Query 022217
Match_columns 301
No_of_seqs 93 out of 95
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 08:54:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022217.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022217hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11152 DUF2930: Protein of u 100.0 6.1E-80 1.3E-84 552.0 20.0 195 66-283 1-195 (195)
2 PF13492 GAF_3: GAF domain; PD 96.8 0.007 1.5E-07 46.8 7.8 111 163-288 11-129 (129)
3 PF13185 GAF_2: GAF domain; PD 96.8 0.011 2.3E-07 46.8 8.9 71 215-287 73-148 (148)
4 smart00065 GAF Domain present 96.8 0.0086 1.9E-07 44.5 7.9 80 210-289 57-142 (149)
5 PF01590 GAF: GAF domain; Int 96.3 0.012 2.7E-07 46.7 6.4 78 209-286 56-154 (154)
6 PRK11061 fused phosphoenolpyru 95.7 0.13 2.8E-06 55.0 12.6 84 206-289 68-157 (748)
7 TIGR01817 nifA Nif-specific re 94.2 0.66 1.4E-05 47.0 12.0 79 209-287 73-157 (534)
8 TIGR02851 spore_V_T stage V sp 92.4 1.5 3.3E-05 39.4 10.1 116 153-286 53-179 (180)
9 PRK15429 formate hydrogenlyase 91.7 2.2 4.8E-05 44.8 12.0 81 208-288 255-343 (686)
10 COG1956 GAF domain-containing 89.7 1.2 2.7E-05 40.0 6.9 74 210-286 83-160 (163)
11 PRK05022 anaerobic nitric oxid 78.7 33 0.00072 34.9 12.2 132 147-287 16-157 (509)
12 PRK13558 bacterio-opsin activa 69.6 8.9 0.00019 39.3 5.6 45 244-288 389-437 (665)
13 COG2203 FhlA FOG: GAF domain [ 55.0 19 0.00042 27.6 3.9 77 212-288 81-164 (175)
14 TIGR02916 PEP_his_kin putative 54.4 1.7E+02 0.0037 30.6 11.7 81 208-288 370-459 (679)
15 PRK10963 hypothetical protein; 49.0 45 0.00098 30.6 5.9 48 242-289 168-219 (223)
16 PF04340 DUF484: Protein of un 45.3 58 0.0013 29.6 5.9 49 241-289 171-223 (225)
17 PF00360 PHY: Phytochrome regi 40.0 87 0.0019 27.9 6.1 76 161-253 25-103 (182)
18 COG3159 Uncharacterized protei 38.4 72 0.0016 30.2 5.4 51 238-288 159-215 (218)
19 PRK15429 formate hydrogenlyase 36.3 57 0.0012 34.5 5.0 74 213-287 82-162 (686)
20 TIGR02761 TraE_TIGR type IV co 29.4 3.1E+02 0.0067 24.4 7.9 61 104-171 25-87 (181)
21 PF05309 TraE: TraE protein; 25.2 1.9E+02 0.0041 25.6 5.7 61 104-171 25-87 (187)
22 COG3038 CybB Cytochrome B561 [ 20.2 5E+02 0.011 23.7 7.4 98 67-171 50-159 (181)
No 1
>PF11152 DUF2930: Protein of unknown function (DUF2930); InterPro: IPR021325 This family of proteins has no known function.
Probab=100.00 E-value=6.1e-80 Score=552.01 Aligned_cols=195 Identities=43% Similarity=0.677 Sum_probs=190.3
Q ss_pred hhHHHHHHHHHHHHHHhhhcCCCCCCCCChhhHHHHHHHHHHHHHHHHHHHhhhhcccCCCccccccccccCCCCcccee
Q 022217 66 LPIYVGGASLLAVLFNRTVSGIAPVADASSSQSRADLLAISLAVTSILTGLVWLSIRPKSITVNSFSLFQVNPKGVECQM 145 (301)
Q Consensus 66 LP~~vG~l~~~llL~Nr~lsgiApv~~~t~aQ~RaevLgl~Lsa~liL~Gllw~~~~P~~~~~~~~s~~~V~L~G~e~f~ 145 (301)
||+++|+++++++++||+++ +++||||+|||+||++||++|||+|++|+++||+++++ |+|+|+|+|+
T Consensus 1 LPl~vG~l~~~lll~N~~~~-----~~~t~sq~RaevLg~~ls~~liL~g~lw~~l~p~~~~~-------v~L~G~~~f~ 68 (195)
T PF11152_consen 1 LPLIVGLLGGSLLLLNRLSG-----ADATPSQSRAEVLGLILSAVLILTGLLWQRLKPRSPEA-------VDLPGEQGFE 68 (195)
T ss_pred CceEehHHHHHHHHhhhccc-----CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCc-------cCCCCccceE
Confidence 69999999999999999665 89999999999999999999999999999999999999 9999999999
Q ss_pred ecCCCCHHHHHHHHHHHHHHhhhccccEEEEEECCEEEEEEeeccCCCCCccchhhcccccchhhHHHHHhhccCceecc
Q 022217 146 ICSYLPDSVVSELLWAWESLSAVTCCRSLVVVYDGIYLLQIGMAAESGNSGEAVIVDASKLKQGSVYLGVMRSKAQRYLA 225 (301)
Q Consensus 146 l~~~Lsd~~k~ELAWas~~LLtnT~a~svlV~~~G~vll~RG~~~~~~~~g~a~~~d~~~~~pG~I~~r~~~~~~~iyL~ 225 (301)
|++||||++|+||||+||+|||||+|+||+|||||+++||||+++++ ++|+||+||+++|++++++||+
T Consensus 69 l~~~L~~~~k~ELAWas~~LLt~T~a~svlV~~~g~~llrrG~~~~~-----------~~~~~g~i~~~~~~~~~~~yL~ 137 (195)
T PF11152_consen 69 LSPDLSDAAKEELAWASYALLTNTNARSVLVYYDGRVLLRRGILGSP-----------SKFKPGPICQRAMESGKLIYLV 137 (195)
T ss_pred ECCCCCHHHHHHHHHHHHHHHhhCCceEEEEEECCEEEEEeeccCCC-----------CCcchHHHHHHHHhcCCceecc
Confidence 99999999999999999999999999999999999999999999864 3899999999999999999999
Q ss_pred ccccCCCCCCCCCCCCCCCeeEEEecCCCeEEEEecCCCcccChhhHHHHHHHHHHHH
Q 022217 226 NLLLYPGRSELPFLPSNTQAVILQPLGDKGIAIIGGDTIRGFTTSDQSWIAFIGEKLD 283 (301)
Q Consensus 226 nl~lyPGr~Ef~~LP~ntqsVlvQPig~~Gvlvlgs~s~R~FT~kDe~WI~~iA~KL~ 283 (301)
|++|||||+||+|||+|||||||||+|++||+|+|||++||||||||+||++|||||+
T Consensus 138 nl~lyPGr~Ef~~lP~ntq~VlvqP~g~~G~lvlgs~~~R~ft~~D~~Wi~~iA~Kl~ 195 (195)
T PF11152_consen 138 NLKLYPGRVEFDYLPENTQSVLVQPLGQNGVLVLGSNSPRAFTKSDEAWIAGIADKLR 195 (195)
T ss_pred ccccCCCchhhhhcCCCCcEEEEEEcCCCeEEEEeeCCccccCHHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999999999999999999999999999999985
No 2
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A.
Probab=96.82 E-value=0.007 Score=46.78 Aligned_cols=111 Identities=10% Similarity=0.156 Sum_probs=72.0
Q ss_pred HHHhhhccccEEEEE--ECC--EEEEEEeeccCCCCCccchhhcccccchhhHHHHHhhccCceeccccccCCCCCCCCC
Q 022217 163 ESLSAVTCCRSLVVV--YDG--IYLLQIGMAAESGNSGEAVIVDASKLKQGSVYLGVMRSKAQRYLANLLLYPGRSELPF 238 (301)
Q Consensus 163 ~~LLtnT~a~svlV~--~~G--~vll~RG~~~~~~~~g~a~~~d~~~~~pG~I~~r~~~~~~~iyL~nl~lyPGr~Ef~~ 238 (301)
+.+...+.+..+.|+ .++ +..+..+. ...... .. .+ ...-+++.++.++++.++..+. +.+.+
T Consensus 11 ~~l~~~~~~~~~~l~~~d~~~~~~~~~~~~-~~~~~~-~~-~l----~~~~~~~~~~~~~~~~~~~~~~---~~~~~--- 77 (129)
T PF13492_consen 11 ELLRELLGADRAALFLLDEDGNRLRVVAGW-GGDPRL-SE-SL----PEDDPLIGRALETGEPVSVPDI---DERDF--- 77 (129)
T ss_dssp HHHHHHST-SEEEEEEEETTCECEEEEEEE-SS-GCG-HH-CE----ETTSHHHHHHHHHTS-EEESTC---CC-TT---
T ss_pred HHHHHHhCCCEEEEEEEECCCCEEEEEEEe-CCCccc-cc-cC----CCCccHHHHHHhhCCeEEeccc---ccccC---
Confidence 445566666665544 333 34455665 221100 00 00 1345778999999998777553 22222
Q ss_pred CCCCCCeeEEEecCC----CeEEEEecCCCcccChhhHHHHHHHHHHHHHHHhh
Q 022217 239 LPSNTQAVILQPLGD----KGIAIIGGDTIRGFTTSDQSWIAFIGEKLDATLAK 288 (301)
Q Consensus 239 LP~ntqsVlvQPig~----~Gvlvlgs~s~R~FT~kDe~WI~~iA~KL~~tL~~ 288 (301)
.+.+++++.||.. -|+|.++....+.||++|+..++.+|+-+..++++
T Consensus 78 --~~~~s~~~vPl~~~~~~~Gvl~~~~~~~~~~~~~d~~~l~~~a~~~a~alen 129 (129)
T PF13492_consen 78 --LGIRSLLVVPLRSRDRVIGVLCLDSREPEEFSDEDLQLLESLANQLAIALEN 129 (129)
T ss_dssp --TTTCEEEEEEEEETTEEEEEEEEEECTTCG-SHHHHHHHHHHHHHHHHHHH-
T ss_pred --CCCCEEEEEEEeECCEEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHhCC
Confidence 6679999999954 49999999999999999999999999999988763
No 3
>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=96.81 E-value=0.011 Score=46.83 Aligned_cols=71 Identities=11% Similarity=0.214 Sum_probs=51.5
Q ss_pred HhhccCceecc-ccccCCCCCCCCCCCCCCCeeEEEecCCC----eEEEEecCCCcccChhhHHHHHHHHHHHHHHHh
Q 022217 215 VMRSKAQRYLA-NLLLYPGRSELPFLPSNTQAVILQPLGDK----GIAIIGGDTIRGFTTSDQSWIAFIGEKLDATLA 287 (301)
Q Consensus 215 ~~~~~~~iyL~-nl~lyPGr~Ef~~LP~ntqsVlvQPig~~----Gvlvlgs~s~R~FT~kDe~WI~~iA~KL~~tL~ 287 (301)
++++++++++. +...++. .....-.|.+++++.||-.+ |+|.+.+..++.||+.|+.+++.+|+-+...|+
T Consensus 73 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~s~l~vPl~~~~~~~Gvl~l~~~~~~~f~~~~~~~l~~la~~~a~aie 148 (148)
T PF13185_consen 73 VLRTGEPIIINDDDSSFPP--WELARHPGIRSILCVPLRSGGEVIGVLSLYSKEPNAFSEEDLELLEALADQIAIAIE 148 (148)
T ss_dssp HHHHTS-EEESCCCGGGST--THHHCCTT-SEEEEEEEEETTEEEEEEEEEESSTT---HHHHHHHHHHHHHHHHHHH
T ss_pred HHhcCceEEEeCccccccc--hhhhccccCCEEEEEEEeECCEEEEEEEEeeCCCCCcCHHHHHHHHHHHHHHHHHhC
Confidence 37889999988 2222222 22455678999999999543 999999999999999999999999999887764
No 4
>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=96.80 E-value=0.0086 Score=44.54 Aligned_cols=80 Identities=15% Similarity=0.159 Sum_probs=61.4
Q ss_pred hHHHHHhhccCceeccccccCCCCCCCCCCC-CCCCeeEEEecCCC----eEEEEecC-CCcccChhhHHHHHHHHHHHH
Q 022217 210 SVYLGVMRSKAQRYLANLLLYPGRSELPFLP-SNTQAVILQPLGDK----GIAIIGGD-TIRGFTTSDQSWIAFIGEKLD 283 (301)
Q Consensus 210 ~I~~r~~~~~~~iyL~nl~lyPGr~Ef~~LP-~ntqsVlvQPig~~----Gvlvlgs~-s~R~FT~kDe~WI~~iA~KL~ 283 (301)
+++.+++++++.++..+..-.|-..+....+ .+..+.++.||..+ |++.+... .+|.|++.|+..+..+|+.+.
T Consensus 57 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~Pl~~~~~~~G~l~~~~~~~~~~~~~~~~~~l~~~~~~i~ 136 (149)
T smart00065 57 GLAGRVAETGRPLNIPDVEADPVFALDLLGRYQGVRSFLAVPLVADGELVGVLALHNKDSPRPFTEEDEELLQALANQLA 136 (149)
T ss_pred ChHHHHHHcCCeEEeechhhCCccccccccceeceeeEEEeeeeecCEEEEEEEEEecCCCCCCCHHHHHHHHHHHHHHH
Confidence 6688999999999988776444111112222 23799999998543 88888887 799999999999999999999
Q ss_pred HHHhhc
Q 022217 284 ATLAKY 289 (301)
Q Consensus 284 ~tL~~~ 289 (301)
..+++.
T Consensus 137 ~~l~~~ 142 (149)
T smart00065 137 IALANA 142 (149)
T ss_pred HHHHHH
Confidence 988763
No 5
>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=96.33 E-value=0.012 Score=46.74 Aligned_cols=78 Identities=15% Similarity=0.208 Sum_probs=64.2
Q ss_pred hhHHHHHhhccCceeccccccCCCCCCC----CCC------------CCCCCeeEEEecCCC----eEEEEecCCC-ccc
Q 022217 209 GSVYLGVMRSKAQRYLANLLLYPGRSEL----PFL------------PSNTQAVILQPLGDK----GIAIIGGDTI-RGF 267 (301)
Q Consensus 209 G~I~~r~~~~~~~iyL~nl~lyPGr~Ef----~~L------------P~ntqsVlvQPig~~----Gvlvlgs~s~-R~F 267 (301)
.++|..++++++.+.+.|..-.|-..+. ..+ ..+..++++-|+..+ |+|.+....+ |.|
T Consensus 56 ~~~~~~~~~~~~~~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~vPi~~~g~~~G~l~l~~~~~~~~~ 135 (154)
T PF01590_consen 56 ESICGQVLQSREPIVISDVAADPRFAPQIAAQSALRALSSAERPFLAEYGVRSYLCVPIISGGRLIGVLSLYRTRPGRPF 135 (154)
T ss_dssp SSHHHHHHHHTSCEEESSSGGSTTSSCHHHHHHTTBTTTHHHHHHHHTTTESEEEEEEEEETTEEEEEEEEEEESSSSS-
T ss_pred ccHHHHHHhCCCeEeeccccccccccccccccccccccccccccccccccCceeeEeeeecccCcEEEEEEEECCCCCCc
Confidence 5779999999999999999877765555 223 569999999998543 9999999999 999
Q ss_pred ChhhHHHHHHHHHHHHHHH
Q 022217 268 TTSDQSWIAFIGEKLDATL 286 (301)
Q Consensus 268 T~kDe~WI~~iA~KL~~tL 286 (301)
|+.|...++.+|+.+..++
T Consensus 136 ~~~d~~ll~~~a~~~a~ai 154 (154)
T PF01590_consen 136 TEEDLALLESFAQQLAIAI 154 (154)
T ss_dssp -HHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHhhC
Confidence 9999999999999988764
No 6
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=95.74 E-value=0.13 Score=55.00 Aligned_cols=84 Identities=20% Similarity=0.252 Sum_probs=66.5
Q ss_pred cchh-hHHHHHhhccCceeccccccCCCCCCCC-CCCCCCCeeEEEecCCC----eEEEEecCCCcccChhhHHHHHHHH
Q 022217 206 LKQG-SVYLGVMRSKAQRYLANLLLYPGRSELP-FLPSNTQAVILQPLGDK----GIAIIGGDTIRGFTTSDQSWIAFIG 279 (301)
Q Consensus 206 ~~pG-~I~~r~~~~~~~iyL~nl~lyPGr~Ef~-~LP~ntqsVlvQPig~~----Gvlvlgs~s~R~FT~kDe~WI~~iA 279 (301)
+.+| .+|.++.++++++.+.|..--|....++ ..-+++.|+++.|+-.+ |+|-+....+|.||+.|+.++..+|
T Consensus 68 l~~geGi~G~Va~tg~pV~V~Dv~~dprf~~~~~~~~~~~~S~L~VPL~~~geVIGVL~v~~~~~~~Fs~~d~~lL~~LA 147 (748)
T PRK11061 68 LAFDEGIVGLVGRLAEPINLADAQKHPSFKYIPSVKEERFRAFLGVPIIYRRQLLGVLVVQQRELRQFDESEESFLVTLA 147 (748)
T ss_pred ccCCcchHHHHhccCceEEECCcccCcccccCccccCccceEEEEEEEeeCCEEEEEEEEeeCCCCCCCHHHHHHHHHHH
Confidence 4443 4689999999999999998655432221 12467899999999543 8888999999999999999999999
Q ss_pred HHHHHHHhhc
Q 022217 280 EKLDATLAKY 289 (301)
Q Consensus 280 ~KL~~tL~~~ 289 (301)
.-+..+++.-
T Consensus 148 ~~aAiAL~na 157 (748)
T PRK11061 148 TQLAAILSQS 157 (748)
T ss_pred HHHHHHHHHH
Confidence 9998888653
No 7
>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=94.15 E-value=0.66 Score=47.04 Aligned_cols=79 Identities=10% Similarity=0.143 Sum_probs=61.2
Q ss_pred hhHHHHHhhccCceeccccccCCCCCC-CCCCCCCCCeeEEEecCCC----eEEEEecCC-CcccChhhHHHHHHHHHHH
Q 022217 209 GSVYLGVMRSKAQRYLANLLLYPGRSE-LPFLPSNTQAVILQPLGDK----GIAIIGGDT-IRGFTTSDQSWIAFIGEKL 282 (301)
Q Consensus 209 G~I~~r~~~~~~~iyL~nl~lyPGr~E-f~~LP~ntqsVlvQPig~~----Gvlvlgs~s-~R~FT~kDe~WI~~iA~KL 282 (301)
-.+|.++.++++++.+.|...-|-... ......+++++||.||..+ |+|.+.+.. ++.||+.|...+..+|+.+
T Consensus 73 ~gi~g~v~~~~~pvii~Dv~~d~~~~~~~~~~~~~~~S~l~VPL~~~g~viGvL~v~s~~~~~~ft~~d~~lL~~lA~~i 152 (534)
T TIGR01817 73 EGAIGQIVATGNSLVVPDVAAEPLFLDRLSLYDPGPVPFIGVPIKADSETIGVLAADRDFRSRERLEEEVRFLEMVANLI 152 (534)
T ss_pred ccHHHHHHhcCCeEEecccccCchhhhccccccCCcceEEEEEEcCCCEEEEEEEEEeccccccccHHHHHHHHHHHHHH
Confidence 367899999999999998865443211 1233567899999999543 788888864 5788999999999999998
Q ss_pred HHHHh
Q 022217 283 DATLA 287 (301)
Q Consensus 283 ~~tL~ 287 (301)
...+.
T Consensus 153 a~aI~ 157 (534)
T TIGR01817 153 GQTVR 157 (534)
T ss_pred HHHHH
Confidence 88763
No 8
>TIGR02851 spore_V_T stage V sporulation protein T. Members of this protein family are the stage V sporulation protein T (SpoVT), a protein of the sporulation/germination program in Bacillus subtilis and related species. The amino-terminal 50 amino acids are nearly perfectly conserved across all endospore-forming bacteria. SpoVT is a DNA-binding transcriptional regulator related to AbrB (See PFAM model pfam04014).
Probab=92.35 E-value=1.5 Score=39.40 Aligned_cols=116 Identities=10% Similarity=0.048 Sum_probs=79.5
Q ss_pred HHHHHHHHHHHHHhhhccccEEEEEECCEEEEEEeeccCCCCCccchhhcccccchhhHHHHHhhccCceeccccccCCC
Q 022217 153 SVVSELLWAWESLSAVTCCRSLVVVYDGIYLLQIGMAAESGNSGEAVIVDASKLKQGSVYLGVMRSKAQRYLANLLLYPG 232 (301)
Q Consensus 153 ~~k~ELAWas~~LLtnT~a~svlV~~~G~vll~RG~~~~~~~~g~a~~~d~~~~~pG~I~~r~~~~~~~iyL~nl~lyPG 232 (301)
...+...=.-+.|...|.+ +|.|..+.++|...|.-...-..+ . --+.++++|++++.....+.
T Consensus 53 ~~~~~A~~~aeII~~~t~~-aVaITDr~~ILA~~G~g~d~~~~~--------~--is~~t~~~i~~gk~~~~~~~----- 116 (180)
T TIGR02851 53 ELGDFAKEYAESLYQSLGH-IVLITDRDTVIAVAGVSKKEYLNK--------P--ISDELEDTMEERKTVILSDT----- 116 (180)
T ss_pred chHHHHHHHHHHHHHHhCC-EEEEECCCcEEEEECCChhhcCCC--------c--cCHHHHHHHHcCCEEEecCC-----
Confidence 3445555567899999999 999999999999888765311000 1 12345888988887765442
Q ss_pred CCC--CCCC-CCC--CCeeEEEecCCC----eEEEEecCCCc--ccChhhHHHHHHHHHHHHHHH
Q 022217 233 RSE--LPFL-PSN--TQAVILQPLGDK----GIAIIGGDTIR--GFTTSDQSWIAFIGEKLDATL 286 (301)
Q Consensus 233 r~E--f~~L-P~n--tqsVlvQPig~~----Gvlvlgs~s~R--~FT~kDe~WI~~iA~KL~~tL 286 (301)
.| .... -++ ..+.++.||-.+ |.|.+- ...+ .||+.++.+..++|+=|..-|
T Consensus 117 -~~~~i~c~~~~~~~l~s~ii~Pl~~~g~viGtLkly-~k~~~~~~~~~e~~la~glA~lLS~QL 179 (180)
T TIGR02851 117 -KDGPIEIIDGQEFEYTSQVIAPIIAEGDPIGAVIIF-SKEPGEKLGEVEQKAAETAAAFLGKQM 179 (180)
T ss_pred -ccceeccccCCCCCcceEEEEEEEECCeEEEEEEEE-ECCccCCCCHHHHHHHHHHHHHHHHhh
Confidence 22 1111 122 568999999432 666666 6666 999999999999998877654
No 9
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=91.72 E-value=2.2 Score=44.77 Aligned_cols=81 Identities=21% Similarity=0.241 Sum_probs=62.6
Q ss_pred hhhHHHHHhhccCceeccccc---cCC-CCCCCCCCCCCCCeeEEEecCC----CeEEEEecCCCcccChhhHHHHHHHH
Q 022217 208 QGSVYLGVMRSKAQRYLANLL---LYP-GRSELPFLPSNTQAVILQPLGD----KGIAIIGGDTIRGFTTSDQSWIAFIG 279 (301)
Q Consensus 208 pG~I~~r~~~~~~~iyL~nl~---lyP-Gr~Ef~~LP~ntqsVlvQPig~----~Gvlvlgs~s~R~FT~kDe~WI~~iA 279 (301)
.|.+...++++++++.+.+.. +.+ ++..++....++.++|+.||.. -|+|.+++...+.||++|..-++.+|
T Consensus 255 ~~~l~g~V~~~~~p~lv~~~~~d~~~~~~~~~~~~~~~~~~s~l~vPL~~~~~v~GvL~l~~~~~~~F~~~dl~lL~~iA 334 (686)
T PRK15429 255 AGTLTERVFKSKEMLLINLHERDDLAPYERMLFDTWGNQIQTLCLLPLMSGDTMLGVLKLAQCEEKVFTTTNLKLLRQIA 334 (686)
T ss_pred ccchHHHHHhcCceEEEECccCcccchhhhhhhhcccccceEEEEEeEEECCEEEEEEEEeeCCCCcCCHHHHHHHHHHH
Confidence 457889999999988774432 111 2233445567899999999843 39999988888999999999999999
Q ss_pred HHHHHHHhh
Q 022217 280 EKLDATLAK 288 (301)
Q Consensus 280 ~KL~~tL~~ 288 (301)
+....+++.
T Consensus 335 ~~~A~Aie~ 343 (686)
T PRK15429 335 ERVAIAVDN 343 (686)
T ss_pred HHHHHHHHH
Confidence 999988854
No 10
>COG1956 GAF domain-containing protein [Signal transduction mechanisms]
Probab=89.73 E-value=1.2 Score=40.03 Aligned_cols=74 Identities=16% Similarity=0.244 Sum_probs=63.5
Q ss_pred hHHHHHhhccCceeccccccCCCCCCCCCCCCCCCeeEEEecCCC----eEEEEecCCCcccChhhHHHHHHHHHHHHHH
Q 022217 210 SVYLGVMRSKAQRYLANLLLYPGRSELPFLPSNTQAVILQPLGDK----GIAIIGGDTIRGFTTSDQSWIAFIGEKLDAT 285 (301)
Q Consensus 210 ~I~~r~~~~~~~iyL~nl~lyPGr~Ef~~LP~ntqsVlvQPig~~----Gvlvlgs~s~R~FT~kDe~WI~~iA~KL~~t 285 (301)
-+|..+-++++.+=.-|..-|||-+.=| +.++|=||.|+-.+ |+|=+=|.++=.||+.||.||+.+|+-|...
T Consensus 83 GVCg~A~~~~~t~~V~DV~~~~ghiaCD---~as~SEIVvPi~~~g~~iGvlDiDS~~~~~Fd~~D~~~Le~~~~~l~~~ 159 (163)
T COG1956 83 GVCGTAAATGETVRVDDVHAFPGHIACD---AASNSEIVVPIFKDGKLIGVLDIDSPTPGRFDEEDEAGLEKLAALLEKS 159 (163)
T ss_pred chhHHHHhcCCeEEecccccCCCccccc---cccCceEEEEEEECCEEEEEEecCCCCcccCCHHHHHHHHHHHHHHHHH
Confidence 5799999999999999999999987776 46889999999654 6666778999999999999999999888765
Q ss_pred H
Q 022217 286 L 286 (301)
Q Consensus 286 L 286 (301)
+
T Consensus 160 ~ 160 (163)
T COG1956 160 L 160 (163)
T ss_pred h
Confidence 4
No 11
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=78.66 E-value=33 Score=34.92 Aligned_cols=132 Identities=14% Similarity=-0.024 Sum_probs=79.0
Q ss_pred cCCCCHHHHHHHHHHHHHHhhhccccEEEEEECCEEEEEEeeccCCCCCccchhhcccccch--hhHHHHHhhccCceec
Q 022217 147 CSYLPDSVVSELLWAWESLSAVTCCRSLVVVYDGIYLLQIGMAAESGNSGEAVIVDASKLKQ--GSVYLGVMRSKAQRYL 224 (301)
Q Consensus 147 ~~~Lsd~~k~ELAWas~~LLtnT~a~svlV~~~G~vll~RG~~~~~~~~g~a~~~d~~~~~p--G~I~~r~~~~~~~iyL 224 (301)
+.|+.+.+..=+..+.+.+- ..+.++.++ +++.+ ..-.... .....+...+.. |+++..++++++.+-.
T Consensus 16 s~d~~e~L~~vl~~l~~~l~--~~~~~l~l~-~~~~l-~~~as~g-----l~~~~~~~~~~~geGP~l~av~~~g~~v~v 86 (509)
T PRK05022 16 GLPHQDRFQRLLTTLRQVLP--CDASALLRL-DGDQL-VPLAIDG-----LSPDVLGRRFALEEHPRLEAILRAGDPVRF 86 (509)
T ss_pred CCCHHHHHHHHHHHHHHHcC--CCEEEEEec-CCCcE-EEEEEcC-----CChHhhCCccCCCcchHHHHHHhcCCeEEE
Confidence 34666777888888888883 234444444 44332 2221111 011112223444 5677888887777755
Q ss_pred cccccCC----CCCCCCCCCCCCCeeEEEecC--C--CeEEEEecCCCcccChhhHHHHHHHHHHHHHHHh
Q 022217 225 ANLLLYP----GRSELPFLPSNTQAVILQPLG--D--KGIAIIGGDTIRGFTTSDQSWIAFIGEKLDATLA 287 (301)
Q Consensus 225 ~nl~lyP----Gr~Ef~~LP~ntqsVlvQPig--~--~Gvlvlgs~s~R~FT~kDe~WI~~iA~KL~~tL~ 287 (301)
.+..-.| +...-.-.-.+..|+|+.|+- + -|+|-+-+..+..|++.|..-+..+|+-+..++.
T Consensus 87 ~~~~~~p~~~~~~~~~~~~~~gi~S~l~vPL~~~~~~~GvL~l~~~~~~~f~~~~~~~l~~~a~~~a~Al~ 157 (509)
T PRK05022 87 PADSELPDPYDGLIPGVQESLPVHDCMGLPLFVDGRLIGALTLDALDPGQFDAFSDEELRALAALAAATLR 157 (509)
T ss_pred ecCCCCCcccccccccccccCCcceEEEEEEEECCEEEEEEEEeeCCCCcCCHHHHHHHHHHHHHHHHHHH
Confidence 5443222 211101222367799999983 2 3788888888889999999999999987666554
No 12
>PRK13558 bacterio-opsin activator; Provisional
Probab=69.64 E-value=8.9 Score=39.26 Aligned_cols=45 Identities=16% Similarity=0.222 Sum_probs=40.4
Q ss_pred CeeEEEecCC----CeEEEEecCCCcccChhhHHHHHHHHHHHHHHHhh
Q 022217 244 QAVILQPLGD----KGIAIIGGDTIRGFTTSDQSWIAFIGEKLDATLAK 288 (301)
Q Consensus 244 qsVlvQPig~----~Gvlvlgs~s~R~FT~kDe~WI~~iA~KL~~tL~~ 288 (301)
+|+++-||-. =|+|.+.+..++.|+..|+.-++.+|+.+...+..
T Consensus 389 ~s~~~vPL~~~g~~~GvL~v~~~~~~~f~~~e~~ll~~la~~ia~aI~~ 437 (665)
T PRK13558 389 SAVAAVPLVYRETTYGVLVVYTAEPDEIDDRERVVLEALGRAVGAAINA 437 (665)
T ss_pred ceEEEEeEEECCEEEEEEEEeeCCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 3999999932 39999999999999999999999999999998854
No 13
>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms]
Probab=55.04 E-value=19 Score=27.57 Aligned_cols=77 Identities=13% Similarity=0.199 Sum_probs=53.9
Q ss_pred HHHHhhccCceeccccccCCCCCC--CCCCCCCCCeeEEEecCC----CeEEEEecCCCc-ccChhhHHHHHHHHHHHHH
Q 022217 212 YLGVMRSKAQRYLANLLLYPGRSE--LPFLPSNTQAVILQPLGD----KGIAIIGGDTIR-GFTTSDQSWIAFIGEKLDA 284 (301)
Q Consensus 212 ~~r~~~~~~~iyL~nl~lyPGr~E--f~~LP~ntqsVlvQPig~----~Gvlvlgs~s~R-~FT~kDe~WI~~iA~KL~~ 284 (301)
+..+...++.+-..|...-|...+ .....++..+.++.||-. =|.+.+....++ -|++.|+.-+..+|+.+..
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~vPl~~~~~~~G~l~~~~~~~~~~~~~~e~~ll~~la~~~a~ 160 (175)
T COG2203 81 IGIALREGRPVVVEDILQDPRFRDNPLVLLEPPIRSYLGVPLIAQGELLGLLCVHDSEPRRQWSEEELELLEELAEQVAI 160 (175)
T ss_pred hhhhhcCCceEEeeccccCcccccCHHHHHHHHHHHheeeeeeECCEeeEEeeeeccCCCCCCCHHHHHHHHHHHHHHHH
Confidence 344455556666666654443332 233444478899999843 377888877777 5999999999999999998
Q ss_pred HHhh
Q 022217 285 TLAK 288 (301)
Q Consensus 285 tL~~ 288 (301)
.+.+
T Consensus 161 ai~~ 164 (175)
T COG2203 161 AIER 164 (175)
T ss_pred HHHH
Confidence 8865
No 14
>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=54.40 E-value=1.7e+02 Score=30.61 Aligned_cols=81 Identities=17% Similarity=0.149 Sum_probs=50.3
Q ss_pred hhhHHHHHhhccCceeccccccCCCC---CCC-CCCCCCCCeeEEEecCC----CeEEEEecC-CCcccChhhHHHHHHH
Q 022217 208 QGSVYLGVMRSKAQRYLANLLLYPGR---SEL-PFLPSNTQAVILQPLGD----KGIAIIGGD-TIRGFTTSDQSWIAFI 278 (301)
Q Consensus 208 pG~I~~r~~~~~~~iyL~nl~lyPGr---~Ef-~~LP~ntqsVlvQPig~----~Gvlvlgs~-s~R~FT~kDe~WI~~i 278 (301)
..++|+...+.+.-+-+.+....|-. .+. +.+.....+.+|-|+.. -|+++++.+ +++.|+..|..+++.+
T Consensus 370 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vPL~~~~~~~G~l~l~~~~~~~~~~~e~~~lL~~l 449 (679)
T TIGR02916 370 DSAFCQFLQESGWIINLEEARSEPDHYSGLVLPEWLREIPNAWLIVPLISGEELVGFVVLARPRTAGEFNWEVRDLLKTA 449 (679)
T ss_pred CCHHHHHHHhCCCcccchhhcCCcccccccccchhhhcCCCceEEEEeccCCEEEEEEEEecCCCCCCCCHHHHHHHHHH
Confidence 34567665555444333333322321 111 12222345689999954 378888876 5668999999999999
Q ss_pred HHHHHHHHhh
Q 022217 279 GEKLDATLAK 288 (301)
Q Consensus 279 A~KL~~tL~~ 288 (301)
++.+...+++
T Consensus 450 ~~q~a~~l~~ 459 (679)
T TIGR02916 450 GRQAASYLAQ 459 (679)
T ss_pred HHHHHHHHHH
Confidence 9988777654
No 15
>PRK10963 hypothetical protein; Provisional
Probab=48.96 E-value=45 Score=30.59 Aligned_cols=48 Identities=13% Similarity=0.304 Sum_probs=40.5
Q ss_pred CCCeeEEEecCC---CeEEEEecCCCcccCh-hhHHHHHHHHHHHHHHHhhc
Q 022217 242 NTQAVILQPLGD---KGIAIIGGDTIRGFTT-SDQSWIAFIGEKLDATLAKY 289 (301)
Q Consensus 242 ntqsVlvQPig~---~Gvlvlgs~s~R~FT~-kDe~WI~~iA~KL~~tL~~~ 289 (301)
..+|+.+-|++. -|+|++||.-+.-|++ .|--.++-+|+=+...|.+-
T Consensus 168 ~v~S~AllpL~~~~~~GlLalGS~D~~rF~~~mgT~fL~~la~vvs~~L~~~ 219 (223)
T PRK10963 168 AVGSVAMSLLGSDGDLGVLLFSSRDAQHYQQGQGTQLLQHLALMLPELLERW 219 (223)
T ss_pred cCceeEEEeccCCCceEEEEEeCCChhhcCCCccHHHHHHHHHHHHHHHHHH
Confidence 578999999975 4999999988888875 57789999999988888764
No 16
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=45.28 E-value=58 Score=29.56 Aligned_cols=49 Identities=22% Similarity=0.461 Sum_probs=40.9
Q ss_pred CCCCeeEEEecCC---CeEEEEecCCCcccCh-hhHHHHHHHHHHHHHHHhhc
Q 022217 241 SNTQAVILQPLGD---KGIAIIGGDTIRGFTT-SDQSWIAFIGEKLDATLAKY 289 (301)
Q Consensus 241 ~ntqsVlvQPig~---~Gvlvlgs~s~R~FT~-kDe~WI~~iA~KL~~tL~~~ 289 (301)
+..+|+.+-|+++ -|+|.+||..+--|++ .+--+++-+|+-+...|.+.
T Consensus 171 ~~v~S~AlipL~~~~~~G~LalGS~D~~rF~p~mgT~fL~~La~vv~~~L~r~ 223 (225)
T PF04340_consen 171 AQVGSVALIPLGSGRPIGLLALGSRDPDRFQPDMGTDFLEQLAEVVSAALERW 223 (225)
T ss_dssp CC-SEEEEEEEESSSEEEEEEEEESSTTCCCSTTTTHHHHHHHHHHHHHGGG-
T ss_pred ccccchheeeccCCCceEEEEecCCChhhCCCCccHHHHHHHHHHHHHHHhcc
Confidence 6789999999985 3999999998888876 57789999999999998763
No 17
>PF00360 PHY: Phytochrome region; InterPro: IPR013515 Phytochrome belongs to a family of plant photoreceptors that mediate physiological and developmental responses to changes in red and far-red light conditions []. The protein undergoes reversible photochemical conversion between a biologically-inactive red light-absorbing form and the active far-red light-absorbing form. Phytochrome is a dimer of identical 124 kDa subunits, each of which contains a linear tetrapyrrole chromophore, covalently-attached via a Cys residue. This domain represents a region specific to phytochrome proteins.; GO: 0008020 G-protein coupled photoreceptor activity, 0006355 regulation of transcription, DNA-dependent, 0009584 detection of visible light, 0018298 protein-chromophore linkage; PDB: 3C2W_G 3NHQ_B 3G6O_B 3IBR_A 2VEA_A 3ZQ5_A.
Probab=40.01 E-value=87 Score=27.85 Aligned_cols=76 Identities=16% Similarity=0.239 Sum_probs=47.5
Q ss_pred HHHHHhhhccccEEEEEECCEEEEEEeeccCCCCCccchhhcccccchhhHHHHHh-hccCceeccccc--cCCCCCCCC
Q 022217 161 AWESLSAVTCCRSLVVVYDGIYLLQIGMAAESGNSGEAVIVDASKLKQGSVYLGVM-RSKAQRYLANLL--LYPGRSELP 237 (301)
Q Consensus 161 as~~LLtnT~a~svlV~~~G~vll~RG~~~~~~~~g~a~~~d~~~~~pG~I~~r~~-~~~~~iyL~nl~--lyPGr~Ef~ 237 (301)
....|++-..|.++.|+++|++ ...|-..+.. .--.|+.+.. ...+.+|-.+-. .||+-..
T Consensus 25 ~~~~ll~l~~AdG~al~~~g~~-~~~G~~P~~~-------------~i~~L~~wl~~~~~~~v~~T~~L~~~~p~~~~-- 88 (182)
T PF00360_consen 25 QAPDLLDLVDADGVALVIDGEV-YTFGETPPEE-------------QIRALAEWLREQADGEVFATDSLSEDYPDAAA-- 88 (182)
T ss_dssp TCCCHHHCTT-SEEEEEETTEE-EEEESS--HH-------------HHHHHHHHCCCTTT-SEEEESBGGGTSGGGGG--
T ss_pred ccHHHHhhccCCEEEEEECCEE-EEecCCcCHH-------------HHHHHHHHHHhhCCCccchhhhHhHhChhhhh--
Confidence 3456888999999999999996 5568655410 1123444433 355566644433 5886554
Q ss_pred CCCCCCCeeEEEecCC
Q 022217 238 FLPSNTQAVILQPLGD 253 (301)
Q Consensus 238 ~LP~ntqsVlvQPig~ 253 (301)
+.+..-+||+.||..
T Consensus 89 -~~~~aaGvLai~l~~ 103 (182)
T PF00360_consen 89 -LAERAAGVLAIPLSS 103 (182)
T ss_dssp -GCCCHSEEEEEEECT
T ss_pred -hcccCCCcEEEECCC
Confidence 457788999999964
No 18
>COG3159 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.38 E-value=72 Score=30.20 Aligned_cols=51 Identities=24% Similarity=0.382 Sum_probs=43.0
Q ss_pred CCCCC--CCeeEEEecC---CCeEEEEecCCCcccCh-hhHHHHHHHHHHHHHHHhh
Q 022217 238 FLPSN--TQAVILQPLG---DKGIAIIGGDTIRGFTT-SDQSWIAFIGEKLDATLAK 288 (301)
Q Consensus 238 ~LP~n--tqsVlvQPig---~~Gvlvlgs~s~R~FT~-kDe~WI~~iA~KL~~tL~~ 288 (301)
++|+. .+||.|.|++ .-|+|++||--+|.|++ .|--.+..+|+-+..+|++
T Consensus 159 ~~~ea~~vgSvAi~~L~~~~~~gllafgS~D~~hf~~gmGT~fL~~la~vl~~~L~R 215 (218)
T COG3159 159 GLPEAKAVGSVAIVPLGSQAPLGLLAFGSRDPRHFQPGMGTLFLRHLALVLARLLER 215 (218)
T ss_pred cCCcccccceeEEEEccCCCCceEEEecCCCccccCCCcchHHHHHHHHHHHHHHhh
Confidence 44443 6799999998 67999999999999987 4778999999999998875
No 19
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=36.34 E-value=57 Score=34.45 Aligned_cols=74 Identities=9% Similarity=0.040 Sum_probs=52.1
Q ss_pred HHHhhccCceecccccc---CCCCCCCCCCCCCCCeeEEEecCC----CeEEEEecCCCcccChhhHHHHHHHHHHHHHH
Q 022217 213 LGVMRSKAQRYLANLLL---YPGRSELPFLPSNTQAVILQPLGD----KGIAIIGGDTIRGFTTSDQSWIAFIGEKLDAT 285 (301)
Q Consensus 213 ~r~~~~~~~iyL~nl~l---yPGr~Ef~~LP~ntqsVlvQPig~----~Gvlvlgs~s~R~FT~kDe~WI~~iA~KL~~t 285 (301)
..+++++++.++.+..+ ||...+....| ...+.+-.||-. =|+|.+-+...+.||..|+.=+..+|.-....
T Consensus 82 g~vl~~~~~l~~~~~~~~~~~~~l~~~~~~~-~~~~~lgvPl~~~~~v~G~l~l~~~~~~~Ft~~d~~ll~~la~~a~~a 160 (686)
T PRK15429 82 RRILSRPDTLHCSYEEFCETWPQLAAGGLYP-KFGHYCLMPLAAEGHIFGGCEFIRYDDRPWSEKEFNRLQTFTQIVSVV 160 (686)
T ss_pred eEEeecCceEEEchHHhhhccHHHhhccccc-CccceEEeceeeCCeeEEEEEEEEcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 45677777777777553 56666664443 233366679843 38888888889999999999998887776655
Q ss_pred Hh
Q 022217 286 LA 287 (301)
Q Consensus 286 L~ 287 (301)
++
T Consensus 161 ie 162 (686)
T PRK15429 161 TE 162 (686)
T ss_pred HH
Confidence 54
No 20
>TIGR02761 TraE_TIGR type IV conjugative transfer system protein TraE. TraE is a component of type IV secretion systems involved in conjugative transfer of plasmid DNA. The function of the TraE protein is unknown.
Probab=29.42 E-value=3.1e+02 Score=24.41 Aligned_cols=61 Identities=15% Similarity=0.097 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHhhhhcccCCCccccccccccCCCCccceeecCC-CCHHHHHHHH-HHHHHHhhhccc
Q 022217 104 AISLAVTSILTGLVWLSIRPKSITVNSFSLFQVNPKGVECQMICSY-LPDSVVSELL-WAWESLSAVTCC 171 (301)
Q Consensus 104 gl~Lsa~liL~Gllw~~~~P~~~~~~~~s~~~V~L~G~e~f~l~~~-Lsd~~k~ELA-Was~~LLtnT~a 171 (301)
.+.|+++.++...++...+-..... +++...+.|.++.+ .+++=.++++ ...+.+|+-|+.
T Consensus 25 ~~~l~~~~ll~~~~~~~~~~~~~ii-------vPp~i~~~~~vs~~~as~~YLe~ma~~~~~L~lNvTP~ 87 (181)
T TIGR02761 25 SGVLAVNVLLSIVLIVALKKTRTVV-------VPPTISQAFTVSAASADATYLELMGLYFIQLRLNVTPE 87 (181)
T ss_pred HHHHHHHHHHHHHHHHHcCCceEEE-------ECCCCCccEEEeCCcCCHHHHHHHHHHHHHHhccCChh
Confidence 4445555666666666544322222 55566888999866 8888888876 556666666664
No 21
>PF05309 TraE: TraE protein; InterPro: IPR007973 This family consists of several bacterial sex pilus assembly and synthesis proteins (TraE). Conjugal transfer of plasmids from donor to recipient cells is a complex process in which a cell-to-cell contact plays a key role. Many genes encoded by self-transmissible plasmids are required for various processes of conjugation, including pilus formation, stabilisation of mating pairs, conjugative DNA metabolism, surface exclusion and regulation of transfer gene expression []. The exact function of the TraE protein is unknown.; GO: 0000746 conjugation
Probab=25.21 E-value=1.9e+02 Score=25.62 Aligned_cols=61 Identities=13% Similarity=0.053 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHhhhhcccCCCccccccccccCCCCccceeecCC-CCHHHHHHHHHH-HHHHhhhccc
Q 022217 104 AISLAVTSILTGLVWLSIRPKSITVNSFSLFQVNPKGVECQMICSY-LPDSVVSELLWA-WESLSAVTCC 171 (301)
Q Consensus 104 gl~Lsa~liL~Gllw~~~~P~~~~~~~~s~~~V~L~G~e~f~l~~~-Lsd~~k~ELAWa-s~~LLtnT~a 171 (301)
++++.+.+++.+.+|..++-..... +++.-++.|.++.+ .|++-.++++.- .+.+++.|+.
T Consensus 25 ~~l~~~~v~l~~~~~~~~~~~~~vi-------vPp~~~~~~~vs~~~as~~Yl~~m~~~~~~L~lNvtP~ 87 (187)
T PF05309_consen 25 LVLLIANVVLGYLLYAASTNQRTVI-------VPPTLNKPFWVSGNSASAEYLEQMGRYVAQLLLNVTPE 87 (187)
T ss_pred HHHHHHHHHHHHHHHHHhcCCeEEE-------ECCcccccEEEECCcCCHHHHHHHHHHHHHHhcCCChh
Confidence 3344445666666777776555444 56666888999866 889999998854 4444444443
No 22
>COG3038 CybB Cytochrome B561 [Energy production and conversion]
Probab=20.19 E-value=5e+02 Score=23.73 Aligned_cols=98 Identities=23% Similarity=0.297 Sum_probs=51.6
Q ss_pred hHHHHHHHHHHHHHH---hhhcCCCC--CCCCChhhHHHHHHHH-H---HHHHHHHHHHhhhhcccCCCccccccccccC
Q 022217 67 PIYVGGASLLAVLFN---RTVSGIAP--VADASSSQSRADLLAI-S---LAVTSILTGLVWLSIRPKSITVNSFSLFQVN 137 (301)
Q Consensus 67 P~~vG~l~~~llL~N---r~lsgiAp--v~~~t~aQ~RaevLgl-~---Lsa~liL~Gllw~~~~P~~~~~~~~s~~~V~ 137 (301)
=-.+|++.+.|+++= |+.. .+| ++..++-|.++-.++= + +-.+++++|++-....+++-.. |....+.
T Consensus 50 Hks~Gi~vl~L~v~Rl~wrl~~-~~p~~~~~~~~~~~~aA~~~Hl~LY~l~lalPlsG~l~~~~~g~~~~~--FG~~~~p 126 (181)
T COG3038 50 HKSIGILVLALMVLRLLWRLRN-PAPPIVPGPPPWQRKAAKLGHLALYLLMLALPLSGYLLSTASGRPISV--FGLFTVP 126 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHcC-CCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcee--cchhhcc
Confidence 345888877776653 3333 233 3444566665555442 2 2256888888888777755433 1111111
Q ss_pred CCCccceeecCCCCHHHH---HHHHHHHHHHhhhccc
Q 022217 138 PKGVECQMICSYLPDSVV---SELLWAWESLSAVTCC 171 (301)
Q Consensus 138 L~G~e~f~l~~~Lsd~~k---~ELAWas~~LLtnT~a 171 (301)
.-..+ ++++.|..| .-|||..+.|.---.+
T Consensus 127 ~~~~~----~~~~~~~~~~~H~~la~~~~~lv~lHa~ 159 (181)
T COG3038 127 ATLLP----NPALADLAKAIHETLAWLLYALIGLHAA 159 (181)
T ss_pred CccCC----CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 11111 234455555 6788888776543333
Done!