
 gi|83844577|gb|EAP82464.1| transcriptional regulator, XRE family protein [Sulfitobacter sp.
          EE-36]
          Length = 94

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 31/83 (37%), Gaps = 3/83 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  IR  R+   M+ ++L E  G++   + + E+G   V    +  I+ +L  P    F+
Sbjct: 2  GLMIRAARLERNMTAQELAERAGVSRPLLSRVERGDMTVSLGAVFEIATILGVP---LFE 58

Query: 76 VSPTVCSDISSEENNVMDFISTP 98
                +     E      +   
Sbjct: 59 EDDERLTTRLGTERRTNALLRQR 81


>gi|314934399|ref|ZP_07841758.1| conserved domain protein [Staphylococcus caprae C87]
 gi|313652329|gb|EFS16092.1| conserved domain protein [Staphylococcus caprae C87]
          Length = 65

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R    +SQ  L   +G++ Q +   E            +I++ L   ++  F
Sbjct: 2  NRVKQYRAHQKISQLALARAVGVSRQTINMIENDRYNPSLKLCINIAKELNVTLNDLF 59


>gi|311067740|ref|YP_003972663.1| Phage PBSX transcriptional regulator [Bacillus atrophaeus 1942]
 gi|310868257|gb|ADP31732.1| Phage PBSX transcriptional regulator [Bacillus atrophaeus 1942]
          Length = 113

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 22/120 (18%), Positives = 45/120 (37%), Gaps = 16/120 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R++  R     +QE++   +G++  +   YE G +      LQ +++  +    +  
Sbjct: 2   IGGRLKSLRGKK--TQEEIANHIGVSRARYSHYENGRSEPDYETLQKLADYFQVTTDYLL 59

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVRSIVSSEKK 132
                   D         D  S P    L   +  + D   + +Q+ IE +  +   EK 
Sbjct: 60  TGKEKKSDD---------DIFSDP---DLQIAYRDMRDFSPESKQQAIEFINYLKEKEKN 107


>gi|257053231|ref|YP_003131064.1| transcriptional regulator, XRE family [Halorhabdus utahensis DSM
          12940]
 gi|256691994|gb|ACV12331.1| transcriptional regulator, XRE family [Halorhabdus utahensis DSM
          12940]
          Length = 75

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 21/56 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +   R   G+SQ  L E + +T Q +   E          +  ++   E P+   F
Sbjct: 5  LTEYREASGLSQRALAEHVAVTRQTINAVEGNRYDPSVELVFKLAAFFEVPVEDLF 60


>gi|240949823|ref|ZP_04754152.1| hypothetical protein AM305_01724 [Actinobacillus minor NM305]
 gi|240295740|gb|EER46435.1| hypothetical protein AM305_01724 [Actinobacillus minor NM305]
          Length = 186

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 27/54 (50%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++IR  R     +QE++   L ++ Q   K E+G  R    RL+ ISEV    +
Sbjct: 58  EKIRQLREARQWTQEEMATKLSMSTQGYAKIERGDTRSNLDRLEQISEVFGIDM 111


>gi|228952478|ref|ZP_04114559.1| HTH-type transcriptional regulator PuuR [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
 gi|228807215|gb|EEM53753.1| HTH-type transcriptional regulator PuuR [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
          Length = 68

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 29/59 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GK++ L R   G SQ +L + L  +   V   E G  +   S+L  +SEV + P+   F
Sbjct: 6  GKKLSLLRKNKGFSQRELAQLLNCSHSLVNLMENGKIQPTTSKLLGMSEVFKIPMDDLF 64


>gi|254393692|ref|ZP_05008816.1| hypothetical protein SSCG_06155 [Streptomyces clavuligerus ATCC
           27064]
 gi|294815970|ref|ZP_06774613.1| HTH_3 domain-containing protein [Streptomyces clavuligerus ATCC
           27064]
 gi|197707303|gb|EDY53115.1| hypothetical protein SSCG_06155 [Streptomyces clavuligerus ATCC
           27064]
 gi|294328569|gb|EFG10212.1| HTH_3 domain-containing protein [Streptomyces clavuligerus ATCC
           27064]
          Length = 409

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 46/123 (37%), Gaps = 15/123 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLG----ECLG-----ITFQQVQKYEKGVNRVGASRLQHISEV 65
           +G  IR RR   G +Q +L        G     ++ Q++ ++E G  R     L  ++ V
Sbjct: 73  IGANIRHRRKQRGWTQARLAWELCRAAGVQGEPVSTQEITRWEAGR-RTPRDWLPFLAAV 131

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR---QKIIEL 122
           L   +           + + S    + +    P      R   +I +  VR   Q++  L
Sbjct: 132 LGVSVEVLTGPPVPPEAAMLSLAGYLPE--GDPLAPLSARNGRRIGEGVVRDLHQRVHGL 189

Query: 123 VRS 125
            R+
Sbjct: 190 RRA 192


>gi|311747920|ref|ZP_07721705.1| putative transcriptional regulator [Algoriphagus sp. PR1]
 gi|126575914|gb|EAZ80224.1| putative transcriptional regulator [Algoriphagus sp. PR1]
          Length = 192

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 28/78 (35%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + N V   +  +I+  R    ++ + + +  G+T   + + E G        L  I + L
Sbjct: 1  MENEVVAQISNKIKSVRKEKSLTLQDIADRAGVTKGLISQIENGRTIPSLLVLIEIIQAL 60

Query: 67 ESPISFFFDVSPTVCSDI 84
          E     FF       S  
Sbjct: 61 EVDFDSFFTELSKFSSGT 78


>gi|89055187|ref|YP_510638.1| XRE family transcriptional regulator [Jannaschia sp. CCS1]
 gi|88864736|gb|ABD55613.1| transcriptional regulator, XRE family [Jannaschia sp. CCS1]
          Length = 440

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 42/98 (42%), Gaps = 11/98 (11%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS-----------R 58
           P D   G RIR RR+ +G+ Q  L E +G++   +   E    ++G              
Sbjct: 8   PDDHLTGSRIRERRLAMGLKQGVLAEIVGVSPSYLNLIEHNHRKIGGKLLLALARALEVE 67

Query: 59  LQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFIS 96
              ++E +++ IS   D +     D+ +E   V + ++
Sbjct: 68  ASALTEGVDAGISELLDAAARALGDVPAETARVDELVA 105


>gi|57233927|ref|YP_182049.1| DNA-binding protein [Dehalococcoides ethenogenes 195]
 gi|57224375|gb|AAW39432.1| DNA-binding protein [Dehalococcoides ethenogenes 195]
          Length = 69

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++R+ R I  ++QE+L + LGIT Q V   E G           I+ + ++PI   F
Sbjct: 3  NKLRVLRAIHNLTQEELADKLGITRQTVIAIEWGKYSPSLELAFKIASLFKAPIEEIF 60


>gi|16264601|ref|NP_437393.1| MerR/LacI family transcriptional regulators [Sinorhizobium meliloti
           1021]
 gi|307303541|ref|ZP_07583295.1| transcriptional regulator, MerR family [Sinorhizobium meliloti
           BL225C]
 gi|307318608|ref|ZP_07598041.1| transcriptional regulator, MerR family [Sinorhizobium meliloti
           AK83]
 gi|15140739|emb|CAC49253.1| putative protein, similar to transcriptional regulators merR and
           LacI family [Sinorhizobium meliloti 1021]
 gi|306895635|gb|EFN26388.1| transcriptional regulator, MerR family [Sinorhizobium meliloti
           AK83]
 gi|306902932|gb|EFN33524.1| transcriptional regulator, MerR family [Sinorhizobium meliloti
           BL225C]
          Length = 276

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 30/60 (50%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D+ VG+++R  R   G + E++   +GI    +   E+    V  + L +++E   + +S
Sbjct: 97  DMQVGRKLRSLRHAAGKTLEQVAGDIGIAASVLSTLERTSQGVSVAVLHNLAEYFGTTVS 156


>gi|17547851|ref|NP_521253.1| transcription regulator protein [Ralstonia solanacearum GMI1000]
 gi|17430156|emb|CAD16841.1| putative transcription regulator protein [Ralstonia solanacearum
          GMI1000]
          Length = 209

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 27/67 (40%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + +R+R  R   G + + L    G++   +   E+G     A  L  ++  L   +
Sbjct: 16 INERIARRVRDLRAARGYTLDALAARCGVSRSMISLIERGAASPTAVVLDKLAAGLGVSL 75

Query: 71 SFFFDVS 77
          +  F   
Sbjct: 76 ASLFGGE 82


>gi|89100494|ref|ZP_01173355.1| probable transcriptional regulator [Bacillus sp. NRRL B-14911]
 gi|89084760|gb|EAR63900.1| probable transcriptional regulator [Bacillus sp. NRRL B-14911]
          Length = 71

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 34/68 (50%), Gaps = 3/68 (4%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RIR  R + G +QE   + LG++   + + E+G        +  ++ VL+  I    +
Sbjct: 7  GRRIRAFRKLKGFTQESFAKELGVSVSVLGEIERGNRMPADDFIVQVAHVLKISIE---E 63

Query: 76 VSPTVCSD 83
          ++PT   D
Sbjct: 64 LTPTQEID 71


>gi|326387341|ref|ZP_08208951.1| transcriptional regulator, XRE family [Novosphingobium
          nitrogenifigens DSM 19370]
 gi|326208522|gb|EGD59329.1| transcriptional regulator, XRE family [Novosphingobium
          nitrogenifigens DSM 19370]
          Length = 76

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 23/57 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VG+     R   G++QE++ E  G + Q +   E+G        L  +S  L   
Sbjct: 5  KLVGRNFARLRRDRGLTQEQVAERSGFSQQYLSNLERGWRNPTVITLYELSLALGVS 61


>gi|311108201|ref|YP_003981054.1| hypothetical protein AXYL_05033 [Achromobacter xylosoxidans A8]
 gi|310762890|gb|ADP18339.1| helix-turn-helix family protein 11 [Achromobacter xylosoxidans A8]
          Length = 302

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/97 (19%), Positives = 40/97 (41%), Gaps = 10/97 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+R+R  R I GM+++ L +  G++ + +   E GV       L  I+         
Sbjct: 19  VALGERVRRLRAIRGMTRKGLSQVTGVSERHLANLEHGVGNASILVLLQIARAFNC---- 74

Query: 73  FFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRY 106
                  +  D+++E  +   + + +S      L R 
Sbjct: 75  ---ALAELVGDVTTESPDWLLIRELLSGRTESDLQRA 108


>gi|295105803|emb|CBL03346.1| Predicted transcriptional regulators [Gordonibacter pamelaeae
          7-10-1-b]
          Length = 67

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 22/58 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+   R   G+ QE L   LG++ Q +   EKG           I+   +  I   F
Sbjct: 3  NRLEEIRKARGIKQEDLATELGVSRQTISSLEKGRYNPSILLAFKIARHFDLSIEDVF 60


>gi|293378376|ref|ZP_06624545.1| DNA-binding protein [Enterococcus faecium PC4.1]
 gi|292643240|gb|EFF61381.1| DNA-binding protein [Enterococcus faecium PC4.1]
          Length = 370

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + K +   R   G++QE L E +G+T   V K+E G +      L  ++   +  + 
Sbjct: 6  LSKNVANLRKKKGVTQETLAEFIGVTKASVSKWETGQSMPDVLILPKLASFFDVSVD 62


>gi|257880759|ref|ZP_05660412.1| conserved hypothetical protein [Enterococcus faecium 1,230,933]
 gi|260562583|ref|ZP_05833091.1| CRO/CI family transcriptional regulator [Enterococcus faecium C68]
 gi|257814987|gb|EEV43745.1| conserved hypothetical protein [Enterococcus faecium 1,230,933]
 gi|260073093|gb|EEW61440.1| CRO/CI family transcriptional regulator [Enterococcus faecium C68]
          Length = 306

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/116 (18%), Positives = 48/116 (41%), Gaps = 13/116 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGIT--FQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +G+RIR  R    ++ E+ G+    T     +  +E G N   + R++ I+E+      +
Sbjct: 175 IGQRIRKIRKKENITLEEFGKLFSPTADKAVISNWENGKNLPNSERIKKIAEIGGVSELY 234

Query: 73  FFDVSPTVCSD----ISSEENNVMDFISTPDGLQLNRYFI-------QIDDVKVRQ 117
                 +  ++    +S    + ++ +S  +  ++   F        +IDD   R+
Sbjct: 235 LMTGVDSSVAESMYFLSEVALDALERLSIEEVNRIIESFAGYLNVISKIDDPDKRE 290



 Score = 42.5 bits (99), Expect = 0.020,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 27/58 (46%), Gaps = 1/58 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          G RI+  R   G +   LG+ +   +   +  +EKG N     RL+ I+ +  + + +
Sbjct: 17 GNRIKQIREKHGYTMADLGKLVDANSPSTINNWEKGNNLPNRKRLEKIALLGGTSVEW 74


>gi|167772036|ref|ZP_02444089.1| hypothetical protein ANACOL_03410 [Anaerotruncus colihominis DSM
          17241]
 gi|167665834|gb|EDS09964.1| hypothetical protein ANACOL_03410 [Anaerotruncus colihominis DSM
          17241]
          Length = 96

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 1/57 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLES 68
           N+G RI+  R   GMSQE+L E   +++  +   E      +    L  I+  L  
Sbjct: 31 KNIGFRIQFFRKKCGMSQEELAEKSNLSYSTISHIESTSTYPMSIIALYRIAAALNI 87


>gi|161620977|ref|YP_001594863.1| hypothetical protein BCAN_B0944 [Brucella canis ATCC 23365]
 gi|254703244|ref|ZP_05165072.1| hypothetical protein Bsuib36_04804 [Brucella suis bv. 3 str. 686]
 gi|260567822|ref|ZP_05838291.1| helix-turn-helix domain-containing protein [Brucella suis bv. 4
          str. 40]
 gi|261753875|ref|ZP_05997584.1| transcriptional regulator [Brucella suis bv. 3 str. 686]
 gi|161337788|gb|ABX64092.1| Hypothetical protein BCAN_B0944 [Brucella canis ATCC 23365]
 gi|260154487|gb|EEW89568.1| helix-turn-helix domain-containing protein [Brucella suis bv. 4
          str. 40]
 gi|261743628|gb|EEY31554.1| transcriptional regulator [Brucella suis bv. 3 str. 686]
          Length = 182

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 37/86 (43%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I++G R+R  RM   +SQ +L +  G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSIDIGGRLRYVRMRQNLSQRELAKRAGVTNSTISLIEANQSNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF + P     +  +   +++ 
Sbjct: 59 GMVEFFALEPDAPHRVFYQAEELVEI 84


>gi|149920158|ref|ZP_01908630.1| transcriptional regulator [Plesiocystis pacifica SIR-1]
 gi|149818924|gb|EDM78363.1| transcriptional regulator [Plesiocystis pacifica SIR-1]
          Length = 113

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 31/57 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G R+R RR  LG+SQEKL E   ++ + + + E+G        ++ ++  L   +S
Sbjct: 17 LGDRVRERRRELGLSQEKLAEKAQVSKETIGRLEQGGGTPSLFTVRKVANALGETVS 73


>gi|52078575|ref|YP_077366.1| putative transcriptional regulator [Bacillus licheniformis ATCC
          14580]
 gi|319648604|ref|ZP_08002818.1| transcriptional regulator [Bacillus sp. BT1B_CT2]
 gi|52001786|gb|AAU21728.1| putative transcriptional regulator [Bacillus licheniformis ATCC
          14580]
 gi|317389371|gb|EFV70184.1| transcriptional regulator [Bacillus sp. BT1B_CT2]
          Length = 69

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 28/55 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE   + LGI+   + + E+G      S L+ ++  L   +
Sbjct: 7  GRRIRAYRKLKGYTQEGFAKALGISVSVLGEVERGNRMPTESMLRDVANTLNITV 61


>gi|27376780|ref|NP_768309.1| hypothetical protein bll1669 [Bradyrhizobium japonicum USDA 110]
 gi|27349922|dbj|BAC46934.1| bll1669 [Bradyrhizobium japonicum USDA 110]
          Length = 108

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/111 (12%), Positives = 46/111 (41%), Gaps = 17/111 (15%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R    ++ ++L    G++   + + E + + R    +L  +++ L   + +    
Sbjct: 11  RIKTLRKKAKLTLDQLAPQAGLSKSYLWELENRDLPRPSGEKLAGLAKALNVTVDYLLGG 70

Query: 77  SPTVCSDISSEENNVMDFIS-TPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
            PT   + + ++    ++ + +P+              ++R+    L +++
Sbjct: 71  DPTENLETAEDKAFFREYEAMSPEAR-----------AQLRR----LAKAL 106


>gi|77405440|ref|ZP_00782533.1| cI-like repressor [Streptococcus agalactiae H36B]
 gi|77175933|gb|EAO78709.1| cI-like repressor [Streptococcus agalactiae H36B]
          Length = 69

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 27/60 (45%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG++IR +R +  ++Q +L + L    Q V   E G  R     L  + ++  +    F
Sbjct: 6  FVGEQIRHQRKLAKLTQSQLADLLETNQQTVGMMENGRRRTTIQDLVKLCKIFNASADDF 65


>gi|126438464|ref|YP_001060149.1| DNA-binding protein [Burkholderia pseudomallei 668]
 gi|126217957|gb|ABN81463.1| DNA-binding protein [Burkholderia pseudomallei 668]
          Length = 195

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/70 (17%), Positives = 30/70 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   +
Sbjct: 3  INQLIARRVRALRDLRGYSLDALAERSKVSRSNISLIERAQSNPTAVVLERLANALGVSL 62

Query: 71 SFFFDVSPTV 80
          +  F+     
Sbjct: 63 ASLFEDDRAA 72


>gi|313116063|ref|ZP_07801487.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii
          KLE1255]
 gi|310621660|gb|EFQ05191.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii
          KLE1255]
          Length = 148

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 27/60 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+I + + I   RM  G +Q+ L + + +    V ++E G        L  I++ L   +
Sbjct: 30 VNIQIQQMIHDTRMAKGWTQKDLADKMRVKQSLVSRWESGDCNYTIDTLIDIADALGLSV 89


>gi|260550053|ref|ZP_05824267.1| transcriptional regulator [Acinetobacter sp. RUH2624]
 gi|260406808|gb|EEX00287.1| transcriptional regulator [Acinetobacter sp. RUH2624]
          Length = 197

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 36/92 (39%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + ++I +  RIR  R+  G + + L     ++   +   E+G     A  L+ ++  LE 
Sbjct: 2   DDINIRIAHRIRELRLARGYTLDVLAARCQVSRSAISLIERGETSPTAVVLEKLANGLEV 61

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           P++  F    T  S       N       P+ 
Sbjct: 62  PLTKIFTNETTSPSPQPFICRNEQAEWQDPET 93


>gi|300767756|ref|ZP_07077666.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ATCC 14917]
 gi|300494741|gb|EFK29899.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ATCC 14917]
          Length = 183

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          I +G +I+ +R     SQ+ + E L ++ Q + K+E G +      L  +S++    
Sbjct: 3  IVIGTKIKEQRQQHEWSQQTVAERLHVSRQTISKWELGKSYPDLELLVALSKLFAVS 59


>gi|255281263|ref|ZP_05345818.1| conserved domain protein [Bryantella formatexigens DSM 14469]
 gi|255268220|gb|EET61425.1| conserved domain protein [Bryantella formatexigens DSM 14469]
          Length = 121

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 5/76 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGEC-----LGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           G +IR  R    +SQE+L        L I  + + + E G   +    L +IS+VL   I
Sbjct: 45  GCKIRELRKKSNLSQEQLAAKLQLAGLNINQKAISRIETGDRVIPDFELLYISKVLSCSI 104

Query: 71  SFFFDVSPTVCSDISS 86
           S   +       +IS 
Sbjct: 105 STLLEADENENKEISG 120


>gi|255284008|ref|ZP_05348563.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
 gi|255265461|gb|EET58666.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bryantella formatexigens DSM 14469]
          Length = 112

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 23/59 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +GK++R  R    ++Q ++   L I       YE          L  I++    P+ + 
Sbjct: 6  LGKKLRALRERRHLTQAEVSALLHIERAAYSNYENDKRIPSFETLLLIADFYGVPVEYL 64


>gi|210615280|ref|ZP_03290495.1| hypothetical protein CLONEX_02711 [Clostridium nexile DSM 1787]
 gi|210150392|gb|EEA81401.1| hypothetical protein CLONEX_02711 [Clostridium nexile DSM 1787]
          Length = 252

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/73 (19%), Positives = 33/73 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+ +   R    M+Q+ L + L ++ + V K+E+G +    + L  I++VL   ++    
Sbjct: 10 GQFLAEVRKEKQMTQKDLADKLFVSDKTVSKWERGNSMPNVTLLIPIADVLGITVTELLQ 69

Query: 76 VSPTVCSDISSEE 88
                +   + +
Sbjct: 70 GEKLKENKTLNSD 82


>gi|183601514|ref|ZP_02962884.1| hypothetical protein BIFLAC_02632 [Bifidobacterium animalis
          subsp. lactis HN019]
 gi|219683947|ref|YP_002470330.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
          AD011]
 gi|241190987|ref|YP_002968381.1| Xre-type transcriptional regulator [Bifidobacterium animalis
          subsp. lactis Bl-04]
 gi|241196393|ref|YP_002969948.1| Xre-type transcriptional regulator [Bifidobacterium animalis
          subsp. lactis DSM 10140]
 gi|183219120|gb|EDT89761.1| hypothetical protein BIFLAC_02632 [Bifidobacterium animalis
          subsp. lactis HN019]
 gi|219621597|gb|ACL29754.1| predicted transcriptional regulator [Bifidobacterium animalis
          subsp. lactis AD011]
 gi|240249379|gb|ACS46319.1| Xre-type transcriptional regulator [Bifidobacterium animalis
          subsp. lactis Bl-04]
 gi|240250947|gb|ACS47886.1| Xre-type transcriptional regulator [Bifidobacterium animalis
          subsp. lactis DSM 10140]
 gi|295793976|gb|ADG33511.1| Xre-type transcriptional regulator [Bifidobacterium animalis
          subsp. lactis V9]
          Length = 335

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 34/78 (43%), Gaps = 2/78 (2%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           ++  R    M+QE+L   +G++ Q V K+E         +L  + ++    +     V 
Sbjct: 6  NLQYLRGSHNMTQEQLAMLIGVSRQSVSKWESEKAYPEMDKLLMLCDMFGVSLDDL--VM 63

Query: 78 PTVCSDISSEENNVMDFI 95
            V + I+   N+V D +
Sbjct: 64 GDVRNGIAMSANHVEDGL 81


>gi|270307913|ref|YP_003329971.1| DNA-binding protein [Dehalococcoides sp. VS]
 gi|270153805|gb|ACZ61643.1| DNA-binding protein [Dehalococcoides sp. VS]
          Length = 67

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R    ++Q +L E +G++ Q +   EKG           +++ L + I   F
Sbjct: 6  RIKELRSRYNLTQAELAETVGVSRQTMLYLEKGTYNPSLILAHKVAKALHADIDDVF 62


>gi|134101965|ref|YP_001107626.1| hypothetical protein SACE_5483 [Saccharopolyspora erythraea NRRL
            2338]
 gi|133914588|emb|CAM04701.1| hypothetical protein SACE_5483 [Saccharopolyspora erythraea NRRL
            2338]
          Length = 11792

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 10/68 (14%), Positives = 26/68 (38%)

Query: 18   RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            R++  R  +G +Q ++ E +G+    +  +E G + +     + ++          F   
Sbjct: 5560 RLKRERARVGRTQREVAEKIGVHLSTLSNWEHGRDNIAPRHRERLAAFYGVSQEELFADM 5619

Query: 78   PTVCSDIS 85
            P    +  
Sbjct: 5620 PEASGETG 5627



 Score = 38.3 bits (88), Expect = 0.34,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 31/76 (40%), Gaps = 1/76 (1%)

Query: 19   IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FFFDVS 77
            +R  R  +G +Q  + E L ++   V  +E G   + +   + +  +         FD  
Sbjct: 7836 LRQAREAMGWTQAYVAEKLEVSSNTVSNWETGKTPMRSGDRESLRVLYGRSTDETLFDGL 7895

Query: 78   PTVCSDISSEENNVMD 93
            P V   I + E++  +
Sbjct: 7896 PPVSDGIQAPESSRHE 7911



 Score = 38.3 bits (88), Expect = 0.35,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 32/78 (41%), Gaps = 5/78 (6%)

Query: 19   IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVL--ESPISFFFD 75
            +R  R  +G ++  + E L ++   V  +E G   +    R   I  VL   S     FD
Sbjct: 7972 LRQAREAMGWTRAYVAEKLEVSSDTVSNWETGKTPMRSGDR--EILRVLYGRSTDETLFD 8029

Query: 76   VSPTVCSDISSEENNVMD 93
              P V   I + E++  +
Sbjct: 8030 GLPPVSDGIQAPESSRHE 8047



 Score = 37.9 bits (87), Expect = 0.48,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 8    PNPVDINVGKRIRLRRMILGM-SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            P+PV + +G ++R  R      +Q    +   I  +   +YE G      +R + + E+ 
Sbjct: 2887 PSPVRVVLGNKLRDLREAARFETQAAAAKQSNIKVRSFSRYESGSRVPDPARTEALLELY 2946

Query: 67   ES 68
              
Sbjct: 2947 GV 2948



 Score = 37.9 bits (87), Expect = 0.53,   Method: Composition-based stats.
 Identities = 12/68 (17%), Positives = 24/68 (35%), Gaps = 5/68 (7%)

Query: 17   KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            KR R  R + G     +   +G+T   + ++EKG   +     + ++          F  
Sbjct: 5497 KRARGGRTLRG-----VARAIGVTHSTLSRWEKGRGDIDPHYRERLAAFYGVSQEELFAD 5551

Query: 77   SPTVCSDI 84
             P    + 
Sbjct: 5552 IPEASGET 5559



 Score = 37.9 bits (87), Expect = 0.54,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 25/61 (40%)

Query: 8    PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
            P+P  + +G ++R  R     +Q    +   I    + +YE G      +R + + E+  
Sbjct: 2802 PSPERVVLGNKLRALREAKFETQTDAAKQSNIKAVSIGRYESGSRVPDPARTEALLELYG 2861

Query: 68   S 68
             
Sbjct: 2862 V 2862



 Score = 35.9 bits (82), Expect = 2.0,   Method: Composition-based stats.
 Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 1/45 (2%)

Query: 8    PNPVDINVGKRIRLRRMILGM-SQEKLGECLGITFQQVQKYEKGV 51
            P+P  + +G ++R  R      +Q    + L IT   + +YE GV
Sbjct: 2717 PSPARVVLGNKLRALREAARFETQAAAAKQLNITAMGIGRYESGV 2761



 Score = 35.2 bits (80), Expect = 3.4,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 23/57 (40%), Gaps = 1/57 (1%)

Query: 13   INVGKRIRLRRMILGM-SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
            + +G ++R  R      +Q    + L  T  +  +YE G     + R + + E+   
Sbjct: 2636 VELGNKLRALREAARFETQAAAAKQLRKTPSRFSEYESGSQVPSSGRTKALLELYGV 2692



 Score = 34.0 bits (77), Expect = 6.4,   Method: Composition-based stats.
 Identities = 9/62 (14%), Positives = 22/62 (35%)

Query: 21   LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            L+R   G +  ++   + +T   + ++E G   +     + ++          F   P  
Sbjct: 5628 LKRARGGRTLREVASAIEVTSATLSRWEHGRGDIDPHYRERLAAFYGVSQEVLFADMPPE 5687

Query: 81   CS 82
             S
Sbjct: 5688 GS 5689


>gi|163943401|ref|YP_001642631.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|228925002|ref|ZP_04088132.1| Transcriptional regulator,Cro/CI [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|163865598|gb|ABY46656.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
 gi|228834665|gb|EEM80174.1| Transcriptional regulator,Cro/CI [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
          Length = 66

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 25/63 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI + R   G +Q+ LGE +G + Q +   E+            I++    P+   F+ 
Sbjct: 4  NRIVVCRAEKGWTQQDLGERVGASRQTIASMERNKYNPSLILAFKIAQAFGKPLEEVFEF 63

Query: 77 SPT 79
             
Sbjct: 64 KEE 66


>gi|91975357|ref|YP_568016.1| anaerobic benzoate catabolism transcriptional regulator
          [Rhodopseudomonas palustris BisB5]
 gi|91681813|gb|ABE38115.1| transcriptional regulator, XRE family with shikimate kinase
          activity [Rhodopseudomonas palustris BisB5]
          Length = 317

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 35/70 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R+R  R + GMS++ L +  GI+ + + + E G   V    L+ +S+ L +P+  
Sbjct: 25 LELGQRVRTLRGLRGMSRKVLAKVSGISERYIAQLESGKGNVSIILLRRVSDALATPLED 84

Query: 73 FFDVSPTVCS 82
              S     
Sbjct: 85 LLPNSDPSID 94


>gi|94152474|ref|YP_581881.1| putative transcriptional regulator Cro/CI family [Cupriavidus
          metallidurans CH34]
 gi|93358844|gb|ABF12931.1| putative transcriptional regulator Cro/CI family [Cupriavidus
          metallidurans CH34]
          Length = 233

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/75 (17%), Positives = 32/75 (42%), Gaps = 1/75 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R +  ++Q ++ + LG++     ++E G   V  +++  +SE L   + +     P
Sbjct: 7  MKRARRLARLTQSEIAKRLGLSQSTYHRWESGEIEVPEAKVISLSEALGVSVEYL-RGQP 65

Query: 79 TVCSDISSEENNVMD 93
                  +E    D
Sbjct: 66 EPFDIEGMDEQLPAD 80


>gi|25012032|ref|NP_736427.1| hypothetical protein gbs1994 [Streptococcus agalactiae NEM316]
 gi|77413860|ref|ZP_00790038.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 515]
 gi|24413575|emb|CAD47653.1| Unknown [Streptococcus agalactiae NEM316]
 gi|77160100|gb|EAO71233.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 515]
          Length = 358

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 32/69 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I L+R  +GM+QE L + L +T   + K+E    +     L  ++ + +  +    
Sbjct: 2  LGENIYLQRTQIGMTQENLSDYLHLTKTTISKWENNQAKPDIDYLILMANLFDISLDDLV 61

Query: 75 DVSPTVCSD 83
              T+  D
Sbjct: 62 GYQKTLSDD 70


>gi|329666835|gb|AEB92783.1| hypothetical protein LJP_0449 [Lactobacillus johnsonii DPC 6026]
          Length = 275

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 1/61 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ ++  R  LG+SQ ++   + +T     K E+G++ + AS L  I E+ +  IS 
Sbjct: 1  MTIGEALKETRKNLGLSQTEMAYPI-LTKSYYSKIERGIHEINASDLIKILEIHDVDISE 59

Query: 73 F 73
          F
Sbjct: 60 F 60


>gi|325288497|ref|YP_004264678.1| phage repressor like transcriptional regulator, XRE family
          [Syntrophobotulus glycolicus DSM 8271]
 gi|324963898|gb|ADY54677.1| phage repressor like transcriptional regulator, XRE family
          [Syntrophobotulus glycolicus DSM 8271]
          Length = 201

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 33/70 (47%), Gaps = 1/70 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFF 74
          G  I+  R+  G++QE+LG  +G+    V K+E G V  +  S ++ +S +         
Sbjct: 4  GDLIKQLRLKKGLTQEELGNLIGVKRAAVNKWETGSVENLKRSTIEKLSAIFGVSPIQLL 63

Query: 75 DVSPTVCSDI 84
           ++     D+
Sbjct: 64 GLTEAEPRDV 73


>gi|319937023|ref|ZP_08011433.1| hypothetical protein HMPREF9488_02267 [Coprobacillus sp. 29_1]
 gi|319807959|gb|EFW04538.1| hypothetical protein HMPREF9488_02267 [Coprobacillus sp. 29_1]
          Length = 228

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/82 (25%), Positives = 37/82 (45%), Gaps = 5/82 (6%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI-- 62
          KK        VG+R++ RR  L ++  +LG+ +G+    +Q+YE   + V   R   I  
Sbjct: 2  KKEITFTAKQVGERVKERRTELNLTMPELGKRVGVNKSTIQRYE--ADGVDPKRTMIING 59

Query: 63 -SEVLESPISFFFDVSPTVCSD 83
           +E L +   +   +S     D
Sbjct: 60 LAEALLTTPEWLTGLSEDKEYD 81


>gi|302189655|ref|ZP_07266328.1| e14 prophage; putative phage repressor [Pseudomonas syringae pv.
           syringae 642]
          Length = 138

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 32/79 (40%), Gaps = 2/79 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           +R++  R   G SQ  L +  G + Q +V  YE G        ++ +++ L  P      
Sbjct: 26  QRLQRLRNAAGKSQAALAKLCGWSSQSRVGNYESGTREPTLGDIELMAKALGVPYGVLLI 85

Query: 76  VSP-TVCSDISSEENNVMD 93
                  +   SE +N+ +
Sbjct: 86  GEDAAAATRALSEPSNIAE 104


>gi|299134081|ref|ZP_07027274.1| transcriptional regulator, XRE family [Afipia sp. 1NLS2]
 gi|298590828|gb|EFI51030.1| transcriptional regulator, XRE family [Afipia sp. 1NLS2]
          Length = 230

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 38/87 (43%), Gaps = 1/87 (1%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    +D  +G+RIR  R +   + + L + +G+T   + K E G        L  +++ 
Sbjct: 35  KGEQEIDT-LGRRIRQLRKMQERTLDSLAQEVGLTKGYLSKVETGRQTPPLGTLSKLAKA 93

Query: 66  LESPISFFFDVSPTVCSDISSEENNVM 92
           L + ++   +      S+   E  +V+
Sbjct: 94  LGTDLAGLVENGAGERSEPGYEGVSVV 120


>gi|288559490|ref|YP_003422976.1| transcriptional regulator [Methanobrevibacter ruminantium M1]
 gi|288542200|gb|ADC46084.1| transcriptional regulator [Methanobrevibacter ruminantium M1]
          Length = 80

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/49 (28%), Positives = 22/49 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          IR  R  + MSQ+ L +  G+T Q +   E G          +I+ +L 
Sbjct: 5  IRYLRQEVKMSQQDLAKSAGVTRQTINALENGRYNPSLLLAYNITRILN 53


>gi|253751129|ref|YP_003024270.1| transcriptional regulator [Streptococcus suis SC84]
 gi|253753030|ref|YP_003026170.1| transcriptional regulator [Streptococcus suis P1/7]
 gi|253754853|ref|YP_003027993.1| transcriptional regulator [Streptococcus suis BM407]
 gi|251815418|emb|CAZ50993.1| putative transcriptional regulator [Streptococcus suis SC84]
 gi|251817317|emb|CAZ55049.1| putative transcriptional regulator [Streptococcus suis BM407]
 gi|251819275|emb|CAR44574.1| putative transcriptional regulator [Streptococcus suis P1/7]
          Length = 285

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 3/66 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQ-VQKYEKGVNRVGASRLQHISEVLESPIS 71
          + + KR + RR  LG +Q++L E  GI  Q  + + EK      +  L  +S+ L+  + 
Sbjct: 1  MILSKRFKNRRKELGFTQKELAE--GICEQSLISRVEKLGVAPTSDILFALSQRLQVSMD 58

Query: 72 FFFDVS 77
          +FFD S
Sbjct: 59 YFFDES 64


>gi|229100270|ref|ZP_04231161.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-29]
 gi|229103092|ref|ZP_04233779.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-28]
 gi|229119062|ref|ZP_04248402.1| Transcriptional regulator, Xre [Bacillus cereus Rock1-3]
 gi|228664391|gb|EEL19892.1| Transcriptional regulator, Xre [Bacillus cereus Rock1-3]
 gi|228680281|gb|EEL34471.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-28]
 gi|228683165|gb|EEL37152.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-29]
          Length = 292

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    +SQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNISQSELCRGI-CSQSQISKIEKGIIYPSSILLYQLSERLGVDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|226309623|ref|YP_002769517.1| DNA-binding protein [Brevibacillus brevis NBRC 100599]
 gi|226092571|dbj|BAH41013.1| putative DNA-binding protein [Brevibacillus brevis NBRC 100599]
          Length = 132

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 33/82 (40%), Gaps = 1/82 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          VG+RI+  R     SQ +L E LGI    + + E G  + V A  +  ++++ E    F 
Sbjct: 18 VGQRIKWLREQKQWSQLQLAEKLGIHNTVLSRIESGEKKGVDAHLISKVADLFEVSTDFL 77

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
             +        S       F+
Sbjct: 78 HGRTEEPSWQRGSVRETPATFL 99


>gi|260587016|ref|ZP_05852929.1| transcriptional regulator, Cro/CI family [Blautia hansenii DSM
          20583]
 gi|260542638|gb|EEX23207.1| transcriptional regulator, Cro/CI family [Blautia hansenii DSM
          20583]
          Length = 120

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++   R   G+SQ++LG  LG++ Q + K+E   +     RL  +S+     + 
Sbjct: 5  EKLIELRKSKGLSQDELGNALGVSRQTISKWELAQSYPDFQRLVLLSDYFGLSLD 59


>gi|221194917|ref|ZP_03567973.1| conserved domain protein [Atopobium rimae ATCC 49626]
 gi|221184820|gb|EEE17211.1| conserved domain protein [Atopobium rimae ATCC 49626]
          Length = 65

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R   G+ Q  +   LGI+ Q    YEK   ++   + + + + L + +S  F
Sbjct: 3  RLKEYREAKGVKQSAVAAKLGISRQTYSFYEKNQEKMTFEQAKIVCDFLGTRVSDIF 59


>gi|212711417|ref|ZP_03319545.1| hypothetical protein PROVALCAL_02490 [Providencia alcalifaciens
          DSM 30120]
 gi|212685873|gb|EEB45401.1| hypothetical protein PROVALCAL_02490 [Providencia alcalifaciens
          DSM 30120]
          Length = 189

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 26/78 (33%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K +   R   GMS  +L    GI    + + E G        L  +   L+ P S   
Sbjct: 14 ISKSLACERQKSGMSLSELARKAGIAKSTLSQLEAGSGNPSIETLWALCVALDIPFSRLI 73

Query: 75 DVSPTVCSDISSEENNVM 92
          +      + I   E   +
Sbjct: 74 EEKRAAVTVIRHGEGTPV 91


>gi|190573886|ref|YP_001971731.1| putative phage-like protein [Stenotrophomonas maltophilia K279a]
 gi|190011808|emb|CAQ45428.1| putative phage-related protein [Stenotrophomonas maltophilia
          K279a]
          Length = 378

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R++  R +  M+   LG    +T Q + ++E G        L  I+  L+ PI FF
Sbjct: 8  RRLKQARALRRMTLADLGARTDVTRQGLSQFENGDRVPAPETLLRIAAELDFPIEFF 64


>gi|170760185|ref|YP_001785975.1| cupin domain-containing protein [Clostridium botulinum A3 str.
          Loch Maree]
 gi|169407174|gb|ACA55585.1| cupin domain protein [Clostridium botulinum A3 str. Loch Maree]
          Length = 183

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 11/65 (16%), Positives = 27/65 (41%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + + ++  R    +S  +L E   I+   + + EK       + L  I+  L+ P 
Sbjct: 3  INSIIAENLKTLRTERNLSLGQLAELSNISKVMLSQIEKSDTNPTINTLWKIANGLKVPY 62

Query: 71 SFFFD 75
          +   +
Sbjct: 63 TLLLE 67


>gi|169633695|ref|YP_001707431.1| putative transcriptional regulator [Acinetobacter baumannii SDF]
 gi|169152487|emb|CAP01455.1| putative transcriptional regulator [Acinetobacter baumannii]
          Length = 197

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 35/92 (38%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + ++I +  RIR  R+  G + + L     ++   +   E+G     A  L+ ++  LE 
Sbjct: 2   DDINIRIAHRIRELRLARGYTLDVLAARCQVSRSAISLIERGETSPTAVVLEKLANGLEV 61

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           P++  F       S       N       P+ 
Sbjct: 62  PLTQIFTNEAGNSSSQPLICRNEQAEWRDPET 93


>gi|169828385|ref|YP_001698543.1| transcriptional regulator [Lysinibacillus sphaericus C3-41]
 gi|168992873|gb|ACA40413.1| transcriptional regulator [Lysinibacillus sphaericus C3-41]
          Length = 194

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 23/57 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VG  +R  R    MS E+L     ++   + K E+G      + L  I   L  P+
Sbjct: 21 QVGMNLREIRKNKRMSLEELASVSNVSKLTLGKIERGETNPTVNILWKICRGLHIPL 77


>gi|167764135|ref|ZP_02436262.1| hypothetical protein BACSTE_02518 [Bacteroides stercoris ATCC
           43183]
 gi|167698251|gb|EDS14830.1| hypothetical protein BACSTE_02518 [Bacteroides stercoris ATCC
           43183]
          Length = 123

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 26/101 (25%), Positives = 48/101 (47%), Gaps = 4/101 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G++++L R+   ++QE++ E L ++     K E G   +  +RL  I++VL       F 
Sbjct: 10  GQQLQLLRLEKNLTQEQMSEKLNLSTSAYCKIEYGETDLTLTRLDKIAKVLGISALSLFS 69

Query: 75  --DVSPTVCSDISSEENNVMDFISTPDGL-QLNRYFIQIDD 112
             D S    +D S + N+  D     + L +L +   +I D
Sbjct: 70  YIDKSMNPNTDNSCKNNSNNDSAYDLNDLRELIKANTRIID 110


>gi|167580827|ref|ZP_02373701.1| DNA-binding protein [Burkholderia thailandensis TXDOH]
          Length = 278

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/82 (18%), Positives = 33/82 (40%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           V+  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   
Sbjct: 2  DVNPLIARRVRALRDLRGYSLDALAERSKVSRSNISLIERAQSSPTAVVLERLANALGVS 61

Query: 70 ISFFFDVSPTVCSDISSEENNV 91
          ++  F+          + E  V
Sbjct: 62 LASLFEDDRAASPLSRAAEQPV 83


>gi|318061628|ref|ZP_07980349.1| hypothetical protein SSA3_27058 [Streptomyces sp. SA3_actG]
          Length = 77

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 28/61 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            VG RIR  R+   ++QE L E  G+  + + + E G +      +  I+  L  P++ 
Sbjct: 15 RAVGDRIRTARLEAAITQETLAERTGLDRKTIVRTESGTHSTLLDHVLLIARALGRPLAD 74

Query: 73 F 73
           
Sbjct: 75 L 75


>gi|313898624|ref|ZP_07832159.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956508|gb|EFR38141.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 112

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 33/78 (42%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +D ++G  I+   ++  M+Q++L + L I+ Q +  Y           L  IS++L  
Sbjct: 4  NQIDTDLGAAIKEGIILNNMTQKQLAKALHISQQTLSCYIHNQRTPNIHDLVAISQILNL 63

Query: 69 PISFFFDVSPTVCSDISS 86
           I     +   +   +  
Sbjct: 64 DIYVLLGLKKDIPDHLDH 81


>gi|227530294|ref|ZP_03960343.1| XRE family transcriptional regulator [Lactobacillus vaginalis
          ATCC 49540]
 gi|227349771|gb|EEJ40062.1| XRE family transcriptional regulator [Lactobacillus vaginalis
          ATCC 49540]
          Length = 203

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  G++I+ RR  L ++Q ++ E   +T Q V  +E        + L  IS V +  + 
Sbjct: 1  MKFGEQIKERRQELDLTQAEVAEKYFVTRQAVSNWEHDKTYPDLNMLVKISNVYQISLD 59


>gi|261345691|ref|ZP_05973335.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282566177|gb|EFB71712.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 84

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 34/69 (49%), Gaps = 1/69 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
            N +   +G +IRL+R    MS ++  + +G++  ++ ++E G + +    L   + + 
Sbjct: 2  NKNEIAKKLGVKIRLQRESHKMSLQQAAKLIGVSVDEMNRFENGESCIDVDSLFQFAYLF 61

Query: 67 ES-PISFFF 74
             P SF +
Sbjct: 62 NLEPASFLY 70


>gi|167720910|ref|ZP_02404146.1| DNA-binding protein [Burkholderia pseudomallei DM98]
          Length = 195

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/71 (16%), Positives = 30/71 (42%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   
Sbjct: 2  DINQLIARRVRALRDLRGYSLDALAERSKVSRSNISLIERAQSNPTAVVLERLANALGVS 61

Query: 70 ISFFFDVSPTV 80
          ++  F+     
Sbjct: 62 LASLFEDDRAA 72


>gi|86130705|ref|ZP_01049305.1| DNA binding helix-turn helix protein [Dokdonia donghaensis
          MED134]
 gi|85819380|gb|EAQ40539.1| DNA binding helix-turn helix protein [Dokdonia donghaensis
          MED134]
          Length = 66

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 30/61 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +++ R IL ++Q+ L + +G++ Q +   EK            +S +   P++ FF ++ 
Sbjct: 5  LKVERAILDLTQDDLAKKIGVSRQTINSIEKNRYVPSTVLALKLSALFNKPVNDFFKLTE 64

Query: 79 T 79
           
Sbjct: 65 E 65


>gi|22538172|ref|NP_689023.1| Cro/CI family transcriptional regulator [Streptococcus agalactiae
          2603V/R]
 gi|76798585|ref|ZP_00780814.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 18RS21]
 gi|22535081|gb|AAN00896.1|AE014283_15 transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 2603V/R]
 gi|76586050|gb|EAO62579.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 18RS21]
          Length = 358

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 32/69 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I L+R  +GM+QE L + L +T   + K+E    +     L  ++ + +  +    
Sbjct: 2  LGENIYLQRTQIGMTQENLSDYLHLTKTTISKWENNQAKPDIDYLILMANLFDISLDDLV 61

Query: 75 DVSPTVCSD 83
              T+  D
Sbjct: 62 GYQKTLSDD 70


>gi|326803106|ref|YP_004320924.1| DNA-binding helix-turn-helix protein [Aerococcus urinae
          ACS-120-V-Col10a]
 gi|326651536|gb|AEA01719.1| DNA-binding helix-turn-helix protein [Aerococcus urinae
          ACS-120-V-Col10a]
          Length = 115

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 35/80 (43%), Gaps = 3/80 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ I+ +R +  +SQ +L   L  T Q V  +E   +      L  +S + + P+  
Sbjct: 1  MKIGQIIKEQRELNNISQGQLASYLKTTQQTVSNWENNKSYPNVENLILLSSIFDQPME- 59

Query: 73 FFDVSPTVCSDISSEENNVM 92
            ++      DIS     V+
Sbjct: 60 --ELLNEDIRDISEATGRVI 77


>gi|331673630|ref|ZP_08374393.1| putative transcription regulator [Escherichia coli TA280]
 gi|331068903|gb|EGI40295.1| putative transcription regulator [Escherichia coli TA280]
          Length = 154

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 27/53 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G+R++  R+ +G+SQE   +  G     + + E+G +      ++ +++ L  
Sbjct: 10 GQRVKEFRIAIGLSQEAFADRCGFARSYMSRIERGCSNASLDAIEVLADALRI 62


>gi|300783935|ref|YP_003764226.1| XRE family transcriptional regulator [Amycolatopsis mediterranei
          U32]
 gi|299793449|gb|ADJ43824.1| XRE family transcriptional regulator [Amycolatopsis mediterranei
          U32]
          Length = 74

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 28/82 (34%), Gaps = 9/82 (10%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          MV   ++ N         +R  R   G M+Q  L   +G+T Q V   E+G         
Sbjct: 1  MVKPTRVTNS--------LRALRFAHGQMTQADLATRIGVTRQTVIAIEQGRYSPSLEMA 52

Query: 60 QHISEVLESPISFFFDVSPTVC 81
            I+ V   P+   F       
Sbjct: 53 FQIAHVFGVPLEEVFQYPEETS 74


>gi|296876453|ref|ZP_06900504.1| possible transcriptional regulator [Streptococcus parasanguinis
          ATCC 15912]
 gi|296432446|gb|EFH18242.1| possible transcriptional regulator [Streptococcus parasanguinis
          ATCC 15912]
          Length = 108

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/64 (31%), Positives = 30/64 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            + KRIR+ R   GM+QE+L E   +      K E     +  S L+ I + L   +  
Sbjct: 6  KYISKRIRILRTQSGMTQEQLEEKADLGTNYAYKLENLEPNIKISTLEKIIDALNVDLQT 65

Query: 73 FFDV 76
          FFD+
Sbjct: 66 FFDL 69


>gi|292670745|ref|ZP_06604171.1| conserved hypothetical protein [Selenomonas noxia ATCC 43541]
 gi|292647366|gb|EFF65338.1| conserved hypothetical protein [Selenomonas noxia ATCC 43541]
          Length = 128

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPI 70
          +N+ +RI+  R   G++Q++LG  +  + Q +  +E+G    +    +  +S V   P+
Sbjct: 1  MNISERIKYYRKENGLTQKELGFKINKSPQVISNWERGYTTTINQDDIVVLSGVFGIPV 59


>gi|253579633|ref|ZP_04856902.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849134|gb|EES77095.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 74

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RI+  R    MSQ++L E L I+ +    YE G   +    L  ++   +  + + 
Sbjct: 7  QRIQDLRTDADMSQKQLSEILHISQRSYSHYETGSRNIPVEMLIRLANYYDISVDYL 63


>gi|195978222|ref|YP_002123466.1| hypothetical protein Sez_1101 [Streptococcus equi subsp.
          zooepidemicus MGCS10565]
 gi|195974927|gb|ACG62453.1| hypothetical protein Sez_1101 [Streptococcus equi subsp.
          zooepidemicus MGCS10565]
          Length = 69

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 23/66 (34%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+   R   G++QE+L   L ++ Q +   E G      +    I+   +  I   F  
Sbjct: 3  NRLEEIRKQKGITQEELANALEVSRQTIGSLENGRYNPSITLAFKIARFFDLTIEQIFSD 62

Query: 77 SPTVCS 82
                
Sbjct: 63 EEDQNE 68


>gi|162147757|ref|YP_001602218.1| HTH-type transcriptional regulator [Gluconacetobacter
          diazotrophicus PAl 5]
 gi|209542381|ref|YP_002274610.1| XRE family transcriptional regulator [Gluconacetobacter
          diazotrophicus PAl 5]
 gi|161786334|emb|CAP55916.1| putative HTH-type transcriptional regulator [Gluconacetobacter
          diazotrophicus PAl 5]
 gi|209530058|gb|ACI49995.1| transcriptional regulator, XRE family [Gluconacetobacter
          diazotrophicus PAl 5]
          Length = 80

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 25/62 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI + R   G+++  L E + +  Q +   E+G  +        I  VL   +   F +
Sbjct: 3  NRIAMFRAERGLTRRALAEAVEVNPQTIGYLERGDYKPSLELALKICRVLGVEVDMVFSL 62

Query: 77 SP 78
           P
Sbjct: 63 EP 64


>gi|90962813|ref|YP_536728.1| transcriptional regulator [Lactobacillus salivarius UCC118]
 gi|301299968|ref|ZP_07206194.1| helix-turn-helix protein [Lactobacillus salivarius
          ACS-116-V-Col5a]
 gi|90822007|gb|ABE00645.1| Transcriptional regulator [Lactobacillus salivarius UCC118]
 gi|300852423|gb|EFK80081.1| helix-turn-helix protein [Lactobacillus salivarius
          ACS-116-V-Col5a]
          Length = 123

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 30/71 (42%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +   I   R    +SQ  L + LG+    + K E G  R+  + L  +S+  + PI+
Sbjct: 7  DKVLKNNIISLRKKYHVSQIALADKLGVGRDAIIKLENGTRRLSINELIKLSDFFKVPIN 66

Query: 72 FFFDVSPTVCS 82
              +S T   
Sbjct: 67 DLIGISKTAEQ 77


>gi|328958843|ref|YP_004373754.1| putative HTH-type transcriptional regulator [Carnobacterium sp.
          17-4]
 gi|328675167|gb|AEB31212.1| putative HTH-type transcriptional regulator [Carnobacterium sp.
          17-4]
          Length = 65

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI++ R+ + ++Q++L E + +T Q +   EKG          +I   +   +   F
Sbjct: 3  NRIKVARIQVDLTQQQLAEKVDVTRQTISLIEKGKYNPSLKLCLNICHAVNKTLDELF 60


>gi|326331424|ref|ZP_08197714.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Nocardioidaceae bacterium Broad-1]
 gi|325950680|gb|EGD42730.1| putative UDP-N-acetylglucosamine 1-carboxyvinyltransferase
          [Nocardioidaceae bacterium Broad-1]
          Length = 508

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 24/53 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G  IR  R   G++Q +L + L  +   + + E+G   +    +  +   L+
Sbjct: 9  IGNLIRDARKHKGLTQAQLADLLNTSQSAINRIEQGQQNLSLEMIARVGAALD 61


>gi|302384631|ref|YP_003820453.1| helix-turn-helix domain protein [Clostridium saccharolyticum WM1]
 gi|302195259|gb|ADL02830.1| helix-turn-helix domain protein [Clostridium saccharolyticum WM1]
          Length = 79

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 5/66 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VG++++  R    MSQ++L + L      I    + + E G   V    L  +S++L  P
Sbjct: 13 VGEKVKQIRKNQEMSQQQLSDKLETLAIYICRGSISRIEDGSRTVTDIELFGLSKILNVP 72

Query: 70 ISFFFD 75
          I F FD
Sbjct: 73 IQFLFD 78


>gi|292557685|gb|ADE30686.1| Transcriptional activator [Streptococcus suis GZ1]
 gi|319757394|gb|ADV69336.1| Transcriptional activator [Streptococcus suis JS14]
          Length = 292

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 3/66 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQ-VQKYEKGVNRVGASRLQHISEVLESPIS 71
          + + KR + RR  LG +Q++L E  GI  Q  + + EK      +  L  +S+ L+  + 
Sbjct: 8  MILSKRFKNRRKELGFTQKELAE--GICEQSLISRVEKLGVAPTSDILFALSQRLQVSMD 65

Query: 72 FFFDVS 77
          +FFD S
Sbjct: 66 YFFDES 71


>gi|229176555|ref|ZP_04303981.1| Transcription regulator [Bacillus cereus MM3]
 gi|228606911|gb|EEK64307.1| Transcription regulator [Bacillus cereus MM3]
          Length = 118

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 25/63 (39%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R     SQ++LGE + ++   V K E G  +        I+EV      F    S
Sbjct: 8  RIKELRKERKWSQKELGEKVDVSESFVSKVESGKKQPSREVTAKIAEVFNVTTDFLLGRS 67

Query: 78 PTV 80
             
Sbjct: 68 DEA 70


>gi|219871029|ref|YP_002475404.1| transcriptional regulator/helix-turn-helix domain-containing
          protein [Haemophilus parasuis SH0165]
 gi|219691233|gb|ACL32456.1| transcriptional regulator/helix-turn-helix domain-containing
          protein [Haemophilus parasuis SH0165]
          Length = 129

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 33/58 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +NV ++IR  R     SQE++ E + ++     + E+G  ++   +L+ I+++L+  I
Sbjct: 1  MNVHEKIRKLRETKLWSQEQMAEKMNMSLNGYARIERGETKLHLDKLEQIAQILDVDI 58


>gi|163734588|ref|ZP_02142027.1| helix-turn-helix domain protein, putative [Roseobacter litoralis
           Och 149]
 gi|161392081|gb|EDQ16411.1| helix-turn-helix domain protein, putative [Roseobacter litoralis
           Och 149]
          Length = 135

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 23/129 (17%), Positives = 49/129 (37%), Gaps = 11/129 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R    M+Q +L   LG+    ++ +E  ++   A+RL  ++ +L   + +  +
Sbjct: 16  GDRLAAARETSEMTQAELARRLGVRVATLRSWENDLSEPRANRLSMMAGLLNVSMMWLIN 75

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                      E        S  + L   R        ++R  ++  V  +   EKK R 
Sbjct: 76  GQGEGLDAPMEERTLPA---SASEVLNEMR--------ELRTDMMARVEQMGRLEKKLRL 124

Query: 136 IEEECMVEQ 144
              + + ++
Sbjct: 125 ALRDGVDDR 133


>gi|89096738|ref|ZP_01169630.1| Helix-turn-helix domain protein [Bacillus sp. NRRL B-14911]
 gi|89088753|gb|EAR67862.1| Helix-turn-helix domain protein [Bacillus sp. NRRL B-14911]
          Length = 212

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 25/124 (20%), Positives = 43/124 (34%), Gaps = 12/124 (9%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  N K        +G  ++       +S  KLG+  GI    + K   G  +     LQ
Sbjct: 1   MAENSK-------EIGGLLKGLLKERSLSMRKLGQLAGIDPAVISKIVNGKRKATPEHLQ 53

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
             +E L  PIS  ++ +           +++           L     +++DVK      
Sbjct: 54  RFAEHLNVPISRLYEAAGYPLGPAPERNDSIGQIQDILKTAHLMDGEFRLEDVKE----- 108

Query: 121 ELVR 124
           EL +
Sbjct: 109 ELAK 112


>gi|88802521|ref|ZP_01118048.1| putative prophage LambdaCh01, repressor protein [Polaribacter
          irgensii 23-P]
 gi|88781379|gb|EAR12557.1| putative prophage LambdaCh01, repressor protein [Polaribacter
          irgensii 23-P]
          Length = 245

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 25/60 (41%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            GK I+  R+I G+SQ+   E   +    +  YE+G +      L  ++      I  F
Sbjct: 3  FFGKNIKKIRVIKGLSQQVFAELFSLKRATLGAYEEGRSEPKIDTLIKVANYFSISIDDF 62


>gi|330830558|ref|YP_004393510.1| Cro/CI family transcriptional regulator [Aeromonas veronii B565]
 gi|328805694|gb|AEB50893.1| Cro/CI family transcriptional regulator [Aeromonas veronii B565]
          Length = 177

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 40/89 (44%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R+   R  LG+SQ +  E  G+T   +   E+       + LQ +  +   P+S FF 
Sbjct: 2   GERLAAVRHQLGLSQRRAAELSGLTHGAICMIEQDKVSPSVASLQKLLTIYGLPLSRFFA 61

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLN 104
              +   ++  + + +++  S    L+L 
Sbjct: 62  EEESRTPEVVIKADQLIELGSQGVSLKLV 90


>gi|325280366|ref|YP_004252908.1| helix-turn-helix domain-containing protein [Odoribacter
          splanchnicus DSM 20712]
 gi|324312175|gb|ADY32728.1| helix-turn-helix domain protein [Odoribacter splanchnicus DSM
          20712]
          Length = 104

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 4/53 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G+ I+  R    ++QE+LG  +G+   Q+ + E G N         I+ V +
Sbjct: 37 IGEAIKQARQSKNLTQEELGNLIGVQRAQISRIENGKN----LTFSTIARVFK 85


>gi|312863201|ref|ZP_07723439.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
           F0396]
 gi|311100737|gb|EFQ58942.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
           F0396]
          Length = 161

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 23/121 (19%), Positives = 51/121 (42%), Gaps = 19/121 (15%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
             ++  R  +G+SQ +L +   ++ + + ++EKG+  + +++ + +++  E  + +    
Sbjct: 2   NNLKKLRQSIGLSQNELAKIFNVSEKTILRWEKGLTDIKSTKAEQLAKYFEVSVPYLLGF 61

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV--RSIVSSEKKYR 134
           S            N  +     +          I D K  ++IIE+V   SI   EK Y 
Sbjct: 62  SNY---------KNKFEVEIDNE--------NGILDNKFLERIIEVVGEESIPIIEKNYI 104

Query: 135 T 135
            
Sbjct: 105 E 105


>gi|317133164|ref|YP_004092478.1| helix-turn-helix domain protein [Ethanoligenens harbinense
          YUAN-3]
 gi|315471143|gb|ADU27747.1| helix-turn-helix domain protein [Ethanoligenens harbinense
          YUAN-3]
          Length = 197

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/75 (18%), Positives = 33/75 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K I   R +  ++Q +L   L  T + V K+E+  +    S L+ ++ +    + +  
Sbjct: 8  IAKNIVELRKLTNLTQAELAGKLHYTDKAVSKWERAESVPDISVLKELAVLFGVTVDYLL 67

Query: 75 DVSPTVCSDISSEEN 89
          +      +  SS++ 
Sbjct: 68 ESEHPRKAAGSSKQK 82


>gi|289579258|ref|YP_003477885.1| XRE family transcriptional regulator [Thermoanaerobacter italicus
          Ab9]
 gi|289528971|gb|ADD03323.1| transcriptional regulator, XRE family [Thermoanaerobacter
          italicus Ab9]
          Length = 117

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 29/59 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G++++  R   G +Q ++ +  GI  + +  YE G   +  + L+ ++      I +F
Sbjct: 7  IGEKLKEVREKNGYTQAEVEKATGIKREMLSYYENGRREIDIATLEKLASFYGYSIEYF 65


>gi|225572811|ref|ZP_03781566.1| hypothetical protein RUMHYD_01002 [Blautia hydrogenotrophica DSM
          10507]
 gi|291459464|ref|ZP_06598854.1| DNA-binding protein [Oribacterium sp. oral taxon 078 str. F0262]
 gi|225039868|gb|EEG50114.1| hypothetical protein RUMHYD_01002 [Blautia hydrogenotrophica DSM
          10507]
 gi|291417921|gb|EFE91640.1| DNA-binding protein [Oribacterium sp. oral taxon 078 str. F0262]
          Length = 92

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/46 (28%), Positives = 23/46 (50%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          M+QE+L   L +T Q +  +E+ VN    + L+ I  +    +  F
Sbjct: 1  MTQEELAGKLNVTRQALSNWERDVNEPDLNTLKKICFLFGVHMDDF 46


>gi|223983684|ref|ZP_03633860.1| hypothetical protein HOLDEFILI_01141 [Holdemania filiformis DSM
          12042]
 gi|223964381|gb|EEF68717.1| hypothetical protein HOLDEFILI_01141 [Holdemania filiformis DSM
          12042]
          Length = 129

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/46 (28%), Positives = 23/46 (50%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          M+QE+L   L +T Q +  +E+ VN    + L+ I  +    +  F
Sbjct: 1  MTQEELAGKLNVTRQALSNWERDVNEPDLNTLKKICFLFGVHMDDF 46


>gi|199599682|ref|ZP_03213053.1| Transcriptional regulator, xre family protein [Lactobacillus
           rhamnosus HN001]
 gi|258507137|ref|YP_003169888.1| XRE family transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|199589426|gb|EDY97561.1| Transcriptional regulator, xre family protein [Lactobacillus
           rhamnosus HN001]
 gi|257147064|emb|CAR86037.1| Transcriptional regulator, xre family [Lactobacillus rhamnosus GG]
 gi|259648507|dbj|BAI40669.1| transcriptional regulator [Lactobacillus rhamnosus GG]
          Length = 291

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 10/55 (18%), Positives = 22/55 (40%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           K+++  R    M+Q  L + L ++   V  +E   N      +  I+ +    + 
Sbjct: 94  KQLQQIRTAHSMTQADLAQQLHVSRHTVSNWENERNLPDLETVTQIARIFSVSLD 148


>gi|159904716|ref|YP_001548378.1| XRE family transcriptional regulator [Methanococcus maripaludis
          C6]
 gi|159886209|gb|ABX01146.1| transcriptional regulator, XRE family [Methanococcus maripaludis
          C6]
          Length = 192

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 28/69 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +VG +I+  R    MS E+L +    +   ++  E G      + L  I+  L   +  F
Sbjct: 6  HVGIKIKQTRERQNMSIEELAKASNSSVTLIESLENGDLVPSLTPLFKIARALGVRLGTF 65

Query: 74 FDVSPTVCS 82
           D +P    
Sbjct: 66 LDDAPQNGP 74


>gi|71734040|ref|YP_276442.1| RtrR protein [Pseudomonas syringae pv. phaseolicola 1448A]
 gi|71554593|gb|AAZ33804.1| RtrR protein [Pseudomonas syringae pv. phaseolicola 1448A]
 gi|115265594|dbj|BAF32856.1| RtrR protein [Pseudomonas syringae pv. actinidiae]
 gi|115265646|dbj|BAF32907.1| RtrR protein [Pseudomonas syringae pv. phaseolicola]
 gi|330966722|gb|EGH66982.1| RtrR protein [Pseudomonas syringae pv. actinidiae str. M302091]
          Length = 76

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+RIR +R    +SQ+ L     I    + + E+G   +   +L  I+ VL    S
Sbjct: 8  LGRRIRTQRKACQISQDALALACNIDRSYMGRIERGEVNITVEKLYRIAGVLACDPS 64


>gi|163942747|ref|YP_001647631.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|163864944|gb|ABY46003.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
          Length = 73

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 28/69 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R    +SQ  LG+ +G + Q +   E+G           I+++  +P+   F +
Sbjct: 5  NRVREFRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAQIFGAPVEEIFTL 64

Query: 77 SPTVCSDIS 85
                D  
Sbjct: 65 VEGEDGDEG 73


>gi|134298752|ref|YP_001112248.1| XRE family transcriptional regulator [Desulfotomaculum reducens
           MI-1]
 gi|134051452|gb|ABO49423.1| putative transcriptional regulator, XRE family [Desulfotomaculum
           reducens MI-1]
          Length = 218

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 42/110 (38%), Gaps = 18/110 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G RIR+ R   G+S  +L    G+    +   E G  +     ++ I   L   ++ 
Sbjct: 1   MDIGARIRILRTQQGLSMNELSRRSGVGQSSLSYIESGQRQPTFDVIERICSGLGLSVAE 60

Query: 73  FF------------------DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           FF                  +V     S +S  +N   +F  T + L+L 
Sbjct: 61  FFNEGFMPCPYSSDINSLVNEVQNLKPSQVSLIKNIATEFSVTNEELELA 110


>gi|317407455|gb|EFV87415.1| transcriptional regulator [Achromobacter xylosoxidans C54]
          Length = 202

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 29/71 (40%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+R  R    M+ + L +  GI    + K E G   +   +   ++  L   ++  F 
Sbjct: 7  GARLRAERKARKMTLQDLSQASGIAVSTLSKAELGQIALSYEKFAALARALGIDMTRMFM 66

Query: 76 VSPTVCSDISS 86
          +     ++++ 
Sbjct: 67 LGDAAQAEVAP 77


>gi|317490202|ref|ZP_07948690.1| hypothetical protein HMPREF1023_02390 [Eggerthella sp. 1_3_56FAA]
 gi|316910696|gb|EFV32317.1| hypothetical protein HMPREF1023_02390 [Eggerthella sp. 1_3_56FAA]
          Length = 114

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 38/89 (42%), Gaps = 6/89 (6%)

Query: 1   MVGNKKI--PNPV----DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV 54
           M  N+K+   +P+      ++G R+   R   G+SQ  L E +G    ++   E G+  V
Sbjct: 14  MSKNEKMARKDPLVQRLSADLGSRLLEVRTSEGLSQNTLAEMVGTKHPRISNLEGGLVDV 73

Query: 55  GASRLQHISEVLESPISFFFDVSPTVCSD 83
             S +  ++  L+       D++     D
Sbjct: 74  RLSDIVKLARALDVNPGELLDLAAYKLED 102


>gi|302545781|ref|ZP_07298123.1| putative DNA-binding protein [Streptomyces hygroscopicus ATCC
           53653]
 gi|302463399|gb|EFL26492.1| putative DNA-binding protein [Streptomyces himastatinicus ATCC
           53653]
          Length = 469

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 25/68 (36%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
            +P   + + G RI   R   G++Q+ L     ++   + K E G      S +   +  
Sbjct: 71  SMPRSNEEHTGARIARTRRERGLTQQGLAMRANVSKSLLSKVECGQKPASPSLIAACARA 130

Query: 66  LESPISFF 73
           L    S  
Sbjct: 131 LSVTTSDL 138


>gi|302381620|ref|YP_003817443.1| XRE family transcriptional regulator [Brevundimonas subvibrioides
          ATCC 15264]
 gi|302192248|gb|ADK99819.1| transcriptional regulator, XRE family [Brevundimonas
          subvibrioides ATCC 15264]
          Length = 70

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 5/66 (7%)

Query: 10 PVDINVGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          P+D     ++R  R + G M+Q +LG+ +G+T Q +   E G           I+ V   
Sbjct: 5  PID----NQVRTLRFLSGEMTQAELGDRIGVTRQTIAAIEAGKYAPSLEAAFRIARVFGK 60

Query: 69 PISFFF 74
          P+   F
Sbjct: 61 PLEEVF 66


>gi|260459627|ref|ZP_05807881.1| transcriptional regulator, XRE family [Mesorhizobium
          opportunistum WSM2075]
 gi|259034429|gb|EEW35686.1| transcriptional regulator, XRE family [Mesorhizobium
          opportunistum WSM2075]
          Length = 199

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 32/65 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          IR  R + G++  ++   LG +   + + E+G++      L+  +E+   PIS FF    
Sbjct: 25 IRALRRVRGLTLAEIALKLGRSVGWLSQVERGLSTPSVGDLRAFAELFGVPISLFFSHEV 84

Query: 79 TVCSD 83
           V S+
Sbjct: 85 PVESE 89


>gi|254294734|ref|YP_003060757.1| XRE family transcriptional regulator [Hirschia baltica ATCC
          49814]
 gi|254043265|gb|ACT60060.1| transcriptional regulator, XRE family [Hirschia baltica ATCC
          49814]
          Length = 70

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I+  R    ++Q++L + +G+T Q +   EKG           I++ LE  ++  F
Sbjct: 11 IQELRKAKKLTQQELADAIGMTRQTIVAIEKGKYSPSLEAAFRIAQTLEQSLTDVF 66


>gi|313116911|ref|YP_004038035.1| transcriptional regulator, XRE family [Halogeometricum
          borinquense DSM 11551]
 gi|312294863|gb|ADQ68899.1| transcriptional regulator, XRE family [Halogeometricum
          borinquense DSM 11551]
          Length = 65

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 22/56 (39%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R RR    M+Q  L + + +T Q +   E+G           ++   +  +   F
Sbjct: 5  VRERRKAREMTQGDLADAVDVTRQSINAIERGRYNPSLELALKLAVEFDCAVEDLF 60


>gi|167920201|ref|ZP_02507292.1| putative DNA-binding protein [Burkholderia pseudomallei BCC215]
          Length = 195

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/71 (16%), Positives = 29/71 (40%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  + +R+R  R + G S + L E   ++   +   E   +   A  L+ ++  L   
Sbjct: 2  DINQRIARRVRALRDLRGYSLDALAERSKVSRSNISLIEHAQSNPTAVVLERLANALGVS 61

Query: 70 ISFFFDVSPTV 80
          ++  F+     
Sbjct: 62 LASLFEDDRAA 72


>gi|163716598|gb|ABY40510.1| putative repressor [Burkholderia phage Bups phi1]
          Length = 118

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/103 (20%), Positives = 44/103 (42%), Gaps = 10/103 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + NP     G+R + RR  LG+SQ+ + E +G++   + K E+G +    +    ++  L
Sbjct: 4   MENP---EFGRRAKERREALGLSQKHVAELVGVSQPAIAKVERGGST-TTTNGFALARAL 59

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
            + + +  +    V   I +  + + D      G      +I 
Sbjct: 60  LTTLEWL-EFGDEVGPQIPAGYDQLDDL-----GRAKVEAYIS 96


>gi|17988717|ref|NP_541350.1| MerR family transcriptional regulator [Brucella melitensis bv. 1
          str. 16M]
 gi|23500652|ref|NP_700092.1| transcriptional regulator [Brucella suis 1330]
 gi|148558695|ref|YP_001257846.1| putative transcriptional regulator [Brucella ovis ATCC 25840]
 gi|225629381|ref|ZP_03787414.1| MerR family transcriptional regulator [Brucella ceti str. Cudo]
 gi|225686684|ref|YP_002734656.1| hypothetical protein BMEA_B0907 [Brucella melitensis ATCC 23457]
 gi|254695939|ref|ZP_05157767.1| hypothetical protein Babob3T_15192 [Brucella abortus bv. 3 str.
          Tulya]
 gi|254700125|ref|ZP_05161953.1| hypothetical protein Bsuib55_04584 [Brucella suis bv. 5 str. 513]
 gi|254710842|ref|ZP_05172653.1| hypothetical protein BpinB_11376 [Brucella pinnipedialis B2/94]
 gi|254720212|ref|ZP_05182023.1| hypothetical protein Bru83_11898 [Brucella sp. 83/13]
 gi|256029224|ref|ZP_05442838.1| hypothetical protein BpinM2_00940 [Brucella pinnipedialis
          M292/94/1]
 gi|256043791|ref|ZP_05446713.1| hypothetical protein Bmelb1R_04819 [Brucella melitensis bv. 1
          str. Rev.1]
 gi|256058912|ref|ZP_05449126.1| hypothetical protein Bneo5_00926 [Brucella neotomae 5K33]
 gi|256157420|ref|ZP_05455338.1| hypothetical protein BcetM4_00971 [Brucella ceti M490/95/1]
 gi|256253602|ref|ZP_05459138.1| hypothetical protein BcetB_04769 [Brucella ceti B1/94]
 gi|256262183|ref|ZP_05464715.1| helix-turn-helix domain-containing protein [Brucella melitensis
          bv. 2 str. 63/9]
 gi|260167682|ref|ZP_05754493.1| hypothetical protein BruF5_04739 [Brucella sp. F5/99]
 gi|260564976|ref|ZP_05835461.1| helix-turn-helix domain-containing protein [Brucella melitensis
          bv. 1 str. 16M]
 gi|261216367|ref|ZP_05930648.1| transcriptional regulator [Brucella abortus bv. 3 str. Tulya]
 gi|261220739|ref|ZP_05935020.1| transcriptional regulator [Brucella ceti B1/94]
 gi|261318414|ref|ZP_05957611.1| transcriptional regulator [Brucella pinnipedialis B2/94]
 gi|261322848|ref|ZP_05962045.1| transcriptional regulator [Brucella neotomae 5K33]
 gi|261750617|ref|ZP_05994326.1| transcriptional regulator [Brucella suis bv. 5 str. 513]
 gi|261757118|ref|ZP_06000827.1| helix-turn-helix domain-containing protein [Brucella sp. F5/99]
 gi|265985222|ref|ZP_06097957.1| transcriptional regulator [Brucella sp. 83/13]
 gi|265986212|ref|ZP_06098769.1| transcriptional regulator [Brucella pinnipedialis M292/94/1]
 gi|265990218|ref|ZP_06102775.1| transcriptional regulator [Brucella melitensis bv. 1 str. Rev.1]
 gi|265995908|ref|ZP_06108465.1| transcriptional regulator [Brucella ceti M490/95/1]
 gi|306841347|ref|ZP_07474056.1| XRE family transcriptional regulator [Brucella sp. BO2]
 gi|17984528|gb|AAL53614.1| transcriptional regulator, merr family [Brucella melitensis bv. 1
          str. 16M]
 gi|23464297|gb|AAN34097.1| transcriptional regulator, putative [Brucella suis 1330]
 gi|148369980|gb|ABQ62852.1| putative transcriptional regulator [Brucella ovis ATCC 25840]
 gi|225615877|gb|EEH12926.1| MerR family transcriptional regulator [Brucella ceti str. Cudo]
 gi|225642789|gb|ACO02702.1| Hypothetical protein, conserved [Brucella melitensis ATCC 23457]
 gi|260152619|gb|EEW87712.1| helix-turn-helix domain-containing protein [Brucella melitensis
          bv. 1 str. 16M]
 gi|260917974|gb|EEX84835.1| transcriptional regulator [Brucella abortus bv. 3 str. Tulya]
 gi|260919323|gb|EEX85976.1| transcriptional regulator [Brucella ceti B1/94]
 gi|261297637|gb|EEY01134.1| transcriptional regulator [Brucella pinnipedialis B2/94]
 gi|261298828|gb|EEY02325.1| transcriptional regulator [Brucella neotomae 5K33]
 gi|261737102|gb|EEY25098.1| helix-turn-helix domain-containing protein [Brucella sp. F5/99]
 gi|261740370|gb|EEY28296.1| transcriptional regulator [Brucella suis bv. 5 str. 513]
 gi|262550205|gb|EEZ06366.1| transcriptional regulator [Brucella ceti M490/95/1]
 gi|263000887|gb|EEZ13577.1| transcriptional regulator [Brucella melitensis bv. 1 str. Rev.1]
 gi|263091879|gb|EEZ16201.1| helix-turn-helix domain-containing protein [Brucella melitensis
          bv. 2 str. 63/9]
 gi|264658409|gb|EEZ28670.1| transcriptional regulator [Brucella pinnipedialis M292/94/1]
 gi|264663814|gb|EEZ34075.1| transcriptional regulator [Brucella sp. 83/13]
 gi|306288650|gb|EFM59986.1| XRE family transcriptional regulator [Brucella sp. BO2]
 gi|326411076|gb|ADZ68140.1| MerR family transcriptional regulator [Brucella melitensis M28]
 gi|326554367|gb|ADZ89006.1| MerR family transcriptional regulator [Brucella melitensis M5-90]
          Length = 182

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 37/86 (43%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I++G R+R  RM   +SQ +L +  G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSIDIGGRLRYVRMRQNLSQRELAKRAGVTNSTISLIEANQSNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF + P     +  +   +++ 
Sbjct: 59 GMAEFFALEPDAPHRVFYQAEELVEI 84


>gi|51894099|ref|YP_076790.1| transcriptional regulator [Symbiobacterium thermophilum IAM 14863]
 gi|51857788|dbj|BAD41946.1| transcriptional regulator [Symbiobacterium thermophilum IAM 14863]
          Length = 196

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 24/130 (18%), Positives = 48/130 (36%), Gaps = 8/130 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G RIR  R   G++ ++L E  G++   + + E          L  +S  L  P++ 
Sbjct: 8   MSLGHRIRQTRTQKGITLQELAERSGLSKGFLCQLENDKASPSLQALDRLSAGLGVPVAL 67

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL--QLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
                      + +  N    +    +GL  QL           ++  ++EL     +  
Sbjct: 68  LLISQEERAHVVRA--NARQGYSMNGEGLSVQLLSA----PGRSLKMMLLELAPGAATGG 121

Query: 131 KKYRTIEEEC 140
             +    EEC
Sbjct: 122 DNHVHEGEEC 131


>gi|61680543|pdb|1Y7Y|A Chain A, High-Resolution Crystal Structure Of The Restriction-
          Modification Controller Protein C.Ahdi From Aeromonas
          Hydrophila
 gi|61680544|pdb|1Y7Y|B Chain B, High-Resolution Crystal Structure Of The Restriction-
          Modification Controller Protein C.Ahdi From Aeromonas
          Hydrophila
 gi|32263455|gb|AAP78483.1| C.AhdI [Aeromonas hydrophila]
          Length = 74

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 28/67 (41%), Gaps = 1/67 (1%)

Query: 9  NPVD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +  D +  G+R+R  R   G+SQE L    G+    V   E+G   V    +  ++  L+
Sbjct: 7  HYADLVKFGQRLRELRTAKGLSQETLAFLSGLDRSYVGGVERGQRNVSLVNILKLATALD 66

Query: 68 SPISFFF 74
                F
Sbjct: 67 IEPRELF 73


>gi|147671814|ref|YP_001215344.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae O395]
 gi|147673183|ref|YP_001217016.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae O395]
 gi|147673763|ref|YP_001217013.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae O395]
 gi|153824168|ref|ZP_01976835.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae B33]
 gi|229508578|ref|ZP_04398081.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae BX 330286]
 gi|254226669|ref|ZP_04920247.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae V51]
 gi|254226678|ref|ZP_04920256.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae V51]
 gi|262166856|ref|ZP_06034579.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae RC27]
 gi|262166979|ref|ZP_06034698.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae RC27]
 gi|298498461|ref|ZP_07008268.1| cryptic phage CTXphi transcriptional repressor rstR [Vibrio
          cholerae MAK 757]
 gi|11134457|sp|O85264|RSR2_VIBCH RecName: Full=Cryptic phage CTXphi transcriptional repressor rstR
 gi|6851391|gb|AAF29541.1|AF220606_1 RstR [Vibrio cholerae]
 gi|11559577|gb|AAG38011.1|AF262318_2 RstR classical [Vibrio phage CTX]
 gi|21637281|gb|AAM70434.1|AF510999_1 RstR [Vibrio phage CTX]
 gi|3252903|gb|AAC24223.1| repressor [Vibrio cholerae 569B]
 gi|34980245|gb|AAQ84035.1| RstR [Vibrio cholerae]
 gi|66268071|gb|AAY43122.1| RstR [Vibrio phage CTX]
 gi|125620783|gb|EAZ49139.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae V51]
 gi|125620792|gb|EAZ49148.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae V51]
 gi|126518308|gb|EAZ75533.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae B33]
 gi|146314197|gb|ABQ18737.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae O395]
 gi|146315066|gb|ABQ19605.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae O395]
 gi|146315646|gb|ABQ20185.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae O395]
 gi|221236971|gb|ACM16038.1| RstR [Vibrio phage CTX]
 gi|221236983|gb|ACM16045.1| RstR [Vibrio phage CTX]
 gi|221236998|gb|ACM16055.1| RstR [Vibrio phage CTX]
 gi|227013372|gb|ACP09582.1| cryptic phage CTXphi transcriptional repressor RstR, classical
          [Vibrio cholerae O395]
 gi|227013375|gb|ACP09585.1| cryptic phage CTXphi transcriptional repressor RstR, classical
          [Vibrio cholerae O395]
 gi|227015379|gb|ACP11588.1| cryptic phage CTXphi transcriptional repressor RstR, classical
          [Vibrio cholerae O395]
 gi|229354532|gb|EEO19455.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae BX 330286]
 gi|258523312|gb|ACV73677.1| RstR [Vibrio phage CTX]
 gi|259046014|gb|ACV91462.1| RstR [Vibrio phage CTX]
 gi|259046023|gb|ACV91471.1| RstR [Vibrio phage CTX]
 gi|259046033|gb|ACV91480.1| RstR [Vibrio phage CTX]
 gi|259046042|gb|ACV91489.1| RstR [Vibrio phage CTX]
 gi|259046052|gb|ACV91498.1| RstR [Vibrio phage CTX]
 gi|259046061|gb|ACV91507.1| RstR [Vibrio phage CTX]
 gi|259046071|gb|ACV91516.1| RstR [Vibrio phage CTX]
 gi|259046080|gb|ACV91525.1| RstR [Vibrio phage CTX]
 gi|259046090|gb|ACV91534.1| RstR [Vibrio phage CTX]
 gi|259046099|gb|ACV91543.1| RstR [Vibrio phage CTX]
 gi|259046109|gb|ACV91552.1| RstR [Vibrio phage CTX]
 gi|259046118|gb|ACV91561.1| RstR [Vibrio phage CTX]
 gi|259130184|gb|ACV95535.1| RstR [Vibrio phage CTX]
 gi|259130202|gb|ACV95552.1| RstR [Vibrio phage CTX]
 gi|259130211|gb|ACV95561.1| RstR [Vibrio phage CTX]
 gi|259130221|gb|ACV95570.1| RstR [Vibrio phage CTX]
 gi|259130230|gb|ACV95579.1| RstR [Vibrio phage CTX]
 gi|259130246|gb|ACV95593.1| RstR [Vibrio phage CTX]
 gi|259130255|gb|ACV95602.1| RstR [Vibrio phage CTX]
 gi|262024620|gb|EEY43302.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae RC27]
 gi|262024719|gb|EEY43397.1| cryptic phage CTXphi transcriptional repressor RstR [Vibrio
          cholerae RC27]
 gi|297542794|gb|EFH78844.1| cryptic phage CTXphi transcriptional repressor rstR [Vibrio
          cholerae MAK 757]
          Length = 111

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/83 (18%), Positives = 36/83 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +IR  R+   ++QE++   +G+       YEKG        ++ +++    PI+     
Sbjct: 4  SKIRDLRVERDLNQEEVANGIGVGKNTYLAYEKGTQSPKLETVEKLAKFYGVPIAELVSD 63

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
          S T   +    +  +++ +  P+
Sbjct: 64 SETNIDEKLKSKIRMIESLDEPE 86


>gi|325833594|ref|ZP_08166043.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|325485518|gb|EGC87987.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 101

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 38/89 (42%), Gaps = 6/89 (6%)

Query: 1  MVGNKKI--PNPV----DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV 54
          M  N+K+   +P+      ++G R+   R   G+SQ  L E +G    ++   E G+  V
Sbjct: 1  MSKNEKMARKDPLVQRLSADLGSRLLEVRTSEGLSQTTLAEMVGTKHPRISNLEGGLVDV 60

Query: 55 GASRLQHISEVLESPISFFFDVSPTVCSD 83
            S +  ++  L+       D++     D
Sbjct: 61 RLSDIVKLARALDVNPGELLDLAAYKLED 89


>gi|325262373|ref|ZP_08129110.1| transcriptional regulator [Clostridium sp. D5]
 gi|324032205|gb|EGB93483.1| transcriptional regulator [Clostridium sp. D5]
          Length = 140

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/78 (17%), Positives = 34/78 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  RM    + E+L + +G++ Q V K+E   +     +   ++ +    +    
Sbjct: 8  IGNTLRCLRMKHKYTMEELAKVIGVSRQSVAKWENNESLPDLLKCSDLANLYGITVDAII 67

Query: 75 DVSPTVCSDISSEENNVM 92
          + S    S+ S ++   +
Sbjct: 68 NGSFADNSEESEDDGKYI 85


>gi|315143625|gb|EFT87641.1| peptidase S24-like domain protein [Enterococcus faecalis TX2141]
          Length = 228

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/80 (18%), Positives = 31/80 (38%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I   R    M+  +L E +GI    + +YE    +   +++   ++ LE+   +      
Sbjct: 4  ITDLRKQKKMTSTELAEKVGIAKSAMSRYENRTRQFPVNKISDFAKALETSPEYLLGFEE 63

Query: 79 TVCSDISSEENNVMDFISTP 98
             S I ++ N     + T 
Sbjct: 64 EPLSQILTKINETSAKLETK 83


>gi|312887403|ref|ZP_07747002.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
 gi|311300043|gb|EFQ77113.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
          Length = 138

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          I++G+ I   R   G+ QE L   LG++ Q + + E+    V   +L+ I+++L  
Sbjct: 7  IHIGRNIERLREFKGIKQEVLASGLGVSQQTISRIEQSET-VDEVKLEQIAKLLGV 61


>gi|313113184|ref|ZP_07798810.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii KLE1255]
 gi|310624523|gb|EFQ07852.1| helix-turn-helix protein [Faecalibacterium cf. prausnitzii KLE1255]
          Length = 270

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 24/125 (19%), Positives = 48/125 (38%), Gaps = 21/125 (16%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  +   R   GM+Q++L  CL ++ + V K+E+G++    S L  ++E L   ++    
Sbjct: 25  GSFLAQLRREKGMTQKELAACLYVSDKAVSKWERGLSVPDISLLVPLAEQLNVTVA---- 80

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK-------------IIEL 122
               +      EE        T + ++    F   +  + RQ              ++ L
Sbjct: 81  ---ELLHGCRVEEEQRFTREETEELIRKALTFSA-EPPERRQARTQKFLPLYGVSVVLGL 136

Query: 123 VRSIV 127
           V +  
Sbjct: 137 VETAA 141


>gi|290475035|ref|YP_003467919.1| regulatory protein cro (Antirepressor) [Xenorhabdus bovienii
          SS-2004]
 gi|289174352|emb|CBJ81146.1| Regulatory protein cro (Antirepressor) [Xenorhabdus bovienii
          SS-2004]
          Length = 66

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + KR++ +R  L M+Q +L E  G   Q +Q+ E G+ +     +  IS+ L+    + 
Sbjct: 4  ISKRLKTKRHELNMTQAQLAELSGTRQQSIQRIEAGITK-RPRFILEISKALDCDPLWL 61


>gi|229077098|ref|ZP_04209803.1| Transcriptional regulator, Xre [Bacillus cereus Rock4-18]
 gi|228706198|gb|EEL58482.1| Transcriptional regulator, Xre [Bacillus cereus Rock4-18]
          Length = 292

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    +SQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNISQSELCRGI-CSQSQISKIEKGIIYPSSILLYQLSERLGVDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|226355114|ref|YP_002784854.1| XRE family transcriptional regulator [Deinococcus deserti VCD115]
 gi|226317104|gb|ACO45100.1| putative Transcriptional regulator, XRE family [Deinococcus
          deserti VCD115]
          Length = 80

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 29/73 (39%), Gaps = 7/73 (9%)

Query: 6  KIPNPVD-------INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
          + P P D       I VG+RIR  R+  GM+Q++     GI      K E        S 
Sbjct: 4  RKPQPTDPLVQEVRIRVGQRIRELRLAKGMNQDEFAAAAGIHRTHPGKLENAQIDPQLST 63

Query: 59 LQHISEVLESPIS 71
          L  ++  L   + 
Sbjct: 64 LVKVASALGVRVD 76


>gi|167903989|ref|ZP_02491194.1| DNA-binding protein [Burkholderia pseudomallei NCTC 13177]
          Length = 195

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/71 (16%), Positives = 30/71 (42%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   
Sbjct: 2  DINQLIARRVRTLRDLRGYSLDALAERSKVSRSNISLIERAQSNPTAVVLERLANALGVS 61

Query: 70 ISFFFDVSPTV 80
          ++  F+     
Sbjct: 62 LASLFEDDRAA 72


>gi|297619249|ref|YP_003707354.1| XRE family transcriptional regulator [Methanococcus voltae A3]
 gi|297378226|gb|ADI36381.1| transcriptional regulator, XRE family [Methanococcus voltae A3]
          Length = 184

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 23/88 (26%), Positives = 36/88 (40%), Gaps = 8/88 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI   R I G+S E++ E L I+ +Q + YE G   + AS L  I+      +S      
Sbjct: 11  RIIEFREITGISIEEMAEYLHISPEQYRAYESGDADIPASMLCEIAHKFNVDLSLLLTGK 70

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNR 105
            T           +        G+++NR
Sbjct: 71  DTKMH--------IFSVTRKNQGVEVNR 90


>gi|153811409|ref|ZP_01964077.1| hypothetical protein RUMOBE_01801 [Ruminococcus obeum ATCC 29174]
 gi|149832536|gb|EDM87620.1| hypothetical protein RUMOBE_01801 [Ruminococcus obeum ATCC 29174]
          Length = 121

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/85 (20%), Positives = 35/85 (41%), Gaps = 1/85 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-FFF 74
           G+ I+  R   G+S+ +L + L I  + +   E          L  +  +L+  +  FFF
Sbjct: 16  GQAIKAARKAKGISRNQLADKLNIAPRYIASIENSGQHPSLQILYELVTLLDVSVDQFFF 75

Query: 75  DVSPTVCSDISSEENNVMDFISTPD 99
                  S    + + +++ +S  D
Sbjct: 76  PEREQEKSTRRRQLDTMLNGMSEKD 100


>gi|94988428|ref|YP_596529.1| phage transcriptional repressor [Streptococcus pyogenes MGAS9429]
 gi|94541936|gb|ABF31985.1| phage transcriptional repressor [Streptococcus pyogenes MGAS9429]
          Length = 251

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 30/68 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R    M+Q++L +  G     +  +E G  ++    ++  ++ L+      F
Sbjct: 4  LGNSIKEIRKSKKMTQKELAKLTGFKQNTISNHENGNRQLDEVDIRKYAKALKIEPQQLF 63

Query: 75 DVSPTVCS 82
          D S +  +
Sbjct: 64 DYSSSPTN 71


>gi|24374515|ref|NP_718558.1| prophage LambdaSo, Cro/CI family transcriptional regulator
          [Shewanella oneidensis MR-1]
 gi|24349100|gb|AAN56002.1|AE015736_18 prophage LambdaSo, transcriptional regulator, Cro/CI family
          [Shewanella oneidensis MR-1]
          Length = 88

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 23/51 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
            I + R   G+SQ +LG+ +G T   V  YE G+  +  +    I +   
Sbjct: 15 NNISIYRKKAGLSQTELGKQIGKTQGAVGNYEAGIRNIDLTTCWEIVKAFN 65


>gi|83746365|ref|ZP_00943417.1| hypothetical protein RRSL_03958 [Ralstonia solanacearum UW551]
 gi|83726906|gb|EAP74032.1| hypothetical protein RRSL_03958 [Ralstonia solanacearum UW551]
          Length = 119

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 28/71 (39%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +   P P+   +G+RI+  R     SQE L     +    +   E+G+       L ++ 
Sbjct: 19 STSRPAPILTALGERIKQCRHAADKSQETLAFEAHVDRTYISSIERGIANPSVETLANLC 78

Query: 64 EVLESPISFFF 74
            L   ++  F
Sbjct: 79 YALNVTLAELF 89


>gi|53725534|ref|YP_103601.1| DNA-binding protein [Burkholderia mallei ATCC 23344]
 gi|67643873|ref|ZP_00442616.1| DNA-binding protein [Burkholderia mallei GB8 horse 4]
 gi|76811218|ref|YP_334564.1| DNA-binding protein [Burkholderia pseudomallei 1710b]
 gi|121600358|ref|YP_992235.1| DNA-binding protein [Burkholderia mallei SAVP1]
 gi|126450800|ref|YP_001081418.1| DNA-binding protein [Burkholderia mallei NCTC 10247]
 gi|134280073|ref|ZP_01766784.1| DNA-binding protein [Burkholderia pseudomallei 305]
 gi|167000869|ref|ZP_02266674.1| DNA-binding protein [Burkholderia mallei PRL-20]
 gi|167739889|ref|ZP_02412663.1| DNA-binding protein [Burkholderia pseudomallei 14]
 gi|167847008|ref|ZP_02472516.1| DNA-binding protein [Burkholderia pseudomallei B7210]
 gi|167895592|ref|ZP_02482994.1| DNA-binding protein [Burkholderia pseudomallei 7894]
 gi|254175429|ref|ZP_04882089.1| DNA-binding protein [Burkholderia mallei ATCC 10399]
 gi|254191730|ref|ZP_04898233.1| DNA-binding protein [Burkholderia pseudomallei Pasteur 52237]
 gi|254196114|ref|ZP_04902539.1| DNA-binding protein [Burkholderia pseudomallei S13]
 gi|254202294|ref|ZP_04908657.1| DNA-binding protein [Burkholderia mallei FMH]
 gi|254207627|ref|ZP_04913977.1| DNA-binding protein [Burkholderia mallei JHU]
 gi|254259704|ref|ZP_04950758.1| DNA-binding protein [Burkholderia pseudomallei 1710a]
 gi|254356472|ref|ZP_04972748.1| DNA-binding protein [Burkholderia mallei 2002721280]
 gi|52428957|gb|AAU49550.1| DNA-binding protein [Burkholderia mallei ATCC 23344]
 gi|76580671|gb|ABA50146.1| DNA-binding protein [Burkholderia pseudomallei 1710b]
 gi|121229168|gb|ABM51686.1| DNA-binding protein [Burkholderia mallei SAVP1]
 gi|126243670|gb|ABO06763.1| DNA-binding protein [Burkholderia mallei NCTC 10247]
 gi|134248080|gb|EBA48163.1| DNA-binding protein [Burkholderia pseudomallei 305]
 gi|147746541|gb|EDK53618.1| DNA-binding protein [Burkholderia mallei FMH]
 gi|147751521|gb|EDK58588.1| DNA-binding protein [Burkholderia mallei JHU]
 gi|148025469|gb|EDK83623.1| DNA-binding protein [Burkholderia mallei 2002721280]
 gi|157939401|gb|EDO95071.1| DNA-binding protein [Burkholderia pseudomallei Pasteur 52237]
 gi|160696473|gb|EDP86443.1| DNA-binding protein [Burkholderia mallei ATCC 10399]
 gi|169652858|gb|EDS85551.1| DNA-binding protein [Burkholderia pseudomallei S13]
 gi|238525329|gb|EEP88757.1| DNA-binding protein [Burkholderia mallei GB8 horse 4]
 gi|243063295|gb|EES45481.1| DNA-binding protein [Burkholderia mallei PRL-20]
 gi|254218393|gb|EET07777.1| DNA-binding protein [Burkholderia pseudomallei 1710a]
          Length = 195

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/68 (17%), Positives = 30/68 (44%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   
Sbjct: 2  DINQLIARRVRALRDLRGYSLDALAERSKVSRSNISLIERAQSNPTAVVLERLANALGVS 61

Query: 70 ISFFFDVS 77
          ++  F+  
Sbjct: 62 LASLFEDD 69


>gi|332666273|ref|YP_004449061.1| helix-turn-helix domain-containing protein [Haliscomenobacter
           hydrossis DSM 1100]
 gi|332335087|gb|AEE52188.1| helix-turn-helix domain protein [Haliscomenobacter hydrossis DSM
           1100]
          Length = 173

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/90 (22%), Positives = 34/90 (37%), Gaps = 4/90 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           K IR  R  + +SQE+L   +G+    +  YE G        L  IS +    I      
Sbjct: 12  KNIRFLRKRMNLSQEELACKIGLNRGNIASYENGSAEPKVCNLLRISRLFGVSICDLAQR 71

Query: 77  SPTVCSDIS----SEENNVMDFISTPDGLQ 102
             +     S       +++ D +  P+ L+
Sbjct: 72  DLSEGQAASRVNGHLVSDLQDQLKNPEQLE 101


>gi|328554991|gb|AEB25483.1| transcription regulator protein [Bacillus amyloliquefaciens
          TA208]
 gi|328913346|gb|AEB64942.1| BamHI control element [Bacillus amyloliquefaciens LL3]
          Length = 81

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 7  IPNPVDINVGKRIRLRRMIL-GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          + N + +  G+++R  R+    MSQEKL     +    +   E+G   V    ++ IS+ 
Sbjct: 1  MTNNIRLLFGQKVRQIRLSKSNMSQEKLAFECDLHRTYISDIERGTRNVSLDNIEKISKA 60

Query: 66 LESPISFFFD 75
          L        D
Sbjct: 61 LGVQPKDLLD 70


>gi|262377548|ref|ZP_06070770.1| RtrR protein [Acinetobacter lwoffii SH145]
 gi|262307604|gb|EEY88745.1| RtrR protein [Acinetobacter lwoffii SH145]
          Length = 70

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 29/60 (48%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +   +G  IR  R+   ++QEKL     I    V + E+G   +   +L  I+++L+ 
Sbjct: 2  NDLAQKIGHAIRNCRIEQKITQEKLALLCNIDRSYVGRIERGEVNITVLKLYEIAQILKV 61


>gi|254819472|ref|ZP_05224473.1| XRE family transcriptional regulator [Mycobacterium
          intracellulare ATCC 13950]
          Length = 64

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 27/61 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RI+  R+  G +QE+L    G++   +   E G   +   RL  I++ L    S   +
Sbjct: 2  GTRIQTLRIDRGYTQEELALRSGVSRNVLIDLEYGRRGILHERLFDIAKALGVSASELLE 61

Query: 76 V 76
           
Sbjct: 62 G 62


>gi|239627441|ref|ZP_04670472.1| BcrR [Clostridiales bacterium 1_7_47_FAA]
 gi|239517587|gb|EEQ57453.1| BcrR [Clostridiales bacterium 1_7_47FAA]
          Length = 204

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 31/75 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +++R  R+   ++QE+L E L ++   + K+E G        L+ IS+     I      
Sbjct: 5  EKLRQLRIGKNLTQEQLAEQLYVSRTAISKWEGGKGYPNIESLKCISKFFSITIDELLSG 64

Query: 77 SPTVCSDISSEENNV 91
             +    +    NV
Sbjct: 65 EELITLAETENNANV 79


>gi|182626310|ref|ZP_02954066.1| DNA-binding protein [Clostridium perfringens D str. JGS1721]
 gi|177908408|gb|EDT70950.1| DNA-binding protein [Clostridium perfringens D str. JGS1721]
          Length = 65

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+  R +  MSQ +L + +G+  Q +   E             I++ L + ++  F
Sbjct: 2  NKIKEYRSLANMSQLELSKKVGVVRQTINLIENQKYNPSLDLCIRIAKALGTDLNTLF 59


>gi|168209805|ref|ZP_02635430.1| DNA-binding protein [Clostridium perfringens B str. ATCC 3626]
 gi|170712069|gb|EDT24251.1| DNA-binding protein [Clostridium perfringens B str. ATCC 3626]
          Length = 223

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 33/57 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG+RI+  R   GM+Q+ L + LG+  + V + E G   +  S +  +S+VL + ++
Sbjct: 4  VGERIKEAREKSGMTQKALAKKLGVAEKFVNEVETGRKIINESLISKVSKVLNTDLN 60


>gi|78066472|ref|YP_369241.1| XRE family transcriptional regulator [Burkholderia sp. 383]
 gi|77967217|gb|ABB08597.1| transcriptional regulator, XRE family with cupin sensor
          [Burkholderia sp. 383]
          Length = 191

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/88 (19%), Positives = 36/88 (40%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V +++G +IR  R  L ++ ++     GI+   + + E+G      + L  I++ L   +
Sbjct: 11 VAMSLGNKIRALRQRLKLTLDETSTIAGISKPFLSQVERGRATPSITSLVRIAKALGVTM 70

Query: 71 SFFFDVSPTVCSDISSEENNVMDFISTP 98
           +F D      S           F ++ 
Sbjct: 71 QYFIDTPTEARSVCRGNALQYFQFTNSA 98


>gi|22538150|ref|NP_689001.1| Cro/CI family transcriptional regulator [Streptococcus agalactiae
           2603V/R]
 gi|76799144|ref|ZP_00781328.1| transcriptional regulator, Cro/CI family [Streptococcus agalactiae
           18RS21]
 gi|77408029|ref|ZP_00784778.1| transcriptional regulator, Cro/CI family [Streptococcus agalactiae
           COH1]
 gi|22535058|gb|AAN00874.1|AE014282_16 transcriptional regulator, Cro/CI family [Streptococcus agalactiae
           2603V/R]
 gi|76585496|gb|EAO62070.1| transcriptional regulator, Cro/CI family [Streptococcus agalactiae
           18RS21]
 gi|77173391|gb|EAO76511.1| transcriptional regulator, Cro/CI family [Streptococcus agalactiae
           COH1]
          Length = 99

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 32/79 (40%)

Query: 29  SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEE 88
           +Q +L   L I+ +    +E G        +  ++ +L+  + +    S    + I   +
Sbjct: 21  TQTELASKLNISQKSYSNWESGKAEPTLDNIIKLANILDVTVDYLLGRSDNFSNTIVLSK 80

Query: 89  NNVMDFISTPDGLQLNRYF 107
           NN+  F      L+L + +
Sbjct: 81  NNMKSFSKRLKELRLEKEY 99


>gi|325977288|ref|YP_004287004.1| HTH-type transcriptional regulator [Streptococcus gallolyticus
           subsp. gallolyticus ATCC BAA-2069]
 gi|325177216|emb|CBZ47260.1| Uncharacterized HTH-type transcriptional regulator Mb0023
           [Streptococcus gallolyticus subsp. gallolyticus ATCC
           BAA-2069]
          Length = 210

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/99 (21%), Positives = 42/99 (42%), Gaps = 4/99 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N GK +   R   G++Q +L E +G+    + K E G +    + L  I+   ++  +  
Sbjct: 8   NFGKNVAQLRKKKGVTQAELAEVIGVKKAAISKIELGTSYPTFANLDKIARYFKATPNEL 67

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
           F  S    +DI  E   +     +    ++ R   +I++
Sbjct: 68  FGTS----TDIELERAVIKTDKYSEKAEKIIRAVSKIEE 102


>gi|324991594|gb|EGC23527.1| transcriptional regulator [Streptococcus sanguinis SK353]
          Length = 158

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 10/55 (18%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  I+  R    ++Q +    +GI+   + +YE G++ +    +  I +     
Sbjct: 2  IGDNIKYLRKTNELTQPEFARIVGISRNSLSRYENGISPISTELIDTICQKFNVS 56


>gi|323143709|ref|ZP_08078379.1| DNA-binding helix-turn-helix protein [Succinatimonas hippei YIT
          12066]
 gi|322416512|gb|EFY07176.1| DNA-binding helix-turn-helix protein [Succinatimonas hippei YIT
          12066]
          Length = 186

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + + ++++  R    ++Q KL E  GI    ++KYE  +N      +Q++++      
Sbjct: 1  MKISQKLKELRKENQLTQGKLAELSGINHSAIRKYEIDINVPQDQHIQNLAKTFNISP 58


>gi|326423656|ref|NP_759095.2| putative transcriptional regulator [Vibrio vulnificus CMCP6]
 gi|319999008|gb|AAO08622.2| Predicted transcriptional regulator [Vibrio vulnificus CMCP6]
          Length = 108

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/111 (16%), Positives = 47/111 (42%), Gaps = 13/111 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPISFFFD 75
           +R++  R   G+S+E++ + +  +   ++ +E    +    R    +  +L   +S++  
Sbjct: 9   QRLKQARKAAGLSREQVAKAMHKSPHTIKSWETTSRQPRTLREVERLCSILGITVSWYLT 68

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
             P V   + SE              +L   F  + D + +  ++EL++ +
Sbjct: 69  GQPPVKPIMPSEREQ-----------ELLALFSGLSDEQ-QSAVLELIKVM 107


>gi|317508654|ref|ZP_07966310.1| hypothetical protein HMPREF9336_02682 [Segniliparus rugosus ATCC
          BAA-974]
 gi|316253057|gb|EFV12471.1| hypothetical protein HMPREF9336_02682 [Segniliparus rugosus ATCC
          BAA-974]
          Length = 86

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 1/62 (1%)

Query: 11 VD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D   +G  +  RR+  G S   L    GI    + +YE          L  I+  L+ P
Sbjct: 10 IDLRALGHELARRRVAKGWSLTDLVGHTGIAKATLHRYEMAQTNHTIRHLVKIARALDVP 69

Query: 70 IS 71
          IS
Sbjct: 70 IS 71


>gi|310825965|ref|YP_003958322.1| hypothetical protein ELI_0340 [Eubacterium limosum KIST612]
 gi|308737699|gb|ADO35359.1| hypothetical protein ELI_0340 [Eubacterium limosum KIST612]
          Length = 150

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 11/81 (13%), Positives = 32/81 (39%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++   +   R +   +QE++   +G++ Q V K+E G +         ++E+    +   
Sbjct: 4  HLSMNLTALRKMNQYTQEEVASRIGVSRQAVAKWENGESAPDVINCNALAEMYNVSLDDL 63

Query: 74 FDVSPTVCSDISSEENNVMDF 94
           + +      ++    +   F
Sbjct: 64 VNYNEKEKDGLAIPPKDKHMF 84


>gi|300115620|ref|YP_003762194.1| XRE family transcriptional regulator [Nitrosococcus watsoni
          C-113]
 gi|299541562|gb|ADJ29873.1| transcriptional regulator, XRE family [Nitrosococcus watsonii
          C-113]
          Length = 104

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 29/57 (50%), Gaps = 1/57 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPI 70
          +G  +R RR  LG +Q++L E  G+   Q+ + E G +  V    L++++      +
Sbjct: 2  IGNIVRNRRKQLGWTQKELAEKSGVAQAQISRLEAGKSYNVTIDSLRNLAWAFGCSV 58


>gi|325679169|ref|ZP_08158760.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
 gi|324109098|gb|EGC03323.1| DNA-binding helix-turn-helix protein [Ruminococcus albus 8]
          Length = 373

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 28/75 (37%), Gaps = 2/75 (2%)

Query: 20 RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPT 79
          +  R    ++QE+  E   ++ Q V ++E G      + L  I+E     I     V   
Sbjct: 10 KKFRRERELTQEQAAEAFSVSTQAVSRWENGQTSPDITLLPIIAEYFGVSIETLLGVDSE 69

Query: 80 VCSDISSEENNVMDF 94
              +   E  + DF
Sbjct: 70 KRKAL--HEQYMNDF 82


>gi|253570557|ref|ZP_04847965.1| transcriptional regulator [Bacteroides sp. 1_1_6]
 gi|251839506|gb|EES67589.1| transcriptional regulator [Bacteroides sp. 1_1_6]
          Length = 73

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 27/65 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I++ R +  +SQE+L   +G+T + +   E G           I+     P+   F +
Sbjct: 8  NKIKVYRAMKNISQEELAIAIGVTRKTINTVETGKFIPSTVLALRIARYFGVPVEEIFVL 67

Query: 77 SPTVC 81
          +    
Sbjct: 68 NDEAS 72


>gi|163845040|ref|YP_001622695.1| hypothetical protein BSUIS_B0917 [Brucella suis ATCC 23445]
 gi|163675763|gb|ABY39873.1| Hypothetical protein, conserved [Brucella suis ATCC 23445]
          Length = 182

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 37/86 (43%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I++G R+R  RM   +SQ +L +  G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSIDIGGRLRYVRMRQNLSQRELAKRAGVTNSTISLIEANQSNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF + P     +  +   +++ 
Sbjct: 59 GMAEFFALEPDAPHRVFYQAEELVEI 84


>gi|331702631|ref|YP_004399590.1| helix-turn-helix domain-containing protein [Lactobacillus
          buchneri NRRL B-30929]
 gi|329129974|gb|AEB74527.1| helix-turn-helix domain protein [Lactobacillus buchneri NRRL
          B-30929]
          Length = 64

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IN+G  ++  R    +SQE +   LG++ Q + ++E  +       L  ++++ +  I+
Sbjct: 2  INLGNNLKEFRQYNELSQEIIACRLGVSRQAISQWEHNLTYPDIENLVRLTQIFDCDIN 60


>gi|327404770|ref|YP_004345608.1| helix-turn-helix domain-containing protein [Fluviicola taffensis
           DSM 16823]
 gi|327320278|gb|AEA44770.1| helix-turn-helix domain protein [Fluviicola taffensis DSM 16823]
          Length = 111

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/91 (20%), Positives = 39/91 (42%), Gaps = 5/91 (5%)

Query: 20  RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPT 79
           +  R  +G +Q+K+ E LG + +++  YE     +    L+  +++    +S FF+    
Sbjct: 11  KQLRETMGFTQQKMAEYLGCSREEISYYENENREIPLLLLEKAADLFGVELSDFFNTENA 70

Query: 80  VCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
           V   I+   N+        + L     F +I
Sbjct: 71  VGIRIAYRANDYA-----AEDLHEIARFKRI 96


>gi|300310215|ref|YP_003774307.1| DNA-binding repressor transcription regulator protein
          [Herbaspirillum seropedicae SmR1]
 gi|300073000|gb|ADJ62399.1| DNA-binding repressor transcription regulator protein
          [Herbaspirillum seropedicae SmR1]
          Length = 145

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 35/79 (44%), Gaps = 1/79 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R++  R+ LG SQE      G+  Q    YE+G        +  +S++    +S+   
Sbjct: 7  GERLKSERLRLGFSQEAFAAVGGVRKQAQISYEQGKTLPDIGFMAAVSKI-GVDVSYVIF 65

Query: 76 VSPTVCSDISSEENNVMDF 94
            PT  +  S E+  +  F
Sbjct: 66 GIPTADALTSDEQQVLQGF 84


>gi|297158987|gb|ADI08699.1| hypothetical protein SBI_05579 [Streptomyces bingchenggensis
          BCW-1]
          Length = 440

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 28/55 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +  RR +LG SQE L + LG+    V ++E G +         ++E+L+  ++  
Sbjct: 24 LAERRKVLGYSQETLAQALGVDRTTVGRWECGKSEPQPPLRPKLAEILQVDLADL 78


>gi|297617503|ref|YP_003702662.1| XRE family transcriptional regulator [Syntrophothermus
          lipocalidus DSM 12680]
 gi|297145340|gb|ADI02097.1| transcriptional regulator, XRE family [Syntrophothermus
          lipocalidus DSM 12680]
          Length = 70

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 21/54 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           R+R  R   G++QE L   + ++ Q +   E G           ++ V    I
Sbjct: 3  NRLRALREERGLTQEDLASMVDVSRQTIISLEHGRYNPSIILAHKLARVFGLTI 56


>gi|283832969|ref|ZP_06352710.1| transcriptional regulator, Cro/CI family [Citrobacter youngae ATCC
           29220]
 gi|291071576|gb|EFE09685.1| transcriptional regulator, Cro/CI family [Citrobacter youngae ATCC
           29220]
          Length = 200

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/92 (16%), Positives = 34/92 (36%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V+  V +RI+  R    MS ++L     ++   + + E        + L  ++  +   +
Sbjct: 18  VNEAVSQRIKQYRKQKKMSLDELSRQANVSKGMLVEIEGCKANPSIALLCRLAAAMGVSV 77

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
           + F DV       + +E+     +     G  
Sbjct: 78  ADFVDVGTKPTVHLIAEDEIPELWKGDKGGRA 109


>gi|257877834|ref|ZP_05657487.1| conserved hypothetical protein [Enterococcus casseliflavus EC20]
 gi|257812000|gb|EEV40820.1| conserved hypothetical protein [Enterococcus casseliflavus EC20]
          Length = 168

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 26/59 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  G++I+  R    ++QE+    L +T Q V  +E   N      L  I+ + E  + 
Sbjct: 12 MEFGEKIKEVRTRNNLTQEQFATQLHVTRQAVSNWENNRNLPDLEMLIAIATIFELSLD 70


>gi|256841360|ref|ZP_05546867.1| conserved hypothetical protein [Parabacteroides sp. D13]
 gi|256737203|gb|EEU50530.1| conserved hypothetical protein [Parabacteroides sp. D13]
          Length = 109

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 31/54 (57%), Gaps = 1/54 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G+ I+  R+   ++QE+LGE +G+   Q+ + E+G + +    ++ + + L  
Sbjct: 41 LGEAIKKARIEQNLTQEQLGERIGVKRAQISRLERGYS-ITIPTMRRVFKALGV 93


>gi|225011082|ref|ZP_03701546.1| transcriptional regulator, XRE family [Flavobacteria bacterium
          MS024-3C]
 gi|225004802|gb|EEG42760.1| transcriptional regulator, XRE family [Flavobacteria bacterium
          MS024-3C]
          Length = 64

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 24/56 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I+  R    ++QE L   +G++ Q +   EKG           ++ +  +PI   F
Sbjct: 5  IKELRARHQLTQEDLAHKVGVSRQTINAIEKGKFDPSLPLAFKLAHLFHTPIEGIF 60


>gi|224369019|ref|YP_002603183.1| putative transcriptional regulator [Desulfobacterium
          autotrophicum HRM2]
 gi|223691736|gb|ACN15019.1| putative transcriptional regulator [Desulfobacterium
          autotrophicum HRM2]
          Length = 103

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/83 (16%), Positives = 36/83 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ ++  R    M+Q+++   +GI+   +   E G     + +L   +E L+     
Sbjct: 1  MKLGQLLKFIRTSKEMTQKEMASLIGISQNYLSLIESGTKNPSSDKLSDFAEALQISKDA 60

Query: 73 FFDVSPTVCSDISSEENNVMDFI 95
             VS     ++S ++    + +
Sbjct: 61 LIFVSSNPPEELSGKDQKKYEQL 83


>gi|261405075|ref|YP_003241316.1| XRE family transcriptional regulator [Paenibacillus sp. Y412MC10]
 gi|329929544|ref|ZP_08283268.1| DNA-binding helix-turn-helix protein [Paenibacillus sp. HGF5]
 gi|261281538|gb|ACX63509.1| transcriptional regulator, XRE family [Paenibacillus sp.
          Y412MC10]
 gi|328936269|gb|EGG32718.1| DNA-binding helix-turn-helix protein [Paenibacillus sp. HGF5]
          Length = 65

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 28/57 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++++ R+   +SQE+L + +G++ Q +   E G      S    I + L   ++  F
Sbjct: 5  KLKMARVEKDLSQEELAQIVGVSRQTIGLIELGKYNPSLSLCVAICKALSRTLNDLF 61


>gi|170760678|ref|YP_001786283.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
 gi|169407667|gb|ACA56078.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
          Length = 186

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 34/78 (43%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +G+ +   R   GM+  +     GI+   + + E+G      S L+ I++ L  P+ 
Sbjct: 3  DHRIGQTVLSYRRKNGMNIREFANYSGISTSLISQIERGEANPSLSVLELIAKALNVPLF 62

Query: 72 FFFDVSPTVCSDISSEEN 89
            F       S IS +++
Sbjct: 63 TLFINEIDTDSLISKKQD 80


>gi|167771942|ref|ZP_02443995.1| hypothetical protein ANACOL_03315 [Anaerotruncus colihominis DSM
          17241]
 gi|167665740|gb|EDS09870.1| hypothetical protein ANACOL_03315 [Anaerotruncus colihominis DSM
          17241]
          Length = 120

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 24/57 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          KRI+  R  L  +Q++  + +GI    +  YE G N    + +  I +       + 
Sbjct: 3  KRIKELRKALHFTQQEFADRIGIKRNTIANYETGRNDPIDAVISLICKEFNVNERWL 59


>gi|126651763|ref|ZP_01723965.1| transcriptional regulator [Bacillus sp. B14905]
 gi|126591441|gb|EAZ85548.1| transcriptional regulator [Bacillus sp. B14905]
          Length = 179

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 23/57 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VG  +R  R    MS E+L     ++   + K E+G      + L  I   L  P+
Sbjct: 6  QVGMNLREIRKNKRMSLEELASISNVSKLTLGKIERGETNPTVNILWKICRGLHIPL 62


>gi|52842310|ref|YP_096109.1| prophage repressor CI-like [Legionella pneumophila subsp.
          pneumophila str. Philadelphia 1]
 gi|52629421|gb|AAU28162.1| hypothetical prophage repressor CI-like [Legionella pneumophila
          subsp. pneumophila str. Philadelphia 1]
          Length = 234

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+RI+  R+  G++++ L E    +   ++  +E+G    G   ++ ++  L+   ++ 
Sbjct: 15 IGQRIQEERIAKGLTRKALEELTDDLKQSRISNWERGDRTPGPEEIKQLARALDISPAYL 74

Query: 74 F 74
           
Sbjct: 75 M 75


>gi|76787698|ref|YP_330569.1| DNA-binding protein [Streptococcus agalactiae A909]
 gi|76562755|gb|ABA45339.1| DNA-binding protein [Streptococcus agalactiae A909]
          Length = 358

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 32/69 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I L+R  +GM+QE L + L +T   + K+E    +     L  ++ + +  +    
Sbjct: 2  LGENIYLQRTQIGMTQENLSDYLHLTKTTISKWENNQAKPDIDYLILMANLFDISLDDLV 61

Query: 75 DVSPTVCSD 83
              T+  D
Sbjct: 62 GYQKTLSDD 70


>gi|53720722|ref|YP_109708.1| putative transcriptional regulator [Burkholderia pseudomallei
          K96243]
 gi|167740433|ref|ZP_02413207.1| putative transcriptional regulator [Burkholderia pseudomallei 14]
 gi|167817647|ref|ZP_02449327.1| putative transcriptional regulator [Burkholderia pseudomallei 91]
 gi|167912774|ref|ZP_02499865.1| putative transcriptional regulator [Burkholderia pseudomallei
          112]
 gi|254198530|ref|ZP_04904951.1| putative DNA-binding protein [Burkholderia pseudomallei S13]
 gi|254300676|ref|ZP_04968121.1| putative DNA-binding protein [Burkholderia pseudomallei 406e]
 gi|52211136|emb|CAH37125.1| putative transcriptional regulator [Burkholderia pseudomallei
          K96243]
 gi|157810610|gb|EDO87780.1| putative DNA-binding protein [Burkholderia pseudomallei 406e]
 gi|169655270|gb|EDS87963.1| putative DNA-binding protein [Burkholderia pseudomallei S13]
          Length = 356

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFFFD 75
           ++ + R    +++++L E  GIT   + + E G         L+ ++ VL  P+ FFF 
Sbjct: 5  SKLAIARKRRQLTKKELAEKSGITAVTLTRLETGKTADPSTETLETLARVLGYPVDFFFG 64

Query: 76 VSPTVCSDISSE 87
                +  ++ 
Sbjct: 65 QDYEELTTDAAS 76


>gi|39937189|ref|NP_949465.1| XRE family transcriptional regulator [Rhodopseudomonas palustris
          CGA009]
 gi|39651047|emb|CAE29570.1| possible transcriptional regulator, XRE family [Rhodopseudomonas
          palustris CGA009]
          Length = 116

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 35/83 (42%), Gaps = 3/83 (3%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N+K P  +     +R++  R + G++Q +L    G+    V  +E G  +     L+ ++
Sbjct: 2  NEKQPTDI---FQQRLKDARTLRGLNQAELAGKAGLPAASVSHFESGPRKPSFDNLKALA 58

Query: 64 EVLESPISFFFDVSPTVCSDISS 86
            L+    +    S T  +   +
Sbjct: 59 SALDVTTDYLLGRSDTPEASAET 81


>gi|23098763|ref|NP_692229.1| transcriptional regulator [Oceanobacillus iheyensis HTE831]
 gi|22776990|dbj|BAC13264.1| transcriptional regulator [Oceanobacillus iheyensis HTE831]
          Length = 426

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%), Gaps = 1/60 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  +G+ I+  R+   M+Q  L + L I+   + K E G         + +S+ L+ P+
Sbjct: 1  MDTKIGQIIKHYRLKANMTQADLADGL-ISVSYLSKIENGNQIPPGDIAELLSQRLDIPV 59


>gi|313115714|ref|ZP_07801167.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium cf. prausnitzii KLE1255]
 gi|310621932|gb|EFQ05434.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium cf. prausnitzii KLE1255]
          Length = 102

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 28/71 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + +   R     +Q+++ + LGI+ Q    YE G        L  + E     I +    
Sbjct: 2  ENLTAIRKESHATQQEVADYLGISRQAYGNYESGKREPDYETLLKLGEYFNCSIDYLLGS 61

Query: 77 SPTVCSDISSE 87
          S +V   + SE
Sbjct: 62 SRSVRYPLLSE 72


>gi|296170806|ref|ZP_06852377.1| DNA-binding protein [Mycobacterium parascrofulaceum ATCC BAA-614]
 gi|295894542|gb|EFG74280.1| DNA-binding protein [Mycobacterium parascrofulaceum ATCC BAA-614]
          Length = 177

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/63 (19%), Positives = 25/63 (39%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R   G++ E L E  G+T   + K E+  +    +    +++ L+  +   F    
Sbjct: 5  LRAVRTQRGLTLEALAERTGLTKSYLSKIERRQSTPSIAVALKVAKALDVDVGQLFSDEE 64

Query: 79 TVC 81
             
Sbjct: 65 ARE 67


>gi|260101837|ref|ZP_05752074.1| DNA-binding protein [Lactobacillus helveticus DSM 20075]
 gi|260084352|gb|EEW68472.1| DNA-binding protein [Lactobacillus helveticus DSM 20075]
 gi|328463661|gb|EGF35254.1| transcriptional regulator [Lactobacillus helveticus MTCC 5463]
          Length = 66

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 23/56 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R    +SQ +L + +G+  Q +   E             ++ VL + ++  F
Sbjct: 4  VREYRKQKKISQMELAKRIGVARQTINLIENDKYNPSLELCLSLAHVLGTDLNSLF 59


>gi|291297562|ref|YP_003508840.1| XRE family transcriptional regulator [Stackebrandtia nassauensis
           DSM 44728]
 gi|290566782|gb|ADD39747.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis
           DSM 44728]
          Length = 183

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/113 (18%), Positives = 42/113 (37%), Gaps = 3/113 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES--PI 70
            ++G  IR  R    +S  +L +  G++   + + E+G+ +  A  LQ I+  L+   P+
Sbjct: 4   RDIGGFIRDLRRNAKVSLRQLADQAGVSNPYLSQIERGLRKPSAEVLQQIANALKVSTPL 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQ-LNRYFIQIDDVKVRQKIIEL 122
            +             +      D + T    Q L   +        R   ++L
Sbjct: 64  MYLRAGLLKTKDGQGTLATIAGDPLLTARQKQTLTEIYEAFRRENARDAGLDL 116


>gi|220910730|ref|YP_002486040.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 7425]
 gi|219867502|gb|ACL47839.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 7425]
          Length = 825

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 26/52 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +R  R   G++Q ++   LG++  QV +YE+    +    L   ++ L + I
Sbjct: 5  LRGVRERAGLTQSQIAAMLGLSQAQVSRYEQDPGTISTELLIRWAQALGTDI 56


>gi|297618899|ref|YP_003707004.1| XRE family transcriptional regulator [Methanococcus voltae A3]
 gi|297377876|gb|ADI36031.1| transcriptional regulator, XRE family [Methanococcus voltae A3]
          Length = 64

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I++ R +  ++Q++L + +G+T Q +   EKG           +S++    I   F
Sbjct: 3  NKIKVFRAMNDLTQDELAKKIGVTRQTISAIEKGKYDPSLIIAFKLSKLFNVKIEEIF 60


>gi|146343555|ref|YP_001208603.1| anaerobic benzoate catabolism transcriptional regulator
          [Bradyrhizobium sp. ORS278]
 gi|146196361|emb|CAL80388.1| Shikimate kinase [Bradyrhizobium sp. ORS278]
          Length = 307

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 32/58 (55%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +G+R+R  R + GMS++ L E  GI+ + + + E G   V    L+ I+  + +P+ 
Sbjct: 24 QLGQRVRRMRGLAGMSRKVLAEVSGISERYIAQLESGKGNVSIVLLRRIANAINAPLD 81


>gi|28377746|ref|NP_784638.1| transcription regulator [Lactobacillus plantarum WCFS1]
 gi|300767732|ref|ZP_07077642.1| XRE family transcriptional regulator [Lactobacillus plantarum
          subsp. plantarum ATCC 14917]
 gi|308179914|ref|YP_003924042.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ST-III]
 gi|28270579|emb|CAD63483.1| transcription regulator [Lactobacillus plantarum WCFS1]
 gi|300494717|gb|EFK29875.1| XRE family transcriptional regulator [Lactobacillus plantarum
          subsp. plantarum ATCC 14917]
 gi|308045405|gb|ADN97948.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ST-III]
          Length = 122

 Score = 51.0 bits (121), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 34/81 (41%), Gaps = 1/81 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +R+   R     S+ ++   LG++  Q+   YE G N    + L+ I+++ +    +   
Sbjct: 11 RRLINLRDSRNWSKTEVARKLGLSSMQRYANYEYGTNEPDLNMLKQIADLYDVTTDYLLG 70

Query: 76 VSPTVCSDISSEENNVMDFIS 96
                     +  ++ DF++
Sbjct: 71 EDSASKWIARKDTTDLKDFLT 91


>gi|326942848|gb|AEA18744.1| PbsX family transcriptional regulator [Bacillus thuringiensis
          serovar chinensis CT-43]
          Length = 73

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R    +SQ  LG+ +G + Q +   E+G           I+++   P+   F
Sbjct: 5  NRVRELRAKHRLSQGDLGKVIGSSRQTISLIERGDYAPSIVLSLKIAQIFNVPVEEIF 62


>gi|323691518|ref|ZP_08105787.1| hypothetical protein HMPREF9475_00649 [Clostridium symbiosum
          WAL-14673]
 gi|323504412|gb|EGB20205.1| hypothetical protein HMPREF9475_00649 [Clostridium symbiosum
          WAL-14673]
          Length = 136

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +   G  I   R   GM+Q +L E +G+T + V K+E+ +     + L  ++ +    + 
Sbjct: 3  NRTFGMLIAEYRKEKGMTQLELAEKMGVTDKAVSKWERDLLYPDVNSLPKLAGIFGISVD 62


>gi|289547795|ref|YP_003472783.1| transcriptional regulator of molybdate metabolism, XRE family
          [Thermocrinis albus DSM 14484]
 gi|289181412|gb|ADC88656.1| transcriptional regulator of molybdate metabolism, XRE family
          [Thermocrinis albus DSM 14484]
          Length = 329

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G+SQE+L +   I    +   E+ +     S    I+  L   +   F
Sbjct: 3  NRVKELRERAGLSQEELAKLCKIPRTTLSAIEREMVVPSVSHAIRIARALGCSVEELF 60


>gi|260662345|ref|ZP_05863240.1| predicted protein [Lactobacillus fermentum 28-3-CHN]
 gi|260553036|gb|EEX25979.1| predicted protein [Lactobacillus fermentum 28-3-CHN]
          Length = 188

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 25/60 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ IR  R   G +Q++  E L    Q V K E+GV       L +I  +     +   
Sbjct: 30 IGQNIRRLRKDNGYTQKQFAEKLETIEQTVSKIERGVFSPSTDSLMNICTIFGVTPNDLM 89


>gi|239625605|ref|ZP_04668636.1| transcriptional regulator [Clostridiales bacterium 1_7_47_FAA]
 gi|239519835|gb|EEQ59701.1| transcriptional regulator [Clostridiales bacterium 1_7_47FAA]
          Length = 190

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 27/62 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R    ++ ++L E  G++   + + E+       S L+ I+   + P+    
Sbjct: 2  LGTNIREYRKNKKLTIKELSERTGLSIGYISQVEREEAEPSLSSLRKIAREFDVPVYVLM 61

Query: 75 DV 76
          D 
Sbjct: 62 DD 63


>gi|229011075|ref|ZP_04168269.1| Transcriptional regulator, Xre [Bacillus mycoides DSM 2048]
 gi|228750247|gb|EEM00079.1| Transcriptional regulator, Xre [Bacillus mycoides DSM 2048]
          Length = 405

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 5  LGEKIKTLRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 63

Query: 75 DVSPTVCSDI 84
          +       +I
Sbjct: 64 EEDDVEIVEI 73


>gi|226309766|ref|YP_002769660.1| DNA-binding protein [Brevibacillus brevis NBRC 100599]
 gi|226092714|dbj|BAH41156.1| putative DNA-binding protein [Brevibacillus brevis NBRC 100599]
          Length = 69

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +G RIR  R + G +Q+ L + +G++   V   E+G        L+ I+  L+  
Sbjct: 5  QLGNRIRSFRKLKGYTQQSLSDKMGVSLSFVGSLERGTRTPTEPVLRKIASTLQVD 60


>gi|220916216|ref|YP_002491520.1| helix-turn-helix domain protein [Anaeromyxobacter dehalogenans
          2CP-1]
 gi|219954070|gb|ACL64454.1| helix-turn-helix domain protein [Anaeromyxobacter dehalogenans
          2CP-1]
          Length = 410

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 25/56 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+RI   R    ++Q  L   +G+    +   EKG  R   + L  ++  L+  +
Sbjct: 7  LGERIAFARKNANLTQADLAAKIGVARTTLVAVEKGERRPSNAELIKLAGFLKVSV 62


>gi|153008229|ref|YP_001369444.1| XRE family transcriptional regulator [Ochrobactrum anthropi ATCC
           49188]
 gi|151560117|gb|ABS13615.1| transcriptional regulator, XRE family [Ochrobactrum anthropi ATCC
           49188]
          Length = 110

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 28/55 (50%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +I++ R   GMS + L +  GI+   + + EKG+       ++ I+E L+  I 
Sbjct: 53  NKIKVWRDYRGMSAKALADAAGISAAYLSQIEKGLREGSLDAMKKIAEALKVTID 107


>gi|90419013|ref|ZP_01226924.1| possible helix-turn-helix protein [Aurantimonas manganoxydans
           SI85-9A1]
 gi|90337093|gb|EAS50798.1| possible helix-turn-helix protein [Aurantimonas manganoxydans
           SI85-9A1]
          Length = 137

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 1/74 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFFFD 75
           +R+R  R    M+ E L E  G +   + + E +   +  A +L  I+E L++ + F   
Sbjct: 38  ERVRRLRKAKKMTLEALAEASGSSRSYIWEIENRPETKPSAEKLARIAEALDTTVEFLMA 97

Query: 76  VSPTVCSDISSEEN 89
           V  +  S+  + + 
Sbjct: 98  VDESSVSEEDATDR 111


>gi|70733319|ref|YP_263093.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
 gi|68347618|gb|AAY95224.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
          Length = 182

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 25/97 (25%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  +V     S I  + + ++D       ++L 
Sbjct: 58  MVEFFSEEVLQETPSQIVYKAHELIDISDGAVTMKLV 94


>gi|163939593|ref|YP_001644477.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|163861790|gb|ABY42849.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
          Length = 404

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGEKIKTLRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       +I
Sbjct: 63 EEDDVEIVEI 72


>gi|47093935|ref|ZP_00231673.1| transcription regulator [Listeria monocytogenes str. 4b H7858]
 gi|47017695|gb|EAL08490.1| transcription regulator [Listeria monocytogenes str. 4b H7858]
 gi|328467149|gb|EGF38236.1| hypothetical protein LM1816_14897 [Listeria monocytogenes 1816]
          Length = 394

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/106 (17%), Positives = 43/106 (40%), Gaps = 18/106 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G+++R  R + G+S+++L + L ++ Q + +YE          +  +  V      F
Sbjct: 1   MFFGEKLRSVRELNGLSRKELADKLNLSEQAIWQYENQYTVPKFEVVNELKGVFNVKAQF 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQK 118
           F+                 +  IS  + +       + +D +VR+K
Sbjct: 61  FY-------------SEPFITNISKVESIA-----YRAEDREVRKK 88


>gi|325694303|gb|EGD36217.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK150]
          Length = 94

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GK+++L R   G SQ ++ E LG T Q +  +E     + ++ L  +++  +  + 
Sbjct: 2  LGKQLKLIREQKGYSQAQIAESLGTTRQTISNWENDKTILDSASLIRLADFYQISLD 58


>gi|322374490|ref|ZP_08049004.1| transcriptional regulator, Cro/CI family [Streptococcus sp. C300]
 gi|321279990|gb|EFX57029.1| transcriptional regulator, Cro/CI family [Streptococcus sp. C300]
          Length = 96

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GK+++L R   G SQ ++ E LG T Q +  +E     + +  L  +++  +  + 
Sbjct: 4  LGKQLKLFREQNGYSQNQIAEYLGTTRQTISNWENDKTIIDSHSLIRLADFYQISLD 60


>gi|315633741|ref|ZP_07889031.1| DNA-binding protein [Aggregatibacter segnis ATCC 33393]
 gi|315477783|gb|EFU68525.1| DNA-binding protein [Aggregatibacter segnis ATCC 33393]
          Length = 140

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 33/58 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +NV ++IR  R     SQE++ E + ++     K E+G  ++   +L+ I+++L+  I
Sbjct: 1  MNVHEKIRKLRETKHWSQEEMAEKMSMSLNGYAKIERGETKLHLDKLEQIAQILDIDI 58


>gi|307354843|ref|YP_003895894.1| XRE family transcriptional regulator [Methanoplanus petrolearius
          DSM 11571]
 gi|307158076|gb|ADN37456.1| transcriptional regulator, XRE family [Methanoplanus petrolearius
          DSM 11571]
          Length = 77

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 29/75 (38%), Gaps = 2/75 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI+  R   G++Q++L E + ++ + +   EKG           ++      I   F F
Sbjct: 3  NRIKELRNERGVTQQELAEKVDVSSRTIISLEKGQYNPSVLLAHKLAVFFNCAIEEVFIF 62

Query: 75 DVSPTVCSDISSEEN 89
               +  D  + E 
Sbjct: 63 GKEDGIRGDADNSEQ 77


>gi|229132613|ref|ZP_04261461.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST196]
 gi|228650845|gb|EEL06832.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST196]
          Length = 405

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 5  LGEKIKTLRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 63

Query: 75 DVSPTVCSDI 84
          +       +I
Sbjct: 64 EEDDVEIVEI 73


>gi|227113894|ref|ZP_03827550.1| putative DNA-binding protein [Pectobacterium carotovorum subsp.
           brasiliensis PBR1692]
          Length = 188

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/110 (17%), Positives = 41/110 (37%), Gaps = 3/110 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + +   +G  ++  R   G S  +  E  G++   + + E+G +    + L  I+  +
Sbjct: 1   MSDELTRRIGNTLKTLRQEKGWSLTRAAEETGVSKAMLGQIERGESSPTVATLWKIATGM 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
               S F +       D++        F     G+ +   F    D K+R
Sbjct: 61  NVAFSTFIE-PTLADEDVTYRSGAGSSFKENEAGMHVVPLFP--FDEKLR 107


>gi|289805529|ref|ZP_06536158.1| DNA-binding protein [Salmonella enterica subsp. enterica serovar
          Typhi str. AG3]
          Length = 107

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 30/69 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  V +RI+  R    MS ++L    G++   + + E        + L  I+  +   +
Sbjct: 18 INEAVSQRIKQFRSQKKMSLDELARRSGVSKGMLVEIEGCKANPSIALLCKIAAAMGVSV 77

Query: 71 SFFFDVSPT 79
          + F +V+  
Sbjct: 78 ADFVNVASE 86


>gi|167825520|ref|ZP_02456991.1| DNA-binding protein [Burkholderia pseudomallei 9]
 gi|217421247|ref|ZP_03452752.1| DNA-binding protein [Burkholderia pseudomallei 576]
 gi|226193747|ref|ZP_03789349.1| DNA-binding protein [Burkholderia pseudomallei Pakistan 9]
 gi|217396659|gb|EEC36676.1| DNA-binding protein [Burkholderia pseudomallei 576]
 gi|225934052|gb|EEH30037.1| DNA-binding protein [Burkholderia pseudomallei Pakistan 9]
          Length = 195

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/70 (17%), Positives = 30/70 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   +
Sbjct: 3  INQLIARRVRALRDLRGYSLDALAERSKVSRSNISLIERAQSNPTAVVLERLANALGVSL 62

Query: 71 SFFFDVSPTV 80
          +  F+     
Sbjct: 63 ASLFEDDRAA 72


>gi|49187883|ref|YP_031136.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|167634898|ref|ZP_02393216.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|167639942|ref|ZP_02398210.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170685616|ref|ZP_02876839.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|170707037|ref|ZP_02897494.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|177652240|ref|ZP_02934743.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190567224|ref|ZP_03020139.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|196033157|ref|ZP_03100570.1| DNA-binding protein [Bacillus cereus W]
 gi|218906227|ref|YP_002454061.1| DNA-binding protein [Bacillus cereus AH820]
 gi|227817802|ref|YP_002817811.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229603307|ref|YP_002869269.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|254687363|ref|ZP_05151220.1| DNA-binding protein [Bacillus anthracis str. CNEVA-9066]
 gi|254725376|ref|ZP_05187159.1| DNA-binding protein [Bacillus anthracis str. A1055]
 gi|254733728|ref|ZP_05191444.1| DNA-binding protein [Bacillus anthracis str. Western North
          America USA6153]
 gi|254740566|ref|ZP_05198257.1| DNA-binding protein [Bacillus anthracis str. Kruger B]
 gi|254753172|ref|ZP_05205208.1| DNA-binding protein [Bacillus anthracis str. Vollum]
 gi|254761515|ref|ZP_05213536.1| DNA-binding protein [Bacillus anthracis str. Australia 94]
 gi|49181810|gb|AAT57186.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|167512023|gb|EDR87401.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|167529648|gb|EDR92397.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|170128140|gb|EDS97010.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|170670080|gb|EDT20820.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|172082246|gb|EDT67312.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190561728|gb|EDV15698.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|195994586|gb|EDX58541.1| DNA-binding protein [Bacillus cereus W]
 gi|218539421|gb|ACK91819.1| DNA-binding protein [Bacillus cereus AH820]
 gi|227005411|gb|ACP15154.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229267715|gb|ACQ49352.1| DNA-binding protein [Bacillus anthracis str. A0248]
          Length = 73

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R    +SQ  LG+ +G + Q +   E+G           I+ +   P+   F
Sbjct: 5  NRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAHIFNVPVEEIF 62


>gi|323141018|ref|ZP_08075925.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
 gi|322414507|gb|EFY05319.1| DNA-binding helix-turn-helix protein [Phascolarctobacterium sp.
          YIT 12067]
          Length = 120

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 27/63 (42%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          NP    +G  I+  R    +SQ+ L + + I+   +   E G   V  +    IS+ L+ 
Sbjct: 7  NPDYKLIGNNIKQMRTKSQVSQQSLAKAINISQTHMSNLENGKTGVSLAIAIRISQHLKC 66

Query: 69 PIS 71
           + 
Sbjct: 67 SLD 69


>gi|313898507|ref|ZP_07832044.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956889|gb|EFR38520.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 71

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 24/57 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +I++ RM L MSQE+L   +G T Q +   E G           I   L   +   F
Sbjct: 5  KIKMARMELNMSQEELAGKVGATRQTIGLIEAGRYNPTIKLCIKICIALHKHLDDLF 61


>gi|297342817|gb|ADI33756.1| control protein [Shigella boydii]
          Length = 75

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/47 (36%), Positives = 23/47 (48%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          R  +G++Q+ L E LG     + KYE G  R+ A  L  I   L  P
Sbjct: 18 RKRIGVTQKMLSEALGKPQSYISKYETGERRIDAIELIDICNELGVP 64


>gi|321314155|ref|YP_004206442.1| hypothetical protein BSn5_14035 [Bacillus subtilis BSn5]
 gi|291482927|dbj|BAI84002.1| putative transcriptional regulator [Bacillus subtilis subsp.
          natto BEST195]
 gi|320020429|gb|ADV95415.1| hypothetical protein BSn5_14035 [Bacillus subtilis BSn5]
          Length = 84

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 28/60 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  ++   R++  +SQ++L + +G++ Q +   EKG           I+E     ++  F
Sbjct: 16 ISNKVYEYRVLARLSQQELAKKVGVSKQTIFVMEKGNYVPTLLLAFRIAEFFNVDVNEIF 75


>gi|239996716|ref|ZP_04717240.1| transcriptional regulator, Cro/CI family protein [Alteromonas
           macleodii ATCC 27126]
          Length = 175

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/129 (13%), Positives = 45/129 (34%), Gaps = 10/129 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ ++  R   G+S  +L    GI    + + E+G        +  +++ L+ P    F
Sbjct: 9   LGRHLQKLRQDKGVSLSQLAAGAGIAKSNLSRLEQGNGNPTLDTIWRLAKQLDVP----F 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYF-IQIDDVKVRQKIIELVRSIVSSEKKY 133
                  S    E+   +  I    G+     + + +     R+       +  +  ++ 
Sbjct: 65  GQLVQPLSASVGEKGVEVRLIEQGQGIPNVDAYWMSVAPNTFRE-----AEAHATGTEET 119

Query: 134 RTIEEECMV 142
            T+    + 
Sbjct: 120 ITVVSGSLE 128


>gi|229168069|ref|ZP_04295797.1| hypothetical protein bcere0007_30280 [Bacillus cereus AH621]
 gi|228615313|gb|EEK72410.1| hypothetical protein bcere0007_30280 [Bacillus cereus AH621]
          Length = 242

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I++ K I  +R   G++QE+L   +GIT   V K+E G +    + L  ++      I 
Sbjct: 4  IHIHKIIADKRKEKGITQEELVAYIGITKASVSKWETGQSYPDITFLPLLASYFNISID 62


>gi|254520154|ref|ZP_05132210.1| tetratricopeptide repeat/DNA binding domain-containing protein
          [Clostridium sp. 7_2_43FAA]
 gi|226913903|gb|EEH99104.1| tetratricopeptide repeat/DNA binding domain-containing protein
          [Clostridium sp. 7_2_43FAA]
          Length = 434

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 36/79 (45%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+ +R  L M+ + L     IT  Q+   E G +      L++++  L++ + +  
Sbjct: 7  LGEKIKRKRKELDMTLKDLAGD-RITPGQISLVESGRSNPSMDLLEYLAGALQTSVEYLM 65

Query: 75 DVSPTVCSDISSEENNVMD 93
          +   T    IS     V +
Sbjct: 66 ESEETQAEKISIYYEQVAE 84


>gi|289582562|ref|YP_003481028.1| XRE family transcriptional regulator [Natrialba magadii ATCC
          43099]
 gi|289532115|gb|ADD06466.1| transcriptional regulator, XRE family [Natrialba magadii ATCC
          43099]
          Length = 79

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 23/61 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++  RR   G+SQ  L E + +T Q +   E+            ++   E  I   F+ 
Sbjct: 3  NQLTERREEAGLSQGDLAEAVDVTRQTINAIERERYDPSLELAFKLAAFFECHIEELFEP 62

Query: 77 S 77
           
Sbjct: 63 D 63


>gi|149374604|ref|ZP_01892378.1| transcriptional regulator, XRE family protein [Marinobacter
          algicola DG893]
 gi|149361307|gb|EDM49757.1| transcriptional regulator, XRE family protein [Marinobacter
          algicola DG893]
          Length = 267

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 25/55 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G ++R  R   GMSQ  L     I+ + +   E G +R     +  ++  LE P+
Sbjct: 18 GHKLRYWRRHRGMSQLDLALEADISPRHLSFIETGRSRPKRDLVLKLAVTLEVPL 72


>gi|108936762|emb|CAK48822.1| Sse9I control protein [Sporosarcina sp.]
          Length = 92

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
             G+ +R  R+  G+SQE L E +G+    +   E+G        ++ ++  L+   
Sbjct: 16 RTFGQNLRDLRVARGLSQEALAELIGVHRTYMGGLERGERNPTLKSVERVAAHLDVDP 73


>gi|77407989|ref|ZP_00784738.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae COH1]
 gi|77173351|gb|EAO76471.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae COH1]
          Length = 358

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 32/69 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I L+R  +GM+QE L + L +T   + K+E    +     L  ++ + +  +    
Sbjct: 2  LGENIYLQRTQIGMTQENLSDYLHLTKTTISKWENNQAKPDIDYLILMANLFDISLDDLV 61

Query: 75 DVSPTVCSD 83
              T+  D
Sbjct: 62 GYQKTLSDD 70


>gi|319902619|ref|YP_004162347.1| helix-turn-helix domain protein [Bacteroides helcogenes P 36-108]
 gi|319417650|gb|ADV44761.1| helix-turn-helix domain protein [Bacteroides helcogenes P 36-108]
          Length = 105

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 33/68 (48%), Gaps = 4/68 (5%)

Query: 4  NKKIPNPVDIN---VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           ++     DIN   +G+ I+  R    ++QE+LGE +G+   Q+ K E G + V  S + 
Sbjct: 23 PRRNKYETDINNFLIGEAIKQARESKNLTQEQLGELMGVQKAQISKIESGKS-VTFSTIV 81

Query: 61 HISEVLES 68
             + +  
Sbjct: 82 RAFKAMGV 89


>gi|312138238|ref|YP_004005574.1| transcriptional regulator [Rhodococcus equi 103S]
 gi|311887577|emb|CBH46889.1| putative transcriptional regulator [Rhodococcus equi 103S]
          Length = 197

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 22/57 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG R+R  R   G +   L    GI+   + + E G  +     L  ++     P+ 
Sbjct: 15 VGPRLRALRQQRGTTLSDLAADTGISVSTLSRLEAGQRKPNLELLLPLARAYGVPLD 71


>gi|323529073|ref|YP_004231225.1| helix-turn-helix domain-containing protein [Burkholderia sp.
           CCGE1001]
 gi|323386075|gb|ADX58165.1| helix-turn-helix domain protein [Burkholderia sp. CCGE1001]
          Length = 212

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 11/77 (14%), Positives = 30/77 (38%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG++I+  R    M+ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 35  VGEQIQRLRAERRMTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGVSLDSLF 94

Query: 75  DVSPTVCSDISSEENNV 91
               T  +   +  +++
Sbjct: 95  APQKTPEAIAVAGPHDI 111


>gi|290956222|ref|YP_003487404.1| hypothetical protein SCAB_17071 [Streptomyces scabiei 87.22]
 gi|260645748|emb|CBG68839.1| conserved hypothetical protein [Streptomyces scabiei 87.22]
          Length = 330

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 26/56 (46%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           VG  +R  R    +SQ +L    G + + V   E G +R     +  ++E L+ P+
Sbjct: 70  VGPLLRAWREQRRLSQLELALRAGSSARHVSFVETGRSRPSEEMVLRLAEHLDVPV 125


>gi|260596933|ref|YP_003209504.1| hypothetical protein CTU_11410 [Cronobacter turicensis z3032]
 gi|260216110|emb|CBA28884.1| hypothetical protein CTU_11410 [Cronobacter turicensis z3032]
          Length = 108

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/70 (20%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++IR  R    M+  +L   +      + + E+G+     + +Q I+E L  P++ 
Sbjct: 1  MKIGEKIRQIRKANQMTLSELALRVESDVGNLSRLERGMQGYSDTLIQKIAEALGVPVAE 60

Query: 73 FFDVSPTVCS 82
           F  +    +
Sbjct: 61 LFSSNEASDT 70


>gi|218673691|ref|ZP_03523360.1| hypothetical protein RetlG_20083 [Rhizobium etli GR56]
 gi|218682865|ref|ZP_03530466.1| hypothetical protein RetlC8_29094 [Rhizobium etli CIAT 894]
 gi|327193314|gb|EGE60219.1| hypothetical protein RHECNPAF_170017 [Rhizobium etli CNPAF512]
          Length = 168

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/49 (42%), Positives = 29/49 (59%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +R  R    + + KL   LGIT Q   +YE GV+R+  SRL H+ EVL+
Sbjct: 45 LREARDKRKLPRSKLAPLLGITKQVYGRYENGVSRLTVSRLIHLCEVLD 93


>gi|198283398|ref|YP_002219719.1| XRE family transcriptional regulator [Acidithiobacillus
          ferrooxidans ATCC 53993]
 gi|198247919|gb|ACH83512.1| transcriptional regulator, XRE family [Acidithiobacillus
          ferrooxidans ATCC 53993]
          Length = 152

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 33/74 (44%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R  LG++Q +LG+   G++   V ++E G  +     L  + + L     + 
Sbjct: 8  IGDRIKEIRKRLGLTQAELGKHAGGLSKSAVHQWENGGTKPAWDALTALRKNLGINPDWV 67

Query: 74 FDVSPTVCSDISSE 87
                +  ++ + 
Sbjct: 68 MQGEGAMLQELGTP 81


>gi|116629496|ref|YP_814668.1| XRE family transcriptional regulator [Lactobacillus gasseri ATCC
          33323]
 gi|116095078|gb|ABJ60230.1| Transcriptional regulator, xre family [Lactobacillus gasseri ATCC
          33323]
          Length = 129

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 1/70 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPISF 72
          N+G  I+ RR  L M+QE L E   ++   + K E+ G   +   +L  I++ L++ +  
Sbjct: 11 NLGAAIKKRRRSLRMTQEDLAEFSSLSVNFISKIERTGNQNISIQKLDTIAKALQTSVIT 70

Query: 73 FFDVSPTVCS 82
            D S     
Sbjct: 71 LIDESSKTPE 80


>gi|146301419|ref|YP_001196010.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
          UW101]
 gi|146155837|gb|ABQ06691.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
          UW101]
          Length = 138

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 27/57 (47%), Gaps = 1/57 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++G++I   R +  M QE L + +G   Q V   E     +   +L+ +++ L   +
Sbjct: 9  HMGRKISRIRELKDMKQEALAQAMGTNQQTVSILENSE-EIDDEKLKEVAKALGVSV 64


>gi|143833|gb|AAA22893.1| PBSX repressor [Bacillus subtilis]
          Length = 113

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 22/120 (18%), Positives = 45/120 (37%), Gaps = 16/120 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R++  R     +QE++   +G++  +   YE G +      LQ +++  +    +  
Sbjct: 2   IGSRLKSLRGKR--TQEEIVSHIGVSRARYSHYENGRSEPDYDTLQKLADYFQVTTDYLL 59

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD--VKVRQKIIELVRSIVSSEKK 132
                   D         D  S P    L   +  + D   + +Q+ IE +  +   EK 
Sbjct: 60  TGKDKKSDD---------DMFSDP---DLQVAYRDMQDFSPESKQQAIEFINYLKEKEKN 107


>gi|291549308|emb|CBL25570.1| Helix-turn-helix [Ruminococcus torques L2-14]
          Length = 76

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 25/60 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R     +Q+ + + LGI+     +YE+G N +    L  +         +F  +S 
Sbjct: 9  MRGLREDNDKTQQDIADFLGISQTMYARYERGANELPIRHLIKLCRYYHVSADYFLGLSK 68


>gi|320007540|gb|ADW02390.1| helix-turn-helix domain protein [Streptomyces flavogriseus ATCC
          33331]
          Length = 276

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 16/88 (18%), Positives = 34/88 (38%), Gaps = 4/88 (4%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D   G  +R  R + G+SQ +L      + + +   E G +    S + H++E L+ P+ 
Sbjct: 7  DPKAGSLLRGWRKLRGLSQLELALRADSSARHISFIETGRSTPSRSMVLHLAEHLDVPVR 66

Query: 72 FFFDVSPTVCSDISSEENNVMDFISTPD 99
                  +        +     ++ P+
Sbjct: 67 ----ERNALLMAAGHAPSYPETSLTAPE 90


>gi|258653119|ref|YP_003202275.1| XRE family transcriptional regulator [Nakamurella multipartita
          DSM 44233]
 gi|258556344|gb|ACV79286.1| transcriptional regulator, XRE family [Nakamurella multipartita
          DSM 44233]
          Length = 225

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 33/80 (41%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          V  +  PN     +G +++  R     + E++ E  G+T   + K E+ +     + L  
Sbjct: 5  VATEPAPNEETARIGAKLKAIRRAQRRTLEEVAEASGLTKGFLSKIERDLASASVAALLR 64

Query: 62 ISEVLESPISFFFDVSPTVC 81
          I   L  P+S  F+   T  
Sbjct: 65 ICATLGIPLSSLFESDSTGE 84


>gi|228909127|ref|ZP_04072956.1| Transcriptional regulator,Cro/CI [Bacillus thuringiensis IBL 200]
 gi|228850635|gb|EEM95460.1| Transcriptional regulator,Cro/CI [Bacillus thuringiensis IBL 200]
          Length = 66

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 25/59 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           RI + R   G +Q+ LGE +G + Q +   E+            I++    P+   F+
Sbjct: 4  NRIVVCRAEKGWTQQDLGERVGASRQTIASMERNKYNPSLILAFKIAQAFGKPLEEVFE 62


>gi|227821794|ref|YP_002825764.1| hypothetical protein NGR_c12290 [Sinorhizobium fredii NGR234]
 gi|227340793|gb|ACP25011.1| hypothetical protein NGR_c12290 [Sinorhizobium fredii NGR234]
          Length = 131

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/125 (16%), Positives = 47/125 (37%), Gaps = 18/125 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI   R    +S ++L   +G+  + +  +E+       +RL  ++ VL    ++  
Sbjct: 21  LGGRIWRARDAAKLSIKELAVRVGVRGETISAWERDRAEPRTNRLFMLASVLGVTPAWLI 80

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV-RSIVSSEKKY 133
                   +  S  +  +      + L+L             +++ E    +I + E + 
Sbjct: 81  TGIGRAPDEGPSHSHTAL-----REQLELV------------KRLHEQTGEAIAALESEL 123

Query: 134 RTIEE 138
             IEE
Sbjct: 124 ERIEE 128


>gi|255100610|ref|ZP_05329587.1| hypothetical protein CdifQCD-6_07342 [Clostridium difficile
           QCD-63q42]
          Length = 118

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/106 (16%), Positives = 40/106 (37%), Gaps = 11/106 (10%)

Query: 11  VDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D + +G+ I+ +R   G +QE L + +  T + +  +E        +    +  +L+  
Sbjct: 8   LDFHALGREIKRKREAKGWTQEYLAQLVDRTPRSIMYFENRGQHPSLNTFYQLVTLLDIS 67

Query: 70  ISFFFDVSPTVCSDI----------SSEENNVMDFISTPDGLQLNR 105
           +  FF                      +E  +    +T +GL+  R
Sbjct: 68  VDDFFYPDKQNGQSDCRKHIDHLLNEMDEKELTIIEATAEGLKRAR 113


>gi|212640061|ref|YP_002316581.1| putative xre family transcriptional regulator [Anoxybacillus
          flavithermus WK1]
 gi|212561541|gb|ACJ34596.1| Predicted transcriptional regulator, xre family [Anoxybacillus
          flavithermus WK1]
          Length = 81

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/79 (24%), Positives = 31/79 (39%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          + N    + V   +G  IR  R  L +SQE+L    G+    +   E+G   +    L  
Sbjct: 1  MRNINDRDKVLKIIGNNIRSIRTSLNLSQEELAFESGLHRTYIGAVERGEKNITILNLIK 60

Query: 62 ISEVLESPISFFFDVSPTV 80
          I+  LE  +    D+    
Sbjct: 61 IANALEVRVQDLLDLDKEE 79


>gi|114764625|ref|ZP_01443829.1| DNA-binding protein, putative [Pelagibaca bermudensis HTCC2601]
 gi|114543001|gb|EAU46021.1| DNA-binding protein, putative [Roseovarius sp. HTCC2601]
          Length = 463

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/132 (13%), Positives = 50/132 (37%), Gaps = 12/132 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R  LG++Q+     LGI+   + + E     V  + +  +++     ++ 
Sbjct: 6   LYAGAKLRDLRGRLGLTQKDFAGKLGISLPYLNQMENNNRPVSTTVVLALAQEFGFDVTE 65

Query: 73  FFDVS---------PTVCSDISSEENNVMDF-ISTPDGLQLNRYFIQIDDV--KVRQKII 120
                           +   I  E   + D  ++  +   L R F+++     +  +++ 
Sbjct: 66  LGQGDSERLVSDMREALADPIFGESPPLADLRLTASNAPALARAFLELHRAYRQTHERLA 125

Query: 121 ELVRSIVSSEKK 132
            L  ++   + +
Sbjct: 126 SLDEALGREDAQ 137


>gi|116493704|ref|YP_805438.1| XRE family transcriptional regulator [Lactobacillus casei ATCC
          334]
 gi|116103854|gb|ABJ68996.1| Transcriptional regulator, xre family [Lactobacillus casei ATCC
          334]
          Length = 202

 Score = 50.6 bits (120), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 29/77 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N  K++   RM   M+Q  L E L ++   V  +E   N      +  I+ + E  +  
Sbjct: 1  MNFSKQLHQIRMAHQMTQANLAEQLHVSRHTVSNWENDRNLPDLEMVTRIARIFEVSLDT 60

Query: 73 FFDVSPTVCSDISSEEN 89
               P +   +  +  
Sbjct: 61 LILDDPKLNEKLIQDSK 77


>gi|325569494|ref|ZP_08145590.1| XRE family transcriptional regulator [Enterococcus casseliflavus
          ATCC 12755]
 gi|325157283|gb|EGC69446.1| XRE family transcriptional regulator [Enterococcus casseliflavus
          ATCC 12755]
          Length = 146

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/82 (17%), Positives = 34/82 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I+  R+ LG++Q+++ E L +T Q +  +E   +      L  +S++ +  +  
Sbjct: 1  MTIAEKIKESRLKLGLTQQEVSEKLFVTRQTISNWENNRSTPDIDTLIKLSDLYQIDLEA 60

Query: 73 FFDVSPTVCSDISSEENNVMDF 94
                         E     F
Sbjct: 61 LLKPEQLADEPERMSEEKKPTF 82


>gi|297538615|ref|YP_003674384.1| XRE family transcriptional regulator [Methylotenera sp. 301]
 gi|297257962|gb|ADI29807.1| transcriptional regulator, XRE family [Methylotenera sp. 301]
          Length = 212

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/93 (16%), Positives = 33/93 (35%), Gaps = 8/93 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            ++G  IR  R+   ++   + E  GI+   + K E  +       L+ ++  L   +S 
Sbjct: 21  RHLGTTIRQLRLEHNLTIADVSERAGISRGMLSKIENSLAATSLETLEQLANALGVTLSK 80

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            F                    +   +G+++ R
Sbjct: 81  LFQNYNL--------PRGAAQLVKKGEGMEVVR 105


>gi|291484905|dbj|BAI85980.1| transcriptional regulator [Bacillus subtilis subsp. natto
          BEST195]
          Length = 113

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+RI+  R   G S  +L E  G+    +   E+ +        L+ +S VL+  +   
Sbjct: 4  IGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 63

Query: 74 FDVSPTVCSDISSEEN 89
           D       D   +  
Sbjct: 64 LDEKHETEYDGQLDSE 79


>gi|254705610|ref|ZP_05167438.1| hypothetical protein BpinM_00991 [Brucella pinnipedialis
          M163/99/10]
 gi|261313020|ref|ZP_05952217.1| transcriptional regulator [Brucella pinnipedialis M163/99/10]
 gi|261302046|gb|EEY05543.1| transcriptional regulator [Brucella pinnipedialis M163/99/10]
          Length = 182

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 37/86 (43%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I++G R+R  RM   +SQ +L +  G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSIDIGGRLRYVRMRQNLSQRELAKRAGVTNSTISLIEANQSNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF + P     +  +   +++ 
Sbjct: 59 GMAEFFALEPDAPHRVFYQAEELVEI 84


>gi|229176551|ref|ZP_04303977.1| Transcriptional regulator [Bacillus cereus MM3]
 gi|228606907|gb|EEK64303.1| Transcriptional regulator [Bacillus cereus MM3]
          Length = 115

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 27/55 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VG+ I+  R    ++QE+L +  G++  Q++ +E   +      L+ ++    + 
Sbjct: 5  VGQNIKRLRKSFDLTQEQLSDRTGLSRGQIKNWETDRHEPDLESLKVLASFFNTS 59


>gi|291286470|ref|YP_003503286.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
           DSM 12809]
 gi|290883630|gb|ADD67330.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
           DSM 12809]
          Length = 149

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 23/98 (23%), Positives = 48/98 (48%), Gaps = 9/98 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD- 75
           +R++    +  + Q +L + +G+  + +  Y KG +      L+ ++E LE+PI +FF  
Sbjct: 6   ERLKALIDVKNIKQTELADLIGVNSKSINTYVKGRSEPNLDLLKKMAEELETPIEYFFGY 65

Query: 76  --VSPTVCSDISSEENNVMDFIST------PDGLQLNR 105
             +   +   +SSE+  +++ I         D LQL +
Sbjct: 66  ISLDEAINGGLSSEKALLINTIRNINTPIPNDTLQLIK 103


>gi|227485487|ref|ZP_03915803.1| transcriptional regulator [Anaerococcus lactolyticus ATCC 51172]
 gi|227236486|gb|EEI86501.1| transcriptional regulator [Anaerococcus lactolyticus ATCC 51172]
          Length = 70

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVC 81
          R   G +Q +LG  +G++ Q +   E+G      +    I++VL   I+  F +  T  
Sbjct: 11 RKKAGYNQAELGGLVGVSRQTISLIERGDYNPSVTVALTIAKVLGVDINEIFRLEETDE 69


>gi|168702699|ref|ZP_02734976.1| putative transcriptional regulator [Gemmata obscuriglobus UQM
          2246]
          Length = 84

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 29/59 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+R+R  R   G+SQE+L E  G+    V   E+G   +    ++ ++  LE  ++   
Sbjct: 17 GERLREVREGAGISQERLAELAGLHRTYVSSVERGKRNISLENIERLAVALEVEMAALM 75


>gi|168217329|ref|ZP_02642954.1| DNA-binding protein [Clostridium perfringens NCTC 8239]
 gi|182380554|gb|EDT78033.1| DNA-binding protein [Clostridium perfringens NCTC 8239]
          Length = 223

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 33/57 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG+RI+  R   GM+Q+ L + LG+  + V + E G   +  S +  +S+VL + ++
Sbjct: 4  VGERIKEAREKSGMTQKALAKKLGVAEKFVNEVETGRKIINESLISKVSKVLNTDLN 60


>gi|146318559|ref|YP_001198271.1| Cro/CI family transcriptional regulator [Streptococcus suis
          05ZYH33]
 gi|146320757|ref|YP_001200468.1| Cro/CI family transcriptional regulator [Streptococcus suis
          98HAH33]
 gi|253751682|ref|YP_003024823.1| Cro/CI family transcriptional regulator [Streptococcus suis SC84]
 gi|253755603|ref|YP_003028743.1| Cro/CI family transcriptional regulator [Streptococcus suis
          BM407]
 gi|145689365|gb|ABP89871.1| transcriptional regulator, Cro/CI family [Streptococcus suis
          05ZYH33]
 gi|145691563|gb|ABP92068.1| transcriptional regulator, Cro/CI family [Streptococcus suis
          98HAH33]
 gi|251815971|emb|CAZ51587.1| transcriptional regulator, Cro/CI family [Streptococcus suis
          SC84]
 gi|251818067|emb|CAZ55859.1| transcriptional regulator, Cro/CI family [Streptococcus suis
          BM407]
          Length = 73

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 26/63 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RIR  R     SQE L   L  +     K E G  ++    L  ISE+ +    +   +
Sbjct: 3  RRIRDLREDCDYSQEYLARYLSCSQSAYSKIESGKRQIPVDFLIKISELYQVSTDYLLGL 62

Query: 77 SPT 79
          + T
Sbjct: 63 TDT 65


>gi|152997330|ref|YP_001342165.1| XRE family transcriptional regulator [Marinomonas sp. MWYL1]
 gi|150838254|gb|ABR72230.1| transcriptional regulator, XRE family [Marinomonas sp. MWYL1]
          Length = 132

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 22/112 (19%), Positives = 48/112 (42%), Gaps = 10/112 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G  I++ R+   M+QE++     +    V + EKG+ +     LQ +++ L +  S 
Sbjct: 1   MNIGHVIKILRIQRKMTQEQIALEADMATSNVSRIEKGLRQPSQKVLQKLAKALNTKPSV 60

Query: 73  FFDVSPTVCSDISS----------EENNVMDFISTPDGLQLNRYFIQIDDVK 114
            +  S    ++IS           +E+N+   +   D     + F ++    
Sbjct: 61  LYAASEQPITNISDFLEKEGNDEKKEDNINQLLLNHDTQVALKLFSELTPDN 112


>gi|49474962|ref|YP_033003.1| hypothetical protein BH01480 [Bartonella henselae str. Houston-1]
 gi|49237767|emb|CAF26960.1| hypothetical protein BH01480 [Bartonella henselae str. Houston-1]
          Length = 180

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 6/104 (5%)

Query: 17  KRIRLRRMILGMS-QEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           KR R  R ILG + +++  E LG+T   +  YE GV+   AS L    E+    + +   
Sbjct: 14  KRFREVRRILGFTERKQFAEHLGVTAGSIGTYETGVSEPTASALSKYQEICGVSLDWLVT 73

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNR----YFIQIDDVKV 115
            +  + +D++  +       + P GL + R     +    D K+
Sbjct: 74  GNGEMFTDMAKAKAAGFKPQAIPAGL-MKRLGHLAYTTYHDAKI 116


>gi|300172868|ref|YP_003772033.1| XRE family transcriptional regulator [Leuconostoc gasicomitatum
          LMG 18811]
 gi|299887246|emb|CBL91214.1| Transcriptional regulator, XRE family,putative [Leuconostoc
          gasicomitatum LMG 18811]
          Length = 69

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 28/65 (43%), Gaps = 2/65 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI+  R    M+Q +L + L +T Q +   EKG      +   +I+   +  I   F F
Sbjct: 3  NRIQELRKSRHMTQAELADKLEVTRQTIISLEKGKYNASLTLAHNIASFFQLTIETVFIF 62

Query: 75 DVSPT 79
          +   T
Sbjct: 63 EEDKT 67


>gi|300690045|ref|YP_003751040.1| transcription regulator protein (modular protein) [Ralstonia
           solanacearum PSI07]
 gi|299077105|emb|CBJ49726.1| putative transcription regulator protein (modular protein)
           [Ralstonia solanacearum PSI07]
          Length = 209

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/89 (15%), Positives = 30/89 (33%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V+  + +R+R  R   G + + L    G++   +   E+G     A+ L  ++  L   +
Sbjct: 16  VNERIARRVRELRAARGYTLDVLATRCGVSRSMISLIERGAASPTAAVLDKLAAGLGVSL 75

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPD 99
           +  F                       P+
Sbjct: 76  ASLFGGEREGVPAQPLMRRAQQAQWRDPE 104


>gi|134045361|ref|YP_001096847.1| cupin 2 domain-containing protein [Methanococcus maripaludis C5]
 gi|132662986|gb|ABO34632.1| Cupin 2, conserved barrel domain protein [Methanococcus
          maripaludis C5]
          Length = 184

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 30/67 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R+R  R +  +S E++ + L I+ +  Q YE+G   V AS L  I+   E  +  
Sbjct: 6  KEIAARVRELRELSDISIEEMADHLKISPEIYQHYEEGTCDVPASVLYEIAHKFEVDMGL 65

Query: 73 FFDVSPT 79
                T
Sbjct: 66 LLTGEET 72


>gi|70731387|ref|YP_261128.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
 gi|68345686|gb|AAY93292.1| DNA-binding protein [Pseudomonas fluorescens Pf-5]
          Length = 65

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 22/63 (34%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++R  R   G SQ +L   L ++ Q V   E G           I+   E PI   F  
Sbjct: 3  NQLRELRTRQGWSQAELATRLEVSRQTVNAIETGRYDPSLPLAFKIARAFEMPIESIFSP 62

Query: 77 SPT 79
             
Sbjct: 63 DED 65


>gi|327394419|dbj|BAK11841.1| HTH-type transcriptional regulator PuuR [Pantoea ananatis
          AJ13355]
          Length = 153

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 29/59 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+R+   R  +G+SQ ++ E  G+T   +   E+       S LQ + +V    +S FF
Sbjct: 9  GRRLSQIRQAMGLSQRRVAELAGLTHSAISTIEQDKVSPAVSTLQKLLKVYGLSLSEFF 67


>gi|318057395|ref|ZP_07976118.1| hypothetical protein SSA3_05613 [Streptomyces sp. SA3_actG]
 gi|318076536|ref|ZP_07983868.1| hypothetical protein SSA3_07397 [Streptomyces sp. SA3_actF]
          Length = 77

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 28/61 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            VG RIR  R+   ++QE L E  G+  + + + E G +      L  I+  L  P++ 
Sbjct: 15 RAVGDRIRTARLEAAITQETLAERTGLDRKTIVRTEGGTHSTLLDHLLLIARALGRPLAD 74

Query: 73 F 73
           
Sbjct: 75 L 75


>gi|291484297|dbj|BAI85372.1| hypothetical protein BSNT_02805 [Bacillus subtilis subsp. natto
           BEST195]
          Length = 128

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 21/111 (18%), Positives = 42/111 (37%), Gaps = 9/111 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G RI+  R  + +SQE L E L +    +  YE G      + +  +S++      F   
Sbjct: 10  GMRIKQCRKAINISQEALAERLEMKRTNIANYEAGRVIPPGNVILELSKIFGVTTDFLLG 69

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
            S      +   + ++          Q+ R   ++ +   R ++  +V  I
Sbjct: 70  SSDNPIGKLDPLDEDL---------RQIQRAKTKLKNSADRDRMERMVEMI 111


>gi|260856429|ref|YP_003230320.1| putative phage repressor protein CI [Escherichia coli O26:H11
          str. 11368]
 gi|257755078|dbj|BAI26580.1| predicted phage repressor protein CI [Escherichia coli O26:H11
          str. 11368]
          Length = 235

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 33/77 (42%), Gaps = 1/77 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+       G+SQ +L + +GI+   +QK   G    G+ ++  ++  L+    +    
Sbjct: 6  ERLNAAMSSAGVSQSQLADMVGISQPAIQKMSSGKTN-GSRKMVELANALKVRPEWLSSG 64

Query: 77 SPTVCSDISSEENNVMD 93
             +      E +NV D
Sbjct: 65 IGEMRDGAHEEPSNVRD 81


>gi|239904800|ref|YP_002951538.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
 gi|239794663|dbj|BAH73652.1| Xre family DNA-binding protein [Desulfovibrio magneticus RS-1]
          Length = 271

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 25/57 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VG  IR  R    +SQ  L   + ++ + +   E G +R     +  I+E L+ P
Sbjct: 12 RTVGDLIRFWRNTKKISQMDLALEVDVSTRHLSFVETGKSRPSRKLVFKIAESLKMP 68


>gi|256371092|ref|YP_003108916.1| XRE family transcriptional regulator [Acidimicrobium ferrooxidans
          DSM 10331]
 gi|256007676|gb|ACU53243.1| transcriptional regulator, XRE family [Acidimicrobium
          ferrooxidans DSM 10331]
          Length = 205

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 32/68 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+R  R   G+S   + E  G++   + + E+         L  I++ +   ++  F
Sbjct: 8  IGERLRHAREQRGLSLAAVAERTGLSKGFLSRVERDGVSPSIDSLVAIADAVGLAVADVF 67

Query: 75 DVSPTVCS 82
           V+P V S
Sbjct: 68 AVAPVVVS 75


>gi|167622932|ref|YP_001673226.1| XRE family transcriptional regulator [Shewanella halifaxensis
          HAW-EB4]
 gi|167352954|gb|ABZ75567.1| transcriptional regulator, XRE family [Shewanella halifaxensis
          HAW-EB4]
          Length = 182

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 33/71 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ ++  R   G+SQ +L +  G+T   +   EK       S L+ +   L   +  
Sbjct: 1  MDIGENLKKVRKEKGLSQRELAKRAGVTNSTISMIEKNSVSPSVSSLKKVLSGLPMSLVE 60

Query: 73 FFDVSPTVCSD 83
          FF +  T  ++
Sbjct: 61 FFSIEDTQETE 71


>gi|117619340|ref|YP_857051.1| Cro/CI family transcriptional regulator [Aeromonas hydrophila
          subsp. hydrophila ATCC 7966]
 gi|117560747|gb|ABK37695.1| transcriptional regulator, Cro/CI family [Aeromonas hydrophila
          subsp. hydrophila ATCC 7966]
          Length = 200

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/75 (18%), Positives = 32/75 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V +R++  R    +S ++L    G++   + + EKG      + L  ++  L   ++   
Sbjct: 22 VSRRLKEYRQQGRLSLDELSRRAGVSKGMLVEIEKGAANPSIAILCKLAAALGVSVADIV 81

Query: 75 DVSPTVCSDISSEEN 89
          DV+ T    +   + 
Sbjct: 82 DVASTPTVHLIEPQA 96


>gi|91206191|ref|YP_538546.1| Phage-related transcriptional regulator [Rickettsia bellii
           RML369-C]
 gi|157827799|ref|YP_001496863.1| Phage-related transcriptional regulator [Rickettsia bellii OSU
           85-389]
 gi|91069735|gb|ABE05457.1| Phage-related transcriptional regulator [Rickettsia bellii
           RML369-C]
 gi|157803103|gb|ABV79826.1| Phage-related transcriptional regulator [Rickettsia bellii OSU
           85-389]
          Length = 120

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 26/53 (49%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           I++ R   G+SQE+L   +G T Q +   EKG        L+ +S VL   + 
Sbjct: 66  IKVYREYRGLSQEQLATKIGKTKQYISAIEKGSRTGTIDTLKKLSTVLNIDLD 118


>gi|34497476|ref|NP_901691.1| transcriptional regulator [Chromobacterium violaceum ATCC 12472]
 gi|34103331|gb|AAQ59693.1| probable transcriptional regulator [Chromobacterium violaceum
          ATCC 12472]
          Length = 181

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++VG R+R+ R   G+SQ +L +  G+T   +   E+       S L+ + E L   ++ 
Sbjct: 1  MDVGARLRMVRTRFGLSQRELAKRAGVTNGTISLIEQNRVSPSVSSLKKVLEGLPITLAE 60

Query: 73 FFDVSPTVCS 82
          FF        
Sbjct: 61 FFTFDAEPAQ 70


>gi|312953700|ref|ZP_07772536.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|310628374|gb|EFQ11657.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|315151831|gb|EFT95847.1| helix-turn-helix protein [Enterococcus faecalis TX0031]
          Length = 231

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
          +RR  LG++Q ++ E L +T Q +  +E   +      L  +S + E  +        T+
Sbjct: 1  MRRNELGLTQSEVAEKLYVTRQTISNWENNKSYPNIDCLIELSNLYEMTLDRLLKEDNTM 60

Query: 81 CSDISSEENN 90
             +S +   
Sbjct: 61 VEKLSKDIKE 70


>gi|297157691|gb|ADI07403.1| putative DNA-binding protein [Streptomyces bingchenggensis BCW-1]
          Length = 394

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/99 (17%), Positives = 40/99 (40%), Gaps = 7/99 (7%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +P P D + G RI   R   G++Q  L + +  ++  + + E G        +  +++ L
Sbjct: 1   MPFPGDEHTGTRIAHHRKRAGLTQRGLAQRVPYSYSLLTQVESGHKPASPDLVAAVAKAL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTP--DGLQL 103
              ++       T    ++  + + +  +  P  + L L
Sbjct: 61  SIDVTAL-----TGQPYVTELQQDRLAALVRPIREALDL 94


>gi|296394319|ref|YP_003659203.1| XRE family transcriptional regulator [Segniliparus rotundus DSM
          44985]
 gi|296181466|gb|ADG98372.1| transcriptional regulator, XRE family [Segniliparus rotundus DSM
          44985]
          Length = 471

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/63 (30%), Positives = 27/63 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V    G R+R  R+  G+SQ  L   L I+   + + E  V  +    L  +SE L    
Sbjct: 2  VKTYAGPRLRQLRVERGLSQVALAADLAISPSYLNQIEHDVRPLTVPLLVRLSETLGVDA 61

Query: 71 SFF 73
           FF
Sbjct: 62 EFF 64


>gi|291448916|ref|ZP_06588306.1| DNA-binding protein [Streptomyces roseosporus NRRL 15998]
 gi|291351863|gb|EFE78767.1| DNA-binding protein [Streptomyces roseosporus NRRL 15998]
          Length = 277

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 26/59 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          D  VG  +R  R    +SQ +L      + + +   E G +R     +  ++E L+ P+
Sbjct: 7  DTGVGPLLRDWREQRRISQLELALRADSSARHISFIETGRSRPSEDMVLRLAEHLDVPV 65


>gi|258508090|ref|YP_003170841.1| phage-related transcriptional regulator Cro/CI family
           [Lactobacillus rhamnosus GG]
 gi|257148017|emb|CAR86990.1| Phage-related transcriptional regulator, Cro/CI family
           [Lactobacillus rhamnosus GG]
          Length = 112

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/101 (17%), Positives = 41/101 (40%), Gaps = 8/101 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G+R++  R    M+Q  +G+ + ++   V  YEK         ++ ++        F
Sbjct: 2   MSFGERLKELRNEKKMTQSDVGKIINVSKASVSLYEKNERTPDQDSIKKLASYFNVSTDF 61

Query: 73  FFDVS-----PTVCSDISSEENNVMDFIST---PDGLQLNR 105
              V+     P       S+ + +M F      P+ L++ +
Sbjct: 62  LLGVTDVRSKPEQIDISDSKNDTIMTFEGRPIPPEDLEIIK 102


>gi|242399175|ref|YP_002994599.1| Putative HTH-type transcriptional regulatory protein TK0539
           [Thermococcus sibiricus MM 739]
 gi|242265568|gb|ACS90250.1| Putative HTH-type transcriptional regulatory protein TK0539
           [Thermococcus sibiricus MM 739]
          Length = 319

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 30/56 (53%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           GK +R  R   G S  +L E LG++ + +Q YEKG   +       + E+ ++P++
Sbjct: 129 GKYLRELRESHGYSVGELAELLGVSRKSLQNYEKGEQAMSLEIALRLEELFDAPVA 184


>gi|229125166|ref|ZP_04254312.1| hypothetical protein bcere0016_54290 [Bacillus cereus 95/8201]
 gi|228658292|gb|EEL13986.1| hypothetical protein bcere0016_54290 [Bacillus cereus 95/8201]
          Length = 51

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/47 (29%), Positives = 22/47 (46%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          MSQE L   +G+  + +   E G           I++VL++PI   F
Sbjct: 1  MSQEDLANEVGVRRETIGNLENGKYNPSFKLTYDIAKVLKAPIEVLF 47


>gi|284031797|ref|YP_003381728.1| XRE family transcriptional regulator [Kribbella flavida DSM 17836]
 gi|283811090|gb|ADB32929.1| transcriptional regulator, XRE family [Kribbella flavida DSM 17836]
          Length = 198

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/94 (19%), Positives = 38/94 (40%), Gaps = 6/94 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R++  R    ++  +L +  GI+   + + E G+ R    +L  ++ V    +    
Sbjct: 12  VGARLKHLRQRRTITLVELADQTGISISTLSRLEAGLRRPTLEQLLPLARVHGVTLDELV 71

Query: 75  DVSPTVCSDI------SSEENNVMDFISTPDGLQ 102
           D  PT    +      + +   ++     P G+Q
Sbjct: 72  DAPPTGNPRVTLRPIRADDGAVILPLTRRPGGIQ 105


>gi|237730277|ref|ZP_04560758.1| DNA-binding transcriptional repressor PuuR [Citrobacter sp. 30_2]
 gi|226905816|gb|EEH91734.1| DNA-binding transcriptional repressor PuuR [Citrobacter sp. 30_2]
          Length = 185

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 36/80 (45%), Gaps = 1/80 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R  LG+SQ +  E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSEIRQQLGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFA 68

Query: 75 DVSPTVCSDISSEENNVMDF 94
          +        +   ++++++ 
Sbjct: 69 EPEKPDEPQVVINQDDLIEI 88


>gi|222055943|ref|YP_002538305.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
 gi|221565232|gb|ACM21204.1| transcriptional regulator, XRE family [Geobacter sp. FRC-32]
          Length = 130

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 23/52 (44%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           IR+ R    +S   L +  G+T   + + E G  +   + L  I+  L+  +
Sbjct: 66  IRVWREYRRLSAADLAKACGVTAAAISQIESGKRKSSVTLLHKIARTLKVDL 117


>gi|167770464|ref|ZP_02442517.1| hypothetical protein ANACOL_01809 [Anaerotruncus colihominis DSM
           17241]
 gi|167667059|gb|EDS11189.1| hypothetical protein ANACOL_01809 [Anaerotruncus colihominis DSM
           17241]
          Length = 112

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/116 (16%), Positives = 46/116 (39%), Gaps = 14/116 (12%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R++  R  L M+Q    + LGIT       E G N +    ++ I        ++    
Sbjct: 3   ERLKQLRKALKMNQTNFAKELGITQTAYSMIENGNNPLSDRYIKVICSCFNVNENWLRTG 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
           +  +             F S+P   +    F  +   + +Q ++ + + ++++++K
Sbjct: 63  NGDM-------------FFSSPYEKEFTEIFSHLA-PETQQYLLLMAKELLNTQQK 104


>gi|332297685|ref|YP_004439607.1| helix-turn-helix domain protein [Treponema brennaborense DSM
          12168]
 gi|332180788|gb|AEE16476.1| helix-turn-helix domain protein [Treponema brennaborense DSM
          12168]
          Length = 107

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 31/66 (46%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +   +G+ IR  R  LG +QE+L E   I+   + + E G        +++IS+ L  
Sbjct: 2  NEIVAVLGQNIRKFRKNLGWTQEQLAEKAQISVPFMTQIELGRKSASLEVIENISKSLGV 61

Query: 69 PISFFF 74
          P    F
Sbjct: 62 PYDALF 67


>gi|319939730|ref|ZP_08014087.1| XRE family Transcriptional regulator [Streptococcus anginosus
          1_2_62CV]
 gi|319811068|gb|EFW07379.1| XRE family Transcriptional regulator [Streptococcus anginosus
          1_2_62CV]
          Length = 61

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 26/56 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++  R  LG+SQ  L + +G++ Q +   E            +++  L++ ++  F
Sbjct: 4  VKDFRKNLGLSQLDLAKQIGVSRQTINMIENNKYNPTLELCINLALALKTDLNTLF 59


>gi|325674855|ref|ZP_08154542.1| XRE family transcriptional regulator [Rhodococcus equi ATCC
          33707]
 gi|325554441|gb|EGD24116.1| XRE family transcriptional regulator [Rhodococcus equi ATCC
          33707]
          Length = 196

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 22/57 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG R+R  R   G +   L    GI+   + + E G  +     L  ++     P+ 
Sbjct: 14 VGPRLRALRQQRGTTLSDLAADTGISVSTLSRLEAGQRKPNLELLLPLARAYGVPLD 70


>gi|293381958|ref|ZP_06627920.1| helix-turn-helix protein [Lactobacillus crispatus 214-1]
 gi|312978379|ref|ZP_07790121.1| putative transcriptional regulator [Lactobacillus crispatus
          CTV-05]
 gi|290921465|gb|EFD98505.1| helix-turn-helix protein [Lactobacillus crispatus 214-1]
 gi|310894722|gb|EFQ43794.1| putative transcriptional regulator [Lactobacillus crispatus
          CTV-05]
          Length = 200

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 36/81 (44%), Gaps = 1/81 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I        + QE L E + ++ Q V K+E   +     ++  +SE+      +
Sbjct: 1  MRLGQKIAALHKKNHLFQEALAEKMNVSRQAVSKWESEQSIPDIEKIVALSELFGVTTDY 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
                    +++ ++NN+ +
Sbjct: 61 LLKSGSPSF-ELNHKDNNLTE 80


>gi|228477794|ref|ZP_04062422.1| conserved domain protein [Streptococcus salivarius SK126]
 gi|228250486|gb|EEK09700.1| conserved domain protein [Streptococcus salivarius SK126]
          Length = 66

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R+   ++Q+ L + +G++ Q +   EKG      +    I + L+  +   F
Sbjct: 5  KMKSARVAKDLTQQGLADAIGVSRQTISAIEKGDYNPTINLCIAICKTLDKTLDQLF 61


>gi|226326318|ref|ZP_03801836.1| hypothetical protein PROPEN_00166 [Proteus penneri ATCC 35198]
 gi|225205269|gb|EEG87623.1| hypothetical protein PROPEN_00166 [Proteus penneri ATCC 35198]
          Length = 122

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/84 (17%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ KR + +R+ LG++Q +L      T Q +++ E G  +     L  +++ L   +++
Sbjct: 1  MSIAKRTKDKRIALGLTQSELATLASTTQQSIEQLESGKTK-RPRFLPELAKALNCDLAW 59

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
                   +       N    +S
Sbjct: 60 LLGGEEQTNATSEIPPENEWQPVS 83


>gi|182624278|ref|ZP_02952063.1| DNA-binding protein [Clostridium perfringens D str. JGS1721]
 gi|177910496|gb|EDT72869.1| DNA-binding protein [Clostridium perfringens D str. JGS1721]
          Length = 223

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 33/57 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG+RI+  R   GM+Q+ L + LG+  + V + E G   +  S +  +S+VL + ++
Sbjct: 4  VGERIKEAREKSGMTQKALAKKLGVAEKFVNEVETGRKIINESLISKVSKVLNTDLN 60


>gi|169343406|ref|ZP_02864410.1| regulator SinR [Clostridium perfringens C str. JGS1495]
 gi|169298492|gb|EDS80578.1| regulator SinR [Clostridium perfringens C str. JGS1495]
          Length = 204

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 1/62 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
          ++I   R   G+S+ +L   +G++   + K E G  +         I+ VLE PI+ F +
Sbjct: 5  EKITFYREKKGISKSQLAREIGVSPAYITKLENGEKSNPSLELKIKIANVLEQPITVFLE 64

Query: 76 VS 77
            
Sbjct: 65 ND 66



 Score = 35.9 bits (82), Expect = 2.0,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 38/79 (48%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V+ N+G +I+  +++  ++ E+L +  GI   +++  + G        L+ IS+ L+   
Sbjct: 68  VNNNIGSKIKSAKILNNLNDEQLSKITGIDKLKLRSIQDGEINPTKIELEIISKALKLQA 127

Query: 71  SFFFDVSPTVCSDISSEEN 89
            +F   S     +  + E+
Sbjct: 128 DYFTKDSNVNIDETGNIED 146


>gi|163746322|ref|ZP_02153680.1| DNA-binding protein, putative [Oceanibulbus indolifex HEL-45]
 gi|161380207|gb|EDQ04618.1| DNA-binding protein, putative [Oceanibulbus indolifex HEL-45]
          Length = 195

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 30/62 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G  +R  R    ++   + E L  +   V + E+ ++    + L+ I+EVL  PIS 
Sbjct: 15 RSLGADLRAIRKGRKLTLTDMAEALDRSVGWVSQVERDISTPSIADLRRIAEVLGVPISL 74

Query: 73 FF 74
           F
Sbjct: 75 LF 76


>gi|158421618|ref|YP_001527845.1| N-6 DNA methylase [Deinococcus geothermalis DSM 11300]
 gi|158342861|gb|ABW35147.1| N-6 DNA methylase [Deinococcus geothermalis DSM 11300]
          Length = 610

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 31/66 (46%), Gaps = 5/66 (7%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN---RVGASRLQHI 62
           +P P+D      +R  R  L ++QE+L E LG++F  V ++E G N   R     +  +
Sbjct: 3  NMPPPIDFP--ALLRTIRSALDLTQEQLAERLGVSFATVNRWEGGGNKPQRAAQETILAL 60

Query: 63 SEVLES 68
          +     
Sbjct: 61 AREAGV 66


>gi|111657932|ref|ZP_01408641.1| hypothetical protein SpneT_02000878 [Streptococcus pneumoniae
           TIGR4]
          Length = 271

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 3/88 (3%)

Query: 28  MSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISS 86
           MSQ +L E  GI  Q Q+ + E G    GA  L  +++ L+  + +FFD       +  S
Sbjct: 1   MSQRELAE--GICKQGQISRLESGEFTPGADFLNALAKKLKVSMDYFFDEQVVEKVEELS 58

Query: 87  EENNVMDFISTPDGLQLNRYFIQIDDVK 114
           E   +     T    +  +Y  ++++VK
Sbjct: 59  EFKKLAQTFITNRNYESLKYIYELENVK 86


>gi|119943935|ref|YP_941615.1| DNA-binding transcriptional regulator [Psychromonas ingrahamii
          37]
 gi|119862539|gb|ABM02016.1| predicted DNA-binding transcriptional regulator, helix-turn-helix
          domain [Psychromonas ingrahamii 37]
          Length = 74

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 30/65 (46%), Gaps = 5/65 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGEC-----LGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +GK+IR  R   G++QE+L          ++   + K E    +V    +++ ++ L+  
Sbjct: 4  IGKKIREIRKQRGLTQEQLAAACCLLGFDLSRSTLAKVESQNRQVTDYEIRYFAQALKVS 63

Query: 70 ISFFF 74
             FF
Sbjct: 64 EGDFF 68


>gi|56962741|ref|YP_174467.1| DNA-binding protein [Bacillus clausii KSM-K16]
 gi|56908979|dbj|BAD63506.1| DNA-binding protein [Bacillus clausii KSM-K16]
          Length = 68

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 29/62 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +  R+++ R    M+Q +L E +G+T Q +   EKG           I++  E P+  
Sbjct: 1  MEIENRVKVLRAEKRMTQGELAEAVGVTRQTIVALEKGRYSPSLLLAFQIAKQFELPVED 60

Query: 73 FF 74
           F
Sbjct: 61 VF 62


>gi|14520527|ref|NP_126002.1| inosine-5'-monophosphate dehydrogenase-like protein I [Pyrococcus
          abyssi GE5]
 gi|5457743|emb|CAB49233.1| Predicted transcriptional regulator [Pyrococcus abyssi GE5]
          Length = 192

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 3/60 (5%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          IP P+D    + I+  R  LG++QE+L    G+T   + K E G      S    I   L
Sbjct: 4  IPRPIDP---RDIKKIRKELGITQEELARKAGVTQAYIAKLEAGKVDPRLSTFNRILRAL 60


>gi|325475695|gb|EGC78871.1| DNA-binding protein [Treponema denticola F0402]
          Length = 93

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 23/68 (33%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R   G+SQ +L     I+   +   E G        L  I   L    +  F  
Sbjct: 14 NRLRKEREKAGLSQLELALRADISQNMINYIETGKRTPSLDTLLKICHALNINPAVLFSD 73

Query: 77 SPTVCSDI 84
          +    ++ 
Sbjct: 74 TEEEKAEA 81


>gi|321314263|ref|YP_004206550.1| putative xre family transcriptional regulator [Bacillus subtilis
          BSn5]
 gi|320020537|gb|ADV95523.1| putative xre family transcriptional regulator [Bacillus subtilis
          BSn5]
          Length = 80

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 29/57 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          ++ +R+  G++Q+ + +  GI        E+G    G    + IS+VL+   + FFD
Sbjct: 9  LKHKRLSKGLTQKGVADKAGIARTTYASIEQGERNAGVPTAKAISQVLDFHWTIFFD 65


>gi|299532071|ref|ZP_07045466.1| transcriptional regulator, XRE family with [Comamonas testosteroni
           S44]
 gi|298719986|gb|EFI60948.1| transcriptional regulator, XRE family with [Comamonas testosteroni
           S44]
          Length = 191

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 39/93 (41%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D   G  +R RR  LG++ ++L +  G++   + + E+G+          I++ L   + 
Sbjct: 13  DALFGAAVRARRAQLGITLDQLAQASGVSPGALSRVERGLLATSLRNAMAIAQGLGCELG 72

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
                +P+     + E    +D  S  + L L 
Sbjct: 73  ELVQSAPSAQITRAGENLRFVDEASGVERLALA 105


>gi|294789244|ref|ZP_06754483.1| DNA-binding protein [Simonsiella muelleri ATCC 29453]
 gi|294482985|gb|EFG30673.1| DNA-binding protein [Simonsiella muelleri ATCC 29453]
          Length = 136

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 32/57 (56%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++IRL R +   SQE++ E L ++     + E+G  R+   RL+ I+++L   IS  
Sbjct: 5  EKIRLARELNQWSQEEMAEKLEMSPSGYARIERGEVRLNIERLEQIAQILNIDISDL 61


>gi|326319216|ref|YP_004236888.1| helix-turn-helix domain-containing protein [Acidovorax avenae
          subsp. avenae ATCC 19860]
 gi|323376052|gb|ADX48321.1| helix-turn-helix domain protein [Acidovorax avenae subsp. avenae
          ATCC 19860]
          Length = 92

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/50 (28%), Positives = 24/50 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++  R   G++Q  +   LG+T Q     E+    +GA+RL  +  VL  
Sbjct: 16 LQAFRKQSGLTQSDVALRLGVTQQTYSALERNAGNMGAARLLQLLSVLGV 65


>gi|259649410|dbj|BAI41572.1| hypothetical phage protein [Lactobacillus rhamnosus GG]
          Length = 111

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/101 (17%), Positives = 41/101 (40%), Gaps = 8/101 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G+R++  R    M+Q  +G+ + ++   V  YEK         ++ ++        F
Sbjct: 1   MSFGERLKELRNEKKMTQSDVGKIINVSKASVSLYEKNERTPDQDSIKKLASYFNVSTDF 60

Query: 73  FFDVS-----PTVCSDISSEENNVMDFIST---PDGLQLNR 105
              V+     P       S+ + +M F      P+ L++ +
Sbjct: 61  LLGVTDVRSKPEQIDISDSKNDTIMTFEGRPIPPEDLEIIK 101


>gi|257066291|ref|YP_003152547.1| transcriptional regulator, XRE family [Anaerococcus prevotii DSM
          20548]
 gi|256798171|gb|ACV28826.1| transcriptional regulator, XRE family [Anaerococcus prevotii DSM
          20548]
          Length = 73

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R++  R+  G+SQ+++ + L +T   +  YE G      + ++  S + +  +   F
Sbjct: 12 VGNRLKKLRLSRGLSQKEMADILKVTRPLISMYEAGNRMPSPNIMKKYSIIFKKSVDDIF 71


>gi|227877994|ref|ZP_03995996.1| helix-turn-helix domain protein [Lactobacillus crispatus JV-V01]
 gi|256844374|ref|ZP_05549860.1| transcriptional regulator [Lactobacillus crispatus 125-2-CHN]
 gi|256849226|ref|ZP_05554659.1| transcriptional regulator [Lactobacillus crispatus MV-1A-US]
 gi|262047242|ref|ZP_06020200.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
 gi|227862415|gb|EEJ69932.1| helix-turn-helix domain protein [Lactobacillus crispatus JV-V01]
 gi|256613452|gb|EEU18655.1| transcriptional regulator [Lactobacillus crispatus 125-2-CHN]
 gi|256714002|gb|EEU28990.1| transcriptional regulator [Lactobacillus crispatus MV-1A-US]
 gi|260572487|gb|EEX29049.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
          Length = 226

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 36/81 (44%), Gaps = 1/81 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++I        + QE L E + ++ Q V K+E   +     ++  +SE+      +
Sbjct: 27  MRLGQKIAALHKKNHLFQEALAEKMNVSRQAVSKWESEQSIPDIEKIVALSELFGVTTDY 86

Query: 73  FFDVSPTVCSDISSEENNVMD 93
                     +++ ++NN+ +
Sbjct: 87  LLKSGSPSF-ELNHKDNNLTE 106


>gi|196251156|ref|ZP_03149833.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
 gi|196209320|gb|EDY04102.1| transcriptional regulator, XRE family [Geobacillus sp. G11MC16]
          Length = 136

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 1/71 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESP 69
          V  N G  +R  R   G S ++L E  G++   + + EKG  R         I+E L  P
Sbjct: 8  VSNNFGSTLRYWREKRGYSLQQLYEKTGVSAGYLNRLEKGERRAPSIPIASKIAEALGIP 67

Query: 70 ISFFFDVSPTV 80
          +S   D+S T 
Sbjct: 68 LSLLLDISTTE 78


>gi|167725784|ref|ZP_02409020.1| GP52 family protein [Burkholderia pseudomallei DM98]
          Length = 115

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 21/103 (20%), Positives = 44/103 (42%), Gaps = 10/103 (9%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + NP     G+R + RR  LG+SQ+ + E +G++   + K E+G +    +    ++  L
Sbjct: 1   MENP---EFGRRAKERREALGLSQKHVAELVGVSQPAIAKVERGGST-TTTNGFALARAL 56

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
            + + +  +    V   I +  + + D      G      +I 
Sbjct: 57  LTTLEWL-EFGDEVGPQIPAGYDQLDDL-----GRAKVEAYIS 93


>gi|163790416|ref|ZP_02184847.1| putative transcriptional regulator [Carnobacterium sp. AT7]
 gi|159874320|gb|EDP68393.1| putative transcriptional regulator [Carnobacterium sp. AT7]
          Length = 65

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R+++ R    MSQ++L + + +T Q +   E+G      +    I +     ++  F
Sbjct: 6  RLKVARTKKDMSQQQLADAVNVTRQTISAIERGDYNPTINLCIEICKEFNLTLNDLF 62


>gi|228952839|ref|ZP_04114909.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|228806882|gb|EEM53431.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
          Length = 292

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|229100213|ref|ZP_04231113.1| Prophage LambdaBa04, DNA-binding protein [Bacillus cereus
          Rock3-29]
 gi|228683255|gb|EEL37233.1| Prophage LambdaBa04, DNA-binding protein [Bacillus cereus
          Rock3-29]
          Length = 114

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 29/72 (40%), Gaps = 6/72 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I  G+ ++  R    ++Q +L E L ++  Q++ +E G  +     L  I+      +  
Sbjct: 2  IIFGQTLKQLRKSRDLTQSELAEILNLSQSQIKNWETGRFQPDIQTLASIASFFNVSLDV 61

Query: 73 F------FDVSP 78
                 F+  P
Sbjct: 62 LVGFSNNFEDEP 73


>gi|261339303|ref|ZP_05967161.1| hypothetical protein ENTCAN_05544 [Enterobacter cancerogenus ATCC
          35316]
 gi|288319163|gb|EFC58101.1| transcriptional regulator, Cro/CI family [Enterobacter
          cancerogenus ATCC 35316]
          Length = 185

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 1/79 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R  LG+SQ +  E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSEIRQQLGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFS 68

Query: 75 DVSPTVCSDISSEENNVMD 93
          +        +   ++++++
Sbjct: 69 EPEKPDEPQVVINQDDLIE 87


>gi|198276387|ref|ZP_03208918.1| hypothetical protein BACPLE_02582 [Bacteroides plebeius DSM 17135]
 gi|198270829|gb|EDY95099.1| hypothetical protein BACPLE_02582 [Bacteroides plebeius DSM 17135]
          Length = 120

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 28/53 (52%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           G+ +R RR  LGM+Q++L E +G     + + E+G   +  S    I+E L  
Sbjct: 59  GEILRERRKELGMTQKELAERVGRERTYINRIERGETDLQLSSFIRIAEALGI 111


>gi|157691284|ref|YP_001485746.1| transcriptional regulator [Bacillus pumilus SAFR-032]
 gi|157680042|gb|ABV61186.1| transcriptional regulator [Bacillus pumilus SAFR-032]
          Length = 184

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 33/78 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K +RL R    +S EK+ E  G++   + + E+G +    + L  I+  L+   S   
Sbjct: 8  ISKNVRLLRDQKKLSLEKMAELTGVSKTMIGQIERGESTPTITTLWKIANGLKVSFSELI 67

Query: 75 DVSPTVCSDISSEENNVM 92
                   +  E+  ++
Sbjct: 68 HAPQPEIKVVRHEDAQIL 85


>gi|154500782|ref|ZP_02038820.1| hypothetical protein BACCAP_04460 [Bacteroides capillosus ATCC
          29799]
 gi|150270399|gb|EDM97722.1| hypothetical protein BACCAP_04460 [Bacteroides capillosus ATCC
          29799]
          Length = 103

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 27/55 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          IR  R     +Q+++ + L +  +    YE GVN +    L  ++++ ++ + + 
Sbjct: 29 IRALREDRDWTQQQVADMLYLNRRTYSAYENGVNTITPELLIQLADLYQTSVDYL 83


>gi|20808559|ref|NP_623730.1| transcriptional regulator [Thermoanaerobacter tengcongensis MB4]
 gi|20517186|gb|AAM25334.1| predicted Transcriptional regulator [Thermoanaerobacter
           tengcongensis MB4]
          Length = 123

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/102 (17%), Positives = 42/102 (41%), Gaps = 5/102 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+RIR  R    ++   L +  G++   +   E   +   ++ L  +   L   I +  
Sbjct: 4   VGERIRYARKKNNLTIPALSKLTGLSPGNLSDLENNKSMPSSNALIKLKNALNVSIDWL- 62

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
            ++  + S++  EE      +   + L L +   ++ + + R
Sbjct: 63  -LTGEMPSEVKEEEEKYS--VDKSEDL-LLKAIKELPEERKR 100


>gi|306827184|ref|ZP_07460474.1| XRE family transcriptional regulator [Streptococcus pyogenes ATCC
           10782]
 gi|304430640|gb|EFM33659.1| XRE family transcriptional regulator [Streptococcus pyogenes ATCC
           10782]
          Length = 245

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 21/125 (16%), Positives = 53/125 (42%), Gaps = 11/125 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I+  R    M+Q++L +  G     +  +E G  ++    ++  ++ L+      F
Sbjct: 4   LGNSIKEIRKSKKMTQKELAKLTGFKQNTISNHENGNRQLDEVDIRKYAKALKIEPQQLF 63

Query: 75  DVSPTVCS-DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           D S +  +  +    + +    ST   L+ +R   QI        +++   +++  +K+ 
Sbjct: 64  DYSSSPTNPQVELIPSTLQKINSTSSQLEHSR---QI-------IVLDTAETLLEQQKEI 113

Query: 134 RTIEE 138
           +  E+
Sbjct: 114 KNNED 118


>gi|295101684|emb|CBK99229.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii L2-6]
          Length = 255

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 30/56 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G  +   R   GM+Q++L   L ++ + V K+E+G++    S L  ++E L   ++
Sbjct: 10 GHFLAQLRREKGMTQKELAATLYVSDKAVSKWERGLSVPDISLLVPLAEQLNVTVA 65


>gi|262044546|ref|ZP_06017602.1| xre family toxin-antitoxin system [Klebsiella pneumoniae subsp.
          rhinoscleromatis ATCC 13884]
 gi|259038090|gb|EEW39305.1| xre family toxin-antitoxin system [Klebsiella pneumoniae subsp.
          rhinoscleromatis ATCC 13884]
          Length = 193

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 29/65 (44%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + ++  +  RIR+ R   G S   L E  G +   + K E+G +   AS L  +S   
Sbjct: 4  IEDNLNQRISARIRIERESRGWSLNDLAELAGASRAMIHKIERGESSPTASMLGRLSGAF 63

Query: 67 ESPIS 71
             +S
Sbjct: 64 GISMS 68


>gi|257056813|ref|YP_003134645.1| putative transcriptional regulator [Saccharomonospora viridis DSM
          43017]
 gi|256586685|gb|ACU97818.1| predicted transcriptional regulator [Saccharomonospora viridis
          DSM 43017]
          Length = 475

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 23/58 (39%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R+R  R    MSQ +L   L I+   + + E     +    L  I+E       FF
Sbjct: 7  GARLRHLRESRSMSQAELARLLEISPSYLNQIEHNTRPLTVPVLLRITEAFGVDAEFF 64


>gi|251778140|ref|ZP_04821060.1| transcriptional regulator, XRE family [Clostridium botulinum E1
          str. 'BoNT E Beluga']
 gi|243082455|gb|EES48345.1| transcriptional regulator, XRE family [Clostridium botulinum E1
          str. 'BoNT E Beluga']
          Length = 113

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 29/65 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R+   ++QE+ G+   +    V +YE G +R      + I+      + +  
Sbjct: 6  LGNRIKTLRLESKLTQEEFGKPYALKKSTVSQYESGSSRPDDELKKRIALDYNVSLDWLM 65

Query: 75 DVSPT 79
           ++  
Sbjct: 66 GLTDA 70


>gi|228949735|ref|ZP_04111960.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|228809949|gb|EEM56345.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
          Length = 142

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G RI+  R    ++Q++L E +G++ + +  YE          L  +++       + 
Sbjct: 2  IGVRIKSLRKKENLTQKQLAEKIGVSQRMIGYYESEERFPPHDVLTKLADCFSISADYL 60


>gi|229060102|ref|ZP_04197472.1| Transcriptional regulator,Cro/CI [Bacillus cereus AH603]
 gi|228719142|gb|EEL70752.1| Transcriptional regulator,Cro/CI [Bacillus cereus AH603]
          Length = 66

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 25/59 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           RI + R   G +Q+ LGE +G + Q +   E+            I++    P+   F+
Sbjct: 4  NRIVVCRAEKGWTQQDLGERVGASRQTIASMERNKYNPSLILAFKIAKAFGKPLEEVFE 62


>gi|166033316|ref|ZP_02236145.1| hypothetical protein DORFOR_03042 [Dorea formicigenerans ATCC
          27755]
 gi|166027673|gb|EDR46430.1| hypothetical protein DORFOR_03042 [Dorea formicigenerans ATCC
          27755]
          Length = 260

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +   R    ++Q+ L E L ++ + V K+E+G++      L  I+++L+  ++
Sbjct: 20 VTELRKKKNLTQKDLAEKLYVSDKTVSKWERGLSMPNVVLLIPIADILDVTVT 72


>gi|15801392|ref|NP_287409.1| hypothetical protein Z1932 [Escherichia coli O157:H7 EDL933]
 gi|12514864|gb|AAG56021.1|AE005334_8 orf; hypothetical protein [Escherichia coli O157:H7 str. EDL933]
          Length = 111

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 4  NKKIPNPV-DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          +K+  N + D ++ + +   R    ++  +L +  G++   + K E+G +   A+ L  +
Sbjct: 8  DKRAKNQIVDSDIARLLLKLRKSRNLTVTELAQRSGVSQAMISKVERGTSSPSATILSRL 67

Query: 63 SEVLESPISFFF 74
          +  L   +S  F
Sbjct: 68 ANALNITLSKLF 79


>gi|269216324|ref|ZP_06160178.1| DNA-binding protein [Slackia exigua ATCC 700122]
 gi|269130583|gb|EEZ61661.1| DNA-binding protein [Slackia exigua ATCC 700122]
          Length = 198

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 11/72 (15%), Positives = 26/72 (36%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I+  R    +SQ+ L   + ++ Q +  +E          L  +S   +  +       
Sbjct: 6  QIKRLRSENDLSQDDLASRIYVSRQTISNWENDKTYPDVQSLLLLSATFDVSVDSLIKGD 65

Query: 78 PTVCSDISSEEN 89
           T   +I   ++
Sbjct: 66 VTAMEEIIGNKD 77


>gi|253681078|ref|ZP_04861881.1| DNA-binding protein [Clostridium botulinum D str. 1873]
 gi|253562927|gb|EES92373.1| DNA-binding protein [Clostridium botulinum D str. 1873]
          Length = 221

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 44/83 (53%), Gaps = 8/83 (9%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-----ESP 69
          +G +IR  R+   +++++L + +G++ + +++ E G   +  S +  IS+VL     +  
Sbjct: 4  IGSKIREARLKSNITEKQLAKKIGVSEKFIKEVESGKKVINESVMGKISKVLGKDLNDVT 63

Query: 70 ISF---FFDVSPTVCSDISSEEN 89
          +SF   F++   +  ++  + E 
Sbjct: 64 MSFEAEFYEEEKSQNTNKKTVET 86


>gi|126172576|ref|YP_001048725.1| XRE family transcriptional regulator [Shewanella baltica OS155]
 gi|125995781|gb|ABN59856.1| transcriptional regulator, XRE family [Shewanella baltica OS155]
          Length = 191

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/91 (15%), Positives = 37/91 (40%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +   ++  R   G S +K  +  G++   + + E+G +    + L  I+      +
Sbjct: 4   INSYLATTLKALRNQKGWSLDKAAQETGVSKAMIGQIERGESSPTIATLWKIASGFNFSL 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGL 101
           S F + +P     +  + + +    +T   L
Sbjct: 64  STFLEPTPQSQGAVFRKPDELRQQPATDGML 94


>gi|329732814|gb|EGG69161.1| DNA-binding helix-turn-helix protein [Staphylococcus aureus
          subsp. aureus 21193]
          Length = 77

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 25/59 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I+ +R + G SQE+    L ++ Q V K+E   N      L  +S++    +       
Sbjct: 7  IKEQRELKGWSQEESANILKVSRQSVSKWESAKNYPSLDILIAMSDLFGITLDHLIKGD 65


>gi|319652442|ref|ZP_08006558.1| hypothetical protein HMPREF1013_03171 [Bacillus sp. 2_A_57_CT2]
 gi|317395904|gb|EFV76626.1| hypothetical protein HMPREF1013_03171 [Bacillus sp. 2_A_57_CT2]
          Length = 181

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 33/66 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K+I+  R+  G + ++L E   ++   + + E+G   +  + L+ I++ L   IS FF+ 
Sbjct: 6  KKIKDLRLQKGYTLKELSERTELSISFLSQVERGATSLAITSLKKIADALNVKISEFFED 65

Query: 77 SPTVCS 82
               +
Sbjct: 66 ETPNQN 71


>gi|317499138|ref|ZP_07957415.1| helix-turn-helix domain-containing protein [Lachnospiraceae
           bacterium 5_1_63FAA]
 gi|316893551|gb|EFV15756.1| helix-turn-helix domain-containing protein [Lachnospiraceae
           bacterium 5_1_63FAA]
          Length = 98

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 36/89 (40%), Gaps = 8/89 (8%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           ++  R   G +QE++ + L +T   +   E    ++    L + +++L   I +      
Sbjct: 1   MKTLRKQAGYTQEQIADALDVTVAFISNIENDRVKMNLRVLSYYAKLLNVSIDYLL---- 56

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYF 107
                  S+EN   D +   + L+L   F
Sbjct: 57  ----RPESDENGEKDDVLNKEILRLLEKF 81


>gi|309778346|ref|ZP_07673272.1| putative transcriptional regulator [Erysipelotrichaceae bacterium
           3_1_53]
 gi|308913912|gb|EFP59726.1| putative transcriptional regulator [Erysipelotrichaceae bacterium
           3_1_53]
          Length = 115

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 25/120 (20%), Positives = 55/120 (45%), Gaps = 14/120 (11%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
             + +DI     I  +  ++ ++Q +L + +G++ + +  Y   ++      L  I +V 
Sbjct: 4   KKDFIDI-----IASKMEMMNITQTELAKKVGVSRRSMSSYMCKISEPSLETLARICKVC 58

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           E   ++ F         I + E  + D     D +QL + + ++DDV+ + K IE+  S+
Sbjct: 59  ELDFNYIF--------GIIANEECISDLFLKQDEMQLVKLYRELDDVQ-KNKFIEVAESL 109


>gi|306846135|ref|ZP_07478697.1| XRE family transcriptional regulator [Brucella sp. BO1]
 gi|306273386|gb|EFM55247.1| XRE family transcriptional regulator [Brucella sp. BO1]
          Length = 182

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 36/84 (42%), Gaps = 4/84 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I++G R+R  RM   +SQ +L +  G+T   +   E   +      L+ I +    PI  
Sbjct: 3  IDIGGRLRYVRMRQNLSQRELAKRAGVTNSTISLIEANQSNPSVGALKRILD--GIPIGM 60

Query: 73 --FFDVSPTVCSDISSEENNVMDF 94
            FF + P     +  +   +++ 
Sbjct: 61 AEFFALEPDAPHRVFYQAEELVEI 84


>gi|300854943|ref|YP_003779927.1| putative transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
 gi|300435058|gb|ADK14825.1| predicted transcriptional regulator [Clostridium ljungdahlii DSM
          13528]
          Length = 64

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            I++ R  LG+ QE +   L +T Q +   E             ++++L + +   F
Sbjct: 3  NNIKVLRKQLGLRQEDVANALNVTRQTINAIENSKYNPTLELAMRLAKLLNTTVDELF 60


>gi|229109238|ref|ZP_04238837.1| Transcriptional regulator, Xre [Bacillus cereus Rock1-15]
 gi|228674248|gb|EEL29493.1| Transcriptional regulator, Xre [Bacillus cereus Rock1-15]
          Length = 404

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q  L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTALAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDEGEIVEL 72


>gi|300776142|ref|ZP_07086001.1| regulatory protein [Chryseobacterium gleum ATCC 35910]
 gi|300505275|gb|EFK36414.1| regulatory protein [Chryseobacterium gleum ATCC 35910]
          Length = 130

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/95 (15%), Positives = 37/95 (38%), Gaps = 1/95 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++RL R   G +Q+++ + +        + E G  R+       ++  L+ PI   ++ 
Sbjct: 4   EKLRLIRKQKGYTQQQVADFIATDVSNYSRKESGDVRIIRDEWDKLARFLDVPIEDIYEE 63

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                  I+++     D  S+   +     +  I 
Sbjct: 64  DEPAVI-INNDHPVFNDRSSSAGVITNQNNYDNIP 97


>gi|255602033|ref|XP_002537801.1| conserved hypothetical protein [Ricinus communis]
 gi|223515025|gb|EEF24581.1| conserved hypothetical protein [Ricinus communis]
          Length = 137

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 29/70 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ IR  R+ L  +Q       GIT Q +   E G   V    L  I +VL  P+S   
Sbjct: 7  IGQVIRTERLNLKQTQASFAALCGITPQYLSLLELGDVNVSLDTLLMICKVLNKPLSVLM 66

Query: 75 DVSPTVCSDI 84
            +  +   I
Sbjct: 67 ATAEDLAKGI 76


>gi|210614628|ref|ZP_03290239.1| hypothetical protein CLONEX_02453 [Clostridium nexile DSM 1787]
 gi|210150618|gb|EEA81627.1| hypothetical protein CLONEX_02453 [Clostridium nexile DSM 1787]
          Length = 118

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 32/59 (54%), Gaps = 2/59 (3%)

Query: 10 PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          P+D    +G+++R  R    ++Q++L +   ++ +Q+   EKG        L+ +++VL
Sbjct: 2  PIDDLTALGQKMREARKKKDLTQQELADLSHVSVKQIASIEKGQINPSYLILKALAKVL 60


>gi|169351502|ref|ZP_02868440.1| hypothetical protein CLOSPI_02282 [Clostridium spiroforme DSM
          1552]
 gi|169291724|gb|EDS73857.1| hypothetical protein CLOSPI_02282 [Clostridium spiroforme DSM
          1552]
          Length = 73

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 34/67 (50%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +++  G+R++  R+   +SQE+L    G++   +   E+G   +    ++ I++ L  
Sbjct: 5  DKIEMRFGQRVKELRLKQNISQEELAFRCGLSKNYISDVERGTRNISLKSIEKIADGLAI 64

Query: 69 PISFFFD 75
           I   F+
Sbjct: 65 RIKELFE 71


>gi|154686724|ref|YP_001421885.1| SinR [Bacillus amyloliquefaciens FZB42]
 gi|154352575|gb|ABS74654.1| SinR [Bacillus amyloliquefaciens FZB42]
          Length = 113

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+RI+  R   G S  +L E  G+    +   E+ +        L+ +S VL+  +   
Sbjct: 4  IGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 63

Query: 74 FDVSPTVCSDISSEEN 89
           D       D   +  
Sbjct: 64 LDEKHETEYDGQLDSE 79


>gi|325972297|ref|YP_004248488.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
 gi|324027535|gb|ADY14294.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
          Length = 111

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/93 (18%), Positives = 43/93 (46%), Gaps = 4/93 (4%)

Query: 11 VD-INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D + +G R++  R   G+ Q+ + + LG+    + ++E G   + ++ L+ ++ +   P
Sbjct: 3  IDNVAIGNRLKELRKQSGLMQKHIADYLGVDQSLIARFENGDRAMTSATLEKLAMLYCCP 62

Query: 70 ISFFFDVSPTVCS---DISSEENNVMDFISTPD 99
           S      P   S      ++  ++ D +S  +
Sbjct: 63 ASKILSGEPCNTSLKFSFRTDNASMKDLVSLAE 95


>gi|312602253|ref|YP_004022098.1| transcriptional regulatory protein [Burkholderia rhizoxinica HKI
           454]
 gi|312169567|emb|CBW76579.1| Transcriptional regulatory protein [Burkholderia rhizoxinica HKI
           454]
          Length = 320

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 44/107 (41%), Gaps = 10/107 (9%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ I+  L  
Sbjct: 35  DPFLTAMGERVRLLRARRGMTRKSLAAETGLSERHLANLESGVGNASVLVLRQIALALNC 94

Query: 69  PISFFFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRYFIQIDD 112
           P++        V  D ++       +   +   D   L R  + + D
Sbjct: 95  PLA-------EVIGDETTSSAEWLLIRQLLHGRDPASLQRARMALAD 134


>gi|311279020|ref|YP_003941251.1| Cupin 2 conserved barrel domain-containing protein [Enterobacter
          cloacae SCF1]
 gi|308748215|gb|ADO47967.1| Cupin 2 conserved barrel domain protein [Enterobacter cloacae
          SCF1]
          Length = 185

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 35/80 (43%), Gaps = 1/80 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R  LG+SQ +  E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSEIRQQLGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFA 68

Query: 75 DVSPTVCSDISSEENNVMDF 94
          +        +   ++ +++ 
Sbjct: 69 EPEKPDEPQVVINQDELIEI 88


>gi|238061301|ref|ZP_04606010.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
          39149]
 gi|237883112|gb|EEP71940.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
          39149]
          Length = 481

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 5/69 (7%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   K +P+     VG  IR  R    +S  +L E  G++   + + E+G+ +  A  LQ
Sbjct: 1  MATPKDLPD-----VGGFIRDLRRNAKISLRQLAEQAGVSNPYLSQIERGLRKPSAEVLQ 55

Query: 61 HISEVLESP 69
           ++  L   
Sbjct: 56 QLASALRVS 64


>gi|217967677|ref|YP_002353183.1| XRE family transcriptional regulator [Dictyoglomus turgidum DSM
          6724]
 gi|217336776|gb|ACK42569.1| transcriptional regulator, XRE family [Dictyoglomus turgidum DSM
          6724]
          Length = 110

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 33/59 (55%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R   G+++++L   +G++   + +YE+       + L+ ISEVL+  I + 
Sbjct: 10 ISERLKEVREKRGLTKKELALKIGVSPSTITRYEEEGRVPKLTILKRISEVLDVSIDYL 68


>gi|207721990|ref|YP_002252428.1| hypothetical protein RSMK02307 [Ralstonia solanacearum MolK2]
 gi|206587163|emb|CAQ17747.1| hypothetical protein RSMK02307 [Ralstonia solanacearum MolK2]
          Length = 209

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 13/67 (19%), Positives = 28/67 (41%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+  + +R+R  R   G + + L    G++   +   E+G     A+ L  ++  L   +
Sbjct: 16 VNERIARRVRELRAARGYTLDALAARCGVSRSMISLIERGAASPTAAVLDKLAAGLGISL 75

Query: 71 SFFFDVS 77
          +  F   
Sbjct: 76 ASLFGGE 82


>gi|190574387|ref|YP_001972232.1| putative transcriptional repressor protein [Stenotrophomonas
          maltophilia K279a]
 gi|190012309|emb|CAQ45935.1| putative transcriptional repressor protein [Stenotrophomonas
          maltophilia K279a]
          Length = 108

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 33/62 (53%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLG----ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R+  G+SQ++LG   G    +   ++ +YE+G +       + +++ L  P +F
Sbjct: 13 RRLKQARLHTGLSQKELGIRAGLDPHVASPRINQYERGKHEPMLEIAERLAQALGIPAAF 72

Query: 73 FF 74
           +
Sbjct: 73 LY 74


>gi|170719389|ref|YP_001747077.1| XRE family transcriptional regulator [Pseudomonas putida W619]
 gi|169757392|gb|ACA70708.1| transcriptional regulator, XRE family [Pseudomonas putida W619]
          Length = 182

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 44/96 (45%), Gaps = 6/96 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+ +      P+S 
Sbjct: 1   MDVGERLQAIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLRKVLS--GIPMSM 58

Query: 73  --FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
             FF  ++     + I  + + ++D       ++L 
Sbjct: 59  VEFFSVELEAESHAQIVYKAHELIDISDGAVTMKLV 94


>gi|24378683|ref|NP_720638.1| putative transcriptional regulator [Streptococcus mutans UA159]
 gi|290579667|ref|YP_003484059.1| putative transcriptional regulator [Streptococcus mutans NN2025]
 gi|24376546|gb|AAN57944.1|AE014868_6 putative transcriptional regulator [Streptococcus mutans UA159]
 gi|254996566|dbj|BAH87167.1| putative transcriptional regulator [Streptococcus mutans NN2025]
          Length = 64

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R    +SQ+ L + +G++ Q +   EKG      +    I + L+  +   F
Sbjct: 5  RLKAARAGKDLSQQALADLVGVSRQTIAAVEKGDYNPTINLCIKICKALDKSLDELF 61


>gi|330832565|ref|YP_004401390.1| nucleotide sugar dehydrogenase [Streptococcus suis ST3]
 gi|329306788|gb|AEB81204.1| nucleotide sugar dehydrogenase [Streptococcus suis ST3]
          Length = 496

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 28/56 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I  +R  LG SQ++L +  GI    + K E+G       +L  +S VL+  I+  F
Sbjct: 15 IFSKRKELGYSQQELSDLTGINRAMISKLEQGEYLPSIPQLLSLSNVLDFEINSLF 70


>gi|325282527|ref|YP_004255068.1| transcriptional regulator, XRE family [Deinococcus proteolyticus
          MRP]
 gi|324314336|gb|ADY25451.1| transcriptional regulator, XRE family [Deinococcus proteolyticus
          MRP]
          Length = 67

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 24/65 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI++ R   G++Q +L + L ++ Q V   E G           ++ +    I   F  
Sbjct: 3  NRIKVLRAEHGLTQAELADRLDVSRQTVNALETGKYDPSLPLAFRLARLFGLRIEDIFQD 62

Query: 77 SPTVC 81
               
Sbjct: 63 EEAGG 67


>gi|294809717|ref|ZP_06768405.1| DNA-binding protein [Bacteroides xylanisolvens SD CC 1b]
 gi|294443092|gb|EFG11871.1| DNA-binding protein [Bacteroides xylanisolvens SD CC 1b]
          Length = 195

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            + K+I+  R    +S E+L +  G+  +Q+++ E  ++    + L  I+ VL   +  
Sbjct: 9  RLLAKKIKALREDKSISIEELAQRSGLAIEQIERIENNIDIPSLAPLIKIARVLGVRLGT 68

Query: 73 FFDVSPTVCS 82
          F D    V  
Sbjct: 69 FLDDQDEVGP 78


>gi|239627867|ref|ZP_04670898.1| conserved hypothetical protein [Clostridiales bacterium
          1_7_47_FAA]
 gi|239518013|gb|EEQ57879.1| conserved hypothetical protein [Clostridiales bacterium
          1_7_47FAA]
          Length = 173

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 31/61 (50%), Gaps = 4/61 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI+  R   GM+Q++LGE LG     +  ++ +YE          ++ ++ + + 
Sbjct: 1  MAIGQRIKFFRNRKGMTQKQLGEILGFLGKTSDVRMAQYESEARVPKIDLVKEMAGIFDV 60

Query: 69 P 69
           
Sbjct: 61 S 61


>gi|221234777|ref|YP_002517213.1| MerR family transcriptional regulator [Caulobacter crescentus
           NA1000]
 gi|220963949|gb|ACL95305.1| transcriptional regulator, MerR family [Caulobacter crescentus
           NA1000]
          Length = 480

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 23/133 (17%), Positives = 52/133 (39%), Gaps = 11/133 (8%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   +K  N   + +G R++  R  LG++Q ++ E LG++   +   E+    V A  L 
Sbjct: 1   MATLEKKQNDKKLFLGGRLKRLRRDLGVTQARMAEELGVSASYLNLLERNQRPVTAQILL 60

Query: 61  HISEVLESPISFFFDVSPTVCSDISS--EENNVMDF-ISTPDGLQLNRYFIQIDDVKV-- 115
            +++  +  +       P   + +     +    D  +S  +  ++      I +     
Sbjct: 61  RLADAYDLDLRSLSADDPGGGAGLEEVLADRMFADLAVSRHEAAEVAELSPGIAEAMSRL 120

Query: 116 ------RQKIIEL 122
                 R ++I+L
Sbjct: 121 YRAYLDRGRLIDL 133


>gi|182625431|ref|ZP_02953203.1| LexA repressor [Clostridium perfringens D str. JGS1721]
 gi|177909271|gb|EDT71729.1| LexA repressor [Clostridium perfringens D str. JGS1721]
          Length = 358

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 21/125 (16%), Positives = 49/125 (39%), Gaps = 4/125 (3%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV- 76
            I+  R    +SQ +L E LG+    +  YE+         L  +S+++   I     + 
Sbjct: 12  NIKEFRKKNKLSQAELAEKLGVARTTIGYYERAEVEPNIYTLIQLSKLMNCSIDSLLGLN 71

Query: 77  -SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                 +D+++ + +   FI      +  + F  ++   +R     + + +  S+K+   
Sbjct: 72  HPNETTNDLNNLDLSKKIFILNKLIEKNTQSFNDLETSNIRNA--RMFKELEMSKKRTER 129

Query: 136 IEEEC 140
           +  E 
Sbjct: 130 MFNEL 134


>gi|171778925|ref|ZP_02919987.1| hypothetical protein STRINF_00848 [Streptococcus infantarius
          subsp. infantarius ATCC BAA-102]
 gi|171282571|gb|EDT47995.1| hypothetical protein STRINF_00848 [Streptococcus infantarius
          subsp. infantarius ATCC BAA-102]
          Length = 65

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 24/57 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R    +SQ +L E LG+T Q +   EKG           I+E     I   F
Sbjct: 4  RIQELRKANKVSQAELAEALGVTRQTIISLEKGRYNASLELAHKIAEYFGMTIEEIF 60


>gi|218897425|ref|YP_002445836.1| transcriptional regulator, XRE family [Bacillus cereus G9842]
 gi|218544646|gb|ACK97040.1| transcriptional regulator, XRE family [Bacillus cereus G9842]
          Length = 292

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|218235687|ref|YP_002367168.1| transcriptional regulator, XRE family [Bacillus cereus B4264]
 gi|218163644|gb|ACK63636.1| transcriptional regulator, XRE family [Bacillus cereus B4264]
          Length = 292

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|167589656|ref|ZP_02382044.1| transcriptional regulator, XRE family protein [Burkholderia
          ubonensis Bu]
          Length = 76

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 25/68 (36%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + G  +R  R     SQE+L E  G+    V + E+G        +  I+   +  IS 
Sbjct: 6  RHFGATVRKLREARTWSQEQLAEHAGLNRSYVGEIERGEAIASLVTVDKIARAFDVSIST 65

Query: 73 FFDVSPTV 80
              +   
Sbjct: 66 LLSGTADA 73


>gi|167462690|ref|ZP_02327779.1| DNA-binding protein [Paenibacillus larvae subsp. larvae
          BRL-230010]
 gi|322384965|ref|ZP_08058621.1| transcriptional regulator-like protein [Paenibacillus larvae
          subsp. larvae B-3650]
 gi|321150262|gb|EFX43769.1| transcriptional regulator-like protein [Paenibacillus larvae
          subsp. larvae B-3650]
          Length = 241

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G RI+  R  L  +Q+++ E  GI+   +   EK       S ++ I+E +   + 
Sbjct: 1  MKIGDRIKNIRKALRYTQKEVAENAGISRMYLSDVEKNRYNPSLSVIEKIAEAMGISVD 59


>gi|160942751|ref|ZP_02089992.1| hypothetical protein FAEPRAM212_00228 [Faecalibacterium prausnitzii
           M21/2]
 gi|158445916|gb|EDP22919.1| hypothetical protein FAEPRAM212_00228 [Faecalibacterium prausnitzii
           M21/2]
          Length = 220

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 23/116 (19%), Positives = 48/116 (41%), Gaps = 9/116 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
              G  +   R   G++Q +L E L +T + V ++E+G+     + L+ +++ L   ++ 
Sbjct: 4   RTFGNYLSRMRKAQGLTQAELAEQLHVTDKAVSRWERGIGLPDINTLEPLADALGLTLAD 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-VKVRQKIIELVRSIV 127
                    +D +     + DF +      L R    I D   VR  ++ L  ++ 
Sbjct: 64  LMHCRAPEEADAAPTI-PLEDFFT-----MLRR--QHIVDWHSVRTALLGLSIALA 111


>gi|86156777|ref|YP_463562.1| XRE family transcriptional regulator [Anaeromyxobacter dehalogenans
           2CP-C]
 gi|85773288|gb|ABC80125.1| transcriptional regulator, XRE family [Anaeromyxobacter
           dehalogenans 2CP-C]
          Length = 277

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 22/112 (19%), Positives = 41/112 (36%), Gaps = 18/112 (16%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  +R  R   G SQ  L    G++ + +   E G +      +  ++EVL  P+    
Sbjct: 13  VGPLLRAWRTARGKSQLALALEAGVSSRHLSYLENGRSTPSREMVLDLAEVLGVPL---- 68

Query: 75  DVSPTVCSDISSEENNVMDFISTP-DGLQLNRYFIQIDDVKVRQKIIELVRS 125
                  + +         F  TP D   L          +VR+ ++ ++ +
Sbjct: 69  ----RERNALLQAAGYAAVFRETPLDAPDLA---------EVRRALLHVLEA 107


>gi|304440189|ref|ZP_07400079.1| DNA-binding protein [Peptoniphilus duerdenii ATCC BAA-1640]
 gi|304371238|gb|EFM24854.1| DNA-binding protein [Peptoniphilus duerdenii ATCC BAA-1640]
          Length = 182

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 35/66 (53%), Gaps = 1/66 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PIS 71
          +++G +++L R+   ++Q++L +   +T   + + E+ +     + L  I E L + PI 
Sbjct: 5  MDIGNKLKLIRISQNLTQDELAKRSELTKGFISQVERNLTSPSVTTLIDILEALGTSPIE 64

Query: 72 FFFDVS 77
          FF D  
Sbjct: 65 FFKDDE 70


>gi|291536677|emb|CBL09789.1| transcriptional regulator, XRE family [Roseburia intestinalis
          M50/1]
          Length = 68

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 24/60 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+  R   G+SQEKL     +    V   E G        L+ I   L+     FF
Sbjct: 6  IGSRIKELRKEKGISQEKLAFSADLDRTYVAGVESGKRNPSVKSLEKILVALDVSFEEFF 65


>gi|271967718|ref|YP_003341914.1| XRE family transcriptional regulator [Streptosporangium roseum
          DSM 43021]
 gi|270510893|gb|ACZ89171.1| putative transcriptional regulator, XRE family [Streptosporangium
          roseum DSM 43021]
          Length = 175

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 27/62 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G  +R  R    +SQ  +   LG T  QV + EK       S  + +  + ++P S 
Sbjct: 14 VLFGTEMRRLREAAELSQVAVASRLGCTQTQVSRLEKATRTPSRSDAERLDRLFKTPSSS 73

Query: 73 FF 74
          FF
Sbjct: 74 FF 75


>gi|229058432|ref|ZP_04196816.1| Transcriptional regulator, Xre [Bacillus cereus AH603]
 gi|228719941|gb|EEL71531.1| Transcriptional regulator, Xre [Bacillus cereus AH603]
          Length = 404

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/70 (20%), Positives = 29/70 (41%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+  L    SF  
Sbjct: 4  LGEKIKALRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKTLQYIANKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDAEIVEL 72


>gi|227873975|ref|ZP_03992191.1| transcriptional regulator [Oribacterium sinus F0268]
 gi|227840183|gb|EEJ50597.1| transcriptional regulator [Oribacterium sinus F0268]
          Length = 67

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R    +SQ++L + +G++ Q +   EKG           I  VL   +   F
Sbjct: 5  RLKSARAGKDLSQQELADLVGVSRQTINAIEKGDYNPTIRLCLAICHVLGKTLDELF 61


>gi|168206983|ref|ZP_02632988.1| LexA repressor [Clostridium perfringens E str. JGS1987]
 gi|170661637|gb|EDT14320.1| LexA repressor [Clostridium perfringens E str. JGS1987]
          Length = 368

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 1/76 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+  R    ++Q++L E L I+   +  YE          L + S +L   I    D S 
Sbjct: 10 IKKYRKDNNLTQQQLAEKLDISRSVLSYYENTNAEPNLYFLYNFSRLLNCTIDELVD-SA 68

Query: 79 TVCSDISSEENNVMDF 94
           +  D S  +    +F
Sbjct: 69 DIFDDFSLSQTPQNEF 84


>gi|160901295|ref|YP_001566877.1| XRE family transcriptional regulator [Delftia acidovorans SPH-1]
 gi|160366879|gb|ABX38492.1| transcriptional regulator, XRE family [Delftia acidovorans SPH-1]
          Length = 470

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 21/120 (17%), Positives = 45/120 (37%), Gaps = 6/120 (5%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G ++R  R   G+SQ  L   LG++   + + E+    +  S L  ++  L   I  F
Sbjct: 5   FMGVKLRKLRAEHGLSQIALAHALGLSPSYLNQLEQNQRPLTVSVLLKLNRALGVDIQQF 64

Query: 74  FDVSPTVCSDISSEE-NNVMDFISTPDGLQLNRYFIQIDDVKV---RQKIIEL--VRSIV 127
            +           E      + I+ P+  ++      +    +   R+ +  L  + S+ 
Sbjct: 65  SEDEEARLVAGLREALAESPESIALPELQEVAAQMPALGRAVMALHRRHLEALERIESMA 124


>gi|146301370|ref|YP_001195961.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
          UW101]
 gi|146155788|gb|ABQ06642.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
          UW101]
          Length = 135

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 26/57 (45%), Gaps = 1/57 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++G++I   R +  M QE L + +G   Q +   E     +   +L  +++ L   +
Sbjct: 9  HMGRKISRIRELKDMKQEALAQAMGTNQQAISIMENSET-IEEEKLIEVAKALGVSV 64


>gi|56961997|ref|YP_173719.1| transcriptional regulator [Bacillus clausii KSM-K16]
 gi|56908231|dbj|BAD62758.1| transcriptional regulator [Bacillus clausii KSM-K16]
          Length = 63

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R  LG++Q +L + + ++ Q +   EK            +++ L   +   F
Sbjct: 3  NRVKQARRDLGLTQGELADKVNVSRQTIGLIEKNHYNPSLKLCIALAKALNKTLDQLF 60


>gi|89070253|ref|ZP_01157577.1| putative aldehyde dehydrogenase protein [Oceanicola granulosus
           HTCC2516]
 gi|89044173|gb|EAR50331.1| putative aldehyde dehydrogenase protein [Oceanicola granulosus
           HTCC2516]
          Length = 187

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 24/122 (19%), Positives = 45/122 (36%), Gaps = 16/122 (13%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
             D  V +R+R+ R   G+SQ +L    G+    + + E    +   + L+ I +    P
Sbjct: 5   SHDQMVAQRLRVVRQSRGLSQRELARRTGVGSGTISQIESMATQPSVAVLKKILD--GVP 62

Query: 70  IS---FF-FDVSPTVCSDISSEENN----------VMDFISTPDGLQLNRYFIQIDDVKV 115
           +    FF F+++         EE+           ++        LQ+   F Q      
Sbjct: 63  MDLATFFSFELALGDAPVFRKEEHVDIGAPGVAYRLVAAQRPNRALQMLHEFYQPGRDSG 122

Query: 116 RQ 117
           R+
Sbjct: 123 RR 124


>gi|332362047|gb|EGJ39849.1| transcriptional regulator [Streptococcus sanguinis SK49]
          Length = 158

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 10/55 (18%), Positives = 24/55 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  I+  R    ++Q +    +GI+   + +YE G++ +    +  I +     
Sbjct: 2  IGDNIKSLRKTNELTQPEFARIVGISRNSLSRYENGISPISTELIDTICQKFNVS 56


>gi|317405899|gb|EFV86181.1| AroK1 protein [Achromobacter xylosoxidans C54]
          Length = 303

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/97 (19%), Positives = 41/97 (42%), Gaps = 10/97 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+R+R  R I GM+++ L +  G++ + +   E GV       L  I++        
Sbjct: 20  VALGERVRRLRAIRGMTRKGLSQVTGVSERHLANLEHGVGNASILVLLQIAKAFNC---- 75

Query: 73  FFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRY 106
                  +  D+++E  +   + + +S      L R 
Sbjct: 76  ---ALAELVGDVTTESPDWLLIRELLSGRTESDLQRA 109


>gi|291294894|ref|YP_003506292.1| XRE family transcriptional regulator [Meiothermus ruber DSM 1279]
 gi|290469853|gb|ADD27272.1| transcriptional regulator, XRE family [Meiothermus ruber DSM 1279]
          Length = 238

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 31/141 (21%), Positives = 54/141 (38%), Gaps = 19/141 (13%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN---RVGASRLQHISEVLESP-IS 71
           G+ ++ RR  LG+S+E L    G++   + K E+G +    V   RL  +   L  P I 
Sbjct: 21  GRLLQTRREKLGLSREALALAAGVSPSLIAKLEQGNHDLRDVSVGRLHALLRTLHLPSID 80

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKI-IELVRS----- 125
           F     PT     S+     + + S+   L L       ++   R      L+ +     
Sbjct: 81  FLLGEGPTEEFTPSAPGITPLPYYSS---LTLA---CAGEEASTRSHFDTRLLPTRPSYT 134

Query: 126 ---IVSSEKKYRTIEEECMVE 143
              +   E+     E+  +VE
Sbjct: 135 NFFLAILEQDVLRSEDLSLVE 155


>gi|257874773|ref|ZP_05654426.1| transcriptional regulator [Enterococcus casseliflavus EC20]
 gi|257808939|gb|EEV37759.1| transcriptional regulator [Enterococcus casseliflavus EC20]
          Length = 112

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 27/109 (24%), Positives = 48/109 (44%), Gaps = 8/109 (7%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+  R+    +Q+++ E +GIT      YE G      S LQ ++++          +  
Sbjct: 6   IKELRLKKNFTQQEIAERIGITRPAYTAYELGKREPDFSTLQALADLFGVSTDQL--LGR 63

Query: 79  TVCSDISSEENNVM-----DFISTPDGLQLNRYFIQ-IDDVKVRQKIIE 121
              SD    EN+V+     D   +P+G+Q    FI  I   + ++K I+
Sbjct: 64  ESSSDPFLSENSVIVASAVDDSISPEGIQEILSFIDYIKSREQKKKTID 112


>gi|300023570|ref|YP_003756181.1| XRE family transcriptional regulator [Hyphomicrobium denitrificans
           ATCC 51888]
 gi|299525391|gb|ADJ23860.1| transcriptional regulator, XRE family [Hyphomicrobium denitrificans
           ATCC 51888]
          Length = 472

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 25/125 (20%), Positives = 49/125 (39%), Gaps = 13/125 (10%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G R++  R   G++Q  L   L ++   + + EK    +    L  I+ V    +  
Sbjct: 4   AFMGVRLKRLREERGLTQVALARALELSPSYLNQIEKNQRPLTVPILLKINSVFGVDVQL 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKIIEL-VRSI 126
           F +              ++ D ++ P GL  +    +I +       V + I+ L  RS 
Sbjct: 64  FSEDEEARL------IADLKDVLADP-GLGEHVALTEIREIAANMPAVGRAIVALQARSR 116

Query: 127 VSSEK 131
            +SE+
Sbjct: 117 QASER 121


>gi|296109709|ref|YP_003616658.1| transcriptional regulator, XRE family [Methanocaldococcus infernus
           ME]
 gi|295434523|gb|ADG13694.1| transcriptional regulator, XRE family [Methanocaldococcus infernus
           ME]
          Length = 307

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 37/86 (43%), Gaps = 6/86 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP----IS 71
           G+ ++  R    +S  +L E +G++ + + KYE             I E L++P    I 
Sbjct: 125 GETLKRVREEKKISVGELAEAVGVSRKTIYKYENYSANPSVDIAIKIEEYLDAPLVRGID 184

Query: 72  FF--FDVSPTVCSDISSEENNVMDFI 95
            F   D    V  +I   +  +++F+
Sbjct: 185 LFEPIDEDIEVNKEIDGLKKEIINFL 210


>gi|229593332|ref|YP_002875451.1| putative DNA-binding protein [Pseudomonas fluorescens SBW25]
 gi|312963834|ref|ZP_07778305.1| transcriptional regulator, XRE family [Pseudomonas fluorescens WH6]
 gi|229365198|emb|CAY53478.1| putative DNA-binding protein [Pseudomonas fluorescens SBW25]
 gi|311281869|gb|EFQ60479.1| transcriptional regulator, XRE family [Pseudomonas fluorescens WH6]
          Length = 182

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 24/97 (24%), Positives = 47/97 (48%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  ++   + + I  + N ++D       ++L 
Sbjct: 58  MVEFFSEEILQEIPTQIVYKANELIDISDGAVTMKLV 94


>gi|229160085|ref|ZP_04288087.1| Transcriptional regulator, Xre [Bacillus cereus R309803]
 gi|228623396|gb|EEK80220.1| Transcriptional regulator, Xre [Bacillus cereus R309803]
          Length = 293

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R+   +SQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGITIKELRIKKNISQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSEKLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|225390253|ref|ZP_03759977.1| hypothetical protein CLOSTASPAR_04004 [Clostridium asparagiforme
          DSM 15981]
 gi|225043678|gb|EEG53924.1| hypothetical protein CLOSTASPAR_04004 [Clostridium asparagiforme
          DSM 15981]
          Length = 195

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 29/61 (47%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + ++  V K I+  R    +S ++L +  G++   + + E+G      S L  IS  ++ 
Sbjct: 14 DQMNQIVAKNIKRLREERKLSMDELSKLSGVSKSMLAQIERGGGNPTISTLWKISNGMKV 73

Query: 69 P 69
          P
Sbjct: 74 P 74


>gi|153931878|ref|YP_001384723.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|153935604|ref|YP_001388244.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|170757150|ref|YP_001782087.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
 gi|152927922|gb|ABS33422.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|152931518|gb|ABS37017.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|169122362|gb|ACA46198.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
          Length = 82

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 26/56 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    ++Q+++ + L IT   V  YE G+     S L  I++     + + 
Sbjct: 6  RLKGLREDRDLTQDQIADILKITRSAVANYENGIREPDISLLVKIADYFNISLDYL 61


>gi|153803053|ref|ZP_01957639.1| conserved domain protein [Vibrio cholerae MZO-3]
 gi|124121411|gb|EAY40154.1| conserved domain protein [Vibrio cholerae MZO-3]
          Length = 69

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/55 (32%), Positives = 26/55 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VGKRI   R   G++Q+KL     I    V + E+G   +   +L  I+E L   
Sbjct: 9  VGKRIAKMRKSKGLTQDKLALFAEIDRSYVGRIERGEVNLTVEKLYEIAETLGCD 63


>gi|118445241|ref|YP_891175.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|118419802|gb|ABK88220.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
          Length = 115

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 27/55 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VG+ I+  R    ++QE+L E  G++  Q++ +E   +      L+ ++    + 
Sbjct: 5  VGQNIKNLRKSFDLTQEQLSERTGLSRGQIKNWETDRHEPDLESLKILASFFNTS 59


>gi|29347394|ref|NP_810897.1| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482]
 gi|298385147|ref|ZP_06994706.1| hypothetical protein HMPREF9007_01800 [Bacteroides sp. 1_1_14]
 gi|29339294|gb|AAO77091.1| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482]
 gi|298262291|gb|EFI05156.1| hypothetical protein HMPREF9007_01800 [Bacteroides sp. 1_1_14]
          Length = 73

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 27/65 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I++ R +  +SQE+L   +G+T + +   E G           I+     P+   F +
Sbjct: 8  NKIKVYRAMKNISQEELAVAIGVTRKTINTVETGKFIPSTVLALRIARYFGVPVEEIFVL 67

Query: 77 SPTVC 81
          +    
Sbjct: 68 NDEAS 72


>gi|15897213|ref|NP_341818.1| multiprotein Bridging factor (MBP-like), putative (MBP-like)
           [Sulfolobus solfataricus P2]
 gi|284174459|ref|ZP_06388428.1| multiprotein Bridging factor (MBP-like), putative (MBP-like)
           [Sulfolobus solfataricus 98/2]
 gi|13813408|gb|AAK40608.1| Multiprotein Bridging Factor (MBP-like), putative (MBP-like)
           [Sulfolobus solfataricus P2]
 gi|261601881|gb|ACX91484.1| transcriptional regulator, XRE family [Sulfolobus solfataricus
           98/2]
          Length = 165

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/82 (18%), Positives = 39/82 (47%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+  R  LG+SQ++L + L ++   V+++E G  +   S+ + + ++L   +    + + 
Sbjct: 82  IKTAREQLGISQQQLAQKLKVSENIVKRFESGKLKPTISQARQLEKILGIKLVTPLENNE 141

Query: 79  TVCSDISSEENNVMDFISTPDG 100
               +       + D ++  +G
Sbjct: 142 ESEKEFDDTGLTLGDVVNIKEG 163


>gi|84499939|ref|ZP_00998205.1| DNA-binding protein, putative [Oceanicola batsensis HTCC2597]
 gi|84391873|gb|EAQ04141.1| DNA-binding protein, putative [Oceanicola batsensis HTCC2597]
          Length = 211

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/134 (13%), Positives = 52/134 (38%), Gaps = 8/134 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+++R  R   G++ +++ +  G+    + K E          L  ++  L+  +S   +
Sbjct: 18  GQKVRTLRRGKGLTLQQVADRAGMAGSTISKIENSNLSPTFDGLLKLARGLDVDLSTLLE 77

Query: 76  VSPTVCSDISSEENNVMDFI--STPDGLQLNRYFIQIDDVKVRQKIIE----LVRS--IV 127
                 +   +     +D    ++        Y  +   + ++QK+I+    +V++  + 
Sbjct: 78  GEGGATATSPAPSIGRLDVTRAASRGAHDAATYIYEPLAMGLKQKLIDATYVVVKARDVA 137

Query: 128 SSEKKYRTIEEECM 141
             ++      EE +
Sbjct: 138 EFDQLVSHPGEELI 151


>gi|332638795|ref|ZP_08417658.1| transcription regulator [Weissella cibaria KACC 11862]
          Length = 113

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 36/78 (46%), Gaps = 2/78 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + V +RI+      GMS +++ +  G++   + +Y+       A  LQ +++VL   + +
Sbjct: 1  MTVYERIKEISKTRGMSLQQVAKSAGLSQNMIYQYKN--VNPKAETLQTLADVLGVSVDY 58

Query: 73 FFDVSPTVCSDISSEENN 90
              S  +     ++E +
Sbjct: 59 LLGNSDNMHPVDKTDERD 76


>gi|332291093|ref|YP_004429702.1| helix-turn-helix domain protein [Krokinobacter diaphorus 4H-3-7-5]
 gi|332169179|gb|AEE18434.1| helix-turn-helix domain protein [Krokinobacter diaphorus 4H-3-7-5]
          Length = 251

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 21/98 (21%), Positives = 36/98 (36%), Gaps = 5/98 (5%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
             GK IR  R +  +SQ+   E   +    +  YE+G +      +  I+     PI   
Sbjct: 3   FFGKNIRKIRTVKTLSQQSFAELFDLKRGTLGAYEEGRSEPKIDTIIKIANYFSIPIDDL 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                TV S +  + N     ++T   +   + F  I 
Sbjct: 63  LTKELTVNSLLKFKAN-----LTTDHDIITKQAFASIP 95


>gi|329896588|ref|ZP_08271619.1| repressor protein, putative (yorfE) [gamma proteobacterium
          IMCC3088]
 gi|328921695|gb|EGG29069.1| repressor protein, putative (yorfE) [gamma proteobacterium
          IMCC3088]
          Length = 68

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/66 (18%), Positives = 30/66 (45%), Gaps = 1/66 (1%)

Query: 13 INVGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +  +++L R++ G ++Q  L E +G++ Q +   EKG  +        ++      + 
Sbjct: 1  MAITNKVKLHRVMCGDITQAYLAEAIGVSRQTIIAIEKGTYKPSLEVALKMAAHFGVKVE 60

Query: 72 FFFDVS 77
            F + 
Sbjct: 61 DVFQLD 66


>gi|259907780|ref|YP_002648136.1| Putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
 gi|259909771|ref|YP_002650127.1| putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
 gi|259909778|ref|YP_002650134.1| putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
 gi|224963402|emb|CAX54890.1| Putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
 gi|224965393|emb|CAX56925.1| putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
 gi|224965400|emb|CAX56932.1| putative phage regulatory protein [Erwinia pyrifoliae Ep1/96]
 gi|283477642|emb|CAY73558.1| HTH-type transcriptional regulator immR [Erwinia pyrifoliae DSM
           12163]
          Length = 132

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 23/112 (20%), Positives = 44/112 (39%), Gaps = 8/112 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-FF 74
           GKR+   R    ++Q +L   L I  + + ++E+G  +     +  +++ LE    +   
Sbjct: 17  GKRLAALRKERQLTQIELANLLDIQPRMLGRWEQGQVKPQFDYIIKLAQFLEVSTDYMLL 76

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL-----QLNRYF--IQIDDVKVRQKI 119
               T       +   + +     DGL      +  +F  + I   KVRQ I
Sbjct: 77  GEEDTAAPVFDIKNKRLKELCKQVDGLKTEDQDMICHFLDMAITQEKVRQAI 128


>gi|222102333|ref|YP_002546474.1| helix turn helix transcriptional regulator [Agrobacterium vitis S4]
 gi|221739577|gb|ACM40279.1| helix turn helix transcriptional regulator [Agrobacterium vitis S4]
          Length = 160

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 37/77 (48%), Gaps = 1/77 (1%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFFFDVS 77
           +R  R    +++E+    +G++     +YE+  +R+  +R+ H+ E+L   PI   F  +
Sbjct: 51  LRRAREDEKLTREEFASMVGLSTAVYGRYERAFSRMTVTRMIHLCELLGFQPIDMLFAAA 110

Query: 78  PTVCSDISSEENNVMDF 94
           P +      E  + ++ 
Sbjct: 111 PHLYGRTPEEAKDHLEL 127


>gi|213691431|ref|YP_002322017.1| helix-turn-helix domain protein [Bifidobacterium longum subsp.
          infantis ATCC 15697]
 gi|213522892|gb|ACJ51639.1| helix-turn-helix domain protein [Bifidobacterium longum subsp.
          infantis ATCC 15697]
 gi|320457502|dbj|BAJ68123.1| hypothetical protein BLIJ_0529 [Bifidobacterium longum subsp.
          infantis ATCC 15697]
          Length = 401

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 33/61 (54%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI L R + G++Q++L    G++  ++ K + G+     S    +S  L+ PIS+F + 
Sbjct: 20 ERIALARRLEGVTQKELSTRSGLSQAKLSKLQNGIISFNESDAVKLSGALDYPISYFEES 79

Query: 77 S 77
           
Sbjct: 80 G 80


>gi|152969575|ref|YP_001334684.1| DNA-binding transcriptional repressor PuuR [Klebsiella pneumoniae
          subsp. pneumoniae MGH 78578]
 gi|206580692|ref|YP_002239362.1| transcriptional regulator PuuR [Klebsiella pneumoniae 342]
 gi|238894056|ref|YP_002918790.1| DNA-binding transcriptional repressor PuuR [Klebsiella pneumoniae
          NTUH-K2044]
 gi|262043620|ref|ZP_06016729.1| conserved hypothetical protein [Klebsiella pneumoniae subsp.
          rhinoscleromatis ATCC 13884]
 gi|288936213|ref|YP_003440272.1| XRE family transcriptional regulator [Klebsiella variicola At-22]
 gi|290510732|ref|ZP_06550102.1| DNA-binding transcriptional repressor PuuR [Klebsiella sp.
          1_1_55]
 gi|330010156|ref|ZP_08306698.1| HTH-type transcriptional regulator PuuR [Klebsiella sp. MS 92-3]
 gi|150954424|gb|ABR76454.1| putative oxidoreductase/putative regulator [Klebsiella pneumoniae
          subsp. pneumoniae MGH 78578]
 gi|206569750|gb|ACI11526.1| transcriptional regulator PuuR [Klebsiella pneumoniae 342]
 gi|238546372|dbj|BAH62723.1| putative oxidoreductase/putative regulator [Klebsiella pneumoniae
          subsp. pneumoniae NTUH-K2044]
 gi|259038958|gb|EEW40120.1| conserved hypothetical protein [Klebsiella pneumoniae subsp.
          rhinoscleromatis ATCC 13884]
 gi|288890922|gb|ADC59240.1| transcriptional regulator, XRE family [Klebsiella variicola
          At-22]
 gi|289777448|gb|EFD85446.1| DNA-binding transcriptional repressor PuuR [Klebsiella sp.
          1_1_55]
 gi|328534622|gb|EGF61198.1| HTH-type transcriptional regulator PuuR [Klebsiella sp. MS 92-3]
          Length = 185

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 1/79 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R  LG+SQ +  E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSEIRQQLGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFS 68

Query: 75 DVSPTVCSDISSEENNVMD 93
          +        +   ++++++
Sbjct: 69 EPEKPDEPQVVINQDDLIE 87


>gi|119946193|ref|YP_943873.1| DNA-binding transcriptional regulator [Psychromonas ingrahamii
          37]
 gi|119864797|gb|ABM04274.1| predicted DNA-binding transcriptional regulator, helix-turn-helix
          domain [Psychromonas ingrahamii 37]
          Length = 87

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 29/53 (54%), Gaps = 4/53 (7%)

Query: 26 LGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + +SQ+ LG  +GI       ++  YE G +      L+ +++ L+ P+++FF
Sbjct: 1  MKISQKDLGIKIGIDPSSASGRMNHYETGRHMPDLDTLKKLAKELDVPVNYFF 53


>gi|57234657|ref|YP_181292.1| DNA-binding protein [Dehalococcoides ethenogenes 195]
 gi|57225105|gb|AAW40162.1| DNA-binding protein [Dehalococcoides ethenogenes 195]
          Length = 67

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R    ++Q +L E +G++ Q +   EKG           +++ L + I   F
Sbjct: 6  RIKELRARYNLTQAELAETVGVSRQTMLYLEKGTYNPSLILAHKVAKALHADIDDVF 62


>gi|2897106|gb|AAC03457.1| repressor [Streptococcus phage TP-J34]
          Length = 121

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 40/83 (48%), Gaps = 5/83 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G RI   R   G+SQ +L + LG  +   + K+E G +    +++  +++ L +   +  
Sbjct: 8  GSRIESLRASKGISQLELAKMLGYKSDSTISKWESGASIPTGTKIVKLAQALGTTTDYIL 67

Query: 75 DVSPTVCSD----ISSEENNVMD 93
              +  +D    IS++ + +++
Sbjct: 68 FGDNSENNDGQQIISTDIDEIIE 90


>gi|72163432|ref|YP_291089.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Thermobifida fusca YX]
 gi|71917164|gb|AAZ57066.1| helix-turn-helix motif [Thermobifida fusca YX]
          Length = 225

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/94 (17%), Positives = 40/94 (42%), Gaps = 2/94 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF- 73
           +G+R+  RR  LG+SQE++ E  G+    +   E+    +    L  +++ L++      
Sbjct: 12  LGRRVAYRRAELGLSQEEVAERAGMAAGYIDYLERNPPNLSPGALSRLADALQTTPEALL 71

Query: 74  -FDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                    + ++      +  I + + ++L + 
Sbjct: 72  GMGFDEPEGAHVTRVPKPKLQEIDSQECMELIKA 105


>gi|20091114|ref|NP_617189.1| transcriptional regulator [Methanosarcina acetivorans C2A]
 gi|19916214|gb|AAM05669.1| transcriptional regulator, Hth-3 family [Methanosarcina
          acetivorans C2A]
          Length = 79

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 2/63 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          RI+  R    ++QE L + +G+  + V   EKG           I+  L++ +   F F+
Sbjct: 15 RIKEFRARHDLTQEALAKIVGVRRETVVFLEKGKYNPSLKLAYRIARALDTTLDELFIFE 74

Query: 76 VSP 78
           S 
Sbjct: 75 DSD 77


>gi|254180890|ref|ZP_04887488.1| DNA-binding protein [Burkholderia pseudomallei 1655]
 gi|184211429|gb|EDU08472.1| DNA-binding protein [Burkholderia pseudomallei 1655]
          Length = 195

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/68 (17%), Positives = 30/68 (44%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   
Sbjct: 2  DINQRIARRVRTLRDLRGYSLDALAERSKVSRSNISLIERAQSNPTAVVLERLANALGVS 61

Query: 70 ISFFFDVS 77
          ++  F+  
Sbjct: 62 LASLFEDD 69


>gi|318059210|ref|ZP_07977933.1| hypothetical protein SSA3_14776 [Streptomyces sp. SA3_actG]
          Length = 174

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 21/57 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG RIR  R    +S   L    G+    +   E G        L  ++  L  P++
Sbjct: 8  VGARIRELREARALSLSALARRSGLGKATLSGLEAGTRNPTLETLYAVTTALGVPLT 64


>gi|311030669|ref|ZP_07708759.1| YazB [Bacillus sp. m3-13]
          Length = 71

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 27/60 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  R++  R   G SQ  LG  +G+T Q +   EKG      +    +++ L+  +   F
Sbjct: 2  LCNRVKELRARHGFSQSDLGSLVGVTRQTIGFIEKGEFSPSIALSLRLAKHLKVKVDELF 61


>gi|290509616|ref|ZP_06548987.1| DNA-binding protein [Klebsiella sp. 1_1_55]
 gi|289779010|gb|EFD87007.1| DNA-binding protein [Klebsiella sp. 1_1_55]
          Length = 160

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/100 (19%), Positives = 41/100 (41%), Gaps = 18/100 (18%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +++  R+    SQE+L E  G++ + +Q+ E G  R G   L  ++ V E  ++   ++
Sbjct: 5   NQVKQLRLQRAWSQEQLAEMAGLSVRTIQRIENGE-RPGLETLSALAAVFEVTVA---EI 60

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
                 + +      +D               +I++ K R
Sbjct: 61  GGEASREDAPGPEASLDL--------------RIEEAKAR 86


>gi|229549206|ref|ZP_04437931.1| XRE family transcriptional regulator [Enterococcus faecalis ATCC
          29200]
 gi|307270616|ref|ZP_07551907.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|307276916|ref|ZP_07558026.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|307287508|ref|ZP_07567551.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|229305443|gb|EEN71439.1| XRE family transcriptional regulator [Enterococcus faecalis ATCC
          29200]
 gi|306501246|gb|EFM70549.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|306506339|gb|EFM75499.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|306512926|gb|EFM81567.1| helix-turn-helix protein [Enterococcus faecalis TX4248]
 gi|315025553|gb|EFT37485.1| helix-turn-helix protein [Enterococcus faecalis TX2137]
 gi|315032799|gb|EFT44731.1| helix-turn-helix protein [Enterococcus faecalis TX0017]
 gi|315035182|gb|EFT47114.1| helix-turn-helix protein [Enterococcus faecalis TX0027]
 gi|315143802|gb|EFT87818.1| helix-turn-helix protein [Enterococcus faecalis TX2141]
 gi|315159317|gb|EFU03334.1| helix-turn-helix protein [Enterococcus faecalis TX0312]
 gi|315162169|gb|EFU06186.1| helix-turn-helix protein [Enterococcus faecalis TX0645]
 gi|315164906|gb|EFU08923.1| helix-turn-helix protein [Enterococcus faecalis TX1302]
 gi|315168790|gb|EFU12807.1| helix-turn-helix protein [Enterococcus faecalis TX1341]
 gi|329577382|gb|EGG58837.1| DNA-binding helix-turn-helix protein [Enterococcus faecalis
          TX1467]
          Length = 231

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
          +RR  LG++Q ++ E L +T Q +  +E   +      L  +S + E  +        T+
Sbjct: 1  MRRNELGLTQSEVAEKLYVTRQTISNWENNKSYPNIDCLIELSNLYEMTLDRLLKEDNTM 60

Query: 81 CSDISSEENN 90
             +S +   
Sbjct: 61 VEKLSKDIRE 70


>gi|229079535|ref|ZP_04212073.1| Transcriptional regulator, Xre [Bacillus cereus Rock4-2]
 gi|228703760|gb|EEL56208.1| Transcriptional regulator, Xre [Bacillus cereus Rock4-2]
          Length = 292

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|255533007|ref|YP_003093379.1| helix-turn-helix domain-containing protein [Pedobacter heparinus
          DSM 2366]
 gi|255345991|gb|ACU05317.1| helix-turn-helix domain protein [Pedobacter heparinus DSM 2366]
          Length = 105

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 26/53 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          GK+I++ R     +Q+ +   L I+     K E  +  +  +RL  +++VL  
Sbjct: 6  GKKIKMLRRQKKWAQKDMAGMLDISVPAYSKIECEITDINITRLIQVADVLGV 58


>gi|254518453|ref|ZP_05130509.1| DNA-binding protein [Clostridium sp. 7_2_43FAA]
 gi|226912202|gb|EEH97403.1| DNA-binding protein [Clostridium sp. 7_2_43FAA]
          Length = 115

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 26/59 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          G+R+R  R+   M+QE +    G+   ++ +YE    +      + ++E     + +  
Sbjct: 5  GERLRSLRLEKDMTQEDVASYFGLHKTRISQYELNKRQADDDMKKKLAEFFGVSLDYLM 63


>gi|268593019|ref|ZP_06127240.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
 gi|291311282|gb|EFE51735.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rettgeri DSM 1131]
          Length = 100

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 31/61 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + ++++L R        +    +G + QQ+ + E+GVN++    +    ++L+  +  FF
Sbjct: 11 ISRQLKLLRKQANYKLSEFARLMGKSEQQIFRMERGVNKMDIDTMMMYFKILKIDVPHFF 70

Query: 75 D 75
          +
Sbjct: 71 N 71


>gi|153811873|ref|ZP_01964541.1| hypothetical protein RUMOBE_02266 [Ruminococcus obeum ATCC 29174]
 gi|149832007|gb|EDM87092.1| hypothetical protein RUMOBE_02266 [Ruminococcus obeum ATCC 29174]
          Length = 349

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 30/60 (50%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + N+ K I   R    +SQE+  E +G+T Q V ++E G++    + L  +SE     + 
Sbjct: 8  NQNIAKTILKIRQDNKLSQEQFAEIVGVTRQAVSRWEMGISAPNINTLILMSEKFNIQVD 67


>gi|170728642|ref|YP_001762668.1| XRE family transcriptional regulator [Shewanella woodyi ATCC
          51908]
 gi|169813989|gb|ACA88573.1| transcriptional regulator, XRE family [Shewanella woodyi ATCC
          51908]
          Length = 181

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 27/67 (40%), Gaps = 4/67 (5%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + NP++    + I+  R    ++Q +L E  GI    +   E   +    S +  +++ L
Sbjct: 1  MANPIN----EGIKRLRAQHKLTQIELAEMAGIPRATLANMESSNSNPSISVVMKVAQAL 56

Query: 67 ESPISFF 73
             +   
Sbjct: 57 GVTVDDL 63


>gi|90962168|ref|YP_536084.1| Phage immunity repressor [Lactobacillus phage Sal4]
 gi|90821362|gb|ABE00001.1| Phage immunity repressor [Lactobacillus phage Sal4]
          Length = 126

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 13/73 (17%), Positives = 32/73 (43%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   KK+    ++    R+R  R+   ++ +K+ + +GI+   + KYE+           
Sbjct: 1  MTTFKKLKYDSNLKPNNRLRQLRLSKDLTLKKVADDIGISENLIGKYEREEREPKLKTWI 60

Query: 61 HISEVLESPISFF 73
           +++     +S+ 
Sbjct: 61 KLADYFNVSVSYL 73


>gi|56416260|ref|YP_153335.1| subunit S of type I restriction-modification system [Salmonella
          enterica subsp. enterica serovar Paratyphi A str. ATCC
          9150]
 gi|197365183|ref|YP_002144820.1| subunit S of type I restriction-modification system [Salmonella
          enterica subsp. enterica serovar Paratyphi A str.
          AKU_12601]
 gi|11992069|gb|AAG42426.1|AF306456_3 regulatory protein SptAIC [Salmonella enterica subsp. enterica
          serovar Paratyphi A]
 gi|22135357|gb|AAM93162.1|AF508974_2 regulatory protein SbaIC [Salmonella enterica]
 gi|56130517|gb|AAV80023.1| subunit S of type I restriction-modification system [Salmonella
          enterica subsp. enterica serovar Paratyphi A str. ATCC
          9150]
 gi|197096660|emb|CAR62275.1| subunit S of type I restriction-modification system [Salmonella
          enterica subsp. enterica serovar Paratyphi A str.
          AKU_12601]
          Length = 78

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 27/74 (36%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +  K  P+   +     IR  R   G+SQE L +  G+    +   E+    +    +  
Sbjct: 1  MERKINPSRARVIFAHNIRKLRERQGLSQEALADLAGLHRTYIGSVERCERNISIDNIDR 60

Query: 62 ISEVLESPISFFFD 75
          I+  L    S   +
Sbjct: 61 IASALGVSPSSLLE 74


>gi|16079517|ref|NP_390341.1| transcriptional regulator for post-exponential-phase response
          [Bacillus subtilis subsp. subtilis str. 168]
 gi|221310384|ref|ZP_03592231.1| SinR [Bacillus subtilis subsp. subtilis str. 168]
 gi|221314708|ref|ZP_03596513.1| SinR [Bacillus subtilis subsp. subtilis str. NCIB 3610]
 gi|221319631|ref|ZP_03600925.1| SinR [Bacillus subtilis subsp. subtilis str. JH642]
 gi|221323907|ref|ZP_03605201.1| SinR [Bacillus subtilis subsp. subtilis str. SMY]
 gi|296333382|ref|ZP_06875835.1| transcriptional regulator SinR [Bacillus subtilis subsp.
          spizizenii ATCC 6633]
 gi|305675112|ref|YP_003866784.1| transcriptional regulator for post-exponential-phase response
          [Bacillus subtilis subsp. spizizenii str. W23]
 gi|321311945|ref|YP_004204232.1| transcriptional regulator SinR [Bacillus subtilis BSn5]
 gi|134504|sp|P06533|SINR_BACSU RecName: Full=HTH-type transcriptional regulator sinR
 gi|4389349|pdb|1B0N|A Chain A, Sinr ProteinSINI PROTEIN COMPLEX
 gi|143547|gb|AAA22757.1| Sin regulatory protein (ttg start codon) [Bacillus subtilis]
 gi|1303886|dbj|BAA12542.1| SinR [Bacillus subtilis]
 gi|2634895|emb|CAB14392.1| transcriptional regulator for post-exponential-phase response
          [Bacillus subtilis subsp. subtilis str. 168]
 gi|296149580|gb|EFG90476.1| transcriptional regulator SinR [Bacillus subtilis subsp.
          spizizenii ATCC 6633]
 gi|305413356|gb|ADM38475.1| transcriptional regulator for post-exponential-phase response
          [Bacillus subtilis subsp. spizizenii str. W23]
 gi|320018219|gb|ADV93205.1| transcriptional regulator SinR [Bacillus subtilis BSn5]
          Length = 111

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+RI+  R   G S  +L E  G+    +   E+ +        L+ +S VL+  +   
Sbjct: 2  IGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 61

Query: 74 FDVSPTVCSDISSEEN 89
           D       D   +  
Sbjct: 62 LDEKHETEYDGQLDSE 77


>gi|23578000|ref|NP_702947.1| putative transcription regulatory protein [Corynebacterium
          efficiens YS-314]
 gi|259506151|ref|ZP_05749053.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]
 gi|23494826|dbj|BAC19789.1| putative transcription regulatory protein [Corynebacterium
          efficiens YS-314]
 gi|259166272|gb|EEW50826.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]
          Length = 81

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 4/71 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +KK    + I +G R+R  R    +SQE++    G+    +   E+G   +    L 
Sbjct: 1  MTPDKK----ILIQLGDRLREARKQAKLSQEEVAHLSGLHRTYISLVERGGRNISVLNLL 56

Query: 61 HISEVLESPIS 71
           I+ VL   + 
Sbjct: 57 SITGVLGVDVG 67


>gi|75760140|ref|ZP_00740200.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228903528|ref|ZP_04067651.1| hypothetical protein bthur0014_46880 [Bacillus thuringiensis IBL
          4222]
 gi|228910865|ref|ZP_04074674.1| hypothetical protein bthur0013_50070 [Bacillus thuringiensis IBL
          200]
 gi|228968140|ref|ZP_04129144.1| hypothetical protein bthur0004_49240 [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|74492377|gb|EAO55533.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228791575|gb|EEM39173.1| hypothetical protein bthur0004_49240 [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|228848816|gb|EEM93661.1| hypothetical protein bthur0013_50070 [Bacillus thuringiensis IBL
          200]
 gi|228856104|gb|EEN00641.1| hypothetical protein bthur0014_46880 [Bacillus thuringiensis IBL
          4222]
          Length = 79

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 29/72 (40%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+++    + 
Sbjct: 6  DMKLQNRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAQIFNVSVE 65

Query: 72 FFFDVSPTVCSD 83
            F +      D
Sbjct: 66 EIFTLVEGEEDD 77


>gi|325958946|ref|YP_004290412.1| XRE family transcriptional regulator [Methanobacterium sp. AL-21]
 gi|325330378|gb|ADZ09440.1| transcriptional regulator, XRE family [Methanobacterium sp.
          AL-21]
          Length = 64

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFFFD 75
           ++++ R +  ++QE L + + +T Q +   EK       +    I++     I   FFD
Sbjct: 3  NKLKVYRAMNDLTQEDLAKEIKVTRQTIISIEKQKYDPSLTLAFKIAKFFNVHIEDIFFD 62

Query: 76 VS 77
            
Sbjct: 63 EE 64


>gi|322377590|ref|ZP_08052080.1| DNA-binding protein [Streptococcus sp. M334]
 gi|321281355|gb|EFX58365.1| DNA-binding protein [Streptococcus sp. M334]
          Length = 303

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 34/71 (47%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P  
Sbjct: 1  MLIGQKIKEIRIEKGISRSDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVPAY 60

Query: 72 FFFDVSPTVCS 82
                  + S
Sbjct: 61 SLMPDFSALPS 71


>gi|296138624|ref|YP_003645867.1| XRE family transcriptional regulator [Tsukamurella paurometabola
          DSM 20162]
 gi|296026758|gb|ADG77528.1| transcriptional regulator, XRE family [Tsukamurella paurometabola
          DSM 20162]
          Length = 278

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 25/55 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G  IR  R    M+Q  L   +G++ + +   E G +R     +  I E L+ P+
Sbjct: 4  GDEIRQWRQRRRMTQLDLAVAVGVSTRHLSFVETGRSRPSRRLILEIGEGLDIPL 58


>gi|258593399|emb|CBE69738.1| Transcriptional regulator, Cro/CI family [NC10 bacterium 'Dutch
          sediment']
          Length = 81

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 21/55 (38%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R +R   G++Q  L   LG     V KYE G   +       +   L    + F
Sbjct: 17 LRQKRKDRGLTQADLAATLGKPQSFVSKYEAGERLLSFVETIDVCRALGIDPATF 71


>gi|270289873|ref|ZP_06196099.1| XRE family transcriptional regulator [Pediococcus acidilactici
          7_4]
 gi|270281410|gb|EFA27242.1| XRE family transcriptional regulator [Pediococcus acidilactici
          7_4]
          Length = 188

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/80 (18%), Positives = 38/80 (47%), Gaps = 3/80 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  ++  R    ++Q ++   L +T Q + ++E+G        L+ ++E+    I  
Sbjct: 1  MSIGPALQKVRQDRHLTQAEVASQLYVTRQTISRWEQGKTIPNIYALKDLAELYGVSID- 59

Query: 73 FFDVSPTVCSDISSEENNVM 92
            +++ T   +   EE + M
Sbjct: 60 --ELTNTSLLNPVQEEGDPM 77


>gi|266619966|ref|ZP_06112901.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium hathewayi DSM 13479]
 gi|288868430|gb|EFD00729.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium hathewayi DSM 13479]
          Length = 113

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 21/61 (34%), Positives = 26/61 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +GKRI  RR  L M+QE L E   IT Q V   E G   +    +  IS  L     +
Sbjct: 6  KEMGKRIHDRRKQLHMTQENLAELANITPQTVSTAELGQKAMRPDTIIKISAALGISTDY 65

Query: 73 F 73
           
Sbjct: 66 L 66


>gi|257886939|ref|ZP_05666592.1| transcriptional regulator [Enterococcus faecium 1,141,733]
 gi|257822993|gb|EEV49925.1| transcriptional regulator [Enterococcus faecium 1,141,733]
          Length = 370

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + K +   R   G++QE L E +G+T   V K+E G +      L  ++   +  + 
Sbjct: 6  LSKNVANLRKEKGVTQEILAEFIGVTKASVSKWETGQSMPDVLILPKLASFFDVSVD 62


>gi|239999287|ref|ZP_04719211.1| putative phage repressor protein, putative phage associated
          protein [Neisseria gonorrhoeae 35/02]
          Length = 236

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 31/65 (47%), Gaps = 2/65 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R    +SQE L +   ++   +   E G N+  A+ +  ++++L+   +F+ +  
Sbjct: 7  RLKEARKNKNLSQENLAKLAEVSQSTIAALESGRNK-KATNIAKLAKILDVS-AFWLETG 64

Query: 78 PTVCS 82
              +
Sbjct: 65 EGSRN 69


>gi|308235773|ref|ZP_07666510.1| DNA-binding protein [Gardnerella vaginalis ATCC 14018]
 gi|311114939|ref|YP_003986160.1| DNA-binding protein [Gardnerella vaginalis ATCC 14019]
 gi|310946433|gb|ADP39137.1| DNA-binding protein [Gardnerella vaginalis ATCC 14019]
          Length = 67

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+   R   G++QE+L + L ++ Q V   E G           I++     I   F
Sbjct: 3  NRLEQIRKEKGITQEELADALEVSRQTVGSLENGRYNPSIILAYKIAKYFNLTIEEIF 60


>gi|254494052|ref|ZP_05107223.1| transcriptional regulator [Neisseria gonorrhoeae 1291]
 gi|226513092|gb|EEH62437.1| transcriptional regulator [Neisseria gonorrhoeae 1291]
          Length = 243

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 31/65 (47%), Gaps = 2/65 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R    +SQE L +   ++   +   E G N+  A+ +  ++++L+   +F+ +  
Sbjct: 14 RLKEARKNKNLSQENLAKLAEVSQSTIAALESGRNK-KATNIAKLAKILDVS-AFWLETG 71

Query: 78 PTVCS 82
              +
Sbjct: 72 EGSRN 76


>gi|163746908|ref|ZP_02154265.1| probable transcriptional regulator [Oceanibulbus indolifex
          HEL-45]
 gi|161380022|gb|EDQ04434.1| probable transcriptional regulator [Oceanibulbus indolifex
          HEL-45]
          Length = 205

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 23/57 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G R+R  R    ++   L    G+    + K E G       ++  +++ L+  I 
Sbjct: 7  LGARLRHLRKSRKLTLSALASLSGVAVSTISKIENGALSPTLDKVLRLADGLDLSIG 63


>gi|153852685|ref|ZP_01994122.1| hypothetical protein DORLON_00104 [Dorea longicatena DSM 13814]
 gi|149754327|gb|EDM64258.1| hypothetical protein DORLON_00104 [Dorea longicatena DSM 13814]
          Length = 83

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 32/67 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R  LG++Q ++G+  G++ Q + + E+G      +    ++++ E  +   F  
Sbjct: 13 NRLKEYRSRLGVNQTEMGKLAGVSRQTISQIERGDYSPSVTLALKLAKICEVNVEDIFIY 72

Query: 77 SPTVCSD 83
             +  +
Sbjct: 73 EEEINDE 79


>gi|149183828|ref|ZP_01862225.1| DNA-binding protein [Bacillus sp. SG-1]
 gi|148848458|gb|EDL62711.1| DNA-binding protein [Bacillus sp. SG-1]
          Length = 123

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + G+ ++L R    +SQE+L     +    ++KYE G        +  +S VL+ P S
Sbjct: 3  HFGQNLKLLREERNISQEELAMRARLGRTTIEKYESGSQIPDTPTILKLSTVLDVPAS 60


>gi|126452186|ref|YP_001064380.1| XRE family transcriptional regulator [Burkholderia pseudomallei
           1106a]
 gi|242317669|ref|ZP_04816685.1| transcriptional regulator, XRE family [Burkholderia pseudomallei
           1106b]
 gi|126225828|gb|ABN89368.1| transcriptional regulator, XRE family [Burkholderia pseudomallei
           1106a]
 gi|242140908|gb|EES27310.1| transcriptional regulator, XRE family [Burkholderia pseudomallei
           1106b]
          Length = 107

 Score = 50.6 bits (120), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 38/89 (42%), Gaps = 5/89 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
           +G++IR  R   G++ ++L   +  +   + + E K   R  A R+  I+  L    ++ 
Sbjct: 4   LGEKIRTLRKRQGLTLDQLALQVSASKSSIWELENKEKARPSADRIDAIARALGVTSAYL 63

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQ 102
            D + T  S   ++E     F    + L 
Sbjct: 64  LDDTQTEPSRKVADEA----FFRKYEQLD 88


>gi|331017157|gb|EGH97213.1| XRE family transcriptional regulator [Pseudomonas syringae pv.
           lachrymans str. M302278PT]
          Length = 115

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 23/122 (18%), Positives = 50/122 (40%), Gaps = 20/122 (16%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+R++  R  LG+SQ + G  L ++    + YE G N +    +  +++       +  
Sbjct: 7   VGERLKEERERLGLSQTEFGTRLRVSRGTQKNYELGANSLDLRYVAALTDQ-GVDAGYVL 65

Query: 75  DV--SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID--DVKVRQKIIELVRSIVSSE 130
               SP     ++ +E              L  ++ ++   D K  ++I   V+S+ +  
Sbjct: 66  TGHRSPAPGQGLNPDEA------------DLVDHYRRLPVDDQKTVRRI---VKSMAAEA 110

Query: 131 KK 132
            +
Sbjct: 111 DE 112


>gi|328956479|ref|YP_004373865.1| hypothetical protein CAR_c00980 [Carnobacterium sp. 17-4]
 gi|328672803|gb|AEB28849.1| hypothetical protein CAR_c00980 [Carnobacterium sp. 17-4]
          Length = 66

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 28/57 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + +G++++  R+  G SQ  + E L I+ Q + K+E  ++      L  +S   +  
Sbjct: 1  MLLGEKLKSSRVKKGFSQNDVAEELHISRQSISKWENDISYPDLDNLVKLSTYYQVS 57


>gi|320528225|ref|ZP_08029389.1| toxin-antitoxin system, antitoxin component, Xre family
          [Solobacterium moorei F0204]
 gi|320131398|gb|EFW23964.1| toxin-antitoxin system, antitoxin component, Xre family
          [Solobacterium moorei F0204]
          Length = 86

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 26/70 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I V  RI+  R    +SQ +L + +G T Q +   E G           I++     I  
Sbjct: 16 IKVKNRIKELRKEHKLSQGELADLVGTTRQTITSIEVGKYTASLPLAYKIAKQFSLSIEE 75

Query: 73 FFDVSPTVCS 82
           FD S     
Sbjct: 76 VFDFSELEEE 85


>gi|253316015|ref|ZP_04839228.1| hypothetical protein SauraC_07702 [Staphylococcus aureus subsp.
          aureus str. CF-Marseille]
 gi|257426314|ref|ZP_05602723.1| DNA-binding protein [Staphylococcus aureus subsp. aureus 55/2053]
 gi|257428649|ref|ZP_05605046.1| helix-turn-helix containing protein [Staphylococcus aureus subsp.
          aureus 65-1322]
 gi|257431575|ref|ZP_05607946.1| DNA-binding protein [Staphylococcus aureus subsp. aureus 68-397]
 gi|257433971|ref|ZP_05610323.1| DNA-binding protein [Staphylococcus aureus subsp. aureus E1410]
 gi|257436875|ref|ZP_05612918.1| DNA-binding protein [Staphylococcus aureus subsp. aureus M876]
 gi|282915390|ref|ZP_06323166.1| DNA-binding protein [Staphylococcus aureus subsp. aureus M899]
 gi|282926055|ref|ZP_06333701.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C101]
 gi|293509091|ref|ZP_06667875.1| DNA-binding protein [Staphylococcus aureus subsp. aureus 58-424]
 gi|293511865|ref|ZP_06670558.1| DNA-binding protein [Staphylococcus aureus subsp. aureus M809]
 gi|293550575|ref|ZP_06673246.1| DNA-binding protein [Staphylococcus aureus subsp. aureus M1015]
 gi|257270886|gb|EEV03072.1| DNA-binding protein [Staphylococcus aureus subsp. aureus 55/2053]
 gi|257274520|gb|EEV06026.1| helix-turn-helix containing protein [Staphylococcus aureus subsp.
          aureus 65-1322]
 gi|257277677|gb|EEV08354.1| DNA-binding protein [Staphylococcus aureus subsp. aureus 68-397]
 gi|257281109|gb|EEV11252.1| DNA-binding protein [Staphylococcus aureus subsp. aureus E1410]
 gi|257283786|gb|EEV13910.1| DNA-binding protein [Staphylococcus aureus subsp. aureus M876]
 gi|270300313|gb|ACZ69119.1| hypothetical protein SAP065B_019 [Staphylococcus aureus]
 gi|281334218|gb|ADA61302.1| hypothetical protein SAP013A_027 [Staphylococcus aureus]
 gi|281334580|gb|ADA61664.1| hypothetical protein SAP026A_011 [Staphylococcus aureus]
 gi|282165943|gb|ADA79963.1| hypothetical protein SAP095A_012 [Staphylococcus aureus]
 gi|282165989|gb|ADA80009.1| hypothetical protein SAP096A_026 [Staphylococcus aureus]
 gi|282166399|gb|ADA80415.1| hypothetical protein SAP085C_016 [Staphylococcus aureus]
 gi|282166455|gb|ADA80471.1| hypothetical protein SAP088A_032 [Staphylococcus aureus]
 gi|282166595|gb|ADA80611.1| hypothetical protein SAP093C_026 [Staphylococcus aureus]
 gi|282166914|gb|ADA80930.1| hypothetical protein SAP084B_016 [Staphylococcus aureus]
 gi|282166965|gb|ADA80981.1| hypothetical protein SAP086A_019 [Staphylococcus aureus]
 gi|282167021|gb|ADA81037.1| Transcriptional regulator, XRE family [Staphylococcus aureus]
 gi|282312457|gb|EFB42862.1| DNA-binding protein [Staphylococcus aureus subsp. aureus C101]
 gi|282320717|gb|EFB51052.1| DNA-binding protein [Staphylococcus aureus subsp. aureus M899]
 gi|290918638|gb|EFD95715.1| DNA-binding protein [Staphylococcus aureus subsp. aureus M1015]
 gi|291094657|gb|EFE24932.1| DNA-binding protein [Staphylococcus aureus subsp. aureus 58-424]
 gi|291465307|gb|EFF07840.1| DNA-binding protein [Staphylococcus aureus subsp. aureus M809]
          Length = 64

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 26/55 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          I+ +R + G SQE+L   L ++ Q V K+E   N      L  +S++    +   
Sbjct: 7  IKEQRELKGWSQEELTNILKVSRQSVSKWESAKNYPSLDILIAMSDLFGITLDHL 61


>gi|300771514|ref|ZP_07081389.1| XRE family transcriptional regulator [Sphingobacterium
          spiritivorum ATCC 33861]
 gi|300761503|gb|EFK58324.1| XRE family transcriptional regulator [Sphingobacterium
          spiritivorum ATCC 33861]
          Length = 66

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            I++ R+I G SQE+L   + ++ Q +   E G           IS+ L+  +   F++
Sbjct: 3  NNIKINRVIKGYSQEQLAILVNVSRQTINALEAGKYVPSTVLSLKISQALDKSVEELFEL 62

Query: 77 SPT 79
             
Sbjct: 63 DEG 65


>gi|228969513|ref|ZP_04130324.1| Transcriptional regulator, Cro/CI [Bacillus thuringiensis serovar
          sotto str. T04001]
 gi|228790215|gb|EEM37986.1| Transcriptional regulator, Cro/CI [Bacillus thuringiensis serovar
          sotto str. T04001]
          Length = 114

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 2/70 (2%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
          G+R++  R + G +Q++LG  +G+    +   E      G   +   +EV      +   
Sbjct: 5  GERVKTLRKMKGWTQDELGAAVGLKKAAISGIENNKRDRGEKSVSKFAEVFGCTADYLLG 64

Query: 74 FDVSPTVCSD 83
          F   P + S+
Sbjct: 65 FSDDPALNSE 74


>gi|227512586|ref|ZP_03942635.1| transcriptional regulator [Lactobacillus buchneri ATCC 11577]
 gi|227084201|gb|EEI19513.1| transcriptional regulator [Lactobacillus buchneri ATCC 11577]
          Length = 198

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 24/62 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V K +R  R+  G S  KL E  G++   + + E        + +  I   L  P +   
Sbjct: 17 VSKNLRKIRLERGFSLTKLSELSGVSKGMLSQIENNGTSPTINTIWKICAGLNVPYTTLL 76

Query: 75 DV 76
          + 
Sbjct: 77 EG 78


>gi|196047670|ref|ZP_03114875.1| transcriptional regulator [Bacillus cereus 03BB108]
 gi|196021495|gb|EDX60197.1| transcriptional regulator [Bacillus cereus 03BB108]
          Length = 115

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 27/55 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VG+ I+  R    ++QE+L E  G++  Q++ +E   +      L+ ++    + 
Sbjct: 5  VGQNIKNLRKSFDLTQEQLSERTGLSRGQIKNWETDRHEPDLESLKVLASFFNTS 59


>gi|218234393|ref|YP_002366467.1| DNA-binding protein [Bacillus cereus B4264]
 gi|218162350|gb|ACK62342.1| DNA-binding protein [Bacillus cereus B4264]
          Length = 404

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q  L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTALAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDEGEIVEL 72


>gi|150006253|ref|YP_001300997.1| hypothetical protein BVU_3764 [Bacteroides vulgatus ATCC 8482]
 gi|149934677|gb|ABR41375.1| conserved hypothetical protein [Bacteroides vulgatus ATCC 8482]
          Length = 142

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 1/58 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          N+G  IR  R+  G++QE+LG+ +G+   Q+ K E G   +    +  + + L    S
Sbjct: 7  NIGLMIRNERLRKGLTQEELGKRIGVGKAQISKIESGK-GLTIKTMTKVLDALGMSAS 63


>gi|86751755|ref|YP_488251.1| anaerobic benzoate catabolism transcriptional regulator
          [Rhodopseudomonas palustris HaA2]
 gi|86574783|gb|ABD09340.1| transcriptional regulator, XRE family with shikimate kinase
          activity [Rhodopseudomonas palustris HaA2]
          Length = 305

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 34/58 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +G+R+R  R + GMS++ L +  GI+ + + + E G   V    L+ +S+ L +P+
Sbjct: 13 LELGQRVRTLRGLRGMSRKVLAKVSGISERYIAQLESGKGNVSIMLLRRVSDALATPL 70


>gi|319938413|ref|ZP_08012808.1| hypothetical protein HMPREF9488_03644 [Coprobacillus sp. 29_1]
 gi|319806501|gb|EFW03165.1| hypothetical protein HMPREF9488_03644 [Coprobacillus sp. 29_1]
          Length = 191

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 3/74 (4%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M Q++L + +GI  Q + K E+GVN      L+ I EVL+   +   ++       ++  
Sbjct: 1   MKQQELADRIGINMQSLSKIERGVNYPTFDTLEKIMEVLDVTPN---ELLSGEWKYVNQA 57

Query: 88  ENNVMDFISTPDGL 101
           E  V  F+   + L
Sbjct: 58  EKEVCQFLKVEERL 71


>gi|298717173|ref|YP_003729815.1| HTH-type transcriptional regulatory protein [Pantoea vagans C9-1]
 gi|298361362|gb|ADI78143.1| Putative HTH-type transcriptional regulatory protein [Pantoea
          vagans C9-1]
          Length = 192

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 30/66 (45%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
             + ++  +G +++  R   G S   L E  G++   + K E+G +   A+ L  +S  
Sbjct: 7  SKEDDLNARIGLKVKAERERRGWSLTDLAENSGVSRAMIHKIERGESSPTATLLARLSGA 66

Query: 66 LESPIS 71
           +  +S
Sbjct: 67 FDMSMS 72


>gi|239991923|ref|ZP_04712587.1| putative DNA-binding protein [Streptomyces roseosporus NRRL
          11379]
          Length = 273

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 26/59 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          D  VG  +R  R    +SQ +L      + + +   E G +R     +  ++E L+ P+
Sbjct: 3  DTGVGPLLRDWREQRRISQLELALRADSSARHISFIETGRSRPSEDMVLRLAEHLDVPV 61


>gi|237715765|ref|ZP_04546246.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262408773|ref|ZP_06085319.1| conserved hypothetical protein [Bacteroides sp. 2_1_22]
 gi|294645534|ref|ZP_06723230.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides ovatus SD CC 2a]
 gi|294806594|ref|ZP_06765430.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides xylanisolvens SD CC 1b]
 gi|229444474|gb|EEO50265.1| transcriptional regulator [Bacteroides sp. D1]
 gi|262353638|gb|EEZ02732.1| conserved hypothetical protein [Bacteroides sp. 2_1_22]
 gi|292639108|gb|EFF57430.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides ovatus SD CC 2a]
 gi|294446209|gb|EFG14840.1| toxin-antitoxin system, antitoxin component, Xre family
          [Bacteroides xylanisolvens SD CC 1b]
          Length = 104

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/38 (34%), Positives = 22/38 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN 52
          +G+ IR  R    ++QE+LG  +G+   Q+ + E G N
Sbjct: 37 IGEAIRKARQSKNLTQEELGNLIGVQRAQISRIENGKN 74


>gi|187935228|ref|YP_001886792.1| hypothetical protein CLL_A2604 [Clostridium botulinum B str.
          Eklund 17B]
 gi|187723381|gb|ACD24602.1| conserved domain protein [Clostridium botulinum B str. Eklund
          17B]
          Length = 64

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R  L +SQ +L E +G+T Q +   E G           I + L   ++  F
Sbjct: 5  KLKSARAALDLSQGQLAEIVGVTRQTIGMIEAGKYNPSLQLCIAICKALGKTLNDIF 61


>gi|60682884|ref|YP_213028.1| putative DNA-binding protein [Bacteroides fragilis NCTC 9343]
 gi|253566007|ref|ZP_04843461.1| conserved hypothetical protein [Bacteroides sp. 3_2_5]
 gi|60494318|emb|CAH09113.1| putative DNA-binding protein [Bacteroides fragilis NCTC 9343]
 gi|251945111|gb|EES85549.1| conserved hypothetical protein [Bacteroides sp. 3_2_5]
          Length = 151

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 1/63 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+++ G  IR  R+   + Q+ L   + +T   V KYEK +  +    L   +  L  P+
Sbjct: 10 VNVHHGHNIRRTRIEKNIKQDALAALVNMTQPNVSKYEK-MRVIEDEMLNRFARALNVPV 68

Query: 71 SFF 73
           + 
Sbjct: 69 EYL 71


>gi|23455773|ref|NP_695143.1| repressor [Lactobacillus phage phig1e]
 gi|7450563|pir||T13178 repressor protein - Lactobacillus phage phi-gle
 gi|1926322|emb|CAA66782.1| repressor [Lactobacillus phage phig1e]
 gi|1926374|emb|CAA62089.1| gp132 [Lactobacillus phage phig1e]
          Length = 132

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 27/59 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G R++  R + G +Q+++ + +GI+  +    E   N      L+ ++   E    + 
Sbjct: 6  IGNRLKELRNMQGKTQDEVAKSIGISRARYSHLENERNEPDNELLKLLASYYEVSTDYL 64


>gi|53720319|ref|YP_109305.1| putative DNA-binding protein [Burkholderia pseudomallei K96243]
 gi|167817109|ref|ZP_02448789.1| putative DNA-binding protein [Burkholderia pseudomallei 91]
 gi|237813540|ref|YP_002897991.1| DNA-binding protein [Burkholderia pseudomallei MSHR346]
 gi|254299001|ref|ZP_04966451.1| DNA-binding protein [Burkholderia pseudomallei 406e]
 gi|52210733|emb|CAH36717.1| putative DNA-binding protein [Burkholderia pseudomallei K96243]
 gi|157809113|gb|EDO86283.1| DNA-binding protein [Burkholderia pseudomallei 406e]
 gi|237503057|gb|ACQ95375.1| DNA-binding protein [Burkholderia pseudomallei MSHR346]
          Length = 195

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/68 (17%), Positives = 30/68 (44%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   
Sbjct: 2  DINQRIARRVRALRDLRGYSLDALAERSKVSRSNISLIERAQSNPTAVVLERLANALGVS 61

Query: 70 ISFFFDVS 77
          ++  F+  
Sbjct: 62 LASLFEDD 69


>gi|327440177|dbj|BAK16542.1| predicted transcriptional regulator [Solibacillus silvestris
           StLB046]
          Length = 415

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 41/108 (37%), Gaps = 26/108 (24%)

Query: 15  VGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+RI+  R    ++Q ++ GE L  T   +   E G  +     L+ I+  L   +   
Sbjct: 4   LGERIKKLRKQKKLTQTEVVGERL--TKGMLSLIENGKAQPSMESLRFIANQLNVDV--- 58

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRY-FIQIDDVKVRQKII 120
                              DF+     L + R  +  I++   R+K+I
Sbjct: 59  -------------------DFLIDDGTLTMLRNLYTTIEEDVERRKLI 87


>gi|325130150|gb|EGC52929.1| DNA-binding protein [Neisseria meningitidis OX99.30304]
 gi|325202207|gb|ADY97661.1| DNA-binding protein [Neisseria meningitidis M01-240149]
 gi|325208038|gb|ADZ03490.1| DNA-binding protein [Neisseria meningitidis NZ-05/33]
          Length = 123

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 27/124 (21%), Positives = 51/124 (41%), Gaps = 12/124 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
             G R++  R  L M+Q ++ E  G++ +    YE+G+++  A       +V    + + 
Sbjct: 6   FFGNRLKEERKKLKMTQAEIAEKCGVSGRMWGDYERGISQPKAELFFQFEKV-GIDVQYV 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
                   + + SE  N  +     + L L R     D    R+ I+ + R    +EKK 
Sbjct: 65  MHGRRGETAVMPSETLNAEE----QELLALFREAAAAD----REMILMVAR---RAEKKA 113

Query: 134 RTIE 137
           +T  
Sbjct: 114 QTAL 117


>gi|295100170|emb|CBK89259.1| Predicted transcriptional regulators [Eubacterium cylindroides
          T2-87]
          Length = 117

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 27/63 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I   R    +SQE LG+ +G+T Q +  +E         +L+ +S+          
Sbjct: 2  LGENILRLRKGANLSQEALGDIIGVTRQMISNWELEETAPNPEQLKLLSKAFNVSADDLL 61

Query: 75 DVS 77
          +  
Sbjct: 62 NND 64


>gi|257887111|ref|ZP_05666764.1| transcriptional regulator [Enterococcus faecium 1,141,733]
 gi|257823165|gb|EEV50097.1| transcriptional regulator [Enterococcus faecium 1,141,733]
          Length = 124

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 32/81 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+  R   G +Q  +   + +     QK E G   +  + L  I++       F  + 
Sbjct: 5  ERIKQLREERGYTQRDVANAVKLNISVYQKIELGSRPIRENELAVIADFFNVSTDFLLNR 64

Query: 77 SPTVCSDISSEENNVMDFIST 97
          +        SEE+ + D I +
Sbjct: 65 TSDPTPPKRSEEDQLGDSILS 85


>gi|229149987|ref|ZP_04278212.1| Transcriptional regulator, Xre [Bacillus cereus m1550]
 gi|228633425|gb|EEK90029.1| Transcriptional regulator, Xre [Bacillus cereus m1550]
          Length = 404

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q  L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTALAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDEGEIVEL 72


>gi|227113678|ref|ZP_03827334.1| putative regulatory protein [Pectobacterium carotovorum subsp.
          brasiliensis PBR1692]
          Length = 97

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/53 (33%), Positives = 24/53 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R  R+  GM+QE L   LG     V K E G  R+      HI+ +L    S
Sbjct: 29 LREARIEKGMTQENLANALGRPQSFVAKIENGERRLDVVEFVHIAHLLSVDAS 81


>gi|167767673|ref|ZP_02439726.1| hypothetical protein CLOSS21_02206 [Clostridium sp. SS2/1]
 gi|317499148|ref|ZP_07957425.1| helix-turn-helix domain-containing protein [Lachnospiraceae
          bacterium 5_1_63FAA]
 gi|167710690|gb|EDS21269.1| hypothetical protein CLOSS21_02206 [Clostridium sp. SS2/1]
 gi|291560806|emb|CBL39606.1| Helix-turn-helix [butyrate-producing bacterium SSC/2]
 gi|316893561|gb|EFV15766.1| helix-turn-helix domain-containing protein [Lachnospiraceae
          bacterium 5_1_63FAA]
          Length = 120

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 25/57 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G +I+  R    ++QE+L E   I+   +   E     V    L+ I++ L   I 
Sbjct: 9  LGAKIKEYRKKENITQEQLAEMADISLSHMSNVETASVSVSLPALKLIADALGVTID 65


>gi|14591505|ref|NP_143586.1| hypothetical protein PH1748 [Pyrococcus horikoshii OT3]
 gi|3258179|dbj|BAA30862.1| 192aa long hypothetical protein [Pyrococcus horikoshii OT3]
          Length = 192

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 20/60 (33%), Positives = 27/60 (45%), Gaps = 3/60 (5%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          IP PVD    + I+  R  LG++QE+L    G+T   + K E G      S    I   L
Sbjct: 4  IPKPVDP---RDIKKIRKALGITQEELARKAGVTQAYIAKLEAGKVDPRLSTFNRILRAL 60


>gi|99081574|ref|YP_613728.1| XRE family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99037854|gb|ABF64466.1| transcriptional regulator, XRE family [Ruegeria sp. TM1040]
          Length = 133

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 33/72 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+   R   GM+Q +L   +G+    +  +E+ ++   A++L  +S +L   +S+   
Sbjct: 17 GDRVAAARESAGMTQGQLARRMGVKKSTLIGWEQDLSEPRANKLSTLSGILNVSMSWLLT 76

Query: 76 VSPTVCSDISSE 87
                S  + +
Sbjct: 77 GEGDELSAPNED 88


>gi|325977912|ref|YP_004287628.1| DNA-binding protein [Streptococcus gallolyticus subsp.
          gallolyticus ATCC BAA-2069]
 gi|325177840|emb|CBZ47884.1| DNA-binding protein [Streptococcus gallolyticus subsp.
          gallolyticus ATCC BAA-2069]
          Length = 199

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 29/79 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+   R   G + ++L    GI    +  YE G +       Q +++     + +   +
Sbjct: 14 NRVNELRKQFGKTMKELSAETGIGLSTISNYENGYSTPKKKNAQILADYFGVSVPYLLGL 73

Query: 77 SPTVCSDISSEENNVMDFI 95
                   SE++ V  FI
Sbjct: 74 DDNPVLKNPSEDSFVKSFI 92


>gi|313898654|ref|ZP_07832189.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312956538|gb|EFR38171.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 118

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 26/121 (21%), Positives = 50/121 (41%), Gaps = 10/121 (8%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    +++ VG  IR      GM+Q++L   +G T + +  Y  G  +     L  I  +
Sbjct: 2   KKVTEINLRVGDAIRKGLQRKGMTQKELAALVGSTQRSISSYINGNAQPPLDILSLICRI 61

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE  ++    +          + N     +  P  L+  + F Q+ + + R    +L++S
Sbjct: 62  LEINMNQILQIP---------DFNFPGRMLHDPMELEFMKIFDQVPEER-RMTFTKLMKS 111

Query: 126 I 126
           I
Sbjct: 112 I 112


>gi|312960098|ref|ZP_07774610.1| transcriptional regulator, XRE family [Pseudomonas fluorescens
          WH6]
 gi|311285592|gb|EFQ64161.1| transcriptional regulator, XRE family [Pseudomonas fluorescens
          WH6]
          Length = 193

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 31/72 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I   R    ++  +L + +  +   V + E+G++R   + L  IS  L+ P ++F+    
Sbjct: 22 IHDLRKHKKLTLAQLAQKIERSVGFVSQVERGLSRPTVADLTAISHALDVPTTYFYSQPK 81

Query: 79 TVCSDISSEENN 90
              D  +  N 
Sbjct: 82 PKAVDWITRPNE 93


>gi|304384795|ref|ZP_07367141.1| XRE family transcriptional regulator [Pediococcus acidilactici DSM
           20284]
 gi|304328989|gb|EFL96209.1| XRE family transcriptional regulator [Pediococcus acidilactici DSM
           20284]
          Length = 123

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 36/86 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + KRI   R  + ++Q +L   L I    + K E G  +V +  L  +S++ +    +  
Sbjct: 6   LSKRIVDLRESMDLTQTELARRLKIDKSAMNKIENGTRKVSSEELNKLSDIFDVTTDYLL 65

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG 100
             + T       +  ++  F+   DG
Sbjct: 66  GKNGTPKWANKQDVFDLKKFLDDNDG 91


>gi|300854843|ref|YP_003779827.1| putative DNA-binding protein [Clostridium ljungdahlii DSM 13528]
 gi|300434958|gb|ADK14725.1| putative DNA-binding protein [Clostridium ljungdahlii DSM 13528]
          Length = 224

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 26/51 (50%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R +  MS ++L   L IT Q V K+EK    +   RL  +S++   P  +F
Sbjct: 8  RKLYNMSMDELAHNLNITKQTVSKWEKRKIPISDKRLNQLSKIFNIPQKYF 58


>gi|257898126|ref|ZP_05677779.1| transcriptional regulator [Enterococcus faecium Com15]
 gi|257836038|gb|EEV61112.1| transcriptional regulator [Enterococcus faecium Com15]
          Length = 370

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + K +   R   G++QE L E +G+T   V K+E G +      L  ++   +  + 
Sbjct: 6  LSKNVANLRKEKGVTQEILAEFIGVTKASVSKWETGQSMPDVLILPKLASFFDVSVD 62


>gi|271962500|ref|YP_003336696.1| XRE family transcriptional regulator [Streptosporangium roseum DSM
           43021]
 gi|270505675|gb|ACZ83953.1| putative transcriptional regulator, XRE family [Streptosporangium
           roseum DSM 43021]
          Length = 175

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 24/124 (19%), Positives = 46/124 (37%), Gaps = 12/124 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ IR +R    +S  +L    G++   + + E+G+ +  A  L  I++ L       +
Sbjct: 9   IGEYIREQRTHAKISLRQLAAAAGVSNPYLSQIERGLRKPSAEILNQIAKGLHISSQALY 68

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
                       EE          D L   R    I + + RQ +I++  S     +   
Sbjct: 69  ------VQAGLIEEREP-----DSDVLTAIRADHLISE-RQRQVLIDIYESFRKENRAGA 116

Query: 135 TIEE 138
             E+
Sbjct: 117 PDED 120


>gi|228923759|ref|ZP_04087037.1| hypothetical protein bthur0011_47340 [Bacillus thuringiensis
          serovar huazhongensis BGSC 4BD1]
 gi|229076410|ref|ZP_04209375.1| hypothetical protein bcere0024_47140 [Bacillus cereus Rock4-18]
 gi|228706845|gb|EEL59053.1| hypothetical protein bcere0024_47140 [Bacillus cereus Rock4-18]
 gi|228835888|gb|EEM81251.1| hypothetical protein bthur0011_47340 [Bacillus thuringiensis
          serovar huazhongensis BGSC 4BD1]
          Length = 79

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 29/72 (40%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+++    + 
Sbjct: 6  DMKLQNRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAKIFNVSVE 65

Query: 72 FFFDVSPTVCSD 83
            F +      D
Sbjct: 66 EIFTLVEGEEDD 77


>gi|227325994|ref|ZP_03830018.1| putative DNA-binding protein [Pectobacterium carotovorum subsp.
          carotovorum WPP14]
          Length = 201

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 23/53 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR  R  L +S  +L +  G+    + + E GV       L  ++  L+  +S
Sbjct: 31 IRRERERLNLSVTELAKRAGLAKSTLSQLESGVGNPSLETLWALAMALDVQVS 83


>gi|291286562|ref|YP_003503378.1| helix-turn-helix domain protein [Denitrovibrio acetiphilus DSM
          12809]
 gi|290883722|gb|ADD67422.1| helix-turn-helix domain protein [Denitrovibrio acetiphilus DSM
          12809]
          Length = 351

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/47 (29%), Positives = 24/47 (51%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          R++  R   G+SQ +LGE LG++ Q +  +E G       +   I +
Sbjct: 2  RLKELREERGVSQAELGEFLGVSRQTIAAWENGDREPSVLQFSRICK 48


>gi|225175042|ref|ZP_03729039.1| transcriptional regulator, XRE family [Dethiobacter alkaliphilus
          AHT 1]
 gi|225169682|gb|EEG78479.1| transcriptional regulator, XRE family [Dethiobacter alkaliphilus
          AHT 1]
          Length = 65

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++++ R +  ++QE+L + LG+T   V   EKG           ++      +   F
Sbjct: 3  NKLKVYRAMHDLTQEELAKKLGVTRATVNSIEKGRYDPSIKLAFKMARFFAVNVEELF 60


>gi|152982459|ref|YP_001354080.1| Cro/CI family transcriptional regulator [Janthinobacterium sp.
          Marseille]
 gi|151282536|gb|ABR90946.1| transcriptional regulator, Cro/CI family [Janthinobacterium sp.
          Marseille]
          Length = 221

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 30/75 (40%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +++ +G+R+   R   G +Q++L    G T   + K E          L  I++ L + 
Sbjct: 15 DIELRLGRRVSELRTARGYTQDRLASETGFTKGYLSKIENSKIIPPIGTLIKIAQALHTD 74

Query: 70 ISFFFDVSPTVCSDI 84
          ++          SD 
Sbjct: 75 LAELLGTETAERSDA 89


>gi|167645630|ref|YP_001683293.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167348060|gb|ABZ70795.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 64

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 22/61 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R     SQ  L + L ++ Q +   E G           I+ +   PI   F  
Sbjct: 3  NRLKVLRAERDWSQADLADRLEVSRQTINALETGKYDPSLPLAFKIARLFGLPIETIFQD 62

Query: 77 S 77
           
Sbjct: 63 E 63


>gi|150376382|ref|YP_001312978.1| hypothetical protein Smed_4240 [Sinorhizobium medicae WSM419]
 gi|150030929|gb|ABR63045.1| protein of unknown function DUF955 [Sinorhizobium medicae WSM419]
          Length = 472

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+++R  R    ++Q +  E +GI+   + + E     V AS L  ++E  +  I+
Sbjct: 6  LYIGRKVRDLRDGKRLTQAQFAERIGISTSYLNQIENNQRPVSASVLLALAEKFQIDIA 64


>gi|50119905|ref|YP_049072.1| putative regulatory protein [Pectobacterium atrosepticum
          SCRI1043]
 gi|49610431|emb|CAG73876.1| putative regulatory protein [Pectobacterium atrosepticum
          SCRI1043]
          Length = 84

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/53 (33%), Positives = 24/53 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R  R+  GM+QE L   LG     V K E G  R+      HI+ +L    S
Sbjct: 16 LREARIEKGMTQENLANALGRPQSFVAKIENGERRLDVVEFVHIAHLLSVDAS 68


>gi|114564581|ref|YP_752095.1| transcriptional regulator, XRE family protein [Shewanella
          frigidimarina NCIMB 400]
 gi|114335874|gb|ABI73256.1| transcriptional regulator, XRE family protein [Shewanella
          frigidimarina NCIMB 400]
          Length = 68

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          I  G ++R +R  LG+SQ+KL     I      + E+G   +   +   ++EVL   +
Sbjct: 6  IQFGAKLRDKRKTLGISQDKLALLAEIDRSYAGRIERGEVNITLEKAYQLAEVLGCDV 63


>gi|170718165|ref|YP_001785192.1| helix-turn-helix domain-containing protein [Haemophilus somnus
          2336]
 gi|168826294|gb|ACA31665.1| helix-turn-helix domain protein [Haemophilus somnus 2336]
          Length = 134

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 33/58 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +N+ ++IR  R     SQE++ E L ++     K E+G  ++   +L+ I+++L+  +
Sbjct: 1  MNINEKIRRIRESKEWSQEQMAEKLNMSLNGYAKIERGETKLYLDKLEQIAQILDIDV 58


>gi|308174255|ref|YP_003920960.1| post-exponential-phase response transcriptional regulator
          [Bacillus amyloliquefaciens DSM 7]
 gi|307607119|emb|CBI43490.1| transcriptional regulator for post-exponential-phase response
          [Bacillus amyloliquefaciens DSM 7]
 gi|328912595|gb|AEB64191.1| transcriptional regulator for post-exponential-phase response
          [Bacillus amyloliquefaciens LL3]
          Length = 113

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+RI+  R   G S  +L E  G+    +   E+ +        L+ +S VL+  +   
Sbjct: 4  IGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 63

Query: 74 FDVSPTVCSDISSEEN 89
           D       D   +  
Sbjct: 64 LDEKHETEYDGQLDSE 79


>gi|295103897|emb|CBL01441.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii SL3/3]
          Length = 65

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R    M+Q  L E  G++ Q +   EKG      +  + I ++L+  +   F
Sbjct: 6  KLKAARAEKDMTQGALAEAAGVSRQTINAIEKGEYNPTINLCRSICKILDKTLDELF 62


>gi|228901070|ref|ZP_04065279.1| Transcriptional regulator, Xre [Bacillus thuringiensis IBL 4222]
 gi|228858586|gb|EEN03037.1| Transcriptional regulator, Xre [Bacillus thuringiensis IBL 4222]
          Length = 220

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|237808823|ref|YP_002893263.1| transcriptional regulator, XRE family [Tolumonas auensis DSM
          9187]
 gi|237501084|gb|ACQ93677.1| transcriptional regulator, XRE family [Tolumonas auensis DSM
          9187]
          Length = 186

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 29/65 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++   ++L R   G S +K     G++   + + E+G +    + L  I+   E+  S 
Sbjct: 6  RHIAATLQLLRKQRGWSLDKTAAATGVSKAMLGQIERGESSPTVATLWKIATGFETSFST 65

Query: 73 FFDVS 77
          F + S
Sbjct: 66 FLEPS 70


>gi|218670812|ref|ZP_03520483.1| putative transcriptional regulator protein [Rhizobium etli GR56]
          Length = 96

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +++G R+R  R+   +SQ +L +  G+    +   E   +      L+ I +    PI
Sbjct: 1  MSVDIGSRLRHLRIAHKLSQRELAKRTGVPNSTISLIESNASNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF   P            +++ 
Sbjct: 59 GLAEFFAFEPERPKKAFYAAEELVEI 84


>gi|206971702|ref|ZP_03232652.1| transcriptional regulator, XRE family [Bacillus cereus AH1134]
 gi|206733687|gb|EDZ50859.1| transcriptional regulator, XRE family [Bacillus cereus AH1134]
          Length = 292

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|160933026|ref|ZP_02080415.1| hypothetical protein CLOLEP_01868 [Clostridium leptum DSM 753]
 gi|156868100|gb|EDO61472.1| hypothetical protein CLOLEP_01868 [Clostridium leptum DSM 753]
          Length = 118

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 38/87 (43%), Gaps = 3/87 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPISFFFD 75
           +R++ RR  LG S + L     ++   +Q+YE  G+  +  S+L  +S+ LE+   +   
Sbjct: 10  ERLKRRRKELGYSYQDLANLTQMSKSTLQRYETGGIKNIPLSKLDVLSQALETSREWLMG 69

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
                  + SS       F     GL+
Sbjct: 70  WDE--KKEASSASRQSDGFFRLKKGLE 94


>gi|154505562|ref|ZP_02042300.1| hypothetical protein RUMGNA_03101 [Ruminococcus gnavus ATCC
          29149]
 gi|153794220|gb|EDN76640.1| hypothetical protein RUMGNA_03101 [Ruminococcus gnavus ATCC
          29149]
          Length = 107

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 25/55 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++  R    +SQ++L   LGI+   V  YE+G        L  I+++ +    + 
Sbjct: 8  LKTLRTDKHLSQQELATRLGISKSAVSMYEQGRREPDFDILNKIADIFQVDADYL 62


>gi|149189925|ref|ZP_01868204.1| transcriptional regulator, HTH_3 family protein [Vibrio shilonii
          AK1]
 gi|148836240|gb|EDL53198.1| transcriptional regulator, HTH_3 family protein [Vibrio shilonii
          AK1]
          Length = 179

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 29/65 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +   ++  R   G+S +   +  G++   + + E+G +    S L  IS  LE+  S F
Sbjct: 9  QIAAHLKQIRKHKGLSLDATAKLTGVSKAMLGQIERGESSPTISTLWKISSGLEASFSGF 68

Query: 74 FDVSP 78
          F   P
Sbjct: 69 FANDP 73


>gi|157960771|ref|YP_001500805.1| XRE family transcriptional regulator [Shewanella pealeana ATCC
          700345]
 gi|157845771|gb|ABV86270.1| transcriptional regulator, XRE family [Shewanella pealeana ATCC
          700345]
          Length = 182

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ ++  R   G+SQ +L +  G+T   +   EK       S L+ +   L   +  
Sbjct: 1  MDIGENLKRVRKEKGLSQRELAKRAGVTNSTISMIEKNSVSPSVSSLKKVLSGLPMSLVD 60

Query: 73 FFDVSPTVCSD 83
          FF +  +   +
Sbjct: 61 FFSIEDSTLVE 71


>gi|118577270|ref|YP_899510.1| hypothetical protein Ppro_3665 [Pelobacter propionicus DSM 2379]
 gi|118504775|gb|ABL01257.1| protein of unknown function DUF955 [Pelobacter propionicus DSM
          2379]
          Length = 372

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R+ L R    +++  L    G+  + +  YE G     +  +  ++  L  P  FFF
Sbjct: 9  QRLTLARQKRKLTKTVLANSAGVVSRSISAYESGDTIPTSETIMALASALRFPAEFFF 66


>gi|313672662|ref|YP_004050773.1| cupin 2 conserved barrel domain protein [Calditerrivibrio
          nitroreducens DSM 19672]
 gi|312939418|gb|ADR18610.1| Cupin 2 conserved barrel domain protein [Calditerrivibrio
          nitroreducens DSM 19672]
          Length = 181

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 34/65 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++GK+I   RM   ++  +L +  G +   + + E+ +     S L+ I++ LE  + +
Sbjct: 1  MSIGKKIVELRMKKNLTLRQLSKISGCSLGFLSQVERDLVSPTVSSLKKIADALEVNMMY 60

Query: 73 FFDVS 77
          FFD  
Sbjct: 61 FFDSP 65


>gi|170757051|ref|YP_001780215.1| DNA binding protein [Clostridium botulinum B1 str. Okra]
 gi|169122263|gb|ACA46099.1| DNA binding protein [Clostridium botulinum B1 str. Okra]
          Length = 70

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R    M+Q++L + + ++ + +   EKG           I+ V  + I   +
Sbjct: 3  NRVKELRTASNMTQQQLADLVSVSSRTIISLEKGQYNPSIMLAYKIARVFNTTIEELY 60


>gi|86131733|ref|ZP_01050330.1| HTH-type transcriptional regulator [Dokdonia donghaensis MED134]
 gi|85817555|gb|EAQ38729.1| HTH-type transcriptional regulator [Dokdonia donghaensis MED134]
          Length = 251

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 23/60 (38%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            GK IR  R +  +SQ+   E   +    +  YE+G +      +  I+     PI   
Sbjct: 3  FFGKNIRKIRTVKTLSQQSFAELFDLKRGTLGAYEEGRSEPKIDTVIKIANYFSIPIDDL 62


>gi|319646479|ref|ZP_08000708.1| transcriptional regulator [Bacillus sp. BT1B_CT2]
 gi|317391067|gb|EFV71865.1| transcriptional regulator [Bacillus sp. BT1B_CT2]
          Length = 101

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 29/59 (49%), Gaps = 2/59 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G R++  R     +QE++ + +G++  +   YE G +      L+ +++  +  I + 
Sbjct: 2  LGGRLKSLRGKR--TQEEVAKQIGVSRARYSHYENGRSEPDYETLKKLADYYKVTIDYL 58


>gi|306821372|ref|ZP_07454980.1| XRE family transcriptional regulator [Eubacterium yurii subsp.
          margaretiae ATCC 43715]
 gi|304550590|gb|EFM38573.1| XRE family transcriptional regulator [Eubacterium yurii subsp.
          margaretiae ATCC 43715]
          Length = 135

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPISFF 73
          GK+++  R    ++Q +L + LGIT + V  YE    R     +   ++   +  I++ 
Sbjct: 4  GKKLKALREDKNLTQSELAKILGITLKTVSNYETKDMRPRKMEMYEKMANFFDVNINYL 62


>gi|302561872|ref|ZP_07314214.1| cro/CI family transcriptional regulator [Streptomyces griseoflavus
           Tu4000]
 gi|302479490|gb|EFL42583.1| cro/CI family transcriptional regulator [Streptomyces griseoflavus
           Tu4000]
          Length = 200

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/84 (14%), Positives = 28/84 (33%), Gaps = 1/84 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R   G + + L    G++   + + E+         +  I + L   ++   D 
Sbjct: 23  RNVKRWRTERGFTLDTLAARAGVSRGMLIQIEQARTNPSIGTVVKIGDALGVSVTTLLDY 82

Query: 77  SPTVCSDISSEENNVMDFISTPDG 100
                  I   +  V     T +G
Sbjct: 83  ERGPKVRIVPADQAVR-LWHTAEG 105


>gi|296329582|ref|ZP_06872068.1| putative transcriptional regulator [Bacillus subtilis subsp.
          spizizenii ATCC 6633]
 gi|305672779|ref|YP_003864450.1| putative transcriptional regulator [Bacillus subtilis subsp.
          spizizenii str. W23]
 gi|296153325|gb|EFG94188.1| putative transcriptional regulator [Bacillus subtilis subsp.
          spizizenii ATCC 6633]
 gi|305411022|gb|ADM36140.1| putative transcriptional regulator [Bacillus subtilis subsp.
          spizizenii str. W23]
          Length = 72

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 29/56 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G+RIR  R + G +QE   + LGI+   + + E+G     A+ +Q  ++VL     
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKALGISVSILGEIERGNRLPSAAIIQGAADVLNISAD 62


>gi|228921183|ref|ZP_04084513.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|228838499|gb|EEM83810.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
          Length = 292

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|225575392|ref|ZP_03784002.1| hypothetical protein RUMHYD_03482 [Blautia hydrogenotrophica DSM
          10507]
 gi|225037337|gb|EEG47583.1| hypothetical protein RUMHYD_03482 [Blautia hydrogenotrophica DSM
          10507]
          Length = 167

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 11/75 (14%), Positives = 32/75 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+++   R   G SQ++L + L ++ Q +  +E         + + ++++ +  +    
Sbjct: 9  LGEKLMTLRKKSGYSQQELADRLKVSRQTISNWELNQGAPSIGKAKELADIYKISLDDLV 68

Query: 75 DVSPTVCSDISSEEN 89
               V +    E +
Sbjct: 69 GDEVEVVARKKREPD 83


>gi|145593721|ref|YP_001158018.1| helix-turn-helix domain-containing protein [Salinispora tropica
           CNB-440]
 gi|145303058|gb|ABP53640.1| helix-turn-helix domain protein [Salinispora tropica CNB-440]
          Length = 196

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/92 (17%), Positives = 36/92 (39%), Gaps = 8/92 (8%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N ++  +  R+R  R  LG S ++L     ++   + + E G   +    L  ++  L  
Sbjct: 5   NEIEKVIRTRLRALRTTLGFSLDELAARTNLSPSTISRIETGKRTISLDVLLPLAAALHV 64

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
            +            D+ ++E+ V+  +    G
Sbjct: 65  DLDSLL--------DVRNDEDVVIRPMPDRGG 88


>gi|299132768|ref|ZP_07025963.1| transcriptional regulator, XRE family [Afipia sp. 1NLS2]
 gi|298592905|gb|EFI53105.1| transcriptional regulator, XRE family [Afipia sp. 1NLS2]
          Length = 117

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/86 (20%), Positives = 34/86 (39%), Gaps = 5/86 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ +  RR  L ++Q  L   +GI+   +   E G   V    +  ++  LE     F  
Sbjct: 11  GQAVATRRKGLNLTQATLAARVGISRASIANIESGRQNVLLHHVYRLASALE-----FSK 65

Query: 76  VSPTVCSDISSEENNVMDFISTPDGL 101
           VS  + +         +D I + + +
Sbjct: 66  VSDLLPAQPKPATQEDLDMILSDETV 91


>gi|317130604|ref|YP_004096886.1| XRE family transcriptional regulator [Bacillus cellulosilyticus
          DSM 2522]
 gi|315475552|gb|ADU32155.1| transcriptional regulator, XRE family [Bacillus cellulosilyticus
          DSM 2522]
          Length = 70

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 29/67 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R   G SQ +L + +G+T Q +   EKG      +    +++ L+  +   F +
Sbjct: 4  NRVKELRARHGFSQTELAQRVGVTRQTIGFIEKGDFSPSIALSLRLAKHLDVRVDELFWL 63

Query: 77 SPTVCSD 83
                +
Sbjct: 64 DEEDIDE 70


>gi|260219700|emb|CBA26545.1| hypothetical protein Csp_E36330 [Curvibacter putative symbiont of
           Hydra magnipapillata]
          Length = 117

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 21/100 (21%), Positives = 49/100 (49%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            ++G+ ++LRR    M+Q+++G  +GI  + V + E+G+      RL  ++++ +  I  
Sbjct: 12  KSIGRTLQLRREATSMNQDEVGLAIGIGKEAVSRMERGITMPTVQRLAELADLYKCGIDE 71

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
               S T  +D +   + +M+ +   D   +     +I +
Sbjct: 72  LLIESSTRTNDQAELISKIMNTLPDADRAMIVEVVQRIAE 111


>gi|323342820|ref|ZP_08083052.1| XRE family transcriptional regulator [Erysipelothrix
          rhusiopathiae ATCC 19414]
 gi|322463932|gb|EFY09126.1| XRE family transcriptional regulator [Erysipelothrix
          rhusiopathiae ATCC 19414]
          Length = 68

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 24/56 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR +R  LG +Q+   E +G++ Q V   EKG            S VL   +   F
Sbjct: 6  IRDKREALGYTQQFFAEQVGVSRQTVIALEKGSYNPSLELAFKCSIVLNCTLDGLF 61


>gi|169830949|ref|YP_001716931.1| XRE family transcriptional regulator [Candidatus Desulforudis
          audaxviator MP104C]
 gi|169637793|gb|ACA59299.1| transcriptional regulator, XRE family [Candidatus Desulforudis
          audaxviator MP104C]
          Length = 83

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 23/56 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R+  G++Q +L   +GI+       EKG           I+ VL   +   F
Sbjct: 8  LRSVRLRAGLTQAELARRVGISRTAYTNIEKGHKHPSLVTALRIARVLNEHVEDLF 63


>gi|154496785|ref|ZP_02035481.1| hypothetical protein BACCAP_01078 [Bacteroides capillosus ATCC
          29799]
 gi|150274037|gb|EDN01137.1| hypothetical protein BACCAP_01078 [Bacteroides capillosus ATCC
          29799]
          Length = 94

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G  I+  R   G SQ  L + L +T   V  +E G++      +  I+++      +
Sbjct: 2  IGDTIKRLREDAGFSQSALAKKLNVTRSAVNAWEMGLSVPTTQYVVDIAKLFRVSADY 59


>gi|145596662|ref|YP_001160959.1| helix-turn-helix domain-containing protein [Salinispora tropica
          CNB-440]
 gi|145305999|gb|ABP56581.1| helix-turn-helix domain protein [Salinispora tropica CNB-440]
          Length = 191

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 27/63 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R++  R   G++  +L E  GI+   + + E G  +     L  I+     P+    
Sbjct: 12 IGPRLKRARAQRGVTLAELAEATGISKSTLSRLEAGQRKPSLELLLPIAAAHRIPLDKLV 71

Query: 75 DVS 77
          DV 
Sbjct: 72 DVP 74


>gi|147920125|ref|YP_686112.1| putative transcription regulator [uncultured methanogenic
          archaeon RC-I]
 gi|110621508|emb|CAJ36786.1| putative transcription regulator [uncultured methanogenic
          archaeon RC-I]
          Length = 68

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 27/65 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R    M+QE L + +G+  + +   EKG           +++VL + I   F   
Sbjct: 4  RIKEYRAKYDMTQEDLAQKVGVRRETIVFLEKGKYNPSLKLAHDVAKVLNAKIDELFIFD 63

Query: 78 PTVCS 82
              +
Sbjct: 64 DETDA 68


>gi|84500123|ref|ZP_00998389.1| ribonucleoside-diphosphate reductase, putative [Oceanicola
           batsensis HTCC2597]
 gi|84392057|gb|EAQ04325.1| ribonucleoside-diphosphate reductase, putative [Oceanicola
           batsensis HTCC2597]
          Length = 830

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 22/130 (16%), Positives = 49/130 (37%), Gaps = 23/130 (17%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R+R  R  +G++ ++L    G++   + + E G   +          VL    S+   
Sbjct: 573 GERLRSARKAVGLTLDELKVKTGLSKSYLSEMENGAKEIQRKHAVGFGPVLGVEPSWLLF 632

Query: 76  VSPTVCSDISSEEN----------NVMDFISTPDGLQLNRY-----------FIQIDDVK 114
                   +++ +            + D +  P  L+ N Y           ++ I+D+ 
Sbjct: 633 GKENAPETLATTDAAPLQPHGDVVYMQDPLDRPQTLEGNTYKLKWPDSEHAIYLTINDIV 692

Query: 115 V--RQKIIEL 122
           V  R++  E+
Sbjct: 693 VGGRRRPFEV 702


>gi|324993115|gb|EGC25035.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK405]
 gi|324995581|gb|EGC27493.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK678]
 gi|327461381|gb|EGF07712.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1]
 gi|327489239|gb|EGF21032.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1058]
 gi|332361469|gb|EGJ39273.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1056]
          Length = 94

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GK+++  R   G SQ ++ E LG T Q +  +E     + ++ L  +++  +  + 
Sbjct: 2  LGKQLKFIREQRGYSQAQIAESLGTTRQTISNWENDKTILDSASLIRLADFYQISLD 58


>gi|300694645|ref|YP_003750618.1| transcriptional regulator, xre family [Ralstonia solanacearum
          PSI07]
 gi|299076682|emb|CBJ36021.1| putative transcriptional regulator, XRE family [Ralstonia
          solanacearum PSI07]
          Length = 216

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 24/55 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
            VG RIR  R  LG++   L E  G+    + K E+G   +   +   ++  L 
Sbjct: 24 KEVGARIREARKALGLTLSALSERSGVALSTISKAERGDIALTYEKFAGLAHALG 78


>gi|296105405|ref|YP_003615551.1| XRE family transcriptional regulator [Enterobacter cloacae subsp.
           cloacae ATCC 13047]
 gi|295059864|gb|ADF64602.1| XRE family transcriptional regulator [Enterobacter cloacae subsp.
           cloacae ATCC 13047]
          Length = 182

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 19/118 (16%), Positives = 41/118 (34%), Gaps = 7/118 (5%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +  P+ + + K +   R+  G+S  ++    GI    + + E G        L  +   L
Sbjct: 1   MTQPISV-IAKSLVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVAL 59

Query: 67  ESPISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           + P +   +   PT       E   V+   +  + + L            R+ +  L+
Sbjct: 60  DIPFARLLEPQQPTTQVIRRGEGTKVVAGQANYEAILLAAC-----PPGARRDVYLLI 112


>gi|289450421|ref|YP_003474597.1| Xre family toxin-antitoxin system antitoxin protein
          [Clostridiales genomosp. BVAB3 str. UPII9-5]
 gi|289184968|gb|ADC91393.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridiales genomosp. BVAB3 str. UPII9-5]
          Length = 71

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 25/62 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + V  +I   R  +G++Q KL   +G+  + +  YE             I +VL   I  
Sbjct: 4  LEVDNKICEYRKAMGLTQHKLARAVGLKRRSIMAYENKTISPTIETAYKICQVLGRDIKE 63

Query: 73 FF 74
           F
Sbjct: 64 VF 65


>gi|291299515|ref|YP_003510793.1| XRE family transcriptional regulator [Stackebrandtia nassauensis
           DSM 44728]
 gi|290568735|gb|ADD41700.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis
           DSM 44728]
          Length = 388

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 21/102 (20%), Positives = 37/102 (36%), Gaps = 4/102 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R+  RR   G SQEKL E LG+    V ++E             +++ L         +
Sbjct: 6   SRLAQRRKAAGFSQEKLAERLGVERSTVVRWETAETEPQPWLRLKLAQALGITTDDLHVL 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNR-YFIQIDDVKVRQ 117
              V    +   + +   +  P  + L    ++     +VRQ
Sbjct: 66  LDDVEYVTAGPSDRMDYVLEHPASVDLVAVAYLH---ERVRQ 104


>gi|228912350|ref|ZP_04076044.1| hypothetical protein bthur0013_64220 [Bacillus thuringiensis IBL
          200]
 gi|228847298|gb|EEM92258.1| hypothetical protein bthur0013_64220 [Bacillus thuringiensis IBL
          200]
          Length = 108

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/81 (18%), Positives = 31/81 (38%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++ KR+   R   G +Q  +   L I       +E G     A  + +++E+    I   
Sbjct: 3  HLSKRLAELRKKQGYTQFDVAYRLNIARTTYANWEYGKADPDADSIMNLAEIYNVSIDEL 62

Query: 74 FDVSPTVCSDISSEENNVMDF 94
          F  +  + S +   +  + D 
Sbjct: 63 FGRNAPLESKLEQIKVAISDL 83


>gi|228943194|ref|ZP_04105662.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228975981|ref|ZP_04136501.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228979104|ref|ZP_04139452.1| Transcriptional regulator, Xre [Bacillus thuringiensis Bt407]
 gi|228780630|gb|EEM28849.1| Transcriptional regulator, Xre [Bacillus thuringiensis Bt407]
 gi|228783738|gb|EEM31797.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228816473|gb|EEM62630.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|326940189|gb|AEA16085.1| XRE family transcriptional regulator [Bacillus thuringiensis
          serovar chinensis CT-43]
          Length = 292

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|257785024|ref|YP_003180241.1| XRE family plasmid maintenance system antidote protein [Atopobium
           parvulum DSM 20469]
 gi|257473531|gb|ACV51650.1| plasmid maintenance system antidote protein, XRE family [Atopobium
           parvulum DSM 20469]
          Length = 197

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/91 (18%), Positives = 34/91 (37%), Gaps = 8/91 (8%)

Query: 29  SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEE 88
           + + LGE +G+  Q + +Y  G  +  A  +  I++     + +           +  E 
Sbjct: 35  TYKDLGEAVGVRQQTISQYAAGQTQPTADVVLRIAQFFGVSVDYMLTGISAYNRSLHEEL 94

Query: 89  NNVMDFISTPDGLQLNRY---FIQIDDVKVR 116
               + IS      L R    + Q+D  + R
Sbjct: 95  GLSEEAIS-----HLKRARDIYPQVDPDRTR 120


>gi|159039221|ref|YP_001538474.1| XRE family transcriptional regulator [Salinispora arenicola
          CNS-205]
 gi|157918056|gb|ABV99483.1| transcriptional regulator, XRE family [Salinispora arenicola
          CNS-205]
          Length = 402

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLES 68
          G+RI+L R   G++QE   +  G+T    +K+E G   V   S    I+ +L  
Sbjct: 12 GQRIKLYRRRAGLTQEVCAQLKGVTVSAWRKWESGERSVNTLSDWVDIARILRV 65


>gi|70727102|ref|YP_254016.1| hypothetical protein SH2101 [Staphylococcus haemolyticus
          JCSC1435]
 gi|68447826|dbj|BAE05410.1| unnamed protein product [Staphylococcus haemolyticus JCSC1435]
          Length = 305

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 30/51 (58%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +GKRI+  R+ +G +Q + G+    +   V  +EKGV+   A RL+ I+ +
Sbjct: 7  IGKRIKEIRLKIGKTQTQFGDLFSASKGNVATWEKGVSLPNAKRLKEIARL 57


>gi|52421239|ref|YP_087151.1| hypothetical protein BFp0025 [Bacteroides fragilis YCH46]
 gi|254885261|ref|ZP_05257971.1| transcriptional regulator [Bacteroides sp. 4_3_47FAA]
 gi|255016592|ref|ZP_05288718.1| hypothetical protein B2_22006 [Bacteroides sp. 2_1_7]
 gi|319644450|ref|ZP_07998883.1| hypothetical protein HMPREF9011_04486 [Bacteroides sp. 3_1_40A]
 gi|52218760|dbj|BAD51352.1| conserved hypothetical protein [Bacteroides fragilis YCH46]
 gi|194022233|gb|ACF32649.1| BUN24p11.7 [Bacteroides uniformis]
 gi|254838054|gb|EET18363.1| transcriptional regulator [Bacteroides sp. 4_3_47FAA]
 gi|317384091|gb|EFV65068.1| hypothetical protein HMPREF9011_04486 [Bacteroides sp. 3_1_40A]
          Length = 104

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 4/53 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G+ I+  R    ++QE+LG  +G+   Q+ + E G N         I+ V +
Sbjct: 37 IGEAIKQARQSKNLTQEELGNLIGVQRAQISRIENGKN----LTFSTIARVFK 85


>gi|172057454|ref|YP_001813914.1| XRE family transcriptional regulator [Exiguobacterium sibiricum
          255-15]
 gi|171989975|gb|ACB60897.1| transcriptional regulator, XRE family [Exiguobacterium sibiricum
          255-15]
          Length = 69

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G +QE+  + +G+T Q +   EKG           I+ V E P+   F
Sbjct: 5  NRVKSLRSSNGWTQEQFAQMIGVTRQTIISLEKGSYTPSLLLAMQITRVFERPVESIF 62


>gi|326445242|ref|ZP_08219976.1| regulatory protein [Streptomyces clavuligerus ATCC 27064]
          Length = 305

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 29/60 (48%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          PN     +G R+   R   G+S E+ GE  G++   V +YE+G   V  +++  +  V  
Sbjct: 16 PNARRRQLGYRLLELRNASGLSAEQAGEAAGVSKATVSRYERGKGNVRWNQVDQLCRVYG 75


>gi|312865005|ref|ZP_07725233.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
 gi|311099116|gb|EFQ57332.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
          Length = 69

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R +  +SQ  L   +G+  Q +   E G           +++ L++ ++  F
Sbjct: 2  NRVKEFRQLKKLSQLALAREIGVARQTINLIENGKYNPSLELCIKLAKSLDTDLNSLF 59


>gi|302521428|ref|ZP_07273770.1| DNA-binding protein [Streptomyces sp. SPB78]
 gi|302430323|gb|EFL02139.1| DNA-binding protein [Streptomyces sp. SPB78]
          Length = 275

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG  +R  R     SQ++L +  G++ + + + E G  R     L H+SE L+ P+
Sbjct: 10 VGALLRTWRERRRYSQQELSDRSGVSTRHLSRVETGKARPTPEMLVHLSENLDLPL 65


>gi|288818628|ref|YP_003432976.1| transcriptional regulator of molybdate metabolism
          [Hydrogenobacter thermophilus TK-6]
 gi|288788028|dbj|BAI69775.1| transcriptional regulator of molybdate metabolism
          [Hydrogenobacter thermophilus TK-6]
 gi|308752218|gb|ADO45701.1| transcriptional regulator of molybdate metabolism, XRE family
          [Hydrogenobacter thermophilus TK-6]
          Length = 336

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 24/62 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +++  R+  G+SQE+L +  G+    +   E G           +S+ L   +   F  
Sbjct: 3  NKVKEYRLKRGLSQEELAKLCGMPRSTLSAIESGRAVPSVEYAIKLSKALGCTVEELFGE 62

Query: 77 SP 78
            
Sbjct: 63 EE 64


>gi|224542029|ref|ZP_03682568.1| hypothetical protein CATMIT_01202 [Catenibacterium mitsuokai DSM
          15897]
 gi|224525086|gb|EEF94191.1| hypothetical protein CATMIT_01202 [Catenibacterium mitsuokai DSM
          15897]
          Length = 101

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 27/57 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          G+R+R  R+ +G SQE++   +      + KYE G        L  + E+  +  ++
Sbjct: 2  GERLRKARLKMGYSQEEVARRIDTHRTTIGKYENGECEPSIKVLAKLIEIYCTDANY 58


>gi|206562125|ref|YP_002232888.1| repressor protein [Burkholderia cenocepacia J2315]
 gi|198038165|emb|CAR54116.1| repressor protein [Burkholderia cenocepacia J2315]
          Length = 99

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 4/70 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R+   ++QE+LG   GI       +V +YEKG +       Q ++  L  P SF
Sbjct: 4  KRLKQARLRTDLTQEQLGILAGIDEFSASARVNQYEKGKHAPTVQTSQRLARALLIPTSF 63

Query: 73 FFDVSPTVCS 82
           ++    + +
Sbjct: 64 LYEEDDLLAN 73


>gi|187476767|ref|YP_784791.1| transcriptional regulator [Bordetella avium 197N]
 gi|115421353|emb|CAJ47858.1| putative transcriptional regulator [Bordetella avium 197N]
          Length = 131

 Score = 50.6 bits (120), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 21/108 (19%), Positives = 44/108 (40%), Gaps = 8/108 (7%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+R  R++ G +Q+ L    G++   +  YE G  R  +  ++ ++ VL   + +     
Sbjct: 7   RLREARVLRGYTQQSLARVAGLSQSAIASYESGR-RQSSRAMRQLARVLRVRLDWLETGQ 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
               +  S    +   +    +  QL     QI     R  + +L+R+
Sbjct: 66  GPRDASPSFLLQDATSYCI--EEAQL-----QILQPHERSILEQLIRT 106


>gi|324329079|gb|ADY24339.1| transcriptional regulator [Bacillus thuringiensis serovar
          finitimus YBT-020]
          Length = 300

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          N+G++I+  R   G S+++L E +      + + EKG+       LQ+I   L  PI +
Sbjct: 3  NIGEKIQFFRKKSGYSRQQLAEDI-CDTSTLYRIEKGLQSPRLDILQNICTKLNIPIDY 60


>gi|306838646|ref|ZP_07471482.1| XRE family transcriptional regulator [Brucella sp. NF 2653]
 gi|306406289|gb|EFM62532.1| XRE family transcriptional regulator [Brucella sp. NF 2653]
          Length = 182

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 37/86 (43%), Gaps = 4/86 (4%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + I++G R+R  RM   +SQ +L +  G+T   +   E   +      L+ I +    PI
Sbjct: 1  MSIDIGGRLRYVRMRQNLSQRELAKRAGVTNSTISLIEANQSNPSVGALKRILD--GIPI 58

Query: 71 SF--FFDVSPTVCSDISSEENNVMDF 94
              FF + P     +  +   +++ 
Sbjct: 59 GMAEFFALEPDAPHRVFYQTEELVEI 84


>gi|258620564|ref|ZP_05715601.1| Helix-turn-helix domain protein [Vibrio mimicus VM573]
 gi|258587079|gb|EEW11791.1| Helix-turn-helix domain protein [Vibrio mimicus VM573]
          Length = 362

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 1/64 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+   G++++L R+  G+S   +GE L +T Q   + E   +    ++++ +S +L    
Sbjct: 6  VNRFNGEQLKLARVAAGLSLADVGEALQVTRQYASRLENNAS-PSDAQIELLSSLLSVHT 64

Query: 71 SFFF 74
          SFFF
Sbjct: 65 SFFF 68


>gi|229186773|ref|ZP_04313930.1| Transcription regulator [Bacillus cereus BGSC 6E1]
 gi|228596708|gb|EEK54371.1| Transcription regulator [Bacillus cereus BGSC 6E1]
          Length = 137

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 33/79 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + K I   R    +SQE+L   +G+T Q + K+E+         L  +SE +   +  
Sbjct: 3  MKISKSILDYRKRNNLSQEQLASKIGVTRQAISKWEQEKGTPDIENLILLSEEMNISLDN 62

Query: 73 FFDVSPTVCSDISSEENNV 91
              +  +   I + E  +
Sbjct: 63 LIKGNNGIKERIMNNEKAI 81


>gi|254489648|ref|ZP_05102850.1| transcriptional Regulator, XRE family with Cupin sensor domain
          [Roseobacter sp. GAI101]
 gi|214041818|gb|EEB82459.1| transcriptional Regulator, XRE family with Cupin sensor domain
          [Roseobacter sp. GAI101]
          Length = 189

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 37/86 (43%), Gaps = 3/86 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +V + +++ R+   +SQ  L E  GI+ + +   E G   +  S L  ++  L      F
Sbjct: 16 HVSENLKVHRLAARLSQSALAEASGISRRMIVAVETGDANISLSSLDKLAAALGLT---F 72

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
           D+         +E N VM   + P+
Sbjct: 73 TDLIRDPSQPSRNEVNEVMWRGAHPE 98


>gi|195978947|ref|YP_002124191.1| putative HTH-type transcriptional regulator [Streptococcus equi
          subsp. zooepidemicus MGCS10565]
 gi|225869400|ref|YP_002745348.1| DNA-binding protein [Streptococcus equi subsp. zooepidemicus]
 gi|225871398|ref|YP_002747345.1| DNA-binding protein [Streptococcus equi subsp. equi 4047]
 gi|195975652|gb|ACG63178.1| putative HTH-type transcriptional regulator [Streptococcus equi
          subsp. zooepidemicus MGCS10565]
 gi|225700802|emb|CAW95495.1| putative DNA-binding protein [Streptococcus equi subsp. equi
          4047]
 gi|225702676|emb|CAX00774.1| putative DNA-binding protein [Streptococcus equi subsp.
          zooepidemicus]
          Length = 67

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 24/61 (39%), Gaps = 2/61 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI+  R   G+SQ  L + + +T Q +   EKG           ++      I   F F
Sbjct: 3  NRIQELRKSRGISQADLADMMCVTRQTIISLEKGRYNASLELAYKLATFFNLTIEDVFLF 62

Query: 75 D 75
          +
Sbjct: 63 E 63


>gi|170695594|ref|ZP_02886738.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia graminis C4D1M]
 gi|170139581|gb|EDT07765.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia graminis C4D1M]
          Length = 311

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/113 (15%), Positives = 42/113 (37%), Gaps = 5/113 (4%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           PV + +G+R+RL R   GM++  L     ++ + +   E G        L  +++ L   
Sbjct: 17  PVLVALGERVRLLRARRGMTRRDLAHQSNVSERHLANLEMGSGNASLLVLAQLAQTLGCS 76

Query: 70  ISFFFDVSPTVCSDISS-----EENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           ++       +  ++         +        + + L+ +      D  + R+
Sbjct: 77  VAALVGDPLSCSAEGEQILELLRDQPPAALQHSLETLRQSLAARSADPGRYRR 129


>gi|89101060|ref|ZP_01173900.1| probable transcriptional regulator [Bacillus sp. NRRL B-14911]
 gi|89084233|gb|EAR63394.1| probable transcriptional regulator [Bacillus sp. NRRL B-14911]
          Length = 71

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G SQ++L   LG++ Q +   EKG           I++  ++ I   F
Sbjct: 3  NNLAELRKKHGFSQDRLAVRLGVSRQTIISIEKGKYSPSLPLAFQIAKTFDTTIEHIF 60


>gi|322436278|ref|YP_004218490.1| helix-turn-helix domain protein [Acidobacterium sp. MP5ACTX9]
 gi|321164005|gb|ADW69710.1| helix-turn-helix domain protein [Acidobacterium sp. MP5ACTX9]
          Length = 70

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+RIR  R+  G  Q  L E  G+    +   E+G + VG  RL+ I   L+S +S
Sbjct: 8  LGQRIRDLRIARGWRQIDLAEHSGVHEVHLSLLERGKHEVGVQRLKDIVTALDSSLS 64


>gi|311063744|ref|YP_003970469.1| transcriptional regulator [Bifidobacterium bifidum PRL2010]
 gi|310866063|gb|ADP35432.1| Transcriptional regulator [Bifidobacterium bifidum PRL2010]
          Length = 415

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 24/56 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++  R    M+QE+L   LG++ Q + K+E         +L  I ++    +   
Sbjct: 6  NLQYLRAQRNMTQERLAMLLGVSRQAISKWESEKAYPEMDKLLMICDLFGCTLDDL 61


>gi|310286841|ref|YP_003938099.1| transcriptional regulator with helix-turn-helix domain
          [Bifidobacterium bifidum S17]
 gi|309250777|gb|ADO52525.1| Transcriptional regulator with helix-turn-helix domain
          [Bifidobacterium bifidum S17]
          Length = 415

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 24/56 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++  R    M+QE+L   LG++ Q + K+E         +L  I ++    +   
Sbjct: 6  NLQYLRAQRNMTQERLAMLLGVSRQAISKWESEKAYPEMDKLLMICDLFGCTLDDL 61


>gi|309774761|ref|ZP_07669783.1| toxin-antitoxin system, antitoxin component, Xre family
           [Erysipelotrichaceae bacterium 3_1_53]
 gi|308917446|gb|EFP63164.1| toxin-antitoxin system, antitoxin component, Xre family
           [Erysipelotrichaceae bacterium 3_1_53]
          Length = 118

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 28/121 (23%), Positives = 51/121 (42%), Gaps = 10/121 (8%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
           K    +++ VG  IR      GM+Q++L   +G T + +  Y  G  +     L  I  +
Sbjct: 2   KKVTEINLKVGDAIRKGLQRKGMTQKELAMLVGSTQRSISSYINGNAQPPLDILSLICRI 61

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
           LE  ++    +          + N     +  P  L++ + F Q+ D K R    +L++S
Sbjct: 62  LEINMNQILQIP---------DYNFPGRMLHDPLELEVMKVFDQVPDEK-RITFTKLMKS 111

Query: 126 I 126
           I
Sbjct: 112 I 112


>gi|224282399|ref|ZP_03645721.1| Xre-type transcriptional regulator [Bifidobacterium bifidum NCIMB
          41171]
 gi|313139541|ref|ZP_07801734.1| conserved hypothetical protein [Bifidobacterium bifidum NCIMB
          41171]
 gi|313132051|gb|EFR49668.1| conserved hypothetical protein [Bifidobacterium bifidum NCIMB
          41171]
          Length = 415

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 24/56 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++  R    M+QE+L   LG++ Q + K+E         +L  I ++    +   
Sbjct: 6  NLQYLRAQRNMTQERLAMLLGVSRQAISKWESEKAYPEMDKLLMICDLFGCTLDDL 61


>gi|254509760|ref|ZP_05121827.1| DNA-binding protein [Rhodobacteraceae bacterium KLH11]
 gi|221533471|gb|EEE36459.1| DNA-binding protein [Rhodobacteraceae bacterium KLH11]
          Length = 172

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 28/61 (45%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
          R   G++  ++   LG +   + + E+ ++    S L+ I+E L  P+S  F  S     
Sbjct: 2  RKARGLTLTEIAAKLGRSVGWLSQVERDMSAPSISDLRQIAECLGVPMSMLFAHSAAPAE 61

Query: 83 D 83
          +
Sbjct: 62 E 62


>gi|210635363|ref|ZP_03298499.1| hypothetical protein COLSTE_02430 [Collinsella stercoris DSM 13279]
 gi|210158426|gb|EEA89397.1| hypothetical protein COLSTE_02430 [Collinsella stercoris DSM 13279]
          Length = 224

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 3/71 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYE---KGVNRVGASRLQHISEVLESPISFFF 74
           R+   R  LG+SQ +L    G++ + +Q YE   K +NR     +  ++ VL   I    
Sbjct: 152 RLAKMRKRLGLSQRELAYRAGVSLRSIQMYEQRNKDINRAQVGSVAELARVLHCCIEDLL 211

Query: 75  DVSPTVCSDIS 85
           +V      +  
Sbjct: 212 EVDVGQLDNGG 222


>gi|297204896|ref|ZP_06922293.1| transcriptional regulator [Streptomyces sviceus ATCC 29083]
 gi|197711669|gb|EDY55703.1| transcriptional regulator [Streptomyces sviceus ATCC 29083]
          Length = 135

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 25/139 (17%), Positives = 57/139 (41%), Gaps = 17/139 (12%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + +  +P    +G+R++  R  L MSQ+ + +  GI    +   E+G  RV +  L+ ++
Sbjct: 7   DARARDPELTQLGERLKRTRDYLNMSQQFVSDNTGIPRSAISDIERGERRVDSLELKKLA 66

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
            +   P+++F        +   +                L R   Q+ D   ++ ++E  
Sbjct: 67  RLYRQPVAYFLAEEENADAGEYALAG-------------LPRALAQLTDGD-QKTVMEFA 112

Query: 124 RSIV---SSEKKYRTIEEE 139
             +    ++EK+    E +
Sbjct: 113 EYLSLRRAAEKEQEGSENQ 131


>gi|167747593|ref|ZP_02419720.1| hypothetical protein ANACAC_02314 [Anaerostipes caccae DSM 14662]
 gi|239623031|ref|ZP_04666062.1| predicted protein [Clostridiales bacterium 1_7_47_FAA]
 gi|167652955|gb|EDR97084.1| hypothetical protein ANACAC_02314 [Anaerostipes caccae DSM 14662]
 gi|239522610|gb|EEQ62476.1| predicted protein [Clostridiales bacterium 1_7_47FAA]
          Length = 120

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 34/82 (41%), Gaps = 5/82 (6%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+ + IR  R   G + EKL E  G++   + K E G+  +      ++ E L       
Sbjct: 6  NIAQNIRTLREERGYTIEKLAERAGVSANHMSKVENGLRNLSMESYLNVLEALNV----- 60

Query: 74 FDVSPTVCSDISSEENNVMDFI 95
          + V         ++E  ++ FI
Sbjct: 61 YPVLIESSDIGDTKEQYILAFI 82


>gi|81427850|ref|YP_394849.1| XRE family DNA-binding protein [Lactobacillus sakei subsp. sakei
          23K]
 gi|78609491|emb|CAI54537.1| Putative DNA-binding protein, XRE family [Lactobacillus sakei
          subsp. sakei 23K]
          Length = 251

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/73 (19%), Positives = 31/73 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G +I+  R+    +Q  L + L ++   V  +E G N      +  IS++    +  
Sbjct: 1  MNIGHQIKQNRLKREWTQGYLAQLLNVSRSTVSSWEVGRNYPDLETIVAISDLFAISLDK 60

Query: 73 FFDVSPTVCSDIS 85
                 +  ++S
Sbjct: 61 LLREDSVMTKEVS 73


>gi|134298751|ref|YP_001112247.1| XRE family transcriptional regulator [Desulfotomaculum reducens
           MI-1]
 gi|134051451|gb|ABO49422.1| transcriptional regulator, XRE family [Desulfotomaculum reducens
           MI-1]
          Length = 218

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 41/110 (37%), Gaps = 18/110 (16%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G RI+  R   G+S  +L    G+    +   E G  +     ++ I   L   ++ 
Sbjct: 1   MDIGSRIKKLRTYQGLSMNELSRRSGVAQSHLSYVESGQRQPTFDVIERICSGLGLSVAE 60

Query: 73  FF------------------DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           FF                  +V     S +S  +N   +F  T + L+L 
Sbjct: 61  FFNEGFMPSPYSSDINSLVNEVQNLKPSQVSLIKNIATEFSLTNEELELA 110


>gi|77405835|ref|ZP_00782918.1| conserved hypothetical protein [Streptococcus agalactiae H36B]
 gi|77409763|ref|ZP_00786418.1| transcription regulator, probable -related protein [Streptococcus
          agalactiae COH1]
 gi|77171623|gb|EAO74837.1| transcription regulator, probable -related protein [Streptococcus
          agalactiae COH1]
 gi|77175545|gb|EAO78331.1| conserved hypothetical protein [Streptococcus agalactiae H36B]
          Length = 79

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R+   +SQ  L + +G+  Q +   E             ++E L++ ++  F
Sbjct: 16 NRLREYRIKASISQLALAKSVGVARQTINLIENNKYNPSLDLCIRLAECLQTDLNTLF 73


>gi|320012087|gb|ADW06937.1| Cupin 2 conserved barrel domain protein [Streptomyces flavogriseus
           ATCC 33331]
          Length = 194

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 9/84 (10%), Positives = 28/84 (33%), Gaps = 2/84 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R   G + + L    G++   + + E+            +++ L   I+   D 
Sbjct: 13  RNLKRWRGERGFTLDALAARAGVSRGMIIQIEQARTNPSVGTTVKLADALGVSITTLLDY 72

Query: 77  SPTVCSDISSEENNVMDFISTPDG 100
                  +   +  V   + + + 
Sbjct: 73  EQGSQVRLVPADQMVR--LWSTEA 94


>gi|256397796|ref|YP_003119360.1| XRE family transcriptional regulator [Catenulispora acidiphila DSM
           44928]
 gi|256364022|gb|ACU77519.1| transcriptional regulator, XRE family [Catenulispora acidiphila DSM
           44928]
          Length = 223

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 27/65 (41%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R++  R    ++   L +  GI+   + + E G+ R    +L  ++      +    
Sbjct: 42  VGPRLKRLRQRSDITLTDLAKKTGISASTLSRLEAGLRRPTLEQLLPLARAHGVTLDELV 101

Query: 75  DVSPT 79
           D  PT
Sbjct: 102 DAPPT 106


>gi|256377098|ref|YP_003100758.1| XRE family transcriptional regulator [Actinosynnema mirum DSM
           43827]
 gi|255921401|gb|ACU36912.1| transcriptional regulator, XRE family [Actinosynnema mirum DSM
           43827]
          Length = 188

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 22/117 (18%), Positives = 48/117 (41%), Gaps = 20/117 (17%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D  V KR+R  R+  G S + L     ++   + + E G  R+   +L  +++ L++ +
Sbjct: 8   LDSLVRKRVRALRLAQGWSLDDLATRAKLSPSTLSRIENGQRRLALDQLVTLAKALDTSL 67

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQL---NRYFIQIDDVKV---RQKIIE 121
               +         ++ E+ V   +  P    L    R      D  +   RQ++++
Sbjct: 68  DQLVE---------TAAEDVVTSPVHDPSHQALRWALRA-----DPGMSVIRQRLVD 110


>gi|283796253|ref|ZP_06345406.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium sp. M62/1]
 gi|291076190|gb|EFE13554.1| toxin-antitoxin system, antitoxin component, Xre family
           [Clostridium sp. M62/1]
          Length = 270

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 19/108 (17%), Positives = 46/108 (42%), Gaps = 10/108 (9%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFFFD 75
           +R+   R   G++ E+L +  GI+   +  YE   N+ +    L  +++  E  I + F 
Sbjct: 9   ERLWELRKDKGLNLEELSQKTGISKSALASYESDDNKEINHGSLIALADFYEVSIDYLF- 67

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
                  +       + +   T + ++L +   +I++    + + E+V
Sbjct: 68  ---CRTENREQINTPLSELHLTDEAVELLKS-GRINN----RLLCEIV 107


>gi|212633084|ref|YP_002309609.1| hypothetical protein swp_0179 [Shewanella piezotolerans WP3]
 gi|212554568|gb|ACJ27022.1| hypothetical protein swp_0179 [Shewanella piezotolerans WP3]
          Length = 240

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 27/68 (39%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+I+  R    +SQ +L E +GI    + K E   +       + +   L    + 
Sbjct: 1  MTLGKQIKHYRTARDLSQPELAEMMGIEQSYLSKLENDKSIPSNDVFRSLLTALSVNTTE 60

Query: 73 FFDVSPTV 80
          F     T 
Sbjct: 61 FLGGIDTQ 68


>gi|210608500|ref|ZP_03287876.1| hypothetical protein CLONEX_00055 [Clostridium nexile DSM 1787]
 gi|210152991|gb|EEA83997.1| hypothetical protein CLONEX_00055 [Clostridium nexile DSM 1787]
          Length = 119

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 31/73 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N G  ++  R    ++Q +L E L ++   +  YE    +    +L+ ++      I +
Sbjct: 1  MNFGNNLKDLRETRNVTQGQLAEYLQVSRPTIAGYETKSRQPDFEKLEKLANYFHVSIDY 60

Query: 73 FFDVSPTVCSDIS 85
              S T  +DI 
Sbjct: 61 LVSGSETTSTDIP 73


>gi|85715308|ref|ZP_01046291.1| transcriptional regulator, XRE family protein [Nitrobacter sp.
           Nb-311A]
 gi|85697954|gb|EAQ35828.1| transcriptional regulator, XRE family protein [Nitrobacter sp.
           Nb-311A]
          Length = 483

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 31/112 (27%), Positives = 46/112 (41%), Gaps = 15/112 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG R R  R  LG+SQ +L E LGI+   V   E+    V A  L  ++E  +     
Sbjct: 9   LFVGPRFRRIRQQLGLSQTQLAEGLGISPSYVNLIERNQRPVTAQILLRLAEAYD----- 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
             D+     +D       + +  S P        F QID  K  Q++ +L  
Sbjct: 64  -LDLRDLATADEDRFFAELNEVFSDP-------LFRQIDIPK--QELRDLAE 105


>gi|77411971|ref|ZP_00788301.1| transcriptional regulator, Cro/CI family-related protein
          [Streptococcus agalactiae CJB111]
 gi|77161997|gb|EAO72978.1| transcriptional regulator, Cro/CI family-related protein
          [Streptococcus agalactiae CJB111]
          Length = 62

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R+    SQ  L + +G++ Q +   E             +++ L + ++  F
Sbjct: 2  NRVKDYRLETKKSQLALAKEIGVSRQTINMIENNKYNPSLDLCIKLAKALGTDLNALF 59


>gi|114566341|ref|YP_753495.1| hypothetical protein Swol_0803 [Syntrophomonas wolfei subsp.
          wolfei str. Goettingen]
 gi|114337276|gb|ABI68124.1| hypothetical protein Swol_0803 [Syntrophomonas wolfei subsp.
          wolfei str. Goettingen]
          Length = 255

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 38/80 (47%), Gaps = 1/80 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R+   +S+ +L + +GI+   ++ YE+G  R+    L  ++   +         
Sbjct: 5  ERLQYLRLEKELSEIQLSKKVGISESVIRLYERGKLRIDLEHLHKLAAFFDVTPGLLLGT 64

Query: 77 S-PTVCSDISSEENNVMDFI 95
          + P +  + + E   V++ +
Sbjct: 65 AFPHLPPEEALESYRVVNKL 84


>gi|47564376|ref|ZP_00235421.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
 gi|47558528|gb|EAL16851.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
          Length = 69

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 26/63 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I + R   G +QE+L   +G++ Q +   EK            I+ V E  ++  FD 
Sbjct: 7  NKIVVCRAEKGWTQEELATRVGVSRQTIATLEKNKYNPSLILAFKIANVFEKSLTDVFDY 66

Query: 77 SPT 79
             
Sbjct: 67 LEE 69


>gi|327254477|gb|EGE66099.1| helix-turn-helix family protein [Escherichia coli STEC_7v]
          Length = 237

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 34/77 (44%), Gaps = 1/77 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+     + G+SQ +L + +GI+   +QK   G    G+ ++  ++  L+    +    
Sbjct: 8  ERLNAAMSLAGVSQSQLADMVGISQPAIQKMSSGKTN-GSRKMVELANALKVRPEWLSSG 66

Query: 77 SPTVCSDISSEENNVMD 93
             +      E +NV +
Sbjct: 67 IGEMRDGAHEEPSNVRE 83


>gi|317490219|ref|ZP_07948707.1| hypothetical protein HMPREF1023_02407 [Eggerthella sp. 1_3_56FAA]
 gi|316910713|gb|EFV32334.1| hypothetical protein HMPREF1023_02407 [Eggerthella sp. 1_3_56FAA]
          Length = 71

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 28/64 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G+R+R  R    ++QE+L    G+    + K E G        ++ ++  L   +  
Sbjct: 7  ILLGQRVRALREESNLTQEQLALMTGVGRSYLAKVEAGNRNATIDFMEKVALGLGVTLGQ 66

Query: 73 FFDV 76
           F+ 
Sbjct: 67 LFEG 70


>gi|326775565|ref|ZP_08234830.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
 gi|326655898|gb|EGE40744.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
          Length = 395

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 38/93 (40%), Gaps = 2/93 (2%)

Query: 7  IPNPVDINVGKRIRLRRMILG--MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          +P      VG+RI   R +    M+Q++L     ++   ++K E+G   V  + L +I+ 
Sbjct: 1  MPPTTAAQVGQRIAYYRRVARPRMTQQQLAAAAFVSLGTIRKVERGERGVSDNTLDNIAA 60

Query: 65 VLESPISFFFDVSPTVCSDISSEENNVMDFIST 97
           L    S        V + I      +   I+T
Sbjct: 61 ALGIDPSRLVADREHVSTRIRDALPALSAAIAT 93


>gi|311742888|ref|ZP_07716696.1| DNA-binding protein [Aeromicrobium marinum DSM 15272]
 gi|311313568|gb|EFQ83477.1| DNA-binding protein [Aeromicrobium marinum DSM 15272]
          Length = 259

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 22/91 (24%), Positives = 36/91 (39%), Gaps = 1/91 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           I +G RIR  R   G+S  +L   L ++   V + E+G+       L  +   LE  +  
Sbjct: 29  IAIGHRIRSAREAAGISVRELSRRLEVSPSHVSQVERGLASFSVRALYRVVSELEISMDS 88

Query: 73  FF-DVSPTVCSDISSEENNVMDFISTPDGLQ 102
            F +V P      +S+         +  GL 
Sbjct: 89  LFGEVLPVPEVPAASDSPGPGPGAGSDGGLD 119


>gi|209517719|ref|ZP_03266556.1| transcriptional regulator, XRE family [Burkholderia sp. H160]
 gi|209501894|gb|EEA01913.1| transcriptional regulator, XRE family [Burkholderia sp. H160]
          Length = 291

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G  +R  R + G+SQ  L    GI+ +Q+   E G +  G   L  +++ L+ P+
Sbjct: 15 LGSLLRYWRDVRGVSQLDLSLDAGISQRQISFIESGRSVPGRDTLLTLAQTLDVPL 70


>gi|86140990|ref|ZP_01059549.1| helix-turn-helix family protein [Leeuwenhoekiella blandensis
          MED217]
 gi|85832932|gb|EAQ51381.1| helix-turn-helix family protein [Leeuwenhoekiella blandensis
          MED217]
          Length = 66

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 22/58 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            I+  R  L M+Q  L + + ++ Q V   EKG           ++ V    I   F
Sbjct: 3  NNIKELRAALKMTQSDLAQQIEVSRQTVNAIEKGKFDPSLPTAFRLAAVFNCSIEELF 60


>gi|15675737|ref|NP_269911.1| putative transcription regulator [Streptococcus pyogenes M1 GAS]
 gi|19746847|ref|NP_607983.1| transcription regulator [Streptococcus pyogenes MGAS8232]
 gi|21911201|ref|NP_665469.1| putative transcription regulator [Streptococcus pyogenes MGAS315]
 gi|28896578|ref|NP_802928.1| transcription regulator [Streptococcus pyogenes SSI-1]
 gi|50915002|ref|YP_060974.1| Cro/CI family transcriptional regulator [Streptococcus pyogenes
          MGAS10394]
 gi|56808043|ref|ZP_00365843.1| COG1476: Predicted transcriptional regulators [Streptococcus
          pyogenes M49 591]
 gi|71911461|ref|YP_283011.1| Cro/CI family transcriptional regulator [Streptococcus pyogenes
          MGAS5005]
 gi|94991225|ref|YP_599325.1| Cro/CI family transcriptional regulator [Streptococcus pyogenes
          MGAS10270]
 gi|94993168|ref|YP_601267.1| Cro/CI family transcriptional regulator [Streptococcus pyogenes
          MGAS2096]
 gi|139474424|ref|YP_001129140.1| DNA-binding protein [Streptococcus pyogenes str. Manfredo]
 gi|209560078|ref|YP_002286550.1| Putative transcription regulator [Streptococcus pyogenes NZ131]
 gi|306826624|ref|ZP_07459929.1| transcriptional regulator [Streptococcus pyogenes ATCC 10782]
 gi|13622957|gb|AAK34632.1| putative transcription regulator [Streptococcus pyogenes M1 GAS]
 gi|19749087|gb|AAL98482.1| putative transcription regulator [Streptococcus pyogenes
          MGAS8232]
 gi|21905413|gb|AAM80272.1| putative transcription regulator [Streptococcus pyogenes MGAS315]
 gi|28811832|dbj|BAC64761.1| putative transcription regulator [Streptococcus pyogenes SSI-1]
 gi|50904076|gb|AAT87791.1| Transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          MGAS10394]
 gi|71854243|gb|AAZ52266.1| transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          MGAS5005]
 gi|94544733|gb|ABF34781.1| Transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          MGAS10270]
 gi|94546676|gb|ABF36723.1| Transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          MGAS2096]
 gi|134272671|emb|CAM30942.1| putative DNA-binding protein [Streptococcus pyogenes str.
          Manfredo]
 gi|209541279|gb|ACI61855.1| Putative transcription regulator [Streptococcus pyogenes NZ131]
 gi|304431202|gb|EFM34206.1| transcriptional regulator [Streptococcus pyogenes ATCC 10782]
          Length = 68

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R    +SQ+ L + +G++ Q +   EKG      +    I  VL+  +   F
Sbjct: 5  KLKAARAGKDLSQQALADLVGVSRQTIAAVEKGDYNPTINLCIAICRVLDKTLDDLF 61


>gi|308172787|ref|YP_003919492.1| Xre family transcriptional regulator [Bacillus amyloliquefaciens
          DSM 7]
 gi|307605651|emb|CBI42022.1| transcriptional regulator, XRE family [Bacillus amyloliquefaciens
          DSM 7]
          Length = 79

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 28/73 (38%), Gaps = 1/73 (1%)

Query: 15 VGK-RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VGK RI       G+S  +L   +G++  Q+  Y    N     R  +I+ +L       
Sbjct: 7  VGKCRIPELCKKRGISLSQLAAMVGVSKTQMSDYVSLRNLPSIERTYNIAMMLGCAPEDL 66

Query: 74 FDVSPTVCSDISS 86
          ++      S+   
Sbjct: 67 YEWIEVSDSNTEG 79


>gi|307332662|ref|ZP_07611696.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
 gi|306881694|gb|EFN12846.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
          Length = 398

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/67 (19%), Positives = 25/67 (37%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P  ++ + G RI   R    ++Q+ L     ++   + K E G      S +   +  L
Sbjct: 1  MPQSIEEHTGARIARTRRERDLTQQGLAMRANVSKSLLSKVECGQRPASPSLIAACARAL 60

Query: 67 ESPISFF 73
              S  
Sbjct: 61 SVTTSDL 67


>gi|307286682|ref|ZP_07566768.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|306502160|gb|EFM71444.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|315165266|gb|EFU09283.1| helix-turn-helix protein [Enterococcus faecalis TX1302]
          Length = 232

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITF-QQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            VG R+R  R     +   L   +G++    +  +E G+N      L+ I++  ++ + 
Sbjct: 6  KQVGARMRDARKKKKYTLRYLANKIGLSSGSTISNWELGLNLPNKRYLKKIAKACDTTVD 65

Query: 72 FF 73
          + 
Sbjct: 66 WL 67


>gi|298372441|ref|ZP_06982431.1| transcriptional regulator [Bacteroidetes oral taxon 274 str.
          F0058]
 gi|298275345|gb|EFI16896.1| transcriptional regulator [Bacteroidetes oral taxon 274 str.
          F0058]
          Length = 66

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 25/56 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I++ R    ++Q +L E +G++ Q +   E G           +S V E  ++  F
Sbjct: 5  IKVERARKNITQGQLAEMVGVSRQTINAIELGKYNPSTVLSLKMSRVFEVSVNDLF 60


>gi|291540446|emb|CBL13557.1| Helix-turn-helix [Roseburia intestinalis XB6B4]
          Length = 172

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 28/53 (52%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          ++ + ++  R+   + Q ++ + L + +Q   K E+GV +    +L  I ++L
Sbjct: 10 HIAQNLKEYRISHNLKQTEMADLLKMNYQNYSKMERGVYQPSLDKLLEICDIL 62


>gi|292653871|ref|YP_003533769.1| Helix-turn-helix, putative [Haloferax volcanii DS2]
 gi|291369721|gb|ADE01949.1| Helix-turn-helix, putative [Haloferax volcanii DS2]
          Length = 66

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 10/56 (17%), Positives = 23/56 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR++R    ++QE+L   +G++ Q +   E             ++   +  +   F
Sbjct: 5  IRVKRAEEHITQEELATAVGVSRQTIYAIEHSRYDPSLELAFKLARYFDCSVEELF 60


>gi|257067141|ref|YP_003153397.1| transcriptional regulator, XRE family [Anaerococcus prevotii DSM
          20548]
 gi|256799021|gb|ACV29676.1| transcriptional regulator, XRE family [Anaerococcus prevotii DSM
          20548]
          Length = 81

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   GM+Q +LGE +G++ Q +   E+G           ++ V E  +   F
Sbjct: 17 NNLSSLRKEKGMNQTELGEKVGVSRQTISLIERGDYNPSIVVALSLARVFEVKVEDIF 74


>gi|229190633|ref|ZP_04317630.1| Transcriptional regulator, Xre [Bacillus cereus ATCC 10876]
 gi|228592978|gb|EEK50800.1| Transcriptional regulator, Xre [Bacillus cereus ATCC 10876]
          Length = 292

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|227431574|ref|ZP_03913612.1| transcriptional regulator [Leuconostoc mesenteroides subsp.
          cremoris ATCC 19254]
 gi|227352668|gb|EEJ42856.1| transcriptional regulator [Leuconostoc mesenteroides subsp.
          cremoris ATCC 19254]
          Length = 79

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/69 (17%), Positives = 29/69 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  ++   R++  +SQ++L E +G++ Q +   EKG           I+   +  ++  F
Sbjct: 9  INNKVYEFRVLARLSQQELAEKVGVSKQTIFVMEKGKYFPTLLLAFRIATFFKVDLTDIF 68

Query: 75 DVSPTVCSD 83
                  +
Sbjct: 69 SYDIGGTEN 77


>gi|227511053|ref|ZP_03941102.1| DNA-binding protein [Lactobacillus buchneri ATCC 11577]
 gi|227085795|gb|EEI21107.1| DNA-binding protein [Lactobacillus buchneri ATCC 11577]
          Length = 369

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 24/56 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           I   R     SQ++L + LGIT   V K+E G      S L  I+   ++ I   
Sbjct: 8  NIANLRKQNHKSQQQLADFLGITKASVSKWENGQTSPDISSLPLIAAYFDTSIDHL 63


>gi|224541773|ref|ZP_03682312.1| hypothetical protein CATMIT_00945 [Catenibacterium mitsuokai DSM
          15897]
 gi|224525300|gb|EEF94405.1| hypothetical protein CATMIT_00945 [Catenibacterium mitsuokai DSM
          15897]
          Length = 68

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 28/60 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RI+  R+  G+SQE+LG    ++   +   E+G   V    +   ++ L   +   FD
Sbjct: 8  GMRIKELRVQQGISQEELGFRCHLSKNYISDVERGTRNVSLKAIDQFAKGLGITLKELFD 67


>gi|90020428|ref|YP_526255.1| XRE family transcriptional regulator [Saccharophagus degradans
          2-40]
 gi|89950028|gb|ABD80043.1| conserved hypothetical protein [Saccharophagus degradans 2-40]
          Length = 164

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR  R+  G+SQE+L E  G++ + +Q+ E G +RV  + L+ ++      + 
Sbjct: 3  IRKLRLDRGISQEQLAEATGLSIRTIQRVEAG-HRVSYASLRVLAATFNINVD 54


>gi|116669412|ref|YP_830345.1| XRE family transcriptional regulator [Arthrobacter sp. FB24]
 gi|116609521|gb|ABK02245.1| transcriptional regulator, XRE family with cupin sensor
          [Arthrobacter sp. FB24]
          Length = 191

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 33/72 (45%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+ + + +G RIR  R    ++ E++ +  G+T   + + E+ +     + L  + +VL 
Sbjct: 8  PSNIPVAIGSRIRAARQSQRLTIEQVADATGLTKGFLSRVERDLTSPSVASLVTLCQVLS 67

Query: 68 SPISFFFDVSPT 79
            I   F    T
Sbjct: 68 ISIGDLFAAPET 79


>gi|22537286|ref|NP_688137.1| Cro/CI family transcriptional regulator [Streptococcus agalactiae
          2603V/R]
 gi|25011245|ref|NP_735640.1| hypothetical protein gbs1196 [Streptococcus agalactiae NEM316]
 gi|77413033|ref|ZP_00789235.1| conserved hypothetical protein [Streptococcus agalactiae 515]
 gi|22534155|gb|AAN00010.1|AE014243_16 transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 2603V/R]
 gi|23095669|emb|CAD46855.1| Unknown [Streptococcus agalactiae NEM316]
 gi|77160931|gb|EAO72040.1| conserved hypothetical protein [Streptococcus agalactiae 515]
 gi|319745147|gb|EFV97471.1| transcriptional regulator [Streptococcus agalactiae ATCC 13813]
          Length = 65

 Score = 50.2 bits (119), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R+   +SQ  L + +G+  Q +   E             ++E L++ ++  F
Sbjct: 2  NRLREYRIKASISQLALAKSVGVARQTINLIENNKYNPSLDLCIRLAECLQTDLNTLF 59


>gi|332981127|ref|YP_004462568.1| helix-turn-helix domain-containing protein [Mahella australiensis
          50-1 BON]
 gi|332698805|gb|AEE95746.1| helix-turn-helix domain protein [Mahella australiensis 50-1 BON]
          Length = 74

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 29/68 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK+++  R   G +  +L +  G++   +   E   +      L  I+  LE   ++F 
Sbjct: 2  IGKKLKSIRNKRGYTLRQLEKLSGVSHGFLCDIEHDRSDPSLETLHKIANALEIEPAYFL 61

Query: 75 DVSPTVCS 82
          + + T   
Sbjct: 62 NNANTDEQ 69


>gi|331084259|ref|ZP_08333364.1| hypothetical protein HMPREF0992_02288 [Lachnospiraceae bacterium
          6_1_63FAA]
 gi|330401794|gb|EGG81371.1| hypothetical protein HMPREF0992_02288 [Lachnospiraceae bacterium
          6_1_63FAA]
          Length = 176

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + + +RI   R++ GM+Q+ LG  +G   +    ++ +YE G  +  A     +++VL+ 
Sbjct: 1  MAISERIHFFRLMRGMTQKYLGTAIGFPEKSADVRLAQYETGTRKPKADLTNALAQVLDV 60

Query: 69 PI 70
            
Sbjct: 61 SP 62


>gi|322517691|ref|ZP_08070554.1| transcriptional regulator [Streptococcus vestibularis ATCC 49124]
 gi|322123679|gb|EFX95271.1| transcriptional regulator [Streptococcus vestibularis ATCC 49124]
          Length = 114

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 10/50 (20%), Positives = 24/50 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +++  R+   ++Q+ L + +G++ Q +   EKG           I + L+
Sbjct: 5  KLKSARVAKDLTQQGLADAIGVSRQTISPIEKGDYNPTMDLYIAICKTLD 54


>gi|302870809|ref|YP_003839445.1| hypothetical protein COB47_0084 [Caldicellulosiruptor obsidiansis
          OB47]
 gi|302573668|gb|ADL41459.1| protein of unknown function DUF955 [Caldicellulosiruptor
          obsidiansis OB47]
          Length = 373

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 30/61 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I        +  ++L + +G+T Q + KY +G   + + +L  I+E    P+ +F 
Sbjct: 7  IGNNILALMKKQNVKIKQLADLIGVTRQTMTKYLEGEVIIDSEKLFKIAEFFGKPLDYFL 66

Query: 75 D 75
          +
Sbjct: 67 E 67


>gi|302335294|ref|YP_003800501.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
 gi|301319134|gb|ADK67621.1| transcriptional regulator, XRE family [Olsenella uli DSM 7084]
          Length = 136

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 20/109 (18%), Positives = 49/109 (44%), Gaps = 14/109 (12%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
             +R  R  +G+SQ ++   LG++ +    +E G   +GA R++ + ++L    +     
Sbjct: 32  NNLRYLRDKVGLSQVQVAAQLGVSSKTYSSWETGRTELGAERIRALCDLLGCTPNDVLGY 91

Query: 77  -SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
              T  + +++ E  ++D             + ++    VR  ++E++R
Sbjct: 92  RGHTSFAPVTTIEETIVDL------------YGRLA-PNVRMAVLEIMR 127


>gi|291287416|ref|YP_003504232.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
 gi|290884576|gb|ADD68276.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
          Length = 182

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 31/72 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  GK ++  R+   M+   L +  G +   + + E+ +     + L+ I++ L   I+ 
Sbjct: 1  MEFGKTVKELRLKHNMTLRDLAKTSGCSISFLSQLERDLISPTVASLRKIADALGVTITS 60

Query: 73 FFDVSPTVCSDI 84
          FF    +    I
Sbjct: 61 FFSGDDSETDSI 72


>gi|104774539|ref|YP_619519.1| XRE family transcriptional regulator [Lactobacillus delbrueckii
          subsp. bulgaricus ATCC 11842]
 gi|103423620|emb|CAI98566.1| Putative transcriptional regulator (Xre family) [Lactobacillus
          delbrueckii subsp. bulgaricus ATCC 11842]
          Length = 116

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 34/78 (43%), Gaps = 1/78 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ ++  R  LG+SQ+++     ++  Q  + E G  R+ A  L  I    +     F 
Sbjct: 7  VGELLKRIRSDLGLSQKQMAGMT-MSVTQYSRIESGDQRIIADDLFEILTAQQVSARCFV 65

Query: 75 DVSPTVCSDISSEENNVM 92
          D       + +++   V+
Sbjct: 66 DAMTNFDFERAADFTYVL 83


>gi|54027114|ref|YP_121356.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
 gi|54018622|dbj|BAD59992.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
          Length = 410

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 34/76 (44%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPISFF 73
          VG+R+R  R+  G+S E      GI++  + + E+G   +   R    I++ L    S F
Sbjct: 9  VGRRVREIRLWRGLSLEAAAGLAGISYGYLGRLERGEQALTNRRTLEHIAQALRVAPSEF 68

Query: 74 FDVSPTVCSDISSEEN 89
                    ++SE +
Sbjct: 69 NGQPWEPGGAMTSEAH 84


>gi|50122571|ref|YP_051738.1| putative DNA-binding protein [Pectobacterium atrosepticum
          SCRI1043]
 gi|49613097|emb|CAG76548.1| putative DNA-binding protein [Pectobacterium atrosepticum
          SCRI1043]
          Length = 184

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 23/53 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR  R  L +S  +L +  G+    + + E G+       L  ++  L+  +S
Sbjct: 14 IRRERERLNLSVTELAKRAGLAKSTLSQLESGIGNPSLETLWALAMALDVQVS 66


>gi|37678326|ref|NP_932935.1| transcriptional regulator [Vibrio vulnificus YJ016]
 gi|37197065|dbj|BAC92906.1| predicted transcriptional regulator [Vibrio vulnificus YJ016]
          Length = 68

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 25/55 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G  +R  R + G+SQ+KL     I    V + E+G   +   +   ++ +L   +
Sbjct: 9  GDNLRRERKLKGISQDKLAISADIDRSYVGRIERGEVNITLEKAYQLASILGCDV 63


>gi|322646512|gb|EFY43021.1| putative transcriptional regulator [Salmonella enterica subsp.
          enterica serovar Montevideo str. NC_MB110209-0054]
          Length = 85

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 31/62 (50%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +R++  R   G+SQ  LG  +G        ++  YEKG +      L+ ++  L  P+++
Sbjct: 9  ERLKEARCRAGLSQRSLGLLVGFDPASASSRMNHYEKGRHVPDIDTLRRMAAELNVPLNY 68

Query: 73 FF 74
          FF
Sbjct: 69 FF 70


>gi|312794927|ref|YP_004027849.1| transcriptional regulator [Burkholderia rhizoxinica HKI 454]
 gi|312166702|emb|CBW73705.1| Transcriptional regulator [Burkholderia rhizoxinica HKI 454]
          Length = 180

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 21/99 (21%), Positives = 41/99 (41%), Gaps = 4/99 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  R+ LG+SQE+     G+  +    YE       A  L  ++E L   + +  
Sbjct: 17  IGARLREERLRLGLSQEEFAAIGGVLRRAQSHYESDERSPDAKYLSAVAE-LGVDLLYVL 75

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
             +    SD + E     +F    +  +L   +  +++ 
Sbjct: 76  RGT-RQASDEAGEAATSSEF--DTEEQELIENYRALNEA 111


>gi|266621408|ref|ZP_06114343.1| transcriptional regulator, Cro/CI family [Clostridium hathewayi
          DSM 13479]
 gi|288866922|gb|EFC99220.1| transcriptional regulator, Cro/CI family [Clostridium hathewayi
          DSM 13479]
          Length = 66

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 28/63 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R    M QE+L + +G+  + +   EKG          +I++V  + I   F V
Sbjct: 4  NRIKEYRARYDMKQEELADRVGVRRETIGNLEKGKYNPSLVLAWNIAKVFGATIEEIFTV 63

Query: 77 SPT 79
            +
Sbjct: 64 EES 66


>gi|256829205|ref|YP_003157933.1| XRE family transcriptional regulator [Desulfomicrobium baculatum
           DSM 4028]
 gi|256578381|gb|ACU89517.1| transcriptional regulator, XRE family [Desulfomicrobium baculatum
           DSM 4028]
          Length = 652

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 26/143 (18%), Positives = 58/143 (40%), Gaps = 15/143 (10%)

Query: 15  VGKRIRLRRMIL-----GMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLES 68
           +G  +  RR  L     G S   + + +GI    + K E+G N      R+  ++ +L  
Sbjct: 4   LGSYLTERRKALAAKHSGYSIRSVAKRIGIHHSYLSKLERGENAPLTEERIHALARLLGE 63

Query: 69  PISFFFDVSPTVCSDISS-EENNVMDFISTPDGLQLNRYFIQIDD-VKVRQ-----KIIE 121
                  +S  +   I+    +N + F+ + + L+       + D   +R+     ++ E
Sbjct: 64  DPDLLMALSGKLSDRITGLIRSNPLLFLGSVEALEKQNA--SMPDAPALRKDLRKNELEE 121

Query: 122 LVRSIVSSEKKYRTIEEECMVEQ 144
           L R +    ++ + +E +   +Q
Sbjct: 122 LTRLLRDEIRERQVLESQLREQQ 144


>gi|225872075|ref|YP_002753530.1| DNA-binding protein [Acidobacterium capsulatum ATCC 51196]
 gi|225793611|gb|ACO33701.1| DNA-binding protein [Acidobacterium capsulatum ATCC 51196]
          Length = 363

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 12/72 (16%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE--------- 64
            V K I+  R  L MSQ++    LG+    V ++E+G  R        +++         
Sbjct: 108 QVAKNIKALRERLEMSQQRFALALGVDQGSVSRWERGKIRPTPETFARMAKLSDDEKKLY 167

Query: 65  VL---ESPISFF 73
            L     P S+F
Sbjct: 168 FLEEAGVPASYF 179


>gi|254420939|ref|ZP_05034663.1| conserved domain protein [Brevundimonas sp. BAL3]
 gi|196187116|gb|EDX82092.1| conserved domain protein [Brevundimonas sp. BAL3]
          Length = 476

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/114 (15%), Positives = 46/114 (40%), Gaps = 17/114 (14%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G R++  R  L ++Q  +   LG++   +   E+    V A  L  ++E  +  +  
Sbjct: 9   LFLGARLKRLRRDLALTQTAMAADLGVSPSYLNHIERNQRPVSAQLLLRLAETYDVDLR- 67

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP----------DGLQLNRYFIQIDDVKVR 116
                 ++    +++E  + + ++ P          + +QL      + D  +R
Sbjct: 68  ------SLNQGGAADEARLGEVLADPLFAGLSLPRHELVQLLEEAPGVADAMLR 115


>gi|229918743|ref|YP_002887389.1| XRE family transcriptional regulator [Exiguobacterium sp. AT1b]
 gi|229470172|gb|ACQ71944.1| transcriptional regulator, XRE family [Exiguobacterium sp. AT1b]
          Length = 150

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 10/55 (18%), Positives = 23/55 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G  ++  R    ++Q++L E L +    +  YE          +  ++ V + P+
Sbjct: 5  GDLLKQLRKEKKLTQKELAEDLELDQSSISNYESNKKLPDVDTMMKMAIVFDVPV 59


>gi|169349906|ref|ZP_02866844.1| hypothetical protein CLOSPI_00645 [Clostridium spiroforme DSM 1552]
 gi|169293474|gb|EDS75607.1| hypothetical protein CLOSPI_00645 [Clostridium spiroforme DSM 1552]
          Length = 114

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 21/100 (21%), Positives = 44/100 (44%), Gaps = 6/100 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
           G+RI   R    +++E+L + +G++ + +  YE+G        L+ + E       +   
Sbjct: 6   GERISYLRCECNLTREELCKIIGVSKRTIVAYEQGTRDPSVKTLRALVEYFNVSSDYILG 65

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRY-FIQIDD 112
           +   P     I  EE +   +I  P  +Q ++  +  I+D
Sbjct: 66  YTNKPLRLDAICKEEKS---YILLPKTIQESKAKYNSIND 102


>gi|220911740|ref|YP_002487049.1| XRE family transcriptional regulator [Arthrobacter
          chlorophenolicus A6]
 gi|219858618|gb|ACL38960.1| transcriptional regulator, XRE family [Arthrobacter
          chlorophenolicus A6]
          Length = 191

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 32/67 (47%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+ V + +G RIR  R    ++ E++ +  G+T   + + E+ +     + L  + +VL 
Sbjct: 8  PSNVPVAIGSRIRAARQSQRLTIEQVADATGLTKGFLSRVERDLTSPSVASLVTLCQVLS 67

Query: 68 SPISFFF 74
            I   F
Sbjct: 68 ISIGDLF 74


>gi|30020574|ref|NP_832205.1| XRE family transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|228958740|ref|ZP_04120453.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|229109926|ref|ZP_04239508.1| Transcriptional regulator, Xre [Bacillus cereus Rock1-15]
 gi|229127880|ref|ZP_04256866.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-Cer4]
 gi|229145086|ref|ZP_04273479.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST24]
 gi|296503031|ref|YP_003664731.1| XRE family transcriptional regulator [Bacillus thuringiensis
          BMB171]
 gi|29896125|gb|AAP09406.1| Transcriptional regulator, XRE family [Bacillus cereus ATCC
          14579]
 gi|228638407|gb|EEK94844.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST24]
 gi|228655645|gb|EEL11497.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-Cer4]
 gi|228673580|gb|EEL28842.1| Transcriptional regulator, Xre [Bacillus cereus Rock1-15]
 gi|228800955|gb|EEM47859.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|296324083|gb|ADH07011.1| XRE family transcriptional regulator [Bacillus thuringiensis
          BMB171]
          Length = 292

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|330718084|ref|ZP_08312684.1| XRE family transcriptional regulator [Leuconostoc fallax KCTC
          3537]
          Length = 67

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 21/58 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            I+  R     SQ++L +  G+T Q +   E             ++ +L   +   F
Sbjct: 3  NNIKTLRKAQKFSQDELAQAAGVTRQTINAIENDKYDPSLELAFKLASILLVRVDELF 60


>gi|330812572|ref|YP_004357034.1| XRE family transcriptional regulator [Pseudomonas brassicacearum
           subsp. brassicacearum NFM421]
 gi|327380680|gb|AEA72030.1| putative transcription regulator, Xre family [Pseudomonas
           brassicacearum subsp. brassicacearum NFM421]
          Length = 182

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 24/97 (24%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  ++     + I  + N ++D       ++L 
Sbjct: 58  MVEFFSEEILQEKPTQIVYKANELIDISDGAVTMKLV 94


>gi|319937771|ref|ZP_08012174.1| transcriptional regulator Cro/CI family protein [Coprobacillus
          sp. 29_1]
 gi|319807206|gb|EFW03820.1| transcriptional regulator Cro/CI family protein [Coprobacillus
          sp. 29_1]
          Length = 75

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 33/64 (51%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++I  G+R++  R+I  +SQE+L     ++   V   E+G   V    ++  ++ L+ P+
Sbjct: 4  INIKFGRRVKELRLIQNISQEELAFRCQLSKNYVSDVERGTRNVTLKVVEKFAQGLKVPV 63

Query: 71 SFFF 74
             F
Sbjct: 64 HILF 67


>gi|288559687|ref|YP_003423173.1| transcriptional regulator [Methanobrevibacter ruminantium M1]
 gi|288542397|gb|ADC46281.1| transcriptional regulator [Methanobrevibacter ruminantium M1]
          Length = 67

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +++ R I  ++Q++L + LG++ Q +   E   N         I+   +  I   F
Sbjct: 3  NNLKIYRAIENITQKELADELGVSRQTIVLIENNKNDPSLELAFKIAHKFDVKIEDIF 60


>gi|259418447|ref|ZP_05742365.1| transcriptional regulator, XRE family [Silicibacter sp.
          TrichCH4B]
 gi|259345842|gb|EEW57686.1| transcriptional regulator, XRE family [Silicibacter sp.
          TrichCH4B]
          Length = 133

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 33/72 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+   R   GM+Q +L   +G+    +  +E+ ++   A++L  +S +L   +S+   
Sbjct: 17 GDRVAAARESAGMTQGQLARRMGVKKTTLIGWEQDLSEPRANKLSMLSGLLNVSMSWLLT 76

Query: 76 VSPTVCSDISSE 87
                S  S +
Sbjct: 77 GEGDDLSAPSED 88


>gi|227523243|ref|ZP_03953292.1| DNA-binding protein [Lactobacillus hilgardii ATCC 8290]
 gi|227089630|gb|EEI24942.1| DNA-binding protein [Lactobacillus hilgardii ATCC 8290]
          Length = 369

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 24/56 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           I   R     SQ++L + LGIT   V K+E G      S L  I+   ++ I   
Sbjct: 8  NIANLRKQNHKSQQQLADFLGITKASVSKWENGQTSPDISSLPLIAAYFDTSIDHL 63


>gi|168214025|ref|ZP_02639650.1| helix-turn-helix domain protein [Clostridium perfringens CPE str.
          F4969]
 gi|170714494|gb|EDT26676.1| helix-turn-helix domain protein [Clostridium perfringens CPE str.
          F4969]
          Length = 204

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 1/62 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFD 75
          ++I   R   G+S+ +L   +G++   + K E G  +         I+ VLE PI+ F +
Sbjct: 5  EKITFYREKKGISKSQLAREIGVSPAYITKLENGEKSNPSLELKIKIANVLEQPITVFLE 64

Query: 76 VS 77
            
Sbjct: 65 ND 66



 Score = 39.0 bits (90), Expect = 0.24,   Method: Composition-based stats.
 Identities = 17/79 (21%), Positives = 38/79 (48%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V+ N+G +I+  +++  ++ E+L +  GI   Q++  + G        L+ IS+ L+   
Sbjct: 68  VNNNIGSKIKSAKILNNLNDEQLSKITGIDKLQLRSIQDGEINPTKIELEIISKALKLQA 127

Query: 71  SFFFDVSPTVCSDISSEEN 89
            +F   S     +  + E+
Sbjct: 128 DYFTKDSNVNIDETGNIED 146


>gi|169343424|ref|ZP_02864427.1| helix-turn-helix domain protein [Clostridium perfringens C str.
          JGS1495]
 gi|169298510|gb|EDS80596.1| helix-turn-helix domain protein [Clostridium perfringens C str.
          JGS1495]
          Length = 182

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 25/58 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          I +G  ++  R    ++QE++ + L I       YE          L+ ISEV   P+
Sbjct: 7  IKIGNSLKEIRKNHSLTQEEMAKALNIPRSTYANYENNKREPSKELLEKISEVFNIPL 64


>gi|167841756|ref|ZP_02468440.1| GP52 family protein [Burkholderia thailandensis MSMB43]
          Length = 114

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 35/67 (52%), Gaps = 4/67 (5%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + NP     G+R + RR  LG+SQ+ + E +G++   + K E+G +    +    ++  L
Sbjct: 1  MENP---EFGRRAKERREALGLSQKHVAELVGVSQPAIAKVERGGST-TTTNGFALARAL 56

Query: 67 ESPISFF 73
          ++ + + 
Sbjct: 57 QTTLEWL 63


>gi|167760581|ref|ZP_02432708.1| hypothetical protein CLOSCI_02955 [Clostridium scindens ATCC
          35704]
 gi|167661802|gb|EDS05932.1| hypothetical protein CLOSCI_02955 [Clostridium scindens ATCC
          35704]
          Length = 184

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 32/78 (41%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + + ++  R   G+S E+      I+   + + E+G      S +  +S  L+ P+
Sbjct: 4  LNQIIAENLKEIRKGKGLSLEQASALTSISKSMLSQLERGEVNPTISTVYKLSLGLKVPV 63

Query: 71 SFFFDVSPTVCSDISSEE 88
          + F    P   S     E
Sbjct: 64 TAFTLDKPKPFSKTGKSE 81


>gi|146280879|ref|YP_001171032.1| transcriptional regulator [Pseudomonas stutzeri A1501]
 gi|145569084|gb|ABP78190.1| probable transcriptional regulator [Pseudomonas stutzeri A1501]
 gi|327479148|gb|AEA82458.1| transcriptional regulator [Pseudomonas stutzeri DSM 4166]
          Length = 182

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 6/75 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
          ++VG R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1  MDVGVRLQTIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLK---KVLSGIPMS 57

Query: 72 F--FFDVSPTVCSDI 84
             FF       SD 
Sbjct: 58 LVEFFSPDFDQDSDT 72


>gi|221065656|ref|ZP_03541761.1| transcriptional regulator, XRE family [Comamonas testosteroni KF-1]
 gi|264679787|ref|YP_003279696.1| XRE family transcriptional regulator [Comamonas testosteroni CNB-2]
 gi|220710679|gb|EED66047.1| transcriptional regulator, XRE family [Comamonas testosteroni KF-1]
 gi|262210302|gb|ACY34400.1| transcriptional regulator, XRE family with [Comamonas testosteroni
           CNB-2]
          Length = 191

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 39/93 (41%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           D   G  +R RR  LG++ ++L +  G++   + + E+G+          I++ L   + 
Sbjct: 13  DALFGAAVRARRAQLGITLDQLAQASGVSPGALSRVERGLLATSLRNAMAIAQGLGCELG 72

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
                +P+     + E    +D  S  + L L 
Sbjct: 73  ELVQSAPSAQITRAGENLRFVDEASGVERLALA 105


>gi|91777058|ref|YP_546814.1| XRE family transcriptional regulator [Methylobacillus flagellatus
           KT]
 gi|91711045|gb|ABE50973.1| transcriptional regulator, XRE family [Methylobacillus flagellatus
           KT]
          Length = 116

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 36/101 (35%), Gaps = 9/101 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             + +R++  R  LG+SQ+ L + LG++ +  Q YE G        L  I+  L + + +
Sbjct: 2   RLIHERLKTEREALGLSQQALADQLGVSLRSQQNYEAGKRVPDGEYLAAIAS-LGADVLY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
                    +   S          +     L   F    + 
Sbjct: 61  ILTGQRNSAAPAESA--------LSKGDRVLLENFHAAPEQ 93


>gi|113968668|ref|YP_732461.1| XRE family transcriptional regulator [Shewanella sp. MR-4]
 gi|113883352|gb|ABI37404.1| transcriptional regulator, XRE family with cupin sensor
          [Shewanella sp. MR-4]
          Length = 191

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 12/74 (16%), Positives = 31/74 (41%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +   ++  R   G S +K     G++   + + E+G +    + L  I+    + +
Sbjct: 4  INSYLAATLKQLRSQKGWSLDKAALETGVSKAMIGQIERGESSPTIATLWKIASGFNTSL 63

Query: 71 SFFFDVSPTVCSDI 84
          S F + +P     +
Sbjct: 64 STFLEPTPESQGAV 77


>gi|238798535|ref|ZP_04642013.1| Transcriptional regulator, XRE family with cupin sensor domain
           [Yersinia mollaretii ATCC 43969]
 gi|238717622|gb|EEQ09460.1| Transcriptional regulator, XRE family with cupin sensor domain
           [Yersinia mollaretii ATCC 43969]
          Length = 196

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 41/92 (44%), Gaps = 3/92 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  R+   ++ ++L + +G +   + K E  V     + L  ++  LE+ IS   
Sbjct: 15  LGMRLRHARLAQEITLKQLAQKVGCSESLLSKLENEVASPSLAMLHRLASALETNISDLM 74

Query: 75  DVSPTVCSDIS-SEENNVMDFI--STPDGLQL 103
             S    S +    + +   F+  S   G++L
Sbjct: 75  AESWVADSPVLKPAQRSRKRFVHRSKQGGIEL 106


>gi|319745857|gb|EFV98148.1| XRE family transcriptional regulator [Streptococcus agalactiae
          ATCC 13813]
          Length = 153

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/88 (19%), Positives = 35/88 (39%), Gaps = 5/88 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          +V  +K+ N  D      I+  R    ++Q++L   L I    +  +E G N+     ++
Sbjct: 9  IVKEQKMANLSD-----NIKYFRKQNKLTQKELARKLKIAPTAISAWEVGRNKPLMDNIE 63

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEE 88
           ++ +   P S           + +S E
Sbjct: 64 QMASIFGIPKSKLLGDEIYKIQETASPE 91


>gi|291521518|emb|CBK79811.1| Predicted transcriptional regulators [Coprococcus catus GD/7]
          Length = 118

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 38/76 (50%), Gaps = 2/76 (2%)

Query: 10 PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+D    +G+++R  R    ++Q++L +   ++ +Q+   EKG        L+ +++VL 
Sbjct: 2  PIDDLTALGQKMREARKNKELTQQELSDLSHVSVKQIANIEKGKMNPSYLILRALAKVLH 61

Query: 68 SPISFFFDVSPTVCSD 83
            +    +   ++ ++
Sbjct: 62 ISLDTLINPDISLENE 77


>gi|229032669|ref|ZP_04188632.1| hypothetical protein bcere0028_47050 [Bacillus cereus AH1271]
 gi|228728668|gb|EEL79681.1| hypothetical protein bcere0028_47050 [Bacillus cereus AH1271]
          Length = 79

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 29/72 (40%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+++    + 
Sbjct: 6  DMKLQNRVRELRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAQIFNVTVE 65

Query: 72 FFFDVSPTVCSD 83
            F +      D
Sbjct: 66 EIFTLVEGEEDD 77


>gi|254168446|ref|ZP_04875290.1| CBS domain pair protein [Aciduliprofundum boonei T469]
 gi|197622501|gb|EDY35072.1| CBS domain pair protein [Aciduliprofundum boonei T469]
          Length = 184

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/49 (30%), Positives = 24/49 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          I+ RR  LG +Q++L E  G++   + K EKG      +    I   L+
Sbjct: 8  IKERRKRLGWTQKELAERSGVSQSAITKIEKGDMNPSYTLAVKIFNALD 56


>gi|187733300|ref|YP_001879888.1| repressor protein C2 [Shigella boydii CDC 3083-94]
 gi|187430292|gb|ACD09566.1| repressor protein C2 [Shigella boydii CDC 3083-94]
          Length = 218

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 29/62 (46%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
           ++G+R+   R   G++Q+ L +  GIT   + K E+G+ +      L  ++  L     
Sbjct: 2  KSLGERLINARQKAGLTQDALAKKAGITRVAISKAEQGLTKSFNGDTLFKVAAALGCSPQ 61

Query: 72 FF 73
          + 
Sbjct: 62 WL 63


>gi|145300727|ref|YP_001143568.1| phage transcriptional protein [Aeromonas salmonicida subsp.
          salmonicida A449]
 gi|142853499|gb|ABO91820.1| phage transcriptional protein [Aeromonas salmonicida subsp.
          salmonicida A449]
          Length = 87

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 32/75 (42%), Gaps = 2/75 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M       N ++ +  KR+R  R  + +S+ K  + LGI    ++ YE G   +G     
Sbjct: 1  MTAQPTQINLLNHHAAKRLRQLREQMALSRPKFADLLGIPPTTIKNYELGYREIGGGLFL 60

Query: 61 HISEV--LESPISFF 73
           I+    L+  I + 
Sbjct: 61 LIANHPDLKQHIDWL 75


>gi|114049187|ref|YP_739737.1| XRE family transcriptional regulator [Shewanella sp. MR-7]
 gi|113890629|gb|ABI44680.1| transcriptional regulator, XRE family [Shewanella sp. MR-7]
          Length = 191

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 12/74 (16%), Positives = 30/74 (40%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +   ++  R   G S +K     G++   + + E+G +    + L  I+      +
Sbjct: 4  INSYLAATLKQLRSQKGWSLDKAALETGVSKAMIGQIERGESSPTIATLWKIASGFNISL 63

Query: 71 SFFFDVSPTVCSDI 84
          S F + +P     +
Sbjct: 64 STFLEPTPESQGAV 77


>gi|327380975|gb|AEA52451.1| Transcriptional regulator [Lactobacillus casei LC2W]
          Length = 205

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 29/77 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N  K++   RM   M+Q  L E L ++   V  +E   N      +  I+ + E  +  
Sbjct: 4  MNFSKQLHQIRMAHQMTQVNLAEQLHVSRHTVSNWENDRNLPDLEMVTRIARIFEVSLDT 63

Query: 73 FFDVSPTVCSDISSEEN 89
               P +   +  +  
Sbjct: 64 LILDDPKLNEKLIHDSK 80


>gi|325267595|ref|ZP_08134247.1| DNA-binding protein [Kingella denitrificans ATCC 33394]
 gi|324980945|gb|EGC16605.1| DNA-binding protein [Kingella denitrificans ATCC 33394]
          Length = 124

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 36/79 (45%), Gaps = 9/79 (11%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-- 70
          + V  +IR+ R I   SQE++ E L ++     K E+G   +   +L+ I+++    +  
Sbjct: 1  MEVHDKIRVMREINQWSQEEMAEKLAMSANGYAKIERGQTNINIEKLKQIAQIFNIDMVD 60

Query: 71 -------SFFFDVSPTVCS 82
                 +FFF +     +
Sbjct: 61 LIANQDKTFFFSIGDNNVN 79


>gi|322390694|ref|ZP_08064207.1| XRE family transcriptional regulator [Streptococcus parasanguinis
          ATCC 903]
 gi|321142600|gb|EFX38065.1| XRE family transcriptional regulator [Streptococcus parasanguinis
          ATCC 903]
          Length = 151

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 10/79 (12%), Positives = 30/79 (37%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+R  R    ++Q ++ E + +      ++E G        +  ++++ ++   +   
Sbjct: 9  GDRLRELRKSKKLTQVQVSEMIDVQQGTYSRWENGTLEPNLEAVVKLAKLFDTTTDYLLG 68

Query: 76 VSPTVCSDISSEENNVMDF 94
           +     D+       +D 
Sbjct: 69 KTIYSTLDVVPPPITRIDL 87


>gi|261339922|ref|ZP_05967780.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterobacter cancerogenus ATCC 35316]
 gi|288317836|gb|EFC56774.1| toxin-antitoxin system, antitoxin component, Xre family
          [Enterobacter cancerogenus ATCC 35316]
          Length = 191

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 30/65 (46%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          I + ++  +  RIRL R   G S  +L +   ++   + K E+G +   A+ L  +S   
Sbjct: 4  ISDNMNQRISARIRLERESRGWSLSELADRASVSRAMIHKIERGESSPTATLLARLSGAF 63

Query: 67 ESPIS 71
             +S
Sbjct: 64 GISMS 68


>gi|220920176|ref|YP_002495477.1| XRE family transcriptional regulator [Methylobacterium nodulans
          ORS 2060]
 gi|219944782|gb|ACL55174.1| transcriptional regulator, XRE family [Methylobacterium nodulans
          ORS 2060]
          Length = 193

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 34/77 (44%), Gaps = 2/77 (2%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +D  +  R+R  R   G++ E L +  G++   +   E+  +   A+ L+ +S  L   
Sbjct: 7  DLDARLAARLRGLRTAQGLTLEALAQRCGVSRSMISLVERAESSPTATVLERLSAGLGVS 66

Query: 70 ISFFFDVSPTVCSDISS 86
          ++  F  SP    D S 
Sbjct: 67 LAALF--SPEHREDASP 81


>gi|197285845|ref|YP_002151717.1| transcriptional regulator [Proteus mirabilis HI4320]
 gi|194683332|emb|CAR44039.1| putative transcriptional regulator [Proteus mirabilis HI4320]
          Length = 375

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 28/58 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G  +RL R+   +S E++ E +G T Q +Q+ E G           ++ VL+    FF
Sbjct: 4  GSNLRLARLYHELSLEQVAERVGKTRQYIQRLESGYALPTKELTDELAFVLQVLPEFF 61


>gi|197285559|ref|YP_002151431.1| transcriptional regulator [Proteus mirabilis HI4320]
 gi|194683046|emb|CAR43543.1| putative transcriptional regulator [Proteus mirabilis HI4320]
          Length = 186

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 24/62 (38%), Gaps = 1/62 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P++I + + I   R   G+S  ++    GI    + + E G        L  I   L  P
Sbjct: 7  PIEI-ISQSIARERKKAGLSLAEIARRAGIAKSTLSQLEAGQGNPSIETLWAICVALNIP 65

Query: 70 IS 71
           S
Sbjct: 66 FS 67


>gi|261407406|ref|YP_003243647.1| XRE family transcriptional regulator [Paenibacillus sp. Y412MC10]
 gi|261283869|gb|ACX65840.1| transcriptional regulator, XRE family [Paenibacillus sp.
          Y412MC10]
          Length = 201

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 37/79 (46%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+++ +   +++ R    +S +K+ E  GI+   + + E+G +    + +  I+  L+  
Sbjct: 19 PINLILANNLKILREQRKLSLDKVAEMTGISKTMLGQIERGESSPSITTVWKIANGLKLS 78

Query: 70 ISFFFDVSPTVCSDISSEE 88
           S   +   +    +S EE
Sbjct: 79 FSSLINEPHSGTVVVSREE 97


>gi|191636948|ref|YP_001986114.1| Transcriptional regulator, xre family [Lactobacillus casei BL23]
 gi|190711250|emb|CAQ65256.1| Transcriptional regulator, xre family [Lactobacillus casei BL23]
 gi|327384151|gb|AEA55625.1| Transcriptional regulator [Lactobacillus casei BD-II]
          Length = 202

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 29/77 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N  K++   RM   M+Q  L E L ++   V  +E   N      +  I+ + E  +  
Sbjct: 1  MNFSKQLHQIRMAHQMTQVNLAEQLHVSRHTVSNWENDRNLPDLEMVTRIARIFEVSLDT 60

Query: 73 FFDVSPTVCSDISSEEN 89
               P +   +  +  
Sbjct: 61 LILDDPKLNEKLIHDSK 77


>gi|167913747|ref|ZP_02500838.1| putative transcriptional regulator, XRE family protein
          [Burkholderia pseudomallei 112]
          Length = 86

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 25/69 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ +R  R   G+SQE L     +    V   E G +      +  I   LE   S F 
Sbjct: 9  VGEVLRSLRRRKGLSQEALAHAADMERNYVSLIELGRHSPSVRVIWKICAALEVTPSAFL 68

Query: 75 DVSPTVCSD 83
            +     +
Sbjct: 69 AAAEARLGE 77


>gi|183221596|ref|YP_001839592.1| putative transcriptional regulator [Leptospira biflexa serovar
          Patoc strain 'Patoc 1 (Paris)']
 gi|189911676|ref|YP_001963231.1| hypothetical protein LBF_2156 [Leptospira biflexa serovar Patoc
          strain 'Patoc 1 (Ames)']
 gi|167776352|gb|ABZ94653.1| Hypothetical protein LBF_2156 [Leptospira biflexa serovar Patoc
          strain 'Patoc 1 (Ames)']
 gi|167780018|gb|ABZ98316.1| Putative transcriptional regulator [Leptospira biflexa serovar
          Patoc strain 'Patoc 1 (Paris)']
          Length = 93

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N+   ++  R   G+SQ  L +   +T QQ+ K E G+N    S    +   L+  IS
Sbjct: 28 VNISIELQSLREKKGLSQSDLAKKAHVTQQQLSKIENGINC-NLSTFLKVCHALDLEIS 85


>gi|71065694|ref|YP_264421.1| DNA-binding protein [Psychrobacter arcticus 273-4]
 gi|71038679|gb|AAZ18987.1| probable DNA binding protein, helix turn helix motif
          [Psychrobacter arcticus 273-4]
          Length = 101

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 40/86 (46%), Gaps = 3/86 (3%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           P+ +   +G+R++ +R+ L ++Q  L E  GI    V + E G        +  ++  L
Sbjct: 9  TPSEIAKILGERLKTQRLALNLTQAALAEKAGIGVSTVARIESGQGG-TLDNIIRLAMAL 67

Query: 67 ES--PISFFFDVSPTVCSDISSEENN 90
                +  FD+ PT   D+ +++N 
Sbjct: 68 GMVHHFAELFDMVPTNIEDVIAKKNP 93


>gi|134298370|ref|YP_001111866.1| XRE family transcriptional regulator [Desulfotomaculum reducens
          MI-1]
 gi|134051070|gb|ABO49041.1| transcriptional regulator, XRE family [Desulfotomaculum reducens
          MI-1]
          Length = 100

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 14/45 (31%), Positives = 23/45 (51%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          M+QE+L + LG T  QV  YE+G        L+ I++  +    +
Sbjct: 1  MTQEQLAQQLGFTRGQVSNYEQGSREPDFETLKKIADFFKVTTDY 45


>gi|56808878|ref|ZP_00366588.1| COG1396: Predicted transcriptional regulators [Streptococcus
          pyogenes M49 591]
          Length = 250

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 35/66 (53%), Gaps = 1/66 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + G ++++ R+   +S+E L G+   ++ +Q+ + E G +    S++  I++ L   + +
Sbjct: 4  HFGGKVKVLRLEKRISREDLCGDESELSVRQLARIELGQSIPSLSKVIFIAKALNVSVGY 63

Query: 73 FFDVSP 78
            D + 
Sbjct: 64 LTDGAD 69


>gi|323691263|ref|ZP_08105538.1| XRE family Transcriptional regulator [Clostridium symbiosum
          WAL-14673]
 gi|323504603|gb|EGB20390.1| XRE family Transcriptional regulator [Clostridium symbiosum
          WAL-14673]
          Length = 126

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 34/84 (40%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+RI+  R  LG++ EK GE LG+T   + + EKG   +     + I         +   
Sbjct: 4  GERIKDVRNSLGLTLEKFGEKLGVTKTAISRLEKGERSLTEQMTKSICREFSVDYMWLTT 63

Query: 76 VSPTVCSDISSEENNVMDFISTPD 99
              +  +   +    +D I   +
Sbjct: 64 GEGEMFVETDDDFFERIDRIMAGE 87


>gi|323359481|ref|YP_004225877.1| hypothetical protein MTES_3033 [Microbacterium testaceum StLB037]
 gi|323275852|dbj|BAJ75997.1| hypothetical protein MTES_3033 [Microbacterium testaceum StLB037]
          Length = 1354

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 23/99 (23%), Positives = 41/99 (41%), Gaps = 11/99 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  IR+ R   G+ Q +L   +G+  Q V  +E+G +R   S+L  +  VL   +    
Sbjct: 5   LGTLIRVSRTATGLDQAELARAMGVGQQTVSAWERGRSRPRQSQLPGLCSVLGLSLD--- 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
                   D ++  +  +D  +    L L   F  + D 
Sbjct: 62  --------DATAAGSYEVDAANATHNLVLTLPFENLSDE 92


>gi|317489385|ref|ZP_07947897.1| hypothetical protein HMPREF1023_01596 [Eggerthella sp. 1_3_56FAA]
 gi|316911492|gb|EFV33089.1| hypothetical protein HMPREF1023_01596 [Eggerthella sp. 1_3_56FAA]
          Length = 197

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/76 (17%), Positives = 29/76 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R   G+SQ+ L   + ++ Q V  +E          L  +S + +  +  
Sbjct: 1  MELGSQIKRHRTERGLSQDDLAAKIYVSRQTVSSWENDKTYPDVESLLLLSVLFDVTVDE 60

Query: 73 FFDVSPTVCSDISSEE 88
                    +  S +
Sbjct: 61 LIKGDVEAMKEAISND 76


>gi|303327832|ref|ZP_07358272.1| transcriptional regulator, Cro/CI family [Desulfovibrio sp.
          3_1_syn3]
 gi|302862193|gb|EFL85127.1| transcriptional regulator, Cro/CI family [Desulfovibrio sp.
          3_1_syn3]
          Length = 227

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 30/73 (41%), Gaps = 1/73 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R RR+ L + ++ L   +G++   +Q+YE G           +SE L   + +    
Sbjct: 17 ERLRQRRVQLALRKQDLAAQVGVSLTTIQQYENG-QLPKGEFAVRLSEALRCSLDWLLAG 75

Query: 77 SPTVCSDISSEEN 89
                D+     
Sbjct: 76 KGDADGDVLDTPE 88


>gi|229150689|ref|ZP_04278903.1| Transcriptional regulator, Xre [Bacillus cereus m1550]
 gi|228632776|gb|EEK89391.1| Transcriptional regulator, Xre [Bacillus cereus m1550]
          Length = 292

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKELRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|225405510|ref|ZP_03760699.1| hypothetical protein CLOSTASPAR_04730 [Clostridium asparagiforme
          DSM 15981]
 gi|225042963|gb|EEG53209.1| hypothetical protein CLOSTASPAR_04730 [Clostridium asparagiforme
          DSM 15981]
          Length = 63

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 21/54 (38%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            R  +G+SQE+    L ++ Q V   E G           I++  +  I   F
Sbjct: 3  QLRKEMGLSQEEFARALRVSRQTVSSIENGKYNPSLELAFQIADFFQKTIEELF 56


>gi|254465799|ref|ZP_05079210.1| transcriptional regulator, XRE family with cupin sensor
          [Rhodobacterales bacterium Y4I]
 gi|206686707|gb|EDZ47189.1| transcriptional regulator, XRE family with cupin sensor
          [Rhodobacterales bacterium Y4I]
          Length = 188

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 11/62 (17%), Positives = 27/62 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R   G+S E +    G++   V + E+G +    + L +++  L+   +   + 
Sbjct: 14 ARLKEARRAQGLSLEAVANLSGVSRSMVSQIERGESSPTIATLWNLTRALQVDFAGLLES 73

Query: 77 SP 78
            
Sbjct: 74 GD 75


>gi|162148383|ref|YP_001602844.1| hypothetical protein GDI_2602 [Gluconacetobacter diazotrophicus
          PAl 5]
 gi|161786960|emb|CAP56545.1| hypothetical protein GDI2602 [Gluconacetobacter diazotrophicus
          PAl 5]
          Length = 86

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 28/69 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG  I   R   G++Q  L + +G+    +  +E G      + L  +   L+ P S 
Sbjct: 11 VAVGAIIERERKRSGVTQTDLAKAIGVQSNAIWGWETGARLPRMNHLFDLLWELDVPQSV 70

Query: 73 FFDVSPTVC 81
          F ++     
Sbjct: 71 FLEILAADA 79


>gi|163733254|ref|ZP_02140698.1| DNA-binding protein [Roseobacter litoralis Och 149]
 gi|161393789|gb|EDQ18114.1| DNA-binding protein [Roseobacter litoralis Och 149]
          Length = 187

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 37/76 (48%), Gaps = 3/76 (3%)

Query: 7  IPNPVDINVGK---RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +    D  +G+   R++  R + G+S + + +  G++   V + E+G +    S L +++
Sbjct: 1  MTEETDQILGQLPARLKDARRVQGLSLDAVAKLSGVSRSMVSQIERGESSPTISTLWNLT 60

Query: 64 EVLESPISFFFDVSPT 79
            L+   +   DV+ T
Sbjct: 61 RALQVDFAGLLDVAAT 76


>gi|163782866|ref|ZP_02177862.1| hypothetical protein HG1285_16061 [Hydrogenivirga sp. 128-5-R1-1]
 gi|159881987|gb|EDP75495.1| hypothetical protein HG1285_16061 [Hydrogenivirga sp. 128-5-R1-1]
          Length = 71

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 34/68 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+R+R  R   G+SQE+    +GI   ++++ E+G      + L +IS++ +    +  
Sbjct: 2  VGERVRKLREEKGLSQEEFARRIGIPVDRLREIEEGRLEPCDATLVYISKLFDVSFWWLK 61

Query: 75 DVSPTVCS 82
          +    V  
Sbjct: 62 EGRKEVAE 69


>gi|88803785|ref|ZP_01119308.1| transcription regulator [Polaribacter irgensii 23-P]
 gi|88780313|gb|EAR11495.1| transcription regulator [Polaribacter irgensii 23-P]
          Length = 257

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 26/58 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          N+ K I+  R +  ++QE L E L +T  ++  YE+  +      L   S     PI 
Sbjct: 3  NLSKNIKHLRTLKKLTQESLAEELSVTRSRISSYEENRSSPTIDFLIDFSAYFRIPID 60


>gi|325660973|ref|ZP_08149600.1| hypothetical protein HMPREF0490_00332 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|325472480|gb|EGC75691.1| hypothetical protein HMPREF0490_00332 [Lachnospiraceae bacterium
          4_1_37FAA]
          Length = 65

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 24/62 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R    M QE+L   +G+  + +   EKG          +I++     I   F V
Sbjct: 4  NRIKEYRARFDMKQEELAAKVGVRRETIGNLEKGKYNPSLVLAWNIAKTFHVTIEEIFTV 63

Query: 77 SP 78
            
Sbjct: 64 EE 65


>gi|229091875|ref|ZP_04223064.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          Rock3-42]
 gi|228691455|gb|EEL45214.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          Rock3-42]
          Length = 433

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 38/74 (51%), Gaps = 4/74 (5%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          NK+  N   + +G+RIR  RM  G++Q +L   +  +   + + E G  +  +S ++ +S
Sbjct: 5  NKESKN---MEIGERIRHVRMHKGLTQGELVSGI-CSITYLSRIESGKIKPSSSFIKKVS 60

Query: 64 EVLESPISFFFDVS 77
          + LE    +  + +
Sbjct: 61 KKLEVKSDYLINGN 74


>gi|259909520|ref|YP_002649876.1| transcriptional repressor [Erwinia pyrifoliae Ep1/96]
 gi|224965142|emb|CAX56674.1| transcriptional repressor [Erwinia pyrifoliae Ep1/96]
          Length = 136

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 31/58 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GKR++  R     +Q+++   +G+   Q  KYE G++   A +L  ++E+  + I + 
Sbjct: 19 GKRLKELRNQQRRTQKEVAALIGLQLSQYNKYESGMHIPPAEKLIQLAELFTTTIDYL 76


>gi|260587216|ref|ZP_05853129.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
          hansenii DSM 20583]
 gi|283798210|ref|ZP_06347363.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
 gi|260542411|gb|EEX22980.1| toxin-antitoxin system, antitoxin component, Xre family [Blautia
          hansenii DSM 20583]
 gi|291074079|gb|EFE11443.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
          Length = 86

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 3/58 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG---ASRLQHISEVLESPIS 71
          ++++  R   G+SQ +L E  G+  +  QKYE+G   +     S L  I + L   +S
Sbjct: 12 EKLQKLRQAAGLSQSQLAEAAGVNVRMYQKYEQGDRDISKAQLSTLLRICKALSCKLS 69


>gi|148989990|ref|ZP_01821265.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP6-BS73]
 gi|194397378|ref|YP_002038572.1| transcriptional regulator PlcR [Streptococcus pneumoniae G54]
 gi|147924650|gb|EDK75736.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae SP6-BS73]
 gi|194357045|gb|ACF55493.1| transcriptional regulator PlcR, putative [Streptococcus
          pneumoniae G54]
          Length = 299

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 33/68 (48%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGVSRPDFCGDEQELTVRQLSRIESGASQPSLPKLAYIARRLGVPVY 60

Query: 72 FFFDVSPT 79
                  
Sbjct: 61 SLMPDFSA 68


>gi|158313503|ref|YP_001506011.1| XRE family transcriptional regulator [Frankia sp. EAN1pec]
 gi|158108908|gb|ABW11105.1| transcriptional regulator, XRE family [Frankia sp. EAN1pec]
          Length = 214

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 23/104 (22%), Positives = 36/104 (34%), Gaps = 8/104 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G +   L    GI+   + + E G  R+    L  +++  + P+    
Sbjct: 14  VGPRLRALRKQNGTTLPALSRVTGISVSTLSRLESGQRRLTLELLLPLAKAYQVPLDELV 73

Query: 75  DVSPTVCSDISSEENN-----VMDFISTPDGLQLNRYFIQIDDV 113
              PT    +           V+     P GL   R F  I   
Sbjct: 74  GTPPTGDPRVLPRPFERDGMTVVPLTRRPGGL---RSFKMIFPP 114


>gi|327309856|ref|YP_004336754.1| helix-turn-helix domain-containing protein [Pseudonocardia
          dioxanivorans CB1190]
 gi|326955191|gb|AEA28887.1| helix-turn-helix domain protein [Pseudonocardia dioxanivorans
          CB1190]
          Length = 287

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/46 (36%), Positives = 24/46 (52%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           +G R+R RR   G++  +LG  LGI+   V K E G  RV    +
Sbjct: 7  QLGARLRSRRKAAGLTGTELGRLLGISQATVSKLENGQARVDEELV 52


>gi|325956992|ref|YP_004292404.1| transcriptional regulator [Lactobacillus acidophilus 30SC]
 gi|325333557|gb|ADZ07465.1| transcriptional regulator [Lactobacillus acidophilus 30SC]
          Length = 122

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 12/70 (17%), Positives = 28/70 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            I+  R    ++Q +L + L ++ Q V  +E G    G+  L  +++  +    +    
Sbjct: 11 NNIKELRKQKRLNQVELAKQLNVSQQTVGAWETGRAIPGSDTLDILADFFDVSTDYLLGR 70

Query: 77 SPTVCSDISS 86
                D ++
Sbjct: 71 ETNSKKDNTA 80


>gi|296110774|ref|YP_003621155.1| putative transcriptional regulator [Leuconostoc kimchii IMSNU
          11154]
 gi|295832305|gb|ADG40186.1| putative transcriptional regulator [Leuconostoc kimchii IMSNU
          11154]
          Length = 171

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 27/53 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I+ +R  L ++Q +L E L ++ + +  +E G        + +I+++L   + 
Sbjct: 7  IKTKRQELNITQSELAEKLFVSNKTISNWETGKTMPDLDNVLYIAKILRISLD 59


>gi|258646905|ref|ZP_05734374.1| toxin-antitoxin system, antitoxin component, Xre family
          [Dialister invisus DSM 15470]
 gi|260404347|gb|EEW97894.1| toxin-antitoxin system, antitoxin component, Xre family
          [Dialister invisus DSM 15470]
          Length = 262

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 30/58 (51%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++G +I++ R  LG+S E+ G+    T   V  +E G       RL  ++E+   PI+
Sbjct: 11 HLGLKIKILRYKLGLSMEEFGKIFNATKGSVSGWESGKVIPNIERLHQMAEMENIPIT 68


>gi|326203818|ref|ZP_08193680.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
          2782]
 gi|325985916|gb|EGD46750.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
          2782]
          Length = 67

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 28/63 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R+   ++Q+K+ +  G+    + K E G  R      + I+EVL    + F+D   
Sbjct: 5  LKDLRIAKNLTQQKVAKLAGVDVTTINKIELGGRRPSPDTAKAIAEVLGFEWTKFYDEEQ 64

Query: 79 TVC 81
             
Sbjct: 65 ESA 67


>gi|228949440|ref|ZP_04111697.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
 gi|228810236|gb|EEM56600.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          monterrey BGSC 4AJ1]
          Length = 138

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 32/57 (56%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VGK I+  R I G+S++++ E L  T++ V  +E G      ++L+ I+  L   +S
Sbjct: 19 VGKNIKKLRAIKGVSRKEMAEDLNTTYRTVSSWETGEKTPRLNKLEEIATYLNVSVS 75


>gi|187932496|ref|YP_001886375.1| hypothetical protein CLL_A2186 [Clostridium botulinum B str.
          Eklund 17B]
 gi|187720649|gb|ACD21870.1| conserved domain protein [Clostridium botulinum B str. Eklund
          17B]
          Length = 78

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           R++  R    ++QE+LG+ +G + Q +   E             IS+V    I   F F
Sbjct: 3  NRLKEFREANKLTQEQLGKLVGTSRQAINAIETEKYEPSIWLAYDISKVFNCSIEEVFIF 62

Query: 75 DVSP 78
          + S 
Sbjct: 63 EESK 66


>gi|49480398|ref|YP_039247.1| transcriptional regulator, DNA-binding protein [Bacillus
          thuringiensis serovar konkukian str. 97-27]
 gi|49331954|gb|AAT62600.1| transcriptional regulator, DNA-binding protein [Bacillus
          thuringiensis serovar konkukian str. 97-27]
          Length = 63

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +++  R   G+SQ +L + + +  Q +   E        +    +++ L++ ++  F
Sbjct: 2  NKVKQYRKSEGLSQLELAKRVKVARQTINLIENNKYNPSLALCIELAKALKTDLNSLF 59


>gi|87121237|ref|ZP_01077127.1| hypothetical protein MED121_23009 [Marinomonas sp. MED121]
 gi|86163394|gb|EAQ64669.1| hypothetical protein MED121_23009 [Marinomonas sp. MED121]
          Length = 186

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 1/73 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P++I V K ++  R  LG+S  ++    GI    + + E G+       L  +S  L+ P
Sbjct: 8  PIEI-VAKALKRERRKLGVSMAEIARQAGIAKSTLSQLESGIGNPSLETLWALSIALQVP 66

Query: 70 ISFFFDVSPTVCS 82
           S   +VS +   
Sbjct: 67 FSKLIEVSSSQVQ 79


>gi|332366465|gb|EGJ44213.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1059]
          Length = 94

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GK+++  R   G SQ ++ E LG T Q +  +E     + ++ L  +++  +  + 
Sbjct: 2  LGKQLKFIREQKGYSQAQIAESLGTTRQTISNWENDKTILDSASLIRLADFYQISLD 58


>gi|327474019|gb|EGF19432.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK408]
          Length = 94

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GK+++  R   G SQ ++ E LG T Q +  +E     + ++ L  +++  +  + 
Sbjct: 2  LGKQLKFIREQKGYSQAQIAESLGTTRQTISNWENDKTILDSASLIRLADFYQISLD 58


>gi|307301170|ref|ZP_07580932.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
 gi|307321071|ref|ZP_07600476.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306893243|gb|EFN24024.1| transcriptional regulator, XRE family [Sinorhizobium meliloti AK83]
 gi|306903626|gb|EFN34213.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
           BL225C]
          Length = 192

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/97 (18%), Positives = 37/97 (38%), Gaps = 2/97 (2%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P++  +  R+R  RM   ++ + L    G++   + + E+G     A  L  +   L + 
Sbjct: 7   PLEETMAMRLRELRMARDLTLDDLAGRSGVSRAMISRIERGEASPTAQLLAKLCSALGTT 66

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           +S  F    +  S ++            P+   L R 
Sbjct: 67  LSALFASERSEASPLARHAE--QRLWRDPESGYLRRS 101


>gi|255011059|ref|ZP_05283185.1| putative DNA-binding protein [Bacteroides fragilis 3_1_12]
 gi|313148864|ref|ZP_07811057.1| transcriptional regulator [Bacteroides fragilis 3_1_12]
 gi|313137631|gb|EFR54991.1| transcriptional regulator [Bacteroides fragilis 3_1_12]
          Length = 151

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 1/63 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+++ G  IR  R+   + Q+ L   + +T   V KYEK +  +    L   +  L  P+
Sbjct: 10 VNVHHGHNIRRTRIEKNIKQDALAALVNMTQPNVSKYEK-MRVIEDEMLNRFARALNVPV 68

Query: 71 SFF 73
           + 
Sbjct: 69 EYL 71


>gi|256423759|ref|YP_003124412.1| XRE family transcriptional regulator [Chitinophaga pinensis DSM
          2588]
 gi|256038667|gb|ACU62211.1| transcriptional regulator, XRE family [Chitinophaga pinensis DSM
          2588]
          Length = 111

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 26/61 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N GK I   R  L  SQ  L +   ++   + KYE+G         + I++ L   + +
Sbjct: 1  MNTGKIIADLRDKLAWSQTDLADKSSVSRVMIGKYERGEAVPSIDAAKRIADALGVSLDY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|228987486|ref|ZP_04147605.1| Transcriptional regulator [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
 gi|228772218|gb|EEM20665.1| Transcriptional regulator [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
          Length = 115

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 27/55 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VG+ I+  R    ++QE+L E  G++  Q++ +E   +      L+ ++    + 
Sbjct: 5  VGQNIKRLRKSFDLTQEQLSERTGLSRGQIKNWETDRHEPDLESLKVLASYFNTS 59


>gi|254466475|ref|ZP_05079886.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
           Y4I]
 gi|206687383|gb|EDZ47865.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
           Y4I]
          Length = 110

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 26/111 (23%), Positives = 46/111 (41%), Gaps = 11/111 (9%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q +L   LGI    +  +E+ +    A++L  ++ VL   +S+         S+ +  
Sbjct: 1   MTQGQLARRLGIKKSTLSAWERDLAEPRANKLTMLAGVLNVSMSWLLTGEGEGMSEPAPL 60

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTIEE 138
           E    DF S  + L+  R        ++RQ            EKK RT+ +
Sbjct: 61  ELEAGDFTSILNELRDLRS-------EMRQN----AERAARLEKKLRTLLQ 100


>gi|28631122|gb|AAO49680.1| Eag0009 [Haemophilus influenzae]
 gi|301169931|emb|CBW29535.1| unnamed protein product [Haemophilus influenzae 10810]
          Length = 130

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 32/133 (24%), Positives = 60/133 (45%), Gaps = 24/133 (18%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-- 70
           + V  +IR+ R I   SQE++ E L ++     K E+G + +   +LQ I+ V    +  
Sbjct: 1   MEVHDKIRVMREINQWSQEEMAEKLSMSPNGYAKIERGQSSINLDKLQQIANVFNIDMGE 60

Query: 71  -------SFFFDVSPTVCSD-----------ISSEENNVMDFISTPDGLQLNRYFIQIDD 112
                  S FF V      +           +++E   +   ++  D L L +   + D+
Sbjct: 61  LITCKDRSIFFAVGGDNSYNLTNSHFGTNEVLTAENEKLNSLLTMKDTL-LAQ---KDDE 116

Query: 113 VKVRQKIIELVRS 125
           +K  ++IIEL++S
Sbjct: 117 IKALKEIIELLKS 129


>gi|15964024|ref|NP_384377.1| hypothetical protein SMc00351 [Sinorhizobium meliloti 1021]
 gi|15073200|emb|CAC41708.1| Putative HTH-type transcriptional regulator [Sinorhizobium meliloti
           1021]
          Length = 197

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/97 (18%), Positives = 37/97 (38%), Gaps = 2/97 (2%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P++  +  R+R  RM   ++ + L    G++   + + E+G     A  L  +   L + 
Sbjct: 12  PLEETMAMRLRELRMARDLTLDDLAGRSGVSRAMISRIERGEASPTAQLLAKLCSALGTT 71

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           +S  F    +  S ++            P+   L R 
Sbjct: 72  LSALFASERSEASPLARHAE--QRLWRDPESGYLRRS 106


>gi|134298461|ref|YP_001111957.1| XRE family transcriptional regulator [Desulfotomaculum reducens
          MI-1]
 gi|134051161|gb|ABO49132.1| transcriptional regulator, XRE family [Desulfotomaculum reducens
          MI-1]
          Length = 64

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R IL MSQE+L E +G+T Q +   E G           I + L   +   F
Sbjct: 5  KMKSARAILDMSQEQLAEAVGVTRQTIGMIEAGKFNPSLQLCIAICKALGKTLDEIF 61


>gi|186685912|ref|YP_001869108.1| XRE family transcriptional regulator [Nostoc punctiforme PCC
          73102]
 gi|186468364|gb|ACC84165.1| transcriptional regulator, XRE family [Nostoc punctiforme PCC
          73102]
          Length = 75

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/48 (33%), Positives = 26/48 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +R  R  L +SQ KL   LG++F  V ++E G  R     ++ I ++L
Sbjct: 13 VRETRQYLKLSQVKLATMLGVSFHTVNRWENGRTRPSPLAMKQIEKLL 60


>gi|317472617|ref|ZP_07931934.1| hypothetical protein HMPREF1011_02284 [Anaerostipes sp.
          3_2_56FAA]
 gi|316899903|gb|EFV21900.1| hypothetical protein HMPREF1011_02284 [Anaerostipes sp.
          3_2_56FAA]
          Length = 369

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 24/51 (47%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +R   G++Q++L   +G++   V K+E G +    + L  ++      + 
Sbjct: 12 KKRKEKGITQDQLAAYIGVSKASVSKWETGQSYPDITFLPQLAAYFNMSVD 62


>gi|304406701|ref|ZP_07388356.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
 gi|304344234|gb|EFM10073.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
          Length = 121

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 11/81 (13%), Positives = 33/81 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+R++  R    M+Q+ +   +  +   +  YE          ++ ++++ +  I +
Sbjct: 1  MTFGERLKELREQRNMTQQDVAIAVNKSRTDIAGYETKGTSPNIETVRRLADLFKVSIDY 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
           F  +       + EE+   +
Sbjct: 61 MFGRTNDPYQLFTREEDMSPE 81


>gi|291537213|emb|CBL10325.1| Helix-turn-helix [Roseburia intestinalis M50/1]
          Length = 177

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 28/53 (52%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          ++ + ++  R+   + Q ++ + L + +Q   K E+GV +    +L  I ++L
Sbjct: 10 HIAQNLKEYRISHNLKQTEMADLLKMNYQNYSKMERGVYQPSLDKLLEICDIL 62


>gi|270292315|ref|ZP_06198526.1| putative transcriptional repressor [Streptococcus sp. M143]
 gi|270278294|gb|EFA24140.1| putative transcriptional repressor [Streptococcus sp. M143]
          Length = 69

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+   ++Q  L E +G+T Q +   E G      S  Q I   L   +   F
Sbjct: 6  KLKLARVERDLTQGDLAEAVGVTRQTIGLIEAGKYNPSLSLCQSICRRLGKTLDQLF 62


>gi|228937302|ref|ZP_04099955.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
 gi|228822360|gb|EEM68336.1| Transcriptional regulator, MerR [Bacillus thuringiensis serovar
          andalousiensis BGSC 4AW1]
          Length = 127

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 32/56 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VGK I+  R I G+S++++ E L  T++ V  +E G  +   ++L+ I+  L   +
Sbjct: 8  VGKNIKKLRAIKGVSRKEMAEDLNTTYRTVSSWETGEKKPRLNKLEEIASYLNVSV 63


>gi|209883535|ref|YP_002287392.1| DNA-binding protein [Oligotropha carboxidovorans OM5]
 gi|209871731|gb|ACI91527.1| DNA-binding protein [Oligotropha carboxidovorans OM5]
          Length = 202

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          V  ++G+RIR  R   GMS E+L    G+T   + K E+ +     +    +S V  
Sbjct: 19 VSSSLGERIRFARQQRGMSLEQLATATGLTKSYLSKVERQLAVPSITTALKVSRVFG 75


>gi|94993432|ref|YP_601530.1| transcriptional regulator [Streptococcus pyogenes MGAS10750]
 gi|94546940|gb|ABF36986.1| Transcriptional regulator [Streptococcus pyogenes MGAS10750]
          Length = 303

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 35/66 (53%), Gaps = 1/66 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + G ++++ R+   +S+E L G+   ++ +Q+ + E G +    S++  I++ L   + +
Sbjct: 4  HFGGKVKVLRLEKRISREDLCGDESELSVRQLARIELGQSIPSLSKVIFIAKALNVSVGY 63

Query: 73 FFDVSP 78
            D + 
Sbjct: 64 LTDGAD 69


>gi|330875276|gb|EGH09425.1| transcriptional regulator [Pseudomonas syringae pv. morsprunorum
          str. M302280PT]
 gi|330965856|gb|EGH66116.1| transcriptional regulator [Pseudomonas syringae pv. actinidiae
          str. M302091]
          Length = 149

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 5/80 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-- 72
          +G R++  R+ L +SQ  LG   G+       YE GV    A  L  I++     +++  
Sbjct: 4  IGPRLKKERLRLKISQSALGAIGGVETNAQGNYENGVRSPRADYLSRIADA-GVNVTYVV 62

Query: 73 --FFDVSPTVCSDISSEENN 90
            F D SPT+ +  ++ + +
Sbjct: 63 TGFSDYSPTLTAKATTSQES 82


>gi|260433557|ref|ZP_05787528.1| transcriptional regulator, XRE family [Silicibacter
          lacuscaerulensis ITI-1157]
 gi|260417385|gb|EEX10644.1| transcriptional regulator, XRE family [Silicibacter
          lacuscaerulensis ITI-1157]
          Length = 207

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 2/72 (2%)

Query: 3  GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          G +  P PVD  +G R+R  R     + E+     G+    + K E G        L+ +
Sbjct: 17 GTRTEPEPVD--LGARVRELRKARNWTLEQAANQAGLARSTLSKIENGQMSPTYDALKKL 74

Query: 63 SEVLESPISFFF 74
          +  LE  +   F
Sbjct: 75 ATGLEISVPQLF 86


>gi|259502266|ref|ZP_05745168.1| DNA-binding protein [Lactobacillus antri DSM 16041]
 gi|259169884|gb|EEW54379.1| DNA-binding protein [Lactobacillus antri DSM 16041]
          Length = 204

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I+ +R  LG++Q  +   L +T Q +  +E+G +    + L  +SEV    +       
Sbjct: 6  QIKEQRKKLGLTQADVAHQLFVTRQTISNWEQGKSYPDLAMLVKLSEVYRISLDTLLKGD 65


>gi|253581969|ref|ZP_04859193.1| predicted protein [Fusobacterium varium ATCC 27725]
 gi|251836318|gb|EES64855.1| predicted protein [Fusobacterium varium ATCC 27725]
          Length = 181

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 25/61 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I + +R+R  R   G+ Q K+ E L I     Q YE    R+    L  ++      I +
Sbjct: 8  ITLAQRLRELREEKGLLQLKVAEALEIPRSSYQGYETASKRLSLEALDKLAFYFNVSIDY 67

Query: 73 F 73
           
Sbjct: 68 L 68


>gi|212691942|ref|ZP_03300070.1| hypothetical protein BACDOR_01437 [Bacteroides dorei DSM 17855]
 gi|212665544|gb|EEB26116.1| hypothetical protein BACDOR_01437 [Bacteroides dorei DSM 17855]
          Length = 142

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 1/58 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          N+G  IR  R+  G++QE+LG+ +G+   Q+ K E G   +    +  + + L    S
Sbjct: 7  NIGLMIRNERLRKGLTQEELGKRIGVGKAQISKIESGK-GLTIKTITKVLDALGMSAS 63


>gi|154504997|ref|ZP_02041735.1| hypothetical protein RUMGNA_02507 [Ruminococcus gnavus ATCC
          29149]
 gi|153794880|gb|EDN77300.1| hypothetical protein RUMGNA_02507 [Ruminococcus gnavus ATCC
          29149]
          Length = 147

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 28/53 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++  R    ++QE++ + + +T Q V ++E G  +     L+ +S+  E  ++
Sbjct: 7  LKKLREKNSLTQEQMAKRVMVTRQAVSRWETGETQPNTDTLKLLSQEFEVSVN 59


>gi|126730415|ref|ZP_01746226.1| DNA-binding protein, putative [Sagittula stellata E-37]
 gi|126709148|gb|EBA08203.1| DNA-binding protein, putative [Sagittula stellata E-37]
          Length = 188

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 12/71 (16%), Positives = 33/71 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R   G++ ++L + LG +   + + E+ ++    + L+H++  L+  +S   
Sbjct: 10 LGSDLRTLRRTRGLTLQQLADKLGRSVGWLSQVERDLSEPSITDLRHLAAALDVSVSMLA 69

Query: 75 DVSPTVCSDIS 85
                  ++ 
Sbjct: 70 RQDAAAPEEVG 80


>gi|103486182|ref|YP_615743.1| XRE family transcriptional regulator [Sphingopyxis alaskensis
          RB2256]
 gi|98976259|gb|ABF52410.1| transcriptional regulator, XRE family [Sphingopyxis alaskensis
          RB2256]
          Length = 63

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+++ R     SQ+ L + L ++ Q V   E G           I+++   PI   F
Sbjct: 3  NRLKVLRAERDWSQQDLADRLEVSRQSVNAIETGKYDPSLPLAFRIADLFGLPIEAIF 60


>gi|134100678|ref|YP_001106339.1| HTH DNA-binding domain-containing protein [Saccharopolyspora
           erythraea NRRL 2338]
 gi|291006518|ref|ZP_06564491.1| HTH DNA-binding domain-containing protein [Saccharopolyspora
           erythraea NRRL 2338]
 gi|37595051|gb|AAQ94242.1| helix-turn-helix regulator [Saccharopolyspora erythraea]
 gi|133913301|emb|CAM03414.1| HTH transcriptional regulator, XRE family, cupin domain
           [Saccharopolyspora erythraea NRRL 2338]
          Length = 196

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 26/145 (17%), Positives = 51/145 (35%), Gaps = 23/145 (15%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  +R  R + G+S  ++     I    + + E G        L  +++VLE P+    
Sbjct: 7   VGANLRAVRSVRGLSLSEVARRAAIGKGTLSELEAGQRNPTLETLYALAQVLEVPLGELL 66

Query: 75  DVSPTVCSD-------------ISSEENNVMDFIS----TPDGLQL-NRYFIQIDDVKVR 116
             +     D               + +  +MD  +      +  +L  R   +      R
Sbjct: 67  VETEAADGDRQVLVRAGGADLSGRTIDVQLMDRTAIGGFRQEIYRLYARAGSRYVSPGHR 126

Query: 117 QKIIE--LVRS---IVSSEKKYRTI 136
            +++E  LV S   +   E+   T+
Sbjct: 127 PRVVEQLLVHSGTLVAGPEQDPVTL 151


>gi|83719318|ref|YP_441974.1| DNA-binding protein [Burkholderia thailandensis E264]
 gi|257138149|ref|ZP_05586411.1| DNA-binding protein [Burkholderia thailandensis E264]
 gi|83653143|gb|ABC37206.1| DNA-binding protein [Burkholderia thailandensis E264]
          Length = 192

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/82 (19%), Positives = 33/82 (40%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           V+  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   
Sbjct: 2  DVNQLIARRVRALRDLRGYSLDALAERSKVSRSNISLIERAQSSPTAVVLERLASALGVS 61

Query: 70 ISFFFDVSPTVCSDISSEENNV 91
          I+  F+          + E  V
Sbjct: 62 IASLFERDRAASPLSRAAEQPV 83


>gi|56698137|ref|YP_168509.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
 gi|56679874|gb|AAV96540.1| DNA-binding protein, putative [Ruegeria pomeroyi DSS-3]
          Length = 189

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 31/66 (46%), Gaps = 2/66 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          ++R  R   G+S  K+ E  G++   + + E+G +    + L  I++  + P+S    + 
Sbjct: 9  KLREVRAAAGLSLAKVAELTGVSKAMLGQIERGESSPTIATLWKIAKGFQMPLSAL--LG 66

Query: 78 PTVCSD 83
          P    D
Sbjct: 67 PAALRD 72


>gi|51596125|ref|YP_070316.1| prophage repressor protein [Yersinia pseudotuberculosis IP 32953]
 gi|51589407|emb|CAH21029.1| putative prophage repressor protein [Yersinia pseudotuberculosis
          IP 32953]
          Length = 228

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 1/58 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +R+  RR  L +SQE+L    G++   + K E G       + L +I+  L     + 
Sbjct: 7  ERVSERRSALNLSQEELARKSGVSRVAISKAELGLTKNFNGNTLFNIARALLCNPEWL 64


>gi|86134662|ref|ZP_01053244.1| DNA binding helix-turn helix protein [Polaribacter sp. MED152]
 gi|85821525|gb|EAQ42672.1| DNA binding helix-turn helix protein [Polaribacter sp. MED152]
          Length = 84

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 29/60 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K+I  RR  LG++Q  + E L +T+    K E G  ++   RL  I + L      FF+ 
Sbjct: 22 KKIVDRRKELGLTQWDISEQLNLTYSGYFKVETGKTKLDVYRLFEILDTLNITPKEFFED 81


>gi|328554201|gb|AEB24693.1| transcriptional regulator SinR [Bacillus amyloliquefaciens TA208]
          Length = 111

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+RI+  R   G S  +L E  G+    +   E+ +        L+ +S VL+  +   
Sbjct: 2  IGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 61

Query: 74 FDVSPTVCSDISSEEN 89
           D       D   +  
Sbjct: 62 LDEKHETEYDGQLDSE 77


>gi|312977083|ref|ZP_07788832.1| putative transcriptional regulator [Lactobacillus crispatus
          CTV-05]
 gi|310896411|gb|EFQ45476.1| putative transcriptional regulator [Lactobacillus crispatus
          CTV-05]
          Length = 278

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 34/64 (53%), Gaps = 1/64 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ +R  R  L ++Q+++   + +T     K E G +R+ A +L  I    +  I++
Sbjct: 1  MTIGQALRKIRQNLDLTQKEMAANI-VTRPFYAKVEAGKSRISADKLAAILFEHDVDITY 59

Query: 73 FFDV 76
          F+ +
Sbjct: 60 FYQL 63


>gi|260868457|ref|YP_003234859.1| putative transcriptional regulator [Escherichia coli O111:H- str.
           11128]
 gi|257764813|dbj|BAI36308.1| predicted transcriptional regulator [Escherichia coli O111:H- str.
           11128]
          Length = 233

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 12/69 (17%), Positives = 26/69 (37%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R  LG+++  L   +      +  +E G+  V A  +  ++  L   + +  
Sbjct: 163 IGARIKSARTKLGLTESDLARMIHTYSDPINDWECGICEVPADHIVPLASALNCDLMWLL 222

Query: 75  DVSPTVCSD 83
                    
Sbjct: 223 TGKSEAKEQ 231



 Score = 43.3 bits (101), Expect = 0.012,   Method: Composition-based stats.
 Identities = 17/91 (18%), Positives = 39/91 (42%), Gaps = 6/91 (6%)

Query: 2   VGNKKIPNPVDINVGKRI---RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR 58
           + + K  + +    G +I   R +R   G++  +L   L +  + + ++E G      S 
Sbjct: 69  IASTKQQHSI--RSGNKIACIRTKREACGLTTTELARLLDLDEEIILQWESGEFEPTISM 126

Query: 59  LQHISEVLES-PISFFFDVSPTVCSDISSEE 88
           L  ++ VL   P+S   + +      +++ E
Sbjct: 127 LIPLANVLGCDPLSLLSEKNSESAIRVNTTE 157


>gi|257440012|ref|ZP_05615767.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
 gi|257197364|gb|EEU95648.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
          Length = 65

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R    M+Q  L E  G++ Q +   EKG      +  + I ++L   +   F
Sbjct: 6  KLKAARAEKDMTQGALAEAAGVSRQTINAIEKGEYNPTINLCRSICKILGKTLDELF 62


>gi|227550339|ref|ZP_03980388.1| Cro/CI family phage transcriptional regulator [Enterococcus
          faecium TX1330]
 gi|257886430|ref|ZP_05666083.1| phage transcriptional regulator [Enterococcus faecium 1,231,501]
 gi|257900261|ref|ZP_05679914.1| phage transcriptional regulator [Enterococcus faecium Com15]
 gi|227180541|gb|EEI61513.1| Cro/CI family phage transcriptional regulator [Enterococcus
          faecium TX1330]
 gi|257822286|gb|EEV49416.1| phage transcriptional regulator [Enterococcus faecium 1,231,501]
 gi|257838173|gb|EEV63247.1| phage transcriptional regulator [Enterococcus faecium Com15]
          Length = 78

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 30/56 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++  R+  G + ++  +   + FQ + KYE   + +  S L+ +S + + PI+ FF
Sbjct: 3  LKAARVNAGFTSKEAAKAADVHFQTLSKYEIDSSDIPFSLLKELSNLYQVPINNFF 58


>gi|220920643|ref|YP_002495944.1| XRE family transcriptional regulator [Methylobacterium nodulans ORS
           2060]
 gi|219945249|gb|ACL55641.1| transcriptional regulator, XRE family [Methylobacterium nodulans
           ORS 2060]
          Length = 138

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 10/59 (16%), Positives = 28/59 (47%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           +R  R   G++Q++L +  G+    + + E    R  A     +++ L   +++  +++
Sbjct: 80  LRAIRKHKGLTQQQLQDATGLPQSYISEIESSTKRASAEAKAKLAQALGCDVAWLEEIN 138


>gi|116514659|ref|YP_813565.1| XRE family transcriptional regulator [Lactobacillus delbrueckii
          subsp. bulgaricus ATCC BAA-365]
 gi|116093974|gb|ABJ59127.1| Transcriptional regulator, xre family [Lactobacillus delbrueckii
          subsp. bulgaricus ATCC BAA-365]
          Length = 116

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 35/78 (44%), Gaps = 1/78 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ ++  R  LG+SQ+++     ++  Q  + E G  R+ A  L  I    +     F 
Sbjct: 7  VGELLKRIRSDLGLSQKQMAGMT-MSVTQYSRIESGDQRIIADDLFEILTAQQVSARCFV 65

Query: 75 DVSPTVCSDISSEENNVM 92
          D       + +++  +V+
Sbjct: 66 DAMTNFDFERAADFTDVL 83


>gi|110677608|ref|YP_680615.1| DNA-binding protein [Roseobacter denitrificans OCh 114]
 gi|109453724|gb|ABG29929.1| DNA-binding protein [Roseobacter denitrificans OCh 114]
          Length = 187

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 38/78 (48%), Gaps = 3/78 (3%)

Query: 7  IPNPVDINVGK---RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          + +  D  +G+   R++  R + G+S + + +  G++   V + E+G +    S L +++
Sbjct: 1  MADDRDDILGQLPARLKDARRVQGLSLDAVAKLSGVSRSMVSQIERGESSPTISTLWNLT 60

Query: 64 EVLESPISFFFDVSPTVC 81
            L+   +   DV+ T  
Sbjct: 61 RALQVDFAGLLDVASTQS 78


>gi|15672309|ref|NP_266483.1| transcription regulator [Lactococcus lactis subsp. lactis Il1403]
 gi|116511183|ref|YP_808399.1| transcriptional regulator [Lactococcus lactis subsp. cremoris
          SK11]
 gi|281490873|ref|YP_003352853.1| Cro/CI family transcriptional regulator [Lactococcus lactis
          subsp. lactis KF147]
 gi|12723193|gb|AAK04425.1|AE006269_10 transcriptional regulator [Lactococcus lactis subsp. lactis
          Il1403]
 gi|116106837|gb|ABJ71977.1| Predicted transcriptional regulator [Lactococcus lactis subsp.
          cremoris SK11]
 gi|281374631|gb|ADA64151.1| Transcriptional regulator, Cro/CI family [Lactococcus lactis
          subsp. lactis KF147]
 gi|300069966|gb|ADJ59366.1| Transcriptional regulator, Cro/CI family protein [Lactococcus
          lactis subsp. cremoris NZ9000]
 gi|326405905|gb|ADZ62976.1| Cro/CI family transcriptional regulator [Lactococcus lactis
          subsp. lactis CV56]
          Length = 97

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 27/64 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +IR  R +  +SQE +     ++ Q +   E        +    ++E L + +   F+ 
Sbjct: 3  NKIRELRRLSHLSQEDVAHIAHVSRQTINAIENDKYDPELTLAFKLAETLGTTVDELFNY 62

Query: 77 SPTV 80
           PTV
Sbjct: 63 QPTV 66


>gi|328956456|ref|YP_004373842.1| transcriptional regulator [Carnobacterium sp. 17-4]
 gi|328672780|gb|AEB28826.1| transcriptional regulator [Carnobacterium sp. 17-4]
          Length = 65

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 28/57 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R    +SQ++L + + +T Q +   E+G      +  + I + L+  ++  F
Sbjct: 6  RLKAARAKNDLSQQQLADAVNVTRQTISAIERGDYNPTINLCREICKKLDLTLNDLF 62


>gi|325687904|gb|EGD29924.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK72]
          Length = 94

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GK+++  R   G SQ ++ E LG T Q +  +E     + ++ L  +++  +  + 
Sbjct: 2  LGKQLKFIREQKGYSQAQIAESLGTTRQTISNWENNKTILDSASLIRLADFYQISLD 58


>gi|296161065|ref|ZP_06843876.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
 gi|295888764|gb|EFG68571.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
          Length = 108

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/93 (18%), Positives = 40/93 (43%), Gaps = 2/93 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
           +G+++R  R    ++ EKL +  G++   + + E +   R  A +L  +++ L    S+F
Sbjct: 5   LGEKLRELRKERELTLEKLADLAGLSKSYLWELENRESQRPSAEKLTALADALGVAASYF 64

Query: 74  FDVSPTVCSDISSEENNVMDFIS-TPDGLQLNR 105
            +       +   +E     +    P+  +  R
Sbjct: 65  LEEDVRAPEERHLDEAFFRGYQRLEPEAKEQLR 97


>gi|259909529|ref|YP_002649885.1| transcriptional repressor [Erwinia pyrifoliae Ep1/96]
 gi|224965151|emb|CAX56683.1| transcriptional repressor [Erwinia pyrifoliae Ep1/96]
          Length = 136

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 31/58 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          GKR++  R     +Q+++   +G+   Q  KYE G++   A +L  ++E+  + I + 
Sbjct: 19 GKRLKELRNQQRRTQKEVAALIGLQLSQYNKYESGMHIPPAEKLIQLAELFTTTIDYL 76


>gi|192359942|ref|YP_001982170.1| aldehyde dehydrogenase [Cellvibrio japonicus Ueda107]
 gi|190686107|gb|ACE83785.1| aldehyde dehydrogenase [Cellvibrio japonicus Ueda107]
          Length = 201

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 33/75 (44%), Gaps = 2/75 (2%)

Query: 2  VGNKKIPNPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
            +  IP  +D +  +G++++  R    +SQ +L +  GIT   +   E+G        L
Sbjct: 4  ANDTVIPPSLDSHMDLGRKLKAIREAHNLSQRELAKRAGITNSSISMIEQGQVSPSVQSL 63

Query: 60 QHISEVLESPISFFF 74
          + I       ++ FF
Sbjct: 64 ERILTAFPLSLAEFF 78


>gi|126090267|ref|YP_001041722.1| putative phage repressor [Shewanella baltica OS155]
 gi|125999898|gb|ABN63967.1| putative phage repressor [Shewanella baltica OS155]
          Length = 213

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 31/64 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI+ RR + G++QE LG  +G++   V  +E G N +    L  ++ VL     +  
Sbjct: 4  IGHRIKTRRKLKGLTQEALGLAVGVSKVSVSSWELGKNSMHPELLNKVAGVLGVDAHWLL 63

Query: 75 DVSP 78
              
Sbjct: 64 TGES 67


>gi|291523885|emb|CBK89472.1| Helix-turn-helix [Eubacterium rectale DSM 17629]
          Length = 77

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 33/70 (47%), Gaps = 4/70 (5%)

Query: 9  NPVDIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNR-VGASRLQHISE 64
          N  D+   +G  I+  R    ++Q +L E   I+   + K E  G ++ +  S L  I+ 
Sbjct: 5  NDADLYRVIGANIKHYRAQAKLTQVQLAEQTKISLSYLSKIEAAGCDKSLSISVLNQIAN 64

Query: 65 VLESPISFFF 74
          VL   I+ FF
Sbjct: 65 VLSVEINEFF 74


>gi|291445816|ref|ZP_06585206.1| DNA-binding protein [Streptomyces roseosporus NRRL 15998]
 gi|291348763|gb|EFE75667.1| DNA-binding protein [Streptomyces roseosporus NRRL 15998]
          Length = 205

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 31/61 (50%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G+ +R +R    +S  +L +  G++   + + E+G+ +  A  LQ +++ L       
Sbjct: 46  NLGEYLREQRRAAQLSLRQLADATGVSNPYLSQIERGLRKPSADVLQQVAKALRISAETL 105

Query: 74  F 74
           +
Sbjct: 106 Y 106


>gi|316935988|ref|YP_004110970.1| helix-turn-helix domain-containing protein [Rhodopseudomonas
           palustris DX-1]
 gi|315603702|gb|ADU46237.1| helix-turn-helix domain protein [Rhodopseudomonas palustris DX-1]
          Length = 420

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 1/47 (2%)

Query: 23  RMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLES 68
           R+  G+SQ++L + L +  QQ+Q+YEK     +  SR Q I  VL+ 
Sbjct: 87  RIAKGLSQKQLADLLEMKEQQIQRYEKEKYAGISLSRYQDILSVLDI 133


>gi|229070932|ref|ZP_04204159.1| hypothetical protein bcere0025_31060 [Bacillus cereus F65185]
 gi|228712114|gb|EEL64062.1| hypothetical protein bcere0025_31060 [Bacillus cereus F65185]
          Length = 65

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 28/59 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
            I++ R    +SQ++L + +G+T Q +   EK            IS+VL+  I   F+
Sbjct: 4  NNIKMYRAAKNISQDQLAKIVGVTRQTISAVEKNKYSPTLELAFKISKVLDRTIEEVFE 62


>gi|227549873|ref|ZP_03979922.1| XRE family transcriptional regulator [Corynebacterium
          lipophiloflavum DSM 44291]
 gi|227078128|gb|EEI16091.1| XRE family transcriptional regulator [Corynebacterium
          lipophiloflavum DSM 44291]
          Length = 71

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 22/56 (39%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R  L MSQ +L E  G++ Q +   EKG           I   L   +   F
Sbjct: 9  VRRWRRWLDMSQAELAEAAGVSRQTIANIEKGNYSPSVHLALRICRTLGKTVEQVF 64


>gi|126740274|ref|ZP_01755963.1| DNA-binding protein, putative [Roseobacter sp. SK209-2-6]
 gi|126718729|gb|EBA15442.1| DNA-binding protein, putative [Roseobacter sp. SK209-2-6]
          Length = 231

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 30/61 (49%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +++ +G+ +R  R    ++  +L +  G++   + K E G      + LQ ++  L  P+
Sbjct: 43  LEVAIGREVRAFRRQKEITVAELAQITGLSIGMLSKIENGNTSPSLTTLQILANALSVPL 102

Query: 71  S 71
           +
Sbjct: 103 T 103


>gi|92113766|ref|YP_573694.1| XRE family transcriptional regulator [Chromohalobacter salexigens
           DSM 3043]
 gi|91796856|gb|ABE58995.1| transcriptional regulator, XRE family [Chromohalobacter salexigens
           DSM 3043]
          Length = 186

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 19/114 (16%), Positives = 44/114 (38%), Gaps = 7/114 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            ++   ++  R   G S ++     G++   + + E+G +    + L  I+       S 
Sbjct: 6   AHIAATLKTLRGAQGWSLDRAARATGVSKAMLGQIERGESSPTVATLWKIAGGFRVSFSL 65

Query: 73  FFDVSPTVCSDISSEENN-VMDFISTPDGLQLNRYFIQIDDVKVRQK--IIELV 123
           FF+ +       + E    V++  +    +     F    D ++R +  +IEL 
Sbjct: 66  FFEQASVQGIVPNGEAAPTVLEDAAAGMTVTPLFAF----DPRLRFEMFLIELA 115


>gi|15678985|ref|NP_276102.1| hypothetical protein MTH967 [Methanothermobacter thermautotrophicus
           str. Delta H]
 gi|24418730|sp|O27048|Y967_METTH RecName: Full=Putative HTH-type transcriptional regulatory protein
           MTH_967
 gi|2622065|gb|AAB85463.1| conserved protein [Methanothermobacter thermautotrophicus str.
           Delta H]
          Length = 311

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 33/72 (45%), Gaps = 1/72 (1%)

Query: 13  INV-GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +++ GK +R  R    +S + L +   ++ + + KYE G+ R  A     + E+L   I+
Sbjct: 127 VHIDGKTLREVREEYNLSLKDLADLAHVSRKTIYKYENGLARASAETAMILEEILNIRIT 186

Query: 72  FFFDVSPTVCSD 83
              D+      D
Sbjct: 187 LSIDIFSVPDRD 198


>gi|145628649|ref|ZP_01784449.1| hypothetical protein CGSHi22121_06525 [Haemophilus influenzae
          22.1-21]
 gi|145632552|ref|ZP_01788286.1| hypothetical protein CGSHi3655_02019 [Haemophilus influenzae
          3655]
 gi|145638786|ref|ZP_01794395.1| hypothetical protein CGSHiII_08726 [Haemophilus influenzae
          PittII]
 gi|144979119|gb|EDJ88805.1| hypothetical protein CGSHi22121_06525 [Haemophilus influenzae
          22.1-21]
 gi|144986747|gb|EDJ93299.1| hypothetical protein CGSHi3655_02019 [Haemophilus influenzae
          3655]
 gi|145272381|gb|EDK12289.1| hypothetical protein CGSHiII_08726 [Haemophilus influenzae
          PittII]
 gi|309750276|gb|ADO80260.1| Putative transcriptional regulator [Haemophilus influenzae R2866]
          Length = 140

 Score = 50.2 bits (119), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 33/58 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +NV ++IR  R     SQE++ E + ++     K E+G  ++   +L+ I+++L+  I
Sbjct: 1  MNVHEKIRKLRETKHWSQEEMAERMSMSLNGYAKIERGETKLHLDKLEQIAQILDIDI 58


>gi|332886394|gb|EGK06638.1| hypothetical protein HMPREF9456_00512 [Dysgonomonas mossii DSM
           22836]
          Length = 135

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/131 (19%), Positives = 58/131 (44%), Gaps = 11/131 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  +R  R    ++Q+ L E +G++   +  YEK  +++    L+ I++VL+ P+    +
Sbjct: 12  GPNVRRWREWRNINQDVLAEQIGVSQATLSSYEK-KDKLEQDILEKIAKVLDIPVEAITE 70

Query: 76  VSPTVCSDISSE--ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           +      +I S   ++N +    T + L          D K     I L   ++  +++ 
Sbjct: 71  LEQGTSINIYSGTWQDNAITNQYTFNPLDKIVELY---DEK-----IALYERMLKDKEEA 122

Query: 134 RTIEEECMVEQ 144
            ++  E + E+
Sbjct: 123 ISLLHEVLKER 133


>gi|325283943|ref|YP_004256484.1| transcriptional regulator, XRE family [Deinococcus proteolyticus
          MRP]
 gi|324315752|gb|ADY26867.1| transcriptional regulator, XRE family [Deinococcus proteolyticus
          MRP]
          Length = 90

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 26/62 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+ + R   G+S++ L   + + +Q +   E+G           +SE    PI   F  
Sbjct: 16 NRLPVLRAERGLSRQDLAAAIAVNYQTIGYLERGEYAPSLDLAFRLSEFFGLPIEAIFSR 75

Query: 77 SP 78
          +P
Sbjct: 76 TP 77


>gi|15674279|ref|NP_268452.1| hypothetical protein SPy_0037 [Streptococcus pyogenes M1 GAS]
 gi|19745232|ref|NP_606368.1| hypothetical protein spyM18_0038 [Streptococcus pyogenes
          MGAS8232]
 gi|50913429|ref|YP_059401.1| transcriptional regulator [Streptococcus pyogenes MGAS10394]
 gi|71902700|ref|YP_279503.1| transcriptional regulator [Streptococcus pyogenes MGAS6180]
 gi|71909848|ref|YP_281398.1| transcriptional regulator [Streptococcus pyogenes MGAS5005]
 gi|94987666|ref|YP_595767.1| transcriptional regulator [Streptococcus pyogenes MGAS9429]
 gi|94991533|ref|YP_599632.1| transcriptional regulator [Streptococcus pyogenes MGAS2096]
 gi|306828270|ref|ZP_07461529.1| transcriptional regulator [Streptococcus pyogenes ATCC 10782]
 gi|13621358|gb|AAK33174.1| hypothetical protein SPy_0037 [Streptococcus pyogenes M1 GAS]
 gi|19747325|gb|AAL96867.1| hypothetical protein spyM18_0038 [Streptococcus pyogenes
          MGAS8232]
 gi|50902503|gb|AAT86218.1| Transcriptional regulator [Streptococcus pyogenes MGAS10394]
 gi|71801795|gb|AAX71148.1| transcriptional regulator [Streptococcus pyogenes MGAS6180]
 gi|71852630|gb|AAZ50653.1| transcriptional regulator [Streptococcus pyogenes MGAS5005]
 gi|94541174|gb|ABF31223.1| transcriptional regulator [Streptococcus pyogenes MGAS9429]
 gi|94545041|gb|ABF35088.1| Transcriptional regulator [Streptococcus pyogenes MGAS2096]
 gi|304429543|gb|EFM32593.1| transcriptional regulator [Streptococcus pyogenes ATCC 10782]
          Length = 303

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 35/66 (53%), Gaps = 1/66 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + G ++++ R+   +S+E L G+   ++ +Q+ + E G +    S++  I++ L   + +
Sbjct: 4  HFGGKVKVLRLEKRISREDLCGDESELSVRQLARIELGQSIPSLSKVIFIAKALNVSVGY 63

Query: 73 FFDVSP 78
            D + 
Sbjct: 64 LTDGAD 69


>gi|81427764|ref|YP_394763.1| XRE family DNA-binding protein [Lactobacillus sakei subsp. sakei
          23K]
 gi|78609405|emb|CAI54451.1| Putative DNA-binding protein, XRE family [Lactobacillus sakei
          subsp. sakei 23K]
          Length = 68

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 23/64 (35%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI++ R     +Q  L E  GI+ Q V   EK            I++V    I+  F  
Sbjct: 4  NRIKVLRAERNWTQADLAERTGISRQAVISIEKYKYTPSLELAFKIAQVFGVEITTVFSP 63

Query: 77 SPTV 80
              
Sbjct: 64 EEDS 67


>gi|154248642|ref|YP_001419600.1| hypothetical protein Xaut_4724 [Xanthobacter autotrophicus Py2]
 gi|154162727|gb|ABS69943.1| protein of unknown function DUF955 [Xanthobacter autotrophicus
          Py2]
          Length = 474

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 1/81 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I  G  +R  R  LG+ Q +L + L ++   + + E     + AS L  IS      I+ 
Sbjct: 5  IYAGHAVRRLREKLGLKQSELAQRLAVSPSYINQIESNQRPLTASILIAISRTFAVDITS 64

Query: 73 F-FDVSPTVCSDISSEENNVM 92
          F  +    + +D+     + +
Sbjct: 65 FGAEDLDRLVADLRETAADPL 85


>gi|331090730|ref|ZP_08339577.1| hypothetical protein HMPREF9477_00220 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330399838|gb|EGG79497.1| hypothetical protein HMPREF9477_00220 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 156

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 28/57 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G  I   R   G++Q +L E LG++ + + ++E        S  + + E L+  ++
Sbjct: 6  IGDFISCCRKEKGLTQVELAEMLGVSDKSISRWENAKTMPDISLYEPLCEALDIQVA 62


>gi|327398988|ref|YP_004339857.1| helix-turn-helix domain-containing protein [Hippea maritima DSM
          10411]
 gi|327181617|gb|AEA33798.1| helix-turn-helix domain protein [Hippea maritima DSM 10411]
          Length = 72

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 1/57 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPI 70
          +GK+I+  R  LG+SQ++L     + +  + K E GV  +     +  I++ L   I
Sbjct: 9  LGKKIKKLRTGLGLSQDELARKADVPYTTLTKIETGVIKKPSVYVVAKIAKALNITI 65


>gi|322388988|ref|ZP_08062558.1| XRE family transcriptional regulator [Streptococcus parasanguinis
          ATCC 903]
 gi|321144293|gb|EFX39701.1| XRE family transcriptional regulator [Streptococcus parasanguinis
          ATCC 903]
          Length = 247

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 32/68 (47%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+   K+++ RR+  G++Q  + E L I+ +    +E G+       L+ +++ L     
Sbjct: 22 DMFDAKKLKERRLEKGLTQADVYEDLKISRKTYSSWENGLAEPHEKNLRRLAKRLSVKED 81

Query: 72 FFFDVSPT 79
          +F +    
Sbjct: 82 YFINKDSA 89


>gi|288923632|ref|ZP_06417738.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
 gi|288345013|gb|EFC79436.1| transcriptional regulator, XRE family [Frankia sp. EUN1f]
          Length = 284

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 33/76 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +VG  IR +R    +S  +L    G++   + + E+G+ R  A  LQ I++ L      
Sbjct: 7  KDVGDFIREQRHGAQISLRQLARQAGVSNPYLSQIERGLRRPSAEILQQIAKALRISAEV 66

Query: 73 FFDVSPTVCSDISSEE 88
           +  +  +      E+
Sbjct: 67 LYVQAGILEEREGGED 82


>gi|257867132|ref|ZP_05646785.1| transcriptional regulator [Enterococcus casseliflavus EC30]
 gi|257873466|ref|ZP_05653119.1| transcriptional regulator [Enterococcus casseliflavus EC10]
 gi|257801188|gb|EEV30118.1| transcriptional regulator [Enterococcus casseliflavus EC30]
 gi|257807630|gb|EEV36452.1| transcriptional regulator [Enterococcus casseliflavus EC10]
          Length = 191

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N+ K+I+  R  L +SQE L E L ++ Q +  +E   +      L  +S + +  + 
Sbjct: 1  MNLSKQIKKHRERLSLSQEGLAEKLYVSRQTISNWENEKSYPDVHNLLLLSVLFDVSLD 59


>gi|223985090|ref|ZP_03635186.1| hypothetical protein HOLDEFILI_02491 [Holdemania filiformis DSM
          12042]
 gi|223962912|gb|EEF67328.1| hypothetical protein HOLDEFILI_02491 [Holdemania filiformis DSM
          12042]
          Length = 136

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 30/69 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  I   R   GM+Q +L   + +T + V K+E+ ++      L  ++E+LE  +     
Sbjct: 9  GMVIASLRKAQGMTQAELAAKMQVTDKAVSKWERDLSCPDIQSLPRLAEILEVSVEELMQ 68

Query: 76 VSPTVCSDI 84
                S +
Sbjct: 69 GETRPASSV 77


>gi|196042506|ref|ZP_03109747.1| transcriptional regulator [Bacillus cereus NVH0597-99]
 gi|196026663|gb|EDX65329.1| transcriptional regulator [Bacillus cereus NVH0597-99]
          Length = 115

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 27/55 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          VG+ I+  R    ++QE+L E  G++  Q++ +E   +      L+ ++    + 
Sbjct: 5  VGQNIKNLRKSFDLTQEQLSERTGLSRGQIKNWETDRHEPDLESLKVLASFFNTS 59


>gi|163869336|ref|YP_001610592.1| hypothetical protein Btr_2646 [Bartonella tribocorum CIP 105476]
 gi|161019039|emb|CAK02597.1| hypothetical protein BT_2646 [Bartonella tribocorum CIP 105476]
          Length = 176

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 33/153 (21%), Positives = 62/153 (40%), Gaps = 21/153 (13%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQ-EKLGECLGITFQQVQKYEKGVNRVGASRL 59
           M  ++K P      + KR+   R+ LG +Q ++  + L +    +  YE G+    +S L
Sbjct: 1   MARSEKEPK---TELAKRLCEVRLALGFTQRKQFADHLVVPESTMYNYETGLREPPSSML 57

Query: 60  QHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQ--LNR-YFIQIDDVKVR 116
                +    +++       + SD++  +       + PDGL   L R  +I   D K++
Sbjct: 58  IIYKNICGIDVNWLLTGEGEMFSDMAKAKAVGFKMPTIPDGLMKKLGRIAYITYRDAKIK 117

Query: 117 --------------QKIIELVRSIVSSEKKYRT 135
                         +K+ ELV+ I   E+   T
Sbjct: 118 LPPEDIAELAAELYKKLQELVQDINDMEEVEAT 150


>gi|257417719|ref|ZP_05594713.1| conserved hypothetical protein [Enterococcus faecalis AR01/DG]
 gi|45827617|gb|AAS78452.1| BcrR [Enterococcus faecalis]
 gi|257159547|gb|EEU89507.1| conserved hypothetical protein [Enterococcus faecalis ARO1/DG]
          Length = 204

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R    ++QE+L E L ++   + K+E G        L+ IS+     I 
Sbjct: 5  EKLQQLRTGKNLTQEQLAEQLYVSRTAISKWESGKGYPNMESLKCISKFFSVTID 59


>gi|86739017|ref|YP_479417.1| XRE family transcriptional regulator [Frankia sp. CcI3]
 gi|86565879|gb|ABD09688.1| transcriptional regulator, XRE family [Frankia sp. CcI3]
          Length = 167

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 6/82 (7%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA--SRL 59
           +G   +P   DI  G RI   R    +SQE+L    G++   ++K E+   R GA    L
Sbjct: 80  IGGDGMP---DIMPGDRIAQIRRRRSLSQEELAARSGVSVAVIRKLEQNR-RAGARIETL 135

Query: 60  QHISEVLESPISFFFDVSPTVC 81
             ++  L    S  FD   +V 
Sbjct: 136 HALARGLNVKTSELFDNGESVA 157


>gi|70725716|ref|YP_252630.1| hypothetical protein SH0715 [Staphylococcus haemolyticus
          JCSC1435]
 gi|68446440|dbj|BAE04024.1| unnamed protein product [Staphylococcus haemolyticus JCSC1435]
          Length = 65

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++++ R +  +SQ +L   +G++ Q +   E            +I++ L   ++  F
Sbjct: 2  NKVKVYRGVKKISQLELARSVGVSRQTINMIENDKYNPSLKLCINIAKTLGVTLNDLF 59


>gi|53714235|ref|YP_100227.1| hypothetical protein BF2945 [Bacteroides fragilis YCH46]
 gi|253564751|ref|ZP_04842207.1| conserved hypothetical protein [Bacteroides sp. 3_2_5]
 gi|265766272|ref|ZP_06094313.1| conserved hypothetical protein [Bacteroides sp. 2_1_16]
 gi|52217100|dbj|BAD49693.1| conserved hypothetical protein [Bacteroides fragilis YCH46]
 gi|251946216|gb|EES86593.1| conserved hypothetical protein [Bacteroides sp. 3_2_5]
 gi|263253940|gb|EEZ25405.1| conserved hypothetical protein [Bacteroides sp. 2_1_16]
          Length = 104

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 7/59 (11%)

Query: 12 DIN---VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          D++   +G+ I+  R    ++QE+LG  +G+   Q+ + E G N         IS V +
Sbjct: 31 DLHSFLIGEAIKQARQSKNLTQEELGNLIGVQRAQISRIENGKN----LTFSTISRVFK 85


>gi|51594600|ref|YP_068791.1| hypothetical protein YPTB0245 [Yersinia pseudotuberculosis IP
          32953]
 gi|170026166|ref|YP_001722671.1| hypothetical protein YPK_3955 [Yersinia pseudotuberculosis YPIII]
 gi|186893601|ref|YP_001870713.1| hypothetical protein YPTS_0261 [Yersinia pseudotuberculosis
          PB1/+]
 gi|51587882|emb|CAH19485.1| conserved hypothetical protein [Yersinia pseudotuberculosis IP
          32953]
 gi|169752700|gb|ACA70218.1| protein of unknown function DUF955 [Yersinia pseudotuberculosis
          YPIII]
 gi|186696627|gb|ACC87256.1| protein of unknown function DUF955 [Yersinia pseudotuberculosis
          PB1/+]
          Length = 400

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R+   R   G+S+  LG  +  +   + K+E G +   A  L  + +VL  P+S+F
Sbjct: 11 ERLTQMREARGLSKINLGRLVERSPSTITKWENGSHSPDAEGLASLGKVLNCPVSWF 67


>gi|150015772|ref|YP_001308026.1| XRE family transcriptional regulator [Clostridium beijerinckii
           NCIMB 8052]
 gi|149902237|gb|ABR33070.1| transcriptional regulator, XRE family [Clostridium beijerinckii
           NCIMB 8052]
          Length = 113

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 37/86 (43%), Gaps = 2/86 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R+   ++Q +L + L +    V KYE G        LQ I++  E  I +   + 
Sbjct: 7   RLKEERIQKNLTQTELAKTLYLGQTSVSKYESGKQIPEMPTLQKIADFFEISIDYL--LG 64

Query: 78  PTVCSDISSEENNVMDFISTPDGLQL 103
            T   + + + N  +   S  D  +L
Sbjct: 65  KTDIRNYTDDPNITIALHSDTDYDEL 90


>gi|332878558|ref|ZP_08446278.1| DNA-binding helix-turn-helix protein [Capnocytophaga sp. oral
          taxon 329 str. F0087]
 gi|332683459|gb|EGJ56336.1| DNA-binding helix-turn-helix protein [Capnocytophaga sp. oral
          taxon 329 str. F0087]
          Length = 119

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 27/53 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +I+  R +  +SQ+ +   LGI+ +   K E G  ++  SRL  I  +LE   
Sbjct: 8  KIKQAREVKRISQDFVATKLGISTRAYSKIETGETQLTISRLNEICTILEVDP 60


>gi|307250892|ref|ZP_07532820.1| Helix-turn-helix domain protein [Actinobacillus pleuropneumoniae
          serovar 4 str. M62]
 gi|306857142|gb|EFM89270.1| Helix-turn-helix domain protein [Actinobacillus pleuropneumoniae
          serovar 4 str. M62]
          Length = 134

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 33/58 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +N+ ++IR  R     SQE++ E L ++     K E+G  ++   +L+ I+++L+  +
Sbjct: 1  MNINEKIRRIRESKEWSQEQMAEKLNMSLNGYAKIERGETKLYLDKLEQIAQILDIDV 58


>gi|298674042|ref|YP_003725792.1| transcriptional regulator, XRE family [Methanohalobium evestigatum
           Z-7303]
 gi|298287030|gb|ADI72996.1| transcriptional regulator, XRE family [Methanohalobium evestigatum
           Z-7303]
          Length = 328

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 38/93 (40%), Gaps = 11/93 (11%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES------P 69
           G  +R  RM + MS   +   LG++ + + KYE+G           + E+ +        
Sbjct: 129 GDVLREARMSVSMSIGTIASQLGVSRRTISKYEEGGMDASIDIALQLEELFDVALAKSID 188

Query: 70  ISFFFD-----VSPTVCSDISSEENNVMDFIST 97
           +  FFD            +    E+N+++ IST
Sbjct: 189 VLEFFDNKLQEDEENNEYETKPPEDNILNLIST 221


>gi|56424516|gb|AAV91189.1| repressor [Vibrio cholerae]
 gi|56424526|gb|AAV91194.1| repressor [Vibrio cholerae]
          Length = 85

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/82 (18%), Positives = 35/82 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +IR  R+   ++QE++   +G+       YEKG        ++ +++    PI+     
Sbjct: 4  SKIRDLRVERDLNQEEVANGIGVGKNTYLAYEKGTQSPKLETVEKLAKFYGVPIAELVSD 63

Query: 77 SPTVCSDISSEENNVMDFISTP 98
          S T   +    +  +++ +  P
Sbjct: 64 SETNIDEKLKSKIRMIESLDEP 85


>gi|68248909|ref|YP_248021.1| hypothetical protein NTHI0420 [Haemophilus influenzae 86-028NP]
 gi|68057108|gb|AAX87361.1| hypothetical protein NTHI0420 [Haemophilus influenzae 86-028NP]
          Length = 144

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 34/60 (56%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +NV ++IR  R     SQE++ E + ++     K E+G  ++   +L+ I+++L+  I
Sbjct: 3  IRMNVHEKIRKLRETKHWSQEEMAERMSMSLNGYAKIERGETKLHLDKLEQIAQILDIDI 62


>gi|103485648|ref|YP_615209.1| XRE family transcriptional regulator [Sphingopyxis alaskensis
          RB2256]
 gi|98975725|gb|ABF51876.1| transcriptional regulator, XRE family [Sphingopyxis alaskensis
          RB2256]
          Length = 93

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 22/60 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  R+R  R   G SQ +L   LG++ Q +   E             ++ +    +   F
Sbjct: 26 VENRVREYREAAGWSQGELARRLGVSRQTINAVETDKYDPSLPLALRMARLFALEVCELF 85


>gi|322516931|ref|ZP_08069826.1| XRE family transcriptional regulator [Streptococcus vestibularis
          ATCC 49124]
 gi|322124508|gb|EFX95995.1| XRE family transcriptional regulator [Streptococcus vestibularis
          ATCC 49124]
          Length = 108

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/63 (34%), Positives = 31/63 (49%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           + KRIR+ R+  GM+QE L E   +    V K E     +    L+ I + L+  I  F
Sbjct: 7  YISKRIRVLRIKEGMTQEMLEEKAELGTNYVYKIENLEPNIKIKTLEKIMKALDVDIPTF 66

Query: 74 FDV 76
          FDV
Sbjct: 67 FDV 69


>gi|315122910|ref|YP_004063399.1| hypothetical protein CKC_05830 [Candidatus Liberibacter
           solanacearum CLso-ZC1]
 gi|313496312|gb|ADR52911.1| hypothetical protein CKC_05830 [Candidatus Liberibacter
           solanacearum CLso-ZC1]
          Length = 251

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 32/70 (45%), Gaps = 2/70 (2%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
           KKI NP    +G R++  R+ +G++Q++ G  +G++   V   E G           I  
Sbjct: 87  KKIFNPH--AIGARLKAIRLKMGLTQKEFGLLIGLSSVGVGNIENGHRTPEIKTALKIKR 144

Query: 65  VLESPISFFF 74
            L   + + +
Sbjct: 145 ALNKTLDWIY 154



 Score = 36.3 bits (83), Expect = 1.3,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 29/81 (35%), Gaps = 1/81 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+R R  R   G  Q +L    G     V ++E G+     +    +     +   +
Sbjct: 12 KEIGQRFRALRKQHGFDQTELVSMSG-RRGNVARFEAGLAPASTNYALFLRNTFGASFDW 70

Query: 73 FFDVSPTVCSDISSEENNVMD 93
           +D    + S+    E  + +
Sbjct: 71 LYDGVENLRSERDRTEKKIFN 91


>gi|304405777|ref|ZP_07387435.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
 gi|304345020|gb|EFM10856.1| transcriptional regulator, XRE family [Paenibacillus
          curdlanolyticus YK9]
          Length = 71

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +RIR  R + G +Q++L E L ++   +   E+G  +     L +I+E L   
Sbjct: 8  QRIRAFRKLKGFTQQQLAERLSVSVAVLGSLERGTRKPDPKLLANIAETLGID 60


>gi|291541946|emb|CBL15056.1| Predicted transcriptional regulators [Ruminococcus bromii L2-63]
          Length = 64

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R    +SQ++L E + ++ Q +   EKG      +    I + L+  +   F
Sbjct: 5  RLKSARAAKDLSQQQLAELVKVSRQTISAIEKGDYNPTINLCIAICKALDKTLDELF 61


>gi|265766758|ref|ZP_06094587.1| conserved hypothetical protein [Bacteroides sp. 2_1_16]
 gi|263253135|gb|EEZ24611.1| conserved hypothetical protein [Bacteroides sp. 2_1_16]
 gi|301164348|emb|CBW23906.1| putative DNA-binding protein [Bacteroides fragilis 638R]
          Length = 152

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 1/63 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+++ G  IR  R+   + Q+ L   + +T   V KYEK +  +    L   +  L  P+
Sbjct: 10 VNVHHGHNIRRTRIEKNIKQDALAALVNMTQPNVSKYEK-MRVIEDEMLNRFARALNVPV 68

Query: 71 SFF 73
           + 
Sbjct: 69 EYL 71


>gi|239932598|ref|ZP_04689551.1| transcriptional regulatory protein [Streptomyces ghanaensis ATCC
          14672]
 gi|291440960|ref|ZP_06580350.1| transcriptional regulatory protein [Streptomyces ghanaensis ATCC
          14672]
 gi|291343855|gb|EFE70811.1| transcriptional regulatory protein [Streptomyces ghanaensis ATCC
          14672]
          Length = 190

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/75 (16%), Positives = 25/75 (33%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + +R  R   G + + L    G++   + + E+         +  I + L   I+   D 
Sbjct: 13 RNVRRWRTERGFTLDALAARAGVSRGMLIQIEQARTNPSIGTVVKIGDALGVSITTLLDY 72

Query: 77 SPTVCSDISSEENNV 91
                 I   +  V
Sbjct: 73 ERGPKVRIVPADRAV 87


>gi|227878082|ref|ZP_03996069.1| XRE family transcriptional regulator [Lactobacillus crispatus
          JV-V01]
 gi|256843792|ref|ZP_05549279.1| transcriptional regulator [Lactobacillus crispatus 125-2-CHN]
 gi|256849648|ref|ZP_05555080.1| transcriptional regulator [Lactobacillus crispatus MV-1A-US]
 gi|262047765|ref|ZP_06020717.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
 gi|293381646|ref|ZP_06627628.1| helix-turn-helix protein [Lactobacillus crispatus 214-1]
 gi|227862320|gb|EEJ69852.1| XRE family transcriptional regulator [Lactobacillus crispatus
          JV-V01]
 gi|256613697|gb|EEU18899.1| transcriptional regulator [Lactobacillus crispatus 125-2-CHN]
 gi|256713764|gb|EEU28753.1| transcriptional regulator [Lactobacillus crispatus MV-1A-US]
 gi|260571970|gb|EEX28538.1| transcriptional regulator [Lactobacillus crispatus MV-3A-US]
 gi|290921788|gb|EFD98808.1| helix-turn-helix protein [Lactobacillus crispatus 214-1]
          Length = 278

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 34/64 (53%), Gaps = 1/64 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ +R  R  L ++Q+++   + +T     K E G +R+ A +L  I    +  I++
Sbjct: 1  MTIGQALRKIRQNLDLTQKEMAANI-VTRPFYAKVEAGKSRISADKLAAILFEHDVDITY 59

Query: 73 FFDV 76
          F+ +
Sbjct: 60 FYQL 63


>gi|227507935|ref|ZP_03937984.1| transcription regulator [Lactobacillus brevis subsp. gravesensis
          ATCC 27305]
 gi|227192599|gb|EEI72666.1| transcription regulator [Lactobacillus brevis subsp. gravesensis
          ATCC 27305]
          Length = 212

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 8/58 (13%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ ++I+  R    ++Q+ L + L ++ + +  +E G        +  +S++    +
Sbjct: 6  MSISEKIKQCRKQKNLTQKDLADELHLSRKTISGWENGRGYPDIKSITQLSDIFGISV 63


>gi|291326750|ref|ZP_06125688.2| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
 gi|291313121|gb|EFE53574.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
          Length = 118

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 1/75 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP-IS 71
           +VG  +R  R+   ++  +L + L I+ QQV +YE+G   +    L  +  VLE   + 
Sbjct: 19 RDVGLFLRQARIDKSLTGYQLAKILKISQQQVSRYERGETGINVEVLNTLLGVLERNWLE 78

Query: 72 FFFDVSPTVCSDISS 86
          FFF V     ++I+ 
Sbjct: 79 FFFKVLVNHSNEIAD 93


>gi|209558618|ref|YP_002285090.1| Transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          NZ131]
 gi|209539819|gb|ACI60395.1| Transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          NZ131]
          Length = 306

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 35/66 (53%), Gaps = 1/66 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + G ++++ R+   +S+E L G+   ++ +Q+ + E G +    S++  I++ L   + +
Sbjct: 4  HFGGKVKVLRLEKRISREDLCGDESELSVRQLARIELGQSIPSLSKVIFIAKALNVSVGY 63

Query: 73 FFDVSP 78
            D + 
Sbjct: 64 LTDGAD 69


>gi|194017128|ref|ZP_03055740.1| HTH-type transcriptional regulator PuuR [Bacillus pumilus ATCC
          7061]
 gi|194010996|gb|EDW20566.1| HTH-type transcriptional regulator PuuR [Bacillus pumilus ATCC
          7061]
          Length = 67

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 1/65 (1%)

Query: 11 VDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +D+N + + ++ +R   G+SQE   E LG T   + + E G        L  ISE +   
Sbjct: 2  IDLNELARMLKQKRKESGLSQEDFAEKLGFTGSYISRLENGKVSPTFKSLVQISEHVGIK 61

Query: 70 ISFFF 74
             FF
Sbjct: 62 AKLFF 66


>gi|167757785|ref|ZP_02429912.1| hypothetical protein CLOSCI_00116 [Clostridium scindens ATCC
          35704]
 gi|167769821|ref|ZP_02441874.1| hypothetical protein ANACOL_01155 [Anaerotruncus colihominis DSM
          17241]
 gi|167664667|gb|EDS08797.1| hypothetical protein CLOSCI_00116 [Clostridium scindens ATCC
          35704]
 gi|167668182|gb|EDS12312.1| hypothetical protein ANACOL_01155 [Anaerotruncus colihominis DSM
          17241]
          Length = 129

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/46 (28%), Positives = 23/46 (50%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          M+QE+L   L +T Q +  +E+ VN    + L+ I  +    +  F
Sbjct: 1  MTQEELAGELNVTRQALSNWERDVNEPDLNTLKKICFLFGVHMDDF 46


>gi|117621486|ref|YP_857504.1| DNA-binding transcriptional repressor PuuR [Aeromonas hydrophila
           subsp. hydrophila ATCC 7966]
 gi|117562893|gb|ABK39841.1| transcriptional regulator, Cro/CI family [Aeromonas hydrophila
           subsp. hydrophila ATCC 7966]
          Length = 203

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 40/94 (42%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  N      V  ++G+R+   R  LG+SQ ++ E  G+T   +   E+       + LQ
Sbjct: 13  MTDNPMTDKGVAQSMGERLAATRRRLGLSQRRVAELSGLTHGAICMIEQDKVSPSVASLQ 72

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDF 94
            +  V E P+S FF         +  +   +++ 
Sbjct: 73  KLLSVYELPLSRFFAEEEGGTPSVVIKAEQLIEL 106


>gi|86739596|ref|YP_479996.1| XRE family transcriptional regulator [Frankia sp. CcI3]
 gi|86566458|gb|ABD10267.1| transcriptional regulator, XRE family [Frankia sp. CcI3]
          Length = 116

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 21/52 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +R  R   G SQ  L E LG+T   +   E G   +       ++E L  
Sbjct: 12 QSVRKHRRQRGWSQAALAERLGLTRTTITNIEHGAQGITLLTFVRLAEQLNV 63


>gi|32472902|ref|NP_865896.1| hypothetical protein RB4097 [Rhodopirellula baltica SH 1]
 gi|32444139|emb|CAD73582.1| similar to ymc [Rhodopirellula baltica SH 1]
          Length = 733

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 28/56 (50%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           D   G RI+  R+   ++Q +L + + ++   V K+E G      S+ + I  VLE
Sbjct: 180 DFPTGPRIKELRLREKLTQAQLADLIAVSPATVSKWETGKQIAPQSQARKICAVLE 235


>gi|85710340|ref|ZP_01041405.1| predicted transcription regulator, containing DNA-binding HTH
          domain [Erythrobacter sp. NAP1]
 gi|85689050|gb|EAQ29054.1| predicted transcription regulator, containing DNA-binding HTH
          domain [Erythrobacter sp. NAP1]
          Length = 66

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/56 (17%), Positives = 20/56 (35%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R   G++Q  L   L ++ Q +   E             ++   + P+   F
Sbjct: 5  LRDLRKGRGLNQADLANTLEVSRQTIIAIEADKYDPSLPMAYRLAAFFDVPVEELF 60


>gi|332666442|ref|YP_004449230.1| helix-turn-helix domain-containing protein [Haliscomenobacter
          hydrossis DSM 1100]
 gi|332335256|gb|AEE52357.1| helix-turn-helix domain protein [Haliscomenobacter hydrossis DSM
          1100]
          Length = 190

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 29/62 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++IR  R   GM+ +++ +   IT   + + E          L +IS  L  P++   
Sbjct: 9  VGRKIRQLRKERGMNLQEVSDKSDITAGLLSRIENFRTLPSLPVLHNISMALNVPLAELV 68

Query: 75 DV 76
          D+
Sbjct: 69 DL 70


>gi|303242387|ref|ZP_07328871.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
 gi|302590065|gb|EFL59829.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
          Length = 147

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 2/59 (3%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--FDVS 77
          + R + G+SQE++ E + I+ Q   K+EKG       +   ++E   + +     FD +
Sbjct: 8  MLRTMNGLSQEQIAEKIDISRQAYGKWEKGETIPDVEKCALLAEFYGTTVDSLLHFDTN 66


>gi|300777929|ref|ZP_07087787.1| transcriptional regulator [Chryseobacterium gleum ATCC 35910]
 gi|300503439|gb|EFK34579.1| transcriptional regulator [Chryseobacterium gleum ATCC 35910]
          Length = 262

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 24/55 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            IR  R    +SQ+ + + L I+  +  KYE G++      L  IS+     I 
Sbjct: 6  NNIRFLRARRKLSQQNVADELMISRVRYSKYENGISEPPIELLVKISKYFHVSID 60


>gi|295107152|emb|CBL04695.1| Predicted transcriptional regulators [Gordonibacter pamelaeae
          7-10-1-b]
          Length = 195

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/84 (15%), Positives = 32/84 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R   G+SQ+ L   + ++ Q V  +E          L  +S + +  +  
Sbjct: 1  MELGSQIKRHRTERGLSQDDLAAKIYVSRQTVSSWENDKTYPDVESLLLLSVLFDVTVDE 60

Query: 73 FFDVSPTVCSDISSEENNVMDFIS 96
                    +    +   M +++
Sbjct: 61 LIKGDVEAMKEAIENDYRKMIYLA 84


>gi|296102579|ref|YP_003612725.1| DNA-binding transcriptional repressor PuuR [Enterobacter cloacae
          subsp. cloacae ATCC 13047]
 gi|295057038|gb|ADF61776.1| DNA-binding transcriptional repressor PuuR [Enterobacter cloacae
          subsp. cloacae ATCC 13047]
          Length = 185

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 28/67 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GKR+   R  LG+SQ +  E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSEIRQQLGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFS 68

Query: 76 VSPTVCS 82
                 
Sbjct: 69 EPEKPDE 75


>gi|268589265|ref|ZP_06123486.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
 gi|291315283|gb|EFE55736.1| transcriptional regulator, Cro/CI family [Providencia rettgeri
          DSM 1131]
          Length = 76

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 34/71 (47%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K     + N+G+ IR  R+   +S  ++ + L IT     +YE G   + A  L  IS++
Sbjct: 2  KKTTQRNKNLGEYIRNIRVNKKISTHEMADSLNITDSHYNEYESGNASIYADHLIIISKI 61

Query: 66 LESPISFFFDV 76
              I+ F +V
Sbjct: 62 FNIHINVFLNV 72


>gi|300779089|ref|ZP_07088947.1| cro/CI family transcriptional regulator [Chryseobacterium gleum
          ATCC 35910]
 gi|300504599|gb|EFK35739.1| cro/CI family transcriptional regulator [Chryseobacterium gleum
          ATCC 35910]
          Length = 102

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 30/61 (49%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +GK I++ R+   +SQ +LG  L I+   V + E+G+       +  +   L+  I F 
Sbjct: 12 QIGKLIQVYRLRKELSQFQLGLELNISKDHVGRIERGLTNPTIENIVKLCNFLDINILFL 71

Query: 74 F 74
          F
Sbjct: 72 F 72


>gi|255657090|ref|ZP_05402499.1| putative transcriptional regulator [Clostridium difficile
          QCD-23m63]
 gi|296452077|ref|ZP_06893788.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296879529|ref|ZP_06903511.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP07]
 gi|296259027|gb|EFH05911.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP08]
 gi|296429467|gb|EFH15332.1| cro/CI family transcriptional regulator [Clostridium difficile
          NAP07]
          Length = 70

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 26/58 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +I+  R    M+Q +L + +G+  + +   E G           I++V ++ +   F+
Sbjct: 8  KIKEYREKFLMTQNELAKLVGVRRETIVHLENGKYNPSLKLAMDIAKVFDTTVENLFE 65


>gi|218663764|ref|ZP_03519694.1| hypothetical protein RetlI_33177 [Rhizobium etli IE4771]
          Length = 151

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/102 (18%), Positives = 42/102 (41%), Gaps = 4/102 (3%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFFFDVS 77
           ++  R   G+S+  +   LG++     +YE+  +++  +R+ H+ E+L   PI   F+ +
Sbjct: 50  LKKTREAQGLSRADIAPMLGLSIPVYGRYERAFSKMTVTRMIHLCEILGFMPIDMIFEAA 109

Query: 78  PTVCSDISSEENNVMDFIST---PDGLQLNRYFIQIDDVKVR 116
           P +          + +  S    P      R +  +     R
Sbjct: 110 PHLWGPHIRGSRGLSNIGSDSKKPSERHDARSYSALAANDPR 151


>gi|161508087|ref|YP_001578054.1| hypothetical protein lhv_1911 [Lactobacillus helveticus DPC 4571]
 gi|160349076|gb|ABX27750.1| hypothetical protein lhv_1911 [Lactobacillus helveticus DPC 4571]
          Length = 289

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ ++  R+  G++Q++  + + ++     K EK  +R+ A  L  I E    P+  
Sbjct: 8  MTIGELLKEERIKKGLTQKQFADSI-VSVSYYSKVEKNEHRITAEDLITILEHNNIPLCS 66

Query: 73 FF 74
          FF
Sbjct: 67 FF 68


>gi|329928143|ref|ZP_08282089.1| DNA-binding helix-turn-helix protein [Paenibacillus sp. HGF5]
 gi|328938020|gb|EGG34419.1| DNA-binding helix-turn-helix protein [Paenibacillus sp. HGF5]
          Length = 185

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 37/79 (46%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+++ +   ++L R    +S +K+ E  GI+   + + E+G +    + +  I+  L+  
Sbjct: 3  PINLILANNLKLLREQRKLSLDKVAEMTGISKTMLGQIERGESSPSITTVWKIANGLKLS 62

Query: 70 ISFFFDVSPTVCSDISSEE 88
           S   +   +    +S EE
Sbjct: 63 FSSLINEPHSGTVVVSREE 81


>gi|325298403|ref|YP_004258320.1| helix-turn-helix domain-containing protein [Bacteroides
           salanitronis DSM 18170]
 gi|324317956|gb|ADY35847.1| helix-turn-helix domain protein [Bacteroides salanitronis DSM
           18170]
          Length = 120

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 27/53 (50%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           G+ +R RR  LG++Q++L E +G     + + EKG   +  S    I+  L  
Sbjct: 59  GEVLRDRRKALGITQKELAERIGRDRSYISRLEKGETDLQLSSFIRIATALGI 111


>gi|91784379|ref|YP_559585.1| anaerobic benzoate catabolism transcriptional regulator
           [Burkholderia xenovorans LB400]
 gi|91688333|gb|ABE31533.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia xenovorans LB400]
          Length = 327

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 27/131 (20%), Positives = 51/131 (38%), Gaps = 17/131 (12%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G ++  +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ I
Sbjct: 29  GEREERDPFLTAMGERVRLLRARRGMTRKTLATETGLSERHLANLESGVGNASVLVLRQI 88

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRY-------FIQIDD 112
           +  L   ++        V  D ++       + + +   D   L R        F Q   
Sbjct: 89  AATLNCSLA-------EVIGDETTASAEWLLIRELLHGRDQAALQRARMALAEMFAQAPR 141

Query: 113 VKVRQKIIELV 123
              R+  I L+
Sbjct: 142 DPHRKDRIALI 152


>gi|146301390|ref|YP_001195981.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
          UW101]
 gi|146155808|gb|ABQ06662.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
          UW101]
          Length = 138

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++G++I   R +  M QE L + +G   Q V   E     +   +L  +++ L   +
Sbjct: 9  HMGRKISRIRELKDMKQEALAQAMGTNQQTVSILENSE-EIDDEKLAEVAKALGVSV 64


>gi|77461744|ref|YP_351251.1| transcriptional regulator [Pseudomonas fluorescens Pf0-1]
 gi|77385747|gb|ABA77260.1| putative DNA-binding protein [Pseudomonas fluorescens Pf0-1]
          Length = 182

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 24/97 (24%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  ++     + I  + N ++D       ++L 
Sbjct: 58  MVEFFSEEILQEKPTQIVYKANELIDISDGAVTMKLV 94


>gi|320101058|ref|YP_004176650.1| XRE family transcriptional regulator [Desulfurococcus mucosus DSM
           2162]
 gi|319753410|gb|ADV65168.1| transcriptional regulator, XRE family [Desulfurococcus mucosus DSM
           2162]
          Length = 294

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 36/81 (44%), Gaps = 4/81 (4%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP----ISF 72
            R+  +R  +G+++ +L E LG++ + +  YEKG   +   +   ++ V+       I  
Sbjct: 135 SRLHEKRKEIGLTRGELAEMLGVSRKTIYMYEKGELMISLQKGIELARVIGEDVFDEIDI 194

Query: 73  FFDVSPTVCSDISSEENNVMD 93
           F D       D   EE  + D
Sbjct: 195 FSDKIEAPALDDIREEPLLSD 215


>gi|296158468|ref|ZP_06841299.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia sp. Ch1-1]
 gi|295891412|gb|EFG71199.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia sp. Ch1-1]
          Length = 327

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 27/131 (20%), Positives = 51/131 (38%), Gaps = 17/131 (12%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G ++  +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ I
Sbjct: 29  GEREERDPFLTAMGERVRLLRARRGMTRKTLATETGLSERHLANLESGVGNASVLVLRQI 88

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRY-------FIQIDD 112
           +  L   ++        V  D ++       + + +   D   L R        F Q   
Sbjct: 89  AATLNCSLA-------EVIGDETTASAEWLLIRELLHGRDQAALQRARVALAEMFAQAPR 141

Query: 113 VKVRQKIIELV 123
              R+  I L+
Sbjct: 142 DPHRKDRIALI 152


>gi|297570524|ref|YP_003691868.1| transcriptional regulator, XRE family [Desulfurivibrio
          alkaliphilus AHT2]
 gi|296926439|gb|ADH87249.1| transcriptional regulator, XRE family [Desulfurivibrio
          alkaliphilus AHT2]
          Length = 105

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 24/51 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +++R  R   G++Q  LG  +G+    + + E G   +  S    ++  L+
Sbjct: 7  RKLRAARKAKGLTQGALGAKMGLPQSHISQIEAGKVDMRLSSFLEMARFLD 57


>gi|71903992|ref|YP_280795.1| Cro/CI family transcriptional regulator [Streptococcus pyogenes
          MGAS6180]
 gi|94990913|ref|YP_599013.1| Cro/CI family transcriptional regulator [Streptococcus pyogenes
          MGAS10270]
 gi|71803087|gb|AAX72440.1| transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          MGAS6180]
 gi|94544421|gb|ABF34469.1| Transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          MGAS10270]
          Length = 128

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 9/57 (15%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++  R   G++Q++L + +  + Q +  +EKG        ++ ++ V      + 
Sbjct: 20 EKLKTLRTEAGLTQKELAKIIQTSQQNIAYWEKGSRNPKHKSIEKLANVFNVSTDYL 76


>gi|54298316|ref|YP_124685.1| hypothetical protein lpp2375 [Legionella pneumophila str. Paris]
 gi|53752101|emb|CAH13528.1| hypothetical protein lpp2375 [Legionella pneumophila str. Paris]
          Length = 220

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/98 (17%), Positives = 39/98 (39%), Gaps = 10/98 (10%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G RI   R  LG++ ++L E    ++  ++  +E+G    G    + +++ L    ++
Sbjct: 6   QIGNRITKARKELGITIKELAERTAELSPARISNWEQGTRSPGPMEAKLLADQLNVSAAY 65

Query: 73  FFDVSPTVCSDISSEENN---------VMDFISTPDGL 101
              ++     D+     N         + D I   + L
Sbjct: 66  LLCLTDNPQGDLIQNPENKFRHIPLLSMKDAIHAKEIL 103


>gi|307320170|ref|ZP_07599590.1| putative phage repressor [Sinorhizobium meliloti AK83]
 gi|306894216|gb|EFN24982.1| putative phage repressor [Sinorhizobium meliloti AK83]
          Length = 231

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 25/60 (41%), Gaps = 1/60 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PIS 71
          I +G  IR  R   G+ Q  + E LGI    V  +E G N      L   +  L   P++
Sbjct: 8  IQIGTAIRTARKRRGLVQRNIAEHLGIDVAAVGMWEGGRNLPSTENLMRAALFLGINPVA 67


>gi|304395275|ref|ZP_07377159.1| transcriptional regulator, XRE family [Pantoea sp. aB]
 gi|304357528|gb|EFM21891.1| transcriptional regulator, XRE family [Pantoea sp. aB]
          Length = 192

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/95 (18%), Positives = 36/95 (37%), Gaps = 2/95 (2%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
              + ++I +G +++  R   G S   L    G++   + K E+G +   A  L  +S  
Sbjct: 7   SKEDSLNIRIGLKVKDERERRGWSLTDLAGHSGVSRAMIHKIERGESSPTAVLLARLSGS 66

Query: 66  LESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
            +  IS     +      +   EN  +     P+ 
Sbjct: 67  FDMSISQLLAQTEVQTGTLVRHENQPV--WQDPET 99


>gi|297157619|gb|ADI07331.1| DNA-binding protein [Streptomyces bingchenggensis BCW-1]
          Length = 104

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+ +  RR  LG+SQ +L E  G+   Q+ + E G        L+ ++  L+S ++
Sbjct: 38 LGQMVYDRRTALGLSQTELAERCGMKQPQISRIEGGGTVPTIPLLRRLARALDSDLT 94


>gi|228984873|ref|ZP_04145043.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
 gi|228774823|gb|EEM23219.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          tochigiensis BGSC 4Y1]
          Length = 404

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 28/64 (43%), Gaps = 1/64 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q  L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTALAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECETSFLL 62

Query: 75 DVSP 78
          +   
Sbjct: 63 EEDD 66


>gi|229195999|ref|ZP_04322751.1| Transcriptional regulator, Xre [Bacillus cereus m1293]
 gi|228587381|gb|EEK45447.1| Transcriptional regulator, Xre [Bacillus cereus m1293]
          Length = 404

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 28/64 (43%), Gaps = 1/64 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q  L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTALAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECETSFLL 62

Query: 75 DVSP 78
          +   
Sbjct: 63 EEDD 66


>gi|227501064|ref|ZP_03931113.1| possible transcriptional regulator [Anaerococcus tetradius ATCC
          35098]
 gi|227216837|gb|EEI82235.1| possible transcriptional regulator [Anaerococcus tetradius ATCC
          35098]
          Length = 95

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/63 (17%), Positives = 25/63 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++   R   G++Q  LG  +G++ Q +   E+G           ++ V +  +   F +
Sbjct: 31 NKLSEIRKEKGINQTDLGNMVGVSRQTISLIERGDYNPSVMVALSLARVFDMRVEDIFGL 90

Query: 77 SPT 79
             
Sbjct: 91 EEE 93


>gi|75758481|ref|ZP_00738602.1| Transcriptional regulator, pbsX family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228904936|ref|ZP_04068988.1| hypothetical protein bthur0014_60580 [Bacillus thuringiensis IBL
          4222]
 gi|74494008|gb|EAO57103.1| Transcriptional regulator, pbsX family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228854678|gb|EEM99284.1| hypothetical protein bthur0014_60580 [Bacillus thuringiensis IBL
          4222]
          Length = 65

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I   R    +SQEKL E +G++   + + E    +        I++VL + +   F
Sbjct: 2  NKIAELRKEKLISQEKLAEQVGLSRTYISEIENNKKQPNVKLAIKIAKVLGTSVESIF 59


>gi|323174633|gb|EFZ60254.1| repressor protein C2 [Escherichia coli LT-68]
          Length = 240

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 30/62 (48%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
           ++G+R+   R   G++Q+ L +  G+T   + K E+G+ +      L  ++  L+    
Sbjct: 24 KSLGERLINARQKAGLTQDALAKKAGVTRVAISKAEQGLTKSFNGDTLFKVAAALQCSPQ 83

Query: 72 FF 73
          + 
Sbjct: 84 WL 85


>gi|322384002|ref|ZP_08057732.1| transcriptional regulator-like protein [Paenibacillus larvae
          subsp. larvae B-3650]
 gi|321151479|gb|EFX44666.1| transcriptional regulator-like protein [Paenibacillus larvae
          subsp. larvae B-3650]
          Length = 57

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 22/52 (42%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R   G+SQEKL + LG++ Q +   E G           I +     I + F
Sbjct: 2  REERGISQEKLAQILGVSRQSIISIENGRYNPSLILAYQIPKYFNKSIEYVF 53


>gi|320178346|gb|EFW53317.1| repressor protein c2, putative [Shigella boydii ATCC 9905]
          Length = 218

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 30/62 (48%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
           ++G+R+   R   G++Q+ L +  G+T   + K E+G+ +      L  ++  L+    
Sbjct: 2  KSLGERLINARQKAGLTQDALAKKAGVTRVAISKAEQGLTKSFNGDTLFKVAAALQCSPQ 61

Query: 72 FF 73
          + 
Sbjct: 62 WL 63


>gi|269794408|ref|YP_003313863.1| transcriptional regulator [Sanguibacter keddieii DSM 10542]
 gi|269096593|gb|ACZ21029.1| transcriptional regulator [Sanguibacter keddieii DSM 10542]
          Length = 64

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 22/56 (39%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R   G+SQ  LG  LG++ Q +   E G           I+    + +   F
Sbjct: 5  VRALREAAGLSQAALGTVLGVSRQTINSIETGKYDPSLPLAIAIARHFTTTVEEIF 60


>gi|238063637|ref|ZP_04608346.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
           39149]
 gi|237885448|gb|EEP74276.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
           39149]
          Length = 468

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 24/121 (19%), Positives = 46/121 (38%), Gaps = 18/121 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLESPISFF 73
           VG+R+   R    +SQ+   + LG +   V K E+G+  +   S L  I+ VL       
Sbjct: 77  VGRRVAYWRGRRKLSQQVFADRLGKSKSWVDKVERGIRSLDKVSTLHDIAAVLRID---- 132

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV-----RQKIIELVRSIVS 128
                   + +   +    D     +G++  R  +   DV V     R++++     +  
Sbjct: 133 -------AAVLLGRDAQPADVTGRVEGVEHVREALSTYDVAVGRQPARRRVLA-ADRLAQ 184

Query: 129 S 129
            
Sbjct: 185 D 185


>gi|271966422|ref|YP_003340618.1| XRE family transcriptional regulator [Streptosporangium roseum DSM
           43021]
 gi|270509597|gb|ACZ87875.1| putative transcriptional regulator, XRE family [Streptosporangium
           roseum DSM 43021]
          Length = 192

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/115 (19%), Positives = 37/115 (32%), Gaps = 5/115 (4%)

Query: 7   IPNPV-DIN--VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           + NPV D+   VG R+R  R     +   L    G+T   + + E G       +L  ++
Sbjct: 1   MENPVGDVLAGVGPRLRALRQARSATLAALANETGLTASTLSRLENGKLLPTLEQLLPLA 60

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQL--NRYFIQIDDVKVR 116
                P+       PT    I          +  P   +    + +  I     R
Sbjct: 61  RAHGVPLDDLVAAPPTGDPRIHLRPVRRSGLVMVPLTRRAGGIQAYKMIYPPAGR 115


>gi|225017271|ref|ZP_03706463.1| hypothetical protein CLOSTMETH_01197 [Clostridium methylpentosum
          DSM 5476]
 gi|224949956|gb|EEG31165.1| hypothetical protein CLOSTMETH_01197 [Clostridium methylpentosum
          DSM 5476]
          Length = 230

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 35/81 (43%), Gaps = 1/81 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          + L R   G+SQ++  + LG++   +  YEKG+   G + +   ++  +    F    SP
Sbjct: 9  LTLLRKEKGISQKQAAQELGVSQALLSHYEKGIRECGLAFVIRAADFYDVSCDFLLGRSP 68

Query: 79 TVCSDISSEENNVMDFISTPD 99
                 + E  + +   + +
Sbjct: 69 ERKGTTLTVE-ELPEPAESKE 88


>gi|229815066|ref|ZP_04445403.1| hypothetical protein COLINT_02107 [Collinsella intestinalis DSM
          13280]
 gi|229809296|gb|EEP45061.1| hypothetical protein COLINT_02107 [Collinsella intestinalis DSM
          13280]
          Length = 391

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 26/60 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           ++  R    M+QE+L   LG++ Q V K+E   +     +L  + ++ E  +       
Sbjct: 6  NLQYLRAERRMTQEQLAMLLGVSRQSVTKWEAEKSYPEMDKLIKMCQIFECSLDDLVQGD 65


>gi|209919283|ref|YP_002293367.1| putative phage repressor [Escherichia coli SE11]
 gi|209912542|dbj|BAG77616.1| hypothetical phage repressor [Escherichia coli SE11]
          Length = 218

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 30/62 (48%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
           ++G+R+   R   G++Q+ L +  G+T   + K E+G+ +      L  ++  L+    
Sbjct: 2  KSLGERLINARQKAGLTQDALAKKAGVTRVAISKAEQGLTKSFNGDTLFKVAAALQCSPQ 61

Query: 72 FF 73
          + 
Sbjct: 62 WL 63


>gi|254440801|ref|ZP_05054294.1| Helix-turn-helix domain protein [Octadecabacter antarcticus 307]
 gi|198250879|gb|EDY75194.1| Helix-turn-helix domain protein [Octadecabacter antarcticus 307]
          Length = 130

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 36/78 (46%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N  +   G R+   R   G+  + L E LG+  + ++ +E+  +   A+R+Q ++ +L  
Sbjct: 13 NEANATFGDRLAAARQAKGLDVDGLSEKLGVDVRTIKVWERDADMPHANRIQMLAGLLNV 72

Query: 69 PISFFFDVSPTVCSDISS 86
           + +         S+++ 
Sbjct: 73 SMVWLVSGESNGSSEVAD 90


>gi|188491927|ref|ZP_02999197.1| repressor protein C2 [Escherichia coli 53638]
 gi|194434099|ref|ZP_03066368.1| repressor protein C2 [Shigella dysenteriae 1012]
 gi|188487126|gb|EDU62229.1| repressor protein C2 [Escherichia coli 53638]
 gi|194417643|gb|EDX33743.1| repressor protein C2 [Shigella dysenteriae 1012]
 gi|332096959|gb|EGJ01947.1| repressor protein C2 [Shigella dysenteriae 155-74]
          Length = 218

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 30/62 (48%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
           ++G+R+   R   G++Q+ L +  G+T   + K E+G+ +      L  ++  L+    
Sbjct: 2  KSLGERLINARQKAGLTQDALAKKAGVTRVAISKAEQGLTKSFNGDTLFKVAAALQCSPQ 61

Query: 72 FF 73
          + 
Sbjct: 62 WL 63


>gi|154496456|ref|ZP_02035152.1| hypothetical protein BACCAP_00748 [Bacteroides capillosus ATCC
          29799]
 gi|150274539|gb|EDN01616.1| hypothetical protein BACCAP_00748 [Bacteroides capillosus ATCC
          29799]
          Length = 71

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R   G++Q++LG  +G + Q +   E+G      +    I++V  + +   F
Sbjct: 5  NRLKELRAAKGLNQQELGALVGASRQTISLIERGDYNPSITLALRIAKVFGTTVEQVF 62


>gi|149276081|ref|ZP_01882226.1| hypothetical protein PBAL39_22460 [Pedobacter sp. BAL39]
 gi|149233509|gb|EDM38883.1| hypothetical protein PBAL39_22460 [Pedobacter sp. BAL39]
          Length = 130

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 23/108 (21%), Positives = 44/108 (40%), Gaps = 8/108 (7%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS---- 71
           G +IR  R      Q  + + LGI+     K EKG+  +  SRL  I+ +          
Sbjct: 9   GFKIRSLRQRQMKGQNAIAQNLGISIAAYAKIEKGITDINISRLTQIAALFNVKPEILLP 68

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGL----QLNRYFIQIDDVKV 115
            + +    + S + + EN         + +    +L   + QI+++K+
Sbjct: 69  SYIEEEKVIESSVGNIENIEKINALNSEVIKLQSELINAYEQIENLKL 116


>gi|50953954|ref|YP_061242.1| DNA-binding helix-turn-helix protein [Leifsonia xyli subsp. xyli
          str. CTCB07]
 gi|50950436|gb|AAT88137.1| DNA-binding helix-turn-helix protein [Leifsonia xyli subsp. xyli
          str. CTCB07]
          Length = 384

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + + L R   G S  +L +  GI    + K E G+  +  +RLQ ++E L+ P+  F
Sbjct: 4  QMLTLLRESRGYSGAQLAKLAGIPQPTLSKVENGLAVIDEARLQQLAEALDYPVEAF 60


>gi|18249875|ref|NP_543063.1| putative lambda repressor [Enterobacteria phage phiP27]
 gi|18152342|emb|CAC83529.1| putative lambda repressor [Enterobacteria phage phiP27]
          Length = 218

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 30/62 (48%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
           ++G+R+   R   G++Q+ L +  G+T   + K E+G+ +      L  ++  L+    
Sbjct: 2  KSLGERLINARQKAGLTQDALAKKAGVTRVAISKAEQGLTKSFNGDTLFKVAAALQCSPQ 61

Query: 72 FF 73
          + 
Sbjct: 62 WL 63


>gi|24418792|sp|O59472|Y1808_PYRHO RecName: Full=Putative HTH-type transcriptional regulatory protein
           PH1808
          Length = 315

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/92 (27%), Positives = 45/92 (48%), Gaps = 6/92 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK+++  R   G S  +L   LGI+ + +Q+YEKG + V       + EV + P+    D
Sbjct: 128 GKKLKALREEHGYSITELAGILGISRKSLQRYEKGESVVSLEVALRLEEVFDEPLVKPID 187

Query: 76  VSPTVCSDI--SSEENNVMDFISTPDGLQLNR 105
           V      D+  +SE +N+++     +  +  R
Sbjct: 188 VLRARLKDVTLTSEPDNILE----KEVFEKLR 215


>gi|117918776|ref|YP_867968.1| XRE family transcriptional regulator [Shewanella sp. ANA-3]
 gi|117611108|gb|ABK46562.1| transcriptional regulator, XRE family [Shewanella sp. ANA-3]
          Length = 191

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/74 (16%), Positives = 30/74 (40%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +   ++  R   G S +K     G++   + + E+G +    + L  I+      +
Sbjct: 4  INSYLAATLKQLRSQKGWSLDKAALETGVSKAMIGQIERGESSPTIATLWKIASGFNISL 63

Query: 71 SFFFDVSPTVCSDI 84
          S F + +P     +
Sbjct: 64 STFLEPTPESQGAL 77


>gi|47565459|ref|ZP_00236500.1| transcriptional regulator, XRE family [Bacillus cereus G9241]
 gi|47557449|gb|EAL15776.1| transcriptional regulator, XRE family [Bacillus cereus G9241]
          Length = 404

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 28/64 (43%), Gaps = 1/64 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q  L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTALAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECETSFLL 62

Query: 75 DVSP 78
          +   
Sbjct: 63 EEDD 66


>gi|325110412|ref|YP_004271480.1| cupin [Planctomyces brasiliensis DSM 5305]
 gi|324970680|gb|ADY61458.1| Cupin 2 conserved barrel domain protein [Planctomyces
          brasiliensis DSM 5305]
          Length = 189

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +RIR  R   G++ E++    G+T   + K E          L  I++VL  P++
Sbjct: 8  QRIRAIRRERGLTLEEVASKSGLTRSWLSKVENFRVTPSLPALSQIAQVLGIPVA 62


>gi|293396666|ref|ZP_06640942.1| cro/CI family transcriptional regulator [Serratia odorifera DSM
          4582]
 gi|291420930|gb|EFE94183.1| cro/CI family transcriptional regulator [Serratia odorifera DSM
          4582]
          Length = 197

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 27/74 (36%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +   +R  R   G+SQ  L    G++ + +   E G   V  + L  ++  LE   +  
Sbjct: 24 YLSSNVRGYRQQAGLSQMALAGLSGVSRRMLAGIEAGDRNVSLAVLDKLAAALEVSFTDL 83

Query: 74 FDVSPTVCSDISSE 87
                  + +  E
Sbjct: 84 IQAPDARGNHLIGE 97


>gi|238021090|ref|ZP_04601516.1| hypothetical protein GCWU000324_00988 [Kingella oralis ATCC 51147]
 gi|237868070|gb|EEP69076.1| hypothetical protein GCWU000324_00988 [Kingella oralis ATCC 51147]
          Length = 351

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 3/65 (4%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            ++  LG++Q  L E L ++   V  Y  G+N +        +E+L  P+S F   SP +
Sbjct: 43  KKKKELGLTQAILAEKLDVSQGAVNMYLNGINPLNTPIASRFAELLNVPVSDF---SPRL 99

Query: 81  CSDIS 85
            ++I 
Sbjct: 100 AAEIG 104



 Score = 47.5 bits (112), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R+   R   G+SQE+LG+ +  +   +   E G N+ G++ +  I+EVL     + 
Sbjct: 125 RLIYAREQKGISQEQLGKAINKSQSAIAALETGRNQ-GSTNIAKIAEVLGVSAIWL 179


>gi|228925132|ref|ZP_04088242.1| hypothetical protein bthur0011_60040 [Bacillus thuringiensis
           serovar huazhongensis BGSC 4BD1]
 gi|228834471|gb|EEM80000.1| hypothetical protein bthur0011_60040 [Bacillus thuringiensis
           serovar huazhongensis BGSC 4BD1]
          Length = 108

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/91 (20%), Positives = 35/91 (38%), Gaps = 2/91 (2%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++ KR+   R   G +Q  +  CL I       +E G     A  +  I+E+    I   
Sbjct: 3   HLSKRLAELRKKRGYTQADISHCLNIARTTYANWEYGKADPDADSIMRIAELHNISIDEL 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTP--DGLQ 102
           F  +  + S + S +  + D  +    + L 
Sbjct: 63  FGRNNPLESKLESIKVALADIPAEKQQEALD 93


>gi|209542873|ref|YP_002275102.1| XRE family transcriptional regulator [Gluconacetobacter
          diazotrophicus PAl 5]
 gi|209530550|gb|ACI50487.1| transcriptional regulator, XRE family [Gluconacetobacter
          diazotrophicus PAl 5]
          Length = 475

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 28/74 (37%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R    +SQ+ L   LGI+   +   E     V AS L  ++  L+  I    
Sbjct: 6  IGHIIRRLRSERSLSQQGLATRLGISPSYLNLIEHDQRSVTASLLIKLTRALDVSIEALS 65

Query: 75 DVSPTVCSDISSEE 88
           V       +  E 
Sbjct: 66 GVDEQRLRGLLHEA 79


>gi|166031433|ref|ZP_02234262.1| hypothetical protein DORFOR_01130 [Dorea formicigenerans ATCC
          27755]
 gi|166028838|gb|EDR47595.1| hypothetical protein DORFOR_01130 [Dorea formicigenerans ATCC
          27755]
          Length = 115

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 35/84 (41%), Gaps = 7/84 (8%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF--- 73
          +R++  R  LG++QE++G+ LG+T   +   E G   +     + I         +    
Sbjct: 3  ERLKTLRKSLGLTQEEMGQRLGVTKTAICSLESGRRNLTEQMAKSICREFRVDYYWLTVG 62

Query: 74 ----FDVSPTVCSDISSEENNVMD 93
              F  +P    D   EE N+ +
Sbjct: 63 DGEMFVAAPDCLIDEVVEEYNLDE 86


>gi|53714902|ref|YP_100894.1| putative transcriptional regulator [Bacteroides fragilis YCH46]
 gi|52217767|dbj|BAD50360.1| putative transcriptional regulator [Bacteroides fragilis YCH46]
          Length = 152

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 1/63 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V+++ G  IR  R+   + Q+ L   + +T   V KYEK +  +    L   +  L  P+
Sbjct: 10 VNVHHGHNIRRTRIEKNIKQDALAALVNMTQPNVSKYEK-MRVIEDEMLNRFARALNVPV 68

Query: 71 SFF 73
           + 
Sbjct: 69 EYL 71


>gi|28379166|ref|NP_786058.1| transcription regulator [Lactobacillus plantarum WCFS1]
 gi|254557296|ref|YP_003063713.1| transcription regulator [Lactobacillus plantarum JDM1]
 gi|300768612|ref|ZP_07078511.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ATCC 14917]
 gi|308181362|ref|YP_003925490.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ST-III]
 gi|28272004|emb|CAD64909.1| transcription regulator [Lactobacillus plantarum WCFS1]
 gi|254046223|gb|ACT63016.1| transcription regulator [Lactobacillus plantarum JDM1]
 gi|300493919|gb|EFK29088.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ATCC 14917]
 gi|308046853|gb|ADN99396.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ST-III]
          Length = 106

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/83 (24%), Positives = 39/83 (46%), Gaps = 1/83 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPISFF 73
          +GK IR RR   G++ E+L E   ++   + + E+G  + +    L  I+E L   I+ F
Sbjct: 5  IGKIIRQRRQQHGITIEQLAEQSNVSISLISRLERGKVDNIKLQSLTAIAETLNLKIADF 64

Query: 74 FDVSPTVCSDISSEENNVMDFIS 96
          F        ++ +  + + D  +
Sbjct: 65 FRDELLQSPNVVALLDYLSDLPA 87


>gi|84501573|ref|ZP_00999745.1| DNA-binding protein, putative [Oceanicola batsensis HTCC2597]
 gi|84390194|gb|EAQ02753.1| DNA-binding protein, putative [Oceanicola batsensis HTCC2597]
          Length = 466

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/140 (14%), Positives = 52/140 (37%), Gaps = 25/140 (17%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R  LG++Q+     LG++   + + E     V  + +  +++        
Sbjct: 6   LYAGAKLRETRQRLGLTQKDFAAKLGVSLPYLNQMENNNRPVSTTVVLSLAQEFG----- 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTP-----------------DGLQLNRYFIQIDDV-- 113
            FDV+     D     +++ + ++ P                 +   L R FI +     
Sbjct: 61  -FDVTELSTGDSERLVSDMREAMADPVLADVAPPLADIRLTASNAPALARAFIHLHRAYR 119

Query: 114 KVRQKIIELVRSIVSSEKKY 133
           +  +++  L  ++   + + 
Sbjct: 120 QTHERLASLDEALGREDART 139


>gi|303250418|ref|ZP_07336616.1| hypothetical protein APP6_1833 [Actinobacillus pleuropneumoniae
          serovar 6 str. Femo]
 gi|302650744|gb|EFL80902.1| hypothetical protein APP6_1833 [Actinobacillus pleuropneumoniae
          serovar 6 str. Femo]
          Length = 128

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 28/54 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++IR  R I   SQEK+ E L ++     K E+G  ++   +LQ I+ +    +
Sbjct: 5  EKIRAMREINHWSQEKMAEKLAMSANGYAKIERGQTKLNLDKLQQIANIFNIDV 58


>gi|284041700|ref|YP_003392040.1| XRE family transcriptional regulator [Conexibacter woesei DSM
          14684]
 gi|283945921|gb|ADB48665.1| transcriptional regulator, XRE family [Conexibacter woesei DSM
          14684]
          Length = 274

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 33/69 (47%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +   +IP+     VG  +R  R    +SQ  L    G++ + +   E G ++  +  + H
Sbjct: 1  MATIEIPHGTRSGVGPLLRGWRQRRRLSQLDLALEAGVSARHLSFVETGRSKPSSEMVLH 60

Query: 62 ISEVLESPI 70
          ++E L+ P+
Sbjct: 61 LAEQLDVPL 69


>gi|254551040|ref|ZP_05141487.1| transcriptional regulator [Mycobacterium tuberculosis '98-R604
          INH-RIF-EM']
          Length = 346

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 27/54 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G  + + R   G++Q +L E +G+T   + +YE G        +  ++E+L  
Sbjct: 4  LGDVLAVARKARGLTQIELAELVGLTQPAINRYESGDRDPDQHIVAKLAEILGV 57


>gi|81427688|ref|YP_394685.1| XRE family DNA-binding protein [Lactobacillus sakei subsp. sakei
          23K]
 gi|78609327|emb|CAI54373.1| Putative DNA-binding protein, XRE family [Lactobacillus sakei
          subsp. sakei 23K]
          Length = 189

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++ RR+ L ++Q+ + + L  + Q +  +E G N      L  IS + +  + 
Sbjct: 6  LKKRRIDLHLTQQAVADQLHTSRQTISNWENGKNYPDVPMLVAISNLYDLSLD 58


>gi|75759233|ref|ZP_00739334.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|74493296|gb|EAO56411.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
          Length = 68

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            ++  R   G+SQ +L + + +  Q +   E        +    +++ L++ ++  F
Sbjct: 7  NNVKQYRKSEGLSQLELAKKVNVARQTINLIENKKYNPSLALCIELAKALKTDLNSLF 64


>gi|327398295|ref|YP_004339164.1| Cupin 2 barrel domain-containing protein [Hippea maritima DSM
           10411]
 gi|327180924|gb|AEA33105.1| Cupin 2 conserved barrel domain protein [Hippea maritima DSM 10411]
          Length = 182

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/95 (21%), Positives = 36/95 (37%), Gaps = 2/95 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG +IR  R    M+   L +  G +   + + E+ +     S L+ I++ L   I  
Sbjct: 1   MRVGSKIREIRTKKNMTLRDLSKKSGCSLGFLSQVERDLVSPTISSLRRIADALGINIIS 60

Query: 73  FFDVSPTVCSDISSEENNVMDFI--STPDGLQLNR 105
            F+        I   + N   F    +    +L R
Sbjct: 61  LFEEREPPVDSIVVRKTNRGKFENRRSRVKYELLR 95


>gi|325169000|ref|YP_004285747.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
 gi|325052813|dbj|BAJ83149.1| Xre family transcriptional regulator [Acidiphilium multivorum
          AIU301]
          Length = 134

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 23/55 (41%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G  +R  R  LG+S  ++   +      + K E G   V   R+  I+E+    +
Sbjct: 39 GANVRAGRNALGLSLTQMANLIDADRAYIGKVEHGKINVSIDRMSSIAELFRVHL 93


>gi|325261429|ref|ZP_08128167.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
 gi|324032883|gb|EGB94160.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
          Length = 67

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 25/57 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + IR  R     +Q+++ + L IT     KYE G   +     + ++++    + + 
Sbjct: 4  ENIRNIREDKDKTQKEIADYLNITQTTYSKYELGKINIPVEVFEKLADLYGVTVDYL 60


>gi|294629832|ref|ZP_06708392.1| PE-PGRS family protein [Streptomyces sp. e14]
 gi|292833165|gb|EFF91514.1| PE-PGRS family protein [Streptomyces sp. e14]
          Length = 410

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 1/74 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + +R  R   GMSQE+L E   ++   V+K E+G N V    L  ++  L +  S  F  
Sbjct: 6  ENVRNHRRRAGMSQEQLAEAASLSVGVVRKVEQGQN-VSVESLNALARALGTETSSLFAT 64

Query: 77 SPTVCSDISSEENN 90
                ++ S E  
Sbjct: 65 EVPSPIEVDSSEGP 78


>gi|283834367|ref|ZP_06354108.1| transcriptional regulator, Cro/CI family [Citrobacter youngae
          ATCC 29220]
 gi|291069908|gb|EFE08017.1| transcriptional regulator, Cro/CI family [Citrobacter youngae
          ATCC 29220]
          Length = 185

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 28/59 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GKR+   R  LG+SQ +  E  G+T   +   E+       S LQ + +V    +S FF
Sbjct: 9  GKRLSEIRQQLGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFF 67


>gi|257877218|ref|ZP_05656871.1| conserved hypothetical protein [Enterococcus casseliflavus EC20]
 gi|257811384|gb|EEV40204.1| conserved hypothetical protein [Enterococcus casseliflavus EC20]
          Length = 198

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N+ K+I+  R  L +SQE L E L ++ Q +  +E   +      L  +S + +  + 
Sbjct: 8  MNLSKQIKKHRERLSLSQEGLAEKLYVSRQTISNWENEKSYPDVHNLLLLSVLFDVSLD 66


>gi|228958063|ref|ZP_04119798.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|296502381|ref|YP_003664081.1| XRE family transcriptional regulator [Bacillus thuringiensis
          BMB171]
 gi|228801580|gb|EEM48462.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|296323433|gb|ADH06361.1| XRE family transcriptional regulator [Bacillus thuringiensis
          BMB171]
          Length = 404

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q  L     +T   + + E G        LQ+I++ LE   SF  
Sbjct: 4  LGEKIKTLRKEKKLTQTDLAGS-ELTKSMLSQIENGKATPSMKTLQYIADKLECETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EDDDVEIVEL 72


>gi|229060141|ref|ZP_04197511.1| Transcriptional regulator, XRE [Bacillus cereus AH603]
 gi|228719181|gb|EEL70791.1| Transcriptional regulator, XRE [Bacillus cereus AH603]
          Length = 107

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 23/58 (39%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R+   R    + QE + + LGI       YE+G      + L  ++   E  I + 
Sbjct: 3  GTRLHTLRKERKLRQEDMAKQLGIARTTYAMYEQGNREPDYNTLIKLATFFEVSIDYL 60


>gi|311739935|ref|ZP_07713769.1| DNA-binding protein [Corynebacterium pseudogenitalium ATCC 33035]
 gi|311305008|gb|EFQ81077.1| DNA-binding protein [Corynebacterium pseudogenitalium ATCC 33035]
          Length = 437

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/64 (17%), Positives = 26/64 (40%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G RI   R   G++Q  + + LG++   + + E     +  + L  +++       +F +
Sbjct: 7  GARIHALRKQRGLTQVAMAKQLGLSTSYLNQLENDQRPLTVTVLMQLAQRFNLDPGYFAN 66

Query: 76 VSPT 79
              
Sbjct: 67 DRDA 70


>gi|254488744|ref|ZP_05101949.1| DNA-binding protein [Roseobacter sp. GAI101]
 gi|214045613|gb|EEB86251.1| DNA-binding protein [Roseobacter sp. GAI101]
          Length = 188

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/75 (16%), Positives = 33/75 (44%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+ +   + +R++  R   G+S + + +  G++   V + E+G +    + L +++  L+
Sbjct: 5  PDAILNQLPRRLKAARAAQGLSLDAVAKLSGVSRSMVSQIERGESSPTIATLWNLTRALQ 64

Query: 68 SPISFFFDVSPTVCS 82
             +   D       
Sbjct: 65 VDFAGLLDGGQRPAE 79


>gi|254436317|ref|ZP_05049823.1| Helix-turn-helix domain protein [Nitrosococcus oceani AFC27]
 gi|207088007|gb|EDZ65280.1| Helix-turn-helix domain protein [Nitrosococcus oceani AFC27]
          Length = 132

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 37/81 (45%), Gaps = 3/81 (3%)

Query: 1   MVGNKKIPNPVDINV--GKR-IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           +VG + +P+ V   +  G+  I++ R+  G++Q  L E   ++   +   EKG       
Sbjct: 48  VVGGEAMPHEVVKRLVEGENPIKVWRIYRGLTQHNLAEQAELSQSYLAMIEKGEREGTVK 107

Query: 58  RLQHISEVLESPISFFFDVSP 78
            L+ I++VL   I    D   
Sbjct: 108 ALKQIAKVLGVDIDDLVDTRD 128


>gi|196048249|ref|ZP_03115426.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|196020986|gb|EDX59716.1| DNA-binding protein [Bacillus cereus 03BB108]
          Length = 108

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/91 (19%), Positives = 34/91 (37%), Gaps = 2/91 (2%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++ KR+   R   G +Q  +   L I       +E G     A  +  I+E+    I   
Sbjct: 3   HLSKRLAELRKKRGYTQADISHRLNIARTTYANWEYGKADPDADSIMRIAELHNISIDEL 62

Query: 74  FDVSPTVCSDISSEENNVMDFISTP--DGLQ 102
           F  +  + S + S +  + D  +    + L 
Sbjct: 63  FGRNNPLESKLESIKVALADIPAEKQQEALD 93


>gi|159038191|ref|YP_001537444.1| XRE family transcriptional regulator [Salinispora arenicola
           CNS-205]
 gi|157917026|gb|ABV98453.1| transcriptional regulator, XRE family [Salinispora arenicola
           CNS-205]
          Length = 219

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/112 (18%), Positives = 38/112 (33%), Gaps = 8/112 (7%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
            N V   VG R+R  R   G++   +    G++   + + E G  R     L  ++ +  
Sbjct: 5   TNDVLDAVGPRLRALRRHRGLTLADVSTTTGVSESTLSRLEGGQRRATLELLLPLARIYN 64

Query: 68  SPISFFFDVSPTVCS--DISSEENNVMDFI---STPDGLQLNRYFIQIDDVK 114
            P+        T      ++      M F+     P G    + F  I   +
Sbjct: 65  VPLDDLVGAPRTGDPRIHLTPIRRFGMAFVPLSRRPGG---VQAFKMIIPAR 113


>gi|77458573|ref|YP_348078.1| transcriptional regulator [Pseudomonas fluorescens Pf0-1]
 gi|77382576|gb|ABA74089.1| putative DNA binding protein [Pseudomonas fluorescens Pf0-1]
          Length = 215

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 30/67 (44%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +P+   V + ++  R    +S + L    G++   + + E G +      L  I++ L+ 
Sbjct: 29 DPICERVAQNLQRLRGKRHLSLDALARQCGVSRAMLAQIESGRSVPSIKVLCKIAKGLKV 88

Query: 69 PISFFFD 75
           ++ F +
Sbjct: 89 SVAAFLE 95


>gi|15613851|ref|NP_242154.1| transcriptional repressor of PBSX genes [Bacillus halodurans C-125]
 gi|10173904|dbj|BAB05007.1| transcriptional repressor of PBSX genes [Bacillus halodurans C-125]
          Length = 112

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/104 (17%), Positives = 46/104 (44%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ GKR+R  R+   +SQE+L + LG+    + +YE    +     L  +++  +    +
Sbjct: 1   MSFGKRLRSLRINKKLSQEELAKTLGLNRSTLARYELENTQPDYETLTKMADFFQVTTDY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
                    + +S   ++  + ++  +   L +   +  ++K R
Sbjct: 61  ILGRVDDETTQLSISFSHGGEELTEDEKAHLEQELKKYRELKER 104


>gi|298206675|ref|YP_003714854.1| transcriptional regulator, XRE family protein [Croceibacter
          atlanticus HTCC2559]
 gi|83849306|gb|EAP87174.1| transcriptional regulator, XRE family protein [Croceibacter
          atlanticus HTCC2559]
          Length = 67

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 24/61 (39%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + G  IR  R   G SQE+L     +    +   E+    +    +  IS+ L+  I   
Sbjct: 7  HFGNNIRRLRKEQGFSQEELAHKADLHRTYIGMIERAEKNITLLNIGKISKALDVEIKEL 66

Query: 74 F 74
          F
Sbjct: 67 F 67


>gi|332879673|ref|ZP_08447366.1| DNA-binding helix-turn-helix protein [Capnocytophaga sp. oral
          taxon 329 str. F0087]
 gi|332682390|gb|EGJ55294.1| DNA-binding helix-turn-helix protein [Capnocytophaga sp. oral
          taxon 329 str. F0087]
          Length = 111

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 28/83 (33%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K I   R   G +Q+ + E LGI        EKG   +   RL  I+  L   +      
Sbjct: 9  KNILKIRTDKGFTQQNVAEHLGIEQGSYSLIEKGRRELSIERLLQIAIFLGVDVKDIITY 68

Query: 77 SPTVCSDISSEENNVMDFISTPD 99
               ++   E   V+      D
Sbjct: 69 PNREYNNSDDEVKAVLQIELKKD 91


>gi|313677850|ref|YP_004055846.1| transcriptional regulator, xre family [Marivirga tractuosa DSM
          4126]
 gi|312944548|gb|ADR23738.1| transcriptional regulator, XRE family [Marivirga tractuosa DSM
          4126]
          Length = 69

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 23/56 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I++ R    +SQ  L E  G+T Q +   EKG           IS +L   I   F
Sbjct: 5  IKVERARHSLSQTDLAEKCGVTRQTIYAIEKGKFTPSVILAFKISRILSISIEDLF 60


>gi|262197634|ref|YP_003268843.1| XRE family transcriptional regulator [Haliangium ochraceum DSM
          14365]
 gi|262080981|gb|ACY16950.1| transcriptional regulator, XRE family [Haliangium ochraceum DSM
          14365]
          Length = 147

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 30/74 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++G   R  R  LG++QE   E L ++ +   + E+G +      L  I+ VL      
Sbjct: 7  KSIGSAARQARTALGLTQEDAAERLDVSVEFYARIERGNSLPSVPTLARIAAVLGVSADA 66

Query: 73 FFDVSPTVCSDISS 86
              +P      ++
Sbjct: 67 LLGRAPFAPGASAT 80


>gi|229009876|ref|ZP_04167096.1| hypothetical protein bmyco0001_3460 [Bacillus mycoides DSM 2048]
 gi|228751494|gb|EEM01300.1| hypothetical protein bmyco0001_3460 [Bacillus mycoides DSM 2048]
          Length = 83

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 23/60 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  +I   R    +SQ  L +   ++ Q +   E        +    ++EVL + +   F
Sbjct: 20 VKNQIYELRTANNISQGALADKCNVSRQTINAIENNKYDPSLALAFRLAEVLGTTVDKLF 79


>gi|229131388|ref|ZP_04260287.1| hypothetical protein bcere0014_3580 [Bacillus cereus BDRD-ST196]
 gi|229165389|ref|ZP_04293175.1| hypothetical protein bcere0007_3780 [Bacillus cereus AH621]
 gi|228618093|gb|EEK75132.1| hypothetical protein bcere0007_3780 [Bacillus cereus AH621]
 gi|228652079|gb|EEL08017.1| hypothetical protein bcere0014_3580 [Bacillus cereus BDRD-ST196]
          Length = 83

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 23/60 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  +I   R    +SQ  L +   ++ Q +   E        +    ++EVL + +   F
Sbjct: 20 VKNQIYELRTANNISQGALADKCNVSRQTINAIENNKYDPSLALAFRLAEVLGTTVDKLF 79


>gi|227431795|ref|ZP_03913822.1| transcriptional regulator [Leuconostoc mesenteroides subsp.
          cremoris ATCC 19254]
 gi|227352478|gb|EEJ42677.1| transcriptional regulator [Leuconostoc mesenteroides subsp.
          cremoris ATCC 19254]
          Length = 65

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R+R  R   G+SQ++L   + I  + +++YE G N    + L  +++  E  I + 
Sbjct: 2  NRLRELRNERGLSQDRLANEMLINIKTLRRYEVGENDPRVAILIDLADYFEVSIDYL 58


>gi|184154706|ref|YP_001843046.1| hypothetical protein LAF_0230 [Lactobacillus fermentum IFO 3956]
 gi|183226050|dbj|BAG26566.1| hypothetical phage protein [Lactobacillus fermentum IFO 3956]
          Length = 370

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 31/67 (46%), Gaps = 5/67 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECL-----GITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D+++  RI   R   G+S  KL + L      ++   + KYE+GV        + ++E  
Sbjct: 27 DLDMKNRITELREEKGLSMRKLSKSLKEKGLSLSTDSLSKYERGVRNPKIENWEKLAEFF 86

Query: 67 ESPISFF 73
          + P+ + 
Sbjct: 87 KVPVDYL 93


>gi|163758095|ref|ZP_02165183.1| hypothetical protein HPDFL43_00680 [Hoeflea phototrophica DFL-43]
 gi|162284384|gb|EDQ34667.1| hypothetical protein HPDFL43_00680 [Hoeflea phototrophica DFL-43]
          Length = 478

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 35/87 (40%), Gaps = 3/87 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I  G RIR  R   G++Q  + E LGI+   +   E+    +    +  +S V +  +  
Sbjct: 6  IFAGPRIRRIRNAKGLTQTAMAEALGISPSYLNLIERNQRPLTVQLILKLSSVYKVDVE- 64

Query: 73 FFDVSPTVCSDISSEENNVMDFISTPD 99
            ++       ++S +    D +   +
Sbjct: 65 --ELQGEAGGALASLKEVFADPLLAGE 89


>gi|156977428|ref|YP_001448334.1| hypothetical protein VIBHAR_06215 [Vibrio harveyi ATCC BAA-1116]
 gi|156529022|gb|ABU74107.1| hypothetical protein VIBHAR_06215 [Vibrio harveyi ATCC BAA-1116]
          Length = 68

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 26/62 (41%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +    G  +RL R    +SQ+KL     I    + + E+G   +   +   ++ VL  
Sbjct: 2  NDLAKAFGNNLRLMRKSKSISQDKLALLADIDRSYIGRIERGEVNITLEKAYQLARVLGC 61

Query: 69 PI 70
           +
Sbjct: 62 DV 63


>gi|170731783|ref|YP_001763730.1| helix-turn-helix domain-containing protein [Burkholderia
          cenocepacia MC0-3]
 gi|169815025|gb|ACA89608.1| helix-turn-helix domain protein [Burkholderia cenocepacia MC0-3]
          Length = 356

 Score = 50.2 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFFFD 75
           ++ + R    +++++L E  GIT   + + E G         L+ +++VL  P+ FFF 
Sbjct: 5  SKLAIARKRRQLTKKELAEKSGITAVTLTRLETGKTADPSMETLETLAQVLGYPVDFFFG 64

Query: 76 VSPTVCSDISSE 87
           S    +  ++ 
Sbjct: 65 QSYEELTTDAAS 76


>gi|330828143|ref|YP_004391095.1| DNA-binding protein [Aeromonas veronii B565]
 gi|328803279|gb|AEB48478.1| DNA-binding protein [Aeromonas veronii B565]
          Length = 189

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/95 (14%), Positives = 36/95 (37%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++  R++  R   G S +       ++   + + E+G +    + L  I+       S F
Sbjct: 7   HLAARLKGLRSERGWSLDATARETSVSKAMLGQIERGESSPTVATLWKIATGFRVSFSSF 66

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
            +  P   +++     + +      +G+Q+   F 
Sbjct: 67  IEPIPAAQAEVLYRTADAIRQQPAGEGMQVAPLFP 101


>gi|328958082|ref|YP_004375468.1| putative DNA-binding protein, XRE family [Carnobacterium sp.
          17-4]
 gi|328674406|gb|AEB30452.1| putative DNA-binding protein, XRE family [Carnobacterium sp.
          17-4]
          Length = 63

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 22/58 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I   R   G++Q  L +   +T Q V   E             +S++L + +   F
Sbjct: 3  NKIEQLRKDKGLTQADLAKACNVTRQTVNAIENNKYDPTLQLAFSLSKILNTEVDKLF 60


>gi|312864492|ref|ZP_07724723.1| transcriptional regulator, AbrB family [Streptococcus downei
          F0415]
 gi|311099619|gb|EFQ57832.1| transcriptional regulator, AbrB family [Streptococcus downei
          F0415]
          Length = 137

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 30/78 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K I+  R     SQE L E +G++ Q + K+E G +         ++E+ E  +    
Sbjct: 2  INKTIQSLRKKADYSQETLAEMVGVSRQTLSKWELGESLPDIISSSRLAEIFEISLDELV 61

Query: 75 DVSPTVCSDISSEENNVM 92
                     +E   V 
Sbjct: 62 KGDELPFMSKPTEGKYVF 79


>gi|257470593|ref|ZP_05634683.1| putative transcriptional regulator [Fusobacterium ulcerans ATCC
          49185]
 gi|317064799|ref|ZP_07929284.1| DNA-binding protein [Fusobacterium ulcerans ATCC 49185]
 gi|313690475|gb|EFS27310.1| DNA-binding protein [Fusobacterium ulcerans ATCC 49185]
          Length = 177

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 36/87 (41%), Gaps = 2/87 (2%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I++ R     + + L +   ++   +   E+ +N    S LQ I + L   +  
Sbjct: 1  MTLGEKIKIIRKRKNYTLKDLSDMTKLSIGFLSNIERDLNSPSISNLQQICQALAVNLME 60

Query: 73 FFDVSPTVCSDISSEENNVMDFISTPD 99
            D + T       EE    + +  P+
Sbjct: 61 ILDPTDTHSPVTRKEERE--EILENPE 85


>gi|187777459|ref|ZP_02993932.1| hypothetical protein CLOSPO_01026 [Clostridium sporogenes ATCC
          15579]
 gi|187774387|gb|EDU38189.1| hypothetical protein CLOSPO_01026 [Clostridium sporogenes ATCC
          15579]
          Length = 220

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 39/75 (52%), Gaps = 3/75 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  +I+  R+  G++Q++L + LG+    + + E G   +  S +  IS+VL   I+   
Sbjct: 4  VSDKIKEARLKKGLTQKQLAKKLGVAESFINEVESGRKIINESLMNRISKVLGKGIN--- 60

Query: 75 DVSPTVCSDISSEEN 89
          D+  +   ++SSE  
Sbjct: 61 DIGISFEEEVSSEPK 75


>gi|77166000|ref|YP_344525.1| XRE family transcriptional regulator [Nitrosococcus oceani ATCC
           19707]
 gi|76884314|gb|ABA58995.1| transcriptional regulator, XRE family [Nitrosococcus oceani ATCC
           19707]
          Length = 165

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 37/81 (45%), Gaps = 3/81 (3%)

Query: 1   MVGNKKIPNPVDINV--GKR-IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           +VG + +P+ V   +  G+  I++ R+  G++Q  L E   ++   +   EKG       
Sbjct: 81  VVGGEAMPHEVVKRLVEGENPIKVWRIYRGLTQHNLAEQAELSQSYLAMIEKGEREGTVK 140

Query: 58  RLQHISEVLESPISFFFDVSP 78
            L+ I++VL   I    D   
Sbjct: 141 ALKQIAKVLGVDIDDLVDTRD 161


>gi|283479602|emb|CAY75518.1| HTH-type transcriptional regulator ansR; Ans operon repressor
          protein [Erwinia pyrifoliae DSM 12163]
          Length = 140

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 31/57 (54%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          GKR++  R     +Q+++   +G+   Q  KYE G++   A +L  ++E+  + I +
Sbjct: 23 GKRLKELRNQQRRTQKEVAALIGLQLSQYNKYESGMHIPPAEKLIQLAELFTTTIDY 79


>gi|283780906|ref|YP_003371661.1| XRE family transcriptional regulator [Pirellula staleyi DSM 6068]
 gi|283439359|gb|ADB17801.1| transcriptional regulator, XRE family [Pirellula staleyi DSM 6068]
          Length = 183

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/96 (18%), Positives = 32/96 (33%), Gaps = 3/96 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + +RIR  R   G++ E+L E  G+T   + K E          L  I+E      + 
Sbjct: 4   LQLSQRIREMRTSAGLTLEELAEKTGMTRGVISKIENFRVTPSLPTLAKIAEAFGVSTAD 63

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFI 108
                      +   +    +       +   RYF 
Sbjct: 64  LLAGLDQRPQIVVVRKEERQEITRDGSAI---RYFA 96


>gi|229164001|ref|ZP_04291939.1| hypothetical protein bcere0009_47630 [Bacillus cereus R309803]
 gi|228619472|gb|EEK76360.1| hypothetical protein bcere0009_47630 [Bacillus cereus R309803]
          Length = 73

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 26/67 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R    +SQ  LG+ +G + Q +   E+G           I+ +   P+   F +
Sbjct: 5  NRVRELRAKHRISQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAHIFNVPVEEIFML 64

Query: 77 SPTVCSD 83
                D
Sbjct: 65 VEGEEDD 71


>gi|258406639|ref|YP_003199380.1| transcriptional regulator, XRE family [Desulfohalobium retbaense
          DSM 5692]
 gi|257798866|gb|ACV69802.1| transcriptional regulator, XRE family [Desulfohalobium retbaense
          DSM 5692]
          Length = 468

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 28/52 (53%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          G ++R  R+ LG+SQ +L E  GI+   +  YE   + +    +Q ++  L+
Sbjct: 5  GNQLRETRLELGLSQARLAELTGISQHLLSAYELEKSTLAPDLIQKLASTLQ 56


>gi|45476502|ref|NP_995417.1| putative transcriptional regulator [Yersinia pestis biovar
          Microtus str. 91001]
 gi|45357213|gb|AAS58608.1| putative transcriptional regulator [Yersinia pestis biovar
          Microtus str. 91001]
          Length = 118

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 4/62 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR++  R   G+SQEKL E +G+       ++  YE G        +  +++VL  P  +
Sbjct: 4  KRLKEAREAAGLSQEKLSELVGVEGVNPRSRMSNYEAGRFAPPFEFVCRVADVLGYPEYY 63

Query: 73 FF 74
          F+
Sbjct: 64 FY 65


>gi|163938382|ref|YP_001643266.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|229056228|ref|ZP_04195651.1| hypothetical protein bcere0026_3600 [Bacillus cereus AH603]
 gi|163860579|gb|ABY41638.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
 gi|228721115|gb|EEL72650.1| hypothetical protein bcere0026_3600 [Bacillus cereus AH603]
          Length = 64

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 22/58 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I   R    +SQ  L +   ++ Q +   E        +    ++EVL + +   F
Sbjct: 3  NQIYELRTANNISQGALADKCNVSRQTINAIENNKYDPSLALAFRLAEVLGTTVDKLF 60


>gi|86133594|ref|ZP_01052176.1| DNA binding helix-turn helix protein [Polaribacter sp. MED152]
 gi|85820457|gb|EAQ41604.1| DNA binding helix-turn helix protein [Polaribacter sp. MED152]
          Length = 66

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 30/61 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++++R IL ++Q+ L + +G++ Q +   EK            +S+V    ++ FF +  
Sbjct: 5  LKVQRAILNLTQDDLAKQIGVSRQTINSIEKNRYVPSTVLALKLSKVFNITVNEFFTLEE 64

Query: 79 T 79
           
Sbjct: 65 D 65


>gi|85716570|ref|ZP_01047540.1| hypothetical protein NB311A_11977 [Nitrobacter sp. Nb-311A]
 gi|85696571|gb|EAQ34459.1| hypothetical protein NB311A_11977 [Nitrobacter sp. Nb-311A]
          Length = 114

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 22/52 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           RI+  R   GM+ E L E +G++   VQ+ E G   +        +  L  
Sbjct: 4  NRIKELRESQGMTLETLAELVGLSTSYVQRLENGERNLAVKHFAAFATALRV 55


>gi|313204957|ref|YP_004043614.1| transcriptional regulator [Paludibacter propionicigenes WB4]
 gi|312444273|gb|ADQ80629.1| transcriptional regulator [Paludibacter propionicigenes WB4]
          Length = 190

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 30/70 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I VG++I        +S+E+L E  G+T  Q++  E        S L  I+  L   +  
Sbjct: 4  IIVGEKISTLCADKNISKEELAERSGLTVAQIEFIENSDTVPSLSPLIKIARALGVRLGT 63

Query: 73 FFDVSPTVCS 82
          F D S  +  
Sbjct: 64 FLDDSDELGP 73


>gi|307545860|ref|YP_003898339.1| XRE family transcriptional regulator [Halomonas elongata DSM
          2581]
 gi|307217884|emb|CBV43154.1| transcriptional regulator, XRE family [Halomonas elongata DSM
          2581]
          Length = 179

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 22/55 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ ++  R   G S  +L    GI    + + E+G        +  ++  L  P
Sbjct: 12 LGQHLQTLRRARGWSLSQLATAAGIAKSNLSRLEQGDGNPTLDTIWRLAVQLNVP 66


>gi|262373390|ref|ZP_06066669.1| RtrR protein [Acinetobacter junii SH205]
 gi|262313415|gb|EEY94500.1| RtrR protein [Acinetobacter junii SH205]
          Length = 70

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 27/54 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G  IR  R+   ++QEKL     I    V + E+G   +   +L  I+++L+ 
Sbjct: 8  IGHAIRNCRIEQKITQEKLALLCNIDRSYVGRIERGEVNITVLKLYEIAQILKV 61


>gi|257440445|ref|ZP_05616200.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
 gi|257197067|gb|EEU95351.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
          Length = 210

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+ I   R + G SQ++L + LG   + +QK+E+G  R+       + + L  P+ 
Sbjct: 8  IGEAIAFARNVAGRSQQELADMLGRDKRTIQKWERGEIRIALEDFLDVFDTLHLPVG 64


>gi|238853499|ref|ZP_04643875.1| helix-turn-helix domain protein [Lactobacillus gasseri 202-4]
 gi|238833857|gb|EEQ26118.1| helix-turn-helix domain protein [Lactobacillus gasseri 202-4]
          Length = 264

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 34/64 (53%), Gaps = 1/64 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK ++  R+ LG+SQ ++   + +T     K E+G++ + A  L  I E  +  IS 
Sbjct: 1  MQIGKELKKLRLELGLSQTEMVGDI-LTKSYYSKIERGLHEINAKDLIEILERNKVNISD 59

Query: 73 FFDV 76
          FF  
Sbjct: 60 FFKG 63


>gi|229043538|ref|ZP_04191247.1| Transcriptional regulator, Xre [Bacillus cereus AH676]
 gi|228725760|gb|EEL77008.1| Transcriptional regulator, Xre [Bacillus cereus AH676]
          Length = 404

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q  L     +T   + + E G        LQ+I++ LE   SF  
Sbjct: 4  LGEKIKTLRKEKKLTQTDLAGS-ELTKSMLSQIENGKATPSMKTLQYIADKLECETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EDDDVEIVEL 72


>gi|229144395|ref|ZP_04272800.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST24]
 gi|228639026|gb|EEK95451.1| Transcriptional regulator, Xre [Bacillus cereus BDRD-ST24]
          Length = 404

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q  L     +T   + + E G        LQ+I++ LE   SF  
Sbjct: 4  LGEKIKTLRKEKKLTQTDLAGS-ELTKSMLSQIENGKATPSMKTLQYIADKLECETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EDDDVEIVEL 72


>gi|229155360|ref|ZP_04283470.1| Transcriptional regulator, Xre [Bacillus cereus ATCC 4342]
 gi|228628075|gb|EEK84792.1| Transcriptional regulator, Xre [Bacillus cereus ATCC 4342]
          Length = 404

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 28/64 (43%), Gaps = 1/64 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q  L     +T   + + E G        LQ+I+E LE   SF  
Sbjct: 4  LGEKIKALRKEKKLTQTALAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLECETSFLL 62

Query: 75 DVSP 78
          +   
Sbjct: 63 EEDD 66


>gi|163745179|ref|ZP_02152539.1| probable transcriptional regulator [Oceanibulbus indolifex
          HEL-45]
 gi|161381997|gb|EDQ06406.1| probable transcriptional regulator [Oceanibulbus indolifex
          HEL-45]
          Length = 183

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 32/70 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +NVG ++R  R   G+SQ +L    G+T   +   EK       + L+ + + +   ++ 
Sbjct: 1  MNVGDKLRAIRKKHGLSQRELAAKAGLTNGTISLIEKNRTSPSVASLKSLLDAIPISMAE 60

Query: 73 FFDVSPTVCS 82
          FF +     S
Sbjct: 61 FFSILEEDDS 70


>gi|159906046|ref|YP_001549708.1| XRE family transcriptional regulator [Methanococcus maripaludis
          C6]
 gi|159887539|gb|ABX02476.1| transcriptional regulator, XRE family [Methanococcus maripaludis
          C6]
          Length = 66

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 27/57 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +I+  R    M+QE+LG+ +G+  + +   EKG           IS+ L + +   F
Sbjct: 4  KIKEYRAKYDMTQEELGKIVGVRRETISFLEKGKYNPSLKLAHSISKALNATVDELF 60


>gi|254251221|ref|ZP_04944539.1| hypothetical protein BDAG_00398 [Burkholderia dolosa AUO158]
 gi|124893830|gb|EAY67710.1| hypothetical protein BDAG_00398 [Burkholderia dolosa AUO158]
          Length = 189

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/106 (17%), Positives = 39/106 (36%), Gaps = 4/106 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   + +       V +R+R  R   G+SQ +L +  G+T   +   E+G        L+
Sbjct: 1   MSETESMSTE----VAERLRFVRNKHGLSQRELAKRAGVTNGAISLIEQGRVSPSVGSLK 56

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
            + E +   ++ FF         + S  + + +  +      L   
Sbjct: 57  KLLECIPMSLAEFFTFELVESRTVVSRRDEMPNLGNDALAFHLVGA 102


>gi|157961714|ref|YP_001501748.1| XRE family transcriptional regulator [Shewanella pealeana ATCC
          700345]
 gi|157963271|ref|YP_001503305.1| XRE family transcriptional regulator [Shewanella pealeana ATCC
          700345]
 gi|157846714|gb|ABV87213.1| transcriptional regulator, XRE family [Shewanella pealeana ATCC
          700345]
 gi|157848271|gb|ABV88770.1| transcriptional regulator, XRE family [Shewanella pealeana ATCC
          700345]
          Length = 68

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          I  G  +R +R  LGMSQ+KL     I      + E+G   +   +   ++EVLE  +
Sbjct: 6  IQFGFNLRKKRKELGMSQDKLALLAEIDRSYGGRIERGEVNITLEKAYQLAEVLECDV 63


>gi|95931163|ref|ZP_01313886.1| transcriptional regulator, XRE family [Desulfuromonas acetoxidans
          DSM 684]
 gi|95132769|gb|EAT14445.1| transcriptional regulator, XRE family [Desulfuromonas acetoxidans
          DSM 684]
          Length = 215

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 35/77 (45%), Gaps = 2/77 (2%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV-LESPISFFF 74
          G+RI+  R++L MSQ +L + L I+  QV   E G N+V +  L  +          +  
Sbjct: 3  GQRIKEIRLLLEMSQAELADELCISKGQVSNVESG-NKVPSEMLLELIIFKFGVNRDWLI 61

Query: 75 DVSPTVCSDISSEENNV 91
          D       ++   + ++
Sbjct: 62 DGKGMPFEEVQPAKPSL 78


>gi|110637900|ref|YP_678107.1| hypothetical protein CHU_1496 [Cytophaga hutchinsonii ATCC 33406]
 gi|110280581|gb|ABG58767.1| hypothetical protein CHU_1496 [Cytophaga hutchinsonii ATCC 33406]
          Length = 79

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 2/62 (3%)

Query: 15 VGKRIRLRRMILGMS-QEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VGK++   R   G + QE      GI   Q  +YE G N +   +L  I +  +     F
Sbjct: 15 VGKKLTDLRKAAGYTNQESFAHDAGIARGQYGRYENGSN-ITIGKLYKILKYHKISFEDF 73

Query: 74 FD 75
          F+
Sbjct: 74 FN 75


>gi|326575959|gb|EGE25882.1| peptidase S24-like protein [Moraxella catarrhalis CO72]
          Length = 233

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 9/63 (14%), Positives = 28/63 (44%), Gaps = 2/63 (3%)

Query: 18 RIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          R++  R   G++Q+++ E + G++     + E G ++   +R   ++ +    + +    
Sbjct: 6  RLKYARKAKGLTQKQVTEQIKGLSQSAYSQLESGKSK-STTRAIELAHLFGVDVHWLISG 64

Query: 77 SPT 79
             
Sbjct: 65 EGE 67


>gi|307610830|emb|CBX00445.1| phage repressor [Legionella pneumophila 130b]
          Length = 220

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/91 (16%), Positives = 39/91 (42%), Gaps = 4/91 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGEC-LGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G RI   R  LG++ ++L    + ++  ++  +E+G    G    + +++ L    S+
Sbjct: 6   QIGNRITKARKELGITIKELATRTVELSPARISNWEQGTRSPGPLEAKLLADQLNVSASY 65

Query: 73  FFDVSPTVCSDISSEENNVMDF---ISTPDG 100
              ++     D+     N + +   +S  + 
Sbjct: 66  LLCLTDNPQGDLIQSYENKLRYIPILSMKEA 96


>gi|300855922|ref|YP_003780906.1| HTH motif containing protein [Clostridium ljungdahlii DSM 13528]
 gi|300436037|gb|ADK15804.1| HTH motif containing protein [Clostridium ljungdahlii DSM 13528]
          Length = 344

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/100 (18%), Positives = 46/100 (46%), Gaps = 2/100 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + + + IR  R    ++QE++   L I+   V K+E G++    + L  ++ VL+  ++ 
Sbjct: 1   MRISEVIRNCRKKENLTQEQVANYLNISAPAVNKWENGISYPDITLLSPLARVLKIDVNT 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
               +  +     ++    +  I++ +G +  + F +  D
Sbjct: 61  LLAFNEKLTETEVNKFGKEVSEIASREGFK--KAFERGSD 98


>gi|295112179|emb|CBL28929.1| Predicted transcriptional regulators [Synergistetes bacterium
          SGP1]
          Length = 155

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 33/61 (54%), Gaps = 1/61 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +  R++  R + G+SQ  L + +G+    + ++E G +   A  +Q +++ L++  ++
Sbjct: 1  MKISDRVKTLRDLRGLSQGDLAQIIGVDVNTIWRWENGRSSP-ARSIQKLAQALDTTTAY 59

Query: 73 F 73
           
Sbjct: 60 L 60


>gi|284045383|ref|YP_003395723.1| XRE family transcriptional regulator [Conexibacter woesei DSM
          14684]
 gi|283949604|gb|ADB52348.1| transcriptional regulator, XRE family [Conexibacter woesei DSM
          14684]
          Length = 253

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 23/59 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +VG R+R  R   G+   +L   +G++   +   E G        L  I + L   + 
Sbjct: 21 KDVGARLRRDREARGVGVRELARRIGVSPSLISAIELGKANPSIGTLYQIVDELNLSVD 79


>gi|253991420|ref|YP_003042776.1| hypothetical protein PAU_03947 [Photorhabdus asymbiotica subsp.
          asymbiotica ATCC 43949]
 gi|253782870|emb|CAQ86035.1| conserved hypothetical protein [Photorhabdus asymbiotica]
          Length = 88

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 27/59 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG R+ + R   G+SQ  +    GI    + + E G   +   +L  I  VLE PI  F
Sbjct: 20 VGSRLMVARSHRGLSQNDIQNATGIDRATLSRIENGRQHISLYQLLQILTVLEIPIEEF 78


>gi|258513519|ref|YP_003189741.1| transcriptional regulator, XRE family [Desulfotomaculum acetoxidans
           DSM 771]
 gi|257777224|gb|ACV61118.1| transcriptional regulator, XRE family [Desulfotomaculum acetoxidans
           DSM 771]
          Length = 141

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/132 (12%), Positives = 49/132 (37%), Gaps = 16/132 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKR+   R     +Q++L + +G++   +   E+G+       L +I++     + +  
Sbjct: 11  LGKRVAEIRGKN--TQKELAKAIGVSRSYIGNIEQGITVPSLEVLINIAQQYHVSLDWLV 68

Query: 75  --DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID------------DVKVRQKII 120
             + + +  +  +  ++   DF        + + F                    ++ + 
Sbjct: 69  YGNTNSSPVAGATGYQHKSPDFFLRRQATAVEQNFSSAAFPPKILKQFKNLTPNNQRLVF 128

Query: 121 ELVRSIVSSEKK 132
           E ++ +   EK 
Sbjct: 129 EFIKMLTMYEKN 140


>gi|153009785|ref|YP_001371000.1| XRE family transcriptional regulator [Ochrobactrum anthropi ATCC
          49188]
 gi|151561673|gb|ABS15171.1| transcriptional regulator, XRE family [Ochrobactrum anthropi ATCC
          49188]
          Length = 72

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 2/59 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG  +   R+  G++QE++ E  G + Q +   E+G        +  +S  LE+  ++F
Sbjct: 5  VGDNLTWIRIEKGLTQEQVAEGSGFSQQYLSSLERGQYNPTIITIYELSLALET--TYF 61


>gi|311900230|dbj|BAJ32638.1| putative transcriptional regulator [Kitasatospora setae KM-6054]
          Length = 200

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 26/65 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG R+R  R   G +  +L E  GI+   + + E G  R     L  ++      +    
Sbjct: 12 VGPRLRAIRQQHGTTLAQLSEQTGISVSTLSRLESGGRRPTLELLLPLARAHGVALDELV 71

Query: 75 DVSPT 79
          D  PT
Sbjct: 72 DAPPT 76


>gi|299143941|ref|ZP_07037021.1| transcriptional regulator, Cro/CI family [Peptoniphilus sp. oral
          taxon 386 str. F0131]
 gi|298518426|gb|EFI42165.1| transcriptional regulator, Cro/CI family [Peptoniphilus sp. oral
          taxon 386 str. F0131]
          Length = 178

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 32/65 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +++  R+   ++QE+L +   +T   + + E+ +     + L  I E L +    
Sbjct: 1  MDIGNKLKNLRVKQALTQEELADRSELTKGFISQVERNLTSPSVATLIDILEALGTTPLE 60

Query: 73 FFDVS 77
          FF+  
Sbjct: 61 FFEDD 65


>gi|288962158|ref|YP_003452453.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288914424|dbj|BAI75909.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 483

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/132 (15%), Positives = 43/132 (32%), Gaps = 13/132 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++R  R   G++Q ++ + LGI+   +   E     V    L  + +     +  F 
Sbjct: 10  LGPKVRRLRRDQGLTQAQMADQLGISPSYLNLIEHNQRPVTVPLLLKLGQRFGVDLQAFA 69

Query: 75  DVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV---------RQKIIE 121
           +           ++ ++       I   D  +L      +    V         R  +  
Sbjct: 70  EDEESRLVAGLREVFADPLFDGSDIKNQDFRELAAVAPTLGQAVVALYRGFRGARDDLQA 129

Query: 122 LVRSIVSSEKKY 133
           L   +   EK +
Sbjct: 130 LAERVADHEKLH 141


>gi|242371994|ref|ZP_04817568.1| transcriptional regulator [Staphylococcus epidermidis M23864:W1]
 gi|242350301|gb|EES41902.1| transcriptional regulator [Staphylococcus epidermidis M23864:W1]
          Length = 79

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +++  R    +SQ  L   +G++ Q +   E            +I++ L   ++  F
Sbjct: 16 NKVKQFRAHQKISQLSLARAVGVSRQTINMIENDKYNPSLKLCINIAKKLNVTLNDLF 73


>gi|256396613|ref|YP_003118177.1| XRE family transcriptional regulator [Catenulispora acidiphila
          DSM 44928]
 gi|256362839|gb|ACU76336.1| transcriptional regulator, XRE family [Catenulispora acidiphila
          DSM 44928]
          Length = 283

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 37/80 (46%), Gaps = 1/80 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFFFDVS 77
          IR  R   G +QE+L    G++ + ++  E+G   +   + +Q +++ L+ P +      
Sbjct: 15 IRAWRERRGWTQEELSHASGLSTRAIRSLERGRTLKPRRTTVQMLADALQVPRARLMGTV 74

Query: 78 PTVCSDISSEENNVMDFIST 97
               D  +E +  +  ++T
Sbjct: 75 RRAVGDADAEADGTLGNVAT 94


>gi|229173521|ref|ZP_04301064.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          MM3]
 gi|228609903|gb|EEK67182.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          MM3]
          Length = 440

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 34/65 (52%), Gaps = 1/65 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RIR  RM  G++Q +L   +  +   + + E G  +  +S ++ +S+ LE    +
Sbjct: 18 MEIGERIRHVRMHKGLTQGELVSGI-CSITYLSRIESGKIKPSSSFIKKVSKKLEVKSDY 76

Query: 73 FFDVS 77
            + +
Sbjct: 77 LINGN 81


>gi|229020729|ref|ZP_04177452.1| Transcriptional regulator [Bacillus cereus AH1273]
 gi|229026999|ref|ZP_04183317.1| Transcriptional regulator [Bacillus cereus AH1272]
 gi|229190542|ref|ZP_04317539.1| Transcriptional regulator [Bacillus cereus ATCC 10876]
 gi|228592887|gb|EEK50709.1| Transcriptional regulator [Bacillus cereus ATCC 10876]
 gi|228734316|gb|EEL84992.1| Transcriptional regulator [Bacillus cereus AH1272]
 gi|228740530|gb|EEL90805.1| Transcriptional regulator [Bacillus cereus AH1273]
          Length = 125

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/111 (17%), Positives = 48/111 (43%), Gaps = 8/111 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G +++  R   G + +++ + +G        YE    +  A  L  ++++ ++   F
Sbjct: 14  MDIGTQLKFLRNRRGWTMQEVADRIGKNDSTYSGYETNKRKPNAEVLVQLADIFDTTTDF 73

Query: 73  FFDVSPTVCSDISSEENNVMDFIST----PDGLQLNRYFIQIDDVKVRQKI 119
                     + +    NV DF+       DG+++     +I +V +RQ +
Sbjct: 74  IL----GRTENPNGLNFNVKDFLDQGRLHSDGVEITDEQAEIANVLLRQLL 120


>gi|227819601|ref|YP_002823572.1| MerR family transcriptional regulator [Sinorhizobium fredii NGR234]
 gi|227338600|gb|ACP22819.1| putative MerR family transcriptional regulator [Sinorhizobium
           fredii NGR234]
          Length = 275

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 31/61 (50%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ VG+++R  R   G + E++   +GI    +   E+    V  + L +++E   + +
Sbjct: 95  IDLQVGRKLRSLRHAGGKTLEQVAGDVGIAPSVLSTLERTSQGVSVAVLHNLAEYFGTTV 154

Query: 71  S 71
           S
Sbjct: 155 S 155


>gi|192361723|ref|YP_001981703.1| Helix-turn-helix motif [Cellvibrio japonicus Ueda107]
 gi|190687888|gb|ACE85566.1| Helix-turn-helix motif [Cellvibrio japonicus Ueda107]
          Length = 107

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 31/75 (41%), Gaps = 1/75 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
          +G +I+  R   G + +KL E    +   + + E K   R  A +L  I++ L   + F 
Sbjct: 5  LGTKIKQLRDQRGYTLDKLAELSDSSKSYIWELENKAPPRPSADKLSKIADALGVTLGFL 64

Query: 74 FDVSPTVCSDISSEE 88
           D       + + + 
Sbjct: 65 IDEDSDQTQENAEDA 79


>gi|317130611|ref|YP_004096893.1| XRE family transcriptional regulator [Bacillus cellulosilyticus
          DSM 2522]
 gi|315475559|gb|ADU32162.1| transcriptional regulator, XRE family [Bacillus cellulosilyticus
          DSM 2522]
          Length = 66

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +++ R+ + ++QE+L + +G+T Q +   EKG           I++VL   +   F
Sbjct: 3  NNVKITRIKMSITQEQLAKRVGVTRQTIGLIEKGEYNPSLQLCVSIAKVLNKTLDELF 60


>gi|283479609|emb|CAY75525.1| HTH-type transcriptional regulator ansR; Ans operon repressor
          protein [Erwinia pyrifoliae DSM 12163]
          Length = 140

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 31/57 (54%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          GKR++  R     +Q+++   +G+   Q  KYE G++   A +L  ++E+  + I +
Sbjct: 23 GKRLKELRNQQRRTQKEVAALIGLQLSQYNKYESGMHIPPAEKLIQLAELFTTTIDY 79


>gi|228931333|ref|ZP_04094262.1| Transcription regulator [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
 gi|228828336|gb|EEM74042.1| Transcription regulator [Bacillus thuringiensis serovar
          pondicheriensis BGSC 4BA1]
          Length = 135

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 34/79 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + K I   R    +SQE+L   +G+T Q + K+E+         L  +S+ +   +  
Sbjct: 1  MKISKSILDYRKRNNLSQEQLASKIGVTRQAISKWEQEKGTPDIENLILLSDEMNISLDN 60

Query: 73 FFDVSPTVCSDISSEENNV 91
              + ++   I + E  +
Sbjct: 61 LIKGNNSIKERIMNNEKAI 79


>gi|229160744|ref|ZP_04288736.1| Transcriptional regulator, Xre [Bacillus cereus R309803]
 gi|228622759|gb|EEK79593.1| Transcriptional regulator, Xre [Bacillus cereus R309803]
          Length = 405

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 32/70 (45%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I++ LE  +SF  
Sbjct: 5  LGEKIKALRKEKKLTQTELSGS-ELTKSMLSQIENGKATPSMKTLQYIADKLECEMSFLL 63

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 64 EDDDEEIVEL 73


>gi|209520107|ref|ZP_03268882.1| transcriptional regulator, XRE family [Burkholderia sp. H160]
 gi|209499480|gb|EDZ99560.1| transcriptional regulator, XRE family [Burkholderia sp. H160]
          Length = 70

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 24/59 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           + G  +R  R  L  SQE+L E  G+    V + E+G           ++  L  PI 
Sbjct: 6  RDFGAAVRSLREALSWSQEQLAEYAGLNRSYVGEIERGSAIASIVTADKLARALNVPIG 64


>gi|145298591|ref|YP_001141432.1| phage C protein [Aeromonas salmonicida subsp. salmonicida A449]
 gi|142851363|gb|ABO89684.1| phage C protein [Aeromonas salmonicida subsp. salmonicida A449]
          Length = 87

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 2/75 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M       N ++ +  KR+R  R  L +S+ K  + LGI    ++ YE G   +G     
Sbjct: 1  MTAQPTQINLLNHHAAKRLRQLREQLALSRPKFADLLGIPPTTIKNYELGYREIGGGLFL 60

Query: 61 HISEV--LESPISFF 73
           I+    L+  I + 
Sbjct: 61 LIAHHPDLKQHIDWL 75


>gi|148553099|ref|YP_001260681.1| XRE family transcriptional regulator [Sphingomonas wittichii RW1]
 gi|148498289|gb|ABQ66543.1| transcriptional regulator, XRE family [Sphingomonas wittichii
          RW1]
          Length = 75

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 27/74 (36%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +   VG  +   R   G+ QE   E  GI+   + + E G   +    +  +++ L  P
Sbjct: 2  DIRKLVGGNVARLRKKTGLKQEPFSEAAGISQSYLSQIENGHVNLTLLGVNDLAQALGVP 61

Query: 70 ISFFFDVSPTVCSD 83
              F     +  D
Sbjct: 62 PIELFRELSEMNPD 75


>gi|288227164|gb|ADC45065.1| putative transcriptional regulator (helix-turn-helix motif,
           XRE-like) [Cupriavidus metallidurans CH34]
          Length = 101

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 33/92 (35%), Gaps = 2/92 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +NVG+ I+L R   G+SQ  L      +   +   E        S +  I+  L  P+  
Sbjct: 1   MNVGQAIKLCRTRRGISQADLARQAECSVSYLSMLENNKRDPTLSTMTKIAHALHMPVGI 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            F +           ++   D   T   L+L 
Sbjct: 61  IFFLGAEGDDLTGIGKSLQGDLART--ALELL 90


>gi|125622888|ref|YP_001031371.1| putative HTH-type transcriptional regulator [Lactococcus lactis
          subsp. cremoris MG1363]
 gi|2909717|gb|AAC12967.1| unknown [Lactococcus lactis subsp. cremoris MG1363]
 gi|124491696|emb|CAL96615.1| Putative HTH-type transcriptional regulator [Lactococcus lactis
          subsp. cremoris MG1363]
 gi|300069626|gb|ADJ59026.1| putative HTH-type transcriptional regulator [Lactococcus lactis
          subsp. cremoris NZ9000]
          Length = 185

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/59 (16%), Positives = 30/59 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ ++  R+   ++QE++ + L  + Q + ++E          L  ++++ +S +  F
Sbjct: 2  LGENLQKARLSKNLTQEEVAKELYFSRQAISRWESNKTEPNFETLIALADLYDSDLLAF 60


>gi|15676896|ref|NP_274042.1| transcriptional regulator [Neisseria meningitidis MC58]
 gi|7226247|gb|AAF41408.1| transcriptional regulator [Neisseria meningitidis MC58]
 gi|316985888|gb|EFV64829.1| helix-turn-helix family protein [Neisseria meningitidis H44/76]
 gi|325134226|gb|EGC56875.1| DNA-binding protein [Neisseria meningitidis M13399]
 gi|325140273|gb|EGC62798.1| DNA-binding protein [Neisseria meningitidis CU385]
 gi|325200308|gb|ADY95763.1| DNA-binding protein [Neisseria meningitidis H44/76]
 gi|325206164|gb|ADZ01617.1| DNA-binding protein [Neisseria meningitidis M04-240196]
          Length = 123

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 27/124 (21%), Positives = 51/124 (41%), Gaps = 12/124 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
             G R++  R  L M+Q ++ E  G++ +    YE+G+++  A       +V    + + 
Sbjct: 6   FFGNRLKEERKKLKMTQAEIAEKCGVSGRMWGDYERGISQPKAELFFQFEKV-GIDVQYV 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
                   + + SE  N  +     + L L R     D    R+ I+ + R    +EKK 
Sbjct: 65  MHGRRGETAVMPSETLNAEE----QELLVLFREAAAAD----REMILMVAR---RAEKKA 113

Query: 134 RTIE 137
           +T  
Sbjct: 114 QTAL 117


>gi|32475356|ref|NP_868350.1| transcription regulator [Rhodopirellula baltica SH 1]
 gi|32445897|emb|CAD78628.1| similar to transcription regulator [Rhodopirellula baltica SH 1]
          Length = 362

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 36/87 (41%), Gaps = 2/87 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +++  R  LG+SQ +L    G++ + VQ  E G N V    ++ I+  L         +
Sbjct: 21  AQLKQARQSLGLSQLQLAMRAGVSSRTVQFAESGQN-VSIGTMRRIAGALGMQADQLVRI 79

Query: 77  SPTVCSDISSEEN-NVMDFISTPDGLQ 102
            P    D  +E   +V D   +  G  
Sbjct: 80  DPGTGQDGFAELPWSVADKFRSNRGFD 106


>gi|194336892|ref|YP_002018686.1| transcriptional regulator, XRE family [Pelodictyon
           phaeoclathratiforme BU-1]
 gi|194309369|gb|ACF44069.1| transcriptional regulator, XRE family [Pelodictyon
           phaeoclathratiforme BU-1]
          Length = 131

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/48 (29%), Positives = 25/48 (52%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           VG+ IR  R  L ++Q +L    G+      +YE+G +R  A  ++ +
Sbjct: 68  VGEDIRRIRKKLNLTQAELASVFGVGKMAFSRYERGESRPPAPLVKLL 115


>gi|296110945|ref|YP_003621326.1| SOS-response transcriptional repressor [Leuconostoc kimchii IMSNU
          11154]
 gi|295832476|gb|ADG40357.1| SOS-response transcriptional repressor [Leuconostoc kimchii IMSNU
          11154]
          Length = 91

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  R + G+SQ++L + L ++   V  YE G        L  +S +L++ +
Sbjct: 28 NLKKYRTLSGISQDRLADLLCVSQVAVSNYETGKRIPDIDNLIKLSNILQTSV 80


>gi|296110834|ref|YP_003621215.1| hypothetical protein LKI_03520 [Leuconostoc kimchii IMSNU 11154]
 gi|295832365|gb|ADG40246.1| hypothetical protein LKI_03520 [Leuconostoc kimchii IMSNU 11154]
          Length = 110

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G +I+  R +  ++Q +L E   ++   + K E     +  + LQ+I++ L + +
Sbjct: 6  IGNKIKELRTLQNLTQFELAEKANLSISLISKIEIQEENIKINTLQNIAKALNTTV 61


>gi|302873667|ref|YP_003842300.1| helix-turn-helix domain-containing protein [Clostridium
          cellulovorans 743B]
 gi|307686609|ref|ZP_07629055.1| helix-turn-helix domain-containing protein [Clostridium
          cellulovorans 743B]
 gi|302576524|gb|ADL50536.1| helix-turn-helix domain protein [Clostridium cellulovorans 743B]
          Length = 116

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 29/61 (47%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G+ I   R   GM+QE+LG   G++   + K E     V      +I++V    ++  
Sbjct: 5  NIGEVISGLRKQKGMTQEELGNMSGLSRVIIAKIENNQRAVSLEEAVNIAKVFAIDVATL 64

Query: 74 F 74
          +
Sbjct: 65 Y 65


>gi|255102292|ref|ZP_05331269.1| putative phage DNA-binding protein [Clostridium difficile
          QCD-63q42]
          Length = 254

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK ++  R    ++Q +L E   I+   +  YE          L  +++ L+   + 
Sbjct: 1  MQIGKNLKKIRKQKELTQIQLAEISDISRNALINYENDKRIPNIDTLSKLAKALKIEKTI 60

Query: 73 F-FDVSPTVCSD 83
          F FD+   V ++
Sbjct: 61 FYFDIENEVITN 72


>gi|167588649|ref|ZP_02381037.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia ubonensis Bu]
          Length = 180

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/94 (18%), Positives = 34/94 (36%), Gaps = 2/94 (2%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++L R   G + + L +  G+T   + K E+G++    +    +S+ L   +   F   
Sbjct: 4   RLKLLRKQKGWTLDVLADETGLTKSYLSKVERGLSVPSIAVALKLSKALNVDVEQLFSER 63

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
                   +  +      S   G    + F  I 
Sbjct: 64  HNRELITVTRADERAAPGSRSAGH--AQAFESIA 95


>gi|167622459|ref|YP_001672753.1| XRE family transcriptional regulator [Shewanella halifaxensis
          HAW-EB4]
 gi|167352481|gb|ABZ75094.1| transcriptional regulator, XRE family [Shewanella halifaxensis
          HAW-EB4]
          Length = 68

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          I  G ++R +R  LG+SQ+KL     I      + E+G   +   +   ++EVLE  +
Sbjct: 6  IQFGTKLRDKRKALGISQDKLALLAEIDRSYAGRIERGEVNITLEKAYQLAEVLECDV 63


>gi|161598515|ref|YP_001573896.1| hypothetical protein pEDINA_p24 [Staphylococcus aureus]
 gi|27531748|dbj|BAC54516.1| unnamed protein product [Staphylococcus aureus]
 gi|270055238|gb|ACZ58731.1| transcriptional regulator, putative [Staphylococcus aureus]
 gi|270055460|gb|ACZ58953.1| transcriptional regulator, putative [Staphylococcus aureus]
 gi|282166034|gb|ADA80054.1| transcriptional regulator, putative [Staphylococcus aureus]
          Length = 66

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+  R   G+SQ  L   + ++ Q +   E             ++ VLE+ ++  F
Sbjct: 2  NKIKEFRKKKGLSQLDLARNILVSRQTINLIENNKYNPSLDLCLKLASVLETDLNSLF 59


>gi|15609154|ref|NP_216533.1| transcriptional regulatory protein [Mycobacterium tuberculosis
          H37Rv]
 gi|148661831|ref|YP_001283354.1| putative transcriptional regulatory protein [Mycobacterium
          tuberculosis H37Ra]
 gi|167970453|ref|ZP_02552730.1| putative transcriptional regulatory protein [Mycobacterium
          tuberculosis H37Ra]
 gi|306776255|ref|ZP_07414592.1| transcriptional regulator [Mycobacterium tuberculosis SUMu001]
 gi|306972365|ref|ZP_07485026.1| transcriptional regulator [Mycobacterium tuberculosis SUMu010]
 gi|307080074|ref|ZP_07489244.1| transcriptional regulator [Mycobacterium tuberculosis SUMu011]
 gi|307084649|ref|ZP_07493762.1| transcriptional regulator [Mycobacterium tuberculosis SUMu012]
 gi|2896754|emb|CAA17231.1| POSSIBLE TRANSCRIPTIONAL REGULATORY PROTEIN [Mycobacterium
          tuberculosis H37Rv]
 gi|148505983|gb|ABQ73792.1| putative transcriptional regulatory protein [Mycobacterium
          tuberculosis H37Ra]
 gi|308215287|gb|EFO74686.1| transcriptional regulator [Mycobacterium tuberculosis SUMu001]
 gi|308358155|gb|EFP47006.1| transcriptional regulator [Mycobacterium tuberculosis SUMu010]
 gi|308362088|gb|EFP50939.1| transcriptional regulator [Mycobacterium tuberculosis SUMu011]
 gi|308365757|gb|EFP54608.1| transcriptional regulator [Mycobacterium tuberculosis SUMu012]
          Length = 346

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 27/54 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G  + + R   G++Q +L E +G+T   + +YE G        +  ++E+L  
Sbjct: 4  LGDVLAVARKARGLTQIELAELVGLTQPAINRYESGDRDPDQHIVAKLAEILGV 57


>gi|296535336|ref|ZP_06897539.1| helix-turn-helix domain protein [Roseomonas cervicalis ATCC
          49957]
 gi|296264335|gb|EFH10757.1| helix-turn-helix domain protein [Roseomonas cervicalis ATCC
          49957]
          Length = 291

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 32/56 (57%), Gaps = 1/56 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+++R  R+  G+  E++   LG++   + +YEKG   +    ++ ++E+L+   
Sbjct: 6  IGQQLRAYRLESGLRAEEIAARLGVSRAALYRYEKGEV-IKLDTIRRLAELLKISP 60


>gi|241889648|ref|ZP_04776946.1| XRE family transcriptional regulator [Gemella haemolysans ATCC
          10379]
 gi|241863270|gb|EER67654.1| XRE family transcriptional regulator [Gemella haemolysans ATCC
          10379]
          Length = 218

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 23/57 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R    +SQ  + + LG+T      +EKG        L  ++       ++F
Sbjct: 5  NRLKSLRTKQKVSQTAVAKHLGVTRAAYNSWEKGKYIPNKKNLDELALYFNVETTYF 61


>gi|229551472|ref|ZP_04440197.1| transcriptional regulator [Lactobacillus rhamnosus LMS2-1]
 gi|258540781|ref|YP_003175280.1| transcriptional regulator [Lactobacillus rhamnosus Lc 705]
 gi|229315155|gb|EEN81128.1| transcriptional regulator [Lactobacillus rhamnosus LMS2-1]
 gi|257152457|emb|CAR91429.1| Transcriptional regulator [Lactobacillus rhamnosus Lc 705]
          Length = 70

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 22/65 (33%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI   R    ++Q+ L + L ++ Q V   E G           +S V   PI   F  
Sbjct: 3  NRIETLRNQHHLTQQDLADRLEVSRQTVSSLENGRYNPSLGLAFKLSHVFNLPIERIFID 62

Query: 77 SPTVC 81
               
Sbjct: 63 ESADS 67


>gi|226949688|ref|YP_002804779.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
 gi|226842029|gb|ACO84695.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
          Length = 82

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 25/56 (44%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    ++Q+++   L IT   V  YE G+     S L  I++     + + 
Sbjct: 6  RLKGLREDRDLTQDQIANILKITRSAVANYENGIREPDISLLVKIADYFNISLDYL 61


>gi|217979885|ref|YP_002364032.1| transcriptional regulator, XRE family [Methylocella silvestris BL2]
 gi|217505261|gb|ACK52670.1| transcriptional regulator, XRE family [Methylocella silvestris BL2]
          Length = 477

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 27/128 (21%), Positives = 56/128 (43%), Gaps = 5/128 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ +R RR  L + Q  +   LGI+   + + E     + A+ L  ++ VL+  ++  +D
Sbjct: 7   GQILRRRREELSLPQALVARRLGISPSYLNQIESDQRPLTAAILVEVTRVLKLQVADLYD 66

Query: 76  VSPTVCSDISSE--ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
             P   +    E   + + +  S   G +L +         VR  +++L  S    E++Y
Sbjct: 67  DGPERLAANLREMLSDPLFEHASVS-GREL-KAISAAAPHLVR-AMLDLHSSYRRMEERY 123

Query: 134 RTIEEECM 141
           R +++   
Sbjct: 124 RGLDDALR 131


>gi|182419511|ref|ZP_02950762.1| conserved domain protein [Clostridium butyricum 5521]
 gi|237666225|ref|ZP_04526212.1| conserved domain protein [Clostridium butyricum E4 str. BoNT E
          BL5262]
 gi|182376641|gb|EDT74214.1| conserved domain protein [Clostridium butyricum 5521]
 gi|237658315|gb|EEP55868.1| conserved domain protein [Clostridium butyricum E4 str. BoNT E
          BL5262]
          Length = 73

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 28/56 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I++ R  L M+Q++L E +G++ Q +   EKG         + I +VL   +   F
Sbjct: 7  IKVARAQLDMTQKELAERVGVSRQTMNAIEKGEYNPTIKLCRSICKVLGKKLDDLF 62


>gi|254302250|ref|ZP_04969608.1| possible transcriptional regulator [Fusobacterium nucleatum
          subsp. polymorphum ATCC 10953]
 gi|148322442|gb|EDK87692.1| possible transcriptional regulator [Fusobacterium nucleatum
          subsp. polymorphum ATCC 10953]
          Length = 94

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 1/65 (1%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N K P  + + + K +R RR  L ++QE+  +  G++F  ++++E     +    L  I+
Sbjct: 7  NIKTPKEIQLEIAKNVRKRRKELKLTQEEFSKKSGVSFGSIKRFEN-TGEISLFSLIKIA 65

Query: 64 EVLES 68
           +LE 
Sbjct: 66 IILEC 70


>gi|120405829|ref|YP_955658.1| XRE family transcriptional regulator [Mycobacterium vanbaalenii
          PYR-1]
 gi|119958647|gb|ABM15652.1| transcriptional regulator, XRE family [Mycobacterium vanbaalenii
          PYR-1]
          Length = 97

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 26/62 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI + R    MS+ +L E + +  Q V   E+G +         I EV + P+   F  
Sbjct: 14 NRIGVLRAERRMSRAQLAEQIDVNPQTVGALERGDHYPSLDLAFRICEVFDLPVEAVFSR 73

Query: 77 SP 78
           P
Sbjct: 74 KP 75


>gi|28379010|ref|NP_785902.1| prophage Lp2 protein 10 [Lactobacillus plantarum WCFS1]
 gi|28271848|emb|CAD64753.1| prophage Lp2 protein 10 [Lactobacillus plantarum WCFS1]
          Length = 75

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/66 (16%), Positives = 26/66 (39%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++  R  + ++QE+L     ++   VQ  E G  +     +  +S+ L   +      +
Sbjct: 4  KLKYYREAMNLTQEELARHAKVSVAMVQSMENGRRKGSTDTILKLSDALNVTVDDLLRGN 63

Query: 78 PTVCSD 83
              S 
Sbjct: 64 NMTISH 69


>gi|260844424|ref|YP_003222202.1| putative phage regulatory protein CI [Escherichia coli O103:H2 str.
           12009]
 gi|13360529|dbj|BAB34492.1| putative regulatory protein [Escherichia coli O157:H7 str. Sakai]
 gi|257759571|dbj|BAI31068.1| predicted phage regulatory protein CI [Escherichia coli O103:H2
           str. 12009]
 gi|320188717|gb|EFW63377.1| Putative regulatory protein [Escherichia coli O157:H7 str. EC1212]
 gi|323157248|gb|EFZ43369.1| helix-turn-helix family protein [Escherichia coli EPECa14]
 gi|326338913|gb|EGD62729.1| Putative regulatory protein [Escherichia coli O157:H7 str. 1125]
 gi|326344317|gb|EGD68076.1| Putative regulatory protein [Escherichia coli O157:H7 str. 1044]
          Length = 125

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/105 (24%), Positives = 44/105 (41%), Gaps = 5/105 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI       G SQ +L   +G+T Q VQ++  G     AS L  + EV   P+ +F  + 
Sbjct: 3   RISKLLQETGWSQAELARRIGVTQQTVQQWVSGKATPKASSLDKLVEVSGHPLHWFL-LP 61

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           P  C  I + +   +     P   +L + F    +    + + E+
Sbjct: 62  PEECEQIFTPDTMKIG----PRQRELLQAFSAFPEEDQEKMLQEI 102


>gi|25010546|ref|NP_734941.1| hypothetical protein gbs0475 [Streptococcus agalactiae NEM316]
 gi|23094899|emb|CAD46119.1| Unknown [Streptococcus agalactiae NEM316]
          Length = 112

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 9/57 (15%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++++  R   G++Q++L + +  + Q +  +EKG        ++ ++ V      + 
Sbjct: 4  EKLKTLRTEAGLTQKELAKIIQTSQQNIAYWEKGSRNPKHKSIEKLANVFNVSTDYL 60


>gi|304322047|ref|YP_003855690.1| hypothetical protein PB2503_12539 [Parvularcula bermudensis
           HTCC2503]
 gi|303300949|gb|ADM10548.1| hypothetical protein PB2503_12539 [Parvularcula bermudensis
           HTCC2503]
          Length = 486

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 1/52 (1%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPIS 71
             R+  G++Q+ L E +G+  QQ+Q+YE         +RL  I + L   IS
Sbjct: 86  KARIASGLTQQDLAERVGLKPQQIQRYEAERYAGASLTRLIEIVKALGVRIS 137


>gi|327537762|gb|EGF24467.1| transcription regulator [Rhodopirellula baltica WH47]
          Length = 347

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 36/87 (41%), Gaps = 2/87 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +++  R  LG+SQ +L    G++ + VQ  E G N V    ++ I+  L         +
Sbjct: 6   AQLKQARQSLGLSQLQLAMRAGVSSRTVQFAESGQN-VSIGTMRRIAGALGMQADQLVRI 64

Query: 77  SPTVCSDISSEEN-NVMDFISTPDGLQ 102
            P    D  +E   +V D   +  G  
Sbjct: 65  DPGTGQDGFAELPWSVADKFRSNRGFD 91


>gi|258593006|emb|CBE69317.1| putative transcriptional regulator [NC10 bacterium 'Dutch
          sediment']
          Length = 104

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 24/58 (41%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           +++ V   I   R    MSQ +L + L    Q V + E+G   V    L  I+  L 
Sbjct: 34 DIELRVALEITRAREARKMSQRELADALKTKQQTVSRIERGAQNVTIETLDKIARALG 91


>gi|300780095|ref|ZP_07089951.1| transcriptional regulator [Corynebacterium genitalium ATCC 33030]
 gi|300534205|gb|EFK55264.1| transcriptional regulator [Corynebacterium genitalium ATCC 33030]
          Length = 73

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 25/67 (37%), Gaps = 6/67 (8%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+P        +R  R    +SQ +L + +G++ Q V   EKG           I   L 
Sbjct: 7  PHP------NMVRQWRRWHELSQAELAQRVGVSRQTVANIEKGNYSPSVHLALDICRELG 60

Query: 68 SPISFFF 74
            +   F
Sbjct: 61 KTVEEVF 67


>gi|229493241|ref|ZP_04387033.1| transcriptional regulator, XRE family [Rhodococcus erythropolis
          SK121]
 gi|229319972|gb|EEN85801.1| transcriptional regulator, XRE family [Rhodococcus erythropolis
          SK121]
          Length = 268

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++VG  ++  R    ++Q  L    G++ + +   E G ++     + H+SE L+ P+
Sbjct: 6  MDVGSELKRWRERRRLTQLGLSAAAGVSTRHLSFIETGRSKPSRDMILHLSECLDVPL 63


>gi|228939078|ref|ZP_04101675.1| Transcriptional regulator [Bacillus thuringiensis serovar berliner
           ATCC 10792]
 gi|228971956|ref|ZP_04132576.1| Transcriptional regulator [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228978567|ref|ZP_04138942.1| Transcriptional regulator [Bacillus thuringiensis Bt407]
 gi|228781166|gb|EEM29369.1| Transcriptional regulator [Bacillus thuringiensis Bt407]
 gi|228787773|gb|EEM35732.1| Transcriptional regulator [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228820606|gb|EEM66634.1| Transcriptional regulator [Bacillus thuringiensis serovar berliner
           ATCC 10792]
 gi|326939578|gb|AEA15474.1| transcriptional regulator [Bacillus thuringiensis serovar chinensis
           CT-43]
          Length = 112

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/111 (18%), Positives = 49/111 (44%), Gaps = 8/111 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G +++  R   G + +++ + +G        YE    +  A  L  +++V ++   F
Sbjct: 1   MNIGTQLKFLRNRRGWTMQEVADRIGKNDSTYSGYETNKRKPNAEVLVQLADVFDTTADF 60

Query: 73  FFDVSPTVCSDISSEENNVMDFIST----PDGLQLNRYFIQIDDVKVRQKI 119
                     + +S   NV DF+       DG+++     +I ++ +RQ +
Sbjct: 61  IL----GRTDNPNSLNFNVKDFLDQGRLHSDGVEITDEQAEIANILLRQLL 107


>gi|83589149|ref|YP_429158.1| XRE family transcriptional regulator [Moorella thermoacetica ATCC
          39073]
 gi|83572063|gb|ABC18615.1| transcriptional regulator, XRE family [Moorella thermoacetica
          ATCC 39073]
          Length = 78

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    +S +KL + LG+ +   + ++EKG+       L  I++  +  + + 
Sbjct: 12 RLKFLREQHNLSTQKLADALGLKSKGAITQFEKGIISPSVDTLISIADFFDVSLDYL 68


>gi|17547868|ref|NP_521270.1| transcription regulator protein [Ralstonia solanacearum GMI1000]
 gi|17430173|emb|CAD16858.1| putative transcription regulator protein [Ralstonia solanacearum
          GMI1000]
          Length = 113

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 30/78 (38%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +   P P+   +G+RI+L R     SQE L     +    +   E+G+       L +I 
Sbjct: 13 STSRPAPILSALGERIKLCRHAADKSQETLAFEALVDRTYISSIERGIANPSIETLANIC 72

Query: 64 EVLESPISFFFDVSPTVC 81
            L   ++  F     + 
Sbjct: 73 YALNVTLAELFGPMDGIS 90


>gi|294102727|ref|YP_003554585.1| transcriptional regulator, XRE family [Aminobacterium colombiense
           DSM 12261]
 gi|293617707|gb|ADE57861.1| transcriptional regulator, XRE family [Aminobacterium colombiense
           DSM 12261]
          Length = 114

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/97 (14%), Positives = 35/97 (36%), Gaps = 4/97 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R    R   G++Q ++   L +    + K EK   +     L+  + +   P+ +  
Sbjct: 7   IGQRFNELRSKSGLTQGQMAAYLDVDQSYISKCEKNERQFSIDILEKAASLFGCPVEYIV 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID 111
            ++        +     +    T + L+      +I 
Sbjct: 67  GLTSEFSPMSIAFRAKSV----TREDLEAIAALNKIA 99


>gi|289661956|ref|ZP_06483537.1| phage-related protei [Xanthomonas campestris pv. vasculorum
           NCPPB702]
          Length = 143

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 43/109 (39%), Gaps = 17/109 (15%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VGKR++  R  L ++Q+++ +  GI+      +EK  N  G + L   +      I +
Sbjct: 1   MTVGKRLKEERKRLRLTQQEMADACGISKWAQLYFEKDQNMPGGAYLLA-AHARGVDIVY 59

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                      +  E+   +D    P    L   F +    +VR  ++ 
Sbjct: 60  -----------VLLEQRTKLD----PSEAALVSAF-RAAPQEVRAALLA 92


>gi|282167052|gb|ADA81068.1| DNA-binding protein, putative [Staphylococcus aureus]
          Length = 182

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 27/62 (43%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++  +   +R  R    MS + L +   ++   + + EKG      S L  I+E L  P
Sbjct: 3  YINEIIATNLRKIRNQKRMSLDDLSKLTSVSKAVLFQIEKGTTNPTISTLWKIAEGLNIP 62

Query: 70 IS 71
          +S
Sbjct: 63 LS 64


>gi|229014216|ref|ZP_04171337.1| hypothetical protein bmyco0001_46210 [Bacillus mycoides DSM 2048]
 gi|229062694|ref|ZP_04200003.1| hypothetical protein bcere0026_47600 [Bacillus cereus AH603]
 gi|228716664|gb|EEL68361.1| hypothetical protein bcere0026_47600 [Bacillus cereus AH603]
 gi|228747170|gb|EEL97052.1| hypothetical protein bmyco0001_46210 [Bacillus mycoides DSM 2048]
          Length = 81

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 29/63 (46%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D+ +  R+R  R    +SQ  LG+ +G + Q +   E+G           I+++  +P+ 
Sbjct: 6  DMKLQNRVREFRAKHRLSQGDLGKAIGSSRQTISLIERGDYAPSIVLSLKIAQIFGAPVE 65

Query: 72 FFF 74
            F
Sbjct: 66 EIF 68


>gi|255323959|ref|ZP_05365085.1| transcriptional regulator, HTH_3 family [Corynebacterium
          tuberculostearicum SK141]
 gi|311739970|ref|ZP_07713804.1| HTH_3 family transcriptional regulator [Corynebacterium
          pseudogenitalium ATCC 33035]
 gi|255299139|gb|EET78430.1| transcriptional regulator, HTH_3 family [Corynebacterium
          tuberculostearicum SK141]
 gi|311305043|gb|EFQ81112.1| HTH_3 family transcriptional regulator [Corynebacterium
          pseudogenitalium ATCC 33035]
          Length = 87

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 31/74 (41%), Gaps = 4/74 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   KK   P+      R+R+ R    MS+ +L E + +  Q V   E+G +        
Sbjct: 1  MSPKKKPSAPIY----NRVRVLRAERDMSRAQLAEAIDVNPQTVGALERGDHSPSLDLAF 56

Query: 61 HISEVLESPISFFF 74
           + EV + P+   F
Sbjct: 57 RVCEVFDLPVEAIF 70


>gi|24379248|ref|NP_721203.1| hypothetical protein SMU.790 [Streptococcus mutans UA159]
 gi|24377163|gb|AAN58509.1|AE014920_7 conserved hypothetical protein [Streptococcus mutans UA159]
          Length = 79

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 32/71 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I   R   GM+Q +L E + +T + V K+E+ ++    + +  ++E+ E  +    
Sbjct: 6  LGMIISSLRKEKGMTQLELAEKMRVTDKAVSKWERDLSFPDINSIPKLAEIFEVSVDDLM 65

Query: 75 DVSPTVCSDIS 85
           V       I 
Sbjct: 66 QVKTNTKETIG 76


>gi|77404491|ref|YP_345067.1| Xre family DNA-binding protein [Rhodococcus erythropolis PR4]
 gi|77019872|dbj|BAE46247.1| putative Xre family DNA-binding protein [Rhodococcus erythropolis
          PR4]
          Length = 89

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/59 (35%), Positives = 35/59 (59%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +GKRIR+ R+  GM+Q +L +  G+    +++ EKG     AS+L  I+ V   P+S
Sbjct: 12 VELGKRIRIERVERGMAQLELVKRTGLADSTIRRIEKGTRDASASQLHTIAGVFGMPLS 70


>gi|150017031|ref|YP_001309285.1| XRE family transcriptional regulator [Clostridium beijerinckii
          NCIMB 8052]
 gi|149903496|gb|ABR34329.1| transcriptional regulator, XRE family [Clostridium beijerinckii
          NCIMB 8052]
          Length = 112

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 2/70 (2%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N    N +D  +GKRI+  R   G+++EK  E + I+   + + E G           I+
Sbjct: 3  NLNNINYID--IGKRIKAERERNGLTREKFSELVSISPTYLSQIELGQRHPSLPTTIKIA 60

Query: 64 EVLESPISFF 73
            L   + F 
Sbjct: 61 STLHISLDFL 70


>gi|15841500|ref|NP_336537.1| DNA-binding protein, putative [Mycobacterium tuberculosis
          CDC1551]
 gi|31793197|ref|NP_855690.1| regulatory protein [Mycobacterium bovis AF2122/97]
 gi|121637901|ref|YP_978124.1| regulatory protein [Mycobacterium bovis BCG str. Pasteur 1173P2]
 gi|148823233|ref|YP_001287987.1| transcriptional regulator [Mycobacterium tuberculosis F11]
 gi|215404173|ref|ZP_03416354.1| transcriptional regulator [Mycobacterium tuberculosis 02_1987]
 gi|215411712|ref|ZP_03420508.1| transcriptional regulator [Mycobacterium tuberculosis 94_M4241A]
 gi|215427378|ref|ZP_03425297.1| transcriptional regulator [Mycobacterium tuberculosis T92]
 gi|215430939|ref|ZP_03428858.1| transcriptional regulator [Mycobacterium tuberculosis EAS054]
 gi|215446234|ref|ZP_03432986.1| transcriptional regulator [Mycobacterium tuberculosis T85]
 gi|218753734|ref|ZP_03532530.1| transcriptional regulator [Mycobacterium tuberculosis GM 1503]
 gi|219557982|ref|ZP_03537058.1| transcriptional regulator [Mycobacterium tuberculosis T17]
 gi|224990395|ref|YP_002645082.1| hypothetical regulatory protein [Mycobacterium bovis BCG str.
          Tokyo 172]
 gi|253798930|ref|YP_003031931.1| transcriptional regulator [Mycobacterium tuberculosis KZN 1435]
 gi|254232188|ref|ZP_04925515.1| hypothetical protein TBCG_01970 [Mycobacterium tuberculosis C]
 gi|254364835|ref|ZP_04980881.1| hypothetical transcriptional regulatory protein [Mycobacterium
          tuberculosis str. Haarlem]
 gi|260186992|ref|ZP_05764466.1| transcriptional regulator [Mycobacterium tuberculosis CPHL_A]
 gi|260201123|ref|ZP_05768614.1| transcriptional regulator [Mycobacterium tuberculosis T46]
 gi|260205300|ref|ZP_05772791.1| transcriptional regulator [Mycobacterium tuberculosis K85]
 gi|289443512|ref|ZP_06433256.1| transcriptional regulator [Mycobacterium tuberculosis T46]
 gi|289447635|ref|ZP_06437379.1| transcriptional regulator [Mycobacterium tuberculosis CPHL_A]
 gi|289554202|ref|ZP_06443412.1| transcriptional regulator [Mycobacterium tuberculosis KZN 605]
 gi|289570123|ref|ZP_06450350.1| transcriptional regulator [Mycobacterium tuberculosis T17]
 gi|289574694|ref|ZP_06454921.1| transcriptional regulator [Mycobacterium tuberculosis K85]
 gi|289746033|ref|ZP_06505411.1| transcriptional regulatory protein [Mycobacterium tuberculosis
          02_1987]
 gi|289750599|ref|ZP_06509977.1| transcriptional regulator [Mycobacterium tuberculosis T92]
 gi|289754123|ref|ZP_06513501.1| transcriptional regulator [Mycobacterium tuberculosis EAS054]
 gi|289758134|ref|ZP_06517512.1| transcriptional regulator [Mycobacterium tuberculosis T85]
 gi|289762171|ref|ZP_06521549.1| conserved hypothetical protein [Mycobacterium tuberculosis GM
          1503]
 gi|294996956|ref|ZP_06802647.1| transcriptional regulator [Mycobacterium tuberculosis 210]
 gi|297634592|ref|ZP_06952372.1| transcriptional regulator [Mycobacterium tuberculosis KZN 4207]
 gi|297731580|ref|ZP_06960698.1| transcriptional regulator [Mycobacterium tuberculosis KZN R506]
 gi|298525519|ref|ZP_07012928.1| conserved hypothetical protein [Mycobacterium tuberculosis
          94_M4241A]
 gi|306780036|ref|ZP_07418373.1| transcriptional regulator [Mycobacterium tuberculosis SUMu002]
 gi|306784784|ref|ZP_07423106.1| transcriptional regulator [Mycobacterium tuberculosis SUMu003]
 gi|306789142|ref|ZP_07427464.1| transcriptional regulator [Mycobacterium tuberculosis SUMu004]
 gi|306793476|ref|ZP_07431778.1| transcriptional regulator [Mycobacterium tuberculosis SUMu005]
 gi|306797860|ref|ZP_07436162.1| transcriptional regulator [Mycobacterium tuberculosis SUMu006]
 gi|306803740|ref|ZP_07440408.1| transcriptional regulator [Mycobacterium tuberculosis SUMu008]
 gi|306808314|ref|ZP_07444982.1| transcriptional regulator [Mycobacterium tuberculosis SUMu007]
 gi|306968138|ref|ZP_07480799.1| transcriptional regulator [Mycobacterium tuberculosis SUMu009]
 gi|313658913|ref|ZP_07815793.1| transcriptional regulator [Mycobacterium tuberculosis KZN V2475]
 gi|13881742|gb|AAK46351.1| DNA-binding protein, putative [Mycobacterium tuberculosis
          CDC1551]
 gi|31618789|emb|CAD96893.1| hypothetical regulatory protein [Mycobacterium bovis AF2122/97]
 gi|121493548|emb|CAL72022.1| hypothetical regulatory protein [Mycobacterium bovis BCG str.
          Pasteur 1173P2]
 gi|124601247|gb|EAY60257.1| hypothetical protein TBCG_01970 [Mycobacterium tuberculosis C]
 gi|134150349|gb|EBA42394.1| hypothetical transcriptional regulatory protein [Mycobacterium
          tuberculosis str. Haarlem]
 gi|148721760|gb|ABR06385.1| hypothetical transcriptional regulatory protein [Mycobacterium
          tuberculosis F11]
 gi|224773508|dbj|BAH26314.1| hypothetical regulatory protein [Mycobacterium bovis BCG str.
          Tokyo 172]
 gi|253320433|gb|ACT25036.1| transcriptional regulator [Mycobacterium tuberculosis KZN 1435]
 gi|289416431|gb|EFD13671.1| transcriptional regulator [Mycobacterium tuberculosis T46]
 gi|289420593|gb|EFD17794.1| transcriptional regulator [Mycobacterium tuberculosis CPHL_A]
 gi|289438834|gb|EFD21327.1| transcriptional regulator [Mycobacterium tuberculosis KZN 605]
 gi|289539125|gb|EFD43703.1| transcriptional regulator [Mycobacterium tuberculosis K85]
 gi|289543877|gb|EFD47525.1| transcriptional regulator [Mycobacterium tuberculosis T17]
 gi|289686561|gb|EFD54049.1| transcriptional regulatory protein [Mycobacterium tuberculosis
          02_1987]
 gi|289691186|gb|EFD58615.1| transcriptional regulator [Mycobacterium tuberculosis T92]
 gi|289694710|gb|EFD62139.1| transcriptional regulator [Mycobacterium tuberculosis EAS054]
 gi|289709677|gb|EFD73693.1| conserved hypothetical protein [Mycobacterium tuberculosis GM
          1503]
 gi|289713698|gb|EFD77710.1| transcriptional regulator [Mycobacterium tuberculosis T85]
 gi|298495313|gb|EFI30607.1| conserved hypothetical protein [Mycobacterium tuberculosis
          94_M4241A]
 gi|308327075|gb|EFP15926.1| transcriptional regulator [Mycobacterium tuberculosis SUMu002]
 gi|308330516|gb|EFP19367.1| transcriptional regulator [Mycobacterium tuberculosis SUMu003]
 gi|308334351|gb|EFP23202.1| transcriptional regulator [Mycobacterium tuberculosis SUMu004]
 gi|308338152|gb|EFP27003.1| transcriptional regulator [Mycobacterium tuberculosis SUMu005]
 gi|308341844|gb|EFP30695.1| transcriptional regulator [Mycobacterium tuberculosis SUMu006]
 gi|308345332|gb|EFP34183.1| transcriptional regulator [Mycobacterium tuberculosis SUMu007]
 gi|308349633|gb|EFP38484.1| transcriptional regulator [Mycobacterium tuberculosis SUMu008]
 gi|308354263|gb|EFP43114.1| transcriptional regulator [Mycobacterium tuberculosis SUMu009]
 gi|323719420|gb|EGB28548.1| transcriptional regulator [Mycobacterium tuberculosis CDC1551A]
 gi|326903630|gb|EGE50563.1| transcriptional regulator [Mycobacterium tuberculosis W-148]
 gi|328458685|gb|AEB04108.1| transcriptional regulator [Mycobacterium tuberculosis KZN 4207]
          Length = 346

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 27/54 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G  + + R   G++Q +L E +G+T   + +YE G        +  ++E+L  
Sbjct: 4  LGDVLAVARKARGLTQIELAELVGLTQPAINRYESGDRDPDQHIVAKLAEILGV 57


>gi|304314800|ref|YP_003849947.1| transcriptional regulator [Methanothermobacter marburgensis str.
          Marburg]
 gi|302588259|gb|ADL58634.1| predicted transcriptional regulator [Methanothermobacter
          marburgensis str. Marburg]
          Length = 190

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 29/62 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+RI+  R    ++ E+L E  G+  + ++K E+G      + L  IS  L   +    
Sbjct: 6  VGERIKQLRDNQNITLEELAERSGVNRELIKKIEEGDILPSLTPLIKISRTLGVRLGTLL 65

Query: 75 DV 76
          D 
Sbjct: 66 DD 67


>gi|229051388|ref|ZP_04194893.1| Prophage LambdaBa02, repressor protein [Bacillus cereus AH676]
 gi|228721957|gb|EEL73397.1| Prophage LambdaBa02, repressor protein [Bacillus cereus AH676]
          Length = 112

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 27/79 (34%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R++  R   G +Q +LG+ +G+    +   E          +   +EVL     +   
Sbjct: 3  GDRVKQLRKSKGWTQGELGDAVGLKKATISLIENNKRDRSERSVSVFAEVLGCTSDYLLG 62

Query: 76 VSPTVCSDISSEENNVMDF 94
           S     +         +F
Sbjct: 63 FSDDPQLNGEQHSRLKQEF 81


>gi|159039226|ref|YP_001538479.1| XRE family transcriptional regulator [Salinispora arenicola
          CNS-205]
 gi|159039277|ref|YP_001538530.1| XRE family transcriptional regulator [Salinispora arenicola
          CNS-205]
 gi|157918061|gb|ABV99488.1| transcriptional regulator, XRE family [Salinispora arenicola
          CNS-205]
 gi|157918112|gb|ABV99539.1| transcriptional regulator, XRE family [Salinispora arenicola
          CNS-205]
          Length = 397

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 3/62 (4%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR--LQHISEVLESPIS 71
           +G R+   R I GM+Q  L   +G+T   +   E G  R  A R  L  ++  L+  I+
Sbjct: 4  YIGLRVARWRDISGMTQHDLASAVGVTPAYISMLENGR-RPVAKRSLLIALASALQVSIT 62

Query: 72 FF 73
            
Sbjct: 63 DL 64


>gi|154483623|ref|ZP_02026071.1| hypothetical protein EUBVEN_01327 [Eubacterium ventriosum ATCC
          27560]
 gi|149735533|gb|EDM51419.1| hypothetical protein EUBVEN_01327 [Eubacterium ventriosum ATCC
          27560]
          Length = 115

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 29/58 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  +IR +R+ +G++QE L     +    +   E   ++V  + L +I + + + + +
Sbjct: 18 ISNKIRRKRVSMGLTQEYLATAADVNVSHISNIENCHSKVSLNTLVYICKAMNTTLDY 75


>gi|170721030|ref|YP_001748718.1| XRE family transcriptional regulator [Pseudomonas putida W619]
 gi|169759033|gb|ACA72349.1| transcriptional regulator, XRE family [Pseudomonas putida W619]
          Length = 183

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/103 (20%), Positives = 42/103 (40%), Gaps = 12/103 (11%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           IR  R   G++  +L   +  +   + + E+G+++   + L  ISE L  P ++F+  S 
Sbjct: 12  IRGLRKHRGLTLGELAIKVKRSLGFLSQVERGLSQPTVADLTAISEALHVPTTYFYQASQ 71

Query: 79  TVCSDISSEENN---------VMDFISTPDGLQLNRYFIQIDD 112
               D  +             + D + +P    LN  F  ++ 
Sbjct: 72  PRELDWVTRPGERRTIYYAEGISDVLVSP---TLNGSFAMLES 111


>gi|312862584|ref|ZP_07722825.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
          F0396]
 gi|311101844|gb|EFQ60046.1| DNA-binding helix-turn-helix protein [Streptococcus vestibularis
          F0396]
          Length = 60

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/50 (20%), Positives = 24/50 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +++  R+   ++Q+ L + +G++ Q +   EKG           I + L+
Sbjct: 5  KLKSARVAKDLTQQGLADAIGVSRQTISPIEKGDYNPTMDLYIAICKTLD 54


>gi|295838009|ref|ZP_06824942.1| PbsX family transcriptional regulator [Streptomyces sp. SPB74]
 gi|295826798|gb|EFG65058.1| PbsX family transcriptional regulator [Streptomyces sp. SPB74]
          Length = 120

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/84 (17%), Positives = 37/84 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ +R +R    +S  +L +  G++   + + E+G+ +  A  LQ +++ L       +
Sbjct: 9  LGEFLREQRRAARLSLRQLADAAGVSNPYLSQIERGLRKPSAEILQQLAKALRISAETLY 68

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
            +  +     SE       ++ P
Sbjct: 69 VQAGILDERDRSEAGTRAVLLADP 92


>gi|291485970|dbj|BAI87045.1| transcriptional regulator [Bacillus subtilis subsp. natto
          BEST195]
          Length = 152

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+ IRL R   G S  +L    G++   + K E+GV+       L+ +S  LE  ++  
Sbjct: 2  IGRIIRLYRKRKGYSINQLAVESGVSKSYLSKIERGVHTNPSVQFLKKVSATLEVELTEL 61

Query: 74 FDVSPTVCSDISSEENN 90
          FD    +   IS  E  
Sbjct: 62 FDAETMMYEKISGGEEE 78


>gi|289449377|ref|YP_003475735.1| Xre family toxin-antitoxin system antitoxin protein
          [Clostridiales genomosp. BVAB3 str. UPII9-5]
 gi|289183924|gb|ADC90349.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridiales genomosp. BVAB3 str. UPII9-5]
          Length = 128

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 27/64 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+++R  R +  ++Q +L E L I+ + +  YE          L  I       +S+
Sbjct: 1  MTFGEKLRELRRLNHITQAELAEELKISLRALVYYENNHRFPPRDTLVAIGNFFHVNVSY 60

Query: 73 FFDV 76
            D 
Sbjct: 61 LVDD 64


>gi|260911956|ref|ZP_05918520.1| hypothetical protein HMPREF6745_2475 [Prevotella sp. oral taxon
          472 str. F0295]
 gi|260633903|gb|EEX52029.1| hypothetical protein HMPREF6745_2475 [Prevotella sp. oral taxon
          472 str. F0295]
          Length = 71

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G++I   R    +SQ +LG+  G+    + + E G + VG   L  I+  L   + F
Sbjct: 13 IGQKIASMRQEAKLSQAELGKKCGLERFHISRIESGRHSVGLDTLAAIARALGKTLDF 70


>gi|257414340|ref|ZP_04746003.2| putative helix-turn-helix protein [Roseburia intestinalis L1-82]
 gi|257200419|gb|EEU98703.1| putative helix-turn-helix protein [Roseburia intestinalis L1-82]
          Length = 121

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/73 (19%), Positives = 34/73 (46%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I +GKR+R  R+ + + + ++ + LG+T +  +K E GV  +   ++  +        +
Sbjct: 19 NIQIGKRLREARLNMNLEKSEIADVLGVTVEHYRKLEAGVTGISVDKVLTLYHKYGIDPT 78

Query: 72 FFFDVSPTVCSDI 84
          +      +   D 
Sbjct: 79 YLITGESSNIKDF 91


>gi|258515474|ref|YP_003191696.1| transcriptional regulator, XRE family [Desulfotomaculum acetoxidans
           DSM 771]
 gi|257779179|gb|ACV63073.1| transcriptional regulator, XRE family [Desulfotomaculum acetoxidans
           DSM 771]
          Length = 255

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/88 (18%), Positives = 35/88 (39%), Gaps = 3/88 (3%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G++IR  R   G + ++L     ++F  + + E+G  +     ++ ++ VL    S   +
Sbjct: 5   GEQIRALREERGYTLQELARRANLSFSYLSEIERGSKKPSLKTIEKLAAVLNVAKSQLVE 64

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQL 103
                 +D      N +  +     L L
Sbjct: 65  ND---LNDAGLTLGNKIRMLRNEKALSL 89



 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/104 (21%), Positives = 42/104 (40%), Gaps = 10/104 (9%)

Query: 5   KKIPNPVDIN----------VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV 54
           KKI   +D++          +G +++  R   G +Q KL E  G+T   + + E+   + 
Sbjct: 119 KKISESLDVSASVLMSYEGSLGNKLKALREKQGYTQAKLAELAGVTAGLIGQIEQSKVQP 178

Query: 55  GASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTP 98
               L+ +S VL     +F      V   I+     + + +  P
Sbjct: 179 SLKTLEKLSGVLGISACYFIMEPGAVEQIINMMTPELREMLLDP 222



 Score = 44.8 bits (105), Expect = 0.004,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 33/74 (44%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           N   + +G +IR+ R    +S ++L     I+   + + E+G      + L+ ISE L+ 
Sbjct: 68  NDAGLTLGNKIRMLRNEKALSLQELSTTSEISLSYLSEIERGTIYPSLNTLKKISESLDV 127

Query: 69  PISFFFDVSPTVCS 82
             S       ++ +
Sbjct: 128 SASVLMSYEGSLGN 141


>gi|284991477|ref|YP_003410031.1| XRE family transcriptional regulator [Geodermatophilus obscurus DSM
           43160]
 gi|284064722|gb|ADB75660.1| transcriptional regulator, XRE family [Geodermatophilus obscurus
           DSM 43160]
          Length = 195

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 23/118 (19%), Positives = 42/118 (35%), Gaps = 10/118 (8%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           + + +  + V   VG R+R  R+  G +  +L E  GI+   + + E G  R     L  
Sbjct: 1   MADDETTDAVLTAVGPRLRALRVRRGRTLAQLSEETGISVSTLSRLESGQRRPTLELLLP 60

Query: 62  ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR------YFIQIDDV 113
           ++     P+      +P            V   +++   L L R       F Q+   
Sbjct: 61  LARSHRVPLDELV-GAPETGDPRVHPRPVVHHGVTS---LPLTRRPGGVQAFKQVYPP 114


>gi|184200390|ref|YP_001854597.1| Xre family DNA-binding protein [Kocuria rhizophila DC2201]
 gi|183580620|dbj|BAG29091.1| putative Xre family DNA-binding protein [Kocuria rhizophila
          DC2201]
          Length = 71

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 31/62 (50%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +   + I +G ++R  R+  G++QE L E LG+T +     E+G   +    +  ++E L
Sbjct: 1  MATSLRITLGTQVRKVRLSRGLTQEVLAERLGVTPRYFAGIERGERNLTLDSVDALAEQL 60

Query: 67 ES 68
            
Sbjct: 61 GV 62


>gi|148271563|ref|YP_001221124.1| Cro/CI family transcriptional regulator [Clavibacter
          michiganensis subsp. michiganensis NCPPB 382]
 gi|147829493|emb|CAN00406.1| putative transcriptional regulator, Cro/CI family [Clavibacter
          michiganensis subsp. michiganensis NCPPB 382]
          Length = 167

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 1/58 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G RI   R   G +QE+L E  GIT + VQ+ E G N      L  ++  L   +   
Sbjct: 3  GTRIVDLRTQRGWTQERLAEASGITVRTVQRLEAG-NDASLDTLTRVATALAVQVGDL 59


>gi|146320084|ref|YP_001199795.1| transcriptional regulator PlcR [Streptococcus suis 98HAH33]
 gi|145690890|gb|ABP91395.1| transcriptional regulator PlcR, putative [Streptococcus suis
          98HAH33]
          Length = 173

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 3/66 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQ-VQKYEKGVNRVGASRLQHISEVLESPIS 71
          + + KR + RR  LG +Q++L E  GI  Q  + + EK      +  L  +S+ L+  + 
Sbjct: 8  MILSKRFKNRRKELGFTQKELAE--GICEQSLISRVEKLGVAPTSDILFALSQRLQVSMD 65

Query: 72 FFFDVS 77
          +FFD S
Sbjct: 66 YFFDES 71


>gi|10954908|ref|NP_053328.1| hypothetical protein pTi-SAKURA_p090 [Agrobacterium tumefaciens]
 gi|6498261|dbj|BAA87713.1| tiorf88 [Agrobacterium tumefaciens]
          Length = 163

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/96 (19%), Positives = 34/96 (35%), Gaps = 6/96 (6%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           MS   L     +    + + E G        L  I+  LE P SF F+ + +    I ++
Sbjct: 1   MSLSALATKANLAKSTLSELEAGKGNPSIETLWAIASALEIPFSFLFESASSHSQLIRAD 60

Query: 88  ENNVMDFISTP-DGLQLNRYFIQIDDVKVRQKIIEL 122
               +   S+    + LN+          R+ +  L
Sbjct: 61  AGVALAADSSDFRTVLLNKC-----PPASRRDLYRL 91


>gi|15081541|ref|NP_150054.1| transcription regulator phage-related [Clostridium perfringens
          str. 13]
 gi|15076774|dbj|BAB62499.1| probable transcription regulator phage-related [Clostridium
          perfringens str. 13]
          Length = 367

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 29/72 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + ++  R    ++QE L + +G+    +  YE G        L  +S+++   I     +
Sbjct: 11 ENLKEYRKKQKLTQEDLAKKIGVARSTLSYYEHGSIEPNIFVLITLSKLMNCSIDSLIGL 70

Query: 77 SPTVCSDISSEE 88
          S      I S +
Sbjct: 71 SNEKIIPIPSTD 82


>gi|330837028|ref|YP_004411669.1| helix-turn-helix domain-containing protein [Spirochaeta coccoides
          DSM 17374]
 gi|329748931|gb|AEC02287.1| helix-turn-helix domain protein [Spirochaeta coccoides DSM 17374]
          Length = 191

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 26/64 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GK I+  RM   ++   L E  G++   + + E        + +  IS+ L   +    
Sbjct: 8  IGKNIQKLRMSRNLTLNVLSERSGVSKAMLSQIESDKVNPTVATVWKISKGLGVELQDVL 67

Query: 75 DVSP 78
          D+  
Sbjct: 68 DIDD 71


>gi|325273200|ref|ZP_08139486.1| XRE family transcriptional regulator [Pseudomonas sp. TJI-51]
 gi|324101665|gb|EGB99225.1| XRE family transcriptional regulator [Pseudomonas sp. TJI-51]
          Length = 182

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 44/96 (45%), Gaps = 6/96 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++VG+R++  R + G+SQ +L +  G+T   +   EK       S L+ +      P+S 
Sbjct: 1   MDVGERLQAIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLRKVLS--GIPMSM 58

Query: 73  --FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
             FF  ++     + I  + + ++D       ++L 
Sbjct: 59  VEFFSVELEAQSPAQIVYKAHELIDISDGAVTMKLV 94


>gi|323525513|ref|YP_004227666.1| helix-turn-helix domain-containing protein [Burkholderia sp.
          CCGE1001]
 gi|323382515|gb|ADX54606.1| helix-turn-helix domain protein [Burkholderia sp. CCGE1001]
          Length = 84

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 25/69 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ +R  R   G+SQE L     +    V   E G +      +  I   L+   S F 
Sbjct: 7  VGEVLRALRRRKGLSQEALAHAAQMERNYVSLIELGRHSPSVRVIWKICAALDVTPSAFL 66

Query: 75 DVSPTVCSD 83
            +     +
Sbjct: 67 AAAEARLGE 75


>gi|300697135|ref|YP_003747796.1| transcriptional regulator [Ralstonia solanacearum CFBP2957]
 gi|299073859|emb|CBJ53386.1| putative transcription regulator protein [Ralstonia solanacearum
           CFBP2957]
          Length = 126

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 27/65 (41%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P+ I VG RI+  R     SQE+L     +    +   E+G+       L +I   L   
Sbjct: 36  PILIAVGARIKQCRHAAEKSQERLAFEASVDRTYISSIERGIANPSVETLANICYALNVT 95

Query: 70  ISFFF 74
           ++  F
Sbjct: 96  LAELF 100


>gi|302544073|ref|ZP_07296415.1| HTH_3 family transcriptional regulator [Streptomyces
          hygroscopicus ATCC 53653]
 gi|302461691|gb|EFL24784.1| HTH_3 family transcriptional regulator [Streptomyces
          himastatinicus ATCC 53653]
          Length = 82

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 29/65 (44%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           V  R+ + R    +S+++L E +G  +Q +   E+G           I++  E P+   
Sbjct: 4  QVHNRLAMVRAERKVSRQRLAEVVGAHYQTIGYIERGQYNPSLDLALKIAKFFELPVEAL 63

Query: 74 FDVSP 78
          F + P
Sbjct: 64 FSLEP 68


>gi|302531671|ref|ZP_07284013.1| helix-turn-helix domain-containing protein [Streptomyces sp. AA4]
 gi|302440566|gb|EFL12382.1| helix-turn-helix domain-containing protein [Streptomyces sp. AA4]
          Length = 193

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 27/110 (24%), Positives = 43/110 (39%), Gaps = 14/110 (12%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + V   +  R+R  R   G+S  +L    GI+   + + E G  +     L  I+  L  
Sbjct: 8   DSVLEQIAPRLRRARDHRGVSLAELSRSTGISTSTLSRLESGQRKPSLELLLPITAALGI 67

Query: 69  PISFFFD--------VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
           P    FD        V P V    +  +  V+  +S   G +L R + QI
Sbjct: 68  P----FDEIVAAPRIVDPRVPQQAAKRDGRVLIPLSRHQG-EL-RAYKQI 111


>gi|251779168|ref|ZP_04822088.1| DNA-biding phage protein [Clostridium botulinum E1 str. 'BoNT E
          Beluga']
 gi|243083483|gb|EES49373.1| DNA-biding phage protein [Clostridium botulinum E1 str. 'BoNT E
          Beluga']
          Length = 80

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/50 (26%), Positives = 21/50 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          ++  R   G+SQ +L + L I+   +   E G        L  I+  LE 
Sbjct: 8  LKNIRENKGISQRQLAKKLNISQGYISSIENGKKSPTIRMLYRIANALEI 57


>gi|229020269|ref|ZP_04177038.1| hypothetical protein bcere0030_47600 [Bacillus cereus AH1273]
 gi|229026493|ref|ZP_04182848.1| hypothetical protein bcere0029_47690 [Bacillus cereus AH1272]
 gi|228734801|gb|EEL85441.1| hypothetical protein bcere0029_47690 [Bacillus cereus AH1272]
 gi|228741022|gb|EEL91251.1| hypothetical protein bcere0030_47600 [Bacillus cereus AH1273]
          Length = 73

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 29/69 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R    +SQ +LG+ +G + Q +   E+G           I+++  +P+   F +
Sbjct: 5  NRVREFRAKHRLSQGELGKAIGSSRQTISLIERGDYAPSIVLSLKIAQIFGAPVEEIFML 64

Query: 77 SPTVCSDIS 85
                D  
Sbjct: 65 VEGEDGDGE 73


>gi|206559513|ref|YP_002230274.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
 gi|198035551|emb|CAR51431.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
          Length = 107

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 37/86 (43%), Gaps = 1/86 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
          +G++IR  R   G++ ++L   +  +   + + E K   R  A R+  I++ L    +F 
Sbjct: 4  LGEKIRTLRKRQGLTLDQLALQVSASKSSIWELENKEKARPSADRIDAIAQALGVTSAFL 63

Query: 74 FDVSPTVCSDISSEENNVMDFISTPD 99
           D +    S   ++E     +    +
Sbjct: 64 LDDTQAEPSRKVADEAFFRKYEQLDE 89


>gi|187777958|ref|ZP_02994431.1| hypothetical protein CLOSPO_01550 [Clostridium sporogenes ATCC
          15579]
 gi|187774886|gb|EDU38688.1| hypothetical protein CLOSPO_01550 [Clostridium sporogenes ATCC
          15579]
          Length = 64

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 22/58 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI+  R  LG  QE L   + +T Q +   E             ++  LE+ +   F
Sbjct: 3  NRIKEFRKRLGYRQEDLAIKMNVTRQTINAIENNKYNPTLELAMKLARFLETSVEELF 60


>gi|124004789|ref|ZP_01689633.1| conserved hypothetical protein [Microscilla marina ATCC 23134]
 gi|123989912|gb|EAY29441.1| conserved hypothetical protein [Microscilla marina ATCC 23134]
          Length = 123

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          + +G+++R  R +   SQE + E LG++ Q     E   +  +   RL+ I+++LE  ++
Sbjct: 1  MKIGEKVRKLRELRDFSQEYMAEQLGMSQQNYSAIENNQDEDISLKRLKRIAQILEIQMN 60

Query: 72 FFFDVSP 78
                 
Sbjct: 61 DLLSFDE 67


>gi|322805033|emb|CBZ02593.1| putative transcriptional regulatory protein [Clostridium
          botulinum H04402 065]
          Length = 182

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/54 (18%), Positives = 24/54 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +   ++  R    +S  +L E  G++   + + EKG +    + +  I+  L+ 
Sbjct: 7  ISANLKKLRTDRNLSLGQLSELSGVSKVMLSQIEKGESNPTINTIWKIANGLQV 60


>gi|322374109|ref|ZP_08048643.1| putative transcriptional regulator [Streptococcus sp. C150]
 gi|321277075|gb|EFX54146.1| putative transcriptional regulator [Streptococcus sp. C150]
          Length = 69

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 2/66 (3%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS-- 71
          ++  +I+  R    +SQ +L + +G+T Q +   EKG           I+      I   
Sbjct: 4  HMETKIQELRKANKISQAELADEMGVTRQTIISLEKGRYNASLELAFKIARYFGKTIEEV 63

Query: 72 FFFDVS 77
          F F+  
Sbjct: 64 FLFEED 69


>gi|321312988|ref|YP_004205275.1| transcriptional regulator [Bacillus subtilis BSn5]
 gi|320019262|gb|ADV94248.1| transcriptional regulator [Bacillus subtilis BSn5]
          Length = 152

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+ IRL R   G S  +L    G++   + K E+GV+       L+ +S  LE  ++  
Sbjct: 2  IGRIIRLYRKRKGYSINQLAVESGVSKSYLSKIERGVHTNPSVQFLKKVSATLEVELTEL 61

Query: 74 FDVSPTVCSDISSEENN 90
          FD    +   IS  E  
Sbjct: 62 FDAETMMYEKISGGEEE 78


>gi|302672203|ref|YP_003832163.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
 gi|302396676|gb|ADL35581.1| HTH domain-containing protein [Butyrivibrio proteoclasticus B316]
          Length = 209

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/134 (19%), Positives = 54/134 (40%), Gaps = 8/134 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+RI        M+Q++  +  GI    +  + K     G+ ++  I   L+    +
Sbjct: 1   MTIGQRIFYLLEEKHMTQKEFSDRTGIATTTISDWRKKNTNPGSDKIMSICAALDVTPEY 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV--RQKIIELVRSIVSSE 130
                 T  SD     + ++    T +  +L   F   +D+    R  ++E  R I   +
Sbjct: 61  LLSGV-TEDSDRGRNIDYMVIPTGTEE-RELIEIF---NDMNFVDRAHVMEYARKISERK 115

Query: 131 KKY-RTIEEECMVE 143
            +Y  T + + MV+
Sbjct: 116 SRYCETAKAKSMVK 129


>gi|295106952|emb|CBL04495.1| Helix-turn-helix. [Gordonibacter pamelaeae 7-10-1-b]
          Length = 75

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 2/63 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGI--TFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +GK IR  R+  G+SQ  L   +G   +   + + E+G  ++G  +L  I++ L   +  
Sbjct: 12 LGKSIREERLAQGLSQRTLAGMIGQPNSHTYITRVEQGKIKIGLEQLGRIADALGVEVRD 71

Query: 73 FFD 75
            D
Sbjct: 72 LID 74


>gi|295095052|emb|CBK84142.1| Predicted transcriptional regulators [Enterobacter cloacae subsp.
           cloacae NCTC 9394]
          Length = 182

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/118 (16%), Positives = 40/118 (33%), Gaps = 7/118 (5%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +  P+ + + K +   R+  G+S  ++    GI    + + E G        L  +   L
Sbjct: 1   MTQPISV-IAKSLVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVAL 59

Query: 67  ESPISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           + P +   +   P        E   V+   +  + + L            R+ I  L+
Sbjct: 60  DIPFARLLEPQQPVTQVIRRGEGTKVVAGQANYEAILLAAC-----PPGARRDIYLLL 112


>gi|283769302|ref|ZP_06342202.1| DNA-binding protein [Bulleidia extructa W1219]
 gi|283104078|gb|EFC05461.1| DNA-binding protein [Bulleidia extructa W1219]
          Length = 685

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 31/68 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++R  R  LG +Q ++   L I+ +    +E G +    S++Q ++ +   P+    D 
Sbjct: 7  NKLRDLRKSLGYAQGEMASRLDISVKDYMNWENGNSLPAFSQIQKMAILFNIPVELLMDN 66

Query: 77 SPTVCSDI 84
             +  D+
Sbjct: 67 RKEISQDL 74


>gi|262282360|ref|ZP_06060128.1| predicted protein [Streptococcus sp. 2_1_36FAA]
 gi|262261651|gb|EEY80349.1| predicted protein [Streptococcus sp. 2_1_36FAA]
          Length = 96

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GK+++L R   G SQ ++ E LG T Q +  +E     + +  L  +++  +  + 
Sbjct: 4  LGKQLKLLREQKGYSQNQISEYLGTTRQTISNWENDKTIIDSHSLIRLADFYQISLD 60


>gi|260222943|emb|CBA33015.1| hypothetical protein Csp_B16920 [Curvibacter putative symbiont of
          Hydra magnipapillata]
          Length = 100

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 24/56 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
            VG+RI+  R    +SQE L E  GI    + + E G        L  +++ L  
Sbjct: 36 RIVGQRIKGLRQEAELSQEILSERCGIYRTYLSRIESGSANPTLLVLVALADSLGV 91


>gi|260682992|ref|YP_003214277.1| putative phage regulatory protein [Clostridium difficile CD196]
 gi|260686590|ref|YP_003217723.1| putative phage regulatory protein [Clostridium difficile R20291]
 gi|260209155|emb|CBA62369.1| putative phage regulatory protein [Clostridium difficile CD196]
 gi|260212606|emb|CBE03618.1| putative phage regulatory protein [Clostridium difficile R20291]
          Length = 135

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/130 (20%), Positives = 49/130 (37%), Gaps = 19/130 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRI   R    ++Q KL + L   F+ + KYE G  +     L  I++       +  
Sbjct: 7   LGKRIAYLRNSKKLTQRKLMDIL--KFENLGKYETGDRKPNCDILMSIADYFNVTTDWLL 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
                V  + S +E          +       ++ + + ++   I+ L R +   +K   
Sbjct: 65  YGKEKVNVNSSVKE--------DKED------YLHVTNDEM--MILNLYRQLNERDKIKI 108

Query: 135 T-IEEECMVE 143
             I E  + E
Sbjct: 109 EGILELKISE 118


>gi|226947977|ref|YP_002803068.1| cupin domain protein [Clostridium botulinum A2 str. Kyoto]
 gi|226842052|gb|ACO84718.1| cupin domain protein [Clostridium botulinum A2 str. Kyoto]
          Length = 182

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/54 (18%), Positives = 24/54 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +   ++  R    +S  +L E  G++   + + EKG +    + +  I+  L+ 
Sbjct: 7  ISANLKKLRTDRNLSLGQLSELSGVSKVMLSQIEKGESNPTINTIWKIANGLQV 60


>gi|212636884|ref|YP_002313409.1| helix-turn-helix domain-containing protein [Shewanella
          piezotolerans WP3]
 gi|212558368|gb|ACJ30822.1| Helix-turn-helix motif protein [Shewanella piezotolerans WP3]
          Length = 182

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 31/71 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G  ++  R   G+SQ +L +  G+T   +   EK       S L+ +   L   +  
Sbjct: 1  MDIGASLKTVRKEKGLSQRELAKRAGVTNSTISMIEKNSVSPSVSSLKKVLSGLPMSLVE 60

Query: 73 FFDVSPTVCSD 83
          FF +     S+
Sbjct: 61 FFSIEDETVSE 71


>gi|187939539|gb|ACD38687.1| hypothetical helix-turn-helix protein [Pseudomonas aeruginosa]
          Length = 132

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 36/85 (42%), Gaps = 3/85 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R++  R  LGM+Q      L ++      YEKG     A  L   ++     + +  
Sbjct: 22  IGERLKEERERLGMNQTDFAAQLNVSKNSQYNYEKGERSPDALYLSA-ADAFGVDVLYVI 80

Query: 75  DV--SPTVCSDISSEENNVMDFIST 97
                P     +S  E +V+ ++++
Sbjct: 81  TGRRLPAELDALSQSELDVLGYMTS 105


>gi|187777825|ref|ZP_02994298.1| hypothetical protein CLOSPO_01417 [Clostridium sporogenes ATCC
          15579]
 gi|187774753|gb|EDU38555.1| hypothetical protein CLOSPO_01417 [Clostridium sporogenes ATCC
          15579]
          Length = 78

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/54 (18%), Positives = 24/54 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +   ++  R    +S  +L E  G++   + + EKG +    + +  I+  L+ 
Sbjct: 7  ISANLKKLRTDRNLSLGQLSELSGVSKVMLSQIEKGESNPTINTIWKIANGLQV 60


>gi|170756638|ref|YP_001780356.1| hypothetical protein CLD_0038 [Clostridium botulinum B1 str.
          Okra]
 gi|169121850|gb|ACA45686.1| conserved hypothetical protein [Clostridium botulinum B1 str.
          Okra]
          Length = 182

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/54 (18%), Positives = 24/54 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +   ++  R    +S  +L E  G++   + + EKG +    + +  I+  L+ 
Sbjct: 7  ISANLKKLRTDRNLSLGQLSELSGVSKVMLSQIEKGESNPTINTIWKIANGLQV 60


>gi|118592886|ref|ZP_01550274.1| DNA-binding protein, putative [Stappia aggregata IAM 12614]
 gi|118434420|gb|EAV41073.1| DNA-binding protein, putative [Stappia aggregata IAM 12614]
          Length = 191

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 37/94 (39%), Gaps = 6/94 (6%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          N    +    +VG R+R  R   G SQ +L +  G+T   + + E        S L+   
Sbjct: 3  NTLNTDDFSRDVGLRLRAIREAHGYSQRELAKRAGVTNGFISQLEAAKINTSLSALK--- 59

Query: 64 EVLE-SPI--SFFFDVSPTVCSDISSEENNVMDF 94
           VL+  PI  S FF   P     +    + + + 
Sbjct: 60 RVLDGIPIGLSEFFAYEPERQEQVFFGADELTEI 93


>gi|117165275|emb|CAJ88837.1| putative transcriptional regulators [Streptomyces ambofaciens
          ATCC 23877]
          Length = 192

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 29/71 (40%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M      P+PVD  +  R+   R   G S  +L E  G++   + + E+      AS L 
Sbjct: 1  MRDTDDAPDPVDARLAARLAELRAERGWSLGELAERSGVSRSTLSRAERAETSPTASLLN 60

Query: 61 HISEVLESPIS 71
           +  V    +S
Sbjct: 61 RLCAVYGRTMS 71


>gi|331266049|ref|YP_004325679.1| transcriptional repressor, putative [Streptococcus oralis Uo5]
 gi|326682721|emb|CBZ00338.1| transcriptional repressor, putative [Streptococcus oralis Uo5]
          Length = 69

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 24/57 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++L R+   ++Q  L E +G+T Q +   E G         Q I   L   +   F
Sbjct: 6  KLKLARVERDLTQGDLAEAVGVTRQTIGLIEAGKYNPSLFLCQSICRCLGKTLDQLF 62


>gi|284008860|emb|CBA75663.1| transcriptional regulator [Arsenophonus nasoniae]
          Length = 54

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/46 (32%), Positives = 27/46 (58%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV 51
          K    +   +G++I+  R   GM+ ++L   LGI+ QQ+ +YE G+
Sbjct: 2  KRRQEIACLLGRKIKKIRKYNGMTGKELSVNLGISQQQLSRYENGI 47


>gi|254449819|ref|ZP_05063256.1| transcriptional regulator, XRE family [Octadecabacter antarcticus
          238]
 gi|198264225|gb|EDY88495.1| transcriptional regulator, XRE family [Octadecabacter antarcticus
          238]
          Length = 130

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 36/78 (46%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N  +   G R+   R   G+  + L E LG+  + V+ +E+  +   A+R+Q ++ +L  
Sbjct: 13 NEANATFGDRLAAARQAKGLDVDGLSEKLGVDVETVKVWERDADMPHANRIQMLAGLLNV 72

Query: 69 PISFFFDVSPTVCSDISS 86
           + +         S+++ 
Sbjct: 73 SMVWLVSGEGNGTSEVAD 90


>gi|154504728|ref|ZP_02041466.1| hypothetical protein RUMGNA_02235 [Ruminococcus gnavus ATCC
          29149]
 gi|153794902|gb|EDN77322.1| hypothetical protein RUMGNA_02235 [Ruminococcus gnavus ATCC
          29149]
          Length = 117

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 1/64 (1%)

Query: 9  NPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          N +D   +G+R++  R+   M+QE+L E +      +   E G +      L  I  VLE
Sbjct: 5  NELDYTKLGERLKEARIKKHMTQEELSEKIDSATSSISHLENGTHSPSLKTLIKICNVLE 64

Query: 68 SPIS 71
            I 
Sbjct: 65 IGID 68


>gi|330719156|ref|ZP_08313756.1| XRE family transcriptional regulator [Leuconostoc fallax KCTC
          3537]
          Length = 251

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 37/81 (45%), Gaps = 6/81 (7%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++ +R+ L  +Q ++   L +T Q +  +E          L  +S+ L+     
Sbjct: 1  MKLGQKLKQKRIQLNKTQAQMATDLHVTRQTISHWENDDTYPSLDMLVMLSDYLD----- 55

Query: 73 FFDVSPTVCSDISSEENNVMD 93
           F +   +  + +   NN++ 
Sbjct: 56 -FSLDSALKEEGTDMVNNIIQ 75


>gi|326388406|ref|ZP_08210002.1| XRE family transcriptional regulator [Novosphingobium
          nitrogenifigens DSM 19370]
 gi|326207138|gb|EGD57959.1| XRE family transcriptional regulator [Novosphingobium
          nitrogenifigens DSM 19370]
          Length = 485

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G RI+  R  LG++Q+ + E LGI+   V   E+    + A  L  ++   +  +S
Sbjct: 27 LYLGPRIKRLRRELGLTQQAMAEDLGISPSYVALIERNQRPLTADLLLRLARSYKLDMS 85


>gi|309776579|ref|ZP_07671559.1| DNA-binding protein [Erysipelotrichaceae bacterium 3_1_53]
 gi|308915680|gb|EFP61440.1| DNA-binding protein [Erysipelotrichaceae bacterium 3_1_53]
          Length = 189

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/65 (16%), Positives = 35/65 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ N+G+ I+ +R    M+ + + E   ++   + + E+G+  +    L+ +++ L   +
Sbjct: 1  MNKNIGELIKQKRTENKMTLKDISEATELSIGYLSQLERGLTSIAHDTLKKVAKALGVEM 60

Query: 71 SFFFD 75
          ++F +
Sbjct: 61 TYFME 65


>gi|320107125|ref|YP_004182715.1| helix-turn-helix domain-containing protein [Terriglobus saanensis
          SP1PR4]
 gi|319925646|gb|ADV82721.1| helix-turn-helix domain protein [Terriglobus saanensis SP1PR4]
          Length = 112

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 24/51 (47%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            R    ++Q +L E +G+   Q+++YE G ++     ++ ++  L     
Sbjct: 9  RLRKERSLTQPQLAEKIGLHVAQIRRYEAGTSQPTLDVIRSLAVALGVSAD 59


>gi|294013139|ref|YP_003546599.1| Xre-family transcriptional regulator [Sphingobium japonicum
          UT26S]
 gi|292676469|dbj|BAI97987.1| Xre-family transcriptional regulator [Sphingobium japonicum
          UT26S]
          Length = 80

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/60 (18%), Positives = 25/60 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R + G++QE L     +    +   E+G   +    +  ++  L+   +  F
Sbjct: 10 LGDAVRQLRKVRGLTQEDLSGLTELHRNHIGGIERGERNITIKTMLALARALDVQPAELF 69


>gi|291540119|emb|CBL13230.1| Helix-turn-helix [Roseburia intestinalis XB6B4]
          Length = 118

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/73 (19%), Positives = 34/73 (46%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +I +GKR+R  R+ + + + ++ + LG+T +  +K E GV  +   ++  +        +
Sbjct: 16 NIQIGKRLREARLNMNLEKSEIADVLGVTVEHYRKLEAGVTGISVDKVLTLYHKYGIDPT 75

Query: 72 FFFDVSPTVCSDI 84
          +      +   D 
Sbjct: 76 YLITGESSNIKDF 88


>gi|317131912|ref|YP_004091226.1| helix-turn-helix domain protein [Ethanoligenens harbinense
          YUAN-3]
 gi|315469891|gb|ADU26495.1| helix-turn-helix domain protein [Ethanoligenens harbinense
          YUAN-3]
          Length = 73

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 25/57 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RIR  R    ++Q ++   L I       YE G   +    L  I+++ ++ + + 
Sbjct: 3  ERIRNMREDRDLTQTQMASYLNIHQTTYSDYEIGNLNIPIPVLMKIADLFDTSVDYL 59


>gi|317128356|ref|YP_004094638.1| helix-turn-helix domain protein [Bacillus cellulosilyticus DSM
          2522]
 gi|315473304|gb|ADU29907.1| helix-turn-helix domain protein [Bacillus cellulosilyticus DSM
          2522]
          Length = 111

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 27/60 (45%), Gaps = 1/60 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+R++  R   GM+  +L +  G+    +   E+ +        L+ ++ VL   I + 
Sbjct: 2  IGERVKRYRKEAGMTLTELADKAGVAKSYLSALERNIQTNPSIQFLEKVANVLGLSIDYL 61


>gi|283796900|ref|ZP_06346053.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
 gi|291075310|gb|EFE12674.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. M62/1]
          Length = 139

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 29/57 (50%), Gaps = 1/57 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPISFF 73
          R++ +R+   ++Q  L E + +T + +Q YE G  +      ++ ++E L +   + 
Sbjct: 6  RLKEKRVEANLTQAALAEKVSVTARTIQNYELGTRKPTKYDIVKKLAEALNTTPEYL 62


>gi|167767712|ref|ZP_02439765.1| hypothetical protein CLOSS21_02247 [Clostridium sp. SS2/1]
 gi|240145134|ref|ZP_04743735.1| DNA-binding protein [Roseburia intestinalis L1-82]
 gi|317497495|ref|ZP_07955815.1| helix-turn-helix domain-containing protein [Lachnospiraceae
          bacterium 5_1_63FAA]
 gi|167710451|gb|EDS21030.1| hypothetical protein CLOSS21_02247 [Clostridium sp. SS2/1]
 gi|257202808|gb|EEV01093.1| DNA-binding protein [Roseburia intestinalis L1-82]
 gi|291558919|emb|CBL37719.1| Predicted transcriptional regulators [butyrate-producing
          bacterium SSC/2]
 gi|316895281|gb|EFV17443.1| helix-turn-helix domain-containing protein [Lachnospiraceae
          bacterium 5_1_63FAA]
          Length = 252

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/73 (19%), Positives = 32/73 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G  +   R    M+Q+ L + L ++ + V K+E+G +    + L  I++VL   ++    
Sbjct: 10 GHFLAEVRKEKQMTQKDLADKLFVSDKTVSKWERGNSMPNVTLLIPIADVLGITVTELLQ 69

Query: 76 VSPTVCSDISSEE 88
                +   + +
Sbjct: 70 GEKLKENKTLNSD 82


>gi|163867793|ref|YP_001608997.1| hypothetical protein Btr_0553 [Bartonella tribocorum CIP 105476]
 gi|161017444|emb|CAK01002.1| hypothetical prophage protein [Bartonella tribocorum CIP 105476]
          Length = 217

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PIS 71
          +++   I+  R  LG++Q KL E  G T  Q+++ EKG  ++     + ++  L   P +
Sbjct: 1  MHI---IKKLRKDLGLTQVKLAEKAGTTQPQIKRLEKGERKLTKEWAEKLAPHLGVKPFN 57

Query: 72 FFFDVSPTV 80
            F  +  +
Sbjct: 58 LLFPENEEI 66


>gi|118587226|ref|ZP_01544654.1| transcriptional regulator, helix-turn-helix XRE-family
          [Oenococcus oeni ATCC BAA-1163]
 gi|118432368|gb|EAV39106.1| transcriptional regulator, helix-turn-helix XRE-family
          [Oenococcus oeni ATCC BAA-1163]
          Length = 143

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 32/53 (60%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          + +G++++ +R   G+SQ+++ + L +T Q V  +EK       + L+ +S++
Sbjct: 1  MAIGQKLQEQRQRNGLSQQQVAQKLNVTRQTVSSWEKDRTIPDPNSLKKLSKI 53


>gi|119384106|ref|YP_915162.1| hypothetical protein Pden_1365 [Paracoccus denitrificans PD1222]
 gi|119373873|gb|ABL69466.1| transcriptional regulator, XRE family [Paracoccus denitrificans
          PD1222]
          Length = 477

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+R+R+ R  LG++Q ++   LG++   V   E       A  L  ++E+ +  I+
Sbjct: 9  IGQRLRVLRQSLGLTQAQMAAELGVSASYVTLIESDQRPASARFLMRLAEIYDLNIA 65


>gi|330006499|ref|ZP_08305628.1| DNA-binding helix-turn-helix protein [Klebsiella sp. MS 92-3]
 gi|328535829|gb|EGF62263.1| DNA-binding helix-turn-helix protein [Klebsiella sp. MS 92-3]
          Length = 165

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/100 (19%), Positives = 42/100 (42%), Gaps = 18/100 (18%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +++  R+    SQE+L E  G++ + +Q+ E G  R G   L  ++ V E  ++   ++
Sbjct: 10  NQVKQLRLQRAWSQEQLAEMAGLSVRTIQRIENGE-RPGLETLSALAAVFEVTVA---EI 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
                 + +  +   +D               +I++ K R
Sbjct: 66  GGEARREDAPGQEASLDL--------------RIEEAKAR 91


>gi|325970790|ref|YP_004246981.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
 gi|324026028|gb|ADY12787.1| helix-turn-helix domain protein [Spirochaeta sp. Buddy]
          Length = 91

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 25/59 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ I+  R+   M+QE+L E   ++  Q+   E G        +Q I   L      F
Sbjct: 6  IGQAIKALRLAQNMTQEELIERADLSRSQLYYIESGKRTPRLPTMQSICSALSVSFLEF 64


>gi|323345085|ref|ZP_08085309.1| transcriptional regulator [Prevotella oralis ATCC 33269]
 gi|323094355|gb|EFZ36932.1| transcriptional regulator [Prevotella oralis ATCC 33269]
          Length = 85

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 32/75 (42%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          +   K I   V +  G+ +R  R  + +SQE+L    G+    +   E+    V    ++
Sbjct: 11 IADVKYIKQDVLVRFGQIVRRYREDMNISQEELAFRAGLHRTYIGMIERAEKNVTLCNIK 70

Query: 61 HISEVLESPISFFFD 75
           I++ L   I   FD
Sbjct: 71 KIADALGIDIKDLFD 85


>gi|307298381|ref|ZP_07578185.1| transcriptional regulator, XRE family [Thermotogales bacterium
          mesG1.Ag.4.2]
 gi|306916467|gb|EFN46850.1| transcriptional regulator, XRE family [Thermotogales bacterium
          mesG1.Ag.4.2]
          Length = 135

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           V  ++   R   G+SQ++LGE LG     V   E+G   +    L  IS  L+
Sbjct: 34 QVASQLMSYRKERGLSQKQLGELLGFKQPYVSNIERGEENLSLETLVKISACLK 87


>gi|300919981|ref|ZP_07136440.1| peptidase S24-like domain protein [Escherichia coli MS 115-1]
 gi|300412928|gb|EFJ96238.1| peptidase S24-like domain protein [Escherichia coli MS 115-1]
          Length = 235

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 33/77 (42%), Gaps = 1/77 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+       G+SQ +L + +GI+   +QK   G    G+ ++  ++  L+    +    
Sbjct: 6  ERLNAAMSSAGVSQSQLADMVGISQPAIQKMSSGKTN-GSRKMVELANALKVRPEWLSSG 64

Query: 77 SPTVCSDISSEENNVMD 93
             +      E +NV +
Sbjct: 65 IGEMRDGAHEEPSNVRE 81


>gi|298292838|ref|YP_003694777.1| XRE family transcriptional regulator [Starkeya novella DSM 506]
 gi|296929349|gb|ADH90158.1| transcriptional regulator, XRE family [Starkeya novella DSM 506]
          Length = 91

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 23/57 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VG+ +   R    ++QE+L    G + Q +   E+G+       L  I+  L   
Sbjct: 5  KLVGRNLARLRQAQKLTQEELAMRSGFSQQYLSDMERGLKNPTIITLYEIALALRVS 61


>gi|294789944|ref|ZP_06755165.1| toxin-antitoxin system, antitoxin component, Xre family
          [Simonsiella muelleri ATCC 29453]
 gi|294482125|gb|EFG29831.1| toxin-antitoxin system, antitoxin component, Xre family
          [Simonsiella muelleri ATCC 29453]
          Length = 58

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 27/55 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          IN+G+ ++  R    M+QE LG  LG+T   V   EKG        +  I+++  
Sbjct: 2  INLGEWVKEARTSAKMTQESLGFELGMTKANVSNMEKGRTNPSFEHILKIAQITN 56


>gi|256783997|ref|ZP_05522428.1| hypothetical protein SlivT_05883 [Streptomyces lividans TK24]
 gi|289767878|ref|ZP_06527256.1| DNA-binding protein [Streptomyces lividans TK24]
 gi|289698077|gb|EFD65506.1| DNA-binding protein [Streptomyces lividans TK24]
          Length = 272

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 26/59 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          D  VG  +R  R    +SQ +L      + + +   E G +R     +  ++E L+ P+
Sbjct: 13 DRGVGPMLRAWRERRRVSQLELALRADSSARHISFVETGRSRPSEEMVLRLAEHLDVPV 71


>gi|229115222|ref|ZP_04244632.1| Transcriptional regulator, Xre [Bacillus cereus Rock1-3]
 gi|228668362|gb|EEL23794.1| Transcriptional regulator, Xre [Bacillus cereus Rock1-3]
          Length = 404

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 28/70 (40%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R    ++Q  L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGAKIKTLRKEKKLTQTDLAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EDDDVETIEL 72


>gi|255102943|ref|ZP_05331920.1| transcriptional regulator, xre family protein [Clostridium
           difficile QCD-63q42]
 gi|255652399|ref|ZP_05399301.1| transcriptional regulator, xre family protein [Clostridium
           difficile QCD-37x79]
          Length = 117

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 29/117 (24%), Positives = 54/117 (46%), Gaps = 19/117 (16%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RIR  R+  G+SQ + G  LG+T  ++   E G  R+  S L+ I+   +    +     
Sbjct: 4   RIRDLRIAEGLSQIEFGNKLGMTRHEIYNLESGRTRIKESDLKLITSTFKVNEKWL---- 59

Query: 78  PTVCSDISSEENNVMDFISTPDGL-------QLNRY---FIQIDDVKVR--QKIIEL 122
            T   D+ +  NN    + T + L       +L +    F +++D ++   +K++EL
Sbjct: 60  KTGEGDMYTFSNN---NLITAEVLCAIDKNERLAKAMLKFSKLNDKELEAMEKLLEL 113


>gi|210617288|ref|ZP_03291514.1| hypothetical protein CLONEX_03736 [Clostridium nexile DSM 1787]
 gi|210149392|gb|EEA80401.1| hypothetical protein CLONEX_03736 [Clostridium nexile DSM 1787]
          Length = 78

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 33/70 (47%), Gaps = 5/70 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D+++GK I+  R    ++Q+++   L      I+     K E     +  S L  ++++ 
Sbjct: 7  DMDIGKNIQSLRYKNNLTQDQVIAKLNLMGIVISKSTYAKLETNRMNIKVSELVALAKIF 66

Query: 67 ESPISFFFDV 76
           + I+ FFD 
Sbjct: 67 HTDINAFFDG 76


>gi|254462059|ref|ZP_05075475.1| transcriptional regulator, XRE family [Rhodobacterales bacterium
           HTCC2083]
 gi|206678648|gb|EDZ43135.1| transcriptional regulator, XRE family [Rhodobacteraceae bacterium
           HTCC2083]
          Length = 145

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 35/86 (40%), Gaps = 4/86 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
           G R+   R    MSQ  +   LGI    ++ +E+ ++   A+ L  ++ VL   + +   
Sbjct: 31  GDRLAAAREYAQMSQALMARRLGIRASTLRSWEQDLSEPRANHLSIMAGVLNVSMVWLMN 90

Query: 75  ---DVSPTVCSDISSEENNVMDFIST 97
              +      +D +  + +V   +  
Sbjct: 91  GEGEGLDAPNADAAETDADVATILRD 116


>gi|162453255|ref|YP_001615622.1| DNA-binding protein [Sorangium cellulosum 'So ce 56']
 gi|161163837|emb|CAN95142.1| DNA-binding protein [Sorangium cellulosum 'So ce 56']
          Length = 186

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 21/54 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          K I+  R   G++Q++L +  G+        E G        L   +  L+  I
Sbjct: 13 KNIKQLREARGLTQQQLAKLAGVPRATWAHLESGAANPTLGVLHRAAAALQVSI 66


>gi|163814538|ref|ZP_02205927.1| hypothetical protein COPEUT_00689 [Coprococcus eutactus ATCC 27759]
 gi|158450173|gb|EDP27168.1| hypothetical protein COPEUT_00689 [Coprococcus eutactus ATCC 27759]
          Length = 293

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 24/110 (21%), Positives = 46/110 (41%), Gaps = 15/110 (13%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + V ++I  R   L MSQ +L    GI+   +  ++K      A +L  I + L+  ++ 
Sbjct: 7   VKVYEKIFARLDELNMSQSELSRRTGISTSTINDWKKKKINPQADKLVAICKALDMSLAD 66

Query: 73  FF--DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII 120
               D + +  +D S+EE              L   + +  D  VR+ ++
Sbjct: 67  LLGEDGAESSGTDYSAEEKY------------LVECYRR-SDNYVRRHML 103


>gi|104303743|gb|ABF72139.1| HTH domain protein [Arcanobacterium pyogenes]
          Length = 49

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/41 (43%), Positives = 27/41 (65%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN 52
          +I  GK+IR  R  LGM+QE+L   L +T Q +  +E+GV+
Sbjct: 7  NITTGKQIRHLRTQLGMTQEELAGELNVTRQALSNWERGVS 47


>gi|328477982|gb|EGF47897.1| transcriptional regulator [Lactobacillus rhamnosus MTCC 5462]
          Length = 70

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 23/68 (33%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI   R    ++Q+ L + L ++ Q V   E G           +S V   PI   F  
Sbjct: 3  NRIETLRNQHHLTQQDLADRLEVSRQTVSSLENGRYNPSLGLAFKLSHVFNLPIERIFID 62

Query: 77 SPTVCSDI 84
                 +
Sbjct: 63 ENADSQSL 70


>gi|297158498|gb|ADI08210.1| DNA-binding protein [Streptomyces bingchenggensis BCW-1]
          Length = 159

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/84 (16%), Positives = 36/84 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ +R +R    +S  +L +  G++   + + E+G+ +  A  LQ +++ L       +
Sbjct: 9  LGEFLREQRRSAQLSLRQLADAAGVSNPYLSQIERGLRKPSAEILQQLAKALRISAETLY 68

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
            +  +      E       ++ P
Sbjct: 69 VQAGILDERERDETETRSVILADP 92


>gi|296284711|ref|ZP_06862709.1| DNA-binding protein [Citromicrobium bathyomarinum JL354]
          Length = 81

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 1/59 (1%)

Query: 17 KRIRLRRMIL-GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R     MSQ  LGE +G+T   +   E+G           I+ +    +   F
Sbjct: 9  NRVRELREEHDKMSQAALGEAVGVTRHTIIAIEQGRYSPSLETAFRIARLFGVGVEDVF 67


>gi|291530670|emb|CBK96255.1| Helix-turn-helix [Eubacterium siraeum 70/3]
          Length = 121

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 2/83 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R+   MSQ +L E   I+   + + E G  ++  S   +I+E L+       
Sbjct: 12 IGARIRDVRLQRNMSQAELAEKAFISVPHMSEVENGKTKLRLSTFVYITEALQVSADVLL 71

Query: 75 DVSPTVCSDISSEENNVMDFIST 97
            +    + I   E N  D ++ 
Sbjct: 72 RTNTPEVNGIYQGEFN--DLLAD 92


>gi|255034983|ref|YP_003085604.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
           18053]
 gi|254947739|gb|ACT92439.1| transcriptional regulator, XRE family [Dyadobacter fermentans DSM
           18053]
          Length = 126

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/125 (20%), Positives = 51/125 (40%), Gaps = 10/125 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGIT-FQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG+RI+  R + G +Q KL + L  +    +  +E G N    + L+ ++E+  + ++  
Sbjct: 4   VGERIKKYRELAGWNQHKLAKALKKSGKAVISNWETGRNDPSLAELRLMAELFGTTVAQL 63

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
               P        E       I   D + L R  + ++      +I  L   +  ++K  
Sbjct: 64  VGEVPMF-----EEPREHYIMIKKDDLIDLQRKALALEAD----RINALKEQLEQAQKAD 114

Query: 134 RTIEE 138
            + EE
Sbjct: 115 ESSEE 119


>gi|218896717|ref|YP_002445128.1| DNA-binding protein [Bacillus cereus G9842]
 gi|218542568|gb|ACK94962.1| DNA-binding protein [Bacillus cereus G9842]
          Length = 404

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 28/70 (40%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R    ++Q  L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 4  LGAKIKTLRKEKKLTQTDLAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EDDDVEKIEL 72


>gi|91789185|ref|YP_550137.1| transcriptional regulator [Polaromonas sp. JS666]
 gi|91698410|gb|ABE45239.1| transcriptional regulator, XRE family with cupin sensor domain
           [Polaromonas sp. JS666]
          Length = 201

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/93 (21%), Positives = 38/93 (40%), Gaps = 7/93 (7%)

Query: 7   IPNPVDINV------GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
            P P D  V      G R+R  R++ G++  ++ +    +   + K E G      + L 
Sbjct: 12  APTPEDAAVKPPSMLGVRLRHARLVAGLTMTQVAQKSQCSESLISKIESGQASPSLAMLH 71

Query: 61  HISEVLESPISFF-FDVSPTVCSDISSEENNVM 92
            I+  L++ I+    + +P       S E  V+
Sbjct: 72  RIAVTLDTNIAALTTEEAPREGPIRLSGERPVI 104


>gi|38703909|ref|NP_309096.2| regulatory protein [Escherichia coli O157:H7 str. Sakai]
 gi|195935171|ref|ZP_03080553.1| putative regulatory protein [Escherichia coli O157:H7 str. EC4024]
 gi|260854273|ref|YP_003228164.1| putative phage repressor protein [Escherichia coli O26:H11 str.
           11368]
 gi|261225700|ref|ZP_05939981.1| putative regulatory protein [Escherichia coli O157:H7 str.
           FRIK2000]
 gi|261254659|ref|ZP_05947192.1| putative phage repressor protein [Escherichia coli O157:H7 str.
           FRIK966]
 gi|257752922|dbj|BAI24424.1| predicted phage repressor protein [Escherichia coli O26:H11 str.
           11368]
          Length = 133

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/105 (24%), Positives = 44/105 (41%), Gaps = 5/105 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI       G SQ +L   +G+T Q VQ++  G     AS L  + EV   P+ +F  + 
Sbjct: 11  RISKLLQETGWSQAELARRIGVTQQTVQQWVSGKATPKASSLDKLVEVSGHPLHWFL-LP 69

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           P  C  I + +   +     P   +L + F    +    + + E+
Sbjct: 70  PEECEQIFTPDTMKIG----PRQRELLQAFSAFPEEDQEKMLQEI 110


>gi|73490241|dbj|BAE19798.1| hypothetical protein [Pseudomonas fluorescens]
          Length = 198

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 24/111 (21%), Positives = 50/111 (45%), Gaps = 9/111 (8%)

Query: 1   MVGNKKIPNPVD---INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGAS 57
           M  ++   +P +   ++VG+R++  R + G+SQ +L +  G+T   +   EK       S
Sbjct: 2   MAASRPESDPQEAPALDVGERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSIS 61

Query: 58  RLQHISEVLESPISF--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            L+ +      P+S   FF  ++     + I  + N ++D       ++L 
Sbjct: 62  SLRKVLS--GIPMSMVEFFSEEILQENPTQIVYKANELIDISDGAVTMKLV 110


>gi|307710856|ref|ZP_07647283.1| hypothetical protein SMSK321_1212 [Streptococcus mitis SK321]
 gi|307617301|gb|EFN96474.1| hypothetical protein SMSK321_1212 [Streptococcus mitis SK321]
          Length = 303

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVP 58


>gi|299782826|gb|ADJ40824.1| Hypothetical phage protein [Lactobacillus fermentum CECT 5716]
          Length = 357

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 31/67 (46%), Gaps = 5/67 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECL-----GITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D+++  RI   R   G+S  KL + L      ++   + KYE+GV        + ++E  
Sbjct: 14 DLDMKNRITELREEKGLSMRKLSKSLKEKGLSLSTDSLSKYERGVRNPKIENWEKLAEFF 73

Query: 67 ESPISFF 73
          + P+ + 
Sbjct: 74 KVPVDYL 80


>gi|288803985|ref|ZP_06409407.1| DNA-binding protein [Prevotella melaninogenica D18]
 gi|288333555|gb|EFC72008.1| DNA-binding protein [Prevotella melaninogenica D18]
          Length = 184

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 36/71 (50%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+R++  R  L +S E++ E  G+T ++  K E G + +  SRL  +S+     +  
Sbjct: 6  KLIGERLKGLRESLDISVEEMAETCGVTDEKYLKMEAGESDLSVSRLYKLSQKYGIALDA 65

Query: 73 F-FDVSPTVCS 82
            F   P +CS
Sbjct: 66 LMFGEEPHMCS 76


>gi|284162519|ref|YP_003401142.1| XRE family transcriptional regulator [Archaeoglobus profundus DSM
           5631]
 gi|284012516|gb|ADB58469.1| transcriptional regulator, XRE family [Archaeoglobus profundus DSM
           5631]
          Length = 309

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 1/55 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           G+++R  R  LG+S  +L   LG++ + V+KYE+ V+         + EVL   I
Sbjct: 128 GEKLREMRERLGLSIGELANILGVSRRTVKKYEEDVD-ASIETALKLEEVLGVEI 181


>gi|253578952|ref|ZP_04856223.1| predicted protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849895|gb|EES77854.1| predicted protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 170

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/67 (19%), Positives = 27/67 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R+    +Q +L   +G+T + +  YEKG        +  + ++      +   +
Sbjct: 5  SRIKDLRIENNYTQRELAAKIGLTPKMISFYEKGERVPPLDIIVKLVQIFNVSSDYLLGL 64

Query: 77 SPTVCSD 83
          S     D
Sbjct: 65 SDKRYPD 71


>gi|284036657|ref|YP_003386587.1| XRE family transcriptional regulator [Spirosoma linguale DSM 74]
 gi|283815950|gb|ADB37788.1| transcriptional regulator, XRE family [Spirosoma linguale DSM 74]
          Length = 402

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 25/56 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          V   IR  R + G++QE+    + I    +  YE+G        +Q I++   + +
Sbjct: 4  VSDNIRYLRKLNGLTQEQFSRKINIKRSLLGAYEEGRANPNGQNIQAIAKAFNTTV 59


>gi|300767755|ref|ZP_07077665.1| conserved hypothetical protein [Lactobacillus plantarum subsp.
          plantarum ATCC 14917]
 gi|300494740|gb|EFK29898.1| conserved hypothetical protein [Lactobacillus plantarum subsp.
          plantarum ATCC 14917]
          Length = 250

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 6/62 (9%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI------SF 72
          ++ RR   G++Q +L   L +T Q V K+E+G        L  +S++    +      S 
Sbjct: 7  LKTRRCQYGLTQAQLASKLFVTTQAVSKWERGKAIPSIDNLLALSDLYNLSLDELVRGSA 66

Query: 73 FF 74
          FF
Sbjct: 67 FF 68


>gi|225574885|ref|ZP_03783495.1| hypothetical protein RUMHYD_02963 [Blautia hydrogenotrophica DSM
          10507]
 gi|225037908|gb|EEG48154.1| hypothetical protein RUMHYD_02963 [Blautia hydrogenotrophica DSM
          10507]
          Length = 98

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RI+  R    ++Q++L E L I+ +    YE G   +    L  ++    + I + 
Sbjct: 28 QRIQNLREDADLTQKELSEYLHISPRTYSHYENGTRNIPVEMLIRLANYYNTSIDYL 84


>gi|219670446|ref|YP_002460881.1| XRE family transcriptional regulator [Desulfitobacterium
          hafniense DCB-2]
 gi|219540706|gb|ACL22445.1| transcriptional regulator, XRE family [Desulfitobacterium
          hafniense DCB-2]
          Length = 77

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 30/61 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +R  R+  GM+ ++L    G+ ++ + + EKG+ +   +    IS+ L+ P   FF  
Sbjct: 5  NNLREWRLANGMTLKELARRTGLDYRYLSQLEKGLRKGTPNTWIKISKELQVPAKTFFPD 64

Query: 77 S 77
           
Sbjct: 65 E 65


>gi|242279628|ref|YP_002991757.1| XRE family transcriptional regulator [Desulfovibrio salexigens DSM
           2638]
 gi|242122522|gb|ACS80218.1| transcriptional regulator, XRE family [Desulfovibrio salexigens DSM
           2638]
          Length = 294

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/90 (20%), Positives = 39/90 (43%), Gaps = 1/90 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G+R++  R+    S E++   +GI+   + +YEKG +      L+ I+++L   ++ 
Sbjct: 7   KEIGQRLKAFRLGSKYSTEEIAAKIGISRAALYRYEKG-DPPKLETLESIADLLGVSLTS 65

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
              V     S   S    +    +  + L 
Sbjct: 66  LMGVGVEYISSAISFFERMRQNEAESEQLA 95


>gi|193066155|ref|ZP_03047209.1| transcriptional regulator, XRE family [Escherichia coli E22]
 gi|192926167|gb|EDV80807.1| transcriptional regulator, XRE family [Escherichia coli E22]
          Length = 112

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/110 (19%), Positives = 46/110 (41%), Gaps = 11/110 (10%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R  L ++Q+ L + +G+  +    +EK      A +L  +SE+    I +  
Sbjct: 2   IGLRIKEERERLSLTQQGLADAIGVAKRTFIDWEKDRTSPTAVQLSALSEI-GVDILYVV 60

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                           V+    + +  +L   F ++   + R+ I+E+ +
Sbjct: 61  ---------TGVRSQPVVAPYVSQEKKELMDAFDEM-SPEQRRAILEVGK 100


>gi|187934570|ref|YP_001886346.1| hypothetical protein CLL_A2157 [Clostridium botulinum B str.
          Eklund 17B]
 gi|188589133|ref|YP_001921361.1| hypothetical protein CLH_1980 [Clostridium botulinum E3 str.
          Alaska E43]
 gi|251778914|ref|ZP_04821834.1| conserved domain protein [Clostridium botulinum E1 str. 'BoNT E
          Beluga']
 gi|187722723|gb|ACD23944.1| conserved domain protein [Clostridium botulinum B str. Eklund
          17B]
 gi|188499414|gb|ACD52550.1| conserved domain protein [Clostridium botulinum E3 str. Alaska
          E43]
 gi|243083229|gb|EES49119.1| conserved domain protein [Clostridium botulinum E1 str. 'BoNT E
          Beluga']
          Length = 69

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I++ R  L M+Q++L E +GI+ Q +   E+G         + I + L   +   F
Sbjct: 7  IKVARAQLDMTQKQLAEKVGISRQTMNAIEQGDYNPTIKLCRAICKALGKGLDDLF 62


>gi|56963509|ref|YP_175240.1| transcriptional repressor of PBSX genes [Bacillus clausii
          KSM-K16]
 gi|56909752|dbj|BAD64279.1| transcriptional repressor of PBSX genes [Bacillus clausii
          KSM-K16]
          Length = 101

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/84 (15%), Positives = 32/84 (38%), Gaps = 3/84 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R+   ++ ++LG+ L +    +  YE G  +     L  +++       +    
Sbjct: 4  SRLKECRIKKQLTMKELGQALNMAQSTISGYENGTRKPDLDNLARLADYFNVSTDYLVGR 63

Query: 77 SPTVCSDISSEENNVMD---FIST 97
            +  S I   +    D   F++ 
Sbjct: 64 LDSNDSFILHSDQLTSDEKLFLAD 87


>gi|28377772|ref|NP_784664.1| hypothetical protein lp_0949 [Lactobacillus plantarum WCFS1]
 gi|254555954|ref|YP_003062371.1| hypothetical protein JDM1_0787 [Lactobacillus plantarum JDM1]
 gi|308179946|ref|YP_003924074.1| hypothetical protein LPST_C0760 [Lactobacillus plantarum subsp.
          plantarum ST-III]
 gi|28270605|emb|CAD63511.1| unknown [Lactobacillus plantarum WCFS1]
 gi|254044881|gb|ACT61674.1| conserved hypothetical protein [Lactobacillus plantarum JDM1]
 gi|308045437|gb|ADN97980.1| hypothetical protein LPST_C0760 [Lactobacillus plantarum subsp.
          plantarum ST-III]
          Length = 250

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 6/62 (9%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI------SF 72
          ++ RR   G++Q +L   L +T Q V K+E+G        L  +S++    +      S 
Sbjct: 7  LKTRRCQYGLTQAQLASKLFVTTQAVSKWERGKAIPSIDNLLALSDLYNLSLDELVRGSA 66

Query: 73 FF 74
          FF
Sbjct: 67 FF 68


>gi|116672405|ref|YP_833338.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Arthrobacter
          sp. FB24]
 gi|116612514|gb|ABK05238.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Arthrobacter
          sp. FB24]
          Length = 507

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +VG  +R  R   G +Q +L   LG +   + + E+G   +    +Q +  ++   I
Sbjct: 8  HVGLLLRDARGEKGWTQGQLAAELGTSQSAIARMEQGKQNLSLKMIQRLEAIVGRSI 64


>gi|312866087|ref|ZP_07726308.1| transcriptional regulator, AbrB family [Streptococcus downei
          F0415]
 gi|311098491|gb|EFQ56714.1| transcriptional regulator, AbrB family [Streptococcus downei
          F0415]
          Length = 162

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 24/51 (47%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + R + G SQEK+ E + I+ Q   K+E G       +   ++EV    I 
Sbjct: 25 MLRKLKGFSQEKIAEKIAISRQAYGKWESGETIPNIEKCALLAEVYGVTID 75


>gi|239942360|ref|ZP_04694297.1| putative DNA-binding protein [Streptomyces roseosporus NRRL
          15998]
 gi|239988825|ref|ZP_04709489.1| putative DNA-binding protein [Streptomyces roseosporus NRRL
          11379]
          Length = 167

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 31/61 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G+ +R +R    +S  +L +  G++   + + E+G+ +  A  LQ +++ L       
Sbjct: 8  NLGEYLREQRRAAQLSLRQLADATGVSNPYLSQIERGLRKPSADVLQQVAKALRISAETL 67

Query: 74 F 74
          +
Sbjct: 68 Y 68


>gi|227551898|ref|ZP_03981947.1| DNA-binding protein [Enterococcus faecium TX1330]
 gi|257895511|ref|ZP_05675164.1| transcriptional regulator [Enterococcus faecium Com12]
 gi|227178970|gb|EEI59942.1| DNA-binding protein [Enterococcus faecium TX1330]
 gi|257832076|gb|EEV58497.1| transcriptional regulator [Enterococcus faecium Com12]
          Length = 370

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 29/69 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + K +   R   G++QE L E +G+T   V K+E G +      L  ++   +  +    
Sbjct: 6  LSKNVANLRKKKGVTQEILAEFIGVTKASVSKWETGQSMPDVLILPKLASFFDVSVDELL 65

Query: 75 DVSPTVCSD 83
             P +  +
Sbjct: 66 GYHPQLTKE 74


>gi|220929560|ref|YP_002506469.1| XRE family transcriptional regulator [Clostridium cellulolyticum
           H10]
 gi|219999888|gb|ACL76489.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
           H10]
          Length = 206

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           G R++  R I  +SQE LG+ LG+    +  +E          ++ ++E+      + 
Sbjct: 133 GIRLKRLRRIHNISQEDLGKVLGVGRTAIANWETNQTEPTGENIKKLAELFRVTTDYL 190


>gi|28628140|gb|AAO34623.1| unknown [Erwinia chrysanthemi]
          Length = 119

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 34/84 (40%), Gaps = 1/84 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-FD 75
           R+   R    ++Q+ L +   I   Q+++YE G  +     L  +++VL   +    FD
Sbjct: 15 ARLIQLRKAADLTQQALADRASIHVNQIRRYEAGSAQPTLDALIRLAKVLRVSLDGLVFD 74

Query: 76 VSPTVCSDISSEENNVMDFISTPD 99
                SD  + +   +  +   +
Sbjct: 75 DHERGPSDDLALQFEAVSGMPEEE 98


>gi|15800839|ref|NP_286855.1| DicA, regulator of DicB; encoded within cryptic prophage CP-933M
           [Escherichia coli O157:H7 EDL933]
 gi|254792181|ref|YP_003077018.1| DicA-like protein, regulator of DicB [Escherichia coli O157:H7 str.
           TW14359]
 gi|12514168|gb|AAG55466.1|AE005287_13 similar to DicA, regulator of DicB; encoded within cryptic prophage
           CP-933M [Escherichia coli O157:H7 str. EDL933]
 gi|254591581|gb|ACT70942.1| DicA-like protein, regulator of DicB [Escherichia coli O157:H7 str.
           TW14359]
          Length = 132

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/105 (24%), Positives = 44/105 (41%), Gaps = 5/105 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI       G SQ +L   +G+T Q VQ++  G     AS L  + EV   P+ +F  + 
Sbjct: 10  RISKLLQETGWSQAELARRIGVTQQTVQQWVSGKATPKASSLDKLVEVSGHPLHWFL-LP 68

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
           P  C  I + +   +     P   +L + F    +    + + E+
Sbjct: 69  PEECEQIFTPDTMKIG----PRQRELLQAFSAFPEEDQEKMLQEI 109


>gi|301170246|emb|CBW29850.1| hypothetical protein HIB_16640 [Haemophilus influenzae 10810]
          Length = 127

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 30/58 (51%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +IR+ R +  +SQE + E + ++     K E+G  R+   +L  I+++    +S   D
Sbjct: 6  KIRMMRELRQLSQEDMAEKMNMSPSGYAKIERGETRLQYDKLVQIAQIFNMNLSDLVD 63


>gi|261406993|ref|YP_003243234.1| XRE family transcriptional regulator [Paenibacillus sp. Y412MC10]
 gi|261283456|gb|ACX65427.1| transcriptional regulator, XRE family [Paenibacillus sp. Y412MC10]
          Length = 186

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/105 (17%), Positives = 43/105 (40%), Gaps = 8/105 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G  ++  R    MS + L E  G++   +   E+G      + +  IS+ +  P+  
Sbjct: 12  LQMGGALKKYRKEKNMSLDDLAEITGVSKLTLGNIERGETNPTLAIIWKISKGISLPLFA 71

Query: 73  FFDVS-PTVCSDISS-------EENNVMDFISTPDGLQLNRYFIQ 109
            F    P               E+N +++ +   + +++ R ++Q
Sbjct: 72  LFKSENPVSLYRAGEGLRFSNDEKNWIIEPVFKSNDMEMCRAYLQ 116


>gi|229589661|ref|YP_002871780.1| putative regulatory protein [Pseudomonas fluorescens SBW25]
 gi|229361527|emb|CAY48403.1| putative regulatory protein [Pseudomonas fluorescens SBW25]
          Length = 185

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 31/72 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I   R    ++  +L + +  +   + + E+G++R   + L  IS  L+ P ++F+    
Sbjct: 14 IHDLRKHKKLTLAQLAQKIERSVGFLSQVERGLSRPTVADLTAISHALDVPTTYFYSQPK 73

Query: 79 TVCSDISSEENN 90
              D  +  N 
Sbjct: 74 PKAVDWITRPNE 85


>gi|196230222|ref|ZP_03129085.1| transcriptional regulator, XRE family [Chthoniobacter flavus
          Ellin428]
 gi|196225819|gb|EDY20326.1| transcriptional regulator, XRE family [Chthoniobacter flavus
          Ellin428]
          Length = 207

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 33/77 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +  R+R  R   G+S + L    G++   +   E+G +   A  L+ ++  L + +
Sbjct: 16 LNQRIAGRVRELRAAQGLSLDTLANRSGVSRSMISLIERGESSPTAVVLEKLASGLGATL 75

Query: 71 SFFFDVSPTVCSDISSE 87
             FD      S  +S 
Sbjct: 76 PSLFDGLSAKASGPTSP 92


>gi|187919965|ref|YP_001888996.1| XRE family transcriptional regulator [Burkholderia phytofirmans
          PsJN]
 gi|187718403|gb|ACD19626.1| transcriptional regulator, XRE family [Burkholderia phytofirmans
          PsJN]
          Length = 190

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 27/63 (42%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +D  + +R+R  R     S ++L +  G++   + + E       A+ L  +      
Sbjct: 9  NAIDRRIAQRLRALRAERNWSLDELAKLSGVSRATLSRLENAAVSPTANVLGKLCVAYGL 68

Query: 69 PIS 71
          P+S
Sbjct: 69 PMS 71


>gi|21224841|ref|NP_630620.1| hypothetical protein SCO6539 [Streptomyces coelicolor A3(2)]
 gi|3560014|emb|CAA20636.1| conserved hypothetical protein SC5C7.24c [Streptomyces coelicolor
          A3(2)]
          Length = 272

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 26/59 (44%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          D  VG  +R  R    +SQ +L      + + +   E G +R     +  ++E L+ P+
Sbjct: 13 DRGVGPMLRAWRERRRVSQLELALRADSSARHISFVETGRSRPSEEMVLRLAEHLDVPV 71


>gi|322411714|gb|EFY02622.1| phage repressor-like protein [Streptococcus dysgalactiae subsp.
          dysgalactiae ATCC 27957]
          Length = 230

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 27/58 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G +++  R+   ++QE+LG+ L +    +  +EKG N       + +  +      +F
Sbjct: 4  GDQLKTARLAKQLNQEELGQLLNVNKMTISNWEKGKNIPNQKHFEQLLSLFGLTADYF 61


>gi|312976864|ref|ZP_07788613.1| putative transcriptional repressor [Lactobacillus crispatus
          CTV-05]
 gi|310896192|gb|EFQ45257.1| putative transcriptional repressor [Lactobacillus crispatus
          CTV-05]
          Length = 63

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 25/56 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++  R+   ++QE L + + ++ Q +   EKG      +    I + L+  +   F
Sbjct: 1  MKAARVGKDLTQEDLAQQIDVSRQTISAIEKGNYNPSVNLCIRICQALDKTLDDLF 56


>gi|295108110|emb|CBL22063.1| Predicted transcriptional regulators [Ruminococcus obeum A2-162]
          Length = 118

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 32/59 (54%), Gaps = 2/59 (3%)

Query: 10 PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          P+D    +G+++R  R    ++Q++L +   ++ +Q+   EKG        L+ +++VL
Sbjct: 2  PIDDLTALGQKMREARKKKDLTQQELADLNHVSVKQIASIEKGQINPSYLILKALAKVL 60


>gi|295105402|emb|CBL02946.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii SL3/3]
          Length = 66

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/59 (16%), Positives = 26/59 (44%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R+  G +Q +L   +G+T + V  +E          L  +++  +    + 
Sbjct: 4  ISERLQHLRLTHGYTQTELARTMGVTRRAVYAWEHDKC-PEIPHLIQLAQFYQVSTDYL 61


>gi|269956896|ref|YP_003326685.1| XRE family transcriptional regulator [Xylanimonas cellulosilytica
           DSM 15894]
 gi|269305577|gb|ACZ31127.1| transcriptional regulator, XRE family [Xylanimonas cellulosilytica
           DSM 15894]
          Length = 252

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/90 (21%), Positives = 35/90 (38%), Gaps = 1/90 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++ +RI   R   G+S  +L   + +    V + E G         Q I  VL  PI F
Sbjct: 1   MDLAERISTLRRANGLSARQLAALVDVAPTTVTRIEAGSVSPSFDLAQEIMRVLGEPIGF 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
                P   +      +  +   +T +G++
Sbjct: 61  TGGADPDAIAAGRLSLDPTLQLEAT-EGVR 89


>gi|226314526|ref|YP_002774422.1| DNA-binding protein [Brevibacillus brevis NBRC 100599]
 gi|226097476|dbj|BAH45918.1| putative DNA-binding protein [Brevibacillus brevis NBRC 100599]
          Length = 189

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 32/69 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R+    + +++ E   ++   + + E+G + +    L+ ISE L     +FF
Sbjct: 5  IGVLIKSLRVGKKKTLKQIAEKTQLSISFLSQVERGKSSITLESLKKISEALGVSPGYFF 64

Query: 75 DVSPTVCSD 83
              +  ++
Sbjct: 65 SGESSGGNE 73


>gi|199597846|ref|ZP_03211272.1| transcriptional regulator, PbsX family protein [Lactobacillus
          rhamnosus HN001]
 gi|258509577|ref|YP_003172328.1| transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|199591282|gb|EDY99362.1| transcriptional regulator, PbsX family protein [Lactobacillus
          rhamnosus HN001]
 gi|257149504|emb|CAR88477.1| Transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|259650844|dbj|BAI43006.1| transcriptional regulator [Lactobacillus rhamnosus GG]
          Length = 70

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 22/65 (33%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI   R    ++Q+ L + L ++ Q V   E G           +S V   PI   F  
Sbjct: 3  NRIEALRNQHHLTQQDLADRLEVSRQTVSSLENGRYNPSLGLAFKLSHVFNLPIERIFID 62

Query: 77 SPTVC 81
               
Sbjct: 63 ESADS 67


>gi|307154678|ref|YP_003890062.1| XRE family transcriptional regulator [Cyanothece sp. PCC 7822]
 gi|306984906|gb|ADN16787.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 7822]
          Length = 83

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/52 (34%), Positives = 30/52 (57%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +GK IR  R+ LGM+QE+    LG+ +  V ++E G  +     L+ I ++L
Sbjct: 14 IGKLIRSIRLELGMTQEQFAAYLGVVYPTVNRWENGHTQPSLMALRLIEKLL 65


>gi|154483750|ref|ZP_02026198.1| hypothetical protein EUBVEN_01454 [Eubacterium ventriosum ATCC
          27560]
 gi|149735241|gb|EDM51127.1| hypothetical protein EUBVEN_01454 [Eubacterium ventriosum ATCC
          27560]
          Length = 187

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 33/60 (55%), Gaps = 4/60 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI+  R  +GM+Q++LGE LG     +  ++ +YE          ++ +S++ + 
Sbjct: 14 MAIGQRIKYFRNRIGMTQKQLGEQLGFKGKTSDVRMAQYESEARVPKIDLVKQMSQIFDI 73


>gi|10956712|ref|NP_061657.1| transcriptional regulator [Xylella fastidiosa 9a5c]
 gi|9112239|gb|AAF85570.1|AE003851_1 transcriptional regulator [Xylella fastidiosa 9a5c]
          Length = 86

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 26/55 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+  R  R +  +SQ ++ E  G+T   +   E G + +    +  +++ +  P+
Sbjct: 24 GRNFRNARNMAKLSQREIAEKTGLTQNWISMVENGRSTISIDNMAKLAKCVNVPL 78


>gi|238786954|ref|ZP_04630754.1| Transcriptional regulator, XRE family [Yersinia frederiksenii ATCC
           33641]
 gi|238724742|gb|EEQ16382.1| Transcriptional regulator, XRE family [Yersinia frederiksenii ATCC
           33641]
          Length = 122

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 12/98 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  R   G SQE +    G++ +   KYE+G     A+ L  ++      + +  
Sbjct: 12  IGARLREEREKTGESQEAMATNFGVSTRTWGKYERGETVPDAATLALLNAQYGLDVMYIL 71

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
               T    IS+EE            L+L   +  +DD
Sbjct: 72  TGKRTPPDTISTEE------------LKLVENYRAMDD 97


>gi|114564176|ref|YP_751690.1| XRE family transcriptional regulator [Shewanella frigidimarina
          NCIMB 400]
 gi|114335469|gb|ABI72851.1| transcriptional regulator, XRE family with cupin sensor
          [Shewanella frigidimarina NCIMB 400]
          Length = 182

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 6/74 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
          +++G  ++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1  MDIGTSLKAVRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSVSSLK---KVLAGIPMS 57

Query: 72 --FFFDVSPTVCSD 83
             FF +      D
Sbjct: 58 LVDFFSIDDGSIGD 71


>gi|332523455|ref|ZP_08399707.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
           Jelinkova 176]
 gi|332314719|gb|EGJ27704.1| DNA-binding helix-turn-helix protein [Streptococcus porcinus str.
           Jelinkova 176]
          Length = 359

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/119 (21%), Positives = 53/119 (44%), Gaps = 14/119 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I L R  LGM+QEKL + L +T   + K+E    +     L  ++++ +  +    
Sbjct: 2   IGDTIFLERTRLGMTQEKLSDYLHLTKATISKWENNQAKPDIDYLILLAKLFDMTLDDLV 61

Query: 75  DVSPTVCSDISSE----------ENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
               T+     +E          +   ++F    +  +L++++  I+D K    +++LV
Sbjct: 62  GFQKTLTDFERTELFNQLKEKINQTEELEFFQEIE--ELSKHY--INDFKTLLMLVQLV 116


>gi|330717978|ref|ZP_08312578.1| XRE family transcriptional regulator [Leuconostoc fallax KCTC
          3537]
          Length = 86

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 27/57 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +   I+  R+ LG  +  + E L I+   + KYE G        +  +SEVL + ++
Sbjct: 25 IANNIKQIRLKLGYKRVDVAEQLNISVSTIAKYETGSRIPDIDTIIQLSEVLHTNVN 81


>gi|319654646|ref|ZP_08008727.1| hypothetical protein HMPREF1013_05349 [Bacillus sp. 2_A_57_CT2]
 gi|317393712|gb|EFV74469.1| hypothetical protein HMPREF1013_05349 [Bacillus sp. 2_A_57_CT2]
          Length = 113

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 33/84 (39%), Gaps = 4/84 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R++  R     +QE +   L ++      YE    +     L+ +SE+ +  I +  
Sbjct: 2  LGDRLKKLRNDHNWTQEDVARKLELSRGTYAHYEINKRQPDYDTLKKLSEIFDVSIDYLI 61

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
            +       SSE+    +F+   
Sbjct: 62 TGNKYS----SSEDEMWKEFLDPK 81


>gi|313205676|ref|YP_004044853.1| helix-turn-helix domain protein [Riemerella anatipestifer DSM
          15868]
 gi|312444992|gb|ADQ81347.1| helix-turn-helix domain protein [Riemerella anatipestifer DSM
          15868]
          Length = 104

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/69 (14%), Positives = 28/69 (40%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++      G++ ++L + +G++   +     G N      L  I+  L   I   F+ +
Sbjct: 8  KLKEVLKDKGVTGKELADGIGVSVTTISNIIVGRNFPKPQTLLDIATFLNVDIKDLFNST 67

Query: 78 PTVCSDISS 86
              ++ + 
Sbjct: 68 KDTNNNETP 76


>gi|312794245|ref|YP_004027168.1| helix-turn-helix domain-containing protein [Caldicellulosiruptor
           kristjanssonii 177R1B]
 gi|312181385|gb|ADQ41555.1| helix-turn-helix domain protein [Caldicellulosiruptor
           kristjanssonii 177R1B]
          Length = 129

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/84 (21%), Positives = 35/84 (41%), Gaps = 2/84 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+R++  R + G+S  KL +   +    +   E G        L+ I   L   ++ FF
Sbjct: 19  VGRRVKELRELRGLSMTKLSKIARVGQSTLSYIESGRQSPTVDVLERICSALGITLAEFF 78

Query: 75  DVSPTVCSDISSEENNVMDFISTP 98
             SP +  D+       ++  ++ 
Sbjct: 79  --SPVIKDDLRDPLIQQLEVYASK 100


>gi|295101707|emb|CBK99252.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii L2-6]
          Length = 280

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/65 (16%), Positives = 29/65 (44%), Gaps = 1/65 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESP 69
          V + +G+R++  R    ++ E+L   +GI+   + KYE    + +    +  +++     
Sbjct: 3  VKLTIGERLKDLRTAQKLTLEQLAAEVGISKSALGKYESDNGKDISPYSILVLADYYGVS 62

Query: 70 ISFFF 74
            +  
Sbjct: 63 CDYLM 67


>gi|293399898|ref|ZP_06644044.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291306298|gb|EFE47541.1| DNA-binding protein [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 135

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/79 (15%), Positives = 32/79 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R+  G++QE + E + +T Q +  +E   +      +  +S +    +  
Sbjct: 1  MKIGVKLKEARLQAGLTQENVAEEIQVTRQTISNWETEKSFPDIVSVIKLSTLYNISLDK 60

Query: 73 FFDVSPTVCSDISSEENNV 91
                 +   +    N V
Sbjct: 61 LLKGDEEMIEHLEKSTNIV 79


>gi|317050695|ref|YP_004111811.1| helix-turn-helix domain-containing protein [Desulfurispirillum
          indicum S5]
 gi|316945779|gb|ADU65255.1| helix-turn-helix domain protein [Desulfurispirillum indicum S5]
          Length = 224

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 31/61 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R  R +LG++Q +    +G +   V + E+G    G   L+ I E L + I++    
Sbjct: 4  QRLRELRKMLGLTQGEFAFHVGTSPGYVSEAEQGKKVPGGEILRRICEKLNANINWLLTG 63

Query: 77 S 77
          S
Sbjct: 64 S 64


>gi|257486736|ref|ZP_05640777.1| Fis family transcriptional regulator [Pseudomonas syringae pv.
           tabaci ATCC 11528]
 gi|331010206|gb|EGH90262.1| Fis family transcriptional regulator [Pseudomonas syringae pv.
           tabaci ATCC 11528]
          Length = 156

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 38/90 (42%), Gaps = 4/90 (4%)

Query: 19  IRLRRMILGMSQEKLGECLG-ITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFFFDV 76
           ++L R+  G+SQE LG+  G ++   V K E G + V       ++  L+  PI+     
Sbjct: 11  LQLLRIRKGLSQENLGDIEGSVSQPYVSKLELGKSAVSLDTSYQLAAALKVEPITLL--A 68

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                 D  +    ++  +   D L+L   
Sbjct: 69  LAVASYDQKTPREMLLAALEELDALELADA 98


>gi|256377557|ref|YP_003101217.1| XRE family transcriptional regulator [Actinosynnema mirum DSM
          43827]
 gi|255921860|gb|ACU37371.1| transcriptional regulator, XRE family [Actinosynnema mirum DSM
          43827]
          Length = 737

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLE 67
          +G  +R  R   G++QE+L    GI+ + + + E G +  V    L+ +++ L 
Sbjct: 5  LGPSLRRARRSAGLTQEQLSAASGISVRTISRLENGADENVRLDTLRLLADALG 58


>gi|302345905|ref|YP_003814258.1| cupin domain protein [Prevotella melaninogenica ATCC 25845]
 gi|302149627|gb|ADK95889.1| cupin domain protein [Prevotella melaninogenica ATCC 25845]
          Length = 184

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 36/71 (50%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+R++  R  L +S E++ E  G+T ++  K E G + +  SRL  +S+     +  
Sbjct: 6  KLIGERLKGLRESLDISVEEMAETCGVTDEKYLKMEAGESDLSVSRLYKLSQKYGIALDA 65

Query: 73 F-FDVSPTVCS 82
            F   P +CS
Sbjct: 66 LMFGEEPHMCS 76


>gi|258650681|ref|YP_003199837.1| XRE family transcriptional regulator [Nakamurella multipartita
          DSM 44233]
 gi|258553906|gb|ACV76848.1| transcriptional regulator, XRE family [Nakamurella multipartita
          DSM 44233]
          Length = 197

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/65 (16%), Positives = 22/65 (33%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG R++  R    ++   L    GI+   + + E G  +     L  ++     P+   
Sbjct: 14 QVGPRLKRLRTQRQVTLTALAAATGISKSTLSRLETGQRKASLELLLPLAMAYNVPLDDL 73

Query: 74 FDVSP 78
               
Sbjct: 74 VGGPD 78


>gi|227507976|ref|ZP_03938025.1| XRE family transcriptional regulator [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
 gi|227192550|gb|EEI72617.1| XRE family transcriptional regulator [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
          Length = 196

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 9/55 (16%), Positives = 22/55 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + ++  R    ++Q +L   L ++   +  +E G        L  I+   + P+ 
Sbjct: 7  ENLKFFRKQNHLNQNQLAIKLNVSRPTISSWETGRTTPDIDTLVRIASFYQVPVD 61


>gi|322383862|ref|ZP_08057608.1| phage element-like protein [Paenibacillus larvae subsp. larvae
          B-3650]
 gi|321151636|gb|EFX44710.1| phage element-like protein [Paenibacillus larvae subsp. larvae
          B-3650]
          Length = 112

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 35/81 (43%), Gaps = 6/81 (7%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG------ITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +GK I+  R+   +SQE+L E L       I    + K+E  +       ++H+S + + 
Sbjct: 5  IGKTIKELRIKHKLSQEELAEKLNKNFGTSINKGMISKWENDLGDPRLETVRHLSMLFDV 64

Query: 69 PISFFFDVSPTVCSDISSEEN 89
           + F   +       I++  +
Sbjct: 65 SLDFLLGLEKKEPETIAAHHD 85


>gi|312865715|ref|ZP_07725939.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
 gi|311098836|gb|EFQ57056.1| DNA-binding helix-turn-helix protein [Streptococcus downei F0415]
          Length = 116

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R++  R+  G++Q+++   L +T  Q  + E G  +  +  L   +E  +    + 
Sbjct: 4  ERLKSLRLEAGLTQKEIATKLNMTQPQYARTENGGRKPSSETLNKFAEFFDVSTDYL 60


>gi|303241959|ref|ZP_07328452.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
 gi|302590514|gb|EFL60269.1| transcriptional regulator, XRE family [Acetivibrio cellulolyticus
          CD2]
          Length = 63

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 25/61 (40%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+  R    ++QE++   L IT  Q QK EKG +         ++ +        F++  
Sbjct: 3  IKEYRNRSNLTQEEVARALDITLSQYQKIEKGKSITNIITGLKMARLYNVDPYILFEIDK 62

Query: 79 T 79
           
Sbjct: 63 D 63


>gi|297620902|ref|YP_003709039.1| putative transcriptional regulator [Waddlia chondrophila WSU
          86-1044]
 gi|297376203|gb|ADI38033.1| putative transcriptional regulator [Waddlia chondrophila WSU
          86-1044]
          Length = 76

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 31/66 (46%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          KK  +P+ ++   ++R  R  + ++QE+L E  G     +   E+       + L  +S+
Sbjct: 4  KKKKDPILVDFAAKVRNMRHSIPLTQEQLAERAGFHVNYIGGIERAERNPSLTSLCSLSK 63

Query: 65 VLESPI 70
           L  P+
Sbjct: 64 ALGCPL 69


>gi|297190852|ref|ZP_06908250.1| DNA-binding protein [Streptomyces pristinaespiralis ATCC 25486]
 gi|297150643|gb|EFH30705.1| DNA-binding protein [Streptomyces pristinaespiralis ATCC 25486]
          Length = 275

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 26/56 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG  +R  R    +SQ +L    G + + +   E G +R     +  ++E L+ P+
Sbjct: 10 VGPLLRGWRERRRLSQLELALRAGSSARHISFVETGRSRPSEDMVLRLAEHLDVPV 65


>gi|296104296|ref|YP_003614442.1| hypothetical protein ECL_03959 [Enterobacter cloacae subsp.
          cloacae ATCC 13047]
 gi|295058755|gb|ADF63493.1| hypothetical protein ECL_03959 [Enterobacter cloacae subsp.
          cloacae ATCC 13047]
          Length = 190

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/81 (16%), Positives = 29/81 (35%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  ++  R+   +S  +L +  G++   +   E G +      L  I+  L   +   
Sbjct: 16 NIGNNVKKLRIARNLSLNELAKLSGVSKATLSTLESGGSNPRVDTLDSIASALRLTLGDL 75

Query: 74 FDVSPTVCSDISSEENNVMDF 94
             +      I    +   D+
Sbjct: 76 LGNNNERYPYIEKNSDYKGDY 96


>gi|240948027|ref|ZP_04752444.1| helix-turn-helix domain-containing protein [Actinobacillus minor
          NM305]
 gi|240297643|gb|EER48120.1| helix-turn-helix domain-containing protein [Actinobacillus minor
          NM305]
          Length = 148

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 33/58 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +N+ ++IR  R     SQE++ E L ++     K E+G  ++   +L+ I+++L+  +
Sbjct: 1  MNINEKIRRIRESKEWSQEQMAEKLNMSLNGYAKIERGETKLYLDKLEQIAQILDIDV 58


>gi|229096267|ref|ZP_04227240.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-29]
 gi|228687227|gb|EEL41132.1| Transcriptional regulator, Xre [Bacillus cereus Rock3-29]
          Length = 405

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 1/64 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G +I+  R    ++Q  L     +T   + + E G        LQ+I+E L    SF  
Sbjct: 5  LGAKIKTLRKEKKLTQTDLAGS-ELTKSMLSQIENGKATPSMKTLQYIAEKLGCETSFLL 63

Query: 75 DVSP 78
          +   
Sbjct: 64 EDDD 67


>gi|220927948|ref|YP_002504857.1| XRE family transcriptional regulator [Clostridium cellulolyticum
          H10]
 gi|219998276|gb|ACL74877.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
          H10]
          Length = 184

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 25/59 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +  RI+  R I  +S E L   L IT +  + YE G   +  S L  I+      +S
Sbjct: 6  KLIASRIKELREISEISVEALAAELKITEESYRSYESGETDIPVSFLYQIANKFNVELS 64


>gi|95930530|ref|ZP_01313265.1| protein of unknown function DUF955 [Desulfuromonas acetoxidans
          DSM 684]
 gi|95133365|gb|EAT15029.1| protein of unknown function DUF955 [Desulfuromonas acetoxidans
          DSM 684]
          Length = 367

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 6/71 (8%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          NKK+ NP       R++  R   G +  KL +CL +T + +  YE G        +  I+
Sbjct: 2  NKKVFNP------ARLKFAREKRGFTIRKLCDCLKLTTKSLSDYENGRRDPNDKTISEIA 55

Query: 64 EVLESPISFFF 74
          ++L     FFF
Sbjct: 56 KILNFQTGFFF 66


>gi|65321317|ref|ZP_00394276.1| COG1396: Predicted transcriptional regulators [Bacillus anthracis
           str. A2012]
          Length = 106

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/100 (17%), Positives = 34/100 (34%), Gaps = 6/100 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
           G+ ++  R    ++Q + G+ + ++  Q+   E   N      L  I+      +     
Sbjct: 5   GENLKKFRNSRALTQAEFGDKVQLSRSQISNLETNFNEPDLDSLDRIASFFNISVDTLMG 64

Query: 74  --FDVSPTVCSDISSEENNVMDFI--STPDGLQLNRYFIQ 109
             F  S     D+  E   V   +  S  +    N  F +
Sbjct: 65  RKFTTSEKHLEDVLDEIQTVFAGLDESQREQFCKNSSFTR 104


>gi|307705640|ref|ZP_07642491.1| hypothetical protein SMSK597_1597 [Streptococcus mitis SK597]
 gi|307620816|gb|EFN99901.1| hypothetical protein SMSK597_1597 [Streptococcus mitis SK597]
          Length = 303

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P
Sbjct: 1  MLIGQKIKEIRIEKGISRPDFCGDEQELTVRQLSRIESGASQPSLPKLDYIARRLGVP 58


>gi|293384665|ref|ZP_06630522.1| putative helix-turn-helix protein [Enterococcus faecalis R712]
 gi|293389067|ref|ZP_06633541.1| putative helix-turn-helix protein [Enterococcus faecalis S613]
 gi|312908458|ref|ZP_07767414.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|312979359|ref|ZP_07791054.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
 gi|291078027|gb|EFE15391.1| putative helix-turn-helix protein [Enterococcus faecalis R712]
 gi|291081593|gb|EFE18556.1| putative helix-turn-helix protein [Enterococcus faecalis S613]
 gi|310625570|gb|EFQ08853.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 512]
 gi|311287864|gb|EFQ66420.1| helix-turn-helix protein [Enterococcus faecalis DAPTO 516]
          Length = 204

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++++  R    ++QE+L E L ++   + K+E G        L+ IS+     I 
Sbjct: 5  EKLQQLRTGKNLTQEQLAEQLYVSRTAISKWESGKGYPNIESLKCISKFFFVTID 59


>gi|229823422|ref|ZP_04449491.1| hypothetical protein GCWU000282_00720 [Catonella morbi ATCC
          51271]
 gi|229787197|gb|EEP23311.1| hypothetical protein GCWU000282_00720 [Catonella morbi ATCC
          51271]
          Length = 71

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R    +SQ  L + +G+  Q +   E             ++  LE+ ++  F
Sbjct: 2  NRVRELRQSRKLSQLALAKEVGVARQTINLIENDKYNPSLDLCLKLAYALETDLNTLF 59


>gi|295840749|ref|ZP_06827681.1| conserved hypothetical protein [Streptomyces sp. SPB74]
 gi|197696319|gb|EDY43252.1| conserved hypothetical protein [Streptomyces sp. SPB74]
          Length = 75

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 32/66 (48%), Gaps = 3/66 (4%)

Query: 8  PNPVD---INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          P+ +D     +  RIR  R+   +SQE++ E  G++   VQ+ E G      S L  ++ 
Sbjct: 5  PDALDAFRRQLADRIRDHRLWRNLSQEQVAERTGLSAHTVQRIESGTRETKVSYLFRLTH 64

Query: 65 VLESPI 70
           L+  +
Sbjct: 65 ALDCEV 70


>gi|182418926|ref|ZP_02950183.1| HTH-type transcriptional regulator SinR [Clostridium butyricum
          5521]
 gi|237667415|ref|ZP_04527399.1| HTH-type transcriptional regulator SinR [Clostridium butyricum E4
          str. BoNT E BL5262]
 gi|182377209|gb|EDT74777.1| HTH-type transcriptional regulator SinR [Clostridium butyricum
          5521]
 gi|237655763|gb|EEP53319.1| HTH-type transcriptional regulator SinR [Clostridium butyricum E4
          str. BoNT E BL5262]
          Length = 108

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 1/65 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G RI   R + G+    L E   I+   +   E         + L+ I+ VL+  +S F
Sbjct: 2  IGTRIAELRKLKGIKLCDLAEQAEISKSYLSNLENNRKENPSPAVLEKIASVLKVNVSDF 61

Query: 74 FDVSP 78
          F+ +P
Sbjct: 62 FNETP 66


>gi|160942838|ref|ZP_02090078.1| hypothetical protein FAEPRAM212_00315 [Faecalibacterium
          prausnitzii M21/2]
 gi|158445890|gb|EDP22893.1| hypothetical protein FAEPRAM212_00315 [Faecalibacterium
          prausnitzii M21/2]
          Length = 110

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 34/78 (43%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G+RIR +R   G + E+  E + ++   V   E+GV          I EVL+   
Sbjct: 1  MNTLLGQRIREQRKEKGWTIEQFAERVDLSANYVGDLERGVKIPKLETFIRIVEVLDVSA 60

Query: 71 SFFFDVSPTVCSDISSEE 88
                S    S ++ +E
Sbjct: 61 DVLIRDSVPSASHVADDE 78


>gi|83720248|ref|YP_441361.1| DNA-binding protein [Burkholderia thailandensis E264]
 gi|83654073|gb|ABC38136.1| DNA-binding protein [Burkholderia thailandensis E264]
          Length = 224

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++L R   G + + L E  G+T   + K E+G++    +    +S+ L+  +   F  S
Sbjct: 43  RLKLLRKQKGWTLDVLAEAAGLTKSYLSKVERGLSVPSIAVALKLSKALQVDVEQLFSES 102


>gi|150019804|ref|YP_001312058.1| helix-turn-helix domain-containing protein [Clostridium
          beijerinckii NCIMB 8052]
 gi|149906269|gb|ABR37102.1| helix-turn-helix domain protein [Clostridium beijerinckii NCIMB
          8052]
          Length = 247

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 30/70 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G  I+  R+  G++Q++  + LGI    +  YE          L  I++ L  PI  
Sbjct: 1  MSFGNNIKKCRLDKGINQKEFAKILGIPVSTLANYENNHREPKTEILIKIADALLIPIDE 60

Query: 73 FFDVSPTVCS 82
            D   T  S
Sbjct: 61 LLDSETTSFS 70


>gi|158313368|ref|YP_001505876.1| XRE family transcriptional regulator [Frankia sp. EAN1pec]
 gi|158108773|gb|ABW10970.1| transcriptional regulator, XRE family [Frankia sp. EAN1pec]
          Length = 403

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
            +G R+   R+   M+Q +L E   ++   V K E+G  + +  + L  ++  LE P +
Sbjct: 5  RALGDRVAQVRVRRSMTQAELAERADVSVDLVTKLEQGQRDGIRITTLHSLARALEVPTA 64

Query: 72 FFFDVSPTVCSDISSE 87
           FF V        S  
Sbjct: 65 TFFKVEVETAMSDSEA 80


>gi|326385587|ref|ZP_08207221.1| transcriptional regulator [Novosphingobium nitrogenifigens DSM
          19370]
 gi|326209921|gb|EGD60704.1| transcriptional regulator [Novosphingobium nitrogenifigens DSM
          19370]
          Length = 227

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 27/71 (38%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +  +P     G  +R  R  LG++   +G   GI    + K E     +   ++  IS  
Sbjct: 8  RREDPETARFGHILRDLRTRLGLTLNDVGLKTGIPRSTLSKIENDKMSLSYDKIVKISSA 67

Query: 66 LESPISFFFDV 76
          L   IS  F  
Sbjct: 68 LNVDISELFGG 78


>gi|307608954|emb|CBW98364.1| hypothetical protein LPW_02171 [Legionella pneumophila 130b]
          Length = 375

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 33/59 (55%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVC 81
          R   G++++ L E + +T +++  +E+  N+   ++ Q I+++   P  +FF  +P + 
Sbjct: 16 RERAGLTEDLLAERMHVTVEKIISWEEEKNKPTFTQAQKIAQITHIPFGYFFLENPPIE 74


>gi|273809767|ref|YP_003344887.1| DNA binding protein [Streptococcus phage ALQ13.2]
 gi|224812519|gb|ACN64912.1| DNA binding protein [Streptococcus phage ALQ13.2]
          Length = 161

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 9/53 (16%), Positives = 25/53 (47%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + R    +++ +L E +G+T   +  +E G + +  S  + ++E     + + 
Sbjct: 1  MLRESRKITRVELAEKIGVTKLTILNWEHGTHEIKGSNAKKLAEYFNVSVPYL 53


>gi|168186643|ref|ZP_02621278.1| conserved domain protein [Clostridium botulinum C str. Eklund]
 gi|169295388|gb|EDS77521.1| conserved domain protein [Clostridium botulinum C str. Eklund]
          Length = 62

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 35/58 (60%), Gaps = 1/58 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPISFFF 74
          +++LRR+ LG+ Q++L + LGI    + K EKG  + V     ++I++VL+  +   F
Sbjct: 2  KVKLRRIELGIQQQELAKKLGIGRGTLLKIEKGNYDNVKIGLAKNIAKVLDMSVEELF 59


>gi|167744435|ref|ZP_02417209.1| Helix-turn-helix domain protein, putative [Burkholderia
           pseudomallei 14]
          Length = 121

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/110 (17%), Positives = 49/110 (44%), Gaps = 3/110 (2%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  VG+ I  +R   G++QE + + + ++ +   +YE+G       RL  ++ + +  I
Sbjct: 7   LNKIVGRCIAKKREQAGLTQETVADLIHMSTEGYARYERGETPASLMRLSRLATIFKCGI 66

Query: 71  SFFFDVSPTVCSDISSEENNVMDFIS---TPDGLQLNRYFIQIDDVKVRQ 117
                 + T  +  +    N++D +S     + L++      +   K ++
Sbjct: 67  DELVVETSTGLTAQAQHIANLLDGVSCSDRDEILKIVESICALSHKKHKK 116


>gi|190410266|ref|YP_001965767.1| hipB [Klebsiella pneumoniae]
 gi|146151059|gb|ABQ02825.1| hipB [Klebsiella pneumoniae]
          Length = 97

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/50 (32%), Positives = 23/50 (46%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          R   G++Q+ L E LG+T Q   + E         RL  +  +L   ISF
Sbjct: 21 RKANGLTQKDLSERLGVTQQTYSRLEANPASASIERLFKVFSILGVKISF 70


>gi|114771744|ref|ZP_01449148.1| hypothetical protein OM2255_13689 [alpha proteobacterium
          HTCC2255]
 gi|114547816|gb|EAU50706.1| hypothetical protein OM2255_13689 [alpha proteobacterium
          HTCC2255]
          Length = 281

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 30/61 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R    +SQ ++ E L ++   +  +E G  ++   +L+ ++ +    ++    ++
Sbjct: 2  RIKEYRKSKRLSQAEVAEILKVSQSTIYLWESGKGKINEEQLRSLALLFGCTVNDLNGIN 61

Query: 78 P 78
          P
Sbjct: 62 P 62


>gi|23464934|ref|NP_695537.1| hypothetical protein BL0333 [Bifidobacterium longum NCC2705]
 gi|239622527|ref|ZP_04665558.1| predicted protein [Bifidobacterium longum subsp. infantis CCUG
          52486]
 gi|23325529|gb|AAN24173.1| hypothetical protein with helix turn helix motif [Bifidobacterium
          longum NCC2705]
 gi|239514524|gb|EEQ54391.1| predicted protein [Bifidobacterium longum subsp. infantis CCUG
          52486]
          Length = 298

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 23/57 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            ++  R    M QE+L   LG++ Q + K+E         +L  I ++    +   
Sbjct: 5  ANLQYLRAQRNMPQEQLAMLLGVSRQAISKWESEKAYPEMDKLLMICDLFGCTLDDL 61


>gi|325299767|ref|YP_004259684.1| helix-turn-helix domain-containing protein [Bacteroides
          salanitronis DSM 18170]
 gi|324319320|gb|ADY37211.1| helix-turn-helix domain protein [Bacteroides salanitronis DSM
          18170]
          Length = 103

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 26/53 (49%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          G+ +R RR  L M+Q++L + +G     + + EKG   +  S    I+  L  
Sbjct: 44 GEILRNRRKELKMTQKQLAQKIGKEQSYIARVEKGEVDMQLSSFFRIAHALNI 96


>gi|300853247|ref|YP_003778231.1| putative phage protein with HTH motif [Clostridium ljungdahlii
          DSM 13528]
 gi|300433362|gb|ADK13129.1| putative phage protein with HTH motif [Clostridium ljungdahlii
          DSM 13528]
          Length = 187

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/80 (27%), Positives = 38/80 (47%), Gaps = 3/80 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G  I+  R  +G+SQ +LG  +G T Q +   EK +N       L +IS+ L    +  
Sbjct: 2  LGDNIKKFRTQIGISQRELGRRIGKTGQYISYLEKNMNTNPSLEVLNNISKELNVNTNDL 61

Query: 74 FDVSPTVCSDISSEENNVMD 93
            + PT+  ++   E N + 
Sbjct: 62 --IKPTINIEMHESEKNSLQ 79


>gi|294630087|ref|ZP_06708647.1| PbsX family transcriptional regulator [Streptomyces sp. e14]
 gi|292833420|gb|EFF91769.1| PbsX family transcriptional regulator [Streptomyces sp. e14]
          Length = 230

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 31/61 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G+ +R +R    +S  +L +  G++   + + E+G+ +  A  LQ +++ L       
Sbjct: 18 NLGEYLREQRRNAQLSLRQLADAAGVSNPYLSQIERGLRKPSAEVLQQVAKALRISAETL 77

Query: 74 F 74
          +
Sbjct: 78 Y 78


>gi|229188228|ref|ZP_04315304.1| Transcriptional regulator, pbsX [Bacillus cereus BGSC 6E1]
 gi|228595248|gb|EEK52992.1| Transcriptional regulator, pbsX [Bacillus cereus BGSC 6E1]
          Length = 65

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI   R    +SQEKL E +G++   + + E    +        I++VL   +   F
Sbjct: 2  NRIAELRKEKLISQEKLAEQVGLSRTYISEIENNKKQPNVKLAIKIAKVLGKSVESIF 59


>gi|227545435|ref|ZP_03975484.1| ABC superfamily ATP binding cassette transporter ATPase
          [Lactobacillus reuteri CF48-3A]
 gi|300908481|ref|ZP_07125944.1| ABC superfamily ATP binding cassette transporter ABC protein
          [Lactobacillus reuteri SD2112]
 gi|227184576|gb|EEI64647.1| ABC superfamily ATP binding cassette transporter ATPase
          [Lactobacillus reuteri CF48-3A]
 gi|300893888|gb|EFK87246.1| ABC superfamily ATP binding cassette transporter ABC protein
          [Lactobacillus reuteri SD2112]
          Length = 293

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 23/54 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++   R    +SQ +L   L +  Q V K+E G       +L  +++V    + 
Sbjct: 8  QLLKLRTEKQLSQAELATRLFVPRQAVSKWENGDAEPSIDKLILLAKVFNVSLD 61


>gi|167924579|ref|ZP_02511670.1| transcriptional regulator, XRE family protein [Burkholderia
          pseudomallei BCC215]
          Length = 81

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/59 (33%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG+ IR RR+ L +SQE L     I    + K E+G   V    L  I+  L    S  
Sbjct: 17 VGRSIRARRLELDISQEALANIADIDRSHMGKIERGERNVTLLNLVKIARALSCRPSDL 75


>gi|167747600|ref|ZP_02419727.1| hypothetical protein ANACAC_02321 [Anaerostipes caccae DSM 14662]
 gi|167652962|gb|EDR97091.1| hypothetical protein ANACAC_02321 [Anaerostipes caccae DSM 14662]
          Length = 110

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/65 (16%), Positives = 31/65 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++IR +R   G++ ++L +   +    +++ E G        L  + + LE+  ++  
Sbjct: 6  LGRKIREKRKQCGLTSQQLADLCHVHDGYIRQLESGKKVPSMPLLLSLCDELETSPNYLL 65

Query: 75 DVSPT 79
          + +  
Sbjct: 66 EYAEA 70


>gi|157374197|ref|YP_001472797.1| XRE family transcriptional regulator [Shewanella sediminis
          HAW-EB3]
 gi|157316571|gb|ABV35669.1| transcriptional regulator, XRE family [Shewanella sediminis
          HAW-EB3]
          Length = 184

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 31/69 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  ++  R + G+SQ +L +  G+T   +   EK       S L+ +   L   +  FF
Sbjct: 5  IGTSLKAVRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSVSSLKKVLSGLPMSLVDFF 64

Query: 75 DVSPTVCSD 83
           +  +  S+
Sbjct: 65 SMEDSGGSE 73


>gi|150400183|ref|YP_001323950.1| cupin 2 domain-containing protein [Methanococcus vannielii SB]
 gi|150012886|gb|ABR55338.1| Cupin 2 conserved barrel domain protein [Methanococcus vannielii
          SB]
          Length = 192

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 31/77 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G +I   R   GMS E L +    + + ++  EKG      + L  I+  L   +  F
Sbjct: 6  QLGSKITQLRESKGMSIEDLAKASDSSIELIECLEKGNLVPSLTPLLKIARALSVRLGTF 65

Query: 74 FDVSPTVCSDISSEENN 90
           D +P     I+   N 
Sbjct: 66 LDDAPQNGPVITKSGNY 82


>gi|110004082|emb|CAK98421.1| conserved hypothetical transcriptional regulator transcription
          regulator protein [Spiroplasma citri]
          Length = 177

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 40/81 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++I+L R    ++ E+L     +T   + + E+ ++      L+ I EVL + ++ 
Sbjct: 1  MLLGEKIKLLRQKNNLTIEELANRCELTKGFISQLERDISSPSIETLESILEVLGTNLAD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF          ++EE+  ++
Sbjct: 61 FFKQEKNRKFVYAAEEHYKVE 81


>gi|45358838|ref|NP_988395.1| hypothetical protein MMP1275 [Methanococcus maripaludis S2]
 gi|45047704|emb|CAF30831.1| hypothetical protein MMP1275 [Methanococcus maripaludis S2]
          Length = 184

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 29/67 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R+R  R +  +S E++   L I+ +  Q YE+G   + AS L  I+   E  +  
Sbjct: 6  KEIASRVRELRELSEISIEEMANHLQISPEIYQHYEEGTCDIPASVLYEIAHKFEVDMGL 65

Query: 73 FFDVSPT 79
                T
Sbjct: 66 LLTGEET 72


>gi|322812212|pdb|2XJ3|A Chain A, High Resolution Structure Of The T55c Mutant Of Cylr2.
 gi|322812213|pdb|2XJ3|B Chain B, High Resolution Structure Of The T55c Mutant Of Cylr2
          Length = 66

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 23/63 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            ++L R    +SQ +L   L ++ Q +   EK            I+  L  P+   F  
Sbjct: 4  NNLKLIREKKKISQSELAALLEVSRQTINGIEKNKYNPSLQLALKIAYYLNCPLEDIFQW 63

Query: 77 SPT 79
           P 
Sbjct: 64 QPE 66


>gi|307128931|ref|YP_003880947.1| hypothetical protein Dda3937_03865 [Dickeya dadantii 3937]
 gi|306526460|gb|ADM96390.1| hypothetical protein Dda3937_03865 [Dickeya dadantii 3937]
          Length = 156

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 1/68 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+ +R+    SQE+L E   ++ + +Q+ E G  R     L  I+      ++   +   
Sbjct: 4  IKSQRLARAWSQEQLAELSALSVRTIQRIENGE-RASLETLSAIAAAFGVNVTALMEEGS 62

Query: 79 TVCSDISS 86
                 S
Sbjct: 63 EQAVSGES 70


>gi|270261480|ref|ZP_06189753.1| transcriptional regulatory protein [Serratia odorifera 4Rx13]
 gi|270044964|gb|EFA18055.1| transcriptional regulatory protein [Serratia odorifera 4Rx13]
          Length = 185

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 34/80 (42%), Gaps = 1/80 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R  LG+SQ +  E  G+T   +   E+       S LQ +  V    +S FF 
Sbjct: 9  GKRLSQIRQQLGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLTVYGLSLSAFFA 68

Query: 75 DVSPTVCSDISSEENNVMDF 94
          +        I  +  ++++ 
Sbjct: 69 EPEKPDEPRIVIDHEDLIEI 88


>gi|228969395|ref|ZP_04130242.1| hypothetical protein bthur0004_60930 [Bacillus thuringiensis
          serovar sotto str. T04001]
 gi|228790357|gb|EEM38097.1| hypothetical protein bthur0004_60930 [Bacillus thuringiensis
          serovar sotto str. T04001]
          Length = 108

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 24/61 (39%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          ++ KR+   R   G +Q  +   L I       +E G     A  + +++E+    I   
Sbjct: 3  HLSKRLAELRKKQGYTQFDVAYRLNIARTTYANWEYGKADPDADSIMNLAEIYNVSIDEL 62

Query: 74 F 74
          F
Sbjct: 63 F 63


>gi|228477808|ref|ZP_04062436.1| transcriptional regulator, Cro/CI family [Streptococcus
          salivarius SK126]
 gi|322374168|ref|ZP_08048701.1| toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. C150]
 gi|228250500|gb|EEK09714.1| transcriptional regulator, Cro/CI family [Streptococcus
          salivarius SK126]
 gi|321276873|gb|EFX53945.1| toxin-antitoxin system, antitoxin component, Xre family
          [Streptococcus sp. C150]
          Length = 150

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 7/58 (12%), Positives = 25/58 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G R++  R    ++Q ++ E + +      ++E G        +  ++++ ++   + 
Sbjct: 8  GDRLKELRKSKKLTQVQVSEMIDVQQGTYSRWENGTLEPSLEAVVKLAKLFDTTTDYL 65


>gi|213019765|ref|ZP_03335569.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|212994671|gb|EEB55315.1| putative transcriptional regulator [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 182

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/125 (16%), Positives = 47/125 (37%), Gaps = 12/125 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            + +++R  R+    + + L     I +  + +YE+G   +   +L+ I+E L  PI   
Sbjct: 13  QIAQKVRNWRLKGKYTLKDLVGKANINYHTLLRYEQGTCGIPTEKLKVIAEALSIPIRNL 72

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKY 133
           F     +  D   +++   +             +  I+     + I  L +S+ + E+  
Sbjct: 73  FPRRKVLREDSCFDKSKTQEM------------YNFIERTGGSKTIYALTKSVRAEEESN 120

Query: 134 RTIEE 138
                
Sbjct: 121 IKAAR 125


>gi|167648095|ref|YP_001685758.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167350525|gb|ABZ73260.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 78

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 27/53 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G  +R  R   G+SQE L + +G+    V + E+G+       ++  ++VL 
Sbjct: 12 LGINVRRLRKERGLSQEALADAVGLAPTYVGQIERGLRNPTLDVVERFADVLG 64


>gi|331086080|ref|ZP_08335163.1| hypothetical protein HMPREF0987_01466 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|330407003|gb|EGG86508.1| hypothetical protein HMPREF0987_01466 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 106

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 30/81 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KR+   R   G+S   +   LG +   + K E G      S   +I + L+     FFD 
Sbjct: 9  KRLTQLRNKQGISARDMSLSLGQSESYINKIENGKALPSMSAFFYICDFLKIHPRDFFDE 68

Query: 77 SPTVCSDISSEENNVMDFIST 97
          S    +         M+  +T
Sbjct: 69 SDKNPATSQELTEKFMNLTTT 89


>gi|294789533|ref|ZP_06754768.1| DNA-binding protein [Simonsiella muelleri ATCC 29453]
 gi|294482470|gb|EFG30162.1| DNA-binding protein [Simonsiella muelleri ATCC 29453]
          Length = 122

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/97 (20%), Positives = 39/97 (40%), Gaps = 6/97 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R++  R  LG++Q +  E  G++ +    YE+ +++  A +L          I +   
Sbjct: 8   GNRLKTERKKLGLTQAQAAEKCGVSARMWGDYERNISQPKAEQLFLFKNA-GIDIDYVMT 66

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
                       EN+    +S  + L+L   F Q  +
Sbjct: 67  GKNNNVETFRQPENS----LSNKE-LELLALFRQASE 98


>gi|302869357|ref|YP_003837994.1| Cupin 2 conserved barrel domain-containing protein [Micromonospora
           aurantiaca ATCC 27029]
 gi|315504168|ref|YP_004083055.1| cupin 2 conserved barrel domain protein [Micromonospora sp. L5]
 gi|302572216|gb|ADL48418.1| Cupin 2 conserved barrel domain protein [Micromonospora aurantiaca
           ATCC 27029]
 gi|315410787|gb|ADU08904.1| Cupin 2 conserved barrel domain protein [Micromonospora sp. L5]
          Length = 207

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/88 (15%), Positives = 33/88 (37%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V +++R  R   G S E+L    G++   + + E          L  +++     I+   
Sbjct: 15  VARQVRDLRAARGWSFEELAGRSGVSKGMLVQIEGARTNPSIGTLCRVADAFGVSIARLL 74

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQ 102
           + +      +S+ +   + +     GL 
Sbjct: 75  EPAEQSTVRVSAADEAPVLWRGPNGGLA 102


>gi|257792281|ref|YP_003182887.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|257476178|gb|ACV56498.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
          Length = 104

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 38/89 (42%), Gaps = 6/89 (6%)

Query: 1  MVGNKKI--PNPV----DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV 54
          M  N+K+   +P+      ++G R+   R   G+SQ  L E +G    ++   E G+  V
Sbjct: 4  MSKNEKMARKDPLVQRLSADLGSRLLDVRTSEGLSQTTLAEMVGTKHPRISNLEGGLVDV 63

Query: 55 GASRLQHISEVLESPISFFFDVSPTVCSD 83
            S +  ++  L+       D++     D
Sbjct: 64 RLSDIVKLARALDVNPGELLDLAAYKLED 92


>gi|257790856|ref|YP_003181462.1| transcriptional regulator, XRE family [Eggerthella lenta DSM 2243]
 gi|257474753|gb|ACV55073.1| transcriptional regulator, XRE family [Eggerthella lenta DSM 2243]
          Length = 261

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/114 (16%), Positives = 38/114 (33%), Gaps = 14/114 (12%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
            ++  R    +SQ +L   LG++ Q V K+E   +     +L  + ++ E  +       
Sbjct: 6   NLQHLRGTRDLSQAQLATLLGVSRQSVAKWEAEKSYPEMDKLIKLCDLFECSLDDLVRGD 65

Query: 78  ----PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIV 127
                T    I   E          DG           D  +R++  ++   + 
Sbjct: 66  LTGCATANEAIVEAEPASAATPVDKDGY----------DEHMRRRAWDVAAGVA 109


>gi|302546464|ref|ZP_07298806.1| putative helix-turn-helix domain protein [Streptomyces
          hygroscopicus ATCC 53653]
 gi|302464082|gb|EFL27175.1| putative helix-turn-helix domain protein [Streptomyces
          himastatinicus ATCC 53653]
          Length = 295

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 27/55 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R+  RR I  M+Q++L +  G+    ++K E+G        ++ ++  L    +
Sbjct: 7  RRVAYRRRIARMTQQELADAAGVHVGTLRKIERGARGASDDVIEALAAALGVDPA 61


>gi|228968830|ref|ZP_04129792.1| Transcriptional regulator [Bacillus thuringiensis serovar sotto
           str. T04001]
 gi|228790893|gb|EEM38532.1| Transcriptional regulator [Bacillus thuringiensis serovar sotto
           str. T04001]
          Length = 133

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 28/67 (41%), Gaps = 2/67 (2%)

Query: 22  RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVC 81
            R    MSQ  L + +G+T   +   E G    G      I+ VL  P+  F+   PT  
Sbjct: 40  LRGKKRMSQVALADKVGVTPGHIADLETGRRDPGGKLAFQIAIVLGFPMEHFY--LPTYL 97

Query: 82  SDISSEE 88
            + S +E
Sbjct: 98  QNASKKE 104


>gi|229127280|ref|ZP_04256276.1| Transcriptional regulator [Bacillus cereus BDRD-Cer4]
 gi|228656113|gb|EEL11955.1| Transcriptional regulator [Bacillus cereus BDRD-Cer4]
          Length = 133

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 28/67 (41%), Gaps = 2/67 (2%)

Query: 22  RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVC 81
            R    MSQ  L + +G+T   +   E G    G      I+ VL  P+  F+   PT  
Sbjct: 40  LRGKKRMSQVALADKVGVTPGHIADLETGRRDPGGKLAFQIAIVLGFPMEHFY--LPTYL 97

Query: 82  SDISSEE 88
            + S +E
Sbjct: 98  QNASKKE 104


>gi|166032732|ref|ZP_02235561.1| hypothetical protein DORFOR_02447 [Dorea formicigenerans ATCC
           27755]
 gi|166027089|gb|EDR45846.1| hypothetical protein DORFOR_02447 [Dorea formicigenerans ATCC
           27755]
          Length = 102

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/107 (18%), Positives = 45/107 (42%), Gaps = 7/107 (6%)

Query: 28  MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
           M+Q+ + +C+ ++   +  YEK   +    +L  I+++ E P+ +  +      +   S 
Sbjct: 1   MTQKNVADCIHVSRSAIAGYEKKGRQPSHEKLTAIADLFEVPVDYLLNDEEDTITLSPSR 60

Query: 88  ENNVMDFISTPDGLQLNRYFIQIDDVKVR--QKIIELVRSIVSSEKK 132
                D     D L L   +  +     R  +K ++L++   +SE  
Sbjct: 61  LTTNSD-----DELNLLLAYRSLSRSSKRDLKKYMKLLKEKDASESS 102


>gi|24374516|ref|NP_718559.1| prophage LambdaSo, Cro/CI family transcriptional regulator
           [Shewanella oneidensis MR-1]
 gi|24349105|gb|AAN56003.1|AE015737_1 prophage LambdaSo, transcriptional regulator, Cro/CI family
           [Shewanella oneidensis MR-1]
          Length = 272

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/104 (24%), Positives = 37/104 (35%), Gaps = 13/104 (12%)

Query: 15  VGKRIRLRRMILGM-SQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPIS- 71
           VG+ I+  R+  G+ SQ  L E  G   Q +V  YE G   V A   + +++VL    + 
Sbjct: 10  VGRNIKRLRLKAGIKSQAALAELCGWKSQSRVGNYEAGTRAVSAIDAETLAKVLNVTPAE 69

Query: 72  ----------FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
                      F  +     S    EE +          LQ   
Sbjct: 70  ILYGENNKDDDFVSMPSAQYSSGPYEEEDPFQLFKPKQELQNAE 113


>gi|320093943|ref|ZP_08025774.1| XRE family transcriptional regulator [Actinomyces sp. oral taxon
          178 str. F0338]
 gi|319979126|gb|EFW10638.1| XRE family transcriptional regulator [Actinomyces sp. oral taxon
          178 str. F0338]
          Length = 76

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 28/67 (41%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  V  RI + R    +S+ +L E LG+ +Q V   E+G           I+   E P+ 
Sbjct: 5  DDVVHNRIAVLRADRRVSRRELAEALGVHYQTVGYLERGEYAPSLHLALRIARYFEVPVE 64

Query: 72 FFFDVSP 78
            F +  
Sbjct: 65 SVFSLEE 71


>gi|291543302|emb|CBL16411.1| Helix-turn-helix [Ruminococcus sp. 18P13]
          Length = 121

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 2/83 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RIR  R+   MSQ +L E   I+   + + E G  ++  S   +I+E L+       
Sbjct: 12 IGARIRDVRLQRNMSQAELAEKAFISVPHMSEVENGKTKLRLSTFVYITEALQVSADVLL 71

Query: 75 DVSPTVCSDISSEENNVMDFIST 97
            +    + I   E N  D ++ 
Sbjct: 72 RTNTPEVNGIYQGEFN--DLLAD 92


>gi|266622898|ref|ZP_06115833.1| DNA-binding protein [Clostridium hathewayi DSM 13479]
 gi|288865341|gb|EFC97639.1| DNA-binding protein [Clostridium hathewayi DSM 13479]
          Length = 110

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/99 (18%), Positives = 42/99 (42%), Gaps = 4/99 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-FFDV 76
           RIR RR  LG++  ++ E +G         E+G   +    L  ++  LE    +  F  
Sbjct: 11  RIRNRRKALGLTSAEVAEKIGRADHYYGDIERGTCGMSIDTLVELTRTLELSSDYILFGA 70

Query: 77  SPTVCSDISSEENNVM---DFISTPDGLQLNRYFIQIDD 112
                +  +++   ++   D       ++L +Y++ +++
Sbjct: 71  ENENGNSNAAKAYRILRKYDEQRQEHAVELMKYYLNLEE 109


>gi|261211609|ref|ZP_05925896.1| hypothetical protein VCJ_001872 [Vibrio sp. RC341]
 gi|260838959|gb|EEX65591.1| hypothetical protein VCJ_001872 [Vibrio sp. RC341]
          Length = 166

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 28/53 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++  R    + Q ++ E +G+T Q   K+E G N   AS ++ ++E+L    S
Sbjct: 9  LKEMRERKQLKQSEVAEHVGVTAQTYMKWENGKNEPKASDIKKLAEILCVSES 61


>gi|239814884|ref|YP_002943794.1| XRE family transcriptional regulator [Variovorax paradoxus S110]
 gi|239801461|gb|ACS18528.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 70

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 28/65 (43%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           + +  GKR+R  R    +SQE+     G+    V   E+GV     + ++ ++  L   
Sbjct: 3  SLSVRFGKRLRELRKERDLSQEEFAAHCGLDRTYVSGMERGVRNPSLAVIETLAGALGIR 62

Query: 70 ISFFF 74
          +   F
Sbjct: 63 VEELF 67


>gi|56459168|ref|YP_154449.1| DNA-binding HTH domain-protein [Idiomarina loihiensis L2TR]
 gi|56178178|gb|AAV80900.1| Membrane associated protein containing xre-family DNA-binding HTH
          domain [Idiomarina loihiensis L2TR]
          Length = 136

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          I+  R     SQE+L    G++ + +Q+ E G N+     L+ ++ V E  +S   +
Sbjct: 2  IKKLRERKNWSQEQLAIMSGLSVRTIQRIESG-NKASMESLKSLASVFEVDVSKLTE 57


>gi|16080491|ref|NP_391318.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
          168]
 gi|221311387|ref|ZP_03593234.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
          168]
 gi|221315714|ref|ZP_03597519.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
          NCIB 3610]
 gi|221320629|ref|ZP_03601923.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
          JH642]
 gi|221324914|ref|ZP_03606208.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
          SMY]
 gi|81556692|sp|P71049|SLRR_BACSU RecName: Full=HTH-type transcriptional regulator slrR
 gi|1495278|emb|CAA96488.1| hypothetical protein [Bacillus subtilis]
 gi|1762125|gb|AAB39888.1| putative transcriptional regulator [Bacillus subtilis subsp.
          subtilis str. 168]
 gi|1945689|emb|CAB08022.1| hypothetical protein [Bacillus subtilis]
 gi|2635951|emb|CAB15443.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
          168]
          Length = 152

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+ IRL R   G S  +L    G++   + K E+GV+       L+ +S  LE  ++  
Sbjct: 2  IGRIIRLYRKRKGYSINQLAVESGVSKSYLSKIERGVHTNPSVQFLKKVSATLEVELTEL 61

Query: 74 FDVSPTVCSDISSEENN 90
          FD    +   IS  E  
Sbjct: 62 FDAETMMYEKISGGEEE 78


>gi|150388221|ref|YP_001318270.1| XRE family plasmid maintenance system antidote protein
           [Alkaliphilus metalliredigens QYMF]
 gi|150389695|ref|YP_001319744.1| XRE family plasmid maintenance system antidote protein
           [Alkaliphilus metalliredigens QYMF]
 gi|150392083|ref|YP_001322132.1| XRE family plasmid maintenance system antidote protein
           [Alkaliphilus metalliredigens QYMF]
 gi|149948083|gb|ABR46611.1| plasmid maintenance system antidote protein, XRE family
           [Alkaliphilus metalliredigens QYMF]
 gi|149949557|gb|ABR48085.1| plasmid maintenance system antidote protein, XRE family
           [Alkaliphilus metalliredigens QYMF]
 gi|149951945|gb|ABR50473.1| plasmid maintenance system antidote protein, XRE family
           [Alkaliphilus metalliredigens QYMF]
          Length = 254

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/79 (24%), Positives = 32/79 (40%)

Query: 12  DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +I +GK I   R    M  E+L   + I  Q ++ YE G   + +  +  I + L     
Sbjct: 110 NIEIGKNITHVREDAKMDVEQLAAAINIKPQALKDYESGKKVIPSYVIHRICKELSVLPL 169

Query: 72  FFFDVSPTVCSDISSEENN 90
           F  D    +  +  SE  +
Sbjct: 170 FLLDPEEVIDKEYKSENAD 188



 Score = 42.1 bits (98), Expect = 0.025,   Method: Composition-based stats.
 Identities = 24/102 (23%), Positives = 39/102 (38%), Gaps = 8/102 (7%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VGKRI     +LG+    +    GI+   +  Y  G     A  L  +S+VL+  I +  
Sbjct: 8   VGKRIEKSLEVLGIKAVDVCRSSGISKNAMSNYINGNRVPNAEILVKLSDVLKVSIDWLL 67

Query: 75  ----DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
                      + I  E     D ++  +      YF Q++D
Sbjct: 68  TGKGKGPEKAANFIFQEPVIEQDLVAESEA----SYFHQVED 105


>gi|315283138|ref|ZP_07871397.1| DNA-binding protein [Listeria marthii FSL S4-120]
 gi|313613216|gb|EFR87101.1| DNA-binding protein [Listeria marthii FSL S4-120]
          Length = 423

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/98 (16%), Positives = 41/98 (41%), Gaps = 1/98 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R    ++ +++ + + I+   +   E G+       L HI+  LE P     
Sbjct: 4   IGLRIKNIRKEKKLTLKEVAQGI-ISVPYLANIENGIKVASFETLMHIARRLEIPEEVLL 62

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
                   D+  E + + + +   + +++ +   +I +
Sbjct: 63  MSEEETNKDLLREMDEIFELLVFSNPVEMEKRLNKIAE 100


>gi|87198393|ref|YP_495650.1| XRE family transcriptional regulator [Novosphingobium
          aromaticivorans DSM 12444]
 gi|87134074|gb|ABD24816.1| transcriptional regulator, XRE family [Novosphingobium
          aromaticivorans DSM 12444]
          Length = 76

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 29/69 (42%), Gaps = 1/69 (1%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES- 68
           +    G  ++  R   G+SQ ++   +G+    V   E+G+       +  I++ LE  
Sbjct: 2  DIRKLFGTNVKRYREAAGLSQAEIAARMGVDRAYVSAIERGLQNATLLSIWEIAQALEVR 61

Query: 69 PISFFFDVS 77
          P++   +  
Sbjct: 62 PVALLEEPD 70


>gi|66395950|ref|YP_240268.1| ORF085 [Staphylococcus phage 96]
 gi|66396319|ref|YP_240643.1| ORF072 [Staphylococcus phage 52A]
 gi|189427128|ref|YP_001949804.1| Cro-like protein [Staphylococcus phage phiMR25]
 gi|62636371|gb|AAX91482.1| ORF085 [Staphylococcus phage 96]
 gi|62636735|gb|AAX91846.1| ORF072 [Staphylococcus phage 52A]
 gi|116235519|gb|ABJ88854.1| Cro/CI family transcription regulator [Staphylococcus phage 80]
 gi|189339039|dbj|BAG48103.1| Cro-like protein [Staphylococcus phage phiMR25]
          Length = 69

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/54 (20%), Positives = 30/54 (55%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++ R    M+Q+ + + LG+T Q V ++EK    +   +L  ++++  + + +
Sbjct: 10 VKVWRTNSNMTQQDVADKLGVTKQSVIRWEKDDAELKGLQLYALAKLFNTEVDY 63


>gi|300783560|ref|YP_003763851.1| XRE family transcriptional regulator [Amycolatopsis mediterranei
           U32]
 gi|299793074|gb|ADJ43449.1| XRE family transcriptional regulator [Amycolatopsis mediterranei
           U32]
          Length = 474

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/104 (20%), Positives = 36/104 (34%), Gaps = 5/104 (4%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+R  R    MSQ  L   L I+   + + E     +    L  I++       FF +
Sbjct: 7   GARLRHLRESRSMSQADLARVLEISPSYLNQIEHNSRPLTVPVLLRITQAFGVDTEFFAN 66

Query: 76  VSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKV 115
                      +   +E   +D ++T +  +L      I    V
Sbjct: 67  NDTSRLVADVKEALLDEALGID-VTTGELNELATNLPAIAQALV 109


>gi|294139287|ref|YP_003555265.1| hypothetical protein SVI_0516 [Shewanella violacea DSS12]
 gi|293325756|dbj|BAJ00487.1| hypothetical protein [Shewanella violacea DSS12]
          Length = 239

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/103 (18%), Positives = 39/103 (37%), Gaps = 3/103 (2%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G++++  R+  G SQ +L E  GI    + K E   +       + + + L   +  
Sbjct: 1   MTLGQQLKQFRVDRGFSQPELAELAGIEQSYLSKLENDKSIPSNDIFRALLKALTITVEE 60

Query: 73  F---FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
           F   FDV       I   +  +       + +   R ++ I  
Sbjct: 61  FIHRFDVMKDRFQLIQIPDIELKLAQQEQELIHNLRRYLYIAS 103


>gi|262044360|ref|ZP_06017423.1| DNA-binding protein [Klebsiella pneumoniae subsp. rhinoscleromatis
           ATCC 13884]
 gi|259038248|gb|EEW39456.1| DNA-binding protein [Klebsiella pneumoniae subsp. rhinoscleromatis
           ATCC 13884]
          Length = 165

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/100 (19%), Positives = 42/100 (42%), Gaps = 18/100 (18%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +++  R+    SQE+L E  G++ + +Q+ E G  R G   L  ++ V E  ++   ++
Sbjct: 10  NQVKQLRLQRAWSQEQLAEMAGLSVRTIQRIENGE-RPGLETLSALAAVFEVTVA---EI 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR 116
                 + +  +   +D               +I++ K R
Sbjct: 66  GGEARREDAPGQEASLDL--------------RIEEAKAR 91


>gi|326204985|ref|ZP_08194836.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
 gi|325984851|gb|EGD45696.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
          Length = 206

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 27/58 (46%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           G R++  R I  +SQE+LG+ LG+    +  +E          ++ ++E+      + 
Sbjct: 133 GIRLKRLRRIHNISQEELGKVLGVGRTAIANWETNQTEPTGENIKKLAELFRVTTDYL 190


>gi|297560997|ref|YP_003679971.1| XRE family transcriptional regulator [Nocardiopsis dassonvillei
          subsp. dassonvillei DSM 43111]
 gi|296845445|gb|ADH67465.1| transcriptional regulator, XRE family [Nocardiopsis dassonvillei
          subsp. dassonvillei DSM 43111]
          Length = 187

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 24/53 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R  R   G+S   L E  G++   + + E G  +  AS L  ++  L   +S
Sbjct: 13 LRELRRARGLSGGALAELSGVSRGMISRIENGEAQPTASLLGRLAAALGITLS 65


>gi|291287634|ref|YP_003504450.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
           DSM 12809]
 gi|290884794|gb|ADD68494.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
           DSM 12809]
          Length = 191

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/96 (22%), Positives = 36/96 (37%), Gaps = 12/96 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-- 72
           +  R++  R  L MSQ   G  +G  +  V ++E G     ++ + HI E  +    +  
Sbjct: 6   IADRLKELRKALDMSQTDFGRKIGKNYHSVMRWELGRVLPPSNVIVHICESFDVSPDWLK 65

Query: 73  ------FFDVSPTVCSDISSEENNVMDFISTPDGLQ 102
                 F +  P     I+  E    DF      LQ
Sbjct: 66  SGKGKMFLNSDPY----IAEAETAPYDFQQEKISLQ 97


>gi|162448725|ref|YP_001611092.1| Cro/CI family transcriptional regulator [Sorangium cellulosum 'So
          ce 56']
 gi|161159307|emb|CAN90612.1| transcriptional regulator, Cro/CI family [Sorangium cellulosum
          'So ce 56']
          Length = 92

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +   +R  R   G++QE+L E  GI  + +Q  E G   +    L  ++  L+    
Sbjct: 12 YIAANLRRLRQQRGITQEQLAEAAGIELRTMQAIEVGRQSMSLGTLVRLANALDVSPG 69


>gi|86157573|ref|YP_464358.1| XRE family transcriptional regulator [Anaeromyxobacter
          dehalogenans 2CP-C]
 gi|197121618|ref|YP_002133569.1| XRE family transcriptional regulator [Anaeromyxobacter sp. K]
 gi|220916382|ref|YP_002491686.1| transcriptional regulator, XRE family [Anaeromyxobacter
          dehalogenans 2CP-1]
 gi|85774084|gb|ABC80921.1| transcriptional regulator, XRE family [Anaeromyxobacter
          dehalogenans 2CP-C]
 gi|196171467|gb|ACG72440.1| transcriptional regulator, XRE family [Anaeromyxobacter sp. K]
 gi|219954236|gb|ACL64620.1| transcriptional regulator, XRE family [Anaeromyxobacter
          dehalogenans 2CP-1]
          Length = 69

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 25/54 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +R  R    +SQ+ L + +GI+   V   E+G        ++ +++ L  P +
Sbjct: 10 NVRRLRSKKNLSQKALADKVGISVSYVSMLERGQRSPPLETIEKMAKALGVPPA 63


>gi|37527570|ref|NP_930914.1| hypothetical protein plu3706 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|37527578|ref|NP_930922.1| hypothetical protein plu3715 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36787005|emb|CAE16079.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36787013|emb|CAE16087.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 120

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 30/68 (44%), Gaps = 1/68 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-FD 75
          +R+   R   G++Q+ L +  G+   Q+++YE G  +     ++ ++  L        FD
Sbjct: 5  ERLTTLRKERGLTQQALADMAGVAVLQIRRYEGGSAQPTLEVIRRLAISLGVSADMLVFD 64

Query: 76 VSPTVCSD 83
                S+
Sbjct: 65 EQERGPSE 72


>gi|83747823|ref|ZP_00944856.1| Transcriptional regulator, MerR family [Ralstonia solanacearum
          UW551]
 gi|207739254|ref|YP_002257647.1| hypothetical protein RSIPO_03955 [Ralstonia solanacearum IPO1609]
 gi|83725470|gb|EAP72615.1| Transcriptional regulator, MerR family [Ralstonia solanacearum
          UW551]
 gi|206592627|emb|CAQ59533.1| hypothetical protein RSIPO_03955 [Ralstonia solanacearum IPO1609]
          Length = 201

 Score = 49.8 bits (118), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/71 (14%), Positives = 26/71 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  ++  R    +S ++L    G++   + + E+ +     + L  ++  L   ++ F 
Sbjct: 20 VGMALQALRQRQRLSLDELSRRAGVSKSMLSQIERNLANPTVAVLWRLANALGVSLTDFL 79

Query: 75 DVSPTVCSDIS 85
                     
Sbjct: 80 AGGDGERPGTG 90


>gi|300932634|ref|ZP_07147890.1| XRE family transcriptional regulator [Corynebacterium resistens
          DSM 45100]
          Length = 88

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 4/74 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M   KK  +P+      R+++ R+   MS+ +L + + +  Q V   E+G +        
Sbjct: 1  MSPKKKPTSPIH----NRVKVLRIERDMSRAQLAQLIEVNPQTVGALERGDHSPSLDLAF 56

Query: 61 HISEVLESPISFFF 74
           I EV E P+   F
Sbjct: 57 RICEVFELPVEMVF 70


>gi|281490797|ref|YP_003352777.1| Cro/CI family transcriptional regulator [Lactococcus lactis
          subsp. lactis KF147]
 gi|281374555|gb|ADA64075.1| Transcriptional regulator, Cro/CI family [Lactococcus lactis
          subsp. lactis KF147]
          Length = 68

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          K++++ R+   MSQ  L + +G T Q +   E G           I  VL+  ++  F
Sbjct: 4  KKMKMARIEAEMSQADLADKVGATRQTIGLIESGKFNPSLRLCIDICRVLKKTLNDIF 61


>gi|268592540|ref|ZP_06126761.1| toxin-antitoxin system, antitoxin component, Xre family
           [Providencia rettgeri DSM 1131]
 gi|291311950|gb|EFE52403.1| toxin-antitoxin system, antitoxin component, Xre family
           [Providencia rettgeri DSM 1131]
          Length = 186

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/124 (17%), Positives = 42/124 (33%), Gaps = 8/124 (6%)

Query: 6   KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
            +P+P    + K +   R   G+S  +L    GI    + + E G        L  +   
Sbjct: 2   NLPSPPIELISKALVRERQKSGLSLSELSRKAGIAKSTLSQLESGSGNPSIETLWALCVA 61

Query: 66  LESPISFFFDVSPTVCS--------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
           L+ P +   +      +         +S+E  N + F+ +       R    +     R 
Sbjct: 62  LDIPFARLIEEKQEAVTVIRHGEAIPVSAEHANYLAFLLSSAPADSRRDIYTVVAQPGRD 121

Query: 118 KIIE 121
           +I E
Sbjct: 122 RISE 125


>gi|268679748|ref|YP_003304179.1| helix-turn-helix domain protein [Sulfurospirillum deleyianum DSM
          6946]
 gi|268617779|gb|ACZ12144.1| helix-turn-helix domain protein [Sulfurospirillum deleyianum DSM
          6946]
          Length = 88

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 9/66 (13%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG------ITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G+ ++  R   G++Q +LG  LG      I+  +V   +K  N      L  I+ +LE 
Sbjct: 20 IGRNVKKLRQKKGLTQMELGLALGHTGVGTISVSEVYYNKKHFN---LEHLYKIAHILEV 76

Query: 69 PISFFF 74
           I  FF
Sbjct: 77 DICEFF 82


>gi|227533383|ref|ZP_03963432.1| xre family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
 gi|227188949|gb|EEI69016.1| xre family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
          Length = 202

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 29/77 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N  K++   R+   M+Q  L E L ++   V  +E   N      +  I+ + E  +  
Sbjct: 1  MNFSKQLHQIRLAHQMTQVNLAEQLHVSRHTVSNWENDRNLPDLEMVTRIARIFEVSLDT 60

Query: 73 FFDVSPTVCSDISSEEN 89
               P +   +  +  
Sbjct: 61 LILDDPKLNEKLIQDSK 77


>gi|226807655|ref|YP_002791349.1| HipB [Enterobacter cloacae]
 gi|226809965|ref|YP_002791659.1| HipB [Enterobacter cloacae]
 gi|226425880|gb|ACO53973.1| HipB [Enterobacter cloacae]
 gi|226426191|gb|ACO54283.1| HipB [Enterobacter cloacae]
          Length = 98

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/50 (32%), Positives = 23/50 (46%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          R   G++Q+ L E LG+T Q   + E         RL  +  +L   ISF
Sbjct: 22 RKANGLTQKDLSERLGVTQQTYSRLEANPASASIERLFKVFSILGVKISF 71


>gi|170697588|ref|ZP_02888677.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          IOP40-10]
 gi|170137475|gb|EDT05714.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          IOP40-10]
          Length = 80

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 30/59 (50%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +PV + +G  IR  R    MSQE+L     +    + + E+G N V   RL+ I++ L 
Sbjct: 10 DPVLVALGHAIRRIRKERDMSQEQLALSAEVDMSYLGRVERGDNNVAVLRLKRIADALG 68


>gi|170016379|ref|YP_001727298.1| ABC transporter ATPase [Leuconostoc citreum KM20]
 gi|169803236|gb|ACA81854.1| ATPase component of ABC transporters with duplicated ATPase
          domains [Leuconostoc citreum KM20]
          Length = 299

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 27/57 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           ++ + R    +SQE L + L ++ Q V K+E G       +L  +S++    + F 
Sbjct: 7  SQLSVLRQRKRISQEVLAQKLFVSRQSVSKWENGDAEPDIDKLISLSDIFAVDLDFL 63


>gi|153810945|ref|ZP_01963613.1| hypothetical protein RUMOBE_01335 [Ruminococcus obeum ATCC 29174]
 gi|149832833|gb|EDM87916.1| hypothetical protein RUMOBE_01335 [Ruminococcus obeum ATCC 29174]
          Length = 71

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 30/57 (52%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RI+  R+   +SQ+K+GE L I+ +    YE G   +    L  +++  ++ I + 
Sbjct: 4  QRIQDLRIDSDLSQKKIGEILHISQRSYSHYETGSRNIPIEMLIRLADYYDTTIDYL 60


>gi|30019992|ref|NP_831623.1| transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|31415744|ref|NP_852484.1| Transcriptional regulator [Bacillus phage phBC6A51]
 gi|29895537|gb|AAP08824.1| Transcriptional regulator [Bacillus cereus ATCC 14579]
          Length = 112

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/111 (17%), Positives = 48/111 (43%), Gaps = 8/111 (7%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +++G +++  R   G + +++ + +G        YE    +  A  L  ++++ ++   F
Sbjct: 1   MDIGTQLKFLRNRRGWTMQEVADRIGKNDSTYSGYETNKRKPNAEVLVQLADIFDTTTDF 60

Query: 73  FFDVSPTVCSDISSEENNVMDFIST----PDGLQLNRYFIQIDDVKVRQKI 119
                     + +    NV DF+       DG+++     +I +V +RQ +
Sbjct: 61  IL----GRTENPNGLNFNVKDFLDQGRLHSDGVEITDEQAEIANVLLRQLL 107


>gi|330501217|ref|YP_004378086.1| XRE family transcriptional regulator [Pseudomonas mendocina
          NK-01]
 gi|328915503|gb|AEB56334.1| XRE family transcriptional regulator [Pseudomonas mendocina
          NK-01]
          Length = 182

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 6/75 (8%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
          ++VG R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1  MDVGVRLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLK---KVLSGIPMS 57

Query: 72 F--FFDVSPTVCSDI 84
             FF +     + I
Sbjct: 58 LVEFFSLDMEQENQI 72


>gi|315640497|ref|ZP_07895605.1| DNA-binding protein [Enterococcus italicus DSM 15952]
 gi|315483701|gb|EFU74189.1| DNA-binding protein [Enterococcus italicus DSM 15952]
          Length = 194

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N  K+++  R + G SQE L E + +T Q + K+E          L  +S + +  + 
Sbjct: 1  MNFSKQLKKYRELNGYSQEILAEKIYVTRQTISKWENDKTYPDIHNLIALSVLFDITLD 59


>gi|304314848|ref|YP_003849995.1| transcriptional regulator [Methanothermobacter marburgensis str.
          Marburg]
 gi|302588307|gb|ADL58682.1| predicted transcriptional regulator [Methanothermobacter
          marburgensis str. Marburg]
          Length = 182

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 30/67 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G R+R  R +  ++++++   L I  +  ++YE G   + AS L  I+  +   +  
Sbjct: 6  KEIGSRVRELRELSEITEDEMASYLNIDVETYRRYETGEEDIPASILFEIAHKMGVDMGL 65

Query: 73 FFDVSPT 79
                T
Sbjct: 66 LLTGEET 72


>gi|299065294|emb|CBJ36462.1| putative transcription regulator protein [Ralstonia solanacearum
          CMR15]
          Length = 109

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 30/78 (38%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +   P P+   +G+RI+L R     SQE L     +    +   E+G+       L +I 
Sbjct: 9  STSRPAPILSALGERIKLCRHAADKSQETLAFEALVDRTYISSIERGIANPSIETLANIC 68

Query: 64 EVLESPISFFFDVSPTVC 81
            L   ++  F     + 
Sbjct: 69 YALNVTLAELFGPMDGIS 86


>gi|294811530|ref|ZP_06770173.1| HTH_3 domain-containing protein [Streptomyces clavuligerus ATCC
           27064]
 gi|326440083|ref|ZP_08214817.1| hypothetical protein SclaA2_03409 [Streptomyces clavuligerus ATCC
           27064]
 gi|294324129|gb|EFG05772.1| HTH_3 domain-containing protein [Streptomyces clavuligerus ATCC
           27064]
          Length = 220

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 37/108 (34%), Gaps = 10/108 (9%)

Query: 23  RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
           R    M+Q ++ E L    Q V     G N       Q  ++     + +F     T  +
Sbjct: 91  RTGKRMTQTEVAEALKSNKQHVGNLRAGRNNPSIVLAQKYADFFGVDVGYFSAGPLTAVA 150

Query: 83  -------DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
                  D     ++    +     L+L R    + D +VRQ +  LV
Sbjct: 151 SCFGHTRDFLVLADDAPQVVEATANLRLLRA---LADRRVRQVVGRLV 195


>gi|189463133|ref|ZP_03011918.1| hypothetical protein BACCOP_03844 [Bacteroides coprocola DSM
          17136]
 gi|189430112|gb|EDU99096.1| hypothetical protein BACCOP_03844 [Bacteroides coprocola DSM
          17136]
          Length = 68

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 31/62 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++++  R    +S E+L +  G+  +Q+ + E+ ++    + L  ++  L   +  F 
Sbjct: 7  IGEKVKSLRTAKEISLEELADRTGLAVEQITRIEENIDIPSLAPLVKLARALGVRLGTFL 66

Query: 75 DV 76
          D 
Sbjct: 67 DD 68


>gi|160942173|ref|ZP_02089488.1| hypothetical protein CLOBOL_07061 [Clostridium bolteae ATCC
           BAA-613]
 gi|158435064|gb|EDP12831.1| hypothetical protein CLOBOL_07061 [Clostridium bolteae ATCC
           BAA-613]
          Length = 204

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/90 (15%), Positives = 33/90 (36%), Gaps = 21/90 (23%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++++  R+   ++Q++L E L ++   + K+E G        L+ IS      I      
Sbjct: 5   EKLQQLRIGKNLTQQQLAEQLYVSRTAISKWESGKGYPNIESLKCISRFFSITID----- 59

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                           + +S+ + + L   
Sbjct: 60  ----------------ELLSSEELITLAEA 73


>gi|317481961|ref|ZP_07940986.1| helix-turn-helix protein [Bifidobacterium sp. 12_1_47BFAA]
 gi|316916528|gb|EFV37925.1| helix-turn-helix protein [Bifidobacterium sp. 12_1_47BFAA]
          Length = 362

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 24/57 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            ++  R    ++QE+L   LG++ Q + K+E         +L  I ++    +   
Sbjct: 5  ANLQYLRAQRNLTQERLAMLLGVSRQAISKWESEKAYPEMDKLLMICDLFGCTLDDL 61


>gi|296453479|ref|YP_003660622.1| transcriptional regulator [Bifidobacterium longum subsp. longum
          JDM301]
 gi|296182910|gb|ADG99791.1| Predicted transcriptional regulator [Bifidobacterium longum
          subsp. longum JDM301]
          Length = 356

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 24/57 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            ++  R    ++QE+L   LG++ Q + K+E         +L  I ++    +   
Sbjct: 5  ANLQYLRAQRNLTQERLAMLLGVSRQAISKWESEKAYPEMDKLLMICDLFGCTLDDL 61


>gi|291517434|emb|CBK71050.1| Predicted transcriptional regulators [Bifidobacterium longum
          subsp. longum F8]
          Length = 356

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 24/57 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            ++  R    ++QE+L   LG++ Q + K+E         +L  I ++    +   
Sbjct: 5  ANLQYLRAQRNLTQERLAMLLGVSRQAISKWESEKAYPEMDKLLMICDLFGCTLDDL 61


>gi|257790508|ref|YP_003181114.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|257474405|gb|ACV54725.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
          Length = 64

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  G+ ++  R  L M+Q +L + LG++F  V ++E G     +   +   +  ES    
Sbjct: 1  MTFGEMVKYARKQLSMTQTELAKALGVSFATVNRWENGQVNPSSLAQKAFEDFCESSFIS 60

Query: 73 F 73
          F
Sbjct: 61 F 61


>gi|255324440|ref|ZP_05365557.1| transcriptional regulator, XRE family [Corynebacterium
          tuberculostearicum SK141]
 gi|255298346|gb|EET77646.1| transcriptional regulator, XRE family [Corynebacterium
          tuberculostearicum SK141]
          Length = 69

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 22/59 (37%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +R  R  L +SQ +L +  G++ Q +   E+G           I   L   +   F   
Sbjct: 8  VRKWRRWLELSQAELADKAGVSRQTIANIERGNYSPSVHLALDICHELGKTVEEIFGAE 66


>gi|227821987|ref|YP_002825958.1| putative transcriptional regulator, XRE family [Sinorhizobium
          fredii NGR234]
 gi|227340987|gb|ACP25205.1| putative transcriptional regulator, XRE family [Sinorhizobium
          fredii NGR234]
          Length = 466

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 30/65 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +G R+R  R  LG++Q  +   L ++   +   E+    V A  L  +++  +  +S 
Sbjct: 6  IYLGPRLRRLRKDLGLTQAHMAADLDVSPSYIALMERNQRPVTAEVLLRLAKAYKIDLSS 65

Query: 73 FFDVS 77
            + S
Sbjct: 66 LAEES 70


>gi|227545776|ref|ZP_03975825.1| possible transcriptional regulator [Bifidobacterium longum subsp.
          infantis ATCC 55813]
 gi|227213892|gb|EEI81731.1| possible transcriptional regulator [Bifidobacterium longum subsp.
          infantis ATCC 55813]
          Length = 362

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 24/57 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            ++  R    ++QE+L   LG++ Q + K+E         +L  I ++    +   
Sbjct: 5  ANLQYLRAQRNLTQERLAMLLGVSRQAISKWESEKAYPEMDKLLMICDLFGCTLDDL 61


>gi|291457121|ref|ZP_06596511.1| putative helix-turn-helix protein [Bifidobacterium breve DSM
          20213]
 gi|291380956|gb|EFE88474.1| putative helix-turn-helix protein [Bifidobacterium breve DSM
          20213]
          Length = 356

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 24/57 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            ++  R    ++QE+L   LG++ Q + K+E         +L  I ++    +   
Sbjct: 5  ANLQYLRAQRNLTQERLAMLLGVSRQAISKWESEKAYPEMDKLLMICDLFGCTLDDL 61


>gi|223039767|ref|ZP_03610052.1| repressor [Campylobacter rectus RM3267]
 gi|222878959|gb|EEF14055.1| repressor [Campylobacter rectus RM3267]
          Length = 82

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 29/54 (53%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++  R  +G++Q++  + LGI+ +  Q+YE   + +   +L  IS+ L   + 
Sbjct: 7  NLKEVRDKIGLTQKETADKLGISLRTYQRYELDGDGIDYKKLLEISKKLGVSMD 60


>gi|187934809|ref|YP_001885121.1| transcriptional regulator [Clostridium botulinum B str. Eklund
          17B]
 gi|187722962|gb|ACD24183.1| transcriptional regulator [Clostridium botulinum B str. Eklund
          17B]
          Length = 148

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 27/65 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++  R  L ++QE+L   LGI+   +   E+     G   L  +++     + +    S
Sbjct: 5  KVKYLRNNLNLTQEELANKLGISQSSIGMIERNKRPAGRKMLIKLADFFNVTVDYLLSDS 64

Query: 78 PTVCS 82
              S
Sbjct: 65 DENNS 69


>gi|220911413|ref|YP_002486722.1| XRE family transcriptional regulator [Arthrobacter
          chlorophenolicus A6]
 gi|219858291|gb|ACL38633.1| transcriptional regulator, XRE family [Arthrobacter
          chlorophenolicus A6]
          Length = 198

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 25/57 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG R++  R+   ++   L    GI+   + + E G  R     L  +++  + P+ 
Sbjct: 12 VGPRLKALRLRRDVTLTALAAATGISVSTLSRLESGQRRPNLELLLPLAQAHQVPLD 68


>gi|119475767|ref|ZP_01616120.1| hypothetical protein GP2143_18146 [marine gamma proteobacterium
          HTCC2143]
 gi|119451970|gb|EAW33203.1| hypothetical protein GP2143_18146 [marine gamma proteobacterium
          HTCC2143]
          Length = 279

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 27/52 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          G+ ++  R +  +SQE+L   L  + + + + E G +R   +  Q I+  LE
Sbjct: 11 GRFLKFWRGVHSLSQEELAHRLDSSTRHISRLENGSSRPSENMAQDIAAALE 62


>gi|111017888|ref|YP_700860.1| transcriptional regulator [Rhodococcus jostii RHA1]
 gi|110817418|gb|ABG92702.1| possible transcriptional regulator [Rhodococcus jostii RHA1]
          Length = 211

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 29/65 (44%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  + +RIR  R+  G S + L     ++   + + E G  R+   +L  I+  L + +
Sbjct: 25 LDSVIRQRIRGLRLARGWSLDVLAARCFLSPSTLSRIETGHRRIALDQLVPIARALGTTL 84

Query: 71 SFFFD 75
              +
Sbjct: 85 DQLVE 89


>gi|108758632|ref|YP_630926.1| putative transcriptional regulator [Myxococcus xanthus DK 1622]
 gi|108462512|gb|ABF87697.1| putative transcriptional regulator [Myxococcus xanthus DK 1622]
          Length = 116

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 30/87 (34%), Gaps = 2/87 (2%)

Query: 15 VGKRIRLRRMIL--GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G+RIR  R       +QE+L E   I+   +   E+G        L  ++  L   +  
Sbjct: 8  IGQRIRELRTQRPERWTQEELAERAQISVSFLSMIERGERVPHVETLAALANALGVSLGE 67

Query: 73 FFDVSPTVCSDISSEENNVMDFISTPD 99
           F  +    +        + DF     
Sbjct: 68 LFTGTEQTLAQTEDLLRPLSDFARARG 94


>gi|92112522|ref|YP_572450.1| XRE family transcriptional regulator [Chromohalobacter salexigens
          DSM 3043]
 gi|91795612|gb|ABE57751.1| transcriptional regulator, XRE family [Chromohalobacter
          salexigens DSM 3043]
          Length = 178

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 24/65 (36%), Gaps = 1/65 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +P+P  + V   +R  R   G S   L E   I+   + + E G        L  ++  L
Sbjct: 1  MPSPTPVIV-ANLRRLREARGYSLSALAERAAISKSTLSQLEAGHGNPTIETLWTLANTL 59

Query: 67 ESPIS 71
              S
Sbjct: 60 GVTFS 64


>gi|78221357|ref|YP_383104.1| putative prophage repressor [Geobacter metallireducens GS-15]
 gi|78192612|gb|ABB30379.1| putative prophage repressor [Geobacter metallireducens GS-15]
          Length = 216

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/126 (16%), Positives = 51/126 (40%), Gaps = 14/126 (11%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  +  +P P   + G+RI+  R+  G++Q++  + LGI    +   E+       + L 
Sbjct: 1   MAVSPIVPTP---STGRRIKEIRINKGLTQKEFADSLGIVQGFLSGIEREKKTPSDTLLI 57

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTP--DGLQLNR----YFI-QIDDV 113
            +  + E   S+      +   ++           ++P  +G+ L       F  ++ + 
Sbjct: 58  ALCNLYEISPSWL----ASGEGEMYRTPRRAGQPATSPGGEGIPLLERIGPEFPHRVGED 113

Query: 114 KVRQKI 119
            +R ++
Sbjct: 114 DIRDRV 119


>gi|53690271|ref|ZP_00121920.2| COG1396: Predicted transcriptional regulators [Bifidobacterium
          longum DJO10A]
 gi|189439959|ref|YP_001955040.1| Xre family transcriptional regulator [Bifidobacterium longum
          DJO10A]
 gi|189428394|gb|ACD98542.1| Xre-type transcriptional regulator [Bifidobacterium longum
          DJO10A]
          Length = 362

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 24/57 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            ++  R    ++QE+L   LG++ Q + K+E         +L  I ++    +   
Sbjct: 5  ANLQYLRAQRNLTQERLAMLLGVSRQAISKWESEKAYPEMDKLLMICDLFGCTLDDL 61


>gi|304398075|ref|ZP_07379950.1| transcriptional regulator, XRE family [Pantoea sp. aB]
 gi|304354361|gb|EFM18733.1| transcriptional regulator, XRE family [Pantoea sp. aB]
          Length = 155

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 3/73 (4%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R +  R+    SQE+L E  G++ + VQ+ E G  R G   L  ++ V E  ++     
Sbjct: 5  NRFKEHRLARAWSQEQLAEMAGLSTRTVQRIENGE-RPGLETLSALAAVFEVNVADL--T 61

Query: 77 SPTVCSDISSEEN 89
           P    D + ++ 
Sbjct: 62 GPQNGEDQALDQR 74


>gi|261345533|ref|ZP_05973177.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
 gi|282566582|gb|EFB72117.1| toxin-antitoxin system, antitoxin component, Xre family
          [Providencia rustigianii DSM 4541]
          Length = 78

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 32/60 (53%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G+  R +R+   ++  ++ + + ++ QQ+ +YE+GV  +    +    EVL+   
Sbjct: 4  INAVLGEFFRSKRISESLTGIEVAKKMSVSQQQISRYERGVCCLSIETILRYCEVLDISP 63


>gi|218510506|ref|ZP_03508384.1| XRE family transcriptional regulator [Rhizobium etli Brasil 5]
          Length = 468

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/132 (16%), Positives = 52/132 (39%), Gaps = 8/132 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G R+R  R  LG++Q  +   L ++   V   E     V A  L  ++   +  +S 
Sbjct: 9   VYLGPRLRRLRKDLGLTQAMMASDLEVSPSYVALMEGNQRPVTAELLLRLARTYKIDMSV 68

Query: 73  FFDVS-PTVCSDISSEENNVM--DFISTP-DGLQLNRYFIQIDDVKVRQKIIELVR--SI 126
             D S P +   + S   + +  D   +P +   +   F    +  +R  +    +   +
Sbjct: 69  LADDSTPELLGRLQSTIKDPIFADIEISPLEAADVLSSFPGFAEAMLR--LYTAYKEEQL 126

Query: 127 VSSEKKYRTIEE 138
             ++++   ++ 
Sbjct: 127 ALADQRQVALDR 138


>gi|139438088|ref|ZP_01771641.1| Hypothetical protein COLAER_00629 [Collinsella aerofaciens ATCC
          25986]
 gi|133776285|gb|EBA40105.1| Hypothetical protein COLAER_00629 [Collinsella aerofaciens ATCC
          25986]
          Length = 275

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 31/66 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +++   R    ++QE+L   L +T Q V ++E+G    G   ++ I+ V   P+    ++
Sbjct: 5  EKLIAVRRAHHLTQEQLATKLFVTRQAVSRWERGEVTPGIDMMKLIAAVTGEPLPHLLEM 64

Query: 77 SPTVCS 82
              C 
Sbjct: 65 PEHYCQ 70


>gi|323703832|ref|ZP_08115468.1| transcriptional regulator, XRE family [Desulfotomaculum
          nigrificans DSM 574]
 gi|323531189|gb|EGB21092.1| transcriptional regulator, XRE family [Desulfotomaculum
          nigrificans DSM 574]
          Length = 70

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/54 (20%), Positives = 28/54 (51%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +++  R   G++Q KL E  G++   + + E+G  +     ++ +++ L   +S
Sbjct: 2  KLQKYREDQGLTQAKLAEKSGVSQAYICELEQGKKQPSVFIVKKLAKALGISVS 55


>gi|299823094|ref|ZP_07054979.1| XRE family transcriptional regulator [Listeria grayi DSM 20601]
 gi|307069497|ref|YP_003877975.1| transcriptional regulator [Listeria grayi]
 gi|299815503|gb|EFI82742.1| XRE family transcriptional regulator [Listeria grayi DSM 20601]
 gi|306480778|emb|CBV37319.1| transcriptional regulator [Listeria grayi]
          Length = 67

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 24/56 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++  R    +SQ+ L E L ++ Q +   EKG           I++  E+ I   F
Sbjct: 7  VKQLREDRNLSQKDLAEALEVSRQTIHAIEKGKYNPSLELSLCIAKYFETSIENIF 62


>gi|298345338|ref|YP_003718025.1| transcriptional regulator [Mobiluncus curtisii ATCC 43063]
 gi|315655757|ref|ZP_07908655.1| XRE family transcriptional regulator [Mobiluncus curtisii ATCC
           51333]
 gi|298235399|gb|ADI66531.1| transcriptional regulator [Mobiluncus curtisii ATCC 43063]
 gi|315489821|gb|EFU79448.1| XRE family transcriptional regulator [Mobiluncus curtisii ATCC
           51333]
          Length = 112

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +R+R  R   G+SQ +L + +G T Q +   E        +  + I + L   +   F
Sbjct: 53  ERMRAARKEAGLSQAELAKDVGATRQTICSIEASNYNPSLNLCKLICKKLGKTLDELF 110


>gi|225017776|ref|ZP_03706968.1| hypothetical protein CLOSTMETH_01705 [Clostridium methylpentosum
          DSM 5476]
 gi|224949427|gb|EEG30636.1| hypothetical protein CLOSTMETH_01705 [Clostridium methylpentosum
          DSM 5476]
          Length = 106

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 25/60 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R +  R    ++Q ++ E LGIT       E G      + L  ++ + + PI   FD  
Sbjct: 2  RFKELRNKRDLTQLEVAEYLGITRAAYTNIENGKREADYNTLTMLARLYKVPIGDLFDFD 61


>gi|224024015|ref|ZP_03642381.1| hypothetical protein BACCOPRO_00732 [Bacteroides coprophilus DSM
          18228]
 gi|224017237|gb|EEF75249.1| hypothetical protein BACCOPRO_00732 [Bacteroides coprophilus DSM
          18228]
          Length = 106

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          N+G  IR  R+  G++QE+LGE +G+   Q+ K E+G   +    +  + + L    S
Sbjct: 7  NIGLMIRNERLRKGLTQEELGERVGVGKAQISKIERGK-GLTIKTVTKVLDALGMSAS 63


>gi|254488462|ref|ZP_05101667.1| DNA-binding protein [Roseobacter sp. GAI101]
 gi|214045331|gb|EEB85969.1| DNA-binding protein [Roseobacter sp. GAI101]
          Length = 190

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 11/71 (15%), Positives = 31/71 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R   G++ + L + L  +   + + E+ ++    + L+ +++ L   +S  F
Sbjct: 12 LGADLRALRKARGLTLQGLADRLNRSVGWLSQVERDLSDPAITDLRQMAQALGVSVSMLF 71

Query: 75 DVSPTVCSDIS 85
            +     +  
Sbjct: 72 RHAAAPVHEAG 82


>gi|210614889|ref|ZP_03290388.1| hypothetical protein CLONEX_02602 [Clostridium nexile DSM 1787]
 gi|210150531|gb|EEA81540.1| hypothetical protein CLONEX_02602 [Clostridium nexile DSM 1787]
          Length = 42

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/40 (37%), Positives = 23/40 (57%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN 52
          + +G  IR  R    M+QE++   LG+T   V K+E GV+
Sbjct: 1  MQIGTVIRKYRKEKNMTQEEMASYLGVTAPAVNKWENGVS 40


>gi|229917145|ref|YP_002885791.1| XRE family transcriptional regulator [Exiguobacterium sp. AT1b]
 gi|229468574|gb|ACQ70346.1| transcriptional regulator, XRE family [Exiguobacterium sp. AT1b]
          Length = 69

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 27/64 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    ++Q  L E +G+T Q +   EKG          HI+ V E P+   F +
Sbjct: 5  NRVKELRARHQLTQGDLAEKVGVTRQTIISLEKGSYTPSLMLAMHIARVFEEPVESIFTI 64

Query: 77 SPTV 80
              
Sbjct: 65 EEES 68


>gi|254249104|ref|ZP_04942424.1| Helix-turn-helix protein [Burkholderia cenocepacia PC184]
 gi|124875605|gb|EAY65595.1| Helix-turn-helix protein [Burkholderia cenocepacia PC184]
          Length = 109

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 23/58 (39%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           + G  +R  R     SQE+L E  G+    V + E+G           I+   +  IS
Sbjct: 43  HFGATVRKLREARTWSQEQLAEHAGLNRSYVGEIERGEAIASIVTADKIARAFDVSIS 100


>gi|114798978|ref|YP_761236.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
 gi|114739152|gb|ABI77277.1| DNA-binding protein [Hyphomonas neptunium ATCC 15444]
          Length = 69

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 29/56 (51%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          GKR+R  R   G SQE+  +  G+    V   E+GV     S L+ +++ L+  +S
Sbjct: 8  GKRLRQLREERGWSQEEFADRAGLHRTYVSAVERGVRNPTLSVLERLAKALDIKLS 63


>gi|106879454|emb|CAJ20007.1| putative DNA binding regulatory protein [Streptomyces cattleya]
          Length = 185

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 24/61 (39%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG ++R  R   G+S  +L    G++   +   E G        +  I+  L  P+  
Sbjct: 9  VTVGAQVRRLREFRGLSVAELSRLSGVSRATLSMLESGRGNPTIETVSAIAVALRLPLGD 68

Query: 73 F 73
           
Sbjct: 69 L 69


>gi|91778751|ref|YP_553959.1| XRE family transcriptional regulator [Burkholderia xenovorans
          LB400]
 gi|91691411|gb|ABE34609.1| transcriptional regulator, XRE family [Burkholderia xenovorans
          LB400]
          Length = 190

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 25/63 (39%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          N +D  + +R+R  R     S + L    G++   + + E       AS L  +      
Sbjct: 9  NAIDRRIAQRLRALRAERNWSLDDLARLSGVSRATLSRLENAAVSPTASVLGKLCVAYGL 68

Query: 69 PIS 71
          P+S
Sbjct: 69 PMS 71


>gi|332685598|ref|YP_004455372.1| XRE family transcriptional regulator [Melissococcus plutonius
          ATCC 35311]
 gi|332369607|dbj|BAK20563.1| transcriptional regulator, XRE family [Melissococcus plutonius
          ATCC 35311]
          Length = 193

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/59 (16%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + + K ++ +R   G +Q+++ + L I+ Q +  +E   +      L  +S+  +  + 
Sbjct: 1  MLLSKVLKKKRQERGETQQQVADMLHISRQSISNWENNKSYPDVPTLIELSQYFDFSLD 59


>gi|325264148|ref|ZP_08130880.1| putative transcriptional regulator, XRE family with cupin sensor
          domain protein [Clostridium sp. D5]
 gi|324030632|gb|EGB91915.1| putative transcriptional regulator, XRE family with cupin sensor
          domain protein [Clostridium sp. D5]
          Length = 189

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 32/78 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG +IR  R    ++ ++LG+  G++   +   E+         LQ I  VLE  +    
Sbjct: 17 VGGKIRALRKEKDITLKQLGKETGLSIGYLSNLERDACSPTLDNLQKICGVLEISLIELL 76

Query: 75 DVSPTVCSDISSEENNVM 92
          D        I  EE  V+
Sbjct: 77 DGMNQGRRVIRKEERKVV 94


>gi|290962090|ref|YP_003493272.1| transcriptional regulator [Streptomyces scabiei 87.22]
 gi|260651616|emb|CBG74740.1| putative transcriptional regulatory protein [Streptomyces scabiei
          87.22]
          Length = 190

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/75 (16%), Positives = 25/75 (33%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + ++  R   G + + L    G++   + + E+         +  I + L   I+   D 
Sbjct: 13 RNVKRWRTERGFTLDALASRAGVSRGMLIQIEQARTNPSIGTVVKIGDALGVSITTLLDY 72

Query: 77 SPTVCSDISSEENNV 91
                 I   E  V
Sbjct: 73 ERGPRVRIVPAEQVV 87


>gi|239631261|ref|ZP_04674292.1| predicted protein [Lactobacillus paracasei subsp. paracasei
          8700:2]
 gi|239525726|gb|EEQ64727.1| predicted protein [Lactobacillus paracasei subsp. paracasei
          8700:2]
          Length = 222

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  G+++   R    M+QE L   L +T Q +  +E+  +    + L  +S+V ++ + 
Sbjct: 21 MKFGEQLAALRKHRTMTQEDLAGQLMVTRQTISSWEREKSFPDLTMLLQLSKVFDTSLD 79


>gi|154484771|ref|ZP_02027219.1| hypothetical protein EUBVEN_02489 [Eubacterium ventriosum ATCC
          27560]
 gi|149734619|gb|EDM50536.1| hypothetical protein EUBVEN_02489 [Eubacterium ventriosum ATCC
          27560]
          Length = 70

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 28/58 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +GK+++  +   G +Q+ +   + +    +   E G  ++  + L ++  VL + + +
Sbjct: 9  IGKKLKEIQTHKGFTQKFVASSVKVNTSHISNIENGKVKISLTTLVNVCNVLGTTVDY 66


>gi|125623644|ref|YP_001032127.1| hypothetical protein llmg_0793 [Lactococcus lactis subsp.
          cremoris MG1363]
 gi|124492452|emb|CAL97394.1| CI [Lactococcus lactis subsp. cremoris MG1363]
 gi|300070411|gb|ADJ59811.1| hypothetical protein LLNZ_04110 [Lactococcus lactis subsp.
          cremoris NZ9000]
          Length = 165

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/82 (15%), Positives = 31/82 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++  R    +SQ+ L + +G T   + ++E G        +  +  +L          
Sbjct: 8  ERLKEARKAANLSQQALADKIGRTKSTISRWESGERNPKMFEMVELENILGIQARDLMFG 67

Query: 77 SPTVCSDISSEENNVMDFISTP 98
             +   I  + + V   ++ P
Sbjct: 68 EQEITDTILPKISQVSSELTKP 89


>gi|153002768|ref|YP_001368449.1| XRE family transcriptional regulator [Shewanella baltica OS185]
 gi|160877511|ref|YP_001556827.1| XRE family transcriptional regulator [Shewanella baltica OS195]
 gi|151367386|gb|ABS10386.1| transcriptional regulator, XRE family [Shewanella baltica OS185]
 gi|160863033|gb|ABX51567.1| transcriptional regulator, XRE family [Shewanella baltica OS195]
 gi|315269711|gb|ADT96564.1| helix-turn-helix domain protein [Shewanella baltica OS678]
          Length = 68

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          I  G ++R  R  LG+SQ+K+     I    V + E+G   +   +   ++EVL   I
Sbjct: 6  IQFGAKLREERKRLGISQDKMALLAEIDRSYVGRIERGEVNITLEKAYQLAEVLGCDI 63


>gi|146300851|ref|YP_001195442.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
          UW101]
 gi|146155269|gb|ABQ06123.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
          UW101]
          Length = 121

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 28/53 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           I++ R +   +QE +   LGIT     K EKG + V   +L+ I++V E  +
Sbjct: 8  NIKIIRELKNYTQEYMALRLGITQAGYSKIEKGSSTVSFEKLEEIAQVFEMDV 60


>gi|77412497|ref|ZP_00788797.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae CJB111]
 gi|77161448|gb|EAO72459.1| transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae CJB111]
          Length = 358

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 31/69 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I L+R  +GM+QE L + L +T   + K+E          L  ++ + +  +    
Sbjct: 2  LGENIYLQRTQIGMTQENLSDYLHLTKTTISKWENNQAXPDIDYLILMANLFDISLDDLV 61

Query: 75 DVSPTVCSD 83
              T+  D
Sbjct: 62 GYQKTLSDD 70


>gi|317491327|ref|ZP_07949763.1| cupin domain-containing protein [Enterobacteriaceae bacterium
          9_2_54FAA]
 gi|316920874|gb|EFV42197.1| cupin domain-containing protein [Enterobacteriaceae bacterium
          9_2_54FAA]
          Length = 185

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 28/59 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GKR+   R  LG+SQ +  E  G+T   +   E+       S LQ + +V    +S FF
Sbjct: 9  GKRLSHIRQQLGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFF 67


>gi|296156511|ref|ZP_06839349.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
 gi|295893110|gb|EFG72890.1| transcriptional regulator, XRE family [Burkholderia sp. Ch1-1]
          Length = 285

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 3/66 (4%)

Query: 5  KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
          K  P P D  +G  +R  R I G+SQ  L    G++ + +   E G +      L  I++
Sbjct: 8  KNAP-PND--LGVLLRHWRDIRGISQLDLSFRAGVSQRHISFIESGRSAPSRQMLMDIAQ 64

Query: 65 VLESPI 70
           L+ P+
Sbjct: 65 TLDIPL 70


>gi|239927788|ref|ZP_04684741.1| hypothetical protein SghaA1_06176 [Streptomyces ghanaensis ATCC
          14672]
          Length = 293

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 25/56 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG  +R  R    +SQ +L      + + +   E G +R     +  ++E L+ P+
Sbjct: 35 VGPLLRAWREQRRISQLELALRADSSARHISFIETGRSRPSEEMVLRLAEHLDVPV 90


>gi|258517409|ref|YP_003193631.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257781114|gb|ACV65008.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
          Length = 218

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 24/56 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI+  R  L ++Q++  + L I    +   EKG      S  + I      
Sbjct: 1  MAIGERIKSLRKFLKLTQQQFADALDIDQGHIAGIEKGSKNPSKSLQKVICLTFYV 56


>gi|197303602|ref|ZP_03168640.1| hypothetical protein RUMLAC_02330 [Ruminococcus lactaris ATCC
          29176]
 gi|197297336|gb|EDY31898.1| hypothetical protein RUMLAC_02330 [Ruminococcus lactaris ATCC
          29176]
          Length = 255

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I   R+  G+SQ+ L   + +T Q V ++E G        L+ +S+  +  I+
Sbjct: 7  IYGLRVKKGLSQDALARKVMVTRQAVSRWENGETVPNTETLKLLSKEFDVSIN 59


>gi|170728343|ref|YP_001762369.1| XRE family transcriptional regulator [Shewanella woodyi ATCC
          51908]
 gi|169813690|gb|ACA88274.1| transcriptional regulator, XRE family [Shewanella woodyi ATCC
          51908]
          Length = 68

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          I  G ++R +R  LG+SQ+KL     I      + E+G   +   +   ++EVL   +
Sbjct: 6  IQFGLKLREKRKELGISQDKLALLAEIDRSYAGRIERGEVNITLEKAYQLAEVLGCEV 63


>gi|116695165|ref|YP_840741.1| XRE family transcriptional regulator [Ralstonia eutropha H16]
 gi|113529664|emb|CAJ96011.1| transcriptional regulator, XRE-family [Ralstonia eutropha H16]
          Length = 300

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 22/52 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +R  R   G SQ  L    G++ + +   E G  R     +  ++E L  P+
Sbjct: 21 LRYWRSKRGYSQLALSLAAGVSQRHISFLESGRARPSREMVLALAERLGVPL 72


>gi|19746131|ref|NP_607267.1| repressor protein [Streptococcus pyogenes MGAS8232]
 gi|19748307|gb|AAL97766.1| putative repressor protein [Streptococcus pyogenes MGAS8232]
          Length = 232

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G +++  R+  G++Q +LG  L +    +  +EKG N      L  +  +       F
Sbjct: 4  GHQLKTARLSKGITQSELGRLLHVNKMTISNWEKGKNIPNEKHLNALLHLFNVTSDCF 61


>gi|288574560|ref|ZP_06392917.1| transcriptional regulator, XRE family [Dethiosulfovibrio
          peptidovorans DSM 11002]
 gi|288570301|gb|EFC91858.1| transcriptional regulator, XRE family [Dethiosulfovibrio
          peptidovorans DSM 11002]
          Length = 134

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 25/56 (44%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G RI+L R  LGM+Q +L E   I+   VQ  E          L  + ++L+    
Sbjct: 27 GLRIKLLRESLGMTQLELAEKADISRTYVQALEGNRKTPSVKLLGKLGDILKVDPG 82


>gi|295838058|ref|ZP_06824991.1| DNA-binding protein [Streptomyces sp. SPB74]
 gi|197699989|gb|EDY46922.1| DNA-binding protein [Streptomyces sp. SPB74]
          Length = 400

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 50/119 (42%), Gaps = 13/119 (10%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS---- 71
           G RI+  R    ++Q+ L +  G+++  V K EK +  +       I+  L   ++    
Sbjct: 16  GTRIKRLRQERHLTQKALADLAGLSYSTVTKTEKALIPLTPHVTACIARALRVDVAAITG 75

Query: 72  --FFFDVSPTVCS---DISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRS 125
             ++ ++             E  +V D  + PD     R + Q+D     ++++ LVR+
Sbjct: 76  QPYYTELRQDELDVLIRPIREALDVYDLGADPDVHP--RPYEQLDSET--EELLGLVRA 130


>gi|229581606|ref|YP_002840005.1| transcriptional regulator, XRE family [Sulfolobus islandicus
           Y.N.15.51]
 gi|228012322|gb|ACP48083.1| transcriptional regulator, XRE family [Sulfolobus islandicus
           Y.N.15.51]
          Length = 164

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/82 (18%), Positives = 40/82 (48%), Gaps = 1/82 (1%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+  R  LG+SQ++L + L ++   ++++E G  +   S+ + + ++L   +    + + 
Sbjct: 82  IKNAREQLGISQQQLAQKLKVSENIIKRFESGKLKPTISQARQLEKILGIKLVTPLE-NE 140

Query: 79  TVCSDISSEENNVMDFISTPDG 100
               +    E  + D ++  +G
Sbjct: 141 ESEKEFDETELTLGDVVNIKEG 162


>gi|94990904|ref|YP_599004.1| Cro/CI family transcriptional regulator [Streptococcus pyogenes
          MGAS10270]
 gi|94544412|gb|ABF34460.1| Transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          MGAS10270]
          Length = 413

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 29/65 (44%), Gaps = 11/65 (16%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI-----------SEVLE 67
          ++  R   G+ Q++  +C+GI+   + +YE G  ++   + Q +           S  L+
Sbjct: 6  LKKFRKKSGLKQKEFAKCIGISQAMLSQYESGKKKLSLEKFQEMKTHFGYLTDNDSSRLQ 65

Query: 68 SPISF 72
            I +
Sbjct: 66 VTIDY 70


>gi|85373672|ref|YP_457734.1| hypothetical protein ELI_04225 [Erythrobacter litoralis HTCC2594]
 gi|84786755|gb|ABC62937.1| hypothetical protein ELI_04225 [Erythrobacter litoralis HTCC2594]
          Length = 207

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 28/53 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +   I++ R+  G +Q++LGE +G+    + K E G   +  S L  I+  L+
Sbjct: 8  IAASIKVARIAKGFTQKQLGERVGLPQSHISKIEGGNVDLQISSLVEIARALD 60


>gi|78355603|ref|YP_387052.1| MerR family transcriptional regulator [Desulfovibrio
          desulfuricans subsp. desulfuricans str. G20]
 gi|78218008|gb|ABB37357.1| transcriptional regulator, MerR family [Desulfovibrio
          desulfuricans subsp. desulfuricans str. G20]
          Length = 189

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 26/63 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G RI   R   GM++E+L E  G+    +   E+         LQ I+  L   +  F 
Sbjct: 6  LGARICKFREERGMTREELAEAAGLGADFITALEEEDLYPSIGPLQKIARALNVRLGTFM 65

Query: 75 DVS 77
          D  
Sbjct: 66 DDE 68


>gi|319936190|ref|ZP_08010610.1| hypothetical protein HMPREF9488_01442 [Coprobacillus sp. 29_1]
 gi|319808764|gb|EFW05297.1| hypothetical protein HMPREF9488_01442 [Coprobacillus sp. 29_1]
          Length = 84

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 30/60 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+R++  R+  G+SQ ++ E L ++   V +YE         +L   S    + + +
Sbjct: 1  MSIGERLKTLRLEAGLSQRQVAETLKMSKPIVSQYESNQRTPSLGKLIRFSRFYNASLDY 60


>gi|304390894|ref|ZP_07372846.1| XRE family transcriptional regulator [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
 gi|304325777|gb|EFL93023.1| XRE family transcriptional regulator [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
          Length = 112

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +R+R  R   G+SQ +L + +G T Q +   E        +  + I + L   +   F
Sbjct: 53  ERMRAARKEAGLSQAELAKDVGATRQTICSIEASNYNPSLNLCKLICKKLGKTLDELF 110


>gi|298387797|ref|ZP_06997347.1| DNA-binding protein [Bacteroides sp. 1_1_14]
 gi|298259402|gb|EFI02276.1| DNA-binding protein [Bacteroides sp. 1_1_14]
          Length = 159

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 33/145 (22%), Positives = 59/145 (40%), Gaps = 22/145 (15%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G  IR  R+   M+QE L + + ++   V KYE  +  +    L   S  L+ P   
Sbjct: 11  VHHGHNIRRFRIEKNMNQEVLSQLVHLSQSAVSKYE-QMRVIDDEMLHRFSRALDVP--- 66

Query: 73  FFDVSPTVCSDISS---EENNVMDFISTPDGLQL----NRYFIQIDDVKV--R------- 116
            F+   ++  D  +   E N V D      G ++     + + +  D  V  R       
Sbjct: 67  -FEYLKSLEEDAQTVVFENNTVNDSEQYTGGAKISLGTVKSYTEDSDNSVDNRVNNFNPI 125

Query: 117 QKIIELVRSIVSS-EKKYRTIEEEC 140
           +KI EL   ++   ++KY  +E   
Sbjct: 126 EKITELYERLLKEKDEKYAALERRL 150


>gi|297163316|gb|ADI13028.1| putative transcriptional regulator, XRE family protein
          [Streptomyces bingchenggensis BCW-1]
          Length = 101

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 22/54 (40%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          + G  ++  R   GMSQ  L   LG++  ++ + E G +      +      L 
Sbjct: 22 HWGAFLKKARRSRGMSQRALARELGVSQARIAQIENGASTPQIDTMAAYITALG 75


>gi|292491070|ref|YP_003526509.1| hypothetical protein Nhal_0949 [Nitrosococcus halophilus Nc4]
 gi|291579665|gb|ADE14122.1| helix-turn-helix domain protein [Nitrosococcus halophilus Nc4]
          Length = 253

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 31/68 (45%), Gaps = 3/68 (4%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHISEVLESPIS 71
          +N+G+R++  R+   M+Q +L E  G+  Q + K E G  R    S +  +++ L     
Sbjct: 1  MNLGERLKKARLEANMTQRQLAETSGVKQQMISKLEVG--RASETSDIVSLAKALGVRSE 58

Query: 72 FFFDVSPT 79
          +       
Sbjct: 59 WLDSGEEP 66



 Score = 45.2 bits (106), Expect = 0.003,   Method: Composition-based stats.
 Identities = 16/100 (16%), Positives = 33/100 (33%), Gaps = 1/100 (1%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +   ++  R   G SQ +L   + +  Q +Q+ E G  +     L  ++ V    +   
Sbjct: 72  YIADTVKRLREEQGWSQSELARRVKVKPQNIQQLEDGTVK-QPRYLMELARVFGVTVEEL 130

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
               P    + + E    +  +      +  R    I D 
Sbjct: 131 SSGGPRSKKEETPEYVLRLSRLIASASPEKIRAIESIIDA 170


>gi|289435861|ref|YP_003465733.1| Lambda repressor-like, DNA-binding domain protein [Listeria
          seeligeri serovar 1/2b str. SLCC3954]
 gi|289172105|emb|CBH28651.1| Lambda repressor-like, DNA-binding domain protein [Listeria
          seeligeri serovar 1/2b str. SLCC3954]
          Length = 76

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 25/51 (49%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          I+ +R   G SQ+++ E L IT Q + K+EKG++R        +       
Sbjct: 7  IQTKRTSCGHSQKEVAEHLHITQQSLSKWEKGISRPSIENTLRLLHFYRCS 57


>gi|258509881|ref|YP_003172632.1| transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|257149808|emb|CAR88781.1| Transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|259651145|dbj|BAI43307.1| phage transcriptional regulator [Lactobacillus rhamnosus GG]
          Length = 203

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 4/78 (5%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGIT---FQQVQKYEKGVNRVGASRLQHISE 64
          PN   +++G+RI+  R+  G + E+    +G+T      V ++E+G++   A  ++ I+ 
Sbjct: 7  PNSH-LSLGERIKSIRISKGETMEEFALSVGLTSSGKSAVSRWERGLSAPSADTMKKIAN 65

Query: 65 VLESPISFFFDVSPTVCS 82
               + F     P    
Sbjct: 66 HGGISVQFLVTGKPAFED 83


>gi|256374687|ref|YP_003098347.1| XRE family transcriptional regulator [Actinosynnema mirum DSM
          43827]
 gi|255918990|gb|ACU34501.1| transcriptional regulator, XRE family [Actinosynnema mirum DSM
          43827]
          Length = 86

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 26/62 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI + R   G+S+  L E + +  Q +   E+G +         I EV   P+   F  
Sbjct: 14 NRIGVLRAERGLSRADLAEAVEVNPQTIGALERGDHYPSLDLALRICEVFGLPVEAVFGR 73

Query: 77 SP 78
          +P
Sbjct: 74 AP 75


>gi|271969477|ref|YP_003343673.1| XRE family transcriptional regulator [Streptosporangium roseum
          DSM 43021]
 gi|270512652|gb|ACZ90930.1| putative transcriptional regulator, XRE family [Streptosporangium
          roseum DSM 43021]
          Length = 92

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 32/55 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          + +G+++  RR  LG+SQ +L E  G+T  QV + E G      + L+ +++ L+
Sbjct: 25 LLLGQQVYNRRTELGLSQAELAERAGMTQPQVSRLETGGVTPTLALLRRLAKALD 79


>gi|229030553|ref|ZP_04186588.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          AH1271]
 gi|228730720|gb|EEL81665.1| transcriptional regulator/TPR domain protein [Bacillus cereus
          AH1271]
          Length = 440

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 33/65 (50%), Gaps = 1/65 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RIR  RM  G++Q +L   +  +   + + E G  +  +S +  +S+ LE    +
Sbjct: 18 MEIGERIRQVRMHKGLTQGELVSEI-CSVTYLSRIESGKIKPSSSFITKVSKKLEVKSDY 76

Query: 73 FFDVS 77
            + +
Sbjct: 77 LINGN 81


>gi|281420727|ref|ZP_06251726.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella copri DSM 18205]
 gi|281405019|gb|EFB35699.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella copri DSM 18205]
          Length = 104

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 28/64 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R +R   G++Q++L   LG+    V K E    R+    L+ I  ++   +  F   
Sbjct: 17 ARLRTKREERGLTQKQLAGMLGLPQSYVSKIETCERRMDFIELRSICNLMGISVVDFMQE 76

Query: 77 SPTV 80
            T 
Sbjct: 77 VETE 80


>gi|218889540|ref|YP_002438404.1| transcriptional regulator [Pseudomonas aeruginosa LESB58]
 gi|218769763|emb|CAW25523.1| transcriptional regulator [Pseudomonas aeruginosa LESB58]
          Length = 262

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 36/84 (42%), Gaps = 8/84 (9%)

Query: 21  LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
            +R  LG++Q  + E   ++   +  Y  G N + A+     S +LE P+S F   SP +
Sbjct: 23  AKRRELGLTQSSIAEAFRMSQTAISMYMNGSNALNAAVAAKFSTILEVPVSSF---SPRL 79

Query: 81  CSDISS-----EENNVMDFISTPD 99
            ++I           V D   T +
Sbjct: 80  AAEIEGMAKAMHPKPVPDITDTLE 103


>gi|170758576|ref|YP_001785951.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
 gi|169405565|gb|ACA53976.1| DNA-binding protein [Clostridium botulinum A3 str. Loch Maree]
          Length = 130

 Score = 49.4 bits (117), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++   R   G+SQ++LG  L ++ Q + K+E G       +L  + +  +  + 
Sbjct: 5  NKLYSLRKQKGLSQDELGSKLNVSRQTISKWELGETTPELEKLIALGDFFKISLD 59


>gi|330830628|ref|YP_004393580.1| transcriptional protein [Aeromonas veronii B565]
 gi|328805764|gb|AEB50963.1| Transcriptional protein [Aeromonas veronii B565]
          Length = 88

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 29/51 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          + VGK+IR  R  +G+S+ K  + LG+    ++ YE G   VG + L  ++
Sbjct: 6  VTVGKKIRQIREAVGLSRPKFADLLGVPPTTLKNYELGYREVGGAFLVALA 56


>gi|319935739|ref|ZP_08010169.1| hypothetical protein HMPREF9488_01000 [Coprobacillus sp. 29_1]
 gi|319809288|gb|EFW05729.1| hypothetical protein HMPREF9488_01000 [Coprobacillus sp. 29_1]
          Length = 154

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 8/63 (12%), Positives = 27/63 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+++   R   G SQ+++ + + +T Q +  +E         + + ++ +    +    
Sbjct: 2  LGEKLMRLRKKHGYSQQEVADLISVTRQTISNWESDQGIPTLDKARMLANLYNVSLDDLT 61

Query: 75 DVS 77
          +  
Sbjct: 62 END 64


>gi|320333052|ref|YP_004169763.1| helix-turn-helix domain-containing protein [Deinococcus
          maricopensis DSM 21211]
 gi|319754341|gb|ADV66098.1| helix-turn-helix domain protein [Deinococcus maricopensis DSM
          21211]
          Length = 188

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 24/59 (40%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +     + +RIR+ R     SQ  L E  G+    + K E+G     A  L  ++   +
Sbjct: 6  DDTSALIARRIRVEREARQWSQADLAERAGVAKATISKVERGDMSPTAVTLVRLATAFD 64


>gi|298674897|ref|YP_003726647.1| transcriptional regulator, XRE family [Methanohalobium
          evestigatum Z-7303]
 gi|298287885|gb|ADI73851.1| transcriptional regulator, XRE family [Methanohalobium
          evestigatum Z-7303]
          Length = 68

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +++ R    ++QE L + +G+T Q +   E+G           +S   E  I   F
Sbjct: 3  NNLKVWRAKKDITQEYLAKEMGVTRQTINAIERGKYDPSIQLAFKLSRFFECSIEDLF 60


>gi|291540886|emb|CBL13997.1| Predicted transcriptional regulators [Roseburia intestinalis
          XB6B4]
          Length = 118

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 33/64 (51%), Gaps = 2/64 (3%)

Query: 10 PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+D    +G+++R  R    ++Q++L +   ++ +Q+   EKG        L+ +++VL 
Sbjct: 2  PIDDLTALGQKMREARKNKELTQQELSDLSHVSVKQIANIEKGKMNPSYLILRALAKVLH 61

Query: 68 SPIS 71
            + 
Sbjct: 62 ISLD 65


>gi|255292005|dbj|BAH90488.1| XRE family transcriptional regulator [uncultured bacterium]
 gi|255292866|dbj|BAH89966.1| transcriptional regulator [uncultured bacterium]
 gi|255292956|dbj|BAH90054.1| XRE family transcriptional regulator [uncultured bacterium]
 gi|255293226|dbj|BAH90316.1| XRE family transcriptional regulator [uncultured bacterium]
          Length = 96

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 25/54 (46%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          G  +R  R+  G+SQE L    GI    + K E+G +    + +  I+  L+  
Sbjct: 26 GAAVRALRIERGISQESLAHLAGIERSHMGKVERGEHMPTLAVIFKIARALDCS 79


>gi|291301572|ref|YP_003512850.1| XRE family transcriptional regulator [Stackebrandtia nassauensis
          DSM 44728]
 gi|290570792|gb|ADD43757.1| transcriptional regulator, XRE family [Stackebrandtia nassauensis
          DSM 44728]
          Length = 207

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 20/55 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            +R  R   G+S   +    GI    + + E G        +  +S  L  P+S
Sbjct: 12 ANLRAIREAAGLSLSAVARESGIAKGTLSQLESGTGNPTIETVFSLSNTLGVPVS 66


>gi|254454323|ref|ZP_05067760.1| transcriptional regulator, XRE family [Octadecabacter antarcticus
           238]
 gi|198268729|gb|EDY92999.1| transcriptional regulator, XRE family [Octadecabacter antarcticus
           238]
          Length = 148

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/106 (17%), Positives = 43/106 (40%), Gaps = 2/106 (1%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G R+   R +  ++Q++L + +GI    ++ +E+ ++   A+RL  +S +L   + +   
Sbjct: 36  GDRLAAARDVAQLTQKELAQRVGIKVSTLRNWEEDLSEPRANRLSILSGILGVSLRWLLT 95

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
                            D  +    L+  R   Q+     R  ++E
Sbjct: 96  AEGEGLLAPDENAPIASDLSAILTELRAVRA--QMKQSTERLALLE 139


>gi|209552009|ref|YP_002283925.1| protein of unknown function DUF955 [Rhizobium leguminosarum bv.
          trifolii WSM2304]
 gi|209539602|gb|ACI59533.1| protein of unknown function DUF955 [Rhizobium leguminosarum bv.
          trifolii WSM2304]
          Length = 359

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 28/58 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G  +RL R + G +Q++  + LG+    + + E G+       +   ++V + P  FF
Sbjct: 5  GDLLRLARQMRGYTQKRSADDLGVAQAVLSRLENGLIEPDDDLIVRAAKVFQLPRDFF 62


>gi|145298283|ref|YP_001141124.1| transcriptional protein [Aeromonas salmonicida subsp. salmonicida
          A449]
 gi|142851055|gb|ABO89376.1| transcriptional protein [Aeromonas salmonicida subsp. salmonicida
          A449]
          Length = 88

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 29/51 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          + VGK+IR  R  +G+S+ K  + LG+    ++ YE G   VG + L  ++
Sbjct: 6  VTVGKKIRQIREAVGLSRPKFADLLGVPPTTLKNYELGYREVGGAFLVALA 56


>gi|117620095|ref|YP_855824.1| transcriptional protein [Aeromonas hydrophila subsp. hydrophila
          ATCC 7966]
 gi|117561502|gb|ABK38450.1| transcriptional protein [Aeromonas hydrophila subsp. hydrophila
          ATCC 7966]
          Length = 88

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 29/51 (56%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          + VGK+IR  R  +G+S+ K  + LG+    ++ YE G   VG + L  ++
Sbjct: 6  VTVGKKIRQIREAVGLSRPKFADLLGVPPTTLKNYELGYREVGGAFLVALA 56


>gi|167647481|ref|YP_001685144.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167349911|gb|ABZ72646.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 71

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 24/57 (42%), Gaps = 1/57 (1%)

Query: 19 IRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          IR  R   G M+Q  L + +G+T Q V   E+G           I++V    +   F
Sbjct: 11 IRRLRFEHGEMTQADLAQRIGMTRQTVAAIEQGKYSPSLEAAFRIAQVFGVGLDAVF 67


>gi|160878225|ref|YP_001557193.1| XRE family transcriptional regulator [Clostridium phytofermentans
          ISDg]
 gi|160426891|gb|ABX40454.1| transcriptional regulator, XRE family [Clostridium
          phytofermentans ISDg]
          Length = 266

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 32/62 (51%)

Query: 29 SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSEE 88
          +QE+L   +G+T Q + K+E+G++      L  +S+VL   +    D+  ++    + ++
Sbjct: 20 TQEELALRVGVTPQAISKWERGISLPDIELLYQLSKVLSLSMDELLDLPTSLTESDNDKD 79

Query: 89 NN 90
            
Sbjct: 80 KE 81


>gi|71903983|ref|YP_280786.1| Cro/CI family transcriptional regulator [Streptococcus pyogenes
          MGAS6180]
 gi|71803078|gb|AAX72431.1| transcriptional regulator, Cro/CI family [Streptococcus pyogenes
          MGAS6180]
          Length = 413

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 29/65 (44%), Gaps = 11/65 (16%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI-----------SEVLE 67
          ++  R   G+ Q++  +C+GI+   + +YE G  ++   + Q +           S  L+
Sbjct: 6  LKKFRKKSGLKQKEFAKCIGISQAMLSQYESGKKKLSLEKFQEMKTHFGYLTDNDSSRLQ 65

Query: 68 SPISF 72
            I +
Sbjct: 66 VTIDY 70


>gi|152975886|ref|YP_001375403.1| XRE family transcriptional regulator [Bacillus cereus subsp.
          cytotoxis NVH 391-98]
 gi|152024638|gb|ABS22408.1| transcriptional regulator, XRE family [Bacillus cytotoxicus NVH
          391-98]
          Length = 64

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 20/58 (34%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            I+  R +  +SQ++L     ++ Q +   E             I+  L   +   F
Sbjct: 3  NNIKSLRKVQKISQDELANLCNVSRQTINAIENNKYDPSLVLAFSIANYLNVKVDELF 60


>gi|148545072|ref|YP_001272442.1| XRE family transcriptional regulator [Lactobacillus reuteri DSM
          20016]
 gi|227364226|ref|ZP_03848322.1| transcriptional regulator [Lactobacillus reuteri MM2-3]
 gi|325683429|ref|ZP_08162945.1| transcriptional regulator [Lactobacillus reuteri MM4-1A]
 gi|148532106|gb|ABQ84105.1| transcriptional regulator, XRE family [Lactobacillus reuteri DSM
          20016]
 gi|227070771|gb|EEI09098.1| transcriptional regulator [Lactobacillus reuteri MM2-3]
 gi|324977779|gb|EGC14730.1| transcriptional regulator [Lactobacillus reuteri MM4-1A]
          Length = 63

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/62 (17%), Positives = 24/62 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +R  R    +SQ +L + +G+  Q +   E            +++  L + ++  F  
Sbjct: 2  NNVRKYRKQQKLSQLELAKEIGVARQTINLIENDKYNPTLGLCLNLAHALHTDLNSLFWE 61

Query: 77 SP 78
           P
Sbjct: 62 EP 63


>gi|328947407|ref|YP_004364744.1| hypothetical protein Tresu_0498 [Treponema succinifaciens DSM 2489]
 gi|328447731|gb|AEB13447.1| helix-turn-helix domain protein [Treponema succinifaciens DSM 2489]
          Length = 195

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/92 (16%), Positives = 35/92 (38%), Gaps = 9/92 (9%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+++R  R    ++ + +     ++   V + E+         L  I++ L+  + F F+
Sbjct: 13  GEKLRAVRERKHLTLKAVAAHAKVSESLVSQIERNKVSPAIDTLLDIADALDISLEFLFE 72

Query: 76  VSP---------TVCSDISSEENNVMDFISTP 98
                              +EE+ V + +S P
Sbjct: 73  EYSRRRPVSVIHREDRRKINEEDVVYEELSDP 104


>gi|325689902|gb|EGD31906.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK115]
 gi|325696861|gb|EGD38749.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK160]
 gi|327459814|gb|EGF06154.1| XRE family transcriptional regulator [Streptococcus sanguinis
          SK1057]
          Length = 94

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 28/57 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +GK+++  R   G SQ ++ E LG T Q +  +E     + +  L  +++  +  + 
Sbjct: 2  LGKQLKFIREQKGYSQAQIAESLGTTRQTISNWENDKTILDSVSLIRLADFYQISLD 58


>gi|302341551|ref|YP_003806080.1| phage repressor [Desulfarculus baarsii DSM 2075]
 gi|301638164|gb|ADK83486.1| putative phage repressor [Desulfarculus baarsii DSM 2075]
          Length = 252

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV 51
          M  N  I N   + +G R R  R  LG+SQ++    LG+T     + E+G 
Sbjct: 1  MSNNSSIRNNR-VEIGGRFREIRKQLGLSQQEFASVLGVTQATASRIERGE 50


>gi|311744324|ref|ZP_07718128.1| PbsX family transcriptional regulator [Aeromicrobium marinum DSM
           15272]
 gi|311312497|gb|EFQ82410.1| PbsX family transcriptional regulator [Aeromicrobium marinum DSM
           15272]
          Length = 167

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/117 (19%), Positives = 48/117 (41%), Gaps = 11/117 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+ +R +R    +S  +L E   ++   + + E+G+ R  A  LQ I++ L       +
Sbjct: 37  LGEYLREQRRQAQLSLRQLSEAADVSNPYLSQIERGLRRPSAEVLQQIAKALRISAESLY 96

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEK 131
            V   +     S    V D I+    L            + +  ++++ RS V ++ 
Sbjct: 97  -VRAGILDADESGARMVEDAIALDPLLT----------ERQKSALVDIYRSFVGTDD 142


>gi|260175210|ref|ZP_05761622.1| hypothetical protein BacD2_25373 [Bacteroides sp. D2]
 gi|315923442|ref|ZP_07919682.1| conserved hypothetical protein [Bacteroides sp. D2]
 gi|313697317|gb|EFS34152.1| conserved hypothetical protein [Bacteroides sp. D2]
          Length = 149

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++ G+ IR  R+   M+QE L E + ++   V KYEK +  +    LQ  +  L  P  +
Sbjct: 11 VHHGRNIRRTRIEKDMNQEGLSELVHLSQPAVSKYEK-MRVIDDEMLQRFARALNVPFDY 69

Query: 73 F 73
           
Sbjct: 70 L 70


>gi|256396427|ref|YP_003117991.1| XRE family transcriptional regulator [Catenulispora acidiphila
          DSM 44928]
 gi|256362653|gb|ACU76150.1| transcriptional regulator, XRE family [Catenulispora acidiphila
          DSM 44928]
          Length = 77

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 26/52 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +R  R    ++Q ++   LG+    V KYE G  R+    L H+++ L + +
Sbjct: 17 LRELRHEADLTQVQVAAALGVPQSFVSKYESGDRRLDLIELHHVAKALGTTV 68


>gi|226360021|ref|YP_002777799.1| Xre family DNA-binding protein [Rhodococcus opacus B4]
 gi|226238506|dbj|BAH48854.1| putative Xre family DNA-binding protein [Rhodococcus opacus B4]
          Length = 196

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/92 (17%), Positives = 37/92 (40%), Gaps = 3/92 (3%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  + +RIR  R+  G S + L     ++   + + E G  R+   +L  I+  L + +
Sbjct: 7  LDGVIRQRIRGLRVARGWSLDALAARCFLSPSTLSRIETGHRRIALDQLVPIARALGTTL 66

Query: 71 SFF---FDVSPTVCSDISSEENNVMDFISTPD 99
                 D    V   +  +   +  ++ + +
Sbjct: 67 DQLVESVDDEDVVIRPMPEQTRGLTTWLLSRE 98


>gi|239815201|ref|YP_002944111.1| XRE family transcriptional regulator [Variovorax paradoxus S110]
 gi|239801778|gb|ACS18845.1| transcriptional regulator, XRE family [Variovorax paradoxus S110]
          Length = 195

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/93 (16%), Positives = 33/93 (35%), Gaps = 2/93 (2%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+ +D  +  R+   R    +S  +L E  G++   + K E+  +   A  L  ++  L 
Sbjct: 11  PSGIDSLIAARLLALRQAKALSLAELAELSGVSKAMISKVERAESSPTAVLLGRLAAGLG 70

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
            P++            +        +    P+ 
Sbjct: 71  VPLAQLLTEEKASPRRLRPRAE--QEVWRDPEA 101


>gi|207724614|ref|YP_002255011.1| hypothetical protein RSMK02981 [Ralstonia solanacearum MolK2]
 gi|206589836|emb|CAQ36797.1| hypothetical protein RSMK02981 [Ralstonia solanacearum MolK2]
          Length = 201

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/71 (14%), Positives = 26/71 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  ++  R    +S ++L    G++   + + E+ +     + L  ++  L   ++ F 
Sbjct: 20 VGMALQALRQRQRLSLDELSRRAGVSKSMLSQIERNLANPTVAVLWRLANALGVSLTDFL 79

Query: 75 DVSPTVCSDIS 85
                     
Sbjct: 80 AGGDGERPGTG 90


>gi|297201083|ref|ZP_06918480.1| regulatory protein [Streptomyces sviceus ATCC 29083]
 gi|197712131|gb|EDY56165.1| regulatory protein [Streptomyces sviceus ATCC 29083]
          Length = 448

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/108 (17%), Positives = 36/108 (33%), Gaps = 18/108 (16%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R++  R+  G++Q++L E    T   +   E G  R     L+H+++ L        
Sbjct: 10  IGRRVQQLRVERGLTQKQLAEP-AYTPAYISTLESGRVRPSDDALRHLADRLGVGFEELA 68

Query: 75  DVSPT-----------------VCSDISSEENNVMDFISTPDGLQLNR 105
              P                     +           ++  DGL L  
Sbjct: 69  TGRPARLVTDLRLRLTEAQRTLATGEAEESATQYARLLTEADGLDLAE 116


>gi|187777701|ref|ZP_02994174.1| hypothetical protein CLOSPO_01293 [Clostridium sporogenes ATCC
          15579]
 gi|187774629|gb|EDU38431.1| hypothetical protein CLOSPO_01293 [Clostridium sporogenes ATCC
          15579]
          Length = 130

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++   R   G+SQ++LG  L ++ Q + K+E G       +L  + +  E  + 
Sbjct: 5  NKLYSLRKQKGLSQDELGSKLNVSRQTISKWELGETTPELEKLIALGDFFEISLD 59


>gi|186474250|ref|YP_001861592.1| XRE family transcriptional regulator [Burkholderia phymatum
          STM815]
 gi|184196582|gb|ACC74546.1| transcriptional regulator, XRE family [Burkholderia phymatum
          STM815]
          Length = 215

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 31/80 (38%), Gaps = 1/80 (1%)

Query: 4  NKKIPNPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
            +    +D   VG R+R  R   G++  +L E  GI    + K E+G   +   +   +
Sbjct: 13 TTRASAQIDHQAVGARLRDARKARGLTLMQLSEQSGIAVSTISKAERGDIALTYDKFAAL 72

Query: 63 SEVLESPISFFFDVSPTVCS 82
          +  L+      F  +    S
Sbjct: 73 AHALQLEFDAIFGRAKRSGS 92


>gi|32470529|ref|NP_863201.1| hypothetical protein SE_p609 [Staphylococcus epidermidis ATCC
          12228]
 gi|27316958|gb|AAO06211.1| hypothetical protein SE_p609 [Staphylococcus epidermidis ATCC
          12228]
          Length = 203

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 31/67 (46%), Gaps = 1/67 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++   R    ++QE L E   +T + +Q+ E G   V +  L+ +S  L+  ++  F+ 
Sbjct: 6  SKVAEIRKQKSLTQENLAEKAYVTVRTIQRMEAGE-EVSSETLKSVSNALDVTVNELFES 64

Query: 77 SPTVCSD 83
            +   +
Sbjct: 65 ISSSDKE 71


>gi|306835383|ref|ZP_07468404.1| conserved hypothetical protein [Corynebacterium accolens ATCC
          49726]
 gi|304568749|gb|EFM44293.1| conserved hypothetical protein [Corynebacterium accolens ATCC
          49726]
          Length = 120

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 31/79 (39%), Gaps = 6/79 (7%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN------RVGASRLQHISEVLESPI 70
          +++R  R   G+SQ+ L +  G++  Q+   E+  N          S +  ++  LE P 
Sbjct: 17 QQLRRVRERRGVSQQVLADISGVSRSQISNLERNENGLHTMADPQLSTVYKLALALEIPP 76

Query: 71 SFFFDVSPTVCSDISSEEN 89
          +        V     ++  
Sbjct: 77 AVLLPAGGDVVEGHLADSA 95


>gi|300940028|ref|ZP_07154650.1| helix-turn-helix protein [Escherichia coli MS 21-1]
 gi|300455126|gb|EFK18619.1| helix-turn-helix protein [Escherichia coli MS 21-1]
          Length = 118

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/116 (20%), Positives = 49/116 (42%), Gaps = 11/116 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +  ++G+R+   R   G++Q +    LGI+   + + E G    G   L  + +     +
Sbjct: 1   MSKDIGERVISVRKKAGLNQREFAARLGISNGGISQIENGKAMPGGEFLLKMHQEFNVDV 60

Query: 71  SFFF-----DVSPTVCSDISSEENNVMDFI--STPDG----LQLNRYFIQIDDVKV 115
           ++       D      + IS E+  ++D     TPD     L++ R++ Q    K+
Sbjct: 61  NWLLTGMSTDGMTRNQNQISPEKQKLIDTFDDMTPDQQRSFLEIGRFYTQPKPGKI 116


>gi|227820316|ref|YP_002824287.1| XRE family transcriptional regulator [Sinorhizobium fredii
          NGR234]
 gi|227339315|gb|ACP23534.1| transcriptional regulator, XRE family [Sinorhizobium fredii
          NGR234]
          Length = 472

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+++R  R     +Q +  E +GI+   + + E     V A+ L  ++E  +  I+
Sbjct: 6  LYIGRKVRELREANRATQGQFAERIGISTSYLNQIENNQRPVSAAVLLALAEKFQIDIA 64


>gi|212709441|ref|ZP_03317569.1| hypothetical protein PROVALCAL_00481 [Providencia alcalifaciens
          DSM 30120]
 gi|212687956|gb|EEB47484.1| hypothetical protein PROVALCAL_00481 [Providencia alcalifaciens
          DSM 30120]
          Length = 84

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 24/55 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R  R   G+++ +L   L I+ QQV +YE G   +   R+     V       F
Sbjct: 16 LRRIRKQNGITEGELAVLLKISQQQVSRYENGKTMLTIGRINQYLNVFGLNWECF 70


>gi|191638075|ref|YP_001987241.1| Helix-turn-helix motif [Lactobacillus casei BL23]
 gi|190712377|emb|CAQ66383.1| Helix-turn-helix motif [Lactobacillus casei BL23]
 gi|327385303|gb|AEA56777.1| hypothetical protein LCBD_1280 [Lactobacillus casei BD-II]
          Length = 66

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI-SFFFDV 76
          IR  RM   M+QE+  + +GI++    K E G        ++ +++     + + FF+ 
Sbjct: 4  IRKARMKKKMTQEEAAKSIGISYSMYAKIENGNRGASQKTMKRMADFFGESVDALFFED 62


>gi|168183639|ref|ZP_02618303.1| DNA-binding protein [Clostridium botulinum Bf]
 gi|237797020|ref|YP_002864572.1| DNA-binding protein [Clostridium botulinum Ba4 str. 657]
 gi|182673224|gb|EDT85185.1| DNA-binding protein [Clostridium botulinum Bf]
 gi|229263790|gb|ACQ54823.1| DNA-binding protein [Clostridium botulinum Ba4 str. 657]
          Length = 220

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 39/75 (52%), Gaps = 3/75 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  +I+  R+  G++Q++L + LG+    + + E G   +  S +  IS+VL   I+   
Sbjct: 4  VSDKIKEARLKKGLTQKQLAKKLGVAESFINEVESGRKIINESLMNRISKVLGKGIN--- 60

Query: 75 DVSPTVCSDISSEEN 89
          D+  +   ++SSE  
Sbjct: 61 DIGISFEEEVSSEPK 75


>gi|152982219|ref|YP_001352353.1| Cro/CI family transcriptional regulator [Janthinobacterium sp.
           Marseille]
 gi|151282296|gb|ABR90706.1| transcriptional regulator, Cro/CI family [Janthinobacterium sp.
           Marseille]
          Length = 198

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 5/92 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  R++ G++  +L +    +   + K E+G      + L  ++  L+S IS   
Sbjct: 23  LGVRLRHTRLVAGLTLIQLAKKAECSESLISKIERGSATPSLAMLHRLAVALDSNISSLM 82

Query: 75  -DVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
            +  P V   +   E  V+       G+ L R
Sbjct: 83  SEEMPVVGPVLRVGERPVI----KTGGISLER 110


>gi|254303995|ref|ZP_04971353.1| hypothetical protein FNP_1663 [Fusobacterium nucleatum subsp.
          polymorphum ATCC 10953]
 gi|148324187|gb|EDK89437.1| hypothetical protein FNP_1663 [Fusobacterium nucleatum subsp.
          polymorphum ATCC 10953]
          Length = 182

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 37/82 (45%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          D  +G  I+  R+  G++Q++L   L  +   ++KYE GV +   S L     +L   + 
Sbjct: 3  DYFLGLLIKKFRISKGLTQKELANELDKSEISIKKYETGVLKTPFSVLFMTVHMLGIDVF 62

Query: 72 FFFDVSPTVCSDISSEENNVMD 93
           F++    +  +I  E     D
Sbjct: 63 TFYNYLRDLVEEIKRENRITQD 84


>gi|119488693|ref|ZP_01621702.1| hypothetical protein L8106_23046 [Lyngbya sp. PCC 8106]
 gi|119455116|gb|EAW36257.1| hypothetical protein L8106_23046 [Lyngbya sp. PCC 8106]
          Length = 160

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 26/56 (46%), Gaps = 1/56 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          I+  R  L M+Q++L    GI  Q + K E+G   R+     + ++  L  P  + 
Sbjct: 20 IKRLRTRLSMTQQQLAAAAGIHGQSLGKLERGKTLRLNQKTKKGLAIALNIPEEYL 75


>gi|71904455|ref|YP_281258.1| phage transcriptional repressor [Streptococcus pyogenes phage
          6180.3]
 gi|94991387|ref|YP_599487.1| phage transcriptional repressor [Streptococcus phage 10270.4]
 gi|71803550|gb|AAX72903.1| phage transcriptional repressor [Streptococcus pyogenes phage
          6180.3]
 gi|94544895|gb|ABF34943.1| phage transcriptional repressor [Streptococcus phage 10270.4]
          Length = 66

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 32/61 (52%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + VG +I+  R+ LG + E+ G+  G +   V  +EKG N    + L  I+++    +S 
Sbjct: 1  MTVGDKIKTIRLNLGETMEEFGKRFGTSKGTVNNWEKGRNLPNRNSLLRIAQLANQTVSD 60

Query: 73 F 73
          F
Sbjct: 61 F 61


>gi|330881145|gb|EGH15294.1| XRE family transcriptional regulator [Pseudomonas syringae pv.
           glycinea str. race 4]
          Length = 125

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 50/120 (41%), Gaps = 2/120 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G  IR  R+  G++ E +    G     + K E+         L  +SE L +  S 
Sbjct: 7   MNIGAAIRKVRLEKGLTLEAVALDAGTYAGNLSKVERAQQLPSLDLLHKLSEALGTKTSE 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
            + V+    SD SS   +        + + + R+F  +   + R+  IE ++ +  S+  
Sbjct: 67  LYAVA-ESGSDNSSGAASEPSPEQGNEVILVRRHFQALT-PRNRKLAIEFLKLLGQSQDD 124


>gi|323704452|ref|ZP_08116031.1| helix-turn-helix domain protein [Thermoanaerobacterium
           xylanolyticum LX-11]
 gi|323536518|gb|EGB26290.1| helix-turn-helix domain protein [Thermoanaerobacterium
           xylanolyticum LX-11]
          Length = 132

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 34/87 (39%), Gaps = 2/87 (2%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           + +   +  +I   R+   ++Q++L E L I    V K E G       +L  IS+ L  
Sbjct: 32  DDILYEISMKIYEFRIKNDLTQKQLAEKLEIKQSMVSKLESGQYNPTIEQLWKISKKLGW 91

Query: 69  PISFFF--DVSPTVCSDISSEENNVMD 93
                F  + S     D    E N+ D
Sbjct: 92  NFKIIFGEENSKAKIWDTVDFEENLND 118


>gi|323494354|ref|ZP_08099466.1| DNA-binding protein [Vibrio brasiliensis LMG 20546]
 gi|323311517|gb|EGA64669.1| DNA-binding protein [Vibrio brasiliensis LMG 20546]
          Length = 182

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/84 (16%), Positives = 33/84 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  +G R +  R   G+SQ +L +  G+T   + + E        + L  +   + + +
Sbjct: 1  MDTEIGTRFKALREKAGLSQRELAKRAGVTNGFISQIENNAVSPSVASLSKLLSKIPTSM 60

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          + FF +         + +    + 
Sbjct: 61 AEFFAIDDPQPEQFYTRKEEQPEI 84


>gi|303326711|ref|ZP_07357153.1| BamHI control element [Desulfovibrio sp. 3_1_syn3]
 gi|302862699|gb|EFL85631.1| BamHI control element [Desulfovibrio sp. 3_1_syn3]
          Length = 83

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 28/74 (37%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M    K    +    G  +  +R  L +SQEKL E  G+    +   E+G   +    + 
Sbjct: 1  MPEYCKADAEILKQFGAALGAKREALHISQEKLAERAGLHRTYIGGVEQGRRNLSLLNIV 60

Query: 61 HISEVLESPISFFF 74
           I+  L      FF
Sbjct: 61 KIATALGVNPEEFF 74


>gi|182434926|ref|YP_001822645.1| putative DNA-binding protein [Streptomyces griseus subsp. griseus
          NBRC 13350]
 gi|326775443|ref|ZP_08234708.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
 gi|178463442|dbj|BAG17962.1| putative DNA-binding protein [Streptomyces griseus subsp. griseus
          NBRC 13350]
 gi|326655776|gb|EGE40622.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
          Length = 273

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 25/59 (42%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          D  VG  +R  R    +SQ +L      + + +   E G +R     +  ++E L  P+
Sbjct: 7  DTGVGPLLRDWREQRRISQLELALRADSSARHISFIETGRSRPSEDMVLRLAEELNVPV 65


>gi|163760476|ref|ZP_02167558.1| hypothetical protein HPDFL43_04196 [Hoeflea phototrophica DFL-43]
 gi|162282427|gb|EDQ32716.1| hypothetical protein HPDFL43_04196 [Hoeflea phototrophica DFL-43]
          Length = 116

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 21/57 (36%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            RIR  R   GM+  +L    GI+   +   E G        L+ I+  L   +   
Sbjct: 58  SRIRTYRKYRGMTGSELAAAAGISQPHLSDIENGKKAGSVDVLKRIATALRVDLDDL 114


>gi|49082322|gb|AAT50561.1| PA4077 [synthetic construct]
          Length = 69

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 22/67 (32%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R   G SQ +L   L ++ Q V   E G           ++ V    I   FD 
Sbjct: 3  NRVRELRAERGWSQAELAGKLEVSRQTVNAIETGRYDPSLPLAFKLARVFGLAIEAIFDD 62

Query: 77 SPTVCSD 83
                 
Sbjct: 63 REGQLDG 69


>gi|85712371|ref|ZP_01043421.1| Transcriptional Regulator, XRE family protein [Idiomarina baltica
          OS145]
 gi|85693814|gb|EAQ31762.1| Transcriptional Regulator, XRE family protein [Idiomarina baltica
          OS145]
          Length = 75

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 30/64 (46%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +    GK ++LRR+ + +SQE +    G+    + K E+G      + ++ I++ L   
Sbjct: 2  DIKAAFGKAVKLRRVEIDLSQEDMANSAGMARSFISKVERGDANPSVTSVKKIADTLGVL 61

Query: 70 ISFF 73
           S  
Sbjct: 62 PSDL 65


>gi|300917191|ref|ZP_07133875.1| helix-turn-helix protein [Escherichia coli MS 115-1]
 gi|300415568|gb|EFJ98878.1| helix-turn-helix protein [Escherichia coli MS 115-1]
          Length = 178

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/74 (17%), Positives = 27/74 (36%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G S  +L E   ++   + + E+  +    + L  I+  L  P S F     
Sbjct: 12 LKQLRQQRGWSLSRLAEATRVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTFISPPQ 71

Query: 79 TVCSDISSEENNVM 92
          +    +   +   M
Sbjct: 72 SATPSVYDPQQQAM 85


>gi|301054815|ref|YP_003793026.1| putative DNA-binding protein [Bacillus anthracis CI]
 gi|300376984|gb|ADK05888.1| putative DNA-binding protein; possible transcriptional regulator
          [Bacillus cereus biovar anthracis str. CI]
          Length = 374

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 27/65 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  +R    ++QE+L   +GIT   V K+E G +    + L  ++      I       P
Sbjct: 10 IADKRKEKRITQEELAAYIGITKASVSKWETGQSYPDITLLPLLASYFNISIDELISYKP 69

Query: 79 TVCSD 83
           +  +
Sbjct: 70 QMEQE 74


>gi|301052439|ref|YP_003790650.1| phage-related transcritpional regulator [Bacillus anthracis CI]
 gi|300374608|gb|ADK03512.1| transcriptional regulator, phage-related protein [Bacillus cereus
          biovar anthracis str. CI]
          Length = 117

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 33/68 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +  R++  R+   +SQE+ G+ + +T   V K+E G    G   L+ +S+     I +
Sbjct: 1  MEIKDRLKQIRIHNKLSQEQFGKEVDLTKGTVSKFENGKAFPGRETLEKVSKRFNVTIDY 60

Query: 73 FFDVSPTV 80
           +  S  +
Sbjct: 61 LYGESEEI 68


>gi|258515644|ref|YP_003191866.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257779349|gb|ACV63243.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
          Length = 132

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 32/80 (40%), Gaps = 10/80 (12%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF---- 72
          +R++  R   G +QE L + L I    +  YE+   +     +  I+E L+  + +    
Sbjct: 8  QRLKKERESKGWTQEYLADLLKIKIGTLSGYERSYRQPDLDMVIKIAEHLDCSVDYLLGR 67

Query: 73 ------FFDVSPTVCSDISS 86
                F++      +++  
Sbjct: 68 TNQRSHFYEDREPTKAELEE 87


>gi|326204395|ref|ZP_08194253.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
 gi|325985427|gb|EGD46265.1| helix-turn-helix domain protein [Clostridium papyrosolvens DSM
           2782]
          Length = 134

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/117 (15%), Positives = 48/117 (41%), Gaps = 7/117 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG  ++  R    ++Q+++ + L I  Q    YE+  +    + L  +++       +  
Sbjct: 2   VGDILKTIREEKKITQDQIAQLLNIKRQTYSSYERNKSLPDINILSKLADYFNVSTDYLL 61

Query: 75  DVSPTVCSDISSE---ENNVMDFISTPDGLQLNRYFIQID---DVKVRQKIIELVRS 125
             S  +  D   +       ++ +S  +  QL   + ++      ++R +I  ++R+
Sbjct: 62  GRSDIMNYDEYKDLLISTTKIEGLSDDEK-QLLNSYRKLSFEFKAEIRGEIKGILRT 117


>gi|227536365|ref|ZP_03966414.1| transcriptional regulator [Sphingobacterium spiritivorum ATCC
          33300]
 gi|227243741|gb|EEI93756.1| transcriptional regulator [Sphingobacterium spiritivorum ATCC
          33300]
          Length = 66

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            I++ R+I G SQE+L   + ++ Q +   E G           IS+ L+  +   F++
Sbjct: 3  NNIKINRVIKGYSQEQLAILVNVSRQTINALEAGKYVPSTMLSLKISQALDKSVEELFEL 62

Query: 77 SPT 79
             
Sbjct: 63 EEG 65


>gi|227534544|ref|ZP_03964593.1| XRE family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
 gi|227187793|gb|EEI67860.1| XRE family transcriptional regulator [Lactobacillus paracasei
          subsp. paracasei ATCC 25302]
          Length = 304

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ I   R   GMSQ +L E + ++  Q+ K+E+ + ++   +   + E L    + F
Sbjct: 11 IGELINHFRENKGMSQAELSEGI-LSKAQLSKFERDLTKISVDKFLALLERLHVTFTEF 68


>gi|225378210|ref|ZP_03755431.1| hypothetical protein ROSEINA2194_03870 [Roseburia inulinivorans
          DSM 16841]
 gi|225209941|gb|EEG92295.1| hypothetical protein ROSEINA2194_03870 [Roseburia inulinivorans
          DSM 16841]
          Length = 201

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 38/85 (44%), Gaps = 1/85 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          I +GK I   R   G +Q++L E L I+ + + K+E+G      S L  +   LE  ++ 
Sbjct: 4  IKIGKFIADERKRKGYTQKQLSEKLAISDKTISKWERGNGFPEVSLLLPLCNELEITVNE 63

Query: 73 FFDVSPTVCSD-ISSEENNVMDFIS 96
                    + +   E N+++ + 
Sbjct: 64 LLSGERVSEEEYLKKAEENMVNLVR 88


>gi|207743984|ref|YP_002260376.1| helix-turn-helix motif protein [Ralstonia solanacearum IPO1609]
 gi|206595386|emb|CAQ62313.1| putative helix-turn-helix motif protein [Ralstonia solanacearum
           IPO1609]
          Length = 122

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/133 (18%), Positives = 48/133 (36%), Gaps = 21/133 (15%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G+R++  R  L ++Q  +      T Q    YE       AS L  I+ +L   +++
Sbjct: 1   MTIGERLKEERERLRLTQPAIASAADTTKQTQHAYETDRTPPKASYLAAIA-ILGVDVAY 59

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL-------VRS 125
                  + +              TP  + L   +      +V++ +  L         S
Sbjct: 60  VITGERALNTA------------RTPMEVALLENYRH-SPAEVQRGVSMLLAQTSGAADS 106

Query: 126 IVSSEKKYRTIEE 138
           +    KK R+ EE
Sbjct: 107 VAGKGKKNRSSEE 119


>gi|297203878|ref|ZP_06921275.1| DNA-binding protein [Streptomyces sviceus ATCC 29083]
 gi|197713065|gb|EDY57099.1| DNA-binding protein [Streptomyces sviceus ATCC 29083]
          Length = 194

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/114 (18%), Positives = 42/114 (36%), Gaps = 1/114 (0%)

Query: 8   PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+PVD  +G R+   R   G S  +L E  G++   + + E+      AS L  +  V  
Sbjct: 8   PDPVDTRLGVRLAELRAERGWSLGELAERSGVSKSTLSRAERAEISPTASLLNRLCGVYG 67

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
             +S          ++ +    +    +         R  +      +R +++E
Sbjct: 68  RTMSQLL-SEIEAEAEPAPLVRSAGQPVWEDRAAGFVRRSVSPPHPGLRGELVE 120


>gi|42525956|ref|NP_971054.1| DNA-binding protein [Treponema denticola ATCC 35405]
 gi|41816006|gb|AAS10935.1| DNA-binding protein [Treponema denticola ATCC 35405]
          Length = 91

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 20/58 (34%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R   G+SQ +L     I+   +   E G        L  I   L    +  F
Sbjct: 12 NRLRKEREKAGLSQLELALRADISQNMINYIETGKRTPSLDTLLKICHALNINPAVLF 69


>gi|157836326|pdb|2R63|A Chain A, Structural Role Of A Buried Salt Bridge In The 434
          Repressor Dna-Binding Domain, Nmr, 20 Structures
          Length = 63

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 31/62 (50%), Gaps = 1/62 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +  R++ + + LG++Q +L + +G T Q +++ E G  +     L  ++  L   + +  
Sbjct: 2  ISSRVKSKMIQLGLNQAELAQKVGTTQQSIEQLENGKTK-RPRFLPELASALGVSVDWLL 60

Query: 75 DV 76
          + 
Sbjct: 61 NG 62


>gi|107021872|ref|YP_620199.1| XRE family transcriptional regulator [Burkholderia cenocepacia AU
           1054]
 gi|116688820|ref|YP_834443.1| XRE family transcriptional regulator [Burkholderia cenocepacia
           HI2424]
 gi|105892061|gb|ABF75226.1| transcriptional regulator, XRE family [Burkholderia cenocepacia AU
           1054]
 gi|116646909|gb|ABK07550.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
           HI2424]
          Length = 116

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 43/109 (39%), Gaps = 15/109 (13%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R+ LG++Q +L    G+      +YEKG+ R  +  L  I+      + +     
Sbjct: 17  RLKRERLRLGLNQTELAVLGGVQKHAQFQYEKGMRRPNSDYLSAIALA-GVDVWYVLTGE 75

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                +   E+  V  F              +  D + R+ I+ L+ +I
Sbjct: 76  EGARLESPDEQRIVSGF--------------RALDARKREVILALIEAI 110


>gi|327401449|ref|YP_004342288.1| XRE family transcriptional regulator [Archaeoglobus veneficus SNP6]
 gi|327316957|gb|AEA47573.1| transcriptional regulator, XRE family [Archaeoglobus veneficus
           SNP6]
          Length = 314

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/88 (26%), Positives = 42/88 (47%), Gaps = 9/88 (10%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE------SPI 70
           +RIR  R  LG+S  +L + LG++ + ++KYE+GV+         + E L         I
Sbjct: 129 ERIREARQRLGISIGELAKMLGVSRRAIKKYEEGVDT-SVENAVKLEEFLGEYVIKAIDI 187

Query: 71  SFFF--DVSPTVCSDISSEENNVMDFIS 96
             F   DV P    ++ + E  +++ + 
Sbjct: 188 LNFVKDDVEPKEDVELRNGEAEIVEQLR 215


>gi|307570844|emb|CAR84023.1| DNA-binding protein [Listeria monocytogenes L99]
          Length = 71

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 1/60 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQ-VQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           +IR  R+  G++Q  +   +G  +       EKG  R+       +SEVL   ++FF++
Sbjct: 12 AKIRELRLQRGITQAFIARRMGYKYTSGYSNIEKGTVRLSHKNAVILSEVLMCDLNFFYE 71


>gi|307327283|ref|ZP_07606470.1| transcriptional regulator, XRE family [Streptomyces violaceusniger
           Tu 4113]
 gi|306886962|gb|EFN17961.1| transcriptional regulator, XRE family [Streptomyces violaceusniger
           Tu 4113]
          Length = 390

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/113 (16%), Positives = 45/113 (39%), Gaps = 12/113 (10%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           P D  +GKR+  +R I  ++Q++L +  G+    ++K E+     G + ++ ++  L   
Sbjct: 2   PTD--LGKRVAYQRRIARLTQQELADAAGVHVGTLRKIERAARGAGDNVVEALAAALGVD 59

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
            S          + + +   ++   I              + D    +++ EL
Sbjct: 60  PSVLLGSRDRTDARVHAAMPSLSAVI----------AAYDVPDDGPVRQLSEL 102


>gi|307330189|ref|ZP_07609338.1| transcriptional regulator, XRE family [Streptomyces violaceusniger
           Tu 4113]
 gi|306884209|gb|EFN15246.1| transcriptional regulator, XRE family [Streptomyces violaceusniger
           Tu 4113]
          Length = 190

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/84 (11%), Positives = 27/84 (32%), Gaps = 2/84 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R   G + + L    G++   + + E+            +++ L   I+   D 
Sbjct: 13  RNLKRCRNERGFTLDALAARAGVSRGMIIQIEQARTNPSVGTTVKLADALGVSITTLLDY 72

Query: 77  SPTVCSDISSEENNVMDFISTPDG 100
                      E  V   + + + 
Sbjct: 73  EHGPRVTFVPPEQAVR--MWSTEA 94


>gi|296282095|ref|ZP_06860093.1| transcriptional regulator, Cro/CI family protein [Citromicrobium
          bathyomarinum JL354]
          Length = 63

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+++ R     SQ+ L E LG++ Q V   E G           I+EV    I   F
Sbjct: 3  NRLKVLRAERNWSQQALAEELGVSRQSVNAIETGRYDPSLPLAFQIAEVFGLAIEEIF 60


>gi|294790649|ref|ZP_06755807.1| BamHI control element [Scardovia inopinata F0304]
 gi|294458546|gb|EFG26899.1| BamHI control element [Scardovia inopinata F0304]
          Length = 83

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 1/60 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE-SPISFF 73
          +G+ IR  R    +SQE L     +    V + E+G   V   ++  +   L  +P+  F
Sbjct: 12 LGQAIRYYREEKKLSQEDLALAADMDRSYVGRVERGEKSVSLDKIWQLCIALGITPVELF 71


>gi|291518454|emb|CBK73675.1| Predicted transcriptional regulators [Butyrivibrio fibrisolvens
          16/4]
          Length = 196

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 35/77 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GKRI+  R +   +Q++L E + ++ Q +  +E   +      +  +S + E  +  
Sbjct: 1  MELGKRIKDLRSLHNWNQDELAEKMFVSRQTISNWENEKSYPDIQSILLLSNLFEISLDQ 60

Query: 73 FFDVSPTVCSDISSEEN 89
                    +I ++++
Sbjct: 61 LVKGDVEQMQEIINDQD 77


>gi|255527482|ref|ZP_05394352.1| transcriptional regulator, XRE family [Clostridium carboxidivorans
           P7]
 gi|296187568|ref|ZP_06855963.1| helix-turn-helix domain-containing protein [Clostridium
           carboxidivorans P7]
 gi|308390326|ref|YP_003933779.1| XRE family transcriptional regulator [Clostridium carboxidivorans
           P7]
 gi|255508825|gb|EET85195.1| transcriptional regulator, XRE family [Clostridium carboxidivorans
           P7]
 gi|296048090|gb|EFG87529.1| helix-turn-helix domain-containing protein [Clostridium
           carboxidivorans P7]
 gi|308066833|gb|ADO12137.1| XRE family transcriptional regulator [Clostridium carboxidivorans
           P7]
          Length = 236

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/102 (16%), Positives = 35/102 (34%), Gaps = 7/102 (6%)

Query: 16  GKRIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           GKR++  R    ++Q  L   L      ++ Q +  +E G        L  I++      
Sbjct: 5   GKRLKELREEFDLTQSDLASNLSTKEHVVSTQNISYWENGR-EPSYDILVKIADRFNVTT 63

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
            +     P     +  E  N  +   + D  +    +  I++
Sbjct: 64  DYLTGRCPFRDYSVQMELKN-TEIFGSMDAHEKKNAYALIEN 104


>gi|238063802|ref|ZP_04608511.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
           39149]
 gi|237885613|gb|EEP74441.1| XRE family transcriptional regulator [Micromonospora sp. ATCC
           39149]
          Length = 214

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 32/83 (38%), Gaps = 3/83 (3%)

Query: 5   KKIPNPVDI---NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           +++ + +D    +VG R+R  R     +  +L    GI+   + + E G  R    +L  
Sbjct: 20  RRMTDDLDRALADVGPRLRALRRQRETTLAELSAATGISVSTLSRLESGTRRPTLEQLLP 79

Query: 62  ISEVLESPISFFFDVSPTVCSDI 84
           ++      +       PT    I
Sbjct: 80  LARAHGVTLDDLVGAPPTGDPRI 102


>gi|227502795|ref|ZP_03932844.1| conserved hypothetical protein [Corynebacterium accolens ATCC
           49725]
 gi|227076525|gb|EEI14488.1| conserved hypothetical protein [Corynebacterium accolens ATCC
           49725]
          Length = 153

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 31/79 (39%), Gaps = 6/79 (7%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN------RVGASRLQHISEVLESPI 70
           +++R  R   G+SQ+ L +  G++  Q+   E+  N          S +  ++  LE P 
Sbjct: 50  QQLRRVRERRGVSQQVLADISGVSRSQISNLERNENGLHTMADPQLSTVYKLALALEIPP 109

Query: 71  SFFFDVSPTVCSDISSEEN 89
           +        V     ++  
Sbjct: 110 AVLLPAGGDVVEGHLADSA 128


>gi|197123735|ref|YP_002135686.1| XRE family transcriptional regulator [Anaeromyxobacter sp. K]
 gi|196173584|gb|ACG74557.1| transcriptional regulator, XRE family [Anaeromyxobacter sp. K]
          Length = 217

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/94 (17%), Positives = 33/94 (35%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +G  ++  R  +G +QE L        + +Q+ E G     A  L  ++  L   +
Sbjct: 1   MNAIIGTNVKTLREAMGWTQEDLAAKSKKPVRTIQRVESGEVLPTADTLITLAVALGVEV 60

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
                        +     +V  F    D ++L 
Sbjct: 61  EDLRRTPDEWAHILEQAAGHVKKFHEEYDIIELA 94


>gi|146281047|ref|YP_001171200.1| Cro/CI family transcriptional regulator [Pseudomonas stutzeri
          A1501]
 gi|145569252|gb|ABP78358.1| transcriptional regulator, Cro/CI family [Pseudomonas stutzeri
          A1501]
          Length = 75

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G +IR +R   G SQ+ L     +    + + E+G   +   +L  I+  LE   
Sbjct: 8  LGGKIREQRKARGFSQDALALACKVDRSYMGRIERGEVNITVEKLYRIAWTLECDP 63


>gi|254974928|ref|ZP_05271400.1| putative phage regulatory protein [Clostridium difficile QCD-66c26]
 gi|255092317|ref|ZP_05321795.1| putative phage regulatory protein [Clostridium difficile CIP
           107932]
 gi|255100398|ref|ZP_05329375.1| putative phage regulatory protein [Clostridium difficile QCD-63q42]
 gi|255314055|ref|ZP_05355638.1| putative phage regulatory protein [Clostridium difficile QCD-76w55]
 gi|255516735|ref|ZP_05384411.1| putative phage regulatory protein [Clostridium difficile QCD-97b34]
 gi|255649834|ref|ZP_05396736.1| putative phage regulatory protein [Clostridium difficile QCD-37x79]
 gi|306519934|ref|ZP_07406281.1| putative phage regulatory protein [Clostridium difficile QCD-32g58]
          Length = 132

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/130 (20%), Positives = 49/130 (37%), Gaps = 19/130 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRI   R    ++Q KL + L   F+ + KYE G  +     L  I++       +  
Sbjct: 4   LGKRIAYLRNSKKLTQRKLMDIL--KFENLGKYETGDRKPNCDILMSIADYFNVTTDWLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
                V  + S +E          +       ++ + + ++   I+ L R +   +K   
Sbjct: 62  YGKEKVNVNSSVKE--------DKED------YLHVTNDEM--MILNLYRQLNERDKIKI 105

Query: 135 T-IEEECMVE 143
             I E  + E
Sbjct: 106 EGILELKISE 115


>gi|52142641|ref|YP_084188.1| transcriptional regulator [Bacillus cereus E33L]
 gi|51976110|gb|AAU17660.1| possible transcriptional regulator/TPR domain protein [Bacillus
          cereus E33L]
          Length = 423

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 33/65 (50%), Gaps = 1/65 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+RIR  RM  G++Q +L   +  +   + + E G     +S +Q +S+ LE    +
Sbjct: 1  MEIGERIRHVRMQKGLTQGELVSGI-CSITYLSRIESGKITPSSSFIQKVSKKLEVKSDY 59

Query: 73 FFDVS 77
            + +
Sbjct: 60 LINGN 64


>gi|73748389|ref|YP_307628.1| DNA-binding protein [Dehalococcoides sp. CBDB1]
 gi|147669169|ref|YP_001213987.1| XRE family transcriptional regulator [Dehalococcoides sp. BAV1]
 gi|289432437|ref|YP_003462310.1| XRE family transcriptional regulator [Dehalococcoides sp. GT]
 gi|73660105|emb|CAI82712.1| DNA-binding protein [Dehalococcoides sp. CBDB1]
 gi|146270117|gb|ABQ17109.1| transcriptional regulator, XRE family [Dehalococcoides sp. BAV1]
 gi|288946157|gb|ADC73854.1| transcriptional regulator, XRE family [Dehalococcoides sp. GT]
          Length = 67

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R    ++Q +L E +G++ Q +   EKG           +++ L + I   F
Sbjct: 6  RIKELRARYNLTQSELAETVGVSRQTMLYLEKGKYNPSLILAHKVAKALHADIEDVF 62


>gi|327438061|dbj|BAK14426.1| predicted transcriptional regulator [Solibacillus silvestris
          StLB046]
          Length = 67

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 31/55 (56%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R +  + Q +  + +GI+   + + E+G  +    +LQ I++VL+  I
Sbjct: 7  GRRIRAFRKLKRIQQTEFAKHIGISVTILGRIERGEKKPSEEQLQTIADVLQIDI 61


>gi|313899914|ref|ZP_07833417.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
 gi|312955529|gb|EFR37194.1| DNA-binding helix-turn-helix protein [Clostridium sp. HGF2]
          Length = 69

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RIR  R  L M+QE+L +   ++ Q +   EKG           I+ + +  I   F
Sbjct: 3  NRIRKLRQELQMTQEELAQRCRVSRQTIISLEKGKYDPSIHLAHRIATIFQHHIEDVF 60


>gi|309798707|ref|ZP_07692972.1| putative transcriptional regulator [Streptococcus infantis
          SK1302]
 gi|308117650|gb|EFO55061.1| putative transcriptional regulator [Streptococcus infantis
          SK1302]
          Length = 49

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/43 (30%), Positives = 26/43 (60%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          ++++ RR  L ++Q+++ + LGI+FQ    +E+GV      R 
Sbjct: 5  EKLKARRKELKLTQKEIAKQLGISFQAYSAWERGVKEPSEERF 47


>gi|296454298|ref|YP_003661441.1| Cro/CI family transcriptional regulator [Bifidobacterium longum
          subsp. longum JDM301]
 gi|296183729|gb|ADH00611.1| Transcriptional regulator, Cro/CI family [Bifidobacterium longum
          subsp. longum JDM301]
          Length = 65

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI+  R+ LG+SQ  L     ++ Q V   E        S    ++  L + +   F
Sbjct: 6  NRIKELRVNLGLSQGTLARRCDVSRQTVNAIENNKYDPTLSLAFRLARELGATVDGLF 63


>gi|291618593|ref|YP_003521335.1| Hypothetical Protein PANA_3040 [Pantoea ananatis LMG 20103]
 gi|291153623|gb|ADD78207.1| Hypothetical Protein PANA_3040 [Pantoea ananatis LMG 20103]
          Length = 229

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/97 (23%), Positives = 43/97 (44%), Gaps = 11/97 (11%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            ++R  R+    SQE+L E  G++ + VQ+ E G +      L  ++ V    I+     
Sbjct: 76  NKVREYRLARAWSQEQLAEMAGLSTRTVQRIENG-DPPSLETLSALAAVFACKIT----- 129

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLN---RYFIQI 110
              + S+ S+E    +D   +   LQL    R++  +
Sbjct: 130 --DLTSEASAENGEALDSYISDARLQLAAESRFYRSL 164


>gi|295675501|ref|YP_003604025.1| transcriptional regulator, XRE family [Burkholderia sp. CCGE1002]
 gi|295435344|gb|ADG14514.1| transcriptional regulator, XRE family [Burkholderia sp. CCGE1002]
          Length = 157

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 31/75 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + +R  R+ LGMSQE+LG  +G     + + E+        R + ++  L+  +      
Sbjct: 16 RNLRAYRIELGMSQEELGSYIGADRTAISRLERTFGNPTLERAEALASALDIDVRVLMTF 75

Query: 77 SPTVCSDISSEENNV 91
          S     +      +V
Sbjct: 76 SGKGEIERRPPTGDV 90



 Score = 38.6 bits (89), Expect = 0.30,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 28/59 (47%), Gaps = 3/59 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR---VGASRLQHISEVLESPI 70
           VG ++   R  +G++Q++LGE  G+    + + E    R   +  + L+ ++E      
Sbjct: 95  VGAKVATLREKMGLTQKQLGELAGVDRNFISRVEAPHGRGTPLELATLEKLAEAFGIHP 153


>gi|315498490|ref|YP_004087294.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
 gi|315416502|gb|ADU13143.1| helix-turn-helix domain protein [Asticcacaulis excentricus CB 48]
          Length = 391

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 1/47 (2%)

Query: 23  RMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLES 68
           R+  G+SQ  L   LG+  QQVQ+YE      +       I+ +L  
Sbjct: 59  RIAKGLSQRDLAWRLGLKEQQVQRYESDRYTTISLKNYSKIAALLGV 105


>gi|239616493|ref|YP_002939815.1| transcriptional regulator, XRE family [Kosmotoga olearia TBF
          19.5.1]
 gi|239505324|gb|ACR78811.1| transcriptional regulator, XRE family [Kosmotoga olearia TBF
          19.5.1]
          Length = 79

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH-ISEVLESPI 70
          +++  R+  GM+QE+L E   I+   + K E G  ++    L   I+ +L  P+
Sbjct: 3  KLKEIRIKRGMTQEELAEKAKISRATLSKIENGKVKLTDFFLADTIAAILGVPV 56


>gi|187729871|ref|YP_001853765.1| transcriptional regulator XRE family [Vibrio tapetis]
 gi|182894430|gb|ACB99595.1| RstR RS2 element transcriptional regulator [Vibrio tapetis]
          Length = 132

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 27/49 (55%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          I+  R+  G +QE++ + + +  Q   K+E G     A+++Q ++E L 
Sbjct: 7  IKSARVERGYTQEQIAKLVKVAKQTYLKWENGETEPKATQIQLLAENLG 55


>gi|170783094|ref|YP_001711428.1| putative DNA-binding protein [Clavibacter michiganensis subsp.
          sepedonicus]
 gi|169157664|emb|CAQ02865.1| putative DNA-binding protein [Clavibacter michiganensis subsp.
          sepedonicus]
          Length = 153

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 25/58 (43%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          D +VG+ +R  R    +SQ +L    G+    +  YE G  +     L  +   L +P
Sbjct: 3  DASVGEELRRLRREAALSQRELAAVTGVPQPNIAAYESGRRQPSPETLVRLGAALRAP 60


>gi|153004060|ref|YP_001378385.1| helix-turn-helix domain-containing protein [Anaeromyxobacter sp.
          Fw109-5]
 gi|152027633|gb|ABS25401.1| helix-turn-helix domain protein [Anaeromyxobacter sp. Fw109-5]
          Length = 68

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 25/54 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +R  R    +SQ+ L + +GI+   V   E+G        ++ +++ L  P +
Sbjct: 10 NVRRLRAKKKLSQKALADKVGISVSYVSMLERGQRSPPLETIEKMAKALGVPPA 63


>gi|227820046|ref|YP_002824017.1| ExsI protein [Sinorhizobium fredii NGR234]
 gi|36958588|gb|AAQ87056.1| ExsI protein [Sinorhizobium fredii NGR234]
 gi|227339045|gb|ACP23264.1| ExsI protein [Sinorhizobium fredii NGR234]
          Length = 83

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R+R  R  +G S E L    G+   ++ + E G++    ++L+ I+  L+ P+S F
Sbjct: 24 RVRAAREAVGYSIEDLAVTCGLANAEINEIESGMDN-SPAKLKRIAIALQVPVSDF 78


>gi|325261427|ref|ZP_08128165.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
 gi|324032881|gb|EGB94158.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
          Length = 67

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 25/57 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + IR  R     +Q+++ + L IT     KYE G   +     + ++++    + + 
Sbjct: 4  ENIRNIREDKDKTQKEIADYLNITQTTYSKYELGKINIPVEVFEKLADLYGVTVDYL 60


>gi|288904941|ref|YP_003430163.1| transcriptional regulator MutR family [Streptococcus gallolyticus
          UCN34]
 gi|325977897|ref|YP_004287613.1| MutR family transcriptional regulator [Streptococcus gallolyticus
          subsp. gallolyticus ATCC BAA-2069]
 gi|288731667|emb|CBI13227.1| putative transcriptional regulator MutR family [Streptococcus
          gallolyticus UCN34]
 gi|325177825|emb|CBZ47869.1| MutR family transcriptional regulator [Streptococcus gallolyticus
          subsp. gallolyticus ATCC BAA-2069]
          Length = 290

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++GK  +  R+  G++   + E  GI+  Q+ ++E+G   +  +RL  + E +  PI+ 
Sbjct: 4  KHLGKLFKKYRVSRGLTLRDIAEA-GISTSQLSRFEQGKTDLTITRLALVLEEMNVPIAE 62

Query: 73 FF 74
          F 
Sbjct: 63 FM 64


>gi|222838495|gb|EEE76860.1| predicted protein [Populus trichocarpa]
          Length = 555

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 28/52 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  R   G+SQ +L + LG++  +V   E+    +   +L  I ++L++ +
Sbjct: 15 LKSLRKAAGVSQAQLAQRLGVSQSRVAAIERDPAAISVRQLMEILQLLDADL 66


>gi|254284170|ref|ZP_04959138.1| transcriptional regulator, XRE family with cupin sensor domain
           [gamma proteobacterium NOR51-B]
 gi|219680373|gb|EED36722.1| transcriptional regulator, XRE family with cupin sensor domain
           [gamma proteobacterium NOR51-B]
          Length = 211

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/99 (13%), Positives = 35/99 (35%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  ++   +P  + +G+R+   R   G + ++L    G++   + + E+G      +   
Sbjct: 20  MSNSEPAIDPAALRLGQRVVEMRQNNGQTLDQLASASGVSRSMLSQIERGKANPTLAVTY 79

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
            I++     I    D             ++  +     +
Sbjct: 80  RIAQSFGLSIGEMVDDPSLGSPIEVVHGSDPGNLFRDDE 118


>gi|167582937|ref|ZP_02375811.1| DNA-binding protein [Burkholderia thailandensis TXDOH]
          Length = 185

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++L R   G + + L E  G+T   + K E+G++    +    +S+ L+  +   F  S
Sbjct: 4  RLKLLRKQKGWTLDVLAEATGLTKSYLSKVERGLSVPSIAVALKLSKALQVDVEQLFSES 63


>gi|158321370|ref|YP_001513877.1| XRE family transcriptional regulator [Alkaliphilus oremlandii
          OhILAs]
 gi|158141569|gb|ABW19881.1| transcriptional regulator, XRE family [Alkaliphilus oremlandii
          OhILAs]
          Length = 78

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           R++  R    ++QE+LG  +G++ Q +   E             IS+V E  I   F F
Sbjct: 3  NRLKALRESFELTQEQLGALVGVSRQAINSIETEKFEPSIWLAYDISKVFECSIEDIFLF 62

Query: 75 DVSP 78
          + S 
Sbjct: 63 EESE 66


>gi|17229162|ref|NP_485710.1| transcriptional regulator [Nostoc sp. PCC 7120]
 gi|75907407|ref|YP_321703.1| XRE family transcriptional regulator [Anabaena variabilis ATCC
           29413]
 gi|17135490|dbj|BAB78036.1| transcriptional regulator [Nostoc sp. PCC 7120]
 gi|75701132|gb|ABA20808.1| transcriptional regulator, XRE family [Anabaena variabilis ATCC
           29413]
          Length = 115

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/100 (19%), Positives = 37/100 (37%), Gaps = 11/100 (11%)

Query: 5   KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG-ASRLQHIS 63
           K+ P P       RI L R   G++Q +L   +G+T   +Q +E G        R+    
Sbjct: 2   KQKPKP-------RIALLREKAGLTQLELSRLVGVTESTIQNWESGRTGTDHIERIIRFC 54

Query: 64  EVLESPISFFFDVSPTVCSDISSEENNVMD---FISTPDG 100
           + L   +    +          ++  ++ D    + T + 
Sbjct: 55  KALNCQVEDLIEYKDETTETSVNKPTSLSDIHHLLGTEEA 94


>gi|84498439|ref|ZP_00997209.1| putative DNA-binding protein [Janibacter sp. HTCC2649]
 gi|84381182|gb|EAP97066.1| putative DNA-binding protein [Janibacter sp. HTCC2649]
          Length = 122

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/118 (19%), Positives = 51/118 (43%), Gaps = 8/118 (6%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  +R +R+   +S  +L +  GI+   + + E+G+ R  A  LQ +++ LE      +
Sbjct: 12  LGDYLREQRLSHRLSLRQLSDLAGISNPYLSQLERGLKRPSAEILQQLAKGLEVSAETLY 71

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
                       +E  V +  ST            + D + R+ ++++  S + ++ K
Sbjct: 72  ------VKAGLLDEQPVAETTSTT-VRDAIAADPNLTD-RQRETLLDVYESFIGADPK 121


>gi|329890293|ref|ZP_08268636.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
 gi|328845594|gb|EGF95158.1| helix-turn-helix family protein [Brevundimonas diminuta ATCC
          11568]
          Length = 188

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 24/60 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R+R  R  LG+SQ  L    G+    V   E G        L+ + +     +  FF
Sbjct: 12 IGPRLRALRDRLGLSQRALARKAGVPSSTVSLVESGRTSPSVGSLKRLLDAAGISLGDFF 71


>gi|325298893|ref|YP_004258810.1| helix-turn-helix domain-containing protein [Bacteroides
          salanitronis DSM 18170]
 gi|324318446|gb|ADY36337.1| helix-turn-helix domain protein [Bacteroides salanitronis DSM
          18170]
          Length = 112

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G+ IR  R+   ++QE+LGE +G+   Q+ + E+G + +    +  + + L  
Sbjct: 44 IGEAIRNARLKQNLTQEELGERIGVQKAQISRMERGYS-ISIPTMSRVFKALGI 96


>gi|320330709|gb|EFW86684.1| XRE family transcriptional regulator [Pseudomonas syringae pv.
           glycinea str. race 4]
          Length = 119

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 50/120 (41%), Gaps = 2/120 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G  IR  R+  G++ E +    G     + K E+         L  +SE L +  S 
Sbjct: 1   MNIGAAIRKVRLEKGLTLEAVALDAGTYAGNLSKVERAQQLPSLDLLHKLSEALGTKTSE 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
            + V+    SD SS   +        + + + R+F  +   + R+  IE ++ +  S+  
Sbjct: 61  LYAVA-ESGSDNSSGAASEPSPEQGNEVILVRRHFQALT-PRNRKLAIEFLKLLGQSQDD 118


>gi|317123049|ref|YP_004103052.1| XRE family transcriptional regulator [Thermaerobacter marianensis
          DSM 12885]
 gi|315593029|gb|ADU52325.1| helix-turn-helix domain protein [Thermaerobacter marianensis DSM
          12885]
          Length = 193

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 29/59 (49%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G R+R  R    +S  ++    G+ F  + KYE+   +     L+ ++ + E P++ F
Sbjct: 4  LGGRLRRIRESRNLSIYEVERRTGMHFTTISKYERNERQPSLDVLRELAALYEVPVTVF 62


>gi|302385536|ref|YP_003821358.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
 gi|302196164|gb|ADL03735.1| transcriptional regulator, XRE family [Clostridium
          saccharolyticum WM1]
          Length = 110

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 26/70 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +GKR+  RR    ++QE L E   +T Q +   E G   +    +  +   LE    +
Sbjct: 6  KEIGKRMYDRRKQKNLTQEALAEKANVTPQTISTAELGHKAMRPETIISVCNALEISTDY 65

Query: 73 FFDVSPTVCS 82
                T   
Sbjct: 66 LLRGDITPSD 75


>gi|294619907|ref|ZP_06699283.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
          E1679]
 gi|312952950|ref|ZP_07771806.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
 gi|291593844|gb|EFF25342.1| transcriptional regulator, Cro/CI family [Enterococcus faecium
          E1679]
 gi|310629091|gb|EFQ12374.1| helix-turn-helix protein [Enterococcus faecalis TX0102]
          Length = 71

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R   G SQ +L + + +T Q V  ++ G       +++ +SE+L  P++  F
Sbjct: 5  SNLSRYRKEKGFSQIELAKKMNVTQQCVSSWQTGRTIPKPYQMKMLSEILSVPMNELF 62


>gi|283784131|ref|YP_003363996.1| transcriptional regulator of the polyamine metabolism genes
          [Citrobacter rodentium ICC168]
 gi|282947585|emb|CBG87140.1| transcriptional regulator of the polyamine metabolism genes
          [Citrobacter rodentium ICC168]
          Length = 185

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 35/80 (43%), Gaps = 1/80 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R   G+SQ +  E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSEIRQKQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFS 68

Query: 75 DVSPTVCSDISSEENNVMDF 94
          +        +   ++++++ 
Sbjct: 69 EPEKPDEPQVVINQDDLIEI 88


>gi|229829701|ref|ZP_04455770.1| hypothetical protein GCWU000342_01798 [Shuttleworthia satelles DSM
           14600]
 gi|229791690|gb|EEP27804.1| hypothetical protein GCWU000342_01798 [Shuttleworthia satelles DSM
           14600]
          Length = 114

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 28/116 (24%), Positives = 51/116 (43%), Gaps = 16/116 (13%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           G RI+  R+  G SQE++G  +G+     + +YE     V  + L  +++VL S +++  
Sbjct: 14  GGRIKAIRIQKGWSQEEMGFRIGVNKKSVISEYENDKRAVTLAMLPILADVLGSTMNYL- 72

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSE 130
                V    + E+ +++  I  P  L            K R+  IE +R +   E
Sbjct: 73  -----VTGHAAKEDPDIVLAIQLPKDL---------KTEKGRKAAIEHIRIVALME 114


>gi|228928376|ref|ZP_04091417.1| hypothetical protein bthur0010_30750 [Bacillus thuringiensis
          serovar pondicheriensis BGSC 4BA1]
 gi|228946950|ref|ZP_04109247.1| hypothetical protein bthur0007_30810 [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
 gi|228812682|gb|EEM59006.1| hypothetical protein bthur0007_30810 [Bacillus thuringiensis
          serovar monterrey BGSC 4AJ1]
 gi|228831423|gb|EEM77019.1| hypothetical protein bthur0010_30750 [Bacillus thuringiensis
          serovar pondicheriensis BGSC 4BA1]
          Length = 374

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 31/71 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R    ++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKIIADKRKEKRITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LISYKPQMEQE 74


>gi|261367082|ref|ZP_05979965.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
 gi|282571203|gb|EFB76738.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
          Length = 162

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQ----QVQKYEKGVNRVGASRLQHISEVLES 68
          + +G+RI   R++ GM+Q+ LG  +G   +    ++ +YE G     A     +++VL+ 
Sbjct: 1  MAIGERIHFFRLLRGMTQKYLGMAVGFPEKSADVRLAQYETGSRTPKADLTAALAQVLDV 60

Query: 69 PI 70
            
Sbjct: 61 SP 62


>gi|257413954|ref|ZP_04744773.2| transcriptional regulator [Roseburia intestinalis L1-82]
 gi|257201706|gb|EEU99990.1| transcriptional regulator [Roseburia intestinalis L1-82]
          Length = 170

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/51 (31%), Positives = 23/51 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           I+L R   GMSQE+L E    + Q V K+E G +         ++E    
Sbjct: 31 NIQLLRKRAGMSQEQLAELTETSRQTVSKWESGESIPDVIACDRMAEAFGV 81


>gi|209808835|ref|YP_002274406.1| Cro/CI family transcriptional regulator [Enterococcus faecium]
 gi|257880758|ref|ZP_05660411.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           1,230,933]
 gi|257883426|ref|ZP_05663079.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           1,231,502]
 gi|257895016|ref|ZP_05674669.1| transcriptional regulator [Enterococcus faecium 1,231,408]
 gi|260562582|ref|ZP_05833090.1| CRO/CI family transcriptional regulator [Enterococcus faecium C68]
 gi|209528672|dbj|BAG74973.1| Cro/CI family transcriptional regulator [Enterococcus faecium]
 gi|257814986|gb|EEV43744.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           1,230,933]
 gi|257819084|gb|EEV46412.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           1,231,502]
 gi|257831395|gb|EEV58002.1| transcriptional regulator [Enterococcus faecium 1,231,408]
 gi|260073092|gb|EEW61439.1| CRO/CI family transcriptional regulator [Enterococcus faecium C68]
          Length = 180

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 5/68 (7%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQ--VQKYEKGVNRVGASRLQHISE 64
            PNPV+   GKRI+  R   GM+ E+  + +G   Q+  +  +E+G +     RL  I+E
Sbjct: 47  KPNPVET--GKRIKSIRSNFGMTMEQFADLIG-NAQKGNINNWERGFSLPNKERLIKIAE 103

Query: 65  VLESPISF 72
           +    I +
Sbjct: 104 LSNKTIDW 111


>gi|254248400|ref|ZP_04941720.1| conserved hypothetical protein [Burkholderia cenocepacia PC184]
 gi|124874901|gb|EAY64891.1| conserved hypothetical protein [Burkholderia cenocepacia PC184]
          Length = 162

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 31/76 (40%), Gaps = 2/76 (2%)

Query: 23  RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
           R   G++Q +L   LGIT Q   + E   + V   RL  +   L   ++    +      
Sbjct: 46  RKSAGLTQAQLAARLGITQQSYAQLEANPSAVSIERLFKVMNALGVRMT--LSLDERDAP 103

Query: 83  DISSEENNVMDFISTP 98
             +++  +V + ++  
Sbjct: 104 AEAADSASVAEPVARR 119


>gi|116334802|ref|YP_796329.1| transcriptional regulator [Lactobacillus brevis ATCC 367]
 gi|116100149|gb|ABJ65298.1| Predicted transcriptional regulator [Lactobacillus brevis ATCC
          367]
          Length = 67

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 24/62 (38%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I  RR    +SQ +L +   +T Q +   E        S    ++ +LE+ +   F    
Sbjct: 5  IATRRKQRKLSQAELAQLTAVTRQTINTIENNKYDPSLSLAFKLAAILETTVDALFSNGE 64

Query: 79 TV 80
           V
Sbjct: 65 DV 66


>gi|29375148|ref|NP_814301.1| Cro/CI family transcriptional regulator [Enterococcus faecalis
          V583]
 gi|256852520|ref|ZP_05557895.1| transcriptional regulator [Enterococcus faecalis T8]
 gi|256964687|ref|ZP_05568858.1| CylR2 [Enterococcus faecalis HIP11704]
 gi|257085876|ref|ZP_05580237.1| conserved hypothetical protein [Enterococcus faecalis D6]
 gi|307272302|ref|ZP_07553561.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|21693300|gb|AAM75247.1|AF454824_42 EF0042 [Enterococcus faecalis]
 gi|29342607|gb|AAO80372.1| transcriptional regulator, Cro/CI family [Enterococcus faecalis
          V583]
 gi|256712067|gb|EEU27100.1| transcriptional regulator [Enterococcus faecalis T8]
 gi|256955183|gb|EEU71815.1| CylR2 [Enterococcus faecalis HIP11704]
 gi|256993906|gb|EEU81208.1| conserved hypothetical protein [Enterococcus faecalis D6]
 gi|306511024|gb|EFM80035.1| helix-turn-helix protein [Enterococcus faecalis TX0855]
 gi|315027717|gb|EFT39649.1| helix-turn-helix protein [Enterococcus faecalis TX2137]
          Length = 66

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 25/63 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            ++L R    +SQ +L   L ++ Q +   EK            I+  L++P+   F  
Sbjct: 4  NNLKLIREKKKISQSELAALLEVSRQTINGIEKNKYNPSLQLALKIAYYLDTPLEDIFQW 63

Query: 77 SPT 79
           P 
Sbjct: 64 QPE 66


>gi|302528966|ref|ZP_07281308.1| predicted protein [Streptomyces sp. AA4]
 gi|302437861|gb|EFL09677.1| predicted protein [Streptomyces sp. AA4]
          Length = 367

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 28/57 (49%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +G RI   R   G++Q  L + +G    ++QK E G        L+ I EVL+ P +
Sbjct: 94  LGSRILKWRTARGLTQVDLADGIGCKQPKIQKIESGKAGTRPDDLERIIEVLDIPPA 150


>gi|196037891|ref|ZP_03105201.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|196031161|gb|EDX69758.1| DNA-binding protein [Bacillus cereus NVH0597-99]
          Length = 374

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 31/71 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+ K I  +R    ++QE+L   +GIT   V K+E G +    + L  ++      I  
Sbjct: 4  INIHKIIADKRKEKRITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISIDE 63

Query: 73 FFDVSPTVCSD 83
               P +  +
Sbjct: 64 LISYKPQMEQE 74


>gi|167761292|ref|ZP_02433419.1| hypothetical protein CLOSCI_03697 [Clostridium scindens ATCC
          35704]
 gi|167660958|gb|EDS05088.1| hypothetical protein CLOSCI_03697 [Clostridium scindens ATCC
          35704]
          Length = 134

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 24/67 (35%), Gaps = 3/67 (4%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +PN   I +   +R  R    ++Q  L   L I+ Q    YE          L H++   
Sbjct: 1  MPN---IQLANNLRYLRKQHNLTQTTLSNMLNISRQAYSNYETSKRTPDLDSLLHLAGFY 57

Query: 67 ESPISFF 73
             ++  
Sbjct: 58 HVSLNDL 64


>gi|158319817|ref|YP_001512324.1| XRE family transcriptional regulator [Alkaliphilus oremlandii
          OhILAs]
 gi|158140016|gb|ABW18328.1| transcriptional regulator, XRE family [Alkaliphilus oremlandii
          OhILAs]
          Length = 71

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++ + R   G+SQE+  + + ++ Q +   E G           IS     PI   F
Sbjct: 3  NKVEILRKEKGLSQEEFAKIIRVSRQTISSIETGKYNPSLELAFIISNYFGKPIEEIF 60


>gi|89096186|ref|ZP_01169079.1| DNA-binding protein [Bacillus sp. NRRL B-14911]
 gi|89089040|gb|EAR68148.1| DNA-binding protein [Bacillus sp. NRRL B-14911]
          Length = 67

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 24/56 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R     +Q+ L + +G++ Q +   EKG      +    IS V   P+   F
Sbjct: 6  VREMRARFRYTQQDLADKIGVSRQTIGLIEKGDYAPSITLALKISSVFGVPVEQIF 61


>gi|333022876|ref|ZP_08450940.1| putative regulatory protein [Streptomyces sp. Tu6071]
 gi|332742728|gb|EGJ73169.1| putative regulatory protein [Streptomyces sp. Tu6071]
          Length = 184

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 27/73 (36%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G+R+R  R   GM+   L    GI+   + + E G+ R     L  ++      +     
Sbjct: 2  GERLRGLRKERGMTLAALSTSTGISVSTLSRLESGLRRPTLELLLPLARAHRVALDELVG 61

Query: 76 VSPTVCSDISSEE 88
            P     + +E 
Sbjct: 62 TRPVADPRVRAEP 74


>gi|331001960|ref|ZP_08325480.1| hypothetical protein HMPREF0491_00342 [Lachnospiraceae oral taxon
          107 str. F0167]
 gi|330411756|gb|EGG91161.1| hypothetical protein HMPREF0491_00342 [Lachnospiraceae oral taxon
          107 str. F0167]
          Length = 73

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 25/57 (43%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R    +SQ++L E +G++ Q +   EKG           I   L+  +   F
Sbjct: 5  KLKSARAAKDLSQQQLAEIVGVSRQTINAIEKGDYNPTIRLCLSICYALDKSLDELF 61


>gi|331086520|ref|ZP_08335599.1| hypothetical protein HMPREF0987_01902 [Lachnospiraceae bacterium
          9_1_43BFAA]
 gi|330410578|gb|EGG90006.1| hypothetical protein HMPREF0987_01902 [Lachnospiraceae bacterium
          9_1_43BFAA]
          Length = 136

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/76 (17%), Positives = 36/76 (47%), Gaps = 1/76 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPIS 71
          +  G++++  R   G++Q +L + +G++ + V+ +E            Q ++++L   IS
Sbjct: 1  MTFGEKVKNLRKNKGLNQTQLADAVGVSLRTVRGWEIEGRYPKKHDLYQKLADILSCDIS 60

Query: 72 FFFDVSPTVCSDISSE 87
          +         ++ S +
Sbjct: 61 YLMTEEEAFITEASEQ 76


>gi|325522491|gb|EGD01059.1| XRE family transcriptional regulator [Burkholderia sp. TJI49]
          Length = 140

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/46 (28%), Positives = 20/46 (43%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          R   G++Q +L   LG+T Q   + E   + V   RL  +   L  
Sbjct: 19 RKSAGLTQAQLAARLGVTQQSYAQLESNPSAVSIERLFKVLNALGV 64


>gi|325662274|ref|ZP_08150889.1| hypothetical protein HMPREF0490_01627 [Lachnospiraceae bacterium
          4_1_37FAA]
 gi|325471526|gb|EGC74747.1| hypothetical protein HMPREF0490_01627 [Lachnospiraceae bacterium
          4_1_37FAA]
          Length = 106

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 25/62 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KR+   R   G+S   +   LG +   + K E G      S   +I + L+     FFD 
Sbjct: 9  KRLTQLRNKQGISARDMSLSLGQSESYINKIENGKALPSMSAFFYICDFLKIHPRDFFDE 68

Query: 77 SP 78
          S 
Sbjct: 69 SD 70


>gi|307330667|ref|ZP_07609806.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
 gi|306883728|gb|EFN14775.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
          Length = 141

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 30/68 (44%), Gaps = 3/68 (4%)

Query: 7  IPNPVDIN---VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +P   D +   +G+RI   R + G S  +LG+   ++   +   EKG        +  ++
Sbjct: 1  MPYGNDEHTGGIGQRIAELRAVRGYSLRQLGQRSHVSASMLSMIEKGDRNASEEIVAAVA 60

Query: 64 EVLESPIS 71
            L+  +S
Sbjct: 61 RALDVGVS 68


>gi|300697493|ref|YP_003748154.1| transcriptional regulator [Ralstonia solanacearum CFBP2957]
 gi|299074217|emb|CBJ53762.1| putative transcriptional regulator [Ralstonia solanacearum
          CFBP2957]
          Length = 201

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/71 (14%), Positives = 26/71 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG  ++  R    +S ++L    G++   + + E+ +     + L  ++  L   ++ F 
Sbjct: 20 VGMALQALRQRQRLSLDELSRRAGVSKSMLSQIERNLANPTVAVLWRLANALGVSLTDFL 79

Query: 75 DVSPTVCSDIS 85
                     
Sbjct: 80 AGGDGERPGTG 90


>gi|240169634|ref|ZP_04748293.1| transcriptional regulatory protein [Mycobacterium kansasii ATCC
          12478]
          Length = 471

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 32/78 (41%), Gaps = 3/78 (3%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+R  R   G++Q  L   L ++   V + E     +    L  ++E    P  +F  
Sbjct: 7  GARLRRLREEQGLTQMALARALDLSTSYVNQLENDQRPITVPVLLALTERFGLPTRYF-- 64

Query: 76 VSPTVCSDISSEENNVMD 93
           +P   + + S+   V+ 
Sbjct: 65 -APDTDARLVSDLREVLA 81


>gi|256394502|ref|YP_003116066.1| XRE family transcriptional regulator [Catenulispora acidiphila
          DSM 44928]
 gi|256360728|gb|ACU74225.1| transcriptional regulator, XRE family [Catenulispora acidiphila
          DSM 44928]
          Length = 65

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 23/52 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +R  R   G+SQ+ LGE LG++ Q V   E+            I+    + +
Sbjct: 5  MRALRQGKGLSQQDLGEALGVSRQTVNAIEQSRYDPSLPLAIRIARYFGTTV 56


>gi|194015234|ref|ZP_03053850.1| transcriptional regulator [Bacillus pumilus ATCC 7061]
 gi|194012638|gb|EDW22204.1| transcriptional regulator [Bacillus pumilus ATCC 7061]
          Length = 156

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 1/77 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          +GK IR+ R   G S ++L E   ++   + K E+GV++      L+ +S  LE  +   
Sbjct: 2  IGKVIRIYRKRKGYSIQQLAEDAHVSKSYLSKIERGVHKNPSVQFLKKVSSSLEIDLQEL 61

Query: 74 FDVSPTVCSDISSEENN 90
          FD    +  D  S E+ 
Sbjct: 62 FDAETLMFHDSESGEHE 78


>gi|171910469|ref|ZP_02925939.1| Transcriptional regulator, XRE family protein [Verrucomicrobium
          spinosum DSM 4136]
          Length = 198

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/72 (15%), Positives = 26/72 (36%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +  ++G R++  R     S E L    G++   + + E+       +    I++     +
Sbjct: 17 ISRHLGARVKQLRSDRNWSLEALAGASGVSRSMLSEIEREQANPTLAVTLRIAQAFGMSL 76

Query: 71 SFFFDVSPTVCS 82
          S   +      S
Sbjct: 77 SELIETPGVSSS 88


>gi|254249607|ref|ZP_04942927.1| conserved hypothetical protein [Burkholderia cenocepacia PC184]
 gi|124876108|gb|EAY66098.1| conserved hypothetical protein [Burkholderia cenocepacia PC184]
          Length = 195

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++L R   G + + L +  G+T   + K E+G++    +    +S+ L   +   F  S
Sbjct: 19 RLKLLRKQKGWTLDVLADETGLTKSYLSKVERGLSVPSIAVALKLSKALNVDVEQLFSES 78


>gi|167648317|ref|YP_001685980.1| XRE family transcriptional regulator [Caulobacter sp. K31]
 gi|167350747|gb|ABZ73482.1| transcriptional regulator, XRE family [Caulobacter sp. K31]
          Length = 69

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 25/60 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G++Q  L E +G+T + +   E GV          ++  L + +   F +  
Sbjct: 10 LKAARTEAGLTQADLAELVGVTRKTINTVENGVFVPSTVLSLKLARALGTSVEALFQLPE 69


>gi|51596205|ref|YP_070396.1| prophage transcriptional regulator [Yersinia pseudotuberculosis IP
           32953]
 gi|186895226|ref|YP_001872338.1| XRE family transcriptional regulator [Yersinia pseudotuberculosis
           PB1/+]
 gi|51589487|emb|CAH21109.1| putative prophage transcriptional regulator [Yersinia
           pseudotuberculosis IP 32953]
 gi|186698252|gb|ACC88881.1| transcriptional regulator, XRE family [Yersinia pseudotuberculosis
           PB1/+]
          Length = 122

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 12/98 (12%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  R   G SQE +    G++ +   KYE+G     A+ L  ++      + +  
Sbjct: 12  IGARLREEREKTGESQEAMATNFGVSTRTWGKYERGETVPDAATLALLNAQYGLDVMYIL 71

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
               T    IS+EE            L+L   +  +DD
Sbjct: 72  TGKRTPPDTISTEE------------LKLVENYRAMDD 97


>gi|194433805|ref|ZP_03066079.1| transcriptional regulator PuuR [Shigella dysenteriae 1012]
 gi|194417908|gb|EDX34003.1| transcriptional regulator PuuR [Shigella dysenteriae 1012]
 gi|332098182|gb|EGJ03155.1| helix-turn-helix family protein [Shigella dysenteriae 155-74]
          Length = 185

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 35/79 (44%), Gaps = 1/79 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R   G+SQ +  E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFS 68

Query: 75 DVSPTVCSDISSEENNVMD 93
          +        +   ++++++
Sbjct: 69 EPEKPDEPQVVINQDDLIE 87


>gi|328553992|gb|AEB24484.1| hypothetical protein BAMTA208_11595 [Bacillus amyloliquefaciens
          TA208]
          Length = 74

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 25/65 (38%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
          R   G++QE L E L      +  +E G +         ++E+L+  I   F       S
Sbjct: 10 RKAKGLTQENLAEKLMYKKSTISNWENGYSTPKMEDAFKVAEILDCDIKELFFNQKGQES 69

Query: 83 DISSE 87
            S+ 
Sbjct: 70 HTSTA 74


>gi|293401672|ref|ZP_06645814.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291304930|gb|EFE46177.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 69

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 27/59 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          KR+R  R    +SQ +L + L I+ +    YE G   V    L  +++   + I +  D
Sbjct: 6  KRLRDLREDHDLSQAELAKFLNISQRTYSYYETGERSVPVEILAKLAKFYNTTIEYLID 64


>gi|257139965|ref|ZP_05588227.1| DNA-binding protein [Burkholderia thailandensis E264]
          Length = 185

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++L R   G + + L E  G+T   + K E+G++    +    +S+ L+  +   F  S
Sbjct: 4  RLKLLRKQKGWTLDVLAEAAGLTKSYLSKVERGLSVPSIAVALKLSKALQVDVEQLFSES 63


>gi|225017725|ref|ZP_03706917.1| hypothetical protein CLOSTMETH_01654 [Clostridium methylpentosum
          DSM 5476]
 gi|224949518|gb|EEG30727.1| hypothetical protein CLOSTMETH_01654 [Clostridium methylpentosum
          DSM 5476]
          Length = 81

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/63 (17%), Positives = 28/63 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RIR  R+    +Q ++   L I+     +YE G  R     +  ++   ++ + +  ++
Sbjct: 9  ERIRNLRIDHDYTQGEIAGLLQISQSTYAQYEVGKRRFPIKLIVKLALFYKTSVDYLLEL 68

Query: 77 SPT 79
          +  
Sbjct: 69 TDD 71


>gi|189462167|ref|ZP_03010952.1| hypothetical protein BACCOP_02849 [Bacteroides coprocola DSM
          17136]
 gi|189431140|gb|EDV00125.1| hypothetical protein BACCOP_02849 [Bacteroides coprocola DSM
          17136]
          Length = 73

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 24/54 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           RI+      G+SQ +L   LG TF  V  Y     +   S L  I+ +L+  +
Sbjct: 4  NRIKEALAARGISQTELANRLGKTFNMVNLYASNKVQPPISVLYQIANILDIDV 57


>gi|167588944|ref|ZP_02381332.1| transcriptional regulator, XRE family protein [Burkholderia
           ubonensis Bu]
          Length = 183

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 36/92 (39%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V +R+R  R   G+SQ +L +  G+T   +   E+G        L+ + E +   ++ FF
Sbjct: 5   VAERLRYVRNKHGLSQRELAKRAGVTNGTISLIEQGRVSPSVGSLKKLLECIPMSLAEFF 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                    + S  + + +  +      L   
Sbjct: 65  TFELVESRTVVSRRDEMPNLGNDALAFHLVGA 96


>gi|73669664|ref|YP_305679.1| transcriptional regulator [Methanosarcina barkeri str. Fusaro]
 gi|72396826|gb|AAZ71099.1| transcriptional regulator [Methanosarcina barkeri str. Fusaro]
          Length = 184

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/70 (20%), Positives = 28/70 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R+R  R +   + + + E L ++ +   KYE G   + AS L  I+  L   ++ 
Sbjct: 6  KEIADRVRELRELSDFTVKDMAEYLQVSNETYGKYEDGTADIPASMLFEIAHKLRVDMAT 65

Query: 73 FFDVSPTVCS 82
                   +
Sbjct: 66 LLTGEEPRMN 75


>gi|323486126|ref|ZP_08091457.1| hypothetical protein HMPREF9474_03208 [Clostridium symbiosum
          WAL-14163]
 gi|323692982|ref|ZP_08107203.1| transcriptional regulator [Clostridium symbiosum WAL-14673]
 gi|323400693|gb|EGA93060.1| hypothetical protein HMPREF9474_03208 [Clostridium symbiosum
          WAL-14163]
 gi|323502983|gb|EGB18824.1| transcriptional regulator [Clostridium symbiosum WAL-14673]
          Length = 69

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 22/51 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           R++  R   G+SQ +L   +G++ Q +   E G     A     +   L+
Sbjct: 9  NRLKTARAEQGISQGELAAMVGVSRQTISYIETGQFNPTAKLALLLCIALD 59


>gi|254496193|ref|ZP_05109088.1| phage repressor [Legionella drancourtii LLAP12]
 gi|254354585|gb|EET13225.1| phage repressor [Legionella drancourtii LLAP12]
          Length = 220

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/93 (17%), Positives = 38/93 (40%), Gaps = 4/93 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGEC-LGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G RI   R  LG++ ++L    + ++  ++  +E+     G    + ++E L    S+
Sbjct: 6   QIGNRITKARKELGITIKELAARTVTLSPARISNWEQCTRSPGPLEAKLLAEQLGVSASY 65

Query: 73  FFDVSPTVCSDISSEENNVMD---FISTPDGLQ 102
              ++     D+     N       ++T + L 
Sbjct: 66  LLCLTDNPQGDLIQNPENKFRHIPILNTKEALH 98


>gi|238750620|ref|ZP_04612120.1| Transcriptional regulator, XRE family with cupin sensor domain
          [Yersinia rohdei ATCC 43380]
 gi|238711268|gb|EEQ03486.1| Transcriptional regulator, XRE family with cupin sensor domain
          [Yersinia rohdei ATCC 43380]
          Length = 196

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 33/77 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G R+R  R+   ++ ++L   +G +   + K E  V     + L  ++  LE+ IS   
Sbjct: 15 LGMRLRHARLAQEITLKQLALKVGCSESLLSKLENEVASPSLAMLHRLASALETNISDLM 74

Query: 75 DVSPTVCSDISSEENNV 91
            S    S +   E  +
Sbjct: 75 AESWVADSPVLKPEQRI 91


>gi|227522686|ref|ZP_03952735.1| possible transcriptional regulator [Lactobacillus hilgardii ATCC
          8290]
 gi|227090134|gb|EEI25446.1| possible transcriptional regulator [Lactobacillus hilgardii ATCC
          8290]
          Length = 159

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 31/71 (43%)

Query: 3  GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          G  K+ + ++ ++ +RI   +     SQ  + + +GI      K + G  +V A  L  +
Sbjct: 25 GGNKMASHLEQSLAERIAYLQDRSQFSQADIAKKMGIDRTAFSKIKNGTRKVSADELNKL 84

Query: 63 SEVLESPISFF 73
          SE+      + 
Sbjct: 85 SEIFGVSTDYL 95


>gi|94497104|ref|ZP_01303677.1| hypothetical protein SKA58_18725 [Sphingomonas sp. SKA58]
 gi|94423476|gb|EAT08504.1| hypothetical protein SKA58_18725 [Sphingomonas sp. SKA58]
          Length = 270

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/87 (20%), Positives = 35/87 (40%), Gaps = 9/87 (10%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           RI+  R    ++QE L    G +   VQ+ E+G  +V A  +  I+          FD++
Sbjct: 29  RIKALRAARALTQEDLAALAGRSVASVQRIERGE-KVSAYTIASIAAA--------FDIT 79

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLN 104
               +   +++   +   +   G  L 
Sbjct: 80  AEALTAAPNDDRPYLPLATINGGRALV 106


>gi|254974648|ref|ZP_05271120.1| putative transcriptional regulator [Clostridium difficile
          QCD-66c26]
 gi|255092038|ref|ZP_05321516.1| putative transcriptional regulator [Clostridium difficile CIP
          107932]
 gi|255313774|ref|ZP_05355357.1| putative transcriptional regulator [Clostridium difficile
          QCD-76w55]
 gi|255516456|ref|ZP_05384132.1| putative transcriptional regulator [Clostridium difficile
          QCD-97b34]
 gi|255649554|ref|ZP_05396456.1| putative transcriptional regulator [Clostridium difficile
          QCD-37x79]
 gi|260682721|ref|YP_003214006.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260686319|ref|YP_003217452.1| putative transcriptional regulator [Clostridium difficile R20291]
 gi|306519681|ref|ZP_07406028.1| putative transcriptional regulator [Clostridium difficile
          QCD-32g58]
 gi|260208884|emb|CBA61852.1| putative transcriptional regulator [Clostridium difficile CD196]
 gi|260212335|emb|CBE03128.1| putative transcriptional regulator [Clostridium difficile R20291]
          Length = 183

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 39/89 (43%), Gaps = 5/89 (5%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          + K PN     VG+ +RL R  +G+S +K  +  G++   + + E+G +    S L  IS
Sbjct: 2  DNKFPN-----VGENLRLLRQEMGISLDKASKMTGVSKAMLGQIERGESSPTVSTLWKIS 56

Query: 64 EVLESPISFFFDVSPTVCSDISSEENNVM 92
             +   +   + +      I  EE   +
Sbjct: 57 SGFKINFTTLLNENTNTYEVIKKEEVEPI 85


>gi|134298860|ref|YP_001112356.1| helix-turn-helix domain-containing protein [Desulfotomaculum
          reducens MI-1]
 gi|134051560|gb|ABO49531.1| helix-turn-helix domain protein [Desulfotomaculum reducens MI-1]
          Length = 134

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 25/61 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG RIR  R+  G+ QE +    GI    V++YE             I+E +       +
Sbjct: 13 VGGRIRYYRLAHGLLQEDVATKAGIDVCTVKRYENNQREESLEICNKIAEAIGIDPKLLY 72

Query: 75 D 75
          D
Sbjct: 73 D 73



 Score = 45.2 bits (106), Expect = 0.003,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 27/51 (52%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           GKRI+  R+ L ++Q+  G+ LG+  + V  +EK   +        +++ L
Sbjct: 84  GKRIKSSRIKLNLTQQDFGQLLGVHRKTVVCWEKARKKPLREHYLLLAKFL 134


>gi|331087784|ref|ZP_08336710.1| hypothetical protein HMPREF1025_00293 [Lachnospiraceae bacterium
          3_1_46FAA]
 gi|330409765|gb|EGG89201.1| hypothetical protein HMPREF1025_00293 [Lachnospiraceae bacterium
          3_1_46FAA]
          Length = 181

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/54 (18%), Positives = 25/54 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           I+  R    ++Q++L + L ++ Q V ++E G         + ++  L+  + 
Sbjct: 37 NIKKFREEKNLTQQQLADKLYVSRQTVCRWENGSRCPDLITAKKLALELDVSMD 90


>gi|325266057|ref|ZP_08132743.1| XRE family transcriptional regulator [Kingella denitrificans ATCC
          33394]
 gi|324982695|gb|EGC18321.1| XRE family transcriptional regulator [Kingella denitrificans ATCC
          33394]
          Length = 102

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R    +SQ+ L + + ++ Q V   E        S    +++ L++ ++  F
Sbjct: 35 NRVRQFRKQKQLSQQALADLVEVSRQTVNMIENQDYNPTLSLCIRLAKALDTDLNALF 92


>gi|320547844|ref|ZP_08042128.1| cro/CI family transcriptional regulator [Streptococcus equinus
          ATCC 9812]
 gi|320447604|gb|EFW88363.1| cro/CI family transcriptional regulator [Streptococcus equinus
          ATCC 9812]
          Length = 65

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 26/62 (41%), Gaps = 2/62 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          +I+  R    +SQ +L E LG+T Q +   EKG           I++     I   F FD
Sbjct: 4  KIQELRKANKVSQAELAEALGVTRQTIISLEKGRYNASLELAHKIAKYFGMTIEEIFIFD 63

Query: 76 VS 77
            
Sbjct: 64 EE 65


>gi|311900818|dbj|BAJ33226.1| putative transcriptional regulator [Kitasatospora setae KM-6054]
          Length = 470

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 7/69 (10%)

Query: 7  IPNPVDI-------NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
           PNPV++         G  +R  R   G +Q +LG  +G     V + E G  R     +
Sbjct: 4  APNPVELPDGGTRQEFGALLRHWRRHAGWTQAQLGAAVGYDHTAVSRLEHGARRATPRLV 63

Query: 60 QHISEVLES 68
          + I E+L +
Sbjct: 64 RQIDELLGT 72


>gi|262067877|ref|ZP_06027489.1| toxin-antitoxin system, antitoxin component, Xre family
          [Fusobacterium periodonticum ATCC 33693]
 gi|291378598|gb|EFE86116.1| toxin-antitoxin system, antitoxin component, Xre family
          [Fusobacterium periodonticum ATCC 33693]
          Length = 231

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 33/59 (55%), Gaps = 1/59 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPI 70
          +++G+ I+ RR  L +S + + + L ++   + +YE   +  +   +L  +SE+L+  I
Sbjct: 1  MSIGEIIKKRRKKLNLSLKDIAKKLNVSESSISRYENEEIKNMRIDKLILLSEILQVDI 59



 Score = 48.3 bits (114), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 16/90 (17%), Positives = 38/90 (42%), Gaps = 1/90 (1%)

Query: 2   VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQ 60
              KK     +I +  +++  R+   +S +K+ + L IT   + KYE   +  +    + 
Sbjct: 69  SRKKKKATLKEIEIANKLKTLRIENNLSLKKVADFLNITSSTILKYENTDITNIPIDNIN 128

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENN 90
            ++E+ +   S+   +     ++I   E  
Sbjct: 129 KLAEIYKVNPSYILGLENYDKNEIHLSEEE 158


>gi|257792947|ref|YP_003186346.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
 gi|257479639|gb|ACV59957.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
          Length = 223

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 24/55 (43%), Gaps = 1/55 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESP 69
          G+ +R  R    ++  +L    G++   + + E G   R     L+ ++  L+ P
Sbjct: 5  GQYLRKLRKERNLTINQLALYSGVSSALISRIENGQRGRPKPDTLKKLASALKVP 59


>gi|302557278|ref|ZP_07309620.1| xre family toxin-antitoxin system, antitoxin component
          [Streptomyces griseoflavus Tu4000]
 gi|302474896|gb|EFL37989.1| xre family toxin-antitoxin system, antitoxin component
          [Streptomyces griseoflavus Tu4000]
          Length = 273

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 26/56 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG  +R  R    +SQ +L    G + + +   E G +R     +  ++E L+ P+
Sbjct: 16 VGPLLRAWREQRRVSQLELALRAGSSARHISFVETGRSRPSEEMVLRLAEHLDVPV 71


>gi|242372616|ref|ZP_04818190.1| Cro/CI family transcriptional regulator [Staphylococcus
          epidermidis M23864:W1]
 gi|242349671|gb|EES41272.1| Cro/CI family transcriptional regulator [Staphylococcus
          epidermidis M23864:W1]
          Length = 189

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/65 (16%), Positives = 25/65 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++  +I+  R   G SQE L E + ++ Q +  +E   +      L  +  +    +  
Sbjct: 1  MDISNQIKKFRQRDGYSQEFLAEKMFVSRQTISNWENNKSYPDIHNLLMMCNLFNVSLDD 60

Query: 73 FFDVS 77
               
Sbjct: 61 LVKGD 65


>gi|222081494|ref|YP_002540857.1| transcriptional regulator [Agrobacterium radiobacter K84]
 gi|221726173|gb|ACM29262.1| transcriptional regulator [Agrobacterium radiobacter K84]
          Length = 394

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 40/99 (40%), Gaps = 9/99 (9%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G+R+RL R   G +Q    E +G+    +   EKG  RV    +Q ++ +  +  +   
Sbjct: 13  LGERLRLARESTGKTQADAAEAIGVARTTLVAMEKGQRRVKIGEMQQLARLYGTTANALM 72

Query: 75  -------DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                  ++ P       +EE  V +  +     QL R 
Sbjct: 73  RKESVHIELVPKFRKLAENEERPVAE--AAELMAQLVRA 109


>gi|206559002|ref|YP_002229762.1| MerR family regulatory protein [Burkholderia cenocepacia J2315]
 gi|198035039|emb|CAR50911.1| MerR family regulatory protein [Burkholderia cenocepacia J2315]
          Length = 189

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/106 (18%), Positives = 40/106 (37%), Gaps = 4/106 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   + +       V +R+R  R   G+SQ +L +  G+T   +   E+G        L+
Sbjct: 1   MSETESMSTE----VAERLRFVRNKHGLSQRELAKRAGVTNGTISLIEQGRVSPSVGSLK 56

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
            + E +   ++ FF         + S  + + +  +     QL   
Sbjct: 57  KLLECIPMSLAEFFTFELVESRAVVSRRDEMPNLGNESLAFQLVGA 102


>gi|194016509|ref|ZP_03055123.1| transcriptional regulator [Bacillus pumilus ATCC 7061]
 gi|194011982|gb|EDW21550.1| transcriptional regulator [Bacillus pumilus ATCC 7061]
          Length = 153

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 26/51 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           ++  R I   +QE++ E +G++ Q V K+E G      +  + ++E+   
Sbjct: 13 NLKKMRKIHRFTQEEVAEKIGVSRQAVAKWESGETVPDINNCKALAELYGV 63


>gi|167563856|ref|ZP_02356772.1| DNA-binding protein [Burkholderia oklahomensis EO147]
 gi|167570993|ref|ZP_02363867.1| DNA-binding protein [Burkholderia oklahomensis C6786]
          Length = 195

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/73 (17%), Positives = 31/73 (42%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           V+  + +R+R  R + G S + L E   ++   +   E+  +   A  L+ ++  L   
Sbjct: 2  DVNQLIARRVRALRDLRGYSLDALAERSKVSRSNISLIERAQSSPTAVVLERLANALGVS 61

Query: 70 ISFFFDVSPTVCS 82
          ++  F+      +
Sbjct: 62 LASLFEDDRAAQA 74


>gi|153954897|ref|YP_001395662.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|219855349|ref|YP_002472471.1| hypothetical protein CKR_2006 [Clostridium kluyveri NBRC 12016]
 gi|146347755|gb|EDK34291.1| Predicted transcriptional regulator [Clostridium kluyveri DSM
          555]
 gi|219569073|dbj|BAH07057.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 71

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+++ R  L +SQ +L    G++ Q +   E G     A     +S+ L+      F
Sbjct: 9  NRLKVARAELNISQGQLASMAGVSRQTISSIETGQYCPSAKLALILSKCLQKNFEDLF 66


>gi|126698714|ref|YP_001087611.1| putative transcriptional regulator [Clostridium difficile 630]
 gi|255100133|ref|ZP_05329110.1| putative transcriptional regulator [Clostridium difficile
          QCD-63q42]
 gi|255306023|ref|ZP_05350195.1| putative transcriptional regulator [Clostridium difficile ATCC
          43255]
 gi|115250151|emb|CAJ67972.1| Transcriptional regulator, RmlC-type [Clostridium difficile]
          Length = 183

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 39/89 (43%), Gaps = 5/89 (5%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          + K PN     VG+ +RL R  +G+S +K  +  G++   + + E+G +    S L  IS
Sbjct: 2  DNKFPN-----VGENLRLLRQEMGISLDKASKMTGVSKAMLGQIERGESSPTVSTLWKIS 56

Query: 64 EVLESPISFFFDVSPTVCSDISSEENNVM 92
             +   +   + +      I  EE   +
Sbjct: 57 SGFKINFTTLLNENTNTYEVIKKEEVEPI 85


>gi|24378654|ref|NP_720609.1| putative transcriptional regulator [Streptococcus mutans UA159]
 gi|24376514|gb|AAN57915.1|AE014865_6 putative transcriptional regulator [Streptococcus mutans UA159]
          Length = 117

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 33/77 (42%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K  + +   V  ++R  R   G+SQE L E  G+  + + + E   + +    L+ + E 
Sbjct: 2  KKKSYLQKYVANKVRYHRQAQGISQESLSEKAGLGLKYINQIENQNHNLSLQTLEKVIEA 61

Query: 66 LESPISFFFDVSPTVCS 82
          L      FFD +    +
Sbjct: 62 LGMTPEDFFDFNSLEGT 78


>gi|30265281|ref|NP_847658.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47530816|ref|YP_022165.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49188093|ref|YP_031346.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|118480295|ref|YP_897446.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|165870026|ref|ZP_02214683.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167636539|ref|ZP_02394835.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|167641808|ref|ZP_02400049.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|170689396|ref|ZP_02880588.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|170708952|ref|ZP_02899384.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|177654077|ref|ZP_02936087.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190567768|ref|ZP_03020680.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|196045702|ref|ZP_03112932.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|225867228|ref|YP_002752606.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|227818018|ref|YP_002818027.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229603683|ref|YP_002869472.1| DNA-binding protein [Bacillus anthracis str. A0248]
 gi|254686321|ref|ZP_05150180.1| DNA-binding protein [Bacillus anthracis str. CNEVA-9066]
 gi|254724317|ref|ZP_05186101.1| DNA-binding protein [Bacillus anthracis str. A1055]
 gi|254735184|ref|ZP_05192893.1| DNA-binding protein [Bacillus anthracis str. Western North
          America USA6153]
 gi|254744390|ref|ZP_05202070.1| DNA-binding protein [Bacillus anthracis str. Kruger B]
 gi|254755692|ref|ZP_05207725.1| DNA-binding protein [Bacillus anthracis str. Vollum]
 gi|254759577|ref|ZP_05211602.1| DNA-binding protein [Bacillus anthracis str. Australia 94]
 gi|30259959|gb|AAP29144.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gi|47505964|gb|AAT34640.1| DNA-binding protein [Bacillus anthracis str. 'Ames Ancestor']
 gi|49182020|gb|AAT57396.1| DNA-binding protein [Bacillus anthracis str. Sterne]
 gi|118419520|gb|ABK87939.1| transcriptional regulator [Bacillus thuringiensis str. Al Hakam]
 gi|164714349|gb|EDR19869.1| DNA-binding protein [Bacillus anthracis str. A0488]
 gi|167510220|gb|EDR85625.1| DNA-binding protein [Bacillus anthracis str. A0193]
 gi|167528071|gb|EDR90871.1| DNA-binding protein [Bacillus anthracis str. A0442]
 gi|170126117|gb|EDS95012.1| DNA-binding protein [Bacillus anthracis str. A0389]
 gi|170666623|gb|EDT17394.1| DNA-binding protein [Bacillus anthracis str. A0465]
 gi|172080960|gb|EDT66039.1| DNA-binding protein [Bacillus anthracis str. A0174]
 gi|190561184|gb|EDV15157.1| DNA-binding protein [Bacillus anthracis Tsiankovskii-I]
 gi|196023533|gb|EDX62210.1| DNA-binding protein [Bacillus cereus 03BB108]
 gi|225788303|gb|ACO28520.1| DNA-binding protein [Bacillus cereus 03BB102]
 gi|227006050|gb|ACP15793.1| DNA-binding protein [Bacillus anthracis str. CDC 684]
 gi|229268091|gb|ACQ49728.1| DNA-binding protein [Bacillus anthracis str. A0248]
          Length = 63

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            ++  R   G+SQ +L + + +  Q +   E        +    +++ L++ ++  F
Sbjct: 2  NNVKQYRKSEGLSQLELAKRVKVARQTINLIENNKYNPSLALCIELAKALKTDLNSLF 59


>gi|309778350|ref|ZP_07673275.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 3_1_53]
 gi|308913881|gb|EFP59696.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 3_1_53]
          Length = 45

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/40 (37%), Positives = 23/40 (57%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN 52
          +++GK I   R  LG +QE L   L ++   V K+E GV+
Sbjct: 1  MDIGKNIARLRHELGYTQEALAARLHVSCAAVSKWEHGVS 40


>gi|304403822|ref|ZP_07385484.1| stress protein [Paenibacillus curdlanolyticus YK9]
 gi|304346800|gb|EFM12632.1| stress protein [Paenibacillus curdlanolyticus YK9]
          Length = 250

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGI-TFQQVQKYEKGV-NRVGASRLQHISEVLES 68
            +G  +   R  +GM+Q++L E +G  +   + + E+G  +R   S+L  ++E L  
Sbjct: 186 QIGHNVERVRRSIGMTQKQLAEKIGYKSASPISRLERGELDRFSHSQLLLLAEALNV 242


>gi|266625083|ref|ZP_06118018.1| putative transcriptional regulator [Clostridium hathewayi DSM
           13479]
 gi|288863021|gb|EFC95319.1| putative transcriptional regulator [Clostridium hathewayi DSM
           13479]
          Length = 151

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 42/88 (47%), Gaps = 5/88 (5%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G R+R  R+    +Q+K+ ECLGIT     K E+G + +   +L  ++E ++  +++
Sbjct: 51  REMGNRLRQIRLEKNWTQDKMAECLGITKAFYGKIERGESSIALEKLALLNETMDIDLNY 110

Query: 73  FFDVS-----PTVCSDISSEENNVMDFI 95
                     P    D+  E+   M+ +
Sbjct: 111 LITGETIPVLPINFQDVPREKRYSMEQL 138


>gi|257066290|ref|YP_003152546.1| transcriptional regulator, XRE family [Anaerococcus prevotii DSM
          20548]
 gi|256798170|gb|ACV28825.1| transcriptional regulator, XRE family [Anaerococcus prevotii DSM
          20548]
          Length = 206

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 32/75 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G +++  R    M QE L + LGI    +  YE+         LQ  ++       +
Sbjct: 1  MSLGAKLKQLREEQEMKQETLAQILGINRATISMYERNQRVPSTEILQKYTKTFNVSSDY 60

Query: 73 FFDVSPTVCSDISSE 87
              +    ++I++E
Sbjct: 61 LLGNTHYKSNNINNE 75


>gi|227112403|ref|ZP_03826059.1| putative DNA-binding protein [Pectobacterium carotovorum subsp.
          brasiliensis PBR1692]
          Length = 197

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 23/53 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR  R  L +S  +L +  G+    + + E G+       L  ++  L+  +S
Sbjct: 27 IRRERERLNLSVTELAKRAGLAKSTLSQLETGIGNPSLETLWALAMALDVQVS 79


>gi|262201253|ref|YP_003272461.1| XRE family transcriptional regulator [Gordonia bronchialis DSM
          43247]
 gi|262084600|gb|ACY20568.1| helix-turn-helix domain protein [Gordonia bronchialis DSM 43247]
          Length = 105

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI + R    MS+ +L   +GI  Q V   E+G N         I  V + P+   F
Sbjct: 14 NRIAVLRAERRMSRAELAALVGINVQSVGALERGDNYPSLDLAFRICAVFDLPVEAVF 71


>gi|226947857|ref|YP_002802948.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
 gi|226844191|gb|ACO86857.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
          Length = 130

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++   R   G+SQ++LG  L ++ Q + K+E G       +L  + +  E  + 
Sbjct: 5  NKLYSLRKQKGLSQDELGSKLNVSRQTISKWELGETTPELEKLIALGDFFEISLD 59


>gi|224542833|ref|ZP_03683372.1| hypothetical protein CATMIT_02025 [Catenibacterium mitsuokai DSM
          15897]
 gi|224524245|gb|EEF93350.1| hypothetical protein CATMIT_02025 [Catenibacterium mitsuokai DSM
          15897]
          Length = 177

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 36/81 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G++I+  R+   ++ E+L     ++   + + E+ +     + L  I E L + +  
Sbjct: 1  MDLGRKIKQLRLANDLTLEELANRSELSKGFLSQVERNLTSPSVATLDDILEALGTNLHD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FFD           ++  V +
Sbjct: 61 FFDQQEDEQLVFGEKDFFVNE 81


>gi|254513121|ref|ZP_05125187.1| DNA-binding protein [Rhodobacteraceae bacterium KLH11]
 gi|221533120|gb|EEE36115.1| DNA-binding protein [Rhodobacteraceae bacterium KLH11]
          Length = 193

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/73 (15%), Positives = 29/73 (39%), Gaps = 2/73 (2%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          + +KK    +   +G+ ++  R    ++  +L     ++   + + E G        LQ 
Sbjct: 1  MQDKKTETEL--EIGRTLQRLRQERSLTVTELAARAKVSTPMISRIENGHVSPSLGTLQA 58

Query: 62 ISEVLESPISFFF 74
          +++ L   +   F
Sbjct: 59 LADALSVSMMALF 71


>gi|146298449|ref|YP_001193040.1| XRE family transcriptional regulator [Flavobacterium johnsoniae
          UW101]
 gi|146152867|gb|ABQ03721.1| transcriptional regulator, XRE family [Flavobacterium johnsoniae
          UW101]
          Length = 137

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 1/57 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           ++G+ I   R +  M QE L   +G   Q +   E G   V   +L+ I+E L   
Sbjct: 7  KHIGRNISRIRELRDMKQEALAIAIGTNQQSISIIE-GSESVDEEKLKKIAEALGVS 62


>gi|95929111|ref|ZP_01311856.1| transcriptional regulator, XRE family with cupin sensor
          [Desulfuromonas acetoxidans DSM 684]
 gi|95135012|gb|EAT16666.1| transcriptional regulator, XRE family with cupin sensor
          [Desulfuromonas acetoxidans DSM 684]
          Length = 198

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 27/65 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G ++R  R    M+ + L     ++   + + E        S L  I++  E  ++ 
Sbjct: 12 LQIGMKVRNLRQERRMTLQDLANMTRLSKPLLSQIENNQVIPPLSTLLRIAKAFEVSLNC 71

Query: 73 FFDVS 77
          FF+  
Sbjct: 72 FFEDE 76


>gi|296452101|ref|ZP_06893812.1| transcriptional regulator [Clostridium difficile NAP08]
 gi|296877457|ref|ZP_06901490.1| transcriptional regulator [Clostridium difficile NAP07]
 gi|296259051|gb|EFH05935.1| transcriptional regulator [Clostridium difficile NAP08]
 gi|296431469|gb|EFH17283.1| transcriptional regulator [Clostridium difficile NAP07]
          Length = 144

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/68 (17%), Positives = 29/68 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + + ++  R I   +QE+L E L ++ Q + K+E G +         ++++    +    
Sbjct: 5  INENLKSLRKIHQYTQEELAEKLNVSRQSIAKWESGESIPDIGSCIKLAKLYNVKLDDLV 64

Query: 75 DVSPTVCS 82
          + S     
Sbjct: 65 NHSEEKTG 72


>gi|237798533|ref|ZP_04586994.1| hypothetical protein POR16_06826 [Pseudomonas syringae pv. oryzae
          str. 1_6]
 gi|331021386|gb|EGI01443.1| hypothetical protein POR16_06826 [Pseudomonas syringae pv. oryzae
          str. 1_6]
          Length = 77

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 26/52 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
            +R++R+ LG+SQE+L E  G+    +   E+    V    +  ++  L+ 
Sbjct: 16 SNVRIKRLALGLSQEELAELAGLHRTYIGMLERSEKNVTIYNIWRLACALQV 67


>gi|224503546|ref|ZP_03671853.1| hypothetical protein LmonFR_13737 [Listeria monocytogenes FSL
           R2-561]
 gi|313633537|gb|EFS00345.1| gp33 [Listeria seeligeri FSL N1-067]
          Length = 161

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/129 (15%), Positives = 49/129 (37%), Gaps = 5/129 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQ-QVQKYEKGVNRVGASRLQHISEVLESPIS 71
             + K++   R   G S+ ++ + LG+        +E G        L+ I+++    + 
Sbjct: 2   KTLSKKLEYLRNSKGWSKVEVAKRLGMKASSTYSNWEYGNREPDIDTLKRIADLYGVSVD 61

Query: 72  FFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVR-QKIIELVRSIVSSE 130
           +         +D  +     +D  +T + L+    +I+    + R +K + +       +
Sbjct: 62  YLIGRDKNNLADTIAAH---IDPNATEEELEEILAYIEEKQKEYRNEKEVNITEKAAEKD 118

Query: 131 KKYRTIEEE 139
           K+     EE
Sbjct: 119 KEVNKFVEE 127


>gi|170761379|ref|YP_001785917.1| DNA binding protein [Clostridium botulinum A3 str. Loch Maree]
 gi|169408368|gb|ACA56779.1| DNA binding protein [Clostridium botulinum A3 str. Loch Maree]
          Length = 70

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++  R    M+Q++L + + ++ + +   EKG           I+ V  + I   +
Sbjct: 3  NRVKELRTASNMTQQQLADLVSVSSRTIISLEKGQYNPSIMLAYKIAIVFNTTIEDLY 60


>gi|167618211|ref|ZP_02386842.1| DNA-binding protein [Burkholderia thailandensis Bt4]
          Length = 185

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++L R   G + + L E  G+T   + K E+G++    +    +S+ L+  +   F  S
Sbjct: 4  RLKLLRKQKGWTLDVLAEAAGLTKSYLSKVERGLSVPSIAVALKLSKALQVDVEQLFSES 63


>gi|84489417|ref|YP_447649.1| transcriptional regulator [Methanosphaera stadtmanae DSM 3091]
 gi|84372736|gb|ABC57006.1| predicted transcriptional regulator [Methanosphaera stadtmanae
          DSM 3091]
          Length = 72

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/50 (22%), Positives = 24/50 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          ++R  R  +G+SQ+ L + + +  Q +   E G           I+++L+
Sbjct: 4  KVRYLRQEMGISQQDLAKKVNVARQTISALEHGRYNPSLILAYQITKILK 53


>gi|28378640|ref|NP_785532.1| transcription regulator (putative) [Lactobacillus plantarum
          WCFS1]
 gi|28271476|emb|CAD64381.1| transcription regulator (putative) [Lactobacillus plantarum
          WCFS1]
          Length = 375

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M+   +  NP+      +++  R+  G + + L E  GI+ Q +  YE G        L 
Sbjct: 1  MMETTQF-NPI------QLKRARVARGKTMKVLAEETGISRQMISNYELGKTVPSGLNLV 53

Query: 61 HISEVLESPISFF 73
           +  VL  P ++F
Sbjct: 54 KLISVLNFPKNYF 66


>gi|322804888|emb|CBZ02447.1| putative HTH DNA binding protein [Clostridium botulinum H04402
          065]
          Length = 70

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/67 (16%), Positives = 29/67 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    M+Q++L + + ++ + +   EKG           I+ V  + I   + +
Sbjct: 3  NRVKELRSASNMTQQQLADLVSVSSRTIISLEKGQYNPSIMLAYKIARVFNTTIEELYCL 62

Query: 77 SPTVCSD 83
             + ++
Sbjct: 63 KENLENE 69


>gi|291460791|ref|ZP_06600181.1| conserved domain protein [Oribacterium sp. oral taxon 078 str.
          F0262]
 gi|291416595|gb|EFE90314.1| conserved domain protein [Oribacterium sp. oral taxon 078 str.
          F0262]
          Length = 64

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 24/57 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R    +SQ++L + +G++ Q +   EKG           I   L   +   F
Sbjct: 5  RMKSARAAKDLSQQQLADLVGVSRQTINAIEKGDYNPTIRLCTAICRALSKTLDELF 61


>gi|229490457|ref|ZP_04384298.1| transcriptional regulator, Cro/CI family [Rhodococcus erythropolis
           SK121]
 gi|229322747|gb|EEN88527.1| transcriptional regulator, Cro/CI family [Rhodococcus erythropolis
           SK121]
          Length = 190

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/117 (14%), Positives = 34/117 (29%), Gaps = 7/117 (5%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           ++  R   G+S  ++     I    + + E G+       L  +   L  P S   D   
Sbjct: 20  LKRERTRAGLSLSEVARRADIAKSTLSQLESGLGNPSLETLWALGNALGVPFSQLVDSQA 79

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRT 135
                I + E   +   +      L            R+   +L R +    +   +
Sbjct: 80  QTVQLIRAGEGPAIASANASYIATLL----APSPPNARR---DLYRIVAEPGEPRIS 129


>gi|237731603|ref|ZP_04562084.1| conserved hypothetical protein [Citrobacter sp. 30_2]
 gi|226907142|gb|EEH93060.1| conserved hypothetical protein [Citrobacter sp. 30_2]
          Length = 178

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 31/80 (38%), Gaps = 2/80 (2%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R     S  +L E  G++   + + E+  +    + L  I+  L  P S F  +SP
Sbjct: 12 LKTLRHQREWSLSRLAEETGVSKAMLGQIERNESSPTVATLWKIATGLNVPFSTF--ISP 69

Query: 79 TVCSDISSEENNVMDFISTP 98
                 + +      + TP
Sbjct: 70 PESEGTLTFDPQQQAMVVTP 89


>gi|157325326|ref|YP_001468746.1| gp42 [Listeria phage B054]
 gi|300765823|ref|ZP_07075797.1| cro/CI family transcriptional regulator [Listeria monocytogenes
          FSL N1-017]
 gi|66733331|gb|AAY53147.1| gp42 [Listeria phage B054]
 gi|300513400|gb|EFK40473.1| cro/CI family transcriptional regulator [Listeria monocytogenes
          FSL N1-017]
          Length = 61

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 26/57 (45%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          ++  R+   ++Q+++ +  GI        E+G  R    R + I+  L    + FF+
Sbjct: 4  LKKYRLDKDLTQQEVADQCGIPKNTYASIEQGKRRPSPERAKIIASNLGFDWTIFFN 60


>gi|157370058|ref|YP_001478047.1| XRE family transcriptional regulator [Serratia proteamaculans
          568]
 gi|157321822|gb|ABV40919.1| transcriptional regulator, XRE family [Serratia proteamaculans
          568]
          Length = 191

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 28/74 (37%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +   +R  R   G+SQ  L E   ++ + +   E G   V  + L  +++ L    +  
Sbjct: 18 YLSSNLRGYRQQAGLSQVALAEKSDVSRRMLAGIEAGDRNVSLAVLDKLADALNISFTDL 77

Query: 74 FDVSPTVCSDISSE 87
               T  S +  E
Sbjct: 78 IQAPETRGSHLVGE 91


>gi|16126471|ref|NP_421035.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
          CB15]
 gi|221235251|ref|YP_002517688.1| Cro/CI family transcriptional regulator [Caulobacter crescentus
          NA1000]
 gi|13423739|gb|AAK24203.1| transcriptional regulator, Cro/CI family [Caulobacter crescentus
          CB15]
 gi|220964424|gb|ACL95780.1| transcriptional regulator, Cro/CI family [Caulobacter crescentus
          NA1000]
          Length = 64

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 22/61 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R     SQ  L + L ++ Q +   E G           I+ +   PI   F  
Sbjct: 3  NRLKVLRAERDWSQADLADRLEVSRQTINALETGKYDPSLPLAFKIARLFGQPIESIFQD 62

Query: 77 S 77
           
Sbjct: 63 E 63


>gi|116618781|ref|YP_819152.1| XRE family transcriptional regulator [Leuconostoc mesenteroides
           subsp. mesenteroides ATCC 8293]
 gi|116097628|gb|ABJ62779.1| Transcriptional regulator, xre family [Leuconostoc mesenteroides
           subsp. mesenteroides ATCC 8293]
          Length = 111

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 48/101 (47%), Gaps = 9/101 (8%)

Query: 24  MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF----DVSPT 79
              G+S E+L + +GI+   + +++  V+    S +   ++ L   + +      D++PT
Sbjct: 12  KKRGISMERLAKEIGISKSGIYQWD--VHEPKPSTINKAADFLHVSVDYLMERTDDMNPT 69

Query: 80  VCSDISSEENNVMDFI---STPDGLQLNRYFIQIDDVKVRQ 117
              D++  +  V  FI   +T + ++  +  ++I  +  R+
Sbjct: 70  SSDDLTEPQKQVAYFIDPQATKEDIEQIKKLVEIAKLSKRR 110


>gi|283783004|ref|YP_003373758.1| DNA-binding protein [Gardnerella vaginalis 409-05]
 gi|298253579|ref|ZP_06977369.1| transcriptional regulator [Gardnerella vaginalis 5-1]
 gi|283441892|gb|ADB14358.1| DNA-binding protein [Gardnerella vaginalis 409-05]
 gi|297532346|gb|EFH71234.1| transcriptional regulator [Gardnerella vaginalis 5-1]
          Length = 67

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+   R   G++QE+L + L ++ Q V   E G           I++     I   F
Sbjct: 3  NRLEQIRREKGITQEELADALEVSRQTVGSLENGRYNPSIILAYKIAKYFNLTIEEIF 60


>gi|261253380|ref|ZP_05945953.1| DNA-binding protein [Vibrio orientalis CIP 102891]
 gi|260936771|gb|EEX92760.1| DNA-binding protein [Vibrio orientalis CIP 102891]
          Length = 182

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/84 (16%), Positives = 33/84 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +D  +G R +  R   G+SQ +L +  G+T   + + E        + L  +   + + +
Sbjct: 1  MDTAIGTRFKALREKAGLSQRELAKRAGVTNGFISQIENNAVSPSVASLSKLLSKIPTSM 60

Query: 71 SFFFDVSPTVCSDISSEENNVMDF 94
          + FF +         + +    + 
Sbjct: 61 AEFFAIDDPQPEQFYTRKEEQPEI 84


>gi|260583479|ref|ZP_05851227.1| repressor protein [Granulicatella elegans ATCC 700633]
 gi|260158105|gb|EEW93173.1| repressor protein [Granulicatella elegans ATCC 700633]
          Length = 227

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 23/57 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R   G SQ  + + L I+      +E G        L  ++++     S+F
Sbjct: 5  NRLKEIRTQQGYSQSFIAKQLEISRVAYHHWENGKTIPNQKNLIALADIFNVEASYF 61


>gi|255525370|ref|ZP_05392309.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296187980|ref|ZP_06856372.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
 gi|255510941|gb|EET87242.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|296047106|gb|EFG86548.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
          Length = 67

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 24/61 (39%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++  R   GM Q +L E +G+  + +   E G           I++   + +   F+  
Sbjct: 7  KVKEYRENAGMKQSELAELIGVRRETIVHLENGRYNPSLKMGMDIAKAFHTTVEELFEFE 66

Query: 78 P 78
           
Sbjct: 67 D 67


>gi|258515640|ref|YP_003191862.1| transcriptional regulator, XRE family [Desulfotomaculum acetoxidans
           DSM 771]
 gi|257779345|gb|ACV63239.1| transcriptional regulator, XRE family [Desulfotomaculum acetoxidans
           DSM 771]
          Length = 127

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/108 (14%), Positives = 42/108 (38%), Gaps = 9/108 (8%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           KR+ L       S++ +   + I+   + ++  G N   A +L  +++     I +    
Sbjct: 9   KRLSLLIKENKASKQAVANAINISRPAISQFASGENLPSAEKLVALADFFGVSIDYLV-G 67

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
                   ++  N + DF +     ++          +VRQ + ++++
Sbjct: 68  RSDDPRIPNALSNTICDFFADDSAPEM--------PPEVRQIVNKVIK 107


>gi|226307191|ref|YP_002767151.1| Xre family DNA-binding protein [Rhodococcus erythropolis PR4]
 gi|226186308|dbj|BAH34412.1| putative Xre family DNA-binding protein [Rhodococcus erythropolis
          PR4]
          Length = 268

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++VG  ++  R    ++Q  L    G++ + +   E G ++     + H+SE L+ P+
Sbjct: 6  MDVGTELKRWRERRRLTQLGLSAAAGVSTRHLSFIETGRSKPSRDMILHLSECLDVPL 63


>gi|170750642|ref|YP_001756902.1| hypothetical protein Mrad2831_4252 [Methylobacterium radiotolerans
           JCM 2831]
 gi|170657164|gb|ACB26219.1| hypothetical protein Mrad2831_4252 [Methylobacterium radiotolerans
           JCM 2831]
          Length = 101

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/77 (20%), Positives = 35/77 (45%), Gaps = 8/77 (10%)

Query: 54  VGASRLQH-ISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
            GA RL   I+E L+ P +  +           +E    +      +   L   + +IDD
Sbjct: 31  PGAGRLLQRIAEALQVPAASLY-------GPQGAERGAAVAGGRADEADALLHAYRRIDD 83

Query: 113 VKVRQKIIELVRSIVSS 129
            ++R++++ LV+ + ++
Sbjct: 84  PELRRRVLTLVQDLAAA 100


>gi|291530986|emb|CBK96571.1| Predicted transcriptional regulators [Eubacterium siraeum 70/3]
 gi|291551031|emb|CBL27293.1| Predicted transcriptional regulators [Ruminococcus torques L2-14]
 gi|295104178|emb|CBL01722.1| Predicted transcriptional regulators [Faecalibacterium
          prausnitzii SL3/3]
          Length = 118

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 37/76 (48%), Gaps = 2/76 (2%)

Query: 10 PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+D    +G+++R  R    ++Q++L +   ++ +Q+   EKG        L+ +++VL 
Sbjct: 2  PIDDLTALGQKMREARKNKELTQQELSDLSHVSVKQIANIEKGKMNPSYLILRALAKVLH 61

Query: 68 SPISFFFDVSPTVCSD 83
            +    +   ++  +
Sbjct: 62 ISLDTLINPDISLEDE 77


>gi|261879523|ref|ZP_06005950.1| transcriptional regulator [Prevotella bergensis DSM 17361]
 gi|270333840|gb|EFA44626.1| transcriptional regulator [Prevotella bergensis DSM 17361]
          Length = 73

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 23/57 (40%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++R  R   G+SQEKL E  G+    +   E+         +  I+  L    S  F
Sbjct: 16 KVRTLREQQGLSQEKLAERAGLHRTYIGMVERLERNPSLVCIYKIANGLGVHASQLF 72


>gi|256544375|ref|ZP_05471750.1| Xre family toxin-antitoxin system, antitoxin component
          [Anaerococcus vaginalis ATCC 51170]
 gi|256399907|gb|EEU13509.1| Xre family toxin-antitoxin system, antitoxin component
          [Anaerococcus vaginalis ATCC 51170]
          Length = 301

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/55 (32%), Positives = 26/55 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          I + K+I+  R    +SQ  L    GI  + + + E GVN    S L  IS +L 
Sbjct: 14 ILLAKKIKEVRKNRNISQLDLSVEAGIDRKTISRIENGVNEPSFSTLYKISYILN 68


>gi|169333659|ref|ZP_02860852.1| hypothetical protein ANASTE_00043 [Anaerofustis stercorihominis
          DSM 17244]
 gi|169259653|gb|EDS73619.1| hypothetical protein ANASTE_00043 [Anaerofustis stercorihominis
          DSM 17244]
          Length = 129

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 23/59 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           N+G R++  R     +QE + E   I+       E G  +   + L  I  VL   + 
Sbjct: 6  KNIGNRLKEIRKRERYTQENVAEFADISTSHYSHIENGTTKPSLNTLIRIVNVLNVSMD 64


>gi|220926083|ref|YP_002501385.1| XRE family transcriptional regulator [Methylobacterium nodulans
          ORS 2060]
 gi|219950690|gb|ACL61082.1| transcriptional regulator, XRE family [Methylobacterium nodulans
          ORS 2060]
          Length = 109

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 32/77 (41%), Gaps = 1/77 (1%)

Query: 3  GNKKIPNPVDIN-VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          G K    P D+  +  R+R  R   G+SQEK     G+ ++Q   +E    R+G      
Sbjct: 10 GRKSHVRPEDVRAISARLRALRKTTGLSQEKFAARCGLGYKQWGNFEAEEGRIGIDAAIA 69

Query: 62 ISEVLESPISFFFDVSP 78
          + +     + + +   P
Sbjct: 70 LVKEFGVTLDWIYLGHP 86


>gi|154244524|ref|YP_001415482.1| helix-turn-helix domain-containing protein [Xanthobacter
          autotrophicus Py2]
 gi|154158609|gb|ABS65825.1| helix-turn-helix domain protein [Xanthobacter autotrophicus Py2]
          Length = 263

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%), Gaps = 1/60 (1%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+  D ++G R+R  R + G++Q ++ E L I    V + E   + +  S L+     + 
Sbjct: 15 PDATDGHIGHRLREIRKLAGLTQAQVAERLQIVQSAVTRLESRKD-IHVSTLRDYLGAMG 73


>gi|16129260|ref|NP_415815.1| DNA-binding transcriptional repressor for the puu divergon
          [Escherichia coli str. K-12 substr. MG1655]
 gi|24112698|ref|NP_707208.1| DNA-binding transcriptional repressor PuuR [Shigella flexneri 2a
          str. 301]
 gi|30062819|ref|NP_836990.1| DNA-binding transcriptional repressor PuuR [Shigella flexneri 2a
          str. 2457T]
 gi|74312331|ref|YP_310750.1| DNA-binding transcriptional repressor PuuR [Shigella sonnei
          Ss046]
 gi|82544245|ref|YP_408192.1| DNA-binding transcriptional repressor PuuR [Shigella boydii
          Sb227]
 gi|82777190|ref|YP_403539.1| DNA-binding transcriptional repressor PuuR [Shigella dysenteriae
          Sd197]
 gi|89108145|ref|AP_001925.1| DNA-binding transcriptional repressor [Escherichia coli str. K-12
          substr. W3110]
 gi|157158238|ref|YP_001462606.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          E24377A]
 gi|157160810|ref|YP_001458128.1| DNA-binding transcriptional repressor PuuR [Escherichia coli HS]
 gi|170020334|ref|YP_001725288.1| DNA-binding transcriptional repressor PuuR [Escherichia coli ATCC
          8739]
 gi|170080978|ref|YP_001730298.1| DNA-binding transcriptional repressor [Escherichia coli str. K-12
          substr. DH10B]
 gi|170680966|ref|YP_001743877.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          SMS-3-5]
 gi|170768785|ref|ZP_02903238.1| transcriptional regulator PuuR [Escherichia albertii TW07627]
 gi|187731345|ref|YP_001880138.1| DNA-binding transcriptional repressor PuuR [Shigella boydii CDC
          3083-94]
 gi|188493518|ref|ZP_03000788.1| helix-turn-helix DNA-binding/cupin domain protein [Escherichia
          coli 53638]
 gi|191165095|ref|ZP_03026939.1| transcriptional regulator PuuR [Escherichia coli B7A]
 gi|193062757|ref|ZP_03043851.1| transcriptional regulator PuuR [Escherichia coli E22]
 gi|194425904|ref|ZP_03058460.1| transcriptional regulator PuuR [Escherichia coli B171]
 gi|194437065|ref|ZP_03069164.1| transcriptional regulator PuuR [Escherichia coli 101-1]
 gi|209918542|ref|YP_002292626.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          SE11]
 gi|218553857|ref|YP_002386770.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          IAI1]
 gi|218694875|ref|YP_002402542.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          55989]
 gi|218700021|ref|YP_002407650.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          IAI39]
 gi|218704829|ref|YP_002412348.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          UMN026]
 gi|238900535|ref|YP_002926331.1| DNA-binding transcriptional repressor [Escherichia coli BW2952]
 gi|253773699|ref|YP_003036530.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          'BL21-Gold(DE3)pLysS AG']
 gi|254161379|ref|YP_003044487.1| DNA-binding transcriptional repressor PuuR [Escherichia coli B
          str. REL606]
 gi|256018450|ref|ZP_05432315.1| DNA-binding transcriptional repressor PuuR [Shigella sp. D9]
 gi|256022988|ref|ZP_05436853.1| DNA-binding transcriptional repressor PuuR [Escherichia sp.
          4_1_40B]
 gi|260843648|ref|YP_003221426.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O103:H2 str. 12009]
 gi|260854998|ref|YP_003228889.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O26:H11 str. 11368]
 gi|260867748|ref|YP_003234150.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O111:H- str. 11128]
 gi|293404842|ref|ZP_06648834.1| transcriptional regulator [Escherichia coli FVEC1412]
 gi|293409702|ref|ZP_06653278.1| HTH-type transcriptional regulator puuR [Escherichia coli B354]
 gi|293414636|ref|ZP_06657285.1| putrescine utilization regulator [Escherichia coli B185]
 gi|293433661|ref|ZP_06662089.1| HTH-type transcriptional regulator puuR [Escherichia coli B088]
 gi|297516524|ref|ZP_06934910.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          OP50]
 gi|298380485|ref|ZP_06990084.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          FVEC1302]
 gi|300818983|ref|ZP_07099187.1| cupin domain protein [Escherichia coli MS 107-1]
 gi|300822532|ref|ZP_07102671.1| cupin domain protein [Escherichia coli MS 119-7]
 gi|300897366|ref|ZP_07115793.1| cupin domain protein [Escherichia coli MS 198-1]
 gi|300904951|ref|ZP_07122769.1| cupin domain protein [Escherichia coli MS 84-1]
 gi|300919489|ref|ZP_07135988.1| cupin domain protein [Escherichia coli MS 115-1]
 gi|300926689|ref|ZP_07142464.1| cupin domain protein [Escherichia coli MS 182-1]
 gi|300927813|ref|ZP_07143375.1| cupin domain protein [Escherichia coli MS 187-1]
 gi|300935406|ref|ZP_07150404.1| cupin domain protein [Escherichia coli MS 21-1]
 gi|300948384|ref|ZP_07162487.1| cupin domain protein [Escherichia coli MS 116-1]
 gi|300954551|ref|ZP_07166997.1| cupin domain protein [Escherichia coli MS 175-1]
 gi|301017611|ref|ZP_07182285.1| cupin domain protein [Escherichia coli MS 69-1]
 gi|301022735|ref|ZP_07186583.1| cupin domain protein [Escherichia coli MS 196-1]
 gi|301304353|ref|ZP_07210466.1| cupin domain protein [Escherichia coli MS 124-1]
 gi|301326966|ref|ZP_07220258.1| cupin domain protein [Escherichia coli MS 78-1]
 gi|301647199|ref|ZP_07247020.1| cupin domain protein [Escherichia coli MS 146-1]
 gi|307137942|ref|ZP_07497298.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          H736]
 gi|307309944|ref|ZP_07589594.1| transcriptional regulator, XRE family [Escherichia coli W]
 gi|309788300|ref|ZP_07682904.1| helix-turn-helix family protein [Shigella dysenteriae 1617]
 gi|309796914|ref|ZP_07691315.1| cupin domain protein [Escherichia coli MS 145-7]
 gi|312971493|ref|ZP_07785668.1| helix-turn-helix family protein [Escherichia coli 1827-70]
 gi|331641864|ref|ZP_08342999.1| HTH-type transcriptional regulator PuuR [Escherichia coli H736]
 gi|331652348|ref|ZP_08353367.1| HTH-type transcriptional regulator PuuR [Escherichia coli M718]
 gi|331662718|ref|ZP_08363641.1| HTH-type transcriptional regulator PuuR [Escherichia coli TA143]
 gi|331667689|ref|ZP_08368553.1| HTH-type transcriptional regulator PuuR [Escherichia coli TA271]
 gi|331672830|ref|ZP_08373616.1| HTH-type transcriptional regulator PuuR [Escherichia coli TA280]
 gi|331682793|ref|ZP_08383412.1| HTH-type transcriptional regulator PuuR [Escherichia coli H299]
 gi|332279502|ref|ZP_08391915.1| transcriptional regulator PuuR [Shigella sp. D9]
 gi|71164830|sp|P0A9U6|PUUR_ECOLI RecName: Full=HTH-type transcriptional regulator puuR
 gi|71164831|sp|P0A9U7|PUUR_SHIFL RecName: Full=HTH-type transcriptional regulator puuR
 gi|1742129|dbj|BAA14868.1| DNA-binding transcriptional repressor [Escherichia coli str. K12
          substr. W3110]
 gi|1787557|gb|AAC74381.1| DNA-binding transcriptional repressor for the puu divergon
          [Escherichia coli str. K-12 substr. MG1655]
 gi|24051617|gb|AAN42915.1| orf, conserved hypothetical protein [Shigella flexneri 2a str.
          301]
 gi|30041067|gb|AAP16797.1| hypothetical protein S1386 [Shigella flexneri 2a str. 2457T]
 gi|58197515|dbj|BAD88707.1| transcriptional repressor [Escherichia coli K-12]
 gi|73855808|gb|AAZ88515.1| conserved hypothetical protein [Shigella sonnei Ss046]
 gi|81241338|gb|ABB62048.1| conserved hypothetical protein [Shigella dysenteriae Sd197]
 gi|81245656|gb|ABB66364.1| conserved hypothetical protein [Shigella boydii Sb227]
 gi|157066490|gb|ABV05745.1| transcriptional regulator PuuR [Escherichia coli HS]
 gi|157080268|gb|ABV19976.1| transcriptional regulator PuuR [Escherichia coli E24377A]
 gi|169755262|gb|ACA77961.1| transcriptional regulator, XRE family [Escherichia coli ATCC
          8739]
 gi|169888813|gb|ACB02520.1| DNA-binding transcriptional repressor [Escherichia coli str. K-12
          substr. DH10B]
 gi|170122333|gb|EDS91264.1| transcriptional regulator PuuR [Escherichia albertii TW07627]
 gi|170518684|gb|ACB16862.1| transcriptional regulator PuuR [Escherichia coli SMS-3-5]
 gi|187428337|gb|ACD07611.1| transcriptional regulator PuuR [Shigella boydii CDC 3083-94]
 gi|188488717|gb|EDU63820.1| helix-turn-helix DNA-binding/cupin domain protein [Escherichia
          coli 53638]
 gi|190904867|gb|EDV64572.1| transcriptional regulator PuuR [Escherichia coli B7A]
 gi|192931879|gb|EDV84479.1| transcriptional regulator PuuR [Escherichia coli E22]
 gi|194415959|gb|EDX32225.1| transcriptional regulator PuuR [Escherichia coli B171]
 gi|194424048|gb|EDX40036.1| transcriptional regulator PuuR [Escherichia coli 101-1]
 gi|209911801|dbj|BAG76875.1| conserved hypothetical protein [Escherichia coli SE11]
 gi|218351607|emb|CAU97319.1| DNA-binding transcriptional repressor [Escherichia coli 55989]
 gi|218360625|emb|CAQ98183.1| DNA-binding transcriptional repressor [Escherichia coli IAI1]
 gi|218370007|emb|CAR17781.1| DNA-binding transcriptional repressor [Escherichia coli IAI39]
 gi|218431926|emb|CAR12811.1| DNA-binding transcriptional repressor [Escherichia coli UMN026]
 gi|238860975|gb|ACR62973.1| DNA-binding transcriptional repressor [Escherichia coli BW2952]
 gi|242377078|emb|CAQ31804.1| DNA-binding transcriptional repressor [Escherichia coli
          BL21(DE3)]
 gi|253324743|gb|ACT29345.1| transcriptional regulator, XRE family [Escherichia coli
          'BL21-Gold(DE3)pLysS AG']
 gi|253973280|gb|ACT38951.1| DNA-binding transcriptional repressor [Escherichia coli B str.
          REL606]
 gi|253977494|gb|ACT43164.1| DNA-binding transcriptional repressor [Escherichia coli
          BL21(DE3)]
 gi|257753647|dbj|BAI25149.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O26:H11 str. 11368]
 gi|257758795|dbj|BAI30292.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O103:H2 str. 12009]
 gi|257764104|dbj|BAI35599.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O111:H- str. 11128]
 gi|260449568|gb|ACX39990.1| transcriptional regulator, XRE family [Escherichia coli DH1]
 gi|281600723|gb|ADA73707.1| HTH-type transcriptional regulator puuR [Shigella flexneri
          2002017]
 gi|284921184|emb|CBG34250.1| transcriptional regulator of the polyamine metabolism genes
          [Escherichia coli 042]
 gi|291324480|gb|EFE63902.1| HTH-type transcriptional regulator puuR [Escherichia coli B088]
 gi|291427050|gb|EFF00077.1| transcriptional regulator [Escherichia coli FVEC1412]
 gi|291434694|gb|EFF07667.1| putrescine utilization regulator [Escherichia coli B185]
 gi|291470170|gb|EFF12654.1| HTH-type transcriptional regulator puuR [Escherichia coli B354]
 gi|298277927|gb|EFI19441.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          FVEC1302]
 gi|299881132|gb|EFI89343.1| cupin domain protein [Escherichia coli MS 196-1]
 gi|300318461|gb|EFJ68245.1| cupin domain protein [Escherichia coli MS 175-1]
 gi|300358850|gb|EFJ74720.1| cupin domain protein [Escherichia coli MS 198-1]
 gi|300400105|gb|EFJ83643.1| cupin domain protein [Escherichia coli MS 69-1]
 gi|300403100|gb|EFJ86638.1| cupin domain protein [Escherichia coli MS 84-1]
 gi|300413443|gb|EFJ96753.1| cupin domain protein [Escherichia coli MS 115-1]
 gi|300417265|gb|EFK00576.1| cupin domain protein [Escherichia coli MS 182-1]
 gi|300452059|gb|EFK15679.1| cupin domain protein [Escherichia coli MS 116-1]
 gi|300459384|gb|EFK22877.1| cupin domain protein [Escherichia coli MS 21-1]
 gi|300464098|gb|EFK27591.1| cupin domain protein [Escherichia coli MS 187-1]
 gi|300524948|gb|EFK46017.1| cupin domain protein [Escherichia coli MS 119-7]
 gi|300528444|gb|EFK49506.1| cupin domain protein [Escherichia coli MS 107-1]
 gi|300840340|gb|EFK68100.1| cupin domain protein [Escherichia coli MS 124-1]
 gi|300846437|gb|EFK74197.1| cupin domain protein [Escherichia coli MS 78-1]
 gi|301074685|gb|EFK89491.1| cupin domain protein [Escherichia coli MS 146-1]
 gi|306909662|gb|EFN40156.1| transcriptional regulator, XRE family [Escherichia coli W]
 gi|308119442|gb|EFO56704.1| cupin domain protein [Escherichia coli MS 145-7]
 gi|308923682|gb|EFP69185.1| helix-turn-helix family protein [Shigella dysenteriae 1617]
 gi|309701599|emb|CBJ00906.1| transcriptional regulator of the polyamine metabolism genes
          [Escherichia coli ETEC H10407]
 gi|310336090|gb|EFQ01290.1| helix-turn-helix family protein [Escherichia coli 1827-70]
 gi|313649492|gb|EFS13923.1| helix-turn-helix family protein [Shigella flexneri 2a str. 2457T]
 gi|315060554|gb|ADT74881.1| DNA-binding transcriptional repressor [Escherichia coli W]
 gi|315135938|dbj|BAJ43097.1| transcriptional regulator [Escherichia coli DH1]
 gi|315254342|gb|EFU34310.1| cupin domain protein [Escherichia coli MS 85-1]
 gi|315619382|gb|EFU99926.1| helix-turn-helix family protein [Escherichia coli 3431]
 gi|320180265|gb|EFW55200.1| Putrescine utilization regulator [Shigella boydii ATCC 9905]
 gi|320187693|gb|EFW62369.1| Putrescine utilization regulator [Shigella flexneri CDC 796-83]
 gi|320199337|gb|EFW73928.1| Putrescine utilization regulator [Escherichia coli EC4100B]
 gi|323153351|gb|EFZ39608.1| helix-turn-helix family protein [Escherichia coli EPECa14]
 gi|323162336|gb|EFZ48191.1| helix-turn-helix family protein [Escherichia coli E128010]
 gi|323168281|gb|EFZ53966.1| helix-turn-helix family protein [Shigella sonnei 53G]
 gi|323172339|gb|EFZ57976.1| helix-turn-helix family protein [Escherichia coli LT-68]
 gi|323179742|gb|EFZ65303.1| helix-turn-helix family protein [Escherichia coli 1180]
 gi|323185537|gb|EFZ70898.1| helix-turn-helix family protein [Escherichia coli 1357]
 gi|323378885|gb|ADX51153.1| Cupin 2 conserved barrel domain protein [Escherichia coli KO11]
 gi|323937624|gb|EGB33892.1| cupin domain-containing protein [Escherichia coli E1520]
 gi|323942417|gb|EGB38587.1| cupin domain-containing protein [Escherichia coli E482]
 gi|323947750|gb|EGB43753.1| cupin domain-containing protein [Escherichia coli H120]
 gi|323962457|gb|EGB58039.1| cupin domain-containing protein [Escherichia coli H489]
 gi|323964563|gb|EGB60037.1| cupin domain-containing protein [Escherichia coli M863]
 gi|323973458|gb|EGB68644.1| cupin domain-containing protein [Escherichia coli TA007]
 gi|323977066|gb|EGB72153.1| cupin domain-containing protein [Escherichia coli TW10509]
 gi|324117506|gb|EGC11412.1| cupin domain-containing protein [Escherichia coli E1167]
 gi|327253996|gb|EGE65625.1| helix-turn-helix family protein [Escherichia coli STEC_7v]
 gi|331038662|gb|EGI10882.1| HTH-type transcriptional regulator PuuR [Escherichia coli H736]
 gi|331050626|gb|EGI22684.1| HTH-type transcriptional regulator PuuR [Escherichia coli M718]
 gi|331061140|gb|EGI33104.1| HTH-type transcriptional regulator PuuR [Escherichia coli TA143]
 gi|331065274|gb|EGI37169.1| HTH-type transcriptional regulator PuuR [Escherichia coli TA271]
 gi|331070051|gb|EGI41420.1| HTH-type transcriptional regulator PuuR [Escherichia coli TA280]
 gi|331080424|gb|EGI51603.1| HTH-type transcriptional regulator PuuR [Escherichia coli H299]
 gi|332091697|gb|EGI96777.1| helix-turn-helix family protein [Shigella boydii 5216-82]
 gi|332094835|gb|EGI99879.1| helix-turn-helix family protein [Shigella boydii 3594-74]
 gi|332101854|gb|EGJ05200.1| transcriptional regulator PuuR [Shigella sp. D9]
 gi|332342898|gb|AEE56232.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          UMNK88]
 gi|332757959|gb|EGJ88286.1| helix-turn-helix family protein [Shigella flexneri 4343-70]
 gi|332759548|gb|EGJ89856.1| helix-turn-helix family protein [Shigella flexneri 2747-71]
 gi|332760399|gb|EGJ90689.1| helix-turn-helix family protein [Shigella flexneri K-671]
 gi|332767540|gb|EGJ97734.1| DNA-binding transcriptional repressor [Shigella flexneri 2930-71]
 gi|333005778|gb|EGK25296.1| helix-turn-helix family protein [Shigella flexneri K-218]
 gi|333007643|gb|EGK27121.1| helix-turn-helix family protein [Shigella flexneri K-272]
 gi|333019110|gb|EGK38400.1| helix-turn-helix family protein [Shigella flexneri K-304]
 gi|333019578|gb|EGK38858.1| helix-turn-helix family protein [Shigella flexneri K-227]
          Length = 185

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 35/79 (44%), Gaps = 1/79 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R   G+SQ +  E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFS 68

Query: 75 DVSPTVCSDISSEENNVMD 93
          +        +   ++++++
Sbjct: 69 EPEKPDEPQVVINQDDLIE 87


>gi|320182370|gb|EFW57268.1| putative transcriptional regulator [Shigella boydii ATCC 9905]
 gi|323170913|gb|EFZ56563.1| peptidase S24-like family protein [Escherichia coli LT-68]
          Length = 224

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 24 MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSD 83
             G+SQ +L + +GI+   +QK   G    G+ ++  ++  L+    +       +   
Sbjct: 2  RSAGVSQSQLADMVGISQPAIQKMSSGKTN-GSRKMVELANALKVRPEWLSSGIGEMRDG 60

Query: 84 ISSEENNVMD 93
             E +N+ +
Sbjct: 61 THEEPSNIRE 70


>gi|309803479|ref|ZP_07697573.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          11V1-d]
 gi|309805373|ref|ZP_07699422.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          09V1-c]
 gi|309810041|ref|ZP_07703887.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          2503V10-D]
 gi|312870910|ref|ZP_07731015.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          3008A-a]
 gi|312872192|ref|ZP_07732265.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2062A-h1]
 gi|325913360|ref|ZP_08175727.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          60-B]
 gi|329919644|ref|ZP_08276622.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          1401G]
 gi|308164488|gb|EFO66741.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          11V1-d]
 gi|308165300|gb|EFO67534.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          09V1-c]
 gi|308169540|gb|EFO71587.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          2503V10-D]
 gi|311092276|gb|EFQ50647.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          2062A-h1]
 gi|311093600|gb|EFQ51939.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LEAF
          3008A-a]
 gi|325477286|gb|EGC80431.1| DNA-binding helix-turn-helix protein [Lactobacillus iners UPII
          60-B]
 gi|328937296|gb|EGG33720.1| DNA-binding helix-turn-helix protein [Lactobacillus iners SPIN
          1401G]
          Length = 59

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/54 (20%), Positives = 30/54 (55%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++  R+  G++Q +  + L + FQ + KYE   +++    L+ +  + + P+++
Sbjct: 5  LKAARVNKGLTQREAAKYLKVNFQTISKYEIDSSKIPMKLLKDMCSLYKIPMNY 58


>gi|308176372|ref|YP_003915778.1| transcriptional regulator [Arthrobacter arilaitensis Re117]
 gi|307743835|emb|CBT74807.1| putative transcriptional regulator [Arthrobacter arilaitensis
          Re117]
          Length = 187

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 33/67 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          IN+G R+R  R    M+ +++ E  G+T   + + E+ +     S L  + EVL   +  
Sbjct: 13 INIGARLRGVRQTQRMTIDQVAELSGLTKGFLSRVERDLTSPSVSTLLRLCEVLSIEVGT 72

Query: 73 FFDVSPT 79
           F+V  T
Sbjct: 73 LFEVPET 79


>gi|312200129|ref|YP_004020190.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
 gi|311231465|gb|ADP84320.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
          Length = 273

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 36/85 (42%), Gaps = 1/85 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G  IR +R    +S  +L +  G++   + + E+G+ +  A  LQ I++ L      
Sbjct: 7  RELGDYIRDQRRAAHISLRQLAQQAGVSNPYLSQIERGLRKPSAEILQQIAKALRISAEV 66

Query: 73 FFDVSPTVCSDISSEENNVMDFIST 97
           + V   +  +    E+     ++ 
Sbjct: 67 LY-VQAGILEEREGGEDVHAAVLAD 90


>gi|322421833|ref|YP_004201056.1| helix-turn-helix domain-containing protein [Geobacter sp. M18]
 gi|320128220|gb|ADW15780.1| helix-turn-helix domain protein [Geobacter sp. M18]
          Length = 124

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 26/58 (44%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           G  IR  R   G++Q++L +  GI    + + E G   +G    + +++ L      F
Sbjct: 66  GVAIRGARGKEGLTQKQLAQRTGIAQHHISEMENGKRPIGKDTARRLADALNIDYRVF 123


>gi|218900380|ref|YP_002448791.1| DNA-binding protein [Bacillus cereus G9842]
 gi|218541269|gb|ACK93663.1| DNA-binding protein [Bacillus cereus G9842]
          Length = 63

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            ++  R   G+SQ +L + + +  Q +   E        +    +++ L++ ++  F
Sbjct: 2  NNVKQYRKSEGLSQLELAKKVNVARQTINLIENKKYNPSLALCIELAKALKTDLNSLF 59


>gi|167769004|ref|ZP_02441057.1| hypothetical protein ANACOL_00325 [Anaerotruncus colihominis DSM
          17241]
 gi|167668644|gb|EDS12774.1| hypothetical protein ANACOL_00325 [Anaerotruncus colihominis DSM
          17241]
          Length = 136

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 29/70 (41%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M+  + +   +   +GK IR  R   G +QE+L      +   + K E G      + L+
Sbjct: 1  MLKQEVMSMKLHRMLGKNIRFWREARGFTQEELAFRAQTSSSYISKMELGKENPTITVLE 60

Query: 61 HISEVLESPI 70
           I++ L    
Sbjct: 61 RIAKALAIDP 70


>gi|127511947|ref|YP_001093144.1| XRE family transcriptional regulator [Shewanella loihica PV-4]
 gi|126637242|gb|ABO22885.1| transcriptional regulator, XRE family [Shewanella loihica PV-4]
          Length = 168

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/84 (25%), Positives = 39/84 (46%), Gaps = 4/84 (4%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF---FD 75
          IR  R+    SQE+L +  G+  + +Q+ E+G  +     L+ ++ V E P+       D
Sbjct: 3  IRKLRLQRAWSQEQLAQHSGLNVRTIQRLERG-QKASLESLKSLASVFEVPLEALQQEMD 61

Query: 76 VSPTVCSDISSEENNVMDFISTPD 99
          +S T+        N  +  IS+ +
Sbjct: 62 MSMTMDKQTDEAVNESLAPISSDE 85


>gi|325846548|ref|ZP_08169463.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
 gi|325481306|gb|EGC84347.1| DNA-binding helix-turn-helix protein [Anaerococcus hydrogenalis
          ACS-025-V-Sch4]
          Length = 65

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 24/59 (40%), Gaps = 2/59 (3%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          I+  R   G+ QE L + LG++ Q +   E             IS   +  ++  F F+
Sbjct: 5  IKKLRKENGLRQEDLAKKLGVSRQTIIAIENNKYDPSLELAIKISIFFDKTVNDIFLFE 63


>gi|322804925|emb|CBZ02484.1| transcriptional regulator, XRE family [Clostridium botulinum
          H04402 065]
          Length = 130

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++   R   G+SQ++LG  L ++ Q + K+E G       +L  + +  E  + 
Sbjct: 5  NKLYSLRKQKGLSQDELGSKLNVSRQTISKWELGETTPELEKLIALGDFFEISLD 59


>gi|295107974|emb|CBL21927.1| Helix-turn-helix. [Ruminococcus obeum A2-162]
          Length = 71

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 29/57 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +RI+  R+   +SQ +LGE L I+ +    YE G   +    L  +++  ++ I + 
Sbjct: 4  QRIQDLRVDSDLSQRQLGEILHISQRSYSHYETGSRGIPIEMLIRLADYYDTTIDYL 60


>gi|260426951|ref|ZP_05780930.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
 gi|260421443|gb|EEX14694.1| transcriptional regulator, XRE family [Citreicella sp. SE45]
          Length = 463

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/129 (13%), Positives = 50/129 (38%), Gaps = 12/129 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R  LG++Q+     LGI+   + + E     V  + +  +++     ++ 
Sbjct: 6   LYAGAKLRDLRGRLGLTQKDFAGKLGISLPYLNQMENNNRPVSTTVVLALAQEFGFDVTE 65

Query: 73  F---------FDVSPTVCSDISSEENNVMDF-ISTPDGLQLNRYFIQIDDV--KVRQKII 120
                      D+   +   +  E   + D  ++  +   L R F+++     +  +++ 
Sbjct: 66  LGQGDSERLVTDMREALADPVFGEAPPLADLRLTASNAPALARAFLELHRAYRQTHERLA 125

Query: 121 ELVRSIVSS 129
            L  ++   
Sbjct: 126 SLDEALGRE 134


>gi|227484905|ref|ZP_03915221.1| hypothetical protein HMPREF0072_0308 [Anaerococcus lactolyticus
          ATCC 51172]
 gi|227237060|gb|EEI87075.1| hypothetical protein HMPREF0072_0308 [Anaerococcus lactolyticus
          ATCC 51172]
          Length = 205

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 2/61 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR--VGASRLQHISEVLESPI 70
          + +G+ I+ RR  L  S E L   +G +   + +YE+  N   +       I E+L++  
Sbjct: 1  MKIGQAIKYRREELNYSLEYLANRIGKSIPTMYRYERSENPDVLSLDVFLEICEILKTTP 60

Query: 71 S 71
           
Sbjct: 61 D 61


>gi|227892655|ref|ZP_04010460.1| conserved hypothetical protein [Lactobacillus ultunensis DSM
          16047]
 gi|227865526|gb|EEJ72947.1| conserved hypothetical protein [Lactobacillus ultunensis DSM
          16047]
          Length = 272

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 37/74 (50%), Gaps = 1/74 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ ++  R+  G +Q+++   + ++     K E+ ++ + A  L  I +      + 
Sbjct: 1  MTIGELLKSTRLNAGWTQKEMAAGV-VSESFYSKVERSIHHIDADTLLEILKAKRINPAL 59

Query: 73 FFDVSPTVCSDISS 86
          FF+ +PT   + +S
Sbjct: 60 FFNAAPTDEKNTAS 73


>gi|301066017|ref|YP_003788040.1| hypothetical protein LCAZH_0946 [Lactobacillus casei str. Zhang]
 gi|300438424|gb|ADK18190.1| hypothetical membrane protein [Lactobacillus casei str. Zhang]
          Length = 202

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  G+++   R    M+QE L   L +T Q +  +E+  +    + L  +S+V ++ + 
Sbjct: 1  MKFGEQLAALRKHRTMTQEDLAGQLMVTRQTISSWEREKSFPDLTMLLQLSKVFDTSLD 59


>gi|255655114|ref|ZP_05400523.1| putative transcriptional regulator [Clostridium difficile
          QCD-23m63]
 gi|296451102|ref|ZP_06892844.1| DNA-binding protein [Clostridium difficile NAP08]
 gi|296880545|ref|ZP_06904507.1| DNA-binding protein [Clostridium difficile NAP07]
 gi|296260109|gb|EFH06962.1| DNA-binding protein [Clostridium difficile NAP08]
 gi|296428499|gb|EFH14384.1| DNA-binding protein [Clostridium difficile NAP07]
          Length = 183

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 39/89 (43%), Gaps = 5/89 (5%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          + K PN     VG+ +RL R  +G+S +K  +  G++   + + E+G +    S L  IS
Sbjct: 2  DNKFPN-----VGENLRLLRQEMGISLDKASKMTGVSKAMLGQIERGESSPTVSTLWKIS 56

Query: 64 EVLESPISFFFDVSPTVCSDISSEENNVM 92
             +   +   + +      I  EE   +
Sbjct: 57 SGFKINFTTLLNENTNTYEVIKKEEVEPI 85


>gi|167464931|ref|ZP_02330020.1| Transcriptional regulator, xre family protein [Paenibacillus
          larvae subsp. larvae BRL-230010]
          Length = 57

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 27/53 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          N G+ +   R   GMSQE+L E L +  Q +   E+GV       L+ I+++ 
Sbjct: 4  NFGQNVARLRKKKGMSQEELAEKLDVKKQTISNIERGVRYPTFENLEKIAQLF 56


>gi|166033445|ref|ZP_02236274.1| hypothetical protein DORFOR_03171 [Dorea formicigenerans ATCC
           27755]
 gi|225374572|ref|ZP_03751793.1| hypothetical protein ROSEINA2194_00187 [Roseburia inulinivorans DSM
           16841]
 gi|166026630|gb|EDR45387.1| hypothetical protein DORFOR_03171 [Dorea formicigenerans ATCC
           27755]
 gi|225213632|gb|EEG95986.1| hypothetical protein ROSEINA2194_00187 [Roseburia inulinivorans DSM
           16841]
 gi|291524361|emb|CBK89948.1| Predicted transcriptional regulators [Eubacterium rectale DSM
           17629]
          Length = 118

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/132 (18%), Positives = 56/132 (42%), Gaps = 22/132 (16%)

Query: 10  PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P+D    +G+++R  R    ++Q++L +   ++ +Q+   EKG        L+ +++VL 
Sbjct: 2   PIDDLTALGQKMREARKNKELTQQELSDLSHVSVKQIANIEKGKMNPSYLILRALAKVLH 61

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKII----ELV 123
             +         +  D+S E+          +G+   +        ++R  ++    E V
Sbjct: 62  ISLDTL------INPDVSLED----------EGVNQMKMLYSSCPPEMRDTLLHHTQETV 105

Query: 124 RSIVSSEKKYRT 135
           + +    KK+ T
Sbjct: 106 KELTELSKKFET 117


>gi|126733799|ref|ZP_01749546.1| Transcriptional Regulator of molybdate metabolism, XRE family
          protein [Roseobacter sp. CCS2]
 gi|126716665|gb|EBA13529.1| Transcriptional Regulator of molybdate metabolism, XRE family
          protein [Roseobacter sp. CCS2]
          Length = 68

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/56 (17%), Positives = 25/56 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R    ++Q +L + +G++ + +   E GV     +    +++ L   +   F
Sbjct: 9  LRAHRTQAKLTQAELADLVGVSRKTINTIENGVFTPSTTLALTLADQLGCSVHDLF 64


>gi|146305289|ref|YP_001185754.1| XRE family transcriptional regulator [Pseudomonas mendocina ymp]
 gi|145573490|gb|ABP83022.1| transcriptional regulator, XRE family [Pseudomonas mendocina ymp]
          Length = 182

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/97 (24%), Positives = 44/97 (45%), Gaps = 8/97 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPIS 71
           ++VG R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S
Sbjct: 1   MDVGVRLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLK---KVLGGIPMS 57

Query: 72  F--FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
              FF  D+     + +    + + D  S    ++L 
Sbjct: 58  LVEFFSLDLEQENQTQVVYRASELTDICSGAITMKLI 94


>gi|87200219|ref|YP_497476.1| XRE family transcriptional regulator [Novosphingobium
          aromaticivorans DSM 12444]
 gi|87135900|gb|ABD26642.1| transcriptional regulator, XRE family [Novosphingobium
          aromaticivorans DSM 12444]
          Length = 107

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 1/81 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
          +G +I   R   G++ E+L +    +   + + E K V R  A +L+ I+  L    +F 
Sbjct: 5  LGTKINELRRERGLTLEQLAQATDSSKSYMWEIENKDVARPSAEKLERIANALGVTSAFL 64

Query: 74 FDVSPTVCSDISSEENNVMDF 94
           D S    ++   +      F
Sbjct: 65 IDASQVKPTEDVEDTAFFHRF 85


>gi|253690628|ref|YP_003019818.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
           subsp. carotovorum PC1]
 gi|251757206|gb|ACT15282.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
           subsp. carotovorum PC1]
          Length = 188

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/94 (15%), Positives = 36/94 (38%), Gaps = 2/94 (2%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           + + +   +G  ++  R   G S  +  E  G++   + + E+G +    + L  I+  L
Sbjct: 1   MSDELTHRIGNTLKTLRQEKGWSLTRSSEETGVSKAMLGQIERGESSPTVATLWKIATGL 60

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
               S F  + PT+  +  +  +         + 
Sbjct: 61  NVAFSTF--IQPTLAEEDVAYRSVANSAFREREA 92


>gi|282600636|ref|ZP_05979286.2| transcriptional regulator, Cro/CI family [Subdoligranulum
          variabile DSM 15176]
 gi|282571663|gb|EFB77198.1| transcriptional regulator, Cro/CI family [Subdoligranulum
          variabile DSM 15176]
          Length = 120

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 37/76 (48%), Gaps = 2/76 (2%)

Query: 10 PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+D    +G+++R  R    ++Q++L +   ++ +Q+   EKG        L+ +++VL 
Sbjct: 4  PIDDLTALGQKMREARKNKELTQQELSDLSHVSVKQIANIEKGKMNPSYLILRALAKVLH 63

Query: 68 SPISFFFDVSPTVCSD 83
            +    +   ++  +
Sbjct: 64 ISLDTLINPDISLEDE 79


>gi|255657067|ref|ZP_05402476.1| putative transcriptional regulator [Clostridium difficile
          QCD-23m63]
          Length = 141

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/68 (17%), Positives = 29/68 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + + ++  R I   +QE+L E L ++ Q + K+E G +         ++++    +    
Sbjct: 2  INENLKSLRKIHQYTQEELAEKLNVSRQSIAKWESGESIPDIGSCIKLAKLYNVKLDDLV 61

Query: 75 DVSPTVCS 82
          + S     
Sbjct: 62 NHSEEKTG 69


>gi|125717050|ref|YP_001034183.1| XRE family transcriptional regulator [Streptococcus sanguinis SK36]
 gi|125496967|gb|ABN43633.1| Transcriptional regulator, XRE family, putative [Streptococcus
           sanguinis SK36]
          Length = 150

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/125 (20%), Positives = 52/125 (41%), Gaps = 10/125 (8%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG+RI+  R+  G +Q +L E L ++   V K+E   N      L++++        +  
Sbjct: 4   VGERIKKLRIAQGFTQARLAEILHVSKAAVCKWESNTNLPKVMELKNMNSPFHVSADYLL 63

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
            ++     +    E  +           +  Y  Q++  + +Q  I+ V S   +E++  
Sbjct: 64  GLANRSAIEQLGSEKKLK---------AMAGYLHQLESPERKQACIDFVIS-QFNEQEAV 113

Query: 135 TIEEE 139
            IE E
Sbjct: 114 KIEAE 118


>gi|145220707|ref|YP_001131385.1| XRE family transcriptional regulator [Mycobacterium gilvum PYR-GCK]
 gi|315442341|ref|YP_004075220.1| Helix-turn-helix protein [Mycobacterium sp. Spyr1]
 gi|145213193|gb|ABP42597.1| transcriptional regulator, XRE family [Mycobacterium gilvum
           PYR-GCK]
 gi|315260644|gb|ADT97385.1| Helix-turn-helix protein [Mycobacterium sp. Spyr1]
          Length = 182

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 37/87 (42%), Gaps = 3/87 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  IR +R    +S  +L E  G++   + + E+G+ +  A  L  I++ L       +
Sbjct: 21  IGSFIRSQREAAQVSVRQLAEKAGVSNPYLSQIERGLRKPSADVLNQIAKALRVSAEVLY 80

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL 101
             +  +      + N V D I T   +
Sbjct: 81  IQAGILE---PGDTNEVRDAIITDMAI 104


>gi|163938006|ref|YP_001642891.1| XRE family transcriptional regulator [Bacillus weihenstephanensis
          KBAB4]
 gi|163865861|gb|ABY46916.1| transcriptional regulator, XRE family [Bacillus
          weihenstephanensis KBAB4]
          Length = 64

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 27/58 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+L R+   ++QE+L   + +  Q +   EKG           I++ L+  ++  F
Sbjct: 3  NKIKLSRIEKSLTQEQLAFQVKVARQTIGLIEKGKYNPSLQLCLAIAKALDKTLNDLF 60


>gi|321156891|emb|CBW38880.1| putative conjugative transposon replication initiation factor
          [Streptococcus pneumoniae]
          Length = 420

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 31/64 (48%), Gaps = 5/64 (7%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-----ESPIS 71
          ++++ +R+  G+SQ +L    GIT Q +   E G  +      Q + E L     ++P+ 
Sbjct: 13 QQLKEKRLAYGLSQNRLAVATGITRQYLSDIETGKVKPSEDLQQSLFEALERFNPDAPLE 72

Query: 72 FFFD 75
            FD
Sbjct: 73 MLFD 76


>gi|294499832|ref|YP_003563532.1| HTH-type transcriptional regulator AnsR [Bacillus megaterium QM
           B1551]
 gi|294349769|gb|ADE70098.1| HTH-type transcriptional regulator ansR (Ans operon repressor)
           [Bacillus megaterium QM B1551]
          Length = 118

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 31/89 (34%), Gaps = 2/89 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF-- 74
            R+   R     S +   + L I       YE G  R     L  I+E+ ++   +    
Sbjct: 3   SRLAQLRKEKKWSLQYTADQLEIAKSTYAGYESGYRRPSLEALVTIAELFDTSTDYLLGK 62

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQL 103
           +  P   SD   E  +      T DG +L
Sbjct: 63  EKEPHSLSDAPIELTSPQTHTITVDGAEL 91


>gi|291296947|ref|YP_003508345.1| XRE family transcriptional regulator [Meiothermus ruber DSM 1279]
 gi|290471906|gb|ADD29325.1| transcriptional regulator, XRE family [Meiothermus ruber DSM
          1279]
          Length = 230

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 31/69 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + +R  R   G+SQE L +  G+    V + E+G   +    L+ ++  L+   +     
Sbjct: 10 QNLRTLRYQRGLSQEDLADLAGLHRTYVSEVERGKRNLSLDNLERLANALQVEAAKLVSP 69

Query: 77 SPTVCSDIS 85
          +    +DI+
Sbjct: 70 NSFSTTDIA 78


>gi|269123675|ref|YP_003306252.1| transcriptional regulator, XRE family [Streptobacillus moniliformis
           DSM 12112]
 gi|268315001|gb|ACZ01375.1| transcriptional regulator, XRE family [Streptobacillus moniliformis
           DSM 12112]
          Length = 115

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/105 (17%), Positives = 40/105 (38%), Gaps = 1/105 (0%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            R++  R  L +S +K G  LG+    +   E     +    ++ I         +    
Sbjct: 3   NRVKELRKKLKLSGDKFGSKLGVKRSTISNLENQTRNLTEQMIKSICREFNVNEEWLRYG 62

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
           +  + + +     + +    TP  L + + +  + D ++RQK I 
Sbjct: 63  NGPMFNSLKEISLDELALDLTPLELNIIKAYFSL-DKEIRQKAIA 106


>gi|221271509|dbj|BAH15061.1| hypothetical protein [Vibrio parahaemolyticus]
 gi|328469183|gb|EGF40129.1| hypothetical protein VP10329_09881 [Vibrio parahaemolyticus
          10329]
          Length = 68

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 25/55 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G  +R  R   G+SQ+KL     I    V + E+G   +   +   I+ VL+  I
Sbjct: 9  GYNVRSMRKDKGISQDKLALAADIDRSYVGRIERGEVNITLEKAYQIASVLQCDI 63


>gi|297619135|ref|YP_003707240.1| XRE family transcriptional regulator [Methanococcus voltae A3]
 gi|297378112|gb|ADI36267.1| transcriptional regulator, XRE family [Methanococcus voltae A3]
          Length = 194

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/87 (25%), Positives = 35/87 (40%), Gaps = 2/87 (2%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           VG +I+  R +  MS E+L +  G   + ++K E G        L  I+  L   +  F
Sbjct: 7  QVGIKIKKVRELNNMSIEELAKVSGNDVELLKKIENGDLIPSLKPLIAIARALGVRLGTF 66

Query: 74 FDVSPTVCSDIS--SEENNVMDFISTP 98
           D  P +   +S      NV+ F    
Sbjct: 67 LDDLPELGPVVSRFGASENVVRFSGKK 93


>gi|116332766|ref|YP_794293.1| XRE family transcriptional regulator [Lactobacillus brevis ATCC
           367]
 gi|116098113|gb|ABJ63262.1| Transcriptional regulator, xre family [Lactobacillus brevis ATCC
           367]
          Length = 104

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/97 (13%), Positives = 38/97 (39%), Gaps = 11/97 (11%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + +G +++  R    ++Q+ +   + ++ Q +  +E G +      L  +S +    +  
Sbjct: 1   MTLGAKLKQARADHQLTQQAVATQVAVSRQTISSWETGKSFPDIDSLVTLSNLYGLSLDI 60

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ 109
                         E+  ++D++   + L+  R   Q
Sbjct: 61  LI-----------KEDTGMLDYLRKSEILRKLRPIYQ 86


>gi|159898022|ref|YP_001544269.1| XRE family transcriptional regulator [Herpetosiphon aurantiacus
          ATCC 23779]
 gi|159891061|gb|ABX04141.1| transcriptional regulator, XRE family [Herpetosiphon aurantiacus
          ATCC 23779]
          Length = 71

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 26/66 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R+ R     SQ  L + LG++ Q +   E G           I+++ E  I   F+ 
Sbjct: 3  NRLRVLRAEREWSQADLAQALGVSRQTINALETGKYDPSLPLAFKIADLFELAIEQIFER 62

Query: 77 SPTVCS 82
               +
Sbjct: 63 PSADQA 68


>gi|56461519|ref|YP_156800.1| Cro/CI family transcriptional regulator [Idiomarina loihiensis
          L2TR]
 gi|56180529|gb|AAV83251.1| Transcriptional regulator, Cro/CI family [Idiomarina loihiensis
          L2TR]
          Length = 191

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 34/89 (38%), Gaps = 2/89 (2%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M    K    ++  + KR+   R   GMS ++L +   I+   + + EKG        L 
Sbjct: 1  MTDKDKTA--INEAIAKRVYTFRKQYGMSLDELAKNAEISKGMLVQIEKGRANPSIGILC 58

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEEN 89
           ++  L   ++    VS      I   ++
Sbjct: 59 KLANALAVSVADIVAVSDDPKVTIRQPQD 87


>gi|307308819|ref|ZP_07588507.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          BL225C]
 gi|306900624|gb|EFN31236.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          BL225C]
          Length = 472

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+++R  R    ++Q +  E +GI+   + + E     V A+ L  ++E  +  I+
Sbjct: 6  LYIGRKVRDLRDGKRLTQGQFAERIGISTSYLNQIENNQRPVSAAVLLALAEKFQIDIA 64


>gi|291550212|emb|CBL26474.1| Helix-turn-helix [Ruminococcus torques L2-14]
          Length = 116

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/116 (12%), Positives = 45/116 (38%), Gaps = 7/116 (6%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +  +I       GMSQ++  +  GI    +  ++K      + ++  I EVL+     
Sbjct: 2   KTISDKIFELLKEKGMSQKEFAQRTGIAESSISDWKKKRTNPVSDKILIICEVLDVTP-- 59

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL--QLNRYFIQIDDVKVRQKIIELVRSI 126
            +++         +       ++ + +     L   + ++ D   ++++I  + ++
Sbjct: 60  -YELLSGA-EHTGNRSRYNNTYVISKETEIGMLVETYQKL-DTNAQKRLIGYLEAL 112


>gi|291539591|emb|CBL12702.1| Helix-turn-helix [Roseburia intestinalis XB6B4]
          Length = 280

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 32/65 (49%)

Query: 28 MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSDISSE 87
          M+Q++L E LG + + V K+E+G+     S    + E+L   ++ F        +++  +
Sbjct: 1  MTQKQLAEKLGKSDKSVSKWERGICLPDVSVYLELCEILGISLNEFLAGEDIEVTNVEKK 60

Query: 88 ENNVM 92
            + +
Sbjct: 61 SEDTL 65


>gi|163841767|ref|YP_001626172.1| Cro/CI family transcriptional regulator [Renibacterium
          salmoninarum ATCC 33209]
 gi|162955243|gb|ABY24758.1| transcriptional regulator, Cro/CI family [Renibacterium
          salmoninarum ATCC 33209]
          Length = 79

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 9/75 (12%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRL 59
          MV   +I N         IR  R   G M+Q +L E +G+T Q +   E+G         
Sbjct: 1  MVKPTRISNS--------IRGLRFSHGEMTQAELAERIGVTRQTIIAIEQGKYSPSLEVA 52

Query: 60 QHISEVLESPISFFF 74
            I+ +L+  +   F
Sbjct: 53 FQIAGILQVRLEDVF 67


>gi|154687854|ref|YP_001423015.1| putative transcriptional regulator [Bacillus amyloliquefaciens
          FZB42]
 gi|126363018|emb|CAM35832.1| hypothetical protein RBAM03558 [Bacillus amyloliquefaciens FZB42]
 gi|154353705|gb|ABS75784.1| putative transcriptional regulator [Bacillus amyloliquefaciens
          FZB42]
          Length = 67

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 21/59 (35%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
            I+  R    +SQ  L +   +T Q +   E        S    I+  L + I   F+
Sbjct: 3  NNIKKLRTAADISQNDLAKLCNVTRQTINAIENNKYDPTLSLAFSIAHALNTGIDKVFN 61


>gi|78187738|ref|YP_375781.1| XRE family transcriptional regulator [Chlorobium luteolum DSM
          273]
 gi|78167640|gb|ABB24738.1| transcriptional regulator, XRE family [Chlorobium luteolum DSM
          273]
          Length = 120

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 24/53 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +GK IR  R+  G SQE L E  G+    +   E+G   +       I++ L 
Sbjct: 11 LGKNIRHERVRQGFSQEDLAEKAGLHRTYIGMVERGERNITLLNYAKIADALN 63


>gi|293392401|ref|ZP_06636723.1| cro/CI family transcriptional regulator [Serratia odorifera DSM
          4582]
 gi|291425055|gb|EFE98262.1| cro/CI family transcriptional regulator [Serratia odorifera DSM
          4582]
          Length = 228

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +R +  R   G+SQ+ L   +G+T Q + K E G+  +   +++ ++  L     + 
Sbjct: 6  ERFKFARENSGLSQDDLAAKVGVTQQSIAKIENGIT-LQPRKIKELALSLGVSQQWL 61


>gi|317130649|ref|YP_004096931.1| XRE family transcriptional regulator [Bacillus cellulosilyticus
          DSM 2522]
 gi|315475597|gb|ADU32200.1| transcriptional regulator, XRE family [Bacillus cellulosilyticus
          DSM 2522]
          Length = 68

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/47 (23%), Positives = 23/47 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
           ++++ R  + ++Q++L E +G+T Q +   EKG           I 
Sbjct: 4  NKVKIARTQVNLTQQQLAEKIGVTRQTISLIEKGKYNPTLKLCLDIC 50


>gi|257439368|ref|ZP_05615123.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
 gi|257198243|gb|EEU96527.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
          Length = 86

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 3/58 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVG---ASRLQHISEVLESPIS 71
          ++++  R   G+SQ +L E  G+  +  QKYE+G   +     + L  I + L   +S
Sbjct: 12 EKLQKLRQAAGLSQSQLAEAAGVNVRMYQKYEQGDRDISKAQLTTLLRICKALSCKLS 69


>gi|253576963|ref|ZP_04854287.1| predicted protein [Paenibacillus sp. oral taxon 786 str. D14]
 gi|251843694|gb|EES71718.1| predicted protein [Paenibacillus sp. oral taxon 786 str. D14]
          Length = 115

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/109 (18%), Positives = 49/109 (44%), Gaps = 5/109 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G+++R  R    ++Q++    +G++   +   E+GV       +  +    +  +++
Sbjct: 1   MNLGEKVRTIRKSHELNQKEFALKIGVSQGTLSDIERGVCLPSCETIIALKNTFQCDLNW 60

Query: 73  FFDVSPTVCSD----ISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQ 117
                    S     ISSEE  ++  I      + N  + +I ++K+R+
Sbjct: 61  LLSDYDESFSQTPTYISSEELKLLTSIRALPAQEKNELY-EIIEIKMRK 108


>gi|228908228|ref|ZP_04072074.1| Transcriptional regulator, Xre [Bacillus thuringiensis IBL 200]
 gi|228851426|gb|EEM96234.1| Transcriptional regulator, Xre [Bacillus thuringiensis IBL 200]
          Length = 292

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R    MSQ +L   +  +  Q+ K EKG+    +  L  +SE L    ++ 
Sbjct: 5  NLGIIIKGLRKKKNMSQSELCHGI-CSQSQISKIEKGIIYPSSILLYQLSERLGIDPNYI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|225568854|ref|ZP_03777879.1| hypothetical protein CLOHYLEM_04933 [Clostridium hylemonae DSM
          15053]
 gi|225162353|gb|EEG74972.1| hypothetical protein CLOHYLEM_04933 [Clostridium hylemonae DSM
          15053]
          Length = 138

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/88 (18%), Positives = 33/88 (37%), Gaps = 4/88 (4%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +PN   I +   +R  R    ++Q+ L E L I+ Q    YE          L +++   
Sbjct: 1  MPN---IQLANNLRYLRKQNKLTQKDLSEMLNISRQAYSNYETSKRTPDLDSLLYLAGFY 57

Query: 67 ESPISFFFDVS-PTVCSDISSEENNVMD 93
             +      S P+     ++   ++ +
Sbjct: 58 NVNLDSLVLGSLPSPDQADAAASESIAE 85


>gi|218282728|ref|ZP_03488925.1| hypothetical protein EUBIFOR_01511 [Eubacterium biforme DSM 3989]
 gi|218216373|gb|EEC89911.1| hypothetical protein EUBIFOR_01511 [Eubacterium biforme DSM 3989]
          Length = 177

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 39/81 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +GK+++  R   G++ E+L     +T   + + E+ +     S L++I E L + ++ 
Sbjct: 1  MKIGKKLKELRTQNGLTLEELANRSELTKGFLSQLERDLTSPNISALENILEALGTNLAD 60

Query: 73 FFDVSPTVCSDISSEENNVMD 93
          FF  S        +++  V +
Sbjct: 61 FFQSSKEEQIVFHTQDFFVNE 81


>gi|167465718|ref|ZP_02330807.1| transcriptional regulator [Paenibacillus larvae subsp. larvae
          BRL-230010]
          Length = 70

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 29/54 (53%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          V +RIR  R + G +Q +L + +G++   +   E+G        LQ IS+VL+ 
Sbjct: 6  VAQRIRAFRKLKGYTQNELADEIGVSISVLGSIERGTRSADLKILQKISDVLKI 59


>gi|166033247|ref|ZP_02236076.1| hypothetical protein DORFOR_02972 [Dorea formicigenerans ATCC
          27755]
 gi|166027604|gb|EDR46361.1| hypothetical protein DORFOR_02972 [Dorea formicigenerans ATCC
          27755]
          Length = 354

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
             G+ I   R    M+Q +L E + +T + + ++E+G+       L+ +++VL   +
Sbjct: 4  KQFGQFIAGIRKEKKMTQAELAEKIHVTDKAISRWERGLGFPDIQTLEPLAQVLGISV 61


>gi|163757965|ref|ZP_02165053.1| transcriptional regulator, XRE family protein [Hoeflea
           phototrophica DFL-43]
 gi|162284254|gb|EDQ34537.1| transcriptional regulator, XRE family protein [Hoeflea
           phototrophica DFL-43]
          Length = 231

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/62 (16%), Positives = 29/62 (46%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G +++  R+  G++Q  + E +G     +++ E+G +      ++  +E +   +  
Sbjct: 165 KEIGAKLKAARLEAGVTQAVVAEAMGTKENAIRRLERGEHSPSIDTIRKYAEAIGYDVGL 224

Query: 73  FF 74
            F
Sbjct: 225 SF 226


>gi|119505191|ref|ZP_01627266.1| Transcriptional Regulator of molybdate metabolism, XRE family
          protein [marine gamma proteobacterium HTCC2080]
 gi|119458882|gb|EAW39982.1| Transcriptional Regulator of molybdate metabolism, XRE family
          protein [marine gamma proteobacterium HTCC2080]
          Length = 70

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 25/61 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +   R   G +Q++L +  G++ + +   E G+          IS+ L+  +   F +
Sbjct: 10 NNLEQLRKAAGFTQQQLSDSAGVSRKSINAIENGIYVPSTVLALKISQTLKCTVDDLFQL 69

Query: 77 S 77
           
Sbjct: 70 P 70


>gi|119026301|ref|YP_910146.1| DNA-methyltransferase MKpn2kI [Bifidobacterium adolescentis ATCC
          15703]
 gi|118765885|dbj|BAF40064.1| DNA-methyltransferase MKpn2kI [Bifidobacterium adolescentis ATCC
          15703]
          Length = 383

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 32/55 (58%), Gaps = 3/55 (5%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQ---QVQKYEKGVNRVGASRLQHI 62
          VD + G++I+ +R  L M+Q++L + +G++      ++++E G ++      + I
Sbjct: 2  VDTDYGQQIKDKRERLHMTQKELADAIGLSKNGDRTIRRWENGESKPTEPEFRQI 56


>gi|42518558|ref|NP_964488.1| hypothetical protein LJ0462 [Lactobacillus johnsonii NCC 533]
 gi|41582843|gb|AAS08454.1| hypothetical protein LJ_0462 [Lactobacillus johnsonii NCC 533]
          Length = 82

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 1/61 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ ++  R  LG+SQ ++   + +T     K E+G++ + AS L  I E+ +  IS 
Sbjct: 4  MTIGEALKETRKNLGLSQTEMAYPI-LTKSYYSKIERGIHEINASDLIKILEMHDVDISK 62

Query: 73 F 73
          F
Sbjct: 63 F 63


>gi|114564571|ref|YP_752085.1| transcriptional regulator, XRE family protein [Shewanella
          frigidimarina NCIMB 400]
 gi|114335864|gb|ABI73246.1| transcriptional regulator, XRE family protein [Shewanella
          frigidimarina NCIMB 400]
          Length = 64

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 25/61 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R    ++Q +L + L ++ Q V   E G            + + + PI   F+ 
Sbjct: 3  NRLKVLRAEQDLTQAQLADLLDVSRQTVNAIETGKFDPSLPLAFKAARLFKLPIESIFED 62

Query: 77 S 77
           
Sbjct: 63 E 63


>gi|330467124|ref|YP_004404867.1| helix-turn-helix domain-containing protein [Verrucosispora maris
          AB-18-032]
 gi|328810095|gb|AEB44267.1| helix-turn-helix domain-containing protein [Verrucosispora maris
          AB-18-032]
          Length = 404

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 36/81 (44%), Gaps = 11/81 (13%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR---LQHISEVLESP 69
          + +G+R+   R   G+SQE L   +G T + ++K E   NR    R   ++ I++ L+  
Sbjct: 1  MTIGQRVAFYRRRRGLSQEVLAGLVGKTQEWLRKVE--TNRADLDRLSVIRAIAKALDVS 58

Query: 70 ISF------FFDVSPTVCSDI 84
          +         F+ S     + 
Sbjct: 59 LGDLIGAPRLFEWSDDSGRET 79


>gi|325262061|ref|ZP_08128799.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
 gi|324033515|gb|EGB94792.1| toxin-antitoxin system, antitoxin component, Xre family
          [Clostridium sp. D5]
          Length = 95

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 24/61 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ IR  R    M+Q  L + L +    +  YE G        L  I++  E  +    
Sbjct: 7  IGRNIRRLRKERNMTQLHLAKILHLHRATLCSYEIGKRLPDIFILISIADAFEVSLDILV 66

Query: 75 D 75
          D
Sbjct: 67 D 67


>gi|313884783|ref|ZP_07818537.1| DNA-binding helix-turn-helix protein [Eremococcus coleocola
          ACS-139-V-Col8]
 gi|312619982|gb|EFR31417.1| DNA-binding helix-turn-helix protein [Eremococcus coleocola
          ACS-139-V-Col8]
          Length = 188

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/50 (28%), Positives = 24/50 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           ++  R+   MSQE L + + +T Q + KYEKG       +L  + +   
Sbjct: 5  NLKRIRLEHDMSQEDLAQVMAVTRQSISKYEKGTAEPSFEKLAILVDYFN 54


>gi|311742480|ref|ZP_07716289.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Aeromicrobium
          marinum DSM 15272]
 gi|311314108|gb|EFQ84016.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Aeromicrobium
          marinum DSM 15272]
          Length = 511

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 24/53 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G  IR  R   G++Q +L   L  +   V + EKG   +    L  I + L+
Sbjct: 11 IGTLIRDARQHSGLTQAQLATELSTSQSAVNRIEKGQQNLTLDMLARIGKALD 63


>gi|302875737|ref|YP_003844370.1| helix-turn-helix domain-containing protein [Clostridium
          cellulovorans 743B]
 gi|307689168|ref|ZP_07631614.1| helix-turn-helix domain-containing protein [Clostridium
          cellulovorans 743B]
 gi|302578594|gb|ADL52606.1| helix-turn-helix domain protein [Clostridium cellulovorans 743B]
          Length = 434

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 32/79 (40%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R   G + + L     IT  Q+   E G +      L++++  L   + +  
Sbjct: 6  LGEKIKRLRKEKGFTLKDLAGD-RITPGQISLVESGKSNPSMDLLEYLANTLHCTVEYLM 64

Query: 75 DVSPTVCSDISSEENNVMD 93
          +   T    I     N+ +
Sbjct: 65 ESEETQAEKICIYYENIAE 83


>gi|206561550|ref|YP_002232315.1| putative phage-related regulator [Burkholderia cenocepacia J2315]
 gi|198037592|emb|CAR53530.1| putative phage-related regulator [Burkholderia cenocepacia J2315]
          Length = 106

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/109 (20%), Positives = 43/109 (39%), Gaps = 15/109 (13%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R+ LG++Q +L    G+      +YEKG+ R  +  L  I+      + +     
Sbjct: 7   RLKRERLRLGLNQTELAALGGVQKHAQFQYEKGMRRPNSDYLSAIALA-GVDVWYVLTGE 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
                +   E+  V  F              +  D + R+ I+ L+ +I
Sbjct: 66  EGARLENPDEQRIVSGF--------------RALDARKREVILALIEAI 100


>gi|154687569|ref|YP_001422730.1| Slr [Bacillus amyloliquefaciens FZB42]
 gi|308175181|ref|YP_003921886.1| HTH-type transcriptional regulator slrR [Bacillus
          amyloliquefaciens DSM 7]
 gi|154353420|gb|ABS75499.1| Slr [Bacillus amyloliquefaciens FZB42]
 gi|307608045|emb|CBI44416.1| HTH-type transcriptional regulator slrR [Bacillus
          amyloliquefaciens DSM 7]
 gi|328555152|gb|AEB25644.1| HTH-type transcriptional regulator slrR [Bacillus
          amyloliquefaciens TA208]
 gi|328913510|gb|AEB65106.1| HTH-type transcriptional regulator slrR [Bacillus
          amyloliquefaciens LL3]
          Length = 151

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 1/76 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFF 73
          +G+ IRL R   G S  +L    G++   + K E+GV+       L+ +S  L+  ++  
Sbjct: 2  IGRIIRLYRRRKGYSINQLAVEAGVSKSYLSKIERGVHSNPSIQFLKKVSATLQVDLTEL 61

Query: 74 FDVSPTVCSDISSEEN 89
          FD    +     +E+ 
Sbjct: 62 FDAETMLHHMGDTEDE 77


>gi|193067087|ref|ZP_03048056.1| transcriptional regulator PuuR [Escherichia coli E110019]
 gi|192959677|gb|EDV90111.1| transcriptional regulator PuuR [Escherichia coli E110019]
          Length = 185

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 35/79 (44%), Gaps = 1/79 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R   G+SQ +  E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFS 68

Query: 75 DVSPTVCSDISSEENNVMD 93
          +        +   ++++++
Sbjct: 69 EPEKPDEPQVVINQDDLIE 87


>gi|333004623|gb|EGK24147.1| helix-turn-helix family protein [Shigella flexneri VA-6]
          Length = 185

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 35/79 (44%), Gaps = 1/79 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R   G+SQ +  E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFS 68

Query: 75 DVSPTVCSDISSEENNVMD 93
          +        +   ++++++
Sbjct: 69 EPEKPDEPQVVINQDDLIE 87


>gi|326332010|ref|ZP_08198295.1| transcriptional regulator, PbsX family [Nocardioidaceae bacterium
          Broad-1]
 gi|325950148|gb|EGD42203.1| transcriptional regulator, PbsX family [Nocardioidaceae bacterium
          Broad-1]
          Length = 147

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 30/55 (54%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G+ ++ +R+   MS  +L +  G++   + + E+G+ +  A  LQ I++ L   
Sbjct: 13 LGEYLKEQRISAEMSLRQLADQAGVSNPYLSQIERGLRKPSAEVLQQIAKALRIS 67


>gi|313669611|ref|YP_004050035.1| xre family transcriptional regulator [Bacillus cereus VPC1401]
 gi|313191874|emb|CBW44171.1| xre family transcriptional regulator [Bacillus cereus VPC1401]
          Length = 296

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  I+  R+   +SQ +L   +  +  Q+ K EKGV    +  L  +SE L    +  
Sbjct: 5  NLGITIKELRIKKKISQSELCHGI-CSQSQISKIEKGVIYPSSVLLYQLSERLGVDPNSI 63

Query: 74 F 74
          F
Sbjct: 64 F 64


>gi|307250998|ref|ZP_07532924.1| hypothetical protein appser4_17620 [Actinobacillus
          pleuropneumoniae serovar 4 str. M62]
 gi|306857026|gb|EFM89156.1| hypothetical protein appser4_17620 [Actinobacillus
          pleuropneumoniae serovar 4 str. M62]
          Length = 137

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 29/58 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + + ++IR  R    +SQE + + LG++     K E+G  R    RL+ ISE     I
Sbjct: 1  MKINEKIRHLRETHQLSQEVMADKLGMSVTGYAKIERGEVRSNLPRLEQISEAFNMDI 58


>gi|302865716|ref|YP_003834353.1| helix-turn-helix domain-containing protein [Micromonospora
          aurantiaca ATCC 27029]
 gi|302568575|gb|ADL44777.1| helix-turn-helix domain protein [Micromonospora aurantiaca ATCC
          27029]
          Length = 404

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 36/81 (44%), Gaps = 11/81 (13%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASR---LQHISEVLESP 69
          + +G+R+   R   G+SQE L   +G T + ++K E   NR    R   ++ I++ L+  
Sbjct: 1  MTIGQRVAFYRRRRGLSQEVLAGLVGKTQEWLRKVE--TNRADLDRLSVIRAIAKALDVS 58

Query: 70 ISF------FFDVSPTVCSDI 84
          +         F+ S     + 
Sbjct: 59 LGDLIGAPSLFEWSDDSGRET 79


>gi|182437780|ref|YP_001825499.1| putative DNA-binding protein [Streptomyces griseus subsp. griseus
          NBRC 13350]
 gi|326778414|ref|ZP_08237679.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
 gi|178466296|dbj|BAG20816.1| putative DNA-binding protein [Streptomyces griseus subsp. griseus
          NBRC 13350]
 gi|326658747|gb|EGE43593.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
          Length = 162

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 31/61 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G+ +R +R    +S  +L +  G++   + + E+G+ +  A  LQ +++ L       
Sbjct: 8  NLGEYLREQRRAAQLSLRQLADATGVSNPYLSQIERGLRKPSADVLQQVAKALRISAETL 67

Query: 74 F 74
          +
Sbjct: 68 Y 68


>gi|149276297|ref|ZP_01882441.1| transcriptional regulator [Pedobacter sp. BAL39]
 gi|149232817|gb|EDM38192.1| transcriptional regulator [Pedobacter sp. BAL39]
          Length = 258

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 26/60 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+   ++  R   G +Q++  + +GI    +  YE+         L+ I+E  +  I  F
Sbjct: 3  NISANLKYLRKKKGHTQQQFADAMGIKRSLIGAYEEDRAEPKYDLLKKIAEYFDLTIDEF 62


>gi|150400256|ref|YP_001324023.1| XRE family transcriptional regulator [Methanococcus vannielii SB]
 gi|150012959|gb|ABR55411.1| transcriptional regulator, XRE family [Methanococcus vannielii
          SB]
          Length = 73

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI++ R +  ++QE L + L +T Q +   E+            I+EV    I   F
Sbjct: 3  NRIKILRAVHNLTQEMLAKKLNVTRQTIIAIEREKYDPSLELAFKIAEVFNVKIEDIF 60


>gi|15801869|ref|NP_287889.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O157:H7 EDL933]
 gi|15831130|ref|NP_309903.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O157:H7 str. Sakai]
 gi|168749060|ref|ZP_02774082.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4113]
 gi|168755982|ref|ZP_02780989.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4401]
 gi|168762686|ref|ZP_02787693.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4501]
 gi|168769383|ref|ZP_02794390.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4486]
 gi|168775126|ref|ZP_02800133.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4196]
 gi|168782830|ref|ZP_02807837.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4076]
 gi|168788374|ref|ZP_02813381.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC869]
 gi|168799611|ref|ZP_02824618.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC508]
 gi|208811113|ref|ZP_03252946.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4206]
 gi|208815007|ref|ZP_03256186.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4045]
 gi|208820275|ref|ZP_03260595.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4042]
 gi|209400310|ref|YP_002270360.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4115]
 gi|217329459|ref|ZP_03445539.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          TW14588]
 gi|254792894|ref|YP_003077731.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O157:H7 str. TW14359]
 gi|261224290|ref|ZP_05938571.1| DNA-binding transcriptional repressor [Escherichia coli O157:H7
          str. FRIK2000]
 gi|261257454|ref|ZP_05949987.1| DNA-binding transcriptional repressor [Escherichia coli O157:H7
          str. FRIK966]
 gi|291282394|ref|YP_003499212.1| DNA-binding transcriptional repressor [Escherichia coli O55:H7
          str. CB9615]
 gi|12515475|gb|AAG56505.1|AE005376_10 orf, hypothetical protein [Escherichia coli O157:H7 str. EDL933]
 gi|13361341|dbj|BAB35299.1| hypothetical protein [Escherichia coli O157:H7 str. Sakai]
 gi|187769283|gb|EDU33127.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4196]
 gi|188016620|gb|EDU54742.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4113]
 gi|188999714|gb|EDU68700.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4076]
 gi|189356802|gb|EDU75221.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4401]
 gi|189361581|gb|EDU80000.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4486]
 gi|189367033|gb|EDU85449.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4501]
 gi|189371817|gb|EDU90233.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC869]
 gi|189377991|gb|EDU96407.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC508]
 gi|208724619|gb|EDZ74327.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4206]
 gi|208731655|gb|EDZ80343.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4045]
 gi|208740398|gb|EDZ88080.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4042]
 gi|209161710|gb|ACI39143.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          EC4115]
 gi|209771738|gb|ACI84181.1| hypothetical protein ECs1876 [Escherichia coli]
 gi|209771740|gb|ACI84182.1| hypothetical protein ECs1876 [Escherichia coli]
 gi|209771742|gb|ACI84183.1| hypothetical protein ECs1876 [Escherichia coli]
 gi|209771744|gb|ACI84184.1| hypothetical protein ECs1876 [Escherichia coli]
 gi|209771746|gb|ACI84185.1| hypothetical protein ECs1876 [Escherichia coli]
 gi|217317898|gb|EEC26326.1| transcriptional regulator PuuR [Escherichia coli O157:H7 str.
          TW14588]
 gi|254592294|gb|ACT71655.1| DNA-binding transcriptional repressor [Escherichia coli O157:H7
          str. TW14359]
 gi|290762267|gb|ADD56228.1| DNA-binding transcriptional repressor [Escherichia coli O55:H7
          str. CB9615]
 gi|320189942|gb|EFW64594.1| Putrescine utilization regulator [Escherichia coli O157:H7 str.
          EC1212]
 gi|320637202|gb|EFX07028.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O157:H7 str. G5101]
 gi|320642569|gb|EFX11817.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O157:H- str. 493-89]
 gi|320647922|gb|EFX16630.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O157:H- str. H 2687]
 gi|320653523|gb|EFX21628.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O55:H7 str. 3256-97 TW 07815]
 gi|320659223|gb|EFX26812.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O55:H7 str. USDA 5905]
 gi|320664016|gb|EFX31203.1| DNA-binding transcriptional repressor PuuR [Escherichia coli
          O157:H7 str. LSU-61]
 gi|326341032|gb|EGD64825.1| Putrescine utilization regulator [Escherichia coli O157:H7 str.
          1125]
 gi|326343272|gb|EGD67039.1| Putrescine utilization regulator [Escherichia coli O157:H7 str.
          1044]
          Length = 185

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 35/79 (44%), Gaps = 1/79 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF- 74
          GKR+   R   G+SQ +  E  G+T   +   E+       S LQ + +V    +S FF 
Sbjct: 9  GKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFS 68

Query: 75 DVSPTVCSDISSEENNVMD 93
          +        +   ++++++
Sbjct: 69 EPEKPDEPQVVINQDDLIE 87


>gi|320322393|gb|EFW78487.1| XRE family transcriptional regulator [Pseudomonas syringae pv.
           glycinea str. B076]
          Length = 139

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 50/120 (41%), Gaps = 2/120 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +N+G  IR  R+  G++ E +    G     + K E+         L  +SE L +  S 
Sbjct: 21  MNIGAAIRKVRLEKGLTLEAVALDAGTYAGNLSKVERAQQLPSLDLLHKLSEALGTKTSE 80

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
            + V+    SD SS   +        + + + R+F  +   + R+  IE ++ +  S+  
Sbjct: 81  LYAVA-ESGSDNSSGAASEPSPEQGNEVILVRRHFQALT-PRNRKLAIEFLKLLGQSQDD 138


>gi|315649329|ref|ZP_07902418.1| transcriptional regulator, XRE family protein [Paenibacillus
          vortex V453]
 gi|315275317|gb|EFU38686.1| transcriptional regulator, XRE family protein [Paenibacillus
          vortex V453]
          Length = 139

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 37/89 (41%), Gaps = 1/89 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESP 69
          +D   G  ++  R   G S  +L     I+  Q+ + E G+  +     L+ I++ LE P
Sbjct: 1  MDHIFGTYLKEIREDKGWSINQLAHAADISGSQISRIENGLRGIPKPQTLRKIADALEIP 60

Query: 70 ISFFFDVSPTVCSDISSEENNVMDFISTP 98
               + +  + +D + ++       +T 
Sbjct: 61 YEELMNKAGYLPTDAAHQDEISAPAWATS 89


>gi|304394918|ref|ZP_07376802.1| transcriptional regulator, XRE family [Pantoea sp. aB]
 gi|304357171|gb|EFM21534.1| transcriptional regulator, XRE family [Pantoea sp. aB]
          Length = 200

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 26/62 (41%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           V+  V + I+  R    +S + L    GI+   + + EKG      + L  ++  L   
Sbjct: 17 SVNQAVSESIKRWRKSQKLSLDALSHRAGISKGMLVEIEKGAANPSIAILCKVAAALGVS 76

Query: 70 IS 71
          ++
Sbjct: 77 VA 78


>gi|256848201|ref|ZP_05553644.1| transcriptional regulator [Lactobacillus coleohominis 101-4-CHN]
 gi|256714799|gb|EEU29777.1| transcriptional regulator [Lactobacillus coleohominis 101-4-CHN]
          Length = 76

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 1/63 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFF 73
          +G  +  RR  LGM QEKL E   ++   + K E+G    + A  LQ +++ L   +   
Sbjct: 4  IGINVASRRHELGMIQEKLAELSDLSINFISKVERGAATDIKAGTLQSLAKALNVSMDEL 63

Query: 74 FDV 76
           + 
Sbjct: 64 MNG 66


>gi|257055531|ref|YP_003133363.1| putative transcriptional regulator [Saccharomonospora viridis DSM
          43017]
 gi|256585403|gb|ACU96536.1| predicted transcriptional regulator [Saccharomonospora viridis
          DSM 43017]
          Length = 184

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 19/52 (36%), Gaps = 1/52 (1%)

Query: 20 RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          R RR   G+S  +L    GI    + + E G        +  +S  L    S
Sbjct: 16 RERRKA-GLSLAELARRAGIAKSTLSQLESGSGNPSVETIWALSTALGVSFS 66


>gi|239631010|ref|ZP_04674041.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|301065331|ref|YP_003787354.1| XRE family transcriptional regulator [Lactobacillus casei str.
          Zhang]
 gi|239527293|gb|EEQ66294.1| transcriptional regulator [Lactobacillus paracasei subsp.
          paracasei 8700:2]
 gi|300437738|gb|ADK17504.1| Transcriptional regulator, xre family [Lactobacillus casei str.
          Zhang]
          Length = 297

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ I   R   GMSQ +L E + ++  Q+ K+E+ + ++   +   + E L    + F
Sbjct: 4  IGELINHFRENKGMSQAELSEGI-LSKAQLSKFERDLTKISVDKFLALLERLHVTFTEF 61


>gi|157376991|ref|YP_001475591.1| hypothetical protein Ssed_3859 [Shewanella sediminis HAW-EB3]
 gi|157319365|gb|ABV38463.1| hypothetical protein Ssed_3859 [Shewanella sediminis HAW-EB3]
          Length = 233

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 25/67 (37%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +I+  R   G SQ +L E  GI    + K E   +       + +   L      
Sbjct: 1  MTLGNQIKHFRNERGYSQPELAELAGIEQSYLSKLENDKSVPSNDIFRQLLSALSLTTQE 60

Query: 73 FFDVSPT 79
          F D   T
Sbjct: 61 FVDSLDT 67


>gi|146329855|ref|YP_001209677.1| regulatory protein RegA2 [Dichelobacter nodosus VCS1703A]
 gi|146233325|gb|ABQ14303.1| regulatory protein RegA2 [Dichelobacter nodosus VCS1703A]
          Length = 305

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 34/66 (51%), Gaps = 1/66 (1%)

Query: 4   NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
            ++  N  ++++   +++ R +  +SQ++L E +G +   +QK E G+  +    LQ ++
Sbjct: 65  QRRTNNKSEVSLASNVKILRELNNLSQDQLAEKIGKSQAAIQKIEAGLT-LRPRFLQDLA 123

Query: 64  EVLESP 69
             L   
Sbjct: 124 NALGVS 129


>gi|120436979|ref|YP_862665.1| HTH_3 family transcriptional regulator protein [Gramella forsetii
           KT0803]
 gi|117579129|emb|CAL67598.1| HTH_3 family transcriptional regulator protein [Gramella forsetii
           KT0803]
          Length = 252

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/87 (22%), Positives = 32/87 (36%), Gaps = 11/87 (12%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GK IR  R +  +SQ+   E   +    +  YE+G +      +  I+     PI     
Sbjct: 5   GKNIRKIRSVKSLSQQSFAEIFDLKRGTLGAYEEGRSEPKIETIIKIANHFSIPI----- 59

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQ 102
                  DI +EE  V   +     L+
Sbjct: 60  ------GDILTEELTVNQLLKFRGDLE 80


>gi|10956667|ref|NP_066803.1| putative repressor protein [Rhodococcus equi]
 gi|31983897|ref|NP_858505.1| repressor protein [Rhodococcus equi]
 gi|197313525|ref|YP_002149570.1| putative helix turn helix protein [Rhodococcus equi]
 gi|197313592|ref|YP_002149636.1| putative helix turn helix protein [Rhodococcus equi]
 gi|10657914|gb|AAG21753.1| putative repressor protein [Rhodococcus equi]
 gi|10801105|dbj|BAB16659.1| Putative repressor protein (trbA) [Rhodococcus equi]
 gi|197092567|emb|CAQ30306.1| putative helix turn helix protein [Rhodococcus equi]
 gi|197092634|emb|CAQ30377.1| putative helix turn helix protein [Rhodococcus equi]
 gi|297718607|gb|ADI50222.1| putative helix-turn-helix protein [Rhodococcus equi]
          Length = 148

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 27/55 (49%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           R++  R   G+S+  LG   G+ +  ++++E G +      L  ++EVL   + 
Sbjct: 12 ARLKELRGEKGLSRSDLGRLSGVPYNTIRRWETGNSAPAPDLLARVAEVLGVDVD 66


>gi|16265194|ref|NP_437986.1| hypothetical protein SM_b20754 [Sinorhizobium meliloti 1021]
 gi|15141334|emb|CAC49846.1| probable transcriptional regulator [Sinorhizobium meliloti 1021]
          Length = 491

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+++R  R    ++Q +  E +GI+   + + E     V A+ L  ++E  +  I+
Sbjct: 25 LYIGRKVRDLRDGKRLTQGQFAERIGISTSYLNQIENNQRPVSAAVLLALAEKFQIDIA 83


>gi|330888348|gb|EGH21009.1| peptidase [Pseudomonas syringae pv. mori str. 301020]
          Length = 233

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 31/76 (40%), Gaps = 1/76 (1%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R    ++Q +L E  GI    V + E+G+ R     L   + +      +  +  
Sbjct: 26  RLKQARKHARLTQAELAERSGIKQASVSEIERGLTRTS-GYLVKFATICRVDPVWLSEGV 84

Query: 78  PTVCSDISSEENNVMD 93
            ++ S  +     ++D
Sbjct: 85  GSMISIGAPSNVAMID 100


>gi|303245781|ref|ZP_07332064.1| transcriptional regulator, XRE family [Desulfovibrio fructosovorans
           JJ]
 gi|302493044|gb|EFL52909.1| transcriptional regulator, XRE family [Desulfovibrio fructosovorans
           JJ]
          Length = 124

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 27/52 (51%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +R+ R   GM+ +++ +  G+T   + + E+G   +    LQ ++E L   I
Sbjct: 68  VRVLRSHRGMTLQQVADICGVTNAHISQIERGKRCMSTELLQKMAEALRVDI 119


>gi|296186453|ref|ZP_06854856.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
 gi|296048900|gb|EFG88331.1| helix-turn-helix domain-containing protein [Clostridium
          carboxidivorans P7]
          Length = 62

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/50 (24%), Positives = 24/50 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           R+++ R  L +SQ++L    G++ Q +   E G     A     +++ L
Sbjct: 9  NRLKVARAELNISQQQLANMAGVSRQTISSIETGQYCPTAKLALILAKCL 58


>gi|291532703|emb|CBL05816.1| Helix-turn-helix [Megamonas hypermegale ART12/1]
          Length = 80

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 2/65 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR--VGASRLQHISEVLESPI 70
            +G +I   R +   +QE+L     I+   + + E+GV +  +  S L  I++ LE  +
Sbjct: 15 RQIGAKIMYFRKMKKYTQEELAFRASISASYLSRIERGVYKKGLPISTLMKIAKALEVEL 74

Query: 71 SFFFD 75
          S  F+
Sbjct: 75 SAIFE 79


>gi|312200727|ref|YP_004020788.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
 gi|311232063|gb|ADP84918.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
          Length = 397

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 35/75 (46%), Gaps = 2/75 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR--VGASRLQHISEVLESPISF 72
          +  ++R  R+  G++Q++  + LG     V+K+E G  +     S L  I++VL+  +  
Sbjct: 6  IAAQVRTWRVRRGLTQQQFADALGRHVTWVKKFEAGDRQADPRLSLLVQIAQVLDVTLDV 65

Query: 73 FFDVSPTVCSDISSE 87
              S T     +S 
Sbjct: 66 LLGQSDTAAGSRASA 80


>gi|242277632|ref|YP_002989761.1| XRE family transcriptional regulator [Desulfovibrio salexigens
          DSM 2638]
 gi|242120526|gb|ACS78222.1| transcriptional regulator, XRE family [Desulfovibrio salexigens
          DSM 2638]
          Length = 185

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 32/71 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R+   R  + MS E+L E +G+T ++  +YE G   +  S L  ++ +    ++ 
Sbjct: 8  KEIAPRLAGLRDAMDMSVEELAEKVGVTPERAAQYESGTVEIPVSYLMDVAHLCGVSLTV 67

Query: 73 FFDVSPTVCSD 83
              S    ++
Sbjct: 68 LISGSEAHLTN 78


>gi|254169279|ref|ZP_04876111.1| CBS domain pair protein [Aciduliprofundum boonei T469]
 gi|289596725|ref|YP_003483421.1| transcriptional regulator, XRE family [Aciduliprofundum boonei
          T469]
 gi|197621756|gb|EDY34339.1| CBS domain pair protein [Aciduliprofundum boonei T469]
 gi|289534512|gb|ADD08859.1| transcriptional regulator, XRE family [Aciduliprofundum boonei
          T469]
          Length = 184

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/49 (30%), Positives = 24/49 (48%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          I+ RR  LG SQ++L +  G++   + K EKG      +    I   L+
Sbjct: 8  IKERRRRLGWSQKELAKRSGVSQSAITKIEKGDMNPSYTLAVKIFNALD 56


>gi|153938571|ref|YP_001391627.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|152934467|gb|ABS39965.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|295319660|gb|ADG00038.1| DNA-binding protein [Clostridium botulinum F str. 230613]
          Length = 80

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 26/56 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R    ++Q+++ + L IT   V  YE G+     + L  IS+     + + 
Sbjct: 6  RLKGLREDRDLTQDQIADVLSITRSAVANYENGIREPDMALLVKISDYFNVSLDYL 61


>gi|146305038|ref|YP_001192354.1| XRE family transcriptional regulator [Metallosphaera sedula DSM
          5348]
 gi|145703288|gb|ABP96430.1| transcriptional regulator, XRE family [Metallosphaera sedula DSM
          5348]
          Length = 184

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/48 (29%), Positives = 25/48 (52%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          IR  R + G++Q +L   +G++   + K EKG      S ++ I + L
Sbjct: 8  IRKMREMAGLTQTELARRVGVSQSLIAKIEKGKIDPKLSVVRKILDEL 55


>gi|314922041|gb|EFS85872.1| cupin domain protein [Propionibacterium acnes HL001PA1]
 gi|314965926|gb|EFT10025.1| cupin domain protein [Propionibacterium acnes HL082PA2]
 gi|314980669|gb|EFT24763.1| cupin domain protein [Propionibacterium acnes HL110PA3]
 gi|315091025|gb|EFT63001.1| cupin domain protein [Propionibacterium acnes HL110PA4]
 gi|315095153|gb|EFT67129.1| cupin domain protein [Propionibacterium acnes HL060PA1]
 gi|315105385|gb|EFT77361.1| cupin domain protein [Propionibacterium acnes HL050PA2]
 gi|327328782|gb|EGE70542.1| putative Helix-turn-helix domain protein [Propionibacterium acnes
          HL103PA1]
          Length = 197

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 27/59 (45%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          P+   +G R++ +RM    + ++L    G++ + +   E+G        L  +S+ L  
Sbjct: 10 PLAHAIGARVKQQRMARRWTLDQLARYAGVSRRVLVNVEQGAVNPRVGTLLRLSDALGV 68


>gi|282854487|ref|ZP_06263823.1| cupin domain protein [Propionibacterium acnes J139]
 gi|282582348|gb|EFB87729.1| cupin domain protein [Propionibacterium acnes J139]
          Length = 258

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 27/59 (45%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           P+   +G R++ +RM    + ++L    G++ + +   E+G        L  +S+ L  
Sbjct: 71  PLAHAIGARVKQQRMARRWTLDQLARYAGVSRRVLVNVEQGAVNPRVGTLLRLSDALGV 129


>gi|258539032|ref|YP_003173531.1| phage-related Cro-like protein [Lactobacillus rhamnosus Lc 705]
 gi|257150708|emb|CAR89680.1| Phage-related Cro-like protein [Lactobacillus rhamnosus Lc 705]
          Length = 80

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 35/68 (51%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          IP  V + +   +R  R+  G+SQ    + +G+T   ++++EK  + +   ++  IS++ 
Sbjct: 3  IPEKVPVYLKHTLRDLRVRKGLSQSDAAKMMGVTEPTLRRWEKDSSDLTMQQIWKISKIY 62

Query: 67 ESPISFFF 74
            P  + F
Sbjct: 63 SIPQDYIF 70


>gi|271967432|ref|YP_003341628.1| hypothetical protein Sros_6155 [Streptosporangium roseum DSM
          43021]
 gi|270510607|gb|ACZ88885.1| hypothetical protein Sros_6155 [Streptosporangium roseum DSM
          43021]
          Length = 225

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 4/69 (5%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M  +   P      +G+RI  RR  LGMS+E+L E   I    +   E+     G S + 
Sbjct: 1  MTEHISAPGD----LGRRIAHRRKSLGMSREQLAERARIDPGYLGYLEENAASPGTSTVN 56

Query: 61 HISEVLESP 69
           ++  L + 
Sbjct: 57 QLAAALGTS 65


>gi|229551178|ref|ZP_04439903.1| possible repressor [Lactobacillus rhamnosus LMS2-1]
 gi|229315470|gb|EEN81443.1| possible repressor [Lactobacillus rhamnosus LMS2-1]
          Length = 203

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 4/78 (5%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGIT---FQQVQKYEKGVNRVGASRLQHISE 64
          PN   +++G+RI+  R+  G + E+    +G+T      V ++E+G++   A  ++ I+ 
Sbjct: 7  PNSH-LSLGERIKSIRISKGETMEEFALSVGLTSSGKSAVSRWERGLSAPSADTMKKIAN 65

Query: 65 VLESPISFFFDVSPTVCS 82
               + F     P    
Sbjct: 66 HGGISVQFLVTGKPAFED 83


>gi|228952164|ref|ZP_04114256.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
 gi|229189879|ref|ZP_04316889.1| Transcriptional regulator, Xre [Bacillus cereus ATCC 10876]
 gi|228593553|gb|EEK51362.1| Transcriptional regulator, Xre [Bacillus cereus ATCC 10876]
 gi|228807518|gb|EEM54045.1| Transcriptional regulator, Xre [Bacillus thuringiensis serovar
          kurstaki str. T03a001]
          Length = 404

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 28/64 (43%), Gaps = 1/64 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q  L     +T   + + E G        LQ+I++ LE   SF  
Sbjct: 4  LGEKIKTLRKEKKLTQTDLAGS-ELTKSMLSQIENGKATPSMKTLQYIADKLECETSFLL 62

Query: 75 DVSP 78
          +   
Sbjct: 63 EEDD 66


>gi|206560876|ref|YP_002231641.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
 gi|198036918|emb|CAR52822.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
          Length = 109

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/84 (23%), Positives = 32/84 (38%)

Query: 4  NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          +   P P+ I +GKRI+  R     SQE L     +    +   E+G+       L +I 
Sbjct: 9  SVSRPAPISIALGKRIKECRHAAEKSQETLAFEALVDRTYISAIERGIANPSIETLANIC 68

Query: 64 EVLESPISFFFDVSPTVCSDISSE 87
            L   ++  F     V    + E
Sbjct: 69 YSLNVTLAELFGPLEGVSLKPTGE 92


>gi|160942938|ref|ZP_02090177.1| hypothetical protein FAEPRAM212_00415 [Faecalibacterium
          prausnitzii M21/2]
 gi|158445839|gb|EDP22842.1| hypothetical protein FAEPRAM212_00415 [Faecalibacterium
          prausnitzii M21/2]
          Length = 85

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R    M+Q  L E  G++ Q +   EKG      +  + I ++L+  +   F
Sbjct: 26 KLKAARAEKDMTQGALAEAAGVSRQTINAIEKGEYNPTINLCRSICKILDKTLDELF 82


>gi|160894971|ref|ZP_02075745.1| hypothetical protein CLOL250_02521 [Clostridium sp. L2-50]
 gi|156863402|gb|EDO56833.1| hypothetical protein CLOL250_02521 [Clostridium sp. L2-50]
          Length = 118

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 33/64 (51%), Gaps = 2/64 (3%)

Query: 10 PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+D    +G+++R  R    ++Q++L +   ++ +Q+   EKG        L+ +++VL 
Sbjct: 2  PIDDLTALGQKMREARKNKELTQQELSDLSHVSVKQIANIEKGKMNPSYLILRALAKVLH 61

Query: 68 SPIS 71
            + 
Sbjct: 62 ISLD 65


>gi|119489478|ref|ZP_01622239.1| hypothetical protein L8106_27891 [Lyngbya sp. PCC 8106]
 gi|119454557|gb|EAW35704.1| hypothetical protein L8106_27891 [Lyngbya sp. PCC 8106]
          Length = 76

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/49 (42%), Positives = 27/49 (55%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          IR  R  LG+SQ KLGE LG+ FQ V  +E G  +     +  I + LE
Sbjct: 12 IRTLRQRLGLSQRKLGEKLGVVFQTVNNWENGRTKPTRMAMMLIKQELE 60


>gi|16119228|ref|NP_395564.1| hypothetical protein SAP028 [Staphylococcus aureus subsp. aureus
          N315]
 gi|170780417|ref|YP_001715961.1| hypothetical protein pTZ2162_05 [Staphylococcus aureus]
 gi|13774167|dbj|BAB43897.1| conserved hypothetical protein [Staphylococcus aureus subsp.
          aureus N315]
 gi|169264758|dbj|BAG12251.1| hypothetical protein [Staphylococcus aureus]
          Length = 79

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 25/59 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          I+ +R +   SQE+L   L ++ Q V K+E   N      L  +S++    +       
Sbjct: 7  IKEQRELKRWSQEELANILKVSRQSVSKWESAKNYPSLDILIAMSDLFGISLEHLIKGD 65


>gi|113971256|ref|YP_735049.1| XRE family transcriptional regulator [Shewanella sp. MR-4]
 gi|114048494|ref|YP_739044.1| XRE family transcriptional regulator [Shewanella sp. MR-7]
 gi|117921538|ref|YP_870730.1| XRE family transcriptional regulator [Shewanella sp. ANA-3]
 gi|113885940|gb|ABI39992.1| transcriptional regulator, XRE family with cupin sensor
          [Shewanella sp. MR-4]
 gi|113889936|gb|ABI43987.1| transcriptional regulator, XRE family with cupin sensor
          [Shewanella sp. MR-7]
 gi|117613870|gb|ABK49324.1| transcriptional regulator, XRE family with cupin sensor
          [Shewanella sp. ANA-3]
          Length = 208

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 6/75 (8%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPI 70
          ++++G  +R  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+
Sbjct: 26 NLDIGASLRTVRKMKGLSQRELAKRAGVTNSTISMIEKNSVSPSVSSLK---KVLSGIPM 82

Query: 71 S--FFFDVSPTVCSD 83
          S   FF +  ++ S+
Sbjct: 83 SLVDFFSIEASIESE 97


>gi|150390882|ref|YP_001320931.1| helix-turn-helix domain-containing protein [Alkaliphilus
          metalliredigens QYMF]
 gi|149950744|gb|ABR49272.1| helix-turn-helix domain protein [Alkaliphilus metalliredigens
          QYMF]
          Length = 131

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 29/59 (49%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          + + +++  +I   R+   ++Q++L E L ++   + K E G       +L  IS+ L 
Sbjct: 30 DDILVDISLKIINYRIDQEITQKQLAEKLKVSQAMISKLESGEYNPTIGQLWKISKKLG 88


>gi|329897117|ref|ZP_08271861.1| transcriptional regulator, XRE family [gamma proteobacterium
          IMCC3088]
 gi|328921409|gb|EGG28799.1| transcriptional regulator, XRE family [gamma proteobacterium
          IMCC3088]
          Length = 222

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/80 (18%), Positives = 33/80 (41%), Gaps = 4/80 (5%)

Query: 3  GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
             ++PNP+    G+R+R  R     +   + +  GI+   + K E G   +  S +  +
Sbjct: 16 EADRLPNPI----GRRLRQLRKEQDWTLADVSKRTGISVGTLSKLEHGKTDLNFSSVNKL 71

Query: 63 SEVLESPISFFFDVSPTVCS 82
          +  L   ++   + S  +  
Sbjct: 72 ATGLGLAVTDLTNPSSHMMG 91


>gi|309776192|ref|ZP_07671183.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 3_1_53]
 gi|308916143|gb|EFP61892.1| toxin-antitoxin system, antitoxin component, Xre family
          [Erysipelotrichaceae bacterium 3_1_53]
          Length = 118

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 37/76 (48%), Gaps = 2/76 (2%)

Query: 10 PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+D    +G+++R  R    ++Q++L +   ++ +Q+   EKG        L+ +++VL 
Sbjct: 2  PIDDLTALGQKMREARKNKELTQQELSDLSHVSVKQIANIEKGKMNPSYLILRALAKVLH 61

Query: 68 SPISFFFDVSPTVCSD 83
            +    +   ++  +
Sbjct: 62 ISLDTLINPDISLEDE 77


>gi|308172435|ref|YP_003919140.1| hypothetical protein BAMF_0544 [Bacillus amyloliquefaciens DSM 7]
 gi|307605299|emb|CBI41670.1| yqaE hypothetical protein B. subtilis [Bacillus amyloliquefaciens
          DSM 7]
          Length = 126

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 26/62 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++  R+   ++Q+++ + LGI       YE+G        L  I++  +  I F     
Sbjct: 6  RLKELRVGRKLNQQEVADNLGIARTTYASYEQGKREPDHETLVKIADFFDVSIDFLLRGE 65

Query: 78 PT 79
            
Sbjct: 66 DH 67


>gi|308069208|ref|YP_003870813.1| transcriptional regulator [Paenibacillus polymyxa E681]
 gi|305858487|gb|ADM70275.1| Predicted transcriptional regulator [Paenibacillus polymyxa E681]
          Length = 179

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 27/59 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G  IR  R    +S +++ E  G++   + + E        + L  I+  L+ P++F 
Sbjct: 3  IGCNIRAARKRKNLSIQQICERTGLSQGFMSQVENNKTSPSIATLDSIANALKVPLAFL 61


>gi|254719247|ref|ZP_05181058.1| hypothetical protein Bru83_06846 [Brucella sp. 83/13]
 gi|265984243|ref|ZP_06096978.1| conserved hypothetical protein [Brucella sp. 83/13]
 gi|306837996|ref|ZP_07470854.1| Cro/CI family transcriptional regulator [Brucella sp. NF 2653]
 gi|264662835|gb|EEZ33096.1| conserved hypothetical protein [Brucella sp. 83/13]
 gi|306406920|gb|EFM63141.1| Cro/CI family transcriptional regulator [Brucella sp. NF 2653]
          Length = 478

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 36/89 (40%), Gaps = 6/89 (6%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P  + +G++IR  R     +Q    E LGI+   + + E     V A+ L  ++E  +  
Sbjct: 3  PRKLYIGRKIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQID 62

Query: 70 ISFFFDVSPTVCSDISSEENNVMDFISTP 98
          I       P    D     + V + ++ P
Sbjct: 63 IG------PISLGDDDRLLSAVSEALADP 85


>gi|227819136|ref|YP_002823107.1| HTH-type transcriptional regulator y4dL [Sinorhizobium fredii
          NGR234]
 gi|227338135|gb|ACP22354.1| putative HTH-type transcriptional regulator y4dL [Sinorhizobium
          fredii NGR234]
          Length = 196

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 27/57 (47%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++ +++R  R    MSQ +L    G+T   + + E+G    G   L  ++  L+  I
Sbjct: 7  HITQQLRAAREARKMSQRELSARSGLTQSHISQIERGTMEPGLGSLVDVARALDLEI 63


>gi|225570223|ref|ZP_03779248.1| hypothetical protein CLOHYLEM_06319 [Clostridium hylemonae DSM
           15053]
 gi|225161018|gb|EEG73637.1| hypothetical protein CLOHYLEM_06319 [Clostridium hylemonae DSM
           15053]
          Length = 215

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 32/79 (40%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            ++  +   ++  R    +S E+      I+   + + E+G      S +  +S  L+ P
Sbjct: 34  DLNQLIADNLKEIRRSKALSLEQTSSLTSISKSMLSQLERGEVNPTISTVYKLSLGLKVP 93

Query: 70  ISFFFDVSPTVCSDISSEE 88
           ++ F    PT  S  S  E
Sbjct: 94  VTAFTAPKPTPFSQTSKAE 112


>gi|116695934|ref|YP_841510.1| XRE family transcriptional regulator [Ralstonia eutropha H16]
 gi|113530433|emb|CAJ96780.1| transcriptional regulator, XRE-family [Ralstonia eutropha H16]
          Length = 199

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 29/57 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +R+   R + G++ E+L +   +T   + K E+G++      +  ++E L+  + 
Sbjct: 16 IAERLAALRKLNGLTLEELAQRASLTKSYLSKLERGLSSPTIGTVLKLAEALDVTVD 72


>gi|52140306|ref|YP_086523.1| transcriptional regulator, DNA-binding protein [Bacillus cereus
          E33L]
 gi|196039476|ref|ZP_03106781.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|301056723|ref|YP_003794934.1| DNA-binding transcriptional regulator [Bacillus anthracis CI]
 gi|51973775|gb|AAU15325.1| transcriptional regulator, DNA-binding protein [Bacillus cereus
          E33L]
 gi|196029636|gb|EDX68238.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|300378892|gb|ADK07796.1| transcriptional regulator, DNA-binding protein [Bacillus cereus
          biovar anthracis str. CI]
 gi|324329202|gb|ADY24462.1| DNA-binding transcriptional regulator [Bacillus thuringiensis
          serovar finitimus YBT-020]
          Length = 63

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            ++  R   G+SQ +L + + +  Q +   E        +    +++ L++ ++  F
Sbjct: 2  NNVKQYRKSEGLSQLELAKRVKVARQTINLIENNKYNPSLALCIELAKALKTDLNSLF 59


>gi|42518546|ref|NP_964476.1| hypothetical protein LJ0451 [Lactobacillus johnsonii NCC 533]
 gi|41582831|gb|AAS08442.1| hypothetical protein LJ_0451 [Lactobacillus johnsonii NCC 533]
          Length = 272

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 35/65 (53%), Gaps = 5/65 (7%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE--SPI 70
          + +G+ ++  R  LG++QE++ + + I+     K E+G+  +    L  I  +L+    I
Sbjct: 1  MKIGQALKEERQKLGLTQEQMIKGI-ISKGHYSKIERGLESISIDTLFRI--ILKHHIDI 57

Query: 71 SFFFD 75
          S FF+
Sbjct: 58 SDFFN 62


>gi|116493755|ref|YP_805489.1| XRE family transcriptional regulator [Lactobacillus casei ATCC
          334]
 gi|116103905|gb|ABJ69047.1| Transcriptional regulator, xre family [Lactobacillus casei ATCC
          334]
          Length = 297

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ I   R   GMSQ +L E + ++  Q+ K+E+ + ++   +   + E L    + F
Sbjct: 4  IGELINHFRENKGMSQAELSEGI-LSKAQLSKFERDLTKISVDKFLALLERLHVTFTEF 61


>gi|309806794|ref|ZP_07700783.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          03V1-b]
 gi|308166768|gb|EFO68958.1| DNA-binding helix-turn-helix protein [Lactobacillus iners LactinV
          03V1-b]
          Length = 72

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/54 (20%), Positives = 30/54 (55%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          ++  R+  G++Q +  + L + FQ + KYE   +++    L+ +  + + P+++
Sbjct: 5  LKAARVNKGLTQREAAKYLKVNFQTISKYEIDSSKIPMKLLKDMCSLYKIPMNY 58


>gi|307323870|ref|ZP_07603079.1| transcriptional regulator, XRE family [Streptomyces violaceusniger
           Tu 4113]
 gi|306890319|gb|EFN21296.1| transcriptional regulator, XRE family [Streptomyces violaceusniger
           Tu 4113]
          Length = 201

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/111 (18%), Positives = 38/111 (34%), Gaps = 16/111 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           VG R+R  R   G +  +L E  GI+   + + E G  +     L  +++          
Sbjct: 16  VGPRLRALRRTRGTTLAQLSETTGISLSTLSRLESGQRKPTLELLLPLAKAYGV------ 69

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG---LQLNR------YFIQIDDVKVR 116
                +    ++ +  V     T  G   + L R       + QI   + +
Sbjct: 70  -QLDELVGAPATGDPRVHPRPFTRHGQTFVPLTRYLGGLHAYKQIMPPRPQ 119


>gi|282865024|ref|ZP_06274077.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
 gi|282559947|gb|EFB65496.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
          Length = 401

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 34/59 (57%), Gaps = 1/59 (1%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLES 68
          ++ ++G R+R  R    ++Q++L +  G++   ++K E+GV      + L++++  L+ 
Sbjct: 1  MNTSIGDRVRALREFRDITQDQLAQRSGVSVDTIRKLEQGVRESARINTLRNLARALDV 59


>gi|323528440|ref|YP_004230592.1| helix-turn-helix domain-containing protein [Burkholderia sp.
           CCGE1001]
 gi|323385442|gb|ADX57532.1| helix-turn-helix domain protein [Burkholderia sp. CCGE1001]
          Length = 315

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/104 (19%), Positives = 36/104 (34%), Gaps = 2/104 (1%)

Query: 3   GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           G    P     +VG  +R  R    MSQ  L     I+ + +   E G        + H+
Sbjct: 37  GAPSAPPTASRSVGDLLREWRQRRRMSQLLLAAEADISTRHLSFVESGRAMPSREMVMHL 96

Query: 63  SEVLESPISFFFDVSPTVCSDISSEENNVMD--FISTPDGLQLN 104
           +E L+ P+     +           E  + D    +  + ++L 
Sbjct: 97  AERLDVPLRARNALLIAAGYAPLFRERPLADPQLSAAREAVELV 140


>gi|206970675|ref|ZP_03231627.1| DNA-binding protein [Bacillus cereus AH1134]
 gi|229178189|ref|ZP_04305560.1| Transcriptional regulator, Xre [Bacillus cereus 172560W]
 gi|206734311|gb|EDZ51481.1| DNA-binding protein [Bacillus cereus AH1134]
 gi|228605319|gb|EEK62769.1| Transcriptional regulator, Xre [Bacillus cereus 172560W]
          Length = 404

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 34/72 (47%), Gaps = 5/72 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G++I+  R    ++Q +L   +G  +T   + + E G        LQ+I+E LE  +SF
Sbjct: 4  LGEKIKTLRKEKKLTQTEL---VGSELTKSMLSQIENGKATPSMKTLQYIAEKLECEMSF 60

Query: 73 FFDVSPTVCSDI 84
            +       ++
Sbjct: 61 LLEEDEGEIVEL 72


>gi|217975711|ref|YP_002360310.1| putative phage repressor [Shewanella baltica OS223]
 gi|217501061|gb|ACK48948.1| putative phage repressor [Shewanella baltica OS223]
          Length = 231

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/118 (24%), Positives = 54/118 (45%), Gaps = 24/118 (20%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R+ LG SQE+ G  +G+T   + ++E G      +R + I +++E+     F++
Sbjct: 25  RNLKQLRIDLGFSQEEFGRRIGVTKSTISQWEAGK---SQARRKFIKKIIET-----FEL 76

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID---DVKV--------RQKIIELV 123
                  +  EE NV    S  +       F +I    DVKV        R+++ EL+
Sbjct: 77  EDNYFDIVDREEANVDSCKSNCES-----SFKRIPFYSDVKVAAGSGYCNREEVYELI 129


>gi|115378362|ref|ZP_01465526.1| transcriptional regulator [Stigmatella aurantiaca DW4/3-1]
 gi|310818241|ref|YP_003950599.1| transcriptional regulator [Stigmatella aurantiaca DW4/3-1]
 gi|115364638|gb|EAU63709.1| transcriptional regulator [Stigmatella aurantiaca DW4/3-1]
 gi|309391313|gb|ADO68772.1| Transcriptional regulator [Stigmatella aurantiaca DW4/3-1]
          Length = 168

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 32/78 (41%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +G+ IR  R  LG++QE++ E + +T +   + E+G       R   I  VL    + 
Sbjct: 7  RTLGRNIRQARHRLGLTQEQMAERINMTPEVYGRMERGNLVPRLERFVVICRVLGETPNR 66

Query: 73 FFDVSPTVCSDISSEENN 90
                   +D  + E  
Sbjct: 67 LISSREPATADEETSEAP 84



 Score = 40.2 bits (93), Expect = 0.10,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 24/55 (43%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
             +G  +R  R  LG++Q ++ E + +      + E+G       R   I +VL 
Sbjct: 96  RRLGANMREARKRLGLTQVEMAERIRMPVDLYGRMERGETLPRLDRFVTICQVLG 150


>gi|111225926|ref|YP_716720.1| hypothetical protein FRAAL6593 [Frankia alni ACN14a]
 gi|111153458|emb|CAJ65216.1| hypothetical protein FRAAL6593 [Frankia alni ACN14a]
          Length = 375

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 27/56 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G  +   R    M+ + L   +GI+   + K E G+ R   + ++ I+  L++P 
Sbjct: 33 LGVELAQLRHARAMTGQALASSVGISQSTISKIENGLLRPNPADVERIARTLQAPP 88


>gi|146302525|ref|YP_001197116.1| helix-turn-helix domain-containing protein [Flavobacterium
          johnsoniae UW101]
 gi|146156943|gb|ABQ07797.1| helix-turn-helix domain protein [Flavobacterium johnsoniae UW101]
          Length = 117

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/64 (17%), Positives = 33/64 (51%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +++  +R+    +QE++   LG+T  Q  + E G+ ++  S    ++++L + +   ++ 
Sbjct: 4  QKLITKRIEKNKTQEEIAHLLGMTQSQYSRRESGITKITKSEWDSLAKILGTNMEAIYEP 63

Query: 77 SPTV 80
             +
Sbjct: 64 EDGI 67


>gi|54307847|ref|YP_128867.1| transcriptional regulator [Photobacterium profundum SS9]
 gi|46912273|emb|CAG19065.1| hypothetical transcriptional regulator [Photobacterium profundum
          SS9]
          Length = 230

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 32/71 (45%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+    I G+SQ++LGE LG+    + +   G   +    L+ I+  L + I +    
Sbjct: 23 ERIKQLAKIQGISQKQLGESLGLQQGTMSRKLSGKYGIEVRELERIAVTLNTSIGYLLTG 82

Query: 77 SPTVCSDISSE 87
               +  ++ 
Sbjct: 83 QIDTSTQATTA 93


>gi|88810779|ref|ZP_01126036.1| transcriptional regulator, XRE family protein [Nitrococcus mobilis
           Nb-231]
 gi|88792409|gb|EAR23519.1| transcriptional regulator, XRE family protein [Nitrococcus mobilis
           Nb-231]
          Length = 128

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 23/55 (41%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           IR+ R   G++Q  L    GIT   V + E G  +     L+ ++  L   I   
Sbjct: 68  IRVWRQYRGVTQAALANAAGITAAYVSQLEAGKRQPSVEVLRAMARKLSVDIDDL 122


>gi|329936275|ref|ZP_08286068.1| DNA-binding protein [Streptomyces griseoaurantiacus M045]
 gi|329304385|gb|EGG48265.1| DNA-binding protein [Streptomyces griseoaurantiacus M045]
          Length = 275

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 29/69 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  +R  R   G++  +  + LGI   QV   E G + V   RL+ I+   +       
Sbjct: 6  LGAELRKLRERAGLTSTQAAQLLGIKQNQVSNMEAGRHGVSPDRLRTIACHYDCSDKALV 65

Query: 75 DVSPTVCSD 83
          +   T+  D
Sbjct: 66 EALATMTPD 74


>gi|326384730|ref|ZP_08206407.1| helix-turn-helix domain protein [Gordonia neofelifaecis NRRL
           B-59395]
 gi|326196538|gb|EGD53735.1| helix-turn-helix domain protein [Gordonia neofelifaecis NRRL
           B-59395]
          Length = 265

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/100 (16%), Positives = 45/100 (45%), Gaps = 4/100 (4%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G ++R  R    +SQ +L    G++ + +   E G +R     ++ ++  L+ P+    
Sbjct: 10  IGPQLRRWRQHRQLSQLQLSNRAGVSTRHLSWVENGRSRPTRDMIERLAGHLDVPLR--- 66

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK 114
           + +  + S   +   +  D +S+P+   ++     + + +
Sbjct: 67  ERNQLLLSGGFAPAYSCSD-LSSPELFAVSSALQALLEAQ 105


>gi|315640521|ref|ZP_07895629.1| DNA-binding protein [Enterococcus italicus DSM 15952]
 gi|315483725|gb|EFU74213.1| DNA-binding protein [Enterococcus italicus DSM 15952]
          Length = 209

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 34/77 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G++++  R  +G +QE++   L ++ Q +  +E   +    S L ++S+     +  
Sbjct: 1  MKIGEQLKRARSQIGKTQEEVANALHVSRQTISSWENKRSYPDISSLLNLSDYYNLSLDR 60

Query: 73 FFDVSPTVCSDISSEEN 89
                 +  +I   E 
Sbjct: 61 LLKEDTGMIEEIKRNEQ 77


>gi|307320352|ref|ZP_07599770.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
 gi|306894074|gb|EFN24842.1| transcriptional regulator, XRE family [Sinorhizobium meliloti
          AK83]
          Length = 472

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G+++R  R    ++Q +  E +GI+   + + E     V A+ L  ++E  +  I+
Sbjct: 6  LYIGRKVRDLRDGKRLTQGQFAERIGISTSYLNQIENNQRPVSAAVLLALAEKFQIDIA 64


>gi|302870397|ref|YP_003839034.1| putative DNA-binding protein [Micromonospora aurantiaca ATCC 27029]
 gi|302573256|gb|ADL49458.1| putative DNA-binding protein [Micromonospora aurantiaca ATCC 27029]
          Length = 444

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/100 (25%), Positives = 36/100 (36%), Gaps = 11/100 (11%)

Query: 12  DINVGKRIRLRRMI-----LGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           D ++G+ +R  R         + Q  +    GIT  Q+ + E G   V   RL H + VL
Sbjct: 59  DRHLGRVVRAYRHHPYHGRQPLPQTTVAGWFGITQAQLSRIENGPEVVHLDRLAHWARVL 118

Query: 67  ESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             P    +   P    D     + V        G QL R 
Sbjct: 119 RIPAHTLWFRLPAAPGDTPLPADVV------EVGPQLIRA 152


>gi|296120086|ref|ZP_06838640.1| transcriptional regulator [Corynebacterium ammoniagenes DSM
          20306]
 gi|295967240|gb|EFG80511.1| transcriptional regulator [Corynebacterium ammoniagenes DSM
          20306]
          Length = 182

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 6/60 (10%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR------VGASRLQHISEVLESPI 70
          + +R  R   G++Q+ L E  G++  QV   E+  N          S +  ++  LE P 
Sbjct: 19 QNLRKIRRSRGVTQQALAEIAGLSRTQVCNLERNENNSGTSADPALSTVYKLALALEVPP 78


>gi|257892128|ref|ZP_05671781.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           1,231,410]
 gi|257828488|gb|EEV55114.1| helix-turn-helix domain-containing protein [Enterococcus faecium
           1,231,410]
          Length = 173

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 5/68 (7%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQ--VQKYEKGVNRVGASRLQHISE 64
            PNPV+   GKRI+  R   GM+ E+  + +G   Q+  +  +E+G +     RL  I+E
Sbjct: 40  KPNPVET--GKRIKSIRSNFGMTMEQFADLIG-NAQKGNINNWERGFSLPNKERLIKIAE 96

Query: 65  VLESPISF 72
           +    I +
Sbjct: 97  LSNKTIDW 104


>gi|228902066|ref|ZP_04066230.1| HTH-type transcriptional regulator PuuR [Bacillus thuringiensis
          IBL 4222]
 gi|228857492|gb|EEN01988.1| HTH-type transcriptional regulator PuuR [Bacillus thuringiensis
          IBL 4222]
          Length = 68

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 28/59 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GK++ L R   G SQ +LGE L  +   V   E G  +   ++L  IS + +  I   F
Sbjct: 6  GKKLYLLRKNRGFSQRELGELLNCSHSLVNLMENGKLQPTTAKLLGISSIFKVSIDELF 64


>gi|170754290|ref|YP_001780243.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
 gi|169119502|gb|ACA43338.1| DNA-binding protein [Clostridium botulinum B1 str. Okra]
          Length = 136

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++   R   G+SQ++LG  L ++ Q + K+E G       +L  + +  E  + 
Sbjct: 5  NKLYSLRKQKGLSQDELGSKLNVSRQTISKWELGETTPELEKLIALGDFFEISLD 59


>gi|158425505|ref|YP_001526797.1| putative HTH-type transcriptional regulator [Azorhizobium
          caulinodans ORS 571]
 gi|158332394|dbj|BAF89879.1| putative HTH-type transcriptional regulator [Azorhizobium
          caulinodans ORS 571]
          Length = 72

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 22/57 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VG+     R   G++QE +    G + Q +   E+G        L  +++ L   
Sbjct: 5  KLVGRNFARLRQEKGLTQEDVQTRSGFSQQYISGLERGRRNPTVITLYELAQALGVS 61


>gi|186470871|ref|YP_001862189.1| XRE family transcriptional regulator [Burkholderia phymatum STM815]
 gi|184197180|gb|ACC75143.1| transcriptional regulator, XRE family [Burkholderia phymatum
           STM815]
          Length = 234

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 30/70 (42%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G R+R  RM+  ++ + L E  G +   + K E G      + L  I+  L++ I+   
Sbjct: 45  LGTRLRHARMVQQLTLKALAEQAGCSESLLSKVEGGHATPSLATLHRIALALDTNIAALV 104

Query: 75  DVSPTVCSDI 84
                  + I
Sbjct: 105 SGPVATVTPI 114


>gi|255973582|ref|ZP_05424168.1| CylR2 [Enterococcus faecalis T2]
 gi|256959429|ref|ZP_05563600.1| CylR2 [Enterococcus faecalis DS5]
 gi|256960245|ref|ZP_05564416.1| CylR2 [Enterococcus faecalis Merz96]
 gi|257080295|ref|ZP_05574656.1| CylR2 [Enterococcus faecalis JH1]
 gi|257423074|ref|ZP_05600064.1| conserved hypothetical protein [Enterococcus faecalis X98]
 gi|307277414|ref|ZP_07558507.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|307285036|ref|ZP_07565186.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
 gi|307292300|ref|ZP_07572161.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|312904701|ref|ZP_07763852.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|55670390|pdb|1UTX|A Chain A, Regulation Of Cytolysin Expression By Enterococcus
          Faecalis: Role Of Cylr2
 gi|55670391|pdb|1UTX|B Chain B, Regulation Of Cytolysin Expression By Enterococcus
          Faecalis: Role Of Cylr2
 gi|146386808|pdb|2GZU|A Chain A, High-Resolution Structure Determination Of The Cylr2
          Homodimer Using Intermonomer Distances From
          Paramagnetic Relaxation Enhancement And Nmr Dipolar
          Couplings
 gi|146386809|pdb|2GZU|B Chain B, High-Resolution Structure Determination Of The Cylr2
          Homodimer Using Intermonomer Distances From
          Paramagnetic Relaxation Enhancement And Nmr Dipolar
          Couplings
 gi|322812210|pdb|2XI8|A Chain A, High Resolution Structure Of Native Cylr2
 gi|322812211|pdb|2XI8|B Chain B, High Resolution Structure Of Native Cylr2
 gi|18139790|gb|AAL60140.1|AF394225_2 CylR2 [Enterococcus faecalis]
 gi|18104290|gb|AAL59476.1| putative transcription regulator [Enterococcus faecalis]
 gi|255966454|gb|EET97076.1| CylR2 [Enterococcus faecalis T2]
 gi|256949925|gb|EEU66557.1| CylR2 [Enterococcus faecalis DS5]
 gi|256950741|gb|EEU67373.1| CylR2 [Enterococcus faecalis Merz96]
 gi|256988325|gb|EEU75627.1| CylR2 [Enterococcus faecalis JH1]
 gi|257164898|gb|EEU94858.1| conserved hypothetical protein [Enterococcus faecalis X98]
 gi|306496655|gb|EFM66211.1| helix-turn-helix protein [Enterococcus faecalis TX0411]
 gi|306502937|gb|EFM72197.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
 gi|306505903|gb|EFM75080.1| helix-turn-helix protein [Enterococcus faecalis TX2134]
 gi|310631956|gb|EFQ15239.1| helix-turn-helix protein [Enterococcus faecalis TX0635]
 gi|315163478|gb|EFU07495.1| helix-turn-helix protein [Enterococcus faecalis TX1302]
 gi|329569606|gb|EGG51374.1| DNA-binding helix-turn-helix protein [Enterococcus faecalis
          TX1467]
          Length = 66

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 24/63 (38%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            ++L R    +SQ +L   L ++ Q +   EK            I+  L +P+   F  
Sbjct: 4  NNLKLIREKKKISQSELAALLEVSRQTINGIEKNKYNPSLQLALKIAYYLNTPLEDIFQW 63

Query: 77 SPT 79
           P 
Sbjct: 64 QPE 66


>gi|146294918|ref|YP_001185342.1| helix-turn-helix domain-containing protein [Shewanella
          putrefaciens CN-32]
 gi|145566608|gb|ABP77543.1| helix-turn-helix domain protein [Shewanella putrefaciens CN-32]
          Length = 68

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 26/58 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          I  G ++R  R   G+SQEK+     I    + + E+G   +   +   ++E L   I
Sbjct: 6  IQFGAKLREERKRRGISQEKVALLTEIDRSYMGRIERGEVNITLEKAYQLAEALGCDI 63


>gi|76799152|ref|ZP_00781336.1| transcription regulator [Streptococcus agalactiae 18RS21]
 gi|76799661|ref|ZP_00781770.1| transcription regulator [Streptococcus agalactiae 18RS21]
 gi|76584989|gb|EAO61638.1| transcription regulator [Streptococcus agalactiae 18RS21]
 gi|76585504|gb|EAO62078.1| transcription regulator [Streptococcus agalactiae 18RS21]
          Length = 97

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 27/53 (50%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           I+  R+  G++Q ++ E LG+   Q  ++E G        ++ ++E+  + +
Sbjct: 5  NIKKARLDAGLTQLEVAEKLGVAQAQYARWENGGRNPKDETVEKLAEIFGTSL 57


>gi|322390596|ref|ZP_08064111.1| DNA-binding protein [Streptococcus parasanguinis ATCC 903]
 gi|321142675|gb|EFX38138.1| DNA-binding protein [Streptococcus parasanguinis ATCC 903]
          Length = 296

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/103 (22%), Positives = 48/103 (46%), Gaps = 4/103 (3%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
            +   +GK++R  R   GM++E L  +   +T +Q+ + EKG +     +L++I+ +L+ 
Sbjct: 3   DIKSEIGKKLRRLREEKGMTREVLCNDESELTVRQLVRIEKGESLPSLKKLEYIANMLDI 62

Query: 69  PISFFFDVSPTVCSDISSEENNVMDFIST---PDGLQLNRYFI 108
           P+S   D    V      E   ++    T    + ++L   + 
Sbjct: 63  PVSNIVDHDKAVLPRRYLELKFLVTHFMTYGDEERIRLKESYF 105


>gi|296327851|ref|ZP_06870387.1| DNA-binding protein [Fusobacterium nucleatum subsp. nucleatum
          ATCC 23726]
 gi|296154985|gb|EFG95766.1| DNA-binding protein [Fusobacterium nucleatum subsp. nucleatum
          ATCC 23726]
          Length = 209

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 25/59 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          ++I V + I+  R    +S   L +   ++   + + E+G      S L  I+  ++  
Sbjct: 31 LNILVSENIKRIRQEKNLSLGDLAKLSDVSKSMLAQIERGEGNPTLSTLWKIANGMQVS 89


>gi|256789090|ref|ZP_05527521.1| transcriptional regulatory protein [Streptomyces lividans TK24]
          Length = 190

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/75 (14%), Positives = 25/75 (33%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + ++  R   G + E L    G++   + + E+         +  I + L   I+   D 
Sbjct: 13 RNVKRWRGERGFTLEALAARAGVSRGMLIQIEQARTNPSLGTVVKIGDALGVSITTLLDW 72

Query: 77 SPTVCSDISSEENNV 91
                 +   +  V
Sbjct: 73 EQGPAVRVVPADEAV 87


>gi|253689846|ref|YP_003019036.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
          subsp. carotovorum PC1]
 gi|251756424|gb|ACT14500.1| transcriptional regulator, XRE family [Pectobacterium carotovorum
          subsp. carotovorum PC1]
          Length = 200

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 23/53 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          IR  R  L +S  +L +  G+    + + E G+       L  ++  L+  +S
Sbjct: 30 IRRERERLNLSVTELAKRAGLAKSTLSQLETGIGNPSLETLWALAMALDVQVS 82


>gi|298229344|ref|ZP_06963025.1| Tn5251 transcriptional regulator Cro/CI family protein
          [Streptococcus pneumoniae str. Canada MDR_19F]
 gi|298255907|ref|ZP_06979493.1| Tn5251 transcriptional regulator Cro/CI family protein
          [Streptococcus pneumoniae str. Canada MDR_19A]
 gi|298503697|ref|YP_003725637.1| replication initiation protein [Streptococcus pneumoniae
          TCH8431/19A]
 gi|298239292|gb|ADI70423.1| replication initiation protein [Streptococcus pneumoniae
          TCH8431/19A]
          Length = 420

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 31/64 (48%), Gaps = 5/64 (7%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-----ESPIS 71
          ++++ +R+  G+SQ +L    GIT Q +   E G  +      Q + E L     ++P+ 
Sbjct: 13 QQLKEKRLAYGLSQNRLAVATGITRQYLSDIETGKVKPSEDLQQSLFEALERFNPDAPLE 72

Query: 72 FFFD 75
            FD
Sbjct: 73 MLFD 76


>gi|237807907|ref|YP_002892347.1| transcriptional regulator, XRE family [Tolumonas auensis DSM
          9187]
 gi|237500168|gb|ACQ92761.1| transcriptional regulator, XRE family [Tolumonas auensis DSM
          9187]
          Length = 89

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 30/51 (58%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
          ++VG++IR  R  +G+S+ K  E LG+    ++ YE G   VG + L  ++
Sbjct: 6  VSVGQKIRHIRETMGLSRPKFAELLGVPPTTLKNYELGYREVGGAFLVALA 56


>gi|153812929|ref|ZP_01965597.1| hypothetical protein RUMOBE_03336 [Ruminococcus obeum ATCC 29174]
 gi|149831007|gb|EDM86097.1| hypothetical protein RUMOBE_03336 [Ruminococcus obeum ATCC 29174]
          Length = 279

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/105 (15%), Positives = 40/105 (38%), Gaps = 7/105 (6%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFDV 76
           R+   R    +SQ++L + L +T  Q+ + E G       S +   +        +    
Sbjct: 16  RLSNLRKDHDLSQKQLADQLHVTHSQISRIESGETKNPNISIVIDAARFFHVSTDYLL-- 73

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE 121
              +    S +  ++ +   + + +   R   +  DV +  +++E
Sbjct: 74  --GITQITSPKSYDISELRLSEEAV--TRLITRRIDVDILNRLLE 114


>gi|254303749|ref|ZP_04971107.1| possible transcriptional regulator [Fusobacterium nucleatum
          subsp. polymorphum ATCC 10953]
 gi|148323941|gb|EDK89191.1| possible transcriptional regulator [Fusobacterium nucleatum
          subsp. polymorphum ATCC 10953]
          Length = 182

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 25/59 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          ++I V + I+  R    +S   L +   ++   + + E+G      S L  I+  ++  
Sbjct: 4  LNILVSENIKRIRQEKNLSLGDLAKLSDVSKSMLAQIERGEGNPTLSTLWKIANGMQVS 62


>gi|148556966|ref|YP_001264548.1| helix-turn-helix domain-containing protein [Sphingomonas wittichii
           RW1]
 gi|148502156|gb|ABQ70410.1| helix-turn-helix domain protein [Sphingomonas wittichii RW1]
          Length = 125

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 4/96 (4%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +G R+R  R  LG+ Q+++   L I    +   E G  RV A  L  ++++    +++
Sbjct: 17  RRLGDRLREARKYLGLKQDEVATYLKIPRTALTDIESGQRRVEAIELTRLAKLYRQSVAY 76

Query: 73  FFDVSPTVCS---DISSEENNVMDFISTPDGLQLNR 105
           F        S   D++     V D +ST D  +L+R
Sbjct: 77  FTGEDEASASLPVDVAHLARRVAD-LSTEDRAELSR 111


>gi|77165129|ref|YP_343654.1| XRE family transcriptional regulator [Nitrosococcus oceani ATCC
          19707]
 gi|254433736|ref|ZP_05047244.1| hypothetical protein NOC27_667 [Nitrosococcus oceani AFC27]
 gi|76883443|gb|ABA58124.1| transcriptional regulator, XRE family [Nitrosococcus oceani ATCC
          19707]
 gi|207090069|gb|EDZ67340.1| hypothetical protein NOC27_667 [Nitrosococcus oceani AFC27]
          Length = 76

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 32/67 (47%), Gaps = 1/67 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPIS 71
          ++VGK I+  R+  G++Q +L +   I    + K E+  N  +    L+ I++ L+  + 
Sbjct: 1  MSVGKNIKGLRIAAGLTQTQLAKEARINQSGLSKIEREENESITLPTLRKIAKALDCSVV 60

Query: 72 FFFDVSP 78
             +   
Sbjct: 61 ALLEDKD 67


>gi|21219819|ref|NP_625598.1| transcriptional regulatory protein [Streptomyces coelicolor
          A3(2)]
 gi|289772984|ref|ZP_06532362.1| transcriptional regulatory protein [Streptomyces lividans TK24]
 gi|14575569|emb|CAC42859.1| putative transcriptional regulatory protein [Streptomyces
          coelicolor A3(2)]
 gi|289703183|gb|EFD70612.1| transcriptional regulatory protein [Streptomyces lividans TK24]
          Length = 201

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/75 (14%), Positives = 25/75 (33%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + ++  R   G + E L    G++   + + E+         +  I + L   I+   D 
Sbjct: 24 RNVKRWRGERGFTLEALAARAGVSRGMLIQIEQARTNPSLGTVVKIGDALGVSITTLLDW 83

Query: 77 SPTVCSDISSEENNV 91
                 +   +  V
Sbjct: 84 EQGPAVRVVPADEAV 98


>gi|99081720|ref|YP_613874.1| XRE family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99038000|gb|ABF64612.1| transcriptional regulator, XRE family [Ruegeria sp. TM1040]
          Length = 491

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/133 (10%), Positives = 49/133 (36%), Gaps = 13/133 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R  +G++Q+     LG++   + + E     V  + +  +++     ++ 
Sbjct: 35  LYAGAKLREMRNRIGLTQKDFAAKLGVSLPYLNQMENNNRPVSTTVVLALAQEFGLDVTE 94

Query: 73  FFDVSPT----------VCSDISSEENNVMDF-ISTPDGLQLNRYFIQIDDV--KVRQKI 119
                                 + +   + D  ++  +   L R F+ +     +  +++
Sbjct: 95  LSSGDSERLISDMREAMADPVFADDVPPLADLRLTASNAPALARAFLSLHRAYRQTHERL 154

Query: 120 IELVRSIVSSEKK 132
             L  ++  ++ +
Sbjct: 155 ASLDEALGRADAR 167


>gi|330833783|ref|YP_004402608.1| putative DNA-binding phage protein [Streptococcus suis ST3]
 gi|329308006|gb|AEB82422.1| putative DNA-binding phage protein [Streptococcus suis ST3]
          Length = 75

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 33/70 (47%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R+  G +  ++ + +G  FQ + KYEK    +    L+ +S++    +   F    
Sbjct: 6  LKACRVNAGYTLRQVAKKVGKNFQTISKYEKDSTIIPFELLKDLSKLYRVKLDDIFLGDS 65

Query: 79 TVCSDISSEE 88
          T   +++ EE
Sbjct: 66 TKKIELTPEE 75


>gi|311069889|ref|YP_003974812.1| putative transcriptional repressor [Bacillus atrophaeus 1942]
 gi|310870406|gb|ADP33881.1| putative transcriptional repressor [Bacillus atrophaeus 1942]
          Length = 139

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/88 (14%), Positives = 38/88 (43%), Gaps = 8/88 (9%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESPISFFF 74
           G+++R  R    ++  +L    G++   + + E G   +   + ++ +++ L+ P    +
Sbjct: 5   GEQLRALRKARHLTVNQLAIYSGVSSATISRIENGKRGIPKPATIRKLADTLKMP----Y 60

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQ 102
           +        I+   + + +    P+G Q
Sbjct: 61  ENLMAAAGHITPFPDEIRE---APEGYQ 85


>gi|302520148|ref|ZP_07272490.1| DNA-binding protein [Streptomyces sp. SPB78]
 gi|333026104|ref|ZP_08454168.1| putative DNA-binding protein [Streptomyces sp. Tu6071]
 gi|302429043|gb|EFL00859.1| DNA-binding protein [Streptomyces sp. SPB78]
 gi|332745956|gb|EGJ76397.1| putative DNA-binding protein [Streptomyces sp. Tu6071]
          Length = 120

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/84 (16%), Positives = 37/84 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ +R +R    +S  +L +  G++   + + E+G+ +  A  LQ +++ L       +
Sbjct: 9  LGEFLREQRRAARLSLRQLADAAGVSNPYLSQIERGLRKPSAEILQQLAKALRISAETLY 68

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
            +  +     +E       ++ P
Sbjct: 69 VQAGILDERERAEAETRAVLLADP 92


>gi|299142285|ref|ZP_07035418.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella oris C735]
 gi|298576374|gb|EFI48247.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella oris C735]
          Length = 104

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 4/52 (7%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          G  I+  R    ++QE+LGE +GI   QV + E G N         I+   +
Sbjct: 38 GDAIKKARQSCNLTQEQLGERMGIKKAQVSRIEGGKN----LTFSTIARAFK 85


>gi|229551141|ref|ZP_04439866.1| transcription regulator [Lactobacillus rhamnosus LMS2-1]
 gi|258541073|ref|YP_003175572.1| transcriptional regulator [Lactobacillus rhamnosus Lc 705]
 gi|229315433|gb|EEN81406.1| transcription regulator [Lactobacillus rhamnosus LMS2-1]
 gi|257152749|emb|CAR91721.1| Transcriptional regulator [Lactobacillus rhamnosus Lc 705]
          Length = 393

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 30/65 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R + G ++++L + +G+T Q V +YE          L    ++    + F
Sbjct: 1  MFIGSKLQALRELNGYTRKELSDVIGVTQQAVWQYENDNVMPKIEILNTFQKIFNVEMLF 60

Query: 73 FFDVS 77
              S
Sbjct: 61 LISGS 65


>gi|167851686|ref|ZP_02477194.1| possible transcriptional regulator, XRE family protein
          [Burkholderia pseudomallei B7210]
 gi|257140690|ref|ZP_05588952.1| XRE family transcriptional regulator [Burkholderia thailandensis
          E264]
          Length = 109

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 31/81 (38%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           P P+ I +GKRI+  R     SQE L     I    +   E+G+       L +I   L
Sbjct: 12 RPAPISIALGKRIKQCRHEAEKSQETLAFEAHIDRTYISSIERGIANPSVETLANICYSL 71

Query: 67 ESPISFFFDVSPTVCSDISSE 87
             ++  F     V    + E
Sbjct: 72 NITLAELFAPLDGVSLKPTGE 92


>gi|148381499|ref|YP_001256040.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|153933346|ref|YP_001385874.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|153936871|ref|YP_001389281.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|148290983|emb|CAL85119.1| putative transcriptional regulator [Clostridium botulinum A str.
          ATCC 3502]
 gi|152929390|gb|ABS34890.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|152932785|gb|ABS38284.1| DNA-binding protein [Clostridium botulinum A str. Hall]
          Length = 220

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 38/75 (50%), Gaps = 3/75 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  +I+  R+  G++Q++L + LG+    + + E G   +  S +  IS+VL   I+   
Sbjct: 4  VSDKIKEARLKKGLTQKQLAKKLGVAENFINEIESGRKIINESLMNRISKVLGKGIN--- 60

Query: 75 DVSPTVCSDISSEEN 89
          D+  +   ++S E  
Sbjct: 61 DIGISFEEEVSLEPK 75


>gi|77163558|ref|YP_342084.1| XRE family transcriptional regulator [Nitrosococcus oceani ATCC
          19707]
 gi|254436424|ref|ZP_05049929.1| hypothetical protein NOC27_3396 [Nitrosococcus oceani AFC27]
 gi|76881872|gb|ABA56554.1| transcriptional regulator, XRE family [Nitrosococcus oceani ATCC
          19707]
 gi|207087958|gb|EDZ65232.1| hypothetical protein NOC27_3396 [Nitrosococcus oceani AFC27]
          Length = 76

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 1/66 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
          VGK I+  R+  G++Q +L +   I    + K E+  N  V    L+ I++ L+  ++  
Sbjct: 3  VGKNIKGLRIAAGLTQTQLAKEARIDQSGLSKIEREENESVTLPTLRKIAKALDCSVAAL 62

Query: 74 FDVSPT 79
           +   T
Sbjct: 63 LENEDT 68


>gi|72160668|ref|YP_288325.1| helix-hairpin-helix DNA-binding motif-containing protein
          [Thermobifida fusca YX]
 gi|71914400|gb|AAZ54302.1| helix-turn-helix motif [Thermobifida fusca YX]
          Length = 146

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 29/60 (48%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          NP  + +G +IRL R   G+SQ +L + L I+   +   E+G+          I  VL +
Sbjct: 6  NPHWLKLGSQIRLLREAQGLSQAQLSQALNISQAMLSAVERGIRNCKPDLAAQIDHVLNT 65


>gi|126173499|ref|YP_001049648.1| helix-turn-helix domain-containing protein [Shewanella baltica
           OS155]
 gi|125996704|gb|ABN60779.1| helix-turn-helix domain protein [Shewanella baltica OS155]
          Length = 146

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/70 (20%), Positives = 32/70 (45%), Gaps = 8/70 (11%)

Query: 20  RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-------ESPISF 72
           +  R+ + +SQ+ L    G++ Q + +YEKG   +  +    +   L        +P+S+
Sbjct: 58  KFLRLEMNLSQKALAVRFGVSEQTIARYEKGQTEIPRTTDVAL-RTLYMEKIEHNNPVSY 116

Query: 73  FFDVSPTVCS 82
           F ++     +
Sbjct: 117 FLELLADAEA 126


>gi|299142081|ref|ZP_07035215.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella oris C735]
 gi|298576543|gb|EFI48415.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella oris C735]
          Length = 103

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 26/49 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          ++ +R +  ++Q++L E +G   + + + E+G + +  S    I+  L 
Sbjct: 47 LKEQRKMQRLTQQQLAEMIGKKREYISQIERGNSDMQLSTFLQIANALG 95


>gi|253680970|ref|ZP_04861773.1| DNA-binding protein [Clostridium botulinum D str. 1873]
 gi|253562819|gb|EES92265.1| DNA-binding protein [Clostridium botulinum D str. 1873]
          Length = 195

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 25/66 (37%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +I+  R  L +SQE+L E + +T Q +  +E          L  +S +    +       
Sbjct: 6  QIKKYRTNLNLSQEELAEKVYVTRQTISNWENNKTYPDIRSLLLLSTLFNISLDQLIKGD 65

Query: 78 PTVCSD 83
               +
Sbjct: 66 IKTMQE 71


>gi|261415442|ref|YP_003249125.1| transcriptional regulator, XRE family [Fibrobacter succinogenes
          subsp. succinogenes S85]
 gi|261371898|gb|ACX74643.1| transcriptional regulator, XRE family [Fibrobacter succinogenes
          subsp. succinogenes S85]
 gi|302326318|gb|ADL25519.1| DNA-binding protein [Fibrobacter succinogenes subsp. succinogenes
          S85]
          Length = 149

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 24/51 (47%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
            R    ++Q+++ E L +T Q V ++E G  +     L+ IS      I+
Sbjct: 9  KLRSNQNLTQDQMAERLHVTRQAVSRWETGETQPNTEMLKVISREFNVSIN 59


>gi|14520583|ref|NP_126058.1| hypothetical protein PAB2104 [Pyrococcus abyssi GE5]
 gi|24418829|sp|Q9V1R0|Y367_PYRAB RecName: Full=Putative HTH-type transcriptional regulatory protein
           PYRAB03670
 gi|5457799|emb|CAB49289.1| Hypothetical protein, containing helix-turn-helix motif [Pyrococcus
           abyssi GE5]
          Length = 316

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/87 (26%), Positives = 39/87 (44%), Gaps = 7/87 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE----SPIS 71
           GKR++  R   G S  +L   LG++ + +Q+YEKG + V       + EV +     PI+
Sbjct: 128 GKRLKDLREKHGYSLSELANILGVSRKSLQRYEKGDSMVTLEVALRLEEVFDEALVKPIN 187

Query: 72  FF---FDVSPTVCSDISSEENNVMDFI 95
                FD         ++ E  V + +
Sbjct: 188 VLKAKFDEISLSSKPETTLEREVFERL 214


>gi|15599272|ref|NP_252766.1| transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|107103591|ref|ZP_01367509.1| hypothetical protein PaerPA_01004661 [Pseudomonas aeruginosa
          PACS2]
 gi|116052113|ref|YP_789043.1| putative transcriptional regulator [Pseudomonas aeruginosa
          UCBPP-PA14]
 gi|218889643|ref|YP_002438507.1| putative transcriptional regulator [Pseudomonas aeruginosa
          LESB58]
 gi|254236965|ref|ZP_04930288.1| hypothetical protein PACG_02989 [Pseudomonas aeruginosa C3719]
 gi|254242758|ref|ZP_04936080.1| hypothetical protein PA2G_03524 [Pseudomonas aeruginosa 2192]
 gi|296387366|ref|ZP_06876865.1| putative transcriptional regulator [Pseudomonas aeruginosa PAb1]
 gi|313109519|ref|ZP_07795473.1| putative transcriptional regulator [Pseudomonas aeruginosa 39016]
 gi|9950275|gb|AAG07464.1|AE004823_10 probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
 gi|115587334|gb|ABJ13349.1| putative transcriptional regulator [Pseudomonas aeruginosa
          UCBPP-PA14]
 gi|126168896|gb|EAZ54407.1| hypothetical protein PACG_02989 [Pseudomonas aeruginosa C3719]
 gi|126196136|gb|EAZ60199.1| hypothetical protein PA2G_03524 [Pseudomonas aeruginosa 2192]
 gi|218769866|emb|CAW25626.1| probable transcriptional regulator [Pseudomonas aeruginosa
          LESB58]
 gi|310881975|gb|EFQ40569.1| putative transcriptional regulator [Pseudomonas aeruginosa 39016]
          Length = 68

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 22/66 (33%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R   G SQ +L   L ++ Q V   E G           ++ V    I   FD 
Sbjct: 3  NRVRELRAERGWSQAELAGKLEVSRQTVNAIETGRYDPSLPLAFKLARVFGLAIEAIFDD 62

Query: 77 SPTVCS 82
                
Sbjct: 63 REGQLD 68


>gi|306831328|ref|ZP_07464488.1| HTH-type transcriptional regulator rgg [Streptococcus gallolyticus
           subsp. gallolyticus TX20005]
 gi|304426564|gb|EFM29676.1| HTH-type transcriptional regulator rgg [Streptococcus gallolyticus
           subsp. gallolyticus TX20005]
          Length = 296

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 54/113 (47%), Gaps = 5/113 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+GK  ++ R   G+SQ+++   + I+  Q+ ++E+G++ + A  L +  E +   +  F
Sbjct: 4   NLGKSFKMLRESKGLSQKEIAGDI-ISIAQLSRFERGISSINAETLYNCLENMNVSVEEF 62

Query: 74  FDV-SPTVCSDISSEENNVMDFISTPDGLQLNRY---FIQIDDVKVRQKIIEL 122
             V    + +  +  +N+V       + L+L  Y   + ++  +   QK   L
Sbjct: 63  QCVCRDFLQNQNAIFQNDVAKAFLEKNTLKLREYLAKYQRLTTIAPEQKFYRL 115


>gi|299536621|ref|ZP_07049933.1| transcriptional regulator [Lysinibacillus fusiformis ZC1]
 gi|298728105|gb|EFI68668.1| transcriptional regulator [Lysinibacillus fusiformis ZC1]
          Length = 97

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +IR+ R    +SQ KL E   +T Q +   E             +S +L +PI   F
Sbjct: 30 NKIRVYREKNSLSQGKLAELCNVTRQTINAIENNKYDPSLELAFTLSYILSAPIEELF 87


>gi|299137331|ref|ZP_07030513.1| putative phage repressor [Acidobacterium sp. MP5ACTX8]
 gi|298600736|gb|EFI56892.1| putative phage repressor [Acidobacterium sp. MP5ACTX8]
          Length = 240

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 30/75 (40%), Gaps = 3/75 (4%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV---NRVGASRLQHISEVLESPI 70
          N G+R +  R   G +Q  L   +GI+   + ++E G    +++ A  L   +  L + +
Sbjct: 3  NFGERFKRIRTAHGYTQRGLASEIGISGAAISQWESGETQPDKIRAEFLDAAAHKLHTTV 62

Query: 71 SFFFDVSPTVCSDIS 85
                     S  S
Sbjct: 63 RHLLKGDGVEGSPGS 77


>gi|312195167|ref|YP_004015228.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
 gi|311226503|gb|ADP79358.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
          Length = 404

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 47/119 (39%), Gaps = 10/119 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESPIS 71
           + +G+RI   R   G++Q  L   +G +   + K E+G   +     L  +++ L   + 
Sbjct: 1   MTIGERIAFYRRRRGLTQAVLAGLVGRSEDWLSKVERGEREIRRVDLLAEVAKALRVTLG 60

Query: 72  FFFDVSPTVCSDISSEE-NNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL---VRSI 126
                          ++   V D + +P   +L+R      +      II+L   VR++
Sbjct: 61  DLLGQPILSEEAFQGDDVPAVRDALMSP--RRLSRVLFSAPEDPP---IIDLQPVVRAV 114


>gi|258517094|ref|YP_003193316.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
 gi|257780799|gb|ACV64693.1| transcriptional regulator, XRE family [Desulfotomaculum
          acetoxidans DSM 771]
          Length = 181

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 28/62 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+G RIR  R    ++  +L   +GI+   + + E+ +       L+ I   L   +  
Sbjct: 1  MNIGIRIRELRKNSNINITQLAIKVGISRVYLSELERNIKTPPLETLERICSALNITLVD 60

Query: 73 FF 74
          FF
Sbjct: 61 FF 62


>gi|257067633|ref|YP_003153888.1| transcriptional regulator [Brachybacterium faecium DSM 4810]
 gi|256558451|gb|ACU84298.1| transcriptional regulator [Brachybacterium faecium DSM 4810]
          Length = 186

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/63 (17%), Positives = 29/63 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R+R  R+  G+S  +L     ++   + + E G  R+   +L +++  L++ +    + 
Sbjct: 14 QRLRALRLAQGLSLAELAARAHLSQSTLSRIENGQRRLALDQLVNLARALDTGLDELVEE 73

Query: 77 SPT 79
             
Sbjct: 74 QEE 76


>gi|229069332|ref|ZP_04202622.1| Transcriptional regulator, Xre [Bacillus cereus F65185]
 gi|229078964|ref|ZP_04211516.1| Transcriptional regulator, Xre [Bacillus cereus Rock4-2]
 gi|228704378|gb|EEL56812.1| Transcriptional regulator, Xre [Bacillus cereus Rock4-2]
 gi|228713819|gb|EEL65704.1| Transcriptional regulator, Xre [Bacillus cereus F65185]
          Length = 404

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 34/72 (47%), Gaps = 5/72 (6%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G++I+  R    ++Q +L   +G  +T   + + E G        LQ+I+E LE  +SF
Sbjct: 4  LGEKIKTLRKEKKLTQTEL---VGSELTKSMLSQIENGKATPSMKTLQYIAEKLECEMSF 60

Query: 73 FFDVSPTVCSDI 84
            +       ++
Sbjct: 61 LLEEDEGEIVEL 72


>gi|238855030|ref|ZP_04645359.1| SOS-response transcriptional repressor [Lactobacillus jensenii
          269-3]
 gi|282934070|ref|ZP_06339350.1| SOS-response transcriptional repressor [Lactobacillus jensenii
          208-1]
 gi|238832401|gb|EEQ24709.1| SOS-response transcriptional repressor [Lactobacillus jensenii
          269-3]
 gi|281301872|gb|EFA94136.1| SOS-response transcriptional repressor [Lactobacillus jensenii
          208-1]
          Length = 225

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 27/54 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          K ++  R    +SQ +LGE LG++ Q V  +E        S + +IS ++   +
Sbjct: 16 KALKEYRKKQHISQTELGEKLGVSKQTVSYWESKKKSPKMSAVINISNLIGVSV 69


>gi|224535505|ref|ZP_03676044.1| hypothetical protein BACCELL_00369 [Bacteroides cellulosilyticus
          DSM 14838]
 gi|224522872|gb|EEF91977.1| hypothetical protein BACCELL_00369 [Bacteroides cellulosilyticus
          DSM 14838]
          Length = 69

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 26/58 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +GKRI   R   G+SQ KL E   I    + + E G    G   L  I++ L   + F
Sbjct: 9  IGKRIAEIRKSKGLSQAKLAELTDIAPGNIARIETGRYSTGIDLLSKIADALGYKLDF 66


>gi|153877010|ref|ZP_02004037.1| hypothetical protein BGP_5257 [Beggiatoa sp. PS]
 gi|152066527|gb|EDN65964.1| hypothetical protein BGP_5257 [Beggiatoa sp. PS]
          Length = 74

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/55 (18%), Positives = 25/55 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          +G  ++  R   G+ + ++   LG  +Q + ++E G   +  S    ++E  +  
Sbjct: 7  IGNNLKKLRNNRGLGKSEMAGELGTNYQNIGRWEGGQVDMKLSTFIQLAEFFDVS 61


>gi|157412091|ref|YP_001481431.1| hypothetical protein APECO1_O1R78 [Escherichia coli APEC O1]
 gi|99867116|gb|ABF67761.1| conserved hypothetical protein [Escherichia coli APEC O1]
          Length = 98

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/50 (32%), Positives = 23/50 (46%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          R   G++Q+ L E LG+T Q   + E         RL  +  +L   ISF
Sbjct: 22 RKANGLTQKDLSERLGVTQQTYSRLEANPASASIERLFKVFSILGVKISF 71


>gi|14251161|ref|NP_116529.1| Cro repressor [Lactococcus phage BK5-T]
 gi|928838|gb|AAA98589.1| Cro repressor [Lactococcus phage BK5-T]
 gi|26005558|emb|CAC80178.1| cro repressor [Lactococcus phage BK5-T]
          Length = 79

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R     S +++ E +G  +Q +  YEK    +  S    ++E+ + PI F F
Sbjct: 10 KLKAARTNADFSAKEVAEIVGKNYQTILSYEKDSTEIPMSLAIKLAEIYDYPIDFIF 66


>gi|296330427|ref|ZP_06872907.1| putative transcriptional repressor [Bacillus subtilis subsp.
          spizizenii ATCC 6633]
 gi|305675973|ref|YP_003867645.1| putative transcriptional repressor [Bacillus subtilis subsp.
          spizizenii str. W23]
 gi|2702242|gb|AAB91591.1| Orf2 [Bacillus subtilis subsp. spizizenii ATCC 6633]
 gi|296152430|gb|EFG93299.1| putative transcriptional repressor [Bacillus subtilis subsp.
          spizizenii ATCC 6633]
 gi|305414217|gb|ADM39336.1| putative transcriptional repressor [Bacillus subtilis subsp.
          spizizenii str. W23]
          Length = 139

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/79 (16%), Positives = 32/79 (40%), Gaps = 5/79 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFFF 74
          G+++R  R    ++  +L    GI+   + K E G       + ++ ++ VL+ P    +
Sbjct: 5  GQQLRELRRARKLTVNQLAVYSGISSATISKIENGKRGTPKPATIKKLAAVLKVP----Y 60

Query: 75 DVSPTVCSDISSEENNVMD 93
          +        I +    + +
Sbjct: 61 ENLMAAAGHIRAFPEEIRE 79


>gi|330875430|gb|EGH09579.1| Helix-turn-helix domain protein [Pseudomonas syringae pv.
          morsprunorum str. M302280PT]
          Length = 372

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 1/57 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          ++RL R   G S  ++GE LG+T Q   K E         +L+ + E+L    SFFF
Sbjct: 18 KLRLARCASGRSLAEIGELLGVTRQYAHKLEINSI-PNPGQLKQLCEILNVKESFFF 73


>gi|329767341|ref|ZP_08258866.1| hypothetical protein HMPREF0428_00563 [Gemella haemolysans M341]
 gi|328836030|gb|EGF85721.1| hypothetical protein HMPREF0428_00563 [Gemella haemolysans M341]
          Length = 218

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 24/57 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           R++  R    +SQ  + E LG+T      +EKG        L+ ++       ++F
Sbjct: 5  NRLKSLRAKRKVSQTAVAEYLGVTRAAYNSWEKGKYIPNKKNLEELALYFNVETTYF 61


>gi|307728070|ref|YP_003911283.1| helix-turn-helix domain-containing protein [Burkholderia sp.
           CCGE1003]
 gi|307588595|gb|ADN61992.1| helix-turn-helix domain protein [Burkholderia sp. CCGE1003]
          Length = 105

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/114 (20%), Positives = 47/114 (41%), Gaps = 16/114 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRVGASRLQHISEVLESPISFF 73
           +G++IR  R    ++ E L     ++   + + E +   R  A +LQ +++ L    SF 
Sbjct: 5   LGEKIRQLRKGKKLTLEALAAQANLSKSYLWELENRESQRPSAEKLQSLADALGVSQSFL 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQID-DVKVR-QKIIELVRS 125
            +           +E                R + ++D D K R +KI++ ++S
Sbjct: 65  LEDDVEAPEQHHLDEAFY-------------RNYKKLDADAKERLRKILDALKS 105


>gi|282866393|ref|ZP_06275438.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
 gi|282558789|gb|EFB64346.1| transcriptional regulator, XRE family [Streptomyces sp. ACTE]
          Length = 406

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 5/65 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI---SEVLES 68
          ++ +G+R+   R   G+SQE L + +G T   + K E   NR+   RL  I   +E L+ 
Sbjct: 4  NLTIGERVAWYRRRRGLSQEVLADLVGRTTDWLSKAEN--NRIELDRLSVITSLAEALDV 61

Query: 69 PISFF 73
           +   
Sbjct: 62 SLGDL 66


>gi|271502495|ref|YP_003335521.1| XRE family transcriptional regulator [Dickeya dadantii Ech586]
 gi|270346050|gb|ACZ78815.1| transcriptional regulator, XRE family [Dickeya dadantii Ech586]
          Length = 156

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 1/68 (1%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+ +R+    SQE+L E   ++ + +Q+ E G  R     L  I+      ++       
Sbjct: 4  IKSQRLARAWSQEQLAELSALSVRTIQRIENGE-RASLETLSAIAAAFGVNVTTLMPEDS 62

Query: 79 TVCSDISS 86
             +   S
Sbjct: 63 EQAASGDS 70


>gi|229015775|ref|ZP_04172754.1| hypothetical protein bcere0030_3620 [Bacillus cereus AH1273]
 gi|228745532|gb|EEL95555.1| hypothetical protein bcere0030_3620 [Bacillus cereus AH1273]
          Length = 83

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 24/62 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +V  +I   R    +SQ  L +   ++ Q +   E        +    ++EVL + +  
Sbjct: 18 KDVKNQIYELRTENNISQGALADKCKVSRQTINAIENNKYDPSLALAFRLAEVLGTTVDK 77

Query: 73 FF 74
           F
Sbjct: 78 LF 79


>gi|221214621|ref|ZP_03587591.1| helix-turn-helix domain protein [Burkholderia multivorans CGD1]
 gi|221165511|gb|EED97987.1| helix-turn-helix domain protein [Burkholderia multivorans CGD1]
          Length = 163

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/102 (21%), Positives = 41/102 (40%), Gaps = 13/102 (12%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           V+  +G R++  RM +G+SQ +     G+  Q    YE G     A+ L  ++++    +
Sbjct: 2   VEKMIGDRLKEERMRIGLSQAEFAALGGLGKQAQLNYESGTRSPDANYLAALAKI-GVDV 60

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
            +         S +             PD   L   F+Q++D
Sbjct: 61  LYVITGERATQSKLP------------PDVADLVDSFLQLND 90


>gi|254385553|ref|ZP_05000879.1| DNA-binding protein [Streptomyces sp. Mg1]
 gi|194344424|gb|EDX25390.1| DNA-binding protein [Streptomyces sp. Mg1]
          Length = 126

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 37/85 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G+ +R +R    +S  +L E  G++   + + E+G+ +  A  LQ +++ L       
Sbjct: 8  NLGEYLREQRRQAQLSLRQLAEAAGVSNPYLSQIERGLRKPSADILQQLAKALRISAETL 67

Query: 74 FDVSPTVCSDISSEENNVMDFISTP 98
          +  +  +      E       ++ P
Sbjct: 68 YVQAGILDERDPDEVETRAVILADP 92


>gi|332877082|ref|ZP_08444833.1| DNA-binding helix-turn-helix protein [Capnocytophaga sp. oral
          taxon 329 str. F0087]
 gi|332684972|gb|EGJ57818.1| DNA-binding helix-turn-helix protein [Capnocytophaga sp. oral
          taxon 329 str. F0087]
          Length = 142

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 33/71 (46%), Gaps = 1/71 (1%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G  IR  R+   ++QE+LGE +G+   Q+ K E G   +    +  + + L    S  
Sbjct: 7  NIGSIIRNERIRKRLTQEELGERVGVGKAQISKIESGK-GLTIKTVTKVLDALGISASVV 65

Query: 74 FDVSPTVCSDI 84
              P +  ++
Sbjct: 66 LKNEPEIDKNV 76


>gi|312864389|ref|ZP_07724622.1| conserved hypothetical protein [Streptococcus downei F0415]
 gi|311100110|gb|EFQ58321.1| conserved hypothetical protein [Streptococcus downei F0415]
          Length = 300

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+ I+ +R    +SQ+ L G    +T +Q+Q+ EKG +     +L +I+ +LE PIS  
Sbjct: 7  LGQLIKKKREAKKLSQKNLCGNEEELTVRQLQRIEKGKSLPTLEKLDYIARMLELPISAL 66

Query: 74 FDVSPTVCSD 83
             +     D
Sbjct: 67 LGENDLQIPD 76


>gi|306831004|ref|ZP_07464166.1| MutR family transcriptional regulator [Streptococcus gallolyticus
          subsp. gallolyticus TX20005]
 gi|304427027|gb|EFM30137.1| MutR family transcriptional regulator [Streptococcus gallolyticus
          subsp. gallolyticus TX20005]
          Length = 288

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++GK  +  R+  G++   + E  GI+  Q+ ++E+G   +  +RL  + E +  PI+ 
Sbjct: 2  KHLGKLFKKYRVSRGLTLRDIAEA-GISTSQLSRFEQGKTDLTITRLALVLEEMNVPIAE 60

Query: 73 FF 74
          F 
Sbjct: 61 FM 62


>gi|288559941|ref|YP_003423427.1| transcriptional regulator [Methanobrevibacter ruminantium M1]
 gi|288542651|gb|ADC46535.1| transcriptional regulator [Methanobrevibacter ruminantium M1]
          Length = 326

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 29/69 (42%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G  ++  R    +S + L +   ++   + KYE G+ R        + E+L + I+   D
Sbjct: 130 GNVLKEYREEYNLSLKDLADLAHVSRATMYKYENGMVRANTETAMLLEEILNTKITLDID 189

Query: 76  VSPTVCSDI 84
           +      DI
Sbjct: 190 LFEPYQEDI 198


>gi|312199652|ref|YP_004019713.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
 gi|311230988|gb|ADP83843.1| helix-turn-helix domain protein [Frankia sp. EuI1c]
          Length = 501

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/111 (19%), Positives = 39/111 (35%), Gaps = 6/111 (5%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRV-GASRLQHISEVLESPISFFFDVS 77
           +R  R   G++Q++L + LG     V K E G   +   S L+HI+  LE       +  
Sbjct: 24  LRAYRQAHGLTQQQLADQLGFDQSYVSKVESGRRAIHDISTLRHIARHLELAP----EDV 79

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVS 128
                 ++           +       R +    D   R +I  L ++   
Sbjct: 80  GLAPGTLAERRREPGRDSLSEQATASQRGWRVTRDTLNRNRI-RLAKAAAG 129


>gi|258509913|ref|YP_003172664.1| transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|257149840|emb|CAR88813.1| Transcriptional regulator [Lactobacillus rhamnosus GG]
 gi|259651175|dbj|BAI43337.1| transcriptional regulator [Lactobacillus rhamnosus GG]
          Length = 393

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 30/65 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R + G ++++L + +G+T Q V +YE          L    ++    + F
Sbjct: 1  MFIGSKLQALRELNGYTRKELSDVIGVTQQAVWQYENDNVMPKIEILNTFQKIFNVEMLF 60

Query: 73 FFDVS 77
              S
Sbjct: 61 LISGS 65


>gi|237741715|ref|ZP_04572196.1| conserved hypothetical protein [Fusobacterium sp. 4_1_13]
 gi|256845043|ref|ZP_05550501.1| conserved hypothetical protein [Fusobacterium sp. 3_1_36A2]
 gi|294785671|ref|ZP_06750959.1| DNA-binding protein [Fusobacterium sp. 3_1_27]
 gi|229429363|gb|EEO39575.1| conserved hypothetical protein [Fusobacterium sp. 4_1_13]
 gi|256718602|gb|EEU32157.1| conserved hypothetical protein [Fusobacterium sp. 3_1_36A2]
 gi|294487385|gb|EFG34747.1| DNA-binding protein [Fusobacterium sp. 3_1_27]
          Length = 182

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 25/59 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          ++I V + I+  R    +S   L +   ++   + + E+G      S L  I+  ++  
Sbjct: 4  LNILVSENIKRIRQEKNLSLGDLAKLSDVSKSMLAQIERGEGNPTLSTLWKIANGMQVS 62


>gi|229002562|ref|ZP_04160621.1| transcriptional regulator/TPR domain protein [Bacillus mycoides
           Rock3-17]
 gi|229009341|ref|ZP_04166620.1| transcriptional regulator/TPR domain protein [Bacillus mycoides
           Rock1-4]
 gi|228751932|gb|EEM01680.1| transcriptional regulator/TPR domain protein [Bacillus mycoides
           Rock1-4]
 gi|228758542|gb|EEM07680.1| transcriptional regulator/TPR domain protein [Bacillus mycoides
           Rock3-17]
          Length = 422

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/99 (21%), Positives = 41/99 (41%), Gaps = 3/99 (3%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +NVG+RIR  R+    +Q +L   +  +   + + E G  +   S L+ ++E L+    F
Sbjct: 1   MNVGERIRQIRIHKEFTQGELVSGI-CSITYLSRIENGQIKPSTSFLEKVAEKLDVGYKF 59

Query: 73  FFDVSPTVCSDISSE--ENNVMDFISTPDGLQLNRYFIQ 109
             D           +  E    + I +   L L   +++
Sbjct: 60  LVDADHEDVEPKLLQICEKYKKEKIISEKDLSLLELYVR 98


>gi|256376078|ref|YP_003099738.1| XRE family transcriptional regulator [Actinosynnema mirum DSM
          43827]
 gi|255920381|gb|ACU35892.1| transcriptional regulator, XRE family [Actinosynnema mirum DSM
          43827]
          Length = 279

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 26/65 (40%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           P      +G R+   R    +S  +L   LG+      K E G  +V  + L   +E+L
Sbjct: 2  RPTVRSRRLGARLGDHRQQNNLSGTELAARLGVHQATWSKIETGKTKVSPALLARTAEIL 61

Query: 67 ESPIS 71
          + P  
Sbjct: 62 DIPAD 66


>gi|196040012|ref|ZP_03107315.1| DNA-binding protein [Bacillus cereus NVH0597-99]
 gi|196029271|gb|EDX67875.1| DNA-binding protein [Bacillus cereus NVH0597-99]
          Length = 186

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 33/75 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ I   R    M+  +  +  GI+   + + E+G      S L+ I++ L  P+   F
Sbjct: 6  LGQTILSYRKKNKMTIREFADYAGISTSLISQIERGHANPSLSVLELIAKALNVPLFTLF 65

Query: 75 DVSPTVCSDISSEEN 89
                 S IS +++
Sbjct: 66 INEIDTDSLISKKKD 80


>gi|167748986|ref|ZP_02421113.1| hypothetical protein ANACAC_03767 [Anaerostipes caccae DSM 14662]
 gi|167651608|gb|EDR95737.1| hypothetical protein ANACAC_03767 [Anaerostipes caccae DSM 14662]
          Length = 371

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 24/51 (47%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           +R   G++Q++L   +G++   V K+E G +    + L  ++      + 
Sbjct: 14 KKRKEKGITQDQLAAYIGVSKASVSKWETGQSYPDITFLPQLAANFNMSVD 64


>gi|160945426|ref|ZP_02092652.1| hypothetical protein FAEPRAM212_02948 [Faecalibacterium
          prausnitzii M21/2]
 gi|158443157|gb|EDP20162.1| hypothetical protein FAEPRAM212_02948 [Faecalibacterium
          prausnitzii M21/2]
          Length = 66

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/59 (16%), Positives = 25/59 (42%), Gaps = 1/59 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          + +R++  R+  G +Q  L   +G+T + V  +E          L  +++  +    + 
Sbjct: 4  ISERLQHLRLTHGYTQTDLARTMGVTRRAVYAWEHDKC-PEILHLIQLAQFYQVSTDYL 61


>gi|311747423|ref|ZP_07721208.1| putative toxin-antitoxin system, antitoxin component, Xre family
          [Algoriphagus sp. PR1]
 gi|126574781|gb|EAZ79152.1| putative toxin-antitoxin system, antitoxin component, Xre family
          [Algoriphagus sp. PR1]
          Length = 194

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 26/75 (34%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P  + I +G +I+  R   G    +  +  G++   + K E G        L  I   L 
Sbjct: 4  PEHLTIQIGNKIKGIRKEKGWKLGEFADKSGMSIAMLSKIENGRVIPTIPSLMQIINTLN 63

Query: 68 SPISFFFDVSPTVCS 82
            ++ FF        
Sbjct: 64 LNLADFFSDLKVDGD 78


>gi|83644480|ref|YP_432915.1| transcriptional regulator [Hahella chejuensis KCTC 2396]
 gi|83632523|gb|ABC28490.1| predicted transcriptional regulator [Hahella chejuensis KCTC
          2396]
          Length = 192

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 30/67 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +GKRI+  R    ++ E+L +   ++   + + E+G      + L +++  +    S   
Sbjct: 10 LGKRIQQLRKSEKLTLEQLAQQSNVSRSMLSQIERGQANPTFATLWNLTRAMGIEWSELV 69

Query: 75 DVSPTVC 81
          D S  V 
Sbjct: 70 DESEGVS 76


>gi|71065042|ref|YP_263769.1| Cro/CI family transcriptional regulator [Psychrobacter arcticus
          273-4]
 gi|71038027|gb|AAZ18335.1| possible transcriptional regulator, Cro/CI family [Psychrobacter
          arcticus 273-4]
          Length = 224

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 32/70 (45%), Gaps = 1/70 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G R++  R    + Q +L E +G T Q +   E   ++  +S    IS+ L+  I +
Sbjct: 1  MALGHRVKEAREFRSLKQGELAELIGWTQQALSTLENRDSK-KSSYSAQISKALDIDIDW 59

Query: 73 FFDVSPTVCS 82
              +  + +
Sbjct: 60 LISGAGEMIN 69


>gi|322507551|gb|ADX03005.1| Putative phage repressor [Acinetobacter baumannii 1656-2]
          Length = 224

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G RI+  R  LG++Q    +  GI+ + +  +EK ++   A +L  +S+     +++
Sbjct: 9  IGLRIKEERTRLGLTQPDFAQIAGISKRTLIDWEKDLSSPNAVQLSALSQA-GVDVNY 65


>gi|319937945|ref|ZP_08012345.1| hypothetical protein HMPREF9488_03181 [Coprobacillus sp. 29_1]
 gi|319806851|gb|EFW03490.1| hypothetical protein HMPREF9488_03181 [Coprobacillus sp. 29_1]
          Length = 107

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 30/61 (49%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P+D ++ +R++  R    ++Q+++   L I    V  +E G   +  S L  +S++    
Sbjct: 2  PIDTDISRRLKEYRNFKHLTQKEVANILHIPHSAVSDFENGKREITVSELSLLSQLYGRN 61

Query: 70 I 70
          I
Sbjct: 62 I 62


>gi|311896864|dbj|BAJ29272.1| putative transcriptional regulator [Kitasatospora setae KM-6054]
          Length = 128

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/84 (19%), Positives = 34/84 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ IR +R     S  +L E  G++   + + E+G+ +  A  LQ I++ L       +
Sbjct: 9  LGEYIREQRRSAQYSLRQLAEVAGVSNPYLSQIERGLRKPSAEILQQIAKALRISAETLY 68

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
            +  +              ++ P
Sbjct: 69 VQAGILEERGEEGPGLRAAILADP 92


>gi|260589105|ref|ZP_05855018.1| putative DNA-binding protein [Blautia hansenii DSM 20583]
 gi|260540525|gb|EEX21094.1| putative DNA-binding protein [Blautia hansenii DSM 20583]
          Length = 45

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/40 (42%), Positives = 28/40 (70%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN 52
          I +GK I  +R  LGM+Q++L E +G++ + V K+E GV+
Sbjct: 4  IKIGKYIAGKRKSLGMTQKQLAEKIGMSDKSVSKWESGVS 43


>gi|168177975|ref|ZP_02612639.1| DNA-binding protein [Clostridium botulinum NCTC 2916]
 gi|182671147|gb|EDT83121.1| DNA-binding protein [Clostridium botulinum NCTC 2916]
          Length = 130

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++   R   G+SQ++LG  L ++ Q + K+E G       +L  + +  E  + 
Sbjct: 5  NKLYSLRKQKGLSQDELGSKLNVSRQTISKWELGETTPELEKLIALGDFFEISLD 59


>gi|15807441|ref|NP_296174.1| PbsX family transcriptional regulator [Deinococcus radiodurans
          R1]
 gi|6460274|gb|AAF11998.1|AE002075_2 transcriptional regulator, PbsX family [Deinococcus radiodurans
          R1]
          Length = 64

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 22/61 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI++ R    ++Q  L + L ++ Q +   E G           ++ +    I   F  
Sbjct: 3  NRIKVLRAEHNLTQADLADKLDVSRQTINALETGKYDPSLPLAFKLARLFGLRIEDIFQD 62

Query: 77 S 77
           
Sbjct: 63 E 63


>gi|85707104|ref|ZP_01038192.1| DNA-binding protein, putative [Roseovarius sp. 217]
 gi|85668390|gb|EAQ23263.1| DNA-binding protein, putative [Roseovarius sp. 217]
          Length = 207

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/73 (24%), Positives = 32/73 (43%), Gaps = 2/73 (2%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
           G +  P P+D  +G R+R  R   G + E+  +  G+    + K E G        L+ 
Sbjct: 16 TGAETGPEPLD--LGVRVRGLRKARGWTLEQAAKQAGLARSTLSKIENGQMSPTYDALKK 73

Query: 62 ISEVLESPISFFF 74
          +++ LE  +   F
Sbjct: 74 LAQGLEISVPQLF 86


>gi|85707126|ref|ZP_01038214.1| DNA-binding protein, putative [Roseovarius sp. 217]
 gi|85668412|gb|EAQ23285.1| DNA-binding protein, putative [Roseovarius sp. 217]
          Length = 133

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 32/65 (49%)

Query: 9  NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +P     G R+   R   GMSQ  L + LG+  + ++ +E  ++   A++L  ++ +L  
Sbjct: 11 DPDSTTFGDRVTGARERSGMSQTDLAKRLGVKLKTLKAWENDLSEPRANKLSMMAGMLNV 70

Query: 69 PISFF 73
           + + 
Sbjct: 71 SLLWL 75


>gi|332286204|ref|YP_004418115.1| transcriptional regulator, Cro/CI family protein [Pusillimonas
          sp. T7-7]
 gi|330430157|gb|AEC21491.1| transcriptional regulator, Cro/CI family protein [Pusillimonas
          sp. T7-7]
          Length = 194

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 1/65 (1%)

Query: 24 MILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCSD 83
          M  G++ + L E  G T   + K E G +    + L  I+  L   +++FF V P     
Sbjct: 1  MARGLTLDALAEKSGFTKGYLSKLENGKSTPPIASLARIARALGHDLNYFF-VDPGEPQQ 59

Query: 84 ISSEE 88
           S E 
Sbjct: 60 GSDES 64


>gi|323530241|ref|YP_004232393.1| helix-turn-helix domain-containing protein [Burkholderia sp.
          CCGE1001]
 gi|323387243|gb|ADX59333.1| helix-turn-helix domain protein [Burkholderia sp. CCGE1001]
          Length = 111

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 4/52 (7%)

Query: 27 GMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GM Q+KLG  +G+       ++ +YE GV+         +++VL  P ++F+
Sbjct: 22 GMPQDKLGVQIGLDEHTASARISRYETGVHEPPFEIAVKLAKVLRVPAAYFY 73


>gi|310642245|ref|YP_003947003.1| merr family transcriptional regulator [Paenibacillus polymyxa
          SC2]
 gi|309247195|gb|ADO56762.1| MerR family transcriptional regulator [Paenibacillus polymyxa
          SC2]
          Length = 179

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G  IR  R    +S +++ E  G++   + + E        + L  I+  L  P++F 
Sbjct: 3  IGCNIRAARKRKNLSIQQICERTGLSQGFMSQVENNKTSPSIATLDSIANALNVPLAFL 61


>gi|307285484|ref|ZP_07565623.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
 gi|306502708|gb|EFM71973.1| helix-turn-helix protein [Enterococcus faecalis TX0860]
          Length = 231

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 30/70 (42%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTV 80
          +RR  LG++Q ++ E L +T Q +  +E   +      L  +S + E  +        T+
Sbjct: 1  MRRNELGLTQSEVAEKLYVTRQTISNWENNKSYPNIDCLIELSILYEMTLDRLLKEDNTM 60

Query: 81 CSDISSEENN 90
             +S +   
Sbjct: 61 VEKLSKDIRE 70


>gi|301794929|emb|CBW37392.1| putative DNA-binding protein [Streptococcus pneumoniae INV104]
          Length = 299

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 33/68 (48%), Gaps = 1/68 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKL-GECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + +G++I+  R+  G+S+    G+   +T +Q+ + E G ++    +L +I+  L  P+ 
Sbjct: 1  MLIGQKIKEIRIEKGVSRPYFCGDEQELTVRQLSRIESGASQPSLPKLAYIARRLGVPVY 60

Query: 72 FFFDVSPT 79
                  
Sbjct: 61 SLMPDFSA 68


>gi|239939715|ref|ZP_04691652.1| putative transcriptional regulator [Streptomyces roseosporus NRRL
           15998]
 gi|239986200|ref|ZP_04706864.1| putative transcriptional regulator [Streptomyces roseosporus NRRL
           11379]
 gi|291443141|ref|ZP_06582531.1| conserved hypothetical protein [Streptomyces roseosporus NRRL
           15998]
 gi|291346088|gb|EFE72992.1| conserved hypothetical protein [Streptomyces roseosporus NRRL
           15998]
          Length = 190

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/84 (11%), Positives = 28/84 (33%), Gaps = 2/84 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R   G + + L    G++   + + E+            +++ L   I+   D 
Sbjct: 13  RNLKRWRGERGFTLDALAARSGVSRGMIIQIEQARTNPSVGTTVKLADALGVAITTLLDH 72

Query: 77  SPTVCSDISSEENNVMDFISTPDG 100
                  +  E   V   + + + 
Sbjct: 73  EQGPQVRLVPESRAVR--MWSTEA 94


>gi|284990495|ref|YP_003409049.1| XRE family transcriptional regulator [Geodermatophilus obscurus
          DSM 43160]
 gi|284063740|gb|ADB74678.1| transcriptional regulator, XRE family [Geodermatophilus obscurus
          DSM 43160]
          Length = 64

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 26/60 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  RM  G+SQ  L   +G++ Q +   E G           ++   ++ +   FDV+ 
Sbjct: 5  VRALRMQRGLSQGDLAVVMGVSRQTINSIETGRYLPSLPLAIGLARFFKTTVEEVFDVAE 64


>gi|281421595|ref|ZP_06252594.1| toxin-antitoxin system, antitoxin component, Xre family [Prevotella
           copri DSM 18205]
 gi|281404350|gb|EFB35030.1| toxin-antitoxin system, antitoxin component, Xre family [Prevotella
           copri DSM 18205]
          Length = 128

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 31/62 (50%), Gaps = 4/62 (6%)

Query: 15  VGKRI----RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +G +I    +L+R  LG++Q+ L +   I    ++K E G      S ++ I ++L   +
Sbjct: 61  LGMKIQEVMKLQRKALGITQQDLADMSEIAISTIKKIESGKGNPSLSTVEKIMDILGMEV 120

Query: 71  SF 72
            +
Sbjct: 121 KY 122


>gi|169344358|ref|ZP_02865331.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
 gi|169297483|gb|EDS79590.1| DNA-binding protein [Clostridium perfringens C str. JGS1495]
          Length = 105

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 8/63 (12%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 13 INVGKRIRLRRMIL--GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          + +G  ++  R      ++Q+ L +  G++   +   E             ++E L+  +
Sbjct: 1  MKIGTNLQRIRKAKDPKITQQDLAKATGLSRSYLSDVEHNRYNPSLDTTIALAEALDVTV 60

Query: 71 SFF 73
          +  
Sbjct: 61 NDL 63


>gi|89055867|ref|YP_511318.1| XRE family transcriptional regulator [Jannaschia sp. CCS1]
 gi|88865416|gb|ABD56293.1| transcriptional regulator, XRE family [Jannaschia sp. CCS1]
          Length = 469

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/131 (13%), Positives = 55/131 (41%), Gaps = 11/131 (8%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           + VG ++R  R  +G++Q+     LGI+   + + E     +  + L  +++     ++ 
Sbjct: 6   LYVGAKLRSIRTGVGLTQKDFAAKLGISLPYLNQMENNNRPLSTAVLMGLAQDFGVDVT- 64

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI-----DDVKVRQKIIELVRSIV 127
                    SD     +++ + ++ P   ++      +     +   + +  +EL R+  
Sbjct: 65  -----ELSASDADRIVSDMREALADPLFAEVAPALADLRLVASNAPTLARAFLELHRAYR 119

Query: 128 SSEKKYRTIEE 138
            + ++  +++E
Sbjct: 120 QTHERLASLDE 130


>gi|83648341|ref|YP_436776.1| transcriptional regulator [Hahella chejuensis KCTC 2396]
 gi|83636384|gb|ABC32351.1| predicted transcriptional regulator [Hahella chejuensis KCTC 2396]
          Length = 111

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/109 (17%), Positives = 41/109 (37%), Gaps = 12/109 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEK-GVNRVGASRLQHISEVLESPISFF 73
           +G+++R  R    +S E+L    G +   +   E    +     ++  I+  L+    F 
Sbjct: 5   LGRKLRKLREQQKLSLEQLAMLSGSSKSYLWNLENFESSNPSVEKIDKIATALKVTSEFL 64

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
            + S T       +E     + S P+            D K  ++I+++
Sbjct: 65  LNGSATTPDQGVIDEAFFRKYKSLPEA-----------DKKRLRQIVDV 102


>gi|78062472|ref|YP_372380.1| XRE family transcriptional regulator [Burkholderia sp. 383]
 gi|77970357|gb|ABB11736.1| transcriptional regulator, XRE family [Burkholderia sp. 383]
          Length = 142

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 22/49 (44%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          R   G++Q +L   LG+T Q   + E   + V   RL  +   L   ++
Sbjct: 19 RKAAGLTQAQLAARLGVTQQSYAQLEANPSAVSIERLFKVLNTLGVHMT 67


>gi|21240962|ref|NP_640544.1| transcriptional regulator [Xanthomonas axonopodis pv. citri str.
          306]
 gi|21106246|gb|AAM35080.1| transcriptional regulator [Xanthomonas axonopodis pv. citri str.
          306]
          Length = 193

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 24/53 (45%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +G  IR RR  LG  Q +L   +G++ Q +   EKG  R     +    + L 
Sbjct: 10 IGNIIRARRKRLGWDQARLAHEIGVSRQWIVDIEKGKPRAELQLILRALQALG 62


>gi|150018305|ref|YP_001310559.1| XRE family transcriptional regulator [Clostridium beijerinckii
          NCIMB 8052]
 gi|149904770|gb|ABR35603.1| transcriptional regulator, XRE family [Clostridium beijerinckii
          NCIMB 8052]
          Length = 68

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 26/57 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++  R  + +SQE+L + +G+T Q +   E G           I + L   ++  F
Sbjct: 5  KMKSARASMDLSQEQLADIVGVTRQTIGMIEAGKFNPSLQLCIAICKALGKTLNDIF 61


>gi|325121964|gb|ADY81487.1| hypothetical protein BDGL_000901 [Acinetobacter calcoaceticus
           PHEA-2]
          Length = 197

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/91 (16%), Positives = 34/91 (37%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            ++I + +++R  R+  G + + L     ++   +   E+G     A  L+ ++  L  P
Sbjct: 3   DINIRIAQQVREIRLARGYTLDILASRCQVSRSAISLIERGEASPTAVVLEKLANGLGVP 62

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           ++  FD      S               P+ 
Sbjct: 63  LTQLFDSPQNTQSPQPMVRRTQQAEWKDPET 93


>gi|312867200|ref|ZP_07727410.1| peptidase S24-like protein [Streptococcus parasanguinis F0405]
 gi|311097329|gb|EFQ55563.1| peptidase S24-like protein [Streptococcus parasanguinis F0405]
          Length = 225

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 30/63 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K+++ RR+  G++Q  + E L I+ +    +E G+       L+ +++ L     +F + 
Sbjct: 5  KKLKERRLEKGLTQADVYEDLKISRKTYSSWENGLAEPHEKNLRRLAKRLSVKEDYFINK 64

Query: 77 SPT 79
             
Sbjct: 65 DSA 67


>gi|296876982|ref|ZP_06901026.1| XRE family transcriptional regulator [Streptococcus parasanguinis
          ATCC 15912]
 gi|296432017|gb|EFH17820.1| XRE family transcriptional regulator [Streptococcus parasanguinis
          ATCC 15912]
          Length = 225

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 30/63 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          K+++ RR+  G++Q  + E L I+ +    +E G+       L+ +++ L     +F + 
Sbjct: 5  KKLKERRLEKGLTQADVYEDLKISRKTYSSWENGLAEPHEKNLRRLAKRLSVKEDYFINK 64

Query: 77 SPT 79
             
Sbjct: 65 DSA 67


>gi|294814036|ref|ZP_06772679.1| DNA-binding protein [Streptomyces clavuligerus ATCC 27064]
 gi|294326635|gb|EFG08278.1| DNA-binding protein [Streptomyces clavuligerus ATCC 27064]
          Length = 217

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 31/61 (50%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G+ +R +R    +S  +L +  G++   + + E+G+ +  A  LQ +++ L       
Sbjct: 29 NLGEYLREQRRTAQLSLRQLADAAGVSNPYLSQIERGLRKPSAEVLQQVAKALRISAETL 88

Query: 74 F 74
          +
Sbjct: 89 Y 89


>gi|291550119|emb|CBL26381.1| Helix-turn-helix [Ruminococcus torques L2-14]
          Length = 128

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/86 (17%), Positives = 35/86 (40%), Gaps = 3/86 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+  R +L ++Q++  E + +    V  YE G +    S +  I +       +    
Sbjct: 3  ERIKKLRKVLKLTQQEFAESIKVKRNTVATYEMGRSIPSDSAIALICKTFNVNEEWLRSG 62

Query: 77 SPTVCSDISSEENN---VMDFISTPD 99
          +  +  ++  E+     V + +   D
Sbjct: 63 AGDMFLELPEEDEEAAYVSELLEDSD 88


>gi|262372962|ref|ZP_06066241.1| LexA repressor [Acinetobacter junii SH205]
 gi|262312987|gb|EEY94072.1| LexA repressor [Acinetobacter junii SH205]
          Length = 224

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/54 (18%), Positives = 22/54 (40%), Gaps = 1/54 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G  ++  R    M+Q++L +  G+    +   E G N      +  ++  L  
Sbjct: 8  LGDNLKSIRKAKKMTQKELAQKSGVKQSVISDLETG-NAKSTGSILELANALGV 60


>gi|229100661|ref|ZP_04231509.1| hypothetical protein bcere0020_58310 [Bacillus cereus Rock3-29]
 gi|229107528|ref|ZP_04237280.1| hypothetical protein bcere0019_58820 [Bacillus cereus Rock3-28]
 gi|229119263|ref|ZP_04248568.1| hypothetical protein bcere0017_54990 [Bacillus cereus Rock1-3]
 gi|228664188|gb|EEL19724.1| hypothetical protein bcere0017_54990 [Bacillus cereus Rock1-3]
 gi|228675920|gb|EEL31013.1| hypothetical protein bcere0019_58820 [Bacillus cereus Rock3-28]
 gi|228682754|gb|EEL36784.1| hypothetical protein bcere0020_58310 [Bacillus cereus Rock3-29]
          Length = 64

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 22/58 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I   R    +SQ  L +   ++ Q +   E        +    ++EVL + +   F
Sbjct: 3  NQIYELRTENNISQGALADKCSVSRQTINAIENNKYDPSLALAFRLAEVLGTTVDKLF 60


>gi|308233627|ref|ZP_07664364.1| toxin-antitoxin system, antitoxin component, Xre family protein
          [Atopobium vaginae DSM 15829]
 gi|328944525|ref|ZP_08241986.1| XRE family transcriptional regulator [Atopobium vaginae DSM
          15829]
 gi|327490926|gb|EGF22704.1| XRE family transcriptional regulator [Atopobium vaginae DSM
          15829]
          Length = 72

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 31/68 (45%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++ +  RI + R   G+SQ +L + +G+  + +  YE  +          IS VL   I
Sbjct: 1  MEVVITNRIAVFRKEKGLSQHRLAKAVGLKRRSIMAYENNIISPTLETAYKISLVLGKDI 60

Query: 71 SFFFDVSP 78
             F +S 
Sbjct: 61 KEVFILSD 68


>gi|199598262|ref|ZP_03211683.1| hypothetical protein LRH_10310 [Lactobacillus rhamnosus HN001]
 gi|199590865|gb|EDY98950.1| hypothetical protein LRH_10310 [Lactobacillus rhamnosus HN001]
          Length = 393

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 30/65 (46%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G +++  R + G ++++L + +G+T Q V +YE          L    ++    + F
Sbjct: 1  MFIGSKLQALRELNGYTRKELSDVIGVTQQAVWQYENDNVMPKIEILNTFQKIFNVEMLF 60

Query: 73 FFDVS 77
              S
Sbjct: 61 LISGS 65


>gi|170782721|ref|YP_001711055.1| putative DNA-binding membrane protein [Clavibacter michiganensis
          subsp. sepedonicus]
 gi|169157291|emb|CAQ02476.1| putative DNA-binding membrane protein [Clavibacter michiganensis
          subsp. sepedonicus]
          Length = 167

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R+   R   G +QE+L +  GIT + VQ+ E G N      L  +++ LE  +   F
Sbjct: 5  RVTDLRTQRGWTQERLAKTSGITVRTVQRLEAG-NDASLDTLTRVAKALEVQVRDLF 60


>gi|167924589|ref|ZP_02511680.1| transcriptional regulator, XRE family protein [Burkholderia
          pseudomallei BCC215]
          Length = 74

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 29/69 (42%), Gaps = 2/69 (2%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF-- 73
          GKR+   R   G SQEKL    G+    V   E+G   +    +  ++E L    S    
Sbjct: 3  GKRLVELRKAKGWSQEKLALESGLARSYVGGIERGQRNIALYNICVLAETLNVAPSDMLA 62

Query: 74 FDVSPTVCS 82
          FDV P   +
Sbjct: 63 FDVEPVKAT 71


>gi|167770329|ref|ZP_02442382.1| hypothetical protein ANACOL_01672 [Anaerotruncus colihominis DSM
          17241]
 gi|167667651|gb|EDS11781.1| hypothetical protein ANACOL_01672 [Anaerotruncus colihominis DSM
          17241]
          Length = 70

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 27/66 (40%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RIR  R    +SQ+ + E L ++      YE G   +    L  ++    + I +   +
Sbjct: 3  ERIRNMREDKDLSQKDMAEILHVSQTTYSDYELGKINIPTQTLIKLASFHHTSIDYLLGL 62

Query: 77 SPTVCS 82
          +    S
Sbjct: 63 TDNPAS 68


>gi|270308504|ref|YP_003330562.1| DNA-binding protein [Dehalococcoides sp. VS]
 gi|270154396|gb|ACZ62234.1| DNA-binding protein [Dehalococcoides sp. VS]
          Length = 69

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 29/58 (50%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           ++++ R I  ++QE+L + LGIT Q V   E+G           I+ + ++ I   F
Sbjct: 3  NKLKVLRAINNLTQEELADKLGITRQTVISIERGKYSPSLELAFKIAALFKTTIEEVF 60


>gi|153940683|ref|YP_001389936.1| DNA binding protein [Clostridium botulinum F str. Langeland]
 gi|152936579|gb|ABS42077.1| DNA binding protein [Clostridium botulinum F str. Langeland]
 gi|295318020|gb|ADF98397.1| DNA binding protein [Clostridium botulinum F str. 230613]
          Length = 70

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/67 (16%), Positives = 29/67 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++  R    M+Q++L + + ++ + +   EKG           I+ V  + I   + +
Sbjct: 3  NRVKELRAASNMTQQQLADLVSVSSRTIISLEKGQYNPSIMLAYKIARVFNTTIEELYCL 62

Query: 77 SPTVCSD 83
             + ++
Sbjct: 63 KENLENE 69


>gi|149004484|ref|ZP_01829204.1| Phage transcriptional regulator, Cro/CI family protein
          [Streptococcus pneumoniae SP14-BS69]
 gi|147757583|gb|EDK64604.1| Phage transcriptional regulator, Cro/CI family protein
          [Streptococcus pneumoniae SP14-BS69]
          Length = 75

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 27/69 (39%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R    +S +++ + L I  Q + KYE   +++    L  ++ +      F F    
Sbjct: 6  LRAIRTNYNLSAKEVADKLNIHQQTLLKYEHDSSKIPMDLLDKLARLYNVEKDFIFLGKK 65

Query: 79 TVCSDISSE 87
             +    E
Sbjct: 66 YELNHNLGE 74


>gi|22538252|ref|NP_689103.1| Cro/CI family transcriptional regulator [Streptococcus agalactiae
          2603V/R]
 gi|22535165|gb|AAN00976.1|AE014287_16 transcriptional regulator, Cro/CI family [Streptococcus
          agalactiae 2603V/R]
          Length = 306

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 30/60 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VGKR+R  +  L +S    G  LG+    +  Y +G N      L+ +S++   P+ +F+
Sbjct: 12 VGKRLRQVKDELNLSFTDFGNRLGLKKSTINAYVRGDNLAPLEVLEKVSKIYGKPVGWFY 71


>gi|78186565|ref|YP_374608.1| XRE family transcriptional regulator [Chlorobium luteolum DSM
          273]
 gi|78166467|gb|ABB23565.1| transcriptional regulator, XRE family [Chlorobium luteolum DSM
          273]
          Length = 105

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 30/62 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ IR  R+  G S+EKL E  G++   +   E+G+  +     Q ++  L + I    
Sbjct: 13 LGRNIRAARVKAGYSREKLSELSGLSTNYIGIIERGMKNITIINCQRLACALSTSIDKLL 72

Query: 75 DV 76
          + 
Sbjct: 73 EG 74


>gi|120536941|ref|YP_956999.1| XRE family transcriptional regulator [Marinobacter aquaeolei VT8]
 gi|120326775|gb|ABM21084.1| transcriptional regulator, XRE family [Marinobacter aquaeolei
          VT8]
          Length = 231

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 2/71 (2%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R   G+S EKL E  G++ + + K E+G   V   R + ++  L   + + F
Sbjct: 20 IGLAIRYARKAAGLSGEKLAEATGLSLRTIVKIEQGDGAVAFGRYKSVACELG--LEWMF 77

Query: 75 DVSPTVCSDIS 85
          DV     S+ +
Sbjct: 78 DVFGRDTSNEA 88


>gi|296241899|ref|YP_003649386.1| XRE family transcriptional regulator [Thermosphaera aggregans DSM
           11486]
 gi|296094483|gb|ADG90434.1| transcriptional regulator, XRE family [Thermosphaera aggregans DSM
           11486]
          Length = 297

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 2/62 (3%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           ++   RR  L +S+ +L E LG+T + +  YEKG   V  +    ++E +   I  F ++
Sbjct: 135 QKFCERRTELNLSRGELAEALGLTRKALYLYEKGETMVSLNTALQLAEFMGEDI--FKEI 192

Query: 77  SP 78
            P
Sbjct: 193 DP 194


>gi|295136229|ref|YP_003586905.1| DNA-binding protein [Zunongwangia profunda SM-A87]
 gi|294984244|gb|ADF54709.1| putative DNA-binding protein [Zunongwangia profunda SM-A87]
          Length = 80

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 30/59 (50%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++G+ ++ RR  + ++Q++L +   I    + K E G        LQ I++VL   IS
Sbjct: 16 KDIGQALQERRHHMHITQKQLADMADIGINTLYKIETGQANPTIESLQKIADVLGMEIS 74


>gi|295134898|ref|YP_003585574.1| DNA binding helix-turn helix protein [Zunongwangia profunda
          SM-A87]
 gi|294982913|gb|ADF53378.1| DNA binding helix-turn helix protein [Zunongwangia profunda
          SM-A87]
          Length = 66

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 27/61 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I++ R    M+QE L + LG++ Q V   EK            +S++    ++  F +  
Sbjct: 5  IKVERAKKNMTQEDLAKLLGVSRQTVNSMEKNRYAPSTILALKLSKIFACSVNEIFQLDD 64

Query: 79 T 79
          T
Sbjct: 65 T 65


>gi|228939079|ref|ZP_04101676.1| Transcriptional regulator [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|228971957|ref|ZP_04132577.1| Transcriptional regulator [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228978568|ref|ZP_04138943.1| Transcriptional regulator [Bacillus thuringiensis Bt407]
 gi|228781167|gb|EEM29370.1| Transcriptional regulator [Bacillus thuringiensis Bt407]
 gi|228787774|gb|EEM35733.1| Transcriptional regulator [Bacillus thuringiensis serovar
          thuringiensis str. T01001]
 gi|228820607|gb|EEM66635.1| Transcriptional regulator [Bacillus thuringiensis serovar
          berliner ATCC 10792]
 gi|326939579|gb|AEA15475.1| transcriptional regulator [Bacillus thuringiensis serovar
          chinensis CT-43]
          Length = 133

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 22/53 (41%)

Query: 22 RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R    MSQ  L + +G+T   +   E G    G      I+ VL  P+  F+
Sbjct: 40 LRGKKRMSQVALADKVGVTPGHIADLETGRRDPGGKLAFQIAIVLGFPMEHFY 92


>gi|227828123|ref|YP_002829903.1| XRE family transcriptional regulator [Sulfolobus islandicus
           M.14.25]
 gi|227830830|ref|YP_002832610.1| helix-turn-helix domain protein [Sulfolobus islandicus L.S.2.15]
 gi|229579726|ref|YP_002838125.1| transcriptional regulator, XRE family [Sulfolobus islandicus
           Y.G.57.14]
 gi|229585362|ref|YP_002843864.1| XRE family transcriptional regulator [Sulfolobus islandicus
           M.16.27]
 gi|238620323|ref|YP_002915149.1| transcriptional regulator, XRE family [Sulfolobus islandicus
           M.16.4]
 gi|284998345|ref|YP_003420113.1| helix-turn-helix domain protein [Sulfolobus islandicus L.D.8.5]
 gi|227457278|gb|ACP35965.1| helix-turn-helix domain protein [Sulfolobus islandicus L.S.2.15]
 gi|227459919|gb|ACP38605.1| transcriptional regulator, XRE family [Sulfolobus islandicus
           M.14.25]
 gi|228010441|gb|ACP46203.1| transcriptional regulator, XRE family [Sulfolobus islandicus
           Y.G.57.14]
 gi|228020412|gb|ACP55819.1| transcriptional regulator, XRE family [Sulfolobus islandicus
           M.16.27]
 gi|238381393|gb|ACR42481.1| transcriptional regulator, XRE family [Sulfolobus islandicus
           M.16.4]
 gi|284446241|gb|ADB87743.1| helix-turn-helix domain protein [Sulfolobus islandicus L.D.8.5]
 gi|323475185|gb|ADX85791.1| transcriptional regulator, XRE family [Sulfolobus islandicus
           REY15A]
 gi|323477917|gb|ADX83155.1| transcriptional regulator, XRE family [Sulfolobus islandicus
           HVE10/4]
          Length = 164

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/82 (19%), Positives = 40/82 (48%), Gaps = 1/82 (1%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I+  R  LG+SQ++L + L ++   V+++E G  +   S+ + + ++L   +    + + 
Sbjct: 82  IKNAREQLGISQQQLAQKLKVSENIVKRFESGKLKPTISQARQLEKILGIKLVTPLE-NE 140

Query: 79  TVCSDISSEENNVMDFISTPDG 100
               +    E  + D ++  +G
Sbjct: 141 ESEKEFDETELTLGDVVNIKEG 162


>gi|256380247|ref|YP_003103907.1| helix-turn-helix domain protein [Actinosynnema mirum DSM 43827]
 gi|255924550|gb|ACU40061.1| helix-turn-helix domain protein [Actinosynnema mirum DSM 43827]
          Length = 351

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/109 (21%), Positives = 45/109 (41%), Gaps = 9/109 (8%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R+   R + G+++  L + +G+T   V +YE+G +R     L  ++  L+ P  F     
Sbjct: 8   RLTQARHLAGLTRRGLADLVGVTPTAVGQYEQGAHRPRPELLAALAAALDVPPPFLTADR 67

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
           P    D +S              L+  R + +   V   ++  EL  ++
Sbjct: 68  PHPRLDPASAHFR---------SLRATRSYQRAKAVAHAEQTWELASAL 107


>gi|91773669|ref|YP_566361.1| XRE family transcriptional regulator [Methanococcoides burtonii
          DSM 6242]
 gi|91712684|gb|ABE52611.1| Helix-turn-helix-containing transcriptional regulator, XRE family
          [Methanococcoides burtonii DSM 6242]
          Length = 65

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 28/62 (45%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R    ++QE+L + +G+  + +   EKG           I++V +S I   F + 
Sbjct: 4  RIKELRARYDLTQEELAKKVGVRRETILFLEKGKYNPSLKLAYTIAKVFDSTIEDVFILD 63

Query: 78 PT 79
            
Sbjct: 64 DE 65


>gi|77918847|ref|YP_356662.1| transcriptional regulator [Pelobacter carbinolicus DSM 2380]
 gi|77544930|gb|ABA88492.1| transcriptional regulator, XRE family [Pelobacter carbinolicus
          DSM 2380]
          Length = 184

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 28/65 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            +  R+R  R +  +S E++ + L +     Q+YE G   + AS L  I+  L+  +  
Sbjct: 6  REIASRVRELRELSEISVEQMADSLNLPILTYQRYENGSEDIPASILYKIATDLKVDMGL 65

Query: 73 FFDVS 77
               
Sbjct: 66 LLTGD 70


>gi|78060929|ref|YP_370837.1| XRE family transcriptional regulator [Burkholderia sp. 383]
 gi|77968814|gb|ABB10193.1| transcriptional regulator, XRE family with cupin sensor
          [Burkholderia sp. 383]
          Length = 180

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++L R   G + + L +  G+T   + K E+G++    +    +S+ L   +   F  S
Sbjct: 4  RLKLLRKQKGWTLDVLADETGLTKSYLSKVERGLSVPSIAVALKLSKALNVDVEQLFSES 63


>gi|86142246|ref|ZP_01060756.1| hypothetical protein MED217_11389 [Leeuwenhoekiella blandensis
          MED217]
 gi|85830998|gb|EAQ49455.1| hypothetical protein MED217_11389 [Leeuwenhoekiella blandensis
          MED217]
          Length = 251

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 23/60 (38%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            GK IR  R +  +SQ+   E   +    +  YE+G +      +  I+     PI   
Sbjct: 3  FFGKNIRKIRSVKTLSQQAFAELFDLKRGTLGAYEEGRSEPKIETIIKIANYFSIPIDDL 62


>gi|84388954|ref|ZP_00991162.1| hypothetical protein V12B01_09741 [Vibrio splendidus 12B01]
 gi|84377018|gb|EAP93890.1| hypothetical protein V12B01_09741 [Vibrio splendidus 12B01]
          Length = 70

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 29/59 (49%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  G ++R  R   G+SQ+KL     I    V + E+G   +   ++  +++ L+  ++
Sbjct: 6  VKFGMKLREVRKKNGISQDKLALIADIDRSYVGRIERGEVNITLDKVYCLAQALKCNVT 64


>gi|75761606|ref|ZP_00741559.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|74490910|gb|EAO54173.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
          Length = 70

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R     +Q+ L + +G+T Q +   EKG      +    ++ V +  +   F
Sbjct: 5  NRVRELRARFRWTQQDLADAIGVTRQTIGLIEKGDYSPSVTMALKLAAVFQVTVEEVF 62


>gi|116748595|ref|YP_845282.1| XRE family transcriptional regulator [Syntrophobacter fumaroxidans
           MPOB]
 gi|116697659|gb|ABK16847.1| transcriptional regulator, XRE family [Syntrophobacter fumaroxidans
           MPOB]
          Length = 204

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/92 (16%), Positives = 37/92 (40%), Gaps = 9/92 (9%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+G ++R  R    ++ + L    G++   + + E        + L  ++  L+  +  F
Sbjct: 17  NIGNKVRELRQKNHLTLQDLAVKTGLSKPFLSQIENNKVVPPVATLFRLARALKVALGHF 76

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           F           S E++ +      + ++L+R
Sbjct: 77  FQ---------ESVEDDRIAITRKKERVRLDR 99


>gi|260598023|ref|YP_003210594.1| HTH-type transcriptional regulator YdcN [Cronobacter turicensis
           z3032]
 gi|260217200|emb|CBA31069.1| Uncharacterized HTH-type transcriptional regulator ydcN
           [Cronobacter turicensis z3032]
          Length = 204

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/137 (12%), Positives = 49/137 (35%), Gaps = 18/137 (13%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            +  ++ + ++  R     S  +  +  G++   + + E+  +    + L  I+     P
Sbjct: 30  DITAHLAQTLKALRQQKNWSLTQAAQETGVSKAMLGQIERNESSPTVATLWKIATGFNVP 89

Query: 70  ISFFF-DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIE-LVRSIV 127
            S F    +P   +   +++  +++ +           F    D ++R    + L  ++ 
Sbjct: 90  FSVFITPPAPGARTVFDAQQTMLVEPL-----------FPW--DEQLR---FDMLAVTLA 133

Query: 128 SSEKKYRTIEEECMVEQ 144
              +   T  E  + E 
Sbjct: 134 PGAQSDSTPHENGVTEH 150


>gi|188585658|ref|YP_001917203.1| transcriptional regulator, XRE family [Natranaerobius
          thermophilus JW/NM-WN-LF]
 gi|179350345|gb|ACB84615.1| transcriptional regulator, XRE family [Natranaerobius
          thermophilus JW/NM-WN-LF]
          Length = 89

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 25/59 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +++   R   G+SQ++L E +G     + + E          L  I++  +  +   FD
Sbjct: 31 RQVIKLRKEKGLSQKELAEKIGTKQSAISRLENESYNPSIELLYKIAKACDRDLHIKFD 89


>gi|148378605|ref|YP_001253146.1| DNA-binding protein [Clostridium botulinum A str. ATCC 3502]
 gi|153931517|ref|YP_001382992.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|153937449|ref|YP_001386538.1| DNA-binding protein [Clostridium botulinum A str. Hall]
 gi|148288089|emb|CAL82157.1| putative transcriptional regulator [Clostridium botulinum A str.
          ATCC 3502]
 gi|152927561|gb|ABS33061.1| DNA-binding protein [Clostridium botulinum A str. ATCC 19397]
 gi|152933363|gb|ABS38862.1| DNA-binding protein [Clostridium botulinum A str. Hall]
          Length = 130

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++   R   G+SQ++LG  L ++ Q + K+E G       +L  + +  E  + 
Sbjct: 5  NKLYSLRKQKGLSQDELGSKLNVSRQTISKWELGETTPELEKLIALGDFFEISLD 59


>gi|160897719|ref|YP_001563301.1| XRE family transcriptional regulator [Delftia acidovorans SPH-1]
 gi|160363303|gb|ABX34916.1| transcriptional regulator, XRE family [Delftia acidovorans SPH-1]
          Length = 214

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 27/92 (29%), Gaps = 5/92 (5%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +R+R  R  LG+SQE      G++      YE G N      L  I         +    
Sbjct: 27  QRLREERKRLGLSQEAFASLGGVSKNTQSNYETGANLPDVGYLNTI-RGFGVDSGYVLTG 85

Query: 77  ----SPTVCSDISSEENNVMDFISTPDGLQLN 104
                P+               +     L+L 
Sbjct: 86  IRTFDPSAIEHAQPAATLAARLVQERKRLELT 117



 Score = 33.6 bits (76), Expect = 8.4,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 23/56 (41%), Gaps = 1/56 (1%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
            R+   R  L ++  +L    G+    + K+E+G     A  LQ +   +   + +
Sbjct: 105 ARLVQERKRLELTVGQLAAKSGVDRLALLKFEEGEFAPDAKALQQL-HAVGVDVGY 159


>gi|108761818|ref|YP_632650.1| DNA-binding protein [Myxococcus xanthus DK 1622]
 gi|108465698|gb|ABF90883.1| DNA-binding protein [Myxococcus xanthus DK 1622]
          Length = 100

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/63 (19%), Positives = 26/63 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G ++R  R  +G+SQ ++ E + +    + + E+G        L  +  VL   +    
Sbjct: 26 IGTQVRAARHRVGLSQAQVAEAIHVPTLVLSRLERGRLLPSLPTLVDLCGVLRVSVDLLL 85

Query: 75 DVS 77
             
Sbjct: 86 SGE 88


>gi|29833583|ref|NP_828217.1| transcriptional regulatory protein [Streptomyces avermitilis
          MA-4680]
 gi|29610707|dbj|BAC74752.1| putative transcriptional regulatory protein [Streptomyces
          avermitilis MA-4680]
          Length = 201

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/75 (13%), Positives = 25/75 (33%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          + ++  R   G + + L    G++   + + E+         +  I + L   ++   D 
Sbjct: 24 RNVKRWRTERGFTLDTLAARAGVSRGMLIQIEQARTNPSIGTVVKIGDALGVSVTTLLDY 83

Query: 77 SPTVCSDISSEENNV 91
                 I   +  V
Sbjct: 84 EQGPKVRIVPADQAV 98


>gi|331270812|ref|YP_004397249.1| hypothetical protein CbC4_5052 [Clostridium botulinum BKT015925]
 gi|329127530|gb|AEB77473.1| hypothetical protein CbC4_5052 [Clostridium botulinum BKT015925]
          Length = 69

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 23/58 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI++ R     +Q  L E L I+ Q V   EK            I+EV    I+  F
Sbjct: 4  NRIKIFRTEHDWTQADLAEKLHISRQAVISIEKYKYTPSLELAFKIAEVFNVSINEVF 61


>gi|315929228|gb|EFV08447.1| helix-turn-helix family protein [Campylobacter jejuni subsp.
          jejuni 305]
          Length = 236

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 1/62 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPIS 71
          + +  R++  R   G +Q  L E  G++   ++KYE G V+      L+ I+       +
Sbjct: 1  MELSLRMKEYREYFGWTQTDLSEKSGVSISTIKKYEAGSVDNFTYGNLKKIASAFNLSPA 60

Query: 72 FF 73
           F
Sbjct: 61 SF 62


>gi|309776168|ref|ZP_07671159.1| transcriptional regulator, Cro/CI family [Erysipelotrichaceae
          bacterium 3_1_53]
 gi|308916119|gb|EFP61868.1| transcriptional regulator, Cro/CI family [Erysipelotrichaceae
          bacterium 3_1_53]
          Length = 92

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 31/72 (43%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          +  +P     G ++R  R   GM+  +L     I F  ++K E GV+      L  + + 
Sbjct: 4  RTKHPATELTGMKLRELREKAGMTLRELANRSMIDFTYIKKIELGVSDPSIITLDILLQA 63

Query: 66 LESPISFFFDVS 77
          ++  +  FFD  
Sbjct: 64 MDLNLQDFFDSE 75


>gi|303253615|ref|ZP_07339753.1| hypothetical protein APP2_0803 [Actinobacillus pleuropneumoniae
           serovar 2 str. 4226]
 gi|307245786|ref|ZP_07527872.1| hypothetical protein appser1_9890 [Actinobacillus pleuropneumoniae
           serovar 1 str. 4074]
 gi|307248022|ref|ZP_07530051.1| hypothetical protein appser2_10040 [Actinobacillus pleuropneumoniae
           serovar 2 str. S1536]
 gi|307254759|ref|ZP_07536586.1| hypothetical protein appser9_9980 [Actinobacillus pleuropneumoniae
           serovar 9 str. CVJ13261]
 gi|307259199|ref|ZP_07540929.1| hypothetical protein appser11_9970 [Actinobacillus pleuropneumoniae
           serovar 11 str. 56153]
 gi|302647535|gb|EFL77753.1| hypothetical protein APP2_0803 [Actinobacillus pleuropneumoniae
           serovar 2 str. 4226]
 gi|306853488|gb|EFM85707.1| hypothetical protein appser1_9890 [Actinobacillus pleuropneumoniae
           serovar 1 str. 4074]
 gi|306855420|gb|EFM87594.1| hypothetical protein appser2_10040 [Actinobacillus pleuropneumoniae
           serovar 2 str. S1536]
 gi|306862285|gb|EFM94252.1| hypothetical protein appser9_9980 [Actinobacillus pleuropneumoniae
           serovar 9 str. CVJ13261]
 gi|306866866|gb|EFM98724.1| hypothetical protein appser11_9970 [Actinobacillus pleuropneumoniae
           serovar 11 str. 56153]
          Length = 150

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/88 (21%), Positives = 40/88 (45%), Gaps = 4/88 (4%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R  LG++Q  +    G++ +   KYE+GV   G+  L  ++E+    I + F  +
Sbjct: 10  RLKNERNRLGLTQADIANKCGVSREMWGKYERGVALAGSEVLFSLTEI-GVDIGYLFSGT 68

Query: 78  ---PTVCSDISSEENNVMDFISTPDGLQ 102
              P   ++IS  ++           ++
Sbjct: 69  RSVPLTENEISLLDDYRQSNEQGKAAIE 96


>gi|241894860|ref|ZP_04782156.1| possible antirepressor [Weissella paramesenteroides ATCC 33313]
 gi|241871868|gb|EER75619.1| possible antirepressor [Weissella paramesenteroides ATCC 33313]
          Length = 333

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 23/58 (39%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           + +G  +   R+  G S  +L    G+    +  YE G        +  +S+ L+  I
Sbjct: 267 VAIGNNVNKYRLERGYSMNELARRSGLYVNNIFNYENGRTTPRLETIFKLSDALDVSI 324


>gi|227522811|ref|ZP_03952860.1| transcriptional regulator [Lactobacillus hilgardii ATCC 8290]
 gi|227090012|gb|EEI25324.1| transcriptional regulator [Lactobacillus hilgardii ATCC 8290]
          Length = 198

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 24/62 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V K +R  R+  G S  KL E  G++   + + E        + +  I   L  P +   
Sbjct: 17 VSKNLRKIRLEKGFSLTKLSELSGVSKGMLSQIENNGTSPTINTIWKICAGLSVPYTALL 76

Query: 75 DV 76
          + 
Sbjct: 77 EG 78


>gi|157362961|ref|YP_001469728.1| XRE family transcriptional regulator [Thermotoga lettingae TMO]
 gi|157313565|gb|ABV32664.1| putative transcriptional regulator, XRE family [Thermotoga
           lettingae TMO]
          Length = 131

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 28/81 (34%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G ++   R    ++Q+ L + LGI+   V K E G   +    L  I       +   
Sbjct: 34  QIGGQLMAYRKKHNLTQKDLAKKLGISQSMVSKIETGEKNISIRVLTKIVAAFGGRVRIS 93

Query: 74  FDVSPTVCSDISSEENNVMDF 94
             + P    +   E      F
Sbjct: 94  LGILPEEEENKVPEYKFREAF 114


>gi|110598649|ref|ZP_01386915.1| Helix-turn-helix motif [Chlorobium ferrooxidans DSM 13031]
 gi|110339761|gb|EAT58270.1| Helix-turn-helix motif [Chlorobium ferrooxidans DSM 13031]
          Length = 129

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/48 (29%), Positives = 23/48 (47%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
           VG  IR  R  L +SQ +L    G+      +YE+G +R     ++ +
Sbjct: 69  VGADIRRIRKKLNLSQAELASLFGVGKMAFSRYERGESRPPVPLVKLL 116


>gi|297162135|gb|ADI11847.1| DNA-binding protein [Streptomyces bingchenggensis BCW-1]
          Length = 101

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 26/58 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          I +G+ +  RR  LG SQ +L    G+T   + + E  +       L  ++  L  P+
Sbjct: 36 IEIGRTVYQRRTELGWSQTELARRAGMTQPAIARLETSLTLPSTRTLLRVATALGQPL 93


>gi|291524263|emb|CBK89850.1| Predicted transcriptional regulators [Eubacterium rectale DSM
          17629]
          Length = 73

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/67 (19%), Positives = 30/67 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R++ RR  L ++Q+++G   G++ Q +   E+G      +    I++V    +   F +
Sbjct: 5  NRLKERRAALNVNQQEMGRLCGVSRQTISLIERGDYSPSVTLALTIAKVCGVTVEDVFYL 64

Query: 77 SPTVCSD 83
                +
Sbjct: 65 QEEDEDE 71


>gi|288905255|ref|YP_003430477.1| transcriptional activator, Rgg/GadR/MutR family [Streptococcus
           gallolyticus UCN34]
 gi|288731981|emb|CBI13546.1| putative transcriptional activator, Rgg/GadR/MutR family
           [Streptococcus gallolyticus UCN34]
          Length = 296

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 54/113 (47%), Gaps = 5/113 (4%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           N+GK  ++ R   G+SQ+++   + I+  Q+ ++E+G++ + A  L +  E +   +  F
Sbjct: 4   NLGKSFKMLRESKGLSQKEIAGDI-ISIAQLSRFERGISSINAETLYNCLENMNVSVEEF 62

Query: 74  FDV-SPTVCSDISSEENNVMDFISTPDGLQLNRY---FIQIDDVKVRQKIIEL 122
             V    + +  +  +N+V       + L+L  Y   + ++  +   QK   L
Sbjct: 63  QCVCRDFLQNQNAIFQNDVAKAFLEKNTLKLREYLAKYQRLTTIAPEQKFYRL 115


>gi|323527082|ref|YP_004229235.1| hypothetical protein BC1001_2760 [Burkholderia sp. CCGE1001]
 gi|323384084|gb|ADX56175.1| protein of unknown function DUF955 [Burkholderia sp. CCGE1001]
          Length = 386

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 27/54 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +G R++  R+   +SQE L + LG+    V   E G  +V    L+  +E L+ 
Sbjct: 12 LGARLKAARVSASLSQEALAQTLGLARTTVVAIEAGKRKVSLEELRAFAEQLDV 65


>gi|269795030|ref|YP_003314485.1| transcriptional regulator [Sanguibacter keddieii DSM 10542]
 gi|269097215|gb|ACZ21651.1| predicted transcriptional regulator [Sanguibacter keddieii DSM
          10542]
          Length = 242

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 27/57 (47%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          D  +G  +R RR  LG +  ++    G++   + + E+G  R     L  I++ L +
Sbjct: 21 DRRLGTVVRARRHALGRTLVEVAGSSGLSHSFLSQLERGRARPSMRSLYLIAQALGT 77


>gi|255037916|ref|YP_003088537.1| helix-turn-helix domain-containing protein [Dyadobacter fermentans
           DSM 18053]
 gi|254950672|gb|ACT95372.1| helix-turn-helix domain protein [Dyadobacter fermentans DSM 18053]
          Length = 363

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/107 (20%), Positives = 45/107 (42%), Gaps = 10/107 (9%)

Query: 18  RIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           R+   R + G+S +KL   LG     Q + + E G      ++L  +S  L+ P+ +F  
Sbjct: 8   RLTTARKMKGLSLQKLAIMLGRPFNKQLLHRLENGSQVPNGNQLIKLSNALDQPLDYFLK 67

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIEL 122
            S    +++ S++       +    L+L   +         ++ +EL
Sbjct: 68  PSFATVAELDSKKIQKAGKKAGGRVLELASDYF--------ERFLEL 106


>gi|305680480|ref|ZP_07403288.1| conserved hypothetical protein [Corynebacterium matruchotii ATCC
          14266]
 gi|305660011|gb|EFM49510.1| conserved hypothetical protein [Corynebacterium matruchotii ATCC
          14266]
          Length = 86

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 3/73 (4%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +  KK P    I +  R+RL R    M++ +L   + +  Q +   E+G +         
Sbjct: 1  MNPKKRPT---IPIFNRVRLLRAERDMTRAQLAARVDVNPQTIGALERGDHSPSLDLAMR 57

Query: 62 ISEVLESPISFFF 74
          I EV E P+   F
Sbjct: 58 ICEVFELPVEAVF 70


>gi|300772891|ref|ZP_07082760.1| XRE family transcriptional regulator [Sphingobacterium spiritivorum
           ATCC 33861]
 gi|300759062|gb|EFK55889.1| XRE family transcriptional regulator [Sphingobacterium spiritivorum
           ATCC 33861]
          Length = 104

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV-LESPISF 72
           +G+ I+  R +  M+QE+L E +G     + + E G + +  S L  + E  L   I+F
Sbjct: 43  IGEMIKQERKLAKMTQEQLAEKIGAKKSFISRIENGHSDIQLSTLYKLIEFGLGRKINF 101


>gi|228925015|ref|ZP_04088145.1| Transcriptional regulator, pbsX [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
 gi|228834678|gb|EEM80187.1| Transcriptional regulator, pbsX [Bacillus thuringiensis serovar
          huazhongensis BGSC 4BD1]
          Length = 65

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 26/61 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           +I   R    +SQEKL   +G++   + + E    +        I++VL + +   F  
Sbjct: 2  NKIAELRKEKLISQEKLAAKVGLSRTYISEIENNKKQPNVKLAIKIAKVLGTSVESIFSS 61

Query: 77 S 77
          S
Sbjct: 62 S 62


>gi|218132921|ref|ZP_03461725.1| hypothetical protein BACPEC_00782 [Bacteroides pectinophilus ATCC
          43243]
 gi|217991794|gb|EEC57798.1| hypothetical protein BACPEC_00782 [Bacteroides pectinophilus ATCC
          43243]
          Length = 70

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/64 (17%), Positives = 23/64 (35%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R+   R    M Q +L + +G+  + +   E G           I++V ++ +   F   
Sbjct: 7  RLHELRKERNMQQAELAKLVGVRRETIGNLENGRYNPSLKLAMDIAKVFDTTVEDIFTFE 66

Query: 78 PTVC 81
              
Sbjct: 67 DDDE 70


>gi|229917672|ref|YP_002886318.1| XRE family transcriptional regulator [Exiguobacterium sp. AT1b]
 gi|229469101|gb|ACQ70873.1| transcriptional regulator, XRE family [Exiguobacterium sp. AT1b]
          Length = 396

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 29/79 (36%), Gaps = 1/79 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+RI+  R    M+Q +L E + +T   +   E G        L+ ++  L+  +    
Sbjct: 2  IGERIKTLRKQKKMTQTQLAEGI-VTKSMLSMIENGKAEASMRSLRELASRLDVSMQQLL 60

Query: 75 DVSPTVCSDISSEENNVMD 93
                      E+    +
Sbjct: 61 TDPKEAELQTMVEQLEYEE 79


>gi|220914383|ref|YP_002489692.1| XRE family transcriptional regulator [Arthrobacter
          chlorophenolicus A6]
 gi|219861261|gb|ACL41603.1| transcriptional regulator, XRE family [Arthrobacter
          chlorophenolicus A6]
          Length = 507

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 25/57 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +V   +R  R   G +Q +L   LG +   V + E+G   +    +Q +  + +  I
Sbjct: 8  HVAVMLRNARSEKGWTQGQLAAELGTSQSAVARMEQGKQNLSLKMIQRLEAIFDRSI 64


>gi|206968090|ref|ZP_03229046.1| transcriptional regulator [Bacillus cereus AH1134]
 gi|229177505|ref|ZP_04304885.1| Transcriptional regulator, Xre [Bacillus cereus 172560W]
 gi|206737010|gb|EDZ54157.1| transcriptional regulator [Bacillus cereus AH1134]
 gi|228605998|gb|EEK63439.1| Transcriptional regulator, Xre [Bacillus cereus 172560W]
          Length = 296

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 1/60 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I+  R+   +SQ  L   +  +  Q+ K EKGV    +  L  +SE L    +  F
Sbjct: 6  LGITIKELRIKKNISQSDLCHGI-CSQSQISKIEKGVIYPSSILLYQLSERLGVDPNSIF 64


>gi|157373772|ref|YP_001472372.1| DNA-binding protein [Shewanella sediminis HAW-EB3]
 gi|157316146|gb|ABV35244.1| DNA-binding protein [Shewanella sediminis HAW-EB3]
          Length = 181

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 27/67 (40%), Gaps = 4/67 (5%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          + NP++    + I+  R    ++Q +L E  GI    +   E   +    S +  +++ L
Sbjct: 1  MANPIN----EGIKRLRAQHKLTQIELAEMAGIPRATLANMEGANSNPSISVVMKVAQAL 56

Query: 67 ESPISFF 73
             +   
Sbjct: 57 GVTVDDL 63


>gi|330977318|gb|EGH77271.1| helix-hairpin-helix DNA-binding motif-containing protein
           [Pseudomonas syringae pv. aptata str. DSM 50252]
          Length = 182

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 43/94 (45%), Gaps = 8/94 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-ESPISF-- 72
           G+R++  R + G+SQ +L +  G+T   +   EK       S L+   +VL   P+S   
Sbjct: 4   GERLQSIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLR---KVLGGIPMSMVE 60

Query: 73  FF--DVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           FF  +  P   + +  + + ++D       ++L 
Sbjct: 61  FFSEESVPENAAQVVYKASELIDISDGAVTMKLV 94


>gi|331270832|ref|YP_004397269.1| putative DNA-binding protein [Clostridium botulinum BKT015925]
 gi|329127550|gb|AEB77493.1| putative DNA-binding protein [Clostridium botulinum BKT015925]
          Length = 197

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/105 (17%), Positives = 38/105 (36%), Gaps = 14/105 (13%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMIL------GMSQEKLGECLGITFQQVQKYEKGVNRV 54
           M  +KK         G+ ++  R           +Q  L + +  +   +   E G    
Sbjct: 18  MALSKKK-------FGQLLKEARNFKSDIIGKRYTQRMLADDINRSQSYIGDIESGRTYP 70

Query: 55  GASRLQHISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPD 99
             S L  I+E    P+S+F      +  +I +   + ++ +S  +
Sbjct: 71  SFSTLNDIAEACGVPVSYF-QDHDDINYNIDTFIKSQLNILSETE 114


>gi|198282281|ref|YP_002218602.1| XRE family transcriptional regulator [Acidithiobacillus
          ferrooxidans ATCC 53993]
 gi|198246802|gb|ACH82395.1| transcriptional regulator, XRE family [Acidithiobacillus
          ferrooxidans ATCC 53993]
          Length = 152

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 33/74 (44%), Gaps = 1/74 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G R++  R  LG++Q +LG+   G++   V ++E G  +     L  + + L     + 
Sbjct: 8  IGDRVKKIRKRLGLTQAELGKHAGGLSKSAVHQWENGGTKPAWDALTALRKNLGINPDWV 67

Query: 74 FDVSPTVCSDISSE 87
                +  ++ + 
Sbjct: 68 MQGEGAMLQELGTP 81


>gi|111021987|ref|YP_704959.1| transcriptional regulator [Rhodococcus jostii RHA1]
 gi|110821517|gb|ABG96801.1| possible transcriptional regulator [Rhodococcus jostii RHA1]
          Length = 133

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 25/58 (43%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            RI + R   GMS+ +L   + +  Q V   E+G +         IS V E P+   F
Sbjct: 46  NRIGVLRAERGMSRAQLAGLIDVNPQTVGALERGDHYPSLDLAFRISWVFELPVEAIF 103


>gi|94272166|ref|ZP_01292081.1| Helix-turn-helix motif [delta proteobacterium MLMS-1]
 gi|93450214|gb|EAT01505.1| Helix-turn-helix motif [delta proteobacterium MLMS-1]
          Length = 100

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 24/51 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          K+++  R   G++Q  LG  +G+    + + E G   +  S    ++  L+
Sbjct: 6  KKLQAARKAKGLTQGALGAKMGLPQSHISQIEAGKVDMRLSSFLEMARFLD 56


>gi|29423763|gb|AAO73476.1| putative MBP-like protein [Sulfolobus acidocaldarius]
          Length = 167

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 28/56 (50%), Gaps = 4/56 (7%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE----SPI 70
           I+  R  L MSQ++L + L ++   ++++E G  +    + + +  +L      PI
Sbjct: 85  IKEARERLKMSQQQLAQALKVSENIIKRFESGKLKPTIQQAKQLERILGIKLLVPI 140


>gi|94314004|ref|YP_587213.1| XRE family transcriptional regulator [Cupriavidus metallidurans
          CH34]
 gi|93357856|gb|ABF11944.1| transcriptional regulator, XRE family with cupin sensor domain
          [Cupriavidus metallidurans CH34]
          Length = 251

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 29/72 (40%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          GKR+R  R  LG +   L E  G++   + + E+G   +G      I + L+  +   F 
Sbjct: 22 GKRLRGARKALGWTLAHLAELSGVSITTISRAERGQLALGYDNFAAIGKALQMDMGEMFA 81

Query: 76 VSPTVCSDISSE 87
           +    +     
Sbjct: 82 GAGETAAPFQGP 93


>gi|329910926|ref|ZP_08275406.1| hypothetical protein IMCC9480_333 [Oxalobacteraceae bacterium
          IMCC9480]
 gi|327546048|gb|EGF31123.1| hypothetical protein IMCC9480_333 [Oxalobacteraceae bacterium
          IMCC9480]
          Length = 191

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 9/57 (15%), Positives = 23/57 (40%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          VG  ++  R+   ++ E L    G++   + + E+       +    ++  L   I+
Sbjct: 13 VGATLQRMRLERDLTLEDLSRAAGVSKSMLSQIEREKANPTIAVAWRLANALGVSIA 69


>gi|320178347|gb|EFW53318.1| helix-turn-helix domain protein [Shigella boydii ATCC 9905]
          Length = 149

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 31/79 (39%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +  R+R +R   G++  +L   L +  + + ++E G      S L  ++ +L     +  
Sbjct: 68  INNRLRTQREACGLTTAELARLLDLDEEIIIQWESGEYEPTISMLIPLANILGCDPMWLL 127

Query: 75  DVSPTVCSDISSEENNVMD 93
               T      SEE    D
Sbjct: 128 TGEVTPPEQPKSEEQQHHD 146


>gi|303255696|ref|ZP_07341743.1| Cro/CI family phage transcriptional regulator [Streptococcus
          pneumoniae BS455]
 gi|302597368|gb|EFL64467.1| Cro/CI family phage transcriptional regulator [Streptococcus
          pneumoniae BS455]
          Length = 75

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 27/69 (39%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R  R    +S +++ + L I  Q + KYE   +++    L  ++ +      F F    
Sbjct: 6  LRAIRTNYNLSAKEVADKLNIHQQTLLKYEHDSSKIPMDLLDKLARLYNVEKDFIFLGKK 65

Query: 79 TVCSDISSE 87
             +    E
Sbjct: 66 YELNHSLGE 74


>gi|302529084|ref|ZP_07281426.1| predicted protein [Streptomyces sp. AA4]
 gi|302437979|gb|EFL09795.1| predicted protein [Streptomyces sp. AA4]
          Length = 796

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLESPIS 71
           +R  R   G++QE+L E  G++   +++ E G         ++ I++ L +  +
Sbjct: 52  LRETRRQAGLTQEQLAERSGVSVSTIRRLENGRPVDPRMGTVKLIADALGTTPA 105


>gi|302533187|ref|ZP_07285529.1| transcriptional regulatory protein [Streptomyces sp. C]
 gi|302442082|gb|EFL13898.1| transcriptional regulatory protein [Streptomyces sp. C]
          Length = 198

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 8/59 (13%), Positives = 22/59 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          + ++  R   G + + L    G++   + + E+            +++ L   I+   D
Sbjct: 14 RNLKRWRGERGFTLDALAARAGVSRGMIIQIEQARTNPSVGTTVKLADALGVSITTLLD 72


>gi|255526755|ref|ZP_05393656.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
 gi|255509533|gb|EET85872.1| transcriptional regulator, XRE family [Clostridium
          carboxidivorans P7]
          Length = 71

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+++ R  L +SQ++L    G++ Q +   E G     A     +++ L+      F
Sbjct: 9  NRLKVARAELNISQQQLANMAGVSRQTISSIETGQYCPTAKLALILAKCLQKKFEDLF 66


>gi|254295523|ref|YP_003061545.1| transcriptional regulator, XRE family [Hirschia baltica ATCC
          49814]
 gi|254044054|gb|ACT60848.1| transcriptional regulator, XRE family [Hirschia baltica ATCC
          49814]
          Length = 86

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 25/58 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           NVG  IR  R+  G++Q +L   + +    + K E G      S L  +   L+  +
Sbjct: 9  RNVGDAIRKIRLEKGLTQTELAARVNVRQATISKLESGEPATRLSTLFDVLMALDMDL 66


>gi|271964073|ref|YP_003338269.1| transcriptional regulator [Streptosporangium roseum DSM 43021]
 gi|270507248|gb|ACZ85526.1| transcriptional regulator [Streptosporangium roseum DSM 43021]
          Length = 64

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 24/56 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +R  R   G+SQ+ LGE LG++ Q +   E+G           ++      +   F
Sbjct: 5  VRELRGSAGLSQQALGERLGVSRQTINAIEQGRYDPSLPLAIRLARFFGRTVEEVF 60


>gi|218440552|ref|YP_002378881.1| XRE family transcriptional regulator [Cyanothece sp. PCC 7424]
 gi|218173280|gb|ACK72013.1| transcriptional regulator, XRE family [Cyanothece sp. PCC 7424]
          Length = 87

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +GK IR  R  + ++QE+    +G+ F  V ++EKG        ++ IS  L+
Sbjct: 14 IGKLIRNLRQEMNLTQEQFAMMVGVVFTTVNRWEKGHANPSPMAIKMISMKLQ 66


>gi|159026724|emb|CAO89038.1| unnamed protein product [Microcystis aeruginosa PCC 7806]
          Length = 75

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 30/69 (43%)

Query: 6  KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
          K    +    GK IR RR  L +SQE L E   +    +   + G   V    ++ +++ 
Sbjct: 4  KESLDIKHRFGKAIRRRRRELDLSQEILAEKAELHRTYISSIQLGKCNVSLENIEKLAKA 63

Query: 66 LESPISFFF 74
          L+  I+  F
Sbjct: 64 LDISIADLF 72


>gi|160880248|ref|YP_001559216.1| XRE family transcriptional regulator [Clostridium phytofermentans
          ISDg]
 gi|160428914|gb|ABX42477.1| transcriptional regulator, XRE family [Clostridium
          phytofermentans ISDg]
          Length = 380

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 27/69 (39%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + + I   R   G++Q++L   LG+T   V K+E   +      L  I+      I    
Sbjct: 5  LSENIITFRRKKGITQDELATFLGVTKASVSKWETKQSYPDILLLPQIASYFNVSIDELL 64

Query: 75 DVSPTVCSD 83
             P +  +
Sbjct: 65 GYEPQLSEE 73


>gi|120401822|ref|YP_951651.1| XRE family transcriptional regulator [Mycobacterium vanbaalenii
           PYR-1]
 gi|119954640|gb|ABM11645.1| transcriptional regulator, XRE family [Mycobacterium vanbaalenii
           PYR-1]
          Length = 176

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 38/87 (43%), Gaps = 3/87 (3%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  IR +R    +S  +L E  G++   + + E+G+ +  A  L  I++ L       +
Sbjct: 18  IGSFIRAQREAAQVSVRQLAEKAGVSNPYLSQIERGLRKPSADVLNQIAKALRVSAEVLY 77

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGL 101
             +  +     SE N V D I T   +
Sbjct: 78  VRAGILE---PSETNEVRDAIVTDTAI 101


>gi|73670782|ref|YP_306797.1| transcriptional regulator [Methanosarcina barkeri str. Fusaro]
 gi|72397944|gb|AAZ72217.1| transcriptional regulator, Hth-3 family [Methanosarcina barkeri
          str. Fusaro]
          Length = 68

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 24/57 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R    ++QE L + +G+  + +   EKG           IS  L + I   F
Sbjct: 4  RIKEFRARHDLTQEALAKMVGVRRETIVFLEKGKYNPSLKLAYRISRCLNATIDELF 60


>gi|28901246|ref|NP_800901.1| hypothetical protein VPA1391 [Vibrio parahaemolyticus RIMD
          2210633]
 gi|153835937|ref|ZP_01988604.1| conserved domain protein [Vibrio parahaemolyticus AQ3810]
 gi|260362803|ref|ZP_05775672.1| conserved domain protein [Vibrio parahaemolyticus K5030]
 gi|260880091|ref|ZP_05892446.1| conserved domain protein [Vibrio parahaemolyticus AN-5034]
 gi|260895208|ref|ZP_05903704.1| conserved domain protein [Vibrio parahaemolyticus Peru-466]
 gi|28809759|dbj|BAC62734.1| hypothetical protein [Vibrio parahaemolyticus RIMD 2210633]
 gi|149750691|gb|EDM61436.1| conserved domain protein [Vibrio parahaemolyticus AQ3810]
 gi|308085564|gb|EFO35259.1| conserved domain protein [Vibrio parahaemolyticus Peru-466]
 gi|308091862|gb|EFO41557.1| conserved domain protein [Vibrio parahaemolyticus AN-5034]
 gi|308112048|gb|EFO49588.1| conserved domain protein [Vibrio parahaemolyticus K5030]
          Length = 68

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 25/55 (45%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G  +R  R   G+SQ+KL     I    V + E+G   +   +   I+ VL+  I
Sbjct: 9  GYNVRSMRKDKGISQDKLALAADIDRSYVGRIERGEVNITLEKAYQIASVLQCDI 63


>gi|77408552|ref|ZP_00785288.1| transcriptional regulator, MutR family [Streptococcus agalactiae
           COH1]
 gi|77172826|gb|EAO75959.1| transcriptional regulator, MutR family [Streptococcus agalactiae
           COH1]
          Length = 282

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 41/94 (43%), Gaps = 1/94 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +GK +R  R    +S   L +   ++  Q+ ++E+G + +  SRL +I + L   I
Sbjct: 1   MEKELGKTLRRLRKGKKVSISSLADE-HLSKSQISRFERGESEITCSRLLNILDKLNITI 59

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
             F  +     +      N V  + +  +  +L 
Sbjct: 60  DEFVSIHSKAHTHFFILLNRVRKYCAEKNVTKLV 93


>gi|307329596|ref|ZP_07608755.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
 gi|306884790|gb|EFN15817.1| transcriptional regulator, XRE family [Streptomyces
          violaceusniger Tu 4113]
          Length = 278

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 26/56 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG  +R  R    +SQ +L      + + +   E G +R   + +  +++ L+ P+
Sbjct: 20 VGTLLREWRDRRRLSQLELALRADSSARHISFIETGRSRPSQAMVLRLADHLDVPV 75


>gi|317053889|ref|YP_004117914.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
 gi|316951884|gb|ADU71358.1| transcriptional regulator, XRE family [Pantoea sp. At-9b]
          Length = 182

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 29/86 (33%), Gaps = 1/86 (1%)

Query: 7  IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
          +  P+DI     +R  R   G+S  ++    G+    + + E G        L  +   L
Sbjct: 1  MTPPIDIIAAGLVRE-RQRAGLSLTEVARRAGVAKSTLSQLEAGNGNPSIETLWSLCVAL 59

Query: 67 ESPISFFFDVSPTVCSDISSEENNVM 92
            P +   +        I   E  V+
Sbjct: 60 NIPFARLMEPEVKRLQVIRKGEGMVV 85


>gi|257793053|ref|YP_003186451.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
 gi|257479745|gb|ACV60062.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius subsp. acidocaldarius DSM 446]
          Length = 201

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 24/68 (35%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V   +R  R+  G S  +L    G+    + + E G      + L  ++  L  P S   
Sbjct: 19 VSNNLRALRLARGWSISELERRSGVAKGTISQLESGYGNPTVATLWSLASALSVPFSDLI 78

Query: 75 DVSPTVCS 82
            +    S
Sbjct: 79 QTAKETES 86


>gi|227431842|ref|ZP_03913866.1| transcriptional regulator [Leuconostoc mesenteroides subsp.
          cremoris ATCC 19254]
 gi|227352384|gb|EEJ42586.1| transcriptional regulator [Leuconostoc mesenteroides subsp.
          cremoris ATCC 19254]
          Length = 205

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/90 (21%), Positives = 39/90 (43%), Gaps = 8/90 (8%)

Query: 17 KRIRLRRMILGMSQEKLGECL-------GITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           R++  R   G+S +KL E L        IT   +  YE           Q +++     
Sbjct: 3  NRLKELRNRKGLSMKKLSEDLVKKGYFPNITDATLSNYENEKREPKLETWQKLADYFGVD 62

Query: 70 ISFFFDVSPTVCSDISSEENNVMDFISTPD 99
          +++   VS    + + + E+ + +FI++P+
Sbjct: 63 VAYLQGVSNIKDTTLLTFED-LSEFINSPE 91


>gi|171320839|ref|ZP_02909842.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           MEX-5]
 gi|171093917|gb|EDT39035.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           MEX-5]
          Length = 183

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 36/92 (39%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V +R+R  R   G+SQ +L +  G+T   +   E+G        L+ + E +   ++ FF
Sbjct: 5   VAERLRFVRNKHGLSQRELAKRAGVTNGTISLIEQGRVSPSVGSLKKLLECIPMSLAEFF 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                    I S  + + +  +      L   
Sbjct: 65  TFELVESRSIVSRRDEMPNLGNDTLAFHLVGA 96


>gi|89891794|ref|ZP_01203296.1| hypothetical transmembrane protein [Flavobacteria bacterium
          BBFL7]
 gi|89515949|gb|EAS18614.1| hypothetical transmembrane protein [Flavobacteria bacterium
          BBFL7]
          Length = 269

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 31/72 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  I   R   G++QE+L E   I  + +Q+ E G     +  +++I   L   I   F
Sbjct: 6  LGNYIAQLRKEKGLTQEELVELCNINVRTIQRIENGDVTPRSYTIKNILSALGKSIDDVF 65

Query: 75 DVSPTVCSDISS 86
                 +D+ +
Sbjct: 66 KSVEKKAADLPA 77


>gi|66046048|ref|YP_235889.1| peptidase [Pseudomonas syringae pv. syringae B728a]
 gi|63256755|gb|AAY37851.1| Helix-turn-helix motif:Peptidase S24, S26A and S26B [Pseudomonas
          syringae pv. syringae B728a]
          Length = 216

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 35/75 (46%), Gaps = 5/75 (6%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +R++L R    ++Q KL E  G+    + + E G   + ++ L  +++       +    
Sbjct: 6  QRLKLARAHAKITQRKLAELAGVEQPAISQMESGKT-LKSAHLVALAKACGVNADWL--- 61

Query: 77 SPTVCSDISSEENNV 91
            T    ++SE++NV
Sbjct: 62 -ATGTGQMASEQSNV 75


>gi|21228997|ref|NP_634919.1| transcriptional regulator [Methanosarcina mazei Go1]
 gi|20907540|gb|AAM32591.1| transcriptional regulator [Methanosarcina mazei Go1]
          Length = 68

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 24/57 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          RI+  R    ++QE L   +G+  + +   EKG           I+  L++ I   F
Sbjct: 4  RIKELRARHDLTQEALANLVGVRRETIVFLEKGKYNPSLKLACRIARSLDTTIDELF 60


>gi|314937188|ref|ZP_07844534.1| putative transcriptional regulator [Staphylococcus hominis subsp.
          hominis C80]
 gi|313654699|gb|EFS18445.1| putative transcriptional regulator [Staphylococcus hominis subsp.
          hominis C80]
          Length = 178

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/57 (17%), Positives = 30/57 (52%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +  +++  R+   ++Q ++ + L +T Q V ++E+G        +Q +S++ +  + 
Sbjct: 2  ISNKLKSARLAKELTQSEVAKKLYVTRQTVSRWEQGKTLPNIYVIQELSDLYDISLD 58


>gi|313891199|ref|ZP_07824818.1| DNA-binding helix-turn-helix protein [Streptococcus pseudoporcinus
           SPIN 20026]
 gi|313120562|gb|EFR43682.1| DNA-binding helix-turn-helix protein [Streptococcus pseudoporcinus
           SPIN 20026]
          Length = 359

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 51/115 (44%), Gaps = 6/115 (5%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G  I L R  LGM+QEKL + L +T   + K+E    +     L  ++++ +  +    
Sbjct: 2   IGDTIFLERTRLGMTQEKLSDYLHLTKATISKWENNQAKPDIDYLILLAKLFDMSLDDLV 61

Query: 75  D----VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQ--IDDVKVRQKIIELV 123
                +S +  S +  +    M+ +S  D ++      +  I D K    +I+LV
Sbjct: 62  GFQKTLSDSERSALFHQLKKEMNHMSDDDVVKKAEELSKQHISDFKTLLILIQLV 116


>gi|228950520|ref|ZP_04112670.1| transcriptional regulator [Bacillus thuringiensis serovar monterrey
           BGSC 4AJ1]
 gi|228809156|gb|EEM55627.1| transcriptional regulator [Bacillus thuringiensis serovar monterrey
           BGSC 4AJ1]
          Length = 116

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/95 (20%), Positives = 37/95 (38%), Gaps = 3/95 (3%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +G R++  R  L MSQ+   + + ++   V   E G  +     +  IS +     
Sbjct: 2   IENIIGIRVKEIRNSLAMSQQSFADAIEVSKGMVSLIESGKKKPSRETVSKISNLGNVSA 61

Query: 71  SFFFDVSP---TVCSDISSEENNVMDFISTPDGLQ 102
            +   +S       S  S  +  + D IS  + L 
Sbjct: 62  DYVMGLSDYKNLNESQSSEVKTELHDMISKIEKLD 96


>gi|228999804|ref|ZP_04159377.1| hypothetical protein bmyco0003_43570 [Bacillus mycoides Rock3-17]
 gi|229007358|ref|ZP_04164956.1| hypothetical protein bmyco0002_42380 [Bacillus mycoides Rock1-4]
 gi|228753889|gb|EEM03329.1| hypothetical protein bmyco0002_42380 [Bacillus mycoides Rock1-4]
 gi|228759953|gb|EEM08926.1| hypothetical protein bmyco0003_43570 [Bacillus mycoides Rock3-17]
          Length = 73

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 25/67 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R    MSQ  LG+ +  + Q +   E+G           I+ V   P+   F +
Sbjct: 5  NRVREFRAKHRMSQGDLGKVIDSSRQTISLIERGDYAPSIVLSLKIAHVFGVPVEEIFTL 64

Query: 77 SPTVCSD 83
                D
Sbjct: 65 VEGEKDD 71


>gi|227529915|ref|ZP_03959964.1| transcriptional regulator [Lactobacillus vaginalis ATCC 49540]
 gi|227350169|gb|EEJ40460.1| transcriptional regulator [Lactobacillus vaginalis ATCC 49540]
          Length = 64

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+R  R    +SQ +L + +G+  Q +   E           + ++  L++ ++  F
Sbjct: 2  NRVRQFRKKQQLSQFELAKEIGVARQTISLIESDKYNPSLELCRKLAIALKTDLNSLF 59


>gi|90416630|ref|ZP_01224561.1| putative DNA-binding protein [marine gamma proteobacterium
           HTCC2207]
 gi|90331829|gb|EAS47057.1| putative DNA-binding protein [marine gamma proteobacterium
           HTCC2207]
          Length = 192

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/100 (13%), Positives = 37/100 (37%), Gaps = 1/100 (1%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M  ++   +P    +  R+   R    ++ ++L    G++   + + E+G      +   
Sbjct: 1   MSNSQSDNDPASQALSSRVTALRKKNKLTLDQLAGASGVSRSMLSQIERGQANPTLTVTF 60

Query: 61  HISEVLESPISFFFDVS-PTVCSDISSEENNVMDFISTPD 99
            I++     I    D +  +   ++   E+    F +  +
Sbjct: 61  RIAQAFGMSIGELVDQAWQSSTIEVVHGEDKSNLFRNDKE 100


>gi|19745476|ref|NP_606612.1| hypothetical protein spyM18_0360 [Streptococcus pyogenes
          MGAS8232]
 gi|19747592|gb|AAL97111.1| hypothetical phage protein [Streptococcus pyogenes MGAS8232]
          Length = 112

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 8/56 (14%), Positives = 21/56 (37%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          RI+  R  LG++Q        +    +  +E   +     +++ I+       ++ 
Sbjct: 4  RIKYLRQALGLTQSAFAAKAHVHKNMIANHESQNSNPSLKQIEKIALAFNVEPAWL 59


>gi|37527794|ref|NP_931139.1| hypothetical protein plu3939 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36787230|emb|CAE16311.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 371

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G  +RL R+   +S E++ E +  T Q +Q+ E G           ++ VL+   +FF
Sbjct: 4  GSNLRLARLYHELSLEQVAERVNKTRQYIQRLESGFAVPTNELSNELATVLQVTPAFF 61


>gi|88854610|ref|ZP_01129277.1| predicted transcription regulator, containing DNA-binding HTH
          domain [marine actinobacterium PHSC20C1]
 gi|88816418|gb|EAR26273.1| predicted transcription regulator, containing DNA-binding HTH
          domain [marine actinobacterium PHSC20C1]
          Length = 73

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 8/74 (10%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          MV   K+ N         IR  R   G++Q +L   +G+T Q +   E+G          
Sbjct: 1  MVKPTKVTN--------NIRALREAEGLTQAELARRIGVTRQTLIAIEQGRYSPTLELAF 52

Query: 61 HISEVLESPISFFF 74
           IS    + +   F
Sbjct: 53 QISRNFGTGLDDVF 66


>gi|330685264|gb|EGG96925.1| DNA-binding helix-turn-helix protein [Staphylococcus epidermidis
          VCU121]
          Length = 189

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 28/70 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  +I+L R   G SQE L E L ++ Q +  +E   +      L  + E+    +  
Sbjct: 1  MNISHQIKLCRENKGYSQEYLAEKLYVSRQTISNWENERSYPDVHNLIMMCELFNVSLDD 60

Query: 73 FFDVSPTVCS 82
                 +  
Sbjct: 61 LVQGEIHMEQ 70


>gi|329115880|ref|ZP_08244597.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
 gi|326906285|gb|EGE53199.1| DNA-binding helix-turn-helix protein [Streptococcus parauberis
          NCFD 2020]
          Length = 108

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPIS 71
           ++  RI   R+   ++QE L E  G+    + + E+G N  +    L  I   LE   +
Sbjct: 5  KSISNRIYELRLSKHLTQETLAEKAGMDVNALGRIERGQNYNIKVETLDKIINALEVDYN 64

Query: 72 FFFDVSPTVCS 82
           FF       +
Sbjct: 65 SFFSFQDQENN 75


>gi|325289268|ref|YP_004265449.1| transcriptional regulator, XRE family [Syntrophobotulus
          glycolicus DSM 8271]
 gi|324964669|gb|ADY55448.1| transcriptional regulator, XRE family [Syntrophobotulus
          glycolicus DSM 8271]
          Length = 67

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 23/57 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + +  RI+  R    M QE L   +G+  + +   E G      +    I++V +  
Sbjct: 1  MIIKTRIKEYRAKHNMKQEDLARLVGVRRETIYHLENGKYNPSLALAYLIAKVFKVS 57


>gi|302535844|ref|ZP_07288186.1| DNA-binding protein [Streptomyces sp. C]
 gi|302444739|gb|EFL16555.1| DNA-binding protein [Streptomyces sp. C]
          Length = 145

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 37/85 (43%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          N+G+ +R +R    +S  +L +  G++   + + E+G+ +  A  LQ +++ L       
Sbjct: 14 NLGEYLREQRRQAQLSLRQLADAAGVSNPYLSQIERGLRKPSADILQQLAKALRISAETL 73

Query: 74 FDVSPTVCSDISSEENNVMDFISTP 98
          +  +  +      E       +S P
Sbjct: 74 YVQAGILDERDRDEVETRAVILSDP 98


>gi|292491245|ref|YP_003526684.1| hypothetical protein Nhal_1128 [Nitrosococcus halophilus Nc4]
 gi|291579840|gb|ADE14297.1| helix-turn-helix domain protein [Nitrosococcus halophilus Nc4]
          Length = 128

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 27/64 (42%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           I++ R   G++Q  L E  G++   +   EKG        L+ I++ L   I    D+  
Sbjct: 65  IKVWRTYRGLTQHDLAEQAGLSQSYLAMMEKGEREGTVKALKRIAKALNVDIDDLVDMHD 124

Query: 79  TVCS 82
              +
Sbjct: 125 EEPA 128


>gi|295690628|ref|YP_003594321.1| XRE family transcriptional regulator [Caulobacter segnis ATCC
          21756]
 gi|295432531|gb|ADG11703.1| transcriptional regulator, XRE family [Caulobacter segnis ATCC
          21756]
          Length = 99

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 26/59 (44%), Gaps = 1/59 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQ-VQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+ ++  R   G+SQ +L   +G  +   + + E G  R+   R +  +  L  P   F
Sbjct: 21 GRWLKEAREAAGLSQRQLAAKVGADYYTFISQLETGRGRIPPDRYREWARALNVPERTF 79


>gi|239637276|ref|ZP_04678263.1| transcriptional regulator, Cro/CI family [Staphylococcus warneri
          L37603]
 gi|239597113|gb|EEQ79623.1| transcriptional regulator, Cro/CI family [Staphylococcus warneri
          L37603]
          Length = 189

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 28/70 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +N+  +I+L R   G SQE L E L ++ Q +  +E   +      L  + E+    +  
Sbjct: 1  MNISHQIKLCRENKGYSQEYLAEKLYVSRQTISNWENERSYPDVHNLIMMCELFNVSLDD 60

Query: 73 FFDVSPTVCS 82
                 +  
Sbjct: 61 LVQGEIHMEQ 70


>gi|162148230|ref|YP_001602691.1| transcriptional regulator [Gluconacetobacter diazotrophicus PAl
          5]
 gi|161786807|emb|CAP56390.1| putative transcriptional regulator [Gluconacetobacter
          diazotrophicus PAl 5]
          Length = 475

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 28/74 (37%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G  IR  R    +SQ+ L   LGI+   +   E     V AS L  ++  L+  I    
Sbjct: 6  IGYIIRRLRSERSLSQQGLATRLGISPSYLNLIEHDQRSVTASLLIKLTRALDVSIEALS 65

Query: 75 DVSPTVCSDISSEE 88
           V       +  E 
Sbjct: 66 GVDEQRLRGLLHEA 79


>gi|153939134|ref|YP_001389968.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|152935030|gb|ABS40528.1| DNA-binding protein [Clostridium botulinum F str. Langeland]
 gi|295318053|gb|ADF98430.1| DNA-binding protein [Clostridium botulinum F str. 230613]
          Length = 130

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           ++   R   G+SQ++LG  L ++ Q + K+E G       +L  + +  E  + 
Sbjct: 5  NKLYSLRKQKGLSQDELGSKLNVSRQTISKWELGETTPELEKLTALGDFFEISLD 59


>gi|167034149|ref|YP_001669380.1| XRE family transcriptional regulator [Pseudomonas putida GB-1]
 gi|166860637|gb|ABY99044.1| transcriptional regulator, XRE family [Pseudomonas putida GB-1]
          Length = 271

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/91 (19%), Positives = 32/91 (35%), Gaps = 5/91 (5%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+ +R  R    +SQ  L    G++ + +   E G  R   S L  +   L +P+    +
Sbjct: 18  GQHLRHLRRQASLSQLDLALLAGLSQRHLSCVETGRARASPSTLHALLSALGAPL----E 73

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
           +   V              +  P+ L L   
Sbjct: 74  LCNEVFVAAGYAPRYAASPLDAPE-LALVHA 103


>gi|222053496|ref|YP_002535858.1| plasmid maintenance system antidote protein, XRE family [Geobacter
           sp. FRC-32]
 gi|221562785|gb|ACM18757.1| plasmid maintenance system antidote protein, XRE family [Geobacter
           sp. FRC-32]
          Length = 116

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 25/51 (49%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           +R  R   G++Q++L E  GI    + + E G   +G  R + ++E L   
Sbjct: 61  LRAYRNREGLTQKRLAEMTGIPQHHISEMENGKRSIGKERAKRLAEALNCD 111


>gi|16080420|ref|NP_391247.1| transcriptional repressor [Bacillus subtilis subsp. subtilis str.
          168]
 gi|221311317|ref|ZP_03593164.1| hypothetical protein Bsubs1_18271 [Bacillus subtilis subsp.
          subtilis str. 168]
 gi|221315644|ref|ZP_03597449.1| hypothetical protein BsubsN3_18187 [Bacillus subtilis subsp.
          subtilis str. NCIB 3610]
 gi|221320560|ref|ZP_03601854.1| hypothetical protein BsubsJ_18155 [Bacillus subtilis subsp.
          subtilis str. JH642]
 gi|221324844|ref|ZP_03606138.1| hypothetical protein BsubsS_18306 [Bacillus subtilis subsp.
          subtilis str. SMY]
 gi|81342185|sp|O32237|RGHRB_BACSU RecName: Full=Uncharacterized HTH-type transcriptional regulator
          rghRB
 gi|2635880|emb|CAB15372.1| putative transcriptional repressor [Bacillus subtilis subsp.
          subtilis str. 168]
          Length = 139

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/79 (16%), Positives = 32/79 (40%), Gaps = 5/79 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFFF 74
          G+++R  R    ++  +L    GI+   + K E G       + ++ ++ VL+ P    +
Sbjct: 5  GQQLRELRRARKLTVNQLAVYSGISSATISKIENGKRGTPKPATIKKLAAVLKVP----Y 60

Query: 75 DVSPTVCSDISSEENNVMD 93
          +        I +    + +
Sbjct: 61 ENLMAAAGHIQAFPEEIRE 79


>gi|328956459|ref|YP_004373845.1| hypothetical protein CAR_c00780 [Carnobacterium sp. 17-4]
 gi|328672783|gb|AEB28829.1| hypothetical protein CAR_c00780 [Carnobacterium sp. 17-4]
          Length = 183

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 35/79 (44%), Gaps = 3/79 (3%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +++G+ +R  R    ++QE + + L +T Q V ++E+         LQ +S +    I  
Sbjct: 1  MSLGQSLREARAAKDLTQEDIAKVLYVTRQTVSRWEQNKTLPNIFVLQELSSLYGLSID- 59

Query: 73 FFDVSPTVCSDISSEENNV 91
            ++       I  +E  +
Sbjct: 60 --ELISETKKSIQKKEEEI 76


>gi|225387376|ref|ZP_03757140.1| hypothetical protein CLOSTASPAR_01129 [Clostridium asparagiforme
          DSM 15981]
 gi|225046508|gb|EEG56754.1| hypothetical protein CLOSTASPAR_01129 [Clostridium asparagiforme
          DSM 15981]
          Length = 1690

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 32/57 (56%), Gaps = 3/57 (5%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYE-KGVNRV-GASRL-QHISEV 65
          D  + ++I+  R+  G++Q  L E +G+   QV ++E KG   +    RL + ++++
Sbjct: 27 DPELAEQIKALRIARGLTQNDLAERMGVPQSQVSRWENKGGCEIESLERLCKALAQI 83


>gi|223986918|ref|ZP_03636894.1| hypothetical protein HOLDEFILI_04217 [Holdemania filiformis DSM
          12042]
 gi|223961112|gb|EEF65648.1| hypothetical protein HOLDEFILI_04217 [Holdemania filiformis DSM
          12042]
          Length = 86

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 24/64 (37%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           R++  R    +SQ +L + + +T Q +   E G           I+   +  I   F F
Sbjct: 23 NRVQELRKQRRLSQSELADAVEVTRQTIISLENGKYNASLMLAHKIARYFDLTIEEVFLF 82

Query: 75 DVSP 78
          +   
Sbjct: 83 EEDE 86


>gi|163838971|ref|YP_001623376.1| Cro/CI family transcriptional regulator [Renibacterium
          salmoninarum ATCC 33209]
 gi|162952447|gb|ABY21962.1| transcriptional regulator, Cro/CI family [Renibacterium
          salmoninarum ATCC 33209]
          Length = 191

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 29/67 (43%)

Query: 8  PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          PN   + +G RIR  R    ++ E + E  G+T   + + E+       + L  + EVL 
Sbjct: 8  PNQGPVQIGSRIRAARQAQRLTIEHVAEATGLTKGFLSRVERDFTSPSVASLVTLCEVLA 67

Query: 68 SPISFFF 74
            I   F
Sbjct: 68 ISIGDLF 74


>gi|148927476|ref|ZP_01810976.1| transcriptional regulator, XRE family [candidate division TM7
          genomosp. GTL1]
 gi|147887172|gb|EDK72640.1| transcriptional regulator, XRE family [candidate division TM7
          genomosp. GTL1]
          Length = 92

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 29/56 (51%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +GK I+  R+  G +Q ++ + LG +   + + E G   +    L  IS+VL S I
Sbjct: 9  IGKLIQQNRLGRGFTQAEMAKALGTSQSAINRIENGGQNLSMEMLARISDVLNSEI 64


>gi|172062153|ref|YP_001809804.1| XRE family transcriptional regulator [Burkholderia ambifaria
          MC40-6]
 gi|171994670|gb|ACB65588.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          MC40-6]
          Length = 203

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 9/68 (13%), Positives = 25/68 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    ++ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 26 VGEQIQRLRNERKLTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGITLDELF 85

Query: 75 DVSPTVCS 82
                 +
Sbjct: 86 SQPKAAET 93


>gi|52079411|ref|YP_078202.1| hypothetical protein BL02899 [Bacillus licheniformis ATCC 14580]
 gi|52784771|ref|YP_090600.1| hypothetical protein BLi00999 [Bacillus licheniformis ATCC 14580]
 gi|319646808|ref|ZP_08001037.1| XRE family Transcriptional regulator [Bacillus sp. BT1B_CT2]
 gi|52002622|gb|AAU22564.1| conserved hypothetical protein [Bacillus licheniformis ATCC
          14580]
 gi|52347273|gb|AAU39907.1| putative protein [Bacillus licheniformis ATCC 14580]
 gi|317391396|gb|EFV72194.1| XRE family Transcriptional regulator [Bacillus sp. BT1B_CT2]
          Length = 65

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R++L R+   ++Q +L E + +T Q +   EK            I++ L+  +   F
Sbjct: 3  NRVKLARIEKSLTQAQLAERVNVTRQTIGLIEKNKYNPTLQLCIAIAKALDKTLDDLF 60


>gi|21910237|ref|NP_664505.1| putative immunity repressor protein - phage associated
          [Streptococcus pyogenes MGAS315]
 gi|28876166|ref|NP_795393.1| putaive immunity repressor protein [Streptococcus pyogenes phage
          315.1]
 gi|28896063|ref|NP_802413.1| repressor protein [Streptococcus pyogenes SSI-1]
 gi|21904431|gb|AAM79308.1| putaive immunity repressor protein - phage-associated
          [Streptococcus pyogenes phage 315.1]
 gi|28811313|dbj|BAC64246.1| putative repressor protein [Streptococcus pyogenes SSI-1]
          Length = 112

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 9/56 (16%), Positives = 21/56 (37%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          RI+  R  LG++Q        I    +  +E   +     +++ I+       ++ 
Sbjct: 4  RIKYLRQALGLTQSAFAAKAHIHKNMIANHESQNSNPSLKQIEKIALAFNVEPAWL 59


>gi|16519699|ref|NP_443819.1| uncharacterized transcription regulator, XRE family
          [Sinorhizobium fredii NGR234]
 gi|2495432|sp|P55409|Y4DJ_RHISN RecName: Full=Uncharacterized HTH-type transcriptional regulator
          y4dJ
 gi|7465604|pir||T02773 y4dJ protein - Rhizobium sp. plasmid pNGR234a
 gi|2182353|gb|AAB91639.1| uncharacterized transcription regulator, XRE family
          [Sinorhizobium fredii NGR234]
          Length = 77

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 22/57 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VG      R   G++QE++    G + Q +   E+G        L  +++ L   
Sbjct: 5  KLVGSNFARLRREKGLTQEEVEARSGFSQQYLSSLERGRRNPTVITLYELAQALGVS 61


>gi|313677003|ref|YP_004054999.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
 gi|312943701|gb|ADR22891.1| helix-turn-helix domain protein [Marivirga tractuosa DSM 4126]
          Length = 283

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 34/70 (48%), Gaps = 5/70 (7%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          V N K P      +G +I+  R   G++QE+L E   +  + +Q+ E G     +  ++ 
Sbjct: 6  VYNMKQP-----ELGHKIQNWRKAQGLTQEELVEKCNLNVRTLQRIEAGEVLPRSYTVKS 60

Query: 62 ISEVLESPIS 71
          I EVL+   S
Sbjct: 61 ILEVLKVDFS 70


>gi|326775562|ref|ZP_08234827.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
 gi|326655895|gb|EGE40741.1| helix-turn-helix domain protein [Streptomyces cf. griseus
          XylebKG-1]
          Length = 75

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 1/58 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
            +G R+R+RRM L M+QE+L E   I    +Q+ E G      S L  I+  L   +
Sbjct: 14 RAIGDRVRVRRMHLDMTQERLAETAEIDRSTLQRIEYGE-EAKISHLLLIARALRVHV 70


>gi|226325033|ref|ZP_03800551.1| hypothetical protein COPCOM_02825 [Coprococcus comes ATCC 27758]
 gi|225206381|gb|EEG88735.1| hypothetical protein COPCOM_02825 [Coprococcus comes ATCC 27758]
          Length = 112

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/70 (17%), Positives = 31/70 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +   R    M+Q+ L + L ++ + V K+E+G +    + L  I+++L   ++       
Sbjct: 8  LAEVRKEKQMTQKDLADKLFVSDKTVSKWERGNSMPNVTLLIPIADILGITVTELLQGEK 67

Query: 79 TVCSDISSEE 88
             +   + +
Sbjct: 68 LKENKTLNSD 77


>gi|187924674|ref|YP_001896316.1| anaerobic benzoate catabolism transcriptional regulator
           [Burkholderia phytofirmans PsJN]
 gi|187715868|gb|ACD17092.1| transcriptional regulator, XRE family with shikimate kinase
           activity [Burkholderia phytofirmans PsJN]
          Length = 374

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/125 (20%), Positives = 48/125 (38%), Gaps = 17/125 (13%)

Query: 9   NPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +P    +G+R+RL R   GM+++ L    G++ + +   E GV       L+ I+  L  
Sbjct: 82  DPFLTAMGERVRLLRARRGMTRKTLAAETGLSERHLANLESGVGNASVLVLRQIAGTLNC 141

Query: 69  PISFFFDVSPTVCSDISSEENN---VMDFISTPDGLQLNRY-------FIQIDDVKVRQK 118
            ++        V  D ++       + + +   D   L R        F Q      R+ 
Sbjct: 142 SLA-------EVIGDETTASAEWLLIRELLQGRDQAALQRARVALAEMFAQAPRDPHRKD 194

Query: 119 IIELV 123
            I L+
Sbjct: 195 RIALI 199


>gi|153954548|ref|YP_001395313.1| transcriptional regulator [Clostridium kluyveri DSM 555]
 gi|146347406|gb|EDK33942.1| Transcriptional regulator [Clostridium kluyveri DSM 555]
          Length = 71

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 24/58 (41%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I   R  +G++QEKL + L ++ Q +   E G           IS+     I   F
Sbjct: 3  NKIEELRKRIGLNQEKLAKALKVSRQTISSIETGKYNPSLELAFAISDYFGKSIEEIF 60


>gi|161525328|ref|YP_001580340.1| XRE family transcriptional regulator [Burkholderia multivorans ATCC
           17616]
 gi|160342757|gb|ABX15843.1| transcriptional regulator, XRE family [Burkholderia multivorans
           ATCC 17616]
          Length = 224

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/73 (15%), Positives = 28/73 (38%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  + +R+R  R + G + + L    G++   +   E+      A  L  ++  L   +
Sbjct: 33  INERIARRVRELRTLRGYTLDALAARCGVSRSMISLIERAAASPTAVVLDKLAAGLGISL 92

Query: 71  SFFFDVSPTVCSD 83
           +  F       + 
Sbjct: 93  AGLFGGDDGAPAQ 105


>gi|94264958|ref|ZP_01288729.1| Helix-turn-helix motif [delta proteobacterium MLMS-1]
 gi|94265765|ref|ZP_01289500.1| Helix-turn-helix motif [delta proteobacterium MLMS-1]
 gi|93453700|gb|EAT04081.1| Helix-turn-helix motif [delta proteobacterium MLMS-1]
 gi|93454561|gb|EAT04839.1| Helix-turn-helix motif [delta proteobacterium MLMS-1]
          Length = 101

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 24/51 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          K+++  R   G++Q  LG  +G+    + + E G   +  S    ++  L+
Sbjct: 7  KKLQAARKAKGLTQGALGAKMGLPQSHISQIEAGKVDMRLSSFLEMARFLD 57


>gi|304320305|ref|YP_003853948.1| putative transcriptional regulator [Parvularcula bermudensis
          HTCC2503]
 gi|303299207|gb|ADM08806.1| putative transcriptional regulator [Parvularcula bermudensis
          HTCC2503]
          Length = 79

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 31/72 (43%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V + +R RR  LG+SQ+++G     +   +   E+    V    L  I+EVL   +    
Sbjct: 7  VARNVRKRRAELGLSQDEVGARADSSGNYIGMIERSETSVSIDMLADIAEVLGVSLRDLV 66

Query: 75 DVSPTVCSDISS 86
          D   T     S+
Sbjct: 67 DPDWTGVEHGSA 78


>gi|115359716|ref|YP_776854.1| XRE family transcriptional regulator [Burkholderia ambifaria
          AMMD]
 gi|115285004|gb|ABI90520.1| transcriptional regulator, XRE family with cupin sensor
          [Burkholderia ambifaria AMMD]
          Length = 203

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 9/68 (13%), Positives = 25/68 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    ++ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 26 VGEQIQRLRNERKLTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGITLDELF 85

Query: 75 DVSPTVCS 82
                 +
Sbjct: 86 SQPKAAET 93


>gi|94313728|ref|YP_586937.1| putative DNA-binding transcriptional regulator [Cupriavidus
          metallidurans CH34]
 gi|93357580|gb|ABF11668.1| putative DNA-binding transcriptional regulator, Helix-turn-helix
          motif [Cupriavidus metallidurans CH34]
          Length = 203

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/59 (16%), Positives = 26/59 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG  ++  R    +S ++L    G++   + + E+ +     + L  ++  L   ++ F
Sbjct: 21 VGSALQALRQSQQLSLDELSRRAGVSKSMLSQIERNLANPTVAVLWRLANALGVSLTDF 79


>gi|310816433|ref|YP_003964397.1| uncharacterized transcription regulator, XRE family
          [Ketogulonicigenium vulgare Y25]
 gi|308755168|gb|ADO43097.1| uncharacterized transcription regulator, XRE family
          [Ketogulonicigenium vulgare Y25]
          Length = 73

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 21/57 (36%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            VG      R   G++QE +    G + Q +   E+G        L  +++ L   
Sbjct: 5  RLVGGNFARLRQAKGLTQEDVEARSGFSQQYISGLERGQRNPTIITLYELAQALGVS 61


>gi|302546828|ref|ZP_07299170.1| putative helix-turn-helix domain protein [Streptomyces
          hygroscopicus ATCC 53653]
 gi|302464446|gb|EFL27539.1| putative helix-turn-helix domain protein [Streptomyces
          himastatinicus ATCC 53653]
          Length = 102

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 21/52 (40%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          G  ++  R   GMSQ  L   LG++  ++ + E G +      +      L 
Sbjct: 25 GAFLKRARRSRGMSQRALARELGVSQARIAQIENGASTPQIDTMAAYITALG 76


>gi|258652289|ref|YP_003201445.1| XRE family transcriptional regulator [Nakamurella multipartita
          DSM 44233]
 gi|258555514|gb|ACV78456.1| transcriptional regulator, XRE family [Nakamurella multipartita
          DSM 44233]
          Length = 104

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/89 (29%), Positives = 41/89 (46%), Gaps = 18/89 (20%)

Query: 1  MVGNKKIPNP-VDINV-----------GKRIRLRRMILGMSQEKLGECLGITFQQVQKYE 48
          MVG  +  NP  D  V           G  +   R  +G+SQE++    GI+    +K E
Sbjct: 1  MVGPSRTANPGPDQTVRATWARYTRDLGINLARAREAIGLSQERVAHAAGISTFTYRKLE 60

Query: 49 KGVNRVGAS------RLQHISEVLESPIS 71
          KG +  G+S       L  ++EVLE+ ++
Sbjct: 61 KGESNPGSSANPRLRTLVALAEVLETDVN 89


>gi|77411693|ref|ZP_00788032.1| transcriptional regulator, MutR family [Streptococcus agalactiae
           CJB111]
 gi|77162265|gb|EAO73237.1| transcriptional regulator, MutR family [Streptococcus agalactiae
           CJB111]
          Length = 282

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 41/94 (43%), Gaps = 1/94 (1%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           ++  +GK +R  R    +S   L +   ++  Q+ ++E+G + +  SRL +I + L   I
Sbjct: 1   MEKELGKTLRRLRKGKKVSISSLADE-HLSKSQISRFERGESEITCSRLLNILDKLNITI 59

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
             F  +     +      N V  + +  +  +L 
Sbjct: 60  DEFVSIHSKAHTHFFILLNRVRKYCAEKNVTKLV 93


>gi|42779585|ref|NP_976832.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|47567216|ref|ZP_00237930.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
 gi|42735501|gb|AAS39440.1| DNA-binding protein [Bacillus cereus ATCC 10987]
 gi|47556059|gb|EAL14396.1| transcriptional regulator, Cro/CI family [Bacillus cereus G9241]
          Length = 83

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 24/62 (38%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +V  +I   R    +SQ  L +   ++ Q +   E        +    ++EVL + +  
Sbjct: 18 KDVKNQIYELRTENNISQGALADKCKVSRQTINAIENNKYDPSLALAFRLAEVLGTTVDK 77

Query: 73 FF 74
           F
Sbjct: 78 LF 79


>gi|330467550|ref|YP_004405293.1| XRE family transcriptional regulator [Verrucosispora maris
           AB-18-032]
 gi|328810521|gb|AEB44693.1| XRE family transcriptional regulator [Verrucosispora maris
           AB-18-032]
          Length = 379

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/93 (26%), Positives = 41/93 (44%), Gaps = 13/93 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGA-SRLQHISEVLESPISFF 73
           +G+R+   R   GMSQ+   + LG +   V K E+GV R+   S ++ I+EVL    +  
Sbjct: 12  LGRRVAELRAHRGMSQQAFADRLGKSKSWVDKVERGVRRLDRYSVIRDIAEVLRLDPTML 71

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
             + P      ++ EN          G+   R 
Sbjct: 72  --LGPRQPPTPAAAEN----------GIDAVRA 92


>gi|307946156|ref|ZP_07661491.1| putative toxin-antitoxin system, antitoxin component, Xre family
          [Roseibium sp. TrichSKD4]
 gi|307769820|gb|EFO29046.1| putative toxin-antitoxin system, antitoxin component, Xre family
          [Roseibium sp. TrichSKD4]
          Length = 258

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/80 (30%), Positives = 34/80 (42%), Gaps = 7/80 (8%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS---F 72
          G+ +R  R  L +SQ  L + L  T + +   E G  +     +  IS VL  PIS    
Sbjct: 12 GQALRALRRELNISQSALADRLSSTQRHLSFLETGRAQPSTQMVDRISRVLGLPISKRLS 71

Query: 73 FFD----VSPTVCSDISSEE 88
           ++     SP    D  SEE
Sbjct: 72 LYEAAGLTSPYKRRDFGSEE 91


>gi|269215841|ref|ZP_06159695.1| toxin-antitoxin system, antitoxin component, Xre family [Slackia
          exigua ATCC 700122]
 gi|269130791|gb|EEZ61867.1| toxin-antitoxin system, antitoxin component, Xre family [Slackia
          exigua ATCC 700122]
          Length = 72

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 21/57 (36%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++  R    MSQ  L   +G T Q +   E G      +    I   L   ++  F
Sbjct: 8  RMKAARAARDMSQGDLAAAVGATRQTIGLIEAGGYNPTLNLCIAICRALGCTLNDLF 64


>gi|290892233|ref|ZP_06555229.1| DNA-binding protein [Listeria monocytogenes FSL J2-071]
 gi|290558356|gb|EFD91874.1| DNA-binding protein [Listeria monocytogenes FSL J2-071]
          Length = 423

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/99 (15%), Positives = 39/99 (39%), Gaps = 1/99 (1%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +G RI+  R    ++ + + + + I+   +   E G+       L HI++ LE P     
Sbjct: 4   IGLRIKNIRKEKQLTLKDVAQGI-ISVPYLANIENGIKIASLETLIHIAKRLEVPEQILL 62

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDV 113
                   ++  E + + + +   + +++      I + 
Sbjct: 63  ISEEESNKELLKEMDAIFELLVFSNTVEMESRLNSIAEN 101


>gi|305681668|ref|ZP_07404474.1| bacteriophage CI repressor protein [Corynebacterium matruchotii
          ATCC 14266]
 gi|305658828|gb|EFM48329.1| bacteriophage CI repressor protein [Corynebacterium matruchotii
          ATCC 14266]
          Length = 95

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 24/56 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          RI+  R   G+ Q +L E  G++ + V  +E G      S L  I+      + + 
Sbjct: 18 RIQRARRHAGLEQGQLAELAGVSRKSVSNWEIGKTVPRRSALIAIAFATGVNLYWL 73


>gi|229028239|ref|ZP_04184378.1| hypothetical protein bcere0028_3680 [Bacillus cereus AH1271]
 gi|228733075|gb|EEL83918.1| hypothetical protein bcere0028_3680 [Bacillus cereus AH1271]
          Length = 83

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 23/60 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  +I   R    +SQ  L +   ++ Q +   E        +    ++EVL + +   F
Sbjct: 20 VKNQIYELRTENNISQGALADKCKVSRQTINAIENNKYDPSLALAFRLAEVLGTTVDKLF 79


>gi|291288546|ref|YP_003505362.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
 gi|290885706|gb|ADD69406.1| transcriptional regulator, XRE family [Denitrovibrio acetiphilus
          DSM 12809]
          Length = 79

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 23/56 (41%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +G+ I+  R+   ++Q +L E  G+    +   E G  R     L  I   L   +
Sbjct: 11 LGQAIKAARLEAKLTQSQLAEKTGLRQGTISDIENGTQRAKLDTLFIILSALNLDM 66


>gi|159898132|ref|YP_001544379.1| XRE family transcriptional regulator [Herpetosiphon aurantiacus
          ATCC 23779]
 gi|159891171|gb|ABX04251.1| transcriptional regulator, XRE family [Herpetosiphon aurantiacus
          ATCC 23779]
          Length = 802

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 26/55 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           + G+++R  R    ++Q  L E +G   + ++K E    R   S    ++ +L+
Sbjct: 5  RSFGQQLRDYRHQRQLTQAALAEEVGCAIESIRKMEANRQRPSRSLAARLARILQ 59


>gi|117924139|ref|YP_864756.1| XRE family transcriptional regulator [Magnetococcus sp. MC-1]
 gi|117607895|gb|ABK43350.1| transcriptional regulator, XRE family [Magnetococcus sp. MC-1]
          Length = 183

 Score = 49.0 bits (116), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 21/56 (37%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          G RIR  R    ++Q+ L +   I    +   EK       + +  I+  L   I 
Sbjct: 7  GMRIRQLRSQRKLTQQALADMAEIPRATLATVEKDDANPSLAVVYKIARALGLSID 62


>gi|328551781|gb|AEB22273.1| putative transcriptional regulator [Bacillus amyloliquefaciens
          TA208]
 gi|328910041|gb|AEB61637.1| Uncharacterized HTH-type transcriptional regulator yazB [Bacillus
          amyloliquefaciens LL3]
          Length = 75

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 27/54 (50%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          G+RIR  R + G +QE   + +GI+   + + E+G     A  ++  ++ L   
Sbjct: 7  GRRIRAFRKLKGYTQEGFAKAIGISVSILGEIERGNRLPSAVIIRDAADALNIS 60


>gi|326693522|ref|ZP_08230527.1| HTH-type transcriptional regulator [Leuconostoc argentinum KCTC
          3773]
          Length = 137

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/78 (15%), Positives = 34/78 (43%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + + ++I+L R    ++Q++L   L ++ Q V  +E        S L  +S++ +  +  
Sbjct: 1  MLISEKIKLLRQDNRLTQKELALKLHVSAQAVSNWELNKGFPDISNLIMLSDLFDITLDS 60

Query: 73 FFDVSPTVCSDISSEENN 90
                 +   +  ++ +
Sbjct: 61 LIKEDADMKEQLLQDKAS 78


>gi|325510877|gb|ADZ22513.1| Protein containing transcriptional regulator domain [Clostridium
           acetobutylicum EA 2018]
          Length = 345

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/98 (18%), Positives = 42/98 (42%), Gaps = 2/98 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + + IR  R    ++QE++   L I+   V K+E G+     + L  ++ +L+  ++   
Sbjct: 3   ISEIIRSHRKKENLTQEQVANYLNISTPAVNKWENGITYPDITLLAPLARILKIDVNTLL 62

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
             +  +     ++    +  I   +G Q  + F +  D
Sbjct: 63  AFNEELTEKEVNKLGRSVGEIVEKEGYQ--KAFEKGSD 98


>gi|325261695|ref|ZP_08128433.1| HTH DNA-binding protein [Clostridium sp. D5]
 gi|324033149|gb|EGB94426.1| HTH DNA-binding protein [Clostridium sp. D5]
          Length = 71

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 22/58 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I+  R    ++Q +L + + +T Q +   E G           I++     I   F
Sbjct: 3  NKIQQLRKERRITQSELADAVEVTRQTIISLENGRYNASLILAHKIAQYFGVNIEDIF 60


>gi|312890498|ref|ZP_07750034.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
 gi|311296956|gb|EFQ74089.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
          Length = 66

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 26/61 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +R+ R I  ++Q +L + +G++ Q +   E             I+ V   P+   F +  
Sbjct: 5  LRIERAIKNITQAELADLIGVSRQTINTIESNKYVPSTVLALKIARVFGKPVEDIFILED 64

Query: 79 T 79
          T
Sbjct: 65 T 65


>gi|259416970|ref|ZP_05740890.1| transcriptional regulator, XRE family [Silicibacter sp. TrichCH4B]
 gi|259348409|gb|EEW60186.1| transcriptional regulator, XRE family [Silicibacter sp. TrichCH4B]
          Length = 462

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/133 (10%), Positives = 49/133 (36%), Gaps = 13/133 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R  +G++Q+     LG++   + + E     V  + +  +++     ++ 
Sbjct: 6   LYAGAKLREMRNRIGLTQKDFAAKLGVSLPYLNQMENNNRPVSTTVVLALAQEFGLDVTE 65

Query: 73  FFDVSPT----------VCSDISSEENNVMDF-ISTPDGLQLNRYFIQIDDV--KVRQKI 119
                                 + +   + D  ++  +   L R F+ +     +  +++
Sbjct: 66  LSSGDSERLISDMREAMADPVFADDVPPLADLRLTASNAPALARAFLSLHRAYRQTHERL 125

Query: 120 IELVRSIVSSEKK 132
             L  ++  ++ +
Sbjct: 126 ASLDEALGRADAR 138


>gi|221214075|ref|ZP_03587048.1| transcriptional regulator, XRE family [Burkholderia multivorans
          CGD1]
 gi|221166252|gb|EED98725.1| transcriptional regulator, XRE family [Burkholderia multivorans
          CGD1]
          Length = 205

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/73 (15%), Positives = 28/73 (38%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + +R+R  R + G + + L    G++   +   E+      A  L  ++  L   +
Sbjct: 14 INERIARRVRELRTLRGYTLDALAARCGVSRSMISLIERAAASPTAVVLDKLAAGLGISL 73

Query: 71 SFFFDVSPTVCSD 83
          +  F       + 
Sbjct: 74 AGLFGGDDGAPAQ 86


>gi|194098342|ref|YP_002001400.1| Putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae NCCP11945]
 gi|193933632|gb|ACF29456.1| Putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae NCCP11945]
 gi|317164047|gb|ADV07588.1| Putative phage repressor, putative phage associated protein
           [Neisseria gonorrhoeae TCDC-NG08107]
          Length = 116

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 51/119 (42%), Gaps = 9/119 (7%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           ++  R+ LG++Q +  E  G + +   K+E+G NR  + +L   S++    I +      
Sbjct: 1   MKEERIKLGLNQAEAAEKCGFSREMWGKWERGENRPSSEKLFSFSKI-GIDIDYVMHGRR 59

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYRTIE 137
              + + SE         + +  +L   F Q+     R+++ +     +  EKK +T  
Sbjct: 60  GETAAMPSES-------LSAEEKELLALFRQLGSGS-RKELADYAAFKLVVEKKAQTAL 110


>gi|257894935|ref|ZP_05674588.1| phage CI repressor [Enterococcus faecium 1,231,408]
 gi|294620540|ref|ZP_06699842.1| Transcriptional regulator, xre family [Enterococcus faecium
          U0317]
 gi|121309458|dbj|BAF44068.1| hypothetical protein [Enterococcus faecium]
 gi|257831314|gb|EEV57921.1| phage CI repressor [Enterococcus faecium 1,231,408]
 gi|291599794|gb|EFF30797.1| Transcriptional regulator, xre family [Enterococcus faecium
          U0317]
          Length = 105

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 28/59 (47%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + + K I+ +R+   ++QE L E L ++ + +  +E G        L   +++ +  + 
Sbjct: 1  MTISKVIKQKRIEKQLTQEDLAEMLLVSKKTISNWENGRTIPDTENLIQFAKLFDLSLD 59


>gi|126698982|ref|YP_001087879.1| putative phage regulatory protein [Clostridium difficile 630]
 gi|255306343|ref|ZP_05350514.1| putative phage regulatory protein [Clostridium difficile ATCC
           43255]
 gi|115250419|emb|CAJ68241.1| Transcriptional regulator, Phage-type [Clostridium difficile]
          Length = 132

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/130 (20%), Positives = 49/130 (37%), Gaps = 19/130 (14%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +GKRI   R    ++Q KL + L   F+ + KYE G  +     L  I++       +  
Sbjct: 4   LGKRIAYLRNSKKLTQRKLMDIL--KFENLGKYETGDRKPNCDILMSIADYFNVTTDWLL 61

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
                V  + S +E          +       ++ + + ++   I+ L R +   +K   
Sbjct: 62  YGKEKVNVNSSVKE--------DKED------YLHVTNDEM--TILNLYRQLNERDKIKI 105

Query: 135 T-IEEECMVE 143
             I E  + E
Sbjct: 106 EGILELKISE 115


>gi|15896711|ref|NP_350060.1| transcriptional regulator domain-containing protein [Clostridium
           acetobutylicum ATCC 824]
 gi|15026564|gb|AAK81400.1|AE007845_1 Protein containing transcriptional regulator domain [Clostridium
           acetobutylicum ATCC 824]
          Length = 345

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/98 (18%), Positives = 42/98 (42%), Gaps = 2/98 (2%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           + + IR  R    ++QE++   L I+   V K+E G+     + L  ++ +L+  ++   
Sbjct: 3   ISEIIRSHRKKENLTQEQVANYLNISTPAVNKWENGITYPDITLLAPLARILKIDVNTLL 62

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD 112
             +  +     ++    +  I   +G Q  + F +  D
Sbjct: 63  AFNEELTEKEVNKLGRSVGEIVEKEGYQ--KAFEKGSD 98


>gi|85708592|ref|ZP_01039658.1| transcriptional regulator, Cro/CI family protein [Erythrobacter
          sp. NAP1]
 gi|85690126|gb|EAQ30129.1| transcriptional regulator, Cro/CI family protein [Erythrobacter
          sp. NAP1]
          Length = 64

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 24/61 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R     SQ +L   L ++ Q V   E G +         I+ + E  I   FD 
Sbjct: 3  NRLKVLRAERDWSQAELAGRLDVSRQAVNAIETGKHDPSLPLAFRIARLFEMGIEEIFDD 62

Query: 77 S 77
           
Sbjct: 63 E 63


>gi|251811353|ref|ZP_04825826.1| Cro/CI family transcriptional regulator [Staphylococcus
          epidermidis BCM-HMP0060]
 gi|251805102|gb|EES57759.1| Cro/CI family transcriptional regulator [Staphylococcus
          epidermidis BCM-HMP0060]
          Length = 189

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 27/56 (48%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +NV  +I+  R   G SQE L E + ++ Q +  +E   +     +L  + ++ + 
Sbjct: 1  MNVSNQIKKFRERDGYSQEFLAEKMFVSRQTISNWENDKSYPDIHKLLIMCQLFKI 56


>gi|154501529|ref|ZP_02039230.1| hypothetical protein BACCAP_04882 [Bacteroides capillosus ATCC
          29799]
 gi|150269783|gb|EDM97327.1| hypothetical protein BACCAP_04882 [Bacteroides capillosus ATCC
          29799]
          Length = 106

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 34/80 (42%), Gaps = 1/80 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF-F 73
          +G+R+R  R   G++ EKL E   I    +++ E G           +   L +   F  
Sbjct: 6  LGQRLRQARKDKGLTSEKLSELCSINATYLRQIEAGTKVPSLPVFVSLCRELGTHPDFLL 65

Query: 74 FDVSPTVCSDISSEENNVMD 93
           D  P +  +  SE ++++ 
Sbjct: 66 MDSLPGIGIEEYSELSSLLQ 85


>gi|91216775|ref|ZP_01253739.1| transcriptional regulator, XRE family protein [Psychroflexus
          torquis ATCC 700755]
 gi|91184936|gb|EAS71315.1| transcriptional regulator, XRE family protein [Psychroflexus
          torquis ATCC 700755]
          Length = 102

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 28/58 (48%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G  I+  R    ++Q +LGE +G+   Q+ K E  +       +  + + L + I+F
Sbjct: 39 IGNAIKQARKERNLTQTQLGELVGVQKSQISKLENHLTDARFETILKVFKALNAKINF 96


>gi|54298059|ref|YP_124428.1| hypothetical protein lpp2116 [Legionella pneumophila str. Paris]
 gi|53751844|emb|CAH13268.1| hypothetical protein lpp2116 [Legionella pneumophila str. Paris]
          Length = 86

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 25/59 (42%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          I +G +IR  R   G SQE L     +    + + E+G   +    L  I+ +L   + 
Sbjct: 9  IKIGDQIRTIRSSKGFSQEGLAAAATLGRTYMGRVERGEQNISIQNLIKIAFILNVNVG 67


>gi|37528293|ref|NP_931638.1| hypothetical protein plu4472 [Photorhabdus luminescens subsp.
          laumondii TTO1]
 gi|36787731|emb|CAE16844.1| unnamed protein product [Photorhabdus luminescens subsp.
          laumondii TTO1]
          Length = 86

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 37/76 (48%), Gaps = 4/76 (5%)

Query: 18 RIRLRRMILGMSQEKLGECLGI----TFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R++  R+  G+SQE+LG   GI       ++ +YE+G++    +    ++ V+  P  +F
Sbjct: 5  RLKAARLKAGLSQERLGILAGIDEATASTRMNQYERGIHTPDFALACRLASVMGIPACYF 64

Query: 74 FDVSPTVCSDISSEEN 89
          + V   +   I    N
Sbjct: 65 YVVEDDLAEIILEYAN 80


>gi|115522503|ref|YP_779414.1| anaerobic benzoate catabolism transcriptional regulator
          [Rhodopseudomonas palustris BisA53]
 gi|115516450|gb|ABJ04434.1| transcriptional regulator, XRE family with shikimate kinase
          activity [Rhodopseudomonas palustris BisA53]
          Length = 305

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 32/69 (46%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
           +G+R+R  R + GMS++ L +  GI+ + + + E G   V    L+ +S+ L +     
Sbjct: 14 QLGQRVRTMRGLRGMSRKVLAKTSGISERYIAQLESGKGNVSIVLLRRVSQALGTQPEDL 73

Query: 74 FDVSPTVCS 82
                V  
Sbjct: 74 IPAPDPVAD 82


>gi|312870364|ref|ZP_07730489.1| DNA-binding helix-turn-helix protein [Lactobacillus oris
          PB013-T2-3]
 gi|311094065|gb|EFQ52384.1| DNA-binding helix-turn-helix protein [Lactobacillus oris
          PB013-T2-3]
          Length = 214

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/76 (13%), Positives = 32/76 (42%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++I+  R     +Q+++   LG++ + +  +E G +      L  +S++    +      
Sbjct: 5  EKIKQYRAHNDWTQQEVATKLGVSRKTISSWENGRSYPDIFMLVQLSDLYHVSLDDLLRE 64

Query: 77 SPTVCSDISSEENNVM 92
             + ++   E  ++ 
Sbjct: 65 DHEMINNYKQEHASLA 80


>gi|310826855|ref|YP_003959212.1| hypothetical protein ELI_1263 [Eubacterium limosum KIST612]
 gi|308738589|gb|ADO36249.1| hypothetical protein ELI_1263 [Eubacterium limosum KIST612]
          Length = 124

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/81 (18%), Positives = 31/81 (38%), Gaps = 1/81 (1%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           RI+  R  L M+Q   G  +G+    +  YE G      + +  I +      ++    
Sbjct: 3  NRIKSLRKNLNMNQTDFGSKIGLKQTTIAGYETGSREPNDAVILSICKEFNVNENWLRSG 62

Query: 77 SPTVCSDISSEENNVMDFIST 97
             + +   +++  + DFI  
Sbjct: 63 VGEMFNK-RTKDQKIADFIGD 82


>gi|307286630|ref|ZP_07566720.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|306502259|gb|EFM71541.1| helix-turn-helix protein [Enterococcus faecalis TX0109]
 gi|315152691|gb|EFT96707.1| helix-turn-helix protein [Enterococcus faecalis TX0031]
          Length = 70

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 28/58 (48%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
            +   R  +G+SQ +L   + +T Q +  ++ G       +++ +SE+L   I+  F
Sbjct: 5  SNLSRYREEIGLSQTELARKMNVTQQCISSWQTGRTIPKPYQMKMLSEILSVSINELF 62


>gi|260597934|ref|YP_003210505.1| hypothetical protein CTU_21420 [Cronobacter turicensis z3032]
 gi|260217111|emb|CBA30892.1| hypothetical protein CTU_21420 [Cronobacter turicensis z3032]
          Length = 199

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/100 (13%), Positives = 36/100 (36%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M       + + + + +R++  R    ++ + L    G++   + + EK       + L 
Sbjct: 8   MTEPGADIDSLSVALAQRLKSWRKEHNVTLDTLSRRAGVSKGMLVELEKAAANPSIAILC 67

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
            I+  L   ++   DV+    + +       + +     G
Sbjct: 68  KIAAALGLSVADLLDVASQPAARLIEASQIPVLWTGDSGG 107


>gi|257877810|ref|ZP_05657463.1| predicted protein [Enterococcus casseliflavus EC20]
 gi|257811976|gb|EEV40796.1| predicted protein [Enterococcus casseliflavus EC20]
          Length = 166

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 25/53 (47%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++  R    ++Q  L E L ++ + + K+E G        +  I+E L+  +
Sbjct: 12 KLKEYRKKNKLTQSMLAELLEVSDKTISKWELGATYPSKKNMIKIAEELDISL 64


>gi|197106670|ref|YP_002132047.1| predicted transcriptional regulator [Phenylobacterium zucineum
           HLK1]
 gi|196480090|gb|ACG79618.1| predicted transcriptional regulator [Phenylobacterium zucineum
           HLK1]
          Length = 479

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/123 (19%), Positives = 49/123 (39%), Gaps = 13/123 (10%)

Query: 10  PVDI--NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           P D    +G R++  R  LG++Q ++ E LG++   +   E+    V A  L  ++E  +
Sbjct: 5   PTDRKLFLGARLKRLRRDLGLTQTRMAEDLGVSPSYLNLLERNQRPVTAQVLLRLAEAYD 64

Query: 68  SPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDD-----VKVRQKIIEL 122
                  D+        S+   ++ +  S      L     ++ +       V + I+ L
Sbjct: 65  ------LDLKTLSSDPESASATDLAEVFSDQMFRDLGVARHEVAEVADSAPGVSEAIVRL 118

Query: 123 VRS 125
            R+
Sbjct: 119 YRA 121


>gi|171317225|ref|ZP_02906424.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          MEX-5]
 gi|171097600|gb|EDT42435.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          MEX-5]
          Length = 203

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 9/68 (13%), Positives = 25/68 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    ++ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 26 VGEQIQRLRNERKLTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGITLDELF 85

Query: 75 DVSPTVCS 82
                 +
Sbjct: 86 SQPKAAET 93


>gi|160940976|ref|ZP_02088315.1| hypothetical protein CLOBOL_05870 [Clostridium bolteae ATCC
          BAA-613]
 gi|158436066|gb|EDP13833.1| hypothetical protein CLOBOL_05870 [Clostridium bolteae ATCC
          BAA-613]
          Length = 66

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFFD 75
          RI+  R    ++QE+L   LG+T Q +   E G           IS      I   F F+
Sbjct: 4  RIQELRKQNKVTQEELALALGVTRQTIISLENGKYNASLQLAFKISRFFGKSIEDIFLFE 63

Query: 76 VSP 78
             
Sbjct: 64 EEE 66


>gi|27311197|ref|NP_758895.1| ORF2 [Vibrio phage VHML]
 gi|26891717|gb|AAN12329.1| ORF2 [Vibrio phage VHML]
          Length = 122

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/50 (26%), Positives = 28/50 (56%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          I+ RR+   ++Q++L + +G++ +  Q+ E GV  +  S+   I + L  
Sbjct: 10 IKNRRVDANLTQKELADQVGMSEKTYQRLESGVADMKISQYYSILKALNI 59


>gi|34496365|ref|NP_900580.1| hypothetical protein CV_0910 [Chromobacterium violaceum ATCC
          12472]
 gi|34102218|gb|AAQ58584.1| hypothetical protein CV_0910 [Chromobacterium violaceum ATCC
          12472]
          Length = 167

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 37/81 (45%), Gaps = 4/81 (4%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          I+  R+  G SQ++L +  G++ + +Q+ E+G        L+ ++ V E     F +++ 
Sbjct: 3  IQKLRLQRGWSQQQLADLSGLSVRTIQRIERG-QGASVESLKSLASVFEID---FSELNK 58

Query: 79 TVCSDISSEENNVMDFISTPD 99
                 +  + +    ++ +
Sbjct: 59 EPAMMDPTTPDAIAAPAASRE 79


>gi|11499219|ref|NP_070456.1| repressor protein [Archaeoglobus fulgidus DSM 4304]
 gi|3219982|sp|O28646|Y1627_ARCFU RecName: Full=Uncharacterized HTH-type transcriptional regulator
          AF_1627
 gi|2648932|gb|AAB89623.1| repressor protein [Archaeoglobus fulgidus DSM 4304]
          Length = 71

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 25/63 (39%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          RI+  R    M+QE+L + +G+  + +   EKG           I+ V  + I   F   
Sbjct: 4  RIKEFRAKFNMTQEELAKRVGVRRETIVFLEKGKYNPSLKLAYKIARVFNAKIEDIFIFD 63

Query: 78 PTV 80
             
Sbjct: 64 EEE 66


>gi|328948817|ref|YP_004366154.1| mobile mystery protein A [Treponema succinifaciens DSM 2489]
 gi|328449141|gb|AEB14857.1| mobile mystery protein A [Treponema succinifaciens DSM 2489]
          Length = 146

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 28/56 (50%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          I+  R  +GM+  +L   LG+T  ++ K E   + +  S ++  +E +     ++F
Sbjct: 32 IKTVREAIGMTVSQLAARLGVTQPRITKMESNEDNLKLSTMKKAAEAMNCEFVYYF 87


>gi|312889566|ref|ZP_07749116.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
 gi|311297914|gb|EFQ75033.1| transcriptional regulator, XRE family [Mucilaginibacter paludis
          DSM 18603]
          Length = 83

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 26/58 (44%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          I  GKR++  R    ++  K+     + +  +Q+YE G   +    L  +++ LE   
Sbjct: 11 IQFGKRLKYLRQSKNLTYRKMALLCNVEYADIQRYETGKVNITLLSLGELAKALEVDP 68


>gi|300855118|ref|YP_003780102.1| hypothetical protein CLJU_c19380 [Clostridium ljungdahlii DSM
          13528]
 gi|300435233|gb|ADK15000.1| conserved protein with HTH domain [Clostridium ljungdahlii DSM
          13528]
          Length = 67

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 24/61 (39%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          +++  R  + M Q +L E +G+  + +   E G           I++V  + +   F   
Sbjct: 7  KVKEYREKMNMKQSELAELIGVRRETIVHLENGRYNPSLKLAMDIAKVFNTSVEELFKFE 66

Query: 78 P 78
           
Sbjct: 67 D 67


>gi|296314733|ref|ZP_06864674.1| transcriptional regulator, PvuIIC [Neisseria polysaccharea ATCC
          43768]
 gi|296838467|gb|EFH22405.1| transcriptional regulator, PvuIIC [Neisseria polysaccharea ATCC
          43768]
          Length = 81

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 31/69 (44%)

Query: 2  VGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQH 61
          +     PNP  +   + +R  R +  +SQE+L     ++   + + E+G   V    +  
Sbjct: 1  MEKPTTPNPYRLIFAQNMRQVRRLKELSQEELAFSARVSKTYISEIERGSRSVSIDVMGQ 60

Query: 62 ISEVLESPI 70
          I++ L  P+
Sbjct: 61 IADALGMPL 69


>gi|229166643|ref|ZP_04294395.1| Transcriptional regulator, Xre [Bacillus cereus AH621]
 gi|228616897|gb|EEK73970.1| Transcriptional regulator, Xre [Bacillus cereus AH621]
          Length = 404

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/70 (20%), Positives = 29/70 (41%), Gaps = 1/70 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G++I+  R    ++Q +L     +T   + + E G        LQ+I+  L    SF  
Sbjct: 4  LGEKIKTLRKEKKLTQTELAGS-ELTKSMLSQIENGKATPSMKALQYIANKLGCETSFLL 62

Query: 75 DVSPTVCSDI 84
          +       ++
Sbjct: 63 EEDDVEIVEL 72


>gi|227509640|ref|ZP_03939689.1| transcriptional regulator [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
 gi|227191002|gb|EEI71069.1| transcriptional regulator [Lactobacillus brevis subsp.
          gravesensis ATCC 27305]
          Length = 198

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 23/62 (37%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V   +R  R+  G S  KL E  G++   + + E        + +  I   L  P +   
Sbjct: 17 VSTNLRKIRLEKGFSLTKLSELSGVSKGMLSQIENNGTSPTINTIWKICAGLNVPYTALL 76

Query: 75 DV 76
          + 
Sbjct: 77 EG 78


>gi|254518788|ref|ZP_05130844.1| conserved hypothetical protein [Clostridium sp. 7_2_43FAA]
 gi|226912537|gb|EEH97738.1| conserved hypothetical protein [Clostridium sp. 7_2_43FAA]
          Length = 78

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 32/64 (50%), Gaps = 2/64 (3%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           +++  R ILG++QE+LG+ +G++ Q +   E             I++V  S I   F F
Sbjct: 3  NKLQQFREILGLTQEQLGKLVGVSRQAINAIETEKFEPYIWLAYEIAKVFRSNIEEVFLF 62

Query: 75 DVSP 78
          + S 
Sbjct: 63 EESE 66


>gi|220903711|ref|YP_002479023.1| XRE family transcriptional regulator [Desulfovibrio desulfuricans
           subsp. desulfuricans str. ATCC 27774]
 gi|219868010|gb|ACL48345.1| transcriptional regulator, XRE family [Desulfovibrio desulfuricans
           subsp. desulfuricans str. ATCC 27774]
          Length = 215

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/49 (30%), Positives = 24/49 (48%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
           +R  R+  G+SQE+L    G+    +   E+  N+   + L  ISE L 
Sbjct: 145 LRTLRVEAGLSQEQLAAQCGMDRSAISLLERQKNQPSLASLVLISEALG 193


>gi|149174410|ref|ZP_01853036.1| transciptional regulator [Planctomyces maris DSM 8797]
 gi|148846520|gb|EDL60857.1| transciptional regulator [Planctomyces maris DSM 8797]
          Length = 75

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 26/65 (40%), Gaps = 1/65 (1%)

Query: 17 KRIRLRRMILG-MSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           +IR  R     M+Q+ L   +G+T Q +   E G      +    I+   + P+   F 
Sbjct: 11 NQIRRFRFEHDEMTQQMLASHVGVTRQTIIALESGKYSPSLALALRIARTFDVPVEEIFQ 70

Query: 76 VSPTV 80
          ++   
Sbjct: 71 LTDES 75


>gi|170735407|ref|YP_001774521.1| XRE family transcriptional regulator [Burkholderia cenocepacia
          MC0-3]
 gi|169821445|gb|ACA96026.1| transcriptional regulator, XRE family [Burkholderia cenocepacia
          MC0-3]
          Length = 81

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G  +R RR+  G+SQE L    GI    + + E+G   +    L  I++ L    S
Sbjct: 17 IGATVRARRLEFGVSQEALALLTGIDRSHMGRIERGQRNLTILNLIRIADALNISPS 73


>gi|75759185|ref|ZP_00739288.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228899110|ref|ZP_04063382.1| hypothetical protein bthur0014_3380 [Bacillus thuringiensis IBL
          4222]
 gi|228906175|ref|ZP_04070064.1| hypothetical protein bthur0013_3600 [Bacillus thuringiensis IBL
          200]
 gi|228937680|ref|ZP_04100316.1| hypothetical protein bthur0008_3590 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|228950943|ref|ZP_04113064.1| hypothetical protein bthur0006_3740 [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
 gi|228956851|ref|ZP_04118636.1| hypothetical protein bthur0005_3900 [Bacillus thuringiensis
          serovar pakistani str. T13001]
 gi|228970568|ref|ZP_04131218.1| hypothetical protein bthur0003_3590 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228977138|ref|ZP_04137539.1| hypothetical protein bthur0002_3570 [Bacillus thuringiensis
          Bt407]
 gi|229077745|ref|ZP_04210374.1| hypothetical protein bcere0023_4470 [Bacillus cereus Rock4-2]
 gi|229125885|ref|ZP_04254910.1| hypothetical protein bcere0015_3490 [Bacillus cereus BDRD-Cer4]
 gi|229148790|ref|ZP_04277039.1| hypothetical protein bcere0011_3610 [Bacillus cereus m1550]
 gi|74493347|gb|EAO56460.1| Transcriptional regulator, Cro/CI family [Bacillus thuringiensis
          serovar israelensis ATCC 35646]
 gi|228634678|gb|EEK91258.1| hypothetical protein bcere0011_3610 [Bacillus cereus m1550]
 gi|228657543|gb|EEL13356.1| hypothetical protein bcere0015_3490 [Bacillus cereus BDRD-Cer4]
 gi|228705567|gb|EEL57924.1| hypothetical protein bcere0023_4470 [Bacillus cereus Rock4-2]
 gi|228782586|gb|EEM30763.1| hypothetical protein bthur0002_3570 [Bacillus thuringiensis
          Bt407]
 gi|228789155|gb|EEM37084.1| hypothetical protein bthur0003_3590 [Bacillus thuringiensis
          serovar thuringiensis str. T01001]
 gi|228802892|gb|EEM49725.1| hypothetical protein bthur0005_3900 [Bacillus thuringiensis
          serovar pakistani str. T13001]
 gi|228808670|gb|EEM55168.1| hypothetical protein bthur0006_3740 [Bacillus thuringiensis
          serovar kurstaki str. T03a001]
 gi|228821967|gb|EEM67959.1| hypothetical protein bthur0008_3590 [Bacillus thuringiensis
          serovar berliner ATCC 10792]
 gi|228853584|gb|EEM98352.1| hypothetical protein bthur0013_3600 [Bacillus thuringiensis IBL
          200]
 gi|228860551|gb|EEN04939.1| hypothetical protein bthur0014_3380 [Bacillus thuringiensis IBL
          4222]
          Length = 83

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 23/60 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          V  +I   R    +SQ  L +   ++ Q +   E        +    ++EVL + +   F
Sbjct: 20 VKNQIYELRTENNISQGALADKCKVSRQTINAIENNKYDPSLALAFRLAEVLGTTVDKLF 79


>gi|107027580|ref|YP_625091.1| XRE family transcriptional regulator [Burkholderia cenocepacia AU
          1054]
 gi|116693708|ref|YP_839241.1| XRE family transcriptional regulator [Burkholderia cenocepacia
          HI2424]
 gi|105896954|gb|ABF80118.1| transcriptional regulator, XRE family with cupin sensor
          [Burkholderia cenocepacia AU 1054]
 gi|116651708|gb|ABK12348.1| transcriptional regulator, XRE family with cupin sensor
          [Burkholderia cenocepacia HI2424]
          Length = 180

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++L R   G + + L +  G+T   + K E+G++    +    +S+ L   +   F  S
Sbjct: 4  RLKLLRKQKGWTLDVLADETGLTKSYLSKVERGLSVPSIAVALKLSKALNVDVEQLFSES 63


>gi|331090732|ref|ZP_08339579.1| hypothetical protein HMPREF9477_00222 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330399840|gb|EGG79499.1| hypothetical protein HMPREF9477_00222 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 150

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 9/54 (16%), Positives = 25/54 (46%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
           I+  R    ++Q++L + L ++ Q + ++E G         + ++  L+  + 
Sbjct: 6  NIKKFREEKNLTQQQLADKLYVSRQTICRWENGSRCPDLITAKKLALELDVSMD 59


>gi|309792311|ref|ZP_07686781.1| hypothetical protein OSCT_2732 [Oscillochloris trichoides DG6]
 gi|308225626|gb|EFO79384.1| hypothetical protein OSCT_2732 [Oscillochloris trichoides DG6]
          Length = 101

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 5/78 (6%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVLE 67
            +G+R+RLRR IL ++QE L   L      ++  Q  + E G     A +L  +  +L 
Sbjct: 21 RAIGERLRLRRTILDLTQEHLRARLELAHVYVSRTQYSRIENGDTLPSADQLIALRMILG 80

Query: 68 SPISFFFDVSPTVCSDIS 85
              +    S      +S
Sbjct: 81 VSFDWLLLGSEDSEKQLS 98


>gi|299770452|ref|YP_003732478.1| transcriptional regulator [Acinetobacter sp. DR1]
 gi|298700540|gb|ADI91105.1| transcriptional regulator [Acinetobacter sp. DR1]
          Length = 197

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/91 (16%), Positives = 35/91 (38%)

Query: 10  PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
            ++I + +++R  R+  G + + L     ++   +   E+G     A  L+ ++  L  P
Sbjct: 3   DINIRIAQQVRELRLARGYTLDILATRCQVSRSAISLIERGEASPTAVVLEKLANGLGVP 62

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDG 100
           ++  FD+     S               P+ 
Sbjct: 63  LTQLFDIPQNNQSPQPMVRRTQQSEWKDPET 93


>gi|291436130|ref|ZP_06575520.1| DNA-binding protein [Streptomyces ghanaensis ATCC 14672]
 gi|291339025|gb|EFE65981.1| DNA-binding protein [Streptomyces ghanaensis ATCC 14672]
          Length = 273

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 25/56 (44%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          VG  +R  R    +SQ +L      + + +   E G +R     +  ++E L+ P+
Sbjct: 15 VGPLLRAWREQRRISQLELALRADSSARHISFIETGRSRPSEEMVLRLAEHLDVPV 70


>gi|227888718|ref|ZP_04006523.1| XRE family transcriptional regulator [Lactobacillus johnsonii
          ATCC 33200]
 gi|227850745|gb|EEJ60831.1| XRE family transcriptional regulator [Lactobacillus johnsonii
          ATCC 33200]
          Length = 277

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 1/61 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+ ++  R  LG+SQ ++   + +T     K E+G++ + AS L  I E+ +  IS 
Sbjct: 4  MTIGEALKETRKNLGLSQTEMAYPI-LTKSYYSKIERGIHEINASDLIKILEMHDVDISE 62

Query: 73 F 73
          F
Sbjct: 63 F 63


>gi|284033097|ref|YP_003383028.1| XRE family transcriptional regulator [Kribbella flavida DSM
          17836]
 gi|283812390|gb|ADB34229.1| transcriptional regulator, XRE family [Kribbella flavida DSM
          17836]
          Length = 801

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV-NRVGASRLQHISEVLE 67
          +G  +R  R   G++Q  L E  G++ Q V   E+G   R   + +  ++E L 
Sbjct: 6  LGDLLRQFRTAAGLTQGGLAEKAGLSEQAVSLLERGTRRRPRIATVHALAEALG 59


>gi|261342972|ref|ZP_05970830.1| hypothetical protein ENTCAN_09574 [Enterobacter cancerogenus ATCC
           35316]
 gi|288314723|gb|EFC53661.1| toxin-antitoxin system, antitoxin component, Xre family
           [Enterobacter cancerogenus ATCC 35316]
          Length = 182

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/118 (16%), Positives = 40/118 (33%), Gaps = 7/118 (5%)

Query: 7   IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
           +  P+ + + K +   R+  G S  ++    GI    + + E G        L  +   L
Sbjct: 1   MTQPISV-IAKSLVRERLRTGHSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVAL 59

Query: 67  ESPISFFFD-VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELV 123
           + P +   +   PT       E   V+   +  + + L            R+ I  L+
Sbjct: 60  DIPFARLLEPQLPTTQVIRRGEGTKVIAGQANYEAILLAAC-----PPGARRDIYLLL 112


>gi|255616990|ref|XP_002539799.1| conserved hypothetical protein [Ricinus communis]
 gi|223502237|gb|EEF22585.1| conserved hypothetical protein [Ricinus communis]
          Length = 76

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 23/58 (39%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +D   G  +R  R    +SQE L    G+T   + + E G        +  + +VL  
Sbjct: 4  LDKAFGSLLRELRNERALSQEALAADAGLTRNYISQLELGSKCPSLRTVFKLCKVLGV 61


>gi|197295483|ref|YP_002154024.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
 gi|195944962|emb|CAR57578.1| putative DNA-binding protein [Burkholderia cenocepacia J2315]
          Length = 116

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/109 (15%), Positives = 40/109 (36%), Gaps = 15/109 (13%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
           R++  R  + ++Q +  E  G+  Q    YE+G  R  ++ L  ++      + +     
Sbjct: 7   RLKQERKRMRLTQPEFAELGGVHKQAQFHYERGTRRPNSNYLVGLASA-GVDVYYLLTGR 65

Query: 78  PTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSI 126
               +    E+              L+R   +  D   R  ++ L+ ++
Sbjct: 66  VATLASTVEEQQI------------LSR--YRALDADQRIAVLALIDTM 100


>gi|146337900|ref|YP_001202948.1| putative transcriptional regulator [Bradyrhizobium sp. ORS278]
 gi|146190706|emb|CAL74710.1| Conserved hypothetical protein; putative transcriptional
          regulator [Bradyrhizobium sp. ORS278]
          Length = 76

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES-PISFF 73
           +R  R   G+SQE L    G+    V + E+ V  VG   +   +EVL+  P+ FF
Sbjct: 10 NLRRIRHDRGISQEDLAHEAGVDRAYVSRIERAVTYVGLEIIGKFAEVLKVDPVEFF 66


>gi|71734977|ref|YP_275099.1| DNA-binding protein [Pseudomonas syringae pv. phaseolicola 1448A]
 gi|71555530|gb|AAZ34741.1| DNA-binding protein [Pseudomonas syringae pv. phaseolicola 1448A]
          Length = 191

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/92 (18%), Positives = 32/92 (34%), Gaps = 8/92 (8%)

Query: 14  NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
            +G +I+ +R    +    +    GI+   + K E          L  + +VL  P+S  
Sbjct: 6   YLGIQIKRQRQAQELKLADVARIAGISQGMLSKIENAQVSTSLDNLSRLCDVLGMPMSKL 65

Query: 74  FDVSPTVCSDISSEENNVMDFISTPDGLQLNR 105
           F       S            +   +GL++ R
Sbjct: 66  FSQYDQQGSSAL--------LVKADEGLEVVR 89


>gi|326407841|gb|ADZ64912.1| putative transcriptional regulator [Lactococcus lactis subsp.
          lactis CV56]
          Length = 64

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +++ R+   MSQ  L + +G+T Q +   E G           I  VL+  ++  F
Sbjct: 1  MKMARIEAEMSQADLADEVGVTRQTIGLIESGKFNPSLRLCIDICRVLKKTLNDIF 56


>gi|296111722|ref|YP_003622104.1| putative transcriptional regulator [Leuconostoc kimchii IMSNU
          11154]
 gi|295833254|gb|ADG41135.1| putative transcriptional regulator [Leuconostoc kimchii IMSNU
          11154]
          Length = 69

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 27/67 (40%), Gaps = 2/67 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS--FFF 74
           RI+  R    M+Q  L + L +T Q +   EKG          HI+ + +  I   F F
Sbjct: 3  NRIQELRKAQHMTQADLADKLEVTRQTIISLEKGKYNASLLLAHHIATLFQLKIEDIFIF 62

Query: 75 DVSPTVC 81
          +   T  
Sbjct: 63 EEDKTDA 69


>gi|212691965|ref|ZP_03300093.1| hypothetical protein BACDOR_01460 [Bacteroides dorei DSM 17855]
 gi|212665357|gb|EEB25929.1| hypothetical protein BACDOR_01460 [Bacteroides dorei DSM 17855]
          Length = 105

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 1/67 (1%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          +  N   PN V + +  R++ RR+ L ++QE L    G+ F   +++E     V    L 
Sbjct: 5  LAFNIDNPNEVALQIASRVKARRLKLDLTQEGLATRAGVKFATYRRFE-QTGEVSLRGLL 63

Query: 61 HISEVLE 67
           I+  L 
Sbjct: 64 QIAFALN 70


>gi|157151530|ref|YP_001449711.1| Cro/CI family transcriptional regulator [Streptococcus gordonii
          str. Challis substr. CH1]
 gi|157076324|gb|ABV11007.1| transcriptional regulator, Cro/CI family [Streptococcus gordonii
          str. Challis substr. CH1]
          Length = 71

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 25/58 (43%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++  R   GM+Q++L E +G+  + +   E             I+ V +  I   F++
Sbjct: 12 LKSTRESRGMTQQELAERIGVRRETILHLENNRYNPSLEMALKIARVFDLKIEDLFEL 69


>gi|126726067|ref|ZP_01741909.1| DNA-binding protein, putative [Rhodobacterales bacterium
          HTCC2150]
 gi|126705271|gb|EBA04362.1| DNA-binding protein, putative [Rhodobacterales bacterium
          HTCC2150]
          Length = 130

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/77 (14%), Positives = 37/77 (48%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          G R+   R   G++ + + E +G++ + ++ +E   +    +R+Q ++ +L   + +   
Sbjct: 20 GDRLEAARDAKGLTIKGMAEKIGVSVRTIKAWENDRSVPRGNRVQMLAGMLNVSMVWLIS 79

Query: 76 VSPTVCSDISSEENNVM 92
           +    S+++   +  +
Sbjct: 80 GTGNGTSNVAETHDRPI 96


>gi|73537860|ref|YP_298227.1| XRE family transcriptional regulator [Ralstonia eutropha JMP134]
 gi|72121197|gb|AAZ63383.1| transcriptional regulator, XRE family [Ralstonia eutropha JMP134]
          Length = 294

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 23/52 (44%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +R  R   G SQ  L    G++ + +   E G +R     +  ++E L  P+
Sbjct: 18 LRYWRGRRGYSQLALSLAAGVSQRHISFLESGRSRPSREMVLALAERLGVPL 69


>gi|54023439|ref|YP_117681.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
 gi|54014947|dbj|BAD56317.1| putative DNA-binding protein [Nocardia farcinica IFM 10152]
          Length = 104

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 23/56 (41%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R R+ R   GM Q +L + +G++   +   E G +      +   +     P+ + 
Sbjct: 18 RFRIAREAAGMEQGELAKAIGVSRTSISNAELGKHTPRKIMVNAWAMATGVPVEWL 73


>gi|331091796|ref|ZP_08340628.1| hypothetical protein HMPREF9477_01271 [Lachnospiraceae bacterium
          2_1_46FAA]
 gi|330402695|gb|EGG82262.1| hypothetical protein HMPREF9477_01271 [Lachnospiraceae bacterium
          2_1_46FAA]
          Length = 77

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/62 (17%), Positives = 29/62 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          KR++  R    ++QE + + L    +  ++YE G+  +    L  I++   +   +  ++
Sbjct: 4  KRLKDLRTDHDLTQENMADILKCHREVYRRYESGIRTIPIDYLVTIAKYYNTSTDYLLEL 63

Query: 77 SP 78
          + 
Sbjct: 64 TD 65


>gi|330807428|ref|YP_004351890.1| transcription factor, Cro/Ci family [Pseudomonas brassicacearum
          subsp. brassicacearum NFM421]
 gi|327375536|gb|AEA66886.1| Putative transcription factor, Cro/Ci family [Pseudomonas
          brassicacearum subsp. brassicacearum NFM421]
          Length = 81

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 28/59 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G  IR RR+ + +SQE L +  G+    + K E+G   V    +  I+  ++   S  
Sbjct: 17 LGASIRARRLDMRLSQEALADLAGVDRSHMGKIERGERNVTFLNILRIAMAMQCKPSDL 75


>gi|325965442|ref|YP_004243347.1| transcriptional regulator [Arthrobacter phenanthrenivorans Sphe3]
 gi|323471529|gb|ADX75213.1| putative transcriptional regulator [Arthrobacter
          phenanthrenivorans Sphe3]
          Length = 64

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/50 (28%), Positives = 27/50 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
          +RL R   G++Q +L   +G T   V ++E+G + +  + L  I++ L  
Sbjct: 2  VRLNRESQGLTQHQLATRMGSTQSVVARWERGDHEITMANLARIADALGV 51


>gi|317504406|ref|ZP_07962388.1| XRE family transcriptional regulator [Prevotella salivae DSM
          15606]
 gi|315664478|gb|EFV04163.1| XRE family transcriptional regulator [Prevotella salivae DSM
          15606]
          Length = 103

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 26/49 (53%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          ++ +R +  ++Q++L E +G   + + + E+G + +  S    I+  L 
Sbjct: 47 LKTQRKMQKLTQQQLAEMIGKKREYISQIERGNSDMQLSTFLQIANALG 95


>gi|283768743|ref|ZP_06341654.1| DNA-binding protein [Bulleidia extructa W1219]
 gi|283104529|gb|EFC05902.1| DNA-binding protein [Bulleidia extructa W1219]
          Length = 71

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/67 (16%), Positives = 32/67 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+++ R +L ++Q+++G   G++ Q +   E+G      +    I+ + +  +   F +
Sbjct: 5  NRLKIFRAMLNINQQEMGRLCGVSRQTISLIERGDYSPSVTLALTIARICDVTVEEIFYL 64

Query: 77 SPTVCSD 83
               ++
Sbjct: 65 QEEEENE 71


>gi|260580707|ref|ZP_05848533.1| conserved hypothetical protein [Haemophilus influenzae RdAW]
 gi|260092524|gb|EEW76461.1| conserved hypothetical protein [Haemophilus influenzae RdAW]
          Length = 127

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 30/58 (51%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          +IR+ R +  +SQE + E + ++     K E+G  R+   +L  I+++    +S   D
Sbjct: 6  KIRMMRELRQLSQEDMAEKMNMSPSGYAKIERGETRLQYDKLVQIAQIFNMNLSELVD 63


>gi|259502238|ref|ZP_05745140.1| transcription regulator [Lactobacillus antri DSM 16041]
 gi|259169856|gb|EEW54351.1| transcription regulator [Lactobacillus antri DSM 16041]
          Length = 212

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/76 (13%), Positives = 33/76 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          ++I+  R     +Q+++   LG++ + +  +E G +      L  +S++ +  +      
Sbjct: 5  EKIKQYRAHNNWTQQEVATKLGVSRKTISSWENGRSYPDIFMLVQLSDLYQISLDDLLRE 64

Query: 77 SPTVCSDISSEENNVM 92
             + ++   E  ++ 
Sbjct: 65 DHEMINNYKQEHASLA 80


>gi|261368944|ref|ZP_05981827.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
 gi|282568951|gb|EFB74486.1| toxin-antitoxin system, antitoxin component, Xre family
          [Subdoligranulum variabile DSM 15176]
          Length = 108

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 24/57 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G+ IR  R+   + QE L E +G++   +   E+G        L  I   LE    
Sbjct: 6  IGRNIRQYRLERDLRQEDLAEAVGVSTNYMGMVERGEKTPSLETLVAILNALEISAD 62


>gi|167835768|ref|ZP_02462651.1| DNA-binding protein [Burkholderia thailandensis MSMB43]
          Length = 187

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVS 77
          R++L R   G + + L E  G+T   + K E+G++    +    +S+ L+  +   F  S
Sbjct: 4  RLKLLRKQKGWTLDVLAEATGLTKSYLSKVERGLSVPSIAVALKLSKALQVDVEQLFSES 63


>gi|167760985|ref|ZP_02433112.1| hypothetical protein CLOSCI_03383 [Clostridium scindens ATCC
          35704]
 gi|167661364|gb|EDS05494.1| hypothetical protein CLOSCI_03383 [Clostridium scindens ATCC
          35704]
          Length = 166

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 24/51 (47%)

Query: 21 LRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          + R + G SQE++ E + I+ Q   K+E G       +   ++EV    I 
Sbjct: 25 MLRKLKGFSQEEIAEKIDISRQAYGKWESGETIPDIEKCALLAEVYGITID 75


>gi|170739572|ref|YP_001768227.1| XRE family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168193846|gb|ACA15793.1| transcriptional regulator, XRE family [Methylobacterium sp. 4-46]
          Length = 103

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQ-VQKYEKGVNRVGASRLQHISEVLESPISFF 73
          G+ ++  R   G+SQ +L   +G  +   + + E G  R+   R +  +E LE  +  F
Sbjct: 21 GRYLKELREARGLSQRQLAALVGAEYYTFISQLETGRGRIPPDRYRAWAEALEVDVRHF 79


>gi|221069664|ref|ZP_03545769.1| transcriptional regulator, XRE family with shikimate kinase
          activity [Comamonas testosteroni KF-1]
 gi|220714687|gb|EED70055.1| transcriptional regulator, XRE family with shikimate kinase
          activity [Comamonas testosteroni KF-1]
          Length = 300

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 34/69 (49%)

Query: 3  GNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          G++   +P+   +G+R+R  R   G+++  L     ++ + +   E G   V    LQ I
Sbjct: 14 GDEAGKSPLLQALGERVRNLRARRGLTRRGLASAAVVSERHLANLEYGTGNVSILVLQQI 73

Query: 63 SEVLESPIS 71
          ++ L+  ++
Sbjct: 74 AQALQCSMA 82


>gi|91790200|ref|YP_551152.1| XRE family transcriptional regulator [Polaromonas sp. JS666]
 gi|91699425|gb|ABE46254.1| transcriptional regulator, XRE family [Polaromonas sp. JS666]
          Length = 197

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 25/59 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          VG+ ++  R    +S + L    G++   + + E+       + L  ++  L   I+ F
Sbjct: 16 VGETLKTLRQSQRLSLDDLSRRAGVSKSMLSQIERNEANPTVAILWRLASALGIDITDF 74


>gi|119383973|ref|YP_915029.1| XRE family transcriptional regulator [Paracoccus denitrificans
          PD1222]
 gi|119373740|gb|ABL69333.1| putative transcriptional regulator, XRE family [Paracoccus
          denitrificans PD1222]
          Length = 85

 Score = 48.7 bits (115), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 29/53 (54%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +R  R  + +SQE+L    G++ + +   E G ++     ++ +++ L++ ++
Sbjct: 20 LRRHRKNMELSQEELAFRAGLSMRYISLLESGKHQPSLGTMKALADALDTSLT 72


>gi|310829679|ref|YP_003962036.1| prophage Lp1 protein 8 [Eubacterium limosum KIST612]
 gi|308741413|gb|ADO39073.1| prophage Lp1 protein 8 [Eubacterium limosum KIST612]
          Length = 243

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 27/79 (34%), Gaps = 4/79 (5%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R  R    ++Q ++   LGI    +  YE G        +  +    +      F+ 
Sbjct: 11 ARLRELRKSHKLTQAQMAARLGIAPASLSYYESGERLPDLRVMDTLYNEFDVS----FEY 66

Query: 77 SPTVCSDISSEENNVMDFI 95
                     +  V+DF+
Sbjct: 67 MLGYTQSPLPPDPTVLDFL 85


>gi|291485900|dbj|BAI86975.1| hypothetical protein BSNT_05104 [Bacillus subtilis subsp. natto
          BEST195]
          Length = 139

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/79 (16%), Positives = 32/79 (40%), Gaps = 5/79 (6%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESPISFFF 74
          G+++R  R    ++  +L    GI+   + K E G       + ++ ++ VL+ P    +
Sbjct: 5  GQQLRELRRARKLTVNQLAVYSGISSATISKIENGKRGTPKPATIKKLAAVLKVP----Y 60

Query: 75 DVSPTVCSDISSEENNVMD 93
          +        I +    + +
Sbjct: 61 ENLMAAAGHIQAFPEEIRE 79


>gi|284802768|ref|YP_003414633.1| hypothetical protein LM5578_2524 [Listeria monocytogenes 08-5578]
 gi|284995910|ref|YP_003417678.1| hypothetical protein LM5923_2475 [Listeria monocytogenes 08-5923]
 gi|284058330|gb|ADB69271.1| hypothetical protein LM5578_2524 [Listeria monocytogenes 08-5578]
 gi|284061377|gb|ADB72316.1| hypothetical protein LM5923_2475 [Listeria monocytogenes 08-5923]
          Length = 83

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 31/65 (47%)

Query: 20 RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPT 79
          +L R   G++Q++L E +G+    ++K E G      +    IS++L + +   F     
Sbjct: 6  KLIRNKNGLTQKELAEKVGLAEISIRKIENGERDPSINTAVRISKILNTKMEIIFPDIFL 65

Query: 80 VCSDI 84
          + +D 
Sbjct: 66 ITNDT 70


>gi|221215602|ref|ZP_03588565.1| transcriptional regulator PuuR [Burkholderia multivorans CGD1]
 gi|221164590|gb|EED97073.1| transcriptional regulator PuuR [Burkholderia multivorans CGD1]
          Length = 189

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/106 (17%), Positives = 39/106 (36%), Gaps = 4/106 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   + +       V +R+R  R   G+SQ +L +  G+T   +   E+G        L+
Sbjct: 1   MSETESMSTE----VAERLRFVRNKHGLSQRELAKRAGVTNGTISLIEQGRVSPSVGSLK 56

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
            + E +   ++ FF         + S  + + +  +      L   
Sbjct: 57  KLLECIPMSLAEFFTFELVESRSVVSRRDEMPNLGNESLAFHLVGA 102


>gi|167917945|ref|ZP_02505036.1| DNA-binding protein [Burkholderia pseudomallei BCC215]
          Length = 187

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          R++L R   G + + L E  G+T   + K E+G++    +    +S+ L+  +   F
Sbjct: 4  RLKLLRKQKGWTLDVLAEATGLTKSYLSKVERGLSVPSIAVALKLSKALQVDVEQLF 60


>gi|116695076|ref|YP_840652.1| transcriptional regulator [Ralstonia eutropha H16]
 gi|113529575|emb|CAJ95922.1| transcriptional regulator [Ralstonia eutropha H16]
          Length = 245

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 29/72 (40%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           GKR+R  R   G +   L E  G++   + + E+G   +G      + + L+  +   F 
Sbjct: 29  GKRLRAARKAFGWTLAHLAELSGVSITTISRAERGQLALGYENFAALGQALQMDMGSMFA 88

Query: 76  VSPTVCSDISSE 87
            + T  S     
Sbjct: 89  GAGTKTSPFQGP 100


>gi|326571770|gb|EGE21779.1| helix-turn-helix domain-containing protein [Moraxella catarrhalis
          BC7]
          Length = 131

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          ++I   R    ++QE++   LG++       E+   R+   RL+ I+ +    I+
Sbjct: 5  EKICFIREKQNLTQEQMANELGLSTNGYANLERSETRLSVDRLEQIANIFGVGIT 59


>gi|319745429|gb|EFV97735.1| rgg/GadR/MutR family transcriptional activator [Streptococcus
           agalactiae ATCC 13813]
          Length = 287

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 39/92 (42%), Gaps = 1/92 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +GK +R  R    +S   L +   ++  Q+ ++E+G + +  SRL +I + L   I  
Sbjct: 8   KELGKTLRRLRKGKKVSISSLADE-HLSKSQISRFERGESEITCSRLLNILDKLNITIDE 66

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           F  +     +      N V  + +  +  +L 
Sbjct: 67  FVSIHSKAHTHFFILLNRVRKYCAEKNVTKLV 98


>gi|268611394|ref|ZP_06145121.1| transcriptional regulator, XRE family protein [Ruminococcus
          flavefaciens FD-1]
          Length = 78

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 24/56 (42%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          RIR  R    M+Q  + + L  + Q   +YE     +    L  ++E  ++ + + 
Sbjct: 8  RIRDLREDNDMTQAAMAKILRCSQQTYSRYESHTTEIPLESLIALAEYYDTSVDYL 63


>gi|225016335|ref|ZP_03705527.1| hypothetical protein CLOSTMETH_00238 [Clostridium methylpentosum
          DSM 5476]
 gi|224950878|gb|EEG32087.1| hypothetical protein CLOSTMETH_00238 [Clostridium methylpentosum
          DSM 5476]
          Length = 81

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 27/64 (42%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +    G+ I+  R     SQEKL E  G+    +   E G   +  + ++ I++ LE   
Sbjct: 16 IKKIFGENIKKYRKQKSFSQEKLAELSGLHRTYISAVECGRRSISLNNIEKIADALEVET 75

Query: 71 SFFF 74
             F
Sbjct: 76 YQLF 79


>gi|237809615|ref|YP_002894055.1| transcriptional regulator, XRE family [Tolumonas auensis DSM 9187]
 gi|237501876|gb|ACQ94469.1| transcriptional regulator, XRE family [Tolumonas auensis DSM 9187]
          Length = 151

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 38/75 (50%), Gaps = 6/75 (8%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL------ESP 69
           G+ +R  R  + +SQ+ +GE +G++ Q + ++EK  ++   S    I ++       +S 
Sbjct: 57  GEELRYLRKTMNLSQKAIGEQIGLSEQTIARWEKDESKPSRSEDAVIRDLYCEYIDSDSK 116

Query: 70  ISFFFDVSPTVCSDI 84
           ISFF     +  ++ 
Sbjct: 117 ISFFLKAIASAEAEA 131


>gi|221201363|ref|ZP_03574402.1| transcriptional regulator, XRE family [Burkholderia multivorans
          CGD2M]
 gi|221208843|ref|ZP_03581841.1| transcriptional regulator, XRE family [Burkholderia multivorans
          CGD2]
 gi|221171299|gb|EEE03748.1| transcriptional regulator, XRE family [Burkholderia multivorans
          CGD2]
 gi|221178631|gb|EEE11039.1| transcriptional regulator, XRE family [Burkholderia multivorans
          CGD2M]
          Length = 205

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 11/73 (15%), Positives = 28/73 (38%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  + +R+R  R + G + + L    G++   +   E+      A  L  ++  L   +
Sbjct: 14 INERIARRVRELRTLRGYTLDALAARCGVSRSMISLIERAAASPTAVVLDKLAAGLGISL 73

Query: 71 SFFFDVSPTVCSD 83
          +  F       + 
Sbjct: 74 AGLFGGDDGAPAQ 86


>gi|170732119|ref|YP_001764066.1| Cro/CI family transcriptional regulator [Burkholderia cenocepacia
           MC0-3]
 gi|169815361|gb|ACA89944.1| transcriptional regulator, Cro/CI family [Burkholderia cenocepacia
           MC0-3]
          Length = 106

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 21/117 (17%), Positives = 46/117 (39%), Gaps = 15/117 (12%)

Query: 16  GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
           G+R++  R+ LG++Q +      +  +   +YEKG+ R  +  L+ I+      + +   
Sbjct: 5   GERLKCERVRLGLNQTEFAALGAVKQRAQYQYEKGLRRPNSDYLRAIALA-GVDVWYVLT 63

Query: 76  VSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKK 132
              +   +   E   V  F              +  D + R+ I+ L+ +I     +
Sbjct: 64  GEESARLENLDERRIVSGF--------------RALDARKREVILALIEAIAERSSQ 106


>gi|116252575|ref|YP_768413.1| helix-turn-helix transcriptional regulatory protein [Rhizobium
          leguminosarum bv. viciae 3841]
 gi|115257223|emb|CAK08318.1| putative helix-turn-helix transcriptional regulatory protein
          [Rhizobium leguminosarum bv. viciae 3841]
          Length = 264

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 27/61 (44%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P   ++G  +R  R    MSQ  L     I+ + +   E G +      L H++E L+ P
Sbjct: 3  PTARSLGDHLREWRQRRRMSQLDLALEAEISQRHLSFIESGRSTPSRDMLLHLAERLDVP 62

Query: 70 I 70
          +
Sbjct: 63 L 63


>gi|17229533|ref|NP_486081.1| hypothetical protein asr2041 [Nostoc sp. PCC 7120]
 gi|17131132|dbj|BAB73740.1| asr2041 [Nostoc sp. PCC 7120]
          Length = 80

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/48 (31%), Positives = 29/48 (60%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
          +G+ I+  R+++G++QE+    LG+TF  V ++E G  +     +Q I
Sbjct: 14 IGQFIQEIRLVMGLTQEEFAVILGVTFPTVNRWENGHTKPSKLAIQQI 61


>gi|76818409|ref|YP_336666.1| putative DNA-binding protein [Burkholderia pseudomallei 1710b]
 gi|126445514|ref|YP_001061010.1| DNA-binding protein [Burkholderia pseudomallei 668]
 gi|126456620|ref|YP_001074047.1| DNA-binding cupin domain-containing protein [Burkholderia
          pseudomallei 1106a]
 gi|167721896|ref|ZP_02405132.1| DNA-binding protein [Burkholderia pseudomallei DM98]
 gi|167847952|ref|ZP_02473460.1| DNA-binding protein [Burkholderia pseudomallei B7210]
 gi|237508050|ref|ZP_04520765.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei
          MSHR346]
 gi|242312736|ref|ZP_04811753.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei
          1106b]
 gi|254185569|ref|ZP_04892156.1| DNA-binding protein [Burkholderia pseudomallei 1655]
 gi|254192180|ref|ZP_04898678.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei
          Pasteur 52237]
 gi|254264681|ref|ZP_04955546.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei
          1710a]
 gi|76582882|gb|ABA52356.1| putative DNA-binding protein [Burkholderia pseudomallei 1710b]
 gi|126225005|gb|ABN88510.1| DNA-binding protein [Burkholderia pseudomallei 668]
 gi|126230388|gb|ABN93801.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei
          1106a]
 gi|157987660|gb|EDO95427.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei
          Pasteur 52237]
 gi|184209803|gb|EDU06846.1| DNA-binding protein [Burkholderia pseudomallei 1655]
 gi|235000255|gb|EEP49679.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei
          MSHR346]
 gi|242135975|gb|EES22378.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei
          1106b]
 gi|254215683|gb|EET05068.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei
          1710a]
          Length = 202

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 9/68 (13%), Positives = 25/68 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    ++ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 25 VGEQIQRLRNERKLTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGISLDELF 84

Query: 75 DVSPTVCS 82
                 +
Sbjct: 85 AQPKAPET 92


>gi|53716036|ref|YP_104861.1| DNA-binding protein [Burkholderia mallei ATCC 23344]
 gi|53721043|ref|YP_110028.1| DNA-binding protein [Burkholderia pseudomallei K96243]
 gi|67642050|ref|ZP_00440812.1| DNA-binding protein [Burkholderia mallei GB8 horse 4]
 gi|121596499|ref|YP_990749.1| DNA-binding protein [Burkholderia mallei SAVP1]
 gi|124381530|ref|YP_001025232.1| DNA-binding protein [Burkholderia mallei NCTC 10229]
 gi|126447905|ref|YP_001077212.1| DNA-binding protein [Burkholderia mallei NCTC 10247]
 gi|134283993|ref|ZP_01770688.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei 305]
 gi|166998988|ref|ZP_02264838.1| DNA-binding protein [Burkholderia mallei PRL-20]
 gi|167821625|ref|ZP_02453305.1| DNA-binding protein [Burkholderia pseudomallei 91]
 gi|254179132|ref|ZP_04885785.1| DNA-binding protein [Burkholderia mallei ATCC 10399]
 gi|254204277|ref|ZP_04910635.1| DNA-binding protein [Burkholderia mallei FMH]
 gi|254209445|ref|ZP_04915790.1| DNA-binding protein [Burkholderia mallei JHU]
 gi|254301893|ref|ZP_04969335.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei 406e]
 gi|254359589|ref|ZP_04975861.1| DNA-binding protein [Burkholderia mallei 2002721280]
 gi|52211457|emb|CAH37447.1| putative DNA-binding protein [Burkholderia pseudomallei K96243]
 gi|52422006|gb|AAU45576.1| DNA-binding protein [Burkholderia mallei ATCC 23344]
 gi|121224297|gb|ABM47828.1| DNA-binding protein [Burkholderia mallei SAVP1]
 gi|126240759|gb|ABO03871.1| DNA-binding protein [Burkholderia mallei NCTC 10247]
 gi|134244604|gb|EBA44703.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei 305]
 gi|147744814|gb|EDK51896.1| DNA-binding protein [Burkholderia mallei FMH]
 gi|147749965|gb|EDK57037.1| DNA-binding protein [Burkholderia mallei JHU]
 gi|148028776|gb|EDK86736.1| DNA-binding protein [Burkholderia mallei 2002721280]
 gi|157825063|gb|EDO88955.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei 406e]
 gi|160694650|gb|EDP84659.1| DNA-binding protein [Burkholderia mallei ATCC 10399]
 gi|238523111|gb|EEP86551.1| DNA-binding protein [Burkholderia mallei GB8 horse 4]
 gi|243064807|gb|EES46993.1| DNA-binding protein [Burkholderia mallei PRL-20]
 gi|261826366|gb|ABM99779.2| DNA-binding protein [Burkholderia mallei NCTC 10229]
          Length = 202

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 9/68 (13%), Positives = 25/68 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    ++ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 25 VGEQIQRLRNERKLTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGISLDELF 84

Query: 75 DVSPTVCS 82
                 +
Sbjct: 85 AQPKAPET 92


>gi|297571861|ref|YP_003697635.1| XRE family transcriptional regulator [Arcanobacterium
          haemolyticum DSM 20595]
 gi|296932208|gb|ADH93016.1| transcriptional regulator, XRE family [Arcanobacterium
          haemolyticum DSM 20595]
          Length = 109

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 2/64 (3%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +G RIR  R   GMS   L E      +   + + E G        L  +S +L +P+  
Sbjct: 6  IGTRIREIREEQGMSARALAEKADGVFSQATLSRIESGKREPKLDELLVLSWLLSTPLDE 65

Query: 73 FFDV 76
          F D 
Sbjct: 66 FTDD 69


>gi|257791632|ref|YP_003182238.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|317487901|ref|ZP_07946493.1| hypothetical protein HMPREF1023_00191 [Eggerthella sp. 1_3_56FAA]
 gi|325830585|ref|ZP_08164006.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
 gi|257475529|gb|ACV55849.1| transcriptional regulator, XRE family [Eggerthella lenta DSM
          2243]
 gi|316913027|gb|EFV34544.1| hypothetical protein HMPREF1023_00191 [Eggerthella sp. 1_3_56FAA]
 gi|325487331|gb|EGC89773.1| DNA-binding helix-turn-helix protein [Eggerthella sp. HGA1]
          Length = 68

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 21/58 (36%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           R+   R   G+ QE L   LG++ Q +   EKG           I+      I   F
Sbjct: 3  NRLEEIRKARGIKQEDLALELGVSRQTISSLEKGRYNPSILLAFKIARRFGLQIEDVF 60


>gi|218289525|ref|ZP_03493753.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
 gi|218240393|gb|EED07575.1| transcriptional regulator, XRE family [Alicyclobacillus
          acidocaldarius LAA1]
          Length = 223

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 24/55 (43%), Gaps = 1/55 (1%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVN-RVGASRLQHISEVLESP 69
          G+ +R  R    ++  +L    G++   + + E G   R     L+ ++  L+ P
Sbjct: 5  GQYLRKLRKERNLTINQLALYSGVSSALISRIENGQRGRPKPDTLKKLASALKVP 59


>gi|89072606|ref|ZP_01159178.1| hypothetical transcriptional regulator [Photobacterium sp. SKA34]
 gi|89051710|gb|EAR57163.1| hypothetical transcriptional regulator [Photobacterium sp. SKA34]
          Length = 213

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 36/81 (44%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
          +RI+    + G+SQ++LGE L +    + +   G   +    L  I++ L + I +    
Sbjct: 5  ERIKRLAKVQGISQKQLGEALDLQQGTMSRKLSGKYGIEVRELDKIADTLNTSIGYILTG 64

Query: 77 SPTVCSDISSEENNVMDFIST 97
               +  ++  +  +D  +T
Sbjct: 65 QVDTGTQATTTISTELDSAAT 85


>gi|253754693|ref|YP_003027833.1| DNA-binding protein [Streptococcus suis BM407]
 gi|251817157|emb|CAZ54878.1| putative DNA-binding protein [Streptococcus suis BM407]
          Length = 301

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 20/88 (22%), Positives = 42/88 (47%), Gaps = 2/88 (2%)

Query: 12 DINVGKRIRLRRMILGMSQEKLG-ECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          D   G+R+R  R    M++E+   + L ++ +Q+ + E G ++   S++Q+I+  L   +
Sbjct: 3  DKEFGQRVRQLRESASMTREQFCDDELELSVRQLTRIEAGASKPTFSKIQYIATRLGMGL 62

Query: 71 SFFFDVSPTVCSDISSEENNVMDFISTP 98
             +++ P   S          D + TP
Sbjct: 63 G-LYELMPDYVSLPERYSKLKFDVLRTP 89


>gi|251772691|gb|EES53255.1| putative phage repressor [Leptospirillum ferrodiazotrophum]
          Length = 227

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 24/61 (39%), Gaps = 1/61 (1%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G R++  R    +SQ  L E  G+  Q +   E    +     L  +++ L     +
Sbjct: 2  MTLGDRLKEARTKRKLSQTALSEKSGVPQQTIHAIENKKAK-STGHLFPLAKALHINPEW 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|228958663|ref|ZP_04120381.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|229109833|ref|ZP_04239418.1| Transcriptional regulator, XRE [Bacillus cereus Rock1-15]
 gi|229127789|ref|ZP_04256776.1| Transcriptional regulator, XRE [Bacillus cereus BDRD-Cer4]
 gi|229153781|ref|ZP_04281918.1| Transcriptional regulator, XRE [Bacillus cereus m1550]
 gi|228629684|gb|EEK86375.1| Transcriptional regulator, XRE [Bacillus cereus m1550]
 gi|228655667|gb|EEL11518.1| Transcriptional regulator, XRE [Bacillus cereus BDRD-Cer4]
 gi|228673678|gb|EEL28937.1| Transcriptional regulator, XRE [Bacillus cereus Rock1-15]
 gi|228801084|gb|EEM47983.1| Transcriptional regulator, XRE [Bacillus thuringiensis serovar
          pakistani str. T13001]
          Length = 192

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 38/89 (42%), Gaps = 3/89 (3%)

Query: 1  MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
          M G+  + +     +G+ +   R    M+  +  +  GI+   + + E+G      + L+
Sbjct: 1  MKGSFTMIHD---RLGQTVLSYRKKNNMTIREFADYAGISTSLISQIERGHANPSLNVLE 57

Query: 61 HISEVLESPISFFFDVSPTVCSDISSEEN 89
           I++ L  P+   F       S IS +++
Sbjct: 58 LIAKALNVPLFTLFINDIDTDSLISKKKD 86


>gi|228983647|ref|ZP_04143850.1| hypothetical protein bthur0001_3690 [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
 gi|229021982|ref|ZP_04178541.1| hypothetical protein bcere0029_3480 [Bacillus cereus AH1272]
 gi|229154155|ref|ZP_04282279.1| hypothetical protein bcere0010_3570 [Bacillus cereus ATCC 4342]
 gi|228629291|gb|EEK85994.1| hypothetical protein bcere0010_3570 [Bacillus cereus ATCC 4342]
 gi|228739322|gb|EEL89759.1| hypothetical protein bcere0029_3480 [Bacillus cereus AH1272]
 gi|228776085|gb|EEM24448.1| hypothetical protein bthur0001_3690 [Bacillus thuringiensis
          serovar tochigiensis BGSC 4Y1]
 gi|324324489|gb|ADY19749.1| DNA-binding protein [Bacillus thuringiensis serovar finitimus
          YBT-020]
          Length = 64

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 22/58 (37%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           +I   R    +SQ  L +   ++ Q +   E        +    ++EVL + +   F
Sbjct: 3  NQIYELRTENNISQGALADKCKVSRQTINAIENNKYDPSLALAFRLAEVLGTTVDKLF 60


>gi|239825658|ref|YP_002948282.1| XRE family transcriptional regulator [Geobacillus sp. WCH70]
 gi|239805951|gb|ACS23016.1| transcriptional regulator, XRE family [Geobacillus sp. WCH70]
          Length = 73

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 30/55 (54%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          G+RIR  R + G +QE+L + LG++   + + E+G        ++ I+E L   +
Sbjct: 7  GRRIRAFRKLKGYTQERLAKDLGVSVSILGEVERGNRLPSEQLIEKIAERLNISV 61


>gi|153854035|ref|ZP_01995368.1| hypothetical protein DORLON_01359 [Dorea longicatena DSM 13814]
 gi|225375773|ref|ZP_03752994.1| hypothetical protein ROSEINA2194_01405 [Roseburia inulinivorans
          DSM 16841]
 gi|149753417|gb|EDM63348.1| hypothetical protein DORLON_01359 [Dorea longicatena DSM 13814]
 gi|225212370|gb|EEG94724.1| hypothetical protein ROSEINA2194_01405 [Roseburia inulinivorans
          DSM 16841]
 gi|291521441|emb|CBK79734.1| Helix-turn-helix [Coprococcus catus GD/7]
          Length = 78

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 5/70 (7%)

Query: 12 DINVGKRIRLRRMILGMSQEKLGECLG-----ITFQQVQKYEKGVNRVGASRLQHISEVL 66
          D+++GK I+  R    M+Q+++   L      IT     K E     + AS L  ++++ 
Sbjct: 7  DMDIGKNIQAIRYKNNMTQDQVVAKLNLMGISITKSTYAKLETNRMNIKASELVALAKLF 66

Query: 67 ESPISFFFDV 76
           + I+ FF  
Sbjct: 67 HTDINAFFSG 76


>gi|27764000|emb|CAD60517.1| Cinorf4 protein [Streptomyces cinnamoneus]
          Length = 190

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 10/84 (11%), Positives = 28/84 (33%), Gaps = 2/84 (2%)

Query: 17  KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           + ++  R     + + L    G++   + + E+            +++ L   I+   D 
Sbjct: 13  RNLKRWRGERHFTLDALAARSGVSRGMIIQIEQARTNPSVGTTVKLADALGVSITTLLDY 72

Query: 77  SPTVCSDISSEENNVMDFISTPDG 100
                  +  EE  V   + + + 
Sbjct: 73  EQGARVRLVPEEQVVR--MWSTEA 94


>gi|78066449|ref|YP_369218.1| XRE family transcriptional regulator [Burkholderia sp. 383]
 gi|77967194|gb|ABB08574.1| transcriptional regulator, XRE family [Burkholderia sp. 383]
          Length = 93

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +G  +R RR+  G+SQE L    GI    + + E+G   +    L  I++ L    S
Sbjct: 29 IGATVRARRLEFGVSQEALALLTGIDRSHMGRIERGQRNLTILNLIRIADALNISPS 85


>gi|83941659|ref|ZP_00954121.1| DNA binding protein, putative [Sulfitobacter sp. EE-36]
 gi|83847479|gb|EAP85354.1| DNA binding protein, putative [Sulfitobacter sp. EE-36]
          Length = 173

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 12/64 (18%), Positives = 30/64 (46%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          ++  R   G+S + + +  G++   V + E+G +    + L +++  L+   +   D +P
Sbjct: 1  MKAARTAQGLSLDAVAKLSGVSRSMVSQIERGESSPTIATLWNLTRALQVDFAGLLDSAP 60

Query: 79 TVCS 82
          T   
Sbjct: 61 TPAQ 64


>gi|186687142|ref|YP_001870285.1| XRE family transcriptional regulator [Nostoc punctiforme PCC 73102]
 gi|186469445|gb|ACC85244.1| transcriptional regulator, XRE family [Nostoc punctiforme PCC
           73102]
          Length = 116

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 35/86 (40%), Gaps = 1/86 (1%)

Query: 18  RIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFDV 76
           +++  R   G+SQ +L    G + Q +QK E+G    +    L    EVLE       + 
Sbjct: 6   KLKKTREAKGLSQNELARKTGYSLQNIQKIEQGRAASITFDALGRFCEVLECQPGDILEW 65

Query: 77  SPTVCSDISSEENNVMDFISTPDGLQ 102
            P    D +   +N     +  + ++
Sbjct: 66  RPNNIDDKTGHSSNDEVLKTASEEVE 91


>gi|22537633|ref|NP_688484.1| MutR family transcriptional regulator [Streptococcus agalactiae
           2603V/R]
 gi|25011597|ref|NP_735992.1| hypothetical protein gbs1555 [Streptococcus agalactiae NEM316]
 gi|76787405|ref|YP_330126.1| Rgg/GadR/MutR family transcriptional regulator [Streptococcus
           agalactiae A909]
 gi|77414740|ref|ZP_00790868.1| transcriptional regulator, MutR family [Streptococcus agalactiae
           515]
 gi|22534519|gb|AAN00357.1|AE014260_13 transcriptional regulator, MutR family [Streptococcus agalactiae
           2603V/R]
 gi|24413136|emb|CAD47214.1| Unknown [Streptococcus agalactiae NEM316]
 gi|76562462|gb|ABA45046.1| transcriptional activator, Rgg/GadR/MutR family [Streptococcus
           agalactiae A909]
 gi|77159207|gb|EAO70390.1| transcriptional regulator, MutR family [Streptococcus agalactiae
           515]
          Length = 282

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 39/92 (42%), Gaps = 1/92 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
             +GK +R  R    +S   L +   ++  Q+ ++E+G + +  SRL +I + L   I  
Sbjct: 3   KELGKTLRRLRKGKKVSISSLADE-HLSKSQISRFERGESEITCSRLLNILDKLNITIDE 61

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
           F  +     +      N V  + +  +  +L 
Sbjct: 62  FVSIHSKAHTHFFILLNRVRKYCAEKNVTKLV 93


>gi|257868389|ref|ZP_05648042.1| predicted protein [Enterococcus casseliflavus EC30]
 gi|257802503|gb|EEV31375.1| predicted protein [Enterococcus casseliflavus EC30]
          Length = 211

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++  R+   ++Q++L E L ++ + + K+E G        +  ISE+L   I
Sbjct: 12 KLKEYRIANSLTQQELAEILDVSDKSISKWELGDTYPSKKNVIKISELLGISI 64


>gi|257438941|ref|ZP_05614696.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
 gi|257198619|gb|EEU96903.1| toxin-antitoxin system, antitoxin component, Xre family
          [Faecalibacterium prausnitzii A2-165]
          Length = 100

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/75 (18%), Positives = 38/75 (50%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+R+   R +   +Q+ L + LGI+   ++ +E+G +   ++ L  I ++  +   +  
Sbjct: 2  LGERLAELRKLNDDTQQTLADKLGISVWSIRAWEQGKSYPFSNVLLAICKLYGTSADYLL 61

Query: 75 DVSPTVCSDISSEEN 89
           ++    SD + ++ 
Sbjct: 62 GLTDIDPSDEARKQR 76


>gi|226951015|ref|YP_002806106.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
 gi|226841154|gb|ACO83820.1| DNA-binding protein [Clostridium botulinum A2 str. Kyoto]
          Length = 220

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 24/101 (23%), Positives = 45/101 (44%), Gaps = 12/101 (11%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL-----ESP 69
           V  +I+  R+  G++Q++L + LG+    + + E G   +  S +  IS+VL     +  
Sbjct: 4   VSNKIKEARLKKGLTQKQLAKKLGVAENFINEVESGRKIINESLMNRISKVLGKGINDIG 63

Query: 70  ISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQI 110
           ISF  +VS     + S  ++N +  +           F  I
Sbjct: 64  ISFEEEVSLESKRETSINKDNKIKDVWD-------NAFSSI 97


>gi|255308106|ref|ZP_05352277.1| putative transcriptional regulator [Clostridium difficile ATCC
          43255]
          Length = 141

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 12/68 (17%), Positives = 29/68 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          + + ++  R I   +QE+L E L ++ Q + K+E G +         ++++    +    
Sbjct: 2  INENLKSLRKINQYTQEELAEKLNVSRQSIAKWESGESIPDIGSCIKLAKLYNVKLDDLV 61

Query: 75 DVSPTVCS 82
          + S     
Sbjct: 62 NHSEEKTG 69


>gi|225573061|ref|ZP_03781816.1| hypothetical protein RUMHYD_01252 [Blautia hydrogenotrophica DSM
          10507]
 gi|225039587|gb|EEG49833.1| hypothetical protein RUMHYD_01252 [Blautia hydrogenotrophica DSM
          10507]
          Length = 110

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/82 (20%), Positives = 29/82 (35%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
            +R+ R   G +Q  +G  L I  Q    YE G           I+E+L   ++     
Sbjct: 8  NNLRVLRTARGYTQAYMGHKLHIQRQSYCNYENGQRSPSLEITSSIAEILGVDLNTLITA 67

Query: 77 SPTVCSDISSEENNVMDFISTP 98
                    +   + D++S P
Sbjct: 68 KLPADVLTKEDLAVLEDYLSLP 89


>gi|254390935|ref|ZP_05006145.1| transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|294816563|ref|ZP_06775205.1| XRE family transcriptional regulator [Streptomyces clavuligerus
           ATCC 27064]
 gi|326445482|ref|ZP_08220216.1| XRE family transcriptional regulator [Streptomyces clavuligerus
           ATCC 27064]
 gi|197704632|gb|EDY50444.1| transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|294321378|gb|EFG03513.1| XRE family transcriptional regulator [Streptomyces clavuligerus
           ATCC 27064]
          Length = 480

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 44/119 (36%), Gaps = 15/119 (12%)

Query: 16  GKRI------RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
           G+RI      R  R   GM+Q ++   L I+     + E+    + A  L  I+EV    
Sbjct: 7   GRRIYAHAKLRRLRREHGMNQVEMARALAISTSYANQLEQSQRPLTAPVLLRIAEVFGVD 66

Query: 70  ISFFFDVSP----TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVR 124
             +F +       T      ++E    +     +  +  R     D  +V + ++ L R
Sbjct: 67  PEYFSEADEDRLATDLRAALADEACGAELPGAEEINEAAR-----DHPEVARALVALHR 120


>gi|238788598|ref|ZP_04632390.1| Prophage repressor protein [Yersinia frederiksenii ATCC 33641]
 gi|238723193|gb|EEQ14841.1| Prophage repressor protein [Yersinia frederiksenii ATCC 33641]
          Length = 240

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 25/89 (28%), Positives = 46/89 (51%), Gaps = 9/89 (10%)

Query: 17  KRIRL----RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           KR++     ++  LG+SQE +   LG+    V ++  G+N +  +     ++VL  PIS 
Sbjct: 15  KRLKELFNAKKKALGISQESVAHELGVGQSAVNQFLNGINPLNVTNAAAFAKVLNEPISS 74

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
           F   SP++  +++    ++   IST  GL
Sbjct: 75  F---SPSLAKELAKMAESLS--ISTRSGL 98


>gi|238796818|ref|ZP_04640323.1| Prophage repressor protein [Yersinia mollaretii ATCC 43969]
 gi|238719306|gb|EEQ11117.1| Prophage repressor protein [Yersinia mollaretii ATCC 43969]
          Length = 240

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 25/89 (28%), Positives = 46/89 (51%), Gaps = 9/89 (10%)

Query: 17  KRIRL----RRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           KR++     ++  LG+SQE +   LG+    V ++  G+N +  +     ++VL  PIS 
Sbjct: 15  KRLKELFNAKKKALGISQESVAHELGVGQSAVNQFLNGINPLNVTNAAAFAKVLNEPISS 74

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGL 101
           F   SP++  +++    ++   IST  GL
Sbjct: 75  F---SPSLAKELAKMAESLS--ISTRSGL 98


>gi|119718420|ref|YP_925385.1| helix-turn-helix domain-containing protein [Nocardioides sp.
          JS614]
 gi|119539081|gb|ABL83698.1| helix-turn-helix domain protein [Nocardioides sp. JS614]
          Length = 128

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/84 (17%), Positives = 36/84 (42%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          +G+ ++ +R+   +S  +L    G++   + + E+G+ R  A  LQ I++ L       +
Sbjct: 13 LGEYLKEQRVAAELSVRQLAAQAGVSNPYLSQIERGLRRPSAEVLQQIAKALRISAEQLY 72

Query: 75 DVSPTVCSDISSEENNVMDFISTP 98
            +  V     S  +  +  +   
Sbjct: 73 IRAGIVDPHAGSPGSVELAILGDS 96


>gi|167740855|ref|ZP_02413629.1| DNA-binding protein [Burkholderia pseudomallei 14]
 gi|167826439|ref|ZP_02457910.1| DNA-binding protein [Burkholderia pseudomallei 9]
 gi|167913192|ref|ZP_02500283.1| DNA-binding protein [Burkholderia pseudomallei 112]
 gi|167921137|ref|ZP_02508228.1| DNA-binding protein [Burkholderia pseudomallei BCC215]
 gi|217423144|ref|ZP_03454646.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei 576]
 gi|226193468|ref|ZP_03789073.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei
          Pakistan 9]
 gi|254192687|ref|ZP_04899123.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei S13]
 gi|169649442|gb|EDS82135.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei S13]
 gi|217394052|gb|EEC34072.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei 576]
 gi|225934350|gb|EEH30332.1| DNA-binding/cupin domain protein [Burkholderia pseudomallei
          Pakistan 9]
          Length = 202

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 9/68 (13%), Positives = 25/68 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    ++ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 25 VGEQIQRLRNERKLTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGISLDELF 84

Query: 75 DVSPTVCS 82
                 +
Sbjct: 85 AQPKAPET 92


>gi|303326179|ref|ZP_07356622.1| DNA-binding protein [Desulfovibrio sp. 3_1_syn3]
 gi|302864095|gb|EFL87026.1| DNA-binding protein [Desulfovibrio sp. 3_1_syn3]
          Length = 189

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 27/67 (40%)

Query: 10 PVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          P   N+G RIR  R    +  E L +   ++ + + + E G        +Q ++  L   
Sbjct: 2  PTKHNIGSRIRSFREEREIDLETLSQDTNLSVEFLNQLENGEIYPSIGPMQKLARALGVR 61

Query: 70 ISFFFDV 76
          +  F D 
Sbjct: 62 LGTFLDD 68


>gi|294807660|ref|ZP_06766453.1| DNA-binding protein [Bacteroides xylanisolvens SD CC 1b]
 gi|294445096|gb|EFG13770.1| DNA-binding protein [Bacteroides xylanisolvens SD CC 1b]
          Length = 184

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 2/71 (2%)

Query: 17 KRIRLRRMILGMSQEKLGECL-GITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
          K+I   R   G SQ +L   + G++   + KYEKG+  +    L  I + L  P + F++
Sbjct: 6  KQIIFAREYRGYSQTELASKIVGLSQSNLSKYEKGIGPLSTDVLNRIIDFLGFP-TDFYE 64

Query: 76 VSPTVCSDISS 86
             +  ++ + 
Sbjct: 65 KKISNIAENAH 75


>gi|257874662|ref|ZP_05654315.1| predicted protein [Enterococcus casseliflavus EC10]
 gi|257808826|gb|EEV37648.1| predicted protein [Enterococcus casseliflavus EC10]
          Length = 208

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +++  R+   ++Q++L E L ++ + + K+E G        +  ISE+L   I
Sbjct: 9  KLKEYRIANSLTQQELAEILDVSDKSISKWELGDTYPSKKNVIKISELLGISI 61


>gi|257051844|ref|YP_003129677.1| transcriptional regulator, XRE family [Halorhabdus utahensis DSM
          12940]
 gi|256690607|gb|ACV10944.1| transcriptional regulator, XRE family [Halorhabdus utahensis DSM
          12940]
          Length = 70

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 10/65 (15%), Positives = 27/65 (41%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
          +++ R    ++Q +L + +G++ Q +   E+            ++   +  I   F+  P
Sbjct: 5  LKVWRAKEDITQGELADAVGVSRQTINALERERYDPSLELAFKLARHFDCAIEDIFEYDP 64

Query: 79 TVCSD 83
             S+
Sbjct: 65 ADASE 69


>gi|255652542|ref|ZP_05399444.1| transcriptional regulator [Clostridium difficile QCD-37x79]
          Length = 105

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 8/58 (13%), Positives = 27/58 (46%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          +  R+R  R   G + ++L + + ++   + +YE          L+ ++++ +  + +
Sbjct: 2  ISDRLRELRKEKGYTIKELAQIINVSDISISRYENNKRDADIKTLKELAKLYDVSLDY 59


>gi|189423925|ref|YP_001951102.1| XRE family transcriptional regulator [Geobacter lovleyi SZ]
 gi|189420184|gb|ACD94582.1| transcriptional regulator, XRE family [Geobacter lovleyi SZ]
          Length = 243

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 24/54 (44%)

Query: 20 RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          R  R   G+ Q  + +  GI+   + ++E G  R+    L  I+ +L+    F 
Sbjct: 8  RRAREAKGLKQSDIADQCGISRSALARFETGSLRLAEETLLLIAPLLDIDPEFL 61


>gi|29347964|ref|NP_811467.1| hypothetical protein BT_2554 [Bacteroides thetaiotaomicron
           VPI-5482]
 gi|253572556|ref|ZP_04849958.1| conserved hypothetical protein [Bacteroides sp. 1_1_6]
 gi|29339866|gb|AAO77661.1| putative DNA-binding protein [Bacteroides thetaiotaomicron
           VPI-5482]
 gi|251837971|gb|EES66060.1| conserved hypothetical protein [Bacteroides sp. 1_1_6]
          Length = 147

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 23/129 (17%), Positives = 51/129 (39%), Gaps = 2/129 (1%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           ++ G  IR  R+   M+QE L + + ++   V KYE  +  +    L   S  L  P  +
Sbjct: 11  VHHGHNIRRFRIEKNMNQEVLSQLVHLSQSAVSKYE-QMRVIDDEMLHRFSRALGVPFEY 69

Query: 73  FFDVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSS-EK 131
              +     + +        +  ++ +         ++++    +KI EL   ++   ++
Sbjct: 70  LKSLEEDAQTVVFENNTVNNNDQASANIGGYVEENNRVNNYNPIEKITELYERLLKEKDE 129

Query: 132 KYRTIEEEC 140
           KY  +E   
Sbjct: 130 KYAALERRL 138


>gi|115353089|ref|YP_774928.1| XRE family transcriptional regulator [Burkholderia ambifaria AMMD]
 gi|170702522|ref|ZP_02893400.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           IOP40-10]
 gi|172061941|ref|YP_001809593.1| XRE family transcriptional regulator [Burkholderia ambifaria
           MC40-6]
 gi|115283077|gb|ABI88594.1| transcriptional regulator, XRE family with cupin sensor
           [Burkholderia ambifaria AMMD]
 gi|170132560|gb|EDT01010.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           IOP40-10]
 gi|171994458|gb|ACB65377.1| transcriptional regulator, XRE family [Burkholderia ambifaria
           MC40-6]
          Length = 183

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 36/92 (39%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V +R+R  R   G+SQ +L +  G+T   +   E+G        L+ + E +   ++ FF
Sbjct: 5   VAERLRFVRNKHGLSQRELAKRAGVTNGTISLIEQGRVSPSVGSLKKLLECIPMSLAEFF 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
                    + S  + + +  +      L   
Sbjct: 65  TFELVESRSVVSRRDEMPNLGNDTLAFHLVGA 96


>gi|331701909|ref|YP_004398868.1| phage repressor like XRE family transcriptional regulator
          [Lactobacillus buchneri NRRL B-30929]
 gi|329129252|gb|AEB73805.1| phage repressor like transcriptional regulator, XRE family
          [Lactobacillus buchneri NRRL B-30929]
          Length = 237

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/75 (17%), Positives = 37/75 (49%), Gaps = 1/75 (1%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISFFFDV 76
           +R RR  L ++ E++G+ +G+    ++K+E G +  +   ++  +S+ L+       D 
Sbjct: 4  NLRNRRKELNLTLEEVGKMVGVGKSTIRKWETGYIENMKRDKIIALSKALKVSPMDIIDP 63

Query: 77 SPTVCSDISSEENNV 91
          +  + + +  +   +
Sbjct: 64 NKEISNPMIDKIEEI 78


>gi|325965030|ref|YP_004242936.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Arthrobacter
          phenanthrenivorans Sphe3]
 gi|323471117|gb|ADX74802.1| UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Arthrobacter
          phenanthrenivorans Sphe3]
          Length = 507

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 24/57 (42%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +V   +R  R   G +Q +L   LG +   V + E+G   +    +Q +  +    I
Sbjct: 8  HVAAMLRDARGEKGWTQGQLAAELGTSQSAVARMEQGKQNLSLKMIQRLEAIFGRSI 64


>gi|317484534|ref|ZP_07943442.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
           3_1_6]
 gi|316924195|gb|EFV45373.1| helix-turn-helix domain-containing protein [Bilophila wadsworthia
           3_1_6]
          Length = 184

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 22/114 (19%), Positives = 43/114 (37%), Gaps = 15/114 (13%)

Query: 15  VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           V + ++  R    +S + + +C G++   + + E+GV     S L  I+  L+     F 
Sbjct: 8   VAENLKRLREERKLSLDAVAKCSGVSKSMLGQIERGVTNPTISTLWKIANGLKIS---FT 64

Query: 75  DVSPTVCSDISSEENNVMDFISTPDG---------LQLNRYF--IQID-DVKVR 116
            +     +D+     + +      DG            +R F    I+ D  VR
Sbjct: 65  SLMMRPETDVEVVPRSAITPFVETDGKYRNYPVFPFDSSRGFEMYAIELDPGVR 118


>gi|291545610|emb|CBL18718.1| Predicted transcriptional regulators [Ruminococcus sp. SR1/5]
          Length = 118

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 33/64 (51%), Gaps = 2/64 (3%)

Query: 10 PVD--INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          P+D    +G+++R  R    ++Q++L +   ++ +Q+   EKG        L+ +++VL 
Sbjct: 2  PIDDLTALGQKMREARKNKELTQQELSDLSHVSVKQIANIEKGKMNPSYLILRALAKVLH 61

Query: 68 SPIS 71
            + 
Sbjct: 62 ISLD 65


>gi|295699801|ref|YP_003607694.1| XRE family transcriptional regulator [Burkholderia sp. CCGE1002]
 gi|295439014|gb|ADG18183.1| transcriptional regulator, XRE family [Burkholderia sp. CCGE1002]
          Length = 104

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 26/55 (47%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
          + K +RL R   GMSQE L +  G+   Q+   E+G+  +    L  ++  L   
Sbjct: 21 IAKNLRLLRDKKGMSQEVLADRAGLHRTQLSVIERGLRNMRLDTLVSLAAALGVS 75


>gi|260592611|ref|ZP_05858069.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella veroralis F0319]
 gi|260535381|gb|EEX17998.1| toxin-antitoxin system, antitoxin component, Xre family
          [Prevotella veroralis F0319]
          Length = 110

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 29/55 (52%)

Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLES 68
           +G+ IR  R+   ++Q++LG+ +G+   Q+ + E G + +    +  + + L  
Sbjct: 40 YIGEAIRKARLSQNLTQDELGKKIGVQRAQICRLESGRSVITLPIMSRVFQALGI 94


>gi|251777900|ref|ZP_04820820.1| transcriptional regulator, XRE family [Clostridium botulinum E1
          str. 'BoNT E Beluga']
 gi|243082215|gb|EES48105.1| transcriptional regulator, XRE family [Clostridium botulinum E1
          str. 'BoNT E Beluga']
          Length = 92

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 23/59 (38%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
          +G+R++  R    + QE +   L I       YE      G + L+ I+      I F 
Sbjct: 2  LGERLKELRDERELKQEDVAAKLNIGRSTYANYETERAEPGIAVLKDIASFYNVSIDFL 60


>gi|242398075|ref|YP_002993499.1| hypothetical protein TSIB_0082 [Thermococcus sibiricus MM 739]
 gi|242264468|gb|ACS89150.1| hypothetical protein TSIB_0082 [Thermococcus sibiricus MM 739]
          Length = 367

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 21/105 (20%), Positives = 47/105 (44%), Gaps = 8/105 (7%)

Query: 19  IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSP 78
           +R  R   G S E+L + LG++ ++++  E   +    ++L+ ++++ + P++ FF    
Sbjct: 14  LRKLRENSGYSVEELAKKLGVSEKKIEDVESSKDSFTITQLKSLAKIYKIPLAAFFSEDI 73

Query: 79  TVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVK-VRQKIIEL 122
                +     N    +  P+       F+ I   K +   I+EL
Sbjct: 74  PHIPSLPDYRINRDKKL-NPE------AFVAIRRAKYLSDMIVEL 111


>gi|228956760|ref|ZP_04118546.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          pakistani str. T13001]
 gi|228802948|gb|EEM49780.1| Helix-turn-helix domain protein [Bacillus thuringiensis serovar
          pakistani str. T13001]
          Length = 117

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 28/61 (45%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          + +G+R+R  R   G +Q  + E L I    +  YE G  +     L  ++++ +  + +
Sbjct: 1  MTLGERLRTCREKSGYTQTYITEKLEIHRGTLSSYESGRRKPDYDTLSKLADIYKVSVDY 60

Query: 73 F 73
           
Sbjct: 61 L 61


>gi|254474388|ref|ZP_05087774.1| transcriptional regulator, XRE family [Ruegeria sp. R11]
 gi|214028631|gb|EEB69466.1| transcriptional regulator, XRE family [Ruegeria sp. R11]
          Length = 462

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/133 (11%), Positives = 49/133 (36%), Gaps = 13/133 (9%)

Query: 13  INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
           +  G ++R  R  L ++Q++    LG++   + + E     V  + +  +++     ++ 
Sbjct: 6   LYAGAKLREMRTRLSLTQKEFAAKLGVSLPYLNQMENNNRPVSTTVVLALAQEFGLDVTE 65

Query: 73  FFDVSPT----------VCSDISSEENNVMDF-ISTPDGLQLNRYFIQIDDV--KVRQKI 119
                                 +S+   + D  ++  +   L R F+ +     +  +++
Sbjct: 66  LSTGDSERLVSDMREVMADPVFASDAPPMADLRLTASNAPALARAFLTLHRAYRQTHERL 125

Query: 120 IELVRSIVSSEKK 132
             L  ++   + +
Sbjct: 126 ASLDEALGREDAR 138


>gi|220930676|ref|YP_002507585.1| XRE family transcriptional regulator [Clostridium cellulolyticum
          H10]
 gi|220001004|gb|ACL77605.1| transcriptional regulator, XRE family [Clostridium cellulolyticum
          H10]
          Length = 60

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 26/55 (47%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          K+++  R    ++Q +L    GI+ Q +   E G        L+ +++ L++ + 
Sbjct: 2  KKLKQARESKNLTQSELASRTGISQQHISMIENGERIGSVETLRELAKALDTSVD 56


>gi|134298740|ref|YP_001112236.1| helix-turn-helix domain-containing protein [Desulfotomaculum
          reducens MI-1]
 gi|134051440|gb|ABO49411.1| helix-turn-helix domain protein [Desulfotomaculum reducens MI-1]
          Length = 206

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 28/59 (47%)

Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          GKR+   R  LG+S+ KL + +G+    + K E    +     L+ I   L   ++ FF
Sbjct: 4  GKRVTFFREKLGISKRKLAKMIGVDPSLITKIEANNTKPSLDTLERICTSLGIELADFF 62


>gi|330718206|ref|ZP_08312806.1| transcriptional regulator [Leuconostoc fallax KCTC 3537]
          Length = 71

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 25/58 (43%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
           RI+  R    +SQ +L + +G+  Q +   E        +    ++  LE+ ++  F
Sbjct: 2  NRIKQYRQKKKLSQYELSQRIGVARQTINLIENDKYNPSLALCLKLAYALETDLNTLF 59


>gi|299138223|ref|ZP_07031402.1| transcriptional regulator, XRE family [Acidobacterium sp.
          MP5ACTX8]
 gi|298599469|gb|EFI55628.1| transcriptional regulator, XRE family [Acidobacterium sp.
          MP5ACTX8]
          Length = 64

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 24/61 (39%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDV 76
           R+R+ R   G SQ  L + L ++ Q V   E G           I+ + +  I   F+ 
Sbjct: 3  NRLRVLRAEKGWSQADLADRLEVSRQSVNAIETGKYDPSLPLAFRIARLFDQRIEEIFED 62

Query: 77 S 77
           
Sbjct: 63 E 63


>gi|291541679|emb|CBL14789.1| Helix-turn-helix [Ruminococcus bromii L2-63]
          Length = 64

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 26/56 (46%)

Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISF 72
          KR+R  R    M Q ++ E LGI      +YE+G   +    L  ++++ +    +
Sbjct: 4  KRLRDLREDHDMKQSEVAEYLGIQQTVYSRYERGFQSIPVEHLIKLADLYKVSTDY 59


>gi|288561200|ref|YP_003424686.1| transcriptional regulator [Methanobrevibacter ruminantium M1]
 gi|288543910|gb|ADC47794.1| transcriptional regulator [Methanobrevibacter ruminantium M1]
          Length = 108

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 38/94 (40%), Gaps = 9/94 (9%)

Query: 11  VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
           +D+ V K ++  R   G +QE++ + LGIT   + K E G      + L  +  +     
Sbjct: 2   IDV-VAKNLKDLRKKNGYTQEQVSDYLGITQSNLSKIENGERNFNMTLLDKLCLLYNCSP 60

Query: 71  SFFFDVSPTVCSDISSEENNVMDFISTPDGLQLN 104
            +          +    E + + F  + + + LN
Sbjct: 61  EYL-------IGETDLYEKSTIAF-RSDEKVDLN 86


>gi|284028971|ref|YP_003378902.1| XRE family transcriptional regulator [Kribbella flavida DSM
          17836]
 gi|283808264|gb|ADB30103.1| transcriptional regulator, XRE family [Kribbella flavida DSM
          17836]
          Length = 185

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 37/85 (43%), Gaps = 4/85 (4%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG+ +  +R    +S  +L +  G++   + + E+G+ +  A  LQ +++ L       +
Sbjct: 15 VGEYLAEQRRHAQLSLRQLSDLAGVSNPYLSQIERGLRKPSADVLQQLAKALRISAETLY 74

Query: 75 ----DVSPTVCSDISSEENNVMDFI 95
               + P   SD +     V D I
Sbjct: 75 VRAGILDPDDGSDGAGRATGVTDAI 99


>gi|221199771|ref|ZP_03572814.1| transcriptional regulator PuuR [Burkholderia multivorans CGD2M]
 gi|221208624|ref|ZP_03581624.1| transcriptional regulator PuuR [Burkholderia multivorans CGD2]
 gi|221171435|gb|EEE03882.1| transcriptional regulator PuuR [Burkholderia multivorans CGD2]
 gi|221180010|gb|EEE12414.1| transcriptional regulator PuuR [Burkholderia multivorans CGD2M]
          Length = 189

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/106 (17%), Positives = 39/106 (36%), Gaps = 4/106 (3%)

Query: 1   MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
           M   + +       V +R+R  R   G+SQ +L +  G+T   +   E+G        L+
Sbjct: 1   MSETESMSTE----VAERLRFVRNKHGLSQRELAKRAGVTNGTISLIEQGRVSPSVGSLK 56

Query: 61  HISEVLESPISFFFDVSPTVCSDISSEENNVMDFISTPDGLQLNRY 106
            + E +   ++ FF         + S  + + +  +      L   
Sbjct: 57  KLLECIPMSLAEFFTFELVESRSVVSRRDEMPNLGNESLAFHLVGA 102


>gi|221210048|ref|ZP_03583029.1| transcriptional regulator, XRE family [Burkholderia multivorans
          CGD1]
 gi|221170736|gb|EEE03202.1| transcriptional regulator, XRE family [Burkholderia multivorans
          CGD1]
          Length = 161

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 29/67 (43%), Gaps = 4/67 (5%)

Query: 23 RMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFDVSPTVCS 82
          R   G++Q +L   LG+T Q   + E   + V   RL  +  VL   +S    + P   +
Sbjct: 19 RKSAGLTQAQLAARLGVTQQSYAQLEANPSAVSIERLFKVLNVLGVRLS----LDPAASA 74

Query: 83 DISSEEN 89
          D++    
Sbjct: 75 DVAQTAA 81


>gi|194291881|ref|YP_002007788.1| transcriptional regulator [Cupriavidus taiwanensis LMG 19424]
 gi|193225785|emb|CAQ71731.1| putative transcriptional regulator [Cupriavidus taiwanensis LMG
          19424]
          Length = 297

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 22/52 (42%)

Query: 19 IRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          +R  R   G SQ  L    G++ + +   E G  R     +  ++E L  P+
Sbjct: 18 LRYWRGKRGYSQLALSLAAGVSQRHISFLESGRARPSREMVLALAERLGVPL 69


>gi|170699355|ref|ZP_02890402.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          IOP40-10]
 gi|170135727|gb|EDT04008.1| transcriptional regulator, XRE family [Burkholderia ambifaria
          IOP40-10]
          Length = 203

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 9/68 (13%), Positives = 25/68 (36%)

Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
          VG++I+  R    ++ + L    G++   + + E+       +    ++  L   +   F
Sbjct: 26 VGEQIQRLRNERKLTLDDLSRAAGVSKSMLSEIERDKANPTIAVAWRLTNALGITLDELF 85

Query: 75 DVSPTVCS 82
                 +
Sbjct: 86 SQPKAAET 93


>gi|281355570|ref|ZP_06242064.1| transcriptional regulator, XRE family [Victivallis vadensis ATCC
          BAA-548]
 gi|281318450|gb|EFB02470.1| transcriptional regulator, XRE family [Victivallis vadensis ATCC
          BAA-548]
          Length = 185

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/85 (20%), Positives = 39/85 (45%), Gaps = 2/85 (2%)

Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
          ++  +G++I   R    ++ ++  +  GI+   V + E+G+     S L+ I   L+  +
Sbjct: 2  IENRIGRKIHQYRKDKNLTIKEFSDISGISTALVSQLERGIGNPSLSVLRLICRTLDISL 61

Query: 71 S--FFFDVSPTVCSDISSEENNVMD 93
          S  FF ++        +SE   + +
Sbjct: 62 SSLFFEEIDNASLIRRASELERIHN 86


>gi|148643210|ref|YP_001273723.1| transcriptional regulator [Methanobrevibacter smithii ATCC 35061]
 gi|222445441|ref|ZP_03607956.1| hypothetical protein METSMIALI_01079 [Methanobrevibacter smithii
          DSM 2375]
 gi|261349997|ref|ZP_05975414.1| putative transcriptional regulator [Methanobrevibacter smithii
          DSM 2374]
 gi|148552227|gb|ABQ87355.1| predicted transcriptional regulator [Methanobrevibacter smithii
          ATCC 35061]
 gi|222435006|gb|EEE42171.1| hypothetical protein METSMIALI_01079 [Methanobrevibacter smithii
          DSM 2375]
 gi|288860783|gb|EFC93081.1| putative transcriptional regulator [Methanobrevibacter smithii
          DSM 2374]
          Length = 67

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/50 (26%), Positives = 24/50 (48%)

Query: 18 RIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
          +I+  R   G+SQ+KL +  G+T Q +   E             I+++L+
Sbjct: 4  KIKEFRNEKGLSQQKLADLTGVTRQTINALENARYNPSLLLAFRITKILD 53


>gi|28379424|ref|NP_786316.1| transcription regulator [Lactobacillus plantarum WCFS1]
 gi|254557562|ref|YP_003063979.1| transcription regulator [Lactobacillus plantarum JDM1]
 gi|300768681|ref|ZP_07078578.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ATCC 14917]
 gi|28272263|emb|CAD65174.1| transcription regulator [Lactobacillus plantarum WCFS1]
 gi|254046489|gb|ACT63282.1| transcription regulator [Lactobacillus plantarum JDM1]
 gi|300493773|gb|EFK28944.1| transcription regulator [Lactobacillus plantarum subsp. plantarum
          ATCC 14917]
          Length = 223

 Score = 48.7 bits (115), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 11/59 (18%), Positives = 24/59 (40%)

Query: 13 INVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPIS 71
          +N    +++ R    M+Q  +   L ++ Q +  +E G +      L  IS   +  + 
Sbjct: 1  MNFSDNLKIIRQQKKMTQTDIATQLHVSRQTISSWENGRSYPDIGMLVQISMAYDFSVD 59


  Database: nr
    Posted date:  May 22, 2011 12:22 AM
  Number of letters in database: 999,999,966
  Number of sequences in database:  2,987,313
  
  Database: /data/usr2/db/fasta/nr.01
    Posted date:  May 22, 2011 12:30 AM
  Number of letters in database: 999,999,796
  Number of sequences in database:  2,903,041
  
  Database: /data/usr2/db/fasta/nr.02
    Posted date:  May 22, 2011 12:36 AM
  Number of letters in database: 999,999,281
  Number of sequences in database:  2,904,016
  
  Database: /data/usr2/db/fasta/nr.03
    Posted date:  May 22, 2011 12:41 AM
  Number of letters in database: 999,999,960
  Number of sequences in database:  2,935,328
  
  Database: /data/usr2/db/fasta/nr.04
    Posted date:  May 22, 2011 12:46 AM
  Number of letters in database: 842,794,627
  Number of sequences in database:  2,394,679
  
Lambda     K      H
   0.309    0.159    0.473 

Lambda     K      H
   0.267   0.0488    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,139,691,006
Number of Sequences: 14124377
Number of extensions: 139522170
Number of successful extensions: 460060
Number of sequences better than 10.0: 10000
Number of HSP's better than 10.0 without gapping: 23813
Number of HSP's successfully gapped in prelim test: 4663
Number of HSP's that attempted gapping in prelim test: 432186
Number of HSP's gapped (non-prelim): 29260
length of query: 144
length of database: 4,842,793,630
effective HSP length: 108
effective length of query: 36
effective length of database: 3,317,360,914
effective search space: 119424992904
effective search space used: 119424992904
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (20.9 bits)
S2: 76 (33.6 bits)