Query psy14719
Match_columns 160
No_of_seqs 201 out of 407
Neff 5.5
Searched_HMMs 46136
Date Fri Aug 16 18:54:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14719.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14719hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1588|consensus 100.0 1.9E-36 4E-41 253.5 10.4 101 1-103 118-218 (259)
2 cd02395 SF1_like-KH Splicing f 99.9 7.1E-28 1.5E-32 182.3 10.0 94 1-98 26-120 (120)
3 KOG0119|consensus 99.9 5.9E-26 1.3E-30 203.3 7.6 99 2-108 165-267 (554)
4 KOG1588|consensus 99.9 1.7E-24 3.8E-29 181.5 3.1 83 64-160 105-191 (259)
5 COG5176 MSL5 Splicing factor ( 99.7 3.9E-18 8.4E-23 140.3 4.8 96 1-100 174-269 (269)
6 cd02395 SF1_like-KH Splicing f 98.9 1.4E-09 2.9E-14 82.5 3.2 88 46-160 4-95 (120)
7 KOG0119|consensus 94.9 0.0076 1.7E-07 55.5 0.2 83 45-158 141-228 (554)
8 cd02393 PNPase_KH Polynucleoti 93.8 0.17 3.6E-06 33.5 4.8 39 1-68 22-60 (61)
9 PF00013 KH_1: KH domain syndr 93.0 0.32 7E-06 31.3 5.2 40 2-68 21-60 (60)
10 cd02396 PCBP_like_KH K homolog 91.7 0.48 1E-05 31.4 4.8 17 2-18 21-37 (65)
11 smart00322 KH K homology RNA-b 90.5 0.73 1.6E-05 28.8 4.7 44 2-71 24-67 (69)
12 PF13014 KH_3: KH domain 89.5 0.27 5.9E-06 30.0 1.9 17 2-18 12-28 (43)
13 cd02394 vigilin_like_KH K homo 88.4 1.1 2.5E-05 28.9 4.4 41 2-68 21-61 (62)
14 cd00105 KH-I K homology RNA-bi 87.9 1.4 3E-05 28.1 4.6 20 2-21 21-40 (64)
15 KOG1960|consensus 85.8 0.59 1.3E-05 42.7 2.4 62 1-75 235-296 (531)
16 TIGR03665 arCOG04150 arCOG0415 84.9 1.9 4.1E-05 34.2 4.8 43 1-74 109-151 (172)
17 PRK13763 putative RNA-processi 80.6 4.4 9.5E-05 32.4 5.4 45 2-74 24-71 (180)
18 PRK13763 putative RNA-processi 80.6 3.8 8.1E-05 32.8 5.0 41 2-73 116-156 (180)
19 TIGR02696 pppGpp_PNP guanosine 74.5 7.6 0.00017 37.7 5.9 44 2-74 599-642 (719)
20 KOG1676|consensus 70.9 6.7 0.00014 37.3 4.5 17 2-18 251-267 (600)
21 KOG1960|consensus 67.3 5.7 0.00012 36.5 3.1 54 2-69 115-168 (531)
22 KOG2814|consensus 66.9 9.1 0.0002 34.1 4.3 48 2-69 78-127 (345)
23 TIGR03665 arCOG04150 arCOG0415 65.7 15 0.00032 29.1 4.9 45 2-74 19-65 (172)
24 PF00126 HTH_1: Bacterial regu 60.1 7.3 0.00016 25.1 1.9 19 2-20 33-51 (60)
25 TIGR03591 polynuc_phos polyrib 54.5 28 0.00061 33.5 5.6 42 2-72 572-613 (684)
26 PRK13348 chromosome replicatio 52.7 10 0.00023 30.9 2.1 22 2-23 36-57 (294)
27 COG1094 Predicted RNA-binding 50.9 12 0.00025 30.9 2.1 19 1-19 122-140 (194)
28 PLN00207 polyribonucleotide nu 49.0 25 0.00054 35.1 4.4 43 2-73 706-749 (891)
29 TIGR03298 argP transcriptional 45.3 12 0.00027 30.4 1.5 23 3-25 36-58 (292)
30 PRK11074 putative DNA-binding 41.7 21 0.00046 29.3 2.4 22 2-23 36-57 (300)
31 PRK09986 DNA-binding transcrip 41.6 20 0.00044 29.0 2.1 23 2-24 41-63 (294)
32 PRK03635 chromosome replicatio 41.0 19 0.00041 29.5 1.9 23 2-24 36-58 (294)
33 PRK03601 transcriptional regul 41.0 21 0.00046 29.0 2.2 19 2-20 35-53 (275)
34 PRK09791 putative DNA-binding 40.7 24 0.00053 28.9 2.6 23 2-24 39-61 (302)
35 PRK11824 polynucleotide phosph 40.6 43 0.00094 32.2 4.5 43 2-73 575-617 (693)
36 PRK12684 transcriptional regul 39.6 24 0.00052 29.4 2.4 20 2-21 36-56 (313)
37 PRK12683 transcriptional regul 39.5 22 0.00047 29.6 2.1 20 2-21 36-56 (309)
38 PRK12682 transcriptional regul 36.6 28 0.00062 28.7 2.4 20 2-21 36-56 (309)
39 PRK04163 exosome complex RNA-b 36.5 77 0.0017 26.3 4.9 44 2-74 166-209 (235)
40 PRK11242 DNA-binding transcrip 34.5 29 0.00064 28.0 2.1 19 2-20 35-53 (296)
41 PRK11013 DNA-binding transcrip 33.8 32 0.0007 28.4 2.3 23 3-25 39-61 (309)
42 TIGR00637 ModE_repress ModE mo 33.8 33 0.00071 24.7 2.0 18 3-20 37-54 (99)
43 PRK09906 DNA-binding transcrip 33.5 34 0.00074 27.8 2.3 25 2-26 35-59 (296)
44 PRK10094 DNA-binding transcrip 33.4 34 0.00074 28.5 2.3 22 2-23 36-57 (308)
45 PRK10216 DNA-binding transcrip 33.2 34 0.00074 28.4 2.3 23 2-24 42-64 (319)
46 KOG2874|consensus 32.9 30 0.00065 30.5 1.9 19 1-19 169-187 (356)
47 KOG1676|consensus 32.8 71 0.0015 30.6 4.5 51 2-74 160-210 (600)
48 TIGR02424 TF_pcaQ pca operon t 31.6 43 0.00093 27.2 2.6 25 2-26 37-61 (300)
49 PRK10837 putative DNA-binding 31.0 30 0.00065 27.9 1.6 22 2-23 37-58 (290)
50 PRK12680 transcriptional regul 30.8 46 0.001 28.1 2.7 22 2-23 36-57 (327)
51 PRK11139 DNA-binding transcrip 30.8 30 0.00064 28.3 1.5 22 2-23 40-61 (297)
52 PF02641 DUF190: Uncharacteriz 29.6 82 0.0018 22.6 3.5 33 38-74 58-90 (101)
53 PRK09801 transcriptional activ 29.3 45 0.00097 27.8 2.4 24 2-25 40-63 (310)
54 PRK12681 cysB transcriptional 28.7 44 0.00096 28.2 2.3 20 2-21 36-56 (324)
55 PRK15092 DNA-binding transcrip 28.2 44 0.00095 28.0 2.2 21 2-22 45-65 (310)
56 TIGR03339 phn_lysR aminoethylp 27.6 39 0.00085 26.8 1.7 22 2-23 31-52 (279)
57 COG5176 MSL5 Splicing factor ( 27.0 32 0.00069 29.2 1.1 71 45-138 151-223 (269)
58 KOG2193|consensus 26.3 37 0.00079 31.7 1.4 16 2-17 301-316 (584)
59 TIGR02933 nifM_nitrog nitrogen 25.8 3.2E+02 0.0069 22.6 6.9 92 61-155 57-153 (256)
60 KOG2191|consensus 25.6 1.9E+02 0.0041 26.2 5.6 54 2-76 153-206 (402)
61 TIGR02036 dsdC D-serine deamin 25.3 55 0.0012 27.0 2.2 23 2-24 42-64 (302)
62 PRK11716 DNA-binding transcrip 24.7 59 0.0013 25.6 2.2 22 2-23 11-32 (269)
63 PRK15243 transcriptional regul 24.6 44 0.00095 28.4 1.5 21 2-22 38-59 (297)
64 PRK10082 cell density-dependen 24.5 65 0.0014 26.5 2.5 24 2-25 45-68 (303)
65 PRK11062 nhaR transcriptional 24.5 51 0.0011 27.0 1.9 22 3-24 39-60 (296)
66 PRK01220 malonate decarboxylas 24.1 97 0.0021 23.0 3.0 18 138-155 80-97 (99)
67 PRK13782 phosphocarrier protei 24.0 1.7E+02 0.0037 20.0 4.2 54 8-72 27-81 (82)
68 PRK14997 LysR family transcrip 23.6 61 0.0013 26.4 2.2 22 2-23 36-57 (301)
69 PRK02103 malonate decarboxylas 22.7 1E+02 0.0022 23.0 3.0 18 138-155 84-101 (105)
70 KOG2190|consensus 22.7 1.4E+02 0.003 27.8 4.5 49 2-73 159-207 (485)
71 COG1993 PII-like signaling pro 22.4 1.9E+02 0.0042 21.8 4.4 30 39-72 62-91 (109)
72 PRK12679 cbl transcriptional r 22.3 73 0.0016 26.5 2.4 21 2-22 36-57 (316)
73 PRK15421 DNA-binding transcrip 22.2 76 0.0016 26.6 2.5 21 2-22 36-56 (317)
74 CHL00180 rbcR LysR transcripti 21.2 83 0.0018 25.8 2.5 21 3-23 40-60 (305)
75 KOG0334|consensus 20.5 66 0.0014 32.6 2.0 56 2-72 920-975 (997)
76 PRK10341 DNA-binding transcrip 20.2 87 0.0019 25.9 2.4 23 2-24 41-63 (312)
No 1
>KOG1588|consensus
Probab=100.00 E-value=1.9e-36 Score=253.48 Aligned_cols=101 Identities=58% Similarity=0.881 Sum_probs=96.0
Q ss_pred CcHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhcccCCccch
Q psy14719 1 MTAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLVPQAEGED 80 (160)
Q Consensus 1 ~TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~P~~e~~n 80 (160)
||+||||++|||||+||||||+||..||+++||+|+|+||++||||+|++++++++|+.||.+|+++|+++|+|.+++.+
T Consensus 118 nSlkrLe~eTgCki~IrGrgSmrD~~KEE~lR~~p~yeHL~epLHVlIe~~~p~~ea~~rl~~AleeI~klL~P~~e~~d 197 (259)
T KOG1588|consen 118 NSLKRLEEETGCKIMIRGRGSMRDKAKEEELRGDPGYEHLNEPLHVLIETEAPPAEAYARLAYALEEIKKLLVPDHEDED 197 (259)
T ss_pred chHHHHHHHHCCeEEEecCCcccchHHHHHhhcCcchHHhCCCcEEEEEEeCCHHHHHHHHHHHHHHHHHhcCCCCCCch
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999998777
Q ss_pred HHHHHHHHHHHHHhCcccCCCcc
Q psy14719 81 ELKKRQLMELAIINGTYRDNNAK 103 (160)
Q Consensus 81 elK~~QL~ELA~lNGtlRd~~~~ 103 (160)
|++||+|||++|||+..+..+
T Consensus 198 --k~~QL~ELa~lngt~~~~~~~ 218 (259)
T KOG1588|consen 198 --KREQLRELAILNGTYLRSESR 218 (259)
T ss_pred --HHHHHHHHhhcCCcccccccc
Confidence 999999999999996555543
No 2
>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=99.95 E-value=7.1e-28 Score=182.32 Aligned_cols=94 Identities=62% Similarity=0.905 Sum_probs=86.5
Q ss_pred CcHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhcccCCcc-c
Q psy14719 1 MTAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLVPQAEG-E 79 (160)
Q Consensus 1 ~TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~P~~e~-~ 79 (160)
.|+|+||++|||+|.|||+||+|+++++.++++ |.|+|++|||||+|+|.++ |..++++|+++|+.+|.+..++ .
T Consensus 26 ~tiK~i~~eTg~kI~Irg~gs~~~~~~~~~~~~-~~~~~~~eplhV~I~a~~~---~~e~~~~A~~~I~~ll~~~~~~~~ 101 (120)
T cd02395 26 NTLKQLEKETGAKISIRGKGSMKDGKKEEELRG-PKYAHLNEPLHVLITAETP---PEEALAKAVEAIEELLKPAIEGGN 101 (120)
T ss_pred hHHHHHHHHHCCEEEEecCcccccccccccccC-cccccCCCCcEEEEEeCCc---HHHHHHHHHHHHHHHhccCCCccc
Confidence 489999999999999999999999999988877 8899999999999999884 2347999999999999998776 9
Q ss_pred hHHHHHHHHHHHHHhCccc
Q psy14719 80 DELKKRQLMELAIINGTYR 98 (160)
Q Consensus 80 nelK~~QL~ELA~lNGtlR 98 (160)
|++|+.||++||++|||||
T Consensus 102 ~~~k~~ql~~la~~nGt~~ 120 (120)
T cd02395 102 DELKREQLRELALLNGTYR 120 (120)
T ss_pred hHHHHHHHHHHHHhcccCC
Confidence 9999999999999999996
No 3
>KOG0119|consensus
Probab=99.92 E-value=5.9e-26 Score=203.26 Aligned_cols=99 Identities=39% Similarity=0.630 Sum_probs=86.3
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCC-cCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhcc---cCCc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNW-EHLSEELHVLISVEDTENRAELKLARAVEEVQKLLV---PQAE 77 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~-~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~---P~~e 77 (160)
|||+||+||||||+||||||+|+|+. . ..++.| ...+|||||||+|++.+ +|++|++.|++|+. .++|
T Consensus 165 TqK~lE~etgAKI~IRGkgSvkEgk~-~--~~d~~~~~~~~epLH~~Isadt~e-----ki~~Ai~vienli~~av~~~e 236 (554)
T KOG0119|consen 165 TQKRLERETGAKIAIRGKGSVKEGKG-R--SDDLSYIPKENEPLHCLISADTQE-----KIKKAIAVIENLIQSAVSVPE 236 (554)
T ss_pred HHHHHHHHhCCeEEEecccccccccc-C--CcccccccccccceeEEEecchHH-----HHHHHHHHHHHHHHhhccCcc
Confidence 89999999999999999999999982 1 122333 24689999999999877 79999999999996 7889
Q ss_pred cchHHHHHHHHHHHHHhCcccCCCccchhhh
Q psy14719 78 GEDELKKRQLMELAIINGTYRDNNAKVLAAA 108 (160)
Q Consensus 78 ~~nelK~~QL~ELA~lNGtlRd~~~~~~~~~ 108 (160)
++|++|+.||+|||-+|||+|+++.+.|..|
T Consensus 237 ~~n~l~~~Qlrela~lNgt~r~~d~~~c~~c 267 (554)
T KOG0119|consen 237 GQNDLKRLQLRELARLNGTLRDDDNRACRNC 267 (554)
T ss_pred ccccccHHHHHHHHHhCCCCCcccccccccc
Confidence 9999999999999999999999998777754
No 4
>KOG1588|consensus
Probab=99.89 E-value=1.7e-24 Score=181.50 Aligned_cols=83 Identities=42% Similarity=0.645 Sum_probs=76.8
Q ss_pred HHHHHhhhcccCCccchHHHHHHH---HHHHHH-hCcccCCCccchhhhhccchhhhhcCCCCcccccccceeeEEeeCc
Q psy14719 64 AVEEVQKLLVPQAEGEDELKKRQL---MELAII-NGTYRDNNAKVLAAAVFVFSEEANRGKPNWEHLSEELHVLISVEDT 139 (160)
Q Consensus 64 Av~~I~klL~P~~e~~nelK~~QL---~ELA~l-NGtlRd~~~~~~~~~~f~~~ee~~~g~p~~~hL~~~lhv~i~~~~~ 139 (160)
-+|||++||+|.+ |.+|+.|. +.+.|+ +||+||+. |||.+||||+|+||++||||+|+|++|
T Consensus 105 ~fNFVGRILGPrG---nSlkrLe~eTgCki~IrGrgSmrD~~-----------KEE~lR~~p~yeHL~epLHVlIe~~~p 170 (259)
T KOG1588|consen 105 KFNFVGRILGPRG---NSLKRLEEETGCKIMIRGRGSMRDKA-----------KEEELRGDPGYEHLNEPLHVLIETEAP 170 (259)
T ss_pred CCccccccccCCc---chHHHHHHHHCCeEEEecCCcccchH-----------HHHHhhcCcchHHhCCCcEEEEEEeCC
Confidence 5899999999998 99998885 566677 99999995 588889999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhccCC
Q psy14719 140 ENRAELKLARAVEEVQKLLVP 160 (160)
Q Consensus 140 ~~~~~~~l~~a~~~~~~~l~p 160 (160)
+++||+||++|+++|+|||+|
T Consensus 171 ~~ea~~rl~~AleeI~klL~P 191 (259)
T KOG1588|consen 171 PAEAYARLAYALEEIKKLLVP 191 (259)
T ss_pred HHHHHHHHHHHHHHHHHhcCC
Confidence 999999999999999999998
No 5
>COG5176 MSL5 Splicing factor (branch point binding protein) [RNA processing and modification]
Probab=99.72 E-value=3.9e-18 Score=140.34 Aligned_cols=96 Identities=30% Similarity=0.411 Sum_probs=70.2
Q ss_pred CcHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhcccCCccch
Q psy14719 1 MTAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLVPQAEGED 80 (160)
Q Consensus 1 ~TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~P~~e~~n 80 (160)
.|||+||+.|+|||+|||+||+|+++-..... +.--+..++||+||+++.....|. +-+.+.-+..-....|+|+|
T Consensus 174 ~Tlk~le~~s~akIaIRG~gsvKegk~ssd~p--~~~~N~e~~lhcLI~adsedki~~--~ik~~~n~I~~a~~~PeGqn 249 (269)
T COG5176 174 STLKQLERISRAKIAIRGSGSVKEGKISSDTP--ESLKNAEAVLHCLIEADSEDKICR--LIKSQLNAIREARRNPEGQN 249 (269)
T ss_pred chHHHHHHHhCCeEEEecccccccCcccccCc--hhhhhhHHhHHHHhhcchhhhHHH--HHHHHHHHHHHHhcCCcccc
Confidence 49999999999999999999999998543321 111235689999999976552221 22222222233345678999
Q ss_pred HHHHHHHHHHHHHhCcccCC
Q psy14719 81 ELKKRQLMELAIINGTYRDN 100 (160)
Q Consensus 81 elK~~QL~ELA~lNGtlRd~ 100 (160)
++|+-||++||-+|||+|++
T Consensus 250 DlkR~qlr~la~lngtlr~d 269 (269)
T COG5176 250 DLKRFQLRWLAHLNGTLRAD 269 (269)
T ss_pred hHHHHHHHHHHHhcceecCC
Confidence 99999999999999999974
No 6
>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=98.87 E-value=1.4e-09 Score=82.51 Aligned_cols=88 Identities=39% Similarity=0.597 Sum_probs=65.9
Q ss_pred EEEEeeCcHHHHHHHHHHHHHHHhhhcccCCccchHHHHHHHH---HHHHH-hCcccCCCccchhhhhccchhhhhcCCC
Q psy14719 46 VLISVEDTENRAELKLARAVEEVQKLLVPQAEGEDELKKRQLM---ELAII-NGTYRDNNAKVLAAAVFVFSEEANRGKP 121 (160)
Q Consensus 46 VlI~a~~~~~~a~~kl~~Av~~I~klL~P~~e~~nelK~~QL~---ELA~l-NGtlRd~~~~~~~~~~f~~~ee~~~g~p 121 (160)
|+|-.+..+ .+++|..+|+|-+ ..+|+.|-. .+.+. .|+.++..+ |+.+++ |
T Consensus 4 i~iP~~~~P---------~~N~IG~IIGPgG---~tiK~i~~eTg~kI~Irg~gs~~~~~~-----------~~~~~~-~ 59 (120)
T cd02395 4 VYIPVKQYP---------KYNFVGLILGPRG---NTLKQLEKETGAKISIRGKGSMKDGKK-----------EEELRG-P 59 (120)
T ss_pred EEcCcccCC---------CCCeeEEEECCCC---hHHHHHHHHHCCEEEEecCcccccccc-----------cccccC-c
Confidence 566666555 5889999999988 677766542 23333 667776643 556677 9
Q ss_pred CcccccccceeeEEeeCcHHHHHHHHHHHHHHHHhccCC
Q psy14719 122 NWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLVP 160 (160)
Q Consensus 122 ~~~hL~~~lhv~i~~~~~~~~~~~~l~~a~~~~~~~l~p 160 (160)
.|+|+++||||+|++.+| |...+..|++.|+.+|.|
T Consensus 60 ~~~~~~eplhV~I~a~~~---~~e~~~~A~~~I~~ll~~ 95 (120)
T cd02395 60 KYAHLNEPLHVLITAETP---PEEALAKAVEAIEELLKP 95 (120)
T ss_pred ccccCCCCcEEEEEeCCc---HHHHHHHHHHHHHHHhcc
Confidence 999999999999999988 567778888888888764
No 7
>KOG0119|consensus
Probab=94.91 E-value=0.0076 Score=55.53 Aligned_cols=83 Identities=22% Similarity=0.386 Sum_probs=54.9
Q ss_pred eEEEEeeCcHHHHHHHHHHHHHHHhhhcccCCccchHHHHHHHHH---HHHH-hCcccCCCccchhhhhccchhhhhcCC
Q psy14719 45 HVLISVEDTENRAELKLARAVEEVQKLLVPQAEGEDELKKRQLME---LAII-NGTYRDNNAKVLAAAVFVFSEEANRGK 120 (160)
Q Consensus 45 HVlI~a~~~~~~a~~kl~~Av~~I~klL~P~~e~~nelK~~QL~E---LA~l-NGtlRd~~~~~~~~~~f~~~ee~~~g~ 120 (160)
-|+|-++..+ -++||.=|++|.+ |.+|+.+-.- ++|. .||..+.- ....|
T Consensus 141 Kv~IPvke~P---------d~NFvGLiiGPRG---~TqK~lE~etgAKI~IRGkgSvkEgk--------------~~~~d 194 (554)
T KOG0119|consen 141 KVYIPVKEFP---------DINFVGLIIGPRG---NTQKRLERETGAKIAIRGKGSVKEGK--------------GRSDD 194 (554)
T ss_pred ceecchhhcC---------CcceeEEEecCCc---cHHHHHHHHhCCeEEEeccccccccc--------------cCCcc
Confidence 4666655544 5789999999998 7777666433 3333 45555442 12233
Q ss_pred CCccc-ccccceeeEEeeCcHHHHHHHHHHHHHHHHhcc
Q psy14719 121 PNWEH-LSEELHVLISVEDTENRAELKLARAVEEVQKLL 158 (160)
Q Consensus 121 p~~~h-L~~~lhv~i~~~~~~~~~~~~l~~a~~~~~~~l 158 (160)
++|-- -+|+||++|+++ .+.+|..|.+-|+.++
T Consensus 195 ~~~~~~~~epLH~~Isad-----t~eki~~Ai~vienli 228 (554)
T KOG0119|consen 195 LSYIPKENEPLHCLISAD-----TQEKIKKAIAVIENLI 228 (554)
T ss_pred cccccccccceeEEEecc-----hHHHHHHHHHHHHHHH
Confidence 44433 459999999987 4678888998888876
No 8
>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to those in other RNA binding proteins: a KH domain and an S1 domain. KH domains bind single-stranded RNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=93.83 E-value=0.17 Score=33.55 Aligned_cols=39 Identities=33% Similarity=0.378 Sum_probs=28.7
Q ss_pred CcHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHH
Q psy14719 1 MTAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEV 68 (160)
Q Consensus 1 ~TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I 68 (160)
.|.|+||++|||+|.|-- + =-|.|++.+.+ .++.|.++|
T Consensus 22 ~~ik~I~~~tg~~I~i~~-----~-------------------g~v~I~G~~~~-----~v~~A~~~I 60 (61)
T cd02393 22 KTIKKIIEETGVKIDIED-----D-------------------GTVYIAASDKE-----AAEKAKKMI 60 (61)
T ss_pred hHHHHHHHHHCCEEEeCC-----C-------------------CEEEEEeCCHH-----HHHHHHHHh
Confidence 378999999999998742 0 14889996555 477777766
No 9
>PF00013 KH_1: KH domain syndrome, contains KH motifs.; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....
Probab=93.04 E-value=0.32 Score=31.30 Aligned_cols=40 Identities=33% Similarity=0.388 Sum_probs=28.7
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHH
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEV 68 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I 68 (160)
++|+|+++|||+|.|... ++.-.|.|++ +++ .+..|.+.|
T Consensus 21 ~i~~I~~~t~~~I~i~~~---------------------~~~~~v~I~G-~~~-----~v~~A~~~I 60 (60)
T PF00013_consen 21 NIKEIEEETGVKIQIPDD---------------------DERDIVTISG-SPE-----QVEKAKKMI 60 (60)
T ss_dssp HHHHHHHHHTSEEEEEST---------------------TEEEEEEEEE-SHH-----HHHHHHHHH
T ss_pred cHHHhhhhcCeEEEEcCC---------------------CCcEEEEEEe-CHH-----HHHHHHhhC
Confidence 579999999999999553 0233788888 555 466676654
No 10
>cd02396 PCBP_like_KH K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are represented here, in tandem arrangement, followed by a large spacer region, with the third domain near the C-terminal end of the protein. The poly(C) binding proteins (PCBPs) can be divided into two groups, hnRNPs K/J and the alphaCPs, which share a triple KH domain configuration and poly(C) binding specificity. They play roles in mRNA stabilization, translational activation, and translational silencing. Nova-1 and Nova-2 are nuclear RNA-binding proteins that regulate splicing. This group also contains plant proteins that seem to have two tandem repeat arrrangements, like Hen4, a protein that plays a role in AGAMOUS (AG) pre-mRNA processing and important step in plant development. In general, KH binds single-stran
Probab=91.69 E-value=0.48 Score=31.36 Aligned_cols=17 Identities=47% Similarity=0.546 Sum_probs=14.8
Q ss_pred cHHhhhHHhCCeEEEec
Q psy14719 2 TAKQLELETGCKIMVRG 18 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRG 18 (160)
+.++|+++|||+|.|.-
T Consensus 21 ~i~~i~~~tga~I~i~~ 37 (65)
T cd02396 21 TIKEIREETGAKIRVSK 37 (65)
T ss_pred HHHHHHHHHCCEEEEcC
Confidence 57899999999999943
No 11
>smart00322 KH K homology RNA-binding domain.
Probab=90.55 E-value=0.73 Score=28.84 Aligned_cols=44 Identities=39% Similarity=0.461 Sum_probs=29.9
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhh
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKL 71 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~kl 71 (160)
+++.|++.|||+|.+.+.++ ..-.|.|.+. .. .+..|...|.+.
T Consensus 24 ~i~~i~~~~~~~i~~~~~~~--------------------~~~~v~i~g~-~~-----~v~~a~~~i~~~ 67 (69)
T smart00322 24 TIKKIEEETGVKIDIPEDGS--------------------EERVVEITGP-PE-----NVEKAAELILEI 67 (69)
T ss_pred HHHHHHHHHCCEEEECCCCC--------------------CccEEEEEcC-HH-----HHHHHHHHHHHH
Confidence 67999999999999976443 2335777775 23 355666666544
No 12
>PF13014 KH_3: KH domain
Probab=89.51 E-value=0.27 Score=30.02 Aligned_cols=17 Identities=41% Similarity=0.530 Sum_probs=15.9
Q ss_pred cHHhhhHHhCCeEEEec
Q psy14719 2 TAKQLELETGCKIMVRG 18 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRG 18 (160)
|+++|+++|||+|.|--
T Consensus 12 ~I~~I~~~tg~~I~i~~ 28 (43)
T PF13014_consen 12 TIKEIREETGAKIQIPP 28 (43)
T ss_pred HHHHHHHHhCcEEEECC
Confidence 78999999999999977
No 13
>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like. The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has been shown to bind RNA and to associate with both soluble and membrane-bound polyribosomes as a mRNP component. Bicaudal-C is a RNA-binding molecule believed to function in embryonic development at the post-transcriptional level. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=88.41 E-value=1.1 Score=28.86 Aligned_cols=41 Identities=29% Similarity=0.393 Sum_probs=28.8
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHH
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEV 68 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I 68 (160)
+.++|+++|||+|.|-..+ +.+=.|.|++. .+ .+..|..+|
T Consensus 21 ~i~~i~~~~g~~I~i~~~~--------------------~~~~~v~I~G~-~~-----~v~~A~~~i 61 (62)
T cd02394 21 NIRKIMEETGVKIRFPDPG--------------------SKSDTITITGP-KE-----NVEKAKEEI 61 (62)
T ss_pred cHHHHHHHhCCEEEcCCCC--------------------CCCCEEEEEcC-HH-----HHHHHHHHh
Confidence 6899999999999997643 11226888886 33 466676665
No 14
>cd00105 KH-I K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is folded into a beta alpha alpha beta unit. In addition to the core, type II KH domains (e.g. ribosomal protein S3) include N-terminal extension and type I KH domains (e.g. hnRNP K) contain C-terminal extension.
Probab=87.93 E-value=1.4 Score=28.11 Aligned_cols=20 Identities=45% Similarity=0.620 Sum_probs=17.1
Q ss_pred cHHhhhHHhCCeEEEecCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGS 21 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS 21 (160)
++++|+++|||+|.|...++
T Consensus 21 ~i~~I~~~s~~~I~i~~~~~ 40 (64)
T cd00105 21 TIKEIREETGAKIKIPDSGS 40 (64)
T ss_pred HHHHHHHHHCCEEEEcCCCC
Confidence 67999999999999987543
No 15
>KOG1960|consensus
Probab=85.76 E-value=0.59 Score=42.68 Aligned_cols=62 Identities=18% Similarity=0.177 Sum_probs=45.7
Q ss_pred CcHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhcccC
Q psy14719 1 MTAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLVPQ 75 (160)
Q Consensus 1 ~TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~P~ 75 (160)
+||.-.|-||+.+.+||||||.+--- ..| ..-+||+-++|+....+. +.+|..++..++.-+
T Consensus 235 ~~La~~~ie~~i~~l~~Gr~SG~iEP----~~G----~EsnEPMYI~i~h~~~~g-----~~~A~r~~~nl~~~v 296 (531)
T KOG1960|consen 235 LTLALQEIESWINPLIDGRRSGRREP----NEG----NESNEPMYIFSTHGNGNG-----ENGAPRRKWNLEEKV 296 (531)
T ss_pred hhhhhhhhhhhhhhhhccccccccCc----ccc----cccCCceeEEeecCCchh-----hccchhHHHhHHHHH
Confidence 46778899999999999999986321 112 235899999999887763 667777776666544
No 16
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein. This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.
Probab=84.90 E-value=1.9 Score=34.19 Aligned_cols=43 Identities=35% Similarity=0.332 Sum_probs=31.9
Q ss_pred CcHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhccc
Q psy14719 1 MTAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLVP 74 (160)
Q Consensus 1 ~TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~P 74 (160)
.|.+.||..|||+|.|-|+ .|.|++ +++ .++.|...|..|+..
T Consensus 109 ~t~~~ie~~t~~~i~i~~~-------------------------~v~i~G-~~~-----~~~~A~~~i~~li~~ 151 (172)
T TIGR03665 109 KTRRIIEELTGVSISVYGK-------------------------TVGIIG-DPE-----QVQIAREAIEMLIEG 151 (172)
T ss_pred HHHHHHHHHHCCeEEEcCC-------------------------EEEEEC-CHH-----HHHHHHHHHHHHHcC
Confidence 3789999999999998541 477888 455 477777777777743
No 17
>PRK13763 putative RNA-processing protein; Provisional
Probab=80.62 E-value=4.4 Score=32.38 Aligned_cols=45 Identities=27% Similarity=0.296 Sum_probs=34.2
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEE---eeCcHHHHHHHHHHHHHHHhhhccc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLIS---VEDTENRAELKLARAVEEVQKLLVP 74 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~---a~~~~~~a~~kl~~Av~~I~klL~P 74 (160)
|.|.|+++|||+|.|--. .=.|.|. +.|+. .+.+|.++|..+...
T Consensus 24 ~Ik~I~e~tg~~I~i~~~-----------------------~g~V~I~~~~~~d~~-----~i~kA~~~I~ai~~g 71 (180)
T PRK13763 24 TKKEIEERTGVKLEIDSE-----------------------TGEVIIEPTDGEDPL-----AVLKARDIVKAIGRG 71 (180)
T ss_pred HHHHHHHHHCcEEEEECC-----------------------CCeEEEEeCCCCCHH-----HHHHHHHHHHHHhcC
Confidence 679999999999999763 0156676 44555 588899999888874
No 18
>PRK13763 putative RNA-processing protein; Provisional
Probab=80.57 E-value=3.8 Score=32.77 Aligned_cols=41 Identities=37% Similarity=0.404 Sum_probs=29.7
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhcc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLV 73 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~ 73 (160)
|.|.||..|||+|.|-|+ .|.|++ +++ .+..|.+.|..|+.
T Consensus 116 ~~k~ie~~t~~~i~i~~~-------------------------~v~i~G-~~~-----~~~~A~~~I~~li~ 156 (180)
T PRK13763 116 TRRIIEELTGVDISVYGK-------------------------TVAIIG-DPE-----QVEIAREAIEMLIE 156 (180)
T ss_pred HHHHHHHHHCcEEEEcCC-------------------------EEEEEe-CHH-----HHHHHHHHHHHHHc
Confidence 789999999999998541 166676 444 46667777776663
No 19
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase. Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
Probab=74.46 E-value=7.6 Score=37.73 Aligned_cols=44 Identities=23% Similarity=0.283 Sum_probs=36.9
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhccc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLVP 74 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~P 74 (160)
|.|.|+++|||+|-|--. =+|.|.+.+.+ ++++|.++|..+..+
T Consensus 599 ~I~~i~~~tg~~Idi~d~------------------------G~V~I~a~d~~-----~~~~A~~~I~~i~~~ 642 (719)
T TIGR02696 599 MINQIQDETGAEISIEDD------------------------GTVYIGAADGP-----SAEAARAMINAIANP 642 (719)
T ss_pred hHHHHHHHHCCEEEEecC------------------------cEEEEEeCCHH-----HHHHHHHHHHHhhCc
Confidence 679999999999988542 27889998776 689999999998885
No 20
>KOG1676|consensus
Probab=70.88 E-value=6.7 Score=37.27 Aligned_cols=17 Identities=41% Similarity=0.522 Sum_probs=15.7
Q ss_pred cHHhhhHHhCCeEEEec
Q psy14719 2 TAKQLELETGCKIMVRG 18 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRG 18 (160)
|.|+|+.+||+||.++-
T Consensus 251 ~IKklq~etG~KIQfkp 267 (600)
T KOG1676|consen 251 MIKKLQNETGAKIQFKP 267 (600)
T ss_pred HHHHHhhccCceeEeec
Confidence 68999999999999975
No 21
>KOG1960|consensus
Probab=67.30 E-value=5.7 Score=36.51 Aligned_cols=54 Identities=19% Similarity=0.150 Sum_probs=39.2
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHh
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQ 69 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~ 69 (160)
|+-.+|++||+-|+.||+--. .++.+. ...+++|-..|.+.+.+ -+++|++.|.
T Consensus 115 ~~d~Ie~~~G~~~~~RGs~~~------~El~~v---g~~~~pLv~hI~~~T~E-----i~~~Ai~RIk 168 (531)
T KOG1960|consen 115 SYDHIEGITGTTSASRGSAPA------PELPPV---GSSEGPLVDHIPPSTAE-----ITSKAIERIK 168 (531)
T ss_pred hHHhhhhhccceeeccCCCCC------ccCCCC---CCCCCcceeecCCccHH-----HHHHHHhhCc
Confidence 455789999999999995322 222221 13468998899998877 5889999887
No 22
>KOG2814|consensus
Probab=66.87 E-value=9.1 Score=34.07 Aligned_cols=48 Identities=21% Similarity=0.197 Sum_probs=33.1
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcH--HHHHHHHHHHHHHHh
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTE--NRAELKLARAVEEVQ 69 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~--~~a~~kl~~Av~~I~ 69 (160)
|.|+||+||+|+|.+=-.+.. .=|+-|++-.-. -+|..||+.++...+
T Consensus 78 trkkle~Etq~~i~lp~p~~n--------------------~~~i~i~~~~~~~V~~a~~Ri~~~ids~r 127 (345)
T KOG2814|consen 78 TRKKLEEETQTNIFLPRPNTN--------------------KEEIKIIGISRNCVIQALERIAKLIDSDR 127 (345)
T ss_pred HHHHHHHhhccceEccCCCCC--------------------cceEEEeehhHHHHHHHHHHHHHHHHhhh
Confidence 889999999999987432211 227778876544 356667777777665
No 23
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein. This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.
Probab=65.74 E-value=15 Score=29.11 Aligned_cols=45 Identities=29% Similarity=0.271 Sum_probs=32.4
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEE--EeeCcHHHHHHHHHHHHHHHhhhccc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLI--SVEDTENRAELKLARAVEEVQKLLVP 74 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI--~a~~~~~~a~~kl~~Av~~I~klL~P 74 (160)
|.|+||++|||+|.|--. .=-|.| .+.|+. .+.+|.++|..+...
T Consensus 19 ~Ik~I~~~tgv~I~Id~~-----------------------~g~V~I~~~t~d~~-----~i~kA~~~I~~i~~g 65 (172)
T TIGR03665 19 TKKEIEERTGVKLDIDSE-----------------------TGEVKIEEEDEDPL-----AVMKAREVVKAIGRG 65 (172)
T ss_pred HHHHHHHHhCcEEEEEcC-----------------------CceEEEecCCCCHH-----HHHHHHHHHHHHHcC
Confidence 679999999999999742 014666 344444 588888888887763
No 24
>PF00126 HTH_1: Bacterial regulatory helix-turn-helix protein, lysR family; InterPro: IPR000847 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family, the lysR family, groups together a range of proteins, including ampR, catM, catR, cynR, cysB, gltC, iciA, ilvY, irgB, lysR, metR, mkaC, mleR, nahR, nhaR, nodD, nolR, oxyR, pssR, rbcR, syrM, tcbR, tfdS and trpI [, , , , ]. The majority of these proteins appear to be transcription activators and most are known to negatively regulate their own expression. All possess a potential HTH DNA-binding motif towards their N-termini.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3T1B_D 3SZP_A 1O7L_C 1B9N_A 1B9M_A 3FZJ_J 3FXR_B 3FXQ_A 3FXU_A 2IJL_B ....
Probab=60.13 E-value=7.3 Score=25.14 Aligned_cols=19 Identities=37% Similarity=0.417 Sum_probs=15.6
Q ss_pred cHHhhhHHhCCeEEEecCC
Q psy14719 2 TAKQLELETGCKIMVRGKG 20 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkG 20 (160)
.+++||++.|+++.+|..+
T Consensus 33 ~i~~LE~~lg~~Lf~r~~~ 51 (60)
T PF00126_consen 33 QIKQLEEELGVPLFERSGR 51 (60)
T ss_dssp HHHHHHHHHTS-SEEECSS
T ss_pred HHHHHHHHhCCeEEEECCC
Confidence 3789999999999999654
No 25
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=54.51 E-value=28 Score=33.46 Aligned_cols=42 Identities=24% Similarity=0.334 Sum_probs=32.0
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLL 72 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL 72 (160)
|.|.|+++|||+|.|--. =+|.|.+.+.. .+++|..+|..+.
T Consensus 572 ~Ik~I~~~tg~~I~i~dd------------------------G~V~i~~~~~~-----~~~~a~~~I~~~~ 613 (684)
T TIGR03591 572 VIREITEETGAKIDIEDD------------------------GTVKIAASDGE-----AAEAAIKMIEGIT 613 (684)
T ss_pred HHHHHHHHHCCEEEEecC------------------------eEEEEEECcHH-----HHHHHHHHHHhhh
Confidence 689999999999999321 26778887655 5788888886663
No 26
>PRK13348 chromosome replication initiation inhibitor protein; Provisional
Probab=52.71 E-value=10 Score=30.87 Aligned_cols=22 Identities=32% Similarity=0.428 Sum_probs=18.6
Q ss_pred cHHhhhHHhCCeEEEecCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMR 23 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~k 23 (160)
.+|+||++.|+++.+||+|..=
T Consensus 36 ~i~~LE~~lg~~Lf~R~r~i~l 57 (294)
T PRK13348 36 RIKALEESLGQPLLVRGRPCRP 57 (294)
T ss_pred HHHHHHHHhCceeeecCCCCcc
Confidence 4789999999999999986443
No 27
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]
Probab=50.86 E-value=12 Score=30.90 Aligned_cols=19 Identities=42% Similarity=0.436 Sum_probs=17.3
Q ss_pred CcHHhhhHHhCCeEEEecC
Q psy14719 1 MTAKQLELETGCKIMVRGK 19 (160)
Q Consensus 1 ~TlK~LE~eTgcKI~IRGk 19 (160)
.|.+.+|.-|||.|+|.|+
T Consensus 122 kTr~~IE~lt~~~I~V~g~ 140 (194)
T COG1094 122 KTRRAIEELTGVYISVYGK 140 (194)
T ss_pred hHHHHHHHHhCCeEEEeCc
Confidence 4889999999999999994
No 28
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=49.02 E-value=25 Score=35.09 Aligned_cols=43 Identities=23% Similarity=0.298 Sum_probs=33.6
Q ss_pred cHHhhhHHhCCe-EEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhcc
Q psy14719 2 TAKQLELETGCK-IMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLV 73 (160)
Q Consensus 2 TlK~LE~eTgcK-I~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~ 73 (160)
|.|.|+++||++ |-|+- +-+|.|.+.+.+ ++++|.+.|..+..
T Consensus 706 tIk~I~eetg~~~Idi~d------------------------dg~V~I~a~d~~-----~i~~A~~~I~~l~~ 749 (891)
T PLN00207 706 KVKSIIEETGVEAIDTQD------------------------DGTVKITAKDLS-----SLEKSKAIISSLTM 749 (891)
T ss_pred hHHHHHHHHCCCccCcCC------------------------CeeEEEEeCCHH-----HHHHHHHHHHHHhc
Confidence 678888888888 65543 458889998776 68999988887775
No 29
>TIGR03298 argP transcriptional regulator, ArgP family. ArgP used to be known as IciA. ArgP is a positive regulator of argK. It is a negative autoregulator in presence of arginine. It competes with DnaA for oriC iteron (13-mer) binding. It activates dnaA and nrd transcription. It has been demonstrated to be part of the pho regulon (PubMed:10589831). ArgP mutants convey canavanine (an L-arginine structural homolog) sensitivity (PubMed: 15150242).
Probab=45.33 E-value=12 Score=30.41 Aligned_cols=23 Identities=26% Similarity=0.309 Sum_probs=18.9
Q ss_pred HHhhhHHhCCeEEEecCCCCCCc
Q psy14719 3 AKQLELETGCKIMVRGKGSMRDK 25 (160)
Q Consensus 3 lK~LE~eTgcKI~IRGkGS~kd~ 25 (160)
+|+||++.|+++.+||+|-.=..
T Consensus 36 I~~LE~~lg~~Lf~R~r~~~lT~ 58 (292)
T TIGR03298 36 IKALEERLGQPLLVRTQPCRATE 58 (292)
T ss_pred HHHHHHHhCchheecCCCCcCCH
Confidence 68999999999999997654433
No 30
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=41.71 E-value=21 Score=29.32 Aligned_cols=22 Identities=23% Similarity=0.235 Sum_probs=17.7
Q ss_pred cHHhhhHHhCCeEEEecCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMR 23 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~k 23 (160)
.+|+||++.|+.+.+|....+.
T Consensus 36 ~I~~LE~~lg~~LF~R~~r~~~ 57 (300)
T PRK11074 36 TVRQLEEWLAVPLFERRHRDVE 57 (300)
T ss_pred HHHHHHHHhCCeeEEeCCCCce
Confidence 4799999999999999544443
No 31
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=41.57 E-value=20 Score=28.98 Aligned_cols=23 Identities=26% Similarity=0.306 Sum_probs=19.2
Q ss_pred cHHhhhHHhCCeEEEecCCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRD 24 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd 24 (160)
.+|+||++.|+++.+|+.+.+.-
T Consensus 41 ~i~~LE~~lg~~Lf~R~~r~~~l 63 (294)
T PRK09986 41 HIKELEDQLGTPLFIRHSRSVVL 63 (294)
T ss_pred HHHHHHHHhCCeeEeeCCCceeE
Confidence 47999999999999999655543
No 32
>PRK03635 chromosome replication initiation inhibitor protein; Validated
Probab=41.00 E-value=19 Score=29.54 Aligned_cols=23 Identities=26% Similarity=0.287 Sum_probs=19.2
Q ss_pred cHHhhhHHhCCeEEEecCCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRD 24 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd 24 (160)
.+|+||++.|+++..|++|-.=.
T Consensus 36 ~I~~LE~~lg~~LF~R~~~~~lT 58 (294)
T PRK03635 36 RIKALEERVGQVLLVRTQPCRPT 58 (294)
T ss_pred HHHHHHHHhCceeeecCCCCccC
Confidence 47999999999999999865443
No 33
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=40.95 E-value=21 Score=29.04 Aligned_cols=19 Identities=26% Similarity=0.485 Sum_probs=16.1
Q ss_pred cHHhhhHHhCCeEEEecCC
Q psy14719 2 TAKQLELETGCKIMVRGKG 20 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkG 20 (160)
.+|+||++.|+++..|...
T Consensus 35 ~I~~LE~~lG~~LF~R~~r 53 (275)
T PRK03601 35 RIRQLENQLGVNLFTRHRN 53 (275)
T ss_pred HHHHHHHHhCCceEEECCC
Confidence 3689999999999999543
No 34
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=40.68 E-value=24 Score=28.86 Aligned_cols=23 Identities=13% Similarity=0.206 Sum_probs=19.7
Q ss_pred cHHhhhHHhCCeEEEecCCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRD 24 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd 24 (160)
.+|+||++.|+++.+|.++.+.-
T Consensus 39 ~i~~LE~~lG~~LF~R~~r~~~l 61 (302)
T PRK09791 39 SIQELEEGLAAQLFFRRSKGVTL 61 (302)
T ss_pred HHHHHHHHhCCeEEEEcCCCceE
Confidence 47999999999999998877653
No 35
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=40.64 E-value=43 Score=32.23 Aligned_cols=43 Identities=28% Similarity=0.361 Sum_probs=32.5
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhcc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLV 73 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~ 73 (160)
|+|.++++||++|-|+- +-.|.|.+.+.. .+++|...|..+..
T Consensus 575 ~ik~I~~~~~~~idi~d------------------------~G~v~i~~~~~~-----~~~~a~~~I~~~~~ 617 (693)
T PRK11824 575 TIREITEETGAKIDIED------------------------DGTVKIAATDGE-----AAEAAKERIEGITA 617 (693)
T ss_pred hHHHHHHHHCCccccCC------------------------CceEEEEcccHH-----HHHHHHHHHHHhcc
Confidence 78999999999887743 236778887666 58888888877663
No 36
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=39.64 E-value=24 Score=29.40 Aligned_cols=20 Identities=40% Similarity=0.503 Sum_probs=17.0
Q ss_pred cHHhhhHHhCCeEEEe-cCCC
Q psy14719 2 TAKQLELETGCKIMVR-GKGS 21 (160)
Q Consensus 2 TlK~LE~eTgcKI~IR-GkGS 21 (160)
.+|+||++.||++.+| |+|-
T Consensus 36 ~ik~LE~~lg~~Lf~R~~r~~ 56 (313)
T PRK12684 36 AIIELEDELGVEIFTRHGKRL 56 (313)
T ss_pred HHHHHHHHhCCeeEEEcCCcc
Confidence 3799999999999999 4563
No 37
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=39.51 E-value=22 Score=29.64 Aligned_cols=20 Identities=45% Similarity=0.619 Sum_probs=17.2
Q ss_pred cHHhhhHHhCCeEEEe-cCCC
Q psy14719 2 TAKQLELETGCKIMVR-GKGS 21 (160)
Q Consensus 2 TlK~LE~eTgcKI~IR-GkGS 21 (160)
.+|+||++.|+++.+| |+|-
T Consensus 36 ~I~~LE~~lg~~Lf~R~~r~~ 56 (309)
T PRK12683 36 QIKDLEDELGVEIFIRRGKRL 56 (309)
T ss_pred HHHHHHHHhCCeeEeeCCCCc
Confidence 4799999999999999 5664
No 38
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=36.65 E-value=28 Score=28.70 Aligned_cols=20 Identities=35% Similarity=0.423 Sum_probs=16.9
Q ss_pred cHHhhhHHhCCeEEEec-CCC
Q psy14719 2 TAKQLELETGCKIMVRG-KGS 21 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRG-kGS 21 (160)
.+|+||++.||++.+|. +|-
T Consensus 36 ~I~~LE~~lg~~LF~R~~~~~ 56 (309)
T PRK12682 36 AIIELEEELGIEIFIRHGKRL 56 (309)
T ss_pred HHHHHHHHhCCeeEEECCCCc
Confidence 37899999999999995 554
No 39
>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional
Probab=36.46 E-value=77 Score=26.26 Aligned_cols=44 Identities=32% Similarity=0.465 Sum_probs=29.2
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhccc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLVP 74 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~P 74 (160)
+++.|.++|+|+|.| |. +=.|+|++.+.+ .+..|.+.|..+-.-
T Consensus 166 ~i~~l~~~~~~~I~i-g~-----------------------NG~VwI~~~~~~-----~~~~a~~~I~~~e~~ 209 (235)
T PRK04163 166 MINMLKEETGCDIIV-GQ-----------------------NGRIWIKGPDEE-----DEEIAIEAIKKIERE 209 (235)
T ss_pred hHhhhhhhhCcEEEE-cC-----------------------CcEEEEeeCCHH-----HHHHHHHHHHHHHhh
Confidence 456777778888777 21 117999998766 366677777655543
No 40
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=34.47 E-value=29 Score=28.04 Aligned_cols=19 Identities=26% Similarity=0.368 Sum_probs=16.6
Q ss_pred cHHhhhHHhCCeEEEecCC
Q psy14719 2 TAKQLELETGCKIMVRGKG 20 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkG 20 (160)
++|+||++.|+++.+|+.+
T Consensus 35 ~i~~LE~~lg~~Lf~R~~~ 53 (296)
T PRK11242 35 QIRQLEESLGVQLFDRSGR 53 (296)
T ss_pred HHHHHHHHhCCeeEeEcCC
Confidence 4799999999999999643
No 41
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=33.83 E-value=32 Score=28.42 Aligned_cols=23 Identities=22% Similarity=0.364 Sum_probs=19.4
Q ss_pred HHhhhHHhCCeEEEecCCCCCCc
Q psy14719 3 AKQLELETGCKIMVRGKGSMRDK 25 (160)
Q Consensus 3 lK~LE~eTgcKI~IRGkGS~kd~ 25 (160)
+|+||++.|+++.+|+.+-+.--
T Consensus 39 Ik~LE~~lg~~Lf~R~~~~v~LT 61 (309)
T PRK11013 39 LARFEKVIGLKLFERVRGRLHPT 61 (309)
T ss_pred HHHHHHHhCceeeeecCCCcccC
Confidence 69999999999999998666533
No 42
>TIGR00637 ModE_repress ModE molybdate transport repressor domain. ModE is a molybdate-activated repressor of the molybdate transport operon in E. coli. It consists of the domain represented by this model and two tandem copies of mop-like domain, where Mop proteins are a family of 68-residue molybdenum-pterin binding proteins of Clostridium pasteurianum. This model also represents the full length of a pair of archaeal proteins that lack Mop-like domains. PSI-BLAST analysis shows similarity to helix-turn-helix regulatory proteins.
Probab=33.79 E-value=33 Score=24.73 Aligned_cols=18 Identities=17% Similarity=0.344 Sum_probs=16.1
Q ss_pred HHhhhHHhCCeEEEecCC
Q psy14719 3 AKQLELETGCKIMVRGKG 20 (160)
Q Consensus 3 lK~LE~eTgcKI~IRGkG 20 (160)
+++||+..|+++..|.+|
T Consensus 37 I~~LE~~lg~~Lf~R~~~ 54 (99)
T TIGR00637 37 IRAMNNLSGEPLVERATG 54 (99)
T ss_pred HHHHHHHhCCCeEEecCC
Confidence 689999999999999764
No 43
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=33.54 E-value=34 Score=27.78 Aligned_cols=25 Identities=28% Similarity=0.317 Sum_probs=20.6
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCch
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKK 26 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~ 26 (160)
.+|+||++.||++.+|..+.+.--.
T Consensus 35 ~i~~LE~~lg~~Lf~R~~~~~~lT~ 59 (296)
T PRK09906 35 QIKDLENCVGVPLLVRDKRKVALTA 59 (296)
T ss_pred HHHHHHHHhCCeeeeeCCCcceEcH
Confidence 4789999999999999887766443
No 44
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=33.39 E-value=34 Score=28.45 Aligned_cols=22 Identities=32% Similarity=0.392 Sum_probs=18.4
Q ss_pred cHHhhhHHhCCeEEEecCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMR 23 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~k 23 (160)
.+|+||++.|+++.+|.+..+.
T Consensus 36 ~I~~LE~~lg~~Lf~R~~r~~~ 57 (308)
T PRK10094 36 RIKLLEENTGVALFFRTTRSVT 57 (308)
T ss_pred HHHHHHHHhCCEEEeeCCCcee
Confidence 4799999999999999765554
No 45
>PRK10216 DNA-binding transcriptional regulator YidZ; Provisional
Probab=33.18 E-value=34 Score=28.42 Aligned_cols=23 Identities=9% Similarity=-0.016 Sum_probs=18.9
Q ss_pred cHHhhhHHhCCeEEEecCCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRD 24 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd 24 (160)
++|+||++.|+++.+|..+.+.-
T Consensus 42 ~I~~LE~~lg~~LF~R~~r~~~l 64 (319)
T PRK10216 42 SLAKLRAWFDDPLFVNTPLGLSP 64 (319)
T ss_pred HHHHHHHHhCCceEEecCCCccc
Confidence 47999999999999996655543
No 46
>KOG2874|consensus
Probab=32.92 E-value=30 Score=30.53 Aligned_cols=19 Identities=53% Similarity=0.756 Sum_probs=18.1
Q ss_pred CcHHhhhHHhCCeEEEecC
Q psy14719 1 MTAKQLELETGCKIMVRGK 19 (160)
Q Consensus 1 ~TlK~LE~eTgcKI~IRGk 19 (160)
+|||.||=-|+|-|+|.|.
T Consensus 169 ~TLKAlelLT~CYilVqG~ 187 (356)
T KOG2874|consen 169 STLKALELLTNCYILVQGN 187 (356)
T ss_pred hhHHHHHHHhhcEEEeeCc
Confidence 6999999999999999996
No 47
>KOG1676|consensus
Probab=32.82 E-value=71 Score=30.61 Aligned_cols=51 Identities=27% Similarity=0.400 Sum_probs=36.5
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhccc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLVP 74 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~P 74 (160)
|.|+|++.||||+.+-=-|+.-++ -+.|| .||++ +. ++..|...|-.+|..
T Consensus 160 Tikqlqe~sg~k~i~iqd~~~~~~--------------~~Kpl--ritGd-p~-----~ve~a~~lV~dil~e 210 (600)
T KOG1676|consen 160 TIKQLQEQSGVKMILVQDGSIATG--------------ADKPL--RITGD-PD-----KVEQAKQLVADILRE 210 (600)
T ss_pred HHHHHHhhcCCceEEEecCCcCCC--------------CCCce--eecCC-HH-----HHHHHHHHHHHHHHh
Confidence 789999999999988766655432 12243 45764 44 688899999888874
No 48
>TIGR02424 TF_pcaQ pca operon transcription factor PcaQ. Members of this family are LysR-family transcription factors associated with operons for catabolism of protocatechuate. Members occur only in Proteobacteria.
Probab=31.60 E-value=43 Score=27.24 Aligned_cols=25 Identities=24% Similarity=0.367 Sum_probs=20.7
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCch
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKK 26 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~ 26 (160)
.+|+||++.|+++.+|..+-+.--.
T Consensus 37 ~I~~LE~~lg~~LF~R~~~~~~lT~ 61 (300)
T TIGR02424 37 TLRELEEILGTPLFERDRRGIRLTR 61 (300)
T ss_pred HHHHHHHHhCCeEEEEcCCCccccH
Confidence 4799999999999999987775443
No 49
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=30.98 E-value=30 Score=27.87 Aligned_cols=22 Identities=18% Similarity=0.205 Sum_probs=18.2
Q ss_pred cHHhhhHHhCCeEEEecCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMR 23 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~k 23 (160)
.+|+||++.||++.+|+..-+.
T Consensus 37 ~I~~LE~~lg~~Lf~R~~r~~~ 58 (290)
T PRK10837 37 ALTDLEGQLGVQLFDRVGKRLV 58 (290)
T ss_pred HHHHHHHHhCCccEeecCCeEE
Confidence 3689999999999999765454
No 50
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=30.79 E-value=46 Score=28.14 Aligned_cols=22 Identities=41% Similarity=0.440 Sum_probs=19.1
Q ss_pred cHHhhhHHhCCeEEEecCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMR 23 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~k 23 (160)
.+|+||++.||++.+|..+.++
T Consensus 36 ~I~~LE~~lG~~LF~R~~r~v~ 57 (327)
T PRK12680 36 QLKQLEDELGFLLFVRKGRSLE 57 (327)
T ss_pred HHHHHHHHhCCeEEEECCCcCC
Confidence 3689999999999999877764
No 51
>PRK11139 DNA-binding transcriptional activator GcvA; Provisional
Probab=30.79 E-value=30 Score=28.29 Aligned_cols=22 Identities=32% Similarity=0.268 Sum_probs=18.2
Q ss_pred cHHhhhHHhCCeEEEecCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMR 23 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~k 23 (160)
.+|+||++.||++.+|+..-++
T Consensus 40 ~i~~LE~~lg~~Lf~R~~r~l~ 61 (297)
T PRK11139 40 QIKALEDFLGLKLFRRRNRSLL 61 (297)
T ss_pred HHHHHHHHhCchheEecCCcee
Confidence 3799999999999999765444
No 52
>PF02641 DUF190: Uncharacterized ACR, COG1993; InterPro: IPR003793 This is an uncharacterised domain found in proteins of unknown function.; PDB: 2DCL_C 1O51_A.
Probab=29.58 E-value=82 Score=22.59 Aligned_cols=33 Identities=33% Similarity=0.471 Sum_probs=22.6
Q ss_pred cCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhccc
Q psy14719 38 EHLSEELHVLISVEDTENRAELKLARAVEEVQKLLVP 74 (160)
Q Consensus 38 ~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~P 74 (160)
..++++|-|.|+.-|.++ +++..+..+..++..
T Consensus 58 ~~l~~~lPvvIe~id~~e----ki~~~l~~l~~~~~~ 90 (101)
T PF02641_consen 58 LELSDDLPVVIEFIDTEE----KIEAFLPELKELVKD 90 (101)
T ss_dssp ---TTS-EEEEEEEEEHH----HHHHHHHHHCTT-SS
T ss_pred hhhcCCCCEEEEEEcCHH----HHHHHHHHHHHHcCC
Confidence 356788999999888776 788888888777653
No 53
>PRK09801 transcriptional activator TtdR; Provisional
Probab=29.25 E-value=45 Score=27.83 Aligned_cols=24 Identities=13% Similarity=0.093 Sum_probs=20.0
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDK 25 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~ 25 (160)
.+|+||++.|+++..|++..+.--
T Consensus 40 ~I~~LE~~LG~~Lf~R~~r~~~lT 63 (310)
T PRK09801 40 RIQILENTLATTLLNRSARGVALT 63 (310)
T ss_pred HHHHHHHHhCCEeeeecCCCCccc
Confidence 479999999999999997666543
No 54
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=28.67 E-value=44 Score=28.16 Aligned_cols=20 Identities=35% Similarity=0.421 Sum_probs=17.1
Q ss_pred cHHhhhHHhCCeEEEec-CCC
Q psy14719 2 TAKQLELETGCKIMVRG-KGS 21 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRG-kGS 21 (160)
.+|+||++.|+++..|. +|-
T Consensus 36 ~I~~LE~~lG~~LF~R~~r~~ 56 (324)
T PRK12681 36 QVRMLEDELGIQIFARSGKHL 56 (324)
T ss_pred HHHHHHHHhCCEeEEECCCCC
Confidence 47999999999999996 553
No 55
>PRK15092 DNA-binding transcriptional repressor LrhA; Provisional
Probab=28.18 E-value=44 Score=28.04 Aligned_cols=21 Identities=19% Similarity=0.251 Sum_probs=17.4
Q ss_pred cHHhhhHHhCCeEEEecCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSM 22 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~ 22 (160)
.+|+||++.||++.+|+..-+
T Consensus 45 ~I~~LE~~lG~~LF~R~~~~~ 65 (310)
T PRK15092 45 QMQRLEQLVGKELFARHGRNK 65 (310)
T ss_pred HHHHHHHHhCcceEEECCCCc
Confidence 368999999999999976433
No 56
>TIGR03339 phn_lysR aminoethylphosphonate catabolism associated LysR family transcriptional regulator. This group of sequences represents a number of related clades with numerous examples of members adjacent to operons for the degradation of 2-aminoethylphosphonate (AEP) in Pseudomonas, Ralstonia, Bordetella and Burkholderia species. These are transcriptional regulators of the LysR family which contain a helix-turn-helix (HTH) domain (pfam00126) and a periplasmic substrate-binding protein-like domain (pfam03466).
Probab=27.56 E-value=39 Score=26.84 Aligned_cols=22 Identities=18% Similarity=0.362 Sum_probs=18.0
Q ss_pred cHHhhhHHhCCeEEEecCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMR 23 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~k 23 (160)
.+|+||++.|+++.+|..+.++
T Consensus 31 ~i~~LE~~lg~~Lf~R~~~~~~ 52 (279)
T TIGR03339 31 QVRKLEERYGVELFHRNGRRLE 52 (279)
T ss_pred HHHHHHHHhCCccEEEcCCeEE
Confidence 3799999999999999654444
No 57
>COG5176 MSL5 Splicing factor (branch point binding protein) [RNA processing and modification]
Probab=26.99 E-value=32 Score=29.19 Aligned_cols=71 Identities=21% Similarity=0.311 Sum_probs=42.4
Q ss_pred eEEEEeeCcHHHHHHHHHHHHHHHhhhcccCCccchHHHHHHHHHHHH--HhCcccCCCccchhhhhccchhhhhcCCCC
Q psy14719 45 HVLISVEDTENRAELKLARAVEEVQKLLVPQAEGEDELKKRQLMELAI--INGTYRDNNAKVLAAAVFVFSEEANRGKPN 122 (160)
Q Consensus 45 HVlI~a~~~~~~a~~kl~~Av~~I~klL~P~~e~~nelK~~QL~ELA~--lNGtlRd~~~~~~~~~~f~~~ee~~~g~p~ 122 (160)
-++|-+...+ -++||+=+++|-+ -.+|+.|..--|- |.|++.+...+..+ +.. +.
T Consensus 151 KiYIPV~eyP---------e~NFVGLliGPRG---~Tlk~le~~s~akIaIRG~gsvKegk~ss--------d~p---~~ 207 (269)
T COG5176 151 KIYIPVQEYP---------ESNFVGLLIGPRG---STLKQLERISRAKIAIRGSGSVKEGKISS--------DTP---ES 207 (269)
T ss_pred eEEeehhhCc---------ccceeEEEecCCc---chHHHHHHHhCCeEEEecccccccCcccc--------cCc---hh
Confidence 5677777666 4689999999987 5566555432232 26776665443211 111 12
Q ss_pred cccccccceeeEEeeC
Q psy14719 123 WEHLSEELHVLISVED 138 (160)
Q Consensus 123 ~~hL~~~lhv~i~~~~ 138 (160)
--...++||-||++.-
T Consensus 208 ~~N~e~~lhcLI~ads 223 (269)
T COG5176 208 LKNAEAVLHCLIEADS 223 (269)
T ss_pred hhhhHHhHHHHhhcch
Confidence 2224589999998763
No 58
>KOG2193|consensus
Probab=26.27 E-value=37 Score=31.65 Aligned_cols=16 Identities=38% Similarity=0.617 Sum_probs=14.6
Q ss_pred cHHhhhHHhCCeEEEe
Q psy14719 2 TAKQLELETGCKIMVR 17 (160)
Q Consensus 2 TlK~LE~eTgcKI~IR 17 (160)
.+|.+|.+|||||.|-
T Consensus 301 nlKkIeq~TgTkITis 316 (584)
T KOG2193|consen 301 NLKKIEQDTGTKITIS 316 (584)
T ss_pred cHHHHHhhcCCceeee
Confidence 5899999999999984
No 59
>TIGR02933 nifM_nitrog nitrogen fixation protein NifM. Members of this protein family, found in a subset of nitrogen-fixing bacteria, are the nitrogen fixation protein NifM. NifM, homologous to peptidyl-prolyl cis-trans isomerases, appears to be an accessory protein for NifH, the Fe protein, also called component II or dinitrogenase reductase, of nitrogenase.
Probab=25.77 E-value=3.2e+02 Score=22.60 Aligned_cols=92 Identities=15% Similarity=0.159 Sum_probs=42.1
Q ss_pred HHHHHHHHhhhcccCCccchHHHHHHHHHH---HHHhCcccCCCccchh-hhhccchhhhhcCCCCcccccccceeeEEe
Q psy14719 61 LARAVEEVQKLLVPQAEGEDELKKRQLMEL---AIINGTYRDNNAKVLA-AAVFVFSEEANRGKPNWEHLSEELHVLISV 136 (160)
Q Consensus 61 l~~Av~~I~klL~P~~e~~nelK~~QL~EL---A~lNGtlRd~~~~~~~-~~~f~~~ee~~~g~p~~~hL~~~lhv~i~~ 136 (160)
|+.|.+.....|.-.+-+.+.++..-..++ .+++..++....-+.. .-.|-......-+.|.+.|+. |++|.+
T Consensus 57 v~~~~e~~~~~L~~~G~~~~~~r~~ir~~i~~~~~~~~~~~~~i~ise~ei~~yy~~~~~~~~~~e~~~~~---hIli~~ 133 (256)
T TIGR02933 57 LEEAPQALAQALDEQALDAAERRAMLAHHLRLEAQLACVCAQAPQPDDADVEAWYRRHAEQFKRPEQRLTR---HLLLTV 133 (256)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHhcCCCCeEEEE---EEEEEC
Confidence 666666677777665555566665333333 2223323222110000 111211111122457776654 999987
Q ss_pred e-CcHHHHHHHHHHHHHHHH
Q psy14719 137 E-DTENRAELKLARAVEEVQ 155 (160)
Q Consensus 137 ~-~~~~~~~~~l~~a~~~~~ 155 (160)
. +....+..++....+.|+
T Consensus 134 ~~~~~~~a~~~a~~l~~~l~ 153 (256)
T TIGR02933 134 NEDDREAVRTRILAILRRLR 153 (256)
T ss_pred CcccHHHHHHHHHHHHHHHH
Confidence 3 333444444544444443
No 60
>KOG2191|consensus
Probab=25.62 E-value=1.9e+02 Score=26.20 Aligned_cols=54 Identities=20% Similarity=0.271 Sum_probs=33.8
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhcccCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLVPQA 76 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~P~~ 76 (160)
|.|.+.+++||-|.|-- . +|..-.|.| ++|++.++.+ ...+|+..|-.-+..+|
T Consensus 153 tiK~~~Eqsga~iqisP---q-----------kpt~~sLqe---rvvt~sge~e----~~~~A~~~IL~Ki~eDp 206 (402)
T KOG2191|consen 153 TIKAIQEQSGAWIQISP---Q-----------KPTGISLQE---RVVTVSGEPE----QNMKAVSLILQKIQEDP 206 (402)
T ss_pred hHHHHHHhhCcceEecc---c-----------CCCCcccee---EEEEecCCHH----HHHHHHHHHHHHhhcCC
Confidence 67899999999999864 1 122223444 4455555543 47788888766555443
No 61
>TIGR02036 dsdC D-serine deaminase transcriptional activator. This family, part of the LysR family of transcriptional regulators, activates transcription of the gene for D-serine deaminase, dsdA. Trusted members of this family so far are found adjacent to dsdA and only in Gammaproteobacteria, including E. coli, Vibrio cholerae, and Colwellia psychrerythraea.
Probab=25.30 E-value=55 Score=27.01 Aligned_cols=23 Identities=30% Similarity=0.396 Sum_probs=19.3
Q ss_pred cHHhhhHHhCCeEEEecCCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRD 24 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd 24 (160)
.+++||++.|+++.+|..+.+.-
T Consensus 42 ~I~~LE~~lg~~Lf~R~~r~~~l 64 (302)
T TIGR02036 42 RINQLEEELGIQLFVRSHRKVEL 64 (302)
T ss_pred HHHHHHHHhCCceEEECCCceeE
Confidence 36899999999999999766653
No 62
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=24.72 E-value=59 Score=25.57 Aligned_cols=22 Identities=32% Similarity=0.439 Sum_probs=18.0
Q ss_pred cHHhhhHHhCCeEEEecCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMR 23 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~k 23 (160)
.+|+||++.|+++.+|....+.
T Consensus 11 ~I~~LE~~lg~~Lf~R~~r~~~ 32 (269)
T PRK11716 11 QIQRLEEELGQPLFVRDNRSVT 32 (269)
T ss_pred HHHHHHHHhCCeeEEecCCcee
Confidence 3789999999999999864443
No 63
>PRK15243 transcriptional regulator SpvR; Provisional
Probab=24.60 E-value=44 Score=28.37 Aligned_cols=21 Identities=19% Similarity=0.262 Sum_probs=17.2
Q ss_pred cHHhhhHHhCCeEEEec-CCCC
Q psy14719 2 TAKQLELETGCKIMVRG-KGSM 22 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRG-kGS~ 22 (160)
.+|+||++.|+++..|. ||-.
T Consensus 38 ~Ik~LE~eLG~~LF~R~~r~~~ 59 (297)
T PRK15243 38 VISDLERELKQRLFIRKNGTLI 59 (297)
T ss_pred HHHHHHHHhCCccEEeCCCCee
Confidence 47999999999999994 4443
No 64
>PRK10082 cell density-dependent motility repressor; Provisional
Probab=24.54 E-value=65 Score=26.46 Aligned_cols=24 Identities=17% Similarity=0.260 Sum_probs=19.3
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDK 25 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~ 25 (160)
.+|+||++.|+++..|....+.--
T Consensus 45 ~I~~LE~~lG~~Lf~R~~r~~~lT 68 (303)
T PRK10082 45 RIRALEQAIGVELFNRQVTPLQLS 68 (303)
T ss_pred HHHHHHHHcCCEEEEecCCCCccC
Confidence 479999999999999986555433
No 65
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=24.52 E-value=51 Score=27.04 Aligned_cols=22 Identities=23% Similarity=0.205 Sum_probs=18.7
Q ss_pred HHhhhHHhCCeEEEecCCCCCC
Q psy14719 3 AKQLELETGCKIMVRGKGSMRD 24 (160)
Q Consensus 3 lK~LE~eTgcKI~IRGkGS~kd 24 (160)
+|+||++.|+++.+|..+.+.-
T Consensus 39 I~~LE~~lg~~Lf~R~~r~~~l 60 (296)
T PRK11062 39 IKALEERLQGKLFKRKGRGLEP 60 (296)
T ss_pred HHHHHHHcCccceeecCCceeE
Confidence 6899999999999998766543
No 66
>PRK01220 malonate decarboxylase subunit delta; Provisional
Probab=24.14 E-value=97 Score=22.95 Aligned_cols=18 Identities=33% Similarity=0.488 Sum_probs=16.8
Q ss_pred CcHHHHHHHHHHHHHHHH
Q psy14719 138 DTENRAELKLARAVEEVQ 155 (160)
Q Consensus 138 ~~~~~~~~~l~~a~~~~~ 155 (160)
++|.-+..||.+|+++++
T Consensus 80 ATP~VV~LRL~QA~e~~~ 97 (99)
T PRK01220 80 ATPGVVRLRLEQALEEIG 97 (99)
T ss_pred CCcHhhhhHHHHHHHHHh
Confidence 899999999999999986
No 67
>PRK13782 phosphocarrier protein Chr; Provisional
Probab=24.04 E-value=1.7e+02 Score=20.01 Aligned_cols=54 Identities=13% Similarity=0.110 Sum_probs=29.3
Q ss_pred HHhCCeEEEecCCCCCCchhh-hhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhc
Q psy14719 8 LETGCKIMVRGKGSMRDKKKE-EANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLL 72 (160)
Q Consensus 8 ~eTgcKI~IRGkGS~kd~~~e-~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL 72 (160)
...+|.|.|+-.|-.-|.++- +-+.-.- .-++.+.|.++++|.+ .|++.+.++|
T Consensus 27 ~~f~~~i~l~~~~~~vdaKSil~llsLg~---~~g~~v~v~~~G~de~--------~a~~~l~~~~ 81 (82)
T PRK13782 27 NRFHADIFIEKDGKKVNAKSIMGLMSLAI---GTGSMITIITEGSDEE--------EALEALAAYV 81 (82)
T ss_pred HhCCCEEEEEECCeEEecHhHHHHHhcCC---CCCCEEEEEEeCcCHH--------HHHHHHHHHh
Confidence 467899999855544444432 1112111 1356788877776544 3555555544
No 68
>PRK14997 LysR family transcriptional regulator; Provisional
Probab=23.62 E-value=61 Score=26.41 Aligned_cols=22 Identities=23% Similarity=0.351 Sum_probs=18.2
Q ss_pred cHHhhhHHhCCeEEEecCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMR 23 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~k 23 (160)
.+|+||++.|+++..|++.-+.
T Consensus 36 ~I~~LE~~lG~~LF~R~~r~~~ 57 (301)
T PRK14997 36 RIAQLEERLGVRLIQRTTRQFN 57 (301)
T ss_pred HHHHHHHHhCCEeeeeccCcce
Confidence 3689999999999999874443
No 69
>PRK02103 malonate decarboxylase subunit delta; Provisional
Probab=22.73 E-value=1e+02 Score=23.03 Aligned_cols=18 Identities=28% Similarity=0.499 Sum_probs=16.8
Q ss_pred CcHHHHHHHHHHHHHHHH
Q psy14719 138 DTENRAELKLARAVEEVQ 155 (160)
Q Consensus 138 ~~~~~~~~~l~~a~~~~~ 155 (160)
++|.-+..||.+|+++++
T Consensus 84 ATP~VV~LRL~QA~e~~~ 101 (105)
T PRK02103 84 ARPDTVSLRLAQAVRAIE 101 (105)
T ss_pred CCchhhhhHHHHHHHHHh
Confidence 899999999999999985
No 70
>KOG2190|consensus
Probab=22.65 E-value=1.4e+02 Score=27.81 Aligned_cols=49 Identities=35% Similarity=0.455 Sum_probs=32.8
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhcc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLLV 73 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL~ 73 (160)
..|.|.++|||+|.|-+. + .|.. .+.. |.|+++ +. .+.+|+..|-.+|.
T Consensus 159 ~Ik~Ire~TgA~I~v~~~--~-----------lP~s---ter~-V~IsG~-~~-----av~~al~~Is~~L~ 207 (485)
T KOG2190|consen 159 LIKEIREETGAKIRVSSD--M-----------LPNS---TERA-VTISGE-PD-----AVKKALVQISSRLL 207 (485)
T ss_pred HHHHHHHhcCceEEecCC--C-----------CCcc---ccee-EEEcCc-hH-----HHHHHHHHHHHHHH
Confidence 368999999999999985 1 1322 2333 878775 33 47777777766664
No 71
>COG1993 PII-like signaling protein [Signal transduction mechanisms]
Probab=22.37 E-value=1.9e+02 Score=21.76 Aligned_cols=30 Identities=33% Similarity=0.603 Sum_probs=22.9
Q ss_pred CCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhc
Q psy14719 39 HLSEELHVLISVEDTENRAELKLARAVEEVQKLL 72 (160)
Q Consensus 39 ~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL 72 (160)
.+.-+|-|.|++-|.++ +|.+.+..+..++
T Consensus 62 ~Ls~~LPVviEvVD~ee----kI~~~l~~l~e~~ 91 (109)
T COG1993 62 RLSTDLPVVVEVVDEEE----KIERFLPELDEII 91 (109)
T ss_pred hccCCCCEEEEEeCCHH----HHHHHHHHHHHHh
Confidence 47789999999988776 6777777766554
No 72
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=22.35 E-value=73 Score=26.50 Aligned_cols=21 Identities=29% Similarity=0.428 Sum_probs=17.4
Q ss_pred cHHhhhHHhCCeEEEecC-CCC
Q psy14719 2 TAKQLELETGCKIMVRGK-GSM 22 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGk-GS~ 22 (160)
.+|+||++.|+++.+|.. |.+
T Consensus 36 ~I~~LE~~lg~~LF~R~~~~~~ 57 (316)
T PRK12679 36 HIRELEDELGIEIFIRRGKRLL 57 (316)
T ss_pred HHHHHHHHhCCEEEEECCCccc
Confidence 378999999999999974 533
No 73
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=22.23 E-value=76 Score=26.59 Aligned_cols=21 Identities=24% Similarity=0.414 Sum_probs=17.0
Q ss_pred cHHhhhHHhCCeEEEecCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSM 22 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~ 22 (160)
.+|+||++.|+++.+|...-+
T Consensus 36 ~Ik~LE~~lg~~LF~R~~r~v 56 (317)
T PRK15421 36 QFSDLEQRLGFRLFVRKSQPL 56 (317)
T ss_pred HHHHHHHHhCCEEEEecCCCc
Confidence 368999999999999964333
No 74
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=21.20 E-value=83 Score=25.84 Aligned_cols=21 Identities=24% Similarity=0.273 Sum_probs=17.9
Q ss_pred HHhhhHHhCCeEEEecCCCCC
Q psy14719 3 AKQLELETGCKIMVRGKGSMR 23 (160)
Q Consensus 3 lK~LE~eTgcKI~IRGkGS~k 23 (160)
+++||++.||++.+|...-+.
T Consensus 40 i~~LE~~lg~~Lf~R~~r~~~ 60 (305)
T CHL00180 40 IKNLEKQLNIPLFDRSKNKAS 60 (305)
T ss_pred HHHHHHHhCCEEEEecCCCce
Confidence 689999999999999875454
No 75
>KOG0334|consensus
Probab=20.55 E-value=66 Score=32.62 Aligned_cols=56 Identities=29% Similarity=0.370 Sum_probs=39.5
Q ss_pred cHHhhhHHhCCeEEEecCCCCCCchhhhhhCCCCCCcCCCCcceEEEEeeCcHHHHHHHHHHHHHHHhhhc
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRDKKKEEANRGKPNWEHLSEELHVLISVEDTENRAELKLARAVEEVQKLL 72 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd~~~e~~~~g~p~~~~l~e~LHVlI~a~~~~~~a~~kl~~Av~~I~klL 72 (160)
++.++.+.|+|.|.+||+=-- +++ .| ...+..||.+|.+.+.- -+++|++++++++
T Consensus 920 ~L~~i~e~~~~~it~rg~f~~-~gk-------~p--~~gErklyl~ve~~~e~-----~vqra~~e~~r~l 975 (997)
T KOG0334|consen 920 ALLRISEPTAAGITTRGKFNP-PGK-------EP--KPGERKLYLLVEGPDEL-----SVQRAIEELERLL 975 (997)
T ss_pred hhhhccCccccceeeccccCC-CCC-------CC--CCcchhhhhhhhcchhH-----HHHHHHHHHHHHH
Confidence 477889999999999997322 111 12 23567899999987655 4778888876644
No 76
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=20.21 E-value=87 Score=25.87 Aligned_cols=23 Identities=17% Similarity=0.225 Sum_probs=19.1
Q ss_pred cHHhhhHHhCCeEEEecCCCCCC
Q psy14719 2 TAKQLELETGCKIMVRGKGSMRD 24 (160)
Q Consensus 2 TlK~LE~eTgcKI~IRGkGS~kd 24 (160)
.+++||++.|+++.+|....+.-
T Consensus 41 ~I~~LE~~lg~~LF~R~~r~~~l 63 (312)
T PRK10341 41 IINDIEDYFGVELIVRKNTGVTL 63 (312)
T ss_pred HHHHHHHHhCCeEEEEcCCCceE
Confidence 47899999999999999765543
Done!