Query 023968
Match_columns 274
No_of_seqs 123 out of 1071
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 07:58:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023968.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023968hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00182 tatC Sec-independent 100.0 2.2E-63 4.8E-68 449.6 30.9 236 37-274 14-249 (249)
2 PRK10921 twin-arginine protein 100.0 3.1E-62 6.6E-67 444.4 29.7 232 42-274 4-238 (258)
3 COG0805 TatC Sec-independent p 100.0 4.6E-60 9.9E-65 427.1 27.4 235 39-274 2-242 (255)
4 TIGR01912 TatC-Arch Twin argin 100.0 1.1E-59 2.3E-64 423.0 29.6 228 47-274 2-237 (237)
5 TIGR00945 tatC Twin arginine t 100.0 6.4E-58 1.4E-62 406.2 26.9 215 47-262 1-215 (215)
6 PF00902 TatC: Sec-independent 100.0 5.5E-54 1.2E-58 380.8 24.6 209 48-257 1-215 (215)
7 PF09586 YfhO: Bacterial membr 80.4 31 0.00067 36.3 13.1 67 105-176 177-243 (843)
8 TIGR01006 polys_exp_MPA1 polys 60.2 15 0.00033 32.3 4.6 35 40-74 3-37 (226)
9 COG3256 NorB Nitric oxide redu 59.6 1.2E+02 0.0026 31.6 11.1 107 120-242 392-501 (717)
10 PF03574 Peptidase_S48: Peptid 52.2 12 0.00027 30.8 2.4 26 37-62 115-141 (149)
11 PF07444 Ycf66_N: Ycf66 protei 50.1 83 0.0018 24.1 6.5 44 111-160 9-53 (84)
12 COG2322 Predicted membrane pro 49.3 1.8E+02 0.0038 25.3 9.1 42 116-158 127-168 (177)
13 PF06836 DUF1240: Protein of u 45.1 58 0.0013 25.4 5.1 34 115-148 12-45 (95)
14 PF00902 TatC: Sec-independent 38.2 2.8E+02 0.006 24.3 10.6 46 183-230 54-99 (215)
15 PRK13245 hetR heterocyst diffe 33.5 37 0.0008 30.9 2.6 32 32-63 162-195 (299)
16 PRK09672 phage exclusion prote 32.4 20 0.00044 33.7 0.9 18 7-26 132-149 (305)
17 COG4485 Predicted membrane pro 31.7 4.7E+02 0.01 27.9 10.4 59 112-175 197-255 (858)
18 PLN00174 predicted protein; Pr 31.1 1.2E+02 0.0026 26.0 5.2 30 107-136 72-102 (160)
19 PF11712 Vma12: Endoplasmic re 26.8 3.6E+02 0.0077 22.1 8.6 36 42-77 63-101 (142)
20 PF09726 Macoilin: Transmembra 25.8 4E+02 0.0086 28.2 9.0 75 98-174 22-103 (697)
21 COG4132 ABC-type uncharacteriz 24.2 5.6E+02 0.012 23.5 10.1 99 101-215 56-168 (282)
22 PF09581 Spore_III_AF: Stage I 23.7 27 0.00058 29.9 0.0 26 218-244 13-38 (188)
23 PRK10381 LPS O-antigen length 23.2 2.4E+02 0.0053 27.2 6.5 37 39-75 21-57 (377)
24 PRK10921 twin-arginine protein 21.9 6.1E+02 0.013 23.1 10.7 33 184-216 62-94 (258)
25 PF11705 RNA_pol_3_Rpc31: DNA- 21.5 1.2E+02 0.0026 27.0 3.8 51 8-61 18-68 (233)
26 PF03311 Cornichon: Cornichon 20.1 2.2E+02 0.0048 23.2 4.8 29 107-135 66-95 (128)
No 1
>CHL00182 tatC Sec-independent translocase component C; Provisional
Probab=100.00 E-value=2.2e-63 Score=449.63 Aligned_cols=236 Identities=53% Similarity=0.976 Sum_probs=226.4
Q ss_pred CCCCCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhccccccCceeEEcCcchHHHHHHHHHHHHHHH
Q 023968 37 ELLPDDKEMSIFDHLEELRQRIFVSVLAVGAAILGCFAYSKELIMFLEAPVKSEGVRFLQLAPGEFFFTTLKVSGYCGLL 116 (274)
Q Consensus 37 ~~~~~~~~m~l~~HL~ELR~Rli~~li~~~i~~~~~~~~~~~li~~l~~p~~~~~~~li~t~~~E~f~~~lklsl~~~~~ 116 (274)
|.+++|+|||+.||++|||+|+++++++++++++++|++++++++++.+|.. +.++++|+++|+|++++|+|+++|+.
T Consensus 14 ~~~~~~~~~~l~~HL~ELR~Rli~~li~~~i~~~v~~~~~~~l~~~l~~p~~--~~~li~t~~~E~f~~~ikls~~~g~~ 91 (249)
T CHL00182 14 DIEDPDLEMPLSEHLEELRQRLFLSLSILLLLTIVCFINVKSIVEILQAPAK--GIKFLQLSPGEYFFSSIKISFYTGLL 91 (249)
T ss_pred ccCCCccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc--cCceEEcCchHHHHHHHHHHHHHHHH
Confidence 3445567899999999999999999999999999999999999999999874 34699999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchhhhhcHHHHHHHHHHH
Q 023968 117 LGSPVILYEIIAFVLPGLTRAERRFLGPIVLGSSVLFYAGIAFSYWVLTPAALNFFVNYAEGVVESLWSIDQYFEFVLVL 196 (274)
Q Consensus 117 ~~~P~i~yqlw~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~y~~ilP~~~~F~~~f~~~~i~~~~~i~~Y~~f~~~~ 196 (274)
+++|+++||+|+|++||||+||||+.++++..+.++|.+|++|+|++++|.+++|+.+++.+++++++++++|+++++++
T Consensus 92 ~a~P~i~yqiw~Fi~PgLy~~Er~~~~~~~~~s~~lF~~G~~f~y~vvlP~~~~Fl~~f~~~~~~~~~~i~~Yl~f~~~~ 171 (249)
T CHL00182 92 ISSPFIIYQIILFILPGLTKKERKIILPLLISSLVLFGLGLIFAYFVLVPAALNFFINYGSDVVEPLWSFDQYFDFILVL 171 (249)
T ss_pred HHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhhhccHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999888889999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCHHHHHhchhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 023968 197 MFSTGLSFQVPVIQLLLGQVGLVTSDQMLSIWRYVVVGAVIAAAVLTPSTDPVTQMLLAAPLLGLYFGGAWMVKLTGR 274 (274)
Q Consensus 197 ~l~fGl~FqlPli~~~L~~~giv~~~~l~~~RR~~~v~~~iiaAiiTP~pDiisqillaipl~~LyEi~i~i~~~v~~ 274 (274)
++++|++||+|++++++++.|++|+++++|+||+++++++++||++|||||++||+++|+||+++||+|++++|++++
T Consensus 172 ~l~fGl~FelPvi~~~L~~~givs~~~L~~~Rr~~~v~~~i~aAiiTP~pD~~sqi~laiPl~lLYEisI~i~~~~~~ 249 (249)
T CHL00182 172 FFSTGLAFQIPIIQIVLGLLNIISSKQMLSAWRYVILVSTIVGAILTPSTDPLTQLLLSLAILLLYFSGVIVLKLLKK 249 (249)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCcCHHHHHhhCchHhHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 999999999999999999999999999999999999999999999999889999999999999999999999999864
No 2
>PRK10921 twin-arginine protein translocation system subunit TatC; Provisional
Probab=100.00 E-value=3.1e-62 Score=444.36 Aligned_cols=232 Identities=33% Similarity=0.609 Sum_probs=224.1
Q ss_pred CcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhccccc---cCceeEEcCcchHHHHHHHHHHHHHHHHH
Q 023968 42 DKEMSIFDHLEELRQRIFVSVLAVGAAILGCFAYSKELIMFLEAPVKS---EGVRFLQLAPGEFFFTTLKVSGYCGLLLG 118 (274)
Q Consensus 42 ~~~m~l~~HL~ELR~Rli~~li~~~i~~~~~~~~~~~li~~l~~p~~~---~~~~li~t~~~E~f~~~lklsl~~~~~~~ 118 (274)
|++||+.||++|||+|+++++++++++++++|++++++++++.+|..+ ++.++++|+++|+|++++|+|+++|++++
T Consensus 4 ~~~~~l~~HL~ELR~Rli~~li~~~i~~~~~~~~~~~l~~~l~~pl~~~~~~~~~li~t~~~e~f~~~lk~sl~~g~~la 83 (258)
T PRK10921 4 EDTQPLISHLIELRKRLLNCIIAVLVIFLALVYFANDIYHLVSAPLIKQLPQGATMIATDVASPFFTPIKLTFMVSLILS 83 (258)
T ss_pred cccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcceeecCchHHHHHHHHHHHHHHHHHH
Confidence 688999999999999999999999999999999999999999999742 35689999999999999999999999999
Q ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchhhhhcHHHHHHHHHHHHH
Q 023968 119 SPVILYEIIAFVLPGLTRAERRFLGPIVLGSSVLFYAGIAFSYWVLTPAALNFFVNYAEGVVESLWSIDQYFEFVLVLMF 198 (274)
Q Consensus 119 ~P~i~yqlw~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~y~~ilP~~~~F~~~f~~~~i~~~~~i~~Y~~f~~~~~l 198 (274)
+|+++||+|+|++||||+||||+.++++..+.++|++|+.|+|++++|.+++|+.+++.+++++.+++++|++|++++++
T Consensus 84 ~P~ilyqiw~Fi~PgLy~~Err~~~~~~~~s~~LF~~G~~f~y~~vlP~~~~Fl~~f~~~~~~~~~~i~~Y~~fv~~~~l 163 (258)
T PRK10921 84 APVILYQVWAFIAPALYKHERRLVVPLLVSSSLLFYIGMAFAYFVVFPLAFGFLAKTAPEGVQVSTDIASYLSFVMALFM 163 (258)
T ss_pred HHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcchhhhhhhhhHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999988789999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCHHHHHhchhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 023968 199 STGLSFQVPVIQLLLGQVGLVTSDQMLSIWRYVVVGAVIAAAVLTPSTDPVTQMLLAAPLLGLYFGGAWMVKLTGR 274 (274)
Q Consensus 199 ~fGl~FqlPli~~~L~~~giv~~~~l~~~RR~~~v~~~iiaAiiTP~pDiisqillaipl~~LyEi~i~i~~~v~~ 274 (274)
++|++||+|++++++++.|++++++++|+||+++++++++||++|| ||++||+++|+||++|||+|++++++.+|
T Consensus 164 ~fGl~FelPli~~~L~~~giv~~~~l~~~Rr~~~v~~~iiaAiiTP-pD~isq~llaiPl~lLYEisI~i~~~~~~ 238 (258)
T PRK10921 164 AFGVSFEVPVAIVLLCWMGVTTPEDLRKKRPYVLVGAFVVGMLLTP-PDVFSQTLLAIPMYCLFEIGVFFSRFYVG 238 (258)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCHHHHHhcCcHHhHHHHHHHHHcCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999999999999999999999999999999999 79999999999999999999999998654
No 3
>COG0805 TatC Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]
Probab=100.00 E-value=4.6e-60 Score=427.09 Aligned_cols=235 Identities=37% Similarity=0.674 Sum_probs=225.2
Q ss_pred CCCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhcccc-c---cC-ceeEEcCcchHHHHHHHHHHHH
Q 023968 39 LPDDKEMSIFDHLEELRQRIFVSVLAVGAAILGCFAYSKELIMFLEAPVK-S---EG-VRFLQLAPGEFFFTTLKVSGYC 113 (274)
Q Consensus 39 ~~~~~~m~l~~HL~ELR~Rli~~li~~~i~~~~~~~~~~~li~~l~~p~~-~---~~-~~li~t~~~E~f~~~lklsl~~ 113 (274)
+++|+++|+.||+.|||+|+.++++++++++.+++++.+++..++.+|+. . ++ .++++++|+|++++++|+|++.
T Consensus 2 ~~~~~~~pl~~hL~eLr~rL~~~~~~~~v~f~~~~~~~~~l~~~l~~p~~~~~l~~~~~~li~~~p~e~~~~~ik~a~~~ 81 (255)
T COG0805 2 SMVEELQPLIEHLIELRKRLLRILIAFIVAFLILFYFAKDLYELLVAPLTYAQLPEGAVELIATSPTEPFFTYIKLALFA 81 (255)
T ss_pred CcccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhcccccceeEEcCcHHHHHHHHHHHHHH
Confidence 45677888999999999999999999999999999999999999999975 2 22 4799999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-ccchhhhhcHHHHHHH
Q 023968 114 GLLLGSPVILYEIIAFVLPGLTRAERRFLGPIVLGSSVLFYAGIAFSYWVLTPAALNFFVNYA-EGVVESLWSIDQYFEF 192 (274)
Q Consensus 114 ~~~~~~P~i~yqlw~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~y~~ilP~~~~F~~~f~-~~~i~~~~~i~~Y~~f 192 (274)
|+.+++|+++||+|+|++||||+||||..++++..+.+||++|++|+|++++|.+++|+.+++ ++++++.+++++|++|
T Consensus 82 gl~~a~P~i~yq~w~FiaPGLy~~Err~~~~~~~~s~~LF~~G~~faYfvv~P~~~~F~~~~~~~~~~~~~~~i~~y~~f 161 (255)
T COG0805 82 GLLLALPVILYQLWAFIAPGLYKHERRLILPLLIPSFVLFLLGAAFAYFVVFPLVFKFLLSFAAPDGVSPALSISKYLSF 161 (255)
T ss_pred HHHHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccceeeeecHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999998 5689999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHhchhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023968 193 VLVLMFSTGLSFQVPVIQLLLGQVGLVTSDQMLSIWRYVVVGAVIAAAVLTPSTDPVTQMLLAAPLLGLYFGGAWMVKLT 272 (274)
Q Consensus 193 ~~~~~l~fGl~FqlPli~~~L~~~giv~~~~l~~~RR~~~v~~~iiaAiiTP~pDiisqillaipl~~LyEi~i~i~~~v 272 (274)
+++++++||++||+|+++++|++.|++++++++++|||++++++++||++|| ||++||+++|+||++|||+|++++|++
T Consensus 162 ~l~l~~~FGv~FElPvv~~~L~~~Giv~~~~L~~~rr~~iv~~fViaaviTP-pd~~sq~llaiPl~lLyElsi~~~r~~ 240 (255)
T COG0805 162 VLTLLLAFGVAFELPVVIVLLTRLGIVTPETLKKKRRYAIVAAFVIAAIITP-PDVLSQILLAIPLILLYELSILISRFV 240 (255)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHcCCeeeehHHHHHHHcCC-CchHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 9999999999999999999999999999999999999999999999999999 899999999999999999999999998
Q ss_pred cC
Q 023968 273 GR 274 (274)
Q Consensus 273 ~~ 274 (274)
+|
T Consensus 241 ~~ 242 (255)
T COG0805 241 EK 242 (255)
T ss_pred hc
Confidence 75
No 4
>TIGR01912 TatC-Arch Twin arginine targeting (Tat) protein translocase TatC, Archaeal clade. This model represents the TatC translocase component of the Sec-independent protein translocation system. This system is responsible for translocation of folded proteins, often with bound cofactors across the periplasmic membrane. A related model (TIGR00945) represents the bacterial clade of this family. TatC is often found (in bacteria) in a gene cluster with the two other components of the system, TatA/E (TIGR01411) and TatB (TIGR01410). A model also exists for the Twin-arginine signal sequence (TIGR01409).
Probab=100.00 E-value=1.1e-59 Score=423.05 Aligned_cols=228 Identities=27% Similarity=0.478 Sum_probs=219.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh--cchHHHHHHHhcccccc-----CceeEEcCcchHHHHHHHHHHHHHHHHHH
Q 023968 47 IFDHLEELRQRIFVSVLAVGAAILGCF--AYSKELIMFLEAPVKSE-----GVRFLQLAPGEFFFTTLKVSGYCGLLLGS 119 (274)
Q Consensus 47 l~~HL~ELR~Rli~~li~~~i~~~~~~--~~~~~li~~l~~p~~~~-----~~~li~t~~~E~f~~~lklsl~~~~~~~~ 119 (274)
+.+|++|||+|+++++++++++++++| ++++++++++.+|+.+. +.++++++++|+|++++|+|++.|+++++
T Consensus 2 ~~~Hl~ELR~Rli~~~i~~~~~~~~~~~~~~~~~i~~~l~~p~~~~~~~~~~~~li~~~~~e~f~~~lk~s~~~g~~~~~ 81 (237)
T TIGR01912 2 LLIALATFRLILLLVALAIVTGSVLGWLTIFTPFIIAALRESILPLLAYHVIATLIAPSPFAALELRIKSAFFIGLLLAS 81 (237)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccCceeEEcCchHHHHHHHHHHHHHHHHHHH
Confidence 579999999999999999999999999 99999999999986432 34799999999999999999999999999
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc-cchhhhhcHHHHHHHHHHHHH
Q 023968 120 PVILYEIIAFVLPGLTRAERRFLGPIVLGSSVLFYAGIAFSYWVLTPAALNFFVNYAE-GVVESLWSIDQYFEFVLVLMF 198 (274)
Q Consensus 120 P~i~yqlw~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~y~~ilP~~~~F~~~f~~-~~i~~~~~i~~Y~~f~~~~~l 198 (274)
|+++||+|+|++||||+||||..++++..+.++|++|+.|+|++++|.+++|+.+++. .++++.+++++|+++++++++
T Consensus 82 P~i~yqiw~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~y~~vlP~~~~f~~~f~~~~~~~~~~~i~~Y~~f~~~~~~ 161 (237)
T TIGR01912 82 PVLAYEAYRFIKPALKPHERRQVRLLGVIAVGLFAFGALFAYWVIFPLIFQILFEFASPLGLSAIMDIRKYTSFALKLIL 161 (237)
T ss_pred HHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccceeecHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999975 468999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCHHHHHhchhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 023968 199 STGLSFQVPVIQLLLGQVGLVTSDQMLSIWRYVVVGAVIAAAVLTPSTDPVTQMLLAAPLLGLYFGGAWMVKLTGR 274 (274)
Q Consensus 199 ~fGl~FqlPli~~~L~~~giv~~~~l~~~RR~~~v~~~iiaAiiTP~pDiisqillaipl~~LyEi~i~i~~~v~~ 274 (274)
++|++||+|+++.++++.|++|+++++|+||+++++++++||++|||||++||+++|+||+++||+|++++|+.+|
T Consensus 162 ~fGl~FelPvv~~~L~~~giv~~~~l~~~rr~~~v~~~i~aAiiTP~pD~~sq~~laiPl~~LYeisi~i~~~~~k 237 (237)
T TIGR01912 162 SFGLAFETPVVLVFLTRLGVVSASTLVDYWRVIILVVLVFGAVITPDPDVVSMILLAIPLIALYGLALVISKRVEK 237 (237)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCHHHHHHhhhHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhcC
Confidence 9999999999999999999999999999999999999999999999889999999999999999999999999876
No 5
>TIGR00945 tatC Twin arginine targeting (Tat) protein translocase TatC. This model represents the TatC translocase component of the Sec-independent protein translocation system. This system is responsible for translocation of folded proteins, often with bound cofactors across the periplasmic membrane. A related model (TIGR01912) represents the archaeal clade of this family. TatC is often found in a gene cluster with the two other components of the system, TatA/E (TIGR01411) and TatB (TIGR01410). A model also exists for the Twin-arginine signal sequence (TIGR01409).
Probab=100.00 E-value=6.4e-58 Score=406.24 Aligned_cols=215 Identities=57% Similarity=0.957 Sum_probs=209.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhccccccCceeEEcCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023968 47 IFDHLEELRQRIFVSVLAVGAAILGCFAYSKELIMFLEAPVKSEGVRFLQLAPGEFFFTTLKVSGYCGLLLGSPVILYEI 126 (274)
Q Consensus 47 l~~HL~ELR~Rli~~li~~~i~~~~~~~~~~~li~~l~~p~~~~~~~li~t~~~E~f~~~lklsl~~~~~~~~P~i~yql 126 (274)
+.||++|||+|++|++++++++++++|++++++++++.+|..+.+.++++|+|+|+|++++|+|+++|+.+++|+++||+
T Consensus 1 l~~Hl~ELR~Rl~~~~i~~~~~~~i~~~~~~~l~~~l~~p~~~~~~~li~t~~~e~f~~~lk~s~~~g~~~~~P~i~yqi 80 (215)
T TIGR00945 1 LFEHLEELRKRLLISLIAFLVAFFICFYFSKPIIELLQAPVLALGVTFIATSPTEPFFTYIKLSLIVGIILSSPVILYQI 80 (215)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEecCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47999999999999999999999999999999999999998766788999999999999999999999999999999999
Q ss_pred HHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchhhhhcHHHHHHHHHHHHHHHHHHHHH
Q 023968 127 IAFVLPGLTRAERRFLGPIVLGSSVLFYAGIAFSYWVLTPAALNFFVNYAEGVVESLWSIDQYFEFVLVLMFSTGLSFQV 206 (274)
Q Consensus 127 w~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~y~~ilP~~~~F~~~f~~~~i~~~~~i~~Y~~f~~~~~l~fGl~Fql 206 (274)
|+|++||||+||||+.++++..+.++|.+|++|+|++++|.+++|+.+++.+++++.+++++|++++.++++++|++||+
T Consensus 81 w~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~y~~vlP~~~~F~~~~~~~~~~~~~~i~~y~~f~~~~~l~fGl~Fql 160 (215)
T TIGR00945 81 WAFILPGLYEHERRLLLPLLLGSILLFLAGLAFAYYVLFPAALNFLLTYGADVVEILLSIDQYFEFVLKLLFSFGVAFQV 160 (215)
T ss_pred HHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999998888999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCCHHHHHhchhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q 023968 207 PVIQLLLGQVGLVTSDQMLSIWRYVVVGAVIAAAVLTPSTDPVTQMLLAAPLLGLY 262 (274)
Q Consensus 207 Pli~~~L~~~giv~~~~l~~~RR~~~v~~~iiaAiiTP~pDiisqillaipl~~Ly 262 (274)
|+++.++++.|++|+++++|+||+++++++++||++|| ||++||+++++||++||
T Consensus 161 Pli~~~l~~~giv~~~~l~~~Rr~~~~~~~i~aa~iTP-pD~~sq~~la~Pl~~LY 215 (215)
T TIGR00945 161 PVLQVLLGRLGIVTYEQLRSKRRYVIVGAFVIGAILTP-PDPLSQILLAIPLLLLY 215 (215)
T ss_pred HHHHHHHHHcCCCCHHHHHhhhHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHHC
Confidence 99999999999999999999999999999999999999 79999999999999987
No 6
>PF00902 TatC: Sec-independent protein translocase protein (TatC); InterPro: IPR002033 Proteins encoded by the mttABC operon (formerly yigTUW), mediate a novel Sec-independent membrane targeting and translocation system in Escherichia coli that interacts with cofactor-containing redox proteins having a S/TRRXFLK "twin arginine" leader motif. This family contains the E. coli mttB gene (TATC) []. A functional Tat system or Delta pH-dependent pathway requires three integral membrane proteins: TatA/Tha4, TatB/Hcf106 and TatC/cpTatC. The TatC protein is essential for the function of both pathways. It might be involved in twin-arginine signal peptide recognition, protein translocation and proton translocation. Sequence analysis predicts that TatC contains six transmembrane helices (TMHs), and experimental data confirmed that N and C termini of TatC or cpTatC are exposed to the cytoplasmic or stromal face of the membrane. The cytoplasmic N terminus and the first cytoplasmic loop region of the E. coli TatC protein are essential for protein export. At least two TatC molecules co-exist within each Tat translocon [, ].
Probab=100.00 E-value=5.5e-54 Score=380.77 Aligned_cols=209 Identities=41% Similarity=0.728 Sum_probs=201.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhccccccC-----ceeEEcCcchHHHHHHHHHHHHHHHHHHHHH
Q 023968 48 FDHLEELRQRIFVSVLAVGAAILGCFAYSKELIMFLEAPVKSEG-----VRFLQLAPGEFFFTTLKVSGYCGLLLGSPVI 122 (274)
Q Consensus 48 ~~HL~ELR~Rli~~li~~~i~~~~~~~~~~~li~~l~~p~~~~~-----~~li~t~~~E~f~~~lklsl~~~~~~~~P~i 122 (274)
+||++|||+|++|++++++++++++|++++++++++.+|+.+.. .++++|+++|+|++++|+|+++|+++++|++
T Consensus 1 ~~Hl~ELr~Rl~~~li~~~i~~~v~~~~~~~l~~~l~~p~~~~~~~~~~~~li~~~~~e~f~~~lk~s~~~~~~~~~P~~ 80 (215)
T PF00902_consen 1 WEHLEELRYRLIYSLISFIIAFIVCFWFSEELIYFLIKPLPQILPSQNSVKLIFTSPTEAFFTYLKLSFFLGLIISLPYI 80 (215)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhccccccceEEECChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 58999999999999999999999999999999999999987532 4899999999999999999999999999999
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc-hhhhhcHHHHHHHHHHHHHHHH
Q 023968 123 LYEIIAFVLPGLTRAERRFLGPIVLGSSVLFYAGIAFSYWVLTPAALNFFVNYAEGV-VESLWSIDQYFEFVLVLMFSTG 201 (274)
Q Consensus 123 ~yqlw~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~y~~ilP~~~~F~~~f~~~~-i~~~~~i~~Y~~f~~~~~l~fG 201 (274)
+||+|+|++||||+||||+.+++...+.++|++|+.++|++++|.+++|+++++.++ +++++++++|++++.++++++|
T Consensus 81 ~yq~w~Fi~PgL~~~Er~~~~~~~~~~~~lf~~g~~f~y~~ilP~~~~fl~~f~~~~~~~~~~~i~~y~~f~~~~~~~~g 160 (215)
T PF00902_consen 81 LYQIWAFIAPGLYKHERRFFKKFVLISFILFLLGVAFAYFVILPLILKFLLSFSPTSGIQPEPSISSYLNFVIQFLLIFG 160 (215)
T ss_pred HHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhhccHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999998765 4999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhcCCCHHHHHhchhHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 023968 202 LSFQVPVIQLLLGQVGLVTSDQMLSIWRYVVVGAVIAAAVLTPSTDPVTQMLLAAP 257 (274)
Q Consensus 202 l~FqlPli~~~L~~~giv~~~~l~~~RR~~~v~~~iiaAiiTP~pDiisqillaip 257 (274)
++||+|+++.++++.|++|+++++|+||+++++++++||++|| ||++||+++++|
T Consensus 161 l~FqlPli~~~L~~~giv~~~~l~~~rr~~~~~~~iiaa~itP-pD~~sql~l~iP 215 (215)
T PF00902_consen 161 LIFQLPLIMFFLVRLGIVSPKFLRKYRRYAYFGIFIIAAFITP-PDPISQLLLAIP 215 (215)
T ss_pred HHHHHHHHHHHHHHcCCcCHHHHHHhhhHHHHHHHHHHHHhcC-chHHHHHHHhCC
Confidence 9999999999999999999999999999999999999999999 899999999987
No 7
>PF09586 YfhO: Bacterial membrane protein YfhO; InterPro: IPR018580 The yfhO gene is transcribed in Difco sporulation medium and the transcription is affected by the YvrGHb two-component system []. Some members of this family have been annotated as putative ABC transporter permease proteins.
Probab=80.44 E-value=31 Score=36.31 Aligned_cols=67 Identities=16% Similarity=0.273 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 023968 105 TTLKVSGYCGLLLGSPVILYEIIAFVLPGLTRAERRFLGPIVLGSSVLFYAGIAFSYWVLTPAALNFFVNYA 176 (274)
Q Consensus 105 ~~lklsl~~~~~~~~P~i~yqlw~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~y~~ilP~~~~F~~~f~ 176 (274)
..+-.+++.|.+.++-..+|-+++++. ++.|+..+..... .+-.++|+..+=+.++|.+..++.+-.
T Consensus 177 l~~i~nfYf~ym~~if~~iY~~~r~~~----~~~k~~~~~~~~~-~~~~ilg~~lsa~~llP~~~~~l~~~r 243 (843)
T PF09586_consen 177 LALISNFYFAYMICIFLVIYFLIRYFF----KNWKNFFKKILRF-IGSSILGVGLSAFLLLPTILSLLQSKR 243 (843)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 334556777777777778887777762 5555555554443 444667888888899999999887654
No 8
>TIGR01006 polys_exp_MPA1 polysaccharide export protein, MPA1 family, Gram-positive type. This family contains members from Low GC Gram-positive bacteria; they are proposed to have a function in the export of complex polysaccharides.
Probab=60.25 E-value=15 Score=32.32 Aligned_cols=35 Identities=14% Similarity=0.333 Sum_probs=27.8
Q ss_pred CCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 023968 40 PDDKEMSIFDHLEELRQRIFVSVLAVGAAILGCFA 74 (274)
Q Consensus 40 ~~~~~m~l~~HL~ELR~Rli~~li~~~i~~~~~~~ 74 (274)
+++.++++.+.++.+|+|...++++.+++.++++.
T Consensus 3 ~~~~~i~l~~l~~~l~r~~~~ill~~ll~~~~a~~ 37 (226)
T TIGR01006 3 QENTEIDLLQLLKKLWKRKLLILIVALIFLIISFI 37 (226)
T ss_pred cccceecHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566999999999999999888877776665543
No 9
>COG3256 NorB Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]
Probab=59.56 E-value=1.2e+02 Score=31.62 Aligned_cols=107 Identities=15% Similarity=0.201 Sum_probs=66.8
Q ss_pred HHHHHHHHHHHhCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchhhhhcHHHHHHHHHHHHH
Q 023968 120 PVILYEIIAFVLPGLT-RAERRFLGPIVLGSSVLFYAGIAFSYWVLTPAALNFFVNYAEGVVESLWSIDQYFEFVLVLMF 198 (274)
Q Consensus 120 P~i~yqlw~Fi~PgLy-~~Er~~~~~~~~~~~~lF~~G~~f~y~~ilP~~~~F~~~f~~~~i~~~~~i~~Y~~f~~~~~l 198 (274)
-+++.-.|++-.|+.. |-+|+....++.. .+-.+|++|+.-.. .. .....++++|..+.+-=+.
T Consensus 392 l~~v~Lmfra~~t~~~~~grkt~~i~~~~~--~~~gig~Ff~~~~~----------~~---~~~n~t~dey~rWwvVHlw 456 (717)
T COG3256 392 LVWVALMFRANVTATKLKGRKTTLIAILLL--SLTGIGLFFLFGLY----------NP---EWTNLAVDEYWRWWVVHLW 456 (717)
T ss_pred HHHHHHHHHhcchhhhcCCcchhHHHHHHH--HHHHHHHHHhhhhc----------cC---CCCCchHHHHHHHHHHHHH
Confidence 3455667888888887 4344333222222 22223333332111 11 2346788999987765332
Q ss_pred --HHHHHHHHHHHHHHHHHhcCCCHHHHHhchhHHHHHHHHHHHhc
Q 023968 199 --STGLSFQVPVIQLLLGQVGLVTSDQMLSIWRYVVVGAVIAAAVL 242 (274)
Q Consensus 199 --~fGl~FqlPli~~~L~~~giv~~~~l~~~RR~~~v~~~iiaAii 242 (274)
+|-=++-.|++.+++.++|.++++. ..++-++..++.+++.++
T Consensus 457 VEGfwe~i~~~ilafLlv~lg~V~rs~-a~~a~~v~~~l~l~sGii 501 (717)
T COG3256 457 VEGFWEVIATAILAFLLVKLGGVDRSV-AEKALYVIAALALFSGII 501 (717)
T ss_pred HhhhHHHHHHHHHHHHHHHhCCcCHHH-HHHHHHHHHHHHHHcCcc
Confidence 3444678999999999999999975 666778888888888776
No 10
>PF03574 Peptidase_S48: Peptidase family S48; InterPro: IPR005319 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases, which includes HetR, are associated with heterocystous cyanobacteria and belong to MEROPS peptidase family S48 (clan S-). HetR is a DNA-binding serine-type protease required for heterocyst differentiation in heterocystous cyanobacteria under conditions of nitrogen deprivation. Mutation of HetR from of Anabaena sp. (strain PCC 7120) by site-specific mutagenesis of Ser-152 showed that this residue was one of the peptidase active site residues. It was suggested that peptidase activity might be needed for repression of HetR overproduction under conditions of nitrogen deprivation []. Modification of Cys-48 prevented disulphide-bond formation and homodimerisation of HetR and DNA-binding. The homodimer of HetR binds the promoter regions of hetR, hepA, and patS, suggesting a direct control of the expression of these genes by HetR. The pentapeptide RGSGR, which is present at the C terminus of PatS, blocks heterocyst formation, inhibits the DNA binding of HetR and prevents hetR up-regulation [].; GO: 0003677 DNA binding, 0004252 serine-type endopeptidase activity, 0043158 heterocyst differentiation; PDB: 3QOE_A 3QOD_A.
Probab=52.19 E-value=12 Score=30.76 Aligned_cols=26 Identities=31% Similarity=0.575 Sum_probs=15.9
Q ss_pred CCCCCCcCCCHHHHHHH-HHHHHHHHH
Q 023968 37 ELLPDDKEMSIFDHLEE-LRQRIFVSV 62 (274)
Q Consensus 37 ~~~~~~~~m~l~~HL~E-LR~Rli~~l 62 (274)
++.|.+++|++.|-+.| +|+|++|+-
T Consensus 115 e~lp~~rr~~LSeAlAeHIkRRLlysg 141 (149)
T PF03574_consen 115 EDLPPERRMPLSEALAEHIKRRLLYSG 141 (149)
T ss_dssp TTS-TTT-----HHHHHHHHHHHHHTT
T ss_pred hhCCccccCcHHHHHHHHHHHHHhhcc
Confidence 67888999999998854 789998863
No 11
>PF07444 Ycf66_N: Ycf66 protein N-terminus; InterPro: IPR010004 This entry represents Ycf66, a protein that is restricted to the chloroplasts of simple plants and algae. It is also found in the cyanobacteria. The function is unknown. As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.
Probab=50.13 E-value=83 Score=24.06 Aligned_cols=44 Identities=27% Similarity=0.400 Sum_probs=26.9
Q ss_pred HHHHHHHHHH-HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023968 111 GYCGLLLGSP-VILYEIIAFVLPGLTRAERRFLGPIVLGSSVLFYAGIAFS 160 (274)
Q Consensus 111 l~~~~~~~~P-~i~yqlw~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~ 160 (274)
.++|+.+..- ..+| .-+|++|.+++++-..+ .++.+++.++.+.
T Consensus 9 ~iLgi~l~~~~~~Ly-~lr~~~Pev~Rd~D~~f-----s~vgLl~g~IL~~ 53 (84)
T PF07444_consen 9 YILGIILILGGLALY-FLRFFRPEVSRDYDIFF-----SSVGLLYGLILWF 53 (84)
T ss_pred HHHHHHHHHHHHHHH-HHHHHCcchhhhhhHHH-----HHHHHHHHHHHHH
Confidence 3444444433 3344 46999999999988654 5556666555544
No 12
>COG2322 Predicted membrane protein [Function unknown]
Probab=49.34 E-value=1.8e+02 Score=25.30 Aligned_cols=42 Identities=19% Similarity=0.185 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 023968 116 LLGSPVILYEIIAFVLPGLTRAERRFLGPIVLGSSVLFYAGIA 158 (274)
Q Consensus 116 ~~~~P~i~yqlw~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~ 158 (274)
.++.|+.+|++|.-.+ +.|++.||+.+.-...-..-...|+.
T Consensus 127 ~i~vPLal~al~~a~~-~~~~rHrki~r~ta~~Wlyva~tGv~ 168 (177)
T COG2322 127 AINVPLALYALILAWK-GLYERHRKIGRWTAPLWLYVALTGVV 168 (177)
T ss_pred HHhhhHHHHHHHHHhc-chhhhhheeeehhhHHHHHHHHHHHH
Confidence 6789999999998775 56888888776655555555666765
No 13
>PF06836 DUF1240: Protein of unknown function (DUF1240); InterPro: IPR010665 This family consists of a number of hypothetical putative membrane proteins which seem to be specific to Yersinia pestis. The function of this family is unknown.
Probab=45.07 E-value=58 Score=25.43 Aligned_cols=34 Identities=21% Similarity=0.291 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Q 023968 115 LLLGSPVILYEIIAFVLPGLTRAERRFLGPIVLG 148 (274)
Q Consensus 115 ~~~~~P~i~yqlw~Fi~PgLy~~Er~~~~~~~~~ 148 (274)
.+.++|++.|-....+.-....++.|.-.++.-.
T Consensus 12 ~~~~~Pll~Y~~~~~~~~~i~~~~~k~n~~i~~~ 45 (95)
T PF06836_consen 12 LIFSSPLLFYFSYLSFFSFIKNKPPKFNNKIVKY 45 (95)
T ss_pred hhhhHHHHHHHHHHHHHHhhcCCCchhHHHHHHH
Confidence 4778999999998887777777766665554433
No 14
>PF00902 TatC: Sec-independent protein translocase protein (TatC); InterPro: IPR002033 Proteins encoded by the mttABC operon (formerly yigTUW), mediate a novel Sec-independent membrane targeting and translocation system in Escherichia coli that interacts with cofactor-containing redox proteins having a S/TRRXFLK "twin arginine" leader motif. This family contains the E. coli mttB gene (TATC) []. A functional Tat system or Delta pH-dependent pathway requires three integral membrane proteins: TatA/Tha4, TatB/Hcf106 and TatC/cpTatC. The TatC protein is essential for the function of both pathways. It might be involved in twin-arginine signal peptide recognition, protein translocation and proton translocation. Sequence analysis predicts that TatC contains six transmembrane helices (TMHs), and experimental data confirmed that N and C termini of TatC or cpTatC are exposed to the cytoplasmic or stromal face of the membrane. The cytoplasmic N terminus and the first cytoplasmic loop region of the E. coli TatC protein are essential for protein export. At least two TatC molecules co-exist within each Tat translocon [, ].
Probab=38.21 E-value=2.8e+02 Score=24.31 Aligned_cols=46 Identities=22% Similarity=0.209 Sum_probs=33.7
Q ss_pred hhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHhchhH
Q 023968 183 LWSIDQYFEFVLVLMFSTGLSFQVPVIQLLLGQVGLVTSDQMLSIWRY 230 (274)
Q Consensus 183 ~~~i~~Y~~f~~~~~l~fGl~FqlPli~~~L~~~giv~~~~l~~~RR~ 230 (274)
..++.|=+..-+++.+..|+..-+|.++.-..+. +.+..-++.||+
T Consensus 54 ~~~~~e~f~~~lk~s~~~~~~~~~P~~~yq~w~F--i~PgL~~~Er~~ 99 (215)
T PF00902_consen 54 FTSPTEAFFTYLKLSFFLGLIISLPYILYQIWAF--IAPGLYKHERRF 99 (215)
T ss_pred ECChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HcccccHHHHHH
Confidence 4577888888889999999999999998877663 444444444554
No 15
>PRK13245 hetR heterocyst differentiation control protein; Reviewed
Probab=33.49 E-value=37 Score=30.89 Aligned_cols=32 Identities=28% Similarity=0.443 Sum_probs=24.9
Q ss_pred CCCCC-CCCCCCcCCCHHHHHHH-HHHHHHHHHH
Q 023968 32 LYPDK-ELLPDDKEMSIFDHLEE-LRQRIFVSVL 63 (274)
Q Consensus 32 ~~~~~-~~~~~~~~m~l~~HL~E-LR~Rli~~li 63 (274)
++-++ ++.|.+++||+.|-+.| +|+|++|+-.
T Consensus 162 Lh~rsQed~p~~rrmpLSeAlaEHIkRRLlysgT 195 (299)
T PRK13245 162 LHKRSQEDLPPEHRMPLSEALAEHIKRRLLYSGT 195 (299)
T ss_pred HHHhhhhcCChhccCchHHHHHHHHHHHHhhccc
Confidence 34443 68888999999998854 8999999865
No 16
>PRK09672 phage exclusion protein Lit; Provisional
Probab=32.35 E-value=20 Score=33.70 Aligned_cols=18 Identities=33% Similarity=0.335 Sum_probs=14.3
Q ss_pred cCCCCCcccccccccCCCCC
Q 023968 7 VTDIPRDETLENLNQDGVES 26 (274)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~ 26 (274)
-||||++ +|||++|-+.+
T Consensus 132 ~~~Wp~~--lPnPe~~~~~~ 149 (305)
T PRK09672 132 HTNWPEN--LPNPEADKEIS 149 (305)
T ss_pred ccCCccc--CCChhhccccc
Confidence 5899999 99998875543
No 17
>COG4485 Predicted membrane protein [Function unknown]
Probab=31.65 E-value=4.7e+02 Score=27.93 Aligned_cols=59 Identities=24% Similarity=0.335 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 023968 112 YCGLLLGSPVILYEIIAFVLPGLTRAERRFLGPIVLGSSVLFYAGIAFSYWVLTPAALNFFVNY 175 (274)
Q Consensus 112 ~~~~~~~~P~i~yqlw~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~y~~ilP~~~~F~~~f 175 (274)
+.|-+.++-..+|-+. -.+ -++|++....++-....-++.|.+ +-..++|..++++.+-
T Consensus 197 YFgYm~aifi~~Y~L~-~~~---~~~~~~~~~~i~~f~v~s~~a~~a-S~l~~Lp~~~dl~t~~ 255 (858)
T COG4485 197 YFGYMQAIFIGLYYLF-WLR---ERDEKKRWIDIVDFTVSSICAGLA-SALMVLPTVFDLFTHG 255 (858)
T ss_pred HHHHHHHHHHHHHHHH-HHh---hhHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhCC
Confidence 4455555556666553 111 356666655666555555555555 3446789999988765
No 18
>PLN00174 predicted protein; Provisional
Probab=31.11 E-value=1.2e+02 Score=26.03 Aligned_cols=30 Identities=13% Similarity=0.112 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh-CCCCH
Q 023968 107 LKVSGYCGLLLGSPVILYEIIAFVL-PGLTR 136 (274)
Q Consensus 107 lklsl~~~~~~~~P~i~yqlw~Fi~-PgLy~ 136 (274)
+--.=+..+.+..|++.|++|++.. +++|.
T Consensus 72 LltG~W~~fLLNlPll~Yhv~~y~~r~hL~D 102 (160)
T PLN00174 72 VIRGWWIVGFLNFPFIFYNFAQWYEGKHQLD 102 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCCCCC
Confidence 4445577889999999999999875 55554
No 19
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 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 (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=26.81 E-value=3.6e+02 Score=22.09 Aligned_cols=36 Identities=11% Similarity=0.205 Sum_probs=24.5
Q ss_pred CcCCCHHHHHHHHHHHHH---HHHHHHHHHHHHHhcchH
Q 023968 42 DKEMSIFDHLEELRQRIF---VSVLAVGAAILGCFAYSK 77 (274)
Q Consensus 42 ~~~m~l~~HL~ELR~Rli---~~li~~~i~~~~~~~~~~ 77 (274)
+.+-+..++..+.|+.+. -++++++.++...|++..
T Consensus 63 ~~~~t~~~~~k~~~~qls~v~Nilvsv~~~~~~~~~~~~ 101 (142)
T PF11712_consen 63 EPEDTPAQELKSVKRQLSTVFNILVSVFAVFFAGWYWAG 101 (142)
T ss_pred CCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345678889999998775 456666666666665543
No 20
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=25.80 E-value=4e+02 Score=28.16 Aligned_cols=75 Identities=11% Similarity=0.026 Sum_probs=46.2
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023968 98 APGEFFFTTLKVSGYCGLLLGSPVI-------LYEIIAFVLPGLTRAERRFLGPIVLGSSVLFYAGIAFSYWVLTPAALN 170 (274)
Q Consensus 98 ~~~E~f~~~lklsl~~~~~~~~P~i-------~yqlw~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~y~~ilP~~~~ 170 (274)
++......|+|.-+.+++++..=++ +|=.|.|+... |..=|--...+-++.+..-+..=++||+.| |.-|-
T Consensus 22 ~~~~~~~~~~~~~~~w~~~~~~d~~~~~r~e~~~p~wl~~~~~-~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~-p~~~~ 99 (697)
T PF09726_consen 22 GIYGSTFLYVKFLLVWALVLLADFMLEFRFEYLWPFWLLLRSV-YDSFKYQGLAFSVFFVCIAFTSDLICLFFI-PVHWL 99 (697)
T ss_pred cccchHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH-HHHHhhhhhHHHHHHHHHHHHHHHHHHHHH-HHHHH
Confidence 3445578999999999988887664 67788888743 333232222222222222334456777665 99888
Q ss_pred HHhh
Q 023968 171 FFVN 174 (274)
Q Consensus 171 F~~~ 174 (274)
||..
T Consensus 100 ~~~~ 103 (697)
T PF09726_consen 100 FFAA 103 (697)
T ss_pred HHHH
Confidence 7753
No 21
>COG4132 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=24.20 E-value=5.6e+02 Score=23.50 Aligned_cols=99 Identities=22% Similarity=0.301 Sum_probs=51.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccch
Q 023968 101 EFFFTTLKVSGYCGLLLGSPVILYEIIAFVLPGLTRAERRFLGPIVLGSSVLFYAGIAFSYWVLTPAALNFFVNYAEGVV 180 (274)
Q Consensus 101 E~f~~~lklsl~~~~~~~~P~i~yqlw~Fi~PgLy~~Er~~~~~~~~~~~~lF~~G~~f~y~~ilP~~~~F~~~f~~~~i 180 (274)
++....+|+|+..++.-++ .-+.-.|+-+.-|+-++-|+....+- ..-+-|--.|.+..|....+..+.
T Consensus 56 ~a~~~Sikis~aSsl~G~l-ig~~~a~alv~~~~ps~ir~~lltfs----------gvaSnFaGVPLAfAFiatLG~~G~ 124 (282)
T COG4132 56 QAYWISIKISFASSLLGLL-IGFLLAWALVLGGLPSWIRSFLLTFS----------GVASNFAGVPLAFAFIATLGRNGL 124 (282)
T ss_pred HHHHHHHhHHHHHHHHHHH-HHHHHHHHHHHCCcHHHHHHHHhhhh----------hhhhhccCChHHHHHHHHhccchh
Confidence 3445567888776644433 33445566666677666666442221 112333344777777666554321
Q ss_pred --------------hhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023968 181 --------------ESLWSIDQYFEFVLVLMFSTGLSFQVPVIQLLLGQ 215 (274)
Q Consensus 181 --------------~~~~~i~~Y~~f~~~~~l~fGl~FqlPli~~~L~~ 215 (274)
..-.++-++....+. -+-||+|+.++++.-
T Consensus 125 vtv~Lk~~~g~~~~~~~fnl~s~~Gltit-----Y~yFQIPL~vlil~P 168 (282)
T COG4132 125 VTVFLKTLGGFNLYSTGFNLLSFFGLTIT-----YVYFQIPLMVLILTP 168 (282)
T ss_pred HHHHHHHhcCcceecccchHHHhhchhHH-----hHHHhhhHHHHHHHh
Confidence 112223333322222 246899998877754
No 22
>PF09581 Spore_III_AF: Stage III sporulation protein AF (Spore_III_AF); InterPro: IPR014245 This family represents the stage III sporulation protein AF (SpoIIIAF) of the bacterial endospore formation program, which exists in some but not all members of the Firmicutes (formerly called low-GC Gram-positives). The C-terminal region of these proteins is poorly conserved.
Probab=23.70 E-value=27 Score=29.85 Aligned_cols=26 Identities=27% Similarity=0.593 Sum_probs=17.0
Q ss_pred CCCHHHHHhchhHHHHHHHHHHHhcCC
Q 023968 218 LVTSDQMLSIWRYVVVGAVIAAAVLTP 244 (274)
Q Consensus 218 iv~~~~l~~~RR~~~v~~~iiaAiiTP 244 (274)
+++.+.++||=|. +.|++++.++++|
T Consensus 13 LlP~~~~kkYvr~-v~GLili~~il~P 38 (188)
T PF09581_consen 13 LLPNSKYKKYVRF-VLGLILILAILSP 38 (188)
T ss_pred hCCchhHHHHHHH-HHHHHHHHHHHHH
Confidence 5555555555543 5677777888888
No 23
>PRK10381 LPS O-antigen length regulator; Provisional
Probab=23.24 E-value=2.4e+02 Score=27.22 Aligned_cols=37 Identities=14% Similarity=0.143 Sum_probs=27.6
Q ss_pred CCCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 023968 39 LPDDKEMSIFDHLEELRQRIFVSVLAVGAAILGCFAY 75 (274)
Q Consensus 39 ~~~~~~m~l~~HL~ELR~Rli~~li~~~i~~~~~~~~ 75 (274)
++++.+..+.+++.-|++|-..++.+.+++++++..+
T Consensus 21 ~~~~~eidl~~ll~~L~r~k~~Il~~~~~~~~~g~~y 57 (377)
T PRK10381 21 SPSNNEIDLFELISVLWKAKKTIIAITFAFACAGLLI 57 (377)
T ss_pred CCCcCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567789999999999998877777666666555443
No 24
>PRK10921 twin-arginine protein translocation system subunit TatC; Provisional
Probab=21.90 E-value=6.1e+02 Score=23.10 Aligned_cols=33 Identities=21% Similarity=0.209 Sum_probs=27.3
Q ss_pred hcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023968 184 WSIDQYFEFVLVLMFSTGLSFQVPVIQLLLGQV 216 (274)
Q Consensus 184 ~~i~~Y~~f~~~~~l~fGl~FqlPli~~~L~~~ 216 (274)
.+..|-+..-+++.+..|+..-.|+++.=+.+.
T Consensus 62 t~~~e~f~~~lk~sl~~g~~la~P~ilyqiw~F 94 (258)
T PRK10921 62 TDVASPFFTPIKLTFMVSLILSAPVILYQVWAF 94 (258)
T ss_pred cCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777888888899999999999998877653
No 25
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=21.48 E-value=1.2e+02 Score=27.04 Aligned_cols=51 Identities=27% Similarity=0.239 Sum_probs=31.8
Q ss_pred CCCCCcccccccccCCCCCCCccCCCCCCCCCCCCcCCCHHHHHHHHHHHHHHH
Q 023968 8 TDIPRDETLENLNQDGVESPLYNFLYPDKELLPDDKEMSIFDHLEELRQRIFVS 61 (274)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~m~l~~HL~ELR~Rli~~ 61 (274)
-.|.++++++. +..|+|.|-..+-+...++.+.+..+..|-.+||.++-.+
T Consensus 18 l~~~~~~~~~~---~~~P~~lfP~~~~P~~~~~t~~E~~~v~~~~~lr~~~~~s 68 (233)
T PF11705_consen 18 LGFGRGEMLPP---DLQPPPLFPPLNLPVPLPLTEEERYLVALKRELRERMRDS 68 (233)
T ss_pred CccccCCcccc---ccCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 45777877765 6677777643322223444455566788888999886543
No 26
>PF03311 Cornichon: Cornichon protein; InterPro: IPR003377 The drosophila cornichon protein (gene: cni) [] is required in the germline for dorsal-ventral signalling. The dorsal-ventral pattern formation involves a reorganisation of the microtubule network correlated with the movement of the oocyte nucleus, and depending on the initial correct establishment of the anterior-posterior axis via a signal from the oocyte produced by cornichon and gurken and received by torpedo protein in the follicle cells. The biochemical function of the cornichon protein is currently not known. It is a protein of 144 residues that seems to contain three transmembrane regions. ; GO: 0035556 intracellular signal transduction, 0016020 membrane
Probab=20.15 E-value=2.2e+02 Score=23.17 Aligned_cols=29 Identities=24% Similarity=0.378 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhC-CCC
Q 023968 107 LKVSGYCGLLLGSPVILYEIIAFVLP-GLT 135 (274)
Q Consensus 107 lklsl~~~~~~~~P~i~yqlw~Fi~P-gLy 135 (274)
+-..=+..+.++.|...|++|++.+- +++
T Consensus 66 ll~g~w~~~llnlPl~~y~~~~~~~~~~l~ 95 (128)
T PF03311_consen 66 LLTGHWFLFLLNLPLLAYHIYRYFRRQHLY 95 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCccc
Confidence 44555677888999999999998653 444
Done!