Query gi|254780687|ref|YP_003065100.1| flagellar C-ring protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 318
No_of_seqs 160 out of 776
Neff 8.3
Searched_HMMs 39220
Date Sun May 29 23:56:46 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780687.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK12795 fliM flagellar motor 100.0 0 0 476.4 34.9 301 9-311 63-365 (378)
2 PRK06666 fliM flagellar motor 100.0 0 0 457.6 35.4 301 4-312 30-331 (336)
3 COG1868 FliM Flagellar motor s 100.0 0 0 455.2 34.6 304 6-317 28-332 (332)
4 pfam02154 FliM Flagellar motor 100.0 1.5E-38 3.9E-43 271.8 21.8 183 28-213 10-192 (192)
5 PRK08119 flagellar motor switc 100.0 3.1E-36 7.8E-41 256.8 30.2 279 31-314 41-389 (390)
6 TIGR01397 fliM_switch flagella 100.0 2E-37 5E-42 264.6 24.1 292 5-304 31-327 (328)
7 PRK06782 flagellar motor switc 100.0 1.3E-28 3.4E-33 206.7 23.8 270 31-304 246-547 (547)
8 PRK08432 flagellar motor switc 99.9 5.4E-25 1.4E-29 183.1 22.2 263 38-316 4-281 (281)
9 PRK08983 fliN flagellar motor 99.7 5.3E-17 1.3E-21 130.7 12.2 82 232-314 44-125 (126)
10 PRK07963 fliN flagellar motor 99.7 5.7E-17 1.5E-21 130.5 11.8 79 233-311 55-133 (137)
11 TIGR02480 fliN flagellar motor 99.7 9.5E-17 2.4E-21 129.0 9.5 74 233-306 3-76 (77)
12 pfam01052 SpoA Surface present 99.7 2.1E-16 5.2E-21 126.8 11.0 75 232-306 2-76 (77)
13 PRK05698 fliN flagellar motor 99.7 2E-16 5.2E-21 126.9 10.5 79 232-310 73-151 (155)
14 PRK08433 flagellar motor switc 99.7 4.4E-16 1.1E-20 124.7 10.4 76 233-308 27-102 (111)
15 PRK08916 flagellar motor switc 99.7 1.3E-15 3.3E-20 121.6 11.1 76 232-307 37-112 (114)
16 PRK06033 hypothetical protein; 99.6 2.1E-15 5.3E-20 120.3 9.4 82 227-308 3-84 (87)
17 PRK06788 flagellar motor switc 99.6 1E-14 2.6E-19 115.8 9.7 76 232-307 28-103 (119)
18 COG1886 FliN Flagellar motor s 99.5 2.8E-13 7E-18 106.3 10.6 73 231-303 64-136 (136)
19 TIGR02551 SpaO_YscQ type III s 99.3 5.3E-11 1.4E-15 91.4 9.7 70 233-302 255-325 (326)
20 PRK05933 type III secretion sy 99.2 1.2E-08 3E-13 76.0 20.7 244 49-303 42-371 (371)
21 PRK06782 flagellar motor switc 99.2 8.5E-09 2.2E-13 76.9 18.0 173 30-206 25-204 (547)
22 PRK06933 type III secretion sy 99.0 6.5E-09 1.7E-13 77.7 9.7 75 233-307 231-305 (307)
23 PRK08158 surface presentation 98.9 1.3E-08 3.2E-13 75.8 9.2 73 234-306 226-298 (303)
24 COG1776 CheC Chemotaxis protei 98.6 4.5E-06 1.2E-10 59.1 15.6 129 31-164 11-141 (203)
25 PRK08035 type III secretion sy 98.2 1.2E-05 3E-10 56.4 8.1 71 233-303 246-316 (326)
26 PRK06933 type III secretion sy 96.8 0.0039 9.9E-08 39.8 5.8 65 237-305 154-220 (307)
27 PRK05933 type III secretion sy 96.2 0.025 6.4E-07 34.5 6.9 68 233-302 207-282 (371)
28 PRK06789 flagellar motor switc 95.8 0.032 8.1E-07 33.9 6.1 58 245-302 1-58 (61)
29 PRK08158 surface presentation 94.3 0.29 7.3E-06 27.6 7.4 47 235-284 145-191 (303)
30 TIGR02551 SpaO_YscQ type III s 92.7 0.091 2.3E-06 30.9 2.7 165 84-275 11-179 (326)
31 COG1406 Predicted inhibitor of 71.3 7.3 0.00019 18.4 12.9 143 40-201 7-150 (153)
32 COG1855 ATPase (PilT family) [ 70.3 7.7 0.0002 18.2 6.3 50 264-316 545-595 (604)
33 PRK13764 ATPase; Provisional 69.8 7.9 0.0002 18.2 5.4 51 264-317 546-597 (605)
34 TIGR02303 HpaG-C-term 4-hydrox 68.1 6.3 0.00016 18.8 3.3 33 252-285 202-234 (249)
35 TIGR02305 HpaG-N-term 4-hydrox 67.5 7.3 0.00019 18.4 3.5 30 252-282 162-191 (206)
36 TIGR02713 allophanate_hyd allo 61.3 9.7 0.00025 17.6 3.2 16 62-77 255-270 (582)
37 TIGR01439 lp_hng_hel_AbrB tran 60.3 8.9 0.00023 17.8 2.9 27 252-278 15-41 (44)
38 TIGR02715 amido_AtzE amidohydr 51.2 17 0.00042 16.0 3.8 50 10-64 321-370 (454)
39 KOG2309 consensus 47.3 11 0.00027 17.3 1.5 55 252-306 83-137 (248)
40 KOG3416 consensus 42.8 17 0.00045 15.9 2.1 40 258-300 61-103 (134)
41 TIGR01517 ATPase-IIB_Ca calciu 41.8 6.5 0.00017 18.7 -0.2 30 246-282 170-199 (885)
42 PRK06461 single-stranded DNA-b 40.9 21 0.00054 15.3 2.3 44 245-291 49-94 (130)
43 pfam04962 KduI KduI/IolB famil 39.4 25 0.00064 14.9 2.8 23 250-272 205-227 (261)
44 TIGR02643 T_phosphoryl thymidi 36.2 17 0.00044 16.0 1.2 55 75-139 228-283 (440)
45 pfam05683 Fumerase_C Fumarase 34.7 30 0.00075 14.4 2.2 12 254-265 37-48 (205)
46 TIGR01511 ATPase-IB1_Cu copper 33.4 31 0.00079 14.3 2.4 35 242-279 80-114 (545)
47 PRK06043 fumarate hydratase; P 31.9 31 0.0008 14.2 2.0 13 93-105 72-84 (191)
48 TIGR02375 pseudoazurin pseudoa 31.9 25 0.00063 14.9 1.4 42 257-301 20-66 (123)
49 PRK10691 hypothetical protein; 28.2 38 0.00097 13.7 3.3 29 253-281 176-211 (219)
50 PRK09570 rpoH DNA-directed RNA 24.9 43 0.0011 13.3 1.9 21 251-271 44-64 (79)
51 smart00157 PRP Major prion pro 24.3 45 0.0011 13.2 2.8 72 64-144 121-192 (217)
52 PRK08228 L(+)-tartrate dehydra 24.0 45 0.0012 13.2 1.8 15 223-237 178-192 (201)
53 pfam01191 RNA_pol_Rpb5_C RNA p 23.9 45 0.0012 13.2 1.8 22 250-271 40-61 (74)
54 KOG0205 consensus 23.6 32 0.00082 14.2 0.8 14 254-267 155-168 (942)
55 PRK08186 amidase; Provisional 23.5 46 0.0012 13.1 2.5 29 125-153 338-366 (600)
56 PRK01122 potassium-transportin 23.1 47 0.0012 13.1 3.4 17 300-316 447-464 (684)
57 TIGR01512 ATPase-IB2_Cd cadmiu 22.9 47 0.0012 13.1 1.8 18 38-55 34-51 (494)
58 TIGR02644 Y_phosphoryl pyrimid 22.7 24 0.00061 15.0 -0.0 14 191-204 346-359 (425)
59 TIGR01196 edd phosphogluconate 22.7 36 0.00092 13.8 0.9 31 252-283 539-569 (614)
60 KOG4225 consensus 21.0 52 0.0013 12.8 2.1 41 254-297 446-486 (489)
61 COG0213 DeoA Thymidine phospho 20.9 52 0.0013 12.8 1.7 20 73-92 225-245 (435)
62 TIGR01647 ATPase-IIIA_H plasma 20.9 29 0.00073 14.5 0.1 53 246-298 112-189 (835)
63 COG3234 Uncharacterized protei 20.8 52 0.0013 12.8 2.9 54 252-305 135-190 (215)
64 cd06555 ASCH_PF0470_like ASC-1 20.7 52 0.0013 12.8 4.2 17 254-270 27-43 (109)
No 1
>PRK12795 fliM flagellar motor switch protein FliM; Reviewed
Probab=100.00 E-value=0 Score=476.44 Aligned_cols=301 Identities=15% Similarity=0.229 Sum_probs=282.8
Q ss_pred CCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCEEEEHHHHHHCCCCCEEEEEEEC
Q ss_conf 87845778888853012236679999999999999999999998629807998647256679989711688639999973
Q gi|254780687|r 9 NTSPLHPILLARLTGKLGDKKTIEKISSSLGYLYKKFLPKIFKEKMDLDVDISYTSCQSGKFSHIIHSFKENFVFSQASL 88 (318)
Q Consensus 9 ~~~p~d~~~~~r~~g~~~~~~~~~~~~~~~~e~~~r~l~~~l~~~~~~~v~v~~~~ve~~~~~e~i~~l~~p~~~~i~~~ 88 (318)
..+.-|..-+.+.+-.+..+.++..+++.++|||+|.|+.+|++++|..++|++.++++++|+||++++|.|+++++|++
T Consensus 63 ~~~~~~~~~~~~~~~~~~vs~eRmP~LeiI~dRfaR~~~~sL~n~~r~~veVsl~~V~~~kfgefl~sLp~PT~lnvf~~ 142 (378)
T PRK12795 63 ELSADDESGIRAIIDSAMVSYERLPMLEIVFDRLVRLLTTSLRNFTSDNVEVSLDRITSVRFGDYLNSIPLPALLAVFKA 142 (378)
T ss_pred CCCCCCCHHHHHHHHHCEECHHHCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEECCEEEEEHHHHHHCCCCCCEEEEEEC
T ss_conf 88865411499987520210864725889999999999999988625771898530568899898753888747999871
Q ss_pred CCCCCEEEEEECHHHHHHHHHHHHCCC-CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCHHHHH
Q ss_conf 677833999988789999998872788-8766666656579899999999999999999998510027320000024431
Q gi|254780687|r 89 SSWSSNFFIGCSNNLVITLLENLLGAS-HETIPQLYNRSLSTVEKKLAKRTIAQISAVLNQCISTTQESSPNLEDFYDID 167 (318)
Q Consensus 89 ~pl~g~~ll~id~~l~~~lid~~lGG~-g~~~~~~~~R~lT~iE~~l~~~i~~~~~~~l~~a~~~~~~~~~~~~~~~~~~ 167 (318)
+||+|++++++|+.++|.+||++|||+ |..+.++++|+||+||+++++++++.+++.|++||+++.++++.+.+.|+
T Consensus 143 ~PL~G~~L~~idp~Lvf~iVD~lfGG~rG~~~~kiEgReFT~IE~rIi~rvl~~vl~dl~~AW~pV~~v~f~~~r~Et-- 220 (378)
T PRK12795 143 EEWDNYGLLTVDSSLIYSIVDVLLGGRRGTAAMRIEGRPYTTIERNLVERLVEVVLADLEQAFRPLSPVTFTIDRLET-- 220 (378)
T ss_pred CCCCCCEEEEECHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEEC--
T ss_conf 566785899987789999999860898787676668998888999999999999999999973064200257999854--
Q ss_pred CHHHHCCCCCCCEEEEEEEEEEECCEEEEEEEEEEHHHHHHHHHHHHH-CCCCCCCCCHHHHHHHHHHHHHCEEEEEEEE
Q ss_conf 100001247871899999886667813799998504775256775432-0244223798999999999740800799998
Q gi|254780687|r 168 YLKKNTNRLSNEFVTTINMNMTIENVASSFVLIIPQETLLKTTLISLS-SQNKSENQSEDLIDPFARKTYQLNVNIDTRI 246 (318)
Q Consensus 168 ~~~~~~~~~p~e~vi~i~~~v~~~~~~g~~~l~lP~~~l~~~~~~~~~-~~~~~~~~~~~~~~~l~~~l~~~~v~i~a~L 246 (318)
||++++++.|+|.|++++|++++++.+|.+++|+||+++||+++++.+ .+++..+.|+.|.++|++++++++|+++|+|
T Consensus 221 NPqFAqIvsPnEvVVv~tf~Ieig~~~G~m~IciPYstLEPIRd~L~~~~~~ek~~~D~~W~~~L~~eI~~a~V~l~A~L 300 (378)
T PRK12795 221 NPRFAAITRPANAAILVRLRIDMEDRGGRIELLLPYATLEPIRDLLLQMFMGEKFGRDSIWEGHLATEIWQTDVEVDAVL 300 (378)
T ss_pred CHHHHCCCCCCCEEEEEEEEEEECCCCEEEEEEEEHHHHHHHHHHHHCHHHHCCCCCCHHHHHHHHHHHHCCEEEEEEEE
T ss_conf 86785003888539999999998897169999944777656899872544531246667999999999835922899999
Q ss_pred EEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCHHHHH
Q ss_conf 12343098994579997898257899738999999999999998788978999984258146788
Q gi|254780687|r 247 NLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFDQKSL 311 (318)
Q Consensus 247 g~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~~~~l 311 (318)
|+++++++|+++|++||||||+++.++++.++|+|+|+|+|++|++++||||||++.+......+
T Consensus 301 g~~~itL~dvL~LkvGDVI~Ld~~~d~~v~v~v~gvp~F~g~~G~~~g~~AvqIt~~l~~p~~~~ 365 (378)
T PRK12795 301 DEQTLPLKQVMALKVGDTLPLDARPDALVTLRCGSVPLFEGRMGRVGDRVAVRVEKPLRKPRTTL 365 (378)
T ss_pred ECCEEEHHHHHCCCCCCEEEECCCCCCEEEEEECCEEEEEEECCCCCCEEEEEEEECCCCCCCHH
T ss_conf 35488899985799999899679999607999999998997247489989999851478972369
No 2
>PRK06666 fliM flagellar motor switch protein FliM; Validated
Probab=100.00 E-value=0 Score=457.57 Aligned_cols=301 Identities=16% Similarity=0.233 Sum_probs=283.7
Q ss_pred CCCCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCEEEEHHHHHHCCCCCEEE
Q ss_conf 54555878457788888530122366799999999999999999999986298079986472566799897116886399
Q gi|254780687|r 4 QSIHKNTSPLHPILLARLTGKLGDKKTIEKISSSLGYLYKKFLPKIFKEKMDLDVDISYTSCQSGKFSHIIHSFKENFVF 83 (318)
Q Consensus 4 ~~~~~~~~p~d~~~~~r~~g~~~~~~~~~~~~~~~~e~~~r~l~~~l~~~~~~~v~v~~~~ve~~~~~e~i~~l~~p~~~ 83 (318)
...++++.|||..-..++ .+...++++.++|+|+|.++.+|++++|..|+|++.++++.+|+||++++|.|+++
T Consensus 30 ~~~~~~v~~yDf~~p~k~------~~~~l~~L~~i~e~far~~~~~Ls~~lr~~v~i~~~~ve~~~y~ef~~slp~p~~l 103 (336)
T PRK06666 30 EGDEGKVRPYDFKRQDRF------VRERLRTLEIINERFARLLRIGLSNLLRRSVEISVGSVDQVPYGEFIRSLPVPTSL 103 (336)
T ss_pred CCCCCCCEECCCCCCCCC------HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEECCEEEEEHHHHHHHCCCCEEE
T ss_conf 556576113577772301------03357899999999999999999998478469995641898799998618996499
Q ss_pred EEEECCCCCCEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCH
Q ss_conf 99973677833999988789999998872788876666665657989999999999999999999851002732000002
Q gi|254780687|r 84 SQASLSSWSSNFFIGCSNNLVITLLENLLGASHETIPQLYNRSLSTVEKKLAKRTIAQISAVLNQCISTTQESSPNLEDF 163 (318)
Q Consensus 84 ~i~~~~pl~g~~ll~id~~l~~~lid~~lGG~g~~~~~~~~R~lT~iE~~l~~~i~~~~~~~l~~a~~~~~~~~~~~~~~ 163 (318)
++++++||+|.+++.++++++|+++|+||||.|......++|+||+||+++++++++.++++|.+||+++.+++|.+...
T Consensus 104 ~v~~~~pl~G~~ll~i~~~~~~~ivD~~lGG~G~~~~~~~~R~~T~iE~~ii~~v~~~~~~~l~~aw~~v~~~~~~~~~~ 183 (336)
T PRK06666 104 NLVHMKPLRGTALIEFDPSLVFIIVDNLFGGDGRFHTKVEGREFTETEQRVIQRLLKLAFENLKEAWSSVVDIEPEYVRS 183 (336)
T ss_pred EEEEECCCCCEEEEEECHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEE
T ss_conf 99984376742899988899999999961789876676567888889999999999999999999988633788302120
Q ss_pred HHHHCHHHHCCCCCCCEEEEEEEEEEECCEEEEEEEEEEHHHHHHHHHHHHH-CCCCCCCCCHHHHHHHHHHHHHCEEEE
Q ss_conf 4431100001247871899999886667813799998504775256775432-024422379899999999974080079
Q gi|254780687|r 164 YDIDYLKKNTNRLSNEFVTTINMNMTIENVASSFVLIIPQETLLKTTLISLS-SQNKSENQSEDLIDPFARKTYQLNVNI 242 (318)
Q Consensus 164 ~~~~~~~~~~~~~p~e~vi~i~~~v~~~~~~g~~~l~lP~~~l~~~~~~~~~-~~~~~~~~~~~~~~~l~~~l~~~~v~i 242 (318)
++ ||++++++.|++++++++|++++++..|.+++|+||++++|++..+.+ .+......++.|...+++++++++|++
T Consensus 184 E~--np~~~~i~~~~e~vvv~~f~v~i~~~~g~i~i~iP~~~lepi~~~l~~~~~~~~~~~d~~~~~~l~~~l~~v~v~v 261 (336)
T PRK06666 184 EV--NPQFANIVSPNEIVVVVSFHIEIGGGGGMMNICIPYSMIEPIRKLLSAGIQSDSRDKDKRWRKELREQVQQVEVEL 261 (336)
T ss_pred CC--CCCCEECCCCCCEEEEEEEEEEECCCCCEEEEECCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCEEE
T ss_conf 04--8531120589875999999999778642589955387778788876353433455566668999999861682799
Q ss_pred EEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCHHHHHH
Q ss_conf 9998123430989945799978982578997389999999999999987889789999842581467888
Q gi|254780687|r 243 DTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFDQKSLK 312 (318)
Q Consensus 243 ~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~~~~l~ 312 (318)
+|+||+++++++|+++|++||||+|++++++|++|+|||+++|+|++|++|+|+||||++++..++|..+
T Consensus 262 ~a~Lg~~~~tl~ell~L~vGDVI~L~~~~~~~v~v~V~g~~~f~g~~G~~~~~~Av~I~e~i~~~~~~~~ 331 (336)
T PRK06666 262 VANLGEIKLTLREILNLKVGDVIPLEKPIDDPLTVKVDGKPKFTCQYGKSNGRKALQIEELIERIEDELE 331 (336)
T ss_pred EEEECCCEEEHHHHHCCCCCCEEEECCCCCCCEEEEECCEEEEEEEEEEECCEEEEEEEEECCCCCCCHH
T ss_conf 9998344478999857999998995798999879999999999999988999999999883066332012
No 3
>COG1868 FliM Flagellar motor switch protein [Cell motility and secretion]
Probab=100.00 E-value=0 Score=455.19 Aligned_cols=304 Identities=18% Similarity=0.315 Sum_probs=291.5
Q ss_pred CCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCEEEEHHHHHHCCCCCEEEEE
Q ss_conf 55587845778888853012236679999999999999999999998629807998647256679989711688639999
Q gi|254780687|r 6 IHKNTSPLHPILLARLTGKLGDKKTIEKISSSLGYLYKKFLPKIFKEKMDLDVDISYTSCQSGKFSHIIHSFKENFVFSQ 85 (318)
Q Consensus 6 ~~~~~~p~d~~~~~r~~g~~~~~~~~~~~~~~~~e~~~r~l~~~l~~~~~~~v~v~~~~ve~~~~~e~i~~l~~p~~~~i 85 (318)
...++.+||....+|+ ++...++++.|+++|+|.|+.+|++.+|..|+|++.+++|++|+||++++|+|+++++
T Consensus 28 ~~~~v~~ydf~~~~r~------s~e~lrtl~~I~e~far~l~~~ls~~lr~~v~v~~~sV~~~~y~efi~sl~~pt~lni 101 (332)
T COG1868 28 DERKVKPYDFKRPDRF------SKEQLRTLEIIHERFARLLTTSLSNLLRRSVDVEVGSVDQMTYEEFIRSLPNPTILNL 101 (332)
T ss_pred CCCCEEEECCCCCCCH------HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEEEEEHHHHHHHCCCCEEEEE
T ss_conf 2133343036773203------6888778999999999998999998738834899955777769999974898727988
Q ss_pred EECCCCCCEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCHHH
Q ss_conf 97367783399998878999999887278887666666565798999999999999999999985100273200000244
Q gi|254780687|r 86 ASLSSWSSNFFIGCSNNLVITLLENLLGASHETIPQLYNRSLSTVEKKLAKRTIAQISAVLNQCISTTQESSPNLEDFYD 165 (318)
Q Consensus 86 ~~~~pl~g~~ll~id~~l~~~lid~~lGG~g~~~~~~~~R~lT~iE~~l~~~i~~~~~~~l~~a~~~~~~~~~~~~~~~~ 165 (318)
++++||+|++++++|+.++|++||+||||.|....++++|+||.||+++++.++..++++|+++|+++.+++|.+.+.++
T Consensus 102 ~~~~p~~g~~~~~~d~~~vf~~vd~LfGG~G~~~~~~~~R~lT~iE~~v~~~il~~i~~~l~eaw~~v~~~ep~~~~~e~ 181 (332)
T COG1868 102 FSMKPLKGTALLEFDPSLVFIMVDRLFGGDGRFPAKPEGRELTDIEQRVITKLLERILEALKEAWNAVIELEPEIVRSET 181 (332)
T ss_pred EECCCCCCEEEEEECHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCC
T ss_conf 84166786289998867899999996099998888767898759999999999999999999875145503301344125
Q ss_pred HHCHHHHCCCCCCCEEEEEEEEEEECCEEEEEEEEEEHHHHHHHHHHHHHC-CCCCCCCCHHHHHHHHHHHHHCEEEEEE
Q ss_conf 311000012478718999998866678137999985047752567754320-2442237989999999997408007999
Q gi|254780687|r 166 IDYLKKNTNRLSNEFVTTINMNMTIENVASSFVLIIPQETLLKTTLISLSS-QNKSENQSEDLIDPFARKTYQLNVNIDT 244 (318)
Q Consensus 166 ~~~~~~~~~~~p~e~vi~i~~~v~~~~~~g~~~l~lP~~~l~~~~~~~~~~-~~~~~~~~~~~~~~l~~~l~~~~v~i~a 244 (318)
++++.+++.|+++++.++|++++|+.+|.+++|+||++++|++.++... +......++.|.+.|++++++++|++.|
T Consensus 182 --~p~~~~iv~pne~vv~i~~~i~ig~~~g~~niciP~~~le~i~~kl~~~~~~~~~~~~~~w~~~L~~~v~~v~V~l~A 259 (332)
T COG1868 182 --NPQFAQIVSPNEIVVLITLEVEIGNLSGMFNICIPYSMLEPIREKLSSRMQENTREKDPEWRKELRQQVQRVEVELEA 259 (332)
T ss_pred --CHHHHCCCCCCCEEEEEEEEEEECCCCEEEEEEEEHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCEEEEE
T ss_conf --766650468886299999999977860399999428888989998754432114445747899999997118668999
Q ss_pred EEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCHHHHHHHHHHC
Q ss_conf 9812343098994579997898257899738999999999999998788978999984258146788887514
Q gi|254780687|r 245 RINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFDQKSLKNFLHK 317 (318)
Q Consensus 245 ~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~~~~l~~~~~~ 317 (318)
.+|..+++++++++|++||||||++++++++.++|+|+++|.|++|++|+||||||++.++++++.+++++.+
T Consensus 260 ~l~~~~ltl~~il~L~vGDVI~l~~~~~d~v~v~v~g~~~f~c~~G~~g~~~aVkI~~~i~~~~~~~~~~~~~ 332 (332)
T COG1868 260 RLGEISLTLREILRLEVGDVIPLEKPADDRVTVSVGGKPKFLCQYGKSGGQYAVKILELINSEEESLDELLPK 332 (332)
T ss_pred EEECCEEEHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEECCCCCCEEEEEEEEECCCCHHHHHHHCCC
T ss_conf 9604354699985898886797788777607999999898998116518778999831047602343432059
No 4
>pfam02154 FliM Flagellar motor switch protein FliM.
Probab=100.00 E-value=1.5e-38 Score=271.82 Aligned_cols=183 Identities=11% Similarity=0.166 Sum_probs=175.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCEEEEHHHHHHCCCCCEEEEEEECCCCCCEEEEEECHHHHHHH
Q ss_conf 66799999999999999999999986298079986472566799897116886399999736778339999887899999
Q gi|254780687|r 28 KKTIEKISSSLGYLYKKFLPKIFKEKMDLDVDISYTSCQSGKFSHIIHSFKENFVFSQASLSSWSSNFFIGCSNNLVITL 107 (318)
Q Consensus 28 ~~~~~~~~~~~~e~~~r~l~~~l~~~~~~~v~v~~~~ve~~~~~e~i~~l~~p~~~~i~~~~pl~g~~ll~id~~l~~~l 107 (318)
++...++++.++|+|+|.++..|++++|..++|++.++++.+|+||++++|.|+++++++++||+|++++.+|++++|++
T Consensus 10 s~~~l~~Le~i~e~far~~~~~L~~~lr~~~~v~~~~i~~~~~~ef~~slp~ps~~~i~~~~pl~g~~l~~id~~l~~~~ 89 (192)
T pfam02154 10 SKEQLRTLEIIHERFARLMTTSLSNLLRSMVEVSVASVDQMTYGEFIRSIPVPTILNVFRMKPLKGTGLLEVDPSIAFII 89 (192)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEEEEEHHHHHHHCCCCEEEEEEEECCCCCEEEEEECHHHHHHH
T ss_conf 65363699999999999999999998589748998021898899998518987199999845767559999998999999
Q ss_pred HHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCHHHHHCHHHHCCCCCCCEEEEEEEE
Q ss_conf 98872788876666665657989999999999999999999851002732000002443110000124787189999988
Q gi|254780687|r 108 LENLLGASHETIPQLYNRSLSTVEKKLAKRTIAQISAVLNQCISTTQESSPNLEDFYDIDYLKKNTNRLSNEFVTTINMN 187 (318)
Q Consensus 108 id~~lGG~g~~~~~~~~R~lT~iE~~l~~~i~~~~~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~p~e~vi~i~~~ 187 (318)
||++|||.|.... .++|+||+||+++++++++.++++|++||+++.++++.+...++ ||++++++.|+|+|++++|+
T Consensus 90 vd~~lGG~g~~~~-~~~R~~T~iE~~i~~~i~~~~~~~l~~aw~~v~~~~~~~~~~Et--np~~~~i~~~~e~viv~~f~ 166 (192)
T pfam02154 90 VDRLFGGDGRFHA-KEGREFTDIERRVIQRMLKRVLENYKEAWSPVVDLEPEYDRSEV--NPQFAQIVSPNEIVVLVSLE 166 (192)
T ss_pred HHHHCCCCCCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEC--CCHHHCCCCCCCEEEEEEEE
T ss_conf 9997299887778-77887878999999999999999999984210310379998646--81122227998769999999
Q ss_pred EEECCEEEEEEEEEEHHHHHHHHHHH
Q ss_conf 66678137999985047752567754
Q gi|254780687|r 188 MTIENVASSFVLIIPQETLLKTTLIS 213 (318)
Q Consensus 188 v~~~~~~g~~~l~lP~~~l~~~~~~~ 213 (318)
+++|+.+|.+++|+||++++|+++++
T Consensus 167 v~i~~~~g~~~i~iP~~~Lepi~~~L 192 (192)
T pfam02154 167 IEIGERGGMMNLCLPYITIEPIRSKL 192 (192)
T ss_pred EEECCCCEEEEEEEEHHHHHHHHHHC
T ss_conf 99889624999996088788788539
No 5
>PRK08119 flagellar motor switch protein; Validated
Probab=100.00 E-value=3.1e-36 Score=256.76 Aligned_cols=279 Identities=14% Similarity=0.177 Sum_probs=225.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCEEEEHHHHHHCCCCCE-EEEEEECCCCCCEEEEEECHHHHHHHHH
Q ss_conf 999999999999999999999862980799864725667998971168863-9999973677833999988789999998
Q gi|254780687|r 31 IEKISSSLGYLYKKFLPKIFKEKMDLDVDISYTSCQSGKFSHIIHSFKENF-VFSQASLSSWSSNFFIGCSNNLVITLLE 109 (318)
Q Consensus 31 ~~~~~~~~~e~~~r~l~~~l~~~~~~~v~v~~~~ve~~~~~e~i~~l~~p~-~~~i~~~~pl~g~~ll~id~~l~~~lid 109 (318)
-..++.+++.-.....+++|++.++..|+|+...+++.++.||.+++|.|. ++.+...+++.|+.+|+|....++.++|
T Consensus 41 EkD~lGEIgNIsmGsAaTtLStLL~~kV~ITtP~Vsv~~~~el~~~~~~P~V~v~V~yteGl~G~NlLVi~~~dA~iIaD 120 (390)
T PRK08119 41 EKDALGEIGNISMGSAATALSTLLNQKVNITTPVVSVTTLEELKKEFPIPYVAVEVKYTEGLSGENLLVIKQDDAAVIAD 120 (390)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCEEEEEEHHHHHHHCCCCEEEEEEEEECCCCCEEEEEECHHHHHHHHH
T ss_conf 99999988752031688899999789368778838997599998655787399999874164762799987636999999
Q ss_pred HHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCC----CCCEECCCHHHHHCHHHHCCCCCCCEEEEEE
Q ss_conf 872788876666665657989999999999999999999851002----7320000024431100001247871899999
Q gi|254780687|r 110 NLLGASHETIPQLYNRSLSTVEKKLAKRTIAQISAVLNQCISTTQ----ESSPNLEDFYDIDYLKKNTNRLSNEFVTTIN 185 (318)
Q Consensus 110 ~~lGG~g~~~~~~~~R~lT~iE~~l~~~i~~~~~~~l~~a~~~~~----~~~~~~~~~~~~~~~~~~~~~~p~e~vi~i~ 185 (318)
+|+||+|... +.+|+++|+..++..++++.++-..+|+... .+.|.........+........+++.++.++
T Consensus 121 LMMGGdG~~~----~~EL~EielSAv~EaMNQMmGsAATSMStmf~r~VdISPP~~~~~~~~~~~~~~~i~~~~~vV~Vs 196 (390)
T PRK08119 121 LMMGGDGTVE----DPELSEIHLSAVQEAMNQMIGSAATSMSTMFNRKVDISPPTSKILDDKEDPLTEPIPDDEDIVKVS 196 (390)
T ss_pred HHCCCCCCCC----CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCCCCCCCCEEEEE
T ss_conf 8659999998----754219999999999999888899999998678744488720463057653212589998489999
Q ss_pred EEEEECCE-EEEEEEEEEHHHHHHHHHHHHH-------------------------------------------------
Q ss_conf 88666781-3799998504775256775432-------------------------------------------------
Q gi|254780687|r 186 MNMTIENV-ASSFVLIIPQETLLKTTLISLS------------------------------------------------- 215 (318)
Q Consensus 186 ~~v~~~~~-~g~~~l~lP~~~l~~~~~~~~~------------------------------------------------- 215 (318)
|++++++. ...+..++|..+...+...+..
T Consensus 197 F~l~Ig~lidS~imQi~p~~~Ak~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 276 (390)
T PRK08119 197 FRLKIGELIDSNIMQLLPIDFAKEIVAILLGEESEEEESVEEEEASPEPEEEKATPIPVEAPKQEQQAPQPAQPPAQKRQ 276 (390)
T ss_pred EEEEECCCCCCCCEEECCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 98787550375122541689999999998467533343321234555555566665556664344322344565544567
Q ss_pred ---------------CCCCCCCCCHHHHHHHHHHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEEC
Q ss_conf ---------------02442237989999999997408007999981234309899457999789825789973899999
Q gi|254780687|r 216 ---------------SQNKSENQSEDLIDPFARKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSAN 280 (318)
Q Consensus 216 ---------------~~~~~~~~~~~~~~~l~~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~ 280 (318)
++.........|..+--+.|+++|++++++|||++++++|+++|.+|+||.||+.+++||+++||
T Consensus 277 ~~~~~~~~v~v~~a~F~~~~~~~~~~~~~~~~~~~~dvpl~~~v~lg~t~~~i~~~l~l~~g~vi~l~~~~~ep~~i~vn 356 (390)
T PRK08119 277 PPAREQQPVNVQPAQFQPFDEPSLASTEPRNLDLILDVPLQITVELGRTKKSIKDILELGPGSIIELDKLAGEPVDILVN 356 (390)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCEEEEEEEECCEEEHHHHHCCCCCCEEECCCCCCCCEEEEEC
T ss_conf 76544677554664445655554344551224553137528999980315679997367999779824447997699999
Q ss_pred CEEEEEEEEEEECCEEEEEEEECCCCHHHHHHHH
Q ss_conf 9999999998788978999984258146788887
Q gi|254780687|r 281 GKEIYSCELGRVGKNYTIRITDRINFDQKSLKNF 314 (318)
Q Consensus 281 g~~~f~g~~G~~~~~~AVrI~~~i~~~~~~l~~~ 314 (318)
|+.+++|+++++++||+||||+++++.+++ ++|
T Consensus 357 g~~ia~gevv~~~~~fgvrit~iv~~~~r~-~~l 389 (390)
T PRK08119 357 GKLVAKGEVVVIDENFGVRITDIVSPAERI-KNL 389 (390)
T ss_pred CEEEEEEEEEEECCCCEEEEEEECCHHHHH-HHC
T ss_conf 999997659998884037898626989998-643
No 6
>TIGR01397 fliM_switch flagellar motor switch protein FliM; InterPro: IPR001689 The flagellar motor switch in Escherichia coli and Salmonella typhimurium regulates the direction of flagellar rotation and hence controls swimming behaviour . The switch is a complex apparatus that responds to signals transduced by the chemotaxis sensory signalling system during chemotactic behaviour . CheY, the chemotaxis response regulator, is believed to act directly on the switch to induce tumbles in the swimming pattern, but no physical interactions of CheY and switch proteins have yet been demonstrated. The switch complex comprises at least three proteins - FliG, FliM and FliN. It has been shown that FliG interacts with FliM, FliM interacts with itself, and FliM interacts with FliN . Several residues within the middle third of FliG appear to be strongly involved in the FliG-FliM interaction, with residues near the N or C termini being less important . Such clustering suggests that FliG-FliM interaction plays a central role in switching. Analysis of the FliG, FliM and FliN sequences shows that none are especially hydrophobic or appear to be integral membrane proteins . This result is consistent with other evidence suggesting that the proteins may be peripheral to the membrane, possibly mounted on the basal body M ring , .; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009425 flagellin-based flagellum basal body.
Probab=100.00 E-value=2e-37 Score=264.58 Aligned_cols=292 Identities=16% Similarity=0.238 Sum_probs=274.8
Q ss_pred CCCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCEEEEHHHHHHCCCCCEEEE
Q ss_conf 45558784577888885301223667999999999999999999999862980799864725667998971168863999
Q gi|254780687|r 5 SIHKNTSPLHPILLARLTGKLGDKKTIEKISSSLGYLYKKFLPKIFKEKMDLDVDISYTSCQSGKFSHIIHSFKENFVFS 84 (318)
Q Consensus 5 ~~~~~~~p~d~~~~~r~~g~~~~~~~~~~~~~~~~e~~~r~l~~~l~~~~~~~v~v~~~~ve~~~~~e~i~~l~~p~~~~ 84 (318)
..++++.|+|.....++ .+...+.++.++++|++.++..+...++..++++...+++.+|++|+++++.|+.++
T Consensus 31 ~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~ 104 (328)
T TIGR01397 31 EDEKKVKPYDFKRPDRV------SKERLPTLELINERFARLLSTSLSNLLRSFVEVSLASVDQLTYGEFLRSLPVPTSLN 104 (328)
T ss_pred CCCCCCEEECCCCHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEECCCCCHHHHHHHHHHCCCCCEEE
T ss_conf 45343101014421233------444445678888888888887777654200000004310101556764103201123
Q ss_pred EEECCCCCCEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCHH
Q ss_conf 99736778339999887899999988727888766666656579899999999999999999998510027320000024
Q gi|254780687|r 85 QASLSSWSSNFFIGCSNNLVITLLENLLGASHETIPQLYNRSLSTVEKKLAKRTIAQISAVLNQCISTTQESSPNLEDFY 164 (318)
Q Consensus 85 i~~~~pl~g~~ll~id~~l~~~lid~~lGG~g~~~~~~~~R~lT~iE~~l~~~i~~~~~~~l~~a~~~~~~~~~~~~~~~ 164 (318)
++..+|++|.+++.+++.++|.++|.+|||.|........|+||++|.++++.+++.++..+..+|++..++.+.+...+
T Consensus 105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~gg~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~ 184 (328)
T TIGR01397 105 VFRLEPLRGTGLLEIDPSLVFLLLDRLFGGPGRSPPKIEGREFTEIERRLLERLLDRVLEDLKEAWSPLVPLEPELDRLE 184 (328)
T ss_pred EEECCCCCCCEEEEECCCHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 33101135605788634034455665406777653223576640578999999999999888876422321010001000
Q ss_pred HHHCHHHHCCCCCCCEEEEEEEEEEECCEE-EEEEEEEEHHHHHHHHHHHHH---CCCCCCCCCHHHHHHHHHHHHHCEE
Q ss_conf 431100001247871899999886667813-799998504775256775432---0244223798999999999740800
Q gi|254780687|r 165 DIDYLKKNTNRLSNEFVTTINMNMTIENVA-SSFVLIIPQETLLKTTLISLS---SQNKSENQSEDLIDPFARKTYQLNV 240 (318)
Q Consensus 165 ~~~~~~~~~~~~p~e~vi~i~~~v~~~~~~-g~~~l~lP~~~l~~~~~~~~~---~~~~~~~~~~~~~~~l~~~l~~~~v 240 (318)
. ++++.+.+.|++.++.+++.+.+++.. |.+++|+|+.+++|++..+.. ........+..|...+...+..+++
T Consensus 185 ~--~~~~~~~~~~~~~~~~~~~~~~~~~~~pg~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 262 (328)
T TIGR01397 185 T--NPQFAQIVPPNEIVVLVTLSVEVGETEPGSINICLPYSTLEPLLEKLSSGFWLLSEKVEKDSGWLDALKRELSTVPL 262 (328)
T ss_pred C--CCHHEEECCCCCEEEEEEEEEEECCCCCCEEEEEHHHHHHHHHHHHHHCCHHHHHHHCCHHHHHHHHHHHHHHHCCE
T ss_conf 1--42000210555447998877761677875043202367788889874010122100000124688999987751540
Q ss_pred EEEEEEEEEEECHHHHHCCCCCCEEECC-CCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECC
Q ss_conf 7999981234309899457999789825-789973899999999999999878897899998425
Q gi|254780687|r 241 NIDTRINLKKTTLKDVVTLKIGQVIPFL-HREKTCAILSANGKEIYSCELGRVGKNYTIRITDRI 304 (318)
Q Consensus 241 ~i~a~Lg~~~l~l~dil~L~vGDVI~L~-~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i 304 (318)
++.+.+|..++++++++++++||+++++ ....+++.+.++|.++|.|++|..++++|+++++.+
T Consensus 263 ~~~~~~~~~~~~~~~~~~~~~gd~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 327 (328)
T TIGR01397 263 DLVAVLGEVELSLRELLNLQPGDVLPLGNTDLPDELSLRVGGLPKFLAQPGVKGGKLAVRITEEI 327 (328)
T ss_pred EEEEECCCCCCCHHHHHCCCCCCEEEECCCCCCCCEEEEECCCCEEEECCCCCCCCEEEEEECCC
T ss_conf 14442022100057764157775354166666641267654530000004544660246530013
No 7
>PRK06782 flagellar motor switch protein; Reviewed
Probab=99.97 E-value=1.3e-28 Score=206.73 Aligned_cols=270 Identities=11% Similarity=0.131 Sum_probs=205.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCEEEEHHHHHHCCCCCEEE-EEEECCCCCCEEEEEECHHHHHHHHH
Q ss_conf 99999999999999999999986298079986472566799897116886399-99973677833999988789999998
Q gi|254780687|r 31 IEKISSSLGYLYKKFLPKIFKEKMDLDVDISYTSCQSGKFSHIIHSFKENFVF-SQASLSSWSSNFFIGCSNNLVITLLE 109 (318)
Q Consensus 31 ~~~~~~~~~e~~~r~l~~~l~~~~~~~v~v~~~~ve~~~~~e~i~~l~~p~~~-~i~~~~pl~g~~ll~id~~l~~~lid 109 (318)
-.+.+.+++.-.....+++||..++..|+|+...++..+..+| +.+|-|.+. .+-..+++.|..++++....+..+.|
T Consensus 246 EkDalGEIgNISmGSAATaLStLLnqkV~ITTP~Vsv~~~~e~-~~~~~P~V~v~V~YteGl~G~NlLVik~~DAaiIAD 324 (547)
T PRK06782 246 EKDVLGEIANISIGSASTVLSTLLNQPVSISTPNVEAINVRHY-DGVPVPFVILNVDFVEGLKNENVFVFTKDVALTMVD 324 (547)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHCCCEEEECCCEEEEEHHHC-CCCCCCEEEEEEEEECCCCCEEEEEEECCHHHHHHH
T ss_conf 8887642310023348999999968861654682799666770-357887299999885053542589996025999999
Q ss_pred HHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH----HHHHHHHHCCCCCEECCCH-HHHHCHHHHCCCCCCCEEEEE
Q ss_conf 87278887666666565798999999999999999----9999851002732000002-443110000124787189999
Q gi|254780687|r 110 NLLGASHETIPQLYNRSLSTVEKKLAKRTIAQISA----VLNQCISTTQESSPNLEDF-YDIDYLKKNTNRLSNEFVTTI 184 (318)
Q Consensus 110 ~~lGG~g~~~~~~~~R~lT~iE~~l~~~i~~~~~~----~l~~a~~~~~~~~~~~~~~-~~~~~~~~~~~~~p~e~vi~i 184 (318)
.|+||+|...+. -+||++|+.-+...++++.+ +|.+.|+....+.|..... ...++........+.+.++.+
T Consensus 325 LMMGGdG~v~~~---~EL~EieLSAV~EAMNQMMGSAATSMStmf~kkVDISPP~v~l~~~~d~~~~~~~~~~~d~iVkV 401 (547)
T PRK06782 325 LMMMGTGEVDEE---KELTELELSGIKEIMNQMMGHAATAMSEMFQEKMDMTPPTVKFVTLKEEMEYLGESMEVDELVQI 401 (547)
T ss_pred HHCCCCCCCCCC---CCCCCEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCEEEE
T ss_conf 862799988986---54212025889999999887888899999678753589942777337666556667888868999
Q ss_pred EEEEEECCE-EEEEEEEEEHHHHHHHHHHHHHC----------------CCCCCCCCHHHH---------HHHHHHHHHC
Q ss_conf 988666781-37999985047752567754320----------------244223798999---------9999997408
Q gi|254780687|r 185 NMNMTIENV-ASSFVLIIPQETLLKTTLISLSS----------------QNKSENQSEDLI---------DPFARKTYQL 238 (318)
Q Consensus 185 ~~~v~~~~~-~g~~~l~lP~~~l~~~~~~~~~~----------------~~~~~~~~~~~~---------~~l~~~l~~~ 238 (318)
+|.+++|+. ...+..++|..+....-..+... ........+.+. ..-.+.|+++
T Consensus 402 sF~LeIgdLIdS~IMQi~Pi~fAKemv~~ll~~~~~~e~~~~~~~~~~~~~~~p~vqP~~~~~~~~~~~~~~n~~lLlDV 481 (547)
T PRK06782 402 TFNLEIGDLLQSKMYQILPISEAKEMVRRLLYPMVKEEEEIVTEEIEEEKVVEPVVQPIEFKEVKQMEPVYMDTSILQNV 481 (547)
T ss_pred EEEEEECCCCCCCEEEECCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCC
T ss_conf 99978788337634675488999999999856764333456544457888999877876556666567666444651426
Q ss_pred EEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECC
Q ss_conf 007999981234309899457999789825789973899999999999999878897899998425
Q gi|254780687|r 239 NVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRI 304 (318)
Q Consensus 239 ~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i 304 (318)
|+.++++|||++.+++|++.|.+|++|+||+.+++||+++|||+.+++|++.++++||+||||+.+
T Consensus 482 PL~VtVeLGRTKksIKdILel~~GSIIELDKLAgEPVDILVNGklIAkGEVVVIDENFGVRITE~~ 547 (547)
T PRK06782 482 EMNVKFVFGSTVKTIQDILSLQENEAVVLDEDIDEPIRIYVNDVLVAYGELVNVDGFFGVKVTKSL 547 (547)
T ss_pred CEEEEEEECCCCCCHHHHHCCCCCCEEEECCCCCCCEEEEECCEEEEEEEEEEECCCCCEEEEECC
T ss_conf 607999964765509997267999779850016997289998889987759998788646776139
No 8
>PRK08432 flagellar motor switch protein FliY; Validated
Probab=99.95 E-value=5.4e-25 Score=183.08 Aligned_cols=263 Identities=17% Similarity=0.163 Sum_probs=185.3
Q ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECCCEEEEHHHHHHCCCCCEEEEEEECC-CCCCEEEEEECHHHHHHHHHHHHCCCC
Q ss_conf 9999999999999986298079986472566799897116886399999736-778339999887899999988727888
Q gi|254780687|r 38 LGYLYKKFLPKIFKEKMDLDVDISYTSCQSGKFSHIIHSFKENFVFSQASLS-SWSSNFFIGCSNNLVITLLENLLGASH 116 (318)
Q Consensus 38 ~~e~~~r~l~~~l~~~~~~~v~v~~~~ve~~~~~e~i~~l~~p~~~~i~~~~-pl~g~~ll~id~~l~~~lid~~lGG~g 116 (318)
+...|..-+..++.+.++...+|+...-...+- -+.++.|.+.+.++.. ...|.+++.+.+.++.++.|.|+||.|
T Consensus 4 F~~l~~~E~~~TiEgL~Gktp~v~~~~e~~~~~---~~~i~~p~v~~~i~~~~~~~g~~~~~~~~~latalaDlMMGGeG 80 (281)
T PRK08432 4 FIKIFTNEVVSTIEGLTGKTPSVGEEKEFDVST---ENLIKAPYVRAIISASGDGNGKIELLAPVVLVTALSDLMLGEEG 80 (281)
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCEECCCCCCC---CCCCCCCEEEEEEEECCCCCCEEEEEECHHHHHHHHHHHCCCCC
T ss_conf 899999999998888618897432010125432---23578977999999668887159999278999999998548899
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCC---CCEECCCHHHHHCHHHHCCCCCCCEEEEEEEEEEECCE
Q ss_conf 766666656579899999999999999999998510027---32000002443110000124787189999988666781
Q gi|254780687|r 117 ETIPQLYNRSLSTVEKKLAKRTIAQISAVLNQCISTTQE---SSPNLEDFYDIDYLKKNTNRLSNEFVTTINMNMTIENV 193 (318)
Q Consensus 117 ~~~~~~~~R~lT~iE~~l~~~i~~~~~~~l~~a~~~~~~---~~~~~~~~~~~~~~~~~~~~~p~e~vi~i~~~v~~~~~ 193 (318)
.... ++.+.++.-.+.++.+++.++..+.+.-.. +.+..+..+.. .. ........-.+.|++.+++.
T Consensus 81 ~~k~-----el~ed~LdA~kE~~sni~Gs~sTSL~aq~~~pK~~fs~~~~~~v---~~--~~d~~~~~~~~~f~~~i~~i 150 (281)
T PRK08432 81 ISKE-----EMGNDDLDAAKEIASNIFGAISTSLGAQKLLPKLNFTIENAEFV---DE--NVDFEDYEKLFLFSFKIEDI 150 (281)
T ss_pred CCCC-----CCCHHHHHHHHHHHHHHHHHHHHCHHHHCCCCCEEEECCCCEEE---CC--CCCCCCCCCEEEEEEEECCC
T ss_conf 9944-----26712447899999998888562567652798336744740563---25--54300355169999993650
Q ss_pred EEEEEEEEEHHHHHHHHHH-HHHCCCCCC----------CCCHHHHHHHHHHHHHCEEEEEEEEEEEEECHHHHHCCCCC
Q ss_conf 3799998504775256775-432024422----------37989999999997408007999981234309899457999
Q gi|254780687|r 194 ASSFVLIIPQETLLKTTLI-SLSSQNKSE----------NQSEDLIDPFARKTYQLNVNIDTRINLKKTTLKDVVTLKIG 262 (318)
Q Consensus 194 ~g~~~l~lP~~~l~~~~~~-~~~~~~~~~----------~~~~~~~~~l~~~l~~~~v~i~a~Lg~~~l~l~dil~L~vG 262 (318)
...+.++++.... +.... ......... .......++ -+.|++++++++++||+++|+++|+++|.+|
T Consensus 151 ~s~i~~~~~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~n-~~ll~Dv~l~v~VelGrt~m~ikdiL~l~~G 228 (281)
T PRK08432 151 NSQIILLMDQTFE-NIFEKKHKEEGEESTDSAANEEHDASLSSEEIKN-INLIMDVRLPVKVRIGQKKMLLKDVLSMDIG 228 (281)
T ss_pred HHEEEEEEHHHHH-HHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCC-CCEEEECCEEEEEEECCCEEEHHHHHCCCCC
T ss_conf 3303111058898-6516566564456876655554555557610146-1058945438999977630479998527999
Q ss_pred CEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCHHHHHHHHHH
Q ss_conf 789825789973899999999999999878897899998425814678888751
Q gi|254780687|r 263 QVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFDQKSLKNFLH 316 (318)
Q Consensus 263 DVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~~~~l~~~~~ 316 (318)
+||+|++.+++|++++|||+.+++|++.++++||+|||++++++.|+ ++++++
T Consensus 229 svveLdk~a~ep~di~vn~~liA~GEvVvv~~~fGvrit~I~s~~eR-l~~lr~ 281 (281)
T PRK08432 229 SVVELNQLANDPLEILVDDKVIAKGEVVIVDGNFGIQITDIGTKKER-LEQLKH 281 (281)
T ss_pred CEEEECCCCCCCEEEEECCEEEEEEEEEEECCCCEEEEEEECCHHHH-HHHHCC
T ss_conf 67985223799648999999998762999878402899983698999-887419
No 9
>PRK08983 fliN flagellar motor switch protein; Validated
Probab=99.74 E-value=5.3e-17 Score=130.71 Aligned_cols=82 Identities=20% Similarity=0.274 Sum_probs=76.0
Q ss_pred HHHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCHHHHH
Q ss_conf 99974080079999812343098994579997898257899738999999999999998788978999984258146788
Q gi|254780687|r 232 ARKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFDQKSL 311 (318)
Q Consensus 232 ~~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~~~~l 311 (318)
-+.++++||+++++||+++|+++++++|++|+||+|++.+++|++++|||+.+++|++.+++++|+|||++++++++++
T Consensus 44 ld~llDIpv~vsVelGrt~m~i~elL~L~~GsVIeLdr~~gepvdI~VNg~liA~GEvVvv~d~fGVRIteIvs~~eR~- 122 (126)
T PRK08983 44 LDTILDIPVTISMEVGRSFISIRNLLQLNQGSVVELDRVAGEPLDVMVNGTLIAHGEVVVVNDKFGIRLTDVISQTERI- 122 (126)
T ss_pred CCEEECCCEEEEEEEECEEEEHHHHHCCCCCCEEEECCCCCCCEEEEECCEEEEEEEEEEECCEEEEEEEEECCHHHHH-
T ss_conf 2158705279999991217589998536999899938758995899999999999889999998899999845989988-
Q ss_pred HHH
Q ss_conf 887
Q gi|254780687|r 312 KNF 314 (318)
Q Consensus 312 ~~~ 314 (318)
++|
T Consensus 123 ~~l 125 (126)
T PRK08983 123 KKL 125 (126)
T ss_pred HHC
T ss_conf 643
No 10
>PRK07963 fliN flagellar motor switch protein FliN; Validated
Probab=99.73 E-value=5.7e-17 Score=130.49 Aligned_cols=79 Identities=22% Similarity=0.262 Sum_probs=75.3
Q ss_pred HHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCHHHHH
Q ss_conf 9974080079999812343098994579997898257899738999999999999998788978999984258146788
Q gi|254780687|r 233 RKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFDQKSL 311 (318)
Q Consensus 233 ~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~~~~l 311 (318)
+.++++||.++++||+++|+++++|+|++|+||.|++.+++|++++|||+.+++|++.+++++|+|||++++++.+++=
T Consensus 55 dlilDIpV~itVeLGrt~m~i~eLL~L~~GsVIeLdr~agepvdI~VNg~liA~GEVVvv~dk~GVRIteIisp~eRi~ 133 (137)
T PRK07963 55 DLIMDIPVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKYGVRITDIITPSERMR 133 (137)
T ss_pred CEEECCEEEEEEEEECCEEEHHHHHCCCCCCEEEECCCCCCCEEEEECCEEEEEEEEEEECCEEEEEEEEECCHHHHHH
T ss_conf 2686141799999903320899984569998898477599956999999999998799999878899998559899998
No 11
>TIGR02480 fliN flagellar motor switch protein FliN; InterPro: IPR012826 Proteins that consist largely of this domain can be designated flagellar motor switch proteins: FliN. Longer proteins in which this region is a C-terminal domain typically are designated FliY. More distantly related sequences, outside of this family, are associated with type III secretion systems (TTSS) and include the surface presentation of antigens protein SpaO required or invasion of host cells by Salmonella enterica.; GO: 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0016020 membrane, 0044461 flagellin-based flagellum part.
Probab=99.70 E-value=9.5e-17 Score=129.04 Aligned_cols=74 Identities=24% Similarity=0.300 Sum_probs=71.0
Q ss_pred HHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCC
Q ss_conf 99740800799998123430989945799978982578997389999999999999987889789999842581
Q gi|254780687|r 233 RKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINF 306 (318)
Q Consensus 233 ~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~ 306 (318)
+.++++||+++++||+++|+++|+++|..|+||.||+.+++|+++||||+++++|++-+.++||+|||+|++++
T Consensus 3 ~~~~Dipv~l~velG~~~i~l~dll~l~~GsVieLDk~agepldI~VNG~~ia~GEvvV~~dk~Giri~ei~~~ 76 (77)
T TIGR02480 3 DLILDIPVELTVELGRTRITLKDLLKLGEGSVIELDKLAGEPLDILVNGRLIARGEVVVVEDKFGIRITEIVDS 76 (77)
T ss_pred CCEEECCEEEEEEEEEEEECHHHHHCCCCCCEEEECCCCCCEEEEEECCCEEEEEEEEEECCCEEEEEEEEECC
T ss_conf 84110105888888656603688843899849996477889215988892788898998679600898985417
No 12
>pfam01052 SpoA Surface presentation of antigens (SPOA). This family includes the C-terminal region of flagellar motor switch proteins FliN and FliM. It is associated with family FliM, pfam02154.
Probab=99.70 E-value=2.1e-16 Score=126.85 Aligned_cols=75 Identities=28% Similarity=0.484 Sum_probs=72.1
Q ss_pred HHHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCC
Q ss_conf 999740800799998123430989945799978982578997389999999999999987889789999842581
Q gi|254780687|r 232 ARKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINF 306 (318)
Q Consensus 232 ~~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~ 306 (318)
++.+.++|++++++||+.+++++|+++|++||+|||+++.+++++++|||+++|+|++|+.|++|||||++.+.+
T Consensus 2 ~~~l~~~~v~l~~~l~~~~l~l~~l~~L~~Gdvl~l~~~~~~~v~l~v~~~~~~~g~~g~~~~~~av~I~~~~~~ 76 (77)
T pfam01052 2 AEELSDVPVELEAVLGRTELTLGELLNLKVGDVIPLDKPAEDPVELYVNGRPIFRGELGVIGGKLAVRITELLEP 76 (77)
T ss_pred HHHHCCCCEEEEEEEEEEEEEHHHHHCCCCCCEEEECCCCCCCEEEEECCEEEEEEEEEEECCEEEEEEEEEECC
T ss_conf 527617838999999510878999845899999994898999779999999999999999999999999984089
No 13
>PRK05698 fliN flagellar motor switch protein; Validated
Probab=99.69 E-value=2e-16 Score=126.87 Aligned_cols=79 Identities=20% Similarity=0.265 Sum_probs=75.1
Q ss_pred HHHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCHHHH
Q ss_conf 9997408007999981234309899457999789825789973899999999999999878897899998425814678
Q gi|254780687|r 232 ARKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFDQKS 310 (318)
Q Consensus 232 ~~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~~~~ 310 (318)
-+.|+++||+++++||+++|+++++++|..|+||.|++.+++|++|+|||+.+++|++.+++++|+|||++++++.+++
T Consensus 73 ld~ilDIPV~isVElGrt~m~I~elL~L~~GSVIeLdr~agEPvdI~VNg~liA~GEVVVv~d~fGVRIteIisp~eRi 151 (155)
T PRK05698 73 LDVILDIPVSISMEVGSTDINIRNLLQLNQGSVIELDRLAGEPLDVLVNGTLIAHGEVVVVNEKFGIRLTDVISPSERI 151 (155)
T ss_pred CCEEEECEEEEEEEEECCEEEHHHHHCCCCCCEEEECCCCCCCEEEEECCEEEEEEEEEEECCEEEEEEEEECCHHHHH
T ss_conf 3279833069999994332279998545999789815669995489999999998869999997789999845989988
No 14
>PRK08433 flagellar motor switch protein; Validated
Probab=99.68 E-value=4.4e-16 Score=124.68 Aligned_cols=76 Identities=18% Similarity=0.293 Sum_probs=73.2
Q ss_pred HHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCHH
Q ss_conf 9974080079999812343098994579997898257899738999999999999998788978999984258146
Q gi|254780687|r 233 RKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFDQ 308 (318)
Q Consensus 233 ~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~~ 308 (318)
+.|.++|+.++|+||+++|+++|+++|++|+||.|++.+++|++++|||+.+++|++.+.++||||||++++++..
T Consensus 27 e~llDi~v~v~vELGrt~m~i~elL~L~~GSVIeLdk~aGEPvDI~VNgrlIArGEVVVv~e~fGVRITeIi~s~~ 102 (111)
T PRK08433 27 KNLLDMEVDFSAELGTTQISLLEILKFEKGSVIDLEKPAGESVETYINGRIIGKGEVMVYEKNLAIRINEILDSNA 102 (111)
T ss_pred HHHCCCEEEEEEEEECCEEEHHHHHCCCCCCEEEECCCCCCCEEEEECCEEEEEECEEEECCEEEEEEEEEECCCC
T ss_conf 8625433899999703056899984579998899545589967999989999964789999857899999836720
No 15
>PRK08916 flagellar motor switch protein; Reviewed
Probab=99.66 E-value=1.3e-15 Score=121.60 Aligned_cols=76 Identities=13% Similarity=0.210 Sum_probs=73.2
Q ss_pred HHHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCH
Q ss_conf 9997408007999981234309899457999789825789973899999999999999878897899998425814
Q gi|254780687|r 232 ARKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFD 307 (318)
Q Consensus 232 ~~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~ 307 (318)
-+.|+++||+++++||+++|+++++++|++|+||+|++.+++|++++|||+.+++|++.+++++|+|||+++++++
T Consensus 37 l~~l~DIpV~vtVeLGrt~m~i~elL~L~~GsVIeLdr~~gepvdI~VNg~liArGEvVvv~d~~GVRIteIv~~e 112 (114)
T PRK08916 37 LEAVFDVPVQVSAVLGRSKMDVGQLLKLGPGAVLELDRKVGEAIDIYVNNRLVARGEVVLVEDKLGVTMTEIIKAE 112 (114)
T ss_pred HHHHCCCCEEEEEEEEEEEEEHHHHHCCCCCCEEEECCCCCCCEEEEECCEEEEEEEEEEECCEEEEEEEEEECCC
T ss_conf 4661467379999993126489998456999889835768995899999999998869999997889999841544
No 16
>PRK06033 hypothetical protein; Validated
Probab=99.63 E-value=2.1e-15 Score=120.26 Aligned_cols=82 Identities=15% Similarity=0.166 Sum_probs=75.8
Q ss_pred HHHHHHHHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCC
Q ss_conf 99999999740800799998123430989945799978982578997389999999999999987889789999842581
Q gi|254780687|r 227 LIDPFARKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINF 306 (318)
Q Consensus 227 ~~~~l~~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~ 306 (318)
|...-.+.+.+++++++++||+++|+++++++|..|.||+||+.+++|++++|||+++++|++-..+++|+||||+++..
T Consensus 3 ~g~~~l~~l~~V~v~vsV~LGrt~m~i~~lL~L~~GsVIeLD~~~gepvdi~vN~~liArGEVvV~~d~~gVriTeIv~~ 82 (87)
T PRK06033 3 VGSPFVSTLDKVSVDLMVVLGTTSMPIHQVLRLSRGAIIELDATEADEVKILANNHPIASGVVLVDRNRIAVEVKRMLPR 82 (87)
T ss_pred CCCHHHHHHHCCCEEEEEEECCCEEEHHHHHCCCCCCEEECCCCCCCCEEEEECCEEEEEEEEEEECCEEEEEEEEEECC
T ss_conf 77213567617617999998555119999735589868986567899489999999998885999898889999993045
Q ss_pred HH
Q ss_conf 46
Q gi|254780687|r 307 DQ 308 (318)
Q Consensus 307 ~~ 308 (318)
..
T Consensus 83 s~ 84 (87)
T PRK06033 83 SP 84 (87)
T ss_pred CC
T ss_conf 76
No 17
>PRK06788 flagellar motor switch protein; Validated
Probab=99.59 E-value=1e-14 Score=115.77 Aligned_cols=76 Identities=14% Similarity=0.149 Sum_probs=71.8
Q ss_pred HHHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCH
Q ss_conf 9997408007999981234309899457999789825789973899999999999999878897899998425814
Q gi|254780687|r 232 ARKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFD 307 (318)
Q Consensus 232 ~~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~ 307 (318)
-+.+++++++++++||+++|+++|+++|.+|+||+|++.+++|++++|||+.+++|++.+++++|+||||++-...
T Consensus 28 ldll~DV~v~vsVELGrt~m~ikdlL~L~~GsVVELdk~AGepvDi~VNgkliArGEVVVvde~fGVRITeI~~~k 103 (119)
T PRK06788 28 IDTVSDISIELGVKLGKASITLGDVKQLKVGDVLEVEKNLGHKVDVYLSNMKVGIGEAIVMDEKFGIIISEIEADK 103 (119)
T ss_pred CCEEEECEEEEEEEECCEEEEHHHHHCCCCCCEEEECCCCCCCEEEEECCEEEEEEEEEEECCCCEEEEEEECCHH
T ss_conf 5569712069999975425689997457998689984348996799999999987759998586068999844456
No 18
>COG1886 FliN Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=99.50 E-value=2.8e-13 Score=106.35 Aligned_cols=73 Identities=21% Similarity=0.238 Sum_probs=69.8
Q ss_pred HHHHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEEC
Q ss_conf 9999740800799998123430989945799978982578997389999999999999987889789999842
Q gi|254780687|r 231 FARKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDR 303 (318)
Q Consensus 231 l~~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~ 303 (318)
-...++++|+++.++|||++|+++++++|+.|+||+|++.+++||+++|||+.+.+|++.+.+++|+|||+++
T Consensus 64 ~~~~l~dipv~v~velGr~~~~l~eLl~l~~Gsvi~Ld~~~~e~VdI~vNg~~Ig~GEvVvvdd~~GVrItei 136 (136)
T COG1886 64 SIDLLLDIPVRLSVELGRTKMPLGELLALGKGSVIELDKLAGEPVDILVNGRLIGRGEVVVVDDKFGVRITEI 136 (136)
T ss_pred CCHHHCCCCEEEEEEEEEEEEEHHHHHHCCCCCEEECCCCCCCCEEEEECCEEEEEEEEEEECCEEEEEEEEC
T ss_conf 4100215856999999313124999971189988976776899669999998997776999988678999859
No 19
>TIGR02551 SpaO_YscQ type III secretion apparatus protein, YscQ/HrcQ family; InterPro: IPR013385 Proteins in this entry are encoded within type III secretion operons and are involved in many different functions. For example, YscQ in Yersinia is essential for YOPs secretion , while SpaO in Shigella is involved in the Surface Presentation of Antigens apparatus found on the virulence plasmid , and HrcQ is involved in the Harpin secretory system in organisms like Pseudomonas syringae .; GO: 0030254 protein secretion by the type III secretion system.
Probab=99.26 E-value=5.3e-11 Score=91.36 Aligned_cols=70 Identities=26% Similarity=0.267 Sum_probs=67.9
Q ss_pred HHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCC-CCEEEEEECCEEEEEEEEEEECCEEEEEEEE
Q ss_conf 997408007999981234309899457999789825789-9738999999999999998788978999984
Q gi|254780687|r 233 RKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHRE-KTCAILSANGKEIYSCELGRVGKNYTIRITD 302 (318)
Q Consensus 233 ~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~-~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~ 302 (318)
..+.+.||+|.+++|+..|+|.++.+|++|.||+|+.+. +.+|+|+|||+.+.+|++..+|++++|||..
T Consensus 255 ~~l~~Lpv~l~fE~~r~~l~L~~L~~L~pG~vL~L~~~~~~~~V~l~~nG~~~G~GeLV~~~~~LGVri~~ 325 (326)
T TIGR02551 255 VDLDQLPVTLEFELGRLTLTLAELAALQPGSVLELNVPVRDGPVRLRANGRLLGRGELVDVGGRLGVRILR 325 (326)
T ss_pred CCCCCCCEEEEEEEEEEEECHHHHHHCCCCCEEECCCCCCCCCEEEEECCEEEEEEEEEEECCEEEEEEEE
T ss_conf 77564221599999777715799973288743216876887755899877588767789898887578740
No 20
>PRK05933 type III secretion system protein; Validated
Probab=99.23 E-value=1.2e-08 Score=76.02 Aligned_cols=244 Identities=15% Similarity=0.178 Sum_probs=158.4
Q ss_pred HHHHHCC-CEEEEEECCCEEEEHHHHHHCCCCCEEEEEEECCCC-CCEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf 9998629-807998647256679989711688639999973677-83399998878999999887278887666666565
Q gi|254780687|r 49 IFKEKMD-LDVDISYTSCQSGKFSHIIHSFKENFVFSQASLSSW-SSNFFIGCSNNLVITLLENLLGASHETIPQLYNRS 126 (318)
Q Consensus 49 ~l~~~~~-~~v~v~~~~ve~~~~~e~i~~l~~p~~~~i~~~~pl-~g~~ll~id~~l~~~lid~~lGG~g~~~~~~~~R~ 126 (318)
-++..++ ..++.+..+-....-++.+..++.+..+.-|.+.|+ .|+..++++..-.-.+.-.+|-++-.+..- ..+
T Consensus 42 k~~E~F~le~~el~~~~~~~l~~~~~~~~fg~h~~iq~f~a~p~~sG~f~~VtseeDlq~L~~~l~~~~S~a~~f-~ek- 119 (371)
T PRK05933 42 KIREKFRLEDVELSIESRGSLSAALAVQEFGEHFLIQPFLAQPFESGNFYFVTSEEDLQALMVAVFNDSSLASYF-YEK- 119 (371)
T ss_pred HHHHHHCCCCEEEEEEECCCCHHHHCCCCCCCCEEEEEHHCCCCCCCCEEEEECHHHHHHHHHHHCCCCCCCCCC-CCH-
T ss_conf 998861676417998503541010112555750575111148545575799925999999988501787663011-577-
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCHHHHHCHHHHCCCCCCCEEEEEEEEEEECCEEEEEEEEEEHHHH
Q ss_conf 79899999999999999999998510027320000024431100001247871899999886667813799998504775
Q gi|254780687|r 127 LSTVEKKLAKRTIAQISAVLNQCISTTQESSPNLEDFYDIDYLKKNTNRLSNEFVTTINMNMTIENVASSFVLIIPQETL 206 (318)
Q Consensus 127 lT~iE~~l~~~i~~~~~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~p~e~vi~i~~~v~~~~~~g~~~l~lP~~~l 206 (318)
+--......+.--++..+.+ .+|.+++...-+..........-.+. ..+.++++..+..-..++++|-.+.
T Consensus 120 --d~l~gF~~Yf~lE~~kl~~e-----l~~~~sLS~kv~~d~~~s~~~lqG~~--~~vDI~~~~dg~~v~~RLl~pe~~~ 190 (371)
T PRK05933 120 --DKLLGFHYYFVAEICKLLQE-----LNWIPSLSVKVTGDAAFSARSLQGSY--QVVDISLRLDGKIVRFRLLVPEDTA 190 (371)
T ss_pred --HHHHHHHHHHHHHHHHHHHH-----CCCCCCCCEEECCCCCCCCHHCCCCE--EEEEEEEEECCCEEEEEEECCHHHH
T ss_conf --88766799999999999754-----15465657266057667712306861--7999999874847999997268999
Q ss_pred HHHHHHHHHC-C-------------------CCCCCCCHHHHHHH-----------------------------------
Q ss_conf 2567754320-2-------------------44223798999999-----------------------------------
Q gi|254780687|r 207 LKTTLISLSS-Q-------------------NKSENQSEDLIDPF----------------------------------- 231 (318)
Q Consensus 207 ~~~~~~~~~~-~-------------------~~~~~~~~~~~~~l----------------------------------- 231 (318)
.......... + +...-+..+|..--
T Consensus 191 qs~~~h~a~~~q~~~~~~ld~~~~i~lsvEvG~tqLsqeEW~qv~~GdFi~LDSCsyDP~~~~~~~lLti~g~~ff~gr~ 270 (371)
T PRK05933 191 QSCQKFFSEKNQSFDTHKLDKQTPITLSVEVGYCQLSQEEWHQVVPGSFILLDSCLYDPDTEESGALLTVQGHQFFGGRF 270 (371)
T ss_pred HHHHHHHHCCCCCCCCHHHCCCCCEEEEEEEEEEEECHHHHHHCCCCCEEEEECCCCCCCCCCCCEEEEECCEECCCCEE
T ss_conf 99999985177245603305665259999861389749998510678579872134489876553589985686226563
Q ss_pred -------------------------HHHHHHCEEE----EEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCE
Q ss_conf -------------------------9997408007----99998123430989945799978982578997389999999
Q gi|254780687|r 232 -------------------------ARKTYQLNVN----IDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGK 282 (318)
Q Consensus 232 -------------------------~~~l~~~~v~----i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~ 282 (318)
.+....+|++ +.|+++|-+|+++++++|++|.++.|+.+..+-|++.+||+
T Consensus 271 ~d~~~g~fki~~~~~~~~e~p~~~~s~~~pa~pl~~~~kl~~Ev~R~~ltv~~~lkL~pGs~L~l~vhP~~GvdlilnG~ 350 (371)
T PRK05933 271 LDPQSGEFKITSYPELQQEDPPEEASESGPAAPLPGNTKLVVEVARYSLSVGEFLKLEPGSILELGVHPTLGVDIILNGA 350 (371)
T ss_pred CCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEHHHHHCCCCCCEEEECCCCCCCEEEEECCC
T ss_conf 57777705762165336457765678788988787654367786533566988733699877762577565613897252
Q ss_pred EEEEEEEEEECCEEEEEEEEC
Q ss_conf 999999987889789999842
Q gi|254780687|r 283 EIYSCELGRVGKNYTIRITDR 303 (318)
Q Consensus 283 ~~f~g~~G~~~~~~AVrI~~~ 303 (318)
.+.+|+.-..|.-++|||-+.
T Consensus 351 kVgRgei~~lgdvLGiRVLEv 371 (371)
T PRK05933 351 KVGRGEIIALGDVLGIRVLEV 371 (371)
T ss_pred EECCCEEEEECCEEEEEEEEC
T ss_conf 641300686403002578509
No 21
>PRK06782 flagellar motor switch protein; Reviewed
Probab=99.18 E-value=8.5e-09 Score=76.94 Aligned_cols=173 Identities=11% Similarity=0.163 Sum_probs=128.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCEEEEHHHHHHCCCCCE-EEEEEECCCCCCEEEEEECHHHHHHHH
Q ss_conf 7999999999999999999999862980799864725667998971168863-999997367783399998878999999
Q gi|254780687|r 30 TIEKISSSLGYLYKKFLPKIFKEKMDLDVDISYTSCQSGKFSHIIHSFKENF-VFSQASLSSWSSNFFIGCSNNLVITLL 108 (318)
Q Consensus 30 ~~~~~~~~~~e~~~r~l~~~l~~~~~~~v~v~~~~ve~~~~~e~i~~l~~p~-~~~i~~~~pl~g~~ll~id~~l~~~li 108 (318)
.-.+++.+++.-.....+++||+.++..|+|+...++..++.+. ..++.|. ++.+-..+++.|..++++....+..+.
T Consensus 25 ~E~D~iGEIgNIsmGsaaTaLS~lL~~kV~ITTP~V~v~~~~~~-~~~~~p~v~v~v~y~~G~~G~Nllvik~~da~iIa 103 (547)
T PRK06782 25 QECDILGEIANISFGSASTVLSTILNRQVSITAPRVELVDLYDT-SDVEVPHVVLNIHFTKGLDMENLLVLQQDVALSIA 103 (547)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHCCCEEEECCEEEEEEHHHH-HCCCCCCEEEEEEEECCCCCEEEEEEECCCHHHHH
T ss_conf 78877641443110238999999967962743780799883452-12678808999987226463568998502099999
Q ss_pred HHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH----HHHHHHHHHCCCCCEE-CCCHHHHHCHHHHCCCCCCCEEEE
Q ss_conf 88727888766666656579899999999999999----9999985100273200-000244311000012478718999
Q gi|254780687|r 109 ENLLGASHETIPQLYNRSLSTVEKKLAKRTIAQIS----AVLNQCISTTQESSPN-LEDFYDIDYLKKNTNRLSNEFVTT 183 (318)
Q Consensus 109 d~~lGG~g~~~~~~~~R~lT~iE~~l~~~i~~~~~----~~l~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~p~e~vi~ 183 (318)
|.|+||+|...+ +-+|++++..-+..-++++. ++|...|+....+.|. +......++..-.....+++..+.
T Consensus 104 dlMMgGdG~~~~---~~el~Ei~lSAv~EAMNQMmGsaATsms~~~~~~vdIspPti~~~~~~~~~e~~~~~~~~~~~vk 180 (547)
T PRK06782 104 DLMMMGTGEVED---GKELGELELSAVQEAMNQMMGFAATSMSEFFQDTVDMSPPTIKVVKLSEEMEKISEIDGNQTIVK 180 (547)
T ss_pred HHHCCCCCCCCC---CCCCCCEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEHHHHHCCCCCCCCCCEEEE
T ss_conf 986389999998---76553202578999998777187889999967976469996033556434255578997760899
Q ss_pred EEEEEEECCE-EEEEEEEEEHHHH
Q ss_conf 9988666781-3799998504775
Q gi|254780687|r 184 INMNMTIENV-ASSFVLIIPQETL 206 (318)
Q Consensus 184 i~~~v~~~~~-~g~~~l~lP~~~l 206 (318)
+.|++.+|+. .+.+--++|...-
T Consensus 181 v~f~l~i~~li~s~~~q~~~~~~~ 204 (547)
T PRK06782 181 VSFDLKIDNLVNSKLVQIVSVEHA 204 (547)
T ss_pred EEEEEEECCCCCCCEEEEEEHHHH
T ss_conf 998888443213110366437899
No 22
>PRK06933 type III secretion system protein; Validated
Probab=98.96 E-value=6.5e-09 Score=77.69 Aligned_cols=75 Identities=17% Similarity=0.215 Sum_probs=69.5
Q ss_pred HHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCH
Q ss_conf 997408007999981234309899457999789825789973899999999999999878897899998425814
Q gi|254780687|r 233 RKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFD 307 (318)
Q Consensus 233 ~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~ 307 (318)
..+.+.||+++.++|+..+++.++-.|++|.+|+|+++.+.+|++.+||+.+.+|++..++++.+|||++--+..
T Consensus 231 tdldqLpV~l~Fevgrqt~tL~~L~sL~pG~lidL~~pi~g~V~i~ANg~~lG~GeLV~I~~rLGVRV~~L~~~s 305 (307)
T PRK06933 231 TDLNQLPVQVSFEVGRQTLDLHTLTSLQPGSLIDLTTPVDGEVRLLANGRLLGHGRLVEIQGRLGVRVERLFGVT 305 (307)
T ss_pred CCHHHCCEEEEEEECCEEECHHHHHCCCCCCEEECCCCCCCCEEEEECCEEECCEEEEEECCEEEEEEEEEECCC
T ss_conf 644218468999966626449998405898578668998874799987758511159987785358999842456
No 23
>PRK08158 surface presentation of antigens protein SpaO; Validated
Probab=98.90 E-value=1.3e-08 Score=75.81 Aligned_cols=73 Identities=19% Similarity=0.206 Sum_probs=68.5
Q ss_pred HHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCC
Q ss_conf 9740800799998123430989945799978982578997389999999999999987889789999842581
Q gi|254780687|r 234 KTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINF 306 (318)
Q Consensus 234 ~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~ 306 (318)
.+.+.||.++.+|++.++|+.++-++++|.+++|+..++..|+|++||+.+..|++..+++++||.|.+=.+.
T Consensus 226 d~~~LpV~l~FvL~~~~~tl~eL~~l~pG~vl~L~~~~e~~V~I~aNg~l~g~GELV~i~d~LgVEI~~w~~~ 298 (303)
T PRK08158 226 GLNQLPVKLEFVLYRKNVTLAELEELCQQQLLSLPTNAELNVEIRANGALLGNGELVQMDDTLGVEIHEWLSG 298 (303)
T ss_pred CHHHCCEEEEEEECCCEECHHHHHHCCCCCEECCCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEHHHHCC
T ss_conf 7532925899997374885999963089847617999764089999998986665999888366877665546
No 24
>COG1776 CheC Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]
Probab=98.65 E-value=4.5e-06 Score=59.07 Aligned_cols=129 Identities=7% Similarity=0.087 Sum_probs=110.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCEEEEHHHHHHCCCCC--EEEEEEECCCCCCEEEEEECHHHHHHHH
Q ss_conf 99999999999999999999986298079986472566799897116886--3999997367783399998878999999
Q gi|254780687|r 31 IEKISSSLGYLYKKFLPKIFKEKMDLDVDISYTSCQSGKFSHIIHSFKEN--FVFSQASLSSWSSNFFIGCSNNLVITLL 108 (318)
Q Consensus 31 ~~~~~~~~~e~~~r~l~~~l~~~~~~~v~v~~~~ve~~~~~e~i~~l~~p--~~~~i~~~~pl~g~~ll~id~~l~~~li 108 (318)
..+.+.+++.-.+...+++|++.++..|++++..+...+..++..-++.| ....+...++..|..++.++...+-.+.
T Consensus 11 ~~d~l~E~~NI~~g~aataLs~L~g~~v~isvp~v~iv~~e~l~~~~~~~~~v~~~v~~~eg~~G~~l~l~~~~~a~~i~ 90 (203)
T COG1776 11 EKDALKEIGNIGAGSAATALSQLLGKKVEISVPKVKIVSIEELPKLLGDPEGVVVTVQLIEGFSGSILLLFPEESAAAIA 90 (203)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCEEEEEHHHHHHHHCCCCCEEEEEEEECCCCCEEEEEECHHHHHHHH
T ss_conf 99999999987777799999998499706616942884088888871886508999975137873489982766899999
Q ss_pred HHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCHH
Q ss_conf 88727888766666656579899999999999999999998510027320000024
Q gi|254780687|r 109 ENLLGASHETIPQLYNRSLSTVEKKLAKRTIAQISAVLNQCISTTQESSPNLEDFY 164 (318)
Q Consensus 109 d~~lGG~g~~~~~~~~R~lT~iE~~l~~~i~~~~~~~l~~a~~~~~~~~~~~~~~~ 164 (318)
|.|+||.+.... ++.+.+...++.+.+.+..++..+|+....+.-....|.
T Consensus 91 ~lm~G~~~~~~~-----~ldem~~Sav~E~~Nil~gs~~t~la~~~~~~i~~spP~ 141 (203)
T COG1776 91 DLMMGGEGASKE-----ELDEMELSALMEVGNILAGAFLTALANQLGLPIDISPPE 141 (203)
T ss_pred HHHCCCCCCCCC-----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf 995599877754-----446546999999999999999999999859704479980
No 25
>PRK08035 type III secretion system protein; Validated
Probab=98.17 E-value=1.2e-05 Score=56.35 Aligned_cols=71 Identities=21% Similarity=0.171 Sum_probs=65.2
Q ss_pred HHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEEC
Q ss_conf 99740800799998123430989945799978982578997389999999999999987889789999842
Q gi|254780687|r 233 RKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDR 303 (318)
Q Consensus 233 ~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~ 303 (318)
-.|.+.|=.+.++.||.+++++|+-+|.|||++|.....--.|.++.||+++..|++-.-|+.+.|||+.=
T Consensus 246 v~L~~lPQtLl~EIGRlsL~lg~L~QLavG~~L~~~t~fygeV~IRLnGq~iG~G~Ll~Cd~~l~VRI~rW 316 (326)
T PRK08035 246 VELEQLPQQVLFEIGRLSLEIGQLRQLAVGDVLPVGGCFAPEVTIRLNGQIIGQGELIACDNELMVRITRW 316 (326)
T ss_pred HHHHHCCCEEEEEEEEEEEEHHHHHHCCCCCEECCCCEECCEEEEEECCEEECCCCEEEECCEEEEEEEEE
T ss_conf 01554761118773066300677540055657201241623689998891852530784088569998762
No 26
>PRK06933 type III secretion system protein; Validated
Probab=96.76 E-value=0.0039 Score=39.84 Aligned_cols=65 Identities=14% Similarity=0.202 Sum_probs=51.6
Q ss_pred HCEEEEEEEEEEEEECHHHHHCCCCCCEEECCC--CCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCC
Q ss_conf 080079999812343098994579997898257--899738999999999999998788978999984258
Q gi|254780687|r 237 QLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLH--REKTCAILSANGKEIYSCELGRVGKNYTIRITDRIN 305 (318)
Q Consensus 237 ~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~--~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~ 305 (318)
..|+.++-..|++.+++.++-.|+.||||-++. -.+.++-+||+|+|+++|++- +.++ .|.+..+
T Consensus 154 ~LPl~LSlqwg~~~Ltl~e~~tLe~GDVll~p~~~~~~~q~L~~ve~~p~a~cql~--~~~L--eli~m~~ 220 (307)
T PRK06933 154 PLPLLLSLQWGKVYLTLDEFDSLELGDVLLAPEGSGPNSPVLAYVEGRPWAYCQLQ--SNKL--ELIGMHT 220 (307)
T ss_pred CCEEEEEEEEEEEEEEHHHHHCCCCCCEEECCCCCCCCCEEEEEECCCCCEEECCC--CCEE--EEEEECC
T ss_conf 42069998740269878784100225588028756778714899838865565046--7779--9897046
No 27
>PRK05933 type III secretion system protein; Validated
Probab=96.15 E-value=0.025 Score=34.54 Aligned_cols=68 Identities=15% Similarity=0.274 Sum_probs=55.4
Q ss_pred HHHH-HCEEEEEEEEEEEEECHHHHHCCCCCCEEECCC------CCCCEEEEEECCEEEEEEEE-EEECCEEEEEEEE
Q ss_conf 9974-080079999812343098994579997898257------89973899999999999999-8788978999984
Q gi|254780687|r 233 RKTY-QLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLH------REKTCAILSANGKEIYSCEL-GRVGKNYTIRITD 302 (318)
Q Consensus 233 ~~l~-~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~------~~~~~v~v~v~g~~~f~g~~-G~~~~~~AVrI~~ 302 (318)
.++. .+++.+.++.|.++++-.|--++.+||.|-||- ..+..+-+.++|++.|.|+. +...+++ ||++
T Consensus 207 ~~ld~~~~i~lsvEvG~tqLsqeEW~qv~~GdFi~LDSCsyDP~~~~~~~lLti~g~~ff~gr~~d~~~g~f--ki~~ 282 (371)
T PRK05933 207 HKLDKQTPITLSVEVGYCQLSQEEWHQVVPGSFILLDSCLYDPDTEESGALLTVQGHQFFGGRFLDPQSGEF--KITS 282 (371)
T ss_pred HHHCCCCCEEEEEEEEEEEECHHHHHHCCCCCEEEEECCCCCCCCCCCCEEEEECCEECCCCEECCCCCCCE--EEEC
T ss_conf 330566525999986138974999851067857987213448987655358998568622656357777705--7621
No 28
>PRK06789 flagellar motor switch protein; Validated
Probab=95.80 E-value=0.032 Score=33.87 Aligned_cols=58 Identities=16% Similarity=0.225 Sum_probs=55.0
Q ss_pred EEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEE
Q ss_conf 9812343098994579997898257899738999999999999998788978999984
Q gi|254780687|r 245 RINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITD 302 (318)
Q Consensus 245 ~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~ 302 (318)
+||+++-+++++++++.|-+..|.......|.+...|+.+-.|+.=..++++-|+|++
T Consensus 1 ElG~Tkq~v~~LL~i~KGT~~RLE~ST~N~Vki~i~~~~IG~G~ILTKdGKm~V~Iv~ 58 (61)
T PRK06789 1 EIGNTKKKIEDLLHITKGTLYRLENSTKNTVRLMLENEEIGTGKILTKNGKMYVEIVE 58 (61)
T ss_pred CCCCCCCHHHHHHEECCCEEEEEECCCCCEEEEEECCCEEEEEEEECCCCEEEEEEEE
T ss_conf 9773224023341202555999733788899999826466100587028839999998
No 29
>PRK08158 surface presentation of antigens protein SpaO; Validated
Probab=94.34 E-value=0.29 Score=27.62 Aligned_cols=47 Identities=19% Similarity=0.124 Sum_probs=42.7
Q ss_pred HHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEE
Q ss_conf 74080079999812343098994579997898257899738999999999
Q gi|254780687|r 235 TYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEI 284 (318)
Q Consensus 235 l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~ 284 (318)
.+..|++++-+||...++++-+-++.+|||+-+.+.. ..++|+|+.+
T Consensus 145 ~~~lp~~l~fvLG~S~ls~~lL~~I~~GDvLlI~~~~---~~v~i~gr~i 191 (303)
T PRK08158 145 PKMLRWPLRFVIGSSDTQRSLLGRIGIGDVLLISTSR---AEVYCYAKKI 191 (303)
T ss_pred CCCCCEEEEEEEEECCCCHHHHHCCCCCCEEEEEECC---CEEEECCEEE
T ss_conf 5656268999975340789887205667589995055---1379957998
No 30
>TIGR02551 SpaO_YscQ type III secretion apparatus protein, YscQ/HrcQ family; InterPro: IPR013385 Proteins in this entry are encoded within type III secretion operons and are involved in many different functions. For example, YscQ in Yersinia is essential for YOPs secretion , while SpaO in Shigella is involved in the Surface Presentation of Antigens apparatus found on the virulence plasmid , and HrcQ is involved in the Harpin secretory system in organisms like Pseudomonas syringae .; GO: 0030254 protein secretion by the type III secretion system.
Probab=92.73 E-value=0.091 Score=30.88 Aligned_cols=165 Identities=10% Similarity=0.046 Sum_probs=84.7
Q ss_pred EEEECCCCCCEEEEEECHHHHHHHHHHH---HCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEC
Q ss_conf 9997367783399998878999999887---2788876666665657989999999999999999999851002732000
Q gi|254780687|r 84 SQASLSSWSSNFFIGCSNNLVITLLENL---LGASHETIPQLYNRSLSTVEKKLAKRTIAQISAVLNQCISTTQESSPNL 160 (318)
Q Consensus 84 ~i~~~~pl~g~~ll~id~~l~~~lid~~---lGG~g~~~~~~~~R~lT~iE~~l~~~i~~~~~~~l~~a~~~~~~~~~~~ 160 (318)
..+.+.--.+.+-+-+.......+++-. ++. ..++.....+.....-..++...............-
T Consensus 11 ~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~----------~~~~~~~~~~~~~~~~a~l~~~~~~~~~l~~~~~~~ 80 (326)
T TIGR02551 11 VALALALAGQELSLWLRLAELALWLAPALAALAE----------AAFASLPLELLLLLLLAALAPAGLLLTELVALGEAP 80 (326)
T ss_pred EEEEEECCCCEEEEEECHHHHHHHHHHHHHHHCC----------CCHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf 0688632873688975356889898888741010----------003320211678998876556532222110246344
Q ss_pred CCHHHHHCHHHHCCCCCCCEEEEEEEEE-EECCEEEEEEEEEEHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCE
Q ss_conf 0024431100001247871899999886-667813799998504775256775432024422379899999999974080
Q gi|254780687|r 161 EDFYDIDYLKKNTNRLSNEFVTTINMNM-TIENVASSFVLIIPQETLLKTTLISLSSQNKSENQSEDLIDPFARKTYQLN 239 (318)
Q Consensus 161 ~~~~~~~~~~~~~~~~p~e~vi~i~~~v-~~~~~~g~~~l~lP~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 239 (318)
.. ....+..... ...+.+++ .-.+.....-++.......... .......|..........++
T Consensus 81 ~~------~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~ 143 (326)
T TIGR02551 81 AS------LPAPQQLSLL--ALRLGLTLGEGDDLPEAVLLLATLALWLTWV---------AAALLAALPARPTVRLKALP 143 (326)
T ss_pred CC------CCCCCCCCCH--HHHHEEEECCCCCCCCCEEEECCHHHHHHHH---------HHHHHHHCCCCCCCCCCCCE
T ss_conf 45------6676554100--0110000014444320001100300023455---------43222200014644345530
Q ss_pred EEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEE
Q ss_conf 079999812343098994579997898257899738
Q gi|254780687|r 240 VNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCA 275 (318)
Q Consensus 240 v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v 275 (318)
++++.++|...++++++-+|++||||-++.....+.
T Consensus 144 ~~~~l~~G~~~l~~~~L~~l~~GDvLL~~~~~~~~~ 179 (326)
T TIGR02551 144 LPVRLEIGSSRLALAELRSLEPGDVLLLDNPAAARA 179 (326)
T ss_pred EEEEEEEEEEEECHHHHHHHCCCCEEECCCCCCCCC
T ss_conf 688899853563467762320585663265311220
No 31
>COG1406 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]
Probab=71.27 E-value=7.3 Score=18.38 Aligned_cols=143 Identities=6% Similarity=0.056 Sum_probs=76.5
Q ss_pred HHHHHHHHHHHHHHCCCEEEEEECCCEEEEHHHHHHCCCCCEEEEEEEC-CCCCCEEEEEECHHHHHHHHHHHHCCCCCC
Q ss_conf 9999999999998629807998647256679989711688639999973-677833999988789999998872788876
Q gi|254780687|r 40 YLYKKFLPKIFKEKMDLDVDISYTSCQSGKFSHIIHSFKENFVFSQASL-SSWSSNFFIGCSNNLVITLLENLLGASHET 118 (318)
Q Consensus 40 e~~~r~l~~~l~~~~~~~v~v~~~~ve~~~~~e~i~~l~~p~~~~i~~~-~pl~g~~ll~id~~l~~~lid~~lGG~g~~ 118 (318)
.-|.+.+...|+..+..... ..+..--...++...+..++-+ ...+|+....++-+.+..++..|+||..
T Consensus 7 Npfl~s~~~vl~~~~~~E~k-------~gkp~lks~~i~~~~V~~IiGi~G~i~Gsii~sfs~~tAlkiaS~Mmggme-- 77 (153)
T COG1406 7 NPFLASAMNVLRDMLGVEIK-------PGKPSLKSDNIPSGGVAVIIGIAGDIEGSIIYSFSIDTALKIASNMMGGME-- 77 (153)
T ss_pred HHHHHHHHHHHHHHHCCCCC-------CCCCCCCCCCCCCCCEEEEEEEECCEEEEEEEEECHHHHHHHHHHHHCCCC--
T ss_conf 59899999999987554365-------689655667404577489998603300359999658999999999746888--
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCHHHHHCHHHHCCCCCCCEEEEEEEEEEECCEEEEEE
Q ss_conf 66666565798999999999999999999985100273200000244311000012478718999998866678137999
Q gi|254780687|r 119 IPQLYNRSLSTVEKKLAKRTIAQISAVLNQCISTTQESSPNLEDFYDIDYLKKNTNRLSNEFVTTINMNMTIENVASSFV 198 (318)
Q Consensus 119 ~~~~~~R~lT~iE~~l~~~i~~~~~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~p~e~vi~i~~~v~~~~~~g~~~ 198 (318)
. -+|.+.-+..+..+-+.+......-+.. .++...+..|..... .... ......++.+.|++..|+ -.++
T Consensus 78 ---~--n~lDE~a~sav~ElgNmvtgnaat~L~e-~g~~~DitpPav~~G-~~~~-is~~~~~l~vP~s~~~g~--~ei~ 147 (153)
T COG1406 78 ---Y--NQLDELATSAVGELGNMVTGNAATTLEE-LGFDFDITPPAVVSG-RNTK-ISSKGEILIVPFSSPDGK--FEIN 147 (153)
T ss_pred ---H--HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HCCEEECCCCEEEEC-CCCE-ECCCCEEEEEEECCCCCC--EEEE
T ss_conf ---2--2676999999999887877656667787-272362579738815-7724-235882899972057765--7999
Q ss_pred EEE
Q ss_conf 985
Q gi|254780687|r 199 LII 201 (318)
Q Consensus 199 l~l 201 (318)
+|+
T Consensus 148 isv 150 (153)
T COG1406 148 ISV 150 (153)
T ss_pred EEE
T ss_conf 997
No 32
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=70.25 E-value=7.7 Score=18.24 Aligned_cols=50 Identities=10% Similarity=0.148 Sum_probs=37.4
Q ss_pred EEEC-CCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCHHHHHHHHHH
Q ss_conf 8982-5789973899999999999999878897899998425814678888751
Q gi|254780687|r 264 VIPF-LHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFDQKSLKNFLH 316 (318)
Q Consensus 264 VI~L-~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~~~~l~~~~~ 316 (318)
||.+ +..++.++++|+++..+|++.+|+.| -|||.....-.+.+.++|.+
T Consensus 545 v~~~~~~~~g~~v~i~~~~eylftatv~~~G---~vri~~~~~~g~~i~~ai~~ 595 (604)
T COG1855 545 VLYVGPDFAGKPVRIYAGDEYLFTATVSRKG---VVKIRKDSEVGKEIEEAIDN 595 (604)
T ss_pred EEECCCCCCCCEEEEEECCEEEEEEECCCCC---EEEEECCCHHHHHHHHHHHC
T ss_conf 9973788789816999788899999816783---49985187689999999864
No 33
>PRK13764 ATPase; Provisional
Probab=69.82 E-value=7.9 Score=18.18 Aligned_cols=51 Identities=12% Similarity=0.256 Sum_probs=37.4
Q ss_pred EEECC-CCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCCHHHHHHHHHHC
Q ss_conf 89825-7899738999999999999998788978999984258146788887514
Q gi|254780687|r 264 VIPFL-HREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINFDQKSLKNFLHK 317 (318)
Q Consensus 264 VI~L~-~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~~~~~l~~~~~~ 317 (318)
++.++ ...+..+++|+++..+|.+.+|..|. |||...-.-.+++++.+.+.
T Consensus 546 i~~v~~~~~g~~v~i~~~~eylftAtV~~~G~---Ikl~k~S~i~~~l~~a~~~g 597 (605)
T PRK13764 546 ILIVGPDYAGKIVDIYAGGEYLFTATVSRKGE---IKLAKNSDIAKELLRAIDKG 597 (605)
T ss_pred EEEECHHHCCCEEEEEECCEEEEEEEECCCCE---EEECCCCHHHHHHHHHHHCC
T ss_conf 99948677898789998999999999069814---99657986899999998679
No 34
>TIGR02303 HpaG-C-term 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; InterPro: IPR012684 This entry represents one of two subunits/domains of the bifunctional isomerase/decarboxylase involved in 4-hydroxyphenylacetate degradation . In Escherichia coli and some other species, this enzyme is encoded by a single polypeptide containing both this domain and the closely related N-terminal domain (IPR012686 from INTERPRO). In other species such as Pasteurella multocida, these domains are found as two separate proteins (usually as tandem genes). Together, these domains carry out the decarboxylation of 5-oxopent-3-ene-1,2,5-tricarboxylic acid (OPET) to 2-hydroxy-2,4-diene-1,7-dioate (HHDD) and the subsequent isomerization to 2-oxohept-3-ene-1,7-dioate (OHED).; GO: 0008704 5-carboxymethyl-2-hydroxymuconate delta-isomerase activity, 0018800 5-oxopent-3-ene-125-tricarboxylate decarboxylase activity.
Probab=68.11 E-value=6.3 Score=18.80 Aligned_cols=33 Identities=18% Similarity=0.094 Sum_probs=25.7
Q ss_pred CHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEE
Q ss_conf 0989945799978982578997389999999999
Q gi|254780687|r 252 TLKDVVTLKIGQVIPFLHREKTCAILSANGKEIY 285 (318)
Q Consensus 252 ~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f 285 (318)
-|.+++.|+|||+|--..|.. -.++.+++....
T Consensus 202 ylS~~mTL~PgD~ilTGTPKG-~~dv~pGD~v~~ 234 (249)
T TIGR02303 202 YLSEFMTLEPGDVILTGTPKG-LSDVKPGDVVRL 234 (249)
T ss_pred HHHHCCCCCCCCEEEECCCCC-CCCCCCCCEEEE
T ss_conf 863102478564887058887-522355878999
No 35
>TIGR02305 HpaG-N-term 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, N-terminal subunit; InterPro: IPR012686 This entry represents one of two subunits/domains of the bifunctional isomerase/decarboxylase involved in 4-hydroxyphenylacetate degradation . In Escherichia coli and some other species this enzyme is encoded by a single polypeptide containing both this domain and the closely related C-terminal domain (IPR012684 from INTERPRO). In other species such as Pasteurella multocida these domains are found as two separate proteins (usually as tandem genes). Together, these domains carry out the decarboxylation of 5-oxopent-3-ene-1,2,5-tricarboxylic acid (OPET) to 2-hydroxy-2,4-diene-1,7-dioate (HHDD) and the subsequent isomerization to 2-oxohept-3-ene-1,7-dioate (OHED).; GO: 0008704 5-carboxymethyl-2-hydroxymuconate delta-isomerase activity, 0018800 5-oxopent-3-ene-125-tricarboxylate decarboxylase activity.
Probab=67.47 E-value=7.3 Score=18.39 Aligned_cols=30 Identities=20% Similarity=0.326 Sum_probs=23.7
Q ss_pred CHHHHHCCCCCCEEECCCCCCCEEEEEECCE
Q ss_conf 0989945799978982578997389999999
Q gi|254780687|r 252 TLKDVVTLKIGQVIPFLHREKTCAILSANGK 282 (318)
Q Consensus 252 ~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~ 282 (318)
.+.|++.|++||||-+..+.+ ++.|.-|.+
T Consensus 162 ~~s~FmTL~~GDvll~Gt~~~-~~~v~~Gd~ 191 (206)
T TIGR02305 162 EVSDFMTLEAGDVLLLGTPEE-RVKVGPGDR 191 (206)
T ss_pred HHHHHHHCCCCCEEEECCCCC-CEECCCCCE
T ss_conf 975886027698899706788-624278878
No 36
>TIGR02713 allophanate_hyd allophanate hydrolase; InterPro: IPR014085 Allophanate hydrolase catalyses the second reaction in an ATP-dependent two-step degradation of urea to ammonia and C02, following the action of the biotin-containing urea carboxylase. The yeast enzyme, a fusion of allophanate hydrolase to urea carboxylase, is designated urea amidolyase..
Probab=61.34 E-value=9.7 Score=17.58 Aligned_cols=16 Identities=6% Similarity=-0.018 Sum_probs=6.9
Q ss_pred ECCCEEEEHHHHHHCC
Q ss_conf 6472566799897116
Q gi|254780687|r 62 YTSCQSGKFSHIIHSF 77 (318)
Q Consensus 62 ~~~ve~~~~~e~i~~l 77 (318)
+..|+...|-|.-+.|
T Consensus 255 ~v~iDf~Pf~e~A~lL 270 (582)
T TIGR02713 255 VVEIDFAPFLETAALL 270 (582)
T ss_pred EEECCCCHHHHHHHHH
T ss_conf 9972873689999973
No 37
>TIGR01439 lp_hng_hel_AbrB transcriptional regulator, AbrB family; InterPro: IPR006339 This DNA-binding domain is found in proteins like AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. .
Probab=60.33 E-value=8.9 Score=17.84 Aligned_cols=27 Identities=22% Similarity=0.350 Sum_probs=23.2
Q ss_pred CHHHHHCCCCCCEEECCCCCCCEEEEE
Q ss_conf 098994579997898257899738999
Q gi|254780687|r 252 TLKDVVTLKIGQVIPFLHREKTCAILS 278 (318)
Q Consensus 252 ~l~dil~L~vGDVI~L~~~~~~~v~v~ 278 (318)
.+++-++|++||-+.+....|+.+.+.
T Consensus 15 ~iR~~lgl~eGd~l~~~~~~d~~i~l~ 41 (44)
T TIGR01439 15 EIREKLGLKEGDKLEVIRVEDGEIILR 41 (44)
T ss_pred HHHHHCCCCCCCEEEEEEECCCEEEEE
T ss_conf 896406999998788988279879898
No 38
>TIGR02715 amido_AtzE amidohydrolase, AtzE family; InterPro: IPR014087 Members of this protein family are aminohydrolases related to, but distinct from, glutamyl-tRNA(Gln) amidotransferase subunit A. The best-characterised member is from Pseudomonas sp., which hydrolyses ammonia from the three-nitrogen compound biuret to yield allophanate. Allophanate is also an intermediate in urea degradation by the urea carboxylase/allophanate hydrolase pathway, an alternative to urease..
Probab=51.16 E-value=17 Score=16.05 Aligned_cols=50 Identities=12% Similarity=0.140 Sum_probs=30.0
Q ss_pred CCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf 7845778888853012236679999999999999999999998629807998647
Q gi|254780687|r 10 TSPLHPILLARLTGKLGDKKTIEKISSSLGYLYKKFLPKIFKEKMDLDVDISYTS 64 (318)
Q Consensus 10 ~~p~d~~~~~r~~g~~~~~~~~~~~~~~~~e~~~r~l~~~l~~~~~~~v~v~~~~ 64 (318)
-..|||+..+|++.+.=.|+.+-.-.|-+-.-|...++..|. .++|=+..
T Consensus 321 p~dFdPa~RDRLlAGallPa~~~~~AQrFR~~fR~~~~~lF~-----~~DvLlAP 370 (454)
T TIGR02715 321 PQDFDPASRDRLLAGALLPAAWYVQAQRFRRWFRDKVRELFQ-----RVDVLLAP 370 (454)
T ss_pred CCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHH-----CCCEEECC
T ss_conf 010575158898831522478999876889999999877862-----27778607
No 39
>KOG2309 consensus
Probab=47.30 E-value=11 Score=17.32 Aligned_cols=55 Identities=22% Similarity=0.231 Sum_probs=38.7
Q ss_pred CHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCC
Q ss_conf 0989945799978982578997389999999999999987889789999842581
Q gi|254780687|r 252 TLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINF 306 (318)
Q Consensus 252 ~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~ 306 (318)
..+.=+.|++|.++|+.......+...|+.++-+.+.++...++||.=|-..-.+
T Consensus 83 ~~g~ka~~~ignv~~~~s~peg~~v~~ve~~~gdrg~lar~sGnya~vIaHn~dt 137 (248)
T KOG2309 83 YCGKKAQLNIGNVLPVGSMPEGTIVCNVEEKPGDRGALARASGNYAIVIAHNPDT 137 (248)
T ss_pred CCCCCCCCCCCCEEECCCCCCCEEEEEEECCCCHHHHHHHHCCCEEEEEECCCCC
T ss_conf 3774434010531122666662489974026763566786447625898447654
No 40
>KOG3416 consensus
Probab=42.77 E-value=17 Score=15.91 Aligned_cols=40 Identities=15% Similarity=0.209 Sum_probs=27.9
Q ss_pred CCCCCCEEECCCCCCCEEEEEECCEEEEEEEEE---EECCEEEEEE
Q ss_conf 579997898257899738999999999999998---7889789999
Q gi|254780687|r 258 TLKIGQVIPFLHREKTCAILSANGKEIYSCELG---RVGKNYTIRI 300 (318)
Q Consensus 258 ~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G---~~~~~~AVrI 300 (318)
.++|||+|.|...- ..++-++..+|.|+-| ++|+...|-.
T Consensus 61 ~~~PGDIirLt~Gy---~Si~qg~LtL~~GK~Ge~~KiGef~~vf~ 103 (134)
T KOG3416 61 LIQPGDIIRLTGGY---ASIFQGCLTLYVGKGGEVQKIGEFCMVFS 103 (134)
T ss_pred CCCCCCEEEECCCC---HHHHCCCEEEEECCCCEEEEEEEEEEEEE
T ss_conf 45886689963630---43403856999617832767101577653
No 41
>TIGR01517 ATPase-IIB_Ca calcium-translocating P-type ATPase, PMCA-type; InterPro: IPR006408 This family describes the P-type ATPase responsible for translocating calcium ions across the plasma membrane of eukaryotes , out of the cell. In some organisms, this type of pump may also be found in vacuolar membranes . In humans and mice, at least, there are multiple isoforms of the PMCA pump with overlapping but not redundant functions. Accordingly, there are no human diseases linked to PMCA defects, although alterations of PMCA function do elicit physiological effects . The calcium P-type ATPases have been characterised as Type IIB based on a phylogenetic analysis which distinguishes this group from the Type IIA SERCA calcium pump .; GO: 0005388 calcium-transporting ATPase activity, 0005509 calcium ion binding, 0005524 ATP binding, 0015085 calcium ion transmembrane transporter activity, 0006816 calcium ion transport, 0016020 membrane.
Probab=41.84 E-value=6.5 Score=18.71 Aligned_cols=30 Identities=27% Similarity=0.481 Sum_probs=17.9
Q ss_pred EEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCE
Q ss_conf 8123430989945799978982578997389999999
Q gi|254780687|r 246 INLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGK 282 (318)
Q Consensus 246 Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~ 282 (318)
+.=..+.++|+.+|+.||++|-|- +++.|.
T Consensus 170 Isi~d~~VGDi~sL~~GD~vPADG-------~~I~G~ 199 (885)
T TIGR01517 170 ISIHDVVVGDIVSLSTGDVVPADG-------VFISGL 199 (885)
T ss_pred EEEEEEEECCEEEEEECCEEECCE-------EEEECC
T ss_conf 844688861189984187740460-------897454
No 42
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=40.92 E-value=21 Score=15.34 Aligned_cols=44 Identities=23% Similarity=0.183 Sum_probs=25.7
Q ss_pred EEEEEEECHH--HHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEE
Q ss_conf 9812343098--9945799978982578997389999999999999987
Q gi|254780687|r 245 RINLKKTTLK--DVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGR 291 (318)
Q Consensus 245 ~Lg~~~l~l~--dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~ 291 (318)
.=|+..+++. ..-.+++||+|.+... .+..+=+...+..|+.|.
T Consensus 49 eTG~I~~tlWde~~~~i~~GD~V~I~na---yv~~~~g~l~L~vGk~g~ 94 (130)
T PRK06461 49 ETGRVKLTLWGDQAGTLKEGEVVKIENA---WTTLYRGKVQLNVGRYGS 94 (130)
T ss_pred CCCEEEEEEECCCCCCCCCCCEEEEECC---EEEEECCEEEEEECCCEE
T ss_conf 9986999994564564689999999447---988888869998689626
No 43
>pfam04962 KduI KduI/IolB family. This family includes the 5-keto 4-deoxyuronate isomerase enzyme EC:5.3.1.17 that is involved in pectin degradation. This family aldo includes bacterial Myo-inositol catabolism (IolB) proteins. The Bacillus subtilis inositol operon (iolABCDEFGHIJ) is involved in myo-inositol catabolism. Glucose repression of the iol operon induced by inositol is exerted through catabolite repression mediated by CcpA and the iol induction system mediated by IolR. The exact function of IolB is unknown. Members of this family possess a Cupin like structure.
Probab=39.43 E-value=25 Score=14.88 Aligned_cols=23 Identities=13% Similarity=0.255 Sum_probs=16.1
Q ss_pred EECHHHHHCCCCCCEEECCCCCC
Q ss_conf 43098994579997898257899
Q gi|254780687|r 250 KTTLKDVVTLKIGQVIPFLHREK 272 (318)
Q Consensus 250 ~l~l~dil~L~vGDVI~L~~~~~ 272 (318)
.-++.+.+..+-||++-..+.-.
T Consensus 205 ~~~~d~~~~V~~gd~vlvp~GyH 227 (261)
T pfam04962 205 DRSLDEAMAVEDGDVVLVPRGYH 227 (261)
T ss_pred CCCCCEEEEEECCCEEEECCCCC
T ss_conf 88885379996899999499847
No 44
>TIGR02643 T_phosphoryl thymidine phosphorylase; InterPro: IPR013465 Thymidine phosphorylase (alternate name: pyrimidine phosphorylase) 2.4.2.4 from EC is involved, in E. coli and other Proteobacteria, in (deoxy)nucleotide degradation. It is often encoded in an operon together with a deoxyribose-phosphate aldolase, a phosphopentomutase and a purine nucleoside phosphorylase. In many other lineages, the corresponding enzyme is designated pyrimidine-nucleoside phosphorylase (2.4.2.2 from EC); the naming convention here follows standard literature practice.; GO: 0009032 thymidine phosphorylase activity.
Probab=36.21 E-value=17 Score=15.95 Aligned_cols=55 Identities=15% Similarity=0.016 Sum_probs=21.9
Q ss_pred HCCCCCEEEEEEECC-CCCCEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf 116886399999736-77833999988789999998872788876666665657989999999999
Q gi|254780687|r 75 HSFKENFVFSQASLS-SWSSNFFIGCSNNLVITLLENLLGASHETIPQLYNRSLSTVEKKLAKRTI 139 (318)
Q Consensus 75 ~~l~~p~~~~i~~~~-pl~g~~ll~id~~l~~~lid~~lGG~g~~~~~~~~R~lT~iE~~l~~~i~ 139 (318)
+..+-.+.-.+.++. ||...+==.+ =+-..|+.+-|.. -. +.|..+-++++.+++
T Consensus 228 nGAGv~TtALiTdMNq~La~aAGNAv---Ev~~Av~fL~G~~------r~-~RL~~Vt~ALaAemL 283 (440)
T TIGR02643 228 NGAGVRTTALITDMNQPLASAAGNAV---EVRNAVDFLTGEK------RD-TRLEDVTLALAAEML 283 (440)
T ss_pred CCCCCEEEEEEHHCCHHHHHHCCCHH---HHHHHHHHHCCCC------CC-CCHHHHHHHHHHHHH
T ss_conf 38870123210101135353135578---9999998505555------67-668999999999998
No 45
>pfam05683 Fumerase_C Fumarase C-terminus. This family consists of the C terminal region of several bacterial fumarate hydratase proteins (FumA and FumB). Fumarase, or fumarate hydratase (EC 4.2.1.2), is a component of the citric acid cycle. In facultative anaerobes such as Escherichia coli, fumarase also engages in the reductive pathway from oxaloacetate to succinate during anaerobic growth.
Probab=34.67 E-value=30 Score=14.42 Aligned_cols=12 Identities=17% Similarity=0.587 Sum_probs=4.0
Q ss_pred HHHHCCCCCCEE
Q ss_conf 899457999789
Q gi|254780687|r 254 KDVVTLKIGQVI 265 (318)
Q Consensus 254 ~dil~L~vGDVI 265 (318)
.|+.+|++||++
T Consensus 37 e~i~~L~vGD~V 48 (205)
T pfam05683 37 EELRSWKVGDTL 48 (205)
T ss_pred HHHHHCCCCCEE
T ss_conf 999608788879
No 46
>TIGR01511 ATPase-IB1_Cu copper-translocating P-type ATPase; InterPro: IPR006403 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (F-, V- and A-ATPases contain rotary motors) and in the type of ions they transport , . F-ATPases (F1F0-ATPases) in mitochondria, chloroplasts and bacterial plasma membranes are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases) are primarily found in eukaryotic vacuoles, catalysing ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases) are found in Archaea and function like F-ATPases. P-ATPases (E1E2-ATPases) are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles . P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H^+, Na^+, K^+, Mg^2+, Ca^2+, Ag^+ and Ag^2+, Zn^2+, Co^2+, Pb^2+, Ni^2+, Cd^2+, Cu^+ and Cu^2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents P-type ATPases that specialise in cation and copper transport; those transporting copper (3.6.3.4 from EC) have been classified as belonging to the IB subfamily , , . These proteins are involved in a variety of processes in both prokaryotes and eukaryotes. Some of these P-ATPases import copper into cells, such as in Arabidopsis sp., which require copper to create functional hormone receptors for ethylene signalling. Other P-ATPases are involved in copper export out of cells, such as occurs with the efflux of hepatic copper into the bile in eukaryotes. In bacteria, some of these P-ATPases play a role in osmotic adaptation. Certain copper ATPases have been implicated in both Wilson and Menkes diseases . More information about this protein can be found at Protein of the Month: ATP Synthases .; GO: 0004008 copper-exporting ATPase activity, 0005524 ATP binding, 0046872 metal ion binding, 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0016020 membrane.
Probab=33.41 E-value=31 Score=14.27 Aligned_cols=35 Identities=17% Similarity=0.140 Sum_probs=19.1
Q ss_pred EEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEE
Q ss_conf 99998123430989945799978982578997389999
Q gi|254780687|r 242 IDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSA 279 (318)
Q Consensus 242 i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v 279 (318)
=+|.+=+..+ ++..||+||+|.......-|||-.|
T Consensus 80 ~~A~~~~~~v---~v~~l~~GD~~~V~pG~k~PvDG~v 114 (545)
T TIGR01511 80 ETATLLTDDV---PVAELQPGDIVKVLPGEKIPVDGTV 114 (545)
T ss_pred CCEEEECCCC---CHHHCCCCCEEEECCCCCCCCCCEE
T ss_conf 2238731672---3644188888997578956404078
No 47
>PRK06043 fumarate hydratase; Provisional
Probab=31.94 E-value=31 Score=14.24 Aligned_cols=13 Identities=0% Similarity=-0.232 Sum_probs=5.0
Q ss_pred CEEEEEECHHHHH
Q ss_conf 3399998878999
Q gi|254780687|r 93 SNFFIGCSNNLVI 105 (318)
Q Consensus 93 g~~ll~id~~l~~ 105 (318)
+.-+..+.|...+
T Consensus 72 ~~~i~s~GPTTS~ 84 (191)
T PRK06043 72 GWKVVSAGPTTSG 84 (191)
T ss_pred CCEEEECCCCHHH
T ss_conf 7465324886488
No 48
>TIGR02375 pseudoazurin pseudoazurin; InterPro: IPR012745 Pseudoazurin, also called cupredoxin, is a small, blue periplasmic protein with a single bound copper atom. Pseudoazurin is related to plastocyanins. Several examples of pseudoazurin are encoded by a neighbouring gene for, or have been shown to transfer electrons to, copper-containing nitrite reductases (IPR012746 from INTERPRO) of the same species.; GO: 0005507 copper ion binding.
Probab=31.85 E-value=25 Score=14.91 Aligned_cols=42 Identities=17% Similarity=0.387 Sum_probs=16.1
Q ss_pred HCCCCCCEEEC---CCCCCCEE--EEEECCEEEEEEEEEEECCEEEEEEE
Q ss_conf 45799978982---57899738--99999999999999878897899998
Q gi|254780687|r 257 VTLKIGQVIPF---LHREKTCA--ILSANGKEIYSCELGRVGKNYTIRIT 301 (318)
Q Consensus 257 l~L~vGDVI~L---~~~~~~~v--~v~v~g~~~f~g~~G~~~~~~AVrI~ 301 (318)
++.++||+|-| |+.=|... .++=+|-..|++ .+|+.+.|+++
T Consensus 20 i~a~pGDtv~FvPtDKGHNve~iKgm~P~GA~~Fk~---k~Ne~~~vt~~ 66 (123)
T TIGR02375 20 IKAAPGDTVTFVPTDKGHNVETIKGMIPEGAEKFKS---KINEEYTVTLT 66 (123)
T ss_pred EEECCCCEEEEECCCCCCCHHCCCCCCCCCHHHCCC---CCCCCEEEEEE
T ss_conf 665389768775288876700002336522121025---57875588861
No 49
>PRK10691 hypothetical protein; Provisional
Probab=28.18 E-value=38 Score=13.70 Aligned_cols=29 Identities=24% Similarity=0.287 Sum_probs=19.1
Q ss_pred HHHHHCCCCCCEEECCCCCC-------CEEEEEECC
Q ss_conf 98994579997898257899-------738999999
Q gi|254780687|r 253 LKDVVTLKIGQVIPFLHREK-------TCAILSANG 281 (318)
Q Consensus 253 l~dil~L~vGDVI~L~~~~~-------~~v~v~v~g 281 (318)
+...+.|++||+|-...+.. |.+++.++|
T Consensus 176 lS~~~TL~pGDvI~TGTP~GvG~l~~GD~vev~IeG 211 (219)
T PRK10691 176 MSRFFTLKAGDVVLTGTPDGVGPLQSGDELTITFNG 211 (219)
T ss_pred HHCCCCCCCCCEEEECCCCCCCCCCCCCEEEEEEEC
T ss_conf 868886789999985998975417999999999975
No 50
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=24.89 E-value=43 Score=13.32 Aligned_cols=21 Identities=14% Similarity=0.349 Sum_probs=16.3
Q ss_pred ECHHHHHCCCCCCEEECCCCC
Q ss_conf 309899457999789825789
Q gi|254780687|r 251 TTLKDVVTLKIGQVIPFLHRE 271 (318)
Q Consensus 251 l~l~dil~L~vGDVI~L~~~~ 271 (318)
=++...+++++|||+.+.++-
T Consensus 44 DPva~~lg~~~GdvvkI~R~S 64 (79)
T PRK09570 44 DPVVKAIGAKPGDVVKIVRKS 64 (79)
T ss_pred CHHHHHHCCCCCCEEEEEECC
T ss_conf 988898499999689999757
No 51
>smart00157 PRP Major prion protein. The prion protein is a major component of scrapie-associated fibrils in Creutzfeldt-Jakob disease, kuru, Gerstmann-Straussler syndrome and bovine spongiform encephalopathy.
Probab=24.32 E-value=45 Score=13.24 Aligned_cols=72 Identities=10% Similarity=0.193 Sum_probs=39.4
Q ss_pred CCEEEEHHHHHHCCCCCEEEEEEECCCCCCEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf 72566799897116886399999736778339999887899999988727888766666656579899999999999999
Q gi|254780687|r 64 SCQSGKFSHIIHSFKENFVFSQASLSSWSSNFFIGCSNNLVITLLENLLGASHETIPQLYNRSLSTVEKKLAKRTIAQIS 143 (318)
Q Consensus 64 ~ve~~~~~e~i~~l~~p~~~~i~~~~pl~g~~ll~id~~l~~~lid~~lGG~g~~~~~~~~R~lT~iE~~l~~~i~~~~~ 143 (318)
.-|..-|.|.....|+.+.+--++--.-..+ |+.-.++.-.- .-..........||++|.++++++++++|
T Consensus 121 ~~E~Ryy~en~~ryPnqVyYrpvdqy~~qn~--------FV~DCvNitv~-e~~~ttttkgeN~tEtdvkimervveqMC 191 (217)
T smart00157 121 DYEDRYYRENMYRYPNQVYYRPVDQYSNQNN--------FVHDCVNITIK-QHTVTTTTKGENFTETDVKMMERVVEQMC 191 (217)
T ss_pred HHHHHHHHHHHHHCCCCEEECCCCCCCCCCC--------HHHHCEEEEEE-EEEEECCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 3788898877751886235021101366444--------32330233568-78861576787541577999999999999
Q ss_pred H
Q ss_conf 9
Q gi|254780687|r 144 A 144 (318)
Q Consensus 144 ~ 144 (318)
-
T Consensus 192 i 192 (217)
T smart00157 192 I 192 (217)
T ss_pred H
T ss_conf 9
No 52
>PRK08228 L(+)-tartrate dehydratase subunit beta; Validated
Probab=23.98 E-value=45 Score=13.20 Aligned_cols=15 Identities=0% Similarity=-0.188 Sum_probs=7.6
Q ss_pred CCHHHHHHHHHHHHH
Q ss_conf 798999999999740
Q gi|254780687|r 223 QSEDLIDPFARKTYQ 237 (318)
Q Consensus 223 ~~~~~~~~l~~~l~~ 237 (318)
....|++++..-+.+
T Consensus 178 ~~~~~~~r~~~~~~~ 192 (201)
T PRK08228 178 NKKLFNERKDPIVEE 192 (201)
T ss_pred HHHHHHHHHHHHHHH
T ss_conf 899999989999999
No 53
>pfam01191 RNA_pol_Rpb5_C RNA polymerase Rpb5, C-terminal domain. The assembly domain of Rpb5. The archaeal equivalent to this domain is subunit H. Subunit H lacks the N-terminal domain.
Probab=23.88 E-value=45 Score=13.19 Aligned_cols=22 Identities=18% Similarity=0.336 Sum_probs=16.6
Q ss_pred EECHHHHHCCCCCCEEECCCCC
Q ss_conf 4309899457999789825789
Q gi|254780687|r 250 KTTLKDVVTLKIGQVIPFLHRE 271 (318)
Q Consensus 250 ~l~l~dil~L~vGDVI~L~~~~ 271 (318)
.=++...+++++||++.+.+.-
T Consensus 40 ~DPv~~~~g~~~GdiikI~R~s 61 (74)
T pfam01191 40 TDPVARYLGLKPGDVVKITRKS 61 (74)
T ss_pred CCHHHHHHCCCCCCEEEEEECC
T ss_conf 1998898299999789999748
No 54
>KOG0205 consensus
Probab=23.62 E-value=32 Score=14.16 Aligned_cols=14 Identities=36% Similarity=0.921 Sum_probs=5.2
Q ss_pred HHHHCCCCCCEEEC
Q ss_conf 89945799978982
Q gi|254780687|r 254 KDVVTLKIGQVIPF 267 (318)
Q Consensus 254 ~dil~L~vGDVI~L 267 (318)
+|+++++.||+||-
T Consensus 155 GDIlsik~GdIiPa 168 (942)
T KOG0205 155 GDILSIKLGDIIPA 168 (942)
T ss_pred CCEEEECCCCEECC
T ss_conf 75566247877147
No 55
>PRK08186 amidase; Provisional
Probab=23.53 E-value=46 Score=13.15 Aligned_cols=29 Identities=10% Similarity=0.116 Sum_probs=16.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 65798999999999999999999985100
Q gi|254780687|r 125 RSLSTVEKKLAKRTIAQISAVLNQCISTT 153 (318)
Q Consensus 125 R~lT~iE~~l~~~i~~~~~~~l~~a~~~~ 153 (318)
+.+|..|.--..+....+.......|+.+
T Consensus 338 ~~~sA~d~f~a~~~l~~l~r~~~~~~~~~ 366 (600)
T PRK08186 338 ARFSAADAFRALYRLAELRRAAEAVLAGI 366 (600)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 57799999999999999999999998409
No 56
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=23.14 E-value=47 Score=13.10 Aligned_cols=17 Identities=6% Similarity=0.210 Sum_probs=8.0
Q ss_pred EEECCCCH-HHHHHHHHH
Q ss_conf 98425814-678888751
Q gi|254780687|r 300 ITDRINFD-QKSLKNFLH 316 (318)
Q Consensus 300 I~~~i~~~-~~~l~~~~~ 316 (318)
+.|.+.++ .+.++.+++
T Consensus 447 L~D~iRp~a~eaI~~Lr~ 464 (684)
T PRK01122 447 LKDIVKPGIKERFAQLRK 464 (684)
T ss_pred ECCCCCHHHHHHHHHHHH
T ss_conf 268897549999999998
No 57
>TIGR01512 ATPase-IB2_Cd cadmium-translocating P-type ATPase; InterPro: IPR006404 These sequences describe the P-type ATPase primarily responsible for translocating cadmium ions (and other closely-related divalent heavy metals such as cobalt, mercury, lead and zinc) across biological membranes. These transporters are found in prokaryotes and plants. Experimentally characterised members include P37617 from SWISSPROT from Escherichia coli, Q10866 from SWISSPROT from Mycobacterium tuberculosis and Q59998 from SWISSPROT from Synechocystis PCC6803. The cadmium P-type ATPases have been characterised as Type IB based on a phylogenetic analysis which combines the copper-translocating ATPases with the cadmium-translocating species . This family and that describing the copper-ATPases (IPR006403 from INTERPRO) are well separated, and thus the copper-ATPases can be typed as IB1 and the cadmium-ATPases as IB2. ; GO: 0005524 ATP binding, 0016818 hydrolase activity acting on acid anhydrides in phosphorus-containing anhydrides, 0046872 metal ion binding, 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0016020 membrane.
Probab=22.94 E-value=47 Score=13.07 Aligned_cols=18 Identities=11% Similarity=0.110 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHHHHCC
Q ss_conf 999999999999998629
Q gi|254780687|r 38 LGYLYKKFLPKIFKEKMD 55 (318)
Q Consensus 38 ~~e~~~r~l~~~l~~~~~ 55 (318)
+-++..+.-++.+++.+.
T Consensus 34 Le~~a~~~a~~~~~~L~~ 51 (494)
T TIGR01512 34 LEEYAARRARRALKALLE 51 (494)
T ss_pred HHHHHHHHHHHHHHHHHH
T ss_conf 999999999999999986
No 58
>TIGR02644 Y_phosphoryl pyrimidine-nucleoside phosphorylase; InterPro: IPR000053 Two highly similar activities are represented in this group: thymidine phosphorylase (TP, gene deoA, 2.4.2.4 from EC) and pyrimidine-nucleoside phosphorylase (PyNP, gene pdp, 2.4.2.2 from EC). Both are dimeric enzymes that function in the salvage pathway to catalyse the reversible phosphorolysis of pyrimidine nucleosides to the free base and sugar moieties. In the case of thymidine phosphorylase, thymidine (and to a lesser extent, 2'-deoxyuridine) is lysed to produce thymine (or uracil) and 2'-deoxyribose-1-phosphate. Pyrimidine-nucleoside phosphorylase performs the analogous reaction on thymidine (to produce the same products) and uridine (to produce uracil and ribose-1-phosphate). PyNP is typically the only pyrimidine nucleoside phosphorylase encoded by Gram positive bacteria, while eukaryotes and proteobacteria encode two: TP, and the unrelated uridine phosphorylase. In humans, TP was originally characterised as platelet-derived endothelial cell growth factor and gliostatin . Structurally, the enzymes are homodimers, each composed of a rigid all alpha-helix lobe and a mixed alpha-helix/beta-sheet lobe, which are connected by a flexible hinge , . Prior to substrate binding, the lobes are separated by a large cleft. A functional active site and subsequent catalysis occurs upon closing of the cleft. The active site, composed of a phosphate binding site and a (deoxy)ribonucleotide binding site within the cleft region, is highly conserved between the two enzymes of this group. Active site residues (Escherichia coli DeoA numbering) include the phosphate binding Lys84 and Ser86 (close to a glycine-rich loop), Ser113, and Thr123, and the pyrimidine nucleoside-binding Arg171, Ser186, and Lys190. Sequence comparison between the active site residues for both enzymes reveals only one difference , which has been proposed to partially mediate substrate specificity. In TP, position 111 is a methionine, while the analogous position in PyNP is lysine. It should be noted that the uncharacterised archaeal members of this family differ in a number of respects from either of the characterised activities. The residue at position 108 is lysine, indicating the activity might be PyNP-like (though the determinants of substrate specificity have not been fully elucidated). Position 171 is glutamate (negative charge side chain) rather than arginine (positive charge side chain). In addition, a large loop that may "lock in" the substrates within the active site is much smaller than in the characterised members. It is not clear what effect these and other differences have on activity and specificity.; GO: 0006206 pyrimidine base metabolic process.
Probab=22.67 E-value=24 Score=15.03 Aligned_cols=14 Identities=14% Similarity=0.045 Sum_probs=7.1
Q ss_pred CCEEEEEEEEEEHH
Q ss_conf 78137999985047
Q gi|254780687|r 191 ENVASSFVLIIPQE 204 (318)
Q Consensus 191 ~~~~g~~~l~lP~~ 204 (318)
-+..|.+.-+-...
T Consensus 346 A~~~G~i~~~~a~~ 359 (425)
T TIGR02644 346 AEKSGYISEIDAEE 359 (425)
T ss_pred CCCCCEEEECCHHH
T ss_conf 15661365107889
No 59
>TIGR01196 edd phosphogluconate dehydratase; InterPro: IPR004786 Two dehydratases, dihydroxy-acid dehydratase (gene ilvD or ILV3) and 6-phosphogluconate dehydratase (gene edd) have been shown to be evolutionary related . Dihydroxy-acid dehydratase catalyzes the fourth step in the biosynthesis of isoleucine and valine, the dehydratation of 2,3-dihydroxy-isovaleic acid into alpha-ketoisovaleric acid. 6-Phosphogluconate dehydratase catalyzes the first step in the Entner-Doudoroff pathway, the dehydratation of 6-phospho-D-gluconate into 6-phospho-2-dehydro-3-deoxy-D-gluconate. Another protein containing this signature is the Escherichia coli hypothetical protein yjhG. The N-terminal part of the proteins contains a cysteine that could be involved in the binding of a 2Fe-2S iron-sulphur cluster . This family defines the 6-phosphogluconate dehydratases.; GO: 0004456 phosphogluconate dehydratase activity, 0009255 Entner-Doudoroff pathway.
Probab=22.66 E-value=36 Score=13.85 Aligned_cols=31 Identities=10% Similarity=0.029 Sum_probs=25.2
Q ss_pred CHHHHHCCCCCCEEECCCCCCCEEEEEECCEE
Q ss_conf 09899457999789825789973899999999
Q gi|254780687|r 252 TLKDVVTLKIGQVIPFLHREKTCAILSANGKE 283 (318)
Q Consensus 252 ~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~ 283 (318)
.=+-|.+++-||+|.+|-.-+ .+.|+|++..
T Consensus 539 ~GG~iAkirdGD~iR~D~~nG-~L~VLv~d~E 569 (614)
T TIGR01196 539 EGGPIAKIRDGDLIRVDAVNG-ELNVLVDDAE 569 (614)
T ss_pred CCCCEEEEECCCEEEECCCCC-EEEEEHHHHH
T ss_conf 589747862387889807788-0442147785
No 60
>KOG4225 consensus
Probab=21.00 E-value=52 Score=12.82 Aligned_cols=41 Identities=20% Similarity=0.368 Sum_probs=28.0
Q ss_pred HHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEE
Q ss_conf 89945799978982578997389999999999999987889789
Q gi|254780687|r 254 KDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYT 297 (318)
Q Consensus 254 ~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~A 297 (318)
.|=|.|+.||||..-.+.||.=-+ |.-.=+|++|+.-+||-
T Consensus 446 edeLEl~egDii~VmeKcddgWfv---Gts~rtg~fGtFPgnyV 486 (489)
T KOG4225 446 EDELELREGDIIDVMEKCDDGWFV---GTSRRTGKFGTFPGNYV 486 (489)
T ss_pred CHHHEECCCCEEEEEECCCCCCEE---CCCEECCCCCCCCCCCC
T ss_conf 211000248778603003676144---32111253332574232
No 61
>COG0213 DeoA Thymidine phosphorylase [Nucleotide transport and metabolism]
Probab=20.90 E-value=52 Score=12.81 Aligned_cols=20 Identities=5% Similarity=0.004 Sum_probs=10.7
Q ss_pred HHHCCCCCEEEEEEECC-CCC
Q ss_conf 97116886399999736-778
Q gi|254780687|r 73 IIHSFKENFVFSQASLS-SWS 92 (318)
Q Consensus 73 ~i~~l~~p~~~~i~~~~-pl~ 92 (318)
.-+.+.-.+...+.++. |+.
T Consensus 225 ig~~~g~~t~a~iTdm~QPLG 245 (435)
T COG0213 225 IGKGLGRKTTAVITDMNQPLG 245 (435)
T ss_pred HHHHCCCEEEEEECCCCCCHH
T ss_conf 998639758999867997116
No 62
>TIGR01647 ATPase-IIIA_H plasma-membrane proton-efflux P-type ATPase; InterPro: IPR006534 These sequences represent the plasma membrane proton efflux P-type ATPase found in plants, fungi, protozoa, slime molds and archaea. The best studied representative is from yeast . ; GO: 0016887 ATPase activity, 0015992 proton transport, 0016021 integral to membrane.
Probab=20.87 E-value=29 Score=14.50 Aligned_cols=53 Identities=26% Similarity=0.342 Sum_probs=33.3
Q ss_pred EEEEEECHHHHHCCCCCCEEECCCCCCCEE----------EEEEC---------------CEEEEEEEEEEECCEEEE
Q ss_conf 812343098994579997898257899738----------99999---------------999999999878897899
Q gi|254780687|r 246 INLKKTTLKDVVTLKIGQVIPFLHREKTCA----------ILSAN---------------GKEIYSCELGRVGKNYTI 298 (318)
Q Consensus 246 Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v----------~v~v~---------------g~~~f~g~~G~~~~~~AV 298 (318)
+--..|=-+|+..|+-|||||=|....+.- .+.|+ |.-.|.|...+.|+-.||
T Consensus 112 ~~A~~LVPGDvv~l~~GdivPAD~~l~~g~~qhPfdheevy~~vDqaALTGESLPV~K~~GD~~ySGS~vk~GE~~a~ 189 (835)
T TIGR01647 112 IPAKELVPGDVVRLKLGDIVPADCRLFEGDPQHPFDHEEVYIKVDQAALTGESLPVTKKIGDIAYSGSTVKQGEAEAV 189 (835)
T ss_pred CCCCCCCCCCEEEEECCCEEECCCEEECCCCCCCCCCCCCCEEEECHHHCCCCCCCCCCCCCCCCCCHHHCCCCEEEE
T ss_conf 150227976389872076401240672577788876453433762211047767545678980234311112760589
No 63
>COG3234 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.81 E-value=52 Score=12.79 Aligned_cols=54 Identities=13% Similarity=0.095 Sum_probs=40.0
Q ss_pred CHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEE-EEEEEE-ECCEEEEEEEECCC
Q ss_conf 0989945799978982578997389999999999-999987-88978999984258
Q gi|254780687|r 252 TLKDVVTLKIGQVIPFLHREKTCAILSANGKEIY-SCELGR-VGKNYTIRITDRIN 305 (318)
Q Consensus 252 ~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f-~g~~G~-~~~~~AVrI~~~i~ 305 (318)
--+|+-+--|||++-++++.|.-+-|.+++--.| +|..+. -++-++|+..+-++
T Consensus 135 i~kdvnqAlPGDl~ffdqgddqHLMIwmgr~i~YHTG~~t~td~gmR~V~~~qLm~ 190 (215)
T COG3234 135 IGKDVNQALPGDLIFFDQGDDQHLMIWMGRYIAYHTGSATKTDNGMRAVSLQQLMT 190 (215)
T ss_pred HHHHHHHHCCCCEEEEECCCCEEEEEEECCEEEEECCCCCCCCCCEEEEEHHHHHC
T ss_conf 77646550887579874688517999854568996267777988545678999525
No 64
>cd06555 ASCH_PF0470_like ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=20.71 E-value=52 Score=12.78 Aligned_cols=17 Identities=24% Similarity=0.335 Sum_probs=12.5
Q ss_pred HHHHCCCCCCEEECCCC
Q ss_conf 89945799978982578
Q gi|254780687|r 254 KDVVTLKIGQVIPFLHR 270 (318)
Q Consensus 254 ~dil~L~vGDVI~L~~~ 270 (318)
....++++||+|.+...
T Consensus 27 ~kr~~ik~GD~I~F~~~ 43 (109)
T cd06555 27 EKRQQIKVGDKILFNDL 43 (109)
T ss_pred HHHHHCCCCCEEEEEEC
T ss_conf 67871899999999987
Done!