Query psy14372
Match_columns 210
No_of_seqs 227 out of 806
Neff 6.2
Searched_HMMs 46136
Date Fri Aug 16 18:10:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14372.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14372hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3689|consensus 99.7 9E-18 1.9E-22 162.2 4.9 137 43-195 236-393 (707)
2 KOG3689|consensus 99.3 1.5E-12 3.2E-17 126.3 6.1 112 7-126 24-142 (707)
3 PRK11061 fused phosphoenolpyru 98.7 4.9E-08 1.1E-12 96.7 7.5 83 45-132 64-152 (748)
4 TIGR01817 nifA Nif-specific re 98.5 2.5E-07 5.5E-12 88.0 7.3 80 46-129 66-151 (534)
5 COG1956 GAF domain-containing 98.1 8.3E-06 1.8E-10 66.7 6.9 91 30-128 54-154 (163)
6 PF01590 GAF: GAF domain; Int 97.9 1.6E-05 3.4E-10 61.2 4.6 82 45-130 48-150 (154)
7 PRK15429 formate hydrogenlyase 97.4 0.00062 1.3E-08 66.9 8.6 80 46-130 249-337 (686)
8 PRK15429 formate hydrogenlyase 97.1 0.00045 9.7E-09 67.9 4.2 73 48-125 73-152 (686)
9 smart00065 GAF Domain present 96.8 0.0093 2E-07 43.1 8.1 84 44-132 47-137 (149)
10 PF13492 GAF_3: GAF domain; PD 96.3 0.012 2.6E-07 43.5 5.8 70 48-131 49-124 (129)
11 COG3605 PtsP Signal transducti 96.2 0.003 6.6E-08 61.2 2.8 77 43-125 62-145 (756)
12 PRK05022 anaerobic nitric oxid 95.4 0.061 1.3E-06 51.2 8.0 79 46-129 63-151 (509)
13 PF13185 GAF_2: GAF domain; PD 95.3 0.017 3.7E-07 43.7 3.1 68 56-130 70-143 (148)
14 PF14215 bHLH-MYC_N: bHLH-MYC 93.2 0.041 8.8E-07 45.2 1.3 58 45-106 83-143 (163)
15 COG2203 FhlA FOG: GAF domain [ 91.7 0.38 8.1E-06 35.9 4.8 77 50-130 75-158 (175)
16 PRK12705 hypothetical protein; 44.0 8.1 0.00017 37.4 0.2 44 55-102 221-268 (508)
17 TIGR02916 PEP_his_kin putative 39.9 83 0.0018 30.8 6.5 74 48-125 366-448 (679)
18 PHA02671 hypothetical protein; 21.2 29 0.00062 29.1 -0.3 77 23-111 60-139 (179)
19 PRK13558 bacterio-opsin activa 20.1 1.6E+02 0.0034 28.5 4.6 65 53-128 357-429 (665)
No 1
>KOG3689|consensus
Probab=99.70 E-value=9e-18 Score=162.22 Aligned_cols=137 Identities=31% Similarity=0.337 Sum_probs=120.3
Q ss_pred CCCeeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCCCccceecccceeecc-------chhhhhccCCCCCC
Q psy14372 43 STPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIP-------DAYLLINKFDDLAF 115 (210)
Q Consensus 43 ~~~~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d~tGy~t~s~l~vPI~-------~V~qliNK~~g~~F 115 (210)
...+.+..++.||+|+||.||+++||+|++. |++|+...|..|..+++++|+||+ ||.|++||.+|++|
T Consensus 236 ~~~~~~~~ld~~l~g~va~t~~~~ni~~~~~----~~~f~~q~d~~~~~~~~il~~pi~~~~~~~igv~~~~nk~~g~~f 311 (707)
T KOG3689|consen 236 AEIEFKKLLDYGLRGYVASTGEGLNISNAIA----DPRFDKQVDEDGTGIRPILCIPIKNKKGEVIGVQQLVNKEDGNPF 311 (707)
T ss_pred hhHHHHhhhhhhhhheeecccCcCCCCCccc----cccccccccccccccceeEEEecccccCceecceeeeccccCCcc
Confidence 3466777899999999999999999999999 999999886466666679999997 48999999999999
Q ss_pred ChhhHHHHHH--------------HHHHHHHHHHHHHHHHHHhhhccCCHHHHHHHHccCCCcCCCccccceeEeeEEEe
Q psy14372 116 SKNDENFVEA--------------YEKAVIAMAKQSVTLDVLSYHASASLEDAQRLRSNNSSLIVPMAKQSVTLDVLSYH 181 (210)
Q Consensus 116 t~~De~~le~--------------ye~~~~~~ak~~v~levLsyH~~~s~~e~~~l~~~~~~~~ip~~~~~~~l~~~~fh 181 (210)
++.||.++++ |+.+.+.+.|+.|++|+++||+++..+|++.+ | + +...|.+|+|
T Consensus 312 ~~~de~~~~~~~~~~gl~i~~~~~y~~~~~s~~r~~v~~e~l~~h~~~~~~e~~~~---------~-~-~~~~l~d~~f- 379 (707)
T KOG3689|consen 312 SRNDEDLFEAFTIFCGLSIHNTHMYSKINKSEPRQGVALEFLSYHAKALEEEVQWG---------P-A-TILKLLDFFF- 379 (707)
T ss_pred ccchHHHHHHHHHHHhhhhhhhhhHHHHhhhccccchhHHHHHHHHhhhHHhhccc---------c-h-hhhcccccee-
Confidence 9999999998 56667778899999999999999999998854 5 4 4788999999
Q ss_pred cCCChhHHHHHHHh
Q psy14372 182 ASASLEDAQRLRRT 195 (210)
Q Consensus 182 ~d~~~~e~~~l~~~ 195 (210)
+|..+++.+.++++
T Consensus 380 ~d~~~~~~~l~~~~ 393 (707)
T KOG3689|consen 380 SDRLLSENELTKCT 393 (707)
T ss_pred ccccCCCchHHHHH
Confidence 89999999988864
No 2
>KOG3689|consensus
Probab=99.33 E-value=1.5e-12 Score=126.31 Aligned_cols=112 Identities=33% Similarity=0.430 Sum_probs=95.5
Q ss_pred hccccceeeeccccCCchhhhhhcccccCCCCcccCCCCeeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCC
Q psy14372 7 LSRASYLLYSIPWGCGIVCYLAESGEPVNIPDAYLVSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCG 86 (210)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d 86 (210)
-+|||.|++ +.|......+....+.+....++..... ++|+++||+||||.+|++.|++|++. |+||+...|
T Consensus 24 a~r~~~f~~--~~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~g~~a~~~~~~~~~~~~~----~~~f~~~~d 95 (707)
T KOG3689|consen 24 ADRCSLFLV--RNGAELASRLISVLPDVCEESTLEEPDN--RFPWGKGIVGHVAETGETLNIPDAYE----DSRFNSETD 95 (707)
T ss_pred CCCcCeeee--ccCccccccccccCcccccccccccccc--cccccceeeeeecccccccCcccccc----ccccccccc
Confidence 378999999 7775566666666666655555544444 99999999999999999999999999 999999998
Q ss_pred -Cccceecccceeeccc------hhhhhccCCCCCCChhhHHHHHHH
Q psy14372 87 -IVCYLAESGEPVNIPD------AYLLINKFDDLAFSKNDENFVEAY 126 (210)
Q Consensus 87 -~tGy~t~s~l~vPI~~------V~qliNK~~g~~Ft~~De~~le~y 126 (210)
.+||++++++|+||.+ +++.+||.+|..|++.|+..+.+|
T Consensus 96 ~~t~~~~~~~l~~pi~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~ 142 (707)
T KOG3689|consen 96 KLTGYKTKSILCMPIVNSREVVGVAQAINKSNGPTFTERDESVFSAY 142 (707)
T ss_pred cccCCCccceeeccccchhHHHHHHHhhccccccccccccHHHHHhh
Confidence 8999999999999974 888999999999999999999984
No 3
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=98.66 E-value=4.9e-08 Score=96.73 Aligned_cols=83 Identities=19% Similarity=0.245 Sum_probs=69.4
Q ss_pred CeeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCCCccceecccceeecc------chhhhhccCCCCCCChh
Q psy14372 45 PEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIP------DAYLLINKFDDLAFSKN 118 (210)
Q Consensus 45 ~~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d~tGy~t~s~l~vPI~------~V~qliNK~~g~~Ft~~ 118 (210)
..+++|++.|++|+|+.+|+|++|+|++. ||||........+.++|++|+||. ||+++.|+..+ .|++.
T Consensus 64 ~~~~l~~geGi~G~Va~tg~pV~V~Dv~~----dprf~~~~~~~~~~~~S~L~VPL~~~geVIGVL~v~~~~~~-~Fs~~ 138 (748)
T PRK11061 64 RTVTLAFDEGIVGLVGRLAEPINLADAQK----HPSFKYIPSVKEERFRAFLGVPIIYRRQLLGVLVVQQRELR-QFDES 138 (748)
T ss_pred cceeccCCcchHHHHhccCceEEECCccc----CcccccCccccCccceEEEEEEEeeCCEEEEEEEEeeCCCC-CCCHH
Confidence 45789999999999999999999999999 999964444446778999999996 68888888765 79999
Q ss_pred hHHHHHHHHHHHHH
Q psy14372 119 DENFVEAYEKAVIA 132 (210)
Q Consensus 119 De~~le~ye~~~~~ 132 (210)
|+.++.........
T Consensus 139 d~~lL~~LA~~aAi 152 (748)
T PRK11061 139 EESFLVTLATQLAA 152 (748)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999986655443
No 4
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=98.50 E-value=2.5e-07 Score=87.97 Aligned_cols=80 Identities=16% Similarity=0.119 Sum_probs=66.7
Q ss_pred eeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCCCccceecccceeecc------chhhhhccCCCCCCChhh
Q psy14372 46 EIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIP------DAYLLINKFDDLAFSKND 119 (210)
Q Consensus 46 ~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d~tGy~t~s~l~vPI~------~V~qliNK~~g~~Ft~~D 119 (210)
..+++++.|++|+|+.+|+|++|+|+.. |+||....+..+..++|++|+||. ||+.+.|+.....|++.|
T Consensus 66 ~~~~~~~~gi~g~v~~~~~pvii~Dv~~----d~~~~~~~~~~~~~~~S~l~VPL~~~g~viGvL~v~s~~~~~~ft~~d 141 (534)
T TIGR01817 66 PIRYRVGEGAIGQIVATGNSLVVPDVAA----EPLFLDRLSLYDPGPVPFIGVPIKADSETIGVLAADRDFRSRERLEEE 141 (534)
T ss_pred cccccCCccHHHHHHhcCCeEEeccccc----CchhhhccccccCCcceEEEEEEcCCCEEEEEEEEEeccccccccHHH
Confidence 3678899999999999999999999998 999864444444557999999995 688888887766899999
Q ss_pred HHHHHHHHHH
Q psy14372 120 ENFVEAYEKA 129 (210)
Q Consensus 120 e~~le~ye~~ 129 (210)
..++++....
T Consensus 142 ~~lL~~lA~~ 151 (534)
T TIGR01817 142 VRFLEMVANL 151 (534)
T ss_pred HHHHHHHHHH
Confidence 9999985544
No 5
>COG1956 GAF domain-containing protein [Signal transduction mechanisms]
Probab=98.12 E-value=8.3e-06 Score=66.69 Aligned_cols=91 Identities=24% Similarity=0.251 Sum_probs=66.1
Q ss_pred cccccCCCCccc-----CCCCeeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCCCccceecccceeeccc--
Q psy14372 30 SGEPVNIPDAYL-----VSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIPD-- 102 (210)
Q Consensus 30 ~~~~~~~~~~l~-----~~~~~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d~tGy~t~s~l~vPI~~-- 102 (210)
-|||+-.++.|+ +...|++||+++|+.|.++.+|++++|.|+.. .|-+ ...|. .++|-+++||..
T Consensus 54 ~GFYl~~~~~LvLgPFqG~~acv~I~~GkGVCg~A~~~~~t~~V~DV~~----~~gh-iaCD~---as~SEIVvPi~~~g 125 (163)
T COG1956 54 VGFYLLEGDELVLGPFQGKVACVRIPFGKGVCGTAAATGETVRVDDVHA----FPGH-IACDA---ASNSEIVVPIFKDG 125 (163)
T ss_pred EEEEEecCCeEEEecccCCcceEEeccCcchhHHHHhcCCeEEeccccc----CCCc-ccccc---ccCceEEEEEEECC
Confidence 567777665543 35789999999999999999999999999987 4442 23342 358999999973
Q ss_pred -hhhh--hccCCCCCCChhhHHHHHHHHH
Q psy14372 103 -AYLL--INKFDDLAFSKNDENFVEAYEK 128 (210)
Q Consensus 103 -V~ql--iNK~~g~~Ft~~De~~le~ye~ 128 (210)
++-. +....-..|++.|+..++...+
T Consensus 126 ~~iGvlDiDS~~~~~Fd~~D~~~Le~~~~ 154 (163)
T COG1956 126 KLIGVLDIDSPTPGRFDEEDEAGLEKLAA 154 (163)
T ss_pred EEEEEEecCCCCcccCCHHHHHHHHHHHH
Confidence 2222 2233335799999999987443
No 6
>PF01590 GAF: GAF domain; InterPro: IPR003018 This domain is present in phytochromes and cGMP-specific phosphodiesterases. cGMP-dependent 3',5'-cyclic phosphodiesterase (3.1.4.17 from EC) catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. A phytochrome is a regulatory photoreceptor which exists in 2 forms that are reversibly interconvertible by light, the PR form that absorbs maximally in the red region of the spectrum, and the PFR form that absorbs maximally in the far-red region. This domain is also found in NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54.; GO: 0005515 protein binding; PDB: 2Y8H_A 3DBA_B 3CI6_A 3E0Y_B 2W3G_B 2W3D_A 2W3E_A 2Y79_B 2W3H_A 2W3F_A ....
Probab=97.90 E-value=1.6e-05 Score=61.16 Aligned_cols=82 Identities=22% Similarity=0.199 Sum_probs=65.8
Q ss_pred CeeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCC-Cc--------------cceecccceeecc------ch
Q psy14372 45 PEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCG-IV--------------CYLAESGEPVNIP------DA 103 (210)
Q Consensus 45 ~~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d-~t--------------Gy~t~s~l~vPI~------~V 103 (210)
....++.+.++.|++..++++++|+|++. ++||..... .. .+..+|.+++||. |+
T Consensus 48 ~~~~~~~~~~~~~~~~~~~~~~~i~d~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~vPi~~~g~~~G~ 123 (154)
T PF01590_consen 48 GGRRLSMDESICGQVLQSREPIVISDVAA----DPRFAPQIAAQSALRALSSAERPFLAEYGVRSYLCVPIISGGRLIGV 123 (154)
T ss_dssp HHEEEETTSSHHHHHHHHTSCEEESSSGG----STTSSCHHHHHHTTBTTTHHHHHHHHTTTESEEEEEEEEETTEEEEE
T ss_pred ccccccccccHHHHHHhCCCeEeeccccc----cccccccccccccccccccccccccccccCceeeEeeeecccCcEEE
Confidence 35677888899999999999999999998 899865432 11 5688999999985 58
Q ss_pred hhhhccCCCCCCChhhHHHHHHHHHHH
Q psy14372 104 YLLINKFDDLAFSKNDENFVEAYEKAV 130 (210)
Q Consensus 104 ~qliNK~~g~~Ft~~De~~le~ye~~~ 130 (210)
+.+.++..+..|++.|.++++.+....
T Consensus 124 l~l~~~~~~~~~~~~d~~ll~~~a~~~ 150 (154)
T PF01590_consen 124 LSLYRTRPGRPFTEEDLALLESFAQQL 150 (154)
T ss_dssp EEEEEESSSSS--HHHHHHHHHHHHHH
T ss_pred EEEEECCCCCCcCHHHHHHHHHHHHHH
Confidence 888888887899999999999866544
No 7
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=97.40 E-value=0.00062 Score=66.94 Aligned_cols=80 Identities=10% Similarity=-0.019 Sum_probs=60.1
Q ss_pred eeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccC--C-CCccceecccceeecc------chhhhhccCCCCCCC
Q psy14372 46 EIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWG--C-GIVCYLAESGEPVNIP------DAYLLINKFDDLAFS 116 (210)
Q Consensus 46 ~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~--~-d~tGy~t~s~l~vPI~------~V~qliNK~~g~~Ft 116 (210)
..++|.+.|++|+|+.+|+|+.++|+.. |++.... . +..+..+++.+++|+. ||+.+.++. ...|+
T Consensus 249 ~~~~~~~~~l~g~V~~~~~p~lv~~~~~----d~~~~~~~~~~~~~~~~~~s~l~vPL~~~~~v~GvL~l~~~~-~~~F~ 323 (686)
T PRK15429 249 QSEVDEAGTLTERVFKSKEMLLINLHER----DDLAPYERMLFDTWGNQIQTLCLLPLMSGDTMLGVLKLAQCE-EKVFT 323 (686)
T ss_pred cccCCcccchHHHHHhcCceEEEECccC----cccchhhhhhhhcccccceEEEEEeEEECCEEEEEEEEeeCC-CCcCC
Confidence 4457777899999999999999998876 6653211 1 2234457899999995 688787765 46899
Q ss_pred hhhHHHHHHHHHHH
Q psy14372 117 KNDENFVEAYEKAV 130 (210)
Q Consensus 117 ~~De~~le~ye~~~ 130 (210)
+.|..++.++....
T Consensus 324 ~~dl~lL~~iA~~~ 337 (686)
T PRK15429 324 TTNLKLLRQIAERV 337 (686)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999865443
No 8
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=97.12 E-value=0.00045 Score=67.89 Aligned_cols=73 Identities=11% Similarity=-0.007 Sum_probs=54.9
Q ss_pred EeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCCCcccee-cccceeecc------chhhhhccCCCCCCChhhH
Q psy14372 48 RIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLA-ESGEPVNIP------DAYLLINKFDDLAFSKNDE 120 (210)
Q Consensus 48 ~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d~tGy~t-~s~l~vPI~------~V~qliNK~~g~~Ft~~De 120 (210)
...+..|+.|||..+++|+.+++..- ..+|+.-....+|+. .+.+.|||. |++.+.+|. +.+||+.|+
T Consensus 73 ~~~~~~g~~g~vl~~~~~l~~~~~~~----~~~~~~l~~~~~~~~~~~~lgvPl~~~~~v~G~l~l~~~~-~~~Ft~~d~ 147 (686)
T PRK15429 73 ETVLAHGPVRRILSRPDTLHCSYEEF----CETWPQLAAGGLYPKFGHYCLMPLAAEGHIFGGCEFIRYD-DRPWSEKEF 147 (686)
T ss_pred hhhhccCcceEEeecCceEEEchHHh----hhccHHHhhcccccCccceEEeceeeCCeeEEEEEEEEcC-CCCCCHHHH
Confidence 34578999999999999998877544 455554444455554 445559995 688888887 689999999
Q ss_pred HHHHH
Q psy14372 121 NFVEA 125 (210)
Q Consensus 121 ~~le~ 125 (210)
.++.+
T Consensus 148 ~ll~~ 152 (686)
T PRK15429 148 NRLQT 152 (686)
T ss_pred HHHHH
Confidence 99976
No 9
>smart00065 GAF Domain present in phytochromes and cGMP-specific phosphodiesterases. Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa.
Probab=96.81 E-value=0.0093 Score=43.08 Aligned_cols=84 Identities=29% Similarity=0.351 Sum_probs=60.7
Q ss_pred CCeeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCCCccce-ecccceeecc------chhhhhccCCCCCCC
Q psy14372 44 TPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYL-AESGEPVNIP------DAYLLINKFDDLAFS 116 (210)
Q Consensus 44 ~~~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d~tGy~-t~s~l~vPI~------~V~qliNK~~g~~Ft 116 (210)
.....+|.+.+..+++..+++++.++|... ++... .....++. .++.+++||. |++.+..+.....|+
T Consensus 47 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~-~~~~~~~~~~~s~~~~Pl~~~~~~~G~l~~~~~~~~~~~~ 121 (149)
T smart00065 47 LLGLRYPLGEGLAGRVAETGRPLNIPDVEA----DPVFA-LDLLGRYQGVRSFLAVPLVADGELVGVLALHNKDSPRPFT 121 (149)
T ss_pred cceEEecCCCChHHHHHHcCCeEEeechhh----CCccc-cccccceeceeeEEEeeeeecCEEEEEEEEEecCCCCCCC
Confidence 345678888899999999999999999876 44221 11233444 7999999996 465566664556899
Q ss_pred hhhHHHHHHHHHHHHH
Q psy14372 117 KNDENFVEAYEKAVIA 132 (210)
Q Consensus 117 ~~De~~le~ye~~~~~ 132 (210)
..|..+++........
T Consensus 122 ~~~~~~l~~~~~~i~~ 137 (149)
T smart00065 122 EEDEELLQALANQLAI 137 (149)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 9999999886555443
No 10
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A.
Probab=96.28 E-value=0.012 Score=43.48 Aligned_cols=70 Identities=23% Similarity=0.281 Sum_probs=51.8
Q ss_pred EeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCCCccceecccceeecc------chhhhhccCCCCCCChhhHH
Q psy14372 48 RIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIP------DAYLLINKFDDLAFSKNDEN 121 (210)
Q Consensus 48 ~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d~tGy~t~s~l~vPI~------~V~qliNK~~g~~Ft~~De~ 121 (210)
.+|.+.++++++..+++++.+++... +.. ...++.+++||. |++.+ +...+..|+..|.+
T Consensus 49 ~l~~~~~~~~~~~~~~~~~~~~~~~~----~~~---------~~~~s~~~vPl~~~~~~~Gvl~~-~~~~~~~~~~~d~~ 114 (129)
T PF13492_consen 49 SLPEDDPLIGRALETGEPVSVPDIDE----RDF---------LGIRSLLVVPLRSRDRVIGVLCL-DSREPEEFSDEDLQ 114 (129)
T ss_dssp CEETTSHHHHHHHHHTS-EEESTCCC-----TT---------TTTCEEEEEEEEETTEEEEEEEE-EECTTCG-SHHHHH
T ss_pred cCCCCccHHHHHHhhCCeEEeccccc----ccC---------CCCCEEEEEEEeECCEEEEEEEE-EECCCCCCCHHHHH
Confidence 68888999999999999999888654 221 123788999996 46665 56666689999999
Q ss_pred HHHHHHHHHH
Q psy14372 122 FVEAYEKAVI 131 (210)
Q Consensus 122 ~le~ye~~~~ 131 (210)
+++.+.....
T Consensus 115 ~l~~~a~~~a 124 (129)
T PF13492_consen 115 LLESLANQLA 124 (129)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 9999766544
No 11
>COG3605 PtsP Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]
Probab=96.24 E-value=0.003 Score=61.18 Aligned_cols=77 Identities=19% Similarity=0.258 Sum_probs=60.1
Q ss_pred CCCeeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCCCcc-ceecccceeecc------chhhhhccCCCCCC
Q psy14372 43 STPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVC-YLAESGEPVNIP------DAYLLINKFDDLAF 115 (210)
Q Consensus 43 ~~~~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d~tG-y~t~s~l~vPI~------~V~qliNK~~g~~F 115 (210)
+.+.+.+.+++|++|.|+.+.+|+|..|+.+ +|+|.--+. +| =.-+|.|.+||+ ||+-+=||... .|
T Consensus 62 av~~~~l~~~eGLVG~v~~~aePlNLsdAqs----HPsF~Y~pe-tgEE~Y~sFLGvPIi~~~r~lGVLVVQqk~~R-~y 135 (756)
T COG3605 62 AVHLVQLAFGEGLVGLVGRSAEPLNLADAQS----HPSFKYLPE-TGEERYHSFLGVPIIRRGRLLGVLVVQQRELR-QY 135 (756)
T ss_pred ccceEEecCCCchhhhhhhccCCCChhhhhh----CCccccccc-cchHHHHHhhccceeecCceeEEEEEeccccc-cc
Confidence 4577889999999999999999999999998 888753322 22 234799999997 56656677654 68
Q ss_pred ChhhHHHHHH
Q psy14372 116 SKNDENFVEA 125 (210)
Q Consensus 116 t~~De~~le~ 125 (210)
++..+++++.
T Consensus 136 ~E~Eve~L~T 145 (756)
T COG3605 136 DEDEVEFLVT 145 (756)
T ss_pred chHHHHHHHH
Confidence 8888888877
No 12
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=95.42 E-value=0.061 Score=51.24 Aligned_cols=79 Identities=13% Similarity=-0.007 Sum_probs=55.4
Q ss_pred eeEeeCCCc-hhHHhhhcCceEeecCCCCCCCCCCCcc-cCC-C-Cccceecccceeecc------chhhhhccCCCCCC
Q psy14372 46 EIRIPWGCG-IVGYVAESGEPVNIPDAYLVSTPQIRIP-WGC-G-IVCYLAESGEPVNIP------DAYLLINKFDDLAF 115 (210)
Q Consensus 46 ~i~ipi~~g-IaG~Va~tg~~lnI~D~~~~~~~D~rF~-~~~-d-~tGy~t~s~l~vPI~------~V~qliNK~~g~~F 115 (210)
...++++.| +.|.|..+|+++.|+|... +|+|. ... . ...-..+|++|+||. ||+.+.....+ .|
T Consensus 63 ~~~~~~geGP~l~av~~~g~~v~v~~~~~----~p~~~~~~~~~~~~~~gi~S~l~vPL~~~~~~~GvL~l~~~~~~-~f 137 (509)
T PRK05022 63 GRRFALEEHPRLEAILRAGDPVRFPADSE----LPDPYDGLIPGVQESLPVHDCMGLPLFVDGRLIGALTLDALDPG-QF 137 (509)
T ss_pred CCccCCCcchHHHHHHhcCCeEEEecCCC----CCcccccccccccccCCcceEEEEEEEECCEEEEEEEEeeCCCC-cC
Confidence 347888888 8899999999999998765 45532 111 1 122246799999995 56666555444 89
Q ss_pred ChhhHHHHHHHHHH
Q psy14372 116 SKNDENFVEAYEKA 129 (210)
Q Consensus 116 t~~De~~le~ye~~ 129 (210)
+..|..+++.+...
T Consensus 138 ~~~~~~~l~~~a~~ 151 (509)
T PRK05022 138 DAFSDEELRALAAL 151 (509)
T ss_pred CHHHHHHHHHHHHH
Confidence 99999999885543
No 13
>PF13185 GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_A 3KSH_A 3MMH_A 3RFB_B 1F5M_A 3KO6_B 3HCY_A ....
Probab=95.30 E-value=0.017 Score=43.73 Aligned_cols=68 Identities=24% Similarity=0.071 Sum_probs=42.2
Q ss_pred hHHhhhcCceEeecCCCCCCCCCCCcccCCCCccceecccceeecc------chhhhhccCCCCCCChhhHHHHHHHHHH
Q psy14372 56 VGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIP------DAYLLINKFDDLAFSKNDENFVEAYEKA 129 (210)
Q Consensus 56 aG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d~tGy~t~s~l~vPI~------~V~qliNK~~g~~Ft~~De~~le~ye~~ 129 (210)
.+.++.+|+|+.++ .. +.++....-......+|++|+||. ||+.+.++.. ..|++.|..+++.....
T Consensus 70 ~~~~~~~~~~~~~~--~~----~~~~~~~~~~~~~~~~s~l~vPl~~~~~~~Gvl~l~~~~~-~~f~~~~~~~l~~la~~ 142 (148)
T PF13185_consen 70 WEGVLRTGEPIIIN--DD----DSSFPPWELARHPGIRSILCVPLRSGGEVIGVLSLYSKEP-NAFSEEDLELLEALADQ 142 (148)
T ss_dssp TSHHHHHTS-EEES--CC----CGGGSTTHHHCCTT-SEEEEEEEEETTEEEEEEEEEESST-T---HHHHHHHHHHHHH
T ss_pred HHHHHhcCceEEEe--Cc----cccccchhhhccccCCEEEEEEEeECCEEEEEEEEeeCCC-CCcCHHHHHHHHHHHHH
Confidence 33449999999999 21 233322111345567899999996 5777777644 58999999999985544
Q ss_pred H
Q psy14372 130 V 130 (210)
Q Consensus 130 ~ 130 (210)
.
T Consensus 143 ~ 143 (148)
T PF13185_consen 143 I 143 (148)
T ss_dssp H
T ss_pred H
Confidence 3
No 14
>PF14215 bHLH-MYC_N: bHLH-MYC and R2R3-MYB transcription factors N-terminal
Probab=93.23 E-value=0.041 Score=45.16 Aligned_cols=58 Identities=19% Similarity=0.176 Sum_probs=39.7
Q ss_pred CeeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCC--Cccceecccceeecc-chhhh
Q psy14372 45 PEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCG--IVCYLAESGEPVNIP-DAYLL 106 (210)
Q Consensus 45 ~~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d--~tGy~t~s~l~vPI~-~V~ql 106 (210)
.++..+++.|++|.|+.+|+++-|.++... ...-|++... ..|. .|++|+|++ ||+||
T Consensus 83 ~s~~~sfg~G~~G~a~~sg~~~Wi~~~~~~--~~~~~~r~~~aq~~~~--~Tiv~IPv~~GVvEL 143 (163)
T PF14215_consen 83 VSMSYSFGEGIPGRAAASGQHIWISGANEL--DSSYCERAWLAQFAGI--QTIVCIPVPNGVVEL 143 (163)
T ss_pred ceeeEEecCCccEEEeecCccEEEeCCCcc--ccccchhhhhhccccc--ceEEEEEecCCEEEe
Confidence 455567799999999999999999877642 1122222221 2333 399999998 48775
No 15
>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms]
Probab=91.67 E-value=0.38 Score=35.90 Aligned_cols=77 Identities=14% Similarity=0.104 Sum_probs=53.9
Q ss_pred eCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCCCCccce-ecccceeecc------chhhhhccCCCCCCChhhHHH
Q psy14372 50 PWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGCGIVCYL-AESGEPVNIP------DAYLLINKFDDLAFSKNDENF 122 (210)
Q Consensus 50 pi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~d~tGy~-t~s~l~vPI~------~V~qliNK~~g~~Ft~~De~~ 122 (210)
+...+..+++...+.++.++|... ++++.......... .++.+++||. |++.+.+......|+..+..+
T Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~i~~~l~vPl~~~~~~~G~l~~~~~~~~~~~~~~e~~l 150 (175)
T COG2203 75 ILPACLIGIALREGRPVVVEDILQ----DPRFRDNPLVLLEPPIRSYLGVPLIAQGELLGLLCVHDSEPRRQWSEEELEL 150 (175)
T ss_pred CcchhhhhhhhcCCceEEeecccc----CcccccCHHHHHHHHHHHheeeeeeECCEeeEEeeeeccCCCCCCCHHHHHH
Confidence 344457889999999999999998 88875422111111 6899999997 344455554444699999999
Q ss_pred HHHHHHHH
Q psy14372 123 VEAYEKAV 130 (210)
Q Consensus 123 le~ye~~~ 130 (210)
++......
T Consensus 151 l~~la~~~ 158 (175)
T COG2203 151 LEELAEQV 158 (175)
T ss_pred HHHHHHHH
Confidence 99854443
No 16
>PRK12705 hypothetical protein; Provisional
Probab=44.00 E-value=8.1 Score=37.36 Aligned_cols=44 Identities=14% Similarity=-0.111 Sum_probs=36.8
Q ss_pred hhHHhhhcCceEeecCCCCCCCCC---CCcccCCC-Cccceecccceeeccc
Q psy14372 55 IVGYVAESGEPVNIPDAYLVSTPQ---IRIPWGCG-IVCYLAESGEPVNIPD 102 (210)
Q Consensus 55 IaG~Va~tg~~lnI~D~~~~~~~D---~rF~~~~d-~tGy~t~s~l~vPI~~ 102 (210)
|=.-=+.||..++|+|++. + ++|++..+ .+++.++++++.|.+.
T Consensus 221 ir~~E~~tGvdliiddtp~----~V~ls~fdp~rreia~~~l~~Li~dgri~ 268 (508)
T PRK12705 221 IRAFEGLTGVDLIIDDTPE----AVVISSFNPIRREIARLTLEKLLADGRIH 268 (508)
T ss_pred HHHHHHhhCCceEecCCcc----chhhcccCccchHHHHHHHHHHHhcCCCC
Confidence 3444578999999999998 8 89988775 8999999999999863
No 17
>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase. Members of this protein family have a novel N-terminal domain, a single predicted membrane-spanning helix, and a predicted cystosolic histidine kinase domain. We designate this protein PrsK, and its companion DNA-binding response regulator protein (TIGR02915) PrsR. These predicted signal-transducing proteins appear to enable enhancer-dependent transcriptional activation. The prsK gene is often associated with exopolysaccharide biosynthesis genes.
Probab=39.89 E-value=83 Score=30.84 Aligned_cols=74 Identities=14% Similarity=0.057 Sum_probs=47.8
Q ss_pred EeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccC---CCCccceecccceeecc------chhhhhccCCCCCCChh
Q psy14372 48 RIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWG---CGIVCYLAESGEPVNIP------DAYLLINKFDDLAFSKN 118 (210)
Q Consensus 48 ~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~---~d~tGy~t~s~l~vPI~------~V~qliNK~~g~~Ft~~ 118 (210)
..|.+..+.++...++..+++++... ++..... ........++.+|+||. |++-+.++.+...|+.+
T Consensus 366 ~~~~~~~~~~~~~~~~~v~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~l~vPL~~~~~~~G~l~l~~~~~~~~~~~e 441 (679)
T TIGR02916 366 FEPSDSAFCQFLQESGWIINLEEARS----EPDHYSGLVLPEWLREIPNAWLIVPLISGEELVGFVVLARPRTAGEFNWE 441 (679)
T ss_pred CCCCCCHHHHHHHhCCCcccchhhcC----CcccccccccchhhhcCCCceEEEEeccCCEEEEEEEEecCCCCCCCCHH
Confidence 45666778888888888888776554 2322111 11222234678999996 45556666555579999
Q ss_pred hHHHHHH
Q psy14372 119 DENFVEA 125 (210)
Q Consensus 119 De~~le~ 125 (210)
|..+++.
T Consensus 442 ~~~lL~~ 448 (679)
T TIGR02916 442 VRDLLKT 448 (679)
T ss_pred HHHHHHH
Confidence 9998877
No 18
>PHA02671 hypothetical protein; Provisional
Probab=21.20 E-value=29 Score=29.06 Aligned_cols=77 Identities=13% Similarity=0.135 Sum_probs=48.5
Q ss_pred chhhhhhcccccCCCCcccCCCCeeEeeCCCchhHHhhhcCceEeecCCCCCCCCCCCcccCC-CCccceecccceee-c
Q psy14372 23 IVCYLAESGEPVNIPDAYLVSTPEIRIPWGCGIVGYVAESGEPVNIPDAYLVSTPQIRIPWGC-GIVCYLAESGEPVN-I 100 (210)
Q Consensus 23 ~~~~l~~~~~~~~~~~~l~~~~~~i~ipi~~gIaG~Va~tg~~lnI~D~~~~~~~D~rF~~~~-d~tGy~t~s~l~vP-I 100 (210)
..+|.++.|..+.+.+ ...+++|+.+-.|+|-+.+|+.+.. |- |+.-.... .+..|..++.--++ |
T Consensus 60 ~dCYia~nG~il~CS~-----~~rL~~Pv~~I~aay~s~n~~~ilC-d~------~~~l~i~~~~qpfy~~~s~~~~~ai 127 (179)
T PHA02671 60 SDCYFAVNGNLLPCTE-----DFRLRLPATEISAAYLTGTGKTILC-GK------DFNIVNPSGFKPSMRLRELSHVSAL 127 (179)
T ss_pred hceEEEECCEEEecCc-----cccccccHHHhhhheecCCceEEEE-cC------CccEEecCCCCceEEEehhHhHHHH
Confidence 3566666666666542 5677889988888888888788877 42 33322222 35667776644333 5
Q ss_pred cchhhhhc-cCC
Q psy14372 101 PDAYLLIN-KFD 111 (210)
Q Consensus 101 ~~V~qliN-K~~ 111 (210)
..|+.+.| |.+
T Consensus 128 iEVynLY~~~Gd 139 (179)
T PHA02671 128 VEILEFYSESGE 139 (179)
T ss_pred HHHHHHhccCCc
Confidence 66777877 544
No 19
>PRK13558 bacterio-opsin activator; Provisional
Probab=20.14 E-value=1.6e+02 Score=28.51 Aligned_cols=65 Identities=9% Similarity=0.066 Sum_probs=43.3
Q ss_pred CchhHHhhhc--CceEeecCCCCCCCCCCCcccCCCCccceecccceeecc------chhhhhccCCCCCCChhhHHHHH
Q psy14372 53 CGIVGYVAES--GEPVNIPDAYLVSTPQIRIPWGCGIVCYLAESGEPVNIP------DAYLLINKFDDLAFSKNDENFVE 124 (210)
Q Consensus 53 ~gIaG~Va~t--g~~lnI~D~~~~~~~D~rF~~~~d~tGy~t~s~l~vPI~------~V~qliNK~~g~~Ft~~De~~le 124 (210)
.|.++.++.+ |++..+.+... +..+. ...|+ |.+++||. ||+.+... ....|+..|..+|+
T Consensus 357 ~~p~~~a~~~~~~~~~~~~~~~~----~~~~~---~~~~~---s~~~vPL~~~g~~~GvL~v~~~-~~~~f~~~e~~ll~ 425 (665)
T PRK13558 357 AGPAAAALQSVVAETEAVESTDV----DGVSG---TVDGS---AVAAVPLVYRETTYGVLVVYTA-EPDEIDDRERVVLE 425 (665)
T ss_pred cCchHHHHHhccCceEEecCCCc----ccccc---ccCCc---eEEEEeEEECCEEEEEEEEeeC-CCCCCCHHHHHHHH
Confidence 5677788888 88887776543 22111 12233 99999995 56666543 34589999999999
Q ss_pred HHHH
Q psy14372 125 AYEK 128 (210)
Q Consensus 125 ~ye~ 128 (210)
....
T Consensus 426 ~la~ 429 (665)
T PRK13558 426 ALGR 429 (665)
T ss_pred HHHH
Confidence 8443
Done!